Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 69 of 356
Found at i:21888111 original size:21 final size:20
Alignment explanation
Indices: 21888087--21888127 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
21888077 TAAAATCAAG
* *
21888087 GTTTGGTTTGAGAAGCTGCTT
1 GTTTGGGTTGAAAAG-TGCTT
21888108 GTTTGGGTTGAAAAGTGCTT
1 GTTTGGGTTGAAAAGTGCTT
21888128 TTGAACCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.07, G:0.34, T:0.41
Consensus pattern (20 bp):
GTTTGGGTTGAAAAGTGCTT
Found at i:21888650 original size:29 final size:26
Alignment explanation
Indices: 21888617--21888689 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 26
21888607 AAAAATATTA
*
21888617 TTTTAGAATTTTTTTTATTTTTATATAT
1 TTTTAG-ATTTTTTTTATTTTTA-AAAT
21888645 TCTTTAGATTTTTTTAATATTTTTAAAAT
1 T-TTTAGATTTTTTT--TATTTTTAAAAT
*
21888674 TTTTATATTTTTTTTA
1 TTTTAGATTTTTTTTA
21888690 AAAATGGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 2 0.05
28 21 0.52
29 9 0.22
30 8 0.20
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTTAGATTTTTTTTATTTTTAAAAT
Found at i:21888675 original size:20 final size:20
Alignment explanation
Indices: 21888634--21888692 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
21888624 ATTTTTTTTA
*
21888634 TTTTTATATATTCTTT-AGATT
1 TTTTTA-ATATT-TTTAAAATT
21888655 TTTTTAATATTTTTAAAATT
1 TTTTTAATATTTTTAAAATT
* * *
21888675 TTTATATTTTTTTTAAAA
1 TTTTTAATATTTTTAAAA
21888693 ATGGACCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.09
20 24 0.73
21 6 0.18
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTAATATTTTTAAAATT
Found at i:21893349 original size:3 final size:3
Alignment explanation
Indices: 21893341--21893372 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
21893331 TTTAGTTTCC
21893341 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21893373 ACCCCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21898801 original size:23 final size:23
Alignment explanation
Indices: 21898774--21898818 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
21898764 CTTTGGGGTA
*
21898774 CTTGGTGCTTGTTCAAGACATTG
1 CTTGGTGCTTGTTCAAAACATTG
21898797 CTTGGTGCTTGTTCAAAACATT
1 CTTGGTGCTTGTTCAAAACATT
21898819 TTCTTACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (23 bp):
CTTGGTGCTTGTTCAAAACATTG
Found at i:21899668 original size:66 final size:65
Alignment explanation
Indices: 21899529--21899666 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 65
21899519 CTATACGTGT
* *
21899529 TAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAAAAATGTATCAATTATATGTG
1 TAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAAAAATATAT-AATTATATGTC
*
21899594 T
65 C
* * * * *
21899595 TAATTTTGATGTCTCAAGTTTTTGATATAACAATATTTAAGAT-AAATTATATATATTATATTTC
1 TAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAAAAATATATA-ATTATATGTC
21899659 C
65 C
21899660 TAATTTT
1 TAATTTT
21899667 TGTGAAAATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 1 0.02
65 22 0.35
66 40 0.63
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (65 bp):
TAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAAAAATATATAATTATATGTCC
Found at i:21908637 original size:12 final size:12
Alignment explanation
Indices: 21908620--21908654 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
21908610 CGATATCTCA
21908620 ATTTCAATTCAC
1 ATTTCAATTCAC
21908632 ATTTCAATTCAC
1 ATTTCAATTCAC
21908644 ATTTCAATTCA
1 ATTTCAATTCA
21908655 TAATTTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTTCAATTCAC
Found at i:21909924 original size:16 final size:17
Alignment explanation
Indices: 21909893--21909925 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21909883 GAATTTTATC
21909893 CAATTTATACCCTAATT
1 CAATTTATACCCTAATT
*
21909910 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
21909926 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
CAATTTATACCCTAATT
Found at i:21910425 original size:3 final size:3
Alignment explanation
Indices: 21910417--21910446 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21910407 ATATATTAGT
21910417 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21910447 ATATCTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21910870 original size:5 final size:5
Alignment explanation
Indices: 21910862--21910904 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
21910852 TATTTATTTC
*
21910862 ATAAT ATAAT ATAAT ATAAT ATAATT ATAAT ATTATT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT A-TAAT ATAAT A
21910905 ATTTAACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:21926603 original size:32 final size:32
Alignment explanation
Indices: 21926567--21926632 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
21926557 AAATGGTTGA
*
21926567 ATTTCAAATTTCGGGATTAAGGACTAAATTGT
1 ATTTCAAATTTCAGGATTAAGGACTAAATTGT
21926599 ATTTCAAATTTCAGGATTAAGGACTAAATTGT
1 ATTTCAAATTTCAGGATTAAGGACTAAATTGT
21926631 AT
1 AT
21926633 AAAGGTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (32 bp):
ATTTCAAATTTCAGGATTAAGGACTAAATTGT
Found at i:21928142 original size:17 final size:18
Alignment explanation
Indices: 21928103--21928143 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21928093 CCTAAAATTT
*
21928103 CACACGTCCGTGTGGGCC
1 CACACGCCCGTGTGGGCC
*
21928121 TACACGCCCGTGT-GGCC
1 CACACGCCCGTGTGGGCC
21928138 CACACG
1 CACACG
21928144 TTTCAATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (18 bp):
CACACGCCCGTGTGGGCC
Found at i:21934081 original size:30 final size:30
Alignment explanation
Indices: 21934045--21934103 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
21934035 TTATTAAAAA
* *
21934045 GAATAACTATTAATCTTGATAAAGTTAACT
1 GAATAACCATTAATCTTGATAAAATTAACT
21934075 GAATAACCATTAATCTTGATAAAATTAAC
1 GAATAACCATTAATCTTGATAAAATTAAC
21934104 CGTTATAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (30 bp):
GAATAACCATTAATCTTGATAAAATTAACT
Found at i:21934101 original size:15 final size:15
Alignment explanation
Indices: 21934053--21934102 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
21934043 AAGAATAACT
21934053 ATTAATCTTGATAAA
1 ATTAATCTTGATAAA
* *
21934068 GTTAA-C-TGAATAACC
1 ATTAATCTTG-ATAA-A
21934083 ATTAATCTTGATAAA
1 ATTAATCTTGATAAA
21934098 ATTAA
1 ATTAA
21934103 CCGTTATAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
13 2 0.07
14 5 0.19
15 13 0.48
16 5 0.19
17 2 0.07
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (15 bp):
ATTAATCTTGATAAA
Found at i:21935647 original size:30 final size:30
Alignment explanation
Indices: 21935613--21935673 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
21935603 ATGACGCCAC
*
21935613 GTCATCTGTATCCCTTTCCAATAGTTTTAT
1 GTCATCTGTATCCATTTCCAATAGTTTTAT
21935643 GTCATCTGTATCCATTTCCAATAGTTTTAT
1 GTCATCTGTATCCATTTCCAATAGTTTTAT
21935673 G
1 G
21935674 CCACATCCGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.46
Consensus pattern (30 bp):
GTCATCTGTATCCATTTCCAATAGTTTTAT
Found at i:21939202 original size:3 final size:3
Alignment explanation
Indices: 21939178--21939224 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
21939168 AATATCCTTG
*
21939178 TTA TTT TTA -TA TTA TTGA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
21939222 TTA
1 TTA
21939225 GTATGTACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 3 0.08
3 35 0.90
4 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:21939455 original size:31 final size:31
Alignment explanation
Indices: 21939420--21939480 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
21939410 TTTATTACTT
* *
21939420 TATTTCAATATCT-TTATTGTATTTGTTTTTG
1 TATTTCAATAT-TGTTATTATATTTATTTTTG
21939451 TATTTCAATATTGTTATTATATTTATTTTT
1 TATTTCAATATTGTTATTATATTTATTTTT
21939481 ATTATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (31 bp):
TATTTCAATATTGTTATTATATTTATTTTTG
Found at i:21939844 original size:24 final size:22
Alignment explanation
Indices: 21939814--21939870 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
21939804 ACTATATGTG
*
21939814 TATATATTATGTAAATGTTTTAA
1 TATATATTATGTAAACGTTTT-A
* *
21939837 TATTATATTATATATACGTTTTA
1 TA-TATATTATGTAAACGTTTTA
21939860 TATATATTATG
1 TATATATTATG
21939871 AACATGTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 5 0.17
24 16 0.55
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (22 bp):
TATATATTATGTAAACGTTTTA
Found at i:21947771 original size:26 final size:26
Alignment explanation
Indices: 21947735--21947844 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
21947725 TGATACAAAT
*
21947735 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
21947761 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
21947787 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
21947813 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
21947839 TGATAA
1 TGATAA
21947845 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:21951002 original size:10 final size:11
Alignment explanation
