Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 28 of 198
Found at i:8177336 original size:82 final size:83
Alignment explanation
Indices: 8177206--8177776 Score: 436
Period size: 82 Copynumber: 6.8 Consensus size: 83
8177196 ATACTTCAAG
* * * * * * *
8177206 CCAATACATGAAGACAAGATTTGCTTTCTTTGATCTACTTTGCCACCAATATGGGAAGACAAGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGAT
8177271 CTTCGATCCACTTC-CTA
66 CTTCGATCCACTTCACTA
* * * **
8177288 CCAATATAGGAAGACAGGATCTGCTATCTTCGATCCACTTCGCTACCAATCCAGGAAGACAGGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACA--A-
* * *
8177353 TTGCTTTCTTCGATCTACTTCAC-G
63 --G--ATCTTCGATCCACTTCACTA
* * * * * * *
8177377 CCAATATATGAAGACAAGATCTACTTTATTTGATCTAATTCGCCACCAATATGGGAAGACAAGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGAT
8177442 CTTCGATCCACTTC-CTA
66 CTTCGATCCACTTCACTA
* * * *
8177459 CCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCA--AATACATGAAGACAAGA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC-CACCAATATAGGAAGACAAGA
* * *
8177522 TCTGCTTTCCTCGATCTACTTCGCCA
65 --T-C--T--TCGATCCACTTCACTA
* * *
8177548 CCAATATGGGAAGACAA-A------ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACA--A-
*
8177605 CTGCTATCTTCGATCTACTTCAC-A
63 --G--ATCTTCGATCCACTTCACTA
* * * * *
8177629 CCAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGAT
8177694 CTTCGATCCACTTC-CTA
66 CTTCGATCCACTTCACTA
* * * * * *
8177711 CCAATATAGGAAGACAGGATCTGCTATCTTAGATCTACTTC-ACGCCAATACATGAAGACAAGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGAT
8177775 CT
66 CT
8177777 GCTTTCTTCG
Statistics
Matches: 383, Mismatches: 70, Indels: 73
0.73 0.13 0.14
Matches are distributed among these distances:
80 1 0.00
81 52 0.14
82 190 0.50
83 3 0.01
84 6 0.02
86 2 0.01
87 5 0.01
88 25 0.07
89 98 0.26
90 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (83 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGAT
CTTCGATCCACTTCACTA
Found at i:8177362 original size:171 final size:171
Alignment explanation
Indices: 8177098--8177543 Score: 619
Period size: 171 Copynumber: 2.6 Consensus size: 171
8177088 AGATCTGCTT
* * * * * *
8177098 TCTTCGATCTACTTTGCC-ACCAGTATGGGAAGACAAGATCTGCAATCTTCAATCCACTTCG-TA
1 TCTTCGATCCAC-TT-CCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCCACTTCGCT-
* * *
8177161 ACCAATATAGGAAGACAGGATTTACTTTCTTCGATATACTTCAAGCCAATACATGAAGACAAGAT
63 ACCAATACAGGAAGACAGGATTTGCTTTCTTCGATCTACTTCAAGCCAATACATGAAGACAAGAT
* * * * *
8177226 TTGCTTTCTTTGATCTACTTTGCCACCAATATGGGAAGACAAGA
128 CTACTTTATTTGATCTAATTCGCCACCAATATGGGAAGACAAGA
8177270 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCCACTTCGCTACC
1 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCCACTTCGCTACC
* * *
8177335 AATCCAGGAAGACAGGATTTGCTTTCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTA
66 AATACAGGAAGACAGGATTTGCTTTCTTCGATCTACTTCAAGCCAATACATGAAGACAAGATCTA
8177400 CTTTATTTGATCTAATTCGCCACCAATATGGGAAGACAAGA
131 CTTTATTTGATCTAATTCGCCACCAATATGGGAAGACAAGA
* * * *
8177441 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC-GCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCCACTTCGCTACC
* * * *
8177505 AATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTC
66 AATACAGGAAGACAGGATTTGCTTTCTTCGATCTACTTC
8177544 GCCACCAATA
Statistics
Matches: 246, Mismatches: 26, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
170 37 0.15
171 197 0.80
172 12 0.05
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (171 bp):
TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCCACTTCGCTACC
AATACAGGAAGACAGGATTTGCTTTCTTCGATCTACTTCAAGCCAATACATGAAGACAAGATCTA
CTTTATTTGATCTAATTCGCCACCAATATGGGAAGACAAGA
Found at i:8177393 original size:126 final size:123
Alignment explanation
Indices: 8177312--8177902 Score: 729
Period size: 126 Copynumber: 4.7 Consensus size: 123
8177302 CAGGATCTGC
** * *
8177312 TATCTTCGATCCACTTCGCTACCAATCCAGGAAGACAGGATTTGCTTTCTTCGATCTACTTCACG
1 TATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACG
* * * *
8177377 CCAATATATGAAGACAAGATCTACTTTATTTGATCTAATTCGCCACCAATATGGGAAGACAAG
65 CCAATACATGAAGACAAGAT-TGC--T-TTCGATCTACTTCGCCACCAATATGGGAAGACAAG
8177440 -ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
1 TATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
*
8177504 AAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAA-
66 CAATACATGAAGACAAGAT-TGC-TT--TCGATCTACTTCGCCACCAATATGGGAAGACAAG
* *
8177565 AATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACAC
1 TATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
8177630 CAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAG
66 CAATACATGAAGACAAGAT-TGC-TT--TCGATCTACTTCGCCACCAATATGGGAAGACAAG
*
8177692 -ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTAGATCTACTTCACGC
1 TATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
*
8177756 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
66 CAATACATGAAGACAAGAT-TGC--T-TTCGATCTACTTCGCCACCAATATGGGAAGAC-A-A--
8177821 TG
123 -G
* * * *
8177823 TACCTTCGATCCACTTCCTACC--------AA-ACATGACCTGCTATCTTCGATCTACTTCACGG
1 TATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
*
8177879 TAATACATGAAGACAAGATCTGCT
66 CAATACATGAAGACAAGAT-TGCT
8177903 ATTTTCAACC
Statistics
Matches: 431, Mismatches: 20, Indels: 31
0.89 0.04 0.06
Matches are distributed among these distances:
121 1 0.00
123 50 0.12
124 3 0.01
125 2 0.00
126 333 0.77
127 19 0.04
128 2 0.00
131 1 0.00
132 20 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (123 bp):
TATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
CAATACATGAAGACAAGATTGCTTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
Found at i:8177579 original size:297 final size:301
Alignment explanation
Indices: 8177010--8177695 Score: 916
Period size: 297 Copynumber: 2.3 Consensus size: 301
8177000 ATATATGTTT
* * * * * * *
8177010 TCTTCTATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTACCTTTGATCTACTTCACGCC
1 TCTTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTCC-TCGATCTACTTCACGCC
* * * * * * * *
8177074 GATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCT
65 AATATATGAAGACAAGATCTACTTTATTCGATCTAATTCGCCACCAATATGGGAAGACAAGA--T
* * *
8177139 GCAATCTTCAATCCACTTCGTAACCAATATAGGAAGACAGGATTTACTTTCTTCGATATACTTCA
128 G-AATCTTCAATCCACTTCCTAACCAATATAGGAAGACAGGATCTACTATCTTCGATATACTTCA
* * * * * *
8177204 AGCCAATACATGAAGACAAGATTTGCTTTCTTTGATCTACTTTGCCACCAATATGGGAAGACAAG
192 AGCAAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAA
8177269 ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTA
257 ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTA
* * * * *
8177314 TCTTCGATCCACTTCGCTACCAATCCAGGAAGACAGGATTTGCTTTCTTCGATCTACTTCACGCC
1 TCTTCGATCCACTTCAC-ACCAATACAGGAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCC
*
8177379 AATATATGAAGACAAGATCTACTTTATTTGATCTAATTCGCCACCAATATGGGAAGAC-A-A-G-
65 AATATATGAAGACAAGATCTACTTTATTCGATCTAATTCGCCACCAATATGGGAAGACAAGATGA
* * * *
8177440 ATCTTCGATCCACTTCCT-ACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
130 ATCTTCAATCCACTTCCTAACCAATATAGGAAGACAGGATCTACTATCTTCGATATACTTCAAGC
8177504 AAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAAATC
195 AAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAAATC
8177569 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTA
260 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTA
* * * *
8177611 TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACC
1 TCTTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTCCTCGATCTACTTC-ACGCC
**
8177676 AATATGGGAAGACAAGATCT
65 AATATATGAAGACAAGATCT
8177696 TCGATCCACT
Statistics
Matches: 334, Mismatches: 45, Indels: 13
0.85 0.11 0.03
Matches are distributed among these distances:
296 37 0.11
297 178 0.53
298 16 0.05
300 1 0.00
303 1 0.00
304 15 0.04
305 83 0.25
306 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (301 bp):
TCTTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCA
ATATATGAAGACAAGATCTACTTTATTCGATCTAATTCGCCACCAATATGGGAAGACAAGATGAA
TCTTCAATCCACTTCCTAACCAATATAGGAAGACAGGATCTACTATCTTCGATATACTTCAAGCA
AATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAAATCT
TCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTA
Found at i:8177621 original size:252 final size:253
Alignment explanation
Indices: 8177313--8177821 Score: 867
Period size: 252 Copynumber: 2.0 Consensus size: 253
8177303 AGGATCTGCT
* * * *
8177313 ATCTTCGATCCACTTCGCTACCAATCCAGGAAGACAGGATTTGCTTTCTTCGATCTACTTCACGC
1 ATCTTCGATCCACTTCGCTACCAATACAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACAC
* * *
8177378 CAATATATGAAGACAAGATCTACTTTATTTGATCTAATTCGCCACCAATATGGGAAGACAAGATC
66 CAATACATGAAGACAAGATCTACTTTACTCGATCTAATTCGCCACCAATATGGGAAGACAAGATC
*
8177443 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCAAAT
131 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTAGATCTACTTCACGCAAAT
8177508 ACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAA
196 ACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAA
*
8177566 ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACAC
1 ATCTTCGATCCACTTCGCTACCAATACAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACAC
* * *
8177630 CAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
66 CAATACATGAAGACAAGATCTACTTTACTCGATCTAATTCGCCACCAATATGGGAAGACAAGATC
*
8177695 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTAGATCTACTTCACGCCAAT
131 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTAGATCTACTTCACGCAAAT
* * *
8177760 ACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
196 ACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAA
8177818 ATCT
1 ATCT
8177822 GTACCTTCGA
Statistics
Matches: 240, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
252 224 0.93
253 16 0.07
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (253 bp):
ATCTTCGATCCACTTCGCTACCAATACAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACAC
CAATACATGAAGACAAGATCTACTTTACTCGATCTAATTCGCCACCAATATGGGAAGACAAGATC
TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTAGATCTACTTCACGCAAAT
ACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGACAAA
Found at i:8184087 original size:26 final size:26
Alignment explanation
Indices: 8184021--8184087 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 26
8184011 TATATGTAAA
*
8184021 ATATAT-TA-AAAATAATTAAATAAT
1 ATATATATATAAATTAATTAAATAAT
