Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 77 of 295
Found at i:22263977 original size:18 final size:18
Alignment explanation
Indices: 22263954--22264011 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
22263944 TCCTTTAAAT
22263954 AAAATATCATAGTTATAA
1 AAAATATCATAGTTATAA
** *
22263972 AAAATAAAGAAAG-TA-AA
1 AAAAT-ATCATAGTTATAA
22263989 TAAAATATCATAGTTATAA
1 -AAAATATCATAGTTATAA
22264008 AAAA
1 AAAA
22264012 ATAAAGAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 6 0.20
18 18 0.60
19 6 0.20
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (18 bp):
AAAATATCATAGTTATAA
Found at i:22263996 original size:36 final size:37
Alignment explanation
Indices: 22263949--22264028 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
22263939 CAATATCCTT
22263949 TAAATAAAATATCATAGTTAT-AAAAAATAAAGAAAG
1 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
22263985 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
1 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
22264022 TAAATAA
1 TAAATAA
22264029 TCCCAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 21 0.49
37 22 0.51
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (37 bp):
TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
Found at i:22264940 original size:13 final size:13
Alignment explanation
Indices: 22264922--22264946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22264912 ATGTCCATTT
22264922 CAGATACAGATAA
1 CAGATACAGATAA
22264935 CAGATACAGATA
1 CAGATACAGATA
22264947 TGTAGATCAA
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
CAGATACAGATAA
Found at i:22266992 original size:44 final size:43
Alignment explanation
Indices: 22266940--22267098 Score: 148
Period size: 44 Copynumber: 3.7 Consensus size: 43
22266930 TATGTGTCAT
22266940 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGTTTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGA-TTATGTTTTA
* * * *
22266984 CGTATAAGACAATGTTTGGGACGTTGGCATCGTATT-TGATTTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTATG-TTTTA
* * *
22267027 -GTGTAAGACCATGTCTGGGATAGTGGCATTGA-TAT-TTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATTATGTT--TTA
* * *
22267069 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
22267099 TTTCCGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 4 0.04
42 24 0.26
43 26 0.28
44 34 0.37
45 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATTATGTTTTA
Found at i:22267099 original size:43 final size:43
Alignment explanation
Indices: 22266940--22267098 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
22266930 TATGTGTCAT
*
22266940 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGTT--TTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGA--TAT-TTGATTA
* * * *
22266984 CGTATAAGACAATGTTTGGGACGTTGGCATCG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
* * *
22267026 TGTGTAAGACCATGTCTGGGATAG-TGGCATTGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTA
* *
22267069 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
22267099 TTTCCGAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 27 0.29
43 34 0.36
44 28 0.30
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:22269517 original size:34 final size:34
Alignment explanation
Indices: 22269451--22269518 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
22269441 TATATATATA
* *
22269451 TATTTAATTTACTTTTTGGAATAATTATAATAAT
1 TATTTAATTTACTTTTTGAAATAATTAGAATAAT
* *
22269485 TATTTATTTTA-TTTCTTGAAATAATTGGAATAAT
1 TATTTAATTTACTTT-TTGAAATAATTAGAATAAT
22269519 ATGTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (34 bp):
TATTTAATTTACTTTTTGAAATAATTAGAATAAT
Found at i:22271172 original size:20 final size:20
Alignment explanation
Indices: 22271144--22271181 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22271134 ACTCTTTGTA
22271144 ATTTGTAATTTAATTGATTG
1 ATTTGTAATTTAATTGATTG
*
22271164 ATTTTTAATTTAATTGAT
1 ATTTGTAATTTAATTGAT
22271182 ATCGTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (20 bp):
ATTTGTAATTTAATTGATTG
Found at i:22273916 original size:93 final size:93
Alignment explanation
Indices: 22273757--22273943 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
22273747 TCCCTCTCTC
22273757 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
1 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
22273822 ACCCATCATTTTGTTTTGTTTTTCTTTG
66 ACCCATCATTTTGTTTTGTTTTTCTTTG
*
22273850 AAATCAGTTTCGTTTTCTTCTTCTCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
1 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
22273915 ACCCATCATTTTGTTTTGTTTTTCTTTG
66 ACCCATCATTTTGTTTTGTTTTTCTTTG
22273943 A
1 A
22273944 GTTTCTTATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (93 bp):
AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
ACCCATCATTTTGTTTTGTTTTTCTTTG
Found at i:22274306 original size:17 final size:17
Alignment explanation
Indices: 22274274--22274308 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22274264 CAACCCATAT
*
22274274 AGGCATGTGCTACACAC
1 AGGCATGTGCCACACAC
*
22274291 AGGCATGTGCCGCACAC
1 AGGCATGTGCCACACAC
22274308 A
1 A
22274309 AGTGGTCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (17 bp):
AGGCATGTGCCACACAC
Found at i:22274511 original size:21 final size:21
Alignment explanation
Indices: 22274487--22274527 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22274477 TGTAACCCAG
22274487 TCACACGA-GCGTGTCCCTCAA
1 TCACA-GAGGCGTGTCCCTCAA
22274508 TCACAGAGGCGTGTCCCTCA
1 TCACAGAGGCGTGTCCCTCA
22274528 GTCATATGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.20
Consensus pattern (21 bp):
TCACAGAGGCGTGTCCCTCAA
Found at i:22275703 original size:30 final size:30
Alignment explanation
Indices: 22275654--22275711 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22275644 CACGGGCTGG
* * * *
22275654 CACATGGGCGTGTGGCCAACCCGTGTGGCT
1 CACACGGGCATGTGCCCAACCCATGTGGCT
22275684 CACACGGGCATGTGCCCAACCCATGTGG
1 CACACGGGCATGTGCCCAACCCATGTGG
22275712 AAGTGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (30 bp):
CACACGGGCATGTGCCCAACCCATGTGGCT
Found at i:22277531 original size:6 final size:5
Alignment explanation
Indices: 22277513--22277578 Score: 60
Period size: 6 Copynumber: 11.6 Consensus size: 5
22277503 GAAGTCTAAA
22277513 AAAAT AACAAT AAACAT AAAAAT AGAAAT AAAACT AGAAAT AAAAAT AAAAAT
1 AAAAT AA-AAT AAA-AT -AAAAT A-AAAT AAAA-T A-AAAT -AAAAT -AAAAT
22277566 AAAAT AAAAT AAA
1 AAAAT AAAAT AAA
22277579 TGGATTTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
5 20 0.37
6 27 0.50
7 7 0.13
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:22277533 original size:18 final size:16
Alignment explanation
Indices: 22277513--22277578 Score: 69
Period size: 18 Copynumber: 3.8 Consensus size: 16
22277503 GAAGTCTAAA
*
22277513 AAAATAACAATAAACAT
1 AAAATAA-AATAAAAAT
*
22277530 AAAAATAGAAATAAAACT
1 -AAAATA-AAATAAAAAT
22277548 AGAAATAAAAATAAAAAT
1 A-AAAT-AAAATAAAAAT
22277566 AAAATAAAATAAA
1 AAAATAAAATAAA
22277579 TGGATTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.19
17 5 0.12
18 27 0.64
19 2 0.05
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:22277555 original size:24 final size:22
Alignment explanation
Indices: 22277512--22277578 Score: 89
Period size: 24 Copynumber: 2.9 Consensus size: 22
22277502 AGAAGTCTAA
22277512 AAAAATAACAATAAACATAAAAAT
1 AAAAATAA-AATAAA-ATAAAAAT
*
22277536 AGAAATAAAACTAGAAATAAAAAT
1 AAAAATAAAA-TA-AAATAAAAAT
22277560 AAAAATAAAATAAAATAAA
1 AAAAATAAAATAAAATAAA
22277579 TGGATTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.18
23 4 0.10
24 26 0.67
25 2 0.05
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (22 bp):
AAAAATAAAATAAAATAAAAAT
Found at i:22282364 original size:6 final size:6
Alignment explanation
Indices: 22282355--22282398 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
22282345 CCTTAAAACT
* *
22282355 AAAATA AAAATA AAAATA AAGAGA AAAATA AAAGAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AA
22282399 TGGACTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 2 0.06
6 28 0.88
7 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:22284235 original size:18 final size:19
Alignment explanation
Indices: 22284212--22284249 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
22284202 TAAATAAATG
22284212 AATAAAGAAA-TAAAATAA
1 AATAAAGAAAGTAAAATAA
22284230 AATAAAGAAAGTAAAATAA
1 AATAAAGAAAGTAAAATAA
22284249 A
1 A
22284250 TGAAGAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (19 bp):
AATAAAGAAAGTAAAATAA
Found at i:22284250 original size:18 final size:17
Alignment explanation
Indices: 22284203--22284255 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
22284193 AACCAAAAAT
*
22284203 AAAT-AAATGAATAAAG
1 AAATAAAATAAATAAAG
22284219 AAATAAAATAAAATAAAG
1 AAATAAAAT-AAATAAAG
*
22284237 AAAGTAAAATAAATGAAG
1 AAA-TAAAATAAATAAAG
22284255 A
1 A
22284256 GAATGGGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 18 0.56
19 6 0.19
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (17 bp):
AAATAAAATAAATAAAG
Found at i:22289066 original size:30 final size:30
