Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 49 of 167
Found at i:15134234 original size:42 final size:43
Alignment explanation
Indices: 15134131--15134246 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 43
15134121 CGATATGTGT
* * * *
15134131 TTTCGTGTAAGACCACGTTTGGGAAGTTTGCATTGACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGAAGTTGGAATCGACTTATGA
* * *
15134174 TTTACATGTAAGACCACGTCTAGGACGTTGGAATCGTA-TT-TGA
1 TTT-CGTGTAAGACCACGTCTGGGAAGTTGGAATCG-ACTTATGA
*
15134217 TTTCGTGTAAGACCACGTCTGGGATGTTGG
1 TTTCGTGTAAGACCACGTCTGGGAAGTTGG
15134247 CATTGTACGA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 24 0.39
43 9 0.15
44 27 0.44
45 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TTTCGTGTAAGACCACGTCTGGGAAGTTGGAATCGACTTATGA
Found at i:15135562 original size:48 final size:48
Alignment explanation
Indices: 15135507--15135734 Score: 250
Period size: 48 Copynumber: 4.8 Consensus size: 48
15135497 TCGTCTCAAT
*
15135507 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* * *
15135555 GCTGATGCCATGTCCCAGACATGGTCTTAGACTAGCGCACAT-ATCAATGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTC-TCAT-AATGTG
* ** *
15135605 --CGATGCCATGTCACAGACATGGTCTTACACTGGCTCTCATAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* * * * *
15135651 ACCAATGCCATGTTCCAAACATGATCTTACACTGGCTCTCAT-ATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
*
15135699 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
15135735 ACACATATCA
Statistics
Matches: 147, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
45 4 0.03
46 5 0.03
47 2 0.01
48 124 0.84
49 1 0.01
50 5 0.03
51 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:15135631 original size:96 final size:95
Alignment explanation
Indices: 15135502--15135734 Score: 279
Period size: 96 Copynumber: 2.4 Consensus size: 95
15135492 AGATCTCGTC
* ** ** **
15135502 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATG
1 TCAATGCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATAACATCACCAATGCCATG
* * *
15135567 TCCCAGACATGGTCTTAGACTAGCGCACATA
65 TCCCAAACATGATCTTACACTAGCGCACATA
*
15135598 TCAATGTCGATGCCATGTCACAGACATGGTCTTACACTGGCTCTCATAACATCACCAATGCCATG
1 TCAATGCCGATGCCATGTC-CAGACATGGTCTTACACTGGCTCTCATAACATCACCAATGCCATG
* * * *
15135663 TTCCAAACATGATCTTACACTGGCTCTCATA
65 TCCCAAACATGATCTTACACTAGCGCACATA
*
15135694 TC-GTGGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
1 TCAAT-GCCGATGCCATGTCC-AGACATGGTCTTACACTGGC
15135735 ACACATATCA
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
95 3 0.03
96 114 0.97
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (95 bp):
TCAATGCCGATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATAACATCACCAATGCCATGT
CCCAAACATGATCTTACACTAGCGCACATA
Found at i:15135742 original size:48 final size:47
Alignment explanation
Indices: 15135462--15135744 Score: 248
Period size: 48 Copynumber: 5.9 Consensus size: 47
15135452 GGTTGTTACA
* * * * * * *
15135462 GATGTCATGTCCCATACATGGTCTTACCCTAGATCTCGTCTCAAT-GCC
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCC
* * *
15135510 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCAT-ATCATGGCC
* * * * *
15135558 GATGCCATGTCCCAGACATGGTCTTAGACTAGCGCACATATCAAT-GTC
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCC
* **
15135606 GATGCCATGTCACAGACATGGTCTTACACTGGCTCTCATAACATCACC
1 GATGCCATGTC-CAGACATGGTCTTACACTGGCTCTCATATCATGGCC
* * * *
15135654 AATGCCATGTTCCAAACATGATCTTACACTGGCTCTCATATCGTGGCC
1 GATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCATATCATGGCC
* *
15135702 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCA
1 GATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCATATCA
15135745 CCCAAATGTC
Statistics
Matches: 190, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
47 9 0.05
48 177 0.93
49 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATATCATGGCC
Found at i:15143243 original size:48 final size:48
Alignment explanation
Indices: 15143188--15143390 Score: 239
Period size: 48 Copynumber: 4.2 Consensus size: 48
15143178 GTGAATTACT
* * * *
15143188 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGCC
* * * * * *
15143236 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGCC
* * * *
15143284 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA--ATGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA-AT-GCC
*
15143332 GATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGCC
15143380 GATGCCATGTC
1 GATGCCATGTC
15143391 GCAGACGTTA
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 127 0.97
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGCC
Found at i:15143352 original size:96 final size:96
Alignment explanation
Indices: 15143188--15143396 Score: 278
Period size: 96 Copynumber: 2.2 Consensus size: 96
15143178 GTGAATTACT
* * * *
15143188 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGATGCCGATGCCATGCCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGATGCCGATGCCATGCCCCAAAC
* * * * *
15143253 ATGGTCTTACACTAGCTCTCGTCTCAATGTC
66 ATGGTCTTACACTAGCGCACATATCAATGCC
* *
15143284 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G-TGGCCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAT-GCCGATGCCATGCCCCAA
15143347 ACATGGTCTTACACTAGCGCACATATCAATGCC
64 ACATGGTCTTACACTAGCGCACATATCAATGCC
*
15143380 GATGCCATGTCGCAGAC
1 GATGCCATGTCCCAGAC
15143397 GTTATGTCCC
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
95 1 0.01
96 97 0.98
97 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGATGCCGATGCCATGCCCCAAAC
ATGGTCTTACACTAGCGCACATATCAATGCC
Found at i:15143547 original size:158 final size:158
Alignment explanation
Indices: 15143246--15143548 Score: 396
Period size: 158 Copynumber: 1.9 Consensus size: 158
15143236 GATGCCATGC
* **** * * *
15143246 CCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAGACATGGTCTTAC
1 CCCAAACATGGTCTTACACTAGCTCTCAAAACAATGCCGATGCCATGTCCCAAACATGATCTTAC
* *
15143311 ACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA
66 ACTGGCTCTCATAATGTGGCCAATACCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA
** *
15143376 TGCCGATGCCATGTCGCAGACGTTATGT
131 CCCCAATGCCATGTCGCAGACGTTATGT
*
15143404 CCCAAACATGGTCTTACACTAGCTCTCAAAAC-ATCGCCGATGCCATGTTCCAAACATGATCTTA
1 CCCAAACATGGTCTTACACTAGCTCTCAAAACAAT-GCCGATGCCATGTCCCAAACATGATCTTA
* * *
15143468 CACTGGCTTTCATATTGTGGCCAATACCATGTCCCAAACATGGTCTTACACTGGCAG-ACATATC
65 CACTGGCTCTCATAATGTGGCCAATACCATGTCCCAAACATGGTCTTACACTAGC-GCACATATC
*
15143532 -ACCCCAAATGTCATGTC
129 AACCCC-AATGCCATGTC
15143549 CTGGATATCC
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
157 5 0.04
158 118 0.95
159 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (158 bp):
CCCAAACATGGTCTTACACTAGCTCTCAAAACAATGCCGATGCCATGTCCCAAACATGATCTTAC
ACTGGCTCTCATAATGTGGCCAATACCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA
CCCCAATGCCATGTCGCAGACGTTATGT
Found at i:15146781 original size:94 final size:91
Alignment explanation
Indices: 15146570--15146849 Score: 293
Period size: 94 Copynumber: 3.0 Consensus size: 91
15146560 TTGGGTCATT
* * * *
15146570 TGTGTGAGCTAGTGTAAGACATGTCCT-GGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAA
1 TGTGAGAGCTAGTGTAAGACATGT-CTGGGACATGCATCGGCTACGA--AT--GTGTCAGTGTAA
15146633 GACCATGTCTGGGACATGGCATCAGCATTGA
61 GACCATGTCTGGGACATGGCATCAGCATTGA
* *
15146664 -GACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGAC
1 TG-TGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-ATGTGTCAGTGTAAGAC
15146728 CATGTCTGGGACATGGCATGGCA-CAGTT-A
64 CATGTCTGGGACATGGCAT--CAGCA-TTGA
*
15146757 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAATATGATAGCTAGTGT
1 TGTGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAATGTG-T--C-AGTGT
*
15146821 AAGACCATGTGTGGGACATGGCATCAGCA
59 AAGACCATGTCTGGGACATGGCATCAGCA
15146850 CTTTACCCAT
Statistics
Matches: 160, Mismatches: 11, Indels: 27
0.81 0.06 0.14
Matches are distributed among these distances:
92 32 0.20
93 21 0.13
94 60 0.38
95 12 0.08
96 4 0.03
97 3 0.02
98 28 0.17
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (91 bp):
TGTGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAATGTGTCAGTGTAAGACCA
TGTCTGGGACATGGCATCAGCATTGA
Found at i:15146786 original size:49 final size:50
Alignment explanation
Indices: 15146570--15146850 Score: 244
Period size: 49 Copynumber: 5.9 Consensus size: 50
15146560 TTGGGTCATT
*
15146570 TGTGTGAGCTAGTGTAAGA-CATGTCCT-GGACAT-GCATCGGCCACA-TTA
1 TGTGAGAGCTAGTGTAAGACCATGT-CTGGGACATGGCATCGG-CACAGTTA
* *
15146618 --TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG--CA-TTGA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTT-A
* *
15146664 -GACGAGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAG--A
1 TG-TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-AC-AGTTA
*
15146712 TGT--G-TC-AGTGTAAGACCATGTCTGGGACATGGCAT-GGCACAGTTA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTTA
* *
15146757 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCG-AA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGTTA
* * * *
15146806 TATGATAGCTAGTGTAAGACCATGTGTGGGACATGGCATCAGCAC
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
15146851 TTTACCCATG
Statistics
Matches: 194, Mismatches: 16, Indels: 44
0.76 0.06 0.17
Matches are distributed among these distances:
43 2 0.01
44 11 0.06
45 26 0.13
46 29 0.15
47 26 0.13
48 22 0.11
49 72 0.37
50 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTTA
Found at i:15148326 original size:48 final size:48
Alignment explanation
Indices: 15148253--15148585 Score: 289
Period size: 48 Copynumber: 6.9 Consensus size: 48
15148243 GACATTTGGG
* * * *
15148253 TGATATGTGTGCTAGTGTAAAACCATGTCTGGGACATGGCGTCGGCCA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
15148301 TGATATGAGAGCTAGTATAAGACCATGTTTGGAACATAGCATCAGCAA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * **
15148349 TGTTATGAGAGCCAGTGTAAGACCATGTCCGGGATGTGGCATCGG-CA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
15148396 TTGTTAGGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCA
1 -TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
15148445 -CATTATAAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATTGG-CA
1 TGA-TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * ** *
15148492 TTGAGACGAGAGCTAGTGTAAGACCACATCTGGAACATGGCATCGGTCTCA
1 -TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-CA
* * * *
15148543 --ACATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
15148586 TAATTCGCCT
Statistics
Matches: 222, Mismatches: 55, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
47 3 0.01
48 214 0.96
49 3 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:15148533 original size:144 final size:144
Alignment explanation
Indices: 15148263--15148581 Score: 329
Period size: 144 Copynumber: 2.2 Consensus size: 144
15148253 TGATATGTGT
* ** * *
15148263 GCTAGTGTAAAACCATGTCTGGGACATGGCGTCGGCCATGATATGAGAGCTAGTATAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCATCATATAAGAGCTAGTATAAGACCATG
* ** * ** * **
15148328 TTTGGAACATAGCATCAGCAATGTTATGAGAGCCAGTGTAAGACCATGTCCGGGATGTGGCATCG
66 TCTGGAACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCACATCCGGAACATGGCATCG
**** *
15148393 G-CATTGTTAGGTGC
131 GTC-TCAACAGGTGA
*
15148407 GCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCA-CATTATAAGAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCATCA-TATAAGAGCTAGTATAAGACCAT
* ** * * *
15148471 GTCT-GAGACATGGCATTGGCATTGAGACGAGAGCTAGTGTAAGACCACATCTGGAACATGGCAT
65 GTCTGGA-ACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCACATCCGGAACATGGCAT
*
15148535 CGGTCTCAACATGTGA
129 CGGTCTCAACAGGTGA
* *
15148551 GCCAGTGTAAGACCATGTTTGGGACATGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCA
15148582 TCGGTAATTC
Statistics
Matches: 143, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
143 3 0.02
144 139 0.97
145 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (144 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCATCATATAAGAGCTAGTATAAGACCATG
TCTGGAACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCACATCCGGAACATGGCATCG
GTCTCAACAGGTGA
Found at i:15152472 original size:60 final size:58
Alignment explanation
Indices: 15152327--15152519 Score: 185
Period size: 60 Copynumber: 3.2 Consensus size: 58
15152317 TTAATATAAC
* * *
15152327 ATTTAGTACCTGAACTTGACACTTTTTCTCAATTTGGTACTTAAA-ATTTTTTT-GGCACA
1 ATTTGGTACCTAAACTTG-CACTTTTTCT-AATTTGGTACTTAAACTTTTTTTTGGGC-CA
* *
15152386 ATTTGGTA-TTGGAACTTGGCACTTTTTCCTAATTTGGTACTTAAACTTTTTTTTGGGCCA
1 ATTTGGTACCT-AAACTT-GCACTTTTT-CTAATTTGGTACTTAAACTTTTTTTTGGGCCA
* * * * **
15152446 ATTTGGTACCTAAACTTAGCATTTTTTTCTAATTTAGTACTTAAGCTTTTTTTAGGTTCA
1 ATTTGGTACCTAAACTT-GCA-CTTTTTCTAATTTGGTACTTAAACTTTTTTTTGGGCCA
*
15152506 ATTTGGTACTTAAA
1 ATTTGGTACCTAAA
15152520 TTTATTAAAT
Statistics
Matches: 114, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
58 1 0.01
59 36 0.32
60 68 0.60
61 9 0.08
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.47
Consensus pattern (58 bp):
ATTTGGTACCTAAACTTGCACTTTTTCTAATTTGGTACTTAAACTTTTTTTTGGGCCA
Found at i:15152514 original size:29 final size:28
Alignment explanation
Indices: 15152416--15152519 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 28
15152406 ACTTTTTCCT
**
15152416 AATTTGGTACTTAAACTTTTTTTTGGGCC
1 AATTTGGTACTTAAAC-TTTTTTTGGTTC
*
15152445 AATTTGGTACCTAAACTTAGCATTTTT--TTC
1 AATTTGGTACTTAAACTT----TTTTTGGTTC
* *
15152475 TAATTTAGTACTTAAGCTTTTTTTAGGTTC
1 -AATTTGGTACTTAAACTTTTTTT-GGTTC
15152505 AATTTGGTACTTAAA
1 AATTTGGTACTTAAA
15152520 TTTATTAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
27 5 0.08
28 2 0.03
29 28 0.47
30 4 0.07
31 15 0.25
32 5 0.08
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.48
Consensus pattern (28 bp):
AATTTGGTACTTAAACTTTTTTTGGTTC
Found at i:15154889 original size:28 final size:28
Alignment explanation
Indices: 15154849--15154904 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15154839 GTATGAATGG
15154849 TTGCCTTTTTCCATAGAGATTTTCCGTT
1 TTGCCTTTTTCCATAGAGATTTTCCGTT
15154877 TTGCCTTTTTCCATAGAGATTTTCCGTT
1 TTGCCTTTTTCCATAGAGATTTTCCGTT
15154905 CTGAATACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (28 bp):
TTGCCTTTTTCCATAGAGATTTTCCGTT
Found at i:15157791 original size:18 final size:17
Alignment explanation
Indices: 15157750--15157797 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
15157740 TTGCCACATC
*
15157750 AATAAATATTTAAAAATT
1 AATAAA-ATTTAAAAATA
15157768 AA-AAAATCTTAAAAATA
1 AATAAAAT-TTAAAAATA
15157785 AATAAAATATTAA
1 AATAAAAT-TTAA
15157798 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAAATTTAAAAATA
Found at i:15158084 original size:20 final size:20
Alignment explanation
Indices: 15158056--15158109 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
15158046 TATATATAAT
* *
15158056 TTTAAAAATTTTAATCATTA
1 TTTATAAATTTTAATAATTA
*
15158076 TTTATAAATTCTT-ATAATTC
1 TTTATAAATT-TTAATAATTA
*
15158096 TTAATAAATTTTAA
1 TTTATAAATTTTAA
15158110 ATAAGTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTATAAATTTTAATAATTA
Found at i:15162349 original size:54 final size:53
Alignment explanation
Indices: 15162265--15162375 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
15162255 AGGAAGCATC
** *
15162265 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACAT-TATCTGTT
* * *
15162319 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGAATCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACATTATCTGTT
15162372 CTGG
1 CTGG
15162376 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACATTATCTGTT
Found at i:15162372 original size:26 final size:26
Alignment explanation
Indices: 15162265--15162375 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
15162255 AGGAAGCATC
* *
15162265 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
15162292 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
15162319 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
** *
15162346 CTGGTGAATCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
15162372 CTGG
1 CTGG
15162376 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 16 0.21
27 57 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:15164582 original size:36 final size:36
Alignment explanation
Indices: 15164535--15164610 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
15164525 GAAGAAAAAA
15164535 CATTCTTATTCATAGTTTTTGATTTTATAGAGATTG
1 CATTCTTATTCATAGTTTTTGATTTTATAGAGATTG
*
15164571 CATTCTTATTCATAGTTTTTGATTTTATAGATATTG
1 CATTCTTATTCATAGTTTTTGATTTTATAGAGATTG
15164607 CATT
1 CATT
15164611 AAGTTTCCAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.54
Consensus pattern (36 bp):
CATTCTTATTCATAGTTTTTGATTTTATAGAGATTG
Found at i:15165557 original size:82 final size:82
Alignment explanation
Indices: 15165447--15165774 Score: 346
Period size: 82 Copynumber: 4.1 Consensus size: 82
15165437 ACGACAAAAT
* *
15165447 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCAAATAAAAT
1 TAAATCCCGAAACAGAATTATTTAATTAAATCTCGTTTGGAAACAAAATCAAAATCAAATAAAAT
15165512 CTGTTAAATGACGGGAA
66 CTGTTAAATGACGGGAA
* * *
15165529 TAAATCCCGAAACAGAATTGTTTGATTAAATCTTGTTTGGAAA-AAAATC---A--AAATAAAAT
1 TAAATCCCGAAACAGAATTATTTAATTAAATCTCGTTTGGAAACAAAATCAAAATCAAATAAAAT
* * *
15165588 TTGTTAAA-CAGTGGGAA
66 CTGTTAAATGA-CGGGAA
* * * * *
15165605 TAAATCCCGAAATAGAATTATTTAATTAATTCTCATTTGGAAACAAAATTAAAATCGAATAAAAT
1 TAAATCCCGAAACAGAATTATTTAATTAAATCTCGTTTGGAAACAAAATCAAAATCAAATAAAAT
* * * *
15165670 CTATTAAACGGCTGGAA
66 CTGTTAAATGACGGGAA
* * * * * * * * **
15165687 TAAATCCTGAAATATAATTATTCAATTAACTATCGTTTGGAAATAAAATCAACATTGAATAAAAT
1 TAAATCCCGAAACAGAATTATTTAATTAAATCTCGTTTGGAAACAAAATCAAAATCAAATAAAAT
*
15165752 CTGTTAAATGGCGGGAA
66 CTGTTAAATGACGGGAA
15165769 TAAATC
1 TAAATC
15165775 TTGAAACTGT
Statistics
Matches: 205, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
75 1 0.00
76 58 0.28
77 5 0.02
78 1 0.00
80 1 0.00
81 6 0.03
82 133 0.65
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.30
Consensus pattern (82 bp):
TAAATCCCGAAACAGAATTATTTAATTAAATCTCGTTTGGAAACAAAATCAAAATCAAATAAAAT
CTGTTAAATGACGGGAA
Found at i:15165715 original size:158 final size:159
Alignment explanation
Indices: 15165447--15165738 Score: 397
Period size: 158 Copynumber: 1.8 Consensus size: 159
15165437 ACGACAAAAT
**
15165447 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCAAATAAAAT
1 TAAATCCCGAAACAAAATTATTTAATTAAATCTCATTTGGAAACAAAATCAAAATCAAATAAAAT
* * * ** * *
15165512 CTGTTAAATGACGGGAATAAATCCCGAAACAGAATTGTTTGATTAAATCTTGTTTGGAAA-AAAA
66 CTATTAAACGACGGGAATAAATCCCGAAACAGAATTATTCAATTAAATATCGTTTGGAAATAAAA
15165576 TCAAAATAAAATTTGTTAAACAGTGGGAA
131 TCAAAATAAAATTTGTTAAACAGTGGGAA
* * * * *
15165605 TAAATCCCGAAATAGAATTATTTAATTAATTCTCATTTGGAAACAAAATTAAAATCGAATAAAAT
1 TAAATCCCGAAACAAAATTATTTAATTAAATCTCATTTGGAAACAAAATCAAAATCAAATAAAAT
* * * * * *
15165670 CTATTAAACGGCTGGAATAAATCCTGAAATATAATTATTCAATTAACTATCGTTTGGAAATAAAA
66 CTATTAAACGACGGGAATAAATCCCGAAACAGAATTATTCAATTAAATATCGTTTGGAAATAAAA
15165735 TCAA
131 TCAA
15165739 CATTGAATAA
Statistics
Matches: 113, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
158 105 0.93
159 8 0.07
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (159 bp):
TAAATCCCGAAACAAAATTATTTAATTAAATCTCATTTGGAAACAAAATCAAAATCAAATAAAAT
CTATTAAACGACGGGAATAAATCCCGAAACAGAATTATTCAATTAAATATCGTTTGGAAATAAAA
TCAAAATAAAATTTGTTAAACAGTGGGAA
Found at i:15165809 original size:71 final size:71
Alignment explanation
Indices: 15165721--15165852 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
15165711 ATTAACTATC
* * * * *
15165721 GTTTGGAAATAAAATCAACATT-GAATAAAATCTGTTAAATGGCGGGAATAAATCTTGAAACTGT
1 GTTTGGAAACAAAATCAA-ATTGGAATAAAATATGTTAAATGACAGGAATAAATCTCGAAACTGT
15165785 AATTCTT
65 AATTCTT
* *
15165792 GTTTGGAAACAAAATCAAATTGGAATAAAATATGTTGAATGATAGGAATAAATCTCGAAAC
1 GTTTGGAAACAAAATCAAATTGGAATAAAATATGTTAAATGACAGGAATAAATCTCGAAAC
15165853 AGAATTTAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
70 3 0.06
71 50 0.94
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (71 bp):
GTTTGGAAACAAAATCAAATTGGAATAAAATATGTTAAATGACAGGAATAAATCTCGAAACTGTA
ATTCTT
Found at i:15166058 original size:48 final size:49
Alignment explanation
Indices: 15166004--15166114 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 49
15165994 ATAATTATAA
* * * *
15166004 ATATTTATATTAAATACAAGATCTGAAC-AAA-TAATATAAA-AAATATTT
1 ATATTTAT-TTAAACACAACATCTAAACAAAACAAAT-TAAATAAATATTT
* *
15166052 ATATTTATGTAAAACACCACATCTAAACAAAACAAATTAAATAAATATTT
1 ATATTTAT-TTAAACACAACATCTAAACAAAACAAATTAAATAAATATTT
15166102 ATATTTATTTAAA
1 ATATTTATTTAAA
15166115 ACATCATATT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 22 0.42
49 11 0.21
50 19 0.37
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (49 bp):
ATATTTATTTAAACACAACATCTAAACAAAACAAATTAAATAAATATTT
Found at i:15166582 original size:32 final size:32
Alignment explanation
Indices: 15166526--15166589 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
15166516 AGAAGCTTTT
* *
15166526 AAATCAATTTGAATAAAATCAAATCAAATTGA
1 AAATCAATCTGAATAAAATAAAATCAAATTGA
* *
15166558 AAATCAATCTGATTAGAATAAAATCAAATTGA
1 AAATCAATCTGAATAAAATAAAATCAAATTGA
15166590 GATATTTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (32 bp):
AAATCAATCTGAATAAAATAAAATCAAATTGA
Found at i:15169380 original size:16 final size:17
