Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 66 of 313
Found at i:22341954 original size:25 final size:24
Alignment explanation
Indices: 22341893--22341958 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
22341883 ACTGTTACTC
*
22341893 AGCTCGTATGAGC-TGACCGATTAT
1 AGCTCGTATGAGCAT-ACCGATTAG
** *
22341917 AGCTCAAAAGAGCATACCGATTCAG
1 AGCTCGTATGAGCATACCGATT-AG
22341942 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
22341959 ATGTACAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (24 bp):
AGCTCGTATGAGCATACCGATTAG
Found at i:22342808 original size:20 final size:20
Alignment explanation
Indices: 22342783--22342822 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22342773 AAATGTAATA
*
22342783 AGAAAGTCCACGCAGTTGTG
1 AGAAAGTCCACGCAGATGTG
*
22342803 AGAAAGTCCATGCAGATGTG
1 AGAAAGTCCACGCAGATGTG
22342823 TGGCCACCTT
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:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (20 bp):
AGAAAGTCCACGCAGATGTG
Found at i:22343421 original size:17 final size:17
Alignment explanation
Indices: 22343399--22343432 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22343389 CCCAACAGTA
22343399 GGTCCACAGTCGTCTCG
1 GGTCCACAGTCGTCTCG
22343416 GGTCCACAGTCGTCTCG
1 GGTCCACAGTCGTCTCG
22343433 AGTGACCTGT
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:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (17 bp):
GGTCCACAGTCGTCTCG
Found at i:22349193 original size:40 final size:40
Alignment explanation
Indices: 22349138--22349329 Score: 305
Period size: 40 Copynumber: 4.8 Consensus size: 40
22349128 CGGATGATAA
22349138 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
22349178 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
22349218 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
22349258 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
22349298 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
22349330 AGCTATATCC
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 138 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:22350801 original size:16 final size:16
Alignment explanation
Indices: 22350782--22350812 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22350772 CTTCTTCACT
22350782 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
22350798 TACTTACTTACTTAA
1 TACTCACTTACTTAA
22350813 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:22350818 original size:20 final size:20
Alignment explanation
Indices: 22350779--22350818 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22350769 AAACTTCTTC
* *
22350779 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
22350799 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
22350819 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:22351078 original size:49 final size:48
Alignment explanation
Indices: 22351005--22351250 Score: 249
Period size: 49 Copynumber: 4.9 Consensus size: 48
22350995 CACGGGTACC
* *
22351005 TTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTTGAAAA
1 TTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTTTG-AAA
* * *
22351054 TTACCATTGCCATGTCTTGACATGGTCTCACATGGTAGCCTTGCCTTTTGAAC
1 TTACCATTGCCATGCCTTGACATGGTCTTACATGGTA----T-CCTTTTGAAA
* * *
22351107 TCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTTGAAAA
1 TTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTTTG-AAA
* * *
22351156 TTACCATTGCCATGTCTTGACATGGTCTCACATGGTAGCCTTGCCTTTTGAAC
1 TTACCATTGCCATGCCTTGACATGGTCTTACATGGTA----T-CCTTTTGAAA
* * * *
22351209 TCACCAATGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 TTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
22351251 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
48 11 0.07
49 70 0.43
53 69 0.42
54 14 0.09
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (48 bp):
TTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTTTGAAA
Found at i:22351131 original size:53 final size:52
Alignment explanation
Indices: 22351007--22351250 Score: 252
Period size: 53 Copynumber: 4.8 Consensus size: 52
22350997 CGGGTACCTT
* * *
22351007 ACCATTGCCATGACTTGTCATGGTCTTACATGGTA---TCCTTTTGAAAATT
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTACCTTCCTTTTGAAAATC
* * *
22351056 ACCATTGCCATGTCTTGACATGGTCTCACATGGTAGCCTTGCCTTTTG-AACTC
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTA-CCTT-CCTTTTGAAAATC
* * *
22351109 ACCAATGCCATGCCTTGGCATGGTCTTACATGGTA---TCCTTTTGAAAATT
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTACCTTCCTTTTGAAAATC
* * *
22351158 ACCATTGCCATGTCTTGACATGGTCTCACATGGTAGCCTTGCCTTTTG-AACTC