Alignment explanation
Indices: 22289031--22289088 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22289021 CACAGCCATG
* *
22289031 ACACACGGGCGTGTGGCCTACCCGTGTGTC
1 ACACACGGGCGTGTAGACTACCCGTGTGTC
* *
22289061 ACACACGGGTGTGTAGATTACCCGTGTG
1 ACACACGGGCGTGTAGACTACCCGTGTG
22289089 AAAGTGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTAGACTACCCGTGTGTC
Found at i:22302648 original size:19 final size:18
Alignment explanation
Indices: 22302624--22302674 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
22302614 TCCTAGAAGC
22302624 AAACAAAATAAAAATTAGA
1 AAACAAAATAAAAATTA-A
*
22302643 AAACAAAA-ATTAAATTAA
1 AAACAAAATA-AAAATTAA
22302661 AAACATAAATAAAA
1 AAACA-AAATAAAA
22302675 TGCAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.26
19 19 0.70
20 1 0.04
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (18 bp):
AAACAAAATAAAAATTAA
Found at i:22302665 original size:18 final size:19
Alignment explanation
Indices: 22302624--22302675 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
22302614 TCCTAGAAGC
22302624 AAAC-AAAATAAAAATTAGA
1 AAACAAAAAT-AAAATTAGA
*
22302643 AAACAAAAATTAAATTA-A
1 AAACAAAAATAAAATTAGA
*
22302661 AAACATAAATAAAAT
1 AAACAAAAATAAAAT
22302676 GCAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 14 0.48
19 10 0.34
20 5 0.17
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (19 bp):
AAACAAAAATAAAATTAGA
Found at i:22310828 original size:16 final size:17
Alignment explanation
Indices: 22310809--22310847 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
22310799 TTTTAATCAT
22310809 TTTTTAAAT-TTATTTA
1 TTTTTAAATATTATTTA
22310825 -TTTTAAATATTATTTA
1 TTTTTAAATATTATTTA
22310841 TTATTTA
1 TT-TTTA
22310848 TACATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
17 1 0.05
18 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAAATATTATTTA
Found at i:22310830 original size:15 final size:16
Alignment explanation
Indices: 22310810--22310842 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22310800 TTTAATCATT
22310810 TTTTAAAT-TTATTTA
1 TTTTAAATATTATTTA
22310825 TTTTAAATATTATTTA
1 TTTTAAATATTATTTA
22310841 TT
1 TT
22310843 ATTTATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAAATATTATTTA
Found at i:22310841 original size:20 final size:20
Alignment explanation
Indices: 22310816--22310909 Score: 59
Period size: 20 Copynumber: 4.5 Consensus size: 20
22310806 CATTTTTTAA
22310816 ATTTATTTATTTTAAATATT
1 ATTTATTTATTTTAAATATT
**
22310836 ATTTA-TTATTTATACATATAAAA
1 ATTTATTTATTT-TA-A-AT-ATT
*
22310859 ATTTATTTA-TTTATATATT
1 ATTTATTTATTTTAAATATT
* *
22310878 ATTTTTGTTATTTTCAAGTA-T
1 ATTTAT-TTATTTT-AAATATT
*
22310899 ATTTATATATT
1 ATTTATTTATT
22310910 ATATTATTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
19 12 0.21
20 16 0.29
21 10 0.18
22 7 0.12
23 8 0.14
24 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTATTTATTTTAAATATT
Found at i:22310914 original size:5 final size:5
Alignment explanation
Indices: 22310896--22311032 Score: 62
Period size: 5 Copynumber: 29.0 Consensus size: 5
22310886 TATTTTCAAG
* * *
22310896 TATAT T-TA- TATAT TATAT TAT-T TAT-T AATA- TATAT TATTT TACAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
22310941 T-T-T TATAT TATTAT ATATAT TATAT TATCT TATGT TTTAA TATA- CAT-T
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * *
22310989 ATATAT TATAT TATTT TATTT TATAT TTTAT CATA- TAT-T TATAT
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
22311033 CTTATTACAT
Statistics
Matches: 99, Mismatches: 20, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
3 3 0.03
4 22 0.22
5 65 0.66
6 7 0.07
7 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:22310943 original size:52 final size:52
Alignment explanation
Indices: 22310861--22310973 Score: 126
Period size: 52 Copynumber: 2.2 Consensus size: 52
22310851 ATATAAAAAT
**
22310861 TTATTTATTTATATATTATTTTTGTTATTTTCAAGTA-TATT-TATATATTATA
1 TTATTTATTTATATATTATTTTTGACATTTT-AA-TATTATTATATATATTATA
*
22310913 TTATTTATTAATATATATTA-TTTT-ACATTTTTATATTATTATATATATTATA
1 TTATTTATT--TATATATTATTTTTGACATTTTAATATTATTATATATATTATA
22310965 TTATCTTAT
1 TTAT-TTAT
22310974 GTTTTAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
50 2 0.04
51 5 0.09
52 29 0.55
53 8 0.15
54 9 0.17
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (52 bp):
TTATTTATTTATATATTATTTTTGACATTTTAATATTATTATATATATTATA
Found at i:22311012 original size:10 final size:10
Alignment explanation
Indices: 22310860--22311015 Score: 63
Period size: 10 Copynumber: 14.8 Consensus size: 10
22310850 CATATAAAAA
22310860 TTTAT-TTAT
1 TTTATATTAT
22310869 TTATATATTAT
1 TT-TATATTAT
*
22310880 TTT-TGTTAT
1 TTTATATTAT
22310889 TTTCA-AGTATAT
1 TTT-ATA-T-TAT
22310901 TTATATATTAT
1 TT-TATATTAT
*
22310912 ATTAT-TTAT
1 TTTATATTAT
22310921 TAATATATATTAT
1 T--T-TATATTAT
*
22310934 TTTACA-T-T
1 TTTATATTAT
22310942 TTTATATTAT
1 TTTATATTAT
22310952 TATATATATTAT
1 T-T-TATATTAT
* *
22310964 ATTATCTTATGT
1 TTTATATTA--T
*
22310976 TTTAATATACAT
1 TTT-ATAT-TAT
*
22310988 TATATATTAT
1 TTTATATTAT
* *
22310998 ATTATTTTAT
1 TTTATATTAT
22311008 TTTATATT
1 TTTATATT
22311016 TTATCATATA
Statistics
Matches: 109, Mismatches: 18, Indels: 39
0.66 0.11 0.23
Matches are distributed among these distances:
8 6 0.06
9 16 0.15
10 33 0.30
11 19 0.17
12 24 0.22
13 10 0.09
14 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATATTAT
Found at i:22311183 original size:19 final size:17
Alignment explanation
Indices: 22311161--22311202 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
22311151 TTTTATATTT
*
22311161 TATATGTTATTTTATTATA
1 TATAT-TTATATTATTA-A
22311180 TATATTTATATTATTAA
1 TATATTTATATTATTAA
22311197 TATATT
1 TATATT
22311203 ATTACACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 10 0.45
19 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATTAA
Found at i:22311257 original size:22 final size:23
Alignment explanation
Indices: 22311231--22311281 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
22311221 TTATAAATTA
* *
22311231 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
22311252 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
22311276 TTATTA
1 TTATTA
22311282 TAAAGTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:22322673 original size:17 final size:18
Alignment explanation
Indices: 22322642--22322680 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
22322632 CGTGTGACAT
22322642 GCCCGTATAGGCCCACAC
1 GCCCGTATAGGCCCACAC
*
22322660 GCCCGTAT-GGCCCACAT
1 GCCCGTATAGGCCCACAC
22322677 GCCC
1 GCCC
22322681 AACTTGGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (18 bp):
GCCCGTATAGGCCCACAC
Found at i:22323908 original size:38 final size:38
Alignment explanation
Indices: 22323853--22323928 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
22323843 CGATAGATAG
* *
22323853 AAATGTGTGCAAACCACTAGAAAATATAGATCATTAAA
1 AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
*
22323891 AAATATGTGCACACCACTAGAAAATACAGATCATTAAA
1 AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
22323929 CTACCATAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (38 bp):
AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
Found at i:22326331 original size:20 final size:19
Alignment explanation
Indices: 22326289--22326332 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
22326279 GAAAATAGTG
* *
22326289 ATAAATTTATTTTCTAAGT
1 ATAAATTTATTATCTAAGA
*
22326308 ATAAATTCTATTATCTAGGA
1 ATAAATT-TATTATCTAAGA
22326328 ATAAA
1 ATAAA
22326333 AATTCTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (19 bp):
ATAAATTTATTATCTAAGA
Found at i:22328875 original size:40 final size:41
Alignment explanation
Indices: 22328824--22328932 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
22328814 AGTTTGGAAC
* **
22328824 CCAATGCCTCATCGGAT-AATTTGAAGTAGTAAATTGACAA
1 CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
* * *
22328864 CCAGTGTCTCATCGAATAAATCCGAAGTAGTAAATTGACAC
1 CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
* *
22328905 CCAATGTCTCATCGGTTAAA-CCAAAGTA
1 CCAATGTCTCATCGGATAAATCCGAAGTA
22328933 AATTGGCACC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 21 0.36
41 37 0.64
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (41 bp):
CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
Found at i:22328893 original size:41 final size:40
Alignment explanation
Indices: 22328846--22328956 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
22328836 CGGATAATTT
*
22328846 GAAGTAGTAAATTGACAACCAGTGTCTCATCGAATAAATCC
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAA-CC
* **
22328887 GAAGTAGTAAATTGACACCCAATGTCTCATCGGTTAAACC
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAACC
* *
22328927 -AA--AGTAAATTGGCACCCAGTGCCTCATCGA
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGA
22328957 CTCGAAGTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
37 24 0.39
39 2 0.03
40 2 0.03
41 34 0.55
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (40 bp):
GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAACC
Found at i:22329172 original size:50 final size:51
Alignment explanation
Indices: 22329108--22329213 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 51
22329098 ATATATATAT
22329108 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
1 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
* *
22329159 ATTC-TTTCAATTGAAATAATTAATACATTCATAATATATCACTTCAATCC
1 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
22329209 ATTCA
1 ATTCA
22329214 ATCAACTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 48 0.92
51 4 0.08
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (51 bp):
ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
Found at i:22329212 original size:24 final size:24
Alignment explanation
Indices: 22329128--22329213 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
22329118 ATTGAAATAA
22329128 TCAATACATTCATAATATATCACT
1 TCAATACATTCATAATATATCACT
* * * * *
22329152 ACAATCCATTCTTTCAATTGAAAT-AAT
1 TCAATACATTC-AT-AA-T-ATATCACT
22329179 T-AATACATTCATAATATATCACT
1 TCAATACATTCATAATATATCACT
*
22329202 TCAATCCATTCA
1 TCAATACATTCA
22329214 ATCAACTTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
22 3 0.07
23 4 0.09
24 20 0.44
25 2 0.04
26 10 0.22
27 3 0.07
28 3 0.07
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (24 bp):
TCAATACATTCATAATATATCACT
Found at i:22329913 original size:21 final size:22
Alignment explanation
Indices: 22329884--22329925 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
22329874 CTAGCCTTGT
22329884 CTTTCTCTTTTCTTT-CTTTCC
1 CTTTCTCTTTTCTTTCCTTTCC
*
22329905 CTTTTTCTTTTCTTTCCTTTC
1 CTTTCTCTTTTCTTTCCTTTC
22329926 TATTTCGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
CTTTCTCTTTTCTTTCCTTTCC
Found at i:22329936 original size:21 final size:20
Alignment explanation
Indices: 22329889--22329936 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
22329879 CTTGTCTTTC
*
22329889 TCTTTTCTTTCTTTCCCTTTT
1 TCTTTTCTTTCTTT-CCTATT
22329910 TCTTTTCTTTCCTTT-CTATT
1 TCTTTTCTTT-CTTTCCTATT
22329930 TCGTTTT
1 TC-TTTT
22329937 AGCTTCTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 14 0.58
22 4 0.17
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTCTTTCCTATT
Found at i:22337379 original size:55 final size:55
Alignment explanation
Indices: 22337258--22337394 Score: 159
Period size: 55 Copynumber: 2.5 Consensus size: 55
22337248 GACATGGCCA
* * * ** *
22337258 TGGGCGAACCTGCCAAAACAACAGGGGCGTGCGACACGTCCATGCCTTGAAACTG
1 TGGGCGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAACCG
* * * * *
22337313 T-GGCTGGACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGCAACCG
1 TGGGC-GAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAACCG
22337368 TGGGCGAACCTGCCAAAATAACACGGG
1 TGGGCGAACCTGCCAAAATAACACGGG
22337395 TGTGATACCT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
54 3 0.05
55 60 0.91
56 3 0.05
ACGTcount: A:0.27, C:0.30, G:0.29, T:0.14
Consensus pattern (55 bp):
TGGGCGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAACCG
Found at i:22343396 original size:18 final size:18
Alignment explanation
Indices: 22343369--22343404 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
22343359 TTCAGCTATG
22343369 AAAATATTTCA-AATAAC
1 AAAATATTTCATAATAAC
22343386 AAAACTATTTCATAATAAC
1 AAAA-TATTTCATAATAAC
22343405 TTTCACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATTTCATAATAAC
Found at i:22344851 original size:16 final size:15
Alignment explanation
Indices: 22344831--22344860 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22344821 ATAACCAAAA
22344831 AAAAAACCCAAAATT
1 AAAAAACCCAAAATT
*
22344846 AAAAAACCCACAATT
1 AAAAAACCCAAAATT
22344861 TTTTTTTAAA
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:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAACCCAAAATT
Found at i:22346081 original size:2 final size:2
Alignment explanation
Indices: 22346074--22346109 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
22346064 ATATCAAAGA
22346074 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22346110 GAGTGGTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22347217 original size:60 final size:59
Alignment explanation
Indices: 22347147--22347263 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
22347137 TTTTCATAAG
*
22347147 ATGATTATTATTCTAAAGTAGT-TCATAAACTTAAAAATATTTTAATTATATTCTTAAATT
1 ATGATCATTATTCTAAAGTAGTCT-ATAAACTTAAAAATA-TTTAATTATATTCTTAAATT
* * * * * *
22347207 ATGATCATTATTTTAAATTAGTCTTTAAATTTTAAAATATTTAATTATATTTTTAAA
1 ATGATCATTATTCTAAAGTAGTCTATAAACTTAAAAATATTTAATTATATTCTTAAA
22347264 ACTATCGATC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 17 0.35
60 31 0.63
61 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (59 bp):
ATGATCATTATTCTAAAGTAGTCTATAAACTTAAAAATATTTAATTATATTCTTAAATT
Found at i:22348873 original size:45 final size:45
Alignment explanation
Indices: 22348800--22348889 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
22348790 TTTCCAATAT
*
22348800 TTTTTCTTTCTTTCTTTCTTTCTTCTTCT-TCTTACTTTTGTTTTC
1 TTTTTCTTCCTTTCTTTCTTTCTTCTTCTCT-TTACTTTTGTTTTC
*
22348845 TTTTTCTTCCTTT-TTT-TTTCTTTGCTTCTCTTTTCTTTTGTTTTC
1 TTTTTCTTCCTTTCTTTCTTTC-TT-CTTCTCTTTACTTTTGTTTTC
22348890 CATTCGGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
43 4 0.10
44 5 0.12
45 30 0.75
46 1 0.03
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.74
Consensus pattern (45 bp):
TTTTTCTTCCTTTCTTTCTTTCTTCTTCTCTTTACTTTTGTTTTC
Found at i:22348877 original size:20 final size:19
Alignment explanation
Indices: 22348799--22348883 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 19
22348789 CTTTCCAATA
22348799 TTTTTTCTTTCTT-TCTTT
1 TTTTTTCTTTCTTCTCTTT
*
22348817 CTTTCTTC-TTCTTCTTACTTT
1 -TTTTTTCTTTCTTC-T-CTTT
*
22348838 TGTTTTCTTT-TTCTTCCTTT
1 TTTTTTCTTTCTTC-T-CTTT
22348858 TTTTTTCTTTGCTTCTCTTT
1 TTTTTTCTTT-CTTCTCTTT
22348878 TCTTTT
1 T-TTTT
22348884 GTTTTCCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 5 0.09
19 6 0.11
20 29 0.54
21 11 0.20
22 3 0.06
ACGTcount: A:0.01, C:0.21, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTCTTTCTTCTCTTT
Found at i:22364098 original size:50 final size:50
Alignment explanation
Indices: 22364042--22364176 Score: 191
Period size: 50 Copynumber: 2.7 Consensus size: 50
22364032 CACATATCAA
*
22364042 TGCTGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCATATGTCGAG
1 TGCTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATGTCG-G
* * * *
22364093 -GCTGATGCCATATCCTAGACATGGTCTTACACTAGCTCTTATCTGTCGG
1 TGCTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATGTCGG
* *
22364142 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 TGCTGATGCCATATCCCAGACATGGTCTTACACTG
22364177 ACACATATCA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 73 0.99
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
TGCTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATGTCGG
Found at i:22370405 original size:42 final size:43
Alignment explanation
Indices: 22370353--22370442 Score: 173
Period size: 42 Copynumber: 2.1 Consensus size: 43
22370343 TGCATATAAC
22370353 TCAATATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
1 TCAATATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
22370396 TCAA-ATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
1 TCAATATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
22370438 TCAAT
1 TCAAT
22370443 TAACTAAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 42 0.91
43 4 0.09
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.21
Consensus pattern (43 bp):
TCAATATAAGCCAACACATTTGGCCAAAGCAAAATAATGCATG
Found at i:22371738 original size:50 final size:49
Alignment explanation
Indices: 22371680--22371820 Score: 184
Period size: 50 Copynumber: 3.0 Consensus size: 49
22371670 GAGAAATCTT
* * *
22371680 ACACATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACTGGTTG
1 ACACATATCGAAGCCGATGCCATGTCCCAGACATGGTCTTACACTGG-TG
* * *
22371730 TCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACAC---TG
1 ACACATATCGAAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTG
22371776 ACACATATC-AAG-CGATGCCATGTCCCAGACATGGTCTTACACTGG
1 ACACATATCGAAGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
22371821 CTCACATAAC
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
44 30 0.38
45 2 0.03
46 9 0.11
50 39 0.49
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (49 bp):
ACACATATCGAAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTG
Found at i:22375149 original size:10 final size:10
Alignment explanation
Indices: 22375134--22375159 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22375124 ATAGAAGATA
22375134 TTATTTAGTT
1 TTATTTAGTT
22375144 TTATTTAGTT
1 TTATTTAGTT
22375154 TTATTT
1 TTATTT
22375160 TTTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (10 bp):
TTATTTAGTT
Found at i:22375727 original size:35 final size:35
Alignment explanation
Indices: 22375688--22375759 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
22375678 TGTATTCAGA
22375688 TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
