Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 256 of 343
Found at i:84576030 original size:29 final size:27
Alignment explanation
Indices: 84575919--84576030 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
84575909 CATGAGATTG
** * *
84575919 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
84575948 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
84575976 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
84576003 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
84576031 TTTTTTGAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:84580879 original size:14 final size:16
Alignment explanation
Indices: 84580860--84580896 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
84580850 TAGATGGCTT
84580860 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
84580874 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
84580890 TTT-CATC
1 TTTGCATC
84580897 GCATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:84580896 original size:15 final size:15
Alignment explanation
Indices: 84580860--84580909 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
84580850 TAGATGGCTT
84580860 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
84580874 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
84580890 TTT-CATCGCAT-CG
1 TTTGCATCTCATGCA
84580903 TTTGCAT
1 TTTGCAT
84580910 TCAAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:84587827 original size:137 final size:137
Alignment explanation
Indices: 84587595--84587869 Score: 514
Period size: 137 Copynumber: 2.0 Consensus size: 137
84587585 CTATTCAGGT
*
84587595 AACAGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCTTTATTCAG
1 AACAGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTCAG
84587660 ATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCA
66 ATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCA
84587725 TTTGGGG
131 TTTGGGG
* *
84587732 AACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAG
1 AACAGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTCAG
*
84587797 ATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCA
66 ATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCA
84587862 TTTGGGG
131 TTTGGGG
84587869 A
1 A
84587870 GACTACTCAA
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AACAGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTCAG
ATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCA
TTTGGGG
Found at i:84589686 original size:26 final size:26
Alignment explanation
Indices: 84589650--84589733 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
84589640 CATGAAATTC
84589650 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84589676 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84589702 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84589728 TTATCA
1 TTATCA
84589734 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84592521 original size:204 final size:204
Alignment explanation
Indices: 84592076--84592625 Score: 832
Period size: 204 Copynumber: 2.7 Consensus size: 204
84592066 CAGATCTGGC
84592076 CTGAAGCAAGATCCAAGATGGTTTGGAATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGAT-GTTTGGAATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
84592141 GATTTGGCTTTCACGTGTTTACGCTGAAACAAATCTAAGATGATTTGGTATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTC-GTATTGTCAG
* * * **
84592206 AGACCAAATCGAAGTCTGGCATCTCTACTTTGGCGCGGAGAAGATACATAGAAGATCTCACCTTC
129 AGAACAAATCGAAGTCTGGCATCTCCACTTTGACGAAGAGAAGATACATAGAAGATCTCACCTTC
*
84592271 AGATGATTTCA
194 AGATAATTTCA
* * *
84592282 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACGTAGCT
1 CTGAAGCAAGATCCAAGATG-TTTGGAATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
84592347 GATTTGGCTTTCACGTGTTTATGCTGAAGCAAATCTAAGATGATTTGGTATCTC-TATTGTCAGA
65 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCGTATTGTCAGA
* * * * *
84592411 GAACAAATGGAAGTCTGGCATCTCCACTTTGATGAAGAGCAGATATATAGCAGATCTCACCTTCA
130 GAACAAATCGAAGTCTGGCATCTCCACTTTGACGAAGAGAAGATACATAGAAGATCTCACCTTCA
84592476 GATAATTTCA
195 GATAATTTCA
*
84592486 CTGAAGCAAGATCCAAGATAGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGAT-GTTTGGAATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* ** * * *
84592551 GATTTGGTTTTTGCGTGCTTACGCTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTC-GTATTGTCAG
*
84592616 AAAACAAATC
129 AGAACAAATC
84592626 AAAGAAGCAG
Statistics
Matches: 312, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
204 181 0.58
205 2 0.01
206 129 0.41
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (204 bp):
CTGAAGCAAGATCCAAGATGTTTGGAATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCGTATTGTCAGAG
AACAAATCGAAGTCTGGCATCTCCACTTTGACGAAGAGAAGATACATAGAAGATCTCACCTTCAG
ATAATTTCA
Found at i:84594301 original size:20 final size:19
Alignment explanation
Indices: 84594265--84594306 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
84594255 AATATATGTA
84594265 TTATATTTTATATTATTTAC
1 TTATATTTTATATTA-TTAC
84594285 TTATATTTTAT-TATATTAC
1 TTATATTTTATAT-TATTAC
84594304 TTA
1 TTA
84594307 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATTTTATATTATTAC
Found at i:84594321 original size:23 final size:18
Alignment explanation
Indices: 84594265--84594306 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
84594255 AATATATGTA
84594265 TTATATTTTATATTATTTAC
1 TTATA-TTT-TATTATTTAC
84594285 TTATATTTTATTATATTAC
1 TTATATTTTATTAT-TTAC
84594304 TTA
1 TTA
84594307 ATATCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTTTATTATTTAC
Found at i:84594404 original size:22 final size:24
Alignment explanation
Indices: 84594361--84594406 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
84594351 TTTATTATAG
*
84594361 TATATTTTTATCACATAATGTTTA
1 TATATCTTTATCACATAATGTTTA
*
84594385 TATATCTTTA-CAC-TATTGTTTA
1 TATATCTTTATCACATAATGTTTA
84594407 ACCATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 3 0.15
24 9 0.45
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (24 bp):
TATATCTTTATCACATAATGTTTA
Found at i:84594434 original size:16 final size:15
Alignment explanation
Indices: 84594413--84594481 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 15
84594403 TTTAACCATA
84594413 TATTATTTCATATTAT
1 TATTATTT-ATATTAT
84594429 TATTA-TT-TATTAT
1 TATTATTTATATTAT
*
84594442 ATATT-TTTAAATTAT
1 -TATTATTTATATTAT
*
84594457 TATTATTT-TA-CAT
1 TATTATTTATATTAT
84594470 TATTATTTATAT
1 TATTATTTATAT
84594482 ATTTTACTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 16 0.36
14 13 0.30
15 10 0.23
16 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:84594487 original size:37 final size:35
Alignment explanation
Indices: 84594428--84594531 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 35
84594418 TTTCATATTA
*
84594428 TTATTATT-TATTATATATTTTTAAATTATTATTAT-T
1 TTATTATTAT-TTATATA-TTTTACATTATTA-TATCT
*
84594464 TTACATTATTATTTATATATTTTACTTGTATTATATCT
1 TT--ATTATTATTTATATATTTTACAT-TATTATATCT
*
84594502 TTATTAATTATTTATATATTATACATTATT
1 TTATT-ATTATTTATATATTTTACATTATT
84594532 TTACATATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
36 9 0.16
37 27 0.47
38 21 0.36
39 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (35 bp):
TTATTATTATTTATATATTTTACATTATTATATCT
Found at i:84594506 original size:22 final size:21
Alignment explanation
Indices: 84594452--84594521 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 21
84594442 ATATTTTTAA
84594452 ATTAT-TA-TTATTTTACATT
1 ATTATATATTTATTTTACATT
* * *
84594471 ATTATTTATATATTTTACTTGT
1 ATTATATATTTATTTTACAT-T
*
84594493 ATTATATCTTTA--TTA-ATT
1 ATTATATATTTATTTTACATT
84594511 ATTTATATATT
1 A-TTATATATT
84594522 ATACATTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
18 2 0.05
19 14 0.35
20 5 0.12
21 9 0.22
22 10 0.25
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (21 bp):
ATTATATATTTATTTTACATT
Found at i:84598149 original size:17 final size:17
Alignment explanation
Indices: 84598110--84598150 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
84598100 TTTAAATGAG
* *
84598110 GGATTGTTAATAAATTT
1 GGATTGTTAATAAAATC
84598127 GG-TTGTTAATAAAATC
1 GGATTGTTAATAAAATC
84598143 GGATTGTT
1 GGATTGTT
84598151 TTCCTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (17 bp):
GGATTGTTAATAAAATC
Found at i:84599245 original size:21 final size:22
Alignment explanation
Indices: 84599219--84599271 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
84599209 AATTTATATT
84599219 TATTTTAAATATT-TTGTT-AGA
1 TATTTTAAA-ATTATTGTTAAGA
84599240 TATTTTAAAATTATTGTTAAGA
1 TATTTTAAAATTATTGTTAAGA
84599262 -ATTTTTAAAA
1 TA-TTTTAAAA
84599272 ATAAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.10
21 15 0.52
22 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (22 bp):
TATTTTAAAATTATTGTTAAGA
Found at i:84617214 original size:3 final size:3
Alignment explanation
Indices: 84617206--84617257 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
84617196 CTAATAAATA
* * * * *
84617206 AAT AAT AAT AAT GAT AAT AAA AAT AAT GAT AAT GAT ATT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
84617253 AAT AA
1 AAT AA
84617258 AAAAATCTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:84617231 original size:21 final size:21
Alignment explanation
Indices: 84617205--84617257 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
84617195 ACTAATAAAT
84617205 AAATAATAATAATGATAATAA
1 AAATAATAATAATGATAATAA
* *
84617226 AAATAATGATAATGATATTAA
1 AAATAATAATAATGATAATAA
*
84617247 TAAT-ATAATAA
1 AAATAATAATAA
84617258 AAAAATCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (21 bp):
AAATAATAATAATGATAATAA
Found at i:84617565 original size:3 final size:3
Alignment explanation
Indices: 84617553--84617674 Score: 90
Period size: 3 Copynumber: 40.7 Consensus size: 3
84617543 TTAAATTGGT
* * *
84617553 TAA T-A TAA TAA TAA CAA TAA TGTA TAA GTAA -AGA AAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA -TAA TA-A TAA TAA TAA TAA
* * *
84617598 TAA TAA TAA TAA TAA TAA CAA -AGA TAG TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * *
84617643 AAA TAA AAA TAA AAA TAA TAG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
84617675 CATTATTAAG
Statistics
Matches: 93, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
2 6 0.06
3 80 0.86
4 7 0.08
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:84618221 original size:2 final size:2
Alignment explanation
Indices: 84618216--84618247 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
84618206 TCTCAAGTTT
84618216 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
84618248 CAATATCCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:84620974 original size:19 final size:19
Alignment explanation
Indices: 84620904--84620975 Score: 51
Period size: 19 Copynumber: 3.9 Consensus size: 19
84620894 TTTTACGGCC
* *
84620904 TTAATTATTTTTTAAAAAA
1 TTAATTATTATTTAAAAAT
* **
84620923 TTAATTATTAATTT-TATTT
1 TTAATTATT-ATTTAAAAAT
**
84620942 TTAA-TA-TAAATAAAAAT
1 TTAATTATTATTTAAAAAT
84620959 TTAATTATTATTTAAAA
1 TTAATTATTATTTAAAA
84620976 TAATATAGTT
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
16 2 0.05
17 7 0.19
18 4 0.11
19 21 0.57
20 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATTATTATTTAAAAAT
Found at i:84621412 original size:171 final size:173
Alignment explanation
Indices: 84621112--84621450 Score: 576
Period size: 171 Copynumber: 2.0 Consensus size: 173
84621102 CTTTCTTTCT
* * *
84621112 TTCTTTCTTTTTTTTTTGAATAAAAGACCAAGTTGTATTAAAAGAAAAAACAAAACAAAAGTTTT
1 TTCTTTCTCTTTTCTTTGAATAAAAGACCAAGTTGTATTAAAAGAAAAAACAAAACAAAAGTTCT
* *
84621177 GGCCCAACCCCAATAAGCCCGAAAACCAGCAATGAAACATAAAACCAAGACAACAATTAAAAAAT
66 GGCCCAACCCCAATAAGCCCAAAAACCACCAATGAAACATAAAACCAAGACAACAATTAAAAAAT
*
84621242 AAATTGCCCAGCCTAGCCCAACCAAACAGAAAAA-GTATCTTAG
131 AAATTACCCAGCCTAGCCCAACCAAACA-AAAAATGTATCTTAG
*
84621285 TTCTTT-TCTTTTCTTTGAATAAAAGACCAGGTTGTATTAAAAGAAAAAACAAAACAAAAGTTCT
1 TTCTTTCTCTTTTCTTTGAATAAAAGACCAAGTTGTATTAAAAGAAAAAACAAAACAAAAGTTCT
*
84621349 GG-CCAACCCCAATGAGCCCAAAAACCACCAATGAAACATAAAACCAAGACAACAATTAAAAAAT
66 GGCCCAACCCCAATAAGCCCAAAAACCACCAATGAAACATAAAACCAAGACAACAATTAAAAAAT
84621413 AAATTACCCAGCCTAGCCCAACCAAACAAAAAATGTAT
131 AAATTACCCAGCCTAGCCCAACCAAACAAAAAATGTAT
84621451 ACCCATCTTT
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
170 5 0.03
171 90 0.57
172 56 0.36
173 6 0.04
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.21
Consensus pattern (173 bp):
TTCTTTCTCTTTTCTTTGAATAAAAGACCAAGTTGTATTAAAAGAAAAAACAAAACAAAAGTTCT
GGCCCAACCCCAATAAGCCCAAAAACCACCAATGAAACATAAAACCAAGACAACAATTAAAAAAT
AAATTACCCAGCCTAGCCCAACCAAACAAAAAATGTATCTTAG
Found at i:84628037 original size:43 final size:42
Alignment explanation
Indices: 84627953--84628107 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 42
84627943 TCTGAGACAT
*
84627953 CGTGTAAGACCGTGTCTGGGACA-CAGGCATCG-ATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATC-GGCATCGTATT--GATTTA
* *
84627996 TGTATAAGACCATGTCTGGGACATCGGCATCGTATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGTAT-TGATTTA
* ** *
84628038 CGTGTAAGACCCTG-CTTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCATGTC-TGGGACATCGGCATCG-TATTGATTTA
* * *
84628081 CATGTAAGACCACGTCCGGGACATCGG
1 CGTGTAAGACCATGTCTGGGACATCGG
84628108 TATTGTACTT
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 54 0.60
44 4 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGTATTGATTTA
Found at i:84628089 original size:85 final size:84
Alignment explanation
Indices: 84627952--84628107 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 84
84627942 GTCTGAGACA
* * * *
84627952 TCGTGTAAGACCGTGTCTGGGACACAGGCATCGATTGAGATTTATGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTCATG-ATAAGACCACGTCCGGGA
84628017 CATCGGCATCGTATCTGATT
65 CATCGGCATCGTATCTGATT
*
84628037 TCGTGTAAGACCCTG-CTTGGGACAGAGGCATCGATATTGA-ATTACATG-TAAGACCACGTCCG
1 TCGTGTAAGACCCTGTC-TGGGACACAGGCATCG--ATTGAGATT-CATGATAAGACCACGTCCG
84628099 GGACATCGG
62 GGACATCGG
84628108 TATTGTACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
84 1 0.02
85 50 0.81
86 3 0.05
87 8 0.13
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (84 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTCATGATAAGACCACGTCCGGGAC
ATCGGCATCGTATCTGATT
Found at i:84637781 original size:28 final size:28
Alignment explanation
Indices: 84637733--84637818 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 28
84637723 GGTAATGCAA
* *
84637733 AAATCTAACCGTTATAATAT-GATCGTTG
1 AAATCTGACCGTTACAATATGGA-CGTTG
* *
84637761 GAATCTGACCGTTACATTATGGACGTTG
1 AAATCTGACCGTTACAATATGGACGTTG
* * *
84637789 AAATTTGACCATTGCAATATGGACGTTG
1 AAATCTGACCGTTACAATATGGACGTTG
84637817 AA
1 AA
84637819 TTTTTGGGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 46 0.96
29 2 0.04
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (28 bp):
AAATCTGACCGTTACAATATGGACGTTG
Found at i:84643126 original size:30 final size:30
Alignment explanation
Indices: 84643092--84643152 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
84643082 TTATTTTATC
84643092 GTTAATTTTCTTATTATTTTA-AAGGCATTT
1 GTTAATTTTCTTATTATTTTAGAA-GCATTT
*
84643122 GTTAATTTTTTTATTATTTTAGAAGCATTT
1 GTTAATTTTCTTATTATTTTAGAAGCATTT
84643152 G
1 G
84643153 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.57
Consensus pattern (30 bp):
GTTAATTTTCTTATTATTTTAGAAGCATTT
Found at i:84644558 original size:36 final size:35
Alignment explanation
Indices: 84644506--84644601 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
84644496 TTCTGTTTTG
* * *
84644506 GTGTGTTTCAGTTGGATTAGCTCTTCGGAGCCACTA
1 GTGTGTTTCAGATGGATTAGCTCTTAGAAG-CACTA
* * *
84644542 GTGTGTTTCAGATGGATTAGCTCTTATAAGCATTG
1 GTGTGTTTCAGATGGATTAGCTCTTAGAAGCACTA
* *
84644577 GTGTGTTTCAGATGGACTAACTCTT
1 GTGTGTTTCAGATGGATTAGCTCTT
84644602 GTGAGCATCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 26 0.50
36 26 0.50
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.39
Consensus pattern (35 bp):
GTGTGTTTCAGATGGATTAGCTCTTAGAAGCACTA
Found at i:84644588 original size:35 final size:35
Alignment explanation
Indices: 84644503--84644616 Score: 129
Period size: 36 Copynumber: 3.2 Consensus size: 35
84644493 ACTTTCTGTT
* **
84644503 TTGGTGTGTTTCAGTTGGATTAGCTCTTCGGAGCCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAG-CA
* * *
84644539 CTAGTGTGTTTCAGATGGATTAGCTCTTATAAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
* * *
84644574 TTGGTGTGTTTCAGATGGACTAACTCTTGTGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
84644609 TCTGGTGT
1 T-TGGTGT
84644617 ATTTTGGTTG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 32 0.49
36 33 0.51
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
Found at i:84646951 original size:40 final size:40
Alignment explanation
Indices: 84646896--84646988 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
84646886 TTCAGTGACA
* * *** * *
84646896 TTAGCGGCACTTTTTAAAAAATGGCGCTAATGCTCTATCT
1 TTAGCAGCGCTTTTTAAAAAACACCGCTAACGCTCGATCT
* *
84646936 TTAGCTGCGCTTTTTAACAAACACCGCTAACGCTCGATCT
1 TTAGCAGCGCTTTTTAAAAAACACCGCTAACGCTCGATCT
84646976 TTAGCAGCGCTTT
1 TTAGCAGCGCTTT
84646989 GAGAAAATGC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (40 bp):
TTAGCAGCGCTTTTTAAAAAACACCGCTAACGCTCGATCT
Found at i:84647458 original size:15 final size:15
Alignment explanation
Indices: 84647422--84647454 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
84647412 TATTTTAAGA
*
84647422 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
84647437 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
84647451 TTTA
1 TTTA
84647455 AGGGTTGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Found at i:84647467 original size:21 final size:21
Alignment explanation
Indices: 84647423--84647486 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
84647413 ATTTTAAGAT
* * *
84647423 TTATGGATTATGGGTTTAGGGA
1 TTATGGTTTAAGGG-TTGGGGA
84647445 TTATGGTTTAAGGGTTGGGGA
1 TTATGGTTTAAGGGTTGGGGA
