Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 73 of 130
Found at i:15105742 original size:17 final size:17
Alignment explanation
Indices: 15105720--15105752 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15105710 TAATGAAGAA
15105720 ATATCATCTAATTTATG
1 ATATCATCTAATTTATG
15105737 ATATCATCTAATTTAT
1 ATATCATCTAATTTAT
15105753 CTCATTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.48
Consensus pattern (17 bp):
ATATCATCTAATTTATG
Found at i:15106527 original size:16 final size:16
Alignment explanation
Indices: 15106503--15106535 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15106493 TGTTACTTTT
*
15106503 TTTATTTAAATAAAAA
1 TTTAATTAAATAAAAA
15106519 TTTAATTAAATAAAAA
1 TTTAATTAAATAAAAA
15106535 T
1 T
15106536 AAATGTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAATTAAATAAAAA
Found at i:15107041 original size:59 final size:59
Alignment explanation
Indices: 15106916--15107135 Score: 211
Period size: 58 Copynumber: 3.7 Consensus size: 59
15106906 ATAAACGGCC
* * *
15106916 AAATTATTATAATATCTTTTTT-TTCATAATTATAAAAATGCATATTTTATCATAATTGATTA
1 AAATTATTATAATATATTTTTTATT-ATAATTATGAAAAT--AT-TTTTATCATAATTGATCA
* *
15106978 AAATTATTATAACAT-TTTTTTATTATAATTACGAAAATATTTCTCTATCATAATTG-TCA
1 AAATTATTATAATATATTTTTTATTATAATTATGAAAATATTT-T-TATCATAATTGATCA
* * * *
15107037 AAATTATT-TAA-ATATTTTTTATTATAA-TAGTGGAAATGTTTTTTATTACAATTGATCA
1 AAATTATTATAATATATTTTTTATTATAATTA-TGAAAAT-ATTTTTATCATAATTGATCA
* *
15107095 AAATTACTATAATACTA-TTTTTATCATAATTATGAAAATAT
1 AAATTATTATAATA-TATTTTTTATTATAATTATGAAAATAT
15107136 CCCACATACC
Statistics
Matches: 134, Mismatches: 13, Indels: 25
0.78 0.08 0.15
Matches are distributed among these distances:
57 13 0.10
58 34 0.25
59 20 0.15
60 29 0.22
61 22 0.16
62 16 0.12
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (59 bp):
AAATTATTATAATATATTTTTTATTATAATTATGAAAATATTTTTATCATAATTGATCA
Found at i:15109386 original size:60 final size:62
Alignment explanation
Indices: 15109259--15109386 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 62
15109249 AATGTCTTAT
* * ** * *
15109259 ATAATCCCTTCATAAAAATGGATAGGAGATTATTGAAAGCATTTTTGGCAGACAATACCTTGA
1 ATAATCACATCATAAAAATGGA-AGGAGATTATTGAAAGCATTTTTACCAGAAAATACCTTCA
* *
15109322 ATAATCACATCATAAAAATGG-AGG-GATTATTGAAAGCGTTTTCTACCA-AAAATGCCTTCA
1 ATAATCACATCATAAAAATGGAAGGAGATTATTGAAAGCATTTT-TACCAGAAAATACCTTCA
15109382 ATAAT
1 ATAAT
15109387 TTCTCTACAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
60 31 0.55
61 6 0.11
63 19 0.34
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (62 bp):
ATAATCACATCATAAAAATGGAAGGAGATTATTGAAAGCATTTTTACCAGAAAATACCTTCA
Found at i:15109836 original size:65 final size:62
Alignment explanation
Indices: 15109765--15110014 Score: 168
Period size: 64 Copynumber: 4.0 Consensus size: 62
15109755 ATTTTCTAGC
* *
15109765 AAAAAATGCCTTCAATAATCCATTCAAAAAATTTTGGAGAGAGAATATTGAATG-TTTTTTCGAT
1 AAAAAATGCCTTCAATAATCCATT-AAAAAATTTTGGA-AGAGAATATTGAAGGCATTTTT-GAT
* * ** * * *
15109829 AAAAAAATGCTTTCAATAATCTA-TAGAAAAAAATTGGAAGGGATTATTGAAGGCATTTTTGGT
1 -AAAAAATGCCTTCAATAATCCATTA-AAAAATTTTGGAAGAGAATATTGAAGGCATTTTTGAT
* * * * ** *
15109892 CAAAAATGCCTTCAATAATCCACTTAATAAATTTT-TATGAGGAAATATTGAAGGCGCTTTTGGT
1 AAAAAATGCCTTCAATAATCCA-TTAAAAAATTTTGGAAGA-G-AATATTGAAGGCATTTTTGAT
* * * * * * *
15109956 CAAAAATACCTTTAATAATTCATACAAAAAATTTT-GAAGGGGATTATTGAA-GCATTTTT
1 AAAAAATGCCTTCAATAATCCAT-TAAAAAATTTTGGAA-GAGAATATTGAAGGCATTTTT
15110015 AGCTAGAAAC
Statistics
Matches: 145, Mismatches: 32, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
62 27 0.19
63 31 0.21
64 66 0.46
65 21 0.14
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.34
Consensus pattern (62 bp):
AAAAAATGCCTTCAATAATCCATTAAAAAATTTTGGAAGAGAATATTGAAGGCATTTTTGAT
Found at i:15109961 original size:127 final size:126
Alignment explanation
Indices: 15109730--15110035 Score: 299
Period size: 127 Copynumber: 2.4 Consensus size: 126
15109720 AGTCCCTTAC
* *
15109730 AAAAATTGAATGGG-TTATTTAAGGCATTTTCTAGCAAAAAATGCCTTCAATAATCCATTCAAAA
1 AAAAATTGAAGGGGATTATTGAAGGCATTTT-TAGCAAAAAATGCCTTCAATAATCCATTCAAAA
* ** * *
15109794 AATTTTGGAGAGAGAATATTGAATGTTTTTTCGATAAAAAA-ATGCTTTCAATAA-TCTATAGAA
65 AATTTTGGAGAGAGAATATTGAAGGGCTTTTCGATAAAAAATA-CCTTT-AATAATTC-ATACAA
*
15109857 AAAAATTGGAA-GGGATTATTGAAGGCATTTTTGGTC-AAAAATGCCTTCAATAATCCACTT-AA
1 AAAAATT-GAAGGGGATTATTGAAGGCATTTTTAG-CAAAAAATGCCTTCAATAATCCA-TTCAA
* * * *
15109919 TAAATTTT-TATGAG-GAAATATTGAAGGCGCTTTT-GGTCAAAAATACCTTTAATAATTCATAC
63 AAAATTTTGGA-GAGAG-AATATTGAAGG-GCTTTTCGATAAAAAATACCTTTAATAATTCATAC
15109981 AA
125 AA
* * * *
15109983 AAAATTTTGAAGGGGATTATTGAA-GCATTTTTAGCTAGAAACGCCTTCAATAA
1 AAAA-ATTGAAGGGGATTATTGAAGGCATTTTTAGCAAAAAATGCCTTCAATAA
15110036 CCTTATTCAA
Statistics
Matches: 152, Mismatches: 15, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
125 1 0.01
126 43 0.28
127 82 0.54
128 26 0.17
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (126 bp):
AAAAATTGAAGGGGATTATTGAAGGCATTTTTAGCAAAAAATGCCTTCAATAATCCATTCAAAAA
ATTTTGGAGAGAGAATATTGAAGGGCTTTTCGATAAAAAATACCTTTAATAATTCATACAA
Found at i:15110204 original size:35 final size:35
Alignment explanation
Indices: 15110133--15110204 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
15110123 ATTATATATG
* *
15110133 TGAAGTCAGTTATAGGTTTATGCCTAGAAAATATT
1 TGAAGTCAGTTATAAGTTTATGCCTAGAAAACATT
* *
15110168 TGAAGTCAGTTGTAAGTTTATGTCC-AGACAACATT
1 TGAAGTCAGTTATAAGTTTATG-CCTAGAAAACATT
15110203 TG
1 TG
15110205 GTTTATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 30 0.94
36 2 0.06
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (35 bp):
TGAAGTCAGTTATAAGTTTATGCCTAGAAAACATT
Found at i:15114124 original size:63 final size:66
Alignment explanation
Indices: 15114039--15114161 Score: 162
Period size: 64 Copynumber: 1.9 Consensus size: 66
15114029 GTTTGTTATT
* *
15114039 AAAAACACATTCAATAATTCCC-TGATAAAAAAGTAAATGGGATTATTGAAGGC-TTTTTAATAA
1 AAAAACACATTCAATAATTCCCTTGATAAAAAAGTAAAGGGGATTATTGAAAGCATTTTTAATAA
15114102 A
66 A
* * * **
15114103 AAAAACACCTTTAATAA-TCCCTTGATAAAAAATTTGAGGGGATTATTGAAAGCATTTTT
1 AAAAACACATTCAATAATTCCCTTGATAAAAAAGTAAAGGGGATTATTGAAAGCATTTTT
15114162 TGCAAAACAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 4 0.08
64 41 0.82
65 5 0.10
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (66 bp):
AAAAACACATTCAATAATTCCCTTGATAAAAAAGTAAAGGGGATTATTGAAAGCATTTTTAATAA
A
Found at i:15114183 original size:63 final size:62
Alignment explanation
Indices: 15114039--15114183 Score: 148
Period size: 64 Copynumber: 2.3 Consensus size: 62
15114029 GTTTGTTATT
* * *
15114039 AAAAACACATTCAATAATTCCCTGATAAAAAAGTAAATGGGATTATTGAAGGCTTTTTAATAAA
1 AAAAACACCTTCAATAA-TCCCTGATAAAAAAGTAAAGGGGATTATTGAAAGCTTTTT-ATAAA
* * ** **
15114103 AAAAACACCTTTAATAATCCCTTGATAAAAAATTTGAGGGGATTATTGAAAGCATTTTT-TGCA
1 AAAAACACCTTCAATAATCCC-TGATAAAAAAGTAAAGGGGATTATTGAAAGC-TTTTTATAAA
* *
15114166 AAACATACCTTCAATAAT
1 AAAAACACCTTCAATAAT
15114184 TTTTTTTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
63 21 0.31
64 41 0.61
65 5 0.07
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (62 bp):
AAAAACACCTTCAATAATCCCTGATAAAAAAGTAAAGGGGATTATTGAAAGCTTTTTATAAA
Found at i:15116704 original size:33 final size:33
Alignment explanation
Indices: 15116667--15116732 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
15116657 TAAGTTTCCA
* * * * *
15116667 AACTTTGTTTTTTATCTTGAAAATGTTATACTT
1 AACTTTATTTTTGATCCTCAAAATATTATACTT
15116700 AACTTTATTTTTGATCCTCAAAATATTATACTT
1 AACTTTATTTTTGATCCTCAAAATATTATACTT
15116733 GGACTAGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (33 bp):
AACTTTATTTTTGATCCTCAAAATATTATACTT
Found at i:15118823 original size:13 final size:14
Alignment explanation
Indices: 15118805--15118842 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
15118795 TTTCTCAATG
15118805 TCTTTATATATG-T
1 TCTTTATATATGTT
*
15118818 TCTTTACATATGTT
1 TCTTTATATATGTT
*
15118832 TTTTTATATAT
1 TCTTTATATAT
15118843 TCACTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (14 bp):
TCTTTATATATGTT
Found at i:15120237 original size:161 final size:159
Alignment explanation
Indices: 15119972--15120767 Score: 730
Period size: 161 Copynumber: 4.9 Consensus size: 159
15119962 GTAATTTGCA
* * * * * * * ** *
15119972 ATTTATATCTATTTATA-ACTTTTTATGCCGTTACAAGGTAATAATGCAAATTTACAGTTATTGT
1 ATTTACATCTATTTA-AGACATTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGGA-ATATTGT
* * * * * * * *
15120036 TCTATTTTAATAGTTTTGATAGTTTCGATACATGATATTAAACTTATCCAAATTATTGAACTTAG
64 TCTATTTTAATAGTTTGGATAGCTT-AATACATGATATTAAACTTGTTCGAATGATTGAACTTGG
* * *
15120101 TTTCCACGGTTGATATGTATGAAAAAGTTATT
128 TTTCCACAGTTGATATGTGTGAAAAAGTTATC
* * * * * *
15120133 TTTTACATCTATTTAGGACATTTTGTGCCGTTAATAGGTAAAAATATAAATTTGGACAAATTGTT
1 ATTTACATCTATTTAAGACATTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGGA-ATATTGTT
* * * * *
15120198 CTATTTTAATAGTTTGGATAGCTATAAGATATAATATTAAACTTGTTTGAATGATTGAACTTGAT
65 CTATTTTAATAGTTTGGATAGCT-TAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGT
*
15120263 TTTCACAGTTGATATGTGTGAAAAAGTTATC
129 TTCCACAGTTGATATGTGTGAAAAAGTTATC
** * * * * *
15120294 ATTTATGTCTGTTTAAGACTTTTTGTG-C-TATAAAGAGGCAAACATGCAAATTTGTTG-TTATT
1 ATTTACATCTATTTAAGACATTTTGTGCCGT-TAAA-AGGCAAAAATACAAATTTG--GAATATT
* * *
15120356 GTTCTATTTTAATAGTTTGCATAGCTTCAATACATGATATTAAACTTG-TCGGAATAATTAAACT
62 GTTCTATTTTAATAGTTTGGATAGCTT-AATACATGATATTAAACTTGTTC-GAATGATTGAACT
* * *
15120420 TGGTTTTCACAGTTGATATGTGTGAAAAAGCTAAC
125 TGGTTTCCACAGTTGATATGTGTGAAAAAGTTATC
* * * * *
15120455 GTTTTCATCTGTTTAAGACA-TTTGATGCCGTTAAAAGGC-AAAATGCATATTT-GATATTATTG
1 ATTTACATCTATTTAAGACATTTTG-TGCCGTTAAAAGGCAAAAATACAAATTTGGA-A-TATTG
* *
15120517 TTCTGTTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTCGAATGATTGAACTTG
63 TTCTATTTTAATAGTTTGGATAGCTT-AATACATGATATTAAACTTGTTCGAATGATTGAACTTG
* * *
15120582 GTTTCTACAATTGATATGTGTGAAAAAGTTGTC
127 GTTTCCACAGTTGATATGTGTGAAAAAGTTATC
* * * * * * **
15120615 ATTTACGTCTATTTAAGATTATTTT-TGCTGTTAAAAGGCCAAAATACAAATTTGTTATTATTAA
1 ATTTACATCTATTTAAGA-CATTTTGTGCCGTTAAAAGGCAAAAATACAAATTTG-GAATATTGT
* * * *
15120679 TCTATTTTAATAGTTTGGATGGCTTTAATACATGATATTAAATTTTTTTGAATGATTGAACTTGG
64 TCTATTTTAATAGTTTGGATAGC-TTAATACATGATATTAAACTTGTTCGAATGATTGAACTTGG
*
15120744 TTTCCA-TGATTGATATGTGTGAAA
128 TTTCCACAG-TTGATATGTGTGAAA
15120768 GGCTCAAATG
Statistics
Matches: 518, Mismatches: 95, Indels: 44
0.79 0.14 0.07
Matches are distributed among these distances:
157 1 0.00
159 1 0.00
160 137 0.26
161 365 0.70
162 11 0.02
163 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (159 bp):
ATTTACATCTATTTAAGACATTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGGAATATTGTTC
TATTTTAATAGTTTGGATAGCTTAATACATGATATTAAACTTGTTCGAATGATTGAACTTGGTTT
CCACAGTTGATATGTGTGAAAAAGTTATC
Found at i:15120667 original size:321 final size:321
Alignment explanation
Indices: 15120028--15120767 Score: 863
Period size: 321 Copynumber: 2.3 Consensus size: 321
15120018 CAAATTTACA
* * * *
15120028 GTTATTGTTCTATTTTAATAGTTTTGATAGTTTCGATACATGATATTAAACTTATCCAAATTATT
1 GTTATTGTTCTATTTTAATAG-TTTGATAGCTTCAATACATGATATTAAACTTATCCGAATAATT
* * * * * ** *
15120093 GAACTTAGTTTCCACGGTTGATATGTATGAAAAAGTTATTTTTTACATCTATTTAGGACATTTTG
65 GAACTTGGTTTTCACAGTTGATATGTGTGAAAAAGTAACGTTTTACATCTATTTAAGACATTTTG
* * *
15120158 TGCCGTTAATAGGTAAAAATATAAATTTGGACAAATTGTTCTATTTTAATAGTTTGGATAGCTAT
130 TGCCGTTAAAAGGTAAAAATACAAATTTGGACAAATTGTTCTATTTTAACAGTTTGGATAGCTAT
* * *
15120223 AAGATATAATATTAAACTTGTTTGAATGATTGAACTTGATTTTCACAGTTGATATGTGTGAAAAA
195 AAGACATAATATTAAACTTGTTCGAATGATTGAACTTGATTTTCACAATTGATATGTGTGAAAAA
* * *
15120288 GTTATCATTTATGTCTGTTTAAGACTTTTTGTGCTATAAAGAGGCAAACATGCAAATTTGTT
260 GTTATCATTTACGTCTATTTAAGACTTTTTGTGCTATAAAGAGGCAAACATACAAATTTGTT
* *
15120350 GTTATTGTTCTATTTTAATAGTTTGCATAGCTTCAATACATGATATTAAACTTGTCGGAATAATT
1 GTTATTGTTCTATTTTAATAGTTTG-ATAGCTTCAATACATGATATTAAACTTATCCGAATAATT
* *
15120415 AAACTTGGTTTTCACAGTTGATATGTGTGAAAAAGCTAACGTTTT-CATCTGTTTAAGACA-TTT
65 GAACTTGGTTTTCACAGTTGATATGTGTGAAAAAG-TAACGTTTTACATCTATTTAAGACATTTT
* * * * * *
15120478 GATGCCGTTAAAAGG-CAAAATGCATATTT-GATATTATTGTTCTGTTTTAACAGTTTGGATAGC
129 G-TGCCGTTAAAAGGTAAAAATACAAATTTGGACA-AATTGTTCTATTTTAACAGTTTGGATAGC
* * *
