Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 76 of 328
Found at i:20808838 original size:18 final size:18
Alignment explanation
Indices: 20808812--20808852 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
20808802 GGATCGTTCA
* *
20808812 AAGTTGAATTACATTTTT
1 AAGTCGAATTACATTTCT
20808830 AAGTCGAATTACATTTCT
1 AAGTCGAATTACATTTCT
20808848 AAGTC
1 AAGTC
20808853 TTAAAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (18 bp):
AAGTCGAATTACATTTCT
Found at i:20809261 original size:19 final size:20
Alignment explanation
Indices: 20809227--20809267 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
20809217 TTTAAAGCTT
20809227 AATTAACTAATGTTTAATTA
1 AATTAACTAATGTTTAATTA
*
20809247 AATTAATTAAT-TTTAATTA
1 AATTAACTAATGTTTAATTA
20809266 AA
1 AA
20809268 GTGAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTAACTAATGTTTAATTA
Found at i:20809871 original size:71 final size:70
Alignment explanation
Indices: 20809781--20809928 Score: 226
Period size: 71 Copynumber: 2.1 Consensus size: 70
20809771 GGAAGTGATA
*
20809781 AATTGAATTGAATTATTATATAAATAATAAATTGGACCAAATCAGAAATAATTGAGGAAAATAAA
1 AATTGAATTGAATTATTATATAAATAATAAATTGGACCAAATCAGAAATAATCGAGGAAAATAAA
20809846 AAATT
66 AAATT
* * * * *
20809851 GAATTGAATTGAATTATTATATAGATCATTAATTGGACCAAATCAGAAATAATCGGGGAAAGTAA
1 -AATTGAATTGAATTATTATATAAATAATAAATTGGACCAAATCAGAAATAATCGAGGAAAATAA
20809916 AAAATT
65 AAAATT
20809922 -ATTGAAT
1 AATTGAAT
20809929 AGCCCTTGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
69 7 0.10
71 64 0.90
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.30
Consensus pattern (70 bp):
AATTGAATTGAATTATTATATAAATAATAAATTGGACCAAATCAGAAATAATCGAGGAAAATAAA
AAATT
Found at i:20812271 original size:22 final size:22
Alignment explanation
Indices: 20812246--20812303 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
20812236 GAAATAATTA
20812246 TGTATTTGTCTCGAGAAAACAG
1 TGTATTTGTCTCGAGAAAACAG
* **
20812268 TGTA--TGTCTCAAGAAAATTG
1 TGTATTTGTCTCGAGAAAACAG
*
20812288 TGTATTTGTCTTGAGA
1 TGTATTTGTCTCGAGA
20812304 CATATCCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 17 0.59
22 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (22 bp):
TGTATTTGTCTCGAGAAAACAG
Found at i:20826972 original size:24 final size:24
Alignment explanation
Indices: 20826945--20827007 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
20826935 TAGCTTGAAA
*
20826945 GAGCACCCTGTTATTAGCTCTCAT
1 GAGCACCCTGTTATTAGCTCTCAC
*
20826969 GAGCATCCC-GATATTTAGCTCTCAC
1 GAGCA-CCCTGTTA-TTAGCTCTCAC
**
20826994 GAGCTTCCTGTTAT
1 GAGCACCCTGTTAT
20827008 ATGGTTCTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (24 bp):
GAGCACCCTGTTATTAGCTCTCAC
Found at i:20830543 original size:10 final size:10
Alignment explanation
Indices: 20830524--20830554 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
20830514 AATAGGCTCG
*
20830524 AAAGAGAAAA
1 AAAGAAAAAA
20830534 AAAGAAAAAA
1 AAAGAAAAAA
20830544 AAAGAAAAAA
1 AAAGAAAAAA
20830554 A
1 A
20830555 GGGTGGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:20837723 original size:34 final size:34
Alignment explanation
Indices: 20837685--20837749 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
20837675 GTTTTTTGGG
* *
20837685 GTTTTAA-ATAAATTAATTAAATTTGGGTTTAAAA
1 GTTTTAAGA-AAATTAATAAAATTAGGGTTTAAAA
*
20837719 GTTTTAAGAAAATTACTAAAATTAGGGTTTA
1 GTTTTAAGAAAATTAATAAAATTAGGGTTTA
20837750 GATTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.42
Consensus pattern (34 bp):
GTTTTAAGAAAATTAATAAAATTAGGGTTTAAAA
Found at i:20841451 original size:24 final size:24
Alignment explanation
Indices: 20841404--20841451 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
20841394 AAAGAATACA
* *
20841404 GAGGTGTTTGCATCACTTACGGCG
1 GAGGTGTTTGAATCACTTAAGGCG
20841428 GAGGTGTTTGAATC-CTATAAGGCG
1 GAGGTGTTTGAATCACT-TAAGGCG
20841452 ATGGGGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (24 bp):
GAGGTGTTTGAATCACTTAAGGCG
Found at i:20843204 original size:26 final size:25
Alignment explanation
Indices: 20843159--20843213 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
20843149 CAGGCTGTTA
*
20843159 TAAAATACTATACAATAAAAATTAAT
1 TAAAATACTATACAATAAAAAAT-AT
20843185 TAAAATTAC-ATA-AATGAAAAAATAT
1 TAAAA-TACTATACAAT-AAAAAATAT
20843210 TAAA
1 TAAA
20843214 TAATATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 9 0.35
26 14 0.54
27 3 0.12
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (25 bp):
TAAAATACTATACAATAAAAAATAT
Found at i:20845270 original size:21 final size:21
Alignment explanation
Indices: 20845241--20845280 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20845231 AACAGAACCA
*
20845241 CTGATGTGGCAAGTTAACTAG
1 CTGACGTGGCAAGTTAACTAG
*
20845262 CTGACGTGGCCAGTTAACT
1 CTGACGTGGCAAGTTAACT
20845281 TGCCACGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (21 bp):
CTGACGTGGCAAGTTAACTAG
Found at i:20846080 original size:3 final size:3
Alignment explanation
Indices: 20846074--20846132 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
20846064 ACTGCTACTG
20846074 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
20846122 CTT CTT GTT CT
1 CTT CTT CTT CT
20846133 CTGTTAAAGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:20846214 original size:21 final size:21
Alignment explanation
Indices: 20846188--20846228 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20846178 CAACATGGCA
*
20846188 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
20846209 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
20846229 GGTTCTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:20846329 original size:30 final size:31
Alignment explanation
Indices: 20846263--20846331 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
20846253 ACTGTTAGTC
* *
20846263 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
20846294 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
20846323 AGGTGACTG
1 A-GTGACTG
20846332 AAATGAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 6 0.18
30 13 0.38
31 15 0.44
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:20850311 original size:16 final size:15
Alignment explanation
Indices: 20850285--20850331 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
20850275 GAAAGCAATT
20850285 AAAGCAAGAAAAGAAA
1 AAAG-AAGAAAAGAAA
20850301 AATAGAAGAAAAAGAAA
1 AA-AGAAG-AAAAGAAA
*
20850318 CAAGAAGAAAAGAA
1 AAAGAAGAAAAGAA
20850332 GAAGAACGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.25
16 10 0.36
17 11 0.39
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.02
Consensus pattern (15 bp):
AAAGAAGAAAAGAAA
Found at i:20850313 original size:17 final size:16
Alignment explanation
Indices: 20850293--20850328 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20850283 TTAAAGCAAG
20850293 AAAAGAAAAATAGAAGA
1 AAAAGAAAAA-AGAAGA
*
20850310 AAAAGAAACAAGAAGA
1 AAAAGAAAAAAGAAGA
20850326 AAA
1 AAA
20850329 GAAGAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAGA
Found at i:20856391 original size:24 final size:24
Alignment explanation
Indices: 20856333--20856393 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
20856323 TCAAGAATGT
20856333 TCATACGAGCACATAAATGGGAAGC
1 TCATACGAGC-CATAAATGGGAAGC
** *
20856358 TCCGGA-GAGCCATTAATGGGAAGC
1 T-CATACGAGCCATAAATGGGAAGC
20856382 TCATACGAGCCA
1 TCATACGAGCCA
20856394 ATATGGGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.07
24 20 0.69
25 5 0.17
26 2 0.07
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.16
Consensus pattern (24 bp):
TCATACGAGCCATAAATGGGAAGC
Found at i:20856446 original size:25 final size:25
Alignment explanation
Indices: 20856387--20856450 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
20856377 GAAGCTCATA
*
20856387 CGAGCCAATATGGGGAAGGTTCAAG
1 CGAGCCAATATCGGGAAGGTTCAAG
* * * *
20856412 CTAACGAATATCGGGAAGGTTTAAG
1 CGAGCCAATATCGGGAAGGTTCAAG
20856437 CGAGCCAATATCGG
1 CGAGCCAATATCGG
20856451 AAAGTTCCAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (25 bp):
CGAGCCAATATCGGGAAGGTTCAAG
Found at i:20858684 original size:49 final size:49
Alignment explanation
Indices: 20858583--20858684 Score: 159
Period size: 49 Copynumber: 2.1 Consensus size: 49
20858573 TATGCATTTC
* *
20858583 TAAACTTGGTCTTCCACTATCTACACTCTTATCACTATTTATACATTGT
1 TAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACATTCT
* * *
20858632 TAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCTTCT
1 TAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACATTCT
20858681 TAAA
1 TAAA
20858685 TGTCAGAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (49 bp):
TAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACATTCT
Found at i:20859894 original size:15 final size:16
Alignment explanation
Indices: 20859866--20859909 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
