Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 147 of 345
Found at i:40217288 original size:20 final size:20
Alignment explanation
Indices: 40217263--40217307 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
40217253 AGGGACTAAA
*
40217263 ATGAAAAGTTATAAAATTTG
1 ATGAAAAATTATAAAATTTG
* *
40217283 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTATAAAATTTG
40217303 ATGAA
1 ATGAA
40217308 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:40220362 original size:12 final size:12
Alignment explanation
Indices: 40220345--40220369 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40220335 AAAAGATACC
40220345 AGATTTTTCTGA
1 AGATTTTTCTGA
40220357 AGATTTTTCTGA
1 AGATTTTTCTGA
40220369 A
1 A
40220370 TATGTGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (12 bp):
AGATTTTTCTGA
Found at i:40225335 original size:40 final size:40
Alignment explanation
Indices: 40225280--40225504 Score: 211
Period size: 40 Copynumber: 5.6 Consensus size: 40
40225270 CTTGCACAAG
* ** *
40225280 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCATAAAT
* * *
40225320 GCCTGCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCATAAAT
*
40225360 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGC-TCAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCAT-AAAT
* * * **
40225400 GCCTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATC-GCTAGCATAAAT
* ** * * * * *
40225440 GCCTTCGGATCTTAGTTCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAATC-GCTAGCATAAAT
*
40225481 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
40225505 CATTCGAATA
Statistics
Matches: 149, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
39 2 0.01
40 118 0.79
41 29 0.19
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCATAAAT
Found at i:40225378 original size:80 final size:79
Alignment explanation
Indices: 40225244--40225504 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 79
40225234 CTCAAGAAAT
* * * * * *
40225244 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTC
1 CTTCGGGACTTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTC
40225308 ACTAGCATAAATGC
66 ACTAGCATAAATGC
* * * *
40225322 CTGCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAA-CAACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAG
*
40225386 TCGCTAGC-TCAAATGC
64 TCACTAGCAT-AAATGC
* * * * ** *
40225402 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTTCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGT
* *
40225467 CACCTAGCACAAAAGC
65 CA-CTAGCATAAATGC
40225483 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
40225505 CATTCGAATA
Statistics
Matches: 150, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
78 11 0.07
79 18 0.12
80 90 0.60
81 31 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTC
ACTAGCATAAATGC
Found at i:40227622 original size:68 final size:65
Alignment explanation
Indices: 40227408--40227660 Score: 196
Period size: 68 Copynumber: 3.8 Consensus size: 65
40227398 ATATAGTTTG
* * *
40227408 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATATA-TCTCGT
1 GCTCTCTTGTACTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACATATATTCTCGT
40227470 A
65 A
* * * ** *
40227471 GCTCTCTTGT-CTACATGGTGTCTTTCACCTGGAACCATGCATGCGACCTAGCTACATATA-TCC
1 GCTCTCTTGTACTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCTACATATATTCT
40227534 CGTA
62 CGTA
* *
40227538 GCTCTCTTG-CCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCT
1 GCTCTCTTGTACTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCT
*
40227602 TGTA
62 CGTA
* * * * ** *
40227606 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACTATACATGTGACCTAGCTACATA
1 GCTCTCTTGTACTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACATA
40227661 CCATCTGTAT
Statistics
Matches: 150, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 26 0.17
65 2 0.01
66 21 0.14
67 34 0.23
68 46 0.31
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTACTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTACATATATTCTCGTA
Found at i:40232047 original size:21 final size:23
Alignment explanation
Indices: 40232014--40232056 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
40232004 GATGAGTATG
*
40232014 TACATCCTTGATTATAG-AATTA
1 TACATCCTCGATTATAGTAATTA
*
40232036 TACA-CCTCGATTGTAGTAATT
1 TACATCCTCGATTATAGTAATT
40232057 GTGACCTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TACATCCTCGATTATAGTAATTA
Found at i:40254499 original size:49 final size:49
Alignment explanation
Indices: 40254439--40254751 Score: 493
Period size: 49 Copynumber: 6.4 Consensus size: 49
40254429 TACATATATG
* * * * *
40254439 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
40254488 TGTGATGAGGCCTAATGGCCGATGGGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
40254537 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
40254586 TGTGATGAGGCCTAATGGCCGATGT-AGCGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGA-TGAATGTGAAAGTGTATGTATA
*
40254635 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* * *
40254684 TGTGCTAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
40254733 TGTGATAAGGCCTAATGGC
1 TGTGATGAGGCCTAATGGC
40254752 TAATGTAAAA
Statistics
Matches: 248, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
49 248 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:40254903 original size:37 final size:37
Alignment explanation
Indices: 40254853--40254937 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
40254843 GGAATCTGTT
*
40254853 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
40254890 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
40254927 CTGGGTAAGAC
1 CCGGGTAAGAC
40254938 TTCTTTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:40259272 original size:17 final size:19
Alignment explanation
Indices: 40259250--40259284 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
40259240 AAACAACTTC
40259250 AATCTTG-TATG-AATCAA
1 AATCTTGTTATGTAATCAA
40259267 AATCTTGTTATGTAATCA
1 AATCTTGTTATGTAATCA
40259285 TGATGTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (19 bp):
AATCTTGTTATGTAATCAA
Found at i:40261499 original size:27 final size:27
Alignment explanation
Indices: 40261437--40261538 Score: 75
Period size: 27 Copynumber: 3.8 Consensus size: 27
40261427 TAAGAGTGCG
* *
40261437 CCATGAAGGCATTCCTTACAGAGTTT-T
1 CCATGAAGGCATTCCTTTCATA-TTTCT
** *
40261464 CCACAAAGGCATTCCTTTCATATTTCA
1 CCATGAAGGCATTCCTTTCATATTTCT
* * *
40261491 CCATGAAGGTTATT-CTTTCATGTCTCT
1 CCATGAAGG-CATTCCTTTCATATTTCT
*
40261518 CCAGGAAGGC-TTCTCTTTCAT
1 CCATGAAGGCATTC-CTTTCAT
40261539 GACATGTTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
25 2 0.03
26 3 0.05
27 50 0.86
28 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (27 bp):
CCATGAAGGCATTCCTTTCATATTTCT
Found at i:40264742 original size:27 final size:27
Alignment explanation
Indices: 40264658--40264806 Score: 163
Period size: 29 Copynumber: 5.3 Consensus size: 27
40264648 GACGAGAATG
* * *
40264658 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
40264687 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
40264716 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
40264743 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
40264771 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
40264798 GCACTAAGT
1 GCACTAAGT
40264807 CATTTCAAAT
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 38 0.38
28 23 0.23
29 40 0.40
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:40268014 original size:93 final size:93
Alignment explanation
Indices: 40267853--40268027 Score: 235
Period size: 93 Copynumber: 1.9 Consensus size: 93
40267843 TAACGTTAGG
* * * * * *
40267853 GATATGCATGATCCCATGTAAGACCATCCCTGGGCCATGGTATTGGCATCAATATGGGACATCGT
1 GATATGCATGATCCCATGTAAGACCATCCCTGGGACATAGCATTGACATCAATATGGGACACCAT
40267918 GTAAGACCATAGCTGGGCTATCAACTTC
66 GTAAGACCATAGCTGGGCTATCAACTTC
** * *
40267946 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATAGCATTGACATCGATATGTGATC-CCA
1 GATATGCATGATCCCATGTAAGACCATCCCTGGGACATAGCATTGACATCAATATGGGA-CACCA
*
40268010 TGTAAGACCATATCTGGG
65 TGTAAGACCATAGCTGGG
40268028 ATATGGCATT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (93 bp):
GATATGCATGATCCCATGTAAGACCATCCCTGGGACATAGCATTGACATCAATATGGGACACCAT
GTAAGACCATAGCTGGGCTATCAACTTC
Found at i:40268017 original size:48 final size:49
Alignment explanation
Indices: 40267944--40268043 Score: 148
Period size: 48 Copynumber: 2.0 Consensus size: 49
40267934 GCTATCAACT
*
40267944 TCGATATGCATGATCCCATGTAAGACCATGTCTGGGACATAGCATTGACA
1 TCGATATG-ATGATCCCATGTAAGACCATATCTGGGACATAGCATTGACA
* * *
40267994 TCGATATG-TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCGATATGATGATCCCATGTAAGACCATATCTGGGACATAGCATTGACA
40268042 TC
1 TC
40268044 CTACTATGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 38 0.83
50 8 0.17
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (49 bp):
TCGATATGATGATCCCATGTAAGACCATATCTGGGACATAGCATTGACA
Found at i:40271117 original size:37 final size:37
Alignment explanation
Indices: 40271067--40271157 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
40271057 TTATTACGAA
*
40271067 GTCTTACCTGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
40271104 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
40271141 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
40271158 TTTCCAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 46 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:40271255 original size:48 final size:48
Alignment explanation
Indices: 40271197--40271396 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
40271187 TGTTACAACA
*
40271197 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
40271245 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
40271293 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
40271341 TTCACATTAGCCATTCGCCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
40271389 TTCACATT
1 TTCACATT
40271397 CATCACATCG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:40271444 original size:47 final size:47
Alignment explanation
Indices: 40271389--40271821 Score: 692
Period size: 47 Copynumber: 9.1 Consensus size: 47
40271379 ACACATATGT
40271389 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-TACC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACT-CC
*
40271436 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCC
* *
40271483 TTCACATTCATCACATTGGCCATTAGGCCTTATCGCATATATA-TACAC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACT-C-C
* *
40271531 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATACTCT
1 -TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCC
* *
40271579 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCC
*
40271628 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCC
*
40271675 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCC
40271722 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACT-C
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCC
*
40271768 TTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCT
1 TT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCC
40271816 TTCACA
1 TTCACA
40271822 AATTTTTAAT
Statistics
Matches: 360, Mismatches: 17, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
46 3 0.01
47 268 0.74
48 3 0.01
49 85 0.24
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCC
Found at i:40271542 original size:143 final size:142
Alignment explanation
Indices: 40271388--40271821 Score: 712
Period size: 143 Copynumber: 3.0 Consensus size: 142
40271378 CACACATATG
*
40271388 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-TACCTTCACATTCATCACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACT-CTTTCACATTCATCACAT
*
40271452 CGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATC
65 CGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATC
40271517 GCATATATATACAC
130 -CATATATATACAC
* *
40271531 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATC
* *
40271596 GGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTAT
66 GGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* *
40271661 -CACATATATACTC
129 CCATATATATACAC
40271674 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATC
*
40271739 GGCCATTAGGCCTTATCACATATATACTCTTCCACATTCATCACATCGGCCATTAGGCCTTAT-C
66 GGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCC
* *
40271803 ACATATATACTC
131 ATATATATACAC
40271815 TTTCACA
1 TTTCACA
40271822 AATTTTTAAT
Statistics
Matches: 275, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
141 61 0.22
143 172 0.63
144 1 0.00
145 41 0.15
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (142 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCC
ATATATATACAC
Found at i:40271570 original size:96 final size:96
Alignment explanation
Indices: 40271388--40271811 Score: 757
Period size: 96 Copynumber: 4.5 Consensus size: 96
40271378 CACACATATG
40271388 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC-C-TTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
40271451 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
* * *
40271482 TTTCACATTCATCACATTGGCCATTAGGCCTTATCGCATATATATACACTTTCACGTTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
40271547 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
* *
40271578 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
40271643 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
*
40271674 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
40271737 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
*
40271768 TTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
40271812 CTCTTTCACA
Statistics
Matches: 316, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
94 136 0.43
95 1 0.00
96 179 0.57
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTC
Found at i:40274285 original size:40 final size:40
Alignment explanation
Indices: 40274236--40274617 Score: 450
Period size: 40 Copynumber: 9.6 Consensus size: 40
40274226 CCAGCATGAT
* *
40274236 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
40274276 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
40274316 TGCTCTTCGAAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
40274356 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
40274396 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
40274436 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * * *
40274476 TGCTCTTCGGAACTTAGTCCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCACGAA
* ** * * * * *
40274516 TTGC-CTTTGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
1 -TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCACGAA
** * **
40274557 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAA
*
40274597 TGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
40274618 GTATCATTCA
Statistics
Matches: 308, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.01
40 289 0.94
41 16 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:40276565 original size:37 final size:37
Alignment explanation
Indices: 40276515--40276594 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
40276505 TTATTACGAA
40276515 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
40276552 GTCTTACTCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
40276589 GTCTTA
1 GTCTTA
40276595 TTTCCAAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:40276689 original size:48 final size:48
Alignment explanation
Indices: 40276634--40276832 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
40276624 TGTTACAACA
*
40276634 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
40276682 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
40276730 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
40276778 TTCACATTAGCCATTC-GCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
40276825 TTCACATT
1 TTCACATT
40276833 CATCACATCG
Statistics
Matches: 144, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
47 37 0.26
48 107 0.74
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:40276878 original size:47 final size:47
Alignment explanation
Indices: 40276824--40277257 Score: 690
Period size: 47 Copynumber: 9.1 Consensus size: 47
40276814 CACACATATG
*
40276824 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-TA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
** ** *
40276870 TACCCACATTCATCACATCAACCATTAGGCCTTATGACATATATACTC
1 T-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
* *
40276918 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
*
40276967 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
* *
40277014 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
*
40277063 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
40277110 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
40277157 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
40277204 TTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
40277251 TTTCACA
1 TTTCACA
40277258 AATTTTAATA
Statistics
Matches: 356, Mismatches: 26, Indels: 11
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 265 0.74
48 2 0.01
49 88 0.25
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
Found at i:40276974 original size:143 final size:143
Alignment explanation
Indices: 40276825--40277247 Score: 672
Period size: 143 Copynumber: 3.0 Consensus size: 143
40276815 ACACATATGT
* **
40276825 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-TATACCCACATTCATCACATC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCT-TTCACATTCATCACATC
** * *
40276889 AACCATTAGGCCTTATGACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
65 GGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
40276954 CATATATATACACC
130 CATATATATACACC
*
40276968 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCG
* *
40277033 GCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 GCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATC
* *
40277098 AC--ATATATACTCT
129 ACATATATATACACC
*
40277111 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCG
*
40277176 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
66 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
40277241 ATATATA
131 ATATATA
40277248 CTCTTTCACA
Statistics
Matches: 258, Mismatches: 17, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
141 44 0.17
143 168 0.65
144 2 0.01
145 44 0.17
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATATACACC
Found at i:40277015 original size:96 final size:96
Alignment explanation
Indices: 40276824--40277247 Score: 739
Period size: 96 Copynumber: 4.5 Consensus size: 96
40276814 CACACATATG
* *
40276824 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACC--CACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
** *
40276887 TCAACCATTAGGCCTTATGACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
40276918 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
40276983 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
40277014 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
40277079 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
* *
40277110 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
40277173 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
* *
40277204 TTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
40277248 CTCTTTCACA
Statistics
Matches: 317, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
94 138 0.44
96 179 0.56
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTC
Found at i:40285281 original size:27 final size:27
Alignment explanation
Indices: 40285261--40285363 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
40285251 ATTACCAAAG
* * *
40285261 TACCCCCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACCATTT
*
40285288 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
40285315 TACCCTCAATTTATAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
40285342 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
40285364 TAAAATACCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:40285372 original size:27 final size:27
Alignment explanation
Indices: 40285342--40285563 Score: 119
Period size: 27 Copynumber: 8.2 Consensus size: 27
40285332 ATTATCATTT
40285342 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* **
40285369 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTACAAAATTACTAAAA
* * ** *
40285396 TACCCCCTGACTTGTAAAATTACTGAAA
1 TACCCTC-GATTTACAAAATTACTAAAA
* *
40285424 TACCCTCGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TACAAAATTACTAAAA
* ** ****
40285452 TACCCTCGATTTATAGGATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
40285479 TACTCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* ****
40285506 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
*
40285533 TACCCTCGATTGT--GAAATTACTAAAA
1 TACCCTCGATT-TACAAAATTACTAAAA
40285559 TACCC
1 TACCC
40285564 CTATAGGGTA
Statistics
Matches: 156, Mismatches: 33, Indels: 13
0.77 0.16 0.06
Matches are distributed among these distances:
26 16 0.10
27 93 0.60
28 46 0.29
29 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:40285373 original size:54 final size:54
Alignment explanation
Indices: 40285243--40285374 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
40285233 AATACTTTAG
* * * *