1 TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
22375723 TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
1 TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
22375758 TT
1 TT
22375760 AAACGACCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (35 bp):
TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
Found at i:22378459 original size:21 final size:22
Alignment explanation
Indices: 22378416--22378470 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
22378406 TTTAAATTAC
22378416 TTATTATTTAAGTAAATAGATAT
1 TTATTA-TTAAGTAAATAGATAT
22378439 TTATTATTAAGTAAA-AGATAT
1 TTATTATTAAGTAAATAGATAT
22378460 TTATTAATTAA
1 TTATT-ATTAA
22378471 ATAATTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.35
22 14 0.45
23 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
TTATTATTAAGTAAATAGATAT
Found at i:22379793 original size:18 final size:18
Alignment explanation
Indices: 22379770--22379836 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
22379760 TAAACTAATG
22379770 TACTGAATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
22379788 TACTGAATAACTAAATTGCT
1 TACTGAATAA-TTGATAG-T
*
22379808 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
22379827 TATTGAATAA
1 TACTGAATAA
22379837 CTAAACTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 20 0.51
19 5 0.13
20 5 0.13
21 9 0.23
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:22379816 original size:39 final size:39
Alignment explanation
Indices: 22379768--22379908 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
22379758 GGTAAACTAA
*
22379768 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTGC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* * *
22379807 TGTATTGAATAATTGATAGTTATTGAATAACTAAACTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* * * *
22379846 TGCACTGAATATTTGATAGTTATTGAATGACTAAATTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
*
22379885 TGTACTGAATAATTGATTGTTACT
1 TGTACTGAATAATTGATAGTTACT
22379909 AATTAAATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (39 bp):
TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
Found at i:22379888 original size:78 final size:78
Alignment explanation
Indices: 22379760--22379906 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 78
22379750 TTAATAGGGG
* * *
22379760 TAAACTAATGTACTGAATAATTGATAGTTACTGAATAACTAAATTGCTGTATTGAATAATTGATA
1 TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
22379825 GTTATTGAATAAC
66 GTTATTGAATAAC
* * * * *
22379838 TAAACTACTGCACTGAATATTTGATAGTTATTGAATGACTAAATTACTGTACTGAATAATTGATT
1 TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
22379903 GTTA
66 GTTA
22379907 CTAATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (78 bp):
TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
GTTATTGAATAAC
Found at i:22387062 original size:19 final size:19
Alignment explanation
Indices: 22387025--22387062 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22387015 ACCTGTCAGA
*
22387025 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
22387044 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
22387063 TAAATTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:22392853 original size:34 final size:33
Alignment explanation
Indices: 22392793--22392858 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
22392783 GTTTTAGTCA
* *
22392793 GGGCCTTAGCCCATTACAATATCAGTATCAGTGT
1 GGGCCTGAGCCCATTACAATAACAGTA-CAGTGT
*
22392827 GGGCCTGAGCCCATCT-CAGTAACAGTACAGTG
1 GGGCCTGAGCCCAT-TACAATAACAGTACAGTG
22392859 CATATATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 5 0.18
34 22 0.79
35 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (33 bp):
GGGCCTGAGCCCATTACAATAACAGTACAGTGT
Found at i:22393333 original size:18 final size:17
Alignment explanation
Indices: 22393307--22393340 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22393297 CCATATTACG
22393307 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
22393325 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
22393341 TAGCCTAGAA
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:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:22397380 original size:17 final size:18
Alignment explanation
Indices: 22397358--22397392 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22397348 AGTAGTTTTA
*
22397358 ATAAAATTTTAAA-AAAT
1 ATAAAATTATAAATAAAT
22397375 ATAAAATTATAAATAAAT
1 ATAAAATTATAAATAAAT
22397393 GTTTTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATTATAAATAAAT
Found at i:22398619 original size:3 final size:3
Alignment explanation
Indices: 22398611--22398654 Score: 61
Period size: 3 Copynumber: 13.7 Consensus size: 3
22398601 CTGTAATATA
22398611 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AAAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT -AAT AAT AA
22398655 AGGTAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 30 0.77
4 8 0.21
5 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:22398622 original size:15 final size:15
Alignment explanation
Indices: 22398604--22398654 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
22398594 TAAAAGCCTG
22398604 TAATATAAATAATAA
1 TAATATAAATAATAA
22398619 TAATA-ATAATAATAA
1 TAATATA-AATAATAA
22398634 TAATAGATAAATAAATAA
1 TAAT--ATAAAT-AATAA
22398652 TAA
1 TAA
22398655 AGGTAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.03
15 17 0.55
17 4 0.13
18 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
TAATATAAATAATAA
Found at i:22408529 original size:9 final size:9
Alignment explanation
Indices: 22408515--22408539 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22408505 AACTCGAGCA
22408515 CCTCCACGG
1 CCTCCACGG
22408524 CCTCCACGG
1 CCTCCACGG
22408533 CCTCCAC
1 CCTCCAC
22408540 AGCGGCCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.60, G:0.16, T:0.12
Consensus pattern (9 bp):
CCTCCACGG
Found at i:22412217 original size:28 final size:28
Alignment explanation
Indices: 22412186--22412241 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
22412176 TTTCTAATTA
* *
22412186 AATTTAATTTTAAT-CGTTTTTATATTTT
1 AATTTAATTTAAATAC-TTTATATATTTT
*
22412214 AATTTACTTTAAATACTTTATATATTTT
1 AATTTAATTTAAATACTTTATATATTTT
22412242 TATAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
AATTTAATTTAAATACTTTATATATTTT
Found at i:22412337 original size:14 final size:14
Alignment explanation
Indices: 22412292--22412356 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
22412282 TTATTTTATC
*
22412292 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
22412307 AAATTATATTATATT
1 ATA-TATTTTATTTT
22412322 ATATATTTTATTTT
1 ATATATTTTATTTT
*
22412336 ATATA-TTT-CTTT
1 ATATATTTTATTTT
22412348 ATATATTTT
1 ATATATTTT
22412357 TATAAAATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:22412703 original size:14 final size:13
Alignment explanation
Indices: 22412670--22412719 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
22412660 CTATCTTTCT
*
22412670 TATATTTTTATATA
1 TATATTTTT-TTTA
22412684 TATATTTTTTTTA
1 TATATTTTTTTTA
*
22412697 TACTATTTATTTTA
1 TA-TATTTTTTTTA
22412711 CTATATTTT
1 -TATATTTT
22412720 ATATGCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 5 0.16
14 24 0.77
15 2 0.06
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATTTTTTTTA
Found at i:22412707 original size:18 final size:17
Alignment explanation
Indices: 22412674--22412709 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
22412664 CTTTCTTATA
22412674 TTTTTATATATATATTT
1 TTTTTATATATATATTT
*
22412691 TTTTTATACTATTTATTT
1 TTTTTATA-TATATATTT
22412709 T
1 T
22412710 ACTATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTATATATATATTT
Found at i:22412720 original size:15 final size:14
Alignment explanation
Indices: 22412669--22412721 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
22412659 TCTATCTTTC
22412669 TTATAT-TTTTA-T
1 TTATATATTTTATT
*
22412681 ATATATATTTT-TT
1 TTATATATTTTATT
22412694 TTATACTA-TTTATT
1 TTATA-TATTTTATT
22412708 TTACTATATTTTAT
1 TTA-TATATTTTAT
22412722 ATGCAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 5 0.15
13 12 0.36
14 9 0.27
15 7 0.21
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATATTTTATT
Found at i:22413868 original size:21 final size:21
Alignment explanation
Indices: 22413830--22413869 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22413820 CTCCCGTTTT
* **
22413830 CATTTTTCTAAAGTCGATTCC
1 CATTTTTCAAAACCCGATTCC
22413851 CATTTTTCAAAACCCGATT
1 CATTTTTCAAAACCCGATT
22413870 AAAAAATGGT
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:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (21 bp):
CATTTTTCAAAACCCGATTCC
Found at i:22430958 original size:39 final size:39
Alignment explanation
Indices: 22430904--22430983 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
22430894 ACTCAGTGTG
* *
22430904 TAACCCAACAGAATTAGACATGCAAAACATACAGAGTCA
1 TAACCCAACAAAATTAGACATGCAAAACATACAGAATCA
*
22430943 TAACCTAACAAAATTAGACATGCAAAACATACAGAATCA
1 TAACCCAACAAAATTAGACATGCAAAACATACAGAATCA
22430982 TA
1 TA