* *
8184045 ATCTACATTATCAAAATTAATTAAATAAT
1 ATATATA-TAT--AAATTAATTAAATAAT
8184074 ATATATATATAAAT
1 ATATATATATAAAT
8184088 ATGAGAACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 4 0.12
26 6 0.18
28 3 0.09
29 20 0.61
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
ATATATATATAAATTAATTAAATAAT
Found at i:8187425 original size:25 final size:25
Alignment explanation
Indices: 8187397--8187512 Score: 92
Period size: 25 Copynumber: 4.7 Consensus size: 25
8187387 TTCTCTCGAT
* *
8187397 CCATATAACGGGTAGCTCATGTGAG
1 CCATATAACGGGAAGCTCATGCGAG
* * *
8187422 CCATGTAACGGGAAGCTTATCCGAG
1 CCATATAACGGGAAGCTCATGCGAG
* ** **
8187447 CTATATAATAGGAAGCTCATAAGAG
1 CCATATAACGGGAAGCTCATGCGAG
* *
8187472 TCATAT-TCGGGAAGCTCATGCGAG
1 CCATATAACGGGAAGCTCATGCGAG
* *
8187496 CCA-AAAACGGGTAGCTC
1 CCATATAACGGGAAGCTC
8187513 CGAAAAGTCA
Statistics
Matches: 67, Mismatches: 23, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
23 1 0.01
24 24 0.36
25 42 0.63
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (25 bp):
CCATATAACGGGAAGCTCATGCGAG
Found at i:8187624 original size:26 final size:26
Alignment explanation
Indices: 8187587--8187644 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
8187577 GGAAGCTCCG
8187587 AAGAGCTATTAATCAG-AAAACTCACA
1 AAGAGCTATTAATC-GTAAAACTCACA
* *
8187613 AAGAGTCT-TTAATCGTGAAGCTCACA
1 AAGAG-CTATTAATCGTAAAACTCACA
8187639 AAGAGC
1 AAGAGC
8187645 CATATAACGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 2 0.07
26 24 0.86
27 2 0.07
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (26 bp):
AAGAGCTATTAATCGTAAAACTCACA
Found at i:8196735 original size:32 final size:32
Alignment explanation
Indices: 8196681--8196741 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
8196671 ATACCATATT
*
8196681 ATAGAGCTGTTCTTGAAAAACAATTGTTCATA
1 ATAGAGCTGCTCTTGAAAAACAATTGTTCATA
*
8196713 ATAGAAGCTGCTC-TGAACAACAATTGTTC
1 ATAG-AGCTGCTCTTGAAAAACAATTGTTC
8196742 TAAACATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (32 bp):
ATAGAGCTGCTCTTGAAAAACAATTGTTCATA
Found at i:8196917 original size:16 final size:16
Alignment explanation
Indices: 8196891--8196943 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
8196881 CAAATTTAGA
8196891 TTCTCAAACAATAATTG
1 TTCT-AAACAATAATTG
* *
8196908 TTCTAAACAATAACTA
1 TTCTAAACAATAATTG
* *
8196924 TTCTAAACAAGAGTTG
1 TTCTAAACAATAATTG
8196940 TTCT
1 TTCT
8196944 TCCAGAAGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (16 bp):
TTCTAAACAATAATTG
Found at i:8200069 original size:30 final size:30
Alignment explanation
Indices: 8200047--8200118 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
8200037 TAGCCTTCGA
8200047 AGTAGTTTTTGTCTTGGCCTTAGCTTTAGG
1 AGTAGTTTTTGTCTTGGCCTTAGCTTTAGG
8200077 AGTAGTTTTTGTCTTGGCCTTAGCTTTAGG
1 AGTAGTTTTTGTCTTGGCCTTAGCTTTAGG
8200107 AGTAGTTTTTGT
1 AGTAGTTTTTGT
8200119 ACTCTTCCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.14, C:0.11, G:0.26, T:0.49
Consensus pattern (30 bp):
AGTAGTTTTTGTCTTGGCCTTAGCTTTAGG
Found at i:8200136 original size:30 final size:29
Alignment explanation
Indices: 8200047--8200136 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
8200037 TAGCCTTCGA
* *
8200047 AGTAGTTTTTGTCTTGGCCTTAGCTTTAGG
1 AGTAGTTTTTGTCTTGCCCTTA-CCTTAGG
* *
8200077 AGTAGTTTTTGTCTTGGCCTTAGCTTTAGG
1 AGTAGTTTTTGTCTTGCCCTTA-CCTTAGG
*
8200107 AGTAGTTTTTGTACTCTTCCCTT-CCTTAGG
1 AGTAGTTTTTGT-CT-TGCCCTTACCTTAGG
8200137 CTTTGAGGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
30 48 0.87
31 2 0.04
32 5 0.09
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.47
Consensus pattern (29 bp):
AGTAGTTTTTGTCTTGCCCTTACCTTAGG
Found at i:8203314 original size:16 final size:16
Alignment explanation
Indices: 8203293--8203329 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
8203283 GACAATATGT
8203293 GAGGATGAATCTTTTC
1 GAGGATGAATCTTTTC
8203309 GAGGATGAATCTTTTC
1 GAGGATGAATCTTTTC
8203325 GAGGA
1 GAGGA
8203330 AATAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (16 bp):
GAGGATGAATCTTTTC
Found at i:8204294 original size:21 final size:21
Alignment explanation
Indices: 8204268--8204308 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8204258 TTTTATTATT
8204268 TTAAATAT-TTGTTCTTAGTTC
1 TTAAATATCTTGTT-TTAGTTC
*
8204289 TTAAATTTCTTGTTTTAGTT
1 TTAAATATCTTGTTTTAGTT
8204309 TTTTTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.61
Consensus pattern (21 bp):
TTAAATATCTTGTTTTAGTTC
Found at i:8206200 original size:47 final size:47
Alignment explanation
Indices: 8206143--8206302 Score: 257
Period size: 47 Copynumber: 3.4 Consensus size: 47
8206133 GTCACAGTAA
*
8206143 TGCAGATAAACTGCCACTTAATAATATTATGGACAAGCCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTT
* * *
8206190 TGTAGATAAACTGCCACTTAATAAAATTGTGGACAAGCCACTACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTT
* *
8206237 TGCAGATAAATTGCCACTTTATAATATTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTT
*
8206284 TGCAGATAAACTACCACTT
1 TGCAGATAAACTGCCACTT
8206303 CTTCCTTCTT
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 102 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (47 bp):
TGCAGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTT
Found at i:8206373 original size:20 final size:20
Alignment explanation
Indices: 8206348--8206386 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8206338 ATATGACCAC
*
8206348 AAAAATCACTTTTTCACTTT
1 AAAAATCAATTTTTCACTTT
*
8206368 AAAAATTAATTTTTCACTT
1 AAAAATCAATTTTTCACTT
8206387 CGGCATGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATCAATTTTTCACTTT
Found at i:8207646 original size:135 final size:135
Alignment explanation
Indices: 8207493--8207767 Score: 523
Period size: 135 Copynumber: 2.0 Consensus size: 135
8207483 AAGAGAGGAG
* *
8207493 AAAGGAGGGGAATGACAATGAAAAGGAAAAGAATAAAATATGGAACAAAGAGTGTTCTTCATCTT
1 AAAGGAGGGGAATGACAATAAAAAGGAAAAGAATAAAAGATGGAACAAAGAGTGTTCTTCATCTT
8207558 GTCTAGGTTCAATGAACATCACACAAGGTAAGGATGAAGAGAATGGTATGTTGAGAGGATAAAGG
66 GTCTAGGTTCAATGAACATCACACAAGGTAAGGATGAAGAGAATGGTATGTTGAGAGGATAAAGG
8207623 AGCAA
131 AGCAA
*
8207628 AAAGGAGGGGAATGACAATAAAAAGGAAAAGAATGAAAGATGGAACAAAGAGTGTTCTTCATCTT
1 AAAGGAGGGGAATGACAATAAAAAGGAAAAGAATAAAAGATGGAACAAAGAGTGTTCTTCATCTT
8207693 GTCTAGGTTCAATGAACATCACACAAGGTAAGGATGAAGAGAATGGTATGTTGAGAGGATAAAGG
66 GTCTAGGTTCAATGAACATCACACAAGGTAAGGATGAAGAGAATGGTATGTTGAGAGGATAAAGG
8207758 AGCAA
131 AGCAA
8207763 AAAGG
1 AAAGG
8207768 GGATTATGGG
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 137 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (135 bp):
AAAGGAGGGGAATGACAATAAAAAGGAAAAGAATAAAAGATGGAACAAAGAGTGTTCTTCATCTT
GTCTAGGTTCAATGAACATCACACAAGGTAAGGATGAAGAGAATGGTATGTTGAGAGGATAAAGG
AGCAA
Found at i:8208253 original size:28 final size:28
Alignment explanation
Indices: 8208210--8208265 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
8208200 TTGGGATGTG
*
8208210 ACAATTCTGGTGAAGTGCAAAGGACTAA
1 ACAATTCTGGTAAAGTGCAAAGGACTAA
8208238 ACAATTCTGGTAAAGTGCAAAGGACTAA
1 ACAATTCTGGTAAAGTGCAAAGGACTAA
8208266 CATCTTCCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (28 bp):
ACAATTCTGGTAAAGTGCAAAGGACTAA
Found at i:8216101 original size:30 final size:30
Alignment explanation
Indices: 8216067--8216134 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
8216057 TAATTGTACA
* *
8216067 TTCATTTTAATCAC-CAAACTTTAGTAAATT
1 TTCATTTTAATAACTC-AACTTTAGTAAACT
* *
8216097 TTCATTTTGATAACTCAACTTTAGTAAGCT
1 TTCATTTTAATAACTCAACTTTAGTAAACT
8216127 TTCATTTT
1 TTCATTTT
8216135 GGTCACTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (30 bp):
TTCATTTTAATAACTCAACTTTAGTAAACT
Found at i:8218486 original size:13 final size:13
Alignment explanation
Indices: 8218468--8218492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8218458 ATAATAAATA
8218468 TTTTTATTTTTAT
1 TTTTTATTTTTAT
8218481 TTTTTATTTTTA
1 TTTTTATTTTTA
8218493 ACTTTAAAAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:8218557 original size:39 final size:40
Alignment explanation
Indices: 8218495--8218614 Score: 163
Period size: 39 Copynumber: 3.0 Consensus size: 40
8218485 TATTTTTAAC
* * *
8218495 TTTAAAATACTTTTCTTAATTTTTTTAATTTT-AATTTTT
1 TTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATATT
8218534 TTTAAAATA-TTTTTTTAATTTTTTTAATTTTAAAATATT
1 TTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATATT
8218573 TTTAAAATACTTTTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTAAAATACTTTTTTTAA--TTT-TTTTAA-TTTTAAAATA
8218615 AATTTTTGGT
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
38 21 0.29
39 23 0.32
40 9 0.12
42 3 0.04
43 6 0.08
44 10 0.14
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATATT
Found at i:8218561 original size:38 final size:39
Alignment explanation
Indices: 8218495--8218608 Score: 164
Period size: 38 Copynumber: 3.0 Consensus size: 39
8218485 TATTTTTAAC
*
8218495 TTTAAAATACTTTTCTTAATTTTTTTAATTTTAATTTTT
1 TTTAAAATACTTTTTTTAATTTTTTTAATTTTAATTTTT
* *
8218534 TTTAAAATA-TTTTTTTAATTTTTTTAATTTTAAAATATT
1 TTTAAAATACTTTTTTTAATTTTTTTAATTTT-AATTTTT
8218573 TTTAAAATACTTTTTTTAA--TTTTT-ATTTTAATTTTT
1 TTTAAAATACTTTTTTTAATTTTTTTAATTTTAATTTTT
8218609 AAAATAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
36 5 0.07
37 5 0.07
38 26 0.38
39 23 0.34
40 9 0.13
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (39 bp):
TTTAAAATACTTTTTTTAATTTTTTTAATTTTAATTTTT
Found at i:8218564 original size:28 final size:28
Alignment explanation
Indices: 8218513--8218575 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
8218503 ACTTTTCTTA
*
8218513 ATTTTTTTAATTTTAATTTTTTTTAAAAT
1 ATTTTTTTAATTTT-ATTTATTTTAAAAT
8218542 ATTTTTTTAATTTT-TTTAATTTTAAAAT
1 ATTTTTTTAATTTTATTT-ATTTTAAAAT
8218570 ATTTTT
1 ATTTTT
8218576 AAAATACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 3 0.09
28 15 0.47
29 14 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (28 bp):
ATTTTTTTAATTTTATTTATTTTAAAAT
Found at i:8218586 original size:28 final size:28
Alignment explanation
Indices: 8218533--8218586 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8218523 TTTTAATTTT
** **
8218533 TTTTAAAATATTTTTTTAATTTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTAA
8218561 TTTTAAAATATTTTTAAAATACTTTT
1 TTTTAAAATATTTTTAAAATACTTTT
8218587 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTAAAATATTTTTAAAATACTTTTAA