Indices: 21950986--21951015 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
21950976 CAATTTATGA
21950986 AAAAATAAAAT
1 AAAAATAAAAT
21950997 -AAAATAAAAT
1 AAAAATAAAAT
21951007 AAAAATAAA
1 AAAAATAAA
21951016 GAACACGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:21951283 original size:16 final size:17
Alignment explanation
Indices: 21951262--21951299 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
21951252 TTCTATATGG
*
21951262 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
21951278 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
21951296 ATTT
1 ATTT
21951300 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:21953179 original size:20 final size:18
Alignment explanation
Indices: 21953132--21953180 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
21953122 CAAGATAAAC
21953132 ATTAAATTAA-ACTTAAT
1 ATTAAATTAATACTTAAT
21953149 ATTAAGA-TAATCACTTCAAT
1 ATTAA-ATTAAT-ACTT-AAT
21953169 ATTAAATTAATA
1 ATTAAATTAATA
21953181 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 6 0.22
20 12 0.44
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (18 bp):
ATTAAATTAATACTTAAT
Found at i:21958724 original size:30 final size:29
Alignment explanation
Indices: 21958680--21958742 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 29
21958670 GGAGAGGTTG
21958680 ACATGCACACTAACCAAAGAAATTTTCTA
1 ACATGCACACTAACCAAAGAAATTTTCTA
21958709 ACATGCACTACTAACCAAAGAAATTTTCTA
1 ACATGCAC-ACTAACCAAAGAAATTTTCTA
21958739 ACAT
1 ACAT
21958743 ATTACGAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.25
Consensus pattern (29 bp):
ACATGCACACTAACCAAAGAAATTTTCTA
Found at i:21961891 original size:21 final size:19
Alignment explanation
Indices: 21961835--21961894 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 19
21961825 AGTTGCCGAA
*
21961835 CTTCTCTTCTTCTTTTTCT
1 CTTCTTTTCTTCTTTTTCT
* *
21961854 CTTCTTCTCTATTTTTTTCT
1 CTTCTTTTCT-TCTTTTTCT
21961874 CCTTCATTTTCTTCTTTTTCT
1 -CTTC-TTTTCTTCTTTTTCT
21961895 ATTAGTTGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 8 0.24
20 8 0.24
21 12 0.36
22 5 0.15
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.68
Consensus pattern (19 bp):
CTTCTTTTCTTCTTTTTCT
Found at i:21968948 original size:22 final size:23
Alignment explanation
Indices: 21968922--21968981 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
21968912 AGCTGTCGAA
21968922 CTTCTCTTCTTCTTTTTC-CCTT
1 CTTCTCTTCTTCTTTTTCTCCTT
**
21968944 CTTCTC-GATT-TTTTTCTCCTT
1 CTTCTCTTCTTCTTTTTCTCCTT
21968965 CATT-T-TTCTTCTTTTTC
1 C-TTCTCTTCTTCTTTTTC
21968982 AATTAGTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
20 6 0.20
21 10 0.33
22 14 0.47
ACGTcount: A:0.03, C:0.30, G:0.02, T:0.65
Consensus pattern (23 bp):
CTTCTCTTCTTCTTTTTCTCCTT
Found at i:21971761 original size:23 final size:22
Alignment explanation
Indices: 21971703--21971763 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
21971693 CGACACATAA
21971703 GTGCTTGAAATA-ACACACGAG
1 GTGCTTGAAATAGACACACGAG
* *
21971724 GTACCTG--ATACGACACACGAG
1 GTGCTTGAAATA-GACACACGAG
21971745 GTGCTTGAAATATGACACA
1 GTGCTTGAAATA-GACACA
21971764 TAAAGTGCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.10
21 19 0.61
23 9 0.29
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (22 bp):
GTGCTTGAAATAGACACACGAG
Found at i:21972261 original size:17 final size:18
Alignment explanation
Indices: 21972233--21972266 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21972223 AATTTCTATT
*
21972233 CAATTTATATCCTAATTC
1 CAATTTATATCCCAATTC
21972251 CAATTTA-ATCCCAATT
1 CAATTTATATCCCAATT
21972267 AACTCATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATATCCCAATTC
Found at i:21972762 original size:3 final size:3
Alignment explanation
Indices: 21972756--21972800 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
21972746 AAATATTATT
* * * *
21972756 TAA TAA TGA TAA TAA TTA TAA TAA TTA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21972801 ATATCTTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:21980571 original size:53 final size:52
Alignment explanation
Indices: 21980491--21980598 Score: 207
Period size: 53 Copynumber: 2.1 Consensus size: 52
21980481 AAGAGCTTTG
21980491 CATCCCACCCATCGTATTTAGGAAAAACTTCAAAAAAATGTGAAAAAAAAAGA
1 CATCCCACCCATCGTATTTAGGAAAAACTTCAAAAAAATGTG-AAAAAAAAGA
21980544 CATCCCACCCATCGTATTTAGGAAAAACTTCAAAAAAATGTGAAAAAAAAGA
1 CATCCCACCCATCGTATTTAGGAAAAACTTCAAAAAAATGTGAAAAAAAAGA
21980596 CAT
1 CAT
21980599 ATTTTGTCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 13 0.24
53 42 0.76
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.19
Consensus pattern (52 bp):
CATCCCACCCATCGTATTTAGGAAAAACTTCAAAAAAATGTGAAAAAAAAGA
Found at i:21980802 original size:28 final size:30
Alignment explanation
Indices: 21980754--21980810 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
21980744 TTAAATAATT
*
21980754 CAAAATATTAAAAATATTTATAAA-AAAAC
1 CAAAATATTAAAAATAATTATAAATAAAAC
21980783 CAAAA-ATTAATAAA-AATTATAAATAAAA
1 CAAAATATTAA-AAATAATTATAAATAAAA
21980811 ATAAAGATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (30 bp):
CAAAATATTAAAAATAATTATAAATAAAAC
Found at i:21983783 original size:15 final size:15
Alignment explanation
Indices: 21983763--21983796 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21983753 AGAAATCACA
21983763 GAAAATAAATTTTGG
1 GAAAATAAATTTTGG
**
21983778 GAAAATACTTTTTGG
1 GAAAATAAATTTTGG
21983793 GAAA
1 GAAA
21983797 TTCGATTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (15 bp):
GAAAATAAATTTTGG
Found at i:21995416 original size:30 final size:31
Alignment explanation
Indices: 21995350--21995418 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
21995340 CACCCTTAAA
* * * *
21995350 ATATTTGCACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
21995381 ATATTTACACT-TTAATCCCTCAAATTTTT-
1 ATATTTACACTATTAATCCCTCAAATTTTTC
21995410 AGTATTTAC
1 A-TATTTAC
21995419 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 22 0.67
31 10 0.30
ACGTcount: A:0.28, C:0.20, G:0.04, T:0.48
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:21996542 original size:14 final size:15
Alignment explanation
Indices: 21996522--21996560 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
21996512 TTGTTTCACT
21996522 AAAAATAATTTTCAG
1 AAAAATAATTTTCAG
*
21996537 -AAAATAA-TTTCTG
1 AAAAATAATTTTCAG
21996550 AAAAATAATTT
1 AAAAATAATTT
21996561 ACATTTCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.24
14 14 0.67
15 2 0.10
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (15 bp):
AAAAATAATTTTCAG
Found at i:22002447 original size:21 final size:21
Alignment explanation
Indices: 22002421--22002471 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
22002411 AGCGGTGGCG
*
22002421 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
22002442 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
22002463 GTGAGATTA
1 GTGAGATTA
22002472 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:22005767 original size:31 final size:31
Alignment explanation
Indices: 22005732--22005792 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
22005722 AATAGACCAA
*
22005732 TGACTTAAATAAAAACTTTTAAATAGTTCAG
1 TGACTTAAATAAAAACTTTCAAATAGTTCAG
*
22005763 TGACTTAAATGAAAACTTTCAAATAGTTCA
1 TGACTTAAATAAAAACTTTCAAATAGTTCA
22005793 ATAACCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAG
Found at i:22011472 original size:46 final size:46
Alignment explanation
Indices: 22011420--22011825 Score: 589
Period size: 46 Copynumber: 8.8 Consensus size: 46
22011410 AGTGTGCTCT
*
22011420 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
22011466 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
22011512 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
22011558 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
22011604 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
22011650 GTGATATGAAATGAATAAGACCATGGCTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
22011696 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
22011742 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
22011789 ATGACA-GAAAGCGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATGAAA-TGTGTAAGACCATGGTTGAAAGATAC
22011826 TATGACATCA
Statistics
Matches: 336, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 3 0.01
46 291 0.87
47 42 0.12
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:22014411 original size:11 final size:11
Alignment explanation
Indices: 22014377--22014416 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
22014367 TAATAACAAC
*
22014377 AAAATAGTAGC
1 AAAATAGTAGT
* *
22014388 AACATACTAGT
1 AAAATAGTAGT
22014399 AAAATAGTAGT
1 AAAATAGTAGT
22014410 AAAATAG
1 AAAATAG
22014417 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.23
Consensus pattern (11 bp):
AAAATAGTAGT
Found at i:22016107 original size:20 final size:20
Alignment explanation