22430984 CACACAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.17
Consensus pattern (39 bp):
TAACCCAACAAAATTAGACATGCAAAACATACAGAATCA
Found at i:22437276 original size:34 final size:34
Alignment explanation
Indices: 22437238--22437337 Score: 99
Period size: 34 Copynumber: 3.1 Consensus size: 34
22437228 TTCTATTAAA
22437238 AATTATTTAGTAATATAGTAAAATTTAAGTATCG
1 AATTATTTAGTAATATAGTAAAATTTAAGTATCG
* * * *
22437272 AATTA-TAAGTACATA-AATTATA-TTAA--A---
1 AATTATTTAGTA-ATATAGTAAAATTTAAGTATCG
22437299 AATTATTTAGTAATATAGTAAAATTTAAGTATCG
1 AATTATTTAGTAATATAGTAAAATTTAAGTATCG
22437333 AATTA
1 AATTA
22437338 GTTATGCTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
27 8 0.16
28 9 0.18
29 4 0.08
30 1 0.02
31 1 0.02
32 4 0.08
33 9 0.18
34 13 0.27
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (34 bp):
AATTATTTAGTAATATAGTAAAATTTAAGTATCG
Found at i:22437278 original size:61 final size:61
Alignment explanation
Indices: 22437213--22437337 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
22437203 TAGTACTGAC
*
22437213 TTATAAGTACATAAATTCTATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
1 TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
22437274 TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
1 TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
22437335 TTA
1 TTA
22437338 GTTATGCTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (61 bp):
TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
Found at i:22453891 original size:29 final size:29
Alignment explanation
Indices: 22453859--22453956 Score: 76
Period size: 29 Copynumber: 3.3 Consensus size: 29
22453849 AGTGGTGCCA
22453859 AAAATGCAAACACGGAAGACCCAAGGACT
1 AAAATGCAAACACGGAAGACCCAAGGACT
** ** * *
22453888 AAAATGCAATGAAAGAGAGA---AATGGTGCCA
1 AAAATGCAAACACGGA-AGACCCAA--G-GACT
*
22453918 AAAATGCAAACACGGAAGACCCAATGACT
1 AAAATGCAAACACGGAAGACCCAAGGACT
22453947 AAAATGCAAA
1 AAAATGCAAA
22453957 AGAAGAGATT
Statistics
Matches: 49, Mismatches: 13, Indels: 14
0.64 0.17 0.18
Matches are distributed among these distances:
27 2 0.04
29 28 0.57
30 17 0.35
32 2 0.04
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.10
Consensus pattern (29 bp):
AAAATGCAAACACGGAAGACCCAAGGACT
Found at i:22453963 original size:59 final size:59
Alignment explanation
Indices: 22453833--22453964 Score: 214
Period size: 59 Copynumber: 2.3 Consensus size: 59
22453823 ATGGGCCAAC
*
22453833 ATGCAAAA-AAGAGAGAAGTGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
1 ATGCAAAAGAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
* *
22453891 ATGC-AATGAAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAATGACTAAA
1 ATGCAAAAG-AAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
22453950 ATGCAAAAGAAGAGA
1 ATGCAAAAGAAGAGA
22453965 TTTTATAGCA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
57 2 0.03
58 4 0.06
59 58 0.87
60 3 0.04
ACGTcount: A:0.51, C:0.16, G:0.23, T:0.10
Consensus pattern (59 bp):
ATGCAAAAGAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
Found at i:22454060 original size:10 final size:10
Alignment explanation
Indices: 22454045--22454094 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
22454035 TAATTTTAGG
22454045 ATTTAT-TTT
1 ATTTATCTTT
22454054 CATTTATCTTT
1 -ATTTATCTTT
22454065 ATTTATCTTT
1 ATTTATCTTT
22454075 ATTTAT-TTGT
1 ATTTATCTT-T
22454085 ATTTATCTTT
1 ATTTATCTTT
22454095 TAGAATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:22454844 original size:17 final size:18
Alignment explanation
Indices: 22454811--22454845 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22454801 TTTTGCTCAT
*
22454811 TTTAATTTCTGCAATTTC
1 TTTAATTTCTACAATTTC
22454829 TTTAATTTC-ACAATTTC
1 TTTAATTTCTACAATTTC
22454846 AATTCACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.17, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAATTTCTACAATTTC
Found at i:22459521 original size:15 final size:16
Alignment explanation
Indices: 22459490--22459529 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
22459480 TAATTGGAGT
*
22459490 TTTAAAAAATAAAATA
1 TTTATAAAATAAAATA
22459506 TTTATAAAAT-AAATA
1 TTTATAAAATAAAATA
22459521 TTT-TAAAAT
1 TTTATAAAAT
22459530 TATAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTATAAAATAAAATA
Found at i:22459547 original size:25 final size:21
Alignment explanation
Indices: 22459507--22459564 Score: 55
Period size: 25 Copynumber: 2.5 Consensus size: 21
22459497 AATAAAATAT
22459507 TTATAAAATA-AATATTTTAAAA
1 TTATAAAATATAATA--TTAAAA
22459529 TTATAAAATATGAATTATTAAAA
1 TTATAAAATAT-AA-TATTAAAA
22459552 TAATATAAAATAT
1 T--TATAAAATAT
22459565 CTTAAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 10 0.32
23 7 0.23
24 2 0.06
25 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTATAAAATATAATATTAAAA
Found at i:22469004 original size:217 final size:218
Alignment explanation
Indices: 22468606--22469022 Score: 674
Period size: 217 Copynumber: 1.9 Consensus size: 218
22468596 TGTAGGGTCG
* * *
22468606 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTGTTAGACTAATTTGATTAGGATA
1 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTAATTAGGATA
* * *
22468671 CTAATGTATGCCTGATTATACTAATATATGTGTATCTGTTATTTGTATAAAACATTTTGAGCATG
66 CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
* * * *
22468736 TTTAGTCTGATAAATCTGTATCTGATATCTGCATCTGTTCTGGGTTGGGTTTTATATATATGT-G
131 TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
22468800 AGGAACCCACACTTCTAGAGTCA
196 AGGAACCCACACTTCTAGAGTCA
* * *
22468823 GTAAGGGCTAATTAAACTCCTATCTGTATGCTATGAAATTCTATTAGACTAATCTAATTAGGGTA
1 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTAATTAGGATA
* *
22468888 CTAATGTATGCCTGATTATACTGATATATGTGTATCTATTAGTTGTATAAAGCATGTTGAGCATG
66 CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
* *
22468953 TTTAGTCTAATAAATATGTATCTGATATTTGCATTTGGTCTGGGGTGGGTTTTATATATATGTGG
131 TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
22469018 AGGAA
196 AGGAA
22469023 GTGTTCTGTA
Statistics
Matches: 182, Mismatches: 17, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
217 176 0.97
218 6 0.03
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (218 bp):
GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTAATTAGGATA
CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
AGGAACCCACACTTCTAGAGTCA
Found at i:22470257 original size:33 final size:33
Alignment explanation
Indices: 22470220--22470288 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
22470210 CAATCTTATA
22470220 TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
1 TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
22470253 TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
1 TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
22470286 TCA
1 TCA
22470289 TGAGCTTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (33 bp):
TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
Found at i:22470615 original size:26 final size:26
Alignment explanation
Indices: 22470568--22470618 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
22470558 TCTTCGTAAA
*
22470568 TTTAAAATTTAATTTTTATACTTTTT
1 TTTAAAATTTAATATTTATACTTTTT
*
22470594 TTTAAGAATTTAGTATTT-TACTTTT
1 TTTAA-AATTTAATATTTATACTTTT
22470619 CAAATTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTAAAATTTAATATTTATACTTTTT
Found at i:22470750 original size:186 final size:190
Alignment explanation
Indices: 22470455--22470830 Score: 498
Period size: 186 Copynumber: 2.0 Consensus size: 190
22470445 TTTATACAAG
* *
22470455 AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTATGTATTATCTTGTTTGAATA
1 AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTA-GCATAATCTTGTTTGAATA
* * * * **
22470520 GATAAAATTAGTAAACAAAAAGAAATTAGTCGACGTACTCTTCGTAAATTTAAAATTTAATTTTT
65 GACAAAAATAGTAAACAAAAAGAAATTAGTCCACGTACTCTTCGTAAATTTAAAATTT-AGTAAT
* *
22470585 A-TACTT-T-TTTTTAAGAATTTAGT-ATTTTACTTTT-CAAATTTCAAAATTCAAGTTTAAA
129 AGTACTTATATTTTTAAGAATTTAGTCATTCTA-TTTTGCAAATTTCAAAATTCAAGCTTAAA
*
22470643 AAAAAGTTAAAATTAGTAAACCAAAACAATGAAAAGGAAATGATTA-CA-AATCTTGTTTGAATA
1 AAAAAGTT-AAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTAGCATAATCTTGTTTGAATA
* * ** *
22470706 GACAAAAATAGTAAACAAAAGGAAATTAG-CCTCTGTGTTCTTCGTAAATTTAGAATTTAGTAAT
65 GACAAAAATAGTAAACAAAAAGAAATTAGTCCAC-GTACTCTTCGTAAATTTAAAATTTAGTAAT
*
22470770 AGTACTTATATTTTTAGGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAA
129 AGTACTTATATTTTTAAGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAA
22470831 CTGTTAACAC
Statistics
Matches: 164, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
185 6 0.04
186 66 0.40
187 2 0.01
188 27 0.16
189 63 0.38
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (190 bp):
AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTAGCATAATCTTGTTTGAATAG
ACAAAAATAGTAAACAAAAAGAAATTAGTCCACGTACTCTTCGTAAATTTAAAATTTAGTAATAG
TACTTATATTTTTAAGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAAA
Found at i:22471479 original size:20 final size:20
Alignment explanation
Indices: 22471437--22471479 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