40285243 TTTACCAAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTCTACCCTCGA
1 TTTACAAAATTACCAAAATACCCCCAATTTACAGAATTACCATTCTACCCTCGA
* * *** * * * *
40285297 TTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCCCAATTTACAGAATTACCATTCTACCCTCGA
*
40285351 TTTACAAAATTACTAAAATACCCC
1 TTTACAAAATTACCAAAATACCCC
40285375 TGGTTTGTAA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCCCAATTTACAGAATTACCATTCTACCCTCGA
Found at i:40285411 original size:28 final size:28
Alignment explanation
Indices: 40285356--40285456 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
40285346 CTCGATTTAC
**
40285356 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGACTTGT
40285383 AAAATTACTAAAATACCCCCTGACTTGT
1 AAAATTACTAAAATACCCCCTGACTTGT
* *
40285411 AAAATTACTGAAATACCCTC-GACTTGT
1 AAAATTACTAAAATACCCCCTGACTTGT
* *
40285438 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
40285457 TCGATTTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 22 0.34
28 43 0.66
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.28
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGACTTGT
Found at i:40285678 original size:27 final size:26
Alignment explanation
Indices: 40285542--40285725 Score: 136
Period size: 27 Copynumber: 6.8 Consensus size: 26
40285532 TTACCCTCGA
* *
40285542 TTGTGAAATTACTAAAATACCCCTAT
1 TTGTAAAATTACCAAAATACCCCTAT
** * * *
40285568 AGGGTAGAATTACCAAAACACTCCTAGT
1 -TTGTAAAATTACCAAAATACCCCTA-T
* *
40285596 TTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCT-AT
* * *
40285623 TTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCC-CTAT
40285650 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCT-AT
** *
40285677 TTACAAAATTA-CAGAAATACCCTTAAT
1 TTGTAAAATTACCA-AAATACCCCT-AT
* * *
40285704 TTGTAGATTTACCAAAACACCC
1 TTGTAAAATTACCAAAATACCC
40285726 TTGTAGGATG
Statistics
Matches: 120, Mismatches: 31, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
26 3 0.03
27 113 0.94
28 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCCTAT
Found at i:40285686 original size:54 final size:54
Alignment explanation
Indices: 40285344--40285725 Score: 225
Period size: 54 Copynumber: 7.0 Consensus size: 54
40285334 TATCATTTTA
* * * *
40285344 CCCTCGATTTACAAAATTACTAAAATACCC-CTGGTTTGTAAAATTACTAAAATACC
1 CCCT-GATTTATAAAATTACTGAAATACCCTC-GATTTGTAAAATTACCAAAATA-C
* * * *
40285400 CCCTGACTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAGTA-
1 CCCTGATTTATAAAATTACTGAAATACCCTCGATTTGT-AAAATTACCAAAATAC
** *** * ** * * ***
40285454 CCCTCGATTTATAGGATTACTGTTTTACTCTCGATTTACAGAATTACTATTTTAC
1 CCCT-GATTTATAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATAC
* * *** * *
40285509 CCTTGATTTACAAAATTACTGTTTTACCCTCGA-TTGTGAAATTACTAAAATAC
1 CCCTGATTTATAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATAC
*** * ** * *
40285562 CCCT-ATAGGGTAGAATTACCAAAACACTCCTAG-TTTGTAAAATTACCAAAATAC
1 CCCTGAT-TTATAAAATTACTGAAATAC-CCTCGATTTGTAAAATTACCAAAATAC
* * * * * *
40285616 CACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATAC
* * ** * * *
40285670 CCCTGATTTACAAAATTACAGAAATACCCTTAATTTGTAGATTTACCAAAACAC
1 CCCTGATTTATAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATAC
40285724 CC
1 CC
40285726 TTGTAGGATG
Statistics
Matches: 246, Mismatches: 71, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
52 2 0.01
53 28 0.11
54 145 0.59
55 53 0.22
56 18 0.07
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (54 bp):
CCCTGATTTATAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATAC
Found at i:40285797 original size:27 final size:27
Alignment explanation
Indices: 40285767--40285818 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
40285757 TAGGTAAAAA
40285767 GACCGTAA-AGCCCTTGTAGGGTAAAGT
1 GACCGTAATA-CCCTTGTAGGGTAAAGT
*
40285794 GACCGTAATACCCTTGTATGGTAAA
1 GACCGTAATACCCTTGTAGGGTAAA
40285819 ATGATGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (27 bp):
GACCGTAATACCCTTGTAGGGTAAAGT
Found at i:40286555 original size:20 final size:20
Alignment explanation
Indices: 40286546--40286616 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
40286536 TTGATATGAT
40286546 ATGCACATGATATGTATAAA
1 ATGCACATGATATGTATAAA
40286566 ATGCACATGATATGTATAAA
1 ATGCACATGATATGTATAAA
*
40286586 ATGCACATGATATGTATGAA
1 ATGCACATGATATGTATAAA
40286606 ATGCACATGAT
1 ATGCACATGAT
40286617 GTATTCATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGCACATGATATGTATAAA
Found at i:40286747 original size:52 final size:52
Alignment explanation
Indices: 40286666--40286827 Score: 260
Period size: 52 Copynumber: 3.2 Consensus size: 52
40286656 GAGGAAGTGC
** *
40286666 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
40286718 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
40286770 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCTAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
40286818 AAAAGAGGCT
1 AAAAG-GGCT
40286828 AGGCCTCCAG
Statistics
Matches: 106, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
48 5 0.05
49 9 0.08
50 8 0.08
51 25 0.24
52 59 0.56
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
Found at i:40286789 original size:25 final size:26
Alignment explanation
Indices: 40286666--40286827 Score: 233
Period size: 26 Copynumber: 6.3 Consensus size: 26
40286656 GAGGAAGTGC
40286666 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
40286692 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
40286718 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
40286744 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
40286770 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
40286795 AAAAGGGCTT-TGCCCTAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
40286818 AAAAGAGGCT
1 AAAAG-GGCT
40286828 AGGCCTCCAG
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
23 5 0.04
24 7 0.06
25 29 0.23
26 83 0.67
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:40287019 original size:42 final size:42
Alignment explanation
Indices: 40286960--40287051 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
40286950 TAGTCTCCCC
* ** *
40286960 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
40287002 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
40287044 AAATGGGC
1 AAATGGGC
40287052 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:40287110 original size:31 final size:31
Alignment explanation
Indices: 40287075--40287184 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
40287065 CGTTTACAGT
*
40287075 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
40287106 AAAGGCTTCGACCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
40287137 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
40287168 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
40287185 AACCGTTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:40298546 original size:28 final size:28
Alignment explanation
Indices: 40298503--40298584 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
40298493 CACATATATG
* *
40298503 TATATGGCCAACTAGGCCCAATCTCAT-
1 TATATGGCCCACTAGGCCCAATCACATC
* *
40298530 TCATATGGCCCATTAGGCCCAAATAACATC
1 T-ATATGGCCCACTAGGCCC-AATCACATC
40298560 TATATGGCCCACTAGGCCCAATCAC
1 TATATGGCCCACTAGGCCCAATCAC
40298585 TTTTACAGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 1 0.02
28 21 0.46
29 23 0.50
30 1 0.02
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
TATATGGCCCACTAGGCCCAATCACATC
Found at i:40300586 original size:28 final size:28
Alignment explanation
Indices: 40300517--40300617 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
40300507 GACAAGATTG
* * * *
40300517 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
40300547 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40300575 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
40300604 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40300618 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40304917 original size:23 final size:21
Alignment explanation
Indices: 40304883--40304927 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
40304873 TCCCCACATG
*
40304883 GAGTGTAGGGCTGGTTGGAGTA
1 GAGTATAGGGCTGGTTGG-GTA
40304905 GAGTATAGAGGCTGGTTGGGTA
1 GAGTATAG-GGCTGGTTGGGTA
40304927 G
1 G
40304928 GATTTCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (21 bp):
GAGTATAGGGCTGGTTGGGTA
Found at i:40307613 original size:6 final size:6
Alignment explanation
Indices: 40307602--40307872 Score: 238
Period size: 6 Copynumber: 44.8 Consensus size: 6
40307592 AACCAAAATG
*
40307602 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGA-ATC AG-AATC
* * *
40307650 AGAATC AAAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
40307699 AGTAA-C AGAATC AGAACC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
40307747 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* * *
40307795 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
40307843 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
40307873 GTGAATGCAA
Statistics
Matches: 215, Mismatches: 28, Indels: 44
0.75 0.10 0.15
Matches are distributed among these distances:
5 17 0.08
6 181 0.84
7 14 0.07
8 3 0.01
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:40307636 original size:30 final size:30
Alignment explanation
Indices: 40307602--40307872 Score: 350
Period size: 30 Copynumber: 9.4 Consensus size: 30
40307592 AACCAAAATG
*
40307602 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
40307632 AGAATC--AAT----ATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
40307656 AAAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
40307681 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
40307711 AGAACCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
40307741 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
40307771 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
40307801 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
40307831 AGAATTAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
40307862 AGAATCAGAAT
1 AGAATCAGAAT
40307873 GTGAATGCAA
Statistics
Matches: 211, Mismatches: 16, Indels: 27
0.83 0.06 0.11
Matches are distributed among these distances:
24 21 0.10
25 18 0.09
26 4 0.02
27 1 0.00
28 4 0.02
29 1 0.00
30 140 0.66
31 22 0.10
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:40308038 original size:27 final size:27
Alignment explanation
Indices: 40307998--40308063 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
40307988 TGCTAAAACT
* *
40307998 GATATCGTGACAGAG-TCACCAG-ATACA
1 GATATTGTGGCAGAGCT-ACCAGAAT-CA
40308025 GATATTGTGGCAGAGCTACCAGAATCA
1 GATATTGTGGCAGAGCTACCAGAATCA
*
40308052 GATAATGTGGCA
1 GATATTGTGGCA
40308064 AACCCACCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (27 bp):