20859856 ATCTCAAAAT
20859866 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
20859882 CATTTCT-ATATTTT-
1 CATTTCTCATATTTTC
20859896 C-TTATCTCATATTT
1 CATT-TCTCATATTT
20859910 ATTTATCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.08
14 4 0.15
15 13 0.50
16 7 0.27
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.59
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:20860179 original size:20 final size:20
Alignment explanation
Indices: 20860154--20860191 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
20860144 TGCCGAAGTA
20860154 ATCCCCGAATTCTTCTTATC
1 ATCCCCGAATTCTTCTTATC
20860174 ATCCCCGAATTCTTCTTA
1 ATCCCCGAATTCTTCTTA
20860192 CCCTATAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.05, T:0.39
Consensus pattern (20 bp):
ATCCCCGAATTCTTCTTATC
Found at i:20862368 original size:12 final size:12
Alignment explanation
Indices: 20862352--20862412 Score: 95
Period size: 12 Copynumber: 5.1 Consensus size: 12
20862342 AGTCACATAA
* *
20862352 CCTGCCGTACGA
1 CCTGCCGCACGG
*
20862364 CCTGCCGCATGG
1 CCTGCCGCACGG
20862376 CCTGCCGCACGG
1 CCTGCCGCACGG
20862388 CCTGCCGCACGG
1 CCTGCCGCACGG
20862400 CCTGCCGCACGG
1 CCTGCCGCACGG
20862412 C
1 C
20862413 TGTGTGACGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.10, C:0.48, G:0.31, T:0.11
Consensus pattern (12 bp):
CCTGCCGCACGG
Found at i:20863283 original size:21 final size:21
Alignment explanation
Indices: 20863246--20863285 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20863236 TGAACCCCTG
*
20863246 ACTTCAACCATACAATAGAAC
1 ACTTCAACCATAAAATAGAAC
20863267 ACTT-AACCATTAAAATAGA
1 ACTTCAACCA-TAAAATAGA
20863286 TTCATGGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.23
Consensus pattern (21 bp):
ACTTCAACCATAAAATAGAAC
Found at i:20867660 original size:9 final size:9
Alignment explanation
Indices: 20867642--20867745 Score: 154
Period size: 9 Copynumber: 11.6 Consensus size: 9
20867632 TTTATACAAA
20867642 TAATTCGGT
1 TAATTCGGT
*
20867651 TAATTTGGT
1 TAATTCGGT
* *
20867660 TAATTTGGG
1 TAATTCGGT
20867669 TAATTCGGT
1 TAATTCGGT
20867678 TAATTCGGT
1 TAATTCGGT
*
20867687 TAATTCGGG
1 TAATTCGGT
20867696 TAATTCGGT
1 TAATTCGGT
*
20867705 TAATTCGAT
1 TAATTCGGT
*
20867714 TAATTCGAT
1 TAATTCGGT
20867723 TAATTCGGT
1 TAATTCGGT
20867732 TAATTCGGT
1 TAATTCGGT
20867741 TAATT
1 TAATT
20867746 TTATACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 87 1.00
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:20868131 original size:21 final size:21
Alignment explanation
Indices: 20868102--20868143 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20868092 GTTGATTTCT
* *
20868102 ATTGGCCTCTTTTAGAATGTC
1 ATTGACCTCTTCTAGAATGTC
20868123 ATTGACCTCTTCTAGAATGTC
1 ATTGACCTCTTCTAGAATGTC
20868144 CACTTAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTGACCTCTTCTAGAATGTC
Found at i:20869179 original size:19 final size:18
Alignment explanation
Indices: 20869134--20869180 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
20869124 CAATTTGAAA
*
20869134 TAAATAATAAAAAAATCT
1 TAAAAAATAAAAAAATCT
20869152 TAAACAAATAAAAAAAGGT-T
1 TAAA-AAATAAAAAAA--TCT
20869172 TAAAAAATA
1 TAAAAAATA
20869181 GACACTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 5 0.20
21 1 0.04
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (18 bp):
TAAAAAATAAAAAAATCT
Found at i:20871443 original size:44 final size:45
Alignment explanation
Indices: 20871376--20871496 Score: 183
Period size: 44 Copynumber: 2.7 Consensus size: 45
20871366 CTATATTTAG
* * *
20871376 TCTGCTCCACTATAACTTTAGGGAGATAAGACTT-GTGGTTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGGTGGCTTCAA
* *
20871420 TCTGCTCCACTGCAACTTCAGGGAGATAAG-GTTGGTGGCTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGGTGGCTTCAA
20871464 TCTGCTCCACTACAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACT
20871497 CGCCATGGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 2 0.03
44 65 0.96
45 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGGTGGCTTCAA
Found at i:20876040 original size:81 final size:82
Alignment explanation
Indices: 20875905--20876056 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 82
20875895 GAAGAAAAAA
* * * **
20875905 TCCAAAGAATAAAAGAATCTAAGAATAATTATTTGAATGGTATGATTATGAATG-AAGAAT-AGA
1 TCCAAAGAACAAAAGAATCTAAGAATAATTATTTGAATAGTATAATTACAAATGAAAGAATGA-A
20875968 AGAATATTTGAAGGAAAG
65 AGAATATTTGAAGGAAAG
* * ** *
20875986 TCCAAAGAACAAAAGAATTTAATAATAATTATTTGCGTAGTGTAATTACAAATGAAAGAATGAAA
1 TCCAAAGAACAAAAGAATCTAAGAATAATTATTTGAATAGTATAATTACAAATGAAAGAATGAAA
20876051 GAATAT
66 GAATAT
20876057 CTGCTAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 44 0.75
82 14 0.24
83 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (82 bp):
TCCAAAGAACAAAAGAATCTAAGAATAATTATTTGAATAGTATAATTACAAATGAAAGAATGAAA
GAATATTTGAAGGAAAG
Found at i:20884627 original size:55 final size:55
Alignment explanation
Indices: 20884567--20884672 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
20884557 CAAAGTTGTA
* *
20884567 CACGGGTAGGCCA-CACGGGTGTGCGTCATGGCCT-TGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGG-CAGCACGGGTGTGCGCCATGG-CTGTGTTAAAAAGACAGTGTCGTC
* * *
20884622 CACGGGCAGGCAGCACGGGTGTGTGCCATGGCTGTGTTAATAAGTCAGTGT
1 CACGGGCAGGCAGCACGGGTGTGCGCCATGGCTGTGTTAAAAAGACAGTGT
20884673 TTCCCAAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 4 0.09
55 40 0.91
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.23
Consensus pattern (55 bp):
CACGGGCAGGCAGCACGGGTGTGCGCCATGGCTGTGTTAAAAAGACAGTGTCGTC
Found at i:20886882 original size:27 final size:28
Alignment explanation
Indices: 20886852--20886904 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20886842 TTTTAAAATG
*
20886852 TCATAAAGAG-AATTTAGAATAAATATT
1 TCATAAAAAGTAATTTAGAATAAATATT
*
20886879 TCATAAAAAGTAATTTGGAATAAATA
1 TCATAAAAAGTAATTTAGAATAAATA
20886905 ATACATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (28 bp):
TCATAAAAAGTAATTTAGAATAAATATT
Found at i:20886911 original size:28 final size:27
Alignment explanation
Indices: 20886853--20886911 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
20886843 TTTAAAATGT
* * *
20886853 CATAAAGAGAATTTAGAATAAATATTT
1 CATAAAAAGAATTTAGAATAAATAATA
*
20886880 CATAAAAAGTAATTTGGAATAAATAATA
1 CATAAAAAG-AATTTAGAATAAATAATA
20886908 CATA
1 CATA
20886912 TATAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (27 bp):
CATAAAAAGAATTTAGAATAAATAATA
Found at i:20893325 original size:17 final size:17
Alignment explanation
Indices: 20893303--20893338 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20893293 TTTAATTAAT
* *
20893303 TTTAAAAAATTATAAAA
1 TTTAAAAAAATAAAAAA
20893320 TTTAAAAAAATAAAAAA
1 TTTAAAAAAATAAAAAA
20893337 TT
1 TT
20893339 AAGAATCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTTAAAAAAATAAAAAA
Found at i:20896127 original size:26 final size:27
Alignment explanation
Indices: 20896098--20896154 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
20896088 AAAAACTTTG
20896098 TTATACA-ATTTTATTTTTAAACTCAT
1 TTATACATATTTTATTTTTAAACTCAT
** * **
20896124 TTATTTATTTTTTATTTTTAATTTCAT
1 TTATACATATTTTATTTTTAAACTCAT
20896151 TTAT
1 TTAT
20896155 CCAAAAGCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (27 bp):
TTATACATATTTTATTTTTAAACTCAT
Found at i:20897241 original size:27 final size:27
Alignment explanation
Indices: 20897203--20897257 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
20897193 TTTGTCAAAG
*
20897203 TCCATTTTTCTGGTTTATATTTTCACC
1 TCCATTTTTCTGGCTTATATTTTCACC
20897230 TCCATTTTTCTGGCTTATATTTTCACC
1 TCCATTTTTCTGGCTTATATTTTCACC
20897257 T
1 T
20897258 AAACTCTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.24, G:0.07, T:0.55
Consensus pattern (27 bp):
TCCATTTTTCTGGCTTATATTTTCACC
Found at i:20903326 original size:3 final size:3
Alignment explanation
Indices: 20903318--20903363 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
20903308 AAAGATATTG
20903318 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
20903364 GATATTAGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20906371 original size:21 final size:21
Alignment explanation
Indices: 20906347--20906392 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
20906337 ACTGATAAAG
20906347 ATCAATCTTCAAGTTAGGTAA
1 ATCAATCTTCAAGTTAGGTAA
20906368 ATCAATCTTCAAGTTAGGTAA
1 ATCAATCTTCAAGTTAGGTAA
20906389 ATCA
1 ATCA
20906393 TAAGATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (21 bp):
ATCAATCTTCAAGTTAGGTAA
Found at i:20908403 original size:137 final size:136
Alignment explanation
Indices: 20908157--20908442 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
20908147 CATTGGGCCT
** *
20908157 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCTCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
20908222 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCAGTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCAGTTCAAAATACATGCAACATCAGT-AA
20908287 CATATGC
130 CATATGC
20908294 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
20908359 AGCCCCTTATTCAGATAACAGTATGGCCTATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCAGTTCAAAATACATGCAACATCAGTAAC
20908424 ATATGC
131 ATATGC
20908430 AAGCCCATTTGGG
1 AAGCCCATTTGGG
20908443 GAGACTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 22 0.15
137 121 0.85
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCAGTTCAAAATACATGCAACATCAGTAAC
ATATGC
Found at i:20908517 original size:19 final size:19
Alignment explanation
Indices: 20908493--20908531 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
20908483 CAGCCATACA
20908493 CTCCATGTGGGGAATAGCT
1 CTCCATGTGGGGAATAGCT
20908512 CTCCATGTGGGGAATAGCT
1 CTCCATGTGGGGAATAGCT
20908531 C
1 C
20908532 AACCCACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (19 bp):
CTCCATGTGGGGAATAGCT
Found at i:20908746 original size:25 final size:26
Alignment explanation
Indices: 20908709--20908761 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
20908699 TCAAACATGC
20908709 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
20908735 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
20908761 A
1 A
20908762 AAACTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:20910278 original size:26 final size:26
Alignment explanation
Indices: 20910242--20910349 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
20910232 CATGAAATTC
20910242 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
20910268 TTATGATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
20910294 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
20910320 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
20910346 TTAT
1 TTAT
20910350 TAATTTGTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:20912676 original size:27 final size:27
Alignment explanation
Indices: 20912620--20912732 Score: 97
Period size: 27 Copynumber: 4.2 Consensus size: 27
20912610 GAAATCTGTC
* **
20912620 AGGACTATCTTAA-GTGAGAAGTCCTTT
1 AGGACAATCTTAATGTG-GAAGTCCGCT
*
20912647 AGGACAATCATAATGTGGAAGTCCGCT
1 AGGACAATCTTAATGTGGAAGTCCGCT
*
20912674 AGGAAAAT-TGTAATGTGGAAGTCCG-T
1 AGGACAATCT-TAATGTGGAAGTCCGCT
* * * *
20912700 CAAGACAATCTTAATGTAGAAGTCTGCC
1 -AGGACAATCTTAATGTGGAAGTCCGCT
20912728 AGGAC
1 AGGAC
20912733 GATTGTATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.01
27 64 0.93
28 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (27 bp):
AGGACAATCTTAATGTGGAAGTCCGCT
Found at i:20912738 original size:54 final size:54
Alignment explanation
Indices: 20912567--20912739 Score: 145
Period size: 54 Copynumber: 3.2 Consensus size: 54
20912557 AGTCCGTTAA
* * * * * *
20912567 GACAATTGCAATATGGAAGTTCGTC-AGAATAATCTTAATGTAAGAAATCTGTCAG
1 GACAATTGTAATGTGGAAGTCCGTCAAG-ACAATCTTAATGT-AGAAGTCTGCCAG
* * * * * * * *
20912622 GACTATCT-TAA-GTGAGAAGTCCTTTAGGACAATCATAATGTGGAAGTCCGCTAG
1 GACAAT-TGTAATGTG-GAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
*
20912676 GAAAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
1 GACAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
*
20912730 GACGATTGTA
1 GACAATTGTA
20912740 TTTGGGAAGT
Statistics
Matches: 88, Mismatches: 25, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
53 1 0.01
54 57 0.65
55 28 0.32
56 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (54 bp):
GACAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
Found at i:20918055 original size:43 final size:43
Alignment explanation
Indices: 20917984--20918388 Score: 246
Period size: 43 Copynumber: 9.3 Consensus size: 43
20917974 GTTTGAACGG
* *
20917984 AAAAACGCCGCTAAAAGTAG-ATACCTTTAGCGGCGCTTACCCA
1 AAAAACGCCGCTAAAGGT-GCAGACCTTTAGCGGCGCTTACCCA
* * * **
20918027 AAAAACGCTGCTAAAGGTGCAGAACTTTAGCGGTGCTTACAGAA
1 AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCGCTTAC-CCA
* * *
20918071 AAAAACGCCGCTGAAGGTGCAGACCTTTAGCGGCGTTTTATCC-
1 AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCG-CTTACCCA
* * * ***
20918114 AAAAACGCCACTAAAGGTGCAGACCTTTAGCGGCGTTTTCAGG
1 AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCGCTTACCCA
* * * * *****
20918157 AAAAGCGCCGCTAAAAGTGCGGACCTTTAGCGGCGTTTGTTTG
1 AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCGCTTACCCA
* * * * * *
20918200 CAAAGCGCCACTAAAAGTACAGACCTTTAGCGGAGCTTTAGCCCA
1 AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCGC-TTA-CCCA
* ** * * *
20918245 AAAAA-ACCGCTAAATTTACAGACCTATAGCGGCACTTACACC-
1 AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCGCTTAC-CCA
* * * *
20918287 AAAAACGCCGCCAAAAGTACAGACCTTTTAGCGGCGCTTTATCC-
1 AAAAACGCCGCTAAAGGTGCAGACC-TTTAGCGGCGC-TTACCCA
* * * * * *
20918331 ACAAACGCCGCCAAAAGTAG-AGTCCTTTAGCGGCGCTTTCCCC
1 AAAAACGCCGCTAAAGGT-GCAGACCTTTAGCGGCGCTTACCCA
* *
20918374 ACAAACGCCACTAAA
1 AAAAACGCCGCTAAA
20918389 TTTACAGATT
Statistics
Matches: 287, Mismatches: 63, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
42 14 0.05
43 175 0.61
44 89 0.31
45 9 0.03
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCGCTTACCCA
Found at i:20918209 original size:86 final size:87
Alignment explanation
Indices: 20917984--20918388 Score: 279
Period size: 87 Copynumber: 4.7 Consensus size: 87
20917974 GTTTGAACGG
* * * **
20917984 AAAAACGCCGCTAAAAGTAG-ATACCTTTAGCGGCG-CTTACCCAAAAAACGCTGCTAAAGGTGC
1 AAAAACGCCGCTAAAAGT-GCAGACCTTTAGCGGCGTTTTATCC-AAAAACGCCACTAAAGGTGC
* *
20918047 AGAACTTTAGCGGTGCTTACAGAA
64 AGACCTTTAGCGGCGCTTACAGAA
* *
20918071 AAAAACGCCGCTGAAGGTGCAGACCTTTAGCGGCGTTTTATCCAAAAACGCCACTAAAGGTGCAG
1 AAAAACGCCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTATCCAAAAACGCCACTAAAGGTGCAG
* * *
20918136 ACCTTTAGCGGCGTTTTCAG-G
66 ACCTTTAGCGGCGCTTACAGAA
* * * * * * *
20918157 AAAAGCGCCGCTAAAAGTGCGGACCTTTAGCGGCGTTTGTTTGC-AAAGCGCCACTAAAAGTACA
1 AAAAACGCCGCTAAAAGTGCAGACCTTTAGCGGCGTTT-TATCCAAAAACGCCACTAAAGGTGCA
* **
20918221 GACCTTTAGCGGAGCTTTAGCCCAA
65 GACCTTTAGCGGCGC-TTA-CAGAA
** * * ** * * * * *
20918246 AAAAA--CCGCTAAATTTACAGACCTATAGCGGC-ACTTACACCAAAAACGCCGCCAAAAGTACA
1 AAAAACGCCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTA-TCCAAAAACGCCACTAAAGGTGCA
* ***
20918308 GACCTTTTAGCGGCGCTT-TATCC
65 GACC-TTTAGCGGCGCTTACAGAA
* * * * ** *
20918331 ACAAACGCCGCCAAAAGTAG-AGTCCTTTAGCGGCGCTTTCCCCACAAACGCCACTAAA
1 AAAAACGCCGCTAAAAGT-GCAGACCTTTAGCGGCGTTTTATCCAAAAACGCCACTAAA
20918389 TTTACAGATT
Statistics
Matches: 244, Mismatches: 61, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
85 5 0.02
86 67 0.27
87 150 0.61
88 18 0.07
89 4 0.02
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (87 bp):
AAAAACGCCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTATCCAAAAACGCCACTAAAGGTGCAG
ACCTTTAGCGGCGCTTACAGAA
Found at i:20918267 original size:44 final size:44
Alignment explanation
Indices: 20918212--20918369 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
20918202 AAGCGCCACT
*
20918212 AAAAGTACAGACCTTTAGCGGAGCTTTAGC-CCAAAAAAACCGCT
1 AAAAGTACAGACCTTTAGCGGAGCTTTA-CACCAAAAAAACCGCC
** * **
20918256 AAATTTACAGACCTATAGCGGCA-C-TTACACCAAAAACGCCGCC
1 AAAAGTACAGACCTTTAGCGG-AGCTTTACACCAAAAAAACCGCC
* * * **
20918299 AAAAGTACAGACCTTTTAGCGGCGCTTTA-TCCACAAACGCCGCC
1 AAAAGTACAGACC-TTTAGCGGAGCTTTACACCAAAAAAACCGCC
* * *
20918343 AAAAGTAGAGTCCTTTAGCGGCGCTTT
1 AAAAGTACAGACCTTTAGCGGAGCTTT
20918370 CCCCACAAAC
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 39 0.41
44 51 0.54
45 4 0.04
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (44 bp):
AAAAGTACAGACCTTTAGCGGAGCTTTACACCAAAAAAACCGCC
Found at i:20924338 original size:9 final size:9
Alignment explanation
Indices: 20924324--20924460 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
20924314 ATGTATTAGT
20924324 TAAGTTATG
1 TAAGTTATG
20924333 TAAGTTATG
1 TAAGTTATG
*
20924342 TGAGTTATG
1 TAAGTTATG
*
20924351 TAAGTTGTTATA
1 TAA---GTTATG
*
20924363 TACGTTATG
1 TAAGTTATG
* *
20924372 TGAGTTATA
1 TAAGTTATG
*
20924381 TAAATTATG
1 TAAGTTATG
20924390 TAAGTTATG
1 TAAGTTATG
20924399 TAAGTTATG
1 TAAGTTATG
*
20924408 TAGGTTGTTATG
1 TA---AGTTATG
*
20924420 TAAATTATG
1 TAAGTTATG
**
20924429 TAAGTTACA
1 TAAGTTATG
*
20924438 TGAGTTATG
1 TAAGTTATG
* *
20924447 TAACTTATT
1 TAAGTTATG
20924456 TAAGT
1 TAAGT
20924461 AATGATCAAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 82 0.85
12 15 0.15
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:20924416 original size:57 final size:57
Alignment explanation
Indices: 20924328--20924460 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 57
20924318 ATTAGTTAAG
* ** * *
20924328 TTATGTAAGTTATGTGAGTTATGTAAGTTGTTATATACGTTATGTGAGTTATATAAA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
* * * *
20924385 TTATGTAAGTTATGTAAGTTATGTAGGTTGTTATGTAAATTATGTAAGTTACATGAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
* *
20924442 TTATGTAACTTATTTAAGT
1 TTATGTAAGTTATGTAAGT
20924461 AATGATCAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (57 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
Found at i:20927795 original size:24 final size:26
Alignment explanation
Indices: 20927741--20927795 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
20927731 TTATAATTAA
* *
20927741 ATTAATATAATATATAAAAATTTAGG
1 ATTAATATAAGATATAAAAATTTACG
*
20927767 A-TAATATTAGATA-AAAAATTT-CG
1 ATTAATATAAGATATAAAAATTTACG
20927790 ATTAAT
1 ATTAAT
20927796 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 12 0.48
25 10 0.40
26 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (26 bp):
ATTAATATAAGATATAAAAATTTACG
Found at i:20928469 original size:8 final size:8
Alignment explanation
Indices: 20928456--20928484 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20928446 TTCGGGGTTG
20928456 GGGAATTA
1 GGGAATTA
20928464 GGGAATTA
1 GGGAATTA
20928472 GGGAATTA
1 GGGAATTA
20928480 GGGAA
1 GGGAA
20928485 AAAGGAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (8 bp):
GGGAATTA
Found at i:20929214 original size:7 final size:7
Alignment explanation
Indices: 20929202--20929247 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
20929192 ACAAAATCAG
20929202 ACCCTAA
1 ACCCTAA
20929209 ACCCTAA
1 ACCCTAA
* *
20929216 ATCTTAA
1 ACCCTAA
20929223 ACCCTAA
1 ACCCTAA
*
20929230 ACTCTAA
1 ACCCTAA
*
20929237 ACCATAA
1 ACCCTAA
20929244 ACCC
1 ACCC
20929248 CTAACCTTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (7 bp):
ACCCTAA
Found at i:20929227 original size:21 final size:21
Alignment explanation
Indices: 20929202--20929274 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
20929192 ACAAAATCAG
*
20929202 ACCCTAAACCCTAAATCTTAA
1 ACCCTAAACCCTAAAACTTAA
* * *
20929223 ACCCTAAACTCTAAACCATAA
1 ACCCTAAACCCTAAAACTTAA
*
20929244 ACCCCT-AACCTTATAAACATTAA
1 A-CCCTAAACCCTA-AAAC-TTAA
20929267 ACCCTAAA
1 ACCCTAAA
20929275 TTCTAGATAC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 24 0.59
22 11 0.27
23 6 0.15
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (21 bp):
ACCCTAAACCCTAAAACTTAA
Found at i:20929649 original size:14 final size:14
Alignment explanation
Indices: 20929632--20929675 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
20929622 TTAACTTATC
*
20929632 CCCTATCCCTTAAA
1 CCCTAACCCTTAAA
*
20929646 CCCTAACCCCT-AA
1 CCCTAACCCTTAAA
20929659 CCACTAACCCTTAAA
1 CC-CTAACCCTTAAA
20929674 CC
1 CC
20929676 TTAATACTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAACCCTTAAA
Found at i:20930425 original size:7 final size:7
Alignment explanation
Indices: 20930413--20930438 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20930403 ATTAAGATCA
20930413 TAAACAC
1 TAAACAC
20930420 TAAACAC
1 TAAACAC
20930427 TAAACAC
1 TAAACAC
20930434 TAAAC
1 TAAAC
20930439 CTCAAACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACAC
Found at i:20930674 original size:41 final size:41
Alignment explanation
Indices: 20930614--20930994 Score: 421
Period size: 41 Copynumber: 9.3 Consensus size: 41
20930604 GTGTTTCTCC
* * * *
20930614 AAAACGCCGCTAATACTCAGACTTTTTGAGGCGCTTTTACA
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTACA
* * *
20930655 AACACGCCGCTAATACTCAGACTTTTGGCGACG-TTTTACCA
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTA-CA
* *
20930696 AAAACGCCGCTAATACTCAGACTTTTGG-GGCGTTTTTATA
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTACA
*
20930736 AAAACGCCGCTAATGCTCAGACCTTTGGCGGCGTTTTGGTA-A
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTT--TACA
* * * * *
20930778 AAAACGCCGCTAACGCTCAGACCTTTGGCAGCATTTTTATA
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTACA
20930819 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTT-CTA
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTAC-A
* **
20930860 AAAATGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTGGA
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTACA
* * * ** *
20930901 AAAATGCCGCGAATTCTCAGACTTTTTACGGCGTTTCTT-GA
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTT-TTACA
* * * * *
20930942 AAAACGCCGCTAATTCTCAGACTTTTTGCGACGTTTTTCCG
1 AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTACA
20930983 AAAACGCCGCTA
1 AAAACGCCGCTA
20930995 TTTCTCGACT
Statistics
Matches: 301, Mismatches: 29, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
40 39 0.13
41 223 0.74
42 37 0.12
43 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (41 bp):
AAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTACA
Found at i:20947418 original size:26 final size:26
Alignment explanation
Indices: 20947360--20947494 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
20947350 CATGAAATTC
*
20947360 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGGAACATTTACCTAACCTA
* *
20947385 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
20947411 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
20947437 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
20947463 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
20947489 TTATCA
1 TTATCA
20947495 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 24 0.22
26 83 0.78
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:20952057 original size:20 final size:21
Alignment explanation
Indices: 20952013--20952068 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
20952003 CTATTACTTC
20952013 TTTATTATTTTA-TTACTATT
1 TTTATTATTTTATTTACTATT
* *
20952033 GTTATTATTTTATTTTC-ATT
1 TTTATTATTTTATTTACTATT
20952053 TTTATTTTATTTTATT
1 TTTA--TTATTTTATT
20952069 ATGCTGCCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 17 0.57
21 3 0.10
22 10 0.33
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTATTATTTTATTTACTATT
Found at i:20953884 original size:22 final size:22
Alignment explanation
Indices: 20953856--20953898 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20953846 AATATACATT
20953856 CTTAATGATATAAGAAAGGTTG
1 CTTAATGATATAAGAAAGGTTG
* *
20953878 CTTAATGATGTAAGAAGGGTT
1 CTTAATGATATAAGAAAGGTT
20953899 ACTAGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (22 bp):
CTTAATGATATAAGAAAGGTTG
Found at i:20957963 original size:26 final size:26
Alignment explanation
Indices: 20957934--20958041 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
20957924 TGACACAAAT
20957934 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20957960 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20957986 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20958012 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20958038 TGAT
1 TGAT
20958042 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:20959527 original size:28 final size:26
Alignment explanation
Indices: 20959485--20959559 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
20959475 AAAAGTAGCT
* *
20959485 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
20959513 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
20959539 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
20959560 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:20959847 original size:27 final size:27
Alignment explanation
Indices: 20959667--20959843 Score: 282
Period size: 27 Copynumber: 6.5 Consensus size: 27
20959657 AAGCGTTCTA
*
20959667 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
20959694 GTGGCTCTGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
20959721 GTGGCTCTGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
20959748 GTGGCTCTGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
20959775 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
20959802 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTG
* *
20959830 GTGACTCTGTCACA
1 GTGGCTCTGCCACA
20959844 TTATTTGTTC
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
27 124 0.89
28 15 0.11
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTG
Found at i:20963263 original size:113 final size:114
Alignment explanation
Indices: 20963137--20963364 Score: 307
Period size: 113 Copynumber: 2.0 Consensus size: 114
20963127 ATTTTTCAGA
* *
20963137 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCCCCATTTTCATTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCA-TTTCATTTTC
20963202 ATTCTGGACAAAACCATAATAATTTCCAAAT-ATTT-CAACTTCTCCATT
65 ATTCTGGACAAAACCATAATAATTTCCAAATGATTTCCAACTTCTCCATT
* * * * *
20963250 TCATTTTCATTTTGGAGAAATCCATAATCATTTCCAAATGTTTCCATTTCTCCATTTCGTTTTCA
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCATTTCATTTTCA
* * * * * * *
20963315 TTTTGGAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
66 TTCTGGACAAAACCATAATAATTTCCAAATGATTTCCAACTTCTCCATT
20963364 T
1 T
20963365 TCACCAATTC
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
112 35 0.35
113 52 0.53
114 12 0.12
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (114 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCATTTCATTTTCA
TTCTGGACAAAACCATAATAATTTCCAAATGATTTCCAACTTCTCCATT
Found at i:20963275 original size:56 final size:57
Alignment explanation
Indices: 20963137--20963364 Score: 300
Period size: 56 Copynumber: 4.0 Consensus size: 57
20963127 ATTTTTCAGA
* * * *
20963137 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGA-TTCCATTTCCCCATTT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCA-TT
* * * * *
20963194 TCATTTTCATTCTGGACAAAACCATAATAATTTCCAAAT-ATTTCAACTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
*
20963250 TCATTTTCATTTTGGAGAAATCCATAATCATTTCCAAATG-TTTCCATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
* * *
20963306 TCGTTTTCATTTTGGAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCC-ATTTCTCCATT
20963364 T
1 T
20963365 TCACCAATTC
Statistics
Matches: 148, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
56 88 0.59
57 48 0.32
58 12 0.08
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
Found at i:20965111 original size:19 final size:19
Alignment explanation
Indices: 20965074--20965111 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20965064 ATCTGGATTC
*
20965074 AAGAACACTTTCTTTTTCT
1 AAGAACACTTTCTTCTTCT
20965093 AAGAACA-TTTCTCTCTTCT
1 AAGAACACTTTCT-TCTTCT
20965112 TGTTTTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (19 bp):
AAGAACACTTTCTTCTTCT
Found at i:20968118 original size:2 final size:2
Alignment explanation
Indices: 20968111--20968148 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
20968101 TTCTATTTGC
*
20968111 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20968149 AACACATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20968875 original size:2 final size:2
Alignment explanation
Indices: 20968868--20968903 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
20968858 ACTTGATACT
20968868 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20968904 TACATGGTAT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:20970888 original size:19 final size:16
Alignment explanation
Indices: 20970858--20970905 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 16
20970848 ACCATTACTA
20970858 TTATCATTATTATTAT
1 TTATCATTATTATTAT
20970874 TGTAATCATTTATTATTAT
1 T-T-ATCA-TTATTATTAT
20970893 TTATCATTATTAT
1 TTATCATTATTAT
20970906 AAATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.28
17 5 0.17
18 5 0.17
19 11 0.38
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATCATTATTATTAT
Found at i:20971134 original size:3 final size:3
Alignment explanation
Indices: 20971054--20971142 Score: 58
Period size: 3 Copynumber: 30.0 Consensus size: 3
20971044 TATTTACTTA
* * * * *
20971054 TAT TAT TACT TA- TAT TGT TAT TAC TAT TAT CAT TAT GATT TAT TAC
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * *
20971100 T-T TAG TAT TAT CAT TAT TAC TAC TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20971143 ATTTTTGCCC
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
2 5 0.08
3 55 0.85
4 5 0.08
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:20971135 original size:20 final size:21
Alignment explanation
Indices: 20971057--20971138 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
20971047 TTACTTATAT
*
20971057 TATTACTTA-TATTGTTATTAC
1 TATTA-TTATTATTATTATTAC
* *
20971078 TATTATCATTATGATTTATTAC
1 TATTATTATTATTA-TTATTAC
* *
20971100 T-TTAGTATTATCATTATTAC
1 TATTATTATTATTATTATTAC
*
20971120 TACTATTA-TATTATTATTA
1 TATTATTATTATTATTATTA
20971139 TTATATTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
20 20 0.41
21 21 0.43
22 8 0.16
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTATTATTATTATTATTAC
Found at i:20983200 original size:43 final size:44
Alignment explanation
Indices: 20983139--20983225 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
20983129 ATTCACCAAG
* * *
20983139 CCTTAAACCCCGAAGCAGTAGGGTAACAGG-TTAAATTTACAGA
1 CCTTAAACCCCGAAGCAGTAAGGTAACAGGCTAAAAATTACAGA
* * *
20983182 CCTTAACCCCCTAAGCAGTAAGGTAATAGGCTAAAAATTACAGA
1 CCTTAAACCCCGAAGCAGTAAGGTAACAGGCTAAAAATTACAGA
20983226 TTTTGTCTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 26 0.70
44 11 0.30
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (44 bp):
CCTTAAACCCCGAAGCAGTAAGGTAACAGGCTAAAAATTACAGA
Found at i:20985729 original size:19 final size:18
Alignment explanation
Indices: 20985682--20985729 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
20985672 ACCATTACTA
20985682 TTATCGTTATTATTATTG
1 TTATCGTTATTATTATTG
* *
20985700 TAATCATTTATTATTA-T-
1 TTATC-GTTATTATTATTG
20985717 TTATCGTTATTAT
1 TTATCGTTATTAT
20985730 AAATATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.28
17 4 0.16
18 5 0.20
19 9 0.36
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (18 bp):
TTATCGTTATTATTATTG
Found at i:20985886 original size:12 final size:11
Alignment explanation
Indices: 20985873--20985964 Score: 69
Period size: 12 Copynumber: 7.6 Consensus size: 11
20985863 CTCTATTTAC
20985873 TTATATTATTA
1 TTATATTATTA
*
20985884 CTTATATTGTTA
1 -TTATATTATTA
*
20985896 TTACTATTATCA
1 TTA-TATTATTA
20985908 TTATGATTTATTA
1 TTAT-A-TTATTA
20985921 CTT-TATTATTA
1 -TTATATTATTA
*
20985932 TCATTATTACTACTA
1 TTA-TATTA-T--TA
20985947 TTATATTATTA
1 TTATATTATTA
20985958 TTATATT
1 TTATATT
20985965 TTTGCCCATT
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
10 1 0.02
11 19 0.29
12 26 0.40
13 8 0.12
14 7 0.11
15 4 0.06
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.59
Consensus pattern (11 bp):
TTATATTATTA
Found at i:20985931 original size:3 final size:3
Alignment explanation
Indices: 20985876--20985961 Score: 61
Period size: 3 Copynumber: 29.0 Consensus size: 3
20985866 TATTTACTTA
* * * * *
20985876 TAT TAT TACT TA- TAT TGT TAT TAC TAT TAT CAT TAT GATT TAT TAC
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
20985922 T-T TAT TAT TAT CAT TAT TAC TAC TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20985962 ATTTTTGCCC
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
2 5 0.08
3 54 0.84
4 5 0.08
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:20985947 original size:45 final size:45
Alignment explanation
Indices: 20985878--20985964 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 45
20985868 TTTACTTATA
* *
20985878 TTATTACTTATATTGTTATTACTATTATCATTATGATT-TATTACT
1 TTATTACTTATATTATTACTACTATTAT-ATTATGATTATATTACT
*
20985923 TTATTA-TTATCATTATTACTACTATTATATTATTATTATATT
1 TTATTACTTAT-ATTATTACTACTATTATATTATGATTATATT
20985965 TTTGCCCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 12 0.32
45 25 0.68
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (45 bp):
TTATTACTTATATTATTACTACTATTATATTATGATTATATTACT
Found at i:20987172 original size:2 final size:2
Alignment explanation
Indices: 20987167--20987191 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20987157 TAATACTACG
20987167 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20987192 TTTATTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20987314 original size:22 final size:23
Alignment explanation
Indices: 20987289--20987331 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20987279 TGTTTTCAAT
*
20987289 AAATATCGTA-TATATATTTTTA
1 AAATATAGTATTATATATTTTTA
*
20987311 AAATCTAGTATTATATATTTT
1 AAATATAGTATTATATATTTT
20987332 ATATATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (23 bp):
AAATATAGTATTATATATTTTTA
Found at i:20999321 original size:63 final size:64
Alignment explanation
Indices: 20999222--20999344 Score: 212
Period size: 63 Copynumber: 1.9 Consensus size: 64
20999212 TCATTCGTGA
*
20999222 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGC-TCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCGTCCTAATTATTTGACATAAGCAT
* *
20999285 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCGTCCTAATTATTTGACATAA
20999345 ACATAGATAC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 38 0.68
64 18 0.32
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCGTCCTAATTATTTGACATAAGCAT
Found at i:20999740 original size:87 final size:87
Alignment explanation
Indices: 20999419--20999901 Score: 441
Period size: 87 Copynumber: 5.6 Consensus size: 87
20999409 GAATTCACAA
* * * *
20999419 GCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAG
* **
20999484 GGAAATAGATCG-AAGATGATGG
66 GGAAACAGATCGAAAG-TGACAG
* * * * *
20999506 GCCCTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTAAAGATCTT-ATCTCCCTAAGCAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GA-ATTTACAGATCTTAAAC-CCCTAAGCAG
* * *
20999570 TAGTGG-AGCAGAT-TAAATATGA-AG
63 TAG-GGAAACAGATCGAAA-GTGACAG
* * * * *
20999594 GACCTTAACCCCC-AAGTAGTAGGGTAACAAGCTGAATTTACAGATC-TCATCACCCTAAGTAGT
1 G-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAAC-CCCTAAGCAGT
*
20999657 AGGGAAACAGATCGAAAGTGACAA
64 AGGGAAACAGATCGAAAGTGACAG
* * * * *
20999681 GCCTTAACCCCCTAAACAGTAGGGTAATAGGCTGAATTTGCAGATCTTAAACCCTTAAGTAGTAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAG
* * **
20999746 GGAAACAGATCGAAGGCGATGG
66 GGAAACAGATCGAAAGTGACAG
* *
20999768 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGGA-TTACAGATCTT-AACCCCTTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCC-TAAGCAGTA
* *
20999831 GGGAAACAGATTG-AAGACGA-AGG
65 GGGAAACAGATCGAAAG-TGACA-G
* * **
20999854 GCCTTAAACCCCTAAGCAGTAAGGTAACAGATTGAA-TTACAGATCTTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTA
20999902 TCTCTCTAAG
Statistics
Matches: 329, Mismatches: 50, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
85 10 0.03
86 122 0.37
87 125 0.38
88 27 0.08
89 43 0.13
90 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (87 bp):
GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAG
GGAAACAGATCGAAAGTGACAG
Found at i:20999886 original size:44 final size:44
Alignment explanation
Indices: 20999726--20999889 Score: 156
Period size: 44 Copynumber: 3.8 Consensus size: 44
20999716 ATTTGCAGAT
* * * * *
20999726 CTTAAACCCTTAAGTAGTAGGGAAACAGATCGAAGGCGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGACGAAGGGC
* ** ** **
20999770 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTG--GATTACA-GAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGACGA-AGGGC
20999812 CTT-AACCCCTTAAGCAGTAGGGAAACAGATTGAAGACGAAGGGC
1 CTTAAACCCC-TAAGCAGTAGGGAAACAGATTGAAGACGAAGGGC
* *
20999856 CTTAAACCCCTAAGCAGTAAGGTAACAGATTGAA
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATTGAA
20999890 TTACAGATCT
Statistics
Matches: 93, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
41 6 0.06
42 25 0.27
43 1 0.01
44 55 0.59
45 6 0.06
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (44 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATTGAAGACGAAGGGC
Found at i:20999920 original size:262 final size:261
Alignment explanation
Indices: 20999415--20999917 Score: 658
Period size: 262 Copynumber: 1.9 Consensus size: 261
20999405 CGGTGAATTC
* *
20999415 ACAAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAAATTTACAAATCTTAACCCCCTAAGCA
1 ACAAGCCTTAACCCCCTAAACAGTAAGGTAACAGGCTAAATTTACAAATCTTAAACCCCTAAGCA
* *
20999480 GTAGGGAAATAGATCGAAGATGATGGGCCCTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAGAT
66 GTAGGGAAACAGATCGAAGACGATGGGCCCTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAGAT
* * * *
20999545 TTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAATATGAAGGACCTTAACCCCCAAG
130 TTAAAGATCTTAACTCCCTAAGCAGTAGTGGAACAGATTAAAGACGAAGGACCTTAACCCCCAAG
* *
20999610 TAGTAGGGTAACAAGCTGAATTTACAGATCTCATCACCCTAAGTAGTAGGGAAACAGATCGAAAG
195 CAGTAAGGTAACAAGCTGAATTTACAGATCTCATCACCCTAAGTAGTAGGGAAACAGATCGAAAG
20999675 TG
260 TG
* * * * * * *
20999677 ACAAGCCTTAACCCCCTAAACAGTAGGGTAATAGGCTGAATTTGCAGATCTTAAACCCTTAAGTA
1 ACAAGCCTTAACCCCCTAAACAGTAAGGTAACAGGCTAAATTTACAAATCTTAAACCCCTAAGCA
* * *
20999742 GTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GGA-T
66 GTAGGGAAACAGATCGAAGACGATGGGCCCTAAACCCCTAAGCAGTAGGGTAACAGGCTAAGATT
* * * *
20999805 TACAGATCTTAAC-CCCTTAAGCAGTAG-GGAAACAGATTGAAGACGAAGGGCCTTAAACCCCTA
131 TAAAGATCTTAACTCCC-TAAGCAGTAGTGG-AACAGATTAAAGACGAAGGACCTT-AACCCCCA
* * * * *
20999868 AGCAGTAAGGTAAC-AGATTGAA-TTACAGATCTTATCTCTCTAAGCAGTAG
193 AGCAGTAAGGTAACAAG-CTGAATTTACAGATCTCATCACCCTAAGTAGTAG
20999918 TAGAGTAGAT
Statistics
Matches: 208, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
258 5 0.02
259 67 0.32
260 25 0.12
262 111 0.53
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (261 bp):
ACAAGCCTTAACCCCCTAAACAGTAAGGTAACAGGCTAAATTTACAAATCTTAAACCCCTAAGCA
GTAGGGAAACAGATCGAAGACGATGGGCCCTAAACCCCTAAGCAGTAGGGTAACAGGCTAAGATT
TAAAGATCTTAACTCCCTAAGCAGTAGTGGAACAGATTAAAGACGAAGGACCTTAACCCCCAAGC
AGTAAGGTAACAAGCTGAATTTACAGATCTCATCACCCTAAGTAGTAGGGAAACAGATCGAAAGT
G
Found at i:20999933 original size:86 final size:87
Alignment explanation
Indices: 20999419--20999970 Score: 483
Period size: 86 Copynumber: 6.4 Consensus size: 87
20999409 GAATTCACAA
* * * * *
20999419 GCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGACTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
* * *
20999484 GGAAATAGATCGAAGATGATGG
66 GGAAACAGATCGAAGACGAAGG
* * * * * *
20999506 GCCCTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTAAAGATCTTATCTCCCTAAGCAGT
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGACT-GA-ATTTACAGATCTTAACCCCCTAAGCAGT
* ** * *
20999571 AGTGG-AGCAGATTAAATATGAAGG
64 AG-GGAAACAGATCGAAGACGAAGG
* * * * * * *
20999595 ACCTT-AACCCCCAAGTAGTAGGGTAACA-AGCTGAATTTACAGATCTCATCACCCTAAGTAGTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGA-CTGAATTTACAGATCTTAACCCCCTAAGCAGTA
20999658 GGGAAACAGATCGAAAGTGAC-AA--
65 GGGAAACAGATCG-AA--GACGAAGG
* * * * * * * *
20999681 GCCTTAACCCCCTAAACAGTAGGGTAATAGGCTGAATTTGCAGATCTTAAACCCTTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGACTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
* *
20999746 GGAAACAGATCGAAGGCGATGG
66 GGAAACAGATCGAAGACGAAGG
* * *
20999768 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGGA-TTACAGATCTTAACCCCTTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGACTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
*
20999832 GGAAACAGATTGAAGACGAAGG
66 GGAAACAGATCGAAGACGAAGG
* * * * *
20999854 GCCTTAAACCCCTAAGCAGTAAGGTAACAGATTGAA-TTACAGATCTTATCTCTCTAAGCAGTA-
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGACTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
* ** * *
20999917 GTAGAGTAGATCGAAGACAAATG
66 GGA-AACAGATCGAAGACGAAGG
** * *
20999940 ATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGA
20999971 TCAGAGGTGA
Statistics
Matches: 379, Mismatches: 72, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
84 2 0.01
85 5 0.01
86 177 0.47
87 123 0.32
88 27 0.07
89 43 0.11
90 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (87 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGACTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGACGAAGG
Found at i:20999972 original size:44 final size:41
Alignment explanation
Indices: 20999721--20999972 Score: 152
Period size: 44 Copynumber: 5.9 Consensus size: 41
20999711 GCTGAATTTG
* * *
20999721 CAGATCTTAAACCCTTAAGTAGTAGGGAAACAGATCGAAGG
1 CAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGA
* * * **
20999762 C-GATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGGATTA
1 CAGAT----CTTAAACCCCTAAGCAGTAGGGAAACA-GATCGAAGA
*
20999807 CAGATCTT-AACCCCTTAAGCAGTAGGGAAACAGATTGAAGA
1 CAGATCTTAAACCCC-TAAGCAGTAGGGAAACAGATCGAAGA
** * * * *
20999848 CGAAGGGCCTTAAACCCCTAAGCAGTAAGGTAACAGATTGAATTA
1 C--A-GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAA-GA
* * * **
20999893 CAGATCTT-ATCTCTCTAAGCAGTA-GTAGAGTAGATCGAAGA
1 CAGATCTTAAAC-CCCTAAGCAGTAGGGA-AACAGATCGAAGA
*
20999934 CAAATGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC
1 C--A-GATCTTAAACCCCTAAGCAGTAGGGAAACAGATC
20999973 AGAGGTGATG
Statistics
Matches: 159, Mismatches: 33, Indels: 35
0.70 0.15 0.15
Matches are distributed among these distances:
40 3 0.02
41 18 0.11
42 42 0.26
43 3 0.02
44 73 0.46
45 17 0.11
46 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (41 bp):
CAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGA
Found at i:21001889 original size:32 final size:32
Alignment explanation
Indices: 21001832--21001892 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
21001822 TATGTATATC
*
21001832 AATATTATACTATGTATACTTTTTCTTTTCTA
1 AATATTATACTATGTATACTATTTCTTTTCTA
21001864 AATATTATA-TATGCATATA-TATTTCTTTT
1 AATATTATACTATG--TATACTATTTCTTTT
21001893 ATATATTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 4 0.15
32 18 0.69
33 4 0.15
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (32 bp):
AATATTATACTATGTATACTATTTCTTTTCTA
Found at i:21001920 original size:25 final size:26
Alignment explanation
Indices: 21001857--21001927 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
21001847 ATACTTTTTC
*
21001857 TTTTCTAA-ATATTATATATGCATATA
1 TTTTCTAATATA-TATATATGCATACA
** *
21001883 TATTTCTTTTATATAT-TATGTATACA
1 T-TTTCTAATATATATATATGCATACA
*
21001909 TTTTCTAATATATACATAT
1 TTTTCTAATATATATATAT
21001928 ACTATGTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
25 11 0.31
26 13 0.37
27 8 0.23
28 3 0.09
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (26 bp):
TTTTCTAATATATATATATGCATACA
Found at i:21002209 original size:22 final size:24
Alignment explanation
Indices: 21002165--21002209 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
21002155 ATGTATCGTC
* *
21002165 ATTATTAGTTTTTATATATATATT
1 ATTATTAGTTTTCATATAAATATT