* *
84647466 TTAAGGTTTAGGGGTTAGGGG
1 TTATGGTTTAAGGGTT-GGGG
84647487 TTAAGGGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTGGGGA
Found at i:84647490 original size:21 final size:21
Alignment explanation
Indices: 84647438--84647518 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
84647428 GATTATGGGT
* * *
84647438 TTAGGGATTATGGTTTAAGGG
1 TTAGGGGTTAAGGTTTAGGGG
84647459 TT-GGGGATTAAGGTTTAGGGG
1 TTAGGGG-TTAAGGTTTAGGGG
*
84647480 TTAGGGGTTAAGGGTTAGGGG
1 TTAGGGGTTAAGGTTTAGGGG
84647501 TCTA-GGGTTAAGTGTTTA
1 T-TAGGGGTTAAG-GTTTA
84647519 TGTTTTAGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.06
21 38 0.75
22 10 0.20
ACGTcount: A:0.21, C:0.01, G:0.42, T:0.36
Consensus pattern (21 bp):
TTAGGGGTTAAGGTTTAGGGG
Found at i:84647496 original size:14 final size:14
Alignment explanation
Indices: 84647452--84647512 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
84647442 GGATTATGGT
84647452 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
*
84647465 ATTAAGGTTTAGGGG
1 -TTAAGGGTTAGGGG
* *
84647480 TTAGGGGTTAAGGG
1 TTAAGGGTTAGGGG
*
84647494 TTAGGGGTCTA-GGG
1 TTAAGGGT-TAGGGG
84647508 TTAAG
1 TTAAG
84647513 TGTTTATGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 34 0.85
15 6 0.15
ACGTcount: A:0.21, C:0.02, G:0.46, T:0.31
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:84647506 original size:8 final size:7
Alignment explanation
Indices: 84647473--84647507 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
84647463 GGATTAAGGT
84647473 TTAGGGG
1 TTAGGGG
84647480 TTAGGGG
1 TTAGGGG
*
84647487 TTAAGGG
1 TTAGGGG
84647494 TTAGGGG
1 TTAGGGG
84647501 TCTAGGG
1 T-TAGGG
84647508 TTAAGTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.17, C:0.03, G:0.51, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:84651631 original size:23 final size:23
Alignment explanation
Indices: 84651599--84651668 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
84651589 GCTACTGTTT
* *
84651599 TTTAAGTGCTGCAAATTGAAGTG
1 TTTAAATGCTGTAAATTGAAGTG
84651622 TTTAAATGCTGTAAATTGAAGTG
1 TTTAAATGCTGTAAATTGAAGTG
* *
84651645 CTTAAATGTTGTAAATTGAAGTG
1 TTTAAATGCTGTAAATTGAAGTG
84651668 T
1 T
84651669 CTGGAAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.39
Consensus pattern (23 bp):
TTTAAATGCTGTAAATTGAAGTG
Found at i:84651664 original size:46 final size:46
Alignment explanation
Indices: 84651600--84651800 Score: 160
Period size: 46 Copynumber: 4.5 Consensus size: 46
84651590 CTACTGTTTT
* *
84651600 TTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGA-AGTGC
1 TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAGA-TGC
* *
84651646 TTAAATGTTGTAAATTGAAGTG------T-CTGGAAATTGAGATGC
1 TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAGATGC
* * * *
84651685 TT-TATCGCTGT-AATTG-AGTTGTATAAATGTTGTTAATTGAGATG-
1 TTAAAT-GCTGTAAATTGAAG-TGTTTAAATGCTGTAAATTGAGATGC
84651729 TTAAAGTGCTGCT-AATTGAAGTGTTTAAATGCTGTAAATTGA-AGTGC
1 TTAAA-TGCTG-TAAATTGAAGTGTTTAAATGCTGTAAATTGAGA-TGC
* *
84651776 TTAAATGTTGTAAATTAAAGTGTTT
1 TTAAATGCTGTAAATTGAAGTGTTT
84651801 TAAGTACTAC
Statistics
Matches: 123, Mismatches: 15, Indels: 34
0.72 0.09 0.20
Matches are distributed among these distances:
37 2 0.02
38 9 0.07
39 19 0.15
40 2 0.02
44 3 0.02
45 19 0.15
46 62 0.50
47 7 0.06
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (46 bp):
TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAGATGC
Found at i:84651725 original size:23 final size:22
Alignment explanation
Indices: 84651691--84651799 Score: 89
Period size: 23 Copynumber: 4.8 Consensus size: 22
84651681 ATGCTTTATC
84651691 GCTG-TAATTG-AGTTGTATAAAT
1 GCTGTTAATTGAAG-TGT-TAAAT
*
84651713 GTTGTTAATTG-AGATGTTAAAGT
1 GCTGTTAATTGAAG-TGTTAAA-T
*
84651736 GCTGCTAATTGAAGTGTTTAAAT
1 GCTGTTAATTGAAGTG-TTAAAT
*
84651759 GCTGTAAATTGAAGTGCTTAAAT
1 GCTGTTAATTGAAGTG-TTAAAT
* * *
84651782 GTTGTAAATTAAAGTGTT
1 GCTGTTAATTGAAGTGTT
84651800 TTAAGTACTA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
22 9 0.12
23 58 0.78
24 7 0.09
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (22 bp):
GCTGTTAATTGAAGTGTTAAAT
Found at i:84651837 original size:23 final size:23
Alignment explanation
Indices: 84651735--84651878 Score: 105
Period size: 23 Copynumber: 6.2 Consensus size: 23
84651725 GATGTTAAAG
* **
84651735 TGCTGCTAATTGAAGTGTTTAAA
1 TGCTGCAAATTGAAGTGTTTAGT
* * **
84651758 TGCTGTAAATTGAAGTGCTTAAA
1 TGCTGCAAATTGAAGTGTTTAGT
* * *
84651781 TGTTGTAAATTAAAGTGTTTTAAG-
1 TGCTGCAAATTGAAGTG-TTT-AGT
* *
84651805 TACTACAAATTGAAGTGTTTAGT
1 TGCTGCAAATTGAAGTGTTTAGT
*
84651828 TGCTGGAAATTG-AGATGTTTTA-T
1 TGCTGCAAATTGAAG-TG-TTTAGT
*
84651851 CGCTGCAAATTGAAGTGTTTAGT
1 TGCTGCAAATTGAAGTGTTTAGT
84651874 TGCTG
1 TGCTG
84651879 GAAAAGAGAT
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
22 8 0.08
23 67 0.70
24 20 0.21
25 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.40
Consensus pattern (23 bp):
TGCTGCAAATTGAAGTGTTTAGT
Found at i:84652266 original size:18 final size:18
Alignment explanation
Indices: 84652243--84652289 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
84652233 TGCTGTATTT
84652243 GGACTTGCTGTTAGTAAA
1 GGACTTGCTGTTAGTAAA
84652261 GGACTTGCTGTTAGTAAA
1 GGACTTGCTGTTAGTAAA
*
84652279 AGACTTGCTGT
1 GGACTTGCTGT
84652290 ATTTTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (18 bp):
GGACTTGCTGTTAGTAAA
Found at i:84652342 original size:19 final size:19
Alignment explanation
Indices: 84652319--84652365 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
84652309 ATTTAATCTA
*
84652319 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
84652337 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
84652357 ATTTTTATT
1 ATTTTTATT
84652366 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:84653577 original size:19 final size:20
Alignment explanation
Indices: 84653539--84653578 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
84653529 TATAAAAATG
84653539 AATTAAATTGTATCATGATA
1 AATTAAATTGTATCATGATA
* *
84653559 AATTTAATTG-ATTATGATA
1 AATTAAATTGTATCATGATA
84653578 A
1 A
84653579 CACTTATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (20 bp):
AATTAAATTGTATCATGATA
Found at i:84666183 original size:12 final size:12
Alignment explanation
Indices: 84666166--84666203 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
84666156 GGGCCGGAGA
84666166 TGCTGCTGGGGC
1 TGCTGCTGGGGC
*
84666178 TGCTGCTGGGAC
1 TGCTGCTGGGGC
*
84666190 TGCTGCTGGAGC
1 TGCTGCTGGGGC
84666202 TG
1 TG
84666204 GAGTTTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.05, C:0.24, G:0.45, T:0.26
Consensus pattern (12 bp):
TGCTGCTGGGGC
Found at i:84669488 original size:8 final size:8
Alignment explanation
Indices: 84669479--84669637 Score: 219
Period size: 8 Copynumber: 19.6 Consensus size: 8
84669469 ATATATATAT
*
84669479 AGATAGAT
1 AGATAGAC
*
84669487 AGATAGAT
1 AGATAGAC
84669495 AGATAGAC
1 AGATAGAC
84669503 AGATAGAC
1 AGATAGAC
84669511 AGATAGAC
1 AGATAGAC
84669519 AGATAGAC
1 AGATAGAC
*
84669527 AGAGAGAC
1 AGATAGAC
*
84669535 AGAGAGAC
1 AGATAGAC
*
84669543 AGAGAGAC
1 AGATAGAC
*
84669551 AGACAGAC
1 AGATAGAC
*
84669559 AGACAGAC
1 AGATAGAC
*
84669567 AGACAGAC
1 AGATAGAC
*
84669575 AGACAGAC
1 AGATAGAC
84669583 AGATAAGAC
1 AGAT-AGAC
84669592 AGATAAGAC
1 AGAT-AGAC
84669601 AGATAGAC
1 AGATAGAC
84669609 AGATAGAC
1 AGATAGAC
84669617 AGATAGAC
1 AGATAGAC
84669625 AGATAGAC
1 AGATAGAC
84669633 AGATA
1 AGATA
84669638 TAAATACTTT
Statistics
Matches: 146, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
8 129 0.88
9 17 0.12
ACGTcount: A:0.51, C:0.13, G:0.26, T:0.09
Consensus pattern (8 bp):
AGATAGAC
Found at i:84669498 original size:4 final size:4
Alignment explanation
Indices: 84669499--84669635 Score: 148
Period size: 4 Copynumber: 33.8 Consensus size: 4
84669489 ATAGATAGAT
* * * * * *
84669499 AGAC AGAT AGAC AGAT AGAC AGAT AGAC AGAG AGAC AGAG AGAC AGAG
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* *
84669547 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGATA AGAC AGATA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA-C AGAC AGA-C
* * * *
84669597 AGAC AGAT AGAC AGAT AGAC AGAT AGAC AGAT AGAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
84669636 TATAAATACT
Statistics
Matches: 107, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
4 101 0.94
5 6 0.06
ACGTcount: A:0.51, C:0.15, G:0.27, T:0.07
Consensus pattern (4 bp):
AGAC
Found at i:84672191 original size:132 final size:132
Alignment explanation
Indices: 84671954--84672204 Score: 371
Period size: 132 Copynumber: 1.9 Consensus size: 132
84671944 CAAGAAAGTG
* *
84671954 AAAGGATCTCTTCCTGATAACTTCTTTGATAGGGATGAAACCAAGTTACCTACGAATCTTATGAA
1 AAAGGATCTCTTCCTGATAACTTCTTTGATAAGGATGAAACCAAGTTACCTACGAATCTCATGAA
* *
84672019 GCCTCCAAGGGAGAATAAACTGGCAGTGAAGCAGGCTAGTGCTCCAGAAACCAAAACAAAGCACG
66 GCCTCCAAGGGAGAATAAACAGGCAGTCAAGCAGGCTAGTGCTCCAGAAACCAAAACAAAGCACG
84672084 TT
131 TT
* ** *