GATATTGTGGCAGAGCTACCAGAATCA
Found at i:40308276 original size:22 final size:22
Alignment explanation
Indices: 40308228--40308286 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
40308218 GTAAATACGT
*
40308228 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
40308250 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
40308272 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
40308287 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:40308413 original size:27 final size:26
Alignment explanation
Indices: 40308374--40308457 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
40308364 TCGATCGGTC
*
40308374 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGACAGAGCCACCAA
* *
40308400 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAA
* * *
40308427 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAA
40308454 AACA
1 AACA
40308458 CTTCCTCCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAA
Found at i:40308685 original size:27 final size:27
Alignment explanation
Indices: 40308655--40308850 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
40308645 GGGGCAAACT
* * *
40308655 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
40308682 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
40308709 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
40308736 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
40308763 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
40308790 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*** *
40308817 AAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
40308844 AGTAATT
1 GGTAATT
40308851 TCACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:40308792 original size:81 final size:81
Alignment explanation
Indices: 40308657--40308850 Score: 262
Period size: 81 Copynumber: 2.4 Consensus size: 81
40308647 GGCAAACTGG
* * * * * *
40308657 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
*
40308722 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCAA
* * *
40308738 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* *
40308803 TATAGGGGTATTTCAA
66 TACAAGGGTATTTCAA
* *
40308819 AAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
40308851 TCACAATCAA
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCAA
Found at i:40308885 original size:27 final size:27
Alignment explanation
Indices: 40308855--40309183 Score: 403
Period size: 27 Copynumber: 12.2 Consensus size: 27
40308845 GTAATTTCAC
*
40308855 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
40308882 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
40308909 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * * **
40308936 AATTAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
40308963 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
40308990 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
40309017 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
40309044 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
40309071 AA-CTGAGGGTAAAACGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
40309098 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
40309125 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
40309152 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
40309179 AATCG
1 AATCG
40309184 GGAGTACTTT
Statistics
Matches: 257, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.01
27 252 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:40311994 original size:2 final size:2
Alignment explanation
Indices: 40311987--40312018 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
40311977 ATCGGGTATG
40311987 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40312019 AGTATGCCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:40312685 original size:24 final size:24
Alignment explanation
Indices: 40312468--40312682 Score: 367
Period size: 24 Copynumber: 9.0 Consensus size: 24
40312458 TATCTCAAAT
40312468 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
40312492 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
40312516 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
40312540 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
40312564 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
40312588 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
40312612 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
40312636 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
40312660 GCACTAGGTGTGCGATTTGCTAT
1 GCACTATGTGTGCGATTTACTAT
40312683 AGCCACATTC
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 186 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:40320215 original size:24 final size:24
Alignment explanation
Indices: 40320183--40320414 Score: 354
Period size: 24 Copynumber: 10.0 Consensus size: 24
40320173 TATCTCAAAT
40320183 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
40320207 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
40320231 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
40320255 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
40320279 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
40320303 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
40320327 GCACTATGTGTGCGATTTACTAT-
1 GCACTATGTGTGCGATTTACTATG
40320350 GCACTATGTGTGCGATTTA-TA--
1 GCACTATGTGTGCGATTTACTATG
* *
40320371 GCACTATGTGTGCGA--TGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
40320393 GCACTA--TGTGCGATTTGCTATG
1 GCACTATGTGTGCGATTTACTATG
40320415 CCACATTCGG
Statistics
Matches: 199, Mismatches: 4, Indels: 12
0.93 0.02 0.06
Matches are distributed among these distances:
19 1 0.01
20 9 0.05
21 15 0.08
22 14 0.07
23 19 0.10
24 141 0.71
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:40325623 original size:21 final size:21
Alignment explanation
Indices: 40325597--40325639 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
40325587 CATCAAAGTG
40325597 TACATGTAATATGAAATAATA
1 TACATGTAATATGAAATAATA
40325618 TACATGTAATATGAAATAATA
1 TACATGTAATATGAAATAATA
40325639 T
1 T
40325640 TATGGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (21 bp):
TACATGTAATATGAAATAATA
Found at i:40334474 original size:40 final size:39
Alignment explanation
Indices: 40334309--40334492 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40334299 AAATTGAATG
* * *
40334309 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40334349 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40334389 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40334429 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40334468 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40334493 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40334517 original size:80 final size:81
Alignment explanation
Indices: 40334349--40334537 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40334339 GCTGGAAATT
* * * *
40334349 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40334414 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40334430 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40334493 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40334509 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40334538 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40342561 original size:81 final size:74
Alignment explanation
Indices: 40342420--40342606 Score: 220
Period size: 76 Copynumber: 2.4 Consensus size: 74
40342410 ATTGAATGAT
* *
40342420 ATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTATAACCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAAGACCCGAAGGC-A-TATGCTGCGAAATTATAACCGGGTTAAGACCCGAAGGC--
40342484 TTGTGCTAGTGGCTAC
62 TTGTGC--G-GGCTAC
*
40342500 ATCCGGGCTAAGACCCGAAGGCATATGCTGCGAAGTCATT-TATCCGGGTTAAGACCCGAAGGCT
1 ATCCGGGCTAAGACCCGAAGGCATATGCTGCGAA---ATTATAACCGGGTTAAGACCCGAAGGCT
40342564 TGTGCGGGCTAC
63 TGTGCGGGCTAC
*
40342576 ATCCGGGCTAAGTCCCGAAGGCAT-TG-TGCGA
1 ATCCGGGCTAAGACCCGAAGGCATATGCTGCGA
40342607 GTTCATCCGG
Statistics
Matches: 99, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
74 5 0.05
75 2 0.02
76 29 0.29
77 1 0.01
78 7 0.07
79 10 0.10
80 20 0.20
81 22 0.22
82 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (74 bp):
ATCCGGGCTAAGACCCGAAGGCATATGCTGCGAAATTATAACCGGGTTAAGACCCGAAGGCTTGT
GCGGGCTAC
Found at i:40342593 original size:35 final size:37
Alignment explanation
Indices: 40342462--40342637 Score: 175
Period size: 35 Copynumber: 4.7 Consensus size: 37
40342452 GAAATTATAA
* *
40342462 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGC--GAGGCTACAT
* **
40342502 CCGGGCTAAGACCCGAAGGCATATGCTGCGAAGTCATTTAT
1 CCGGGCTAAGACCCGAAGGCAT-TG-TGCG-AGGC-TACAT
*
40342543 CCGGGTTAAGACCCGAAGGC-TTGTGCG-GGCTACAT
1 CCGGGCTAAGACCCGAAGGCATTGTGCGAGGCTACAT
* *
40342578 CCGGGCTAAGTCCCGAAGGCATTGTGCGA-G-TTCAT
1 CCGGGCTAAGACCCGAAGGCATTGTGCGAGGCTACAT
40342613 CCGGGCTAA-ACCCGAAGGCA-TGTGC
1 CCGGGCTAAGACCCGAAGGCATTGTGC
40342638 AAATCGTGAT
Statistics
Matches: 117, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
33 5 0.04
34 10 0.09
35 34 0.29
36 10 0.09
38 4 0.03
39 5 0.04
40 24 0.21
41 25 0.21
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.20
Consensus pattern (37 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCGAGGCTACAT
Found at i:40347067 original size:29 final size:29
Alignment explanation
Indices: 40347035--40347170 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
40347025 ATACCCTTCG
** * *
40347035 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
40347064 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
40347093 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
40347122 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
40347151 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
40347171 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:40347162 original size:58 final size:58
Alignment explanation
Indices: 40347010--40347169 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
40347000 AATTTAAGCC
* *** * * ** * *
40347010 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
40347068 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
40347126 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
40347170 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:40348003 original size:143 final size:141
Alignment explanation
Indices: 40347813--40348107 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
40347803 AAATTCTATA
40347813 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
40347878 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
40347943 GAAGACAACAT
131 GAAAACAACAT