21002189 ATTATT-GTTTTCA-ATAAATAT
1 ATTATTAGTTTTCATATAAATAT
21002210 CGTATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTATTAGTTTTCATATAAATATT
Found at i:21018088 original size:16 final size:17
Alignment explanation
Indices: 21018051--21018085 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
21018041 ATGGTAAATG
21018051 AAATATATTGAAATTCA
1 AAATATATTGAAATTCA
21018068 AAATATA-T-AAATTCA
1 AAATATATTGAAATTCA
21018083 AAA
1 AAA
21018086 ATAATTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 1 0.06
17 7 0.39
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
AAATATATTGAAATTCA
Found at i:21019502 original size:47 final size:47
Alignment explanation
Indices: 21019433--21019524 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
21019423 TGCCTGTCGA
* *
21019433 ATCATGGCTAATTGTGTTAATAATTATGGATCATTTTAGTAAGAGTG
1 ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAGTG
* * * *
21019480 ATCATAGCTTATTGTGTTAATAATTCTTGATTATTTTAGAAAGAG
1 ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAG
21019525 ATGTTTCTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (47 bp):
ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAGTG
Found at i:21023974 original size:1 final size:1
Alignment explanation
Indices: 21023968--21023994 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
21023958 GGGGAAGAAG
21023968 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
21023995 CAGCATCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21027736 original size:2 final size:2
Alignment explanation
Indices: 21027729--21027792 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
21027719 CATCAACACC
21027729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21027771 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
21027793 ACTCCATTCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21032166 original size:35 final size:35
Alignment explanation
Indices: 21032139--21032304 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
21032129 CATGGCAAAG
*
21032139 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
21032174 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
21032209 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
21032249 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
21032284 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
21032305 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:21032258 original size:75 final size:75
Alignment explanation
Indices: 21032139--21032309 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
21032129 CATGGCAAAG
** *
21032139 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
21032198 CCATACTGAGC
65 CCATACCGAGC
21032209 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
21032274 CATACCGAGT
66 CATACCGAGC
**
21032284 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
21032310 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:21039648 original size:35 final size:35
Alignment explanation
Indices: 21039621--21039786 Score: 199
Period size: 35 Copynumber: 4.6 Consensus size: 35
21039611 CATGGCAAAG
*
21039621 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
21039656 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
*
21039691 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGC
** * * *
21039731 TAAGAAATGTAGGTATGGCATT-TCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
**
21039765 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
21039787 TCAATGAGGA
Statistics
Matches: 117, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
34 30 0.26
35 54 0.46
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.25
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
Found at i:21039711 original size:40 final size:40
Alignment explanation
Indices: 21039632--21039748 Score: 131
Period size: 40 Copynumber: 3.0 Consensus size: 40
21039622 GTGAAATGTA
21039632 GGTATGGTATTATCCATACTGAGTTGTGAAA--T--GTA-
1 GGTATGGTATTATCCATACTGAGTTGTGAAATGTAGGTAT
*
21039667 GGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTAT
1 GGTATGGTATTATCCATACTGAGTTGTGAAATGTAGGTAT
* **
21039707 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTAT--TATCCATACTGAGTTGTGAAATGTAGGTAT
21039747 GG
1 GG
21039749 CATTTCCATA
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
35 30 0.43
37 1 0.01
38 3 0.04
39 3 0.04
40 33 0.47
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (40 bp):
GGTATGGTATTATCCATACTGAGTTGTGAAATGTAGGTAT
Found at i:21039744 original size:75 final size:73
Alignment explanation
Indices: 21039621--21039790 Score: 231
Period size: 75 Copynumber: 2.4 Consensus size: 73
21039611 CATGGCAAAG
** *
21039621 TGTGAAATGTAGGTATGGTA-TT---ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCC
1 TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCC
*
21039682 ATACTGAGC
65 ATACCGAGC
21039691 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATT-TCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
21039756 ATACCGAGT
65 ATACCGAGC
**
21039765 TGAAAAATGTAGGTATGGTATTTCAA
1 TGTGAAATGTAGGTATGGTATTTCAA
21039791 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
70 20 0.23
71 1 0.01
72 1 0.01
73 4 0.05
74 30 0.34
75 32 0.36
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (73 bp):
TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCA
TACCGAGC
Found at i:21048507 original size:26 final size:24
Alignment explanation
Indices: 21048472--21048526 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
21048462 CTTTCCTTTA
21048472 ATATATAAATATAGATTAAAAATATT
1 ATATATAAATATA-ATTAAAAA-ATT
* * *
21048498 ATATTTAAATTTAATTATAAAATT
1 ATATATAAATATAATTAAAAAATT
21048522 ATATA
1 ATATA
21048527 AATGCAGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 7 0.28
25 7 0.28
26 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATATAAATATAATTAAAAAATT
Found at i:21051008 original size:5 final size:6
Alignment explanation
Indices: 21050995--21051059 Score: 76
Period size: 6 Copynumber: 10.5 Consensus size: 6
21050985 ATAATTTAAT
* * * *
21050995 AAATAA AAATAA AAATCTAA AACTAA AACTAA AACTAA AACTAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
21051045 AAATAA AAATAA AAA
1 AAATAA AAATAA AAA
21051060 ACATATAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
6 50 0.91
8 5 0.09
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:21055856 original size:20 final size:18
Alignment explanation
Indices: 21055809--21055857 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
21055799 GTAGATAAAC
21055809 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
21055826 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
21055846 ATTAAATTAATA
1 ATTAAATTAATA
21055858 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:21055903 original size:37 final size:38
Alignment explanation
Indices: 21055809--21055906 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 38
21055799 GTAGATAAAC
*
21055809 ATTAAATTAA-ATTTAA-TATTAAGATAATCACTTTAAT
1 ATTAAATTAATATTAAACTATTAAGATAATCAC-TTAAT
*
21055846 ATTAAATTAATA-AAATACTATTAAGATAAGT-A-TTAA-
1 ATTAAATTAATATTAA-ACTATTAAGATAA-TCACTTAAT
21055882 ATTAAATTTAATATTAAACTATTAA
1 ATTAAA-TTAATATTAAACTATTAA
21055907 TATTTTTGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
36 6 0.12
37 29 0.56
38 4 0.08
39 12 0.23
40 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (38 bp):
ATTAAATTAATATTAAACTATTAAGATAATCACTTAAT
Found at i:21077469 original size:26 final size:27
Alignment explanation
Indices: 21077433--21077498 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
21077423 AAATTTTCTT
21077433 GAATCGAGTCGAATGAGATGGAA-TTC
1 GAATCGAGTCGAATGAGATGGAATTTC
21077459 GAATCGAGTCGAATGAGATGGAATTTC
1 GAATCGAGTCGAATGAGATGGAATTTC
*
21077486 -AATCGAATCGAAT
1 GAATCGAGTCGAAT
21077499 TTATTTGTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 35 0.92
27 3 0.08
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.24
Consensus pattern (27 bp):
GAATCGAGTCGAATGAGATGGAATTTC
Found at i:21078423 original size:9 final size:9
Alignment explanation
Indices: 21078409--21078454 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
21078399 TATAGTTTAA
21078409 TATTCGAAT
1 TATTCGAAT
21078418 TATTCGAAT
1 TATTCGAAT
21078427 TATTCGAAT
1 TATTCGAAT
*
21078436 TATTCGAGT
1 TATTCGAAT
21078445 TATTCGAAT
1 TATTCGAAT
21078454 T
1 T
21078455 CGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21078517 original size:9 final size:9
Alignment explanation
Indices: 21078503--21078528 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21078493 AAATTCGAGT
21078503 TAACTCGAA
1 TAACTCGAA
21078512 TAACTCGAA
1 TAACTCGAA
21078521 TAACTCGA
1 TAACTCGA
21078529 TTCGTTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (9 bp):
TAACTCGAA
Found at i:21079948 original size:23 final size:24