84672086 AAAGGATCTCTTCCTGATGACTTCTTTGATAAGGATGATGCCAAGTTACCTATGAATGC-CATGA
1 AAAGGATCTCTTCCTGATAACTTCTTTGATAAGGATGAAACCAAGTTACCTACGAAT-CTCATGA
* * *
84672150 AGCCTCCTAGGGAGAATATACAGGC-TTCAGAGCAGGCTAGTGCTCCAGAAACCAA
65 AGCCTCCAAGGGAGAATAAACAGGCAGTCA-AGCAGGCTAGTGCTCCAGAAACCAA
84672205 GCAAGTAAAG
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
131 2 0.02
132 103 0.97
133 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (132 bp):
AAAGGATCTCTTCCTGATAACTTCTTTGATAAGGATGAAACCAAGTTACCTACGAATCTCATGAA
GCCTCCAAGGGAGAATAAACAGGCAGTCAAGCAGGCTAGTGCTCCAGAAACCAAAACAAAGCACG
TT
Found at i:84676152 original size:12 final size:12
Alignment explanation
Indices: 84676135--84676175 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
84676125 GGAGATAGGA
84676135 AAAACAGGTTCC
1 AAAACAGGTTCC
*
84676147 AAAACAGG---A
1 AAAACAGGTTCC
84676156 AAAACAGGTTCC
1 AAAACAGGTTCC
84676168 AAAACAGG
1 AAAACAGG
84676176 AATAACAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:84676156 original size:21 final size:21
Alignment explanation
Indices: 84676131--84676183 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
84676121 CAGTGGAGAT
84676131 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
84676152 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
*
84676173 AGGAATAACAG
1 AGGAAAAACAG
84676184 TGGCTGTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.53, C:0.17, G:0.21, T:0.09
Consensus pattern (21 bp):
AGGAAAAACAGGTTCCAAAAC
Found at i:84684438 original size:16 final size:16
Alignment explanation
Indices: 84684419--84684450 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
84684409 TTATTTGTCA
84684419 GTTGTTGTCATAAGCC
1 GTTGTTGTCATAAGCC
84684435 GTTGTTGTCATAAGCC
1 GTTGTTGTCATAAGCC
84684451 TTTACCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (16 bp):
GTTGTTGTCATAAGCC
Found at i:84688074 original size:16 final size:17
Alignment explanation
Indices: 84688055--84688094 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
84688045 CCATCCTTCT
84688055 AATTTTCT-ACCCTTTC
1 AATTTTCTCACCCTTTC
*
84688071 AATTTT-TCATCCTTTC
1 AATTTTCTCACCCTTTC
84688087 AATTTTCT
1 AATTTTCT
84688095 TTCCACTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTTCTCACCCTTTC
Found at i:84695518 original size:11 final size:11
Alignment explanation
Indices: 84695502--84695526 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
84695492 ATGTTTCAGC
84695502 TTTTTTTATTT
1 TTTTTTTATTT
84695513 TTTTTTTATTT
1 TTTTTTTATTT
84695524 TTT
1 TTT
84695527 GACAGTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:84702320 original size:22 final size:23
Alignment explanation
Indices: 84702295--84702350 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
84702285 AAAATATAAT
84702295 AAAATAATAAAA-AAAAGAAATA
1 AAAATAATAAAACAAAAGAAATA
* *
84702317 AAAATAA-AAAACAGAATAAATA
1 AAAATAATAAAACAAAAGAAATA
* *
84702339 TATATAATAAAA
1 AAAATAATAAAA
84702351 TATATAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (23 bp):
AAAATAATAAAACAAAAGAAATA
Found at i:84702322 original size:19 final size:18
Alignment explanation
Indices: 84702300--84702336 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
84702290 ATAATAAAAT
84702300 AATAAAAAAAAGAAATAAA
1 AATAAAAAAAAG-AATAAA
*
84702319 AATAAAAAACAGAATAAA
1 AATAAAAAAAAGAATAAA
84702337 TATATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (18 bp):
AATAAAAAAAAGAATAAA
Found at i:84702353 original size:12 final size:12
Alignment explanation
Indices: 84702331--84702362 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
84702321 TAAAAAACAG
84702331 AATAAATATATAT
1 AATAAA-ATATAT
84702344 AATAAAATATAT
1 AATAAAATATAT
84702356 AATAAAA
1 AATAAAA
84702363 GAAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAAAATATAT
Found at i:84704367 original size:88 final size:88
Alignment explanation
Indices: 84704271--84704549 Score: 277
Period size: 86 Copynumber: 3.2 Consensus size: 88
84704261 CAGATCTGTT
*
84704271 ATCTTGGATCTGCTTCGGCGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCG
1 ATCTTGGATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCG
84704336 TTGTAAACACAAGAATGCCAATC
66 TTGTAAACACAAGAATGCCAATC
* * * * * * * * * * *
84704359 ATCTTGGATCTACTTCAGTAT-A-AACATCTGAAGGTTAGATCTGCTATGT-ATCTA-CT-CTCT
1 ATCTTGGATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTC-
* ***
84704419 GTCG-AAA-TGGAG-ATGCCAGATC
65 GTTGTAAACACAAGAATGCCA-ATC
*
84704441 TATTATCTTGGATCTGTTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG
1 ----ATCTTGGATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG
*
84704506 TTCCTTGTAAACACAAGAATGCCAAATC
62 TTCGTTGTAAACACAAGAATGCC-AATC
84704534 ATCTTGGATCTGCTTC
1 ATCTTGGATCTGCTTC
84704550 AGTATAAACA
Statistics
Matches: 142, Mismatches: 34, Indels: 29
0.69 0.17 0.14
Matches are distributed among these distances:
81 6 0.04
82 5 0.04
83 5 0.04
84 4 0.03
85 3 0.02
86 40 0.28
87 2 0.01
88 40 0.28
89 18 0.13
90 3 0.02
91 5 0.04
92 2 0.01
93 8 0.06
94 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (88 bp):
ATCTTGGATCTGCTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCG
TTGTAAACACAAGAATGCCAATC
Found at i:84704425 original size:174 final size:175
Alignment explanation
Indices: 84704134--84704582 Score: 758
Period size: 174 Copynumber: 2.6 Consensus size: 175
84704124 CGTGAAAGCT
* * * *
84704134 AAATCTGCTGTGTCTTCGATTTGCTCATTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCT
1 AAATCTGCTATGTCTTCGATTTGTTCATTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
*
84704199 TCAGTA-AAATCATCTGAAGGTTAGATTTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCCA
66 TCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCCA
*
84704263 GATCTGTTATCTTGGATCTGCTTCGGCGTGAGAACATCCGAAAGTC
130 GATCTATTATCTTGGATCTGCTTCGGCGTGAGAACATCCGAAAGTC
* *
84704309 AAATCTGCTATGTCTTCGATTTGTTCGTTGTAAACACAAGAATGCC-AATCATCTTGGATCTACT
1 AAATCTGCTATGTCTTCGATTTGTTCATTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
*
84704373 TCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCTGTCGAAATGGAGATGCCAG
66 TCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCCAG
* *
84704438 ATCTATTATCTTGGATCTGTTTCGGTGTGAGAACATCCGAAAGTC
131 ATCTATTATCTTGGATCTGCTTCGGCGTGAGAACATCCGAAAGTC
*
84704483 AAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
1 AAATCTGCTATGTCTTCGATTTGTTCATTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
*
84704548 TCAGTATAAACATATGAAGGTTAGATCTGCTATGT
66 TCAGTATAAACATCTGAAGGTTAGATCTGCTATGT
84704583 GTCTGATTTG
Statistics
Matches: 258, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
174 163 0.63
175 95 0.37
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (175 bp):
AAATCTGCTATGTCTTCGATTTGTTCATTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
TCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCCAG
ATCTATTATCTTGGATCTGCTTCGGCGTGAGAACATCCGAAAGTC
Found at i:84704651 original size:93 final size:89
Alignment explanation
Indices: 84704185--84704674 Score: 297
Period size: 88 Copynumber: 5.5 Consensus size: 89
84704175 ATGCCAAATC
* * *
84704185 ATCTTGGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATTTGCTATGTATCT-A-CT-CTCC-
1 ATCTTGGATCTGCTTCAGTATAAA-CATCTGAAGGTCAGATCTGCTATGTATCTGATTTGCTCCT
* * * *
84704245 GTCGAAATGGAGATGCCAGATCTGTT
65 GTCAAAATAGAGAAGCCAAATCT-TT
* ** * * * * *
84704271 ATCTTGGATCTGCTTCGGCGTGAGAACATCCGAAAGTCAAATCTGCTATGTCT-TCGATTTGTTC
1 ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAGGTCAGATCTGCTATGTATCT-GATTTGCTC
* *
84704335 GTTGT-AAACACA-AGAATGCC-AATC---
63 -CTGTCAAA-ATAGAGAA-GCCAAATCTTT
* * *
84704359 ATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCT-A-CT-CT-CTG
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGATTTGCTCCTG
* * * *
84704420 TCGAAATGGAGATGCCAGATCTATT
66 TCAAAATAGAGAAGCCAAATCT-TT
* * * * * * * *
84704445 ATCTTGGATCTGTTTCGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCT-TCGATTTGTTC
1 ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAGGTCAGATCTGCTATGTATCT-GATTTGCTC
*
84704509 CTTGT-AAACACA-AGAATGCCAAATC---
63 C-TGTCAAA-ATAGAGAA-GCCAAATCTTT
* * *
84704534 ATCTTGGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGATTTGCTCCTC
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGATTTGCTCCT-
84704599 GTCAAAGATAGAGAAGCCAAATCTTGT
65 GTCAAA-ATAGAGAAGCCAAATCTT-T
* *
84704626 ATTCTTGGATCTGCTTCAGTGTAAACA-CGTGAAGGCCAGATCTGCTATG
1 A-TCTTGGATCTGCTTCAGTATAAACATC-TGAAGGTCAGATCTGCTATG
84704675 CTTTGGTCTG
Statistics
Matches: 299, Mismatches: 66, Indels: 71
0.69 0.15 0.16
Matches are distributed among these distances:
81 7 0.02
82 8 0.03
83 1 0.00
84 1 0.00
85 1 0.00
86 59 0.20
87 39 0.13
88 78 0.26
89 26 0.09
90 2 0.01
91 3 0.01
92 15 0.05
93 59 0.20
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (89 bp):
ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGATTTGCTCCTG
TCAAAATAGAGAAGCCAAATCTTT
Found at i:84707238 original size:25 final size:25
Alignment explanation
Indices: 84707204--84707253 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