Found at i:8222451 original size:21 final size:21
Alignment explanation
Indices: 8222422--8222464 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8222412 TTTGGGTGGA
8222422 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
8222443 TCAGGTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
8222464 T
1 T
8222465 GGCGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.21, T:0.35
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:8224857 original size:16 final size:16
Alignment explanation
Indices: 8224838--8224872 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8224828 TAGTAATTTT
8224838 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
8224854 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
8224870 AAT
1 AAT
8224873 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:8228091 original size:75 final size:76
Alignment explanation
Indices: 8227968--8228287 Score: 398
Period size: 75 Copynumber: 4.2 Consensus size: 76
8227958 AACTAATAAT
* * * * *
8227968 TATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAG-TTGCGCCAAACGCTAGTCGAAT
1 TATAATGGTGTGCCCTGCACTAGTCAGATAAACTGATGAAAGATTGCGCCAAGCACTAGTCGAAT
8228032 AAA-CTGACAAA
66 AAATC-GACAAA
* *
8228043 TATAATGGTGTGCCCTGCACTGGTCAGATAAACTGATGAAAG-TTGCGCCCAGCACTAGTCGAAT
1 TATAATGGTGTGCCCTGCACTAGTCAGATAAACTGATGAAAGATTGCGCCAAGCACTAGTCGAAT
8228107 AAATCGACAAA
66 AAATCGACAAA
* * *
8228118 TATAATGGTGTGCCCTGCACTAGTCAGATAAATTGATG-AAGATTGCGCCAAGCACTAGTTGGAT
1 TATAATGGTGTGCCCTGCACTAGTCAGATAAACTGATGAAAGATTGCGCCAAGCACTAGTCGAAT
8228182 AAATCGACAAA
66 AAATCGACAAA
* * * ** **
8228193 TATAATGGTGTGCCCTGCACTAGTCAGATAAATTGA-CAAAGATTGCACCAAGTGCTAGTCGGGT
1 TATAATGGTGTGCCCTGCACTAGTCAGATAAACTGATGAAAGATTGCGCCAAGCACTAGTCGAAT
* *
8228257 AAACCGACAGA
66 AAATCGACAAA
* *
8228268 TATAGAGGGTGTGCCTTGCA
1 TATA-ATGGTGTGCCCTGCA
8228288 GTACTTGGTT
Statistics
Matches: 219, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
74 3 0.01
75 202 0.92
76 14 0.06
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (76 bp):
TATAATGGTGTGCCCTGCACTAGTCAGATAAACTGATGAAAGATTGCGCCAAGCACTAGTCGAAT
AAATCGACAAA
Found at i:8228109 original size:35 final size:35
Alignment explanation
Indices: 8227979--8228102 Score: 99
Period size: 35 Copynumber: 3.4 Consensus size: 35
8227969 ATAATGATGT
*
8227979 GCCCAGCACTAGTCAGATAAACTGACGAAAGTTGC
1 GCCCAGCACTAGTCAGATAAACTGATGAAAGTTGC
* * * * *
8228014 GCCAAACGCTAGTC-GAATAAACTGACAAAT-ATAATGGTGT
1 GCCCAGCACTAGTCAG-ATAAACTG----ATGA-AA-GTTGC
* *
8228054 GCCCTGCACTGGTCAGATAAACTGATGAAAGTTGC
1 GCCCAGCACTAGTCAGATAAACTGATGAAAGTTGC
8228089 GCCCAGCACTAGTC
1 GCCCAGCACTAGTC
8228103 GAATAAATCG
Statistics
Matches: 65, Mismatches: 15, Indels: 18
0.66 0.15 0.18
Matches are distributed among these distances:
34 1 0.02
35 34 0.52
36 4 0.06
37 1 0.02
38 1 0.02
39 3 0.05
40 20 0.31
41 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (35 bp):
GCCCAGCACTAGTCAGATAAACTGATGAAAGTTGC
Found at i:8228149 original size:40 final size:40
Alignment explanation
Indices: 8228037--8228232 Score: 148
Period size: 40 Copynumber: 5.2 Consensus size: 40
8228027 CGAATAAACT
*
8228037 GACAAATATAATGGTGTGCCCTGCACTGGTCAGATAAA-C
1 GACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAATC
* * *
8228076 TG----ATGA-AA-GTTGCGCCCAGCACTAGTC-GAATAAATC
1 -GACAAAT-ATAATGGTGTGCCCTGCACTAGTCAG-ATAAATC
*
8228112 GACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAATT
1 GACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAATC
** * * ** **
8228152 GA-TGA-A-GAT--TGCGCCAAGCACTAGTTGGATAAATC
1 GACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAATC
*
8228187 GACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAATT
1 GACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAATC
8228227 GACAAA
1 GACAAA
8228233 GATTGCACCA
Statistics
Matches: 115, Mismatches: 26, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
34 1 0.01
35 43 0.37
36 6 0.05
37 4 0.03
38 4 0.03
39 5 0.04
40 51 0.44
41 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (40 bp):
GACAAATATAATGGTGTGCCCTGCACTAGTCAGATAAATC
Found at i:8229985 original size:17 final size:18
Alignment explanation
Indices: 8229960--8229994 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8229950 GGAAATAATA
*
8229960 TTTTGGAAAA-TAATTTT
1 TTTTAGAAAATTAATTTT
8229977 TTTTAGAAAATTAATTTT
1 TTTTAGAAAATTAATTTT
8229995 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
TTTTAGAAAATTAATTTT
Found at i:8236878 original size:16 final size:15
Alignment explanation
Indices: 8236849--8236894 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8236839 TTAATGAACG
8236849 TTAATGTTAA-TAAA
1 TTAATGTTAATTAAA
8236863 TTAATGTGTAATTAAA
1 TTAATGT-TAATTAAA
*
8236879 CTAAT-TATAATTAAA
1 TTAATGT-TAATTAAA
8236894 T
1 T
8236895 AATAAGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.26
15 12 0.44
16 8 0.30
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (15 bp):
TTAATGTTAATTAAA
Found at i:8240466 original size:33 final size:33
Alignment explanation
Indices: 8240424--8240486 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
8240414 TGAATTTTTT
8240424 TTTTGTGAGATACCACTCACATGTCCTAGCTTA
1 TTTTGTGAGATACCACTCACATGTCCTAGCTTA
*
8240457 TTTTGTGAGATACCCCTCACATGTCCTAGC
1 TTTTGTGAGATACCACTCACATGTCCTAGC
8240487 GATCGATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (33 bp):
TTTTGTGAGATACCACTCACATGTCCTAGCTTA
Found at i:8245139 original size:3 final size:3
Alignment explanation
Indices: 8245131--8245184 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
8245121 AATAAATAGG
8245131 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8245179 TAA TAA
1 TAA TAA
8245185 AGACATCAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8247902 original size:21 final size:21
Alignment explanation
Indices: 8247878--8247927 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
8247868 ACTCACATGC
*
8247878 CCATGTGGCTAAGGGACACGA
1 CCATGTGGCTAAGGCACACGA
* *
8247899 CCATGTGTCTAAGGCACACGC
1 CCATGTGGCTAAGGCACACGA
*
8247920 CCGTGTGG
1 CCATGTGG
8247928 AAATCGAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (21 bp):
CCATGTGGCTAAGGCACACGA
Found at i:8249370 original size:14 final size:16
Alignment explanation
Indices: 8249351--8249383 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
8249341 AAATTTCTAT
8249351 CACATACC-AT-TAAC
1 CACATACCAATATAAC
8249365 CACATACCAATATAAC
1 CACATACCAATATAAC
8249381 CAC
1 CAC
8249384 CTATAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (16 bp):
CACATACCAATATAAC
Found at i:8250689 original size:54 final size:54
Alignment explanation
Indices: 8250617--8250727 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
8250607 AACTATACCG
* *
8250617 TATGAACTTACCAAGGAATAACAACAATAGAAGAAGTGTCAGGGACTAATCTGC
1 TATGAACTGACCAAGGAATAACAACAATAGAAGAAGTGTCAGGGACCAATCTGC
*
8250671 TATGAACTGACCAGGGAATAACAACAATAGAAGAAGTGTCAGGGACCAATCTGC
1 TATGAACTGACCAAGGAATAACAACAATAGAAGAAGTGTCAGGGACCAATCTGC
8250725 TAT
1 TAT
8250728 TTTTCCTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (54 bp):
TATGAACTGACCAAGGAATAACAACAATAGAAGAAGTGTCAGGGACCAATCTGC
Found at i:8252056 original size:66 final size:66
Alignment explanation
Indices: 8251747--8252057 Score: 437
Period size: 66 Copynumber: 4.7 Consensus size: 66
8251737 GTGCAAGAAC
* *
8251747 TACTTCAGTTTATTCGATGAGGCACTGGGTGCCAAATACATCGATAAGCATTGGGCGCAATTGAA
1 TACTTCAGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCATTGGGCGCAATTGAA
8251812 T
66 T
* * * *
8251813 TACTTCGGTTTACCCGATAAGGCACTGGGTGCCAAATATATCGATGAGCATTGGGCGCAATTGAA
1 TACTTCAGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCATTGGGCGCAATTGAA
8251878 T
66 T
* * * *
8251879 TACTTAAGTTTATCTGATGAGGCACTGGGTGCCAAATACATCGATGAACATTGGGCGCAATCGAA
1 TACTTCAGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCATTGGGCGCAATTGAA
8251944 T
66 T
* * * * * *
8251945 TAC-TAAGGTTTATCCAATGGGGCACTGGGTGCCAAATACATCGATGAGTACTT-GGCGTAATTA
1 TACTTCA-GTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCA-TTGGGCGCAATTG
8252008 AAT
64 AAT
*
8252011 TACTTCAGTTTATCCGATGAGGCACTGGGTGCCAAATATATCGATGA
1 TACTTCAGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGA
8252058 ACACTGGACA
Statistics
Matches: 216, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
65 3 0.01
66 209 0.97
67 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (66 bp):
TACTTCAGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCATTGGGCGCAATTGAA
T
Found at i:8253165 original size:31 final size:32
Alignment explanation
Indices: 8253122--8253188 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 32
8253112 AGGCTTAACA
8253122 ACTTAGGTATTCATCAACTACTCAAAAAAGAC
1 ACTTAGGTATTCATCAACTACTCAAAAAAGAC
* *
8253154 ACTT-GGTATTCATCAACTATTCAAACAAGAC
1 ACTTAGGTATTCATCAACTACTCAAAAAAGAC
8253185 ACTT
1 ACTT
8253189 CCATCATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (32 bp):
ACTTAGGTATTCATCAACTACTCAAAAAAGAC
Found at i:8253892 original size:25 final size:25
Alignment explanation
Indices: 8253858--8253930 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
8253848 CGGATACCGA
* * *
8253858 AATTGCTCACACGAGTTGTGAATAT
1 AATTGCTCACACGAGATATAAATAT
8253883 AATTGCTCACACGAGATATAAATAT
1 AATTGCTCACACGAGATATAAATAT
* * *
8253908 AATTTCTCATACGAGCTATAAAT
1 AATTGCTCACACGAGATATAAAT
8253931 CGGGACATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (25 bp):
AATTGCTCACACGAGATATAAATAT
Found at i:8261510 original size:34 final size:32
Alignment explanation
Indices: 8261447--8261513 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 32
8261437 GCCATATACT
*
8261447 AGGAGATTATGGTACAGAAAAAATGGACAGCC
1 AGGAGATTATGGTACAGAAAAAAAGGACAGCC
8261479 AGGAGATTATGGTACAGAAAAAAAAGAGACAGCC
1 AGGAGATTATGGTACAG-AAAAAAAG-GACAGCC
8261513 A
1 A
8261514 ACAGATCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 17 0.53
33 7 0.22
34 8 0.25
ACGTcount: A:0.48, C:0.12, G:0.27, T:0.13
Consensus pattern (32 bp):
AGGAGATTATGGTACAGAAAAAAAGGACAGCC
Found at i:8272055 original size:61 final size:61
Alignment explanation
Indices: 8271927--8272065 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 61
8271917 TGATTTTTTT
* * *
8271927 TTCAATTTAATATCTAAACTTGATATTTTTTTTCTAATTTGGTACTTAAATTTTTATTAAG
1 TTCAATTTAGTACCTAAACTTGACATTTTTTTTCTAATTTGGTACTTAAATTTTTATTAAG
** * * * *
8271988 CCCAATTTAGTACCTGAACTTGGCATTTTTTTTCTAATTTGGTACTTAACCTTTTT-TTAGG
1 TTCAATTTAGTACCTAAACTTGACATTTTTTTTCTAATTTGGTACTTAA-ATTTTTATTAAG
*
8272049 TTCAATTTAGTAACTAA
1 TTCAATTTAGTACCTAA
8272066 TTTGTTAAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.92
62 5 0.08
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (61 bp):
TTCAATTTAGTACCTAAACTTGACATTTTTTTTCTAATTTGGTACTTAAATTTTTATTAAG
Found at i:8272587 original size:31 final size:30
Alignment explanation
Indices: 8272516--8272590 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
8272506 CCCAAAAAGA
8272516 TTAAGTA-CAAACTTAAGAAAAAATGTCAAG
1 TTAAGTACCAAA-TTAAGAAAAAATGTCAAG
* * *
8272546 TTTAGATACCAAATTAGGAAAAAGTGTCAAG
1 TTAAG-TACCAAATTAAGAAAAAATGTCAAG
8272577 TTCAAGTACCAAAT
1 TT-AAGTACCAAAT
8272591 GTTATATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 4 0.11
31 28 0.74
32 6 0.16
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (30 bp):
TTAAGTACCAAATTAAGAAAAAATGTCAAG
Found at i:8273674 original size:21 final size:23
Alignment explanation
Indices: 8273624--8273680 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
8273614 ATTTTCTATC
8273624 ATATTATTAAATTAATTTTAAAA
1 ATATTATTAAATTAATTTTAAAA
*
8273647 ATAATTA-TAATTTAA-TTTAAAA
1 AT-ATTATTAAATTAATTTTAAAA
*
8273669 GTATTAGTTAAA
1 ATATTA-TTAAA
8273681 AAGTTATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.14
22 8 0.29
23 12 0.43
24 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
ATATTATTAAATTAATTTTAAAA
Found at i:8278257 original size:2 final size:2
Alignment explanation
Indices: 8278252--8278291 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
8278242 CACTTGGACC
*
8278252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT 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
8278292 CGATTACCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:8282648 original size:26 final size:26
Alignment explanation
Indices: 8282612--8282670 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
8282602 CAAGTAATAT
*
8282612 AGATGAGGTGGCTCTCTCTTTTCTAA
1 AGATGAGGTGGCTCTCTCTATTCTAA
*
8282638 AGATGAGGTGGCTCTTTCTATTCTAA
1 AGATGAGGTGGCTCTCTCTATTCTAA
8282664 AGATGAG
1 AGATGAG
8282671 ATATTAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (26 bp):
AGATGAGGTGGCTCTCTCTATTCTAA
Found at i:8293144 original size:22 final size:23
Alignment explanation
Indices: 8293117--8293161 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8293107 AGGTATCTAC
*
8293117 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
8293139 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
8293162 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:8293165 original size:17 final size:17
Alignment explanation
Indices: 8293143--8293195 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
8293133 ATTACAAAAT
8293143 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
8293160 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
* *
8293179 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
8293196 TGTTTCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:8293166 original size:22 final size:22
Alignment explanation
Indices: 8293114--8293171 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
8293104 AAAAGGTATC
* *
8293114 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
8293135 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
8293158 TACATATCATATCT
1 TACAAATCATATCT
8293172 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:8314328 original size:11 final size:11
Alignment explanation
Indices: 8314255--8314330 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
8314245 ATTCCAAAAA
*
8314255 TAATATTATTT
1 TAATATTAATT
8314266 TAATAATTTAATGT
1 TAAT-A-TTAAT-T
8314280 TAA-ATTTAATT
1 TAATA-TTAATT
*
8314291 TAATACTTATTT
1 TAATA-TTAATT
*
8314303 TAATAGT-ATT
1 TAATATTAATT
8314313 T--TATTAATT
1 TAATATTAATT
8314322 TAATATTAA
1 TAATATTAA
8314331 AGTGATTAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 15 0.29
12 19 0.37
13 4 0.08
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:8315590 original size:23 final size:26
Alignment explanation
Indices: 8315562--8315622 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
8315552 ATCAACTCTT
8315562 ATGAGCTTACCG-T-TTCAACTC-G-
1 ATGAGCTTACCGTTCTTCAACTCGGA
*
8315584 ATAGAGCTTACTGTTCTTCAACTCGGA
1 AT-GAGCTTACCGTTCTTCAACTCGGA
8315611 ATGAGCTTACCG
1 ATGAGCTTACCG
8315623 ATCATGGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 2 0.06
23 9 0.28
24 1 0.03
25 8 0.25
26 10 0.31
27 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (26 bp):
ATGAGCTTACCGTTCTTCAACTCGGA
Found at i:8333974 original size:35 final size:35
Alignment explanation
Indices: 8333935--8334054 Score: 116
Period size: 35 Copynumber: 3.3 Consensus size: 35
8333925 GCAGCTCTAA
*
8333935 TTGGATAAACCAACGATATTTGCACCTAGCGCTAG
1 TTGGATAAACCAACGATATTTGCACCAAGCGCTAG
* * **
8333970 TTGGATGAACCAACGAATGTATTTAGTGAGCCAAGCTTTAG
1 TTGGATAAACCAACG-A--TATTT-G-CA-CCAAGCGCTAG
*
8334011 TTGGATAAACCAACGATATTTGCACCCAA-TGCTAG
1 TTGGATAAACCAACGATATTTGCA-CCAAGCGCTAG
8334046 TTGGATAAA
1 TTGGATAAA
8334055 TTGACGAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
35 26 0.38
36 6 0.09
37 1 0.01
38 10 0.15
39 1 0.01
40 2 0.03
41 22 0.32
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (35 bp):
TTGGATAAACCAACGATATTTGCACCAAGCGCTAG
Found at i:8334015 original size:76 final size:76
Alignment explanation
Indices: 8333877--8334054 Score: 243
Period size: 76 Copynumber: 2.3 Consensus size: 76
8333867 ACCGTTAGAG
* *
8333877 TTTGCGCCCAGCGCTAGTCGGATAAACCGAAGAATGTATTTAGTGAACGCAGCTCTAATTGGATA
1 TTTGCACCCAGCGCTAGTTGGATAAACCGAAGAATGTATTTAGTGAACGCAGCTCTAATTGGATA
8333942 AACCAACGATA
66 AACCAACGATA
* * * * *
8333953 TTTGCACCTAGCGCTAGTTGGATGAACC-AACGAATGTATTTAGTGAGC-CAAGCTTTAGTTGGA
1 TTTGCACCCAGCGCTAGTTGGATAAACCGAA-GAATGTATTTAGTGAACGC-AGCTCTAATTGGA
8334016 TAAACCAACGATA
64 TAAACCAACGATA
**
8334029 TTTGCACCCAATGCTAGTTGGATAAA
1 TTTGCACCCAGCGCTAGTTGGATAAA
8334055 TTGACGAATG
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
75 3 0.03
76 86 0.97
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (76 bp):
TTTGCACCCAGCGCTAGTTGGATAAACCGAAGAATGTATTTAGTGAACGCAGCTCTAATTGGATA
AACCAACGATA
Found at i:8336980 original size:29 final size:29
Alignment explanation
Indices: 8336938--8336996 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8336928 TCTCTGAGTG
8336938 TACTGTTGGTTATATTCACTGGAAGGAAT
1 TACTGTTGGTTATATTCACTGGAAGGAAT
8336967 TACTGTTGGTTATATTCACTGGAAGGAAT
1 TACTGTTGGTTATATTCACTGGAAGGAAT
8336996 T
1 T
8336997 TCATCACCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (29 bp):
TACTGTTGGTTATATTCACTGGAAGGAAT
Found at i:8339233 original size:3 final size:3
Alignment explanation
Indices: 8339227--8339271 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
8339217 TTCTCCTCCC
8339227 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8339272 ACCTAAACTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:8346857 original size:33 final size:33
Alignment explanation
Indices: 8346811--8346873 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
8346801 TCACAGGTCG
8346811 TGTGTCAGCCCGTGTGAAAACTACACCTATACT
1 TGTGTCAGCCCGTGTGAAAACTACACCTATACT
* *
8346844 TGTGTCAGTCCGTGTGGAAACTACACCTAT
1 TGTGTCAGCCCGTGTGAAAACTACACCTAT
8346874 CTATTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (33 bp):
TGTGTCAGCCCGTGTGAAAACTACACCTATACT
Found at i:8351573 original size:26 final size:27
Alignment explanation
Indices: 8351530--8351595 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 27
8351520 TCAAAAGGTG
8351530 TTTTTTTTCTTTCTTTTAC-TCTTTTA
1 TTTTTTTTCTTTCTTTTACTTCTTTTA
8351556 TTTTTTTTCTGTTC-TTTACTTTTCTTTTA
1 TTTTTTTTCT-TTCTTTTAC--TTCTTTTA
8351585 TTTTTTTTCTT
1 TTTTTTTTCTT
8351596 GCATCTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.42
27 3 0.08
28 1 0.03
29 17 0.47
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTTTTTCTTTCTTTTACTTCTTTTA
Found at i:8351595 original size:24 final size:24
Alignment explanation
Indices: 8351530--8351588 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
8351520 TCAAAAGGTG
8351530 TTTTTTTTCT-TTCTTTTACTCTTTTA
1 TTTTTTTTCTGTTC-TTTA--CTTTTA
*
8351556 TTTTTTTTCTGTTCTTTACTTTTC
1 TTTTTTTTCTGTTCTTTACTTTTA
8351580 TTTTATTTT
1 TTTT-TTTT
8351589 TTTTCTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.30
25 4 0.13
26 14 0.47
27 3 0.10
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTTTTCTGTTCTTTACTTTTA
Found at i:8352400 original size:20 final size:19
Alignment explanation
Indices: 8352375--8352423 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
8352365 TATTTACTTT
* *
8352375 ATATTTTTTAGTTTATGTAC
1 ATATTTTTTA-TCTATATAC
*
8352395 ATATTTATATATCTATATAC
1 ATATTT-TTTATCTATATAC
8352415 ATATTTTTT
1 ATATTTTTT
8352424 TATTTCTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (19 bp):
ATATTTTTTATCTATATAC
Found at i:8352483 original size:13 final size:13
Alignment explanation
Indices: 8352455--8352498 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 13
8352445 TATATACTTG
*
8352455 TATATA-TTTATA
1 TATATAGTTTTTA
8352467 TATATAGTTTTTATA
1 TATATAG-TTTT-TA
8352482 TATATAGTTTTTA
1 TATATAGTTTTTA
8352495 TATA
1 TATA
8352499 CATATACGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 7 0.25
15 9 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (13 bp):
TATATAGTTTTTA
Found at i:8352485 original size:17 final size:15
Alignment explanation
Indices: 8352461--8352498 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
8352451 CTTGTATATA
8352461 TTTATATATATAGTT
1 TTTATATATATAGTT
8352476 TTTATATATATAGTT
1 TTTATATATATAGTT
8352491 TTTATATA
1 TTTATATA
8352499 CATATACGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (15 bp):
TTTATATATATAGTT
Found at i:8352503 original size:17 final size:16
Alignment explanation
Indices: 8352461--8352504 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
8352451 CTTGTATATA
8352461 TTTATAT-ATATAGTT
1 TTTATATAATATAGTT
8352476 TTTATAT-ATATAGTT
1 TTTATATAATATAGTT
8352491 TTTATATACATATA
1 TTTATATA-ATATA
8352505 CGTATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 22 0.81
17 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (16 bp):
TTTATATAATATAGTT
Found at i:8354614 original size:25 final size:25
Alignment explanation
Indices: 8354586--8354664 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
8354576 ATGCTCATAC
*
8354586 GAGCATATAAACGGGAAGCTCTTTT
1 GAGCATATAAACGGGAAGCTCTTGT
* *
8354611 GAGCCATGT-AACGGGAAGCTCATGT
1 GAG-CATATAAACGGGAAGCTCTTGT
*
8354636 GAGC-TATATAACGGGAAGCTCTTGC
1 GAGCATATA-AACGGGAAGCTCTTGT
8354661 GAGC
1 GAGC
8354665 CAATTATTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 38 0.84
26 4 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (25 bp):
GAGCATATAAACGGGAAGCTCTTGT
Found at i:8354649 original size:50 final size:49
Alignment explanation
Indices: 8354589--8354766 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 49
8354579 CTCATACGAG
** *
8354589 CATATAAACGGGAAGCTCTTTTGAGCCATGTAACGGGAAGCTCATGTGAGC
1 CATAT-AACGGGAAGCTCTTGAGAGCCAT-TAACGGGAAGCTCATGAGAGC
* * ** *
8354640 TATATAACGGGAAGCTCTTGCGAGCCAATTATTGGGAAGCTCAT-ACAAGC
1 CATATAACGGGAAGCTCTTGAGAGCC-ATTAACGGGAAGCTCATGA-GAGC
* **
8354690 CATA-AACGAGAAGCTCAGGAGAGCCATTAATCGGGAAGCTCATGAGAGC
1 CATATAACGGGAAGCTCTTGAGAGCCATTAA-CGGGAAGCTCATGAGAGC
* *
8354739 CAAATATCGGGAAGCTCGTT-AGAGCCAT
1 CATATAACGGGAAGCTC-TTGAGAGCCAT
8354767 ATAGCGTGAT
Statistics
Matches: 101, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
48 4 0.04
49 34 0.34
50 57 0.56
51 6 0.06
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (49 bp):
CATATAACGGGAAGCTCTTGAGAGCCATTAACGGGAAGCTCATGAGAGC
Found at i:8354730 original size:25 final size:25
Alignment explanation
Indices: 8354597--8354766 Score: 118
Period size: 25 Copynumber: 6.8 Consensus size: 25
8354587 AGCATATAAA
* **
8354597 CGGGAAGCTCTTTTGAGCCATGTAA-
1 CGGGAAGCTCATGAGAGCCAT-TAAT
* *
8354622 CGGGAAGCTCATGTGAGCTATATAA-
1 CGGGAAGCTCATGAGAGCCAT-TAAT
* *
8354647 CGGGAAGCTCTTGCGAGCCAATT-AT
1 CGGGAAGCTCATGAGAGCC-ATTAAT
* * *
8354672 TGGGAAGCTCAT-ACAAGCCA-TAAA
1 CGGGAAGCTCATGA-GAGCCATTAAT
* *
8354696 CGAGAAGCTCAGGAGAGCCATTAAT
1 CGGGAAGCTCATGAGAGCCATTAAT
*
8354721 CGGGAAGCTCATGAGAGCCA-AATAT
1 CGGGAAGCTCATGAGAGCCATTA-AT
* *
8354746 CGGGAAGCTCGTTAGAGCCAT
1 CGGGAAGCTCATGAGAGCCAT
8354767 ATAGCGTGAT
Statistics
Matches: 115, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
23 1 0.01
24 18 0.16
25 94 0.82
26 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCATTAAT
Found at i:8354740 original size:49 final size:50
Alignment explanation
Indices: 8354611--8354755 Score: 136
Period size: 49 Copynumber: 2.9 Consensus size: 50
8354601 AAGCTCTTTT
* * * ** *
8354611 GAGCCATGTAA-CGGGAAGCTCATGTGAGCTATATAACGGGAAGCTCTTGC
1 GAGCCAT-TAATCGGGAAGCTCATGAGAGCCATATAACGAGAAGCTCAGGA
* *
8354661 GAGCCAATT-ATTGGGAAGCTCAT-ACAAGCCATA-AACGAGAAGCTCAGGA
1 GAGCC-ATTAATCGGGAAGCTCATGA-GAGCCATATAACGAGAAGCTCAGGA
* * *
8354710 GAGCCATTAATCGGGAAGCTCATGAGAGCCAAATATCGGGAAGCTC
1 GAGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGAGAAGCTC
8354756 GTTAGAGCCA
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
48 3 0.04
49 37 0.49
50 34 0.45
51 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.19
Consensus pattern (50 bp):
GAGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGAGAAGCTCAGGA
Found at i:8354765 original size:74 final size:73
Alignment explanation
Indices: 8354597--8354767 Score: 182
Period size: 74 Copynumber: 2.3 Consensus size: 73
8354587 AGCATATAAA
* * * * * * * *
8354597 CGGGAAGCTCTTTTGAGCCATGTAACGGGAAGCTCATGTGAGCTATATAACGGGAAGCTCTTGCG
1 CGGGAAGCTC-TTAGAGCCAT-AAACGAGAAGCTCAGGAGAGCCATATAACGGGAAGCTCATGAG
*
8354662 AGCCAATTAT
64 AGCCAAATAT
* * *
8354672 TGGGAAGCTCATACAAGCCATAAACGAGAAGCTCAGGAGAGCCAT-TAATCGGGAAGCTCATGAG
1 CGGGAAGCTCTTA-GAGCCATAAACGAGAAGCTCAGGAGAGCCATATAA-CGGGAAGCTCATGAG
8354736 AGCCAAATAT
64 AGCCAAATAT
8354746 CGGGAAGCTCGTTAGAGCCATA
1 CGGGAAGCTC-TTAGAGCCATA
8354768 TAGCGTGATG
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
73 3 0.04
74 58 0.74
75 17 0.22
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (73 bp):
CGGGAAGCTCTTAGAGCCATAAACGAGAAGCTCAGGAGAGCCATATAACGGGAAGCTCATGAGAG
CCAAATAT
Found at i:8358572 original size:21 final size:20
Alignment explanation
Indices: 8358542--8358600 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
8358532 GGTTGGTGCT
8358542 TGTTAAATTATTAAATTATA
1 TGTTAAATTATTAAATTATA
8358562 TGTTATAATTATGTTAAATTATA
1 TGTTA-AATTA--TTAAATTATA
8358585 -GTTAAAATATATTAAA
1 TGTT-AAAT-TATTAAA
8358601 ACATAAAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.15
21 10 0.29
22 6 0.18
23 13 0.38
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
TGTTAAATTATTAAATTATA
Found at i:8358576 original size:11 final size:10
Alignment explanation
Indices: 8358542--8358600 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 10
8358532 GGTTGGTGCT
8358542 TGTTAAATTA
1 TGTTAAATTA
8358552 --TTAAATTATA
1 TGTTAAA-T-TA
8358562 TGTTATAATTA
1 TGTTA-AATTA
8358573 TGTTAAATTA
1 TGTTAAATTA
*
8358583 TAGTTAAAATA
1 T-GTTAAATTA
*
8358594 TATTAAA
1 TGTTAAA
8358601 ACATAAAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 5 0.12
9 1 0.02
10 13 0.32
11 16 0.39
12 4 0.10
13 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (10 bp):
TGTTAAATTA
Found at i:8365134 original size:2 final size:2
Alignment explanation
Indices: 8365127--8365151 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8365117 GGCTGATAAT
8365127 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
8365152 GCATGTCAGC
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:8370427 original size:11 final size:11
Alignment explanation
Indices: 8370406--8370484 Score: 69
Period size: 11 Copynumber: 7.5 Consensus size: 11
8370396 ATAAATCCTT
8370406 TCTCTAATTTCC
1 TCTC-AATTTCC
8370418 TCTCAATTT-C
1 TCTCAATTTCC
8370428 TCTCAATTTCC
1 TCTCAATTTCC
*
8370439 TCTCAAATT-C
1 TCTCAATTTCC
**
8370449 -CT--ATTTAA
1 TCTCAATTTCC
*
8370457 TCTCAATTTGC
1 TCTCAATTTCC
8370468 TCTCAATTTCC
1 TCTCAATTTCC
*
8370479 TTTCAA
1 TCTCAA
8370485 ATCCCTATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
7 3 0.05
9 4 0.07
10 11 0.20
11 33 0.60
12 4 0.07
ACGTcount: A:0.23, C:0.29, G:0.01, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:8370475 original size:40 final size:39
Alignment explanation
Indices: 8370418--8370496 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 39
8370408 TCTAATTTCC
*
8370418 TCTCAATTTCTCTCAATTTCCTCTCAAATTCCTATTTAA
1 TCTCAATTTCTCTCAATTTCCTCTCAAATCCCTATTTAA
*
8370457 TCTCAATTTGCTCTCAATTTCCTTTCAAATCCCTATTTAA
1 TCTCAATTT-CTCTCAATTTCCTCTCAAATCCCTATTTAA
8370497 AAGAGCTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
39 9 0.24
40 28 0.76
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.46
Consensus pattern (39 bp):
TCTCAATTTCTCTCAATTTCCTCTCAAATCCCTATTTAA
Found at i:8370487 original size:29 final size:29
Alignment explanation
Indices: 8370428--8370487 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
8370418 TCTCAATTTC
*
8370428 TCTCAATTTCCTCTCAAATTCCTATTTAA
1 TCTCAATTTCCTCTCAAATTCCTATTAAA
* *
8370457 TCTCAATTTGCTCTCAATTTCCT-TTCAAA
1 TCTCAATTTCCTCTCAAATTCCTATT-AAA
8370486 TC
1 TC
8370488 CCTATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.25, C:0.28, G:0.02, T:0.45
Consensus pattern (29 bp):
TCTCAATTTCCTCTCAAATTCCTATTAAA
Found at i:8372363 original size:18 final size:18
Alignment explanation
Indices: 8372327--8372369 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
8372317 TGCCAGGTGC
* * *
8372327 GTATCCTAGCCTTTTTAT
1 GTATCCTAACCCTTATAT
8372345 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
8372363 GTTTCCT
1 GTATCCT
8372370 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:8376419 original size:31 final size:31
Alignment explanation
Indices: 8376381--8376442 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8376371 AGGCAAATTA
8376381 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
8376412 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
8376443 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:8382021 original size:24 final size:23
Alignment explanation
Indices: 8381985--8382038 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
8381975 GGTAGGCAAC
8381985 TTTTTTTTGGCGCTTTTTGCTTCT
1 TTTTTTTTGGCGCTTTTTGCTT-T
8382009 TCTTTTTTT-GCGCTTTTTGCTTT
1 T-TTTTTTTGGCGCTTTTTGCTTT
8382032 TTTTTTT
1 TTTTTTT
8382039 GTTTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.21
23 2 0.07
24 14 0.48
25 7 0.24
ACGTcount: A:0.00, C:0.15, G:0.13, T:0.72
Consensus pattern (23 bp):
TTTTTTTTGGCGCTTTTTGCTTT
Found at i:8382282 original size:3 final size:3
Alignment explanation
Indices: 8382274--8382317 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
8382264 AAATTAGTTA
*
8382274 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8382318 AAGGATAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8382658 original size:31 final size:31
Alignment explanation
Indices: 8382620--8382681 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8382610 AGGCAAATTA
8382620 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
8382651 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
8382682 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:8383180 original size:126 final size:126
Alignment explanation
Indices: 8383018--8383286 Score: 414
Period size: 126 Copynumber: 2.1 Consensus size: 126
8383008 GCTCGTATCA
* *
8383018 CACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGCTTAAAGCGTTTCTAACATTG
1 CACGTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCCTGCTTAAAGCGTTTCTAACACTG
* * * *
8383083 TTTGCTCAGAAATGTCTACTCAAAATTATTATT-TCAGGAGCTATTGTAGCAAAAGCGCGTC
66 TTTGCTCAGAAACGTCTACTCAAAATTATT-TTCTCAAGAGCCACTGTAGCAAAAGCGCGTC
* * * *
8383144 CACGTGGAAGCTTTTTTCAGTACTTCTACTGACAAAGCATCCTGCTTAAAGCGTTTTTGACACTG
1 CACGTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCCTGCTTAAAGCGTTTCTAACACTG
* *
8383209 TTTGCTCAGAAACGTCTACTCGAAATTATTTTCTCAAGAGCCACTGTAGCAAAAGCGCTTC
66 TTTGCTCAGAAACGTCTACTCAAAATTATTTTCTCAAGAGCCACTGTAGCAAAAGCGCGTC
8383270 CACGTGGGAGCTTCTTT
1 CACGTGGGAGCTTCTTT
8383287 AAATTAACAA
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 2 0.02
126 126 0.98
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (126 bp):
CACGTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCCTGCTTAAAGCGTTTCTAACACTG
TTTGCTCAGAAACGTCTACTCAAAATTATTTTCTCAAGAGCCACTGTAGCAAAAGCGCGTC
Found at i:8385734 original size:17 final size:16
Alignment explanation
Indices: 8385698--8385735 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8385688 AAAGTTAGTG
*
8385698 GATATTTTTAAAATAT
1 GATATATTTAAAATAT
8385714 -ATATATTTAAAATAAT
1 GATATATTTAAAAT-AT
8385730 GATATA
1 GATATA
8385736 AAAAAAGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 12 0.63
16 2 0.11
17 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
GATATATTTAAAATAT
Found at i:8389058 original size:14 final size:13
Alignment explanation
Indices: 8389036--8389071 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
8389026 CCCCCTAAAA
8389036 GAAATTTTAGCCTC
1 GAAA-TTTAGCCTC
8389050 GAAACTTTAGCCTC
1 GAAA-TTTAGCCTC
8389064 GAAATTTA
1 GAAATTTA
8389072 CCTGCCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
GAAATTTAGCCTC
Found at i:8395689 original size:18 final size:18
Alignment explanation
Indices: 8395653--8395705 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
8395643 GCTAGGTAAC
*
8395653 AAAATTAAATAAAGGAAA
1 AAAATTAAATAAAAGAAA
* *
8395671 AAAATTAATTAAAATAAA
1 AAAATTAAATAAAAGAAA
*
8395689 ATCAAATAAAATAAAAG
1 A--AAATTAAATAAAAG
8395706 GTTGAGTGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 16 0.59
20 11 0.41
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAATTAAATAAAAGAAA
Found at i:8396289 original size:17 final size:17
Alignment explanation
Indices: 8396256--8396289 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8396246 AATCTCATTT
*
8396256 TTTTTAAAAATAGAAAA
1 TTTTTAAAAATAAAAAA
*
8396273 TTTTTAAAATTAAAAAA
1 TTTTTAAAAATAAAAAA
8396290 CCCATAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTTTAAAAATAAAAAA
Found at i:8400474 original size:32 final size:33
Alignment explanation
Indices: 8400412--8400475 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
8400402 CTTTTGTCCG
* *
8400412 AAAAAAAATCTCACTTTAGATTCGAGAAATCCT
1 AAAAAAAATCTCACTTTAGAGTCGACAAATCCT
* *
8400445 AAAAAAATTCTCATTTTA-AGTCGACAAATCC
1 AAAAAAAATCTCACTTTAGAGTCGACAAATCC
8400476 ACTTTCAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (33 bp):
AAAAAAAATCTCACTTTAGAGTCGACAAATCCT
Found at i:8406680 original size:9 final size:9
Alignment explanation
Indices: 8406663--8406699 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8406653 TGAGTTTTCG
8406663 AATTCGAAT
1 AATTCGAAT
*
8406672 AACTCGAAT
1 AATTCGAAT
8406681 AATTCGAAT
1 AATTCGAAT
8406690 AATTCGAAT
1 AATTCGAAT
8406699 A
1 A
8406700 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8407526 original size:19 final size:19
Alignment explanation
Indices: 8407488--8407526 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
8407478 AAAGTTAATA
*
8407488 AAAAATTTGATTAAGGTGG
1 AAAAATTTGATTAAGATGG
* *
8407507 AAAAATTTTATTACGATGG
1 AAAAATTTGATTAAGATGG
8407526 A
1 A
8407527 TGACAATGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (19 bp):
AAAAATTTGATTAAGATGG
Found at i:8413025 original size:24 final size:24
Alignment explanation
Indices: 8412958--8413066 Score: 71
Period size: 24 Copynumber: 4.5 Consensus size: 24
8412948 CTCGCTTAAA
* * *
8412958 CTTCCCGTTATATGCCTATTCGGTG
1 CTTCCCGTTATA-GGCTCTTCGGAG
*
8412983 CTTTCCGATTA-A-GCTTCTTCGGAG
1 CTTCCCG-TTATAGGC-TCTTCGGAG
*
8413007 CTTCCCGTTA-AGAGCTCTTCAGAG
1 CTTCCCGTTATAG-GCTCTTCGGAG
* * *
8413031 CTACCCGATATAGGCTCTTTGTGAG
1 CTTCCCGTTATAGGCTCTTCG-GAG
*
8413056 CTTCCTGTTAT
1 CTTCCCGTTAT
8413067 TAAGCCTGGA
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
23 5 0.08
24 35 0.54
25 22 0.34
26 3 0.05
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.37
Consensus pattern (24 bp):
CTTCCCGTTATAGGCTCTTCGGAG
Found at i:8416892 original size:23 final size:23
Alignment explanation
Indices: 8416855--8416898 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8416845 TAAAATAGTG
8416855 TTTAATTGTTATTATTATTAAGT
1 TTTAATTGTTATTATTATTAAGT
* * *
8416878 TTTAATTTTTTTTATTTTTAA
1 TTTAATTGTTATTATTATTAA
8416899 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTAATTGTTATTATTATTAAGT
Found at i:8419741 original size:44 final size:44
Alignment explanation
Indices: 8419689--8420225 Score: 238
Period size: 44 Copynumber: 12.5 Consensus size: 44
8419679 CTGCTCTCTT
* * *
8419689 CAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTGCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
* * *
8419733 CAACTTCAG-GAAGATAGGAT-TATCGGCTTTAATCTACTCCACTG
1 CAACTTCAGAG-AGATAAGATCTA-AGGTTTTAATCTACTCCACTG
* * * *** * *
8419777 CAACTTTAGGGAGATAAGA-CTAA--ATACGATCTGCT-CTCTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
* *
8419817 CAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
* * *
8419861 CAACTTCAGAAAGATAGGAT-TATCA-GTTTTAATCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTA--AGGTTTTAATCTACTCCACTG
* * **** * * * *
8419905 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTGC-CTCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCTACTC-CACTG
* * * * *
8419950 CAACTTCAG-GAGGATAAGA-CT-TGCCTACTTAGTCTGCTCCACTG
1 CAACTTCAGAGA-GATAAGATCTAAG-GT-TTTAATCTACTCCACTG
* * *** *
8419994 CAACTTCAGGGAGATAAGA-CT-A-GATGCGATCTACT-CTCTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
**
8420034 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCT-CACTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
* * **** * *
8420077 CAACTTCAGCGAGATAAGATTTGCCATCTTCAATCT-CCCTCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCTACTC-CACTG
* * *** * *
8420122 TAACTTCAG-GAGGATAAGA-CTAA--ATGGGATCTGCT-CTCTG
1 CAACTTCAGAGA-GATAAGATCTAAGGTTTTAATCTACTCCACTG
* * * **
8420162 CAACTTCAAAGAGATAAGATCCAAGGTTGTAATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
*
8420206 CAACTTCAGGGAGATAAGAT
1 CAACTTCAGAGAGATAAGAT
8420226 TTACCATCTT
Statistics
Matches: 368, Mismatches: 94, Indels: 62
0.70 0.18 0.12
Matches are distributed among these distances:
40 61 0.17
41 27 0.07
42 2 0.01
43 50 0.14
44 174 0.47
45 54 0.15
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTCCACTG
Found at i:8419812 original size:128 final size:128
Alignment explanation
Indices: 8419649--8419923 Score: 487
Period size: 128 Copynumber: 2.1 Consensus size: 128
8419639 TGCTCCTGGT
*
8419649 CAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTTCAACTTCAGAGAGATAAGATCCAAG
1 CAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
* * *
8419714 GTTTTAATCCACTGCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTACTCCACTG
66 GTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGCTTTAATCTACTCCACTG
*
8419777 CAACTTTAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
1 CAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
* *
8419842 GTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGTTTTAATCTGCTCCACTG
66 GTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGCTTTAATCTACTCCACTG
8419905 CAACTTCAGGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
8419924 TTTGCCATCT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 139 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (128 bp):
CAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAG
GTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGCTTTAATCTACTCCACTG
Found at i:8419989 original size:89 final size:87
Alignment explanation
Indices: 8419889--8420144 Score: 267
Period size: 89 Copynumber: 3.0 Consensus size: 87
8419879 ATTATCAGTT
*
8419889 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTGCCTCACTGCAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT-CCTCACTGCAAC
*
8419954 TTCAGGAGGATAAGACT-TGCCTAC
65 TTCAGGAGGATAAGACTAAG-CT-C
* * * * * *
8419978 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-GATCTACTCTCTGCAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG-TCTCCTCACTGCAAC
* *
8420038 TTCA-GAGAGATAAGATCTAAGGTT
65 TTCAGGAG-GATAAGA-CTAAGCTC
* * * *
8420062 TTAATCCGCT-CACTGCAACTTCAGCGAGATAAGATTTGCCATCTTCAATCTCCCTCACTGTAAC
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT-CCTCACTGCAAC
8420126 TTCAGGAGGATAAGACTAA
65 TTCAGGAGGATAAGACTAA
8420145 ATGGGATCTG
Statistics
Matches: 136, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
83 28 0.21
84 30 0.22
85 8 0.06
86 1 0.01
87 10 0.07
88 20 0.15
89 39 0.29
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTCCTCACTGCAACT
TCAGGAGGATAAGACTAAGCTC
Found at i:8420266 original size:129 final size:128
Alignment explanation
Indices: 8419943--8420271 Score: 461
Period size: 128 Copynumber: 2.6 Consensus size: 128
8419933 TTCAGTTTGC
*
8419943 CTCACTGCAACTTCA-GGAGGATAAGACTTGCC-TACTT-AGTCTG-CTCCACTGCAACTTCAGG
1 CTCACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAGTCTGCCT-CACTGCAACTTCAGG
* * * *
8420004 -GAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
63 AG-GATAAGACTAAATGCGATCTACTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTGTAATC
8420068 CG
127 CG
* * * *
8420070 CTCACTGCAACTTCAGCGAGATAAGATTTGCCATCTTCAATCTCCCTCACTGTAACTTCAGGAGG
1 CTCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
* *
8420135 ATAAGACTAAATGGGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTGTAATCCG
66 ATAAGACTAAATGCGATCTACTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTGTAATCCG
* *
8420198 CTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTTTGCCTCACTGCAACTTCAGGAG
1 CT-CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
8420263 GATAAGACT
65 GATAAGACT
8420272 TGCTTATTTA
Statistics
Matches: 179, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
127 30 0.17
128 81 0.45
129 68 0.38
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (128 bp):
CTCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
ATAAGACTAAATGCGATCTACTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTGTAATCCG
Found at i:8420296 original size:345 final size:345
Alignment explanation
Indices: 8419633--8420315 Score: 892
Period size: 345 Copynumber: 2.0 Consensus size: 345
8419623 TCAACTTGAT
* *
8419633 TTAGTCTGCTCCTGGTCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTTCAACTTCAG
1 TTAGTCTGCTCCTGGTCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTTCAG
* *
8419698 AGAGATAAGATCCAAGGTTTTAATCCACTGCACTGCAACTTCAGGAAGATAGGATTATCGGCTTT
66 AGAGATAAGATCCAAGGTTTTAATCCACTGCACTGCAACTTCAGGAAGATAAGATTATCGCCTTT
* *
8419763 AATCTACTCCACTGCAACTTTAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAG
131 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAAAG
* * * *
8419828 AGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGAAAGATAGGATTATCAGTTTTAA
196 AGATAAGATCCAAGGTTGTAATCCACTCCACTGCAACTTCAGAAAGATAAGATTACCAGTTTCAA
* *
8419893 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTGCCTCACTGCAACTTCA
261 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
8419958 G-GAGGATAAGACTTGCCTAC
326 GAGA-GATAAGACTTGCCTAC
* *
8419978 TTAGTCTGCTCCACT-G-CAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTC
1 TTAGTCTGCT-C-CTGGTCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTTC
* *
8420041 AGAGAGATAAGATCTAAGGTTTTAATCCGCT-CACTGCAACTTCAGCG-AGATAAGATT-T-GCC
64 AGAGAGATAAGATCCAAGGTTTTAATCCACTGCACTGCAACTTCAG-GAAGATAAGATTATCGCC
* * **
8420102 ATCTTCAATCT-CCCTCACTGTAACTTCA-GGAGGATAAGACTAAATGGGATCTGCTCTCTGCAA
128 -T-TT-AATCTACTC-CACTGCAACTTCAGGGA-GATAAGACTAAATACGATCTGCTCTCTGCAA
* **
8420165 CTTCAAAGAGATAAGATCCAAGGTTGTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTAC
188 CTTCAAAGAGATAAGATCCAAGGTTGTAATCCACTCCACTGCAACTTCAGAAAGATAAGA-TTAC
* * *
8420230 CA-TCTTCAGTTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTAT-TT-AGTCTG-CT
252 CAGT-TTCAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-CATCTTCAGTCTGCCT
8420289 CCACTGCAACTTCAGAGAGATAAGACT
313 -CACTGCAACTTCAGAGAGATAAGACT
8420316 CGATCTGTTA
Statistics
Matches: 297, Mismatches: 26, Indels: 30
0.84 0.07 0.08
Matches are distributed among these distances:
342 2 0.01
343 2 0.01
344 32 0.11
345 215 0.72
346 42 0.14
347 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (345 bp):
TTAGTCTGCTCCTGGTCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTTCAG
AGAGATAAGATCCAAGGTTTTAATCCACTGCACTGCAACTTCAGGAAGATAAGATTATCGCCTTT
AATCTACTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAAAG
AGATAAGATCCAAGGTTGTAATCCACTCCACTGCAACTTCAGAAAGATAAGATTACCAGTTTCAA
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
GAGAGATAAGACTTGCCTAC
Found at i:8420311 original size:44 final size:43
Alignment explanation
Indices: 8419853--8420315 Score: 228
Period size: 44 Copynumber: 10.7 Consensus size: 43
8419843 TTTTAATCCA
* * ** *
8419853 CTCCACTGCAACTTCAGAAAGATAGGA-TTATCAGTTTTAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCA--TTTAGTCTG
* * *
8419897 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCAT-TT-AGTCTG
*
8419942 C-CTCACTGCAACTTCAG-GAGGATAAGACTTGCCTACTTAGTCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGCC-ATTTAGTCTG
* * ** *
8419986 CTCCACTGCAACTTCAGGGAGATAAGACTAG--A-TGCGATCTA
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCATTTAG-TCTG
* * ** * *
8420027 CT-CTCTGCAACTTCAGAGAGATAAGATCTAAG-GTTTTAATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGA-CT-TGCCATTTAGTCTG
* * *
8420070 CT-CACTGCAACTTCAGCGAGATAAGATTTGCCATCTTCAATCT-
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCAT-TT-AGTCTG
* * * * **
8420113 CCCTCACTGTAACTTCAG-GAGGATAAGAC-T--AAATGGGATCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGCCATTTAG-TCTG
* * * *
8420155 CT-CTCTGCAACTTCAAAGAGATAAGA--T-CCAAGGTTGTAATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCC-A--TT-TAGTCTG
* * * *
8420198 CTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTTTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGCCAT-TT-AGTCTG
*
8420243 C-CTCACTGCAACTTCAG-GAGGATAAGACTTGCTTATTTAGTCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGC-CATTTAGTCTG
8420287 CTCCACTGCAACTTCAGAGAGATAAGACT
1 CTCCACTGCAACTTCAGAGAGATAAGACT
8420316 CGATCTGTTA
Statistics
Matches: 324, Mismatches: 57, Indels: 76
0.71 0.12 0.17
Matches are distributed among these distances:
39 1 0.00
40 42 0.13
41 16 0.05
42 6 0.02
43 36 0.11
44 122 0.38
45 94 0.29
46 5 0.02
47 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTTGCCATTTAGTCTG
Found at i:8433697 original size:10 final size:10
Alignment explanation
Indices: 8433682--8433707 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8433672 ATTTGGACCT
8433682 TTATTTATTA
1 TTATTTATTA
8433692 TTATTTATTA
1 TTATTTATTA
8433702 TTATTT
1 TTATTT
8433708 TTTCTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTTATTA
Found at i:8434954 original size:24 final size:23
Alignment explanation
Indices: 8434922--8434971 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 23
8434912 CGAGTCTGAT
8434922 TTTCACGAACACAGTGCCCTAAAC
1 TTTCACGAACACAGTGCCCT-AAC
8434946 TTTCACGAACACAGTGCCCTAAC
1 TTTCACGAACACAGTGCCCTAAC
8434969 TTT
1 TTT
8434972 TTAAAACCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (23 bp):
TTTCACGAACACAGTGCCCTAAC
Found at i:8443085 original size:7 final size:7
Alignment explanation
Indices: 8443073--8443100 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8443063 CCATTGTTAG
8443073 CCCTAAA
1 CCCTAAA
8443080 CCCTAAA
1 CCCTAAA
8443087 CCCTAAA
1 CCCTAAA
8443094 CCCTAAA
1 CCCTAAA
8443101 TCCTCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:8444263 original size:3 final size:3
Alignment explanation
Indices: 8444257--8444347 Score: 164
Period size: 3 Copynumber: 30.3 Consensus size: 3
8444247 ATACAAAGCG
8444257 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
**
8444305 ATA ATA ATA ATA ATA GCA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8444348 GGAAACATTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8446025 original size:62 final size:61
Alignment explanation
Indices: 8445927--8446094 Score: 162
Period size: 63 Copynumber: 2.7 Consensus size: 61
8445917 TTAGTATAAT
* * *
8445927 AACAAATTTAACATTCTAATATTTA-AACATTATATCAATTT-GATC-CTAAATATAAAAAATTC
1 AACAAATTTAGCCTTC-AATATTTACAAAATT-TATCAATTTAGATCACTAAA-A-AAAAAATTC
* * * *
8445989 AACAAATTTAGCCTTTCAATATTTACAAAATTTATCATTTTAGTTCAATTTAAAAAAAAAGTTC
1 AACAAATTTAGCC-TTCAATATTTACAAAATTTATCAATTTAGATC-A-CTAAAAAAAAAATTC
* * *
8446053 AATAAATTTAGCCCTCAACATTTACAAAATTTATCAATTTAG
1 AACAAATTTAGCCTTCAATATTTACAAAATTTATCAATTTAG
8446095 TTCTAATTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
62 27 0.30
63 37 0.42
64 20 0.22
65 1 0.01
66 4 0.04
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (61 bp):
AACAAATTTAGCCTTCAATATTTACAAAATTTATCAATTTAGATCACTAAAAAAAAAATTC
Found at i:8446085 original size:63 final size:64
Alignment explanation
Indices: 8445980--8446111 Score: 196
Period size: 63 Copynumber: 2.1 Consensus size: 64
8445970 TCCTAAATAT
* * *
8445980 AAAAAATTCAACAAATTTAGCCTTTCAATATTTACAAAATTTATCATTTTAGTTC-AATTTAAA
1 AAAAAATTCAACAAATTTAGCCTCTCAACATTTACAAAATTTATCAATTTAGTTCTAATTTAAA
* *
8446043 AAAAAAGTTCAATAAATTTAGCC-CTCAACATTTACAAAATTTATCAATTTAGTTCTAATTTTAA
1 AAAAAA-TTCAACAAATTTAGCCTCTCAACATTTACAAAATTTATCAATTTAGTTCTAATTTAAA
8446107 AAAAA
1 AAAAA
8446112 TTTAAAAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
63 35 0.56
64 27 0.44
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (64 bp):
AAAAAATTCAACAAATTTAGCCTCTCAACATTTACAAAATTTATCAATTTAGTTCTAATTTAAA
Found at i:8446133 original size:16 final size:17
Alignment explanation
Indices: 8446112--8446143 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8446102 TTTAAAAAAA
8446112 TTTAAAAAT-ATTTTTT
1 TTTAAAAATCATTTTTT
8446128 TTTAAAAATCATTTTT
1 TTTAAAAATCATTTTT
8446144 AGTCCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAAAATCATTTTTT
Found at i:8446328 original size:13 final size:14
Alignment explanation
Indices: 8446310--8446342 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8446300 TTTGTTTGAT
*
8446310 TGAAAA-TGGTTTC
1 TGAAAATTGATTTC
8446323 TGAAAATTGATTTC
1 TGAAAATTGATTTC
8446337 TGAAAA
1 TGAAAA
8446343 ATGACTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (14 bp):
TGAAAATTGATTTC
Found at i:8446814 original size:19 final size:19
Alignment explanation
Indices: 8446786--8446826 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
8446776 TGTCCAAGTG
* *
8446786 CATAACTAGTATTACACTA
1 CATAACTAGTACTACACCA
*
8446805 CATAATTAGTACTACACCA
1 CATAACTAGTACTACACCA
8446824 CAT
1 CAT
8446827 TAAAACATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.29
Consensus pattern (19 bp):
CATAACTAGTACTACACCA
Found at i:8459906 original size:24 final size:24
Alignment explanation
Indices: 8459882--8459928 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8459872 ATAAACGAAT
*
8459882 TTAATTAAA-AGATAAATATCAAA
1 TTAATAAAATAGATAAATATCAAA
*
8459905 TTAATAAAATATATAAATATCAAA
1 TTAATAAAATAGATAAATATCAAA
8459929 ACTAAATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (24 bp):
TTAATAAAATAGATAAATATCAAA
Found at i:8468067 original size:2 final size:2
Alignment explanation
Indices: 8468060--8468084 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8468050 AGTCATAAGA
8468060 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 A
8468085 ACTATTTCTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8469055 original size:62 final size:62
Alignment explanation
Indices: 8468989--8469108 Score: 197
Period size: 62 Copynumber: 1.9 Consensus size: 62
8468979 TTATTCATAT
*
8468989 AAAATAAAATGAATAGGTATAAATAAAAACATATATTAAACATAACAAA-TAATAAATTTATA
1 AAAATAAAATGAATAGGTACAAAT-AAAACATATATTAAACATAACAAACTAATAAATTTATA
* *
8469051 AAAATAAAATGAATAGGTACAAATAAAACATATATTAAGCATAACAAACTTATAAATT
1 AAAATAAAATGAATAGGTACAAATAAAACATATATTAAACATAACAAACTAATAAATT
8469109 CATGTTATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 23 0.43
62 31 0.57
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (62 bp):
AAAATAAAATGAATAGGTACAAATAAAACATATATTAAACATAACAAACTAATAAATTTATA
Found at i:8472990 original size:71 final size:71
Alignment explanation
Indices: 8472864--8473106 Score: 353
Period size: 71 Copynumber: 3.4 Consensus size: 71
8472854 ACAATAAGCA
* *
8472864 TTAGCGGCGTTTTTTAA-AAAGCGTCGCAAAAAACCTAAGCCCAACGACGTCGTTTTGTGAGCTT
1 TTAGCGGCG-TTTTTAAGAAAGCGCCGCAAAAAACCTAAG-CCAACGACGCCGTTTTGTGAGCTT
8472928 TCGGGGAT
64 TCGGGGAT
* * *
8472936 TTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCCGTTTTGTGAGCTTTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCCGTTTTGTGAGCTTTC
8473001 GGGGAT
66 GGGGAT
* * *
8473007 TTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAACAACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCC--AACGACGCCGTTTTGTGAGCTT
8473072 TCGGGGAT
64 TCGGGGAT
* *
8473080 TTAGCAGCGCTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
8473107 TAATGCTCAG
Statistics
Matches: 153, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
71 73 0.48
72 29 0.19
73 51 0.33
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (71 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAACGACGCCGTTTTGTGAGCTTTC
GGGGAT
Found at i:8473152 original size:114 final size:114
Alignment explanation
Indices: 8473006--8473220 Score: 335
Period size: 114 Copynumber: 1.9 Consensus size: 114
8472996 CTTTTGGGGA
8473006 TTTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAACA-ACGCCGTTTTGTGAGC
1 TTTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAA-AGACGCCGTTTTGTGAGC
8473070 TTTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
8473120 TTTAGCGGCGTTTTTGAGAAAGCGCCT-CAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGAGC
1 TTTAGCGGCATTTTTAAGAAAGCG-CTGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGC
* ** *
8473184 TTTCGGGGATTTAGCGGCTTTTTTGAGAAAGCGCCGC
65 TTTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGC
8473221 AAAAAACCTA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
113 1 0.01
114 89 0.97
115 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:8473244 original size:73 final size:73
Alignment explanation
Indices: 8473120--8473293 Score: 294
Period size: 73 Copynumber: 2.4 Consensus size: 73
8473110 TGCTCAGGGC
* *
8473120 TTTAGCGGCGTTTTTGAGAAAGCGCCTCAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGCT
8473185 TTCGGGGA
66 TTCGGGGA
* *
8473193 TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGCT
8473258 TTCGGGGA
66 TTCGGGGA
* *
8473266 TTTAGCGGCGTTTTTAAGGAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
8473294 TAATGCTTAG
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 94 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAAAGACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:8473253 original size:187 final size:185
Alignment explanation
Indices: 8472935--8473571 Score: 934
Period size: 187 Copynumber: 3.4 Consensus size: 185
8472925 CTTTCGGGGA
*
8472935 TTTAACGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AACGACGCCGTTTTGTGAGCTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCGTTTTGTGAGCTT
* * *
8472999 TTGGGGATTTAGCGGCATTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAACAACGCCGTTTT
66 TCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTTT
* * *
8473064 GTGAGCTTTCGGGGATTTAGCAGCGCTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
131 GTGAGCTTTCGGGGATTTAGCGGCG-TTTTAAGGAAGCGCCGCTAATGCTTAGGGC
* * *
8473120 TTTAGCGGCGTTTTTGAGAAAGCGCCTCAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AAACGACGCCGTTTTGTGAGCT
* *
8473185 TTCGGGGATTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTT
65 TTCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTT
8473250 TGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTTAGGGC
130 TGTGAGCTTTCGGGGATTTAGCGGCG-TTTTAAGGAAGCGCCGCTAATGCTTAGGGC
* * *
8473307 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AAACGACGCCGTTTTGTGAGCT
* ** * *
8473372 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGTTAAAACTACGTCGTTT
65 TTCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTT
* * * ** ** *
8473437 TGTGAGCTTTTGGCGATTCAATGGCGTTTATAAGGAAGCGCTACTAATGATTAGGGC
130 TGTGAGCTTTCGGGGATTTAGCGGCGTTT-TAAGGAAGCGCCGCTAATGCTTAGGGC
* * * *
8473494 TTTAGCGGCGCTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCTAACGACACCGTTTTCTGAGCTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCGTTTTGTGAGCTT
8473559 TCGGGGATTTAGC
66 TCGGGGATTTAGC
8473572 ATCGTTTTTA
Statistics
Matches: 410, Mismatches: 39, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
185 40 0.10
186 34 0.08
187 336 0.82
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (185 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCGTTTTGTGAGCTT
TCGGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTTT
GTGAGCTTTCGGGGATTTAGCGGCGTTTTAAGGAAGCGCCGCTAATGCTTAGGGC
Found at i:8473311 original size:114 final size:114
Alignment explanation
Indices: 8473193--8473407 Score: 376
Period size: 114 Copynumber: 1.9 Consensus size: 114
8473183 CTTTCGGGGA
* *
8473193 TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
8473258 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTTAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGC
* *
8473307 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
8473372 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
8473408 AAAAAACCTA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 95 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGC
Found at i:8473426 original size:73 final size:73
Alignment explanation
Indices: 8473307--8473446 Score: 235
Period size: 73 Copynumber: 1.9 Consensus size: 73
8473297 TGCTTAGGGC
*
8473307 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCT
8473372 TTCGGGGA
66 TTCGGGGA
* ** *
8473380 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGTTAAAACTACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCT
8473445 TT
66 TT
8473447 TGGCGATTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (73 bp):
TTTAGCGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:8473463 original size:73 final size:73
Alignment explanation
Indices: 8473312--8473465 Score: 218
Period size: 73 Copynumber: 2.1 Consensus size: 73
8473302 AGGGCTTTAG
*
8473312 CGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTATGCCGTTTTGTGAGCTTTCGG
1 CGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCTTTCGG
* * *
8473377 GGATTTAG
66 CGATTCAA
* ** * *
8473385 CGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGTTAAAACTACGTCGTTTTGTGAGCTTTTGG
1 CGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCTTTCGG
8473450 CGATTCAA
66 CGATTCAA
*
8473458 TGGCGTTT
1 CGGCGTTT
8473466 ATAAGGAAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (73 bp):
CGGCGTTTTGGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACGCCGTTTTGTGAGCTTTCGG
CGATTCAA
Found at i:8473804 original size:14 final size:14
Alignment explanation
Indices: 8473785--8473889 Score: 70
Period size: 14 Copynumber: 7.4 Consensus size: 14
8473775 TATCACTATA
*
8473785 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
8473799 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
8473813 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
*
8473827 GTTTAGGTGTTACCAT-
1 GTTTAGG-GTT--TATG
*
8473843 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
* *
8473856 GATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* *
8473871 GGTTATGGTTTATG
1 GTTTAGGGTTTATG
8473885 GTTTA
1 GTTTA
8473890 AAGGCTGGGG
Statistics
Matches: 68, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
12 2 0.03
14 46 0.68
15 19 0.28
17 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:8473868 original size:22 final size:21
Alignment explanation
Indices: 8473843--8473890 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
8473833 GTGTTACCAT
*
8473843 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
8473865 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
8473886 TTTAA
1 TTTAA
8473891 AGGCTGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:8473885 original size:7 final size:7
Alignment explanation
Indices: 8473785--8473889 Score: 52
Period size: 7 Copynumber: 14.7 Consensus size: 7
8473775 TATCACTATA
*
8473785 GTTTAGG
1 GTTTATG
*
8473792 GTTTTTG
1 GTTTATG
*
8473799 GTTTAGG
1 GTTTATG
*
8473806 GTATATG
1 GTTTATG
8473813 GTTTA-G
1 GTTTATG
*
8473819 AGTTTAAG
1 -GTTTATG
8473827 GTTTA-G
1 GTTTATG
**
8473833 GTGTTACCA
1 GT-TTA-TG
* *
8473842 TTTTAAG
1 GTTTATG
8473849 GTTTATG
1 GTTTATG
*
8473856 GATTATGG
1 GTTTAT-G
*
8473864 GTTTAGG
1 GTTTATG
*
8473871 GGTTATG
1 GTTTATG
8473878 GTTTATG
1 GTTTATG
8473885 GTTTA
1 GTTTA
8473890 AAGGCTGGGG
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
6 4 0.05
7 59 0.81
8 9 0.12
9 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:8473966 original size:20 final size:21
Alignment explanation
Indices: 8473934--8473972 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
8473924 TGTTAAGGGC
8473934 TTATGGTTTTAGGGTTTAGGT
1 TTATGGTTTTAGGGTTTAGGT
8473955 TTATGG-TTTAGGGTTTAG
1 TTATGGTTTTAGGGTTTAG
8473973 ATTAACTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.51
Consensus pattern (21 bp):
TTATGGTTTTAGGGTTTAGGT
Found at i:8473969 original size:14 final size:14
Alignment explanation
Indices: 8473843--8473972 Score: 50
Period size: 14 Copynumber: 8.9 Consensus size: 14
8473833 GTGTTACCAT
* *
8473843 TTTAAGGTTTATGG
1 TTTATGGTTTAGGG
*
8473857 ATTATGGGTTTAGGG
1 TTTAT-GGTTTAGGG
* *
8473872 GTTATGGTTTATGG
1 TTTATGGTTTAGGG
* * *
8473886 TTTAAAGG-CTGGGG
1 TTT-ATGGTTTAGGG
*
8473900 TTTAAGGTTTAGAGG
1 TTTATGGTTTAG-GG
8473915 -TTATGTGCATGTTAAGGG
1 TTTATG-G--T-TT-AGGG
*
8473933 CTTATGGTTTTAGGG
1 TTTATGG-TTTAGGG
*
8473948 TTTA-GGTTTATGG
1 TTTATGGTTTAGGG
*
8473961 TTTAGGGTTTAG
1 TTTATGGTTTAG
8473973 ATTAACTAGT
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
13 14 0.16
14 33 0.38
15 25 0.28
16 2 0.02
17 2 0.02
18 5 0.06
19 7 0.08
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:8474283 original size:21 final size:21
Alignment explanation
Indices: 8474259--8474299 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8474249 GATTTAAGGT
8474259 TTAGGAGTT-AGTAGTTAGGGG
1 TTAGGAGTTAAG-AGTTAGGGG
*
8474280 TTAGGGGTTAAGAGTTAGGG
1 TTAGGAGTTAAGAGTTAGGG
8474300 ATTTATGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (21 bp):
TTAGGAGTTAAGAGTTAGGGG
Found at i:8474319 original size:22 final size:21
Alignment explanation
Indices: 8474235--8474345 Score: 84
Period size: 22 Copynumber: 5.3 Consensus size: 21
8474225 TAGGGATTAT
* *
8474235 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAAGGGTTAGGATTTAG
* *
8474256 GGTTT-AGGAGTTAGTAGTTAG
1 GGTTTAAGG-GTTAGGATTTAG
* * * *
8474277 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTAAGGGTTAGGATTTAG
*
8474298 GGATTTATGGGTTAGGATTTAG
1 GG-TTTAAGGGTTAGGATTTAG
*
8474320 GGATTTAAGGGTCAGGA--TAG
1 GG-TTTAAGGGTTAGGATTTAG
8474340 GGTTTA
1 GGTTTA
8474346 GATTAATTAG
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.05
20 8 0.11
21 29 0.40
22 32 0.44
ACGTcount: A:0.24, C:0.01, G:0.40, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGATTTAG
Found at i:8478439 original size:43 final size:43
Alignment explanation
Indices: 8478378--8478462 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
8478368 CAATGATGTA
* * *
8478378 CAAGATTTCCTTGATTAAGTAAATATATTATATCTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATACATTATATCTTTTATTAC
* * *
8478421 CAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTTATTA
1 CAAGATTTACTTGATTAAGAAAATACATTATATCTTTTATTA
8478463 TCTTGCATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATACATTATATCTTTTATTAC
Done.