22471427 ATTAACTCTA
* **
22471437 TTAAATAGTAAATGATATTT
1 TTAAACAGTAAATGATAACT
*
22471457 TTAAACAGTAAATGTTAACT
1 TTAAACAGTAAATGATAACT
22471477 TTA
1 TTA
22471480 TTCCAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (20 bp):
TTAAACAGTAAATGATAACT
Found at i:22479701 original size:21 final size:21
Alignment explanation
Indices: 22479647--22479701 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
22479637 GTGGAGGTCT
* *
22479647 ACACGCCCATATGGAGGCCAC
1 ACACGCCCATGTGAAGGCCAC
* *
22479668 ACACACCCATGTGAAGGCCCC
1 ACACGCCCATGTGAAGGCCAC
*
22479689 ACACGCCCGTGTG
1 ACACGCCCATGTG
22479702 GATGGGGCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.40, G:0.24, T:0.11
Consensus pattern (21 bp):
ACACGCCCATGTGAAGGCCAC
Found at i:22480059 original size:19 final size:19
Alignment explanation
Indices: 22480031--22480073 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
22480021 TGGTAGCCTG
*
22480031 CAAAACGTGCCTTTGATAT
1 CAAAAAGTGCCTTTGATAT
*
22480050 CAAAAAGTGCCTTTGATGT
1 CAAAAAGTGCCTTTGATAT
22480069 CAAAA
1 CAAAA
22480074 CAATCCCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (19 bp):
CAAAAAGTGCCTTTGATAT
Found at i:22492799 original size:17 final size:18
Alignment explanation
Indices: 22492758--22492803 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
22492748 CTTAAAAATA
*
22492758 AATATAATTAAATTTATTT
1 AATATAATTAAA-TTATTG
22492777 AATATAATTAAA-TATTG
1 AATATAATTAAATTATTG
*
22492794 ATTATAATTA
1 AATATAATTA
22492804 TTTTTTGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.52
19 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATATAATTAAATTATTG
Found at i:22492925 original size:16 final size:16
Alignment explanation
Indices: 22492904--22492947 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
22492894 ATTTATGTTT
22492904 AATATTTATTTTTAAA
1 AATATTTATTTTTAAA
22492920 AATA--T-TTTTT-AA
1 AATATTTATTTTTAAA
*
22492932 AATTTTTATTTTTAAA
1 AATATTTATTTTTAAA
22492948 GTTTTCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 2 0.09
15 5 0.22
16 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATATTTATTTTTAAA
Found at i:22494770 original size:63 final size:63
Alignment explanation
Indices: 22494693--22494947 Score: 273
Period size: 62 Copynumber: 4.1 Consensus size: 63
22494683 GTGCAGGGTT
* * * * * *
22494693 CACATGGCCAGGGACACAAGTGTGTGCCTAGGCCGTGTAACTCACTGTTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* * ** *
22494756 CATACGGCCAGGGACACGGGCGTGTGCCCAAGCCATGTAACTTGCTATTT-GGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* ** * *
22494818 CACACAGCCAGGGACATGGGCATGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* * * * * * *
22494881 CACAAGACC-GGGACACAGGTGTGTGCCCAAGCCGTGTAATTCACTGTTTGTGCT-TAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
*
22494942 GACACG
1 CACACG
22494948 ACCAAGGCAC
Statistics
Matches: 158, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
61 11 0.07
62 90 0.57
63 57 0.36
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (63 bp):
CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
Found at i:22494964 original size:125 final size:125
Alignment explanation
Indices: 22494715--22494974 Score: 321
Period size: 125 Copynumber: 2.1 Consensus size: 125
22494705 GACACAAGTG
* * * * * *
22494715 TGTGCCTAGGCCGTGTAACTCACTGTTTGGGGTATAAAAACCATACGGCCAGGGACACGGGCGTG
1 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
* * * *
22494780 TGCCCAAGCCATGTAACTTGCTATTTGGGTATAAAAACCACACAGCCAGGGACATGGGCA
66 TGCCCAAGCCATGTAACTTACTATTTGGCTATAAAAACCACACAGCCAGGCACACGGGCA
*
22494840 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACC-GGGACACAGGTGTG
1 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
* * *
22494904 TGCCCAAGCCGTGTAA-TTCACTGTTTGTGCT-TAAAAACGACAC-GACCAAGGCACACGGGCA
66 TGCCCAAGCCATGTAACTT-ACTATTTG-GCTATAAAAACCACACAG-CC-AGGCACACGGGCA
*
22494965 TGTGGCCAGG
1 TGTGCCCAGG
22494975 AAGTGTTACA
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
123 3 0.03
124 46 0.40
125 67 0.58
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (125 bp):
TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
TGCCCAAGCCATGTAACTTACTATTTGGCTATAAAAACCACACAGCCAGGCACACGGGCA
Found at i:22497442 original size:16 final size:16
Alignment explanation
Indices: 22497421--22497457 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
22497411 TCCATATTAT
22497421 GCTCTCATTGATATTG
1 GCTCTCATTGATATTG
22497437 GCTCTCATTGATATTG
1 GCTCTCATTGATATTG
22497453 GCTCT
1 GCTCT
22497458 ACTCACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (16 bp):
GCTCTCATTGATATTG
Found at i:22498679 original size:13 final size:13
Alignment explanation
Indices: 22498661--22498685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22498651 ATGAATTCGT
22498661 AAATATTTATTAG
1 AAATATTTATTAG
22498674 AAATATTTATTA
1 AAATATTTATTA
22498686 AGCTAGTAGT
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
AAATATTTATTAG
Found at i:22507366 original size:63 final size:62
Alignment explanation
Indices: 22507290--22507487 Score: 236
Period size: 63 Copynumber: 3.2 Consensus size: 62
22507280 ATGCAGGGTT
* *
22507290 CACACGGCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTGTTTAGGGTATAAAAAC
1 CACACGGCCAGGGACACAGACGTGTGCCCAGGCCGTGTAACTCACTGTTT-GGGTATAAAAAC
* * * ** * * *
22507353 CACACGACCAGGGACACAGATGTGTACGTAAGCCATGTAACTCACTATTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACAGACGTGTGCCCAGGCCGTGTAACTCACTGTTT-GGGTATAAAAAC
* * * *
22507416 CACACGGTCAAGGACACAGACGTGTGCCCAGGCCGCGTAACTCACTGTTTGTGCT-TAAAAAC
1 CACACGGCCAGGGACACAGACGTGTGCCCAGGCCGTGTAACTCACTGTTTG-GGTATAAAAAC
22507478 CACACGGCCA
1 CACACGGCCA
22507488 AGGCACACGG
Statistics
Matches: 110, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
62 17 0.15
63 93 0.85
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.18
Consensus pattern (62 bp):
CACACGGCCAGGGACACAGACGTGTGCCCAGGCCGTGTAACTCACTGTTTGGGTATAAAAAC
Found at i:22512954 original size:30 final size:30
Alignment explanation
Indices: 22512920--22512976 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
22512910 TAACTCAAAA
22512920 TTTTGAAAAATTACAATTTTGCCCCTAAAC
1 TTTTGAAAAATTACAATTTTGCCCCTAAAC
* * * *
22512950 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
22512977 GGCTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:22514971 original size:19 final size:18
Alignment explanation
Indices: 22514949--22514996 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
22514939 ATTTTACATC
*
22514949 ATTATTTTTATATTATT-
1 ATTATTTATATATTATTA
22514966 A-TA-TTATATATTTATTA
1 ATTATTTATATA-TTATTA
22514983 ATTATTTATATATT
1 ATTATTTATATATT
22514997 GTTCTTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
17 2 0.08
18 4 0.15
19 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTATTTATATATTATTA
Found at i:22514980 original size:27 final size:28
Alignment explanation
Indices: 22514895--22514981 Score: 79
Period size: 33 Copynumber: 3.0 Consensus size: 28
22514885 TACGATTTTA
22514895 TTATATTATTAT-TTATTATATATTATTT
1 TTATATTATTATATTA-TATATATTATTT
* * *
22514923 TTCACAAATTATTATTATTTTACATCATTATTT
1 TT---ATATTATTA-TATTATATAT-ATTATTT
22514956 TTATATTATTATATTATATAT-TTATT
1 TTATATTATTATATTATATATATTATT
22514982 AATTATTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
27 5 0.11
28 2 0.04
29 8 0.17
30 8 0.17
31 8 0.17
32 5 0.11
33 11 0.23
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATATTATTATATTATATATATTATTT
Found at i:22514996 original size:15 final size:16
Alignment explanation
Indices: 22514895--22514996 Score: 56
Period size: 16 Copynumber: 6.6 Consensus size: 16
22514885 TACGATTTTA
22514895 TTATATTATTAT-TTA-
1 TTATA-TATTATATTAT
22514910 TTATATATTAT-TT-T
1 TTATATATTATATTAT
* * *
22514924 TCACAAATTATTATTAT
1 TTATATATTA-TATTAT
* *
22514941 TT-TACATCATTATT-T
1 TTATATATTA-TATTAT
22514956 TTATATTATTATATTAT
1 TTATA-TATTATATTAT
* *
22514973 ATATTTATTA-ATTAT
1 TTATATATTATATTAT
22514988 TTATATATT
1 TTATATATT
22514997 GTTCTTACAT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
14 15 0.22
15 21 0.31
16 22 0.33
17 9 0.13
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATATTATATTAT
Found at i:22515243 original size:15 final size:15
Alignment explanation
Indices: 22515225--22515275 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
22515215 TAATTATTTA
22515225 TTTATTATGTATTAT
1 TTTATTATGTATTAT
**
22515240 TTTAAAATGATATT-T
1 TTTATTATG-TATTAT
*
22515255 TTATATTATGTGTTAT
1 TT-TATTATGTATTAT
22515271 TTTAT
1 TTTAT
22515276 AAATTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (15 bp):
TTTATTATGTATTAT
Found at i:22515262 original size:31 final size:32
Alignment explanation
Indices: 22515219--22515279 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
22515209 AATTATTAAT
22515219 TATTTATTTATTATGTATTATTTTA-AAATGA
1 TATTTATTTATTATGTATTATTTTATAAATGA
*
22515250 TATTT-TTATATTATGTGTTATTTTATAAAT
1 TATTTATT-TATTATGTATTATTTTATAAAT
22515280 TCTTTTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (32 bp):
TATTTATTTATTATGTATTATTTTATAAATGA