84707194 AGCCACTCGG
84707204 AGTCCCATGATGCATGCTTCATACT
1 AGTCCCATGATGCATGCTTCATACT
84707229 AGTCCCATGATGCATGCTTCATACT
1 AGTCCCATGATGCATGCTTCATACT
84707254 CGGCCATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (25 bp):
AGTCCCATGATGCATGCTTCATACT
Found at i:84712798 original size:15 final size:15
Alignment explanation
Indices: 84712756--84712805 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
84712746 ATAACTTTGA
**
84712756 ATGCAAATG-ATCCG
1 ATGCAAATGCATGAG
84712770 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
84712785 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
84712799 ATGCAAA
1 ATGCAAA
84712806 AAGGACATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 10 0.32
16 6 0.19
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:84716426 original size:3 final size:3
Alignment explanation
Indices: 84716413--84716464 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
84716403 CAAATGTGAC
84716413 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
84716459 AAT AAT
1 AAT AAT
84716465 GTAGTAATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:84716551 original size:16 final size:18
Alignment explanation
Indices: 84716520--84716555 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
84716510 ACTAGCATTT
84716520 AATATATAGATGATATAA
1 AATATATAGATGATATAA
84716538 AATATATA-AT-ATATAA
1 AATATATAGATGATATAA
84716554 AA
1 AA
84716556 AATTTAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
AATATATAGATGATATAA
Found at i:84716709 original size:3 final size:3
Alignment explanation
Indices: 84716701--84716726 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
84716691 TGAAATATGT
84716701 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
84716727 GTAACAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:84716768 original size:6 final size:6
Alignment explanation
Indices: 84716757--84716789 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
84716747 AAAATATAAT
*
84716757 AAAATA AAAATA AAAA-A GAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
84716790 ACAGAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:84716780 original size:17 final size:17
Alignment explanation
Indices: 84716758--84716790 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
84716748 AAATATAATA
84716758 AAATAAAAATAAAAAAG
1 AAATAAAAATAAAAAAG
84716775 AAATAAAAATAAAAAA
1 AAATAAAAATAAAAAA
84716791 CAGAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (17 bp):
AAATAAAAATAAAAAAG
Found at i:84716789 original size:18 final size:18
Alignment explanation
Indices: 84716758--84716799 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
84716748 AAATATAATA
84716758 AAATAAAAATAAAAA-AG
1 AAATAAAAATAAAAACAG
84716775 AAATAAAAATAAAAAACAG
1 AAATAAAAAT-AAAAACAG
84716794 -AATAAA
1 AAATAAA
84716800 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 11 0.48
19 2 0.09
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (18 bp):
AAATAAAAATAAAAACAG
Found at i:84716800 original size:22 final size:23
Alignment explanation
Indices: 84716747--84716815 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 23
84716737 TTTTACATAT
84716747 AAAATATAAT-AAAATAAAAATAA
1 AAAATA-AATAAAAATAAAAATAA
* *
84716770 AAAAGAAATAAAAATAAAAA-AC
1 AAAATAAATAAAAATAAAAATAA
* * *
84716792 AGAATAAATATATAT-AAAATAA
1 AAAATAAATAAAAATAAAAATAA
84716814 AA
1 AA
84716816 TGTATAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
21 4 0.11
22 17 0.47
23 15 0.42
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (23 bp):
AAAATAAATAAAAATAAAAATAA
Found at i:84717616 original size:17 final size:17
Alignment explanation
Indices: 84717590--84717623 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
84717580 ATAATAAAGT
84717590 AAAGAAAAAGAA-AATA
1 AAAGAAAAAGAACAATA
84717606 AAAGTAAAAAGAACAATA
1 AAAG-AAAAAGAACAATA
84717624 GATCACCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAGAAAAAGAACAATA
Found at i:84723790 original size:43 final size:43
Alignment explanation
Indices: 84723729--84723815 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
84723719 CCTTTTTTAC
* *
84723729 AATAGTGAGGTGCGAGAGGAAAGA-GAGAGGTGGTGGGGGTTGG
1 AATAGTGAGGTACGAGAGGAAAGACGA-AGGTAGTGGGGGTTGG
*
84723772 AATAGTGAGG-ACTGAGAGGAAAGACGATGGTAGTGGGGGTTGG
1 AATAGTGAGGTAC-GAGAGGAAAGACGAAGGTAGTGGGGGTTGG
84723815 A
1 A
84723816 CACAACGGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 36 0.92
44 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.49, T:0.17
Consensus pattern (43 bp):
AATAGTGAGGTACGAGAGGAAAGACGAAGGTAGTGGGGGTTGG
Found at i:84726803 original size:50 final size:51
Alignment explanation
Indices: 84726743--84726853 Score: 179
Period size: 50 Copynumber: 2.2 Consensus size: 51
84726733 CCTAGGATGT
* *
84726743 CTTCGGCTACACTTATCTGATCAAGAACAAGTGA-AAGTGATAAGTGATAG
1 CTTCGGCTACACTTATCTGATCAAGAACAAATGATAAGTGAAAAGTGATAG
* *
84726793 CTTCGGCTACACTTATCTGATCAAGGACAAATGATAAGTGAAAAGTGGTAG
1 CTTCGGCTACACTTATCTGATCAAGAACAAATGATAAGTGAAAAGTGATAG
84726844 CTTCGGCTAC
1 CTTCGGCTAC
84726854 CTGATCAGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
50 32 0.57
51 24 0.43
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (51 bp):
CTTCGGCTACACTTATCTGATCAAGAACAAATGATAAGTGAAAAGTGATAG
Found at i:84726867 original size:31 final size:31
Alignment explanation
Indices: 84726824--84726946 Score: 210
Period size: 31 Copynumber: 4.0 Consensus size: 31
84726814 CAAGGACAAA
*
84726824 TGATAAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
84726855 TGATCAGTGAAAAGTGGTAGCTTCGGCTGCC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
84726886 TGATCAGTGAAAAATGGTAGCTTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
84726917 TGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTAC
84726947 AAGTGACAAG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 86 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:84730698 original size:17 final size:17
Alignment explanation
Indices: 84730676--84730709 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
84730666 TTAATTTAAA
84730676 TAAATAAATTTCTCAAT
1 TAAATAAATTTCTCAAT
*
84730693 TAAATAATTTTCTCAAT
1 TAAATAAATTTCTCAAT
84730710 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATAAATTTCTCAAT
Found at i:84732946 original size:25 final size:26
Alignment explanation
Indices: 84732917--84732967 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
84732907 CTTATTTCAT
*
84732917 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
84732942 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
84732968 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:84732960 original size:26 final size:24
Alignment explanation
Indices: 84732929--84732977 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
84732919 AATAAAAAAT
*
84732929 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
84732955 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
84732978 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:84732997 original size:21 final size:22
Alignment explanation
Indices: 84732964--84733006 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
84732954 ATTTAAAAAC
* *
84732964 ATAAAAACAAATATTAAGACAA
1 ATAAAAACAAATACTAAAACAA
*
84732986 ATAAAAA-TAATACTAAAACAA
1 ATAAAAACAAATACTAAAACAA
84733007 TTCTTAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAATACTAAAACAA
Found at i:84735105 original size:13 final size:13
Alignment explanation
Indices: 84735086--84735123 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
84735076 TATTCCGTTC
*
84735086 TTTCTTTGTTCTTA
1 TTTCTTTATT-TTA
84735100 -TTCTTTATTTTA
1 TTTCTTTATTTTA
84735112 TTTCTTTATTTT
1 TTTCTTTATTTT
84735124 CTTTTATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTCTTTATTTTA
Found at i:84745532 original size:18 final size:19
Alignment explanation
Indices: 84745509--84745556 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
84745499 ATGGGATATG
*
84745509 GCTTAAATGTT-ATGTTAT
1 GCTTAAATGTTCATGTGAT
84745527 GCTTAAATGTTTCATGTGAT
1 GCTTAAATG-TTCATGTGAT
*
84745547 GGTTAAATGT
1 GCTTAAATGT
84745557 GGTATATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 3 0.12
20 14 0.54
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (19 bp):
GCTTAAATGTTCATGTGAT
Found at i:84754048 original size:20 final size:20
Alignment explanation
Indices: 84754025--84754064 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
84754015 TATTAAATTT
*
84754025 ATGATTTAAGGATTAGAGAA
1 ATGAGTTAAGGATTAGAGAA
*
84754045 ATGAGTTAAGGTTTAGAGAA
1 ATGAGTTAAGGATTAGAGAA
84754065 TAAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (20 bp):
ATGAGTTAAGGATTAGAGAA
Found at i:84762553 original size:21 final size:22
Alignment explanation
Indices: 84762524--84762570 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
84762514 CAGAAGGAGT
*
84762524 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
84762546 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