15120541 T-TCAATACATGATATTAAACTTGTTCGAATGATTGAACTTG-GTTTCTACAATTGATATGTGTG
192 TAT-AAGACATAATATTAAACTTGTTCGAATGATTGAACTTGATTTTC-ACAATTGATATGTGTG
* * *
15120604 AAAAAGTTGTCATTTACGTCTATTTAAGA-TTATTTTTGCTGTTAAA-AGGCCAAA-ATACAAAT
255 AAAAAGTTATCATTTACGTCTATTTAAGACTT-TTTGTGCT-ATAAAGAGG-CAAACATACAAAT
15120666 TTGTT
317 TTGTT
* ** * * * * ** *
15120671 ATTATTAATCTATTTTAATAGTTTGGATGGCTTTAATACATGATATTAAATTTTTTTGAATGATT
1 GTTATTGTTCTATTTTAATAGTTT-GATAGCTTCAATACATGATATTAAACTTATCCGAATAATT
15120736 GAACTTGG-TTTC-CATGATTGATATGTGTGAAA
65 GAACTTGGTTTTCACA-G-TTGATATGTGTGAAA
15120768 GGCTCAAATG
Statistics
Matches: 358, Mismatches: 48, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
319 2 0.01
320 15 0.04
321 217 0.61
322 118 0.33
323 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (321 bp):
GTTATTGTTCTATTTTAATAGTTTGATAGCTTCAATACATGATATTAAACTTATCCGAATAATTG
AACTTGGTTTTCACAGTTGATATGTGTGAAAAAGTAACGTTTTACATCTATTTAAGACATTTTGT
GCCGTTAAAAGGTAAAAATACAAATTTGGACAAATTGTTCTATTTTAACAGTTTGGATAGCTATA
AGACATAATATTAAACTTGTTCGAATGATTGAACTTGATTTTCACAATTGATATGTGTGAAAAAG
TTATCATTTACGTCTATTTAAGACTTTTTGTGCTATAAAGAGGCAAACATACAAATTTGTT
Found at i:15121954 original size:22 final size:23
Alignment explanation
Indices: 15121920--15121963 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
15121910 ATTTCTTTTA
15121920 ATATTTATAAATATAAATATAAT
1 ATATTTATAAATATAAATATAAT
15121943 ATATTT-TAAATATAAATATAA
1 ATATTTATAAATATAAATATAA
15121964 AAAGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTTATAAATATAAATATAAT
Found at i:15122192 original size:34 final size:33
Alignment explanation
Indices: 15122118--15122225 Score: 146
Period size: 33 Copynumber: 3.2 Consensus size: 33
15122108 GGGATTTTCC
** *
15122118 TATACAAACGCCTTTAAATTAACGGTATTTATT
1 TATACAAACGCCTTTAAATTAGTGGTATTTTTT
*
15122151 TATACAAACG-CTGTTAAATTAGTGGCATTTTTTT
1 TATACAAACGCCT-TTAAATTAGTGGTA-TTTTTT
*
15122185 TATACAAACGCCTTTAATTTAGTGGTATTTTTT
1 TATACAAACGCCTTTAAATTAGTGGTATTTTTT
15122218 TATACAAA
1 TATACAAA
15122226 TGCTGCTACT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 2 0.03
33 35 0.53
34 27 0.41
35 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (33 bp):
TATACAAACGCCTTTAAATTAGTGGTATTTTTT
Found at i:15123069 original size:28 final size:28
Alignment explanation
Indices: 15123028--15123082 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
15123018 GCAACACATT
*
15123028 AAGGTTCATTTTCCAATAAAATGGTTAC
1 AAGGTTCATCTTCCAATAAAATGGTTAC
15123056 AAGGTTCATCTTCCAATAAAATGGTTA
1 AAGGTTCATCTTCCAATAAAATGGTTA
15123083 TCTTCTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (28 bp):
AAGGTTCATCTTCCAATAAAATGGTTAC
Found at i:15127951 original size:63 final size:65
Alignment explanation
Indices: 15127858--15127983 Score: 161
Period size: 64 Copynumber: 2.0 Consensus size: 65
15127848 GAACCGAACC
*
15127858 GAGATCAAAACTAAGTGACTAGAATTGAA-C-CATGAATAAAAAAAAAAATAATATGGATCGAGC
1 GAGATCAAAACTAAGTGACTAGAATTGAACCGCAGGAAT-AAAAAAAAAATAATATGGATCGAGC
15127921 T
65 T
* ** *
15127922 GAGATCAAAAC-GAGTGACT-GAAATTGAACCGCAGGTCTAAAAATAAAATAATATGGATCGAG
1 GAGATCAAAACTAAGTGACTAG-AATTGAACCGCAGGAATAAAAAAAAAATAATATGGATCGAG
15127984 TCAAGACTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.02
63 14 0.26
64 35 0.65
65 4 0.07
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (65 bp):
GAGATCAAAACTAAGTGACTAGAATTGAACCGCAGGAATAAAAAAAAAATAATATGGATCGAGCT
Found at i:15128021 original size:64 final size:64
Alignment explanation
Indices: 15127896--15128021 Score: 141
Period size: 64 Copynumber: 2.0 Consensus size: 64
15127886 ACCATGAATA
* * * *
15127896 AAAAAAAAAATAATATGGATCGAGCTGAGATCAAAACGAGTGACTGAAATTGAACCGCAGGTCT
1 AAAAAAAAAATAATATGGATCGAGCTAAGATCAAAACGAGTGACAGAAATTAAACCACAGGTCT
* * *
15127960 AAAAATAAAATAATATGGATCGAG-TCAAGA-CTGAAACGAGTGATCAG-GATTAAACCACAGGT
1 AAAAAAAAAATAATATGGATCGAGCT-AAGATC-AAAACGAGTGA-CAGAAATTAAACCACAGGT
15128022 TTGAAGATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
63 2 0.04
64 48 0.92
65 2 0.04
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (64 bp):
AAAAAAAAAATAATATGGATCGAGCTAAGATCAAAACGAGTGACAGAAATTAAACCACAGGTCT
Found at i:15128339 original size:85 final size:86
Alignment explanation
Indices: 15128222--15128462 Score: 261
Period size: 85 Copynumber: 2.8 Consensus size: 86
15128212 CAAAGATTTA
** ** * * *
15128222 CAGATTCACAAGAATAAAAGATTTGCAAGATTTCAAGTTTCGTAGAGGTTCTGGATTCT-CAAAG
1 CAGATTCACAAGAATGGAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATT-TGCAAAG
15128286 GTTTCAGGTTCACAAGGA-TTT
65 GTTTCAGGTTCACAAGGACTTT
* * * * * * *
15128307 TAGATTTACAAGAATGGAAGGTTCACAAGATTTCCAGTTTTGCAAAGGTTTTAGATTTGTAAAGG
1 CAGATTCACAAGAATGGAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTTGCAAAGG
**
15128372 TTTCAGGTTTGCAAGGACTTT
66 TTTCAGGTTCACAAGGACTTT
* * ** * *
15128393 CAGATTCACAAGAATGGAAGATTCATAAGATTTCAAATTTTACAGAGGTTCTAGATTTGTAAAGG
1 CAGATTCACAAGAATGGAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTTGCAAAGG
15128458 TTTCA
66 TTTCA
15128463 TAACAAAATT
Statistics
Matches: 129, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
84 1 0.01
85 64 0.50
86 64 0.50
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (86 bp):
CAGATTCACAAGAATGGAAGATTCACAAGATTTCAAGTTTCGCAAAGGTTCTAGATTTGCAAAGG
TTTCAGGTTCACAAGGACTTT
Found at i:15128382 original size:17 final size:17
Alignment explanation
Indices: 15128345--15128398 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
15128335 GATTTCCAGT
*
15128345 TTTGCAAAGGTTTTAGA
1 TTTGCAAAGGTTTCAGA
* *
15128362 TTTGTAAAGGTTTCAGG
1 TTTGCAAAGGTTTCAGA
15128379 TTTGC-AAGGACTTTCAGA
1 TTTGCAAAGG--TTTCAGA
15128397 TT
1 TT
15128399 CACAAGAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 4 0.13
17 18 0.60
18 8 0.27
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (17 bp):
TTTGCAAAGGTTTCAGA
Found at i:15128442 original size:86 final size:85
Alignment explanation
Indices: 15128216--15128462 Score: 262
Period size: 86 Copynumber: 2.9 Consensus size: 85
15128206 AATTCGCAAA
** ** * *** * *
15128216 GATTTACAGATTCACAAGAATAAAAGATTTGCAAGATTTCAAGTTTCGTAGAGGTTCTGGATTCT
1 GATTT-CAGATTCACAAGAATGGAAGATTCACAAGATTTCAAATTTTACAAAGGTTCTAGATT-T
*
15128281 -CAAAGGTTTCAGGTTCACAAG
64 GTAAAGGTTTCAGGTTCACAAG
* * * * * * *
15128302 GATTTTAGATTTACAAGAATGGAAGGTTCACAAGATTTCCAGTTTTGCAAAGGTTTTAGATTTGT
1 GATTTCAGATTCACAAGAATGGAAGATTCACAAGATTTCAAATTTTACAAAGGTTCTAGATTTGT
**
15128367 AAAGGTTTCAGGTTTGCAAG
66 AAAGGTTTCAGGTTCACAAG
* *
15128387 GACTTTCAGATTCACAAGAATGGAAGATTCATAAGATTTCAAATTTTACAGAGGTTCTAGATTTG
1 GA-TTTCAGATTCACAAGAATGGAAGATTCACAAGATTTCAAATTTTACAAAGGTTCTAGATTTG
15128452 TAAAGGTTTCA
65 TAAAGGTTTCA
15128463 TAACAAAATT
Statistics
Matches: 134, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
84 1 0.01
85 64 0.48
86 69 0.51
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (85 bp):
GATTTCAGATTCACAAGAATGGAAGATTCACAAGATTTCAAATTTTACAAAGGTTCTAGATTTGT
AAAGGTTTCAGGTTCACAAG
Found at i:15132055 original size:16 final size:17
Alignment explanation
Indices: 15132012--15132070 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 17
15132002 TTTTCAATTT
15132012 AAAATAAAAAAAATAAGA
1 AAAAT-AAAAAAATAAGA
*
15132030 GTAAAT--AAAAATAA-A
1 -AAAATAAAAAAATAAGA
*
15132045 AAATTAAAAAAATAAGA
1 AAAATAAAAAAATAAGA
15132062 AAAATAAAA
1 AAAATAAAA
15132071 TCAAAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 3 0.09
15 1 0.03
16 16 0.48
17 9 0.27
19 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAAATAAGA
Found at i:15137948 original size:33 final size:32
Alignment explanation
Indices: 15137888--15137966 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 32
15137878 CTAAAAATTT
*
15137888 AAAACTAAATAAATAAAAGACTAAAAC-ATAAA
1 AAAAATAAATAAATAAAAGAC-AAAACAATAAA
15137920 AAAAGATAAATAAATAAATAAGAC-AAACAATAAA
1 AAAA-ATAAATAAAT-AA-AAGACAAAACAATAAA
*
15137954 TAAAA-AAATAAAT
1 AAAAATAAATAAAT
15137967 GTAGCAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
32 12 0.29
33 14 0.34
34 10 0.24
35 5 0.12
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (32 bp):
AAAAATAAATAAATAAAAGACAAAACAATAAA
Found at i:15140221 original size:17 final size:17
Alignment explanation
Indices: 15140198--15140233 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15140188 AGACTGAAAT
*
15140198 ATAAAAAAAGATAAATAA
1 ATAAAACAA-ATAAATAA
15140216 ATAAAACAAATAAATAA
1 ATAAAACAAATAAATAA
15140233 A
1 A
15140234 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (17 bp):
ATAAAACAAATAAATAA
Found at i:15140228 original size:13 final size:13
Alignment explanation
Indices: 15140210--15140234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15140200 AAAAAAAGAT
15140210 AAATAAATAAAAC
1 AAATAAATAAAAC
15140223 AAATAAATAAAA
1 AAATAAATAAAA
15140235 TATAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAATAAAAC
Found at i:15140394 original size:15 final size:15
Alignment explanation
Indices: 15140349--15140399 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
15140339 TTAAAACTCC
15140349 ATTTATTTTGCAAAAATT
1 ATTT-TTTTG-AAAAA-T
* *
15140367 AATTTTTAG-AAAAT
1 ATTTTTTTGAAAAAT
15140381 ATTTTTTTGAAAAAT
1 ATTTTTTTGAAAAAT
15140396 ATTT
1 ATTT
15140400 ACATTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 8 0.29
15 13 0.46
17 4 0.14
18 3 0.11
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (15 bp):
ATTTTTTTGAAAAAT
Found at i:15140557 original size:26 final size:25
Alignment explanation
Indices: 15140508--15140575 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
15140498 TATTAACATA
*
15140508 ATTATTAAAA-TATAAAAAATTATTT
1 ATTATTAAAATTAT-TAAAATTATTT
* *
15140533 ATTGTTAAAGTATATTAAAATTATTT
1 ATTATTAAAAT-TATTAAAATTATTT
15140559 ATTATTAAAATTATTAA
1 ATTATTAAAATTATTAA
15140576 TATTTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 14 0.39
26 19 0.53
27 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
ATTATTAAAATTATTAAAATTATTT
Found at i:15140582 original size:16 final size:16
Alignment explanation
Indices: 15140547--15140629 Score: 50
Period size: 16 Copynumber: 5.1 Consensus size: 16
15140537 TTAAAGTATA
*
15140547 TTAAAATTATTTAT-T
1 TTAAAATTATTAATAT
15140562 ATTAAAATTATTAATAT
1 -TTAAAATTATTAATAT
*
15140579 TTAATAATAATTACAT-T
1 TTAA-AATTATTA-ATAT
15140596 TTAATAATAATATTTAATA-
1 TTAA-AAT--TA-TTAATAT
15140615 TTAAAA-TATT-ATAT
1 TTAAAATTATTAATAT
15140629 T
1 T
15140630 AATATAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
13 3 0.05
14 3 0.05
15 2 0.04
16 17 0.30
17 17 0.30
18 4 0.07
19 7 0.12
20 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAATTATTAATAT
Found at i:15140758 original size:44 final size:46
Alignment explanation
Indices: 15140554--15140762 Score: 160
Period size: 44 Copynumber: 4.4 Consensus size: 46
15140544 ATATTAAAAT
* *
15140554 TATTTATTATTAAAATTATTAATATTTAAT-AATAATTACATTTTAATAATAA
1 TATTTATTATTAAAA-TATT-ATATTTTATAAATAGTTA-A----AATAATAA
* *
15140606 TATTTAATATTAAAATATTATATTAATATAAATAAGTTAAAATAA-AA
1 TATTTATTATTAAAATATTATATT-TTATAAAT-AGTTAAAATAATAA
*** *
15140653 CTATTTATTATTTGCTATATTAATATTTTA-AAATATTTAAAATAATAA
1 -TATTTATTA-TTAAAATATT-ATATTTTATAAATAGTTAAAATAATAA
* * * *
15140701 TA-CTATTCTTAAAATATTAT-TTTTATTAATA-TTAAAATAGTAA
1 TATTTATTATTAAAATATTATATTTTATAAATAGTTAAAATAATAA
15140744 TATTTATTATTAAAATATT
1 TATTTATTATTAAAATATT
15140763 TATAGTATTA
Statistics
Matches: 129, Mismatches: 19, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
43 18 0.14
44 20 0.16
45 7 0.05
46 4 0.03
47 14 0.11
48 19 0.15
49 9 0.07
50 10 0.08
51 6 0.05
52 18 0.14
53 4 0.03
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (46 bp):
TATTTATTATTAAAATATTATATTTTATAAATAGTTAAAATAATAA
Found at i:15140762 original size:15 final size:17
Alignment explanation
Indices: 15140744--15140811 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
15140734 AAAATAGTAA
15140744 TATTTAT-TATTAAAA-
1 TATTTATATATTAAAAG
15140759 TATTTATAGTATTAACATAG
1 TATTTATA-TATTAA-A-AG
*
15140779 TTATATTTTATATTAAAAG
1 -TAT-TTATATATTAAAAG
15140798 TATTTAT-TATTAAA
1 TATTTATATATTAAA
15140812 TCATAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
15 7 0.16
16 7 0.16
17 9 0.20
18 4 0.09
19 3 0.07
20 1 0.02
21 9 0.20
22 4 0.09
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
TATTTATATATTAAAAG