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTA-CCTT-CCTTTTGAAAATC
* * *
22351211 ACCAATGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 ACCATTGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
22351251 AAACCCTAAT
Statistics
Matches: 161, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
48 7 0.04
49 67 0.42
53 73 0.45
54 14 0.09
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (52 bp):
ACCATTGCCATGCCTTGACATGGTCTTACATGGTACCTTCCTTTTGAAAATC
Found at i:22351188 original size:102 final size:102
Alignment explanation
Indices: 22351007--22351250 Score: 452
Period size: 102 Copynumber: 2.4 Consensus size: 102
22350997 CGGGTACCTT
* * *
22351007 ACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTTGAAAATTACCATTGCCATGTCTT
1 ACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTTGAAAATTACCATTGCCATGTCTT
22351072 GACATGGTCTCACATGGTAGCCTTGCCTTTTGAACTC
66 GACATGGTCTCACATGGTAGCCTTGCCTTTTGAACTC
22351109 ACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTTGAAAATTACCATTGCCATGTCTT
1 ACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTTGAAAATTACCATTGCCATGTCTT
22351174 GACATGGTCTCACATGGTAGCCTTGCCTTTTGAACTC
66 GACATGGTCTCACATGGTAGCCTTGCCTTTTGAACTC
*
22351211 ACCAATGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 ACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
22351251 AAACCCTAAT
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 138 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (102 bp):
ACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTTGAAAATTACCATTGCCATGTCTT
GACATGGTCTCACATGGTAGCCTTGCCTTTTGAACTC
Found at i:22356145 original size:266 final size:266
Alignment explanation
Indices: 22355671--22356202 Score: 1037
Period size: 266 Copynumber: 2.0 Consensus size: 266
22355661 AACCGCTACA
22355671 CTGCCCCATACTAGCCCTACACTCCATGTGGGGAATATCTCAACCCACCCAGCCCTACACTCCAC
1 CTGCCCCATACTAGCCCTACACTCCATGTGGGGAATATCTCAACCCACCCAGCCCTACACTCCAC
22355736 AGTTGCAGCAACACTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGATGAAACA
66 AGTTGCAGCAACACTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGATGAAACA
22355801 CTTTCAATACTTCCTCCATCAATACCCCAATCCCATGCAACAGATATTAATAAAAGCATATCATG
131 CTTTCAATACTTCCTCCATCAATACCCCAATCCCATGCAACAGATATTAATAAAAGCATATCATG
22355866 TAAAATACAGTATTAATCAATCATGCAGTTTAGCCAATATAAACCCTAGCGGAATTTCGGTAATT
196 TAAAATACAGTATTAATCAATCATGCAGTTTAGCCAATATAAACCCTAGCGGAATTTCGGTAATT
22355931 ATGCTC
261 ATGCTC
22355937 CTGCCCCATACTAGCCCTACACTCCATGTGGGGAATATCTCAACCCACCCAGCCCTACACTCCAC
1 CTGCCCCATACTAGCCCTACACTCCATGTGGGGAATATCTCAACCCACCCAGCCCTACACTCCAC
22356002 AGTTGCAGCAACACTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGATGAAACA
66 AGTTGCAGCAACACTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGATGAAACA
22356067 CTTTCAATACTTCCTCCATCAATACCCCAATCCCATGCAACAGATATTAATAAAAGCATATCATG
131 CTTTCAATACTTCCTCCATCAATACCCCAATCCCATGCAACAGATATTAATAAAAGCATATCATG
* * *
22356132 TAAAATACAGTATTAATCAATCATGCAGTTTAGCCAATTTAAACCCTAGGGGTATTTCGGTAATT
196 TAAAATACAGTATTAATCAATCATGCAGTTTAGCCAATATAAACCCTAGCGGAATTTCGGTAATT
22356197 ATGCTC
261 ATGCTC
22356203 TTTAGGGGTA
Statistics
Matches: 263, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
266 263 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (266 bp):
CTGCCCCATACTAGCCCTACACTCCATGTGGGGAATATCTCAACCCACCCAGCCCTACACTCCAC
AGTTGCAGCAACACTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGATGAAACA
CTTTCAATACTTCCTCCATCAATACCCCAATCCCATGCAACAGATATTAATAAAAGCATATCATG
TAAAATACAGTATTAATCAATCATGCAGTTTAGCCAATATAAACCCTAGCGGAATTTCGGTAATT
ATGCTC
Found at i:22362741 original size:27 final size:27
Alignment explanation
Indices: 22362710--22362800 Score: 67
Period size: 29 Copynumber: 3.2 Consensus size: 27
22362700 TTACTCTAGG
22362710 TGCCGAAATACTAACCTCATAACCCTC
1 TGCCGAAATACTAACCTCATAACCCTC
** * * * * *
22362737 TGCCGATTTTGGC-ACCACTCATTACTCTAGG
1 TGCCGA-AAT-ACTAAC-CTCATAACCCT--C
22362768 TGCCGAAATACTAACCTCATAACCCTC
1 TGCCGAAATACTAACCTCATAACCCTC
22362795 TGCCGA
1 TGCCGA
22362801 TTTTCCCTCT
Statistics
Matches: 44, Mismatches: 14, Indels: 12
0.63 0.20 0.17
Matches are distributed among these distances:
27 12 0.27
28 3 0.07
29 20 0.45
30 3 0.07
31 6 0.14
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.25
Consensus pattern (27 bp):
TGCCGAAATACTAACCTCATAACCCTC
Found at i:22362759 original size:58 final size:58
Alignment explanation
Indices: 22362689--22362804 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
22362679 AGAAGAAAAC
22362689 GGCACCACTCATTACTCTAGGTGCCGAAATACTAACCTCATAACCCTCTGCCGATTTT
1 GGCACCACTCATTACTCTAGGTGCCGAAATACTAACCTCATAACCCTCTGCCGATTTT
22362747 GGCACCACTCATTACTCