Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 75 of 378
Found at i:19965944 original size:15 final size:15
Alignment explanation
Indices: 19965886--19965964 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
19965876 CAAAGATAAC
*
19965886 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
19965900 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
19965915 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
19965929 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
19965944 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
19965959 AAGAAA
1 AAGAAA
19965965 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:19965973 original size:15 final size:15
Alignment explanation
Indices: 19965897--19965973 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
19965887 AGAAAACCGA
19965897 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
19965912 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
19965926 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
19965940 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
19965956 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
19965971 ATA
1 ATA
19965974 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:19969028 original size:32 final size:33
Alignment explanation
Indices: 19968967--19969037 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 33
19968957 TCGGATGCCT
19968967 AGTTACATCTCACGAACTCGGACTCAACTCAACG
1 AGTT-CATCTCACGAACTCGGACTCAACTCAACG
19969001 AGTTCATCTCACGAACTC-GACTCAACTCAACG
1 AGTTCATCTCACGAACTCGGACTCAACTCAACG
19969033 AGTTC
1 AGTTC
19969038 GGACATTCGC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 19 0.51
33 14 0.38
34 4 0.11
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (33 bp):
AGTTCATCTCACGAACTCGGACTCAACTCAACG
Found at i:19969105 original size:46 final size:44
Alignment explanation
Indices: 19969013--19969097 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 44
19969003 TTCATCTCAC
* *
19969013 GAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
19969058 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTC-GACTCAACTCAACGAGTTCGGAATGCGCAACCAT
19969098 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 9 0.25
45 6 0.17
46 21 0.58
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (44 bp):
GAACTCGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:19979642 original size:3 final size:3
Alignment explanation
Indices: 19979634--19979692 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
19979624 TGCAATTTGC
19979634 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19979682 AAT AAT AAT AA
1 AAT AAT AAT AA
19979693 AGTATAAACA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19984504 original size:42 final size:42
Alignment explanation
Indices: 19984455--19984539 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
19984445 ATGGCCTAGA
*
19984455 CACACGGGCGTGTGGTCGATCATATGGCTAAGTCAGTATACT
1 CACACGGGCGTGTGGTCGATCATATGGCTAAGCCAGTATACT
19984497 CACACGGGCGTGTGGTCGATCATATGGCTAAGCCAGTATACT
1 CACACGGGCGTGTGGTCGATCATATGGCTAAGCCAGTATACT
19984539 C
1 C
19984540 TCCAGTTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (42 bp):
CACACGGGCGTGTGGTCGATCATATGGCTAAGCCAGTATACT
Found at i:19989548 original size:23 final size:24
Alignment explanation
Indices: 19989497--19989555 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
19989487 AATTTTAAAA
19989497 TTATTTTA-AAATATATTGAACTAC
1 TTATTTTATAAATATATT-AACTAC
*
19989521 ATATTTTATAAATATATT-ACT-C
1 TTATTTTATAAATATATTAACTAC
*
19989543 GTTATTTTTTAAA
1 -TTATTTTATAAA
19989556 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 1 0.03
23 13 0.43
24 7 0.23
25 9 0.30
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (24 bp):
TTATTTTATAAATATATTAACTAC
Found at i:19991567 original size:23 final size:23
Alignment explanation
Indices: 19991523--19991567 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
19991513 TGCTCATATC
* * *
19991523 TCTACTAGTATTAAATCATTTAT
1 TCTACTACTACTAAAACATTTAT
*
19991546 TCTACTACTACTAAAACTTTTA
1 TCTACTACTACTAAAACATTTA
19991568 GTGTGTGCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (23 bp):
TCTACTACTACTAAAACATTTAT
Found at i:19996840 original size:12 final size:12
Alignment explanation
Indices: 19996823--19996853 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19996813 TTCTCTTTTA
19996823 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
19996835 TTTTTCTTTCTC
1 TTTTTCTTTCCC
19996847 TTTTTCT
1 TTTTTCT
19996854 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:20000768 original size:71 final size:71
Alignment explanation
Indices: 20000647--20000791 Score: 191
Period size: 71 Copynumber: 2.0 Consensus size: 71
20000637 TACAAGCTTT
* *** * * ***
20000647 ATTTGATGTTGCTCACTCAAACTGTCGAGAATCTGTAATATATGCTGGATCTCAGCCATTGGTAA
1 ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
20000712 AGAATA
66 AGAATA
* *
20000718 ATTTGATGTTGCTCACTCAAGCTATCGAGAATCCACAACATATGCCGGATCTCATCCATCAATAA
1 ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
20000783 AGAATA
66 AGAATA
20000789 ATT
1 ATT
20000792 CATATTCAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (71 bp):
ATTTGATGTTGCTCACTCAAACTATCGAGAATCCACAACATATGCCGGATCTCAGCCATCAATAA
AGAATA
Found at i:20002818 original size:34 final size:34
Alignment explanation
Indices: 20002775--20002844 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
20002765 AACATGATCA
*
20002775 AAACTAAGCACCAACTAGGCGATATATCAAGATT
1 AAACTAAGCACCAACTAGGCCATATATCAAGATT
*
20002809 AAACTAAGCACCAATTAGGCCATATATCAAGATT
1 AAACTAAGCACCAACTAGGCCATATATCAAGATT
20002843 AA
1 AA
20002845 CATACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (34 bp):
AAACTAAGCACCAACTAGGCCATATATCAAGATT
Found at i:20014412 original size:3 final size:3
Alignment explanation
Indices: 20014404--20014429 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20014394 CAAAAGAAAT
20014404 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
20014430 CAAGCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20014523 original size:6 final size:6
Alignment explanation
Indices: 20014512--20014541 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
20014502 TCGCTGTGAC
20014512 TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT
1 TGCCTT TGCCTT TGCCTT TGCCTT TGCCTT
20014542 AGCTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TGCCTT
Found at i:20019547 original size:2 final size:2
Alignment explanation
Indices: 20019540--20019575 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20019530 CATCATCATC
20019540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20019576 TATGTTAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20020353 original size:26 final size:23
Alignment explanation
Indices: 20020300--20020346 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
20020290 ACACTTCTTA
20020300 TAAATAATATACTTTGTCATTAC
1 TAAATAATATACTTTGTCATTAC
*
20020323 TAAATAATATATTTTGTCATTAC
1 TAAATAATATACTTTGTCATTAC
20020346 T
1 T
20020347 TTTAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAATAATATACTTTGTCATTAC
Found at i:20021556 original size:44 final size:44
Alignment explanation
Indices: 20021493--20021577 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
20021483 TGATCAATGG
20021493 TAGAACACAAAAAGTGGAATATGAAGCCTTATCTACTATCTATT
1 TAGAACACAAAAAGTGGAATATGAAGCCTTATCTACTATCTATT
*
20021537 TAGAACACAAAAAGTGGAATATGAAGCTTTATCTACTATCT
1 TAGAACACAAAAAGTGGAATATGAAGCCTTATCTACTATCT
20021578 GTTTTCATTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (44 bp):
TAGAACACAAAAAGTGGAATATGAAGCCTTATCTACTATCTATT
Found at i:20039339 original size:13 final size:13
Alignment explanation
Indices: 20039312--20039365 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
20039302 AAATAAACCG
*
20039312 TTAATAAAATCAA
1 TTAATCAAATCAA
* *
20039325 TTGATCAAATTAA
1 TTAATCAAATCAA
*
20039338 TTAATAAAATCAA
1 TTAATCAAATCAA
20039351 TTAATCAAATCAA
1 TTAATCAAATCAA
20039364 TT
1 TT
20039366 GCTGCAATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (13 bp):
TTAATCAAATCAA
Found at i:20039341 original size:26 final size:26
Alignment explanation
Indices: 20039312--20039365 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
20039302 AAATAAACCG
* *
20039312 TTAATAAAATCAATTGATCAAATTAA
1 TTAATAAAATCAATTAATCAAATCAA
20039338 TTAATAAAATCAATTAATCAAATCAA
1 TTAATAAAATCAATTAATCAAATCAA
20039364 TT
1 TT
20039366 GCTGCAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (26 bp):
TTAATAAAATCAATTAATCAAATCAA
Found at i:20045609 original size:52 final size:51
Alignment explanation
Indices: 20045545--20045696 Score: 160
Period size: 52 Copynumber: 2.9 Consensus size: 51
20045535 ATCACATCAT
* * * *
20045545 ACCGATGCCATAGCCCAGCCATGGTATTATATGAGAATACATATCACAATGC
1 ACCGATG-CATAGCCCAGCTATGGTCTTATACGAGAACACATATCACAATGC
* * ** *
20045597 ACCGATGTCATAGCCCAGCTTTGGTCTTATACGGGTGCACATATCACAATGT
1 ACCGATG-CATAGCCCAGCTATGGTCTTATACGAGAACACATATCACAATGC
* * **
20045649 ACCAATGCTATAGCCCAGCTATGGTCTTATACGGGTGCACATATCACA
1 ACCGATGC-ATAGCCCAGCTATGGTCTTATACGAGAACACATATCACA
20045697 TCTATTCCGT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 1 0.01
52 86 0.99
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
ACCGATGCATAGCCCAGCTATGGTCTTATACGAGAACACATATCACAATGC
Found at i:20047291 original size:24 final size:24
Alignment explanation
Indices: 20047262--20047365 Score: 97
Period size: 24 Copynumber: 4.3 Consensus size: 24
20047252 CTGTATAATG
*
20047262 GGAAGCTCATAAGAGCCATAATTA
1 GGAAGCTCAGAAGAGCCATAATTA
* * *
20047286 GGAAGCTCATACGAGCCAATAA-CA
1 GGAAGCTCAGAAGAGCC-ATAATTA
*
20047310 GGTAGCTTC-GAAGAGCCATTAATTA
1 GGAAGC-TCAGAAGAGCCA-TAATTA
* *
20047335 GGAAGCTCGGAATAGCCAT-ATTA
1 GGAAGCTCAGAAGAGCCATAATTA
20047358 GGAAGCTC
1 GGAAGCTC
20047366 CGGAGAGTCA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
23 13 0.19
24 34 0.51
25 20 0.30
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (24 bp):
GGAAGCTCAGAAGAGCCATAATTA
Found at i:20055787 original size:15 final size:15
Alignment explanation
Indices: 20055753--20055802 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
20055743 TTTAAGTATA
* *
20055753 TATATAAAATAAAAT
1 TATATAATATAATAT
*
20055768 AATATAATATAATAT
1 TATATAATATAATAT
* *
20055783 TATATTATATTATAT
1 TATATAATATAATAT
20055798 TATAT
1 TATAT
20055803 TATACTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATAATATAATAT
Found at i:20055803 original size:15 final size:15
Alignment explanation
Indices: 20055769--20055811 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
20055759 AAATAAAATA
*
20055769 ATATAATATAATATT
1 ATATTATATAATATT
*
20055784 ATATTATATTATATT
1 ATATTATATAATATT
20055799 ATATTATACTAAT
1 ATATTATA-TAAT
20055812 TAAATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTATATAATATT
Found at i:20055885 original size:13 final size:14
Alignment explanation
Indices: 20055869--20055903 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
20055859 GAAACAGGGG
20055869 AAAGAAAGAA-GAA
1 AAAGAAAGAACGAA
*
20055882 AAAGAGAGAACGAA
1 AAAGAAAGAACGAA
20055896 AAAGAAAG
1 AAAGAAAG
20055904 GGGGAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAACGAA
Found at i:20058417 original size:13 final size:13
Alignment explanation
Indices: 20058399--20058424 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20058389 TTTAACATTA
20058399 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
20058412 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
20058425 TTGTGGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:20060450 original size:6 final size:5
Alignment explanation
Indices: 20060420--20060449 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
20060410 GCCCTCTGTG
20060420 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
20060450 ACACAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:20064886 original size:6 final size:5
Alignment explanation
Indices: 20064856--20064885 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
20064846 CCAATTTTTG
20064856 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
20064886 ACACACAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:20082097 original size:14 final size:14
Alignment explanation
Indices: 20082077--20082159 Score: 94
Period size: 14 Copynumber: 5.9 Consensus size: 14
20082067 TGCTCATTTG
* *
20082077 AATTCATAGATACA
1 AATTCATACATGCA
*
20082091 TATTCATACATGCA
1 AATTCATACATGCA
* *
20082105 GATTCATAAATGCA
1 AATTCATACATGCA
*
20082119 AATTCATACATGCG
1 AATTCATACATGCA
* *
20082133 AATTCATAGATACA
1 AATTCATACATGCA
20082147 AATTCATACATGC
1 AATTCATACATGC
20082160 GGATTCATAG
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 56 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (14 bp):
AATTCATACATGCA
Found at i:20082165 original size:14 final size:14
Alignment explanation
Indices: 20082078--20082200 Score: 86
Period size: 14 Copynumber: 8.8 Consensus size: 14
20082068 GCTCATTTGA
* * *
20082078 ATTCATAGATACAT
1 ATTCATACATGCAG
20082092 ATTCATACATGCAG
1 ATTCATACATGCAG
* *
20082106 ATTCATAAATGCAA
1 ATTCATACATGCAG
20082120 ATTCATACATGC-G
1 ATTCATACATGCAG
* * *
20082133 AATTCATAGATACAA
1 -ATTCATACATGCAG
*
20082148 ATTCATACATGCGG
1 ATTCATACATGCAG
* **
20082162 ATTCATAGATATAG
1 ATTCATACATGCAG
* * **
20082176 ATCCATAAATGTGG
1 ATTCATACATGCAG
20082190 ATTCATACATG
1 ATTCATACATG
20082201 TGAATTGATA
Statistics
Matches: 83, Mismatches: 24, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
14 83 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (14 bp):
ATTCATACATGCAG
Found at i:20082182 original size:28 final size:28
Alignment explanation
Indices: 20082078--20082196 Score: 148
Period size: 28 Copynumber: 4.2 Consensus size: 28
20082068 GCTCATTTGA
* *
20082078 ATTCATAGATACATATTCATACATGCAG
1 ATTCATAGATACAAATTCATACATGCGG
* * *
20082106 ATTCATAAATGCAAATTCATACATGCGA
1 ATTCATAGATACAAATTCATACATGCGG
20082134 ATTCATAGATACAAATTCATACATGCGG
1 ATTCATAGATACAAATTCATACATGCGG
* * * * *
20082162 ATTCATAGATATAGATCCATAAATGTGG
1 ATTCATAGATACAAATTCATACATGCGG
20082190 ATTCATA
1 ATTCATA
20082197 CATGTGAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 78 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (28 bp):
ATTCATAGATACAAATTCATACATGCGG
Found at i:20086611 original size:119 final size:120
Alignment explanation
Indices: 20086388--20086612 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
20086378 TCGAATGATG
* *
20086388 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCAAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTG
*
20086453 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * ** *
20086508 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCAAAGGCAT
* *
20086570 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
64 TGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTG
20086613 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 1 0.01
119 72 0.78
120 19 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTG
GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:20086619 original size:40 final size:40
Alignment explanation
Indices: 20086388--20086612 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
20086378 TCGAATGATG
* * *
20086388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20086428 TCCGGACTAAGAT-CCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20086468 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20086508 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20086547 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20086588 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20086613 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 37 0.23
40 116 0.72
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20086635 original size:79 final size:80
Alignment explanation
Indices: 20086388--20086610 Score: 328
Period size: 79 Copynumber: 2.8 Consensus size: 80
20086378 TCGAATGATG
* * * * *
20086388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCAAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCAT
20086451 TGGTGCGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
20086468 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATT
20086531 GGTGCGAGTTACTAAA
65 GGTGCGAGTTACTAAA
* *
20086547 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
20086611 TGAACGAGTA
Statistics
Matches: 131, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
79 74 0.56
80 50 0.38
81 7 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:20086643 original size:79 final size:79
Alignment explanation
Indices: 20086388--20086645 Score: 283
Period size: 79 Copynumber: 3.3 Consensus size: 79
20086378 TCGAATGATG
* * * * * *
20086388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGACTAAGATCCAAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA-CCGGGCTAAG-CCCGAAGGCAT
**
20086451 TGGTGCGAGTTACTAAA
63 TGGAACGAGTTACTAAA
*
20086468 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
**
20086533 TGCGAGTTACTAAA
66 AACGAGTTACTAAA
*
20086547 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
* *
20086611 TGAACGAG-TAGCTATA
64 GGAACGAGTTA-CTAAA
* *
20086627 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20086646 TACGTGATTC
Statistics
Matches: 158, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.01
79 88 0.56
80 59 0.37
81 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
AACGAGTTACTAAA
Found at i:20089806 original size:46 final size:45
Alignment explanation
Indices: 20089746--20090011 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
20089736 TTTGACATGA
* * * * * *
20089746 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
20089792 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
20089838 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
20089884 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
20089930 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
20089968 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
20090012 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:20089975 original size:38 final size:38
Alignment explanation
Indices: 20089924--20089999 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
20089914 ACATTTTATA
20089924 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
20089962 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
20090000 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:20092164 original size:11 final size:11
Alignment explanation
Indices: 20092148--20092199 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
20092138 TATACTAAAT
20092148 AAATAATAATA
1 AAATAATAATA
*
20092159 AAATAAT-ATT
1 AAATAATAATA
* *
20092169 AAATATCTCATA
1 AAATA-ATAATA
*
20092181 AAATATTAATA
1 AAATAATAATA
20092192 AAATAATA
1 AAATAATA
20092200 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:20093162 original size:17 final size:17
Alignment explanation
Indices: 20093140--20093177 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20093130 GTACTTCTAC
20093140 AATTCA-ATTTAATCCAA
1 AATTCATATTT-ATCCAA
*
20093157 AATTCATATTTATGCAA
1 AATTCATATTTATCCAA
20093174 AATT
1 AATT
20093178 ACAAATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (17 bp):
AATTCATATTTATCCAA
Found at i:20094662 original size:24 final size:24
Alignment explanation
Indices: 20094630--20094678 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20094620 TTACCAACAC
20094630 TTCACATTAAAACTCATGGATTTT
1 TTCACATTAAAACTCATGGATTTT
20094654 TTCACATTAAAACTCATGGATTTT
1 TTCACATTAAAACTCATGGATTTT
20094678 T
1 T
20094679 ACACTTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (24 bp):
TTCACATTAAAACTCATGGATTTT
Found at i:20096744 original size:48 final size:48
Alignment explanation
Indices: 20096661--20096756 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
20096651 CAATAATTAT
**
20096661 ACATAACATATAACACATACAGAGTTATATCAACTTACTCTT-TTCAAA
1 ACATAACATATAACACATACAGAGCCATATCAACTTACT-TTATTCAAA
*
20096709 ACATAACATATATCACATACAGAGCCATA-CTAACTTACTTTATTCAAA
1 ACATAACATATAACACATACAGAGCCATATC-AACTTACTTTATTCAAA
20096757 TTCTTTCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 3 0.07
48 40 0.93
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (48 bp):
ACATAACATATAACACATACAGAGCCATATCAACTTACTTTATTCAAA
Found at i:20099072 original size:12 final size:12
Alignment explanation
Indices: 20099055--20099084 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
20099045 ATTAATAAGT
20099055 ATGATGTGCTTC
1 ATGATGTGCTTC
20099067 ATGATGTGCTTC
1 ATGATGTGCTTC
20099079 ACTGAT
1 A-TGAT
20099085 AATAAGTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (12 bp):
ATGATGTGCTTC
Found at i:20099965 original size:13 final size:13
Alignment explanation
Indices: 20099947--20099980 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
20099937 AATGTGAAAC
20099947 ATAGTCATATTAT
1 ATAGTCATATTAT
20099960 ATAGTCATATTAT
1 ATAGTCATATTAT
*
20099973 ATACTCAT
1 ATAGTCAT
20099981 TGGATAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (13 bp):
ATAGTCATATTAT
Found at i:20100477 original size:13 final size:13
Alignment explanation
Indices: 20100459--20100483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20100449 CTCATATACG
20100459 TATATATATATAT
1 TATATATATATAT
20100472 TATATATATATA
1 TATATATATATA
20100484 ACAGGATCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:20100580 original size:2 final size:2
Alignment explanation
Indices: 20100575--20100603 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
20100565 CATATATGAG
20100575 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20100604 CACATATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20101674 original size:138 final size:136
Alignment explanation
Indices: 20101251--20101808 Score: 846
Period size: 138 Copynumber: 4.0 Consensus size: 136
20101241 AGAAAAATGG
* *
20101251 ATTATATTCTTTCCAAAAGAATATTGATTTTCATGTATTTTATATTTTGACCGAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATT-AATTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
* *
20101316 ATAACTTTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTT
65 ATAAC-GTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
20101381 ATATATATTA
129 ATATA-A-TA
20101391 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAA-TTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
* * *
20101456 ATAAATGTTTATATTAATTAAATTTAGTAAAATATATACGATTAATATTTTGTATGAATCAAATT
65 AT-AACGTTTATATTAA-TAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
20101521 CATATATTA
128 CATATAATA
* **
20101530 ATTATATTCTTTTCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACTAAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTTC-ATGTCTTTTATATTTTGACCGAAATTAATTAAT
* * *
20101595 ATAACGATTTATATGAATAAATTCAGTAATATATATAGAATTAATATTTTGTATGAATCAAATTC
65 ATAACG-TTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
20101660 ATATAATA
129 ATATAATA
* *
20101668 AATATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTT-CATGTCTTTTATATTTTGACCGAAATTAATTAAT
* *
20101733 ATAACTCTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
65 ATAAC-GTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
*
20101798 ATATATTA
129 ATATAATA
20101806 ATT
1 ATT
20101809 TTATCTATGT
Statistics
Matches: 383, Mismatches: 28, Indels: 16
0.90 0.07 0.04
Matches are distributed among these distances:
138 186 0.49
139 72 0.19
140 73 0.19
141 52 0.14
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (136 bp):
ATTATATTCTTTCCAAAAGAATATTAATTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
TAACGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATAATA
Found at i:20103705 original size:45 final size:45
Alignment explanation
Indices: 20103656--20103786 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 45
20103646 TCCTGTTTGC
* * *
20103656 CATGATGTCATATCATCTTTTAGCCATGGTCTTACTAATTTATAT
1 CATGATGTCATAGCATCTTTTAGCTATGGTCTTACTCATTTATAT
* * * ** *
20103701 CATGACGCCATAGCATCTTTTAGCTATGGTCGTACTCATCCATGT
1 CATGATGTCATAGCATCTTTTAGCTATGGTCTTACTCATTTATAT
* *
20103746 CATGATGTCATAGCATCTTTCAGCTATGGCCTTACTCATTT