Indices: 22016082--22016122 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
22016072 CTCTTCCATG
22016082 ACTGTTTTTCAGCTGAAGAA
1 ACTGTTTTTCAGCTGAAGAA
*
22016102 ACTGTTTTTCAGCTGATGAA
1 ACTGTTTTTCAGCTGAAGAA
22016122 A
1 A
22016123 ATGAAGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (20 bp):
ACTGTTTTTCAGCTGAAGAA
Found at i:22019936 original size:41 final size:39
Alignment explanation
Indices: 22019873--22020076 Score: 196
Period size: 41 Copynumber: 5.0 Consensus size: 39
22019863 GTGATTGAAT
* * *
22019873 ATAATACAGACGTTACGTCTAGCAGGCTTAATGCCGGTG
1 ATAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
22019912 AAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTG
1 -A-TAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
* *
22019953 ATACATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTG
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
* *
22019994 ATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
* * **
22020035 TACTGAA-TCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTG
1 -A-T-AATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
22020076 A
1 A
22020077 ATCTGTTTAA
Statistics
Matches: 144, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.01
40 7 0.05
41 129 0.90
42 3 0.02
43 2 0.01
44 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
ATAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
Found at i:22020059 original size:82 final size:81
Alignment explanation
Indices: 22019891--22020076 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 81
22019881 GACGTTACGT
*
22019891 CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATA
1 CTAGCAGGCTTAATGCCGGTG-AGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGATA
* * *
22019956 CATTTCAGACTATATGT
65 CATATCAGACTATAAGC
* *
22019973 CTAGCAGGCTTAATGCCGGTGA-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGTG-T
1 CTAGCAGGCTTAATGCCGGTGAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGAT
* *
22020036 AC-TGAATCAGGCTTTAAGC
64 ACAT--ATCAGACTATAAGC
**
22020055 CTAGCAGGCAAAATGCCGGTGA
1 CTAGCAGGCTTAATGCCGGTGA
22020077 ATCTGTTTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
80 3 0.03
81 5 0.06
82 82 0.91
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (81 bp):
CTAGCAGGCTTAATGCCGGTGAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGATAC
ATATCAGACTATAAGC
Found at i:22021950 original size:14 final size:15
Alignment explanation
Indices: 22021911--22021942 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22021901 TAAACATCAC
*
22021911 AAACATATTTACCAA
1 AAACATACTTACCAA
22021926 AAACATACTTACCAA
1 AAACATACTTACCAA
22021941 AA
1 AA
22021943 TATGCTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACATACTTACCAA
Found at i:22023000 original size:56 final size:56
Alignment explanation
Indices: 22022940--22023075 Score: 227
Period size: 56 Copynumber: 2.4 Consensus size: 56
22022930 TCCCAGACAG
* * *
22022940 GGTCTTACTCGCACACATAAATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACAT
*
22022996 GGTCTTACTCGCAGACATATATCGGAATCACATATCAATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACAT
*
22023052 GGTCTTACTCGTACACATATATCG
1 GGTCTTACTCGCACACATATATCG
22023076 ATGCCATGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACAT
Found at i:22033267 original size:42 final size:42
Alignment explanation
Indices: 22033207--22033305 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
22033197 TAGCTCTCAC
* *
22033207 GAGCTTCTATTTAACTCATATGAGTTTTCGTTCAGCTCTATT
1 GAGCTTCTGTTTAACTCATATGAGTTTTCCTTCAGCTCTATT
* *
22033249 GAGCTTCTGTTTATCTCATATGAGTTTTCCTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCATATGAGTTTTCCTTCAGCTCTATT
22033291 GAGCTTCTGTTTAAC
1 GAGCTTCTGTTTAAC
22033306 CCTTATGGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (42 bp):
GAGCTTCTGTTTAACTCATATGAGTTTTCCTTCAGCTCTATT
Found at i:22033321 original size:21 final size:21
Alignment explanation
Indices: 22033295--22033364 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
22033285 TCTTTTGAGC
*
22033295 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
* * * *
22033316 TTCTGTTCAACTCTTACGAGC
1 TTCTGTTCAACCCTTATGGGT
*
22033337 TTCTGTTCAACCTTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
22033358 TTCTGTT
1 TTCTGTT
22033365 TAGCTCTCAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAACCCTTATGGGT
Found at i:22033330 original size:42 final size:42
Alignment explanation
Indices: 22033207--22033348 Score: 160
Period size: 42 Copynumber: 3.4 Consensus size: 42
22033197 TAGCTCTCAC
* * *
22033207 GAGCTTCTATTTAACTCATATGAGTTTTCGTTCAGCTCTATT
1 GAGCTTCTGTTTAACCCATATGAGTTTTCGTTCAGCTCTTTT
* * *
22033249 GAGCTTCTGTTTATCTCATATGAGTTTTCCTTCAGCTCTTTT
1 GAGCTTCTGTTTAACCCATATGAGTTTTCGTTCAGCTCTTTT
* * * **
22033291 GAGCTTCTGTTTAACCCTTATG-GGTTTCTGTTCAACTCTTAC
1 GAGCTTCTGTTTAACCCATATGAGTTTTC-GTTCAGCTCTTTT
*
22033333 GAGCTTCTGTTCAACC
1 GAGCTTCTGTTTAACC
22033349 TTTATGGGTT
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 5 0.06
42 81 0.94
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCCATATGAGTTTTCGTTCAGCTCTTTT
Found at i:22033354 original size:42 final size:42
Alignment explanation
Indices: 22033291--22033392 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
22033281 CAGCTCTTTT
* * *
22033291 GAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAACTCTTAC
1 GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTCAACTCTCAC
* * *
22033333 GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTCAACTCTCAC
* *
22033375 GAGCTTTTGTTCAGCCTT
1 GAGCTTCTGTTCAACCTT
22033393 CGGGCTTTCG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (42 bp):
GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTCAACTCTCAC
Found at i:22035277 original size:20 final size:20
Alignment explanation
Indices: 22035252--22035320 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
22035242 CAAGGTTAAC
22035252 CAAACTAATTTGCATTATTT
1 CAAACTAATTTGCATTATTT
* *
22035272 CAAACTAA-GT-CACTTATTAAC
1 CAAACTAATTTGCA-TTATT--T
22035293 CAAACTAATTTGCATTATTT
1 CAAACTAATTTGCATTATTT
22035313 CAAACTAA
1 CAAACTAA
22035321 GTTACTTACC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 2 0.05
19 6 0.15
20 16 0.40
21 8 0.20
22 6 0.15
23 2 0.05
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (20 bp):
CAAACTAATTTGCATTATTT
Found at i:22035304 original size:41 final size:41
Alignment explanation
Indices: 22035247--22035328 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
22035237 GTACCCAAGG
22035247 TTAACCAAACTAATTTGCATTATTTCAAACTAAGTCACTTA
1 TTAACCAAACTAATTTGCATTATTTCAAACTAAGTCACTTA
*
22035288 TTAACCAAACTAATTTGCATTATTTCAAACTAAGTTACTTA
1 TTAACCAAACTAATTTGCATTATTTCAAACTAAGTCACTTA
22035329 CCTATCAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (41 bp):
TTAACCAAACTAATTTGCATTATTTCAAACTAAGTCACTTA
Found at i:22036582 original size:21 final size:22
Alignment explanation
Indices: 22036552--22036628 Score: 133
Period size: 21 Copynumber: 3.6 Consensus size: 22
22036542 AGCTTGAAAG
22036552 TTGAACAGAAGCTCGTAAGAGC
1 TTGAACAGAAGCTCGTAAGAGC
22036574 TTG-ACAGAAGCTCGTAAGAGC
1 TTGAACAGAAGCTCGTAAGAGC
22036595 -TGAACAGAAGCTCGTAAGAG-
1 TTGAACAGAAGCTCGTAAGAGC
22036615 TTGAACAGAAGCTC
1 TTGAACAGAAGCTC
22036629 AAAAAACTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.04
21 48 0.91
22 3 0.06
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (22 bp):
TTGAACAGAAGCTCGTAAGAGC
Found at i:22038224 original size:18 final size:18
Alignment explanation
Indices: 22038201--22038238 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22038191 AATATATATT
22038201 AACCCAAGTACCCAAACC
1 AACCCAAGTACCCAAACC
* *
22038219 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAAACC
22038237 AA
1 AA
22038239 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.45, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAAACC
Found at i:22038305 original size:20 final size:20
Alignment explanation
Indices: 22038267--22038305 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22038257 ATTTAATAAA
**
22038267 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
*
22038287 TAAAACTAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
22038306 ATATAATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:22038337 original size:9 final size:9
Alignment explanation
Indices: 22038323--22038372 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
22038313 TTTATACAAA
22038323 TAATTCGGT
1 TAATTCGGT
*
22038332 TAATTC-TT
1 TAATTCGGT
*
22038340 GTAATTCGGG
1 -TAATTCGGT
22038350 TAATTCGGT
1 TAATTCGGT
22038359 TAATTCGGT
1 TAATTCGGT
22038368 TAATT
1 TAATT
22038373 TTATACTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 1 0.03
9 34 0.97
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:22039324 original size:39 final size:41
Alignment explanation
Indices: 22039245--22039334 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 41
22039235 TTAAAAATAT
* * *
