Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 25 of 45
Found at i:4495394 original size:23 final size:23
Alignment explanation
Indices: 4495367--4495423 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
4495357 TATGTTTAAA
*
4495367 AATATTAAAATATTTTTTTAATT
1 AATATTAAAATATTTTTATAATT
* *
4495390 AATATTGATATATTTTTATAATT
1 AATATTAAAATATTTTTATAATT
*
4495413 AA-ATTTAAATA
1 AATATTAAAATA
4495424 AATAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATTAAAATATTTTTATAATT
Found at i:4496607 original size:50 final size:49
Alignment explanation
Indices: 4496522--4496620 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 49
4496512 TGATTACTAG
*
4496522 TATTATTTTTATAATTGTTTTATGATTTTTATTAATT-TCTAAACTTATA
1 TATTATTATTATAATTGTTTTATGATTTTTATTAATTATCT-AACTTATA
* *
4496571 TATTATTATTATTATTGTTTTTATGATTTTTGTTAATTATCTAACTTATA
1 TATTATTATTATAATTG-TTTTATGATTTTTATTAATTATCTAACTTATA
4496621 CTAGAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 15 0.33
50 27 0.60
51 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (49 bp):
TATTATTATTATAATTGTTTTATGATTTTTATTAATTATCTAACTTATA
Found at i:4497522 original size:8 final size:7
Alignment explanation
Indices: 4497493--4497530 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
4497483 ACTAATTGAA
4497493 TTAAATT
1 TTAAATT
4497500 TTAAATT
1 TTAAATT
4497507 TTAAATT
1 TTAAATT
4497514 TTAAAATTT
1 TT-AAA-TT
4497523 TTAAATT
1 TTAAATT
4497530 T
1 T
4497531 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 19 0.66
8 6 0.21
9 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTAAATT
Found at i:4497522 original size:15 final size:16
Alignment explanation
Indices: 4497493--4497534 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
4497483 ACTAATTGAA
4497493 TTAAATTTT-AAA-TT
1 TTAAATTTTAAAATTT
4497507 TTAAATTTTAAAATTT
1 TTAAATTTTAAAATTT
4497523 TTAAA-TTTAAAA
1 TTAAATTTTAAAA
4497535 AATAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.35
15 10 0.38
16 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAATTTTAAAATTT
Found at i:4497554 original size:24 final size:24
Alignment explanation
Indices: 4497522--4497573 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4497512 TTTTAAAATT
*
4497522 TTTAAATTTAAA-AAATAAATTTAA
1 TTTAAATTTAAATAAATAAA-CTAA
4497546 TTTAAATTTAAATAAATAAACTAA
1 TTTAAATTTAAATAAATAAACTAA
4497570 TTTA
1 TTTA
4497574 TAAATAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTAAATTTAAATAAATAAACTAA
Found at i:4497847 original size:3 final size:3
Alignment explanation
Indices: 4497839--4497900 Score: 79
Period size: 3 Copynumber: 19.7 Consensus size: 3
4497829 GGGCATAGTT
*
4497839 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTG TTCA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A T-TA TTA
*
4497887 TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TT
4497901 TCGCTTGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
3 46 0.88
4 5 0.10
5 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4498839 original size:21 final size:21
Alignment explanation
Indices: 4498815--4498854 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4498805 TCCAGCCAAT
4498815 AATGCATTGTTTCATCTAACC
1 AATGCATTGTTTCATCTAACC
* *
4498836 AATGCATTTTTTTATCTAA
1 AATGCATTGTTTCATCTAA
4498855 ATGTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.45
Consensus pattern (21 bp):
AATGCATTGTTTCATCTAACC
Found at i:4503374 original size:23 final size:23
Alignment explanation
Indices: 4503319--4503375 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
4503309 AAAATAATTT
4503319 TTTTAAAT-TTAATTATAAAATA
1 TTTTAAATATTAATTATAAAATA
* *
4503341 TATATAAATATTAA-TATAATATA
1 T-TTTAAATATTAATTATAAAATA
4503364 TTTTAATATATT
1 TTTTAA-ATATT
4503376 TTAAATTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 5 0.17
23 20 0.69
24 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTAAATATTAATTATAAAATA
Found at i:4504381 original size:46 final size:46
Alignment explanation
Indices: 4504324--4504426 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 46
4504314 TACAAGTAAT
* **** *
4504324 TTGTAATTTTTGCATAGG-TAAAGTTACAATTTTTTTCACAAACAAC
1 TTGTAAATTTTGCAT-GGATAAAGTTACAAACCCTTTAACAAACAAC
*
4504370 TTGTAACTTTTGCATGGATAAAGTTACAAACCCTTTAACAAACAAC
1 TTGTAAATTTTGCATGGATAAAGTTACAAACCCTTTAACAAACAAC
4504416 TTGTAAATTTT
1 TTGTAAATTTT
4504427 TTACAAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
45 2 0.04
46 47 0.96
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (46 bp):
TTGTAAATTTTGCATGGATAAAGTTACAAACCCTTTAACAAACAAC
Found at i:4506452 original size:83 final size:83
Alignment explanation
Indices: 4506310--4506472 Score: 308
Period size: 83 Copynumber: 2.0 Consensus size: 83
4506300 AATTGAAGAA
*
4506310 TGGTGTTTTGGATCAAATGATAATTGGTGTGTGGTAAGGGATTTTACATTGCCATGTGTAGGAAA
1 TGGTGTTTTGGATCAAATGATAATTGGTGTGTGGTAAGGGATTTTACATTGCCAGGTGTAGGAAA
*
4506375 AATCTGATCAAATGGTTT
66 AAACTGATCAAATGGTTT
4506393 TGGTGTTTTGGATCAAATGATAATTGGTGTGTGGTAAGGGATTTTACATTGCCAGGTGTAGGAAA
1 TGGTGTTTTGGATCAAATGATAATTGGTGTGTGGTAAGGGATTTTACATTGCCAGGTGTAGGAAA
4506458 AAACTGATCAAATGG
66 AAACTGATCAAATGG
4506473 CTTAAATTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.35
Consensus pattern (83 bp):
TGGTGTTTTGGATCAAATGATAATTGGTGTGTGGTAAGGGATTTTACATTGCCAGGTGTAGGAAA
AAACTGATCAAATGGTTT
Found at i:4512081 original size:148 final size:148
Alignment explanation
Indices: 4511800--4512085 Score: 369
Period size: 148 Copynumber: 1.9 Consensus size: 148
4511790 CGCTAAGTTG
* * * *
4511800 TTGATACAATTATGTGGATACCTGTCTATGTAGCGATGTAGACTATAAAACCAAAGATGATTCTT
1 TTGATACAACTATGTGGATACATGTCTATGTAGCGATGAAGACTACAAAACCAAAGATGATTCTT
* * * * * * * *
4511865 TAGTTAAGAAGTTTGCAAGATGAAAGGAAGGTTAGATGGTACCAGAGTATTATATTCCTGGACGC
66 CAATTAAGAAGTCTGCAAGACGAAAGGAAGGTTAGAGGGCACCAGAGTATTATATTCCAGGACAC
4511930 ACTTCAATGCTTAACTTA
131 ACTTCAATGCTTAACTTA
* * * *
4511948 TTGATACAACTATGTGGATACATGTCTATGTAGCTATGCAAG-CTGCAAAACTAAGGATGATTCT
1 TTGATACAACTATGTGGATACATGTCTATGTAGCGATG-AAGACTACAAAACCAAAGATGATTCT
* * *
4512012 TCAATTAAGAAGTCTGTAAGACGAAAGGAAGGTTAGAGGGCACTAGAGTATTGTACTT-CAGGAC
65 TCAATTAAGAAGTCTGCAAGACGAAAGGAAGGTTAGAGGGCACCAGAGTATTATA-TTCCAGGAC
4512076 ACACTTCAAT
129 ACACTTCAAT
4512086 ACATAAGTCA
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
148 113 0.97
149 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (148 bp):
TTGATACAACTATGTGGATACATGTCTATGTAGCGATGAAGACTACAAAACCAAAGATGATTCTT
CAATTAAGAAGTCTGCAAGACGAAAGGAAGGTTAGAGGGCACCAGAGTATTATATTCCAGGACAC
ACTTCAATGCTTAACTTA
Found at i:4512878 original size:16 final size:16
Alignment explanation
Indices: 4512857--4512919 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
4512847 TGTAATAGTA
*
4512857 ATTTTAGATTTAAATT
1 ATTTTAAATTTAAATT
4512873 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
* *
4512889 ATTTTAAATTTGAATA
1 ATTTTAAATTTAAATT
4512905 ATTTTAAATTTAAAT
1 ATTTTAAATTTAAAT
4512920 ATGATGAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:4512919 original size:22 final size:21
Alignment explanation
Indices: 4512891--4512963 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
4512881 TTTAAATTAT
4512891 TTTAAATTTGAATAATTTTAAA
1 TTTAAATTTGAATAA-TTTAAA
* *
4512913 TTTAAATATG-ATGAATTTAAG
1 TTTAAATTTGAAT-AATTTAAA
* *
4512934 TTGTTAA-TTGAATAAGTTAAAA
1 TT-TAAATTTGAATAA-TTTAAA
4512956 TTTAAATT
1 TTTAAATT
4512964 AATAAAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.47
Consensus pattern (21 bp):
TTTAAATTTGAATAATTTAAA
Found at i:4512920 original size:16 final size:16
Alignment explanation
Indices: 4512841--4512920 Score: 97
Period size: 16 Copynumber: 4.8 Consensus size: 16
4512831 GTTTATTTTA
4512841 TTAAATTGTAATAGTAATT
1 TTAAATT-TAA-A-TAATT
* *
4512860 TTAGATTTAAATTATT
1 TTAAATTTAAATAATT
*
4512876 TTAAATTTAAATTATT
1 TTAAATTTAAATAATT
*
4512892 TTAAATTTGAATAATT
1 TTAAATTTAAATAATT
4512908 TTAAATTTAAATA
1 TTAAATTTAAATA
4512921 TGATGAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
16 45 0.82
17 1 0.02
18 3 0.05
19 6 0.11
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTAAATTTAAATAATT
Found at i:4512988 original size:43 final size:43
Alignment explanation
Indices: 4512898--4512988 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
4512888 TATTTTAAAT
* * * * *
4512898 TTGAATAATTTTAAATTTAAATATGATGAATTTAAGTTGTTAA
1 TTGAATAAGTTAAAATTTAAATATAATAAAATTAAGTTGTTAA
* *
4512941 TTGAATAAGTTAAAATTTAAAT-TAATAAAATTAATTTTTTAA
1 TTGAATAAGTTAAAATTTAAATATAATAAAATTAAGTTGTTAA
4512983 GTTGAA
1 -TTGAA
4512989 GTCAAATCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 15 0.38
43 25 0.62
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (43 bp):
TTGAATAAGTTAAAATTTAAATATAATAAAATTAAGTTGTTAA
Found at i:4513307 original size:29 final size:30
Alignment explanation
Indices: 4513249--4513307 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
4513239 ATAGTTTCAT
* *
4513249 TATGATTGAGATAAATATGATAATTTTAAA
1 TATGATTGAGATAAATATAATAATTATAAA
*
4513279 TATGATT-ATATAAATATAAT-ATATATAAA
1 TATGATTGAGATAAATATAATAAT-TATAAA
4513308 ATAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (30 bp):
TATGATTGAGATAAATATAATAATTATAAA
Found at i:4513310 original size:30 final size:30
Alignment explanation
Indices: 4513249--4513310 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
4513239 ATAGTTTCAT
* * *
4513249 TATGATTGAGATAAATATGATAATTTTAAA
1 TATGATTGAGATAAATATAATAATATAAAA
*
4513279 TATGATT-ATATAAATATAATATATATAAAA
1 TATGATTGAGATAAATATAATA-ATATAAAA
4513309 TA
1 TA
4513311 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (30 bp):
TATGATTGAGATAAATATAATAATATAAAA
Found at i:4513314 original size:23 final size:22
Alignment explanation
Indices: 4513288--4513353 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
4513278 ATATGATTAT
*
4513288 ATAAATATAATATATATAAAATA
1 ATAAAAAT-ATATATATAAAATA
*
4513311 ATAAAAATAT-TATATAAAATG
1 ATAAAAATATATATATAAAATA
*
4513332 ATAAAAATATATTTATGAAAAT
1 ATAAAAATATATATAT-AAAAT
4513354 TTTATAATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 20 0.53
22 6 0.16
23 12 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (22 bp):
ATAAAAATATATATATAAAATA
Found at i:4513399 original size:7 final size:8
Alignment explanation
Indices: 4513372--4513437 Score: 53
Period size: 8 Copynumber: 7.8 Consensus size: 8
4513362 ACGAGTTATT
*
4513372 AATATATC
1 AATATATA
4513380 AATATATA
1 AATATATA
4513388 AATATA-A
1 AATATATA
*
4513395 AATATCTTA
1 AATAT-ATA
*
4513404 AAAATTATTA
1 AATA-TA-TA
4513414 CAATATAATA
1 -AATAT-ATA
4513424 AATATATA
1 AATATATA
4513432 AATATA
1 AATATA
4513438 ATATGAATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 6 0.13
8 22 0.47
9 9 0.19
10 6 0.13
11 4 0.09
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATATA
Found at i:4513451 original size:19 final size:17
Alignment explanation
Indices: 4513415--4513453 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
4513405 AAATTATTAC
*
4513415 AATATAATAAATATATA
1 AATATAATAAATACATA
4513432 AATATAATATGAATACATA
1 AATATAATA--AATACATA
4513451 AAT
1 AAT
4513454 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAATAAATACATA
Found at i:4517315 original size:2 final size:2
Alignment explanation
Indices: 4517308--4517340 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4517298 CTTTATGATA
4517308 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4517341 TCTTTCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4518829 original size:20 final size:19
Alignment explanation
Indices: 4518804--4518847 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
4518794 AAAACCAATC
*
4518804 TTTTACGGATTTAATTTGAT
1 TTTTACGAATTTAATTT-AT
*
4518824 TTTTACTAATTTAATTTAT
1 TTTTACGAATTTAATTTAT
4518843 TTTTA
1 TTTTA
4518848 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTTACGAATTTAATTTAT
Found at i:4518844 original size:19 final size:19
Alignment explanation
Indices: 4518812--4518921 Score: 64
Period size: 19 Copynumber: 5.8 Consensus size: 19
4518802 TCTTTTACGG
4518812 ATTTAATTTGATTTTTACTA
1 ATTTAATTT-ATTTTTACTA
*
4518832 ATTTAATTTATTTTTATTA
1 ATTTAATTTATTTTTACTA
** *
4518851 AAATAA-TT-TTTTTACTG
1 ATTTAATTTATTTTTACTA
* * * * *
4518868 ATTCACTATAGTATTGA-TA
1 ATTTAATTTA-TTTTTACTA
* *
4518887 ATTTAATTCAATTTTTACCA
1 ATTTAATT-TATTTTTACTA
*
4518907 ATTTATTTTATTTTT
1 ATTTAATTTATTTTT
4518922 GTTAAATTGA
Statistics
Matches: 63, Mismatches: 22, Indels: 11
0.66 0.23 0.11
Matches are distributed among these distances:
17 9 0.14
18 3 0.05
19 29 0.46
20 22 0.35
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATTTATTTTTACTA
Found at i:4522988 original size:17 final size:17
Alignment explanation
Indices: 4522966--4523003 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4522956 TACAAATATA
4522966 ATTACAT-ATTTATAAAT
1 ATTACATAATTTAT-AAT
4522983 ATTACATAAATTTATAAT
1 ATTACAT-AATTTATAAT
4523001 ATT
1 ATT
4523004 TTAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTACATAATTTATAAT
Found at i:4523198 original size:16 final size:16
Alignment explanation
Indices: 4523179--4523213 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4523169 ATAATTTTTT
4523179 TTTTCTTCTTTCTTTC
1 TTTTCTTCTTTCTTTC
*
4523195 TTTTTTTCTTTCTTTC
1 TTTTCTTCTTTCTTTC
4523211 TTT
1 TTT
4523214 CCCACTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTCTTTCTTTC
Found at i:4523206 original size:4 final size:4
Alignment explanation
Indices: 4523180--4523214 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
4523170 TAATTTTTTT
*
4523180 TTTC -TTC TTTC TTTC TTTT TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
4523215 CCACTACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:4523343 original size:20 final size:20
Alignment explanation
Indices: 4523311--4523420 Score: 77
Period size: 20 Copynumber: 5.4 Consensus size: 20
4523301 ATATTATCAT
4523311 TATAATAAAAAATAATTAAAA
1 TATAAT-AAAAATAATTAAAA
4523332 TATAATAAAAAT-A--AAAA
1 TATAATAAAAATAATTAAAA
* *
4523349 TATAATATTAAATACTTTAAAA
1 TATAATA-AAAATA-ATTAAAA
* * *
4523371 TTTATATAATATTAATTATAAA
1 TATA-ATAAAAATAATTA-AAA
4523393 TAT-ATAAAAAT-ATATATAAA
1 TATAATAAAAATAAT-TA-AAA
4523413 TATAATAA
1 TATAATAA
4523421 TATTTTAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
17 11 0.16
18 4 0.06
19 3 0.04
20 21 0.30
21 13 0.19
22 15 0.21
23 3 0.04
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAATAAAAATAATTAAAA
Found at i:4523355 original size:11 final size:11
Alignment explanation
Indices: 4523311--4523344 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4523301 ATATTATCAT
4523311 TATAATAAAAA
1 TATAATAAAAA
*
4523322 -ATAATTAAAA
1 TATAATAAAAA
4523332 TATAATAAAAA
1 TATAATAAAAA
4523343 TA
1 TA
4523345 AAAATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TATAATAAAAA
Found at i:4523428 original size:60 final size:58
Alignment explanation
Indices: 4523323--4523452 Score: 144
Period size: 60 Copynumber: 2.3 Consensus size: 58
4523313 TAATAAAAAA
* *
4523323 TAATTAAAATATAATAAAAATAAAAATATAATATTAAATACTTTAAAATTTATATAATAT
1 TAATTAAAATATAATAAAAATAAAAATATAATATAAAATACTTT-AAATAT-TATAATAT
* * *
4523383 TAATTATAAATAT-ATAAAAATATATATA-AATATAATAATATTTTAAATATTATAATAT
1 TAATTA-AAATATAATAAAAATAAAAATATAATATAA-AATACTTTAAATATTATAATAT
4523441 T--TT-AAATATAAT
1 TAATTAAAATATAAT
4523453 TATAATTTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
54 6 0.10
55 2 0.03
56 2 0.03
58 9 0.15
59 11 0.18
60 26 0.42
61 6 0.10
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.42
Consensus pattern (58 bp):
TAATTAAAATATAATAAAAATAAAAATATAATATAAAATACTTTAAATATTATAATAT
Found at i:4523439 original size:8 final size:9
Alignment explanation
Indices: 4523385--4523449 Score: 62
Period size: 10 Copynumber: 7.2 Consensus size: 9
4523375 TATAATATTA
4523385 ATTATAAAT
1 ATTATAAAT
*
4523394 ATATAAAAAT
1 AT-TATAAAT
4523404 ATATATAAAT
1 AT-TATAAAT
*
4523414 ATAAT-AAT
1 ATTATAAAT
*
4523422 ATTTTAAAT
1 ATTATAAAT
4523431 ATTAT-AAT
1 ATTATAAAT
*
4523439 ATTTTAAAT
1 ATTATAAAT
4523448 AT
1 AT
4523450 AATTATAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
8 13 0.28
9 16 0.35
10 17 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTATAAAT
Found at i:4523468 original size:20 final size:17
Alignment explanation
Indices: 4523394--4523452 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
4523384 AATTATAAAT
* *
4523394 ATATAAAAATATATATAA
1 ATATAATAATAT-TTTAA
4523412 ATATAATAATATTTTAA
1 ATATAATAATATTTTAA
*
4523429 ATATTATAATATTTTAA
1 ATATAATAATATTTTAA
4523446 ATATAAT
1 ATATAAT
4523453 TATAATTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
17 26 0.70
18 11 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATAATATTTTAA
Found at i:4524942 original size:21 final size:21
Alignment explanation
Indices: 4524896--4524943 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4524886 ATATTTAAAA
4524896 ATATAATATAAAAATAAATAC
1 ATATAATATAAAAATAAATAC
* * **
4524917 GTATAATATAAATATACGTAC
1 ATATAATATAAAAATAAATAC
4524938 ATATAA
1 ATATAA
4524944 AAATATATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.31
Consensus pattern (21 bp):
ATATAATATAAAAATAAATAC
Found at i:4524996 original size:32 final size:30
Alignment explanation
Indices: 4524959--4525029 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
4524949 TATATTAAAT
*
4524959 AAAATA-AATTATTAATATATAAAAAATATATA
1 AAAATATAA-TATT-ATAAATAAAAAATA-ATA
*
4524991 AAAATATAATATTTTAAATAAAAAATAATA
1 AAAATATAATATTATAAATAAAAAATAATA
*
4525021 CAAATATAA
1 AAAATATAA
4525030 ACAAATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.31
31 12 0.34
32 10 0.29
33 2 0.06
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAATATAATATTATAAATAAAAAATAATA
Found at i:4525027 original size:51 final size:47
Alignment explanation
Indices: 4524938--4525036 Score: 110
Period size: 51 Copynumber: 2.0 Consensus size: 47
4524928 ATATACGTAC
* **
4524938 ATATAAAAATATATATTAAATAAAATAAATTATTAATATATAAAAAAT
1 ATATAAAAATATATATTAAATAAAATAAAATACAAATATA-AAAAAAT
*
4524986 ATATAAAAATATAATATTTTAAATAAAA-AATAATACAAATATAAACAAAT
1 ATATAAAAATAT-ATA--TTAAATAAAATAA-AATACAAATATAAAAAAAT
4525036 A
1 A
4525037 AATTTTTCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
48 12 0.28
49 3 0.07
50 9 0.21
51 19 0.44
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (47 bp):
ATATAAAAATATATATTAAATAAAATAAAATACAAATATAAAAAAAT
Found at i:4525075 original size:25 final size:26
Alignment explanation
Indices: 4525039--4525108 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
4525029 AACAAATAAA
*
4525039 TTTTTCTCTCTTCTTTCTTTTGT-TCC
1 TTTTTCT-TCTTCTTTCTTTTCTCTCC
* *
4525065 TTTTTCTTCTTTTTTCCTTTCTCTCC
1 TTTTTCTTCTTCTTTCTTTTCTCTCC
* *
4525091 -TTTCCTTTTTCTTTCTTT
1 TTTTTCTTCTTCTTTCTTT
4525109 CTTTGTCAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 26 0.72
26 10 0.28
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.71
Consensus pattern (26 bp):
TTTTTCTTCTTCTTTCTTTTCTCTCC
Found at i:4525093 original size:17 final size:18
Alignment explanation
Indices: 4525055--4525093 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4525045 TCTCTTCTTT
* *
4525055 CTTTTGTTCCTTTTTCTT
1 CTTTTGTTCCTTTCTCTC
4525073 CTTTT-TTCCTTTCTCTC
1 CTTTTGTTCCTTTCTCTC
4525090 CTTT
1 CTTT
4525094 CCTTTTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (18 bp):
CTTTTGTTCCTTTCTCTC
Found at i:4526021 original size:2 final size:2
Alignment explanation
Indices: 4526014--4526046 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4526004 GAGTTTACAC
4526014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4526047 AAATACTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4529181 original size:80 final size:80
Alignment explanation
Indices: 4529043--4529190 Score: 224
Period size: 80 Copynumber: 1.9 Consensus size: 80
4529033 ATTCTATCAA
* *
4529043 TTACGAAAAGATTTTAACACACCACCATCTTCTGCAACCGGATTTTATTGTGATAATCACATGTC
1 TTACGAAAAGATTTTAACACACCACCATCTTCTGCAACCAGACTTTATTGTGATAATCACATGTC
4529108 ATTGAGATTTCGCAT
66 ATTGAGATTTCGCAT
* * ** * *
4529123 TTACTAAAAGATTTTGACACACCACCATCTTCTGGGATCAGACTTTATTGTGATAATCACGTGTC
1 TTACGAAAAGATTTTAACACACCACCATCTTCTGCAACCAGACTTTATTGTGATAATCACATGTC
4529188 ATT
66 ATT
4529191 AATTCTCATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 60 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (80 bp):
TTACGAAAAGATTTTAACACACCACCATCTTCTGCAACCAGACTTTATTGTGATAATCACATGTC
ATTGAGATTTCGCAT
Found at i:4541639 original size:2 final size:2
Alignment explanation
Indices: 4541634--4541662 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4541624 ATGGTACGGA
4541634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4541663 ACTTGATGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4542047 original size:24 final size:26
Alignment explanation
Indices: 4542013--4542072 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
4542003 TTTAATTTAT
*
4542013 ATTTTATTATTTAGTAT-A-AATATA
1 ATTTTAATATTTAGTATCATAATATA
*
4542037 ATTTTAATATTTTGTATCGATAATATA
1 ATTTTAATATTTAGTATC-ATAATATA
*
4542064 GTTTTAATA
1 ATTTTAATA
4542073 ATTAATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.50
26 1 0.03
27 14 0.47
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (26 bp):
ATTTTAATATTTAGTATCATAATATA
Found at i:4542075 original size:66 final size:65
Alignment explanation
Indices: 4541992--4542171 Score: 182
Period size: 63 Copynumber: 2.8 Consensus size: 65
4541982 TAATATAAAT
*
4541992 ATAAATATA-ATTTTAATTTATATTTTATTATTTAGTATAAATATAA-TTTTAA-TATTTTGTAT
1 ATAAATATATATTTTAATTTATATTTTATTATTTA-TATAAATATAATTTTTAATTATTTTGTAA
4542054 C
65 C
* * *
4542055 GAT-AATATA-GTTTTAATAATTA-A-TTAATTATTTATAATATTATATAATTTTTAATTATTTT
1 -ATAAATATATATTTTAAT--TTATATTTTATTATTTAT-ATA-AATATAATTTTTAATTATTTT
*
4542116 TTAAC
61 GTAAC
4542121 ATAAATATATATTTT-ATTTATATTTTATTATTTAATATAAATAT--TTTTTAA
1 ATAAATATATATTTTAATTTATATTTTATTATTT-ATATAAATATAATTTTTAA
4542172 AATTATTTAT
Statistics
Matches: 97, Mismatches: 8, Indels: 23
0.76 0.06 0.18
Matches are distributed among these distances:
62 1 0.01
63 33 0.34
64 12 0.12
65 16 0.16
66 29 0.30
67 6 0.06
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (65 bp):
ATAAATATATATTTTAATTTATATTTTATTATTTATATAAATATAATTTTTAATTATTTTGTAAC
Found at i:4542325 original size:21 final size:21
Alignment explanation
Indices: 4542286--4542325 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4542276 CTAATAATTA
* *
4542286 TAATCTTATCGTTATAATATT
1 TAATCTTATCATTACAATATT
*
4542307 TAATCTTATTATTACAATA
1 TAATCTTATCATTACAATA
4542326 ATAAATTCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (21 bp):
TAATCTTATCATTACAATATT
Found at i:4544373 original size:22 final size:22
Alignment explanation
Indices: 4544331--4544390 Score: 54
Period size: 24 Copynumber: 2.7 Consensus size: 22
4544321 CAAAAAGCTT
4544331 ATTA-AATTTT-AAAATAAATAA
1 ATTATAATTTTAAAAATAAAT-A
*
4544352 ATTATAATTTTAAAAAT-TATA
1 ATTATAATTTTAAAAATAAATA
4544373 ATTAAATAGATTTTAAAA
1 ATT--ATA-ATTTTAAAA
4544391 TATTGGGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 8 0.24
22 8 0.24
23 8 0.24
24 9 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTATAATTTTAAAAATAAATA
Found at i:4544743 original size:17 final size:17
Alignment explanation
Indices: 4544712--4544755 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
4544702 AAAAATTATA
4544712 ATTAA-TATAAATTTATT
1 ATTAATTATAAATTT-TT
4544729 -TT--TTATAAATTTTT
1 ATTAATTATAAATTTTT
4544743 ATTAATTATAAAT
1 ATTAATTATAAAT
4544756 AATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 2 0.09
17 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTAATTATAAATTTTT
Found at i:4544791 original size:14 final size:14
Alignment explanation
Indices: 4544767--4544800 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
4544757 ATATATATAA
4544767 TAAATTAAAAAAATT
1 TAAA-TAAAAAAATT
4544782 TAAAT-AAAAAATT
1 TAAATAAAAAAATT
4544795 TAAATA
1 TAAATA
4544801 TTTTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.72
14 1 0.06
15 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAATAAAAAAATT
Found at i:4544792 original size:13 final size:13
Alignment explanation
Indices: 4544774--4544800 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4544764 TAATAAATTA
4544774 AAAAAATTTAAAT
1 AAAAAATTTAAAT
4544787 AAAAAATTTAAAT
1 AAAAAATTTAAAT
4544800 A
1 A
4544801 TTTTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAAATTTAAAT
Found at i:4557676 original size:33 final size:33
Alignment explanation
Indices: 4557563--4557676 Score: 105
Period size: 32 Copynumber: 3.6 Consensus size: 33
4557553 TATGTTTAAA
* *
4557563 TTAT-TATATAT-TTATATAAATTTT-AATTTT
1 TTATATATATATATTATATAAATTTTAAAATAT
* * * *
4557593 TTA-ATAATTTATTTTACATAAATTTTAACATAT
1 TTATAT-ATATATATTATATAAATTTTAAAATAT
*
4557626 TGATGA-AT-TATATTATATAAATTTTAAAATAT
1 TTAT-ATATATATATTATATAAATTTTAAAATAT
4557658 TTATATATATATATTATAT
1 TTATATATATATATTATAT
4557677 TTATATTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
30 4 0.06
31 6 0.09
32 38 0.58
33 17 0.26
35 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (33 bp):
TTATATATATATATTATATAAATTTTAAAATAT
Found at i:4557686 original size:33 final size:32
Alignment explanation
Indices: 4557634--4557699 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
4557624 ATTGATGAAT
* *
4557634 TATATTATATAAATTTTAAAATATTTATATATA
1 TATATTATATAAATATTAAAATATATAT-TATA
** *
4557667 TATATTATATTTATATTAAATTATATATTATA
1 TATATTATATAAATATTAAAATATATATTATA
4557699 T
1 T
4557700 TTTAATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TATATTATATAAATATTAAAATATATATTATA
Found at i:4557695 original size:23 final size:24
Alignment explanation
Indices: 4557665--4557726 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 24
4557655 TATTTATATA
4557665 TATATATTATATTTAT-ATTAAAT