84762567 GAGT
1 GAGT
84762571 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:84767881 original size:6 final size:6
Alignment explanation
Indices: 84767873--84767920 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
84767863 TGGGGGACAT
* * *
84767873 GGGCAT GGGCAC GGGCAT GGGCAT GGGCAC GGGCAC GGGCAC GGGCAC
1 GGGCAC GGGCAC GGGCAC GGGCAC GGGCAC GGGCAC GGGCAC GGGCAC
84767921 ATGATCCATC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.17, C:0.27, G:0.50, T:0.06
Consensus pattern (6 bp):
GGGCAC
Found at i:84767891 original size:18 final size:18
Alignment explanation
Indices: 84767870--84767920 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
84767860 TGGTGGGGGA
84767870 CATGGGCATGGGCACGGG
1 CATGGGCATGGGCACGGG
84767888 CATGGGCATGGGCACGGG
1 CATGGGCATGGGCACGGG
* *
84767906 CACGGGCACGGGCAC
1 CATGGGCATGGGCAC
84767921 ATGATCCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.18, C:0.27, G:0.47, T:0.08
Consensus pattern (18 bp):
CATGGGCATGGGCACGGG
Found at i:84769751 original size:18 final size:20
Alignment explanation
Indices: 84769730--84769775 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
84769720 TATGTTAGTA
84769730 TTTAATTATATAT-A-TATT
1 TTTAATTATATATAATTATT
84769748 TTTACATT-TATATAATTATT
1 TTTA-ATTATATATAATTATT
*
84769768 TTTTATTA
1 TTTAATTA
84769776 AAAAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 9 0.39
19 7 0.30
20 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATTATATATAATTATT
Found at i:84776820 original size:26 final size:26
Alignment explanation
Indices: 84776791--84776898 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84776781 TGGTACAAAT
84776791 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
84776817 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84776843 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84776869 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84776895 TGAT
1 TGAT
84776899 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84777413 original size:22 final size:22
Alignment explanation
Indices: 84777387--84777432 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
84777377 GATTGATTGG
84777387 TGATATACATGTTTAAATAACA
1 TGATATACATGTTTAAATAACA
84777409 TGATATACATGTTTAAATAACA
1 TGATATACATGTTTAAATAACA
84777431 TG
1 TG
84777433 CATGCAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (22 bp):
TGATATACATGTTTAAATAACA
Found at i:84778552 original size:27 final size:27
Alignment explanation
Indices: 84778514--84778622 Score: 152
Period size: 27 Copynumber: 4.1 Consensus size: 27
84778504 TGGAGGAAGC
84778514 GTCCTGGTGGCTATGCCACAATTATCT
1 GTCCTGGTGGCTATGCCACAATTATCT
84778541 GTCCTGGTGGCTATGCCAC-ATATATCT
1 GTCCTGGTGGCTATGCCACAAT-TATCT
* *
84778568 GTCCTGGTGGCAATGCCACGATTATCT
1 GTCCTGGTGGCTATGCCACAATTATCT
*
84778595 GAT-CTGGTGGCTCTGCCACAA-TATCT
1 G-TCCTGGTGGCTATGCCACAATTATCT
84778621 GT
1 GT
84778623 ATCTGGTGAC
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
25 1 0.01
26 8 0.11
27 63 0.84
28 3 0.04
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (27 bp):
GTCCTGGTGGCTATGCCACAATTATCT
Found at i:84778630 original size:54 final size:54
Alignment explanation
Indices: 84778514--84778622 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 54
84778504 TGGAGGAAGC
*
84778514 GTCCTGGTGGCTATGCCACAATTATCTGTCCTGGTGGCTATGCCACATATATCT
1 GTCCTGGTGGCAATGCCACAATTATCTGTCCTGGTGGCTATGCCACATATATCT
* *
84778568 GTCCTGGTGGCAATGCCACGATTATCTGAT-CTGGTGGCTCTGCCACA-ATATCT
1 GTCCTGGTGGCAATGCCACAATTATCTG-TCCTGGTGGCTATGCCACATATATCT
84778621 GT
1 GT
84778623 ATCTGGTGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
53 8 0.16
54 42 0.82
55 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (54 bp):
GTCCTGGTGGCAATGCCACAATTATCTGTCCTGGTGGCTATGCCACATATATCT
Found at i:84781539 original size:43 final size:42
Alignment explanation
Indices: 84781490--84781637 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 42
84781480 CATCGAGATG
*
84781490 TGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-ATT-A
* *
84781534 -GATTACGTGTAAGACCGTGTCTGGGACATTGGCA-TGATTAA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATT-A
* * * * * *
84781575 TCGATTTCGTGTAAGACCCTGTCTGGGTCAATGGCATCGATATA
1 T-GATTACATGTAAGACCATGTCTGGGACATTGGCATTGAT-TA
84781619 TGATTACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
84781638 ATTTGGGATA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 4 0.05
42 2 0.02
43 76 0.86
44 5 0.06
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATTA
Found at i:84788335 original size:25 final size:24
Alignment explanation
Indices: 84788286--84788346 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
84788276 CGTTATCTTT
*
84788286 TTATTTTTAT-TTTTATTATTATA
1 TTATTGTTATATTTTATTATTATA
84788309 TTATTGTTACTATTTT-TTATTACTA
1 TTATTGTTA-TATTTTATTATTA-TA
84788334 TTATTGTTATATT
1 TTATTGTTATATT
84788347 ATCGTTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 8 0.24
24 11 0.32
25 15 0.44
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (24 bp):
TTATTGTTATATTTTATTATTATA
Found at i:84788392 original size:3 final size:3
Alignment explanation
Indices: 84788120--84788373 Score: 100
Period size: 3 Copynumber: 87.0 Consensus size: 3
84788110 TATTATTCAA
* ** *
84788120 ATT ATT ACT ATT ATT ATT ATT ATT CCT ATGT -GT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT
* * *
84788166 A-T ATG ATT GTT ATT -TCT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
84788210 ATG AAT A-T ATC AGT ATT ATT AAT A-T ATT GTT ATT ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
84788256 GTC AGT GTC AGT ATT ATT -TT CGTT ATCT -TT -TT ATT TTT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT ATT ATT ATT
* * * *
84788300 ATT ATT A-T ATT ATT GTT ACT ATT -TT -TT ATT ACT ATT ATT GTT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
84788344 ATT ATC GTT ATT ATT CTT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
84788374 GTTAATGCAA
Statistics
Matches: 177, Mismatches: 59, Indels: 30
0.67 0.22 0.11
Matches are distributed among these distances:
2 21 0.12
3 149 0.84
4 7 0.04
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:84788689 original size:17 final size:18
Alignment explanation
Indices: 84788659--84788695 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
84788649 GTATTTCTAG
84788659 TACTATATTACA-TTTAT
1 TACTATATTACATTTTAT
84788676 TACT-TATTAGCATTTTAT
1 TACTATATTA-CATTTTAT
84788694 TA
1 TA
84788696 TTACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 6 0.33
18 7 0.39
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (18 bp):
TACTATATTACATTTTAT
Found at i:84790396 original size:43 final size:43
Alignment explanation
Indices: 84790299--84790412 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
84790289 ATCGAGATGT
** * *
84790299 GATTACATAAAAGACCATGTCTGGGACATTGGCATTATATTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATTATAATGA
*
84790342 GATTACATGTAAGACCATGTCTAGGACATTGGCATTATTAAT-C
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATTA-TAATGA
* * *
84790385 GATTTCGTGTAAGACCCTGTCTAGGACA
1 GATTACATGTAAGACCATGTCTAGGACA
84790413 GTGACATCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 59 0.95
44 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATTATAATGA
Found at i:84791444 original size:13 final size:15
Alignment explanation
Indices: 84791409--84791442 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
84791399 GCCGTGTGCG
84791409 ACACACGGTCATGTT
1 ACACACGGTCATGTT
*
84791424 ACACACGGTCATTTT
1 ACACACGGTCATGTT
84791439 ACAC
1 ACAC
84791443 GGCCGTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (15 bp):
ACACACGGTCATGTT
Found at i:84799151 original size:100 final size:100
Alignment explanation
Indices: 84798976--84799160 Score: 307
Period size: 100 Copynumber: 1.9 Consensus size: 100
84798966 ATTATTATTG
* * *
84798976 CTTAAGAATACATCGAACCTTTTGACGCGAAGAGAGATGACAACCAAGTACCCCACCCCGGTTAC
1 CTTAAGAACACATCGAACCTTTTGACACGAAGAGAGATGACAACCAAGCACCCCACCCCGGTTAC
* *
84799041 TTAGCTCAACATACTCCTAATTTATTTATATTTTT
66 TTAACCCAACATACTCCTAATTTATTTATATTTTT
* *
84799076 CTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTAC
1 CTTAAGAACACATCGAACCTTTTGACACGAAGAGAGATGACAACCAAGCACCCCACCCCGGTTAC
84799141 TTAACCCAACATACTCCTAA
66 TTAACCCAACATACTCCTAA
84799161 AAAATTTATT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (100 bp):
CTTAAGAACACATCGAACCTTTTGACACGAAGAGAGATGACAACCAAGCACCCCACCCCGGTTAC
TTAACCCAACATACTCCTAATTTATTTATATTTTT
Found at i:84800191 original size:12 final size:11
Alignment explanation
Indices: 84800183--84800243 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
84800173 AAAATAAAGT
84800183 AATAAATAATAA
1 AATAAATAAT-A
84800195 AATAAAATAATA
1 AAT-AAATAATA
*
84800207 AAT-ACTAATAA
1 AATAAATAAT-A
*
84800218 AATGAAATAAAA
1 AAT-AAATAATA
84800230 TAATAAATAATA
1 -AATAAATAATA
84800242 AA
1 AA
84800244 AATTAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.12
11 6 0.15