1 CATGATGTCATAGCATCTTTTAGCTATGGTCTTACTCATTT
20103787 CAGGCTATAG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (45 bp):
CATGATGTCATAGCATCTTTTAGCTATGGTCTTACTCATTTATAT
Found at i:20105981 original size:21 final size:21
Alignment explanation
Indices: 20105923--20106004 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
20105913 ATTGATTGTC
* *
20105923 TTTTTGTTCAAATCAATT-AT
1 TTTTTGTTTAAACCAATTCAT
* * *
20105943 TTTTCTATTTGAATCAATTCAT
1 TTTT-TGTTTAAACCAATTCAT
20105965 TTTTTGTTTAAACCAATTC-T
1 TTTTTGTTTAAACCAATTCAT
*
20105985 TTGTTGTTT-AACTCAATTCA
1 TTTTTGTTTAAAC-CAATTCA
20106005 AACTCCAACA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.06
20 19 0.37
21 23 0.45
22 6 0.12
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTTTGTTTAAACCAATTCAT
Found at i:20105993 original size:20 final size:21
Alignment explanation
Indices: 20105957--20106004 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
20105947 CTATTTGAAT
*
20105957 CAATTCATTTTTTGTTTAAAC
1 CAATTCATTTGTTGTTTAAAC
20105978 CAATTC-TTTGTTGTTT-AAC
1 CAATTCATTTGTTGTTTAAAC
20105997 TCAATTCA
1 -CAATTCA
20106005 AACTCCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (21 bp):
CAATTCATTTGTTGTTTAAAC
Found at i:20114394 original size:44 final size:43
Alignment explanation
Indices: 20114330--20114416 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
20114320 AATCTGATTG
* *
20114330 TTGTTTTATCTATTTTCTGATTGATGCAAATATTGTTGATGTA
1 TTGTTTTATCTATTTCCTGATTGATGCAAATATTCTTGATGTA
*
20114373 TTGTTTTATTCTATTTCCTGATTGATGCAAATTTTCTTGATGTA
1 TTGTTTTA-TCTATTTCCTGATTGATGCAAATATTCTTGATGTA
20114417 GACTGATTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 8 0.20
44 32 0.80
ACGTcount: A:0.22, C:0.09, G:0.15, T:0.54
Consensus pattern (43 bp):
TTGTTTTATCTATTTCCTGATTGATGCAAATATTCTTGATGTA
Found at i:20116632 original size:3 final size:3
Alignment explanation
Indices: 20116624--20116655 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
20116614 TTGTAAATGT
20116624 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
20116656 GTATGTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:20116948 original size:14 final size:13
Alignment explanation
Indices: 20116932--20116957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20116922 AAAAAAAGAA
20116932 AAAAACTTTCCTG
1 AAAAACTTTCCTG
20116945 AAAAACTTTCCTG
1 AAAAACTTTCCTG
20116958 TTTAAGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAAACTTTCCTG
Found at i:20124927 original size:31 final size:31
Alignment explanation
Indices: 20124892--20124952 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
20124882 AAGTGTATGA
20124892 ATCAAACTAATACAAAATGATAAGTATATTG
1 ATCAAACTAATACAAAATGATAAGTATATTG
20124923 ATCAAACTAATACAAAATGATAAGTATATT
1 ATCAAACTAATACAAAATGATAAGTATATT
20124953 ACTGAGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (31 bp):
ATCAAACTAATACAAAATGATAAGTATATTG
Found at i:20127156 original size:1 final size:1
Alignment explanation
Indices: 20127150--20127185 Score: 63
Period size: 1 Copynumber: 36.0 Consensus size: 1
20127140 TTTCGTTAGC
*
20127150 AAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20127186 GATGAGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:20128078 original size:3 final size:3
Alignment explanation
Indices: 20128070--20128096 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20128060 AGATATTTAC
20128070 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
20128097 GCAATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:20128272 original size:19 final size:20
Alignment explanation
Indices: 20128224--20128274 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
20128214 TTAATTTAGT
* *
20128224 AAATGAAAGAAATAAATAAT
1 AAATAAAAGAAATAAATAAC
20128244 AAATAAAAGAAATAAA-AAC
1 AAATAAAAGAAATAAATAAC
20128263 AAGA-AAAAGAAA
1 AA-ATAAAAGAAA
20128275 CTGAGAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (20 bp):
AAATAAAAGAAATAAATAAC
Found at i:20128329 original size:26 final size:26
Alignment explanation
Indices: 20128278--20128330 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
20128268 AAAGAAACTG
* *
20128278 AGAAGAAACGAAATAGAAAGAAAGAA
1 AGAAGAAAAGAAATAGAAAAAAAGAA
20128304 AGAAGAAAAGAAA-AGAAAAAAGAGAA
1 AGAAGAAAAGAAATAGAAAAAA-AGAA
20128330 A
1 A
20128331 TTAGGGTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (26 bp):
AGAAGAAAAGAAATAGAAAAAAAGAA
Found at i:20135357 original size:3 final size:3
Alignment explanation
Indices: 20135349--20135421 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
20135339 AGATATTTAC
20135349 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
20135397 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
20135422 ATTTTATCAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:20135603 original size:19 final size:20
Alignment explanation
Indices: 20135555--20135605 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
20135545 TTAATTTAGT
* *
20135555 AAATGAAAGAAATAAATAAT
1 AAATAAAAGAAATAAATAAC
20135575 AAATAAAAGAAATAAA-AAC
1 AAATAAAAGAAATAAATAAC
20135594 AAGA-AAAAGAAA
1 AA-ATAAAAGAAA
20135606 CAGAGAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (20 bp):
AAATAAAAGAAATAAATAAC
Found at i:20135629 original size:26 final size:25
Alignment explanation
Indices: 20135599--20135652 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
20135589 AAAACAAGAA
* *
20135599 AAAGAAACAGAGAAGAAACGAAATAG
1 AAAGAAACAAAGAAGAAAAGAAA-AG
*
20135625 AAAGAAAGAAAGAAGAAAAGAAAAG
1 AAAGAAACAAAGAAGAAAAGAAAAG
20135650 AAA
1 AAA
20135653 AAAGAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.02
Consensus pattern (25 bp):
AAAGAAACAAAGAAGAAAAGAAAAG
Found at i:20135660 original size:26 final size:26
Alignment explanation
Indices: 20135609--20135661 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
20135599 AAAGAAACAG
* *
20135609 AGAAGAAACGAAATAGAAAGAAAGAA
1 AGAAGAAAAGAAATAGAAAAAAAGAA
20135635 AGAAGAAAAGAAA-AGAAAAAAGAGAA
1 AGAAGAAAAGAAATAGAAAAAA-AGAA
20135661 A
1 A
20135662 TTAGGGTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (26 bp):
AGAAGAAAAGAAATAGAAAAAAAGAA
Found at i:20137559 original size:20 final size:20
Alignment explanation
Indices: 20137534--20137571 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20137524 TCCCCACGGG
20137534 CAGGCCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
*
20137554 CAGGCCATACGGGCATGT
1 CAGGCCACACGGGCATGT
20137572 GCCCCTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:20140736 original size:43 final size:43
Alignment explanation
Indices: 20140671--20140761 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
20140661 TTCGTGAGAT
*
20140671 ATGTG-GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGG
1 ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
* *
20140713 GTGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTGTGG
1 ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
20140756 ATGTGA
1 ATGTGA
20140762 TGCCTGTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 4 0.09
43 40 0.91
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.31
Consensus pattern (43 bp):
ATGTGAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGG
Found at i:20144060 original size:21 final size:22
Alignment explanation
Indices: 20144019--20144073 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
20144009 CCGGGCATAT
*
20144019 GTCTTGAGAGATGATAAGC-AA
1 GTCTTGAGACATGATAAGCAAA
* *
20144040 GTCTTGAGACATGGTAGGCAAA
1 GTCTTGAGACATGATAAGCAAA
*
20144062 GTCTCGAGACAT
1 GTCTTGAGACAT
20144074 TCGAAGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (22 bp):
GTCTTGAGACATGATAAGCAAA
Found at i:20148420 original size:17 final size:17
Alignment explanation
Indices: 20148398--20148432 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20148388 CGTATGATTA
20148398 GTTAATTTGATAAAAAG
1 GTTAATTTGATAAAAAG
20148415 GTTAATTTGATAAAAAG
1 GTTAATTTGATAAAAAG
20148432 G
1 G
20148433 AAAAATCGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (17 bp):
GTTAATTTGATAAAAAG