40347954 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
40348019 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
40348084 AGGAAAACAACAT
129 AGGAAAACAACAT
40348097 GCATGGCCGAA
1 GCATGGCCGAA
40348108 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:40354984 original size:29 final size:29
Alignment explanation
Indices: 40354952--40355087 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
40354942 ATACCCTTCG
** * *
40354952 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
40354981 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
40355010 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
40355039 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
40355068 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
40355088 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:40355079 original size:58 final size:58
Alignment explanation
Indices: 40354927--40355086 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
40354917 AATTTAAGCC
* *** * * ** * *
40354927 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
40354985 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
40355043 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
40355087 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:40355920 original size:143 final size:141
Alignment explanation
Indices: 40355730--40356024 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
40355720 AAATTCTATA
40355730 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
40355795 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
40355860 GAAGACAACAT
131 GAAAACAACAT
40355871 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
40355936 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
40356001 AGGAAAACAACAT
129 AGGAAAACAACAT
40356014 GCATGGCCGAA
1 GCATGGCCGAA
40356025 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:40357803 original size:49 final size:49
Alignment explanation
Indices: 40357726--40357970 Score: 328
Period size: 49 Copynumber: 4.9 Consensus size: 49
40357716 TAGCCGAAGC
* * * *
40357726 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
40357775 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
40357825 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * *
40357876 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
40357925 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
40357971 TCACAATAGC
Statistics
Matches: 168, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 83 0.49
50 47 0.28
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:40357902 original size:101 final size:98
Alignment explanation
Indices: 40357739--40357964 Score: 319
Period size: 101 Copynumber: 2.3 Consensus size: 98
40357729 CTGGTACGCA
** * *
40357739 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
40357804 GTACTACACACGTGACCTAACCATCT-GATACACG
66 GTACTACACACGTGACC-AACCATCTAG-TACACG
* * *
40357838 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACACGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* **
40357903 TAGTACTACACATGTGACCAATTATCTAGTACACG
64 TAGTACTACACACGTGACCAACCATCTAGTACACG
40357938 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
40357965 GTGACCTCAC
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
99 28 0.25
100 42 0.37
101 44 0.39
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCAACCATCTAGTACACG
Found at i:40359690 original size:49 final size:49
Alignment explanation
Indices: 40359618--40359862 Score: 337
Period size: 49 Copynumber: 4.9 Consensus size: 49
40359608 TAGCCGAAGC
* * * * *
40359618 TATCTGGTACCCATAGTAGCCTGCGCTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
40359667 TATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
40359717 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * *
40359768 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
40359817 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
40359863 TCATAATAGC
Statistics
Matches: 170, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.28
51 39 0.23
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:40359800 original size:101 final size:98
Alignment explanation
Indices: 40359631--40359862 Score: 329
Period size: 100 Copynumber: 2.3 Consensus size: 98
40359621 CTGGTACCCA
* * * * **
40359631 TAGTAGCCTGCGCTTAGTACTACACATGCGACCAATTATCTGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
40359696 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACC-AACCATCTGATACACG
* *
40359730 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** *
40359795 TAGTACTACACATGTGACCAATTATCTGGTACACG
64 TAGTACTACACACGTGACCAACCATCTGATACACG
40359830 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
40359863 TCATAATAGC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 29 0.25
100 47 0.40
101 42 0.36
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCAACCATCTGATACACG
Found at i:40364492 original size:27 final size:28
Alignment explanation
Indices: 40364436--40364505 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
40364426 AAATTTGTAC
40364436 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
40364464 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
40364491 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
40364506 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:40372500 original size:27 final size:27
Alignment explanation
Indices: 40372448--40372501 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
40372438 AAATTTGTAC
* * *
40372448 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
40372475 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
40372502 GTTTTTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:40378225 original size:19 final size:19
Alignment explanation
Indices: 40378201--40378268 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
40378191 TGAAAAGTGA
40378201 AAATATTTTTAGAATGATT
1 AAATATTTTTAGAATGATT
*
40378220 AAATA-TTTT-GAATTAATT
1 AAATATTTTTAGAA-TGATT
* *
40378238 ACGTTATAATTTTAGAATGATT
1 A---AATATTTTTAGAATGATT
40378260 AAATATTTT
1 AAATATTTT
40378269 GAATTAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 3 0.08
18 9 0.24
19 11 0.29
21 3 0.08
22 9 0.24
23 3 0.08
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (19 bp):
AAATATTTTTAGAATGATT
Found at i:40378251 original size:40 final size:40
Alignment explanation
Indices: 40378207--40378287 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
40378197 GTGAAAATAT
40378207 TTTTAGAATGATTAAATATTTTGAATTAATTACGTTATAA
1 TTTTAGAATGATTAAATATTTTGAATTAATTACGTTATAA
40378247 TTTTAGAATGATTAAATATTTTGAATTAATTACGTTATAA
1 TTTTAGAATGATTAAATATTTTGAATTAATTACGTTATAA
40378287 T
1 T
40378288 GCCCAAGTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (40 bp):
TTTTAGAATGATTAAATATTTTGAATTAATTACGTTATAA
Found at i:40378429 original size:22 final size:22
Alignment explanation
Indices: 40378364--40378430 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
40378354 CTCTGATTTA
* *
40378364 TTAGCACATTAGTGCTCTCTGA
1 TTAGCACATCAGTGCTCTCTGT
* * *
40378386 TCAGCATATCAATGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
*
40378408 TTAGCACATCGGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
40378430 T
1 T
40378431 CTATTAGTAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.37
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:40380150 original size:230 final size:233
Alignment explanation
Indices: 40379889--40380342 Score: 598
Period size: 230 Copynumber: 2.0 Consensus size: 233
40379879 ATATAACTAT
* * *
40379889 TATTATATTATAGACTAGAATAAAAGATATAGTATTAGATAATATTATAATGTTTGATCATTGAT
1 TATTATATTATAGAATAGAATAAAAGATATAGTATTAGATAATATTATAATGATTAATCATTGAT
* * * *
40379954 GCATATATATAAGCTATTAATATATTATATAATA-ATGATATGATCTAA-CAT-TA-T-AA-TAC
66 GCATACATATAA-ATATTAATATATTATACAATATATGATATGATATAATCATATATTAAAGTAC
* * *
40380013 GAAGGCTAACTTTCAAATGTACGAAAATTATAAGGACTTAAAGCATATTTCAACTAGTATAATCA
130 GAAGGCTAACTTTCAAATGTACGAAAAGTATAAGGACTCAAAGCATATTTCAACTAG---AATAA
40380078 TAAACAAT-ATATATGATAATAATTAATATACAATGCAGTAC
192 TAAACAATAATATATGATAATAATTAATATACAATGCAGTAC
* * *
40380119 TATTATATTATAGAATATAATAAAAGATATAGTATTATATGATATTATAATGATTAATCATTGAT
1 TATTATATTATAGAATAGAATAAAAGATATAGTATTAGATAATATTATAATGATTAATCATTGAT
* *
40380184 GCATACATATAAATATTAATATATTATACACTATATGATATGATATAATGTTATATATTAAAGTA
66 GCATACATATAAATATTAATATATTATACAATATATGATATGATATAA--TCATATATTAAAGTA
* * * * * *
40380249 GGAGGGTTAACTTTCACATGTAGGAAAAGTATAAGGACTCAGAGCATATTTCAACTAGAATAATA
129 CGAAGGCTAACTTTCAAATGTACGAAAAGTATAAGGACTCAAAGCATATTTCAACTAGAATAATA
* *
40380314 AACGATAATATATGATAATGATTAATATA
194 AACAATAATATATGATAATAATTAATATA
40380343 TTACGTGTTA
Statistics
Matches: 192, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
229 18 0.09
230 83 0.43
233 2 0.01
234 13 0.07
235 22 0.11
236 2 0.01
237 52 0.27
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (233 bp):
TATTATATTATAGAATAGAATAAAAGATATAGTATTAGATAATATTATAATGATTAATCATTGAT
GCATACATATAAATATTAATATATTATACAATATATGATATGATATAATCATATATTAAAGTACG
AAGGCTAACTTTCAAATGTACGAAAAGTATAAGGACTCAAAGCATATTTCAACTAGAATAATAAA
CAATAATATATGATAATAATTAATATACAATGCAGTAC
Found at i:40382170 original size:28 final size:28
Alignment explanation
Indices: 40382105--40382205 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
40382095 ATAGTGAATC
*
40382105 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
40382134 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40382162 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
40382192 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40382206 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40384888 original size:20 final size:19
Alignment explanation
Indices: 40384865--40384937 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
40384855 TATGTAAAAA
40384865 TTATTATATATTATATCTTT
1 TTATTAT-TATTATATCTTT
*
40384885 TTATTATTCATTATATTATTT
1 TTATTATT-ATTATA-TCTTT
* *
40384906 TTATT-TTACTATATCATT
1 TTATTATTATTATATCTTT
40384924 TTATTATTAATTAT
1 TTATTATT-ATTAT
40384938 TTATTATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.18
19 8 0.18
20 19 0.43
21 9 0.20
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATTATTATATCTTT
Found at i:40384924 original size:19 final size:21
Alignment explanation
Indices: 40384876--40384931 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 21
40384866 TATTATATAT
*
40384876 TATATC-TTTTTATTATTCAT
1 TATATCATTTTTATTATTCAC
*
40384896 TATATTATTTTTATT-TT-AC
1 TATATCATTTTTATTATTCAC
40384915 TATATCA-TTTTATTATT
1 TATATCATTTTTATTATT
40384932 AATTATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.23
19 9 0.29
20 7 0.23
21 8 0.26
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (21 bp):
TATATCATTTTTATTATTCAC
Found at i:40384940 original size:27 final size:26
Alignment explanation
Indices: 40384871--40384939 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
40384861 AAAATTATTA
*
40384871 TATATTA-TATCT-TTTTATTATTCAT
1 TATATTATTAT-TATTTTACTATTCAT
*
40384896 TATATTATTTTTATTTTACTATATCAT
1 TATATTATTATTATTTTACTAT-TCAT
*
40384923 TTTATTATTAATTATTT
1 TATATTATT-ATTATTT
40384940 ATTATGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 8 0.22
26 10 0.28
27 12 0.33
28 6 0.17
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (26 bp):
TATATTATTATTATTTTACTATTCAT
Found at i:40385235 original size:34 final size:35
Alignment explanation
Indices: 40385156--40385235 Score: 83
Period size: 34 Copynumber: 2.3 Consensus size: 35
40385146 AAAAAATTCT
*
40385156 CCTTTTATTATTTATATATTGTTTTAAATATTTTTA
1 CCTTTT-TTATTTATATATTGTTTTAAATATTTATA
* * * *
40385192 CCTTATTTATTT-TTTATTGTATTTAGAT-TTTATG
1 CCTTTTTTATTTATATATTGT-TTTAAATATTTATA
40385226 CCTTTTTTAT
1 CCTTTTTTAT
40385236 ATGTTCATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
34 20 0.54
35 12 0.32
36 5 0.14
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (35 bp):
CCTTTTTTATTTATATATTGTTTTAAATATTTATA
Found at i:40387253 original size:14 final size:15
Alignment explanation
Indices: 40387234--40387275 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
40387224 GTATGTCCAT
40387234 TTCTTC-TCTTTTTC
1 TTCTTCTTCTTTTTC
40387248 TTCTTCTTCTTTTT-
1 TTCTTCTTCTTTTTC
*
40387262 TCTCTTATTCTTTT
1 T-TCTTCTTCTTTT
40387276 CTACTGCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (15 bp):
TTCTTCTTCTTTTTC
Found at i:40398283 original size:46 final size:46
Alignment explanation
Indices: 40398146--40398416 Score: 201
Period size: 46 Copynumber: 5.8 Consensus size: 46
40398136 ATTCGTGCGT
* * * *
40398146 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* ** *
40398192 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* * *
40398240 GGGCTAGTGTAAGACATGTCTGGGGCATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * **
40398287 -AGCCAGTGTAAGACATGTTTGGGACATGCATTGG-CTACGAGATAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
* * * * * * *
40398332 TAGTCAGTGTAAGACCATGTATGGGACATTGCAT-TGACTTGAGA-TA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCGAGACGA
* *
40398378 TGAGCCAGTGTAAGACCGTGTCTAGGACATGGCATCGGC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
40398417 ACCTTACCCT
Statistics
Matches: 179, Mismatches: 34, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
45 3 0.02
46 75 0.42
47 70 0.39
48 30 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:40398365 original size:94 final size:94
Alignment explanation
Indices: 40398148--40398415 Score: 241
Period size: 94 Copynumber: 2.9 Consensus size: 94
40398138 TCGTGCGTGA
* *
40398148 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTT
* * *
40398213 TGGGACATGGCATCGGTATTGAGACGAGG
66 TGGGACATGGCATCGGTATCGAGACAAAG
* *
40398242 GCTAGTGTAAGACATGTCTGGGGCATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGACG-AGAGCCAGTGTAAGACCATG
* *
40398304 TTTGGGACAT-GCATTGGCTA-CGAGATAATAG
64 TTTGGGACATGGCATCGG-TATCGAGACAA-AG
* * * *
40398335 TC-AGTGTAAGACCATGTATGGGACATTGCAT-TG--ACTTGA-GATATGAGCCAGTGTAAGACC
1 GCTAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCACATGACG--A-GAGCCAGTGTAAGACC
* * *
40398395 GTGTCTAGGACATGGCATCGG
61 ATGTTTGGGACATGGCATCGG
40398416 CACCTTACCC
Statistics
Matches: 143, Mismatches: 19, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
90 1 0.01
91 5 0.03
92 20 0.14
93 43 0.30
94 66 0.46
95 8 0.06
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGGTATCGAGACAAAG
Found at i:40398376 original size:47 final size:48
Alignment explanation
Indices: 40398287--40398412 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 48
40398277 TCGAGACGTA
* *
40398287 AGCCAGTGTAAGA-CATGTTTGGGACA-TGCATTGGCTACGAGATAAT-
1 AGCCAGTGTAAGACCATGTATGGGACATTGCATTGACTACGAGAT-ATG
* *
40398333 AGTCAGTGTAAGACCATGTATGGGACATTGCATTGACT-TGAGATATG
1 AGCCAGTGTAAGACCATGTATGGGACATTGCATTGACTACGAGATATG
* * * *
40398380 AGCCAGTGTAAGACCGTGTCTAGGACATGGCAT
1 AGCCAGTGTAAGACCATGTATGGGACATTGCAT
40398413 CGGCACCTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 14 0.21
47 45 0.66
48 9 0.13
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTATGGGACATTGCATTGACTACGAGATATG
Found at i:40406667 original size:29 final size:29
Alignment explanation
Indices: 40406634--40406736 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
40406624 CCTCCGAACT
** * * *
40406634 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
40406663 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
40406692 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
40406721 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
40406737 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:40409912 original size:40 final size:40
Alignment explanation
Indices: 40409746--40409930 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
40409736 TTCGAATGAT
* * *
40409746 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
40409786 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
40409826 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
40409866 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
40409907 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
40409931 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:40409924 original size:80 final size:80
Alignment explanation
Indices: 40409746--40409933 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
40409736 TTCGAATGAT
* *
40409746 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
40409811 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
40409826 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
40409887 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
40409907 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
40409934 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:40417773 original size:40 final size:40
Alignment explanation
Indices: 40417729--40417850 Score: 158
Period size: 40 Copynumber: 3.1 Consensus size: 40
40417719 GTGCTAAGTG
* *
40417729 ACTAAATCCGGAATAAGATCCGACGGCATACGTGCGAGTT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
* * * *
40417769 ACTAAATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
*
40417809 ACTAAATCCGG-TTAAG-TCCCGAAGGCATTCGTGCGAGTT
1 ACTAAATCCGGAATAAGAT-CCGAAGGCATTCGTGCGAGTT
40417848 ACT
1 ACT
40417851 GTAACCGGGC
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 25 0.35
40 45 0.63
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.22
Consensus pattern (40 bp):
ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
Found at i:40417871 original size:79 final size:80
Alignment explanation
Indices: 40417694--40417880 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 80
40417684 TTCGAATGAT
* *
40417694 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
40417759 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * *
40417774 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGG-TTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
40417834 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
40417854 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
40417881 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
78 2 0.02
79 44 0.48
80 40 0.44
81 5 0.05
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:40420205 original size:49 final size:47
Alignment explanation
Indices: 40420117--40420246 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 47
40420107 ATTCACATTA
* *
40420117 GGCCATTCGG-CTTATACACATAT-ATACACTTTCACATTCATCACAATC
1 GGCCATTAGGCCTTAT-CACATATAATACA-TTTCAAATTCATCAC-ATC
*
40420165 GGCCATTAGGCCTTATCACATATACATACATTTCAAATTCATCGCATC
1 GGCCATTAGGCCTTATCACATATA-ATACATTTCAAATTCATCACATC
** *
40420213 GATACATTAGGCCTCATCACATATATATACATTT
1 G-GCCATTAGGCCTTATCACATATA-ATACATTT
40420247 TCACGAATCT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
48 20 0.28
49 46 0.65
50 5 0.07
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (47 bp):
GGCCATTAGGCCTTATCACATATAATACATTTCAAATTCATCACATC
Found at i:40424133 original size:40 final size:40
Alignment explanation
Indices: 40424089--40424232 Score: 218
Period size: 40 Copynumber: 3.6 Consensus size: 40
40424079 CCAGCATGAT
* * * *
40424089 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
40424129 TGCTCTTCGGAACTTAGTCCAGATACAGCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
40424169 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
40424209 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
40424233 TAACCACAAG
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 7 0.07
40 87 0.93
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:40424245 original size:40 final size:40
Alignment explanation
Indices: 40424089--40424257 Score: 200
Period size: 40 Copynumber: 4.2 Consensus size: 40
40424079 CCAGCATGAT
* * * * *
40424089 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACACCACTAGCACGAA
* *
40424129 TGCTCTTCGGAACTTAGTCCAGATACAGCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACACCACTAGCACGAA
* *
40424169 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACACCACTAGCACGAA
* *
40424209 TGCTCTTCGGAACTTAG-CCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGTCCGGATA-CACCACTAGCACGAA
40424248 TTGC-CTTCGG
1 -TGCTCTTCGG
40424258 GTCTTAACCC
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.13
40 99 0.87
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACACCACTAGCACGAA
Found at i:40424275 original size:40 final size:40
Alignment explanation
Indices: 40424201--40424349 Score: 149
Period size: 40 Copynumber: 3.7 Consensus size: 40
40424191 ATACATCACT
* **
40424201 AGCACGAATGCTCTTCGGAACTTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * * *
40424241 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
40424282 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
40424321 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
40424350 GTATCATTCA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
39 11 0.12
40 77 0.87
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:40426260 original size:37 final size:36
Alignment explanation
Indices: 40426210--40426296 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
40426200 TACGAAGTCT
40426210 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
40426246 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
40426283 TCACCCGGAACATA
1 T-ACCCGG-ACATA
40426297 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:40426415 original size:51 final size:51
Alignment explanation
Indices: 40426345--40426471 Score: 159
Period size: 49 Copynumber: 2.5 Consensus size: 51
40426335 ATTCACATTA
* * * *
40426345 GCCATTCGGCTTTACCACATATATATATACGCTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCG
* * * *
40426396 GCCATTAGGCCTTATCAC--ATATACATACATTTTCGCATTCATCGCATCG
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCG
*
40426445 GCCATTAGGCCTCATCACATATATATA
1 GCCATTAGGCCTTATCACATATATATA
40426472 CATTTTCACG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 43 0.67
51 21 0.33
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (51 bp):
GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCG
Found at i:40426444 original size:49 final size:49
Alignment explanation
Indices: 40426377--40426480 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
40426367 ATATATACGC
*
40426377 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACAT
* * *
40426426 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACAT
40426475 TTTCAC
1 TTTCAC
40426481 GAATCTTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACAT
Found at i:40431489 original size:24 final size:24
Alignment explanation
Indices: 40431432--40431569 Score: 134
Period size: 24 Copynumber: 5.7 Consensus size: 24
40431422 TCTTACTCAT
* *
40431432 TCGCACACATAGTGCTCT-TACTC
1 TCGCACACATAGTGCTATATAATC
40431455 ATTCGCACACATAGTGCTATATAATC
1 --TCGCACACATAGTGCTATATAATC
40431481 TCGCACACATAGTGCTATATAATC
1 TCGCACACATAGTGCTATATAATC
* * * *
40431505 TCGCACACATAGTGCCATGTAGTTT
1 TCGCACACATAGTGCTATATA-ATC
* *** *
40431530 TTGCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCTATATAATC
*
40431554 TCGCCCACATAGTGCT
1 TCGCACACATAGTGCT
40431570 GAAATTTCTT
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
24 56 0.59
25 35 0.37
26 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (24 bp):
TCGCACACATAGTGCTATATAATC
Found at i:40431536 original size:49 final size:48
Alignment explanation
Indices: 40431432--40431568 Score: 132
Period size: 49 Copynumber: 2.8 Consensus size: 48
40431422 TCTTACTCAT
* * *
40431432 TCGCACACATAGTGCTCT-TACTCATTCGCACACATAGTGCTATATAATC
1 TCGCACACATAGTGCTATATAATC--TCGCACACATAGTGCCATATAATC
* * *
40431481 TCGCACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT
1 TCGCACACATAGTGCTATATAATCTCGCACACATAGTGCCATATA-ATC
* *** * *
40431530 TTGCACACATAGTGCCGCATAACCTCGCCCACATAGTGC
1 TCGCACACATAGTGCTATATAATCTCGCACACATAGTGC
40431569 TGAAATTTCT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
48 19 0.26
49 51 0.69
50 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (48 bp):
TCGCACACATAGTGCTATATAATCTCGCACACATAGTGCCATATAATC
Found at i:40439289 original size:47 final size:47
Alignment explanation
Indices: 40439217--40439518 Score: 460
Period size: 47 Copynumber: 6.3 Consensus size: 47
40439207 CCCTTCGGGA
* * * * * * *
40439217 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
40439264 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40439311 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40439358 CTTATCACATATATAGACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
40439407 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
40439456 CTTATCACATATATACCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGC
40439504 CTTATCACATATATA
1 CTTATCACATATATA
40439519 TATCTCATAC
Statistics
Matches: 240, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
47 99 0.41
48 47 0.20
49 94 0.39
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40439295 original size:25 final size:25
Alignment explanation
Indices: 40439267--40439345 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
40439257 ACTCGGCCCT
*
40439267 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
40439292 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
40439314 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
40439339 ATCACAT
1 ATCACAT
40439346 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:40447596 original size:94 final size:97
Alignment explanation
Indices: 40447463--40447822 Score: 335
Period size: 94 Copynumber: 3.8 Consensus size: 97
40447453 GGGATATATT
* * *
40447463 GCCGATGCCATGTCCCAGACATGGTCTTACATTGG--ATCTCATATGCGCGTGCTGATGCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCATATGTGAG-GCTGATGCATGTC
*
40447526 CCAGATATGTCTTACACTAGCAC-AA-CTCTT-A
65 CCAGACATGTCTTACACTAGCACTAATCT-TTGA
* ** * *
40447557 GCCGATG-CGTGTCCCAGACA-CATCTTACACTGGCTATCTC-TGT-TGAGGCCGATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCATATGTGAGGCTGATGCATGTCC
* * *
40447618 CAGACATGTCTTACACTGGCACTTATCTTTGT
66 CAGACATGTCTTACACTAGCACTAATCTTTGA
*
40447650 GCCGGTGCCATGTCCCAGACATGGTCTTACACTGGCTA--TCATA-GT-ATGGCTGATGCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCATATGTGA-GGCTGATGCATGTC
* ** *
40447711 CCAGACATGTCTTACACTAGCCCTCGTC-TAGA
65 CCAGACATGTCTTACACTAGCACTAATCTTTGA
* * * * *
40447743 TGCCGATGCCATGCCCCAGACTTGGTTTTACACTGGC--TCTCATAATGT--GGCCGAAGCATGT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCAT-ATGTGAGGCTGATGCATGT
40447804 CCCAGACACT-TCTTACACT
64 CCCAGACA-TGTCTTACACT
40447823 GGAGCACAAA
Statistics
Matches: 220, Mismatches: 30, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
91 33 0.15
92 15 0.07
93 27 0.12
94 127 0.58
95 16 0.07
96 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCATATGTGAGGCTGATGCATGTCC
CAGACATGTCTTACACTAGCACTAATCTTTGA
Found at i:40447796 original size:48 final size:45
Alignment explanation
Indices: 40447463--40447824 Score: 248
Period size: 47 Copynumber: 7.7 Consensus size: 45
40447453 GGGATATATT
* * * *
40447463 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGATCTCATATGCGCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCT--GTG
* * * * * *
40447512 TGCTGATGCATGTCCCAGATATGTCTTACACTAGCAC-AACTCT-TA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCA-TCTGTG
* ** *
40447557 GCCGATGCGTGTCCCAGACACATCTTACACTGGCTATC-TCTGTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTG-T--G
* * *
40447604 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTTATCTTTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGTG
* * * *
40447649 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTGTG
* * * *
40447698 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTAGAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT-G-TG
* * * *
40447744 GCCGATGCCATGCCCCAGACTTGGTTTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTGTG
*
40447792 GCCGAAGCATGTCCCAGACACT-TCTTACACTGG
1 GCCGATGCATGTCCCAGACA-TGTCTTACACTGG
40447825 AGCACAAATC
Statistics
Matches: 241, Mismatches: 53, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
43 3 0.01
44 28 0.12
45 3 0.01
46 37 0.15
47 87 0.36
48 60 0.25
49 17 0.07
50 6 0.02
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGTG
Found at i:40455221 original size:80 final size:80
Alignment explanation
Indices: 40455137--40455285 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
40455127 TATGGTAACC
* * * *
40455137 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
40455201 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
40455217 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
40455282 CCGG
66 CCGG
40455286 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:40455227 original size:40 final size:38
Alignment explanation
Indices: 40455178--40455285 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
40455168 ATCACGATTT
*
40455178 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
40455218 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
40455258 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
40455286 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:40463343 original size:80 final size:80
Alignment explanation
Indices: 40463259--40463407 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
40463249 TATGGTAACC
* * * *
40463259 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
40463323 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
40463339 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
40463404 CCGG
66 CCGG
40463408 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:40463349 original size:40 final size:38
Alignment explanation
Indices: 40463300--40463407 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
40463290 ATCACGATTT
*
40463300 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
40463340 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
40463380 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
40463408 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:40467946 original size:40 final size:40
Alignment explanation
Indices: 40467902--40468089 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
40467892 ATAACCACAA
* * * * * *
40467902 GCACAATTGCCTTCAGGTCTTAACCCGGATTTGGTAACTT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
40467942 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
40467982 GCACGAATGCCTTCGGGTCTTAGCCCGGCTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
40468022 GGACAAATGCCTTCGAGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
40468062 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
40468090 GTATCATTCA
Statistics
Matches: 124, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
40 122 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:40468028 original size:80 final size:78
Alignment explanation
Indices: 40467882--40468089 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 78
40467872 TCTTTGAAAT
* * * * * * *
40467882 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCAGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
*
40467946 AAATGCCTTCGGGTC
64 AAATGCCTTCGAGTC
* * *
40467961 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGCTATAGCAACTCGGAC
1 TTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
40468026 AAATGCCTTCGAGTC
64 AAATGCCTTCGAGTC
* * *
40468041 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCCCGG
40468090 GTATCATTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.05
80 101 0.93
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAA
ATGCCTTCGAGTC
Found at i:40477046 original size:316 final size:316
Alignment explanation
Indices: 40476473--40477109 Score: 1220
Period size: 316 Copynumber: 2.0 Consensus size: 316
40476463 ATTACATACA
* *
40476473 ACCAATGTGATCTTACGCACCTCCGATAACACTTTATCATCATGTAATCAAACATACAAAACTTA
1 ACCAATGTGATCTTACGCACATCAGATAACACTTTATCATCATGTAATCAAACATACAAAACTTA
40476538 CTTATCTTATCAAATTCACCTATATGCGTATTTTACCAAATATGCTAGAATTAATCATCAATATG
66 CTTATCTTATCAAATTCACCTATATGCGTATTTTACCAAATATGCTAGAATTAATCATCAATATG
*
40476603 TCAACATGATTTCTACCATTCAACCATTTAAGCACACACTAAACATGTTATAGCCCCATTAATAC