12 15 0.38
13 14 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAAATAATA
Found at i:84800204 original size:13 final size:13
Alignment explanation
Indices: 84800186--84800236 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
84800176 ATAAAGTAAT
84800186 AAATAATAAAATA
1 AAATAATAAAATA
84800199 AAATAATAAATACTA
1 AAATAATAAA-A-TA
*
84800214 ATAA-AATGAAATA
1 A-AATAATAAAATA
84800227 AAATAATAAA
1 AAATAATAAA
84800237 TAATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 2 0.06
13 18 0.56
14 2 0.06
15 8 0.25
16 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:84800219 original size:23 final size:20
Alignment explanation
Indices: 84800173--84800236 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
84800163 TCAATATCCA
*
84800173 AAAATAAAGTAATAAATAAT
1 AAAATAAAATAATAAATAAT
*
84800193 AAAATAAAATAATAAATACT
1 AAAATAAAATAATAAATAAT
84800213 --AATAAAATGAAATAAAATAAT
1 AAAATAAAAT--AAT-AAATAAT
84800234 AAA
1 AAA
84800237 TAATAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 8 0.22
20 21 0.58
21 6 0.17
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATAAAATAATAAATAAT
Found at i:84800241 original size:10 final size:10
Alignment explanation
Indices: 84800182--84800246 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
84800172 AAAAATAAAG
84800182 TAATAAATAA
1 TAATAAATAA
*
84800192 TAA-AATAAAA
1 TAATAA-ATAA
*
84800202 TAATAAATAC
1 TAATAAATAA
*
84800212 TAATAAAATGA
1 TAAT-AAATAA
84800223 -AAT-AA-AA
1 TAATAAATAA
84800230 TAATAAATAA
1 TAATAAATAA
84800240 TAA-AAAT
1 TAATAAAT
84800247 TAAGAAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
9 8 0.19
10 23 0.53
11 6 0.14
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
TAATAAATAA
Found at i:84800254 original size:25 final size:26
Alignment explanation
Indices: 84800175--84800268 Score: 75
Period size: 28 Copynumber: 3.5 Consensus size: 26
84800165 AATATCCAAA
* *
84800175 AATAAAGTAATAAATAATAAAATAAAAT
1 AATAAA-TAATAAA-AATGAAAGAAAAT
* *
84800203 AATAAATACTAATAAAATGAAATAAAAT
1 AATAAATAAT-A-AAAATGAAAGAAAAT
*
84800231 AATAAATAATAAAAAT-TAAGAAAAGT
1 AATAAATAATAAAAATGAAAGAAAA-T
*
84800257 AA-AAAAAATAAA
1 AATAAATAATAAA
84800269 TGTTGGGTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
25 15 0.26
26 8 0.14
27 4 0.07
28 28 0.49
29 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (26 bp):
AATAAATAATAAAAATGAAAGAAAAT
Found at i:84800265 original size:35 final size:35
Alignment explanation
Indices: 84800199--84800267 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
84800189 TAATAAAATA
* * *
84800199 AAATAATAAATACTAATAAAATGAAATAAAATAAT
1 AAATAATAAAAACTAAGAAAATGAAAAAAAATAAT
*
84800234 AAATAATAAAAATTAAGAAAA-GTAAAAAAAATAA
1 AAATAATAAAAACTAAGAAAATG-AAAAAAAATAA
84800268 ATGTTGGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (35 bp):
AAATAATAAAAACTAAGAAAATGAAAAAAAATAAT
Found at i:84806767 original size:48 final size:47
Alignment explanation
Indices: 84806708--84806981 Score: 180
Period size: 48 Copynumber: 5.7 Consensus size: 47
84806698 ATTTCGAGGC
* * *
84806708 CGATGCAATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGT
* * * *
84806756 CAATGCCATGTCCTAGAAATGGTCTTACGAC-GGCTCTC-AT-AAGGTGGT
1 CGATGCCATGTCCCAGACATGGTCTTAC-ACTAGCTCTCTATCAA--T-GT
* * * * * *
84806804 CGATGCCATGCCCCAGACATAGTCTTACTCTAGCGCACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGT
* * * *
84806852 CGATACCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACTACATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTA-T-CAATGT
* * * * * *
84806900 CGATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATATC-GTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGT
* * * *
84806947 CTGATGCCATATTCCAAACATAGTCTTACACTAGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGC
84806982 ACACATATCA
Statistics
Matches: 178, Mismatches: 35, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
45 2 0.01
46 2 0.01
47 6 0.03
48 159 0.89
49 4 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAATGT
Found at i:84806941 original size:96 final size:95
Alignment explanation
Indices: 84806678--84806942 Score: 250
Period size: 96 Copynumber: 2.8 Consensus size: 95
84806668 TGTTCTAAAT
* * * *
84806678 ATGGTCTTACACTGGCTCACATTTCGA-GGCCGATGCAATGTCCCAGACATGGTCTTACACTAGC
1 ATGGTCTTACACTGGCTCTCA-TAC-ATGGCCGATGCCATGTCCCAGACATGGTCTTACATTAGC
* * * * *
84806742 TCTCGTCTCAATATCAATGCCATGTCCTAGAA
64 TCTCATATCAATACCAATACCATGTCCCAGAA
* * *
84806774 ATGGTCTTACGAC-GGCTCTCATA-AGGTGGTCGATGCCATGCCCCAGACATAGTCTTAC-TCTA
1 ATGGTCTTAC-ACTGGCTCTCATACA--TGGCCGATGCCATGTCCCAGACATGGTCTTACAT-TA
* * * * *
84806836 GCGCACATATCAATGCCGATACCATGTCCCAGAC
62 GCTCTCATATCAATACCAATACCATGTCCCAGAA
* * * *
84806870 ATGGTCTTACACTGGCTCTCACTACATTGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCT
1 ATGGTCTTACACTGGCTCTCA-TACATGGCCGATGCCATGTCCCAGACATGGTCTTACATTAGCT
84806935 CTCATATC
65 CTCATATC
84806943 GTGGCTGATG
Statistics
Matches: 134, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
93 1 0.01
95 3 0.02
96 124 0.93
97 5 0.04
98 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
ATGGTCTTACACTGGCTCTCATACATGGCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTC
TCATATCAATACCAATACCATGTCCCAGAA
Found at i:84806953 original size:144 final size:144
Alignment explanation
Indices: 84806681--84806991 Score: 344
Period size: 144 Copynumber: 2.2 Consensus size: 144
84806671 TCTAAATATG
* * * * * *
84806681 GTCTTACACTGGCTCACATTTCGAGGCCGATGCAATGTCCCAGACATGGTCTTACACTAGCTCTC
1 GTCTTACACTAGCACACATATCAATGCCGATACAATGTCCCAGACATGGTCTTACACTAGCTCTC
* * *
84806746 GTCTCAATATCAATGCCATGTCCTAGAAATGGTCTTACGACGGCTCTCATAAGGTGGTCGATGCC
66 GACTCAATACCAATGCCATGTCCTAGAAATGGTCTTACGACGGCTCTCATAACGTGGTCGATGCC
* *
84806811 ATGCCCCAGACATA
131 ATACCCCAAACATA
* * * *
84806825 GTCTTACTCTAGCGCACATATCAATGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTC
1 GTCTTACACTAGCACACATATCAATGCCGATACAATGTCCCAGACATGGTCTTACACTAGCTCTC
* * * * *
84806890 -ACTACATTGCCGATGCCATGTTCC-A-AACATGGTCTTAC-ATTGGCTCTCATATCGTGG-CTG
66 GACT-CAATACCAATGCCATG-TCCTAGAA-ATGGTCTTACGA-CGGCTCTCATAACGTGGTC-G
**
84806950 ATGCCATATTCCAAACATA
126 ATGCCATACCCCAAACATA
84806969 GTCTTACACTAGCACACATATCA
1 GTCTTACACTAGCACACATATCA
84806992 CCCAAATGTC
Statistics
Matches: 139, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
143 6 0.04
144 130 0.94
145 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (144 bp):
GTCTTACACTAGCACACATATCAATGCCGATACAATGTCCCAGACATGGTCTTACACTAGCTCTC
GACTCAATACCAATGCCATGTCCTAGAAATGGTCTTACGACGGCTCTCATAACGTGGTCGATGCC
ATACCCCAAACATA
Found at i:84807696 original size:53 final size:53
Alignment explanation
Indices: 84807633--84807743 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 53
84807623 CATAAAATAA
84807633 TACTAAGAATAATTTCTCCGACCTCGAGTTAGTGGTTCTAAAACCACTGTTCC
1 TACTAAGAATAATTTCTCCGACCTCGAGTTAGTGGTTCTAAAACCACTGTTCC
* *
84807686 TACTAAGAATAATTTCTTCGACCTCGAGTTAGTGGTTCTGAAACCACTGTTCC
1 TACTAAGAATAATTTCTCCGACCTCGAGTTAGTGGTTCTAAAACCACTGTTCC
84807739 TACTA
1 TACTA
84807744 GGCCCAAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (53 bp):
TACTAAGAATAATTTCTCCGACCTCGAGTTAGTGGTTCTAAAACCACTGTTCC
Found at i:84808904 original size:10 final size:10
Alignment explanation
Indices: 84808879--84808917 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
84808869 TTTTATATTT
84808879 TTTTTTATGAA
1 TTTTTTAT-AA
*
84808890 ATTTTTATAA
1 TTTTTTATAA
*
84808900 TTTTTAATAA
1 TTTTTTATAA
84808910 TTTTTTAT
1 TTTTTTAT
84808918 GGTTTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:84809204 original size:7 final size:6
Alignment explanation
Indices: 84809169--84809229 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
84809159 CTTTTATACT
* * *
84809169 ATTAAA CTTAAA ATT-AA ATCTAAA ATTAAA ATTTAAA ACTAAT ATCTAAA
1 ATTAAA ATTAAA ATTAAA AT-TAAA ATTAAA A-TTAAA ATTAAA AT-TAAA
*
84809219 ATTAAA TTTAA
1 ATTAAA ATTAA
84809230 GTTTTCAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
5 4 0.09
6 25 0.57
7 15 0.34
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (6 bp):
ATTAAA
Found at i:84809206 original size:25 final size:25
Alignment explanation
Indices: 84809169--84809229 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
84809159 CTTTTATACT
* *
84809169 ATTAAACTTAAAATTAA-ATCTAAA
1 ATTAAATTTAAAACTAATATCTAAA
84809193 ATTAAAATTTAAAACTAATATCTAAA
1 ATT-AAATTTAAAACTAATATCTAAA
84809219 ATTAAATTTAA
1 ATTAAATTTAA
84809230 GTTTTCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 3 0.09
25 20 0.61
26 10 0.30
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTAAATTTAAAACTAATATCTAAA
Found at i:84809223 original size:19 final size:18
Alignment explanation
Indices: 84809171--84809224 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
84809161 TTTATACTAT
* *
84809171 TAAACTTAAAATTAAATC
1 TAAAATTAAAATTAAAAC
84809189 TAAAATTAAAATTTAAAAC
1 TAAAATTAAAA-TTAAAAC
*
84809208 TAATATCTAAAATTAAA
1 TAAAAT-TAAAATTAAA