Alignment explanation
Indices: 21079922--21079966 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
21079912 GATTTTTTTC
21079922 TTTATATT-ATAAATTT-AAAATGA
1 TTTAT-TTGATAAATTTGAAAATGA
21079945 TTTATTTGATAAATTTGAAAAT
1 TTTATTTGATAAATTTGAAAAT
21079967 AAAATTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.10
23 13 0.65
24 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (24 bp):
TTTATTTGATAAATTTGAAAATGA
Found at i:21080650 original size:23 final size:22
Alignment explanation
Indices: 21080624--21080666 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
21080614 GATTATTATA
*
21080624 CTTAATATATATTTTAGAAATTG
1 CTTAAAATATATTTTA-AAATTG
*
21080647 CTTAAAATATTTTTTAAAAT
1 CTTAAAATATATTTTAAAAT
21080667 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
CTTAAAATATATTTTAAAATTG
Found at i:21080674 original size:11 final size:12
Alignment explanation
Indices: 21080648--21080672 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21080638 TAGAAATTGC
21080648 TTAAAATATTTT
1 TTAAAATATTTT
21080660 TTAAAATATTTT
1 TTAAAATATTTT
21080672 T
1 T
21080673 AATACTTGGC
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAAAATATTTT
Found at i:21083813 original size:12 final size:13
Alignment explanation
Indices: 21083796--21083842 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
21083786 AACAAAGGAA
21083796 AATAA-AATAAAT
1 AATAATAATAAAT
*
21083808 AATAA-AGTAAAT
1 AATAATAATAAAT
*
21083820 AATAATGATAAA-
1 AATAATAATAAAT
21083832 AATAATAATAA
1 AATAATAATAA
21083843 TGACAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 26 0.87
13 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:21088772 original size:59 final size:59
Alignment explanation
Indices: 21088680--21088797 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
21088670 AAAGAAAGAA
21088680 AAAAATCACAGAGTGCCTTACCTCACTTTCAGTCGGTTCGATTTTCTGTTTTGCCCTCT
1 AAAAATCACAGAGTGCCTTACCTCACTTTCAGTCGGTTCGATTTTCTGTTTTGCCCTCT
21088739 AAAAATCACAGAGTGCCTTACCTCACTTTCAGTCGGTTCGATTTTCTGTTTTGCCCTCT
1 AAAAATCACAGAGTGCCTTACCTCACTTTCAGTCGGTTCGATTTTCTGTTTTGCCCTCT
21088798 CTTTTTCAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.37
Consensus pattern (59 bp):
AAAAATCACAGAGTGCCTTACCTCACTTTCAGTCGGTTCGATTTTCTGTTTTGCCCTCT
Found at i:21090364 original size:15 final size:15
Alignment explanation
Indices: 21090344--21090373 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21090334 TATTCTATTT
*
21090344 ATATTAGGATAATTA
1 ATATTAAGATAATTA
21090359 ATATTAAGATAATTA
1 ATATTAAGATAATTA
21090374 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:21096589 original size:22 final size:21
Alignment explanation
Indices: 21096560--21096600 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
21096550 TATGAAAATG
21096560 ATACTAT-ATAAAAATATATAT
1 ATACTATAAT-AAAATATATAT
21096581 ATACGTATAATAAAATATAT
1 ATAC-TATAATAAAATATAT
21096601 GTACTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 12 0.67
23 2 0.11
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
ATACTATAATAAAATATATAT
Found at i:21096883 original size:15 final size:15
Alignment explanation
Indices: 21096859--21096893 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21096849 AAGAAACAAT
*
21096859 ATATATAATATAAAC
1 ATATACAATATAAAC
*
21096874 ATATACAATATATAC
1 ATATACAATATAAAC
21096889 ATATA
1 ATATA
21096894 TTAGAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATACAATATAAAC
Found at i:21097714 original size:16 final size:16
Alignment explanation
Indices: 21097686--21097726 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
21097676 AAAAGAAAAA
*
21097686 GAGAGAGGCGAGAAAG
1 GAGAGAGGGGAGAAAG
*
21097702 GAGGGAGGGGAGAAAG
1 GAGAGAGGGGAGAAAG
21097718 GAGAGAGGG
1 GAGAGAGGG
21097727 ATTCCGGCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (16 bp):
GAGAGAGGGGAGAAAG
Found at i:21099425 original size:2 final size:2
Alignment explanation
Indices: 21099418--21099444 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21099408 TGGGTACGTA
21099418 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21099445 CAACATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21099922 original size:17 final size:16
Alignment explanation
Indices: 21099900--21099948 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
21099890 TAGTAAAGAA
21099900 ATAATATATATATATAT
1 ATAATATATA-ATATAT
*
21099917 ATAATATA-AACATAT
1 ATAATATATAATATAT
*
21099932 ACAATATATACATATAT
1 ATAATATATA-ATATAT
21099949 TAGAGATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 12 0.44
16 2 0.07
17 13 0.48
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATATATAATATAT
Found at i:21099931 original size:15 final size:15
Alignment explanation
Indices: 21099913--21099948 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21099903 ATATATATAT
21099913 ATATATAATATAAAC
1 ATATATAATATAAAC
* *
21099928 ATATACAATATATAC
1 ATATATAATATAAAC
21099943 ATATAT
1 ATATAT
21099949 TAGAGATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATATAATATAAAC
Found at i:21100188 original size:34 final size:34
Alignment explanation
Indices: 21100146--21100215 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
21100136 ATTGAGATAC
21100146 AAAAAGTTGCTATACTAATGAAATTATAAAAATA
1 AAAAAGTTGCTATACTAATGAAATTATAAAAATA
21100180 AAAAAGTTGCTATACTAATGAAATTATAAAAATA
1 AAAAAGTTGCTATACTAATGAAATTATAAAAATA
21100214 AA
1 AA
21100216 GTAATAGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (34 bp):
AAAAAGTTGCTATACTAATGAAATTATAAAAATA
Found at i:21102781 original size:3 final size:3
Alignment explanation
Indices: 21102773--21102852 Score: 123
Period size: 3 Copynumber: 28.0 Consensus size: 3
21102763 ATCTTAAATT
21102773 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
*
21102821 TT- TTA TT- TTA TTT TTA TTA TT- TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21102853 ATAAAATTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
2 8 0.11
3 63 0.89
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:21105642 original size:1 final size:1
Alignment explanation
Indices: 21105636--21105680 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
21105626 TAATAAAATT
* * * *
21105636 AAAAAAAAAGAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21105681 TAAGTACTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:21105649 original size:10 final size:10
Alignment explanation
Indices: 21105636--21105680 Score: 76
Period size: 10 Copynumber: 4.7 Consensus size: 10
21105626 TAATAAAATT
21105636 AAAAAAAAAG
1 AAAAAAAAAG
21105646 --AAAAAAAG
1 AAAAAAAAAG
21105654 AAAAAAAAAG
1 AAAAAAAAAG
21105664 AAAAAAAAAG
1 AAAAAAAAAG
21105674 AAAAAAA
1 AAAAAAA
21105681 TAAGTACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.24
10 25 0.76
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:21105657 original size:18 final size:17
Alignment explanation
Indices: 21105636--21105680 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 17
21105626 TAATAAAATT
21105636 AAAAAAAAAGAAAAAAA
1 AAAAAAAAAGAAAAAAA
21105653 GAAAAAAAAAGAAAAAAA
1 -AAAAAAAAAGAAAAAAA
21105671 AAGAAAAAAA
1 AA-AAAAAAA
21105681 TAAGTACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAA
Found at i:21106276 original size:15 final size:15
Alignment explanation
Indices: 21106256--21106285 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21106246 TATTCTATTT
*
21106256 ATATTAGGATAATTA
1 ATATTAAGATAATTA
21106271 ATATTAAGATAATTA
1 ATATTAAGATAATTA
21106286 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:21108640 original size:18 final size:18
Alignment explanation
Indices: 21108619--21108656 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21108609 AAAAATGGGA
*
21108619 TTGATAATGAAAAGGAAG
1 TTGAGAATGAAAAGGAAG
*
21108637 TTGAGAATGAAGAGGAAG
1 TTGAGAATGAAAAGGAAG
21108655 TT
1 TT
21108657 AAAACCGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.24
Consensus pattern (18 bp):
TTGAGAATGAAAAGGAAG
Found at i:21117074 original size:7 final size:8
Alignment explanation
Indices: 21117054--21117101 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
21117044 TTAAAATCTT
21117054 TAAAAATA
1 TAAAAATA
21117062 TAAAAATA
1 TAAAAATA
21117070 TAAAAAATA
1 T-AAAAATA
*
21117079 CAAAAATA
1 TAAAAATA
*
21117087 TAAAATTA
1 TAAAAATA
21117095 TTAAAAA
1 -TAAAAA
21117102 AATTACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 22 0.65
9 12 0.35
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAATA
Found at i:21117101 original size:17 final size:17
Alignment explanation
Indices: 21117055--21117091 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
21117045 TAAAATCTTT
21117055 AAAAATATAAAAATATA
1 AAAAATATAAAAATATA
*
21117072 AAAAATACAAAAATATA
1 AAAAATATAAAAATATA
21117089 AAA
1 AAA
21117092 TTATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAATATAAAAATATA
Done.