Found at i:15140772 original size:38 final size:37
Alignment explanation
Indices: 15140730--15140811 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 37
15140720 TTTTTATTAA
15140730 TATTAAAATAGTAATA-TTTATTATTAAAA-TATTTAT
1 TATTAAAATAGTAATATTTTA-TATTAAAAGTATTTAT
* *
15140766 AGTATTAACATAGTTATATTTTATATTAAAAGTATTTAT
1 --TATTAAAATAGTAATATTTTATATTAAAAGTATTTAT
15140805 TATTAAA
1 TATTAAA
15140812 TCATAACAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
37 6 0.15
38 22 0.56
39 11 0.28
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (37 bp):
TATTAAAATAGTAATATTTTATATTAAAAGTATTTAT
Found at i:15140772 original size:44 final size:44
Alignment explanation
Indices: 15140684--15140773 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
15140674 AATATTTTAA
* **
15140684 AATATTTAAAATAATAATACTATTCTTAAAATATTATTTTTATT
1 AATATTTAAAATAATAATACTATTATTAAAATATTATTAGTATT
* *
15140728 AATA-TTAAAATAGTAATATTTATTATTAAAATATT-TATAGTATT
1 AATATTTAAAATAATAATA-CTATTATTAAAATATTAT-TAGTATT
15140772 AA
1 AA
15140774 CATAGTTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 14 0.36
44 25 0.64
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (44 bp):
AATATTTAAAATAATAATACTATTATTAAAATATTATTAGTATT
Found at i:15140773 original size:17 final size:16
Alignment explanation
Indices: 15140742--15140811 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 16
15140732 TTAAAATAGT
15140742 AATATTTAT-TATTAA
1 AATATTTATATATTAA
15140757 AATATTTATAGTATTAA
1 AATATTTATA-TATTAA
*
15140774 CATAGTTATATTTTATATTAA
1 -A-A--TAT-TTATATATTAA
15140795 AAGTATTTAT-TATTAA
1 AA-TATTTATATATTAA
15140811 A
1 A
15140812 TCATAACAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
15 9 0.20
16 7 0.16
17 9 0.20
18 4 0.09
19 2 0.04
20 1 0.02
21 9 0.20
22 4 0.09
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:15140996 original size:38 final size:42
Alignment explanation
Indices: 15140946--15141031 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 42
15140936 GTATTTAAAA
*
15140946 AATAATATTATTATATTAT-CTAATACTAATTATTAAAATAAT
1 AATAATATTAATATA-TATGCTAATACTAATTATTAAAATAAT
* * * *
15140988 AA-AATATTAATATATATGTTATTATTTATTATTAAAATAAT
1 AATAATATTAATATATATGCTAATACTAATTATTAAAATAAT
15141029 AAT
1 AAT
15141032 TGAATACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
40 3 0.08
41 32 0.86
42 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (42 bp):
AATAATATTAATATATATGCTAATACTAATTATTAAAATAAT
Found at i:15141266 original size:16 final size:16
Alignment explanation
Indices: 15141245--15141275 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15141235 CCTTAAATAA
15141245 AAATTTTAAAATATTT
1 AAATTTTAAAATATTT
15141261 AAATTTTAAAATATT
1 AAATTTTAAAATATT
15141276 AAGAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATTTTAAAATATTT
Found at i:15144875 original size:110 final size:111
Alignment explanation
Indices: 15144718--15144939 Score: 320
Period size: 110 Copynumber: 2.0 Consensus size: 111
15144708 AAGTTTGGGG
15144718 TCAGAGACAGAAAAATACAAGATGGATAGAGGAAAGCAGAAATTGTTAAAATGTAAGAATTAAAC
1 TCAGAGACAGAAAAATACAAGATGGATAGAGGAAAGCAGAAATTGTTAAAATGTAAGAATTAAAC
** * * * *
15144783 TAACTGAATCCATCATAGGTTGATGTTCCTTGCCCTATCTCATCAA
66 TAACCAAACCCATCATAGGTTGATGTTCCTCGCCCCAACTCATCAA
* * * ** * *
15144829 TCAGAGACAG-AGAATATAAGCTGGATAGAGGAAAGTGGAAATTGTTAAAATTTAGGAATTAAAC
1 TCAGAGACAGAAAAATACAAGATGGATAGAGGAAAGCAGAAATTGTTAAAATGTAAGAATTAAAC
15144893 TAACCAAACCCATCATAGGTTGATGTTCCTCGCCCCAACTCATCAA
66 TAACCAAACCCATCATAGGTTGATGTTCCTCGCCCCAACTCATCAA
15144939 T
1 T
15144940 GATTATCAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
110 88 0.90
111 10 0.10
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (111 bp):
TCAGAGACAGAAAAATACAAGATGGATAGAGGAAAGCAGAAATTGTTAAAATGTAAGAATTAAAC
TAACCAAACCCATCATAGGTTGATGTTCCTCGCCCCAACTCATCAA
Found at i:15150173 original size:7 final size:7
Alignment explanation
Indices: 15150161--15150187 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
15150151 GAAATTATTT
15150161 AAAAATA
1 AAAAATA
15150168 AAAAATA
1 AAAAATA
15150175 AAAAATA
1 AAAAATA
15150182 AAAAAT
1 AAAAAT
15150188 TTCTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:15151518 original size:234 final size:233
Alignment explanation
Indices: 15150832--15151569 Score: 826
Period size: 245 Copynumber: 3.1 Consensus size: 233
15150822 GTTGGTAACG
15150832 TAAAATTTTAATTAATTATTATTCATATAAATATATAAAGAAAATATTTAATAAATAAAAAAATA
1 TAAAATTTTAATTAATTATTATTCATATAAATATATAAAGAAAATATTTAATAAATAAAAAAATA
* * * *
15150897 TAGGTAACATAAATAGGTGGGAGAAATCGTAACATTTGTATTATTTAATATAAAATAGGTAAAAA
66 TAAGTAATATAAATAGGTGGGAGAAAACGTAACATTTGTATTATTTGATATAAAATAGGTAAAAA
* * * *
15150962 ATATCATAACACACTAAAAAAGAATTGTGATAATTCTAAATACATTGAAAAGTGAGAACAAACAT
131 ATATCATAACATACT--AAAAGAATTATGAAAATTCTAAATACATTGAAAAGTGAGAACAAATAT
*
15151027 AAAAATATATTATTGTAACGTAAATAATTATGATGATAATA
194 -AAAATATATTATTATAACGTAAATAATTATGATGATAATA
* * * *
15151068 TAAAATTTTGATTAATTATTATTTTGTATATATATGTGTATATATACAGAAAATAATT-ATAAAT
1 TAAAATTTTAATTAATTATTA--TT-CATATA-A-----ATATATAAAGAAAATATTTAATAAAT
* * * * * ** * * * *
15151132 TAAAAAATA-AATTGATAATATAAACAAGTGAGA-AGAAACGTAAAATTAATGTCATTTGGTGTA
57 AAAAAAATATAA--G-TAATATAAATAGGTGGGAGA-AAACGTAACATTTGTATTATTTGATATA
* * * * *
15151195 AAAT-GGAAAAAAAAGTATCATAACATACTAACAA-AGA-TATGACAGTTCTAAATATAAT-AGA
118 AAATAGG-TAAAAAA-TATCATAACATACTAA-AAGA-ATTATGAAAATTCTAAATACATTGA-A
* * ** * * *
15151256 AAGTAAGAAC-AATCATAAGAAAATATTATTATAATATAAATAAATATGTTGGTAATA
178 AAGTGAGAACAAAT-ATAA-AATATATTATTATAACGTAAATAATTATGATGATAATA
*
15151313 TAAATTTTTAATTAATTATTATTCATATAAATATATAAAGAAAATATTTAATAAATAAAAAAATA
1 TAAAATTTTAATTAATTATTATTCATATAAATATATAAAGAAAATATTTAATAAATAAAAAAATA
* *
15151378 TAAGCAATATAAATAGGTGGGAGAAAACGTAACATTTGTATTATTTGACATAAAATAGGTAAAAA
66 TAAGTAATATAAATAGGTGGGAGAAAACGTAACATTTGTATTATTTGATATAAAATAGGTAAAAA
15151443 ATATCATAACATACTAAAAGAATTATGAAAATTCTAAATACATTGAAAAGTGAGAACAAATATAA
131 ATATCATAACATACTAAAAGAATTATGAAAATTCTAAATACATTGAAAAGTGAGAACAAATATAA
* *
15151508 AATTATATTATTGTAACGTAAATAATTATGATGATAATG
196 AA-TATATTATTATAACGTAAATAATTATGATGATAATA
*
15151547 TAAAATTTTGATTAATTATTATT
1 TAAAATTTTAATTAATTATTATT
15151570 TTGTATATAT
Statistics
Matches: 404, Mismatches: 69, Indels: 60
0.76 0.13 0.11
Matches are distributed among these distances:
233 5 0.01
234 97 0.24
235 48 0.12
236 41 0.10
237 14 0.03
238 4 0.01
239 5 0.01
240 1 0.00
241 1 0.00
242 5 0.01
243 3 0.01
244 19 0.05
245 102 0.25
246 46 0.11
247 13 0.03
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (233 bp):
TAAAATTTTAATTAATTATTATTCATATAAATATATAAAGAAAATATTTAATAAATAAAAAAATA
TAAGTAATATAAATAGGTGGGAGAAAACGTAACATTTGTATTATTTGATATAAAATAGGTAAAAA
ATATCATAACATACTAAAAGAATTATGAAAATTCTAAATACATTGAAAAGTGAGAACAAATATAA
AATATATTATTATAACGTAAATAATTATGATGATAATA
Found at i:15153938 original size:14 final size:14
Alignment explanation
Indices: 15153919--15153945 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15153909 GATGAATGAA
15153919 AAATAAGAGTTTTT
1 AAATAAGAGTTTTT
15153933 AAATAAGAGTTTT
1 AAATAAGAGTTTT
15153946 AGTACTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
AAATAAGAGTTTTT
Found at i:15155031 original size:20 final size:21
Alignment explanation
Indices: 15154992--15155032 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15154982 TTGTATGCTT
*
15154992 AAATGTTTTATTAATTTTGTG
1 AAATATTTTATTAATTTTGTG
*
15155013 AAATATTTT-TTATTTTTGTG
1 AAATATTTTATTAATTTTGTG
15155033 CTCAATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (21 bp):
AAATATTTTATTAATTTTGTG
Found at i:15158490 original size:20 final size:21
Alignment explanation
Indices: 15158442--15158494 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
15158432 ATTTTTAGAA
*
15158442 AAGGGATCGATCCCTCCACAT
1 AAGGGATCGATCACTCCACAT
* **
15158463 AGGGGATCGATCAC-CCAGGT
1 AAGGGATCGATCACTCCACAT
15158483 AAGGGATCGATC
1 AAGGGATCGATC
15158495 CTCTCAAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.17
Consensus pattern (21 bp):
AAGGGATCGATCACTCCACAT
Found at i:15161215 original size:235 final size:235
Alignment explanation
Indices: 15160099--15162070 Score: 1268
Period size: 234 Copynumber: 8.5 Consensus size: 235
15160089 GTAAGAAAAG
* * * * *
15160099 TAAATAATTATATTGACATCGTAAAATTTTAATTAATTATTATTTTTATAAATATATAAGAAAAA
1 TAAATAATTATATAGACAACATAAAATTTTAATTAATTATT-GTTTTGTAAATATATAAGAAAAA
* * * * *
15160164 TAACTAAAAATTAAAATACAAATTGATAATATAAATAAGTGAG---AAATGTAAAATTACTATCA
65 TAGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAATAAATGTAAAATTAGTATCA
* ** * * * ** *
15160226 --TG--TTAAAATG-GTTATGAAGTATTATAATACACTAAGAAGGAGCTATGATAATT-TAAATA
130 TTTGACGTAAAATGAG-TAAAAAGTATTGTAACATACTAA-AAAAAGTTATGATAATTCTAAATA
* * * * * * * *
15160285 TAGTAAAAAGTAAAAACAATTATAAAAATATATTATTATAATA
193 GAATGAAAAGTAAGAACAATCATAAAAAGATATTATTGTAACA
** * *
15160328 TAAATAATTATA-ATGGTAATATCAAAA-TTTAATTAATTATTG-TTTGTATATATA-AAG-AAA
1 TAAATAATTATATA-GACAACAT-AAAATTTTAATTAATTATTGTTTTGTAAATATATAAGAAAA
* * * * * * ** *
15160388 ATAGTTAGAAATTAAAAGATAAATTGCTAACATAAACAAGTGAGAAAAAACAT-AAATTAATATC
64 ATAGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAATAAATGTAAAATTAGTATC
* * * *
15160452 ATTT-AGCGTAAAAT-AGATAAGAAGT-TTCGTAATATACTAAAAAAGAGATATGACAATTCT-A
129 ATTTGA-CGTAAAATGAG-TAAAAAGTATT-GTAACATACTAAAAAA-AGTTATGATAATTCTAA
** * * ** * * **
15160513 AGCGTAATGGAAGAG-AAGAATAATTGTAAGAATATATTATTACAACA
190 ATAG-AAT-GAAAAGTAAGAACAATCATAAAAAGATATTATTGTAACA
* * ** * * * *
15160560 TAAATAACTATATTGGTAACATTAAA-TTTAACTAATTATTATTTT-TAAATATATAA-AGAAA-
1 TAAATAATTATATAGACAACATAAAATTTTAATTAATTATTGTTTTGTAAATATATAAGAAAAAT
* * *
15160621 A--T--AAA-T-AAAAATAAATAGGTAAT-TAAA-AAGTGA-AA-AAATGTAAAATTAGTATAAT
66 AGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAATAAATGTAAAATTAGTATCAT
* * ** * * * *
15160676 TT-AGCGTAAAATGGGTAAAAAATATCATAACACATTAAGAAAAAGTTATGATAATTGTAAATAT
131 TTGA-CGTAAAATGAGTAAAAAGTATTGTAACATACTAA-AAAAAGTTATGATAATTCTAAATAG
* * * **
15160740 AATTAAATA-TCAA-AACAATCATAAAAAGAAATTATTATAATG
194 AATGAAA-AGT-AAGAACAATCATAAAAAGATATTATTGTAACA
* * * *
15160782 TAAATCATTA-AGTTGTCAACATAAAATTTTAATTATTTATT-TTTTGTAAATATATAAGAAAAA
1 TAAATAATTATA-TAGACAACATAAAATTTTAATTAATTATTGTTTTGTAAATATATAAGAAAAA
* * * * * ** * * * * *
15160845 TAGC-AAAAACTTTTAAAAACATATTGGTAATGTTGATAAAT-A-AGTAAGACGTAAAATTACTA
65 TAGCTAAAAA--TTAAAAAATAAATTGATAATATAAACAAGTGAGAATAA-ATGTAAAATTAGTA
* * * * * * * * *
15160907 TTATTTGACATAAATTGAGCATAAATTATTGTAATATACCAAAAAAAGTTATAATAATTCTAAAT
127 TCATTTGACGTAAAATGAGTAAAAAGTATTGTAACATACTAAAAAAAGTTATGATAATTCTAAAT
* * *
15160972 ATAATGAAAATTAAGAACAACCATAAACAA-ATATTATTGTAACA
192 AGAATGAAAAGTAAGAACAATCATAAA-AAGATATTATTGTAACA
* *
15161016 TAAATAATTATATCAG-CAACATAAAATTTTAATTACTTATTGTTTTGTAAATATTTAAGAAAAA
1 TAAATAATTATAT-AGACAACATAAAATTTTAATTAATTATTGTTTTGTAAATATATAAGAAAAA
* * * * *
15161080 TAACTAGAAATTAAAAAATAAATTG-TAATGTAAACAAGAGAGAATAAATATAAAATTAGTATCA
65 TAGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAATAAATGTAAAATTAGTATCA
* * * * *
15161144 TTTCACGCAAAATGAGTAAAAAGTATTGTAACACATTAAAAAAGAGGTATGATAATTCTAAATAG
130 TTTGACGTAAAATGAGTAAAAAGTATTGTAACATACTAAAAAA-AGTTATGATAATTCTAAATAG
* * * *
15161209 AATGAAAAGTAAAAACAACCAAAAAAAAAATATTATTGTAA-A
194 AATGAAAAGTAAGAACAATC-ATAAAAAGATATTATTGTAACA
* * * * *
15161251 GTAAATAACTATATTGACAACGTAAAATTTTAGTTAATTATTGTTCCTGTAAATATATAA-AAAA
1 -TAAATAATTATATAGACAACATAAAATTTTAATTAATTATTGTT-TTGTAAATATATAAGAAAA
* ** **
15161315 A-A-CTAAAAATTAAAAAATAAATTGATAATATAAATAAGTTCGAATAACCGTAAAATTAGTATC
64 ATAGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAATAAATGTAAAATTAGTATC
** * * * * * *
15161378 ATTTGATATAAAATTAGTAAAAAATATCGTAACATATTAAAAAAAAGTTATGACAATTCTAAACA
129 ATTTGACGTAAAATGAGTAAAAAGTATTGTAACATACT-AAAAAAAGTTATGATAATTCTAAATA
* *
15161443 AAAT-AAAAGGTAAAAACAA-CA-AAATGAAGATATTATTGTAA-A
193 GAATGAAAA-GTAAGAACAATCATAAA--AAGATATTATTGTAACA
* * * * *
15161485 GTAAATAATTATATTGACAACATAAAATTTTATTTAATTATTGTTCCTGTAACTATTTAAGAAAA
1 -TAAATAATTATATAGACAACATAAAATTTTAATTAATTATTGTT-TTGTAAATATATAAGAAAA
* * * * *
15161550 ATAGCTAAAAATTAAAAAAT-AA-T-ATAA-CTAAACAAGAGAGAAGT-AATGTAAAAGTAATGT
64 ATAGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAA-TAAATGTAAAATTAGTAT
* * * * * *