84809225 TTTAAGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.32
19 16 0.52
20 5 0.16
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATTAAAATTAAAAC
Found at i:84815300 original size:13 final size:13
Alignment explanation
Indices: 84815280--84815313 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84815270 AATAAATACT
*
84815280 AATTAATTAATTA
1 AATTAATTAACTA
*
84815293 ATTTAATTAACTA
1 AATTAATTAACTA
84815306 AATTAATT
1 AATTAATT
84815314 TCTTAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTAATTAACTA
Found at i:84819399 original size:35 final size:35
Alignment explanation
Indices: 84819337--84819503 Score: 176
Period size: 35 Copynumber: 4.8 Consensus size: 35
84819327 TTTCCTTATT
* * * *
84819337 GAAATACCATGCCTACATTTTACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
** **
84819372 GAAATGTCATACCTACGTTTCTTAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
*
84819406 GATAATACCATACCTACGCTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
** * *
84819442 TTAATACCATACCTACGTTTCACAATTTAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
*
84819476 GATGATACCATACCTACGTTTCACAACT
1 GA-AATACCATACCTACGTTTCACAACT
84819504 TTGCCATGGA
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
34 4 0.04
35 102 0.95
36 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATGG
Found at i:84832680 original size:13 final size:13
Alignment explanation
Indices: 84832662--84832692 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
84832652 CAATATATTT
84832662 ATTAATTAAAAAC
1 ATTAATTAAAAAC
*
84832675 ATTAATTAAAAAT
1 ATTAATTAAAAAC
84832688 ATTAA
1 ATTAA
84832693 AAAAAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:84835513 original size:23 final size:21
Alignment explanation
Indices: 84835454--84835513 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 21
84835444 GATTATTTTT
*
84835454 ATATAAAAATAAATTTTAAAA
1 ATATAAAAATAAATTCTAAAA
84835475 ATATAATAAATCAAATATACTAAAA
1 ATATAA-AAAT-AAAT-T-CTAAAA
*
84835500 ATATTAAAATAAAT
1 ATATAAAAATAAAT
84835514 GCTTCTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 6 0.18
22 4 0.12
23 8 0.24
24 5 0.15
25 10 0.30
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (21 bp):
ATATAAAAATAAATTCTAAAA
Found at i:84835705 original size:22 final size:22
Alignment explanation
Indices: 84835652--84835708 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
84835642 ATATCCAAAC
*
84835652 AATAACAACAAAATAGTAGCAA
1 AATAACAACGAAATAGTAGCAA
* * *
84835674 TATAATAACGAAATTGTAGCAA
1 AATAACAACGAAATAGTAGCAA
84835696 AATAACAACGAAA
1 AATAACAACGAAA
84835709 CAACAACAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.60, C:0.12, G:0.11, T:0.18
Consensus pattern (22 bp):
AATAACAACGAAATAGTAGCAA
Found at i:84836292 original size:35 final size:35
Alignment explanation
Indices: 84836253--84836334 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 35
84836243 TTTTTCAAAA
* *
84836253 AATATAATAATAAATTTAAA-TTTTATATTAATATT
1 AATATAA-AATAAATATAAACATTTATATTAATATT
*
84836288 AATATCAAATAAATATAAACATTTATATTAATATT
1 AATATAAAATAAATATAAACATTTATATTAATATT
84836323 AA-ATAAAATAAA
1 AATATAAAATAAA
84836335 AACCTCCCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 20 0.48
35 22 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (35 bp):
AATATAAAATAAATATAAACATTTATATTAATATT
Found at i:84836534 original size:25 final size:25
Alignment explanation
Indices: 84836481--84836527 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
84836471 GAGGAGATTT
84836481 TTAT-TTTATTTAATATTAATATAA
1 TTATATTTATTTAATATTAATATAA
84836505 TTATATTTATTTAATATTAATAT
1 TTATATTTATTTAATATTAATAT
84836528 TAATATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTATATTTATTTAATATTAATATAA
Found at i:84838279 original size:32 final size:32
Alignment explanation
Indices: 84838243--84838315 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
84838233 GAAATAAAGC
84838243 TCCTAAAAACAAAATCAGGAAACCTAAACAGA
1 TCCTAAAAACAAAATCAGGAAACCTAAACAGA
* *
84838275 TCCTAAAAACAAAATTAGGAAATCTAAACAGA
1 TCCTAAAAACAAAATCAGGAAACCTAAACAGA
84838307 -CCTTAAAAA
1 TCC-TAAAAA
84838316 ATCAACAGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 2 0.05
32 36 0.95
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.16
Consensus pattern (32 bp):
TCCTAAAAACAAAATCAGGAAACCTAAACAGA
Found at i:84841971 original size:30 final size:30
Alignment explanation
Indices: 84841937--84841998 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
84841927 ATCCGACAAG
84841937 TAAGATTAAACAAGATAGTAATTTAATATT
1 TAAGATTAAACAAGATAGTAATTTAATATT
84841967 TAAGATTAAACAAGATAGTAATTTAATATT
1 TAAGATTAAACAAGATAGTAATTTAATATT
84841997 TA
1 TA
84841999 TGAGTCAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (30 bp):
TAAGATTAAACAAGATAGTAATTTAATATT
Found at i:84843303 original size:40 final size:37
Alignment explanation
Indices: 84843237--84843371 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 37
84843227 TATGGAAAAG
* *
84843237 TGTGAAACGCAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
84843272 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * * ** *
84843312 TAAGAAACGTAGATATGACATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
* *
84843347 TGTAAAATGTAGGTATGGTACTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
84843372 ATGAGGAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 11
0.73 0.16 0.10
Matches are distributed among these distances:
35 44 0.57
38 2 0.03
39 2 0.03
40 29 0.38
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:84847717 original size:13 final size:13
Alignment explanation
Indices: 84847701--84847726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84847691 ATGATACATA
84847701 AATTAAAATTAAG
1 AATTAAAATTAAG
84847714 AATTAAAATTAAG
1 AATTAAAATTAAG
84847727 TCATTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AATTAAAATTAAG
Found at i:84848917 original size:18 final size:16
Alignment explanation
Indices: 84848894--84848955 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
84848884 TCAGTAGCAT
84848894 TCAGTTACTCTATAACAG
1 TCAGTTA-TC-ATAACAG
84848912 TCAGTTATACAATAACAG
1 TCAGTTAT-C-ATAACAG
*
84848930 TCATTTATTCAGTAACAG
1 TCAGTTA-TCA-TAACAG
*
84848948 TCAATTAT
1 TCAGTTAT
84848956 TCCGTAGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 34 0.89
19 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (16 bp):
TCAGTTATCATAACAG
Found at i:84848956 original size:18 final size:18
Alignment explanation
Indices: 84848905--84848957 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
84848895 CAGTTACTCT
* *
84848905 ATAACAGTCAGTTATACA
1 ATAACAGTCAATTATTCA
*
84848923 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
84848941 GTAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
84848958 CGTAGCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:84849114 original size:6 final size:6
Alignment explanation
Indices: 84849099--84849138 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
84849089 CACCGCAACG
*
84849099 GTAA-A GTAACA GTAACA GTAACA GTAACA GTCACA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
84849139 GGTACACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:84850527 original size:24 final size:25
Alignment explanation
Indices: 84850493--84850539 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
84850483 ACATACATGT
84850493 ATTACAAATGT-ATGTATTTTATTA
1 ATTACAAATGTCATGTATTTTATTA
* *
84850517 ATTACACATGTCATTTATTTTAT
1 ATTACAAATGTCATGTATTTTAT
84850540 CACACACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (25 bp):
ATTACAAATGTCATGTATTTTATTA
Found at i:84852841 original size:33 final size:33
Alignment explanation
Indices: 84852804--84852900 Score: 79
Period size: 33 Copynumber: 3.2 Consensus size: 33
84852794 GAAAATATAA
84852804 TAAAAAGTGGTTATATTAAAATTTTAAAATGAT
1 TAAAAAGTGGTTATATTAAAATTTTAAAATGAT
* * *
84852837 T-AAAA-----TACA--CAAA-TTGAAAAT-AT
1 TAAAAAGTGGTTATATTAAAATTTTAAAATGAT
84852860 AATAAAAAGTGGTTATATTAAAATTTTAAAATGAT
1 --TAAAAAGTGGTTATATTAAAATTTTAAAATGAT
84852895 TAAAAA
1 TAAAAA
84852901 TAAAATAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 24
0.61 0.08 0.32
Matches are distributed among these distances:
23 2 0.04
24 7 0.15
25 4 0.09
26 4 0.09
27 3 0.07
31 3 0.07
32 4 0.09
33 10 0.22
34 7 0.15
35 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (33 bp):
TAAAAAGTGGTTATATTAAAATTTTAAAATGAT
Found at i:84852851 original size:58 final size:58
Alignment explanation
Indices: 84852782--84852899 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
84852772 TTCTTAAAAC
84852782 AATACACAAATTGAAAATATAATAAAAAGTGGTTATATTAAAATTTTAAAATGATTAA
1 AATACACAAATTGAAAATATAATAAAAAGTGGTTATATTAAAATTTTAAAATGATTAA
84852840 AATACACAAATTGAAAATATAATAAAAAGTGGTTATATTAAAATTTTAAAATGATTAA
1 AATACACAAATTGAAAATATAATAAAAAGTGGTTATATTAAAATTTTAAAATGATTAA
84852898 AA
1 AA
84852900 ATAAAATAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (58 bp):
AATACACAAATTGAAAATATAATAAAAAGTGGTTATATTAAAATTTTAAAATGATTAA
Done.