Alignment explanation
Indices: 15169352--15169396 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
15169342 TCCTGATTGG
* *
15169352 TTTATTGATTTTT-ATC
1 TTTATTTATTTTTCATA
*
15169368 TTTTTTTATTTTTCATA
1 TTTATTTATTTTTCATA
15169385 TTTATTTATTTT
1 TTTATTTATTTT
15169397 CGTGATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTATTTATTTTTCATA
Found at i:15169397 original size:16 final size:16
Alignment explanation
Indices: 15169352--15169408 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
15169342 TCCTGATTGG
* * *
15169352 TTTATTGATTTTTATC
1 TTTATTTATTTTCATA
*
15169368 TTTTTTTATTTTTCATA
1 TTTATTTA-TTTTCATA
*
15169385 TTTATTTATTTTCGTGA
1 TTTATTTATTTTCAT-A
15169402 TTTATTT
1 TTTATTT
15169409 TATATCATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 12 0.36
17 21 0.64
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTATTTATTTTCATA
Found at i:15172033 original size:93 final size:93
Alignment explanation
Indices: 15171923--15172093 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
15171913 GCCCCTAAGT
* * *
15171923 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
15171988 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
15172016 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
15172081 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15172094 TTAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15172090 original size:46 final size:46
Alignment explanation
Indices: 15171918--15172090 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
15171908 AACCCGCCCC
* * * *
15171918 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
15171964 TAAATGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
15172012 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
15172057 TAAGTGAACTCGGGCTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15172091 TGCTTAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:15179593 original size:93 final size:93
Alignment explanation
Indices: 15179483--15179653 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
15179473 GCCCCTAAGT
* * *
15179483 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
15179548 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
15179576 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
15179641 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15179654 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15179650 original size:46 final size:46
Alignment explanation
Indices: 15179478--15179650 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
15179468 AACCCGCCCC
* * * *
15179478 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* ** * *
15179524 TAAATGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
15179572 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
15179617 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
15179651 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:15181175 original size:48 final size:48
Alignment explanation
Indices: 15181107--15181251 Score: 222
Period size: 48 Copynumber: 3.0 Consensus size: 48
15181097 TAGGGTTATG
15181107 TGTGA-CCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
15181154 TGTGATTCC-ATGTAAGACCATGTCCGGGACATGGCATTGGCATCGATA
1 TGTGA-TCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * *
15181202 TTTGATCCTATGTAAGACCTTATCTGGGATATGGCATTGGCATCGATA
1 TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
15181250 TG
1 TG
15181252 CGACATCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
47 8 0.09
48 78 0.89
49 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:15181263 original size:48 final size:48
Alignment explanation
Indices: 15181107--15181270 Score: 199
Period size: 48 Copynumber: 3.4 Consensus size: 48
15181097 TAGGGTTATG
*
15181107 TGTGACCT-ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGACATCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
15181154 TGTGA-TTCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCGATA
1 TGTGACAT-CATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
15181202 TTTGATCCT-ATGTAAGACCTTATCTGGGATATGGCATTGGCATCGATA
1 TGTGA-CATCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
15181250 TGCGACATCATGTACGACCAT
1 TGTGACATCATGTAAGACCAT
15181271 ACTTGGGCTA
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
46 1 0.01
47 7 0.07
48 90 0.91
50 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (48 bp):
TGTGACATCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:15188999 original size:48 final size:48
Alignment explanation
Indices: 15188927--15189107 Score: 178
Period size: 48 Copynumber: 3.9 Consensus size: 48
15188917 GGGTTATGTG
* * *
15188927 TGATCCCATGTAAGACGATGTCTGGGACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATA
* *
15188975 TGATCCCTTGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGA
1 TGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATAT-A
** * * *
15189024 -GA-CACTGTGTAAGACCATAGCTGGG-C-T---ATTGGCTTCGATCTA
1 TGATC-CCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATA
* * *
15189066 TGATCCCATGTAAGACCATATATGGGATATGACATTGGCATC
1 TGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC
15189108 TTTCTATGTG
Statistics
Matches: 107, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 31 0.29
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 71 0.66
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATA
Found at i:15191010 original size:42 final size:43
Alignment explanation
Indices: 15190950--15191062 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
15190940 GAGATTTATG
*
15190950 TGTAAGACCATGCCTGGGACA-TCGGCATC-ATATTTGATTTCA
1 TGTAAGACCATGCCTGGGACAGT-GGCATCGATATTTGATTACA
* ** *
15190992 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGGTTACA
1 TGTAAGACCATGCCTGGGACAGTGGCATCGATATTTGATTACA
*** *
15191035 TGTAAGACCACATCTGGGACATTGGCAT
1 TGTAAGACCATGCCTGGGACAGTGGCAT
15191063 TGTACGATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGCCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:15192482 original size:53 final size:53
Alignment explanation
Indices: 15192302--15192510 Score: 211
Period size: 53 Copynumber: 3.9 Consensus size: 53
15192292 ATTAGGGTTT
* * * *
15192302 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTTATAAGGC
* * * * * * * * *
15192356 AACGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TTATAAGGC
* * * * *
15192411 AAAGATCCCATGTGAGACCATGCCAAGGCATGGCAATGGTGAGTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
* *
15192464 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTA
15192511 AAAAGGAAAG
Statistics
Matches: 122, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 48 0.39
54 35 0.29
55 39 0.32
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:15193977 original size:30 final size:30
Alignment explanation
Indices: 15193943--15194000 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
15193933 TTGTGCACAT
15193943 ATGATATATGTATGAATTATTATTATGAGA
1 ATGATATATGTATGAATTATTATTATGAGA
15193973 ATGATATATGTATGAATTATTATTATGA
1 ATGATATATGTATGAATTATTATTATGA
15194001 TCAAATGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.45
Consensus pattern (30 bp):
ATGATATATGTATGAATTATTATTATGAGA
Found at i:15193982 original size:13 final size:15
Alignment explanation
Indices: 15193943--15193989 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
15193933 TTGTGCACAT
15193943 ATGATATATGTATGA
1 ATGATATATGTATGA
*
15193958 ATTAT-TAT-TATGAGA
1 ATGATATATGTAT--GA
15193973 ATGATATATGTATGA
1 ATGATATATGTATGA
15193988 AT
1 AT
15193990 TATTATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 14 0.54
16 3 0.12
17 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (15 bp):
ATGATATATGTATGA
Found at i:15193999 original size:17 final size:17
Alignment explanation
Indices: 15193949--15193999 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 17
15193939 ACATATGATA
15193949 TATGTATGAATTATTAT
1 TATGTATGAATTATTAT
*
15193966 TATG-A-GAATGA-TA-
1 TATGTATGAATTATTAT
15193979 TATGTATGAATTATTAT
1 TATGTATGAATTATTAT
15193996 TATG
1 TATG
15194000 ATCAAATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.14
14 3 0.11
15 10 0.36
16 3 0.11
17 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
TATGTATGAATTATTAT
Found at i:15194017 original size:30 final size:29
Alignment explanation
Indices: 15193943--15194017 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
15193933 TTGTGCACAT
* *
15193943 ATGATATATGTATGAATTATTATTATGAGA
1 ATGAGATA-GTATGAATTATTATTATGAAA
*
15193973 ATGATATATGTATGAATTATTATTATGATCAA
1 ATGAGATA-GTATGAATTATTATTATGA--AA
*
15194005 ATGAGCTA-TATGA
1 ATGAGATAGTATGA
15194018 GACATATGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 33 0.82
32 7 0.17
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.41
Consensus pattern (29 bp):
ATGAGATAGTATGAATTATTATTATGAAA
Found at i:15194853 original size:43 final size:43
Alignment explanation
Indices: 15194805--15194901 Score: 176
Period size: 43 Copynumber: 2.3 Consensus size: 43
15194795 GTGTGTCTAC
*
15194805 TGGCCGTGTGAGTGGCACACGGGCTGGCATATGGGCATGTTGT
1 TGGCCGTGTGAGTGGCACACGGGCTGGCACATGGGCATGTTGT
15194848 TGGCCGTGTGAGTGGCACACGGGCTGGCACATGGGCATGTTGT
1 TGGCCGTGTGAGTGGCACACGGGCTGGCACATGGGCATGTTGT
*
15194891 CGGCCGTGTGA
1 TGGCCGTGTGA
15194902 CCAAGTCAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.13, C:0.21, G:0.42, T:0.24
Consensus pattern (43 bp):
TGGCCGTGTGAGTGGCACACGGGCTGGCACATGGGCATGTTGT
Found at i:15201691 original size:22 final size:22
Alignment explanation
Indices: 15201663--15201711 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
15201653 AAGAGATTTT
*
15201663 TTTTAGGGATGAAAAGAATCTA
1 TTTTAGGCATGAAAAGAATCTA
* *
15201685 TTTTAGGCTTTAAAAGAATCTA
1 TTTTAGGCATGAAAAGAATCTA
15201707 TTTTA
1 TTTTA
15201712 ATACGAGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (22 bp):
TTTTAGGCATGAAAAGAATCTA
Found at i:15208883 original size:28 final size:28
Alignment explanation
Indices: 15208851--15208920 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
15208841 AATGAGATTG
15208851 GCACTAAGTGTGCAAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCAAGTTTGAATAT-TA-A
* *
15208879 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCAAGTTTGAATATTAA
15208907 GCACTAAGTGTGCA
1 GCACTAAGTGTGCA
15208921 GACTTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTTGAATATTAA
Found at i:15210508 original size:11 final size:10
Alignment explanation
Indices: 15210494--15210528 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 10
15210484 CTAAACAAAT
15210494 ATTTAACATA
1 ATTTAACATA
15210504 CATTTAACATA
1 -ATTTAACATA
15210515 A-TTAACATA
1 ATTTAACATA