15161610 CATTTGAAGTAAAATG-GATAAGAAA-TATTGTAATATATTAAGAAAAAATTATAACAATTCTAA
128 CATTTGACGTAAAATGAG-TAA-AAAGTATTGTAACATACTAA-AAAAAGTTATGATAATTCTAA
* * * *
15161673 AAAAAATGAAAAGTAAGAACAATCATAAAAAATATATTATTGTAACG
190 ATAGAATGAAAAGTAAGAACAATCAT-AAAAAGATATTATTGTAACA
* * ** * * ** * *
15161720 CAAATAATCATGAT-GACAATGTAAAGTTTCAATTAATTATTGCCATTGTATATACATAA-AGAA
1 TAAATAATTAT-ATAGACAACATAAAATTTTAATTAATTATTG-TTTTGTAAATATATAAGA-AA
* * * * *
15161783 AATAGCTAAAAATTTAAAAATAAATTGTTAATATAAACAAGCGAGAAGAAATATAAAATTAGTAT
63 AATAGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAATAAATGTAAAATTAGTAT
* * * * ** *
15161848 AATTTGGCCTAAGATGAGTAAGAAA-TATCATAACATACTAAGAAAAAGTTATAATAATTCTAAA
128 CATTTGACGTAAAATGAGTAA-AAAGTATTGTAACATACTAA-AAAAAGTTATGATAATTCTAAA
* * ** * * * *
15161912 T-GTAATCAAAGGTAAGAACAAGAACAAGAAGATATTATTCTAGCA
191 TAG-AATGAAAAGTAAGAACAATCATAAAAAGATATTATTGTAACA
* * * *
15161957 TAAATATTTA-AGTAGACAACGTAAAATTTTAATTAATTATTATTTTTATAAATATATAAGAAAA
1 TAAATAATTATA-TAGACAACATAAAATTTTAATTAATTATT-GTTTTGTAAATATATAAGAAAA
* * * * * *
15162021 ATAGCTAATAATT-AAAAATAAATAGATAACATAAATAAGTAAGAAAAAAT
64 ATAGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAATAAAT
15162071 ATATTTATAT
Statistics
Matches: 1374, Mismatches: 277, Indels: 177
0.75 0.15 0.10
Matches are distributed among these distances:
221 7 0.01
222 98 0.07
223 39 0.03
224 8 0.01
225 53 0.04
226 4 0.00
227 24 0.02
228 7 0.01
229 31 0.02
230 8 0.01
231 62 0.05
232 75 0.05
233 105 0.08
234 335 0.24
235 213 0.16
236 107 0.08
237 103 0.07
238 94 0.07
239 1 0.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (235 bp):
TAAATAATTATATAGACAACATAAAATTTTAATTAATTATTGTTTTGTAAATATATAAGAAAAAT
AGCTAAAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAATAAATGTAAAATTAGTATCAT
TTGACGTAAAATGAGTAAAAAGTATTGTAACATACTAAAAAAAGTTATGATAATTCTAAATAGAA
TGAAAAGTAAGAACAATCATAAAAAGATATTATTGTAACA
Found at i:15161845 original size:471 final size:468
Alignment explanation
Indices: 15160896--15162043 Score: 1162
Period size: 471 Copynumber: 2.4 Consensus size: 468
15160886 AAGTAAGACG
* * * * * * ** * *
15160896 TAAAATTACTATTATTTGACATAAATTGAGCATAAATTATTGTAATATAC-CAAAAAAAGTTATA
1 TAAAATTAGTATAATTTGACATAAAATGAGTAAAAAATATCATAACATACTAAAAAAAAGTTATA
* * * * * *
15160960 ATAATTCTAAATATAATGAAAA-TTAAGAACAACCATA-AACAA-ATATTATTGTAACATAAATA
66 ACAATTCTAAACAAAAT-AAAAGGTAAAAACAA-CA-ACAAGAAGATATTATTGTAA-ATAAATA
* * *
15161022 ATTATA-TCAGCAACATAAAATTTTAATTACTTATTGTTTTGTAAATATTTAAGAAAAATAACTA
127 ATTATATTGA-CAACATAAAATTTTAATTAATTATTGTTTTGTAAATATTTAAGAAAAATAGCTA
* * * * * *
15161086 GAAATTAAAAAATAAATTGTAATGTAAACAAGAGAGAATAAATATAAAATTAGTATCATTTCACG
191 AAAATTAAAAAATAAATTATAATCTAAACAAGAGAGAATAAATATAAAAGTAATATCATTTCAAG
* * * * *
15161151 CAAAATGAGTAAAAAGTATTGTAACACATTAAAAAAGAGGTATGATAATTCTAAATAGAATGAAA
256 CAAAATGAGTAAAAAGTATTGTAACACATTAAAAAAGAAGTATAACAATTCTAAAAAAAATGAAA
*
15161216 AGTAAAAACAACCAAAAAAAAAATATTATTGTAAAGTAAATAACTATATTGACAACGTAAAATTT
321 AGTAAAAACAACCAAAAAAAAAATATTATTGTAAAGCAAATAACTATATTGACAACGTAAAATTT
* * *
15161281 TAGTTAATTATTGTTCCTGTAAATATATAAAAAAAACTAAAAATTAAAAAATAAATTGATAATAT
386 CAATTAATTATTG-TCCTGTAAATACATAAAAAAAACTAAAAATTAAAAAATAAATTGATAATAT
* *** * * *
15161346 AAATAAGTTCGAATAACCG
450 AAACAAGCGAGAAGAAACA
* * * * * *
15161365 TAAAATTAGTATCATTTGATATAAAATTAGTAAAAAATATCGTAACATATTAAAAAAAAGTTATG
1 TAAAATTAGTATAATTTGACATAAAATGAGTAAAAAATATCATAACATACTAAAAAAAAGTTATA
15161430 ACAATTCTAAACAAAATAAAAGGTAAAAACAACAA-AATGAAGATATTATTGTAAAGTAAATAAT
66 ACAATTCTAAACAAAATAAAAGGTAAAAACAACAACAA-GAAGATATTATTGTAAA-TAAATAAT
* * *
15161494 TATATTGACAACATAAAATTTTATTTAATTATTGTTCCTGTAACTATTTAAGAAAAATAGCTAAA
129 TATATTGACAACATAAAATTTTAATTAATTATTGTT-TTGTAAATATTTAAGAAAAATAGCTAAA
* * * *
15161559 AATTAAAAAAT-AA-TATAA-CTAAACAAGAGAGAAGT-AATGTAAAAGTAATGTCATTTGAAGT
193 AATTAAAAAATAAATTATAATCTAAACAAGAGAGAA-TAAATATAAAAGTAATATCATTTCAAGC
* * *
15161620 AAAATG-GATAAGAAA-TATTGTAATATATTAAGAAAA-AATTATAACAATTCTAAAAAAAATGA
257 AAAATGAG-TAA-AAAGTATTGTAACACATTAA-AAAAGAAGTATAACAATTCTAAAAAAAATGA
* * * * * *
15161682 AAAGTAAGAACAATCATAAAAAATATATTATTGTAACGCAAATAA-TCATGA-TGACAATGTAAA
319 AAAGTAAAAACAACCAAAAAAAAAATATTATTGTAAAGCAAATAACT-AT-ATTGACAACGTAAA
* * *
15161745 GTTTCAATTAATTATTG-CCATTGTATATACATAAAGAAAATAGCTAAAAATTTAAAAATAAATT
382 ATTTCAATTAATTATTGTCC--TGTAAATACATAAA-AAAA-A-CTAAAAATTAAAAAATAAATT
* *
15161809 GTTAATATAAACAAGCGAGAAGAAATA
442 GATAATATAAACAAGCGAGAAGAAACA
* * * * *
15161836 TAAAATTAGTATAATTTGGCCTAAGATGAGTAAGAAATATCATAACATACTAAGAAAAAGTTATA
1 TAAAATTAGTATAATTTGACATAAAATGAGTAAAAAATATCATAACATACTAAAAAAAAGTTATA
* *** * * * * * *
15161901 ATAATTCTAAATGTAATCAAAGGTAAGAACAAGAACAAGAAGATATTATTCTAGCATAAATATTT
66 ACAATTCTAAACAAAATAAAAGGTAAAAACAACAACAAGAAGATATTATTGTA-AATAAATAATT
* * * * * *
15161966 A-AGTAGACAACGTAAAATTTTAATTAATTATTATTTTTATAAATATATAAGAAAAATAGCTAAT
130 ATA-TTGACAACATAAAATTTTAATTAATTATT-GTTTTGTAAATATTTAAGAAAAATAGCTAAA
15162030 AATT-AAAAATAAAT
193 AATTAAAAAATAAAT
15162044 AGATAACATA
Statistics
Matches: 560, Mismatches: 95, Indels: 45
0.80 0.14 0.06
Matches are distributed among these distances:
466 2 0.00
467 2 0.00
468 157 0.28
469 65 0.12
470 94 0.17
471 235 0.42
472 5 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (468 bp):
TAAAATTAGTATAATTTGACATAAAATGAGTAAAAAATATCATAACATACTAAAAAAAAGTTATA
ACAATTCTAAACAAAATAAAAGGTAAAAACAACAACAAGAAGATATTATTGTAAATAAATAATTA
TATTGACAACATAAAATTTTAATTAATTATTGTTTTGTAAATATTTAAGAAAAATAGCTAAAAAT
TAAAAAATAAATTATAATCTAAACAAGAGAGAATAAATATAAAAGTAATATCATTTCAAGCAAAA
TGAGTAAAAAGTATTGTAACACATTAAAAAAGAAGTATAACAATTCTAAAAAAAATGAAAAGTAA
AAACAACCAAAAAAAAAATATTATTGTAAAGCAAATAACTATATTGACAACGTAAAATTTCAATT
AATTATTGTCCTGTAAATACATAAAAAAAACTAAAAATTAAAAAATAAATTGATAATATAAACAA
GCGAGAAGAAACA
Found at i:15166104 original size:33 final size:33
Alignment explanation
Indices: 15166026--15166162 Score: 114
Period size: 33 Copynumber: 4.2 Consensus size: 33
15166016 AATGTAGATA
* * **
15166026 GTGAGCAAAATGGGGAAGTGGGTTTAAAAAGTG
1 GTGAGCAAAATGGGGAAGTTGATTTAGGAAGTG
* ** * *
15166059 ATGATTAGAATGGGGAAGTTGATTTAGGAAGTA
1 GTGAGCAAAATGGGGAAGTTGATTTAGGAAGTG
* * ** *
15166092 GTGATCATAATGGAAAAGTTGGTTTAGGAAGTG
1 GTGAGCAAAATGGGGAAGTTGATTTAGGAAGTG
* *
15166125 GCGAGCAAAATGAGGAAG-TGAATTTAGGAAGTG
1 GTGAGCAAAATGGGGAAGTTG-ATTTAGGAAGTG
15166158 GTGAG
1 GTGAG
15166163 TAGAATATGA
Statistics
Matches: 79, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
32 2 0.03
33 77 0.97
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.25
Consensus pattern (33 bp):
GTGAGCAAAATGGGGAAGTTGATTTAGGAAGTG
Found at i:15170953 original size:94 final size:94
Alignment explanation
Indices: 15170827--15171018 Score: 269
Period size: 94 Copynumber: 2.0 Consensus size: 94
15170817 CGTTCTTACA
*
15170827 AGAAATCATCACGCAACAAAGATTATTACTGTTTGAACACTTTAGAAATCAATC-ATCACAACAA
1 AGAAATCATCACGCAACAAAGATTAGTACTGTTTGAACACTTTAGAAATCAATCTA-CACAACAA
* *
15170891 AGCATAAAGAACTATACTGGGGACTGTACT
65 AGCATAAAGAACTAGACTAGGGACTGTACT
* * ***
15170921 AGAAATCATCACGCAACAAAGATTGGTGCTGTTTGAACACTTTAGAAATTGGTCTACACAACAAA
1 AGAAATCATCACGCAACAAAGATTAGTACTGTTTGAACACTTTAGAAATCAATCTACACAACAAA
** *
15170986 GCATTGAGAACTGGACTAGGGACTGTACT
66 GCATAAAGAACTAGACTAGGGACTGTACT
15171015 AGAA
1 AGAA
15171019 GAAACTTCCA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 85 0.99
95 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (94 bp):
AGAAATCATCACGCAACAAAGATTAGTACTGTTTGAACACTTTAGAAATCAATCTACACAACAAA
GCATAAAGAACTAGACTAGGGACTGTACT
Found at i:15172554 original size:143 final size:142
Alignment explanation
Indices: 15172271--15172670 Score: 466
Period size: 143 Copynumber: 2.8 Consensus size: 142
15172261 TTAAAACATC
* * * * *
15172271 AAAAATCATGAAATATTATAAAATTAAAATTTGAAAA-TTTCATGAAAAT-TCGAGCTCGTAAAG
1 AAAAATCATGAAATATTATAAAATTAAGATATGAAAAGTTTCATGAAAATCT-AAGCTCGAAAAA
* * *
15172334 GCCAAATTACGAAAATACCTTTATTGGATATTTTGGTAATTTCATACTTTTTAGGGTACTACTAT
65 GCCAAATTACGAAAATACC-TTATGGGATATTTTGATAATTTCACACTTTTTAGGGTACTACTAT
15172399 GATTTCAAATGCACCT
129 GATTT-AAATGCA-CT
* * *
15172415 -AAAATCATGAAATATTATAAAATTTAGGTATGAAAAGTTTCATGAATATCTAAGCTCGAAAAAG
1 AAAAATCATGAAATATTATAAAATTAAGATATGAAAAGTTTCATGAAAATCTAAGCTCGAAAAAG
* * * * *
15172479 CCAAATTACAAAAATACTCTTATGAGGATATTTTGATAATTTCACACTTTTTGGGGTATTGCTGT
66 CCAAATTACGAAAATAC-CTTATG-GGATATTTTGATAATTTCACACTTTTTAGGGTACTACTAT
15172544 GATTT-AATGCACT
129 GATTTAAATGCACT
* * * ** * **
15172557 AAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATGAAAATCCAAAATTGGGAAAG
1 AAAAATCATGAAATATTATAAAATTAAGATATGAAAAGTTTCATGAAAATCTAAGCTCGAAAAAG
* *
15172622 CCAAATTACGACAATACCCTTATTGGGGTATTTTGATAATTTCACACTT
66 CCAAATTACGAAAATA-CCTTA-TGGGATATTTTGATAATTTCACACTT
15172671 CCCCTAGTAC
Statistics
Matches: 220, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
142 2 0.01
143 133 0.60
144 44 0.20
145 41 0.19
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (142 bp):
AAAAATCATGAAATATTATAAAATTAAGATATGAAAAGTTTCATGAAAATCTAAGCTCGAAAAAG
CCAAATTACGAAAATACCTTATGGGATATTTTGATAATTTCACACTTTTTAGGGTACTACTATGA
TTTAAATGCACT
Found at i:15173301 original size:37 final size:37
Alignment explanation
Indices: 15173258--15173353 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 37
15173248 ATTGCTCATG
* *
15173258 AAATAGAGGTTTTGAAATTTTGAAAATGGTTCCCCTT
1 AAATAGAGGTTTTGAAATTTTGAAAATGGATCCCCTC
* * *
15173295 AAATAGAGGCTTTGAAACTTTGAAAATGGATCCTCTC
1 AAATAGAGGTTTTGAAATTTTGAAAATGGATCCCCTC
*
15173332 AAATAGAGGTTTCGAAACTTTT
1 AAATAGAGGTTTTGAAA-TTTT
15173354 AAACATAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
37 47 0.94
38 3 0.06
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (37 bp):
AAATAGAGGTTTTGAAATTTTGAAAATGGATCCCCTC
Found at i:15173499 original size:22 final size:22
Alignment explanation
Indices: 15173453--15173500 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
15173443 AGACTTTGAA
**
15173453 TTTTGTTTTTGCTATGTTTTGT
1 TTTTGTTTTTGCTATGTTTCAT
* *
15173475 TTTTGTTTTTGTTTTGTTTCAT
1 TTTTGTTTTTGCTATGTTTCAT
15173497 TTTT
1 TTTT
15173501 TCTTTGCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.04, G:0.15, T:0.77
Consensus pattern (22 bp):
TTTTGTTTTTGCTATGTTTCAT
Found at i:15174012 original size:85 final size:85
Alignment explanation
Indices: 15173859--15174059 Score: 266
Period size: 85 Copynumber: 2.4 Consensus size: 85
15173849 TTTTATGTAG
* *
15173859 ATGCAAGTGATGCAAATGCA-AATGTCTTTTTTGTGATGTAGAGTTGAAAGCAAATGTTTTTCTC
1 ATGCGAGTGATGCAAATG-AGAATGTCTTTTTTGTGATGTAGAGTTGAAAGCAAATGTCTTTCTC
*
15173923 ATGATGCACACATAAGTTCAA
65 ATGATGCACACATAAGTACAA
*
15173944 ATGCGAGT-ATGCAAAT-ATGAATGTCCTTTTTTGTGATGTAGA-TGTGAATGCAAATGTCTTTC
1 ATGCGAGTGATGCAAATGA-GAATGT-CTTTTTTGTGATGTAGAGT-TGAAAGCAAATGTCTTTC
* * *
15174006 TTATGATGTACACGTAAGTACAA
63 TCATGATGCACACATAAGTACAA
*
15174029 ATGTGAGTGATGCAAATGAGAATGTCTTTTT
1 ATGCGAGTGATGCAAATGAGAATGTCTTTTT
15174060 CTTTTTCTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
82 1 0.01
84 14 0.14
85 72 0.71
86 14 0.14
87 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.36
Consensus pattern (85 bp):
ATGCGAGTGATGCAAATGAGAATGTCTTTTTTGTGATGTAGAGTTGAAAGCAAATGTCTTTCTCA
TGATGCACACATAAGTACAA
Found at i:15174546 original size:28 final size:28
Alignment explanation
Indices: 15174514--15174574 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
15174504 AAACTAGACA
* *
15174514 TAAAATTAAGTGCTAAATAAATTGGGCT
1 TAAAATTAAGTGCCAAATAAACTGGGCT
* **
15174542 TAAAATTAGGTGCCAGTTAAACTGGGCT
1 TAAAATTAAGTGCCAAATAAACTGGGCT
15174570 TAAAA
1 TAAAA
15174575 ATTCACTGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (28 bp):
TAAAATTAAGTGCCAAATAAACTGGGCT
Found at i:15174758 original size:33 final size:33
Alignment explanation
Indices: 15174695--15174759 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
15174685 GTCAGATAAA
* * *
15174695 CTAGGCTTAAAATTTCATTGGATGCTAGCTAAG
1 CTAGGCATAAAATTTCACTGGATGCCAGCTAAG
*
15174728 CTAGGCATAAATTTTCACTGAGA-GCCAGCTAA
1 CTAGGCATAAAATTTCACTG-GATGCCAGCTAA
15174760 ATTAGGCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (33 bp):
CTAGGCATAAAATTTCACTGGATGCCAGCTAAG
Found at i:15174945 original size:136 final size:136
Alignment explanation
Indices: 15174656--15174949 Score: 314
Period size: 136 Copynumber: 2.2 Consensus size: 136