131 TCAACATGATTTCTACCATTCAACCATTTAAGCACACACTAAACAAGTTATAGCCCCATTAATAC
40476668 ACATTACAACACGTTCATCATAAGCCATTCCAATGGCTAGTTTTAACCCAAATATTTTCATGCCA
196 ACATTACAACACGTTCATCATAAGCCATTCCAATGGCTAGTTTTAACCCAAATATTTTCATGCCA
40476733 ATATTGGCTAATTATTCTATACATGCCATTATAACCATAATTAATTTACCATATAT
261 ATATTGGCTAATTATTCTATACATGCCATTATAACCATAATTAATTTACCATATAT
40476789 ACCAATGTGATCTTACGCACATCAGATAACACTTTATCATCATGTAATCAAACATACAAAACTTA
1 ACCAATGTGATCTTACGCACATCAGATAACACTTTATCATCATGTAATCAAACATACAAAACTTA
*
40476854 CTTATCTTGTCAAATTCACCTATATGCGTATTTTACCAAATATGCTAGAATTAATCATCAATATG
66 CTTATCTTATCAAATTCACCTATATGCGTATTTTACCAAATATGCTAGAATTAATCATCAATATG
40476919 TCAACATGATTTCTACCATTCAACCATTTAAGCACACACTAAACAAGTTATAGCCCCATTAATAC
131 TCAACATGATTTCTACCATTCAACCATTTAAGCACACACTAAACAAGTTATAGCCCCATTAATAC
40476984 ACATTACAACACGTTCATCATAAGCCATTCCAATGGCTAGTTTTAACCCAAATATTTTCATGCCA
196 ACATTACAACACGTTCATCATAAGCCATTCCAATGGCTAGTTTTAACCCAAATATTTTCATGCCA
* *
40477049 ATATTGGCTAATTATTCTATACATGCCATTATAAGCATAATTAATTTACCATATGT
261 ATATTGGCTAATTATTCTATACATGCCATTATAACCATAATTAATTTACCATATAT
40477105 ACCAA
1 ACCAA
40477110 GATAGGTCAA
Statistics
Matches: 315, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
316 315 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (316 bp):
ACCAATGTGATCTTACGCACATCAGATAACACTTTATCATCATGTAATCAAACATACAAAACTTA
CTTATCTTATCAAATTCACCTATATGCGTATTTTACCAAATATGCTAGAATTAATCATCAATATG
TCAACATGATTTCTACCATTCAACCATTTAAGCACACACTAAACAAGTTATAGCCCCATTAATAC
ACATTACAACACGTTCATCATAAGCCATTCCAATGGCTAGTTTTAACCCAAATATTTTCATGCCA
ATATTGGCTAATTATTCTATACATGCCATTATAACCATAATTAATTTACCATATAT
Found at i:40495269 original size:40 final size:40
Alignment explanation
Indices: 40495157--40495309 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
40495147 GGATATAGCG
* * * * ***
40495157 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
40495197 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
40495237 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
40495277 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
40495310 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:40497919 original size:60 final size:58
Alignment explanation
Indices: 40497845--40497977 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 58
40497835 ATTTAAGCCC
* * * * *
40497845 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCC--ATATATTTCCAGCAT
* * **
40497905 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
40497963 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
40497978 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 28 0.44
60 34 0.54
61 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.28
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:40497935 original size:29 final size:29
Alignment explanation
Indices: 40497895--40497977 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
40497885 GCCGTATTTT
40497895 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
40497924 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
40497953 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
40497978 ATCTCGTCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:40499179 original size:20 final size:20
Alignment explanation
Indices: 40499138--40499190 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
40499128 AATGAACACT
*
40499138 TTTTTTTTC-TTT-TCTTTG
1 TTTTTCTTCATTTCTCTTTG
40499156 TTTTTCTTCATATTCTCTTT-
1 TTTTTCTTCAT-TTCTCTTTG
*
40499176 TTTTTTTTCATTTCT
1 TTTTTCTTCATTTCT
40499191 TTATTCTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTCTTCATTTCTCTTTG
Found at i:40506390 original size:40 final size:40
Alignment explanation
Indices: 40506305--40506457 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
40506295 GGATATAGCG
* * * * * ***
40506305 ACTCGCTCAAAAGCCTTCGGGACATAGCCCAGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
40506345 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
40506385 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
40506425 ACATAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
40506458 CATCATTCAA
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 77 0.85
41 11 0.12
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:40509261 original size:40 final size:40
Alignment explanation
Indices: 40509206--40509371 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
40509196 TATTCGAATG
40509206 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
40509246 ATATCCGGGCTAAGTCCCTAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
40509286 ATATTCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
40509326 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
40509366 ATATCC
1 ATATCC
40509372 AGCTAAATTC
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 115 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:40511127 original size:27 final size:28
Alignment explanation
Indices: 40510895--40511126 Score: 221
Period size: 27 Copynumber: 8.6 Consensus size: 28
40510885 TTAGTTTACC
* * * *
40510895 AAATTACCAAAATA-CCATCGATTAGAA
1 AAATTACCAAAATACCCCTAGATTTGTA
40510922 AAATTACCAAAATACCCCTAG-TTTGTA
1 AAATTACCAAAATACCCCTAGATTTGTA
** *
40510949 AAATTATTAAAATACCCCT--TTTTGTA
1 AAATTACCAAAATACCCCTAGATTTGTA
* *
40510975 AAATTACCAAAATACCCCT-GGTTTGTG
1 AAATTACCAAAATACCCCTAGATTTGTA
40511002 AAATTACCAAAATACCCCTAG-TTTGTA
1 AAATTACCAAAATACCCCTAGATTTGTA
*
40511029 AAATTACCAAAATACCCCTA-ATTTGTG
1 AAATTACCAAAATACCCCTAGATTTGTA
** * * *
40511056 AAATTACTGAAATA-CTCTCGACTTGTA
1 AAATTACCAAAATACCCCTAGATTTGTA
*** *
40511083 AAATTATTGAAATA-CCCTAGACTTGTA
1 AAATTACCAAAATACCCCTAGATTTGTA
*
40511110 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
40511127 TCGATTTACA
Statistics
Matches: 173, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.15
27 140 0.81
28 7 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (28 bp):
AAATTACCAAAATACCCCTAGATTTGTA
Found at i:40511141 original size:27 final size:26
Alignment explanation
Indices: 40511110--40511181 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
40511100 TAGACTTGTA
40511110 AAATTACCAAAGTACCCTCGATTTAC-
1 AAATTACCAAA-TACCCTCGATTTACG
****
40511136 AGAATTATCGTTTTACCCTCGATTTACG
1 A-AATTA-CCAAATACCCTCGATTTACG
40511164 AAATTACCGAAATACCCT
1 AAATTACC-AAATACCCT
40511182 TGTAGGGTAG
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
26 2 0.06
27 30 0.88
28 2 0.06
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.31
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTACG
Found at i:40511195 original size:27 final size:27
Alignment explanation
Indices: 40511165--40511307 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
40511155 CGATTTACGA
40511165 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
40511192 AATTACCGAAATACCCTTGTAAGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
40511219 AATTACAGAAATAACCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
40511246 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
40511273 AATTACTGAGATACCCTTTGTGGGGTAA
1 AATTACCGAAATACCC-TTGTAGGGTAG
40511301 AATTACC
1 AATTACC
40511308 ATTTTGCCCC
Statistics
Matches: 98, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 84 0.86
28 14 0.14
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:40511725 original size:22 final size:22
Alignment explanation
Indices: 40511700--40511748 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
40511690 ATGGCTTTGC
40511700 GCCAACCT-ACATATGACTCTGT
1 GCCAACCTGAC-TATGACTCTGT
* *
40511722 GCCAACCTGACTATGGCTGTGT
1 GCCAACCTGACTATGACTCTGT
40511744 GCCAA
1 GCCAA
40511749 ACGTATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (22 bp):
GCCAACCTGACTATGACTCTGT
Found at i:40511988 original size:54 final size:53
Alignment explanation
Indices: 40511906--40512012 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
40511896 TATTCTGTTA
* * * * *
40511906 AGTGGCTTTGCCACATTATCTATTTCTGGTGGCTATGCCACAAATATCTATTCT
1 AGTGGCTCTGCCACAATATATATATCTGGTGACTATGCCAC-AATATCTATTCT
* * * *
40511960 AGTGGCTCTGCCACAATATATGTATCTGGTGACTCTGTCACAATATCTGTTCT
1 AGTGGCTCTGCCACAATATATATATCTGGTGACTATGCCACAATATCTATTCT
40512013 GGCAGCCATG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (53 bp):
AGTGGCTCTGCCACAATATATATATCTGGTGACTATGCCACAATATCTATTCT
Found at i:40511995 original size:27 final size:27
Alignment explanation
Indices: 40511907--40512014 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
40511897 ATTCTGTTAA
* * * * *
40511907 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTCTGCCACAATATATGTATCTG
* * *
40511934 GTGGCTATGCCACAA-ATATCTATTCTA
1 GTGGCTCTGCCACAATATATGTA-TCTG
40511961 GTGGCTCTGCCACAATATATGTATCTG
1 GTGGCTCTGCCACAATATATGTATCTG
* * *
40511988 GTGACTCTGTCACAATATCTGT-TCTG
1 GTGGCTCTGCCACAATATATGTATCTG
40512014 G
1 G
40512015 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.13
27 52 0.78
28 6 0.09
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATATGTATCTG
Found at i:40512141 original size:6 final size:6
Alignment explanation
Indices: 40512132--40512241 Score: 55
Period size: 6 Copynumber: 17.8 Consensus size: 6
40512122 TTGCATTCAC
* * * * *
40512132 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTA ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
40512182 ATTCTG ATTCTA ATTCTA ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
40512231 ATTTTG ATTCT
1 ATTCTG ATTCT
40512242 AGTTTTGATA
Statistics
Matches: 79, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
5 5 0.06
6 62 0.78
7 8 0.10
8 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:40512167 original size:31 final size:30
Alignment explanation
Indices: 40512132--40512229 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
40512122 TTGCATTCAC
* *
40512132 ATTCTGATTCTAATTCTGTTACCTGATACTG
1 ATTCTAATTCTAATTCTG-TACCTGATTCTG
*
40512163 ATTCTAATTCT-A-TC---ACCTAATTCTG
1 ATTCTAATTCTAATTCTGTACCTGATTCTG
40512188 ATTCTAATTCTAATTCTGTCACCTGATTCTG
1 ATTCTAATTCTAATTCTGT-ACCTGATTCTG
*
40512219 ATTCTGATTCT
1 ATTCTAATTCT
40512230 CATTTTGATT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 20 0.36
26 1 0.02
27 2 0.04
29 2 0.04
30 1 0.02
31 30 0.54
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.46
Consensus pattern (30 bp):
ATTCTAATTCTAATTCTGTACCTGATTCTG
Found at i:40512223 original size:25 final size:25
Alignment explanation
Indices: 40512132--40512199 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
40512122 TTGCATTCAC
* * *
40512132 ATTCTGATTCTAATTCTGTTACCTG
1 ATTCTGATTCTAATTCTATCACCTA
*
40512157 ATACTGATTCTAATTCTATCACCTA
1 ATTCTGATTCTAATTCTATCACCTA
40512182 ATTCTGATTCTAATTCTA
1 ATTCTGATTCTAATTCTA
40512200 ATTCTGTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTATCACCTA
Done.