15210524 ATTTA
1 ATTTA
15210529 TAATTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 4 0.17
11 10 0.43
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTTAACATA
Found at i:15214504 original size:27 final size:27
Alignment explanation
Indices: 15214266--15214697 Score: 214
Period size: 27 Copynumber: 15.9 Consensus size: 27
15214256 AATACTTTAG
** *
15214266 TTTACTAAAATTACCGAAATACCCT-TA
1 TTTA-TAAAATTACTAAAATACCCTCGA
* * * *
15214293 GTTTGTAAAAATACTGAAATACTCTCGA
1 -TTTATAAAATTACTAAAATACCCTCGA
* * *
15214321 TTTGTAAAATTACTGAAATACCTTCGA
1 TTTATAAAATTACTAAAATACCCTCGA
* * * *
15214348 CTTGTAAAATTACCAAAGTACCCTCGA
1 TTTATAAAATTACTAAAATACCCTCGA
* * ***
15214375 TTTACAGAATTAC-AGTTTTACCCTCGA
1 TTTATAAAATTACTA-AAATACCCTCGA
* *** *
15214402 TTTATAGAATTACTATTTTACCCTTGA
1 TTTATAAAATTACTAAAATACCCTCGA
* *** *
15214429 TTTATAGAATTACTATTTTACCCTTGA
1 TTTATAAAATTACTAAAATACCCTCGA
* * ***
15214456 TTTACAGAATTACTATTTTACCCTCGA
1 TTTATAAAATTACTAAAATACCCTCGA
*
15214483 TTTACAAAATTACTAAAATACCCT-GA
1 TTTATAAAATTACTAAAATACCCTCGA
* * *
15214509 GTTTGTAAAATTACCAAAATACCC-CTA
1 -TTTATAAAATTACTAAAATACCCTCGA
* * *
15214536 GTTTGTAAAATTA-TCAAAATACCCTTGG
1 -TTTATAAAATTACT-AAAATACCCTCGA
* * ** *
15214564 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACTAAAATACCCTCGA
*
15214591 TTTGTAAAATTACTAAAATACCC-CTGA
1 TTTATAAAATTACTAAAATACCCTC-GA
* * *
15214618 TTTACAAAGTTAC-AGAAATACCCTTGA
1 TTTATAAAATTACTA-AAATACCCTCGA
* * * *
15214645 CTTTCTAAAAATTA-TAGAAATACCATTGG
1 -TTTAT-AAAATTACTA-AAATACCCTCGA
*
15214674 TTTACAAAATTACTAAAATACCCT
1 TTTATAAAATTACTAAAATACCCT
15214698 TAGTTTGTAG
Statistics
Matches: 331, Mismatches: 58, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
26 5 0.02
27 295 0.89
28 13 0.04
29 18 0.05
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTATAAAATTACTAAAATACCCTCGA
Found at i:15214713 original size:27 final size:27
Alignment explanation
Indices: 15214488--15214726 Score: 191
Period size: 27 Copynumber: 8.8 Consensus size: 27
15214478 CTCGATTTAC
*
15214488 AAAATTACTAAAATACCCTGAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
15214515 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
*
15214542 AAAATTA-TCAAAATACCCTTGGTTTGT
1 AAAATTACT-AAAATACCCTTAGTTTGT
* ** * *
15214569 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
15214596 AAAATTACTAAAATACCCCT-GATT-T
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
15214621 ACAAAGTTAC-AGAAATACCCTTGACTTTCT
1 A-AAA-TTACTA-AAATACCCTT-AGTTTGT
* * **
15214651 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTAGTTTGT
15214679 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * * *
15214706 AGATTTACCAAAACACCCTTA
1 AAAATTACTAAAATACCCTTA
15214727 TAGTATGAAA
Statistics
Matches: 166, Mismatches: 35, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
25 2 0.01
26 6 0.04
27 132 0.80
28 5 0.03
29 16 0.10
30 4 0.02
31 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTAGTTTGT
Found at i:15214787 original size:27 final size:27
Alignment explanation
Indices: 15214744--15214817 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
15214734 AAATGACTAA
*
15214744 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
15214771 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
15214798 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
15214818 TGATGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:15216087 original size:20 final size:20
Alignment explanation
Indices: 15216062--15216132 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
15216052 ATTTTGATAA
15216062 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
15216082 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
15216102 ACATGATATGTATGATAAGC
1 ACATGATATGTATGATATGC
*
15216122 ACATGAGATGT
1 ACATGATATGT
15216133 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:15216258 original size:25 final size:24
Alignment explanation
Indices: 15216179--15216344 Score: 246
Period size: 25 Copynumber: 6.9 Consensus size: 24
15216169 AGGAAGTGCA
15216179 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
15216202 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
15216225 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
15216250 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* * *
15216275 GAAGGGCTTATGCCCTAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
15216300 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
15216324 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
15216345 CTAAAAGAGG
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 45 0.34
24 21 0.16
25 66 0.50
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:15216600 original size:31 final size:31
Alignment explanation
Indices: 15216564--15216627 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
15216554 CGTTTACAGT
*
15216564 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
15216595 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
15216626 AA
1 AA
15216628 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:15234028 original size:38 final size:38
Alignment explanation
Indices: 15233983--15234057 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
15233973 CTATTTCTCA
* *
15233983 ATTACTTTATTTTTCCCCTGATCTAGACCTGAATTTCG
1 ATTACTTTATTTTTCCCCCGATCTAGACCCGAATTTCG
15234021 ATTACTTTATTTTTCCCCCGATCTAGACCCGAATTTC
1 ATTACTTTATTTTTCCCCCGATCTAGACCCGAATTTC
15234058 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.21, C:0.27, G:0.09, T:0.43
Consensus pattern (38 bp):
ATTACTTTATTTTTCCCCCGATCTAGACCCGAATTTCG
Found at i:15239327 original size:7 final size:6
Alignment explanation
Indices: 15239291--15239325 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
15239281 ATTATTGTGG
* *
15239291 TTTTTA TTTATA TTTTTA TTTTCA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
15239326 TAAATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:15244824 original size:34 final size:34
Alignment explanation
Indices: 15244781--15244854 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
15244771 AGTGCCATGA
* *
15244781 TTCACAACTCAGTATGGAAACACCATACTTGCGT
1 TTCACAACTCAGTATGGAAACACCATACCTACGT
* **
15244815 TTCACAACTCGGTATGGAAATTCCATACCTACGT
1 TTCACAACTCAGTATGGAAACACCATACCTACGT
15244849 TTCACA
1 TTCACA
15244855 CTTTTCCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (34 bp):
TTCACAACTCAGTATGGAAACACCATACCTACGT
Found at i:15244939 original size:27 final size:27
Alignment explanation
Indices: 15244909--15244973 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
15244899 GATCACTGAA
* *
15244909 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
15244936 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
15244963 CACTTTGCCAT
1 CACTTTGCCAT
15244974 AGTTCAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:15245109 original size:31 final size:31
Alignment explanation
Indices: 15245063--15245179 Score: 180
Period size: 31 Copynumber: 3.8 Consensus size: 31
15245053 CTTGTTACCT
*
15245063 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** * *
15245094 GTAGTTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
15245125 GTAGCCGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
15245156 GTAGCCGAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
15245180 ATTGTACACA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:15245256 original size:33 final size:33
Alignment explanation
Indices: 15245181--15245284 Score: 113
Period size: 33 Copynumber: 3.2 Consensus size: 33
15245171 ACTTTTCACA
* ** *
15245181 TTGTACACACAAGGCATACATTTCCTTTTCAA-
1 TTGTACACACAAAGTGTACATTTCCTTTTTAAG
* *
15245213 CTGTACACACAAAGTGTACGTTTCCTTTTTAAG
1 TTGTACACACAAAGTGTACATTTCCTTTTTAAG
* *
15245246 TTGTACACACACAGTGTACAATTCCTTTTCT-AG
1 TTGTACACACAAAGTGTACATTTCCTTTT-TAAG
15245279 TTGTAC
1 TTGTAC
15245285 CTTTTAGGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
32 26 0.43
33 33 0.55
34 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (33 bp):
TTGTACACACAAAGTGTACATTTCCTTTTTAAG
Found at i:15247035 original size:31 final size:30
Alignment explanation
Indices: 15246981--15247041 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
15246971 CTAAATAAAT
*
15246981 AATAATAAAAAATAATAAATATCTTATTAA
1 AATAATAAAAAATAATAAATATCTAATTAA
* **
15247011 AATATTAATAAAATAATATTTATCTAATTAA
1 AATAATAA-AAAATAATAAATATCTAATTAA
15247042 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
AATAATAAAAAATAATAAATATCTAATTAA
Found at i:15251493 original size:63 final size:63
Alignment explanation
Indices: 15251388--15251529 Score: 232
Period size: 63 Copynumber: 2.3 Consensus size: 63
15251378 AGTTCGGCTT
**
15251388 TCTTGTACACATGGTGAACACTTAGTACCACCCATGTCACCTAGCCAGTTTATCTCGTAGCTC
1 TCTTGTACACATGGTGAACACTTAGTACCACCCACATCACCTAGCCAGTTTATCTCGTAGCTC
* *
15251451 TCTTGTACACATGGTGAACACTTAGTACCACCCACATGACCTAGCTAGTTTATCTCGTAGCTC
1 TCTTGTACACATGGTGAACACTTAGTACCACCCACATCACCTAGCCAGTTTATCTCGTAGCTC
15251514 TCTTGT-CTACATGGTG
1 TCTTGTAC-ACATGGTG
15251530 TCCTTCACTT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
62 1 0.01
63 73 0.99
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (63 bp):
TCTTGTACACATGGTGAACACTTAGTACCACCCACATCACCTAGCCAGTTTATCTCGTAGCTC
Found at i:15251676 original size:68 final size:64
Alignment explanation
Indices: 15251549--15251699 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 64
15251539 TGGAACCACG
* * *
15251549 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGTACGACC
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACACGATGTACACATAGTACGACA
** *
15251613 CATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACACGATGTGCAC-TCAGTA
1 CATGCGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACACGATGTACACAT-AGTA
* *
15251676 CTATA
60 CGACA
*
15251681 CATGTGACCTAGCTACATA
1 CATGCGACCTAGCTACATA
15251700 CCATCTGTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 18 0.25
65 2 0.03
66 1 0.01
67 2 0.03
68 48 0.67
69 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (64 bp):
CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACACGATGTACACATAGTACGACA
Found at i:15256053 original size:68 final size:64
Alignment explanation
Indices: 15255878--15256061 Score: 237
Period size: 68 Copynumber: 2.8 Consensus size: 64
15255868 ACTTGGTGGT
15255878 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTCTATCTCGTAG
1 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTACA-TCTATCTCGTAG
* *
15255941 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGCGACCTAGCTACATCATAATGTCTTG
1 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTACATC-T-A--TCTCG
15256006 TAG
62 TAG
* ** * **