15174646 TAGAGGCCAA
* * *
15174656 ATAAATTGGGCTTAAAATCTTTCTTTCGTGTCAGATAAACTAGGCTTAAAATTTCATTGGATGCT
1 ATAAATTAGGCTTAAAATCTTTTTTTCGTGTCAGATAAACTAGGCTTAAAATTTCATTGGATGCC
* *
15174721 AGCTAAGCTAGGCATAAATTTTCACTGAGAGCCAGCTAAATTAGGCTTTAAAATCTTTATCAAGT
66 AGCTAAGCTAGGCATAAATCTTCACTGAGAGCCAGCTAAATTAGGCTTTAAAATATTTATCAAGT
*
15174786 GTTAAG
131 GTCAAG
* * * *
15174792 -TAAACTAGGCTTAAAAATCTTTTTTTGGTG-CTAGATAAACTAGGCTTAAAATTTCCTTGGTTG
1 ATAAATTAGGCTT-AAAATCTTTTTTTCGTGTC-AGATAAACTAGGCTTAAAATTTCATTGGATG
* * * * * *
15174855 CCAGCTAAGCTGGGCTTTAAAATCTTCA-TTAGGTGTCCAG-TAAATTAGG-TTTAAATTATTTC
64 CCAGCTAAGCTAGGC-AT-AAATCTTCACTGA-GAG-CCAGCTAAATTAGGCTTTAAAATATTTA
***
15174917 TTTGGTG-CAAG
125 TCAAGTGTCAAG
15174928 ATAAATTAGGCTTAAAAT-TTTT
1 ATAAATTAGGCTTAAAATCTTTT
15174950 ATCAAGTGCC
Statistics
Matches: 131, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
135 15 0.11
136 65 0.50
137 28 0.21
138 19 0.15
139 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (136 bp):
ATAAATTAGGCTTAAAATCTTTTTTTCGTGTCAGATAAACTAGGCTTAAAATTTCATTGGATGCC
AGCTAAGCTAGGCATAAATCTTCACTGAGAGCCAGCTAAATTAGGCTTTAAAATATTTATCAAGT
GTCAAG
Found at i:15174961 original size:103 final size:103
Alignment explanation
Indices: 15174611--15174947 Score: 260
Period size: 103 Copynumber: 3.3 Consensus size: 103
15174601 CTTATTTGCT
* * ** * *
15174611 TTTGGTGCCAGATAAACTAGGCTTAAAATTTTCATTAGAGGCCAAATAAATTGGGC-TTAAAATC
1 TTTGGTGCAAGATAAACTAGGCTTAAAA-TTTCCTTAGTTGCCAGATAAACTGGGCTTTAAAATC
*
15174675 TTTCTTTC--GTGTC-AGATAAACTAGGCTT--AAA-ATTTC
65 -TTC-ATCAAGTGTCAAG-TAAACTAGGCTTAAAAATATTTC
* * * * * * * * * * *
15174711 ATTGGATGCTAGCTAAGCTAGGCATAAATTTTCACTGAG-AGCCAGCTAAATTAGGCTTTAAAAT
1 TTTGG-TGCAAGATAAACTAGGCTTAAAATTTC-CTTAGTTGCCAGATAAACTGGGCTTTAAAAT
* * * *
15174775 CTTTATCAAGTGTTAAGTAAACTAGGCTTAAAAATCTTTT
64 CTTCATCAAGTGTCAAGTAAACTAGGCTTAAAAATATTTC
* * * *
15174815 TTTGGTGCTAGATAAACTAGGCTTAAAATTTCCTTGGTTGCCAGCTAAGCTGGGCTTTAAAATCT
1 TTTGGTGCAAGATAAACTAGGCTTAAAATTTCCTTAGTTGCCAGATAAACTGGGCTTTAAAATCT
* * * * * *
15174880 TCATTAGGTGTCCAGTAAATTAGG-TTTAAATTATTTC
66 TCATCAAGTGTCAAGTAAACTAGGCTTAAAAATATTTC
*
15174917 TTTGGTGCAAGATAAATTAGGCTTAAAATTT
1 TTTGGTGCAAGATAAACTAGGCTTAAAATTT
15174948 TTATCAAGTG
Statistics
Matches: 187, Mismatches: 40, Indels: 18
0.76 0.16 0.07
Matches are distributed among these distances:
99 2 0.01
100 23 0.12
101 45 0.24
102 43 0.23
103 67 0.36
104 7 0.04
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (103 bp):
TTTGGTGCAAGATAAACTAGGCTTAAAATTTCCTTAGTTGCCAGATAAACTGGGCTTTAAAATCT
TCATCAAGTGTCAAGTAAACTAGGCTTAAAAATATTTC
Found at i:15175246 original size:68 final size:66
Alignment explanation
Indices: 15175174--15175311 Score: 145
Period size: 68 Copynumber: 2.1 Consensus size: 66
15175164 AAGCTAGGCT
* * *
15175174 TTAAAA-TCTTCATCAGGTGCCAGGTAAATTAGGTTTAAAATCTTTCTTTGGTG-TCAAATAAAC
1 TTAAAAGT-TTCATCAGATGCCAGGTAAACTAGGTTT-AAA-CTTTCATTGGTGCT-AAATAAAC
15175237 TGGGC
62 TGGGC
** * * **
15175242 TTAAAAGTTTTGTTAGATGCTAGGTAAACTAGGTTTAAACTTTCATTGGTGCTAGGTAAACTGGG
1 TTAAAAGTTTCATCAGATGCCAGGTAAACTAGGTTTAAACTTTCATTGGTGCTAAATAAACTGGG
15175307 C
66 C
15175308 TTAA
1 TTAA
15175312 CTTTTGTGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
66 26 0.44
67 4 0.07
68 28 0.47
69 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (66 bp):
TTAAAAGTTTCATCAGATGCCAGGTAAACTAGGTTTAAACTTTCATTGGTGCTAAATAAACTGGG
C
Found at i:15175270 original size:34 final size:33
Alignment explanation
Indices: 15175232--15175311 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
15175222 TGGTGTCAAA
* **
15175232 TAAACTGGGCTTAAAAGTTTTGTTAGATGCTAGG
1 TAAACTGGGCTTAAAACTTTCATT-GATGCTAGG
* * *
15175266 TAAACTAGG-TTTAAACTTTCATTGGTGCTAGG
1 TAAACTGGGCTTAAAACTTTCATTGATGCTAGG
15175298 TAAACTGGGCTTAA
1 TAAACTGGGCTTAA
15175312 CTTTTGTGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
32 16 0.43
33 13 0.35
34 8 0.22
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (33 bp):
TAAACTGGGCTTAAAACTTTCATTGATGCTAGG
Found at i:15175506 original size:22 final size:22
Alignment explanation
Indices: 15175478--15175523 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
15175468 TATACTTTGT
15175478 TAACTAATTCAG-GCTTATGTGC
1 TAACTAA-TCAGAGCTTATGTGC
*
15175500 TAACTAATCTGAGCTTATGTGC
1 TAACTAATCAGAGCTTATGTGC
15175522 TA
1 TA
15175524 GTTAATATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (22 bp):
TAACTAATCAGAGCTTATGTGC
Found at i:15175529 original size:22 final size:22
Alignment explanation
Indices: 15175490--15175538 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15175480 ACTAATTCAG
*
15175490 GCTTATGTGCTAACTAATCTGA
1 GCTTATGTGCTAACTAATATGA
** *
15175512 GCTTATGTGCTAGTTAATATGG
1 GCTTATGTGCTAACTAATATGA
15175534 GCTTA
1 GCTTA
15175539 AAACTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (22 bp):
GCTTATGTGCTAACTAATATGA
Found at i:15181206 original size:3 final size:3
Alignment explanation
Indices: 15181198--15181224 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15181188 ATATTATCTG
15181198 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
15181225 TTCATGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15181425 original size:17 final size:18
Alignment explanation
Indices: 15181400--15181433 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15181390 AATTTAAGAG
15181400 AAACCTTTGTTT-TTTGA
1 AAACCTTTGTTTGTTTGA
*
15181417 AAACTTTTGTTTGTTTG
1 AAACCTTTGTTTGTTTG
15181434 TTTAGATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.56
Consensus pattern (18 bp):
AAACCTTTGTTTGTTTGA
Found at i:15185332 original size:95 final size:95
Alignment explanation
Indices: 15185157--15185347 Score: 233
Period size: 95 Copynumber: 2.0 Consensus size: 95
15185147 CTTACAAGAT
* * *
15185157 ATCATCACGCAACAAAGATTATTACTGTTTGAACACTTTAGAAATCAAACATCACAATAAAGCAT
1 ATCATCACGCAACAAAGATTAGTACTGTTTAAACACTTTAGAAATCAAACATCACAACAAAGCAT
* * *
15185222 CGAAGAACTATACTGGGGACTGTACTAGAA
66 CGAAGAAATAGACTGGGGACTATACTAGAA
** * ****
15185252 ATCATCACGCAACAAAGATTAGTGTTGTTTAAACCCTTTAGAAATTGGTCAAT-ACAACAAAGCA
1 ATCATCACGCAACAAAGATTAGTACTGTTTAAACACTTTAGAAATCAAAC-ATCACAACAAAGCA
15185316 TCTG-AGAAATAGACTGGGGACTATACTAGAA
65 TC-GAAGAAATAGACTGGGGACTATACTAGAA
15185347 A
1 A
15185348 CAATTTGCAA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
95 78 0.96
96 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (95 bp):
ATCATCACGCAACAAAGATTAGTACTGTTTAAACACTTTAGAAATCAAACATCACAACAAAGCAT
CGAAGAAATAGACTGGGGACTATACTAGAA
Found at i:15186757 original size:143 final size:141
Alignment explanation
Indices: 15186573--15186991 Score: 526
Period size: 143 Copynumber: 2.9 Consensus size: 141
15186563 TACTCATTTT
* *
15186573 TATGATTTTAAAAT-ACCAAAAAGCATGAAATATTATAAAATTGAAATTTGAAAAGTTTCATGAA
1 TATGA-TTTAAAATCACCAAAAATCATGAAATATTATGAAATTGAAATTTGAAAAGTTTCATGAA
*
15186637 AATCCGAGCTCGAGAAGGCCAAATTACAAAAATACCCTTATTAGGGTATTTTGGTAATTTCACAC
65 AATCCGAGCTCG-GAAGGCCAAATTACAAAAATACCCTTA-TAGGGTATTTTGATAATTTCACAC
*
15186702 TTTTTG-GTACTGC
128 TTTTTGAGTACTAC
*
15186715 TGTGATTTAAAATGCACCAAAAATCATGAAATATTATGAAATT-AAGATTTGAAAAGTTTCATGA
1 TATGATTTAAAAT-CACCAAAAATCATGAAATATTATGAAATTGAA-ATTTGAAAAGTTTCATGA
*
15186779 AAATACGAGCTCGG-AGAG-CAAATTACAAAAATACCCTTATACGGGTATTTTGATAATTTCACA
64 AAATCCGAGCTCGGAAG-GCCAAATTACAAAAATACCCTTATA-GGGTATTTTGATAATTTCACA
* *
15186842 CTTTTAGGAGTACTAT
127 CTTTT-TGAGTACTAC
* * *
15186858 TATGATTTCAAAATCTCCAAAAATCATGAAATATTATGAAATTGAGATCT-AGAAAGTTTCATGA
1 TATGATTT-AAAATCACCAAAAATCATGAAATATTATGAAATTGAAATTTGA-AAAGTTTCATGA
** * ** * * *
15186922 AAATCTAAGCTTGGAAAAACTAAATTACAAAAATACCCTTATAGGGTATTTTGATAATTTTATAC
64 AAATCCGAGCTCGG-AAGGCCAAATTACAAAAATACCCTTATAGGGTATTTTGATAATTTCACAC
15186987 TTTTT
128 TTTTT
15186992 CCAGTACAAT
Statistics
Matches: 242, Mismatches: 22, Indels: 25
0.84 0.08 0.09
Matches are distributed among these distances:
140 2 0.01
141 56 0.23
142 10 0.04
143 121 0.50
144 30 0.12
145 23 0.10
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (141 bp):
TATGATTTAAAATCACCAAAAATCATGAAATATTATGAAATTGAAATTTGAAAAGTTTCATGAAA
ATCCGAGCTCGGAAGGCCAAATTACAAAAATACCCTTATAGGGTATTTTGATAATTTCACACTTT
TTGAGTACTAC
Found at i:15193139 original size:19 final size:19
Alignment explanation
Indices: 15193126--15193166 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
15193116 GTTCTAAATT
15193126 TTTTAAAAATTTCTAAAAA
1 TTTTAAAAATTTCTAAAAA
* *
15193145 TTTTAAAATTTTCTTAAAA
1 TTTTAAAAATTTCTAAAAA
15193164 TTT
1 TTT
15193167 CTTACAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAAAATTTCTAAAAA
Found at i:15193144 original size:10 final size:10
Alignment explanation
Indices: 15193129--15193183 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
15193119 CTAAATTTTT
15193129 TAAAAATTTC
1 TAAAAATTTC
15193139 TAAAAATTT-
1 TAAAAATTTC
*
15193148 TAAAATTTTC
1 TAAAAATTTC
*
15193158 TTAAAATTTC
1 TAAAAATTTC
* * *
15193168 TTACAATTTT
1 TAAAAATTTC
15193178 TAAAAA
1 TAAAAA
15193184 AATTATAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
9 8 0.22
10 29 0.78
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (10 bp):
TAAAAATTTC
Found at i:15193153 original size:29 final size:30
Alignment explanation
Indices: 15193121--15193182 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
15193111 CCAAAGTTCT
15193121 AAATTTT-TTAAAAATTTC-TAAAAATTTTA
1 AAATTTTCTT-AAAATTTCTTAAAAATTTTA
* *
15193150 AAATTTTCTTAAAATTTCTTACAATTTTTA
1 AAATTTTCTTAAAATTTCTTAAAAATTTTA
15193180 AAA
1 AAA
15193183 AAATTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (30 bp):
AAATTTTCTTAAAATTTCTTAAAAATTTTA
Found at i:15193193 original size:41 final size:40
Alignment explanation
Indices: 15193140--15193225 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
15193130 AAAAATTTCT
* * * *
15193140 AAAAATTTTAAAAT-TTTCTTAAAATTTCTTACAATTTTTAA
1 AAAAATTATAAAATATTT-TTAAAA-TTATTAAAATTTATAA
*
15193181 AAAAATTATAAAATATTTTTCAAATTATTAAAATTTATAA
1 AAAAATTATAAAATATTTTTAAAATTATTAAAATTTATAA
15193221 AAAAA
1 AAAAA
15193226 ATTTTAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 18 0.46
41 18 0.46
42 3 0.08
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (40 bp):
AAAAATTATAAAATATTTTTAAAATTATTAAAATTTATAA
Found at i:15193226 original size:41 final size:41
Alignment explanation
Indices: 15193140--15193233 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
15193130 AAAAATTTCT
* * *
15193140 AAAAATTTTAAAATTTTCTTAAAATTTCTTACAATTTTTAA
1 AAAAATTTTAAAATTTTCTTAAAATTTATTAAAATTTTAAA
* *
15193181 AAAAATTATAAAATATTT-TTCAAA-TTATTAAAATTTATAAA
1 AAAAATTTTAAAAT-TTTCTTAAAATTTATTAAAATTT-TAAA
15193222 AAAAATTTTAAA
1 AAAAATTTTAAA
15193234 TTAAAAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 10 0.22
41 32 0.71
42 3 0.07
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (41 bp):
AAAAATTTTAAAATTTTCTTAAAATTTATTAAAATTTTAAA
Found at i:15193338 original size:10 final size:10
Alignment explanation
Indices: 15193325--15193453 Score: 64
Period size: 10 Copynumber: 12.4 Consensus size: 10
15193315 AAACTTCAAA
15193325 AAAAAAATTT
1 AAAAAAATTT
*
15193335 -AAAAAACTT
1 AAAAAAATTT
*
15193344 AAAAAGATTT
1 AAAAAAATTT
15193354 CAAAAAATATTT
1 -AAAAAA-ATTT
*
15193366 -GAAAAATTAT
1 AAAAAAATT-T
**
15193376 AAAACATTTTT
1 AAAA-AAATTT
**
15193387 AAAAATTTTCT
1 AAAAAAATT-T
*
15193398 AAAAATATTT
1 AAAAAAATTT
*
15193408 CAAAAAATTTT
1 -AAAAAAATTT
* * *
15193419 AAGAAGATACT
1 AAAAAAAT-TT
*
15193430 AAAAAATTTT
1 AAAAAAATTT
15193440 AAAAAAATTT
1 AAAAAAATTT
15193450 AAAA
1 AAAA
15193454 TTTTTTAAAT
Statistics
Matches: 90, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
9 11 0.12
10 37 0.41
11 35 0.39
12 7 0.08
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:15193370 original size:11 final size:10
Alignment explanation
Indices: 15193356--15193492 Score: 71
Period size: 10 Copynumber: 13.3 Consensus size: 10
15193346 AAAGATTTCA
*
15193356 AAAAATATTTG
1 AAAAAT-TTTT
*
15193367 AAAAA-TTAT
1 AAAAATTTTT
15193376 AAAACATTTTT
1 AAAA-ATTTTT
15193387 AAAAATTTTCT
1 AAAAATTTT-T
*
15193398 AAAAATATTTC
1 AAAAAT-TTTT
*
15193409 AAAAAATTTT
1 AAAAATTTTT
**
15193419 AAGAAGA-TACT
1 AA-AA-ATTTTT
*
15193430 AAAAAATTTT
1 AAAAATTTTT
**
15193440 AAAAAAATTT
1 AAAAATTTTT
*
15193450 AAAATTTTTT
1 AAAAATTTTT
* **
15193460 AAATATTTAA