22039245 TTATATTAAAAAACACTATTATGAATATAATAAATATTTTA
1 TTATATTAAAAAACACTATAATAAACATAATAAATATTTTA
22039286 TTATATTAAAAAACA-TA-AATAAACATAATAAATATTTTA
1 TTATATTAAAAAACACTATAATAAACATAATAAATATTTTA
*
22039325 TTGTATTAAA
1 TTATATTAAA
22039335 TATAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 28 0.62
40 2 0.04
41 15 0.33
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (41 bp):
TTATATTAAAAAACACTATAATAAACATAATAAATATTTTA
Found at i:22039502 original size:31 final size:29
Alignment explanation
Indices: 22039437--22039502 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
22039427 GTTATTAATT
22039437 TAATATAAATATATAATTATTATTTAACA
1 TAATATAAATATATAATTATTATTTAACA
* *
22039466 T-ATATAATTAATATAA-TATTTTTTATAACA
1 TAATATAAAT-ATATAATTA-TTATT-TAACA
22039496 TAATATA
1 TAATATA
22039503 TATTCGAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 9 0.29
29 11 0.35
30 6 0.19
31 5 0.16
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
TAATATAAATATATAATTATTATTTAACA
Found at i:22055038 original size:23 final size:23
Alignment explanation
Indices: 22055011--22055062 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
22055001 AGTAATATAC
*
22055011 AAAATAATATACATTAA-TTTAA
1 AAAATAATATACATAAATTTTAA
22055033 ATAAATAATATACATAAATTTTAA
1 A-AAATAATATACATAAATTTTAA
22055057 AAAATA
1 AAAATA
22055063 GTGTAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 20 0.74
24 6 0.22
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATATACATAAATTTTAA
Found at i:22060385 original size:17 final size:17
Alignment explanation
Indices: 22060363--22060410 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
22060353 TGTTTGTAAG
22060363 TATAAATACAAAATAAT
1 TATAAATACAAAATAAT
*
22060380 TATAAATACAATATAAT
1 TATAAATACAAAATAAT
* *
22060397 TATGAATATAAAAT
1 TATAAATACAAAAT
22060411 TAAATTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
TATAAATACAAAATAAT
Found at i:22061530 original size:3 final size:3
Alignment explanation
Indices: 22061522--22061551 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22061512 ATGCAATAAG
22061522 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
22061552 TTTTGCACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:22061723 original size:15 final size:15
Alignment explanation
Indices: 22061703--22061732 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22061693 CATGTGGCAA
22061703 AAAAATAATAAAAAT
1 AAAAATAATAAAAAT
*
22061718 AAAAATTATAAAAAT
1 AAAAATAATAAAAAT
22061733 TATTAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:22061731 original size:10 final size:9
Alignment explanation
Indices: 22061716--22061824 Score: 71
Period size: 10 Copynumber: 11.7 Consensus size: 9
22061706 AATAATAAAA
22061716 ATAAAAATT
1 ATAAAAATT
22061725 ATAAAAATT
1 ATAAAAATT
*
22061734 AT-TAAATT
1 ATAAAAATT
*
22061742 ATAATAAAAAT
1 AT-A-AAAATT
22061753 ATAAAAA-T
1 ATAAAAATT
* *
22061761 ACTTAAATTT
1 A-TAAAAATT
22061771 ATTAAAAATT
1 A-TAAAAATT
*
22061781 AGAAAAAATT
1 A-TAAAAATT
22061791 AT-AAAATAT
1 ATAAAAAT-T
*
22061800 ATAGAAATAT
1 ATAAAAAT-T
*
22061810 AGAAAAATT
1 ATAAAAATT
22061819 ATAAAA
1 ATAAAA
22061825 TTTTAATAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
8 14 0.18
9 28 0.36
10 30 0.38
11 6 0.08
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:22061756 original size:28 final size:29
Alignment explanation
Indices: 22061715--22061834 Score: 115
Period size: 28 Copynumber: 4.2 Consensus size: 29
22061705 AAATAATAAA
22061715 AATAAAAATTATAAAAATTATTAAATTAT
1 AATAAAAATTATAAAAATTATTAAATTAT
22061744 AATAAAAA-TATAAAAA-TACTTAAATT-T
1 AATAAAAATTATAAAAATTA-TTAAATTAT
* * *
22061771 ATTAAAAATTAGAAAAAATTA-TAAAATAT
1 AATAAAAATTA-TAAAAATTATTAAATTAT
* * * *
22061800 -ATAGAAATATAGAAAAATTATAAAATTTT
1 AATAAAAAT-TATAAAAATTATTAAATTAT
22061829 AATAAA
1 AATAAA
22061835 CCTAAATATA
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
27 10 0.14
28 36 0.49
29 21 0.29
30 6 0.08
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (29 bp):
AATAAAAATTATAAAAATTATTAAATTAT
Found at i:22061773 original size:37 final size:35
Alignment explanation
Indices: 22061707--22061776 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
22061697 TGGCAAAAAA
*
22061707 ATAATAAAAATAAAAATTATAAAAATTATTAAATT
1 ATAATAAAAATAAAAAATATAAAAATTATTAAATT
* *
22061742 ATAATAAAAATATAAAAATACTTAAATTTATTAAA
1 ATAATAAAAATA-AAAAATA-TAAAAATTATTAAA
22061777 AATTAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 12 0.40
36 6 0.20
37 12 0.40
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (35 bp):
ATAATAAAAATAAAAAATATAAAAATTATTAAATT
Found at i:22063772 original size:5 final size:5
Alignment explanation
Indices: 22063762--22063789 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22063752 ATGTAAACTC
22063762 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
22063790 GGTGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:22064492 original size:51 final size:51
Alignment explanation
Indices: 22064429--22064531 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
22064419 AATAGAATCA
22064429 TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
1 TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
22064480 TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
1 TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
22064531 T
1 T
22064532 CACCATATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (51 bp):
TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
Found at i:22065820 original size:12 final size:12
Alignment explanation
Indices: 22065803--22065839 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
22065793 TGAAAAAAGG
22065803 AATAAATTGTAA
1 AATAAATTGTAA
22065815 AATAAATTGTAA
1 AATAAATTGTAA
22065827 AATAAATTGTAA
1 AATAAATTGTAA
22065839 A
1 A
22065840 TTTTGAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AATAAATTGTAA
Found at i:22066379 original size:16 final size:16
Alignment explanation
Indices: 22066354--22066387 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22066344 ATGAATATAT
* *
22066354 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
22066370 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
22066386 AT
1 AT
22066388 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:22082436 original size:20 final size:19
Alignment explanation
Indices: 22082391--22082441 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
22082381 GACATTTTTC
22082391 TGTTAGAAAAA-AAAATAA
1 TGTTAGAAAAATAAAATAA
** *
22082409 AATAAGAAAAATGAAAATAA
1 TGTTAGAAAAAT-AAAATAA
22082429 TGTTAGAAAAATA
1 TGTTAGAAAAATA
22082442 TGAATGCCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 8 0.32
19 1 0.04
20 16 0.64
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.22
Consensus pattern (19 bp):
TGTTAGAAAAATAAAATAA
Found at i:22096291 original size:14 final size:14
Alignment explanation
Indices: 22096272--22096310 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
22096262 TTGTTTTATT
22096272 GAAAATGACTTTC-G
1 GAAAATGA-TTTCTG
22096286 GAAAATGATTTCTG
1 GAAAATGATTTCTG
*
22096300 CAAAATGATTT
1 GAAAATGATTT
22096311 ACTTTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTG
Found at i:22096448 original size:15 final size:15
Alignment explanation
Indices: 22096428--22096457 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22096418 AATTAAACAA
22096428 ACATGTAAAAGGTTT
1 ACATGTAAAAGGTTT
22096443 ACATGTAAAAGGTTT
1 ACATGTAAAAGGTTT
22096458 TACGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
ACATGTAAAAGGTTT
Found at i:22096663 original size:26 final size:26
Alignment explanation
Indices: 22096609--22096665 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
22096599 ATTTTATTTT
*
22096609 TATTTTTAAAAATATTTAAAATATTA
1 TATTTTTAAAAATATTTAAAATATGA
*
22096635 TATTTTTAAATAT-TATTAAACATA-GA
1 TATTTTTAAAAATAT-TTAAA-ATATGA
22096661 TATTT
1 TATTT
22096666 AATTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 23 0.85
27 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
TATTTTTAAAAATATTTAAAATATGA
Found at i:22096770 original size:14 final size:15
Alignment explanation
Indices: 22096753--22096792 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
22096743 TTCAATTTTA
22096753 TTTTAATAATA-AAT
1 TTTTAATAATATAAT
*
22096767 TTTTAA-AAAATAAT
1 TTTTAATAATATAAT
22096781 TTTTAATAATAT
1 TTTTAATAATAT
22096793 TATTCACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 3 0.14
14 15 0.68
15 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAATAATATAAT
Found at i:22096844 original size:15 final size:15
Alignment explanation
Indices: 22096824--22096880 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
22096814 ATTCAATATT
22096824 AATATTTTAATAATA
1 AATATTTTAATAATA
*
22096839 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
22096858 AATATATTAATAATA
1 AATATTTTAATAATA
*
22096873 AATGTTTT
1 AATATTTT
22096881 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:22108184 original size:129 final size:132