15256009 CTCTCTTGTACACATGATGTGCACTTAGTACTATACATGTGACCTAGCTACAT
1 CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTACAT
15256062 ACCATCTGTA
Statistics
Matches: 106, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
63 47 0.44
64 2 0.02
65 3 0.03
66 1 0.01
68 53 0.50
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (64 bp):
CTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTACATCTATCTCGTAG
Found at i:15256730 original size:30 final size:30
Alignment explanation
Indices: 15256696--15256756 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15256686 TCCTTAACTC
15256696 AAACTTTGGAAAAATTACAATTTTACCCCT
1 AAACTTTGGAAAAATTACAATTTTACCCCT
* * * * *
15256726 AAACTTTTGCATATTTACACTTTTACCCCT
1 AAACTTTGGAAAAATTACAATTTTACCCCT
15256756 A
1 A
15256757 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTACCCCT
Found at i:15258548 original size:15 final size:15
Alignment explanation
Indices: 15258520--15258557 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15258510 CAATAATGAT
15258520 GATAA-GAAAACTGA
1 GATAATGAAAACTGA
*
15258534 GATAATGAAATCTGA
1 GATAATGAAAACTGA
15258549 GATACATGA
1 GATA-ATGA
15258558 CCATACTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 12 0.57
16 4 0.19
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (15 bp):
GATAATGAAAACTGA
Found at i:15262506 original size:96 final size:95
Alignment explanation
Indices: 15262273--15262550 Score: 294
Period size: 96 Copynumber: 3.0 Consensus size: 95
15262263 CACTTAGTAA
* * * *
15262273 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGGTCA-CACAT--AT--CGATGCCGATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-ATCAAATCGATGCCGATGCC-ATA
* * *
15262333 GCCGAGATATGGTCTTACATGTTG-TCTCATAT
64 TCCTAGATATGGTCTTACATG-GGATCTCATAT
* *
15262365 --TG---ATGCCATGTCCCAGACATGGTCTTACA--CGAAATCATATATCGATGCCGATGCCATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATCA-A-ATCGATGCCGATGCCATA
15262423 TCCTAGATATGGTCTTACATGGGATCTCATAT
64 TCCTAGATATGGTCTTACATGGGATCTCATAT
* * *
15262455 CGATGCCAATGCCATGTCCCGGACATGGTCTTACATGGGATATCAAATCGATGCCAATGCCATGT
1 -GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCGATGCCATAT
*
15262520 CCTAGACATGGTCTTACATGGGATCTCATAT
65 CCTAGATATGGTCTTACATGGGATCTCATAT
15262551 AACCCTAATG
Statistics
Matches: 155, Mismatches: 15, Indels: 28
0.78 0.08 0.14
Matches are distributed among these distances:
84 1 0.01
85 3 0.02
87 27 0.17
89 3 0.02
90 32 0.21
91 7 0.05
93 2 0.01
96 73 0.47
97 1 0.01
98 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (95 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCGATGCCATATC
CTAGATATGGTCTTACATGGGATCTCATAT
Found at i:15262538 original size:48 final size:48
Alignment explanation
Indices: 15262367--15262543 Score: 232
Period size: 48 Copynumber: 3.7 Consensus size: 48
15262357 TCTCATATTG
* * *
15262367 ATGCCATGTCCCAGACATGGTCTTACA--CGAAATCATATATCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATATCA-A-ATCGATGCCA
* * * * *
15262415 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCA
*
15262463 ATGCCATGTCCCGGACATGGTCTTACATGGGATATCAAATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCA
*
15262511 ATGCCATGTCCTAGACATGGTCTTACATGGGAT
1 ATGCCATGTCCCAGACATGGTCTTACATGGGAT
15262544 CTCATATAAC
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
48 106 0.95
50 5 0.05
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATATCAAATCGATGCCA
Found at i:15275162 original size:22 final size:22
Alignment explanation
Indices: 15275137--15275180 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15275127 TATAAAAAAA
*
15275137 CAATGTTGAATTGTACTAACAT
1 CAATGTTGAATCGTACTAACAT
*
15275159 CAATGTTGAATCGTGCTAACAT
1 CAATGTTGAATCGTACTAACAT
15275181 GGTGCATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (22 bp):
CAATGTTGAATCGTACTAACAT
Found at i:15277363 original size:18 final size:18
Alignment explanation
Indices: 15277340--15277379 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
15277330 ATGACCAAGT
15277340 TTTTCTTTTTCTTTCTCC
1 TTTTCTTTTTCTTTCTCC
15277358 TTTTCTTTTTCTTTCTCC
1 TTTTCTTTTTCTTTCTCC
15277376 TTTT
1 TTTT
15277380 ATGATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTCTTTTTCTTTCTCC
Found at i:15294246 original size:22 final size:25
Alignment explanation
Indices: 15294221--15294268 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
15294211 TAGTAGCTAT
*
15294221 TTTTCGTGTT-TTTGG-GTC-ATTG
1 TTTTAGTGTTGTTTGGAGTCGATTG
15294243 TTTTAGTGTTGTTTGGAGTCGATTG
1 TTTTAGTGTTGTTTGGAGTCGATTG
15294268 T
1 T
15294269 GTTGCTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 5 0.23
24 3 0.14
25 5 0.23
ACGTcount: A:0.08, C:0.06, G:0.29, T:0.56
Consensus pattern (25 bp):
TTTTAGTGTTGTTTGGAGTCGATTG
Found at i:15297041 original size:40 final size:40
Alignment explanation
Indices: 15296967--15297188 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
15296957 AACCCAAGTA
* *
15296967 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
15297006 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
15297046 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
15297086 CCTTCGGGACTTAGCCCGGATATAGTCAATATCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
15297126 CCTTCGGGACTTAGCCAGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
15297166 CCTTCGGGATTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
15297189 CATTCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 153 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:15301580 original size:17 final size:17
Alignment explanation
Indices: 15301558--15301602 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
15301548 AAACTTTGAG
*
15301558 AAACTTATAAAATTTTC
1 AAACTTATAAAATTATC
15301575 AAACTTATAAAATTATC
1 AAACTTATAAAATTATC
15301592 AAACTT-TAAAA
1 AAACTTATAAAA
15301603 GGTCACACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (17 bp):
AAACTTATAAAATTATC
Found at i:15308443 original size:47 final size:49
Alignment explanation
Indices: 15308374--15308689 Score: 157
Period size: 47 Copynumber: 6.7 Consensus size: 49
15308364 AGGGTATAAT
* * *
15308374 GTCGATGCCATGTCGCAGACATGGTGTTACACTGGCTTATC-CATC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCAAATCGAA
* * *
15308421 GTCGATGCCATGTCCCAGACATGGTCTTAAACTGAC-TATCAAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATC-AAATCGAA
* * * * *
15308470 GCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTT-TCACATATC--C
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCA-A-ATCGAA
* * * * ** *
15308518 GTGCCAGTGCCATGTCCTAGACATAGTCTTACACTGAC--A-CATCTCGTA
1 GT-CGA-TGCCATGTCCCAGACATGGTCTTACACTGGCTTATCAAATCGAA
* * * ***
15308566 GACGATG-CATGTCCCAGACAT-GTCTTACACTAGC-TCTCGTCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCAAATCGAA
* * * **
15308611 TGTTGATGCCATAT-CCAGACATGGTCTTACACTCGG--TCTCATAAT-GTG
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTTATCA-AATCGAA
*
15308659 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
15308690 AGCACACAAA
Statistics
Matches: 207, Mismatches: 42, Indels: 41
0.71 0.14 0.14
Matches are distributed among these distances:
44 11 0.05
45 14 0.07
46 40 0.19
47 65 0.31
48 10 0.05
49 36 0.17
50 31 0.15
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCAAATCGAA
Found at i:15311793 original size:46 final size:46
Alignment explanation
Indices: 15311722--15311812 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
15311712 ATGCCACATA
** *
15311722 TCGCATCCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGT
1 TCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGT
*
15311768 TCGCATCCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGATG
1 TCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATG
15311813 ACCAAATATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
TCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGT
Found at i:15314587 original size:15 final size:15
Alignment explanation
Indices: 15314569--15314605 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
15314559 TACAAGATTG
*
15314569 AGAAACCTAGAATAA
1 AGAAACCTAGAAGAA
*
15314584 AGAAATCTAGAAGAA
1 AGAAACCTAGAAGAA
15314599 AGAAACC
1 AGAAACC
15314606 CAAGATACGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AGAAACCTAGAAGAA
Found at i:15317119 original size:14 final size:14
Alignment explanation
Indices: 15317100--15317126 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15317090 GGTGGCAAAG
15317100 TGGCATGTGACGCT
1 TGGCATGTGACGCT
15317114 TGGCATGTGACGC
1 TGGCATGTGACGC
15317127 CACTGGGGAG
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:0.15, C:0.22, G:0.37, T:0.26
Consensus pattern (14 bp):
TGGCATGTGACGCT
Found at i:15322985 original size:40 final size:40
Alignment explanation
Indices: 15322930--15323140 Score: 269
Period size: 40 Copynumber: 5.2 Consensus size: 40
15322920 TATTCGGATG
15322930 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
15322970 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * **
15323013 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
15323053 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
15323093 ATATCCGGGCTAAGACCCGAAGGCATTTACGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
15323133 ATATCCGG
1 ATATCCGG
15323141 CTTGTAACAC
Statistics
Matches: 152, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
40 114 0.75
41 1 0.01
43 37 0.24
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:15323073 original size:83 final size:80
Alignment explanation
Indices: 15322934--15323120 Score: 268
Period size: 83 Copynumber: 2.3 Consensus size: 80
15322924 CGGATGATAT
** **
15322934 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
15322999 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
15323017 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
15323082 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
*
15323097 CCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT
15323121 ACGCGAGTTG
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
79 2 0.02
80 31 0.32
83 63 0.66
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:15324707 original size:27 final size:27
Alignment explanation
Indices: 15324677--15324773 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 27
15324667 ATATTAAGTC
15324677 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACT-AGTGCTATATAATCAAACT
* *
15324704 CGCACAGTTGTGCTATATAATCAAACT
1 CGCACACTAGTGCTATATAATCAAACT
* * * *
15324731 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACAC-TAGTGCTATATAA-TCAAACT
15324760 CGCACACTTAGTGC
1 CGCACAC-TAGTGC
15324774 CAATCTCATG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 13 0.22
27 17 0.29
28 10 0.17