Found at i:22527183 original size:44 final size:44
Alignment explanation
Indices: 22527127--22527341 Score: 181
Period size: 44 Copynumber: 4.9 Consensus size: 44
22527117 TTAGCATGGC
* *
22527127 ATCCTTGTGTTTATAGGGAACAAGTTGAAGATAACAGATTTGGA
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
* * *
22527171 ATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCT-GA
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
* * * * * ** *
22527214 CA-CTCCTGTGCTTACAGCGATGC-AGATCGAGGATTTCAGCA--TGGC
1 -ATC-CCTGTGTTTATAGGGA-ACAAG-TCGAAGATAACAG-ATTTGGA
* * *
22527259 ATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
*
22527303 ATCCCTATGTTTATAGGGAAC-AGATCGAAGATAACAGAT
1 ATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAACAGAT
22527342 CTGACACTCA
Statistics
Matches: 135, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
42 1 0.01
43 15 0.11
44 105 0.78
45 13 0.10
46 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
Found at i:22527268 original size:132 final size:132
Alignment explanation
Indices: 22527022--22527442 Score: 682
Period size: 132 Copynumber: 3.2 Consensus size: 132
22527012 ATGTAGATCA
*
22527022 AAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAGGATAGCAGATCTGACACT
1 AAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACT
* * * * *
22527086 CCTGTGCTTACAGCGAAGTAGATTGAAGATTTTAGCATGGCATCCTTGTGTTTATAGGGAACAAG
65 CCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG
22527151 TTG
130 TTG
*
22527154 AAGATAACAGATTTGGAATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
*
22527219 CTGTGCTTACAGCGATGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
66 CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
22527284 TG
131 TG
* * * *
22527286 AAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTC
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
* *
22527351 ATGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCGTGTGTTTATAGGGAACAAGT
66 CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
22527416 TG
131 TG
* *
22527418 AAGATAGCAGATTTGGCATCTCTGT
1 AAGATAACAGATTTGGCATCCCTGT
22527443 ATTGTCAGAG
Statistics
Matches: 270, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 267 0.99
133 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
TG
Found at i:22527409 original size:88 final size:86
Alignment explanation
Indices: 22527034--22527429 Score: 252
Period size: 88 Copynumber: 4.5 Consensus size: 86
22527024 GAAACAAGAT
* *
22527034 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAGGATAGCAGATCTGACA-CTCCTGTGCTTACA
1 TTGGCATCCCTGTGTTTATAGGGAAC-AATCGAAGATAACAGATCTGACATC-CCTGTGCTTACA
* * ***
22527098 GCGAAGTAGATTGAAGATTTTAGCA
64 GCGAA-CAGATCGAAGATAGCAG-A
* * * * *
22527123 -TGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATAACAGATTTGGA-ATCCCTGTGTTTATA
1 TTGGCATCCCTGTGTTTATAGGGAACAA-TCGAAGATAACAGATCT-GACATCCCTGTGCTTACA
* *
22527186 GGGAACAAATCGAAGATAGCAGA
64 GCGAACAGATCGAAGATAGCAGA
* * * * * * ** * *
22527209 TCTGACA-CTCCTGTGCTTACAGCGATGCAGATCGAGGATTTCAG--CATGGCATCCCTGTGTTT
1 T-TGGCATC-CCTGTGTTTATAGGGA-ACA-ATCGAAGATAACAGATC-TGACATCCCTGTGCTT
* * *
22527271 ATAGGGAACA-AGTTGAAGATAGCAGA
61 ACAGCGAACAGA-TCGAAGATAGCAGA
* *
22527297 TTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGATCTGACA-CTCATGTGCTTAC
1 -TTGGCATCCCTGTGTTTATAGGGAACA-ATCGAAGATAACAGATCTGACATC-CCTGTGCTTAC
* **
22527361 AGCGAAGCAGATCGAGGATTTCAGCA
63 AGCGAA-CAGATCGAAGATAGCAG-A
* * *
22527387 -TGGCATCCGTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
1 TTGGCATCCCTGTGTTTATAGGGAACAA-TCGAAGATAACAGAT
22527430 TTGGCATCTC
Statistics
Matches: 238, Mismatches: 49, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
86 1 0.00
87 32 0.13
88 174 0.73
89 28 0.12
90 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (86 bp):
TTGGCATCCCTGTGTTTATAGGGAACAATCGAAGATAACAGATCTGACATCCCTGTGCTTACAGC
GAACAGATCGAAGATAGCAGA
Found at i:22527853 original size:198 final size:201
Alignment explanation
Indices: 22527506--22527981 Score: 697
Period size: 198 Copynumber: 2.4 Consensus size: 201
22527496 GAGCAGATCG
* * *
22527506 AAGACATAGCTGATTTGGCTTTCACATGCTTACGTTGAAACAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
* *
22527571 TGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGATGGAGGGCAGACACATAGCAG
66 TGTATTGT---AG-ACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCAGACACATAGCAG
* *
22527636 ATCCAAACTTCAGATGTTTATACTAAAGCAAATCCAAGATGGTTTGGTATCCTTGTGCTTACAAG
127 ATCCAAACTTCAAATGTTTATACTAAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
22527701 GAACAAATCA
192 GAACAAATCA
* *
22527711 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCCTCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
*
22527776 TGTATT-T-G-CAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCAGACACATAGCAGATTC
66 TGTATTGTAGACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCAGACACATAGCAGATCC
* * * *
22527838 AAACTTCAAATGTTTATACTCAAGTAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGC
131 AAACTTCAAATGTTTATACTAAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAC
* *
22527903 GAATCG
196 AAATCA
* * ** * *
22527909 AAGACATATCCGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATGAGTCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
22527974 TGTATTGT
66 TGTATTGT
22527982 CAGAGAACGA
Statistics
Matches: 246, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
198 177 0.72
199 1 0.00
200 1 0.00
204 1 0.00
205 66 0.27
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (201 bp):
AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
TGTATTGTAGACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCAGACACATAGCAGATCC
AAACTTCAAATGTTTATACTAAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAC
AAATCA
Found at i:22529698 original size:30 final size:30
Alignment explanation
Indices: 22529656--22529737 Score: 78
Period size: 33 Copynumber: 2.6 Consensus size: 30
22529646 ATTTTATTAT
22529656 ATTATTATTTATTATATATTATTTTTCACA-A
1 ATTATTA-TTATTATATATTATTTTT-ACATA
* * *
22529687 ATTATTATTATTTTACATCATTATTTTTATATT
1 ATTATTATTA--TTATAT-ATTATTTTTACATA
22529720 ATTATTA-TATTATATATT
1 ATTATTATTATTATATATT
22529738 TATTAATTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
29 3 0.07
30 8 0.19
31 7 0.16
32 9 0.21
33 16 0.37
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTATTATTATTATATATTATTTTTACATA
Found at i:22529740 original size:19 final size:19
Alignment explanation
Indices: 22529714--22529756 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22529704 TCATTATTTT
22529714 TATA-TTATT-ATTATATTA
1 TATATTTATTAATTA-ATTA
*
22529732 TATATTTATTAATTACTTA
1 TATATTTATTAATTAATTA
22529751 TATATT
1 TATATT
22529757 GTTCTTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 14 0.64
20 4 0.18
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTTATTAATTAATTA
Found at i:22529741 original size:11 final size:11
Alignment explanation
Indices: 22529655--22529753 Score: 57
Period size: 11 Copynumber: 9.0 Consensus size: 11
22529645 GATTTTATTA
22529655 TATTATTAT-T
1 TATTATTATAT
22529665 TATTA-TATAT
1 TATTATTATAT
* *
22529675 TATTTTTCACA-
1 TATTATT-ATAT
*
22529686 AATTATTATTAT
1 TATTATTA-TAT
*
22529698 T-TTA-CATCAT
1 TATTATTAT-AT
*
22529708 TATTTTTATAT
1 TATTATTATAT
22529719 TATTATTATAT
1 TATTATTATAT
22529730 TATATATT-TAT
1 TAT-TATTATAT
22529741 TAATTACTTATAT
1 T-ATTA-TTATAT
22529754 ATTGTTCTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 21
0.68 0.10 0.21
Matches are distributed among these distances:
9 4 0.06
10 15 0.22
11 33 0.49
12 12 0.18
13 3 0.04
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTATTATAT
Found at i:22529741 original size:30 final size:29
Alignment explanation
Indices: 22529652--22529737 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 29
22529642 TACGATTTTA
22529652 TTATATTATTATT-TATTATATATTATTT
1 TTATATTATTATTATATTATATATTATTT
* * *
22529680 TTCACAAATTATTATTATTTTACATCATTATTT
1 TT---ATATTATTATTATATTATAT-ATTATTT
22529713 TTATATTATTATTATATTATATATT
1 TTATATTATTATTATATTATATATT
22529738 TATTAATTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
28 2 0.04
29 3 0.06
30 17 0.36
31 10 0.21
32 6 0.13
33 9 0.19
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATATTATTATTATATTATATATTATTT
Found at i:22530005 original size:15 final size:15
Alignment explanation
Indices: 22529987--22530037 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
22529977 TAATTATTTA
22529987 TTTATTATGTATTAT
1 TTTATTATGTATTAT
**
22530002 TTTAAAATGATATT-T
1 TTTATTATG-TATTAT
*
22530017 TTATATTATGTGTTAT
1 TT-TATTATGTATTAT
22530033 TTTAT
1 TTTAT
22530038 AAATTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (15 bp):
TTTATTATGTATTAT
Found at i:22530024 original size:31 final size:32
Alignment explanation
Indices: 22529981--22530041 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
22529971 AATTATTAAT
22529981 TATTTATTTATTATGTATTATTTTA-AAATGA
1 TATTTATTTATTATGTATTATTTTATAAATGA
*
22530012 TATTT-TTATATTATGTGTTATTTTATAAAT
1 TATTTATT-TATTATGTATTATTTTATAAAT