1 TATATATTATATTTATAATTAAAT
**
4557688 TATATATTATATTT-TAATTATTT
1 TATATATTATATTTATAATTAAAT
*
4557711 TTTATATTATATTTAT
1 TATATATTATATTTAT
4557727 TGTATCCACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATATATTATATTTATAATTAAAT
Found at i:4557726 original size:18 final size:18
Alignment explanation
Indices: 4557657--4557727 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
4557647 TTTTAAAATA
*
4557657 TTTATATATATATATTA-TA
1 TTTATAT-TATA-ATTATTT
*
4557676 TTTATATTA-AATTATAT
1 TTTATATTATAATTATTT
* *
4557693 ATTATATTTTAATTATTT
1 TTTATATTATAATTATTT
*
4557711 TTTATATTATATTTATT
1 TTTATATTATAATTATT
4557728 GTATCCACTG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
16 4 0.10
17 8 0.19
18 23 0.55
19 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTATAATTATTT
Found at i:4559577 original size:24 final size:25
Alignment explanation
Indices: 4559550--4559615 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
4559540 GTATAAATAA
4559550 ATATTTAATATAAATATAT-TTTTT
1 ATATTTAATATAAATATATATTTTT
* *
4559574 ATATATT-TTAAAAAT-TATATTTTT
1 ATAT-TTAATATAAATATATATTTTT
*
4559598 ATATTTATATCTAAATAT
1 ATATTTA-ATATAAATAT
4559616 CTATCGTACT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
23 5 0.16
24 19 0.59
25 7 0.22
26 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTTAATATAAATATATATTTTT
Found at i:4559816 original size:16 final size:16
Alignment explanation
Indices: 4559797--4559829 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4559787 GATAATCAAT
*
4559797 ATCCGAGAAGTACACA
1 ATCCAAGAAGTACACA
4559813 ATCCAAGAAGTACACA
1 ATCCAAGAAGTACACA
4559829 A
1 A
4559830 AACCGGCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.15, T:0.12
Consensus pattern (16 bp):
ATCCAAGAAGTACACA
Found at i:4561860 original size:18 final size:19
Alignment explanation
Indices: 4561834--4561875 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
4561824 AAATACCAAG
*
4561834 AAAAGAAAACAAAAAAAA-
1 AAAAAAAAACAAAAAAAAT
4561852 AAAAAAAAACAAAAAAAAT
1 AAAAAAAAACAAAAAAAAT
4561871 AAAAA
1 AAAAA
4561876 GAGAAGGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.90, C:0.05, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAAAT
Found at i:4563154 original size:26 final size:26
Alignment explanation
Indices: 4563124--4563201 Score: 92
Period size: 25 Copynumber: 3.1 Consensus size: 26
4563114 GGTATAAATG
*
4563124 TATATATTTTTTTATTATTTTATAAT
1 TATATATTTATTTATTATTTTATAAT
*
4563150 TATATA-TTATTTATTATTTAAT-A-
1 TATATATTTATTTATTATTTTATAAT
4563173 TATTATATTTATTTATGTA-TTTATAAT
1 TA-TATATTTATTTAT-TATTTTATAAT
4563200 TA
1 TA
4563202 AATTAAATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 2 0.05
24 5 0.11
25 26 0.59
26 9 0.20
27 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (26 bp):
TATATATTTATTTATTATTTTATAAT
Found at i:4563196 original size:18 final size:17
Alignment explanation
Indices: 4563126--4563197 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
4563116 TATAAATGTA
*
4563126 TATATTTTTTTATTATTT
1 TATATTTATTTATTA-TT
* *
4563144 TATAATTATATATTA-T
1 TATATTTATTTATTATT
*
4563160 T-TA-TTATTTAATATAT
1 TATATTTATTTATTAT-T
4563176 TATATTTATTTATGTATT
1 TATATTTATTTAT-TATT
4563194 TATA
1 TATA
4563198 ATTAAATTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.19
15 2 0.05
16 4 0.09
17 2 0.05
18 24 0.56
19 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (17 bp):
TATATTTATTTATTATT
Found at i:4564985 original size:2 final size:2
Alignment explanation
Indices: 4564980--4565022 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4564970 AAAGCGGATA
4564980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4565022 A
1 A
4565023 GGTATACAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4565330 original size:3 final size:3
Alignment explanation
Indices: 4565322--4565363 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4565312 TGTTAAAATT
4565322 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
4565364 GATCTTACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4565604 original size:3 final size:3
Alignment explanation
Indices: 4565596--4565621 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4565586 CTCAGATCAA
4565596 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4565622 AACTCAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4566941 original size:21 final size:20
Alignment explanation
Indices: 4566915--4566984 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
4566905 TCAGAACGTA
4566915 ATAATAAAAATGTTAAAGATT
1 ATAATAAAAAT-TTAAAGATT
* * * *
4566936 ATAATAACTTAATTGAATG-TA
1 ATAATAA--AAATTTAAAGATT
4566957 ATAATAAAAATTTTAAAGATT
1 ATAATAAAAA-TTTAAAGATT
4566978 ATAATAA
1 ATAATAA
4566985 CTTAATTAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
19 2 0.05
20 5 0.14
21 23 0.62
22 4 0.11
23 3 0.08
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (20 bp):
ATAATAAAAATTTAAAGATT
Found at i:4566958 original size:42 final size:42
Alignment explanation
Indices: 4566912--4566991 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
4566902 ACATCAGAAC
4566912 GTAATAATAAAAATGTTAAAGATTATAATAACTTAATTGAAT
1 GTAATAATAAAAATGTTAAAGATTATAATAACTTAATTGAAT
*
4566954 GTAATAATAAAAATTTTAAAGATTATAATAACTTAATT
1 GTAATAATAAAAATGTTAAAGATTATAATAACTTAATT
4566992 AACTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (42 bp):
GTAATAATAAAAATGTTAAAGATTATAATAACTTAATTGAAT
Found at i:4566993 original size:21 final size:21
Alignment explanation
Indices: 4566927--4566993 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
4566917 AATAAAAATG
4566927 TTAAAGATTATAATAACTTAA
1 TTAAAGATTATAATAACTTAA
* * *
4566948 TTGAATG-TAATAATAA--AAA
1 TT-AAAGATTATAATAACTTAA
4566967 TTTTAAAGATTATAATAACTTAA
1 --TTAAAGATTATAATAACTTAA
4566990 TTAA
1 TTAA
4566994 CTTTTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 24 0.71
22 3 0.09
23 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (21 bp):
TTAAAGATTATAATAACTTAA
Found at i:4567178 original size:26 final size:25
Alignment explanation
Indices: 4567127--4567175 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4567117 CCTTTTCACA
4567127 TTTTCAAGCATTAATTTTAATTTATT
1 TTTTCAAGCATTAATTTT-ATTTATT
* *
4567153 TTTTCAATCATTAAATTT-TTTAT
1 TTTTCAAGCATTAATTTTATTTAT
4567176 ATTAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
26 16 0.76
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTCAAGCATTAATTTTATTTATT
Found at i:4570122 original size:14 final size:14
Alignment explanation
Indices: 4570103--4570129 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4570093 TTAAAATCGA
4570103 GGGAAAATAATAGG
1 GGGAAAATAATAGG
4570117 GGGAAAATAATAG
1 GGGAAAATAATAG
4570130 TGGACCTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (14 bp):
GGGAAAATAATAGG
Found at i:4573592 original size:49 final size:49
Alignment explanation
Indices: 4573426--4574199 Score: 809
Period size: 49 Copynumber: 15.5 Consensus size: 49
4573416 AATGACAACG
* * * * *
4573426 TGCTGATTCATGGCCAGCGACATTAGACTTAAAGAAGAA--TGTCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * ** * * * * * *
4573473 TACGGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGCCAACA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGGTGCCAATA
* * * * * *
4573525 CGCTGATTCAAGGTCAACGAAATTGGACTTAAGGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * * ** *
4573574 TGCTTATTCAAGGCCAACGACATTAGTTTTAAGATGATGAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAA-A-GATGAAGGTGCCAATA
* * *
4573625 TGCTGATTCAAGGCAAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
*
4573674 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAACGAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATA
*
4573726 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATA
* * * * *
4573778 TGCTGATACAAGGCTAGCGATATTGGACTTAAAGATGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
4573827 TGTTGATTCAAGGCTAGCGACATTAGACTTAAAGATGACGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATA
* * * * *
4573879 TGCTGATACAATGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
4573928 TGCTGATTCAAGGCTAGCGACATTGAACTTAAAGATGACGAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATA
* * * **
4573980 TGCTGATTCAAGGCCAGCGATATTGGACTTACAGATGAAGATGCCAAGG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
*
4574029 TGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
4574078 TGCTGATTCAAAGCCAGCGACATTAGTCTTAAAGAT-AAGGTGCTAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
4574126 TGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
*
4574174 TGCTGATTCAAGGCCAGCGATATTGG
1 TGCTGATTCAAGGCCAGCGACATTGG
4574200 TTTTAAAGGT
Statistics
Matches: 607, Mismatches: 103, Indels: 33
0.82 0.14 0.04
Matches are distributed among these distances:
47 23 0.04
48 80 0.13
49 254 0.42
50 5 0.01
51 39 0.06
52 206 0.34
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:4573756 original size:101 final size:98
Alignment explanation
Indices: 4573426--4574199 Score: 818
Period size: 101 Copynumber: 7.8 Consensus size: 98
4573416 AATGACAACG
* * * * * * * **
4573426 TGCTGATTCATGGCCAGCGACATTAGACTTAAAGAAGAA--TGTCAATGTACGGAGACAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * * * *
4573489 ACGACATTGGGCTTAGGAATGTTAAAGATGCCAACA
66 GCGACATTGGACTTA--AA-GATGAAGATGCCAATA
* * * * * * *
4573525 CGCTGATTCAAGGTCAACGAAATTGGACTTAAGGATGAAGGTGCCAATGTGCTTATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * ** **
4573590 ACGACATTAGTTTTAAGATGATGAAGGCGCCAATA
66 GCGACATTGGACTTAA-A-GATGAAGATGCCAATA
* * *
4573625 TGCTGATTCAAGGCAAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
**
4573690 GCGACATTGGACTTAAAGATAACGAAGGCGCCAATA
66 GCGACATTGGACTTAAAGAT---GAAGATGCCAATA
* *
4573726 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATACAAGG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATATGCTGATTCAAGG
* * *
4573791 CTAGCGATATTGGACTTAAAGATGAAGATGCCAATG
63 CCAGCGACATTGGACTTAAAGATGAAGATGCCAATA
* * * * *
4573827 TGTTGATTCAAGGCTAGCGACATTAGACTTAAAGATGACGAAGGTGCCAATATGCTGATACAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATATGCTGATTCAAGG
* *
4573892 CCAGCGATATTGGACTTAAAGATGAAGATGCCAATG
63 CCAGCGACATTGGACTTAAAGATGAAGATGCCAATA
* * *
4573928 TGCTGATTCAAGGCTAGCGACATTGAACTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATATGCTGATTCAAGG
* * **
4573993 CCAGCGATATTGGACTTACAGATGAAGATGCCAAGG
63 CCAGCGACATTGGACTTAAAGATGAAGATGCCAATA
* *
4574029 TGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGAAGGTGCCAATATGCTGATTCAAAGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * * *
4574094 GCGACATTAGTCTTAAAGAT-AAGGTGCTAATA
66 GCGACATTGGACTTAAAGATGAAGATGCCAATA
* * *
4574126 TGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
*
4574190 GCGATATTGG
66 GCGACATTGG
4574200 TTTTAAAGGT
Statistics
Matches: 591, Mismatches: 75, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
96 35 0.06
97 40 0.07
98 46 0.08
99 33 0.06
100 83 0.14
101 310 0.52
104 44 0.07
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (98 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
GCGACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:4573797 original size:153 final size:149
Alignment explanation
Indices: 4573517--4574199 Score: 806
Period size: 153 Copynumber: 4.6 Consensus size: 149
4573507 ATGTTAAAGA
* * * * * * * *
4573517 TGCCAACACGCTGATTCAAGGTCAACGAAATTGGACTTAAGGAT--GAAGGTGCCAATGTGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATACGAAGGTGCCAATATGCTGA
* * ** *
4573580 TTCAAGGCCAACGACATTAGTTTTAAGATGATGAAGGCGCCAATATGCTGATTCAAGGCAAGCGA
66 TTCAAGGCCAGCGACATTGGACTTAA-A-GATGAAGGCGCCAATATGCTGATTCAAGGCTAGCGA
*
4573645 TATTGGACTTAAAGATGAAGG
129 CATTGGACTTAAAGATGAAGG
* *
4573666 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAACGAAGGCGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-ACGAAGGTGCCAATATGCTG
*
4573731 ATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATACAAGGCTAGC
65 ATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGCGCCAATATGCTGATTCAAGGCTAGC
* *
4573796 GATATTGGACTTAAAGATGAAGA
127 GACATTGGACTTAAAGATGAAGG
* * * *
4573819 TGCCAATGTGTTGATTCAAGGCTAGCGACATTAGACTTAAAGATGACGAAGGTGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-ACGAAGGTGCCAATATGCTG
* * * ** *
4573884 ATACAATGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGCGAC
65 ATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATATGCTGATTCAAGGCTAGCGAC
*
4573949 ATTGAACTTAAAGATGACGAAGG
130 ATTGGACTTAAAGAT---GAAGG
* * * * **
4573972 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTACAGAT--GAAGATGCCAAGGTGCTGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATACGAAGGTGCCAATATGCTGA
* * * *
4574035 TTCAAGGCCAGCGACATTGAACTTAAAGATGAAGGTGCCAATATGCTGATTCAAAGCCAGCGACA
66 TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATATGCTGATTCAAGGCTAGCGACA
* *
4574100 TTAGTCTTAAAGAT-AAGG
131 TTGGACTTAAAGATGAAGG
* * *
4574118 TGCTAATATGCTGATTCAAGGCCAGCGACATTAGTCTTAAAG--AC-AAGGTGCCAATATGCTGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATACGAAGGTGCCAATATGCTGA
*
4574180 TTCAAGGCCAGCGATATTGG
66 TTCAAGGCCAGCGACATTGG
4574200 TTTTAAAGGT
Statistics
Matches: 459, Mismatches: 64, Indels: 26
0.84 0.12 0.05
Matches are distributed among these distances:
145 33 0.07
146 40 0.09
149 37 0.08
150 130 0.28
151 1 0.00
152 38 0.08
153 180 0.39
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (149 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATACGAAGGTGCCAATATGCTGA
TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATATGCTGATTCAAGGCTAGCGACA
TTGGACTTAAAGATGAAGG
Found at i:4574238 original size:27 final size:27
Alignment explanation
Indices: 4574207--4574322 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
4574197 TGGTTTTAAA
**
4574207 GGTGCCATGGAGTTGTGGACTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAG
*
4574234 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAG
* *
4574261 GAAAAAAAGTGCCACAAAATTGTGGACTTAAAAG
1 G-------GTGCCACAGAGTTGTGGACTTAAAAG
4574295 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAG
4574322 G
1 G
4574323 AAAAAGAGTG
Statistics
Matches: 76, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
27 52 0.68
34 24 0.32
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.22
Consensus pattern (27 bp):
GGTGCCACAGAGTTGTGGACTTAAAAG
Found at i:4574274 original size:34 final size:34
Alignment explanation
Indices: 4574235--4574477 Score: 207
Period size: 34 Copynumber: 7.6 Consensus size: 34
4574225 ACTTAAAAGG
*
4574235 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAA
1 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAA
* *
4574269 GTGCCACAAAATTGTGGACTTAAAAGG-------
1 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAA
*
4574296 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
1 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAA
* * * *
4574330 GTGCGAC-GAAATTATGGACTTAAAAGGAAAAAGA
1 GTGCCACAG-AGTTGTGGACTTAAAAGGAAAAAAA
* *
4574364 GTGTCACAAAGTTGTGGACTTAAAAGG-------
1 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAA
* *
4574391 GTACCACAGAGTTGTGGACTTAAAAGGAAAAGGAA
1 GTGCCACAGAGTTGTGGACTTAAAAGGAAAA-AAA
*
4574426 -TGCCACGGAGTTGTGGACTTAAAA-GAAAAAAA
1 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAA
* *
4574458 -TGCCACTGAGTCGTGGACTT
1 GTGCCACAGAGTTGTGGACTT
4574478 TGGAAAGAGA
Statistics
Matches: 171, Mismatches: 21, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
27 49 0.29
32 20 0.12
33 6 0.04
34 96 0.56
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (34 bp):
GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAA
Found at i:4574308 original size:61 final size:61
Alignment explanation
Indices: 4574219--4574356 Score: 231
Period size: 61 Copynumber: 2.3 Consensus size: 61
4574209 TGCCATGGAG
*
4574219 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAAAA
1 TTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAAAA
* * *
4574280 TTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCGACGAAA
1 TTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAAAA
*
4574341 TTATGGACTTAAAAGG
1 TTGTGGACTTAAAAGG
4574357 AAAAAGAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (61 bp):
TTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAAAA
Found at i:4574372 original size:95 final size:95
Alignment explanation
Indices: 4574249--4574463 Score: 326
Period size: 95 Copynumber: 2.3 Consensus size: 95
4574239 CACGGAGTTG
*
4574249 TGGACTTAAAAGGAAAAAAAGTGCCACAAAATTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGA
1 TGGACTTAAAAGGAAAAAAAGTGCCACAAAATTGTGGACTTAAAAGGGTACCACAGAGTTGTGGA
* *
4574314 CTTAAAAGGAAAAAGAGTGCGACGAAATTA
66 CTTAAAAGGAAAAAGAATGCCACGAAATTA
* * *
4574344 TGGACTTAAAAGGAAAAAGAGTGTCACAAAGTTGTGGACTTAAAAGGGTACCACAGAGTTGTGGA
1 TGGACTTAAAAGGAAAAAAAGTGCCACAAAATTGTGGACTTAAAAGGGTACCACAGAGTTGTGGA
* * * *
4574409 CTTAAAAGGAAAAGGAATGCCACGGAGTTG
66 CTTAAAAGGAAAAAGAATGCCACGAAATTA
4574439 TGGACTTAAAA-GAAAAAAA-TGCCAC
1 TGGACTTAAAAGGAAAAAAAGTGCCAC
4574464 TGAGTCGTGG
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
93 5 0.05
94 7 0.06
95 96 0.89
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (95 bp):
TGGACTTAAAAGGAAAAAAAGTGCCACAAAATTGTGGACTTAAAAGGGTACCACAGAGTTGTGGA
CTTAAAAGGAAAAAGAATGCCACGAAATTA
Found at i:4574474 original size:32 final size:31
Alignment explanation
Indices: 4574425--4574696 Score: 295
Period size: 32 Copynumber: 8.7 Consensus size: 31
4574415 AGGAAAAGGA
* * * *
4574425 ATGCCACGGAGTTGTGGACTTAAAAGAAAAAA
1 ATGCCACTGAGTCGTGGACTT-TAAGAAAAAG
* *
4574457 ATGCCACTGAGTCGTGGACTTT-GGAAAGAG
1 ATGCCACTGAGTCGTGGACTTTAAGAAAAAG
*
4574487 ATGCCACTGAGTCATGGACTTTGAAG-AAAAG
1 ATGCCACTGAGTCGTGGACTTT-AAGAAAAAG
* **
4574518 ATGTCACTGAGTCGTGGACTTTGGGGAAAAAAG
1 ATGCCACTGAGTCGTGGACTTT-AAG-AAAAAG
4574551 ATGCCACTGAGTCGTGGACTTTAAAGAAAAAG
1 ATGCCACTGAGTCGTGGACTTT-AAGAAAAAG
*
4574583 ATGTCACTGAGTCGTGGAC-TT-AGAAAAGAG
1 ATGCCACTGAGTCGTGGACTTTAAGAAAA-AG
*
4574613 ATGCCACTAAGTCGTGGACTTTGAAGAAAAAG
1 ATGCCACTGAGTCGTGGACTTT-AAGAAAAAG
*
4574645 ATGCCACTAAGTCGTGGAC-TT-AGAAAAGAG
1 ATGCCACTGAGTCGTGGACTTTAAGAAAA-AG
* *
4574675 ATGCCACTGAGTCATGAACTTT
1 ATGCCACTGAGTCGTGGACTTT
4574697 GAAGGAAAGA
Statistics
Matches: 207, Mismatches: 23, Indels: 21
0.82 0.09 0.08
Matches are distributed among these distances:
29 12 0.06
30 63 0.30
31 34 0.16
32 65 0.31
33 33 0.16
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (31 bp):
ATGCCACTGAGTCGTGGACTTTAAGAAAAAG
Found at i:4574493 original size:30 final size:30
Alignment explanation
Indices: 4574450--4574697 Score: 275
Period size: 30 Copynumber: 8.0 Consensus size: 30
4574440 GGACTTAAAA
*
4574450 GAAAAAAATGCCACTGAGTCGTGGACTTTG
1 GAAAAAGATGCCACTGAGTCGTGGACTTTG
* *
4574480 GAAAGAGATGCCACTGAGTCATGGACTTTG
1 GAAAAAGATGCCACTGAGTCGTGGACTTTG
* *
4574510 AAGAAAAGATGTCACTGAGTCGTGGACTTTGGG
1 GA-AAAAGATGCCACTGAGTCGTGGACTTT--G
*
4574543 GAAAAAAGATGCCACTGAGTCGTGGACTTTAAA
1 G-AAAAAGATGCCACTGAGTCGTGGACTTT--G
* *
4574576 GAAAAAGATGTCACTGAGTCGTGGAC-TTA
1 GAAAAAGATGCCACTGAGTCGTGGACTTTG
*
4574605 GAAAAGAGATGCCACTAAGTCGTGGACTTTG
1 GAAAA-AGATGCCACTGAGTCGTGGACTTTG
* *
4574636 AAGAAAAAGATGCCACTAAGTCGTGGAC-TTA
1 --GAAAAAGATGCCACTGAGTCGTGGACTTTG
* *
4574667 GAAAAGAGATGCCACTGAGTCATGAACTTTG
1 GAAAA-AGATGCCACTGAGTCGTGGACTTTG
4574698 AAGGAAAGAG
Statistics
Matches: 187, Mismatches: 21, Indels: 19
0.82 0.09 0.08
Matches are distributed among these distances:
29 11 0.06
30 65 0.35
31 32 0.17
32 45 0.24
33 33 0.18
34 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (30 bp):
GAAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:4574514 original size:62 final size:62
Alignment explanation
Indices: 4574417--4574709 Score: 365
Period size: 62 Copynumber: 4.7 Consensus size: 62
4574407 GACTTAAAAG
* * ** * *
4574417 GAAAAG-GAATGCCACGGAGTTGTGGACTTAAAAGAAAAAAATGCCACTGAGTCGTGGACTTT
1 GAAAAGAG-ATGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTA
* * * *
4574479 GGAAAGAGATGCCACTGAGTCATGGACTTTGAAG-AAAAGATGTCACTGAGTCGTGGACTTTGGG
1 GAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGAC-TT--A
* * *
4574543 GAAAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGTCACTGAGTCGTGGACTTA
1 GAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTA
* *
4574605 GAAAAGAGATGCCACTAAGTCGTGGACTTTGAAGAAAAAGATGCCACTAAGTCGTGGACTTA
1 GAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTA
* * *
4574667 GAAAAGAGATGCCACTGAGTCATGAACTTTGAAGGAAAGAGAT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTTGAA-GAAAAAGAT
4574710 TTGAAGAATT
Statistics
Matches: 202, Mismatches: 23, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
61 22 0.11
62 115 0.57
63 9 0.04
64 32 0.16
65 24 0.12
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (62 bp):
GAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTGAGTCGTGGACTTA
Found at i:4574577 original size:126 final size:124
Alignment explanation
Indices: 4574425--4574696 Score: 375
Period size: 126 Copynumber: 2.2 Consensus size: 124
4574415 AGGAAAAGGA
* * * * *
4574425 ATGCCACGGAGTTGTGGACTTAAAAGAAAAAAATGCCACTGAGTCGTGGACTTTGGAAAGAGATG
1 ATGCCACTGAGTCGTGGACTTTAAAGAAAAAAATGCCACTGAGTCGTGGACTTAGAAAAGAGATG
* * * *
4574490 CCACTGAGTCATGGACTTTGAAG-AAAAGATGTCACTGAGTCGTGGACTTTGGGGAAAAAAG
66 CCACTAAGTCATGGACTTTGAAGAAAAAGATGCCACTAAGTCGTGGAC-TT--AGAAAAAAG
* *
4574551 ATGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGTCACTGAGTCGTGGACTTAGAAAAGAGATG
1 ATGCCACTGAGTCGTGGACTTTAAAGAAAAAAATGCCACTGAGTCGTGGACTTAGAAAAGAGATG
* *
4574616 CCACTAAGTCGTGGACTTTGAAGAAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAG
66 CCACTAAGTCATGGACTTTGAAGAAAAAGATGCCACTAAGTCGTGGACTTAGAAAAAAG
* *
4574675 ATGCCACTGAGTCATGAACTTT
1 ATGCCACTGAGTCGTGGACTTT
4574697 GAAGGAAAGA
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
124 27 0.21
126 81 0.62
127 22 0.17
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (124 bp):
ATGCCACTGAGTCGTGGACTTTAAAGAAAAAAATGCCACTGAGTCGTGGACTTAGAAAAGAGATG
CCACTAAGTCATGGACTTTGAAGAAAAAGATGCCACTAAGTCGTGGACTTAGAAAAAAG
Found at i:4574875 original size:17 final size:18
Alignment explanation
Indices: 4574838--4574876 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
4574828 CTTGATGTTG
4574838 ATTA-CATTGATTTCGAT
1 ATTATCATTGATTTCGAT
4574855 -TTATCATT-ATTTCGAT
1 ATTATCATTGATTTCGAT
4574871 ATTATC
1 ATTATC
4574877 CCCTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (18 bp):
ATTATCATTGATTTCGAT
Found at i:4577560 original size:20 final size:20
Alignment explanation
Indices: 4577535--4577587 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4577525 ATTTGCTTGC
4577535 ATGTATCGATACAAAG-ATCA
1 ATGTATCGATACAAAGAAT-A
* **
4577555 ATGTATCGATATATTGAATA
1 ATGTATCGATACAAAGAATA
4577575 ATGTATCGATACA
1 ATGTATCGATACA
4577588 TTTCCTTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAAAGAATA
Found at i:4577643 original size:19 final size:19
Alignment explanation
Indices: 4577619--4577681 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
4577609 AGCCATACAT
4577619 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4577638 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
4577651 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4577670 TGTATCGATACA
1 TGTATCGATACA
4577682 GTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:4577654 original size:32 final size:32
Alignment explanation
Indices: 4577613--4577681 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
4577603 CTTTGTAGCC
4577613 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
4577645 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
4577677 ATACA
1 ATACA
4577682 GTTACTGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCG
Found at i:4577656 original size:13 final size:13
Alignment explanation
Indices: 4577638--4577662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4577628 ACAACACTTA
4577638 TGTATCGATACAT
1 TGTATCGATACAT
4577651 TGTATCGATACA
1 TGTATCGATACA
4577663 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4584114 original size:36 final size:36
Alignment explanation
Indices: 4584074--4584148 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
4584064 GAAAGGCCTC
* * *
4584074 CCATTGTCAATCAGTATCTTGTTAACACAATAATTT
1 CCATTATCAATCAGTATCCTGATAACACAATAATTT
* * * *
4584110 CCATTATCGATTAGTATCCTGATAATATAATAATTT
1 CCATTATCAATCAGTATCCTGATAACACAATAATTT
4584146 CCA
1 CCA
4584149 ATGGTAGCAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.39
Consensus pattern (36 bp):
CCATTATCAATCAGTATCCTGATAACACAATAATTT
Found at i:4587181 original size:18 final size:19
Alignment explanation
Indices: 4587138--4587182 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4587128 ACTATTGCCG
*
4587138 TTATTAAAAAATATTTATTA
1 TTATT-AAAAACATTTATTA
*
4587158 TAATTAAAAACATTTA-TA
1 TTATTAAAAACATTTATTA
4587176 TTATTAA
1 TTATTAA
4587183 CTATTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTAAAAACATTTATTA
Found at i:4589356 original size:12 final size:12
Alignment explanation
Indices: 4589339--4589363 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4589329 TGTTTTGTTC
4589339 CTATTACTACTA
1 CTATTACTACTA
4589351 CTATTACTACTA
1 CTATTACTACTA
4589363 C
1 C
4589364 GCCAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (12 bp):
CTATTACTACTA
Found at i:4593956 original size:3 final size:3
Alignment explanation
Indices: 4593948--4593973 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4593938 TGATTAGAGA
4593948 CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CA
4593974 TCATCATCAT
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:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:4597978 original size:6 final size:7
Alignment explanation
Indices: 4597963--4597987 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4597953 TTTAAAAATA
4597963 TTTTATT
1 TTTTATT
4597970 TTTTATT
1 TTTTATT
4597977 TTTTATT
1 TTTTATT
4597984 TTTT
1 TTTT
4597988 TCAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:4599880 original size:6 final size:6
Alignment explanation
Indices: 4599869--4599906 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
4599859 ATATTGCTGC
4599869 CAGAAG CAGAAG CAGAAG CAGAAG CAGAAG CAG-AG CAG
1 CAGAAG CAGAAG CAGAAG CAGAAG CAGAAG CAGAAG CAG
4599907 GATGGATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.47, C:0.18, G:0.34, T:0.00
Consensus pattern (6 bp):
CAGAAG
Found at i:4600533 original size:19 final size:19
Alignment explanation
Indices: 4600511--4600561 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
4600501 TGATTTTTTT
4600511 AATATTAATTAAAAATTAA
1 AATATTAATTAAAAATTAA
4600530 AATA-TATATTAAAAATTAA
1 AATATTA-ATTAAAAATTAA
*
4600549 AAAATTAATTAAA
1 AATATTAATTAAA
4600562 CTCATAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 25 0.86
20 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AATATTAATTAAAAATTAA
Found at i:4601763 original size:25 final size:25
Alignment explanation
Indices: 4601734--4601783 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4601724 TTCGACCGAA
4601734 GCCTTAGAGATATTAGTTATGCTAC
1 GCCTTAGAGATATTAGTTATGCTAC
4601759 GCCTTAGAGATATTAGTTATGCTAC
1 GCCTTAGAGATATTAGTTATGCTAC
4601784 TGTCATTCTG
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:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
GCCTTAGAGATATTAGTTATGCTAC
Found at i:4607905 original size:29 final size:30
Alignment explanation
Indices: 4607855--4607930 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
4607845 TTAATTTAAT
* **
4607855 ATTAAATTTTGTCACTTTATTTT-TGTTTAG
1 ATTAAATTTTATCACTAAATTTTAT-TTTAG
*
4607885 -TTAAATTTTATCACTAAATTTTAATTTTTG
1 ATTAAATTTTATCACTAAATTTT-ATTTTAG
4607915 ATTAAATTTTATCACT
1 ATTAAATTTTATCACT
4607931 CAACTTTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 19 0.49
30 4 0.10
31 16 0.41
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (30 bp):
ATTAAATTTTATCACTAAATTTTATTTTAG
Found at i:4608161 original size:18 final size:19
Alignment explanation
Indices: 4608138--4608177 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
4608128 AAAATTAAGT
4608138 ATTAAAATTTAATAA-AAA
1 ATTAAAATTTAATAACAAA
*
4608156 ATTAAAATTTAGTAACAAA
1 ATTAAAATTTAATAACAAA
4608175 ATT
1 ATT
4608178 CATTCTGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATTAAAATTTAATAACAAA
Found at i:4609155 original size:19 final size:19
Alignment explanation
Indices: 4609083--4609149 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
4609073 TATCAACTTA
4609083 ATAAAATATAATAATAATAAT
1 ATAAAATATAAT--TAATAAT
* **
4609104 TTAAAA-AT-ATTTTTCAAT
1 ATAAAATATAATTAAT-AAT
4609122 ATAAAATATAATTAATAAT
1 ATAAAATATAATTAATAAT
*
4609141 ATTAAATAT
1 ATAAAATAT
4609150 CTTTAACTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
17 2 0.06
18 8 0.22
19 15 0.42
20 6 0.17
21 5 0.14
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAATATAATTAATAAT
Found at i:4614565 original size:19 final size:19
Alignment explanation
Indices: 4614518--4614568 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
4614508 TGTTTCTAAG
4614518 ATTATATTAAAAAGTTATT
1 ATTATATTAAAAAGTTATT
* *
4614537 ATTTTAATTAAAAATTTA-T
1 ATTAT-ATTAAAAAGTTATT
4614556 ATTAATATTAAAA
1 ATT-ATATTAAAA
4614569 TATATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTATATTAAAAAGTTATT
Found at i:4616672 original size:18 final size:18
Alignment explanation
Indices: 4616651--4616716 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
4616641 TGTATTTAAA
4616651 TTATAT-TTATTTTATTTT
1 TTATATATTATTTTA-TTT
*
4616669 TTATTATAATTATATTATTT
1 TTA-TAT-ATTATTTTATTT
* *
4616689 TTATATATTAATATATTT
1 TTATATATTATTTTATTT
4616707 TTATAT-TTAT
1 TTATATATTAT
4616717 GTCATATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.08
18 18 0.45
19 6 0.15
20 6 0.15
21 7 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATATTATTTTATTT
Found at i:4616673 original size:27 final size:27
Alignment explanation
Indices: 4616621--4616689 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
4616611 CATAGATTTA
*
4616621 TAAA-TATATTTA-TTAATTTATGTATT
1 TAAATTATATTTATTTTATTTATGTA-T
*
4616647 TAAATTATATTTATTTTATTT-TTTAT
1 TAAATTATATTTATTTTATTTATGTAT
4616673 TATAATTATA-TTATTTT
1 TA-AATTATATTTATTTT
4616690 TATATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 14 0.37
27 18 0.47
28 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (27 bp):
TAAATTATATTTATTTTATTTATGTAT
Found at i:4616674 original size:21 final size:21
Alignment explanation
Indices: 4616650--4616772 Score: 65
Period size: 21 Copynumber: 5.4 Consensus size: 21
4616640 ATGTATTTAA
4616650 ATTATATTTATTTTATTTTTT
1 ATTATATTTATTTTATTTTTT
* *
4616671 ATTATAATTATATTA-TTTTT
1 ATTATATTTATTTTATTTTTT
4616691 A-TATATTAATATATTT-TTATATTT
1 ATTATATT--TAT-TTTATT-T-TTT
*
4616715 ATGTCATATTTATATTATTTTTAT
1 AT-T-ATATTTATTTTATTTTT-T
4616739 CATGTTATATTATGATTTTATTATTTT
1 -A--TTATATT-T-ATTTTATT-TTTT
4616766 -TTATATT
1 ATTATATT
4616773 ATGTTTTAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 32
0.68 0.05 0.27
Matches are distributed among these distances:
19 5 0.06
20 6 0.08
21 16 0.20
22 3 0.04
23 10 0.13
24 8 0.10
25 11 0.14
26 3 0.04
27 14 0.18
28 3 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTATATTTATTTTATTTTTT
Found at i:4616697 original size:67 final size:66
Alignment explanation
Indices: 4616624--4616785 Score: 154
Period size: 67 Copynumber: 2.5 Consensus size: 66
4616614 AGATTTATAA
* *
4616624 ATATATTTATTAATTTATGTATTTAAATTATATTTATTTTATTTTTTATTATAATTATATTAT-T
1 ATATATTTATTAATTTATGTATTTAAATTATATTTATATTA-TTTTTATCAT-ATTATATTATAT
4616688 TTT
64 TTT
* * * ** * *
4616691 ATATA-TTAATATATTTTTATATTTATGTCATATTTATATTATTTTTATCATGTTATATTATGAT
1 ATATATTTATTA-ATTTATGTATTTAAATTATATTTATATTATTTTTATCATATTATATTAT-AT
4616755 TTT
64 TTT
*
4616758 AT-TATTT-TTTATATTATGT-TTTAAATTA
1 ATATATTTATTAAT-TTATGTATTTAAATTA
4616786 ATATGTTTGG
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
65 17 0.23
66 21 0.28
67 36 0.49
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (66 bp):
ATATATTTATTAATTTATGTATTTAAATTATATTTATATTATTTTTATCATATTATATTATATTT
T
Found at i:4616703 original size:27 final size:27
Alignment explanation
Indices: 4616649--4616703 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
4616639 TATGTATTTA
* * *
4616649 AATTATATTTATTTTATTTTTTATTAT
1 AATTATATTTATTTTATATATTAATAT
4616676 AATTATA-TTATTTTTATATATTAATAT
1 AATTATATTTA-TTTTATATATTAATAT
4616703 A
1 A
4616704 TTTTTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
AATTATATTTATTTTATATATTAATAT
Found at i:4616774 original size:12 final size:12
Alignment explanation
Indices: 4616743--4616785 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
4616733 TTTTATCATG
*
4616743 TTATATTATGAT
1 TTATATTATGTT
*
4616755 TT-TATTATTTT
1 TTATATTATGTT
4616766 TTATATTATGTT
1 TTATATTATGTT
*
4616778 TTAAATTA
1 TTATATTA
4616786 ATATGTTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (12 bp):
TTATATTATGTT
Found at i:4617267 original size:11 final size:11
Alignment explanation
Indices: 4617251--4617316 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
4617241 TTTTATTATG
4617251 TATATTTATAT
1 TATATTTATAT
4617262 TATATTTATAT
1 TATATTTATAT
*
4617273 TAATTTTTATAT
1 T-ATATTTATAT
* *
4617285 TATAATCATAT
1 TATATTTATAT
* *
4617296 TTTAATTATCA-
1 TATATTTAT-AT
4617307 TATATTTATA
1 TATATTTATA
4617317 AAATTTTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
10 1 0.02
11 33 0.73
12 11 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTTATAT
Found at i:4617462 original size:16 final size:16
Alignment explanation
Indices: 4617443--4617513 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
4617433 AAATTTGTAA
4617443 ATTTTATATCATATTT
1 ATTTTATATCATATTT
*
4617459 ATTTTATAT-AAATTTT
1 ATTTTATATCATA-TTT
* * *
4617475 AATATATTAACATATTT
1 ATTTTA-TATCATATTT
*
4617492 ATTTTATAGTCTTATTT
1 ATTTTATA-TCATATTT
4617509 -TTTTA
1 ATTTTA
4617514 AATCGTAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
15 2 0.05
16 23 0.55
17 15 0.36
18 2 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (16 bp):
ATTTTATATCATATTT
Found at i:4617739 original size:16 final size:16
Alignment explanation
Indices: 4617718--4617748 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4617708 TATTCAATCT
*
4617718 AATAAAAATTTAAAAA
1 AATAAAAATCTAAAAA
4617734 AATAAAAATCTAAAA
1 AATAAAAATCTAAAA
4617749 CAAAGCAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAAATCTAAAAA
Found at i:4618348 original size:25 final size:25
Alignment explanation
Indices: 4618291--4618348 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
4618281 AAAAATAATT
* * * *
4618291 TTTAATAAAATTAAATATTTAAATA
1 TTTATTAAAATAAAATAGTTAAAAA
4618316 -TTATTTAAAATAAAATAGTTAAAAA
1 TTTA-TTAAAATAAAATAGTTAAAAA
4618341 TTTATTAA
1 TTTATTAA
4618349 TTTTATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 3 0.11
25 21 0.78
26 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTATTAAAATAAAATAGTTAAAAA
Found at i:4618845 original size:22 final size:24
Alignment explanation
Indices: 4618820--4618877 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 24
4618810 TTTTTTAAAA
4618820 AAATATTTTTAAAA-T-TTTTATT
1 AAATATTTTTAAAATTATTTTATT
4618842 AAATA--TTTAAAATTATTTTATT
1 AAATATTTTTAAAATTATTTTATT
* *
4618864 AAAAATTATTAAAA
1 AAATATTTTTAAAA
4618878 AATATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 7 0.23
21 1 0.03
22 16 0.53
24 6 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AAATATTTTTAAAATTATTTTATT
Found at i:4620007 original size:2 final size:2
Alignment explanation
Indices: 4620000--4620032 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4619990 TTTTGTGATC
4620000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4620033 GCTTGATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4620369 original size:2 final size:2
Alignment explanation
Indices: 4620362--4620393 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4620352 ATTAAAGATA
4620362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4620394 GAATTGATTG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4621516 original size:34 final size:34
Alignment explanation
Indices: 4621478--4621569 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 34
4621468 AAATATCTTA
* * * * *
4621478 CTCACCTAATATATTACCTAACATACCTAATATG
1 CTCACCTAACACATCACCTAACACACCTAACATG
*
4621512 CTCACCTAACACATCACCTAATACACCTAACATG
1 CTCACCTAACACATCACCTAACACACCTAACATG
*
4621546 CTTCACCTAACACACCACCTAACA
1 C-TCACCTAACACATCACCTAACA
4621570 AAGAAATTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 29 0.59
35 20 0.41
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (34 bp):
CTCACCTAACACATCACCTAACACACCTAACATG
Found at i:4623253 original size:17 final size:17
Alignment explanation
Indices: 4623227--4623262 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4623217 ATATCTGGTA
*
4623227 TTTTACTTTTTCACTTT
1 TTTTACTTTTTCAATTT
*
4623244 TTTTATTTTTTCAATTT
1 TTTTACTTTTTCAATTT
4623261 TT
1 TT
4623263 GTGGTGATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTACTTTTTCAATTT
Found at i:4626346 original size:22 final size:23
Alignment explanation
Indices: 4626319--4626369 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
4626309 AACTCATTGT
*
4626319 CTAACATACCTAATATG-TTTAC
1 CTAACATACCTAATATGCTTCAC
4626341 CTAACATACCTAATATGCTTCAC
1 CTAACATACCTAATATGCTTCAC
4626364 CTAACA
1 CTAACA
4626370 CACCACCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.31
Consensus pattern (23 bp):
CTAACATACCTAATATGCTTCAC
Found at i:4629605 original size:2 final size:2
Alignment explanation
Indices: 4629598--4629642 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4629588 TAAAAAGTAA
4629598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4629640 AT A
1 AT A
4629643 CACCTTCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4631054 original size:6 final size:6
Alignment explanation
Indices: 4631022--4631070 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
4631012 TTTTTTTATT
* *
4631022 TTTTAA TTAATTAA TTTAAA ATTTAA TTTTAA TTTTAA TTTTAA TTTTA
1 TTTTAA TT--TTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
4631071 TTATGTTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 31 0.84
8 6 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
TTTTAA
Found at i:4632330 original size:32 final size:33
Alignment explanation
Indices: 4632276--4632339 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
4632266 AAGTATTATA
4632276 TATTATAAAAATTTTAACATATTAATA-ATTTG
1 TATTATAAAAATTTTAACATATTAATATATTTG
* *
4632308 TATTATATAAAATTTT-ATATATTTATATATTT
1 TATTATA-AAAATTTTAACATATTAATATATTT
4632340 ATTTTAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (33 bp):
TATTATAAAAATTTTAACATATTAATATATTTG
Found at i:4633184 original size:18 final size:18
Alignment explanation
Indices: 4633161--4633197 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4633151 TCCACCTAAT
4633161 GTACTATACATACTTAAA
1 GTACTATACATACTTAAA
4633179 GTACTATACATACTTAAA
1 GTACTATACATACTTAAA
4633197 G
1 G
4633198 GATAATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.32
Consensus pattern (18 bp):
GTACTATACATACTTAAA
Found at i:4634470 original size:2 final size:2
Alignment explanation
Indices: 4634458--4634506 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
4634448 TGATCAAAAC
*
4634458 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4634500 AT AT AT A
1 AT AT AT A
4634507 ATGAAGATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4634679 original size:2 final size:2
Alignment explanation
Indices: 4634667--4634713 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
4634657 CATTCCTAAC
4634667 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4634710 AT AT
1 AT AT
4634714 GTATCTGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4635043 original size:2 final size:2
Alignment explanation
Indices: 4635036--4635087 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
4635026 CTAGGTGTGC
*
4635036 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4635078 AT AT GT AT AT
1 AT AT AT AT AT
4635088 GATTCCTAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4635588 original size:6 final size:6
Alignment explanation
Indices: 4635574--4635657 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
4635564 CTATTCAAAA
* *
4635574 AATAAT AATATT AATATT AATATT AATATT AATA-T -ATATT TATATT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
* ** *
4635620 TATATT AAATAAC AATAAT AATAATT AA-ATT AA-ATT AA
1 AATATT -AATATT AATATT AAT-ATT AATATT AATATT AA
4635658 ATTTTAATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
4 3 0.04
5 12 0.18
6 46 0.68
7 7 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (6 bp):
AATATT
Found at i:4641449 original size:6 final size:6
Alignment explanation
Indices: 4641438--4641490 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
4641428 AATACCCAAT
* * * *
4641438 ACCCAG ACCCAG ACCCAG ACCCAG ACCCAA ACCCAA ACCCAA ATCCAG
1 ACCCAG ACCCAG ACCCAG ACCCAG ACCCAG ACCCAG ACCCAG ACCCAG
4641486 ACCCA
1 ACCCA
4641491 AAGCAACAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.40, C:0.49, G:0.09, T:0.02
Consensus pattern (6 bp):
ACCCAG
Found at i:4641461 original size:18 final size:18
Alignment explanation
Indices: 4641431--4641492 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
4641421 GACTTACAAT
4641431 ACCCAATACCCAGACCCAG
1 ACCCAA-ACCCAGACCCAG
* *
4641450 ACCCAGACCCAGACCCAA
1 ACCCAAACCCAGACCCAG
* *
4641468 ACCCAAACCCAAATCCAG
1 ACCCAAACCCAGACCCAG
4641486 ACCCAAA
1 ACCCAAA
4641493 GCAACAGAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
18 32 0.86
19 5 0.14
ACGTcount: A:0.42, C:0.47, G:0.08, T:0.03
Consensus pattern (18 bp):
ACCCAAACCCAGACCCAG
Found at i:4643648 original size:33 final size:32
Alignment explanation
Indices: 4643606--4643672 Score: 125
Period size: 33 Copynumber: 2.1 Consensus size: 32
4643596 TATTAGAAGG
4643606 TCCTAAGCATTCTTAAGAAGGCTTCAGTAGTTT
1 TCCTAAGCATTCTTAAGAAGGC-TCAGTAGTTT
4643639 TCCTAAGCATTCTTAAGAAGGCTCAGTAGTTT
1 TCCTAAGCATTCTTAAGAAGGCTCAGTAGTTT
4643671 TC
1 TC
4643673 TTTTTTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 12 0.35
33 22 0.65
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (32 bp):
TCCTAAGCATTCTTAAGAAGGCTCAGTAGTTT
Found at i:4645225 original size:2 final size:2
Alignment explanation
Indices: 4645220--4645244 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4645210 CTCTCTCTCT
4645220 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
4645245 TTGTGTGTGC
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:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4648604 original size:3 final size:3
Alignment explanation
Indices: 4648596--4648624 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4648586 TTAATTCCTT
4648596 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
4648625 TAGTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Done.