Alignment explanation
Indices: 22107947--22108228 Score: 299
Period size: 129 Copynumber: 2.2 Consensus size: 132
22107937 ACGGGAGATT
* * *
22107947 GCAACCCAGCACGATAGGGCACTATTCCCCGAACTGCCAAACATCGAACACTTCTTTCGTTTTAA
1 GCAACCCAGCACGATAGGGCACAATTCCCCAAACTGCCAAACATCGAACACTCCTTTCGTTTTAA
** * * * *
22108012 AGGGTTTTTAGAAAATGTGAATGAAACTTCGAAGGGATCTTCGATTGTTTAGGGCGAATGAAAAA
66 AGGGTTTTTAGAAAACATGAATGAAACCTCAAAGGAATATTCGATTGTTTAGGGCGAATGAAAAA
22108077 AC
131 AC
* *
22108079 GCAACCCAGCACGATATGGCACAATT-CTCAAA-TCGCCAAACATCGAACA-TCCTTT-GTTTTG
1 GCAACCCAGCACGATAGGGCACAATTCCCCAAACT-GCCAAACATCGAACACTCCTTTCGTTTT-
* * * ** *
22108140 AAA-GGTTTTTA-ATAAACATGAGTGAAAACCT-AAAGGAATATTCGATTGTTTTGAGTAAACGA
64 AAAGGGTTTTTAGA-AAACATGAATG-AAACCTCAAAGGAATATTCGATTGTTTAGGGCGAATGA
* *
22108202 GAAATC
127 AAAAAC
*
22108208 ACAACCCAGCACGATAGGGCA
1 GCAACCCAGCACGATAGGGCA
22108229 TGATTCCCGA
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
128 1 0.01
129 67 0.54
130 14 0.11
131 19 0.15
132 24 0.19
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (132 bp):
GCAACCCAGCACGATAGGGCACAATTCCCCAAACTGCCAAACATCGAACACTCCTTTCGTTTTAA
AGGGTTTTTAGAAAACATGAATGAAACCTCAAAGGAATATTCGATTGTTTAGGGCGAATGAAAAA
AC
Found at i:22108534 original size:132 final size:131
Alignment explanation
Indices: 22108145--22108546 Score: 411
Period size: 132 Copynumber: 3.1 Consensus size: 131
22108135 TTTTGAAAGG
*** * * * * * **
22108145 TTTTTAATAA-ACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAGTAAACGAGAAATCA
1 TTTTTAA-AAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTG
* * * * * *
22108209 CAACCCAGCACGATAGGGCATGATTCC-CGAATTGTC-AATCA-CCGAATATTGCCTTCGTTTTA
65 CAACCCAACACGTTAAGGCACGATTCCACGAATTGCCAAAT-ATCC-AA-ATCGCCTTCGTTTTA
22108271 AATG-A
127 AA-GAA
* * * *
22108276 TTTTTAGAAGACATGCGTGAAATTTTGGAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGC
1 TTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGC
* * * *
22108341 AACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGCACATCGCCTCCATTTTAAAG
66 AACCCAACACGTTAAGGCACGATTCCACGAATTGCCAAATATC-CAAATCGCCTTCGTTTTAAAG
22108406 AA
130 AA
* * *
22108408 TTTTTAAAAGGCATGAGTGAAATTTTGAAGGGATATTCGATTATTTTCAGCAAACGCGAAATTGC
1 TTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGC
* * * *
22108473 AACCCAATACGTTAAGGCACTATTCCGCGAATTGCCAAATAT-CAAATCTAGTCTTCGTTTTAAA
66 AACCCAACACGTTAAGGCACGATTCCACGAATTGCCAAATATCCAAATC--GCCTTCGTTTTAAA
22108537 GAA
129 GAA
22108540 TTTTTAA
1 TTTTTAA
22108547 GTGAATACTT
Statistics
Matches: 226, Mismatches: 37, Indels: 15
0.81 0.13 0.05
Matches are distributed among these distances:
130 7 0.03
131 72 0.32
132 141 0.62
133 5 0.02
134 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (131 bp):
TTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGC
AACCCAACACGTTAAGGCACGATTCCACGAATTGCCAAATATCCAAATCGCCTTCGTTTTAAAGA
A
Found at i:22112004 original size:132 final size:132
Alignment explanation
Indices: 22111655--22112458 Score: 1143
Period size: 132 Copynumber: 6.1 Consensus size: 132
22111645 TCTACTGGAT
** * * *
22111655 ACGAGATCTGCAATCTTCAGCCTACTCCACTACAATTTTTAGGGAGCCA-GGTCGGTGGCGT-AA
1 ACGAGATCTAAAAT-TTCAACCTACTCCACTACAA-CTTTAGGGAGCTAGGGT-GGTGGC-TCAA
* * * *
22111718 ACCTGCTTCACTGC-AACATCAGGAAGCCTAGATTTACCGTCTTTGATCTGTTCCACTGCAA-TC
62 ATCTGCTTCACTGCAAAC-TCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACT-
22111781 TCAGGGAA
125 TCAGGGAA
* * * *
22111789 ACAAGATCTACAATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATC
1 ACGAGATCTAAAAT-TTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATC
* * * *
22111854 TGCCTCACTGCAATCTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGTAACTTTAGG
65 TGCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGG
22111919 GAA
130 GAA
* * * *
22111922 ATGAGATCTAAAATTTCAACTTACTCCACTACCACTTTAGGGAGCTAGGGTGATGGCTCAAATCT
1 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
22111987 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
66 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
22112052 AA
131 AA
* * *
22112054 TCAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTCAAATCT
1 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
* *
22112119 GCTTCACTGCAATCTCAGAAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
66 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
22112184 AA
131 AA
* *
22112186 ACGAGATCTAAAATTTCAACCTACTCCACTACAATTTTAGGGAGCTAGGGTGATGGCTCAAATCT
1 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
*
22112251 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGTAACTTCAGGG
66 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
22112316 AA
131 AA
* * **
22112318 ACGAGATCTAAAATTTCCACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTCCCATCT
1 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
* * * *
22112383 GCTTTACTGC-AACTTCAGGAAG-TTAAGATTCACCGTCTTCGATTTGCTTCACTGCAACTTCAG
66 GCTTCACTGCAAAC-TCAGGAAGCCT-AGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAG
22112446 GGAA
129 GGAA
*
22112450 ACAAGATCT
1 ACGAGATCT
22112459 GTAGGATTCA
Statistics
Matches: 609, Mismatches: 55, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
131 4 0.01
132 480 0.79
133 88 0.14
134 37 0.06
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (132 bp):
ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
AA
Found at i:22112050 original size:45 final size:45
Alignment explanation
Indices: 22111982--22112314 Score: 129
Period size: 45 Copynumber: 7.5 Consensus size: 45
22111972 TGATGGCTCA
*
22111982 AATCTGCTTCACTGCAAAC-TCAGGAAGCCTAGATTCACCGTCTTC
1 AATCTGCTCCACTGC-AACTTCAGGAAGCCTAGATTCACCGTCTTC
* * * ***
22112027 GATCTGCTCCACTGCAACTTCAGGGAA-TCAAGA-TCTAAAAT-TTC
1 AATCTGCTCCACTGCAACTTCA-GGAAGCCTAGATTC-ACCGTCTTC
* * * * * * *** *
22112071 AACCTACTCCACTACAACTTTAGGGAG-CTAGGTT-GGTGGC-TC
1 AATCTGCTCCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTC
* *
22112113 AAATCTGCTTCACTGCAA-TCTCAGAAAGCCTAGATTCACCGTCTTC
1 -AATCTGCTCCACTGCAACT-TCAGGAAGCCTAGATTCACCGTCTTC
* * * ***
22112159 GATCTGCTCCACTGCAACTTCAGGGAA-ACGAGA-TCTAAAAT-TTC
1 AATCTGCTCCACTGCAACTTCA-GGAAGCCTAGATTC-ACCGTCTTC
* * * * * * ** * * *
22112203 AACCTACTCCACTACAATTTTAGGGAG-CTAGGGTGA-TGGC-TC
1 AATCTGCTCCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTC
*
22112245 AAATCTGCTTCACTGCAAAC-TCAGGAAGCCTAGATTCACCGTCTTC
1 -AATCTGCTCCACTGC-AACTTCAGGAAGCCTAGATTCACCGTCTTC
* *
22112291 GATCTGCTCCACTGTAACTTCAGG
1 AATCTGCTCCACTGCAACTTCAGG
22112315 GAAACGAGAT
Statistics
Matches: 197, Mismatches: 68, Indels: 46
0.63 0.22 0.15
Matches are distributed among these distances:
42 5 0.03
43 48 0.24
44 65 0.33
45 67 0.34
46 12 0.06
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTC
Found at i:22124402 original size:132 final size:131
Alignment explanation
Indices: 22124038--22124505 Score: 439
Period size: 132 Copynumber: 3.6 Consensus size: 131
22124028 ATGAAAAAGC
* * * * * * * * *
22124038 GCAACCCAGCACGATATGGCACAATTCTCAAATCGCCAAACATCGAACAT--CATTTGTTTTGAA
1 GCAACCCAGCACGTTAGGGCACGATTCCCGAATTGCCAAATATCGAACATCGCCTTCGTTTT-AA
* *** * * * *
22124101 AG-GTTTTTAATAA-ACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGAA
65 AGAATTTTTAA-AAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAA
*
22124164 ATC
129 ATT
* * * * * *
22124167 ACAACCCAGCAC-TATAGGGCATGATTCCCGAATTGTC-AATCACCGAATATTGCCTTCGTTTTA
1 GCAACCCAGCACGT-TAGGGCACGATTCCCGAATTGCCAAAT-ATCGAACATCGCCTTCGTTTTA
* * * *
22124230 AATG-ATTTTTAGAAGACATGCGTGAAATTTTGGAGGGATATTTGATTATTTTAAGCAAACGAGA
64 AA-GAATTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGA
22124294 AATT
128 AATT
* * * * *
22124298 GCAACCCAGCCCGTTAGGGCACGATTCCATGAATTGCCAAATATCGCACATCGCCTCCATTTTAA
1 GCAACCCAGCACGTTAGGGCACGATTCC-CGAATTGCCAAATATCGAACATCGCCTTCGTTTTAA
* * *
22124363 AGAATTTTTAAAAGGCATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAATGCGAAA
65 AGAATTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAA
22124428 TT
130 TT
* * * * *
22124430 GTAACCCAACACGTTAGGGCACTATTCCGCGAATTGCCAAATGTCGAATC-TCGACTTCGTTTTA
1 GCAACCCAGCACGTTAGGGCACGATTCC-CGAATTGCCAAATATCGAA-CATCGCCTTCGTTTTA
22124494 AAGAATTTTTAA
64 AAGAATTTTTAA
22124506 GTGAATACTT
Statistics
Matches: 272, Mismatches: 56, Indels: 19
0.78 0.16 0.05
Matches are distributed among these distances:
128 2 0.01
129 34 0.12
130 5 0.02
131 81 0.30
132 146 0.54
133 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (131 bp):
GCAACCCAGCACGTTAGGGCACGATTCCCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAA
GAATTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAAT
T
Found at i:22136456 original size:18 final size:18
Alignment explanation
Indices: 22136433--22136467 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22136423 ATTTTTTTGA
22136433 ATTTTTATGAATATTTAC
1 ATTTTTATGAATATTTAC
* *
22136451 ATTTTTTTGAATTTTTA
1 ATTTTTATGAATATTTA
22136468 TAATTTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (18 bp):
ATTTTTATGAATATTTAC
Found at i:22136474 original size:18 final size:18
Alignment explanation
Indices: 22136422--22136480 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
22136412 ACTCCATGCT
*
22136422 AATTTTTTTGAATTTTTATG
1 AATTTTTAT-AATTTTT-TG
* * *
22136442 AATATTTACATTTTTTTG
1 AATTTTTATAATTTTTTG
22136460 AATTTTTATAA-TTTTTG
1 AATTTTTATAATTTTTTG
22136477 AATT
1 AATT
22136481 ATTTGTTAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 10 0.31
18 10 0.31
19 6 0.19
20 6 0.19
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.63
Consensus pattern (18 bp):
AATTTTTATAATTTTTTG
Found at i:22138277 original size:17 final size:18
Alignment explanation
Indices: 22138247--22138280 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22138237 ATGTATTATT
*
22138247 TTTTTTGTTGAAATAATG
1 TTTTTTGATGAAATAATG
22138265 TTTTTTGAT-AAATAAT
1 TTTTTTGATGAAATAAT
22138281 ACTAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (18 bp):
TTTTTTGATGAAATAATG
Found at i:22138315 original size:12 final size:12
Alignment explanation
Indices: 22138298--22138322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22138288 TTATATAAGA
22138298 TAATTTATTTTT
1 TAATTTATTTTT
22138310 TAATTTATTTTT
1 TAATTTATTTTT
22138322 T
1 T
22138323 TTGAAAAGTG
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TAATTTATTTTT
Found at i:22143300 original size:21 final size:22
Alignment explanation
Indices: 22143276--22143317 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
22143266 AAAAATAAAT
*
22143276 ATAAATAATATAA-TTAAGAAC
1 ATAAATAACATAATTTAAGAAC
22143297 ATAAATAACATAATTTAAGAA
1 ATAAATAACATAATTTAAGAA
22143318 AAGAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATAAATAACATAATTTAAGAAC
Found at i:22143324 original size:22 final size:21
Alignment explanation
Indices: 22143278--22143325 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
22143268 AAATAAATAT
* * *
22143278 AAATAATATAATTAAGAACAT
1 AAATAACATAATTAAGAAAAG
22143299 AAATAACATAATTTAAGAAAAG
1 AAATAACATAA-TTAAGAAAAG
22143321 AAATA
1 AAATA
22143326 TCACAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (21 bp):
AAATAACATAATTAAGAAAAG
Found at i:22143339 original size:4 final size:4
Alignment explanation
Indices: 22143330--22143355 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22143320 GAAATATCAC
22143330 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
22143356 TGCACTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:22146996 original size:66 final size:65
Alignment explanation
Indices: 22146920--22147078 Score: 194
Period size: 65 Copynumber: 2.4 Consensus size: 65
22146910 GAAAACTGGA
* * * *
22146920 GGGTATACTGATTTATGCAATACGGCCAAGC-CACATGCCCGTTTGCTAGGCCGTGTGCCAATTA
1 GGGTATACTGACTTATACAACACGGCCAAGCACACA--CCCGTATGCTAGGCCGTGTGCCAATTA
22146984 GG
64 GG
* * * *
22146986 GGGTATACTGACTTGTACCACACGGCCAATCACACACCTGTATGCTAGGCCGTGTGCCAATTAGG
1 GGGTATACTGACTTATACAACACGGCCAAGCACACACCCGTATGCTAGGCCGTGTGCCAATTAGG
* * *
22147051 GGGTATATTGACTTGTACCACACGGCCA
1 GGGTATACTGACTTATACAACACGGCCA
22147079 GTCACACGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
65 54 0.65
66 25 0.30
67 4 0.05
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.25
Consensus pattern (65 bp):
GGGTATACTGACTTATACAACACGGCCAAGCACACACCCGTATGCTAGGCCGTGTGCCAATTAGG
Found at i:22147046 original size:65 final size:65
Alignment explanation
Indices: 22146963--22147085 Score: 228
Period size: 65 Copynumber: 1.9 Consensus size: 65
22146953 CATGCCCGTT
22146963 TGCTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAATCACACACCTGTA
1 TGCTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAATCACACACCTGTA
* *
22147028 TGCTAGGCCGTGTGCCAATTAGGGGGTATATTGACTTGTACCACACGGCCAGTCACAC
1 TGCTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAATCACAC
22147086 GCCCATGTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.24
Consensus pattern (65 bp):
TGCTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAATCACACACCTGTA
Found at i:22148087 original size:28 final size:28
Alignment explanation
Indices: 22148046--22148104 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
22148036 ATACCGTTGA
*
22148046 ATACTCAATGTCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
*
22148074 ATACTCGATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
22148102 ATA
1 ATA
22148105 TATAGCCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.25
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCC
Found at i:22153758 original size:4 final size:4
Alignment explanation
Indices: 22153749--22153773 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22153739 TATCAAGTAA
22153749 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
22153774 TATATATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:22164042 original size:13 final size:13
Alignment explanation
Indices: 22164024--22164085 Score: 99
Period size: 13 Copynumber: 4.8 Consensus size: 13
22164014 TAGTATTTAT
22164024 AGACTTAGCTAAC
1 AGACTTAGCTAAC
22164037 AGACTTAGCTAAC
1 AGACTTAGCTAAC
*
22164050 AAACTTAGCTAAC
1 AGACTTAGCTAAC
*
22164063 AAACTT-GCTAAC
1 AGACTTAGCTAAC
22164075 AGACTTAGCTA
1 AGACTTAGCTA
22164086 CTCATAACAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.24
13 35 0.76
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (13 bp):
AGACTTAGCTAAC
Found at i:22164062 original size:26 final size:25
Alignment explanation
Indices: 22164026--22164085 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
22164016 GTATTTATAG
*
22164026 ACTTAGCTAACAGACTTAGCTAACAA
1 ACTTAGCTAACAAACTT-GCTAACAA
*
22164052 ACTTAGCTAACAAACTTGCTAACAG
1 ACTTAGCTAACAAACTTGCTAACAA
22164077 ACTTAGCTA
1 ACTTAGCTA
22164086 CTCATAACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (25 bp):
ACTTAGCTAACAAACTTGCTAACAA
Found at i:22168554 original size:13 final size:13
Alignment explanation
Indices: 22168538--22168586 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
22168528 TAGTATTTAT
*
22168538 AGACTTAGCTAAT
1 AGACTTAGCTAAC
*
22168551 AGACTTAGATAAC
1 AGACTTAGCTAAC
*
22168564 AAACTT-GCTAAC
1 AGACTTAGCTAAC
22168576 AGACTTAGCTA
1 AGACTTAGCTA
22168587 CTTGTAGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (13 bp):
AGACTTAGCTAAC
Found at i:22170017 original size:3 final size:3
Alignment explanation
Indices: 22170009--22170062 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
22169999 GTATATACAT
*
22170009 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22170057 ATA ATA
1 ATA ATA
22170063 TGAAAATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22171131 original size:17 final size:17
Alignment explanation
Indices: 22171109--22171142 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22171099 GACGGGTTAT
22171109 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
22171126 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
22171143 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:22171908 original size:72 final size:72
Alignment explanation
Indices: 22171810--22171961 Score: 193
Period size: 72 Copynumber: 2.1 Consensus size: 72
22171800 TGAAACTTAA
** * ** *
22171810 TTTGAAAAGCAGATTTTGAAAATACCTCAAT-G-AGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTGAAAAGCAGAAATTGAAAATACCTC-ATCGTA-TCCTGAGGCTCAACTCACCTCTAGCAATA
22171873 TGAGTTGAAT
64 TGAGTTG-AT
*
22171883 TTTGAAAA-CAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
22171947 AGTTGAT
66 AGTTGAT
22171954 TTTGAAAA
1 TTTGAAAA
22171962 AGTAGGAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
71 12 0.17
72 49 0.70
73 9 0.13
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
AGTTGAT
Found at i:22172050 original size:127 final size:127
Alignment explanation
Indices: 22171863--22172383 Score: 915
Period size: 127 Copynumber: 4.1 Consensus size: 127
22171853 TCAACTCATT
22171863 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
1 TCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
22171926 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
65 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
22171989 TCTCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
*
22172054 AACTCACTTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
22172116 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
22172181 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
22172243 TCTCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
* ** * **
22172308 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATGAAAAGGCTT-AACTTACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGG-TTCAACCCACC
22172369 TCTCGCAATATGAGT
1 TCTCGCAATATGAGT
22172384 CAATTTAAAA
Statistics
Matches: 381, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
125 3 0.01
126 52 0.14
127 326 0.86
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (127 bp):
TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