Found at i:20153714 original size:29 final size:31
Alignment explanation
Indices: 20153672--20153737 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
20153662 GTGAAAATGT
*
20153672 AAAT-TATGGATTAAATTGTGAAAT-ATGAA
1 AAATATATGGATTAAAATGTGAAATAATGAA
20153701 AAATATATGG-TTAAAATGTGAAATAAATGAA
1 AAATATATGGATTAAAATGTGAAAT-AATGAA
20153732 AAATAT
1 AAATAT
20153738 GAGCTGATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 17 0.52
30 5 0.15
31 11 0.33
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (31 bp):
AAATATATGGATTAAAATGTGAAATAATGAA
Found at i:20156314 original size:17 final size:17
Alignment explanation
Indices: 20156275--20156317 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
20156265 ACAAAAATGG
*
20156275 ATAGAAATGGAAAAGTT
1 ATAGAAATGGAAAAATT
*
20156292 AAAGAAATGGAGAAAATT
1 ATAGAAATGGA-AAAATT
20156310 -TAGAAATG
1 ATAGAAATG
20156318 AATGTGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (17 bp):
ATAGAAATGGAAAAATT
Found at i:20156630 original size:54 final size:54
Alignment explanation
Indices: 20156566--20156675 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
20156556 TATTTGGGAA
20156566 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
1 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
20156620 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
1 ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
20156674 AT
1 AT
20156676 GAAGTACTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.28
Consensus pattern (54 bp):
ATAGAAAAATAAATATCGGGTTGGATCGAATTATAAAGTACTAGTTAAAAGTCC
Found at i:20158098 original size:19 final size:19
Alignment explanation
Indices: 20158070--20158106 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20158060 ACAAAACCCG
20158070 ATAAACGATAATGCCTGAA
1 ATAAACGATAATGCCTGAA
* *
20158089 ATAAATGATAATGTCTGA
1 ATAAACGATAATGCCTGA
20158107 TAGATGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (19 bp):
ATAAACGATAATGCCTGAA
Found at i:20170596 original size:17 final size:19
Alignment explanation
Indices: 20170574--20170611 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
20170564 TTTCTGTTGG
20170574 TGACATT-TC-CAACTCTT
1 TGACATTGTCACAACTCTT
20170591 TGACATTGGTCACAACTCTT
1 TGACATT-GTCACAACTCTT
20170611 T
1 T
20170612 ATATATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (19 bp):
TGACATTGTCACAACTCTT
Found at i:20176388 original size:40 final size:40
Alignment explanation
Indices: 20176226--20176427 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
20176216 CGAATGATGT
*
20176226 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
20176266 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
20176305 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
20176343 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
20176384 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
20176424 CCGG
1 CCGG
20176428 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:20176390 original size:78 final size:79
Alignment explanation
Indices: 20176225--20176376 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
20176215 TCGAATGATG
* * *
20176225 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
20176290 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
20176305 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
20176368 GTGCAAGTC
65 GTGCAAGTC
20176377 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:20184460 original size:40 final size:40
Alignment explanation
Indices: 20184298--20184499 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
20184288 CGAATGATGT
*
20184298 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
20184338 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
20184377 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
20184415 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
20184456 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
20184496 CCGG
1 CCGG
20184500 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:20184462 original size:78 final size:79
Alignment explanation
Indices: 20184297--20184448 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
20184287 TCGAATGATG
* * *
20184297 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
20184362 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
20184377 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
20184440 GTGCAAGTC
65 GTGCAAGTC
20184449 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:20194671 original size:40 final size:40
Alignment explanation
Indices: 20194509--20194689 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
20194499 CGAATGATGT
* * * *
20194509 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAAC
* * * * *
20194549 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAAC
*
20194589 CCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAC
* **
20194627 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AAC
**
20194667 CCGGGCTTCGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
20194690 TGAGCGAGTC
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 24 0.21
39 18 0.16
40 64 0.56
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAC
Found at i:20194673 original size:78 final size:79
Alignment explanation
Indices: 20194508--20194659 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
20194498 TCGAATGATG
* * *
20194508 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
20194573 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
20194588 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
20194651 GTGCAAGTC
65 GTGCAAGTC
20194660 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:20199252 original size:46 final size:46
Alignment explanation
Indices: 20199187--20199551 Score: 482
Period size: 46 Copynumber: 8.0 Consensus size: 46
20199177 TTATCTTTGA
* * * ** * *
20199187 CATGATGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
20199233 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
20199279 CACGTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * *
20199325 CAGGTTGCCATGGTATTTTTCAACCATGGTCTTGCATATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * ** *
20199371 TAGGTTGCCATGGTATCTTTCAACCGTGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
20199416 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
20199462 CATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
20199508 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
20199552 TTCAGAGAGC
Statistics
Matches: 280, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
45 43 0.15
46 237 0.85
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:20199458 original size:137 final size:138
Alignment explanation
Indices: 20199236--20199551 Score: 517
Period size: 137 Copynumber: 2.3 Consensus size: 138
20199226 TTTCTGTCAT
* *
20199236 GTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCTTGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCA
* * *
20199301 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATTTTTCAACCATGGTCTTGCATATTT
66 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTT
*
20199366 CATATTAG
131 CATATCAG
* *
20199374 GTTGCCATGGTATCTTTCAACCGTGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCA
*
20199438 ACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTT
66 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTT
*
20199503 CATATCAT
131 CATATCAG
**
20199511 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
20199552 TTCAGAGAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
137 126 0.77
138 38 0.23
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (138 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCGTGCACATTT
CATATCAG
Found at i:20201658 original size:3 final size:3
Alignment explanation
Indices: 20201644--20201688 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
20201634 TTTTATACTA
*
20201644 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20201687 AA
1 AA
20201689 GATATCTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 28 0.78