29 19 0.32
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTAGTGCTATATAATCAAACT
Found at i:15324723 original size:26 final size:28
Alignment explanation
Indices: 15324677--15324773 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
15324667 ATATTAAGTC
*
15324677 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
15324704 CGCACAGTT-GTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15324731 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15324760 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15324774 CAATCTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
26 13 0.22
27 19 0.32
28 9 0.15
29 19 0.32
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15332428 original size:46 final size:46
Alignment explanation
Indices: 15332361--15332453 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
15332351 CTACCACTTT
15332361 TCCCTACACACTTTCCTTACTATTATTTTTAAGCCTTATAGCCGAA
1 TCCCTACACACTTTCCTTACTATTATTTTTAAGCCTTATAGCCGAA
15332407 TCCCTACAC-CATTTCCTTACTATTATTTTTAAGCCTTATAGCCGAA
1 TCCCTACACAC-TTTCCTTACTATTATTTTTAAGCCTTATAGCCGAA
15332453 T
1 T
15332454 ATCACAAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.26, C:0.28, G:0.06, T:0.40
Consensus pattern (46 bp):
TCCCTACACACTTTCCTTACTATTATTTTTAAGCCTTATAGCCGAA
Found at i:15335467 original size:46 final size:46
Alignment explanation
Indices: 15335292--15335469 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
15335282 TGTAACACGC
* * * * *
15335292 CCATAAGCGAACTTGGACTCAACTCAACGAGCTTGGGTATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
15335338 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-AT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* * * * *
15335384 ACATCTCA-TGAACTCGAACTTAACTCAACGAGTTCGGATGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
15335431 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
15335470 CCCAAATATT
Statistics
Matches: 107, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 67 0.63
47 36 0.34
48 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:15338967 original size:40 final size:40
Alignment explanation
Indices: 15338923--15339172 Score: 210
Period size: 40 Copynumber: 6.3 Consensus size: 40
15338913 CTAACGGGGT
* * *
15338923 TAAGTCCCGAAGACATGTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCAT-TGTGCGAGTGACTAATATCCGGGC
* * * *
15338963 TAAGTCCCAAAGGCATTTGTGCGAGTTACAAAT-TTCGGGC
1 TAAGTCCCGAAGGCA-TTGTGCGAGTGACTAATATCCGGGC
* * *
15339003 TAAGTCCCGAAGGCATTGGTGTGAGTTACTAAT-TTCGGGC
1 TAAGTCCCGAAGGCATT-GTGCGAGTGACTAATATCCGGGC
15339043 TAAGTCCCGAAGGCATCTGTGCGAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCAT-TGTGCGAG-TGACTAATATCCGGGC
* * * * *
15339083 TAAGACCCGAAGGAATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCA-TTGTGCGAGTGACTAATATCCGGGC
* * * *
15339123 TAAGACCCGAAGGCCTTGTGCGAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTGTGCGAGTGACTAATATCCGGGC
*
15339161 TAAATCCCGAAG
1 TAAGTCCCGAAG
15339173 ATACTTGGGT
Statistics
Matches: 176, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
38 13 0.07
39 21 0.12
40 138 0.78
41 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTGTGCGAGTGACTAATATCCGGGC
Found at i:15344406 original size:7 final size:6
Alignment explanation
Indices: 15344392--15344428 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15344382 TGATGATGAA
*
15344392 AAAAAG -AAAAG AGAAAG AAAAAG AAAAA- AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
15344429 GGCTCTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:15344414 original size:17 final size:17
Alignment explanation
Indices: 15344392--15344428 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15344382 TGATGATGAA
* *
15344392 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAAAAAAAG
15344409 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
15344426 AAA
1 AAA
15344429 GGCTCTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:15345747 original size:40 final size:40
Alignment explanation
Indices: 15345688--15345825 Score: 190
Period size: 40 Copynumber: 3.5 Consensus size: 40
15345678 TGGATGATAA
* *
15345688 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
15345728 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
15345768 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
15345808 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
15345826 TACTTGGCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.17
40 74 0.83
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:15346946 original size:199 final size:199
Alignment explanation
Indices: 15346606--15347004 Score: 717
Period size: 199 Copynumber: 2.0 Consensus size: 199
15346596 TGAATAAATT
*
15346606 ATGTAATCGAACCTTGATGAATCTACTTTCATACGGAAGAAACAAAATGATCATATGAGTTGTAT
1 ATGTAATCGAACCTTGATGAATCTACTTTCATACGGAAGAAACAAAACGATCATATGAGTTGTAT
* *
15346671 TTTAAGGGATATTTAAGTTTCCGTGGAACAGGGCCAGAGCGATTTCTGGATCCCCTGATCTGAGT
66 TTTAAGGGATATTTAAGTTTCCGTGGAACAGGGCCAGAGCGATTTCTGGATCCCCTAATCTGACT
15346736 TTGGAAATTAATTATAAATTAACCAGAGATAATTAGAAGTCATACCATATATGTATAGATCCCTT
131 TTGGAAATTAATTATAAATTAACCAGAGATAATTAGAAGTCATACCATATATGTATAGATCCCTT
15346801 ATTG
196 ATTG
15346805 ATGTAATCGAACCTTGATGAATCTACTTTCATACGGAAGAAACAAAACGATCATATGAGTTGTAT
1 ATGTAATCGAACCTTGATGAATCTACTTTCATACGGAAGAAACAAAACGATCATATGAGTTGTAT
* * *
15346870 TTTAAGGGATATTTAAGTTTTCGTGGAACAGGGCTAGAGCGATTTCTGGATCCCTTAATCTGACT
66 TTTAAGGGATATTTAAGTTTCCGTGGAACAGGGCCAGAGCGATTTCTGGATCCCCTAATCTGACT
* *
15346935 TTGGAAATTAATTATAAATTAACCAGAGATAATTAGAAGTCATTCCATATATTTATAGATCCCTT
131 TTGGAAATTAATTATAAATTAACCAGAGATAATTAGAAGTCATACCATATATGTATAGATCCCTT
*
15347000 TTTG
196 ATTG
15347004 A
1 A
15347005 GTCTAGTTTC
Statistics
Matches: 191, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 191 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (199 bp):
ATGTAATCGAACCTTGATGAATCTACTTTCATACGGAAGAAACAAAACGATCATATGAGTTGTAT
TTTAAGGGATATTTAAGTTTCCGTGGAACAGGGCCAGAGCGATTTCTGGATCCCCTAATCTGACT
TTGGAAATTAATTATAAATTAACCAGAGATAATTAGAAGTCATACCATATATGTATAGATCCCTT
ATTG
Found at i:15350609 original size:40 final size:41
Alignment explanation
Indices: 15350548--15350797 Score: 239
Period size: 40 Copynumber: 6.3 Consensus size: 41
15350538 CTAACGGGGT
* * * *
15350548 TAAGTCCCGAAGACATGTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * *
15350588 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAAT-TCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
15350628 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
15350668 TAAGTCCCGAAGGCATCTGTGCGAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAATATCCGGGC
* * * * *
15350708 TAGGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * * * *
15350748 TAAGACCCGAAGGC-CTTATGCCAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
15350786 TAAGTCCCGAAG
1 TAAGTCCCGAAG
15350798 ATACTTGGGT
Statistics
Matches: 181, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 14 0.08
39 20 0.11
40 146 0.81
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:15351375 original size:56 final size:56
Alignment explanation
Indices: 15351309--15351420 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
15351299 GCAAAAATGG
15351309 CTTATATATACTTTGAGCATAGCATTATAATCATTTTGTATGTTGTTCATTGAGAA
1 CTTATATATACTTTGAGCATAGCATTATAATCATTTTGTATGTTGTTCATTGAGAA
*
15351365 CTTATATATACTTTGAGCATAGCATTATAATCGTTTTGTATGTTGTTCATTGAGAA
1 CTTATATATACTTTGAGCATAGCATTATAATCATTTTGTATGTTGTTCATTGAGAA
15351421 GTATGGAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (56 bp):
CTTATATATACTTTGAGCATAGCATTATAATCATTTTGTATGTTGTTCATTGAGAA
Found at i:15358191 original size:49 final size:49
Alignment explanation
Indices: 15358101--15358233 Score: 144
Period size: 49 Copynumber: 2.7 Consensus size: 49
15358091 CTTGTTGTGT
* * *
15358101 GTCAGTGTAACACCTGTCTGGGACATGGCATCGACACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACACGGCATCGACACCGATAGATGAAA
* * * *
15358150 G-CTAGTGTAAGACTTGTTTGGGACACGGCATCGGC-CTCGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACACGGCATCGACAC-CGATAGATGAAA
* * *
15358199 GTCAGTGTAAGACCTGTCTAGAACATGGCATCGAC
1 GTCAGTGTAAGACCTGTCTGGGACACGGCATCGAC
15358234 TTTGATGTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
48 2 0.03
49 65 0.96
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACACGGCATCGACACCGATAGATGAAA
Found at i:15358260 original size:45 final size:45
Alignment explanation
Indices: 15358205--15358296 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
15358195 GAAAGTCAGT
* *
15358205 GTAAGACCTGTCTAGAACATGGCATCGACTTTGATGTGTTAGCTA
1 GTAAGACCTGTCTAGAACATGGCATCGAATTTGATGTGTTAACTA
*
15358250 GTAAGACCTGTCTGGAACATGGCATCGAATTTGATGTGTTAACTA
1 GTAAGACCTGTCTAGAACATGGCATCGAATTTGATGTGTTAACTA
15358295 GT
1 GT
15358297 GTAAGACCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (45 bp):
GTAAGACCTGTCTAGAACATGGCATCGAATTTGATGTGTTAACTA
Found at i:15362313 original size:15 final size:15
Alignment explanation
Indices: 15362292--15362347 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
15362282 TATAGTATTG
*
15362292 TATCTTGGATTTCTG
1 TATCTTGGATTTCTC
* *
15362307 AATCTTGGGAGTTTCTT
1 TATCTT-GGA-TTTCTC
15362324 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
15362339 TATCTTGGA
1 TATCTTGGA
15362348 CCTTTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 19 0.54
16 6 0.17
17 10 0.29
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:15369621 original size:48 final size:48
Alignment explanation
Indices: 15369549--15369676 Score: 184
Period size: 48 Copynumber: 2.7 Consensus size: 48
15369539 TCATTAGGGA
*
15369549 ATACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
1 ATACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTACGAG
* * * *
15369597 TTACATTGATTTGGTTTTGGGCCATGATATTGGCACTTCGGGTACGAG
1 ATACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTACGAG
** *
15369645 ATACATTGAGTTGGCTTCAAGCCATGACATTG
1 ATACATTGAGTTGGCTTCGGGCCATGATATTG
15369677 CCACCTAGGG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (48 bp):
ATACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTACGAG
Found at i:15371334 original size:37 final size:37
Alignment explanation
Indices: 15371284--15371357 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
15371274 GTTTTAGGGA
15371284 AACTTAGAAAAATTTTCCTAAAAGAAGGTCACACGCC
1 AACTTAGAAAAATTTTCCTAAAAGAAGGTCACACGCC
15371321 AACTTAGAAAAATTTTCCTAAAAGAAGGTCACACGCC
1 AACTTAGAAAAATTTTCCTAAAAGAAGGTCACACGCC
15371358 CGTGTCCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.22
Consensus pattern (37 bp):
AACTTAGAAAAATTTTCCTAAAAGAAGGTCACACGCC
Found at i:15372883 original size:16 final size:15
Alignment explanation