1 AAAAATTTTT
15193470 AAAAATTTTT
1 AAAAATTTTT
* *
15193480 TAAAATTTCT
1 AAAAATTTTT
15193490 AAA
1 AAA
15193493 TTTATAAAAT
Statistics
Matches: 95, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
9 7 0.07
10 54 0.57
11 30 0.32
12 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (10 bp):
AAAAATTTTT
Found at i:15193371 original size:31 final size:31
Alignment explanation
Indices: 15193324--15193384 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
15193314 AAAACTTCAA
*
15193324 AAAAAAAATTTAAAAAACTTA-AAAAGATTTC
1 AAAAAAAATTTAAAAAA-TTATAAAACATTTC
* *
15193355 AAAAAATATTTGAAAAATTATAAAACATTT
1 AAAAAAAATTTAAAAAATTATAAAACATTT
15193385 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (31 bp):
AAAAAAAATTTAAAAAATTATAAAACATTTC
Found at i:15193455 original size:18 final size:18
Alignment explanation
Indices: 15193432--15193471 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15193422 AAGATACTAA
15193432 AAAATTTTAAAAAAATTT
1 AAAATTTTAAAAAAATTT
** *
15193450 AAAATTTTTTAAATATTT
1 AAAATTTTAAAAAAATTT
15193468 AAAA
1 AAAA
15193472 AAATTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTTAAAAAAATTT
Found at i:15193473 original size:20 final size:19
Alignment explanation
Indices: 15193429--15193487 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 19
15193419 AAGAAGATAC
**
15193429 TAAAAAATTTTAAAAAAATT
1 TAAAAAATTTT-TTAAAATT
15193449 T--AAAATTTTTTAAATATT
1 TAAAAAATTTTTTAAA-ATT
15193467 TAAAAAAATTTTTTAAAATT
1 T-AAAAAATTTTTTAAAATT
15193487 T
1 T
15193488 CTAAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 3 0.09
18 12 0.36
20 5 0.15
21 13 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAAAAATTTTTTAAAATT
Found at i:15193630 original size:16 final size:16
Alignment explanation
Indices: 15193602--15193651 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
15193592 ACAATCCAAG
15193602 AAAAATAAA-TTTATA
1 AAAAATAAATTTTATA
* *
15193617 GAAATTAAATTTTATA
1 AAAAATAAATTTTATA
15193633 AAAAATAAATTTCTATA
1 AAAAATAAATTT-TATA
15193650 AA
1 AA
15193652 TTTGAAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 7 0.24
16 16 0.55
17 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
AAAAATAAATTTTATA
Found at i:15193746 original size:10 final size:9
Alignment explanation
Indices: 15193742--15194161 Score: 55
Period size: 10 Copynumber: 43.4 Consensus size: 9
15193732 GTTTTAGAAT
*
15193742 TTTTTTATA
1 TTTTTTAAA
15193751 TTTTTTAAAA
1 TTTTTT-AAA
15193761 TTTTTTGAAA
1 TTTTTT-AAA
15193771 GTTTTTTGAAA
1 -TTTTTT-AAA
*
15193782 -ATTTTAAA
1 TTTTTTAAA
*
15193790 TTTATTCATAA
1 TTT-TTTA-AA
*
15193801 TTTTTCAAA
1 TTTTTTAAA
15193810 TTTTTTTTAAA
1 --TTTTTTAAA
* *
15193821 ATGTTTAAA
1 TTTTTTAAA
*
15193830 TAATTTTAAA
1 T-TTTTTAAA
** **
15193840 AGTTAAAAA
1 TTTTTTAAA
* **
15193849 GTTTTTAGC
1 TTTTTTAAA
*
15193858 TTTTTAAAAA
1 TTTTT-TAAA
*
15193868 ATTTTTAGAA
1 TTTTTTA-AA
15193878 TTTTTTAGAA
1 TTTTTTA-AA
15193888 --TTTTAGAA
1 TTTTTTA-AA
*
15193896 -TTTTTAATT
1 TTTTTTAA-A
*
15193905 TTTTTTGAA
1 TTTTTTAAA
*
15193914 GTTTTT-AA
1 TTTTTTAAA
*
15193922 TTTTTAAAAA
1 TTTTT-TAAA
15193932 TTATTTTAGAA
1 TT-TTTTA-AA
*
15193943 -TTTTAAGAA
1 TTTTTTA-AA
*
15193952 TTTTTTGAA
1 TTTTTTAAA
**
15193961 TTTTAAAAA
1 TTTTTTAAA
* *
15193970 ATTATTAGAA
1 TTTTTTA-AA
**
15193980 TTTTAAAAA
1 TTTTTTAAA
15193989 TTTTTTGAAAA
1 TTTTTT--AAA
*
15194000 TTTTTTAGATT
1 TTTTTTA-A-A
15194011 TTTATTTGAAAA
1 TTT-TTT--AAA
15194023 TTTTATT--A
1 TTTT-TTAAA
*
15194031 TTTTTTGAA
1 TTTTTTAAA
*
15194040 TTTTATAGAAA
1 TTTT-T-TAAA
**
15194051 AATTTTAAA
1 TTTTTTAAA
*
15194060 TTAGTTTAAA
1 TT-TTTTAAA
*
15194070 ATTTTTAGAA
1 TTTTTTA-AA
*
15194080 TTTTTTGAA
1 TTTTTTAAA
* *
15194089 GTTTTGAGAA
1 TTTTTTA-AA
**
15194099 TTTTAAAGAA
1 TTTTTTA-AA
*
15194109 TTTTTTATAG
1 TTTTTTA-AA
*
15194119 TTTCTTATAA
1 TTTTTTA-AA
*
15194129 TTTTTAAAA
1 TTTTTTAAA
*
15194138 TTTTTAAAGA
1 TTTTTTAA-A
15194148 TTTTTTATAA
1 TTTTTTA-AA
15194158 TTTT
1 TTTT
15194162 CTATGGATTT
Statistics
Matches: 295, Mismatches: 80, Indels: 71
0.66 0.18 0.16
Matches are distributed among these distances:
7 2 0.01
8 23 0.08
9 96 0.33
10 118 0.40
11 46 0.16
12 8 0.03
13 1 0.00
14 1 0.00
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:15193764 original size:9 final size:9
Alignment explanation
Indices: 15193752--15194152 Score: 56
Period size: 9 Copynumber: 42.6 Consensus size: 9
15193742 TTTTTTATAT
15193752 TTTTTAAAA
1 TTTTTAAAA
*
15193761 TTTTTTGAAAGT
1 -TTTTT-AAA-A
15193773 TTTTTGAAAA
1 TTTTT-AAAA
15193783 -TTTT-AAA
1 TTTTTAAAA
*
15193790 TTTATTCATAA
1 TTT-TT-AAAA
*
15193801 TTTTTCAAATT
1 TTTTT-AAA-A
15193812 TTTTTTAAAA
1 T-TTTTAAAA
*
15193822 TGTTTAAATA
1 TTTTTAAA-A
*
15193832 ATTTTAAAA
1 TTTTTAAAA
* *
15193841 -GTTAAAAA
1 TTTTTAAAA
**
15193849 GTTTTT-AGC
1 -TTTTTAAAA
15193858 TTTTTAAAAAA
1 TTTTT-A-AAA
*
15193869 TTTTTAGAAT
1 TTTTTA-AAA
*
15193879 TTTTTAGAA
1 TTTTTAAAA
*
15193888 -TTTTAGAA
1 TTTTTAAAA
**
15193896 TTTTTAATTT
1 TTTTTAA-AA
* *
15193906 TTTTTGAAG
1 TTTTTAAAA
15193915 TTTTT--AA
1 TTTTTAAAA
15193922 TTTTTAAAAA
1 TTTTT-AAAA
*
15193932 TTATTTTAGAA
1 -T-TTTTAAAA
15193943 -TTTTAAGAA
1 TTTTTAA-AA
**
15193952 TTTTTTGAA
1 TTTTTAAAA
*
15193961 TTTTAAAAAA
1 TTTT-TAAAA
* *
15193971 TTATTAGAA
1 TTTTTAAAA
*
15193980 TTTTAAAAA
1 TTTTTAAAA
15193989 TTTTTTGAAAA
1 -TTTTT-AAAA
* *
15194000 TTTTTTAGA
1 TTTTTAAAA
15194009 TTTTT---A
1 TTTTTAAAA
*
15194015 -TTTGAAAA
1 TTTTTAAAA
**
15194023 -TTTTATTA
1 TTTTTAAAA
**
15194031 TTTTTTGAA
1 TTTTTAAAA
15194040 TTTTATAGAAAA
1 TTTT-T--AAAA
*
15194052 ATTTT-AAA
1 TTTTTAAAA
15194060 TTAGTTTAAAA
1 TT--TTTAAAA
*
15194071 TTTTTAGAAT
1 TTTTTA-AAA
* *
15194081 TTTTTGAAG
1 TTTTTAAAA
* *
15194090 TTTTGAGAA
1 TTTTTAAAA
*
15194099 TTTTAAAGAA
1 TTTTTAA-AA
* *
15194109 TTTTTTATAG
1 -TTTTTAAAA
*
15194119 TTTCTTATAA
1 TTT-TTAAAA
15194129 TTTTTAAAA
1 TTTTTAAAA
15194138 TTTTTAAAGA
1 TTTTTAAA-A
15194148 TTTTT
1 TTTTT
15194153 TATAATTTTC
Statistics
Matches: 281, Mismatches: 69, Indels: 82
0.65 0.16 0.19
Matches are distributed among these distances:
5 3 0.01
6 1 0.00
7 9 0.03
8 36 0.13
9 90 0.32
10 83 0.30
11 46 0.16
12 13 0.05
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:15193775 original size:19 final size:19
Alignment explanation
Indices: 15193720--15193775 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
15193710 AAATTTCTAG
*
15193720 AATTTTCTTG-AAGTTTTAG
1 AATTTT-TTGAAAGTTTTAA
* **
15193739 AATTTTTTTATATTTTTTAA
1 AATTTTTTGA-AAGTTTTAA
15193759 AATTTTTTGAAAGTTTT
1 AATTTTTTGAAAGTTTT
15193776 TTGAAAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
18 2 0.07
19 11 0.39
20 15 0.54
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.61
Consensus pattern (19 bp):
AATTTTTTGAAAGTTTTAA
Found at i:15193776 original size:12 final size:11
Alignment explanation
Indices: 15193750--15193786 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
15193740 ATTTTTTTAT
15193750 ATTTTTT-AAA
1 ATTTTTTGAAA
15193760 ATTTTTTGAAA
1 ATTTTTTGAAA
*
15193771 GTTTTTTGAAA
1 ATTTTTTGAAA
15193782 ATTTT
1 ATTTT
15193787 AAATTTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (11 bp):
ATTTTTTGAAA
Found at i:15193787 original size:39 final size:39
Alignment explanation
Indices: 15193744--15193830 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
15193734 TTTAGAATTT
* * *
15193744 TTTTATATTT-TTTAAAATTTTTTGAAAGTTTTTTGAAAA
1 TTTTAAATTTATTCAAAA-TTTTTCAAAGTTTTTTGAAAA
* * *
15193783 TTTTAAATTTATTCATAATTTTTCAAATTTTTTTTAAAA
1 TTTTAAATTTATTCAAAATTTTTCAAAGTTTTTTGAAAA
15193822 TGTTTAAAT
1 T-TTTAAAT
15193831 AATTTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 28 0.70
40 12 0.30
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (39 bp):
TTTTAAATTTATTCAAAATTTTTCAAAGTTTTTTGAAAA
Found at i:15193881 original size:19 final size:19
Alignment explanation
Indices: 15193842--15193899 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
15193832 ATTTTAAAAG
* **
15193842 TTAAAAAGTTTTTAGCTTT
1 TTAAAAAATTTTTAGAATT
15193861 TTAAAAAATTTTTAGAATT
1 TTAAAAAATTTTTAGAATT
** *
15193880 TTTTAGAA-TTTTAGAATT
1 TTAAAAAATTTTTAGAATT
15193898 TT
1 TT
15193900 TAATTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 12 0.36
19 21 0.64
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (19 bp):
TTAAAAAATTTTTAGAATT
Found at i:15193891 original size:18 final size:19
Alignment explanation
Indices: 15193867--15193994 Score: 104
Period size: 19 Copynumber: 6.9 Consensus size: 19
15193857 CTTTTTAAAA
*
15193867 AATTTTTAGAATTTTTTAG
1 AATTTTAAGAATTTTTTAG
15193886 AATTTT-AGAA-TTTTTA-
1 AATTTTAAGAATTTTTTAG
* ** *
15193902 ATTTTTTTTGAAGTTTTTA-
1 A-ATTTTAAGAATTTTTTAG
* *
15193921 ATTTTTAAAAATTATTTTAG
1 AATTTTAAGAATT-TTTTAG
15193941 AATTTTAAGAATTTTTT-G
1 AATTTTAAGAATTTTTTAG
* * *
15193959 AATTTTAAAAAATTATTAG
1 AATTTTAAGAATTTTTTAG
*
15193978 AATTTTAAAAATTTTTT
1 AATTTTAAGAATTTTTT
15193995 GAAAATTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
16 1 0.01
17 10 0.11
18 30 0.33
19 38 0.42
20 11 0.12
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
AATTTTAAGAATTTTTTAG
Found at i:15193978 original size:37 final size:38
Alignment explanation
Indices: 15193915--15193997 Score: 125
Period size: 37 Copynumber: 2.2 Consensus size: 38
15193905 TTTTTTGAAG
* *
15193915 TTTTT-AATTTTTAAAAATTATTTTAGAATTTTAAGAAT
1 TTTTTGAATTTTAAAAAATTA-TTTAGAATTTTAAAAAT
15193953 TTTTTGAATTTTAAAAAATTA-TTAGAATTTTAAAAAT
1 TTTTTGAATTTTAAAAAATTATTTAGAATTTTAAAAAT
15193990 TTTTTGAA
1 TTTTTGAA
15193998 AATTTTTTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
37 23 0.55
38 5 0.12
39 14 0.33
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (38 bp):
TTTTTGAATTTTAAAAAATTATTTAGAATTTTAAAAAT
Found at i:15194033 original size:22 final size:22
Alignment explanation
Indices: 15193992--15194036 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15193982 TTAAAAATTT
15193992 TTTGAAAATTTTTTAGATTTTTA
1 TTTGAAAATTTTTTA-ATTTTTA
*
15194015 TTTGAAAATTTTATTATTTTTT
1 TTTGAAAATTTT-TTAATTTTT
15194037 GAATTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTGAAAATTTTTTAATTTTTA
Found at i:15194139 original size:29 final size:27
Alignment explanation
Indices: 15194064--15194161 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 27
15194054 TTTAAATTAG
* *
15194064 TTTAAAATTTTTAGAATTTTTTGAAGTT
1 TTTATAATTTTTAAAATTTTTT-AAGTT
* * *
15194092 TTGAGAATTTTAAAGAATTTTTTATAGTT
1 TTTATAATTTTTAA-AATTTTTTA-AGTT
*
15194121 TCTTATAATTTTTAAAATTTTTAAAGATTT
1 T-TTATAATTTTTAAAATTTTTTAAG--TT
15194151 TTTATAATTTT
1 TTTATAATTTT
15194162 CTATGGATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
28 13 0.23
29 31 0.54
30 13 0.23
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (27 bp):
TTTATAATTTTTAAAATTTTTTAAGTT
Found at i:15194150 original size:19 final size:19
Alignment explanation
Indices: 15194064--15194152 Score: 51
Period size: 19 Copynumber: 4.7 Consensus size: 19
15194054 TTTAAATTAG
*
15194064 TTTAAA-ATTTTTAGAATTT
1 TTTAAAGATTTTTA-AAATT
* * *
15194083 TTTGAAG-TTTTGAGAA-T
1 TTTAAAGATTTTTAAAATT
* *
15194100 TTTAAAGAATTTTTTATAGTT
1 TTTAAAG-A-TTTTTAAAATT
*
15194121 TCTTATA-ATTTTTAAAATT
1 T-TTAAAGATTTTTAAAATT
15194140 TTTAAAGATTTTT
1 TTTAAAGATTTTT
15194153 TATAATTTTC
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
17 7 0.14
18 5 0.10
19 26 0.51
20 7 0.14
21 2 0.04
22 4 0.08
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (19 bp):
TTTAAAGATTTTTAAAATT
Found at i:15194161 original size:9 final size:9
Alignment explanation
Indices: 15194110--15194161 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
15194100 TTTAAAGAAT
*
15194110 TTTTTATAG
1 TTTTTATAA
15194119 TTTCTTATAA
1 TTT-TTATAA
*
15194129 TTTTTAAAA
1 TTTTTATAA
*
15194138 TTTTTAAAGA
1 TTTTTATA-A
15194148 TTTTTTATAA
1 -TTTTTATAA
15194158 TTTT
1 TTTT
15194162 CTATGGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 20 0.54
10 10 0.27
11 7 0.19
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15194170 original size:21 final size:20
Alignment explanation
Indices: 15194099--15194176 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
15194089 GTTTTGAGAA
* *
15194099 TTTTAAAGAATTTTTTATAGT
1 TTTTAAAG-ATTTTTTAAAAT
*
15194120 TTCTTATA-A-TTTTTAAAAT
1 TT-TTAAAGATTTTTTAAAAT
*