22530042 TCTTTTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (32 bp):
TATTTATTTATTATGTATTATTTTATAAATGA
Found at i:22530157 original size:28 final size:27
Alignment explanation
Indices: 22530126--22530191 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
22530116 AATATTTTGT
*
22530126 TATTATGTTTTATATATTATATAGCAAA
1 TATTATGTTTTATAGATTAT-TAGCAAA
**
22530154 TATTA--TTTTA-AGATTATTATTAAA
1 TATTATGTTTTATAGATTATTAGCAAA
22530178 TATTATGTCTTTAT
1 TATTATGT-TTTAT
22530192 TTGTGTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 10 0.32
25 6 0.19
26 6 0.19
27 4 0.13
28 5 0.16
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (27 bp):
TATTATGTTTTATAGATTATTAGCAAA
Found at i:22534896 original size:22 final size:22
Alignment explanation
Indices: 22534842--22534905 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
22534832 TAATAACATG
*
22534842 ATTA-ATAATATCT-TTTTTAT
1 ATTATATAATATTTATTTTTAT
*
22534862 AATTAT-CAA-ATTTATTTTTAT
1 -ATTATATAATATTTATTTTTAT
*
22534883 ATTATATAATATTTAATTTTAT
1 ATTATATAATATTTATTTTTAT
22534905 A
1 A
22534906 AAATGCACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.23
21 15 0.43
22 12 0.34
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATATAATATTTATTTTTAT
Found at i:22542278 original size:18 final size:19
Alignment explanation
Indices: 22542255--22542299 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
22542245 AATATATTTA
*
22542255 AAAACATAAAAA-AATATT
1 AAAACATAAAAATAATACT
22542273 AAAACAAATAAAAATAATACT
1 AAAAC--ATAAAAATAATACT
22542294 AAAACA
1 AAAACA
22542300 ATTCTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 1 0.04
20 7 0.30
21 10 0.43
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAACATAAAAATAATACT
Found at i:22542283 original size:20 final size:21
Alignment explanation
Indices: 22542260--22542300 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22542250 ATTTAAAAAC
*
22542260 ATAAAAA-AATATTAAAACAA
1 ATAAAAATAATACTAAAACAA
22542280 ATAAAAATAATACTAAAACAA
1 ATAAAAATAATACTAAAACAA
22542301 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAAAATAATACTAAAACAA
Found at i:22542291 original size:21 final size:21
Alignment explanation
Indices: 22542244--22542300 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
22542234 ATAATAAATC
*
22542244 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
22542264 AAA-AATATTAAAACAAATAA
1 AAATAATATTAAAACAAATAA
*
22542284 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
22542301 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 14 0.44
21 12 0.38
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:22542377 original size:15 final size:16
Alignment explanation
Indices: 22542347--22542379 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22542337 AAATGGTTAT
22542347 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
22542364 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
22542379 A
1 A
22542380 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:22552582 original size:18 final size:18
Alignment explanation
Indices: 22552537--22552581 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
22552527 TACTTGAGTC
*
22552537 GGCC-CGTTTTCTAAACG
1 GGCCTCGTTTTCTAAACA
22552554 GGCCTCGTTTTCTAAACA
1 GGCCTCGTTTTCTAAACA
22552572 GG-CTCGTTTT
1 GGCCTCGTTTT
22552582 TTGCCCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (18 bp):
GGCCTCGTTTTCTAAACA
Found at i:22553817 original size:35 final size:34
Alignment explanation
Indices: 22553772--22553839 Score: 118
Period size: 35 Copynumber: 2.0 Consensus size: 34
22553762 GAAAATATAT
22553772 ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
*
22553806 ATTTTGTTTAACTTGACTTGCAAGCAATGTCTTA
1 ATTTT-TTTAACTTGACTTGCAAGCAATCTCTTA
22553840 AAATTTGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 5 0.16
35 27 0.84
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (34 bp):
ATTTTTTTAACTTGACTTGCAAGCAATCTCTTAG
Found at i:22554849 original size:39 final size:39
Alignment explanation
Indices: 22554806--22554883 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
22554796 TTGCTACTCC
22554806 CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
1 CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
22554845 CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
1 CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
22554884 AACCTTTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (39 bp):
CAAATCATTCATTTCAAATTCTTCACTAAGTTGAGTTTT
Found at i:22565167 original size:105 final size:104
Alignment explanation
Indices: 22564625--22565177 Score: 484
Period size: 105 Copynumber: 5.3 Consensus size: 104
22564615 CAGAGTGTTG
* * * * * *
22564625 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGCCAAAAATATCTTCAGCTTCAGA
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
* * *
22564690 AACCATACTAATCTTGCAAAGAGAATCCATCAATATATTA
66 AACCATAC-CATCTTGCAAAGAGAATCGATCAATATACTA
* * ** ** ** * *
22564730 TACGTGATAACATTAGG-TTCAACACCTTGCTTTCTCATCGTGCCAACAATAAATTCAGCTTCAG
1 TATGTGACAACATTAGGCTT-AATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAG
* * *
22564794 AAACCATACCATTCTTGCAAAGCGAATCTATCAATGTACTA
65 AAACCATACCA-TCTTGCAAAGAGAATCGATCAATATACTA
* * * *** * * *
22564835 TACGTGACAACAGTAGG-TTCGATGCCTTGCTTTCTCATCGCGTCAACAACAACTTCGGCTTTAG
1 TATGTGACAACATTAGGCTT-AATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAG
* * * *
22564899 AAACC-TCCCCCATCTTGCAAAGAGTATCTATGAATATACTA
65 AAACCAT--ACCATCTTGCAAAGAGAATCGATCAATATACTA
* * * * * *
22564940 TATGTGACAACATCAAGCTTAATGCCTTGCTTTGTCA-TAGTGCCGACGATATTTTCGGCTTTAG
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTA-TGCCAACAATATCTTCGGCTTTAG
* * * * * *
22565004 AAATCATTCCTTTCTTACAAAGAGCATCGATCAATATGCTA
65 AAACCATACC-ATCTTGCAAAGAGAATCGATCAATATACTA
* *
22565045 TATGTGACAACATTAGGCTTAATGCCTTGCTTTGTCATTATGCCAACAATATCTTCGGCTTTGGA
1 TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
* * * * * *
22565110 TATCATTCCCTGCTTGCAAAGCGCATCGATCAATATACTA
66 AACCATACCAT-CTTGCAAAGAGAATCGATCAATATACTA
* *
22565150 TATGTGACGACATTAGGCTTACTGCCTT
1 TATGTGACAACATTAGGCTTAATGCCTT
22565178 TTTTTATCAT
Statistics
Matches: 370, Mismatches: 68, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
104 6 0.02
105 356 0.96
106 8 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (104 bp):
TATGTGACAACATTAGGCTTAATGCCTTGCTTTCTCATTATGCCAACAATATCTTCGGCTTTAGA
AACCATACCATCTTGCAAAGAGAATCGATCAATATACTA
Found at i:22566080 original size:4 final size:4
Alignment explanation
Indices: 22566073--22566097 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22566063 TAGGGTGGGT
22566073 TTTG TTTG TTTG TTTG TTTG TTTG T
1 TTTG TTTG TTTG TTTG TTTG TTTG T
22566098 GCTCCTTGCT
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:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:22568243 original size:34 final size:34
Alignment explanation
Indices: 22568199--22568278 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
22568189 ATTAGAGTTT
* *
22568199 TAAATAAATTAAACTAGGATT-TATGGTGTT-TAAA
1 TAAATTAATTAAACTAGGGTTATA-GG-GTTCTAAA
*
22568233 TAAATTAATTAAATTAGGGTTATAGGGTTCTAAA
1 TAAATTAATTAAACTAGGGTTATAGGGTTCTAAA
22568267 TAAATTATATTA
1 TAAATTA-ATTA
22568279 GGGTTTAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 3 0.08
34 31 0.77
35 6 0.15
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.40
Consensus pattern (34 bp):
TAAATTAATTAAACTAGGGTTATAGGGTTCTAAA
Found at i:22568267 original size:30 final size:31
Alignment explanation
Indices: 22568233--22568320 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 31
22568223 GGTGTTTAAA
22568233 TAAATTAATTAAATTAGGG-TTATAGGGTT-C
1 TAAATTAATTAAATTAGGGTTTA-AGGGTTGC
* * *
22568263 TAAATAAATTATATTAGGGTTTAAGGTTTAGGGC
1 TAAATTAATTAAATTAGGGTTTAAGGGTT---GC
22568297 TAAAATTAATTAAATTAGGGTTTA
1 T-AAATTAATTAAATTAGGGTTTA
22568321 GTTTTTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
30 22 0.47
31 3 0.06
34 2 0.04
35 20 0.43
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (31 bp):
TAAATTAATTAAATTAGGGTTTAAGGGTTGC
Found at i:22572636 original size:7 final size:7
Alignment explanation
Indices: 22572626--22572657 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22572616 TTATATACAT
22572626 AATACTA
1 AATACTA
22572633 AATACTA
1 AATACTA
22572640 AATACTA
1 AATACTA
*
22572647 AGTACTA
1 AATACTA
22572654 AATA
1 AATA
22572658 TGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22573598 original size:24 final size:23
Alignment explanation
Indices: 22573505--22573599 Score: 57
Period size: 25 Copynumber: 3.7 Consensus size: 23
22573495 CTGTTATAGA
*
22573505 AAATTATA-AAATACAAATTAATT
1 AAATTACATAAATA-AAATTAATT
**
22573528 AAAATTACATAAATGAAAAAAATATT
1 -AAATTACATAAAT-AAAATTA-ATT
*
22573554 AAATAATATTCAAAAATTAAAATTAATT
1 AAAT--TA--CATAAA-TAAAATTAATT
22573582 AAGATTACATAAATAAAA
1 AA-ATTACATAAATAAAA
22573600 AAATATTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
24 12 0.22
25 17 0.31
26 4 0.07
27 4 0.07
28 5 0.09
29 12 0.22
30 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATTACATAAATAAAATTAATT
Done.