Found at i:22172337 original size:254 final size:252
Alignment explanation
Indices: 22171863--22172458 Score: 935
Period size: 254 Copynumber: 2.4 Consensus size: 252
22171853 TCAACTCATT
22171863 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCA
22171928 ACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTC
66 ACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTC
22171993 GCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACT
131 GCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACT
* * ** *
22172058 CACTTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGG-TTCAACCCACC
196 CACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATGAAAAGGCTT-AACCCACC
22172116 TCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
1 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
22172180 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTC
64 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTC
22172245 TCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAA
129 TCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAA
**
22172310 CTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATGAAAAGGCTTAACTTACC
194 CTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATGAAAAGGCTTAACCCACC
* * * * ** *
22172369 TCTCGCAATATGAG-TCAA-TTT-AAAAC-----TAGAAA-TACCTCAGCATGCCCCGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCA
* *
22172425 ACTCACTTCTCGCAATATGAGTTGATTTTGAAAA
66 ACTCACCTCTAGCAATATGAGTTGATTTTGAAAA
22172459 CAAAAATTAA
Statistics
Matches: 323, Mismatches: 16, Indels: 18
0.90 0.04 0.05
Matches are distributed among these distances:
243 51 0.16
244 5 0.02
249 4 0.01
250 1 0.00
251 2 0.01
252 5 0.02
253 52 0.16
254 203 0.63
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (252 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCA
ACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTC
GCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACT
CACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATGAAAAGGCTTAACCCACC
Found at i:22176882 original size:3 final size:3
Alignment explanation
Indices: 22176874--22176912 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
22176864 GTATATACAT
22176874 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
22176913 TGAAAATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22177519 original size:11 final size:11
Alignment explanation
Indices: 22177503--22177530 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22177493 TAAAAAATAT
22177503 TTTTTTTTTTA
1 TTTTTTTTTTA
22177514 TTTTTTTTTTA
1 TTTTTTTTTTA
22177525 TTTTTT
1 TTTTTT
22177531 ATGATAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:22177992 original size:17 final size:17
Alignment explanation
Indices: 22177970--22178003 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22177960 GACGGGTTAT
22177970 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
22177987 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
22178004 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:22181615 original size:20 final size:20
Alignment explanation
Indices: 22181590--22181629 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22181580 AACCAAAATT
* *
22181590 TTCTTTTATTTTTTAGAGCA
1 TTCTTTGATTTTTTAAAGCA
22181610 TTCTTTGATTTTTTAAAGCA
1 TTCTTTGATTTTTTAAAGCA
22181630 AAAACTAAAT
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:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (20 bp):
TTCTTTGATTTTTTAAAGCA
Found at i:22181824 original size:12 final size:12
Alignment explanation
Indices: 22181803--22181839 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
22181793 TTTTACTTCT
22181803 ATTTGAATTTGG
1 ATTTGAATTTGG
*
22181815 ATTTGGATTTGG
1 ATTTGAATTTGG
*
22181827 ATTTAAATTTGG
1 ATTTGAATTTGG
22181839 A
1 A
22181840 GTGTGTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (12 bp):
ATTTGAATTTGG
Found at i:22182830 original size:17 final size:16
Alignment explanation
Indices: 22182809--22182840 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22182799 AAGTAATGCA
22182809 AAAAAATCCACTGAAT
1 AAAAAATCCACTGAAT
22182825 AAAAAATCCACTGAAT
1 AAAAAATCCACTGAAT
22182841 TCAACATTAT
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:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAAATCCACTGAAT
Found at i:22186795 original size:40 final size:40
Alignment explanation
Indices: 22186746--22186858 Score: 217
Period size: 40 Copynumber: 2.8 Consensus size: 40
22186736 GTAACAACTA
*
22186746 GCACAAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
22186786 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
22186826 GCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATA
22186859 TATATATATT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
Found at i:22200505 original size:20 final size:21
Alignment explanation
Indices: 22200469--22200509 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
22200459 AGGGAATGAA
22200469 ACCTAAGACTAATCTTGTTAT
1 ACCTAAGACTAATCTTGTTAT
22200490 ACCTAAGACT-ATCTTGTTAT
1 ACCTAAGACTAATCTTGTTAT
22200510 TATTTCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (21 bp):
ACCTAAGACTAATCTTGTTAT
Found at i:22209927 original size:16 final size:17
Alignment explanation
Indices: 22209896--22209928 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22209886 TTCATAAGTA
22209896 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
22209913 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
22209929 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:22210284 original size:46 final size:46
Alignment explanation
Indices: 22210209--22210527 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
22210199 TTATCTTTGA
* * * ** * * *
22210209 CATGATGCCATAGTGTCTTTCAATTATGGTTTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** * *
22210255 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
22210301 TATGTTGCCATGGT-TCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
22210346 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** *
22210392 CATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
22210438 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
22210484 TATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
22210528 TTCAAAGAGC
Statistics
Matches: 247, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 44 0.18
46 203 0.82
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:22212183 original size:17 final size:17
Alignment explanation
Indices: 22212163--22212195 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22212153 TCAATTTTCC
22212163 CTTTTCTTCTTTCTTTT
1 CTTTTCTTCTTTCTTTT
*
22212180 CTTTTTTTCTTTCTTT
1 CTTTTCTTCTTTCTTT
22212196 CCTTCCCCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTCTTCTTTCTTTT
Found at i:22217755 original size:22 final size:22
Alignment explanation
Indices: 22217730--22217777 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
22217720 AGTCAACAAT
22217730 AATAAAACCAAATTCAAGTACA
1 AATAAAACCAAATTCAAGTACA
22217752 AATAAAACCAAATTCAAGTACA
1 AATAAAACCAAATTCAAGTACA
22217774 AATA
1 AATA
22217778 TTTTGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.60, C:0.17, G:0.04, T:0.19
Consensus pattern (22 bp):
AATAAAACCAAATTCAAGTACA
Found at i:22223595 original size:96 final size:96
Alignment explanation
Indices: 22223429--22223622 Score: 253
Period size: 96 Copynumber: 2.0 Consensus size: 96
22223419 GTGTCCGAAG
* * * * * * * *
22223429 AAGTCTGTTATCGATGGGAATGATGGAGTAGACATGGAGCCCAAGAAGCTTGGTTTGAGCAAGGG
1 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTTGAGCAAAGG
*
22223494 AAAAGCCGAAGCCAAGAAGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAACGCAAAGAGGAGC
* *
22223525 AAGTCTGTCATCAAAGGGAACGATGGAGCAGTCAAGGAGCCCAAGAAGTTTAGTTTGAGCAAAGG
1 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTTGAGCAAAGG
* * * *
22223590 TAAAGCTGAAGCTAAGAACGCTAAGAGGAGC
66 AAAAGCCGAAGCCAAGAACGCAAAGAGGAGC
22223621 AA
1 AA
22223623 AAAGAAGCGA
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.37, C:0.15, G:0.32, T:0.16
Consensus pattern (96 bp):
AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTTGAGCAAAGG
AAAAGCCGAAGCCAAGAACGCAAAGAGGAGC
Found at i:22233847 original size:14 final size:15
Alignment explanation
Indices: 22233825--22233855 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22233815 TTTATTCGAG
22233825 TTAATTTTTAAAAAA
1 TTAATTTTTAAAAAA
*
22233840 TTAATTTTAAAAAAA
1 TTAATTTTTAAAAAA
22233855 T
1 T
22233856 CCAAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATTTTTAAAAAA
Found at i:22239607 original size:23 final size:22
Alignment explanation
Indices: 22239548--22239619 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
22239538 AAATATGATG
*
22239548 TAATAATAATATAAAATA-ACATA
1 TAATAA-AATATAAAATATATA-A
* * *
22239571 TATTAAAGTGTAAAATGATATAA
1 TAATAAAATATAAAAT-ATATAA
22239594 TAATAAAATATAAAATAGTATAA
1 TAATAAAATATAAAATA-TATAA
22239617 TAA
1 TAA
22239620 ATATTATGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
22 9 0.23
23 28 0.72
24 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (22 bp):
TAATAAAATATAAAATATATAA
Found at i:22239639 original size:24 final size:25
Alignment explanation
Indices: 22239607--22239672 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
22239597 TAAAATATAA
* *
22239607 AATAGTATAATAAATATTATGT-AAT
1 AATAATATAATAAATA-TAGGTAAAT
22239632 AA-AATATAATATAGATATAGGTAAAT
1 AATAATATAATA-A-ATATAGGTAAAT
22239658 AATAATAT-ATAAATA
1 AATAATATAATAAATA
22239673 AAGTTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 11 0.31
25 8 0.23
26 11 0.31
27 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (25 bp):
AATAATATAATAAATATAGGTAAAT
Found at i:22241218 original size:43 final size:43
Alignment explanation
Indices: 22241157--22241238 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
22241147 CATGCTGATA
22241157 TCTTCGATTTGTTCCCTGACAATACAGAGACGCCAAATCTGCT
1 TCTTCGATTTGTTCCCTGACAATACAGAGACGCCAAATCTGCT
*
22241200 TCTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATC
1 TCTTCGATTTGTTCCCTGACAATACAGAGACGCCAAATC
22241239 ATCTTAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (43 bp):
TCTTCGATTTGTTCCCTGACAATACAGAGACGCCAAATCTGCT
Found at i:22241578 original size:176 final size:175
Alignment explanation
Indices: 22241274--22241642 Score: 560
Period size: 176 Copynumber: 2.1 Consensus size: 175
22241264 ACGTTAAAAC
* * *
22241274 CAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGC
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
* *
22241339 TTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCA
66 TTCAGTAAAATCATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCA
* ** *
22241404 GATTTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGT
131 GATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATCCGAAAGT
* *
22241449 CAAATTTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCCAAATCATCTTGGATCTG
1 CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATG-CCAAATCATCTTGGATCTG
* *
22241514 CTTCAGTATAAA-CATCTTAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATTGAGATGC
65 CTTCAGTA-AAATCATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGC
**
22241578 CAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATTTGAAAGT
129 CAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATCCGAAAGT
* *
22241625 CAGATCTGTTATGTCTTC
1 CAAATCTGCTATGTCTTC
22241643 AAGTTGCTTC
Statistics
Matches: 174, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
175 40 0.23
176 131 0.75
177 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (175 bp):
CAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
TTCAGTAAAATCATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCA
GATCTGTTATCTTGGATCTGCTTTAATGTGAAAACATCCGAAAGT
Found at i:22250459 original size:46 final size:45
Alignment explanation
Indices: 22250409--22250843 Score: 586
Period size: 46 Copynumber: 9.6 Consensus size: 45
22250399 GCCATAGTGC
* * *
22250409 CTTTCAACTATGGTCTTACTCATTTTCTATCAGGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACA-TTTCTATCATGTTGCCATGGTAT
*** * * **
22250455 CTTTCAACCATGGTCTTGTTCATTTCATGTTACATTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTC-TATCATGTTGCCATGGTAT
** * * *
22250501 CTTTCAACCATGGTCTTATTCATTCCCATCATGTTGTCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCTATCATGTTGCCATGGTAT
* *
22250546 CTTTCAACCATGGCCTTACACATTTCATATCATGTTGCCATAGTAT
1 CTTTCAACCATGGTCTTACACATTTC-TATCATGTTGCCATGGTAT
*
22250592 CTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACA-TTTCTATCATGTTGCCATGGTAT
*
22250638 CTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGT
1 CTTTCAACCATGGTCTTACACATTTC-TATCATGTTGCCATGGTAT
* * *
22250684 CTATCAACCATGGTCTTACATATTTC-ATCATGTTGCGATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCTATCATGTTGCCATGGTAT
*
22250728 CTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTC-TATCATGTTGCCATGGTAT
22250774 CTTTCAACCATGGTCTTACACATTTC-ATCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACACATTTCTATCATGTTGCCATGGTAT
*
22250818 CTTTCAACCATAGTCTTACACATTTC
1 CTTTCAACCATGGTCTTACACATTTC
22250844 ATTTCAGAAA
Statistics
Matches: 346, Mismatches: 37, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
44 82 0.24
45 42 0.12
46 219 0.63
47 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (45 bp):
CTTTCAACCATGGTCTTACACATTTCTATCATGTTGCCATGGTAT
Found at i:22250755 original size:90 final size:90
Alignment explanation
Indices: 22250409--22250845 Score: 599
Period size: 90 Copynumber: 4.8 Consensus size: 90
22250399 GCCATAGTGC
* * *
22250409 CTTTCAACTATGGTCTTAC-TCATTTTCTATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTG
1 CTTTCAACCATGGTCTTACAT-A-TTTC-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * **
22250473 TTCATTTCATGTTACATTGCCATGGTAT
63 CACATTTCATATCATGTTGCCATGGTAT
** * *
22250501 CTTTCAACCATGGTCTTATTCAT-TCCCATCATGTTGTCATGGTATCTTTCAACCATGGCCTTAC
1 CTTTCAACCATGGTCTTA--CATATTTCATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
*
22250565 ACATTTCATATCATGTTGCCATAGTAT
64 ACATTTCATATCATGTTGCCATGGTAT
* *
22250592 CTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 CTTTCAACCATGGTCTTACATA-TTT-CATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
*
22250657 ACATTTCATATCATGTTGCCATGGTGT
64 ACATTTCATATCATGTTGCCATGGTAT
* * *
22250684 CTATCAACCATGGTCTTACATATTTCATCATGTTGCGATGGTATCTTTCAACCATGGTCTTATAC
1 CTTTCAACCATGGTCTTACATATTTCATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
22250749 ATTTCATATCATGTTGCCATGGTAT
66 ATTTCATATCATGTTGCCATGGTAT
* *
22250774 CTTTCAACCATGGTCTTACACATTTCATCATGTTGCCATGGTATCTTTCAACCATAGTCTTACAC
1 CTTTCAACCATGGTCTTACATATTTCATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
22250839 ATTTCAT
66 ATTTCAT
22250846 TTCAGAAAGC
Statistics
Matches: 306, Mismatches: 33, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
89 2 0.01
90 128 0.42
91 75 0.25
92 99 0.32
94 1 0.00
95 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (90 bp):
CTTTCAACCATGGTCTTACATATTTCATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
ATTTCATATCATGTTGCCATGGTAT
Found at i:22256430 original size:32 final size:34
Alignment explanation
Indices: 22256394--22256471 Score: 79
Period size: 34 Copynumber: 2.3 Consensus size: 34
22256384 AGTGTAAAAT
22256394 AATATAATAACAAAATATAAAATAG-TATA-ATA
1 AATATAATAACAAAATATAAAATAGATATAGATA
* * * *
22256426 AATATTATGTAATAAAATATAATATAGATATAGGTA
1 AATA-TA-ATAACAAAATATAAAATAGATATAGATA
22256462 AATAATAATA
1 AAT-ATAATA
22256472 TATAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
32 4 0.11
33 2 0.06
34 16 0.44
35 6 0.17
36 7 0.19
37 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (34 bp):
AATATAATAACAAAATATAAAATAGATATAGATA
Found at i:22257213 original size:13 final size:13
Alignment explanation
Indices: 22257195--22257220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22257185 TTTTTAGTAT
22257195 AAAAAATGAGTTC
1 AAAAAATGAGTTC
22257208 AAAAAATGAGTTC
1 AAAAAATGAGTTC
22257221 TGTTTTTTAT
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:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
AAAAAATGAGTTC
Found at i:22258976 original size:21 final size:21
Alignment explanation
Indices: 22258950--22259002 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
22258940 CATTGTTTTT
*
22258950 AATCTCACCGCTACAATATCG
1 AATCTCACCGCTACAATAACG
* *
22258971 AATCTCACCTCTACAATAACT
1 AATCTCACCGCTACAATAACG
22258992 AATCTCACCGC
1 AATCTCACCGC
22259003 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACG
Found at i:22261298 original size:87 final size:87
Alignment explanation
Indices: 22261196--22261365 Score: 304
Period size: 87 Copynumber: 2.0 Consensus size: 87
22261186 TGCAATTAAA
* *
22261196 TTCTTTCAATAACATTTCAATTAGAGGACCAAGTTCATTTCATCCAATTTCAAATTCCCAATTTC
1 TTCTTTCAATAACATTTCAATTAGAAGACCAACTTCATTTCATCCAATTTCAAATTCCCAATTTC
22261261 ATTTATATCATTTCATCCGATG
66 ATTTATATCATTTCATCCGATG
* *
22261283 TTCTTTCAATAACATTTCAATTTGAAGACCAACTTCATTTCATCCAATTTCAAATTCCCAATTTT
1 TTCTTTCAATAACATTTCAATTAGAAGACCAACTTCATTTCATCCAATTTCAAATTCCCAATTTC
22261348 ATTTATATCATTTCATCC
66 ATTTATATCATTTCATCC
22261366 AATAGAACCT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.42
Consensus pattern (87 bp):
TTCTTTCAATAACATTTCAATTAGAAGACCAACTTCATTTCATCCAATTTCAAATTCCCAATTTC
ATTTATATCATTTCATCCGATG
Found at i:22266901 original size:9 final size:8
Alignment explanation
Indices: 22266886--22266924 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
22266876 AACCCACAGA
22266886 ATTTTTTT
1 ATTTTTTT
22266894 ATTTTTTT
1 ATTTTTTT
22266902 ATTTTTTT
1 ATTTTTTT
*
22266910 CA-TATTTT
1 -ATTTTTTT
22266918 ATTTTTT
1 ATTTTTT
22266925 GTACTTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 25 0.93
9 1 0.04
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
ATTTTTTT
Done.