Indices: 15372859--15372888 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15372849 AACTGTTTTA
15372859 TTACAAATTTCACTC
1 TTACAAATTTCACTC
15372874 TTACATAATTTCACT
1 TTACA-AATTTCACT
15372889 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:15373161 original size:49 final size:50
Alignment explanation
Indices: 15373100--15373224 Score: 171
Period size: 50 Copynumber: 2.5 Consensus size: 50
15373090 CTGGTATGCA
* *
15373100 TAGTAGCATGCACTTAGTACTACACATGCGACC-AACAACCCGATACAGG
1 TAGTAGCCTGCACTTAGTACTACACAAGCGACCTAACAACCCGATACAGG
* * * * * *
15373149 TAGTAGCCTGCACTTACTACTACACAAGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACAAGCGACCTAACAACCCGATACAGG
15373199 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
15373225 CGTGATTGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 29 0.44
50 37 0.56
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACAAGCGACCTAACAACCCGATACAGG
Found at i:15376562 original size:27 final size:27
Alignment explanation
Indices: 15376531--15376708 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15376521 TAAATTGTAC
15376531 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15376558 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15376584 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15376612 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15376640 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15376667 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15376694 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15376709 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15376645 original size:82 final size:81
Alignment explanation
Indices: 15376532--15376687 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15376522 AAATTGTACA
* *
15376532 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15376596 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15376613 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15376678 TGCGAGTTGA
65 TGCGAATTGA
15376688 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15376699 original size:82 final size:81
Alignment explanation
Indices: 15376528--15376708 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
15376518 GATTAAATTG
* *
15376528 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15376593 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15376609 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15376673 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15376691 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15376709 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15384752 original size:27 final size:27
Alignment explanation
Indices: 15384721--15384898 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15384711 TAAATTGTAC
15384721 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15384748 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15384774 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15384802 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15384830 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15384857 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15384884 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15384899 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15384835 original size:82 final size:81
Alignment explanation
Indices: 15384722--15384877 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15384712 AAATTGTACA
* *
15384722 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15384786 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15384803 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15384868 TGCGAGTTGA
65 TGCGAATTGA
15384878 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15384889 original size:82 final size:81
Alignment explanation
Indices: 15384718--15384898 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
15384708 GATTAAATTG
* *
15384718 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15384783 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15384799 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15384863 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15384881 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15384899 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15389462 original size:46 final size:46
Alignment explanation
Indices: 15389362--15389578 Score: 178
Period size: 46 Copynumber: 4.7 Consensus size: 46
15389352 GGGTGCAGGT
* *
15389362 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCATA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTAAATCTCA-AG
* *
15389408 GCCAATGCATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATCTCAAG
* * * ** *
15389454 GCCGATGCATGTCTCAGACATGTCATACACTAGCATT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTAAATCTCAAG
* * * *
15389500 GTCGATGCCATATCCCTGACATCGTCTTACACTGGCTCTCATAATGT---G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-A-AATCTCAAG
15389548 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
15389579 AGCTAACTCA
Statistics
Matches: 136, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 64 0.47
47 26 0.19
48 18 0.13
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATCTCAAG
Found at i:15395168 original size:17 final size:17
Alignment explanation
Indices: 15395146--15395181 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15395136 ACCGAAGGCT
15395146 TCTCTCTCCTAATCAAG
1 TCTCTCTCCTAATCAAG
15395163 TCTCTCTCCTAATCAAG
1 TCTCTCTCCTAATCAAG
15395180 TC
1 TC
15395182 CATACCTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.36, G:0.06, T:0.36
Consensus pattern (17 bp):
TCTCTCTCCTAATCAAG
Found at i:15395814 original size:20 final size:21
Alignment explanation
Indices: 15395789--15395828 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15395779 GCTCTGGAAC
15395789 AGGGC-ACACGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
*
15395809 AGGGCAACACGCTCGTGTAG
1 AGGGCAACACGCCCGTGTAG
15395829 CCATTAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:15397023 original size:46 final size:47
Alignment explanation
Indices: 15396937--15397103 Score: 132
Period size: 46 Copynumber: 3.6 Consensus size: 47
15396927 TATCTGTGCC
* * * *
15396937 GATGCCATGTCCCAAACATGGTCTTACACTGAC--ATATCTCATA-GCT
1 GATGCCATATCCCAGACAT-GTCTTACACTGGCTTAAATCTCA-AGGCT
*
15396983 GATG-CATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAGGCC
1 GATGCCATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAGGCT
* * * * ** *
15397029 GATG-CATGTCTCAGACATGTCATACACTAGCATT-CGTCTCAATG-T
1 GATGCCATATCCCAGACATGTCTTACACTGGC-TTAAATCTCAAGGCT
*
15397074 CGATGCCATATCCTAGACATGTCTTACACT
1 -GATGCCATATCCCAGACATGTCTTACACT
15397104 AGCTCACACA
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 51 0.52
47 22 0.22
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (47 bp):
GATGCCATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAGGCT
Found at i:15397102 original size:47 final size:46
Alignment explanation
Indices: 15396983--15397107 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
15396973 TCTCATAGCT
* *
15396983 GATGCATATCCCAGACATGTCTTACACTGGCTTAAATCTCAAGGCC
1 GATGCATATCCTAGACATGTCTTACACTAGCTTAAATCTCAAGGCC
* * ** * *
15397029 GATGCATGT-CTCAGACATGTCATACACTAGCATT-CGTCTCAATGTC
1 GATGCATATCCT-AGACATGTCTTACACTAGC-TTAAATCTCAAGGCC
15397075 GATGCCATATCCTAGACATGTCTTACACTAGCT
1 GATG-CATATCCTAGACATGTCTTACACTAGCT
15397108 CACACAAGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.02
46 38 0.58
47 24 0.37
48 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (46 bp):
GATGCATATCCTAGACATGTCTTACACTAGCTTAAATCTCAAGGCC
Found at i:15399228 original size:15 final size:15
Alignment explanation
Indices: 15399194--15399253 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
15399184 TATAGATAAC
* * *
15399194 AAGAAAACCAGGATC
1 AAGAAATCCAAGATA
*
15399209 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
15399224 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
15399239 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
15399254 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:15402096 original size:27 final size:27
Alignment explanation
Indices: 15402065--15402120 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
15402055 AGGGGGGAGT
15402065 AAGCTTAAAGCTTAGTAAGTCCATATG
1 AAGCTTAAAGCTTAGTAAGTCCATATG
15402092 AAGCTTAAAGCTTAGTAAGTCCATATG
1 AAGCTTAAAGCTTAGTAAGTCCATATG
15402119 AA
1 AA
15402121 AATAATAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (27 bp):
AAGCTTAAAGCTTAGTAAGTCCATATG
Found at i:15402773 original size:16 final size:15
Alignment explanation
Indices: 15402749--15402778 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15402739 AACTGTTTTA
15402749 TTACAAATTTCACTC
1 TTACAAATTTCACTC
15402764 TTACATAATTTCACT
1 TTACA-AATTTCACT
15402779 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:15403045 original size:49 final size:49
Alignment explanation
Indices: 15402989--15403164 Score: 183
Period size: 50 Copynumber: 3.5 Consensus size: 49
15402979 CTGGTACGCA
15402989 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGGACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGGACACG
* * * ** * *
15403038 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTCTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAACAATC-CGGG-ACACG
* * * * *
15403089 TAGTAGCCAGCACTTAGTACTACACATGCAACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGGACACG
* *
15403139 TAGTCGCCTGAACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
15403165 CGTGACCTAA
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
49 31 0.31
50 34 0.34
51 34 0.34
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGGACACG
Found at i:15425898 original size:47 final size:47
Alignment explanation
Indices: 15425820--15426281 Score: 782
Period size: 47 Copynumber: 9.7 Consensus size: 47
15425810 CCCTTCGGGA
* * * * * *
15425820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15425866 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15425914 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15425961 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15426008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15426055 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15426102 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15426151 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15426200 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15426247 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
15426282 AGAATCCTAA
Statistics