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:20201666 original size:11 final size:11
Alignment explanation
Indices: 20201650--20201688 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
20201640 ACTAAATAAT
20201650 TAATAATAAAA
1 TAATAATAAAA
*
20201661 TAATAATGAAA
1 TAATAATAAAA
20201672 TAATAATAAAA
1 TAATAATAAAA
20201683 TAATAA
1 TAATAA
20201689 GATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:20201704 original size:21 final size:20
Alignment explanation
Indices: 20201678--20201726 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
20201668 GAAATAATAA
*
20201678 TAAAATAATAAGATATCTCAT
1 TAAAATAAT-AGATATCTAAT
*
20201699 TAAAATAATATATATCTAAT
1 TAAAATAATAGATATCTAAT
20201719 T-AAATAAT
1 TAAAATAAT
20201727 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAATAATAGATATCTAAT
Found at i:20208301 original size:42 final size:42
Alignment explanation
Indices: 20208254--20208342 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
20208244 GACGTCGAGA
*
20208254 GAGCACCAGCATCGTCAACACTCACGACGTC-TACTTTTTATG
1 GAGCACCAGCATCGTCAACACTCACGACG-CGTACTTTCTATG
* * *
20208296 GAGCACCGGCGTTGTCAACACTCACGACGCGTACTTTCTATG
1 GAGCACCAGCATCGTCAACACTCACGACGCGTACTTTCTATG
20208338 GAGCA
1 GAGCA
20208343 TGGTGAACGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (42 bp):
GAGCACCAGCATCGTCAACACTCACGACGCGTACTTTCTATG
Found at i:20210058 original size:2 final size:2
Alignment explanation
Indices: 20210051--20210100 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
20210041 TGTTCTTAAA
* * * *
20210051 AT AT AT AT AT AT AT AT AC AT GT AT AC AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
20210093 AT AC AT AT
1 AT AT AT AT
20210101 TAGTAGTAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:20210341 original size:8 final size:8
Alignment explanation
Indices: 20210328--20210370 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
20210318 AGTGGTGGAG
20210328 ATACATGT
1 ATACATGT
*
20210336 ATACATAT
1 ATACATGT
*
20210344 ATACATAT
1 ATACATGT
*
20210352 ATATATGT
1 ATACATGT
*
20210360 ATATATGT
1 ATACATGT
20210368 ATA
1 ATA
20210371 TATATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (8 bp):
ATACATGT
Found at i:20210349 original size:16 final size:16
Alignment explanation
Indices: 20210328--20210378 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
20210318 AGTGGTGGAG
*
20210328 ATACATGTATACATAT
1 ATACATGTATATATAT
* *
20210344 ATACATATATATATGT
1 ATACATGTATATATAT
*
20210360 ATATATGTATATATAT
1 ATACATGTATATATAT
20210376 ATA
1 ATA
20210379 TATATACATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (16 bp):
ATACATGTATATATAT
Found at i:20210357 original size:4 final size:4
Alignment explanation
Indices: 20210335--20210389 Score: 65
Period size: 4 Copynumber: 13.8 Consensus size: 4
20210325 GAGATACATG
* * * *
20210335 TATA CATA TATA CATA TATA TATG TATA TATG TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
20210383 TACA TAT
1 TATA TAT
20210390 TAGTAGTAGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (4 bp):
TATA
Found at i:20210362 original size:6 final size:6
Alignment explanation
Indices: 20210335--20210389 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
20210325 GAGATACATG
* * * *
20210335 TATACA TATATA CATATA TATATG TATATA TGTATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
20210383 TACATA T
1 TATATA T
20210390 TAGTAGTAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (6 bp):
TATATA
Found at i:20210568 original size:288 final size:288
Alignment explanation
Indices: 20210053--20210618 Score: 1064
Period size: 288 Copynumber: 2.0 Consensus size: 288
20210043 TTCTTAAAAT
*
20210053 ATATATATATATATACATGTATACATGTATATATATATATATACATATTAGTAGTAGTGATCTTC
1 ATATATACATATATACATGTATACATGTATATATATATATATACATATTAGTAGTAGTGATCTTC
*
20210118 TGAGCTAAAGAAGTTAAATTCCATTTTTTGAAAAAAAGCTCTGTTGTATGCAATTGATGACTAGT
66 TGAGCTAAAGAAGTTAAATTCCATTTTTTGAAAAAAAGCTCTGTTGTATACAATTGATGACTAGT
20210183 CATTTTTCTAGTTAGGTAATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATCAGCTTGTGAC
131 CATTTTTCTAGTTAGGTAATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATCAGCTTGTGAC
20210248 CATAACCTCTAACCAAAGCCACATTACAACCCTC-TAAAGACATTTTGATTGATGTTTCATCTCA
196 CATAACCTCTAACCAAAGCCACATTACAACCCTCTTAAAGACATTTTGATTGATGTTTCATCTCA
20210312 ATTTATAGTGGTGGAGATACATGTATAC
261 ATTTATAGTGGTGGAGATACATGTATAC
* *
20210340 ATATATACATATATATATGTATATATGTATATATATATATATATACATATTAGTAGTAGTGATCT
1 ATATATACATATATACATGTATACATG--TATATATATATATATACATATTAGTAGTAGTGATCT
20210405 TCTGAGCTAAAGAAGTTAAATTCCATTTTTTG-AAAAAAGCTCTGTTGTATACAATTGATGACTA
64 TCTGAGCTAAAGAAGTTAAATTCCATTTTTTGAAAAAAAGCTCTGTTGTATACAATTGATGACTA
20210469 GTCATTTTTCTAGTTAGGTAATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATCAGCTTGTG
129 GTCATTTTTCTAGTTAGGTAATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATCAGCTTGTG
20210534 ACCATAACCTCTAACCAAAGCCACATTACAACCCTCTTAAAGACATTTTGATTGATGTTTCATCT
194 ACCATAACCTCTAACCAAAGCCACATTACAACCCTCTTAAAGACATTTTGATTGATGTTTCATCT
20210599 CAATTTATAGTGGTGGAGAT
259 CAATTTATAGTGGTGGAGAT
20210619 TTGATTTTCA
Statistics
Matches: 272, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
287 24 0.09
288 132 0.49
289 116 0.43
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (288 bp):
ATATATACATATATACATGTATACATGTATATATATATATATACATATTAGTAGTAGTGATCTTC
TGAGCTAAAGAAGTTAAATTCCATTTTTTGAAAAAAAGCTCTGTTGTATACAATTGATGACTAGT
CATTTTTCTAGTTAGGTAATTTTTCAATTCAATCTCGATTCTAACCCTTCCTATCAGCTTGTGAC
CATAACCTCTAACCAAAGCCACATTACAACCCTCTTAAAGACATTTTGATTGATGTTTCATCTCA
ATTTATAGTGGTGGAGATACATGTATAC
Found at i:20218051 original size:27 final size:27
Alignment explanation
Indices: 20218019--20218079 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
20218009 AAATGATCGA
** * *
20218019 GTAAAATAACTGTAATGTCCCTGTAGG
1 GTAAAATAACCATAACGCCCCTGTAGG
*
20218046 GTAAAATGACCATAACGCCCCTGTAGG
1 GTAAAATAACCATAACGCCCCTGTAGG
20218073 GTAAAAT
1 GTAAAAT
20218080 GATCGAGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAAAATAACCATAACGCCCCTGTAGG
Found at i:20218052 original size:40 final size:39
Alignment explanation
Indices: 20217978--20218054 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
20217968 TGCCCCTATA
*
20217978 GAGTAAAATGACAGTAATGCCCTGTAAGGTAAAATGATC
1 GAGTAAAATAACAGTAATGCCCTGTAAGGTAAAATGATC
* *
20218017 GAGTAAAATAACTGTAATGTCCCTGTAGGGTAAAATGA
1 GAGTAAAATAACAGTAATG-CCCTGTAAGGTAAAATGA
20218055 CCATAACGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 17 0.50
40 17 0.50
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (39 bp):
GAGTAAAATAACAGTAATGCCCTGTAAGGTAAAATGATC
Found at i:20218080 original size:67 final size:67
Alignment explanation
Indices: 20217964--20218144 Score: 285
Period size: 67 Copynumber: 2.7 Consensus size: 67
20217954 TTATATGACC
* * * * *
20217964 GTAATGCCCCTATAGAGTAAAATGA-CAGTAATG-CCCTGTAAGGTAAAATGATCGAGTAAAATA
1 GTAATGTCCCTGTAGGGTAAAATGACCA-TAACGCCCCTGTAGGGTAAAATGATCGAGTAAAATA
20218027 ACT
65 ACT
20218030 GTAATGTCCCTGTAGGGTAAAATGACCATAACGCCCCTGTAGGGTAAAATGATCGAGTAAAATAA
1 GTAATGTCCCTGTAGGGTAAAATGACCATAACGCCCCTGTAGGGTAAAATGATCGAGTAAAATAA
20218095 CT
66 CT
*
20218097 GTAATGTCCCTGTAGGGTAAAATGACCATAACGCCCCTGTTGGGTAAA
1 GTAATGTCCCTGTAGGGTAAAATGACCATAACGCCCCTGTAGGGTAAA
20218145 TGACCATAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
66 26 0.24
67 81 0.76
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (67 bp):
GTAATGTCCCTGTAGGGTAAAATGACCATAACGCCCCTGTAGGGTAAAATGATCGAGTAAAATAA
CT
Found at i:20218090 original size:40 final size:40
Alignment explanation
Indices: 20218046--20218121 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
20218036 TCCCTGTAGG
*
20218046 GTAAAATGACCATAACGCCCCTGTAGGGTAAAATGATCGA
1 GTAAAATAACCATAACGCCCCTGTAGGGTAAAATGATCGA
** * *
20218086 GTAAAATAACTGTAATGTCCCTGTAGGGTAAAATGA
1 GTAAAATAACCATAACGCCCCTGTAGGGTAAAATGA
20218122 CCATAACGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (40 bp):
GTAAAATAACCATAACGCCCCTGTAGGGTAAAATGATCGA
Found at i:20218462 original size:21 final size:22
Alignment explanation
Indices: 20218438--20218483 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
20218428 TATCTCCACA
*
20218438 TGGTGTGTTGGTTGG-TATGGG
1 TGGTGTGCTGGTTGGATATGGG
*
20218459 TGGTGTGCTGGTTGGATTTGGG
1 TGGTGTGCTGGTTGGATATGGG
20218481 TGG
1 TGG
20218484 GATGCATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.04, C:0.02, G:0.52, T:0.41
Consensus pattern (22 bp):
TGGTGTGCTGGTTGGATATGGG
Found at i:20225130 original size:26 final size:26
Alignment explanation
Indices: 20225101--20225208 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
20225091 TGGTACAAAT
20225101 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
20225127 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20225153 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20225179 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20225205 TGAT
1 TGAT
20225209 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:20234684 original size:51 final size:50
Alignment explanation
Indices: 20234613--20234772 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
20234603 CTGATCACAT
20234613 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
20234664 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
20234714 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
20234765 TTGTCACT
1 TTATCACT
20234773 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:20242484 original size:51 final size:50
Alignment explanation
Indices: 20242413--20242572 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
20242403 CTGATCACAT
20242413 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
20242464 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
20242514 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
20242565 TTGTCACT
1 TTATCACT
20242573 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:20245453 original size:36 final size:37
Alignment explanation
Indices: 20245404--20245492 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
20245394 TATTTACATA
* * * *
20245404 TCACTTTTTAATATATTAAGTAAATATCATTT-CATG
1 TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
* *
20245440 TCATGTTTCAATATATCAAGTAAATATCTTTTCCAAG
1 TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
20245477 TCACGTTTCAATATAT
1 TCACGTTTCAATATAT
20245493 ATACCGGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 27 0.60
37 18 0.40
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.44
Consensus pattern (37 bp):
TCACGTTTCAATATATCAAGTAAATATCATTTCCAAG
Found at i:20247254 original size:17 final size:17
Alignment explanation
Indices: 20247228--20247260 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
20247218 CTTCTTTCTC
20247228 TTTTTCCTTTGCTTTTTA
1 TTTTTCCTTT-CTTTTTA
20247246 TTTTT-CTTTCTTTTT
1 TTTTTCCTTTCTTTTT
20247261 CGTTTGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTCCTTTCTTTTTA
Found at i:20247261 original size:28 final size:28
Alignment explanation
Indices: 20247226--20247286 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
20247216 TTCTTCTTTC
20247226 TCTTTTTCCTTTGCTTTT-TATTTTTCTT
1 TCTTTTTCCTTTGCTTTTCTA-TTTTCTT
* * *
20247254 TCTTTTTCGTTTGGTTTTCTATTTTGTT
1 TCTTTTTCCTTTGCTTTTCTATTTTCTT
20247282 TCTTT
1 TCTTT
20247287 CTTTATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (28 bp):
TCTTTTTCCTTTGCTTTTCTATTTTCTT
Found at i:20247380 original size:12 final size:12
Alignment explanation
Indices: 20247363--20247387 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20247353 CAGTAAGAAT
20247363 ATATATATAATA
1 ATATATATAATA
20247375 ATATATATAATA
1 ATATATATAATA
20247387 A
1 A
20247388 AATAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATAATA
Found at i:20247398 original size:12 final size:15
Alignment explanation
Indices: 20247360--20247391 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
20247350 AAACAGTAAG
20247360 AATATATAT-ATAAT
1 AATATATATAATAAT
20247374 AATATATATAATAA-
1 AATATATATAATAAT
20247388 AATA
1 AATA
20247392 ATAAATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATATATAATAAT
Found at i:20250745 original size:27 final size:28
Alignment explanation
Indices: 20250708--20250847 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
20250698 AGCATGGCTG
* *
20250708 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
20250734 CCAGATACAGATA-ATTGTGGCAGAGCCA
1 CCAGATACAGATATA-TGTGGCAGAGCCA
20250762 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
20250789 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
20250816 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
20250843 CCAGA
1 CCAGA
20250848 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:20250983 original size:26 final size:27
Alignment explanation
Indices: 20250950--20251024 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 27
20250940 CAAAATTAAC
*
20250950 CCTA-GGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
20250975 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
20251003 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
20251025 AGCTACTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 4 0.09
26 19 0.44
28 20 0.47
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:20252499 original size:26 final size:26
Alignment explanation
Indices: 20252469--20252550 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
20252459 TGAAATTCCC
20252469 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20252495 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20252521 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20252547 ATCA
1 ATCA
20252551 ATTTGTGTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20254388 original size:18 final size:18
Alignment explanation
Indices: 20254365--20254450 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
20254355 GAACGATTAT
* *
20254365 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
20254383 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
20254401 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
20254419 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
20254438 TTATTCAGTAACA
1 TTATTCAGTAACA
20254451 GTCGATCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 41 0.73
19 15 0.27
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:20254419 original size:36 final size:37
Alignment explanation
Indices: 20254365--20254450 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 37
20254355 GAACGATTAT
* * * *
20254365 TTATTCAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAATAACAATCAGTTATTCAGTAACAATTAAA
*
20254401 TTATTCAATAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAATAACAATCAGTTATTCAGTAACAATTAAA
*
20254438 TTATTCAGTAACA
1 TTATTCAATAACA
20254451 GTCGATCTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 28 0.67
37 14 0.33
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (37 bp):
TTATTCAATAACAATCAGTTATTCAGTAACAATTAAA
Found at i:20254658 original size:47 final size:47
Alignment explanation
Indices: 20254589--20254694 Score: 178
Period size: 47 Copynumber: 2.3 Consensus size: 47
20254579 ACAATAGCAA
*
20254589 TACGGTACACAGAGTACCTCATCGGAACAAATCCGGAACAGTAACAG
1 TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
*
20254636 TACGGTACACAGAGTACCTCATCGGAACAAATCTGAAACAGTAACAG
1 TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
20254683 TAACGGTA-ACAG
1 T-ACGGTACACAG
20254695 TAACAATATC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
47 50 0.89
48 6 0.11
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (47 bp):
TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAG
Found at i:20254683 original size:53 final size:50
Alignment explanation
Indices: 20254572--20254686 Score: 146
Period size: 47 Copynumber: 2.3 Consensus size: 50
20254562 CCGAAACAGT
* *
20254572 AACAGTAACAATAGCAATACGGTACACAGAGTACCTCATCGGAACAAATC
1 AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATC
* *
20254622 --C-GGAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATC
1 AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATC
20254669 TGAAACAGTAACAGTAAC
1 ---AACAGTAACAGTAAC
20254687 GGTAACAGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
47 42 0.78
48 1 0.02
52 1 0.02
53 10 0.19
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (50 bp):
AACAGTAACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATC
Found at i:20256389 original size:2 final size:2
Alignment explanation
Indices: 20256382--20256417 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
20256372 TGTTTTACTT
20256382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20256418 GTTAACTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20256550 original size:31 final size:32
Alignment explanation
Indices: 20256494--20256556 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
20256484 CACACTTGTC
*
20256494 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
20256526 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
20256557 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:20261313 original size:18 final size:18
Alignment explanation
Indices: 20261290--20261375 Score: 84
Period size: 18 Copynumber: 4.7 Consensus size: 18
20261280 GAACGATTAT
* *
20261290 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
20261308 TTATTCTA-TAACAATCAA
1 TTATTC-AGTAACAATCAA
* * * *
20261326 CTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
20261344 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
20261363 TTATTCAGTAACA
1 TTATTCAGTAACA
20261376 GTCGATCTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
17 1 0.02
18 38 0.69
19 16 0.29
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:20261331 original size:36 final size:37
Alignment explanation
Indices: 20261291--20261378 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 37
20261281 AACGATTATT
*
20261291 TATTCAGTAACAGTCAGTTATTCTA-TAACAA-TCAAC
1 TATTCAGTAACAGTCAGTTATTC-AGTAACAATTAAAC
* * * *
20261327 TATTCAATAATAATCAGTTATTCAGTAACAATTAAAT
1 TATTCAGTAACAGTCAGTTATTCAGTAACAATTAAAC
20261364 TATTCAGTAACAGTC
1 TATTCAGTAACAGTC
20261379 GATCTTTCCA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
35 1 0.02
36 26 0.62
37 15 0.36
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (37 bp):
TATTCAGTAACAGTCAGTTATTCAGTAACAATTAAAC
Found at i:20265981 original size:21 final size:20
Alignment explanation
Indices: 20265936--20265981 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
20265926 TTGTTGGAAT
20265936 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
20265955 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
20265976 GGTTGA
1 GGTTGA
20265982 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:20271987 original size:22 final size:22
Alignment explanation
Indices: 20271962--20272006 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20271952 TTTATATGTA
20271962 TTAATTCATAATATAAT-TAATT
1 TTAATTCAT-ATATAATCTAATT
* *
20271984 TTAATTTATATCTAATCTAATT
1 TTAATTCATATATAATCTAATT
20272006 T
1 T
20272007 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTCATATATAATCTAATT
Found at i:20273905 original size:68 final size:64
Alignment explanation
Indices: 20273819--20274040 Score: 232
Period size: 67 Copynumber: 3.4 Consensus size: 64
20273809 TAATACGGGA
* *
20273819 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATACT
20273884 ATG
62 ATG
* * * * * *
20273887 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTA--
20273951 TG
63 TG
* * ** * *
20273953 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
20274017 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
20274041 CAAAATTATG
Statistics
Matches: 127, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
63 20 0.16
64 25 0.20
65 2 0.02
66 23 0.18
67 29 0.23
68 27 0.21
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:20280242 original size:22 final size:22
Alignment explanation
Indices: 20280217--20280259 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20280207 TTCAAATGCA
20280217 GTGTTATTCAAGCTTAGTGCCG
1 GTGTTATTCAAGCTTAGTGCCG
20280239 GTGTTATTCAAGCTTAGTGCC
1 GTGTTATTCAAGCTTAGTGCC
20280260 TAGCAGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (22 bp):
GTGTTATTCAAGCTTAGTGCCG
Found at i:20280293 original size:22 final size:21
Alignment explanation
Indices: 20280220--20280334 Score: 79
Period size: 22 Copynumber: 5.8 Consensus size: 21
20280210 AAATGCAGTG
*
20280220 TTATTCAAGCTTAGTGCCGGT
1 TTATTCAGGCTTAGTGCCGGT
*
20280241 GTTATTCAAGCTTAGTGCC---
1 -TTATTCAGGCTTAGTGCCGGT
* *
20280260 -TA-GCAGGATTAGTGCCGGTT
1 TTATTCAGGCTTAGTGCCGG-T
20280280 TTATTCAGGCTTAGTGCC---
1 TTATTCAGGCTTAGTGCCGGT
* *
20280298 -TAGT-AGGCTTAGTGTCGGT
1 TTATTCAGGCTTAGTGCCGGT
20280317 GTTATTCAGGCTTAGTGC
1 -TTATTCAGGCTTAGTGC
20280335 TTAGCAGGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 24
0.69 0.09 0.23
Matches are distributed among these distances:
16 22 0.31
17 5 0.07
21 5 0.07
22 40 0.56
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (21 bp):
TTATTCAGGCTTAGTGCCGGT
Found at i:20280344 original size:38 final size:38
Alignment explanation
Indices: 20280228--20280345 Score: 182
Period size: 38 Copynumber: 3.1 Consensus size: 38
20280218 TGTTATTCAA
*
20280228 GCTTAGTGCCGGTGTTATTCAAGCTTAGTGCCTAGCAG
1 GCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAGCAG
* * *
20280266 GATTAGTGCCGGTTTTATTCAGGCTTAGTGCCTAGTAG
1 GCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAGCAG
* *
20280304 GCTTAGTGTCGGTGTTATTCAGGCTTAGTGCTTAGCAG
1 GCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAGCAG
20280342 GCTT
1 GCTT
20280346 TGAGCTTGTG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.17, C:0.18, G:0.30, T:0.36
Consensus pattern (38 bp):
GCTTAGTGCCGGTGTTATTCAGGCTTAGTGCCTAGCAG
Found at i:20290707 original size:20 final size:20
Alignment explanation
Indices: 20290682--20290732 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
20290672 GGGCTAAGGG
20290682 CACGGGCGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
20290702 CACGGGCGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
20290722 CACGGGCGTGT
1 CACGGGCGTGT
20290733 GACTCTCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.33, T:0.12
Consensus pattern (20 bp):
CACGGGCGTGTCCCAAGCCA
Found at i:20299765 original size:5 final size:5
Alignment explanation
Indices: 20299751--20299797 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
20299741 TAATTCCAAC
20299751 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
20299798 TATCATTATC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:20305869 original size:20 final size:20
Alignment explanation
Indices: 20305841--20305879 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20305831 AATTTAATGG
*
20305841 TACTGATACTATCATACTAA
1 TACTAATACTATCATACTAA
20305861 TACTAATACTATCATACTA
1 TACTAATACTATCATACTA
20305880 TTCCACATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (20 bp):
TACTAATACTATCATACTAA
Found at i:20315009 original size:122 final size:121
Alignment explanation
Indices: 20314789--20315013 Score: 326
Period size: 122 Copynumber: 1.9 Consensus size: 121
20314779 TTGGTTCTGG
* * * *
20314789 CTTCTTATGGCCGGCACCAGGGACTTTTTTCGTGTCCCAATGCATTTTTTTTTATTTTTCTACAT
1 CTTCTAATGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGCATTTTTTTTTACTTTTCTACAC
* * * * * *
20314854 TGATTGTCTGCATCAGACCAGTAATTTTTAAAAACAATTTTTTTTTTTGGTTTTAGC
66 TGATGGCCTACACCAAACCAGTAA-TTTTAAAAAAAATTTTTTTTTTTGGTTTTAGC
*
20314911 CTTCTAATGGCCGGCACCAGAGACTTTTTTCGTGTTCCAATGCAATTTTTTTTTACTTTTCTACA
1 CTTCTAATGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGC-ATTTTTTTTTACTTTTCTACA
20314976 CTGATGGCCTACACCAAACCAGTAA-TTTAAAAAAAATT
65 CTGATGGCCTACACCAAACCAGTAATTTTAAAAAAAATT
20315014 ACTAGTGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
121 12 0.13
122 40 0.44
123 39 0.43
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (121 bp):
CTTCTAATGGCCGGCACCAGAGACTTTTTTCGTGTCCCAATGCATTTTTTTTTACTTTTCTACAC
TGATGGCCTACACCAAACCAGTAATTTTAAAAAAAATTTTTTTTTTTGGTTTTAGC
Done.