15194139 TTTTAAAGATTTTTTATAAT
1 TTTTAAAGATTTTTTAAAAT
**
15194159 TTTCTATGGATTTTTTAA
1 TTT-TAAAGATTTTTTAA
15194177 TGTAATGTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.09
19 11 0.24
20 13 0.29
21 13 0.29
22 4 0.09
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTTAAAGATTTTTTAAAAT
Found at i:15194652 original size:9 final size:9
Alignment explanation
Indices: 15194624--15194761 Score: 66
Period size: 9 Copynumber: 14.8 Consensus size: 9
15194614 ATAATAGAAG
*
15194624 AAAATTTAA
1 AAAAATTAA
*
15194633 AAAAACCTAA
1 AAAAA-TTAA
*
15194643 AAAGATTAA
1 AAAAATTAA
15194652 AAAAATTAA
1 AAAAATTAA
*
15194661 AAAAATCCAA
1 AAAAAT-TAA
*
15194671 AAAAAGTATTA
1 AAAAA-T-TAA
*
15194682 TAAAATTAA
1 AAAAATTAA
15194691 AAAAATT-A
1 AAAAATTAA
*
15194699 GAAAATATAA
1 AAAAAT-TAA
*
15194709 AAAATTTTAA
1 AAAA-ATTAA
* *
15194719 AGATATT-A
1 AAAAATTAA
*
15194727 AAAATTTCCAA
1 AAAAATT--AA
*
15194738 AAAAA-TAG
1 AAAAATTAA
15194746 AAAAATTAA
1 AAAAATTAA
*
15194755 AACAATT
1 AAAAATT
15194762 CCCAAAAATT
Statistics
Matches: 94, Mismatches: 25, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
8 17 0.18
9 40 0.43
10 25 0.27
11 12 0.13
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.25
Consensus pattern (9 bp):
AAAAATTAA
Found at i:15194675 original size:30 final size:29
Alignment explanation
Indices: 15194624--15194696 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
15194614 ATAATAGAAG
* *
15194624 AAAATTTAAAAAAA-CCTAAAAAG-ATTAA
1 AAAAATTAAAAAAATCCAAAAAAGTATT-A
15194652 AAAAATTAAAAAAATCCAAAAAAAGTATTA
1 AAAAATTAAAAAAATCC-AAAAAAGTATTA
*
15194682 TAAAATTAAAAAAAT
1 AAAAATTAAAAAAAT
15194697 TAGAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 13 0.33
29 2 0.05
30 21 0.54
31 3 0.08
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (29 bp):
AAAAATTAAAAAAATCCAAAAAAGTATTA
Found at i:15194698 original size:17 final size:18
Alignment explanation
Indices: 15194678--15194712 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15194668 CAAAAAAAGT
*
15194678 ATTATAAAAT-TAAAAAA
1 ATTAGAAAATATAAAAAA
15194695 ATTAGAAAATATAAAAAA
1 ATTAGAAAATATAAAAAA
15194713 TTTTAAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
ATTAGAAAATATAAAAAA
Found at i:15195120 original size:9 final size:9
Alignment explanation
Indices: 15195106--15195197 Score: 69
Period size: 10 Copynumber: 9.8 Consensus size: 9
15195096 TTACTTCAAC
15195106 AAAAATTTA
1 AAAAATTTA
*
15195115 AAAAATTTCC
1 AAAAATTT-A
*
15195125 AAAACTTT-
1 AAAAATTTA
*
15195133 AAAAATTCA
1 AAAAATTTA
15195142 AAAAATTTTA
1 AAAAA-TTTA
*
15195152 AAAAATTCCA
1 AAAAATT-TA
*
15195162 AAAATTTTA
1 AAAAATTTA
*
15195171 AAACATTCTA
1 AAAAATT-TA
*
15195181 AAAAATTAA
1 AAAAATTTA
15195190 ATAAAATT
1 A-AAAATT
15195198 AGAAATCGAG
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
8 6 0.09
9 23 0.35
10 36 0.55
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTTA
Found at i:15195127 original size:19 final size:19
Alignment explanation
Indices: 15195105--15195184 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
15195095 CTTACTTCAA
15195105 CAAAAA-TTTAAAAAATTTC
1 CAAAAATTTTAAAAAA-TTC
*
15195124 C-AAAACTTT-AAAAATTC
1 CAAAAATTTTAAAAAATTC
*
15195141 AAAAAATTTTAAAAAATTC
1 CAAAAATTTTAAAAAATTC
*
15195160 CAAAAATTTTAAAACATTC
1 CAAAAATTTTAAAAAATTC
*
15195179 TAAAAA
1 CAAAAA
15195185 ATTAAATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
17 3 0.06
18 16 0.30
19 34 0.64
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (19 bp):
CAAAAATTTTAAAAAATTC
Found at i:15195182 original size:10 final size:9
Alignment explanation
Indices: 15195106--15195184 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
15195096 TTACTTCAAC
15195106 AAAAATT-T
1 AAAAATTCT
*
15195114 AAAAAATTTCC
1 -AAAAA-TTCT
*
15195125 AAAACTT-T
1 AAAAATTCT
*
15195133 AAAAATTCA
1 AAAAATTCT
*
15195142 AAAAATTTT
1 AAAAATTCT
*
15195151 AAAAAATTCC
1 -AAAAATTCT
*
15195161 AAAAATTTT
1 AAAAATTCT
15195170 AAAACATTCT
1 AAAA-ATTCT
15195180 AAAAA
1 AAAAA
15195185 ATTAAATAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
8 6 0.11
9 26 0.49
10 21 0.40
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTCT
Found at i:15195378 original size:27 final size:27
Alignment explanation
Indices: 15195296--15195387 Score: 64
Period size: 27 Copynumber: 3.4 Consensus size: 27
15195286 TTTTTAGCTT
* * *
15195296 TTTGTTAGA-ATTTTTTATTTTTCA-AT
1 TTTGTTAGATTTTTTTTAATTTT-AGAA
*** *
15195322 TTTGTTAGATGTTTTTTTAA-AAAAGTA
1 TTTGTTAGAT-TTTTTTTAATTTTAGAA
15195349 TTTGTTAGATTTTTTTTAATTTTAGAA
1 TTTGTTAGATTTTTTTTAATTTTAGAA
* *
15195376 TTTTTTGGATTT
1 TTTGTTAGATTT
15195388 GTTAAGCTTT
Statistics
Matches: 49, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
26 19 0.39
27 23 0.47
28 7 0.14
ACGTcount: A:0.25, C:0.01, G:0.12, T:0.62
Consensus pattern (27 bp):
TTTGTTAGATTTTTTTTAATTTTAGAA
Found at i:15200206 original size:12 final size:12
Alignment explanation
Indices: 15200191--15200225 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15200181 ATCATCATTA
*
15200191 TTATCTTTATCT
1 TTATCTTCATCT
15200203 TTATCTTCATCT
1 TTATCTTCATCT
*
15200215 TTATCATCATC
1 TTATCTTCATC
15200226 ATCATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATCTTCATCT
Found at i:15209024 original size:139 final size:141
Alignment explanation
Indices: 15208857--15209130 Score: 364
Period size: 139 Copynumber: 2.0 Consensus size: 141
15208847 ATTTTGATAT
** *
15208857 TATTTCATGAATTTTGATGCATTAAAAACTCTAATTGTA-CTTCAAAAAAGTTGAAATTAC-AAA
1 TATTTCATGAATTTTGATGCATTAAAAACAATAATTGCATCTT-AAAAAAGTTGAAATTACTAAA
*
15208920 AGTATCC-TTTAAAGGTATTTT-GTAATTTGACCTTTCC-AAGGTTG-GTTTTCATGAAAAGCTT
65 A-TA-CCTTTTAAAGGTATTTTCGTAATTTGACC-TTCCTAAGGTCGAGTTTTCATGAAAAGCTT
15208981 TAG-ATCATGTTTTGA
127 T-GTATCATGTTTTGA
* * * *
15208996 TATTTCTTGATTTTTGATGCATTTAAAACAATAATTGCATCTTAAAAAGGTTGAAATTACTAAAA
1 TATTTCATGAATTTTGATGCATTAAAAACAATAATTGCATCTTAAAAAAGTTGAAATTACTAAAA
* *
15209061 TACCTTTTAGAGGTATTTTCGTAATTTGACCTTCCTAAGGTCGATTTTTCATGAAAAGCTTTGTA
66 TACCTTTTAAAGGTATTTTCGTAATTTGACCTTCCTAAGGTCGAGTTTTCATGAAAAGCTTTGTA
15209126 TCATG
131 TCATG
15209131 ATTAAAGATT
Statistics
Matches: 118, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
138 2 0.02
139 68 0.58
140 25 0.21
141 23 0.19
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (141 bp):
TATTTCATGAATTTTGATGCATTAAAAACAATAATTGCATCTTAAAAAAGTTGAAATTACTAAAA
TACCTTTTAAAGGTATTTTCGTAATTTGACCTTCCTAAGGTCGAGTTTTCATGAAAAGCTTTGTA
TCATGTTTTGA
Found at i:15216238 original size:20 final size:19
Alignment explanation
Indices: 15216189--15216318 Score: 118
Period size: 20 Copynumber: 6.5 Consensus size: 19
15216179 TCATGCAACA
* *
15216189 CTAAACCAAACCCCTAAGC
1 CTAAACCAAACCCTTAACC
15216208 CTCAAACCCAAACCCTTAGACC
1 CT-AAA-CCAAACCCTTA-ACC
* *
15216230 CTAAACCAAACTCTCAAACC
1 CTAAACCAAACCCT-TAACC
* *
15216250 CCAAACCAAACCCTTCTACC
1 CTAAACCAAACCCTT-AACC
15216270 CTAAACCAAACCCTTAAGTCC
1 CTAAACCAAACCCTTAA--CC
*
15216291 C-AAACCAAACCATTAACC
1 CTAAACCAAACCCTTAACC
*
15216309 CCAAACCAAA
1 CTAAACCAAA
15216319 ACCAAAACCT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
18 3 0.03
19 11 0.12
20 57 0.62
21 17 0.18
22 4 0.04
ACGTcount: A:0.42, C:0.42, G:0.02, T:0.13
Consensus pattern (19 bp):
CTAAACCAAACCCTTAACC
Found at i:15216321 original size:40 final size:38
Alignment explanation
Indices: 15216189--15216318 Score: 143
Period size: 40 Copynumber: 3.3 Consensus size: 38
15216179 TCATGCAACA
*
15216189 CTAAACCAAACCCCTAAGCCTCAAACCCAAACCCTTAGACC
1 CTAAACCAAACCCTTAAGCC-CAAA-CCAAACCCTTA-ACC
* * * *
15216230 CTAAACCAAACTCTCAAACCCCAAACCAAACCCTTCTACC
1 CTAAACCAAACCCT-TAAGCCCAAACCAAACCCTT-AACC
*
15216270 CTAAACCAAACCCTTAAGTCCCAAACCAAACCATTAACC
1 CTAAACCAAACCCTTAAG-CCCAAACCAAACCCTTAACC
*
15216309 CCAAACCAAA
1 CTAAACCAAA
15216319 ACCAAAACCT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
39 14 0.19
40 41 0.55
41 16 0.21
42 4 0.05
ACGTcount: A:0.42, C:0.42, G:0.02, T:0.13
Consensus pattern (38 bp):
CTAAACCAAACCCTTAAGCCCAAACCAAACCCTTAACC
Found at i:15220264 original size:14 final size:14
Alignment explanation
Indices: 15220190--15220280 Score: 54
Period size: 13 Copynumber: 7.0 Consensus size: 14
15220180 TGACACATTT
15220190 ACCTAAACCCT-AA
1 ACCTAAACCCTAAA
*
15220203 ACC-AAACCTTAAA
1 ACCTAAACCCTAAA
*
15220216 ACCT-AACCC-AAG
1 ACCTAAACCCTAAA
* *
15220228 TCCCAAA-CC--AA
1 ACCTAAACCCTAAA
15220239 ACCTAAACCCTAAA
1 ACCTAAACCCTAAA
*
15220253 ACTCTAAA-CCTAAC
1 AC-CTAAACCCTAAA
* *
15220267 ACTTAGACCCTAAA
1 ACCTAAACCCTAAA
15220281 CCAAACATTT
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
11 6 0.10
12 14 0.24
13 17 0.29
14 16 0.28
15 5 0.09
ACGTcount: A:0.46, C:0.36, G:0.02, T:0.15
Consensus pattern (14 bp):
ACCTAAACCCTAAA
Found at i:15220281 original size:20 final size:20
Alignment explanation
Indices: 15220193--15220359 Score: 107
Period size: 20 Copynumber: 8.5 Consensus size: 20
15220183 CACATTTACC
15220193 TAAACCCTAAACCAAAC-CT
1 TAAACCCTAAACCAAACACT
* * *
15220212 TAAAACCTAACCCAAGTC-C-
1 TAAACCCTAAACCAA-ACACT
* *
15220231 CAAA-CC-AAACCTAAACCCT
1 TAAACCCTAAACC-AAACACT
* * *
15220250 AAAACTCTAAACCTAACACT
1 TAAACCCTAAACCAAACACT
* *
15220270 TAGACCCTAAACCAAACATT
1 TAAACCCTAAACCAAACACT
15220290 TAAACCCTAAACCAAAC-CT
1 TAAACCCTAAACCAAACACT
* * *
15220309 TCAAACCTTAAACTAGAC-CTT
1 T-AAACCCTAAACCAAACAC-T
*
15220330 TAAACCTTAAACCAAATC-CT
1 TAAACCCTAAACCAAA-CACT
15220350 TAAACCCTAA
1 TAAACCCTAA
15220360 GCAAACCCTA
Statistics
Matches: 116, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
17 5 0.04
18 5 0.04
19 21 0.18
20 76 0.66
21 9 0.08
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.19
Consensus pattern (20 bp):
TAAACCCTAAACCAAACACT
Found at i:15220321 original size:40 final size:39
Alignment explanation
Indices: 15220251--15220359 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 39
15220241 CTAAACCCTA
* * *
15220251 AAACTCTAAACCTAACACTTAGACCCTAAACCAAACATTT
1 AAACCCTAAACCAAAC-CTTAAACCCTAAACCAAACATTT
* * * *
15220291 AAACCCTAAACCAAACCTTCAAACCTTAAACTAGACCTTT
1 AAACCCTAAACCAAACCTT-AAACCCTAAACCAAACATTT
*
15220331 AAACCTTAAACCAAATCCTTAAACCCTAA
1 AAACCCTAAACCAAA-CCTTAAACCCTAA
15220360 GCAAACCCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
39 3 0.05
40 51 0.88
41 4 0.07
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (39 bp):
AAACCCTAAACCAAACCTTAAACCCTAAACCAAACATTT
Found at i:15227453 original size:17 final size:16
Alignment explanation
Indices: 15227362--15227453 Score: 51
Period size: 16 Copynumber: 5.5 Consensus size: 16
15227352 AAATCCACTC
15227362 AAAGAAAAGGAAA-AA
1 AAAGAAAAGGAAAGAA
* *
15227377 AAATAAAACGGAAATAA
1 AAAGAAAA-GGAAAGAA
* * **
15227394 TGAAAGAATATGAAAAGGG
1 --AAAGAA-AAGGAAAGAA
*
15227413 AAAGAAAATGAAAGAA
1 AAAGAAAAGGAAAGAA
*
15227429 AAATAAAAGGACAAGAA
1 AAAGAAAAGGA-AAGAA
*
15227446 CAAGAAAA
1 AAAGAAAA
15227454 TGAATTACTA
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
15 7 0.13
16 19 0.35
17 19 0.35
19 9 0.16
20 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.08
Consensus pattern (16 bp):
AAAGAAAAGGAAAGAA
Found at i:15229916 original size:30 final size:29
Alignment explanation
Indices: 15229856--15230152 Score: 87
Period size: 31 Copynumber: 9.7 Consensus size: 29
15229846 CATTGAGTAT
* * * *
15229856 TAAGCCTAGTTTAGCTATCATCGATAAGAA
1 TAAGCCTAGTTTAACTAGCA-CAATGAGAA
15229886 TAAGCCTAGTTTAACTAGCACAAATGAGAA
1 TAAGCCTAGTTTAACTAGCAC-AATGAGAA
* * *
15229916 TTAAACCTAATTCAACTAGCACCAATGAGAA
1 -TAAGCCTAGTTTAACTAGCA-CAATGAGAA
* * * *
15229947 TGAAGTC-AGTTTAGCTGGCACTAATGAAAA
1 T-AAGCCTAGTTTAACTAGCAC-AATGAGAA
* * ** * * * *
15229977 TGAAACCTAGTCTAGTTGGCACCGATAAGAT
1 T-AAGCCTAGTTTAACTAGCA-CAATGAGAA
* * * *
15230008 TCAGCCTAGTTTATCTAGCACCAATGATCAT
1 TAAGCCTAGTTTAACTAGCA-CAATGA-GAA
* ** * *
15230039 TAAGTCTAGTTTATTTGGCAACAATTAGAA
1 TAAGCCTAGTTTAACTAGC-ACAATGAGAA
* * *
15230069 TTAAGTCTGGTTT-A-TATGACACCAATTAGAA
1 -TAAGCCTAGTTTAACTA-G-CA-CAATGAGAA
* * * *
15230100 TTAAGACTAATTTAACTACCACCAATGAGATT
1 -TAAGCCTAGTTTAACTAGCA-CAATGAGA-A
*
15230132 TAAGCCTAATTTAACTAGCAC
1 TAAGCCTAGTTTAACTAGCAC
15230153 TGAGGAGTAT
Statistics
Matches: 202, Mismatches: 49, Indels: 32
0.71 0.17 0.11
Matches are distributed among these distances:
29 3 0.01
30 68 0.34
31 125 0.62
32 4 0.02
33 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (29 bp):
TAAGCCTAGTTTAACTAGCACAATGAGAA
Found at i:15230072 original size:31 final size:31
Alignment explanation
Indices: 15230037--15230113 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
15230027 ACCAATGATC
* *
15230037 ATTAAGTCTAGTTTATTTGGCAACAATTAGA
1 ATTAAGTCTAGTTTATATGACAACAATTAGA
* *
15230068 ATTAAGTCTGGTTTATATGACACCAATTAGA
1 ATTAAGTCTAGTTTATATGACAACAATTAGA
* *
15230099 ATTAAGACTAATTTA
1 ATTAAGTCTAGTTTA
15230114 ACTACCACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (31 bp):
ATTAAGTCTAGTTTATATGACAACAATTAGA
Found at i:15230123 original size:31 final size:31
Alignment explanation
Indices: 15230088--15230148 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
15230078 GTTTATATGA
*
15230088 CACCAATTAGAATTAAGACTAATTTAACTAC
1 CACCAATGAGAATTAAGACTAATTTAACTAC
* *
15230119 CACCAATGAGATTTAAGCCTAATTTAACTA
1 CACCAATGAGAATTAAGACTAATTTAACTA
15230149 GCACTGAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (31 bp):
CACCAATGAGAATTAAGACTAATTTAACTAC
Found at i:15230234 original size:31 final size:30
Alignment explanation
Indices: 15230191--15230280 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
15230181 ACCAAAGAGA
* * *
15230191 TAAA-CCAGTCTAGCTAGCGTCGATGAGAAT
1 TAAATCCAATCTAGCTAGCATCGATAAG-AT
*
15230221 TAAATCCAATCTAGC-AGGCATTGATAAGAT
1 TAAATCCAATCTAGCTA-GCATCGATAAGAT
* * *
15230251 TAAATCCAATATATCTAGCACCGATAAGAT
1 TAAATCCAATCTAGCTAGCATCGATAAGAT
15230281 AAAGCCTAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
30 31 0.63
31 18 0.37
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (30 bp):
TAAATCCAATCTAGCTAGCATCGATAAGAT
Found at i:15230526 original size:122 final size:122
Alignment explanation
Indices: 15230304--15230526 Score: 288
Period size: 122 Copynumber: 1.8 Consensus size: 122
15230294 TTTAGCAGTG
* * * *
15230304 ATGAGAATTAAGTCCAATCTAACTAGCATCAATGATAATTAAGTTAGTCTAGCTAGCATTGATAA
1 ATGAGAATCAAGTCCAATCTAACTAGCATCAATGATAATTAAGCTAATCTAGCTAGCATTAATAA
* * *
15230369 GATTAAGCCCAGTTTATCTGACACTGATGAGAATTAAGCTGAATTCAATTGGTACCA
66 GATTAAGCCCAGTTTAACTGACACTAATAAGAATTAAGCTGAATTCAATTGGTACCA
* * * *
15230426 ATGAGAATCAAGTCCAGTTTAGCTAGCATCAATGATAATTAAGCCTAAT-TAGCT-GATATTAAT
1 ATGAGAATCAAGTCCAATCTAACTAGCATCAATGATAATTAAG-CTAATCTAGCTAG-CATTAAT
* * *
15230489 AAGATTAAGCCTAGTTTAACTGGCACTAATAATAATTA
64 AAGATTAAGCCCAGTTTAACTGACACTAATAAGAATTA
15230527 GGTTTAGTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
121 1 0.01
122 81 0.95
123 3 0.04
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (122 bp):
ATGAGAATCAAGTCCAATCTAACTAGCATCAATGATAATTAAGCTAATCTAGCTAGCATTAATAA
GATTAAGCCCAGTTTAACTGACACTAATAAGAATTAAGCTGAATTCAATTGGTACCA
Found at i:15230552 original size:122 final size:122
Alignment explanation
Indices: 15230304--15230573 Score: 287
Period size: 122 Copynumber: 2.2 Consensus size: 122
15230294 TTTAGCAGTG
* * * * *
15230304 ATGAGAATTAAGTCCAATCTAACTAGCATCAATGATAATTAAGTTAGTCTAGCTAGCATTGATAA
1 ATGAGAATTAAGTCCAATTTAGCTAGCATCAATGATAATTAAGCTAATCTAGCTAGCATTAATAA
* * * * *
15230369 GATTAAGCCCAGTTTATCTGACACTGATGAGAATTAAGCTGAATTCAATTGGTACCA
66 GATTAAGCCCAGTTTAACTGACACTAATAAGAATTAAGCTGAATTCAACTGGCACCA
* * *
15230426 ATGAGAATCAAGTCCAGTTTAGCTAGCATCAATGATAATTAAGCCTAAT-TAGCT-GATATTAAT
1 ATGAGAATTAAGTCCAATTTAGCTAGCATCAATGATAATTAAG-CTAATCTAGCTAG-CATTAAT
* * * * * * * *
15230489 AAGATTAAGCCTAGTTTAACTGGCACTAATAATAATTAGGTTTAGTTTAACTGGCA-CA
64 AAGATTAAGCCCAGTTTAACTGACACTAATAAGAATTAAGCTGAATTCAACTGGCACCA
15230547 TATGAGAATTAAG-CCTAATTTAGCTAG
1 -ATGAGAATTAAGTCC-AATTTAGCTAG
15230574 TACCAATAAG
Statistics
Matches: 121, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
121 5 0.04
122 113 0.93
123 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (122 bp):
ATGAGAATTAAGTCCAATTTAGCTAGCATCAATGATAATTAAGCTAATCTAGCTAGCATTAATAA
GATTAAGCCCAGTTTAACTGACACTAATAAGAATTAAGCTGAATTCAACTGGCACCA
Found at i:15232936 original size:20 final size:20
Alignment explanation
Indices: 15232911--15233227 Score: 176
Period size: 20 Copynumber: 16.6 Consensus size: 20
15232901 CATGCAATAT
*
15232911 TAAACCAAACCCTTAAGCCC
1 TAAACCAAACCCTTAAACCC
* *
15232931 TAAACCCAAACTCTTAGA-CC
1 TAAA-CCAAACCCTTAAACCC
15232951 TCAAACCAAACCCTTAAA-CC
1 T-AAACCAAACCCTTAAACCC
15232971 T-AACC--A---TTAGAACCC
1 TAAACCAAACCCTTA-AACCC
** *
15232986 -AAACCAAACTTTTAAACCT
1 TAAACCAAACCCTTAAACCC
**
15233005 TAAACCAAACCCTTAAGTCC
1 TAAACCAAACCCTTAAACCC
* *
15233025 TAAACTAAACTCTTAAACCC
1 TAAACCAAACCCTTAAACCC
* *
15233045 CAAACCAAA---TTGCAAAACC
1 TAAACCAAACCCTT--AAACCC
* *
15233064 TAATCC-AA---GT---CCC
1 TAAACCAAACCCTTAAACCC
** *
15233077 -AAACCAAACATTTAAACAC
1 TAAACCAAACCCTTAAACCC
* * **
15233096 TAAACCAAACCTTTAAGCTT
1 TAAACCAAACCCTTAAACCC
15233116 TAAACCCAAACCCTTAAACCC
1 TAAA-CCAAACCCTTAAACCC
* *
15233137 CAAA-CAAGACCCTTGAA-CC
1 TAAACCAA-ACCCTTAAACCC
15233156 -AAACCCAAACCCTTAAACCC
1 TAAA-CCAAACCCTTAAACCC
15233176 TAAACCCAAACCCTTAAACCC
1 TAAA-CCAAACCCTTAAACCC
*
15233197 TAAACCAAACCCTTAATCCC
1 TAAACCAAACCCTTAAACCC
15233217 TAAACCAAACC
1 TAAACCAAACC
15233228 AAAACCTTAA
Statistics
Matches: 233, Mismatches: 37, Indels: 54
0.72 0.11 0.17
Matches are distributed among these distances:
12 4 0.02
13 7 0.03
14 2 0.01
15 6 0.03
16 2 0.01
17 3 0.01
18 10 0.04
19 28 0.12
20 119 0.51
21 52 0.22
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAACCAAACCCTTAAACCC
Found at i:15233012 original size:53 final size:54
Alignment explanation
Indices: 15232910--15233020 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 54
15232900 TCATGCAATA
* * *
15232910 TTAAACCAAACCCTTAAGCCCTAAACCCAAACTCTTAGACCTCAAACCAAACCC
1 TTAAACCAAACCATTAAACCCTAAACCCAAACTCTTAAACCTCAAACCAAACCC
* * *
15232964 TTAAACCTAACCATTAGAACCC-AAA-CCAAACTTTTAAACCTTAAACCAAACCC
1 TTAAACCAAACCATTA-AACCCTAAACCCAAACTCTTAAACCTCAAACCAAACCC
15233017 TTAA
1 TTAA
15233021 GTCCTAAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 29 0.58
54 17 0.34
55 4 0.08
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (54 bp):
TTAAACCAAACCATTAAACCCTAAACCCAAACTCTTAAACCTCAAACCAAACCC
Found at i:15233134 original size:14 final size:14
Alignment explanation
Indices: 15233115--15233202 Score: 58
Period size: 14 Copynumber: 5.9 Consensus size: 14
15233105 CCTTTAAGCT
15233115 TTAAACCCAAACCC
1 TTAAACCCAAACCC
15233129 TTAAACCCCAAACAAGACCC
1 TTAAA--CC---CAA-ACCC
*
15233149 TTGAA-CCAAACCC
1 TTAAACCCAAACCC
15233162 --AAACCCTTAAACCC
1 TTAAACCC--AAACCC
15233176 -TAAACCCAAACCC
1 TTAAACCCAAACCC
15233189 TTAAACCCTAAACC
1 TTAAACCC-AAACC
15233203 AAACCCTTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 23
0.71 0.02 0.27
Matches are distributed among these distances:
11 2 0.03
12 2 0.03
13 10 0.17
14 21 0.35
15 11 0.18
16 2 0.03
17 1 0.02
19 3 0.05
20 8 0.13
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.14
Consensus pattern (14 bp):
TTAAACCCAAACCC
Found at i:15233320 original size:25 final size:25
Alignment explanation
Indices: 15233275--15233322 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15233265 AAACCCCCAA
**
15233275 AACCAAACCTAAACTTTTAAACCCT
1 AACCAAACCTAAACTCCTAAACCCT
15233300 AACCAAACCTCAAA-TCCTAAACC
1 AACCAAACCT-AAACTCCTAAACC
15233323 GACCCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (25 bp):
AACCAAACCTAAACTCCTAAACCCT
Found at i:15233512 original size:25 final size:25
Alignment explanation
Indices: 15233467--15233525 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
15233457 TCCCAAATCG
*
15233467 ACCCAAA-CTTTAAACCAAACCCT-A
1 ACCCAAACCTTAAAACCAAA-CCTAA
15233491 ACCCAAACCTTAAAACCAAACCTAA
1 ACCCAAACCTTAAAACCAAACCTAA
*
15233516 ACCCTAACCT
1 ACCCAAACCT
15233526 AAGCCCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 10 0.32
25 21 0.68
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (25 bp):
ACCCAAACCTTAAAACCAAACCTAA
Found at i:15233536 original size:19 final size:19
Alignment explanation
Indices: 15233514--15233565 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
15233504 AACCAAACCT
*
15233514 AAACCCTAACCTAAGCCCA
1 AAACCCTAACCTAAACCCA
* *
15233533 AAACCCTAAACTAAACCCT
1 AAACCCTAACCTAAACCCA
*
15233552 AAA-CCTAACTTAAA
1 AAACCCTAACCTAAA
15233566 TTGAATCTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.48, C:0.35, G:0.02, T:0.15
Consensus pattern (19 bp):
AAACCCTAACCTAAACCCA
Found at i:15233547 original size:31 final size:31
Alignment explanation
Indices: 15233477--15233559 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 31
15233467 ACCCAAACTT
* * *
15233477 TAAACCAAACCCTAACCCAAACCTTAAAACC
1 TAAACTAAACCCTAACCTAAACCTCAAAACC
*
15233508 -AAACCTAAACCCTAACCTAAGCC-CAAAACCC
1 TAAA-CTAAACCCTAACCTAAACCTCAAAA-CC
15233539 TAAACTAAACCCTAAACCTAA
1 TAAACTAAACCCT-AACCTAA
15233560 CTTAAATTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
30 7 0.16
31 27 0.61
32 10 0.23
ACGTcount: A:0.48, C:0.37, G:0.01, T:0.13
Consensus pattern (31 bp):
TAAACTAAACCCTAACCTAAACCTCAAAACC
Found at i:15233596 original size:18 final size:17
Alignment explanation
Indices: 15233575--15233621 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
15233565 ATTGAATCTC
*
15233575 AAACCTAAACCAAACCTT
1 AAACCT-AACCAAACCCT
15233593 AAACCCTAACCAAACCCT
1 AAA-CCTAACCAAACCCT
15233611 AAACCTTAACC
1 AAACC-TAACC
15233622 TAAGTCCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 21 0.81
19 3 0.12
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (17 bp):
AAACCTAACCAAACCCT
Found at i:15233636 original size:18 final size:19
Alignment explanation
Indices: 15233608--15233656 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
15233598 CTAACCAAAC
15233608 CCTAAACCTTAACCTAAGT
1 CCTAAACCTTAACCTAAGT
*
15233627 CCTAAA-CTTAACCTAGGT
1 CCTAAACCTTAACCTAAGT
*
15233645 CCCAAACCTTAA
1 CCTAAACCTTAA
15233657 ACCAAACCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.37, C:0.33, G:0.06, T:0.24
Consensus pattern (19 bp):
CCTAAACCTTAACCTAAGT
Found at i:15233663 original size:12 final size:12
Alignment explanation
Indices: 15233646--15233671 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15233636 AACCTAGGTC
15233646 CCAAACCTTAAA
1 CCAAACCTTAAA
15233658 CCAAACCTTAAA
1 CCAAACCTTAAA
15233670 CC
1 CC
15233672 TTAAAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (12 bp):
CCAAACCTTAAA
Found at i:15236148 original size:20 final size:19
Alignment explanation
Indices: 15236119--15236160 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15236109 GAATTAAATA
*
15236119 ATATATTTTTATTGATTTTT
1 ATATAATTTT-TTGATTTTT
*
15236139 ATATAATTTTTTTATTTTT
1 ATATAATTTTTTGATTTTT
15236158 ATA
1 ATA
15236161 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
ATATAATTTTTTGATTTTT
Found at i:15236217 original size:5 final size:5
Alignment explanation
Indices: 15236207--15236278 Score: 53
Period size: 5 Copynumber: 14.4 Consensus size: 5
15236197 AATATATTAA
* *
15236207 AAATT AAATT AAAAT AATATAT AAAATT AAATT AAACT AAATTT AAA--
1 AAATT AAATT AAATT AA-AT-T -AAATT AAATT AAATT AAA-TT AAATT
*
15236254 AAATT -AA-T GAATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AA
15236279 TAAAATTCGA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
3 4 0.07
4 4 0.07
5 35 0.65
6 6 0.11
7 3 0.06
8 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (5 bp):
AAATT
Found at i:15236232 original size:23 final size:24
Alignment explanation
Indices: 15236195--15236260 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
15236185 TAAATTTATT
15236195 TAAATATATTAAAAATTAAATTAAAA
1 TAAATATA-T-AAAATTAAATTAAAA
*
15236221 T-AATATATAAAATTAAATTAAAC
1 TAAATATATAAAATTAAATTAAAA
* *
15236244 TAAATTTAAAAAATTAA
1 TAAATATATAAAATTAA
15236261 TGAATTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 15 0.42
24 14 0.39
25 6 0.17
26 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAATATATAAAATTAAATTAAAA
Found at i:15238296 original size:21 final size:21
Alignment explanation
Indices: 15238272--15238317 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
15238262 TAAAAGTGAC
* *
15238272 ATAATTTAAAATTTTAATAAA
1 ATAATATAAAAGTTTAATAAA
**
15238293 ATAATATATGAGTTTAATAAA
1 ATAATATAAAAGTTTAATAAA
15238314 ATAA
1 ATAA
15238318 AATATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
ATAATATAAAAGTTTAATAAA
Done.