Matches: 402, Mismatches: 10, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
46 2 0.00
47 302 0.75
48 2 0.00
49 96 0.24
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15426321 original size:192 final size:188
Alignment explanation
Indices: 15425820--15426281 Score: 705
Period size: 192 Copynumber: 2.4 Consensus size: 188
15425810 CCCTTCGGGA
* * * * * * *
15425820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATACA
* * *
15425884 CTTTCACATTCATCACATCGGCTATTAGGCCTTATC--ACATATATACACTTTCACATTCATCAC
65 CTTTCACATTCATCACATCAGC-A-TAGGCCTAATCAAATATATATACACTTTCACATTCATCAC
* *
15425947 ATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
128 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15426008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
15426073 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCAG-CA-TAGGCCTAATCAAATATATATACACTTTCACATTCATCACA
15426138 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15426200 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
15426265 TTTCACATTCATCACAT
66 TTTCACATTCATCACAT
15426282 AGAATCCTAA
Statistics
Matches: 258, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
188 88 0.34
189 3 0.01
190 47 0.18
192 120 0.47
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCAGCATAGGCCTAATCAAATATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15429354 original size:40 final size:40
Alignment explanation
Indices: 15429309--15429669 Score: 535
Period size: 40 Copynumber: 9.1 Consensus size: 40
15429299 CGAATACACG
* * * * *
15429309 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * *** * *
15429349 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
15429389 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
15429429 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
15429469 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
15429509 TCACTAGCATAAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
15429549 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
15429589 TCACTAGCATTAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
15429629 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
15429668 TC
1 TC
15429670 GTCGAGACCT
Statistics
Matches: 297, Mismatches: 24, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 4 0.01
40 293 0.99
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:15432010 original size:47 final size:47
Alignment explanation
Indices: 15431932--15432526 Score: 840
Period size: 47 Copynumber: 12.6 Consensus size: 47
15431922 CCCTTCGGGA
* * * *
15431932 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
15431979 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
15432026 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
15432073 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
15432120 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
15432169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
15432216 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
15432265 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
15432312 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
15432359 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
15432406 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
15432453 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
15432500 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
15432527 ACCAACCCTT
Statistics
Matches: 526, Mismatches: 16, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 432 0.82
48 1 0.00
49 92 0.17
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:15436457 original size:31 final size:31
Alignment explanation
Indices: 15436422--15436495 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
15436412 ATATACTGGG
15436422 CCGAAGCCTTTACATTATTCATACCACTAGC
1 CCGAAGCCTTTACATTATTCATACCACTAGC
** * *
15436453 CCGAAGGGTTT-CATTATTCATATCACTAGG
1 CCGAAGCCTTTACATTATTCATACCACTAGC
15436483 CCGAAGCCTTTAC
1 CCGAAGCCTTTAC
15436496 TGTAAACGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 26 0.72
31 10 0.28
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (31 bp):
CCGAAGCCTTTACATTATTCATACCACTAGC
Found at i:15437382 original size:30 final size:30
Alignment explanation
Indices: 15437348--15437408 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15437338 TCTCTAACTC
*
15437348 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
* * * *
15437378 AAACTTTTGTAGAATTACGATTTTACCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
15437408 A
1 A
15437409 GGCTCAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTACCCCT
Found at i:15440440 original size:42 final size:42
Alignment explanation
Indices: 15440336--15440493 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 42
15440326 ACCAATACCA
* ** * *
15440336 ATCCCAGATATGGTGTTACATGTAA-TCTCATATCGATGCCAAT
1 ATCCCAGATATGGTCTTACA-CAAAGTCTTAAATCGATGCC-AT
* * * *
15440379 AGCCCAGCTACGGGCTTACACAAAGTCTTAAATCGATGCCAT
1 ATCCCAGATATGGTCTTACACAAAGTCTTAAATCGATGCCAT
*
15440421 ATCCCAGATATGGTCTTACACAAAGT-TT-CATACTGATGCCAT
1 ATCCCAGATATGGTCTTACACAAAGTCTTAAAT-C-GATGCCAT
**
15440463 ATCCCAGATATGGTCTTACACGTAGTCTTAA
1 ATCCCAGATATGGTCTTACACAAAGTCTTAA
15440494 TAACCCTAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 58 0.62
43 30 0.32
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATCCCAGATATGGTCTTACACAAAGTCTTAAATCGATGCCAT
Found at i:15450077 original size:27 final size:27
Alignment explanation
Indices: 15450047--15450191 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
15450037 GTAGGCTAGT
15450047 ATTACTAAAATGCCCCTGTAAGATAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
* *
15450074 ATTACTGAAATG-CCCTGTAGGATAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
* *
15450100 ATTACTAAGATGCCCCTGTAGGATAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
* * *
15450127 ATTACTGAGATGCCCCTGTAAGGTAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
* * * *
15450154 ATTACTGAGATGCCCTTGTAAGGTAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
15450181 ATTACTAAAAT
1 ATTACTAAAAT
15450192 ACCCTTGGTC
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 23 0.21
27 84 0.79
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
ATTACTAAAATGCCCCTGTAAGATAGA
Found at i:15450115 original size:53 final size:52
Alignment explanation
Indices: 15450035--15450196 Score: 207
Period size: 53 Copynumber: 3.0 Consensus size: 52
15450025 AATCTCATAT
* *
15450035 CTGTAGGCTAGTATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCC
1 CTGTAGG-TAGAATTACTAAGATGCCCCTGTAAGATAGAATTACTGAAATGCC
* *
15450088 CTGTAGGATAGAATTACTAAGATGCCCCTGTAGGATAGAATTACTGAGATGCCC
1 CTGTAGG-TAGAATTACTAAGATGCCCCTGTAAGATAGAATTACTGAAATG-CC
* * * * *
15450142 CTGTAAGGTAGAATTACTGAGATGCCCTTGTAAGGTAGAATTACTAAAATACC
1 CTGT-AGGTAGAATTACTAAGATGCCCCTGTAAGATAGAATTACTGAAATGCC
15450195 CT
1 CT
15450197 TGGTCTACAA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
53 50 0.53
54 42 0.44
55 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (52 bp):
CTGTAGGTAGAATTACTAAGATGCCCCTGTAAGATAGAATTACTGAAATGCC
Found at i:15450168 original size:80 final size:81
Alignment explanation
Indices: 15450035--15450188 Score: 231
Period size: 80 Copynumber: 1.9 Consensus size: 81
15450025 AATCTCATAT
* *
15450035 CTGTAGGCTAGTATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCCC-TGT-AGGATA
1 CTGTAGGATAGAATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCCCTTGTAAGG-TA
15450098 GAATTACTAAGATGCCC
65 GAATTACTAAGATGCCC
* * * *
15450115 CTGTAGGATAGAATTACTGAGATGCCCCTGTAAGGTAGAATTACTGAGATGCCCTTGTAAGGTAG
1 CTGTAGGATAGAATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCCCTTGTAAGGTAG
15450180 AATTACTAA
66 AATTACTAA
15450189 AATACCCTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 48 0.73
81 15 0.23
82 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (81 bp):
CTGTAGGATAGAATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCCCTTGTAAGGTAG
AATTACTAAGATGCCC
Found at i:15450210 original size:27 final size:26
Alignment explanation
Indices: 15450180--15450277 Score: 106
Period size: 27 Copynumber: 3.7 Consensus size: 26
15450170 TGTAAGGTAG
* *
15450180 AATTACTAAAATACCCTTGGTCTACAA
1 AATTACCAAAATACCCTTGGT-TAAAA
* *
15450207 AATTACCAAAATACCCTCGATTAGAAA
1 AATTACCAAAATACCCTTGGTTA-AAA
* **
15450234 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGG-TTAAAA
15450261 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
15450278 GATTTGTGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.03
27 55 0.93
28 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (26 bp):
AATTACCAAAATACCCTTGGTTAAAA
Found at i:15450238 original size:54 final size:54
Alignment explanation
Indices: 15450180--15450439 Score: 168
Period size: 54 Copynumber: 4.8 Consensus size: 54
15450170 TGTAAGGTAG
* *
15450180 AATTACTAAAATACCCTTGGTCTACAAAATTACCAAAATACCCTCGATTAGAAA
1 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGAAA
* ** * **
15450234 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT-GATTTGTGA
1 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGAAA
** ** * *** ** * * * ** * *
15450287 AATTACTGAAATACTATCGCCCTGTAAAATCATCGAAACCCCCTCGATTTGTAA
1 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGAAA
* ** *
15450341 AATTACCAAAATACCCTTGATTTACAAAATTA-CAGAAATACATTTGACTTTA-AAA
1 AATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAATACCCTCGA--TTAGAAA
* * *
15450396 AATTA-CAGAAATACCATTGGTTTACAAAATTATCGAAATACCCT
1 AATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCT
15450440 TGGTTTGTAG
Statistics
Matches: 153, Mismatches: 47, Indels: 11
0.73 0.22 0.05
Matches are distributed among these distances:
53 37 0.24
54 77 0.50
55 36 0.24
56 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGAAA
Found at i:15450357 original size:27 final size:27
Alignment explanation
Indices: 15450205--15450381 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
15450195 CTTGGTCTAC
* *
15450205 AAAATTACCAAAATACCCTCGATTAGA
1 AAAATTACCAAAATACCCTCGATTTGT
*
15450232 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
15450259 AAAATTACCAAAATACCCT-GATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* ** ** ***
15450285 GAAATTACTGAAATACTATCGCCCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * **
15450312 AAAATCATCGAAACCCCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* **
15450339 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTGT
15450366 AAAATTA-CAGAAATAC
1 AAAATTACCA-AAATAC
15450382 ATTTGACTTT
Statistics
Matches: 115, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
26 23 0.20
27 92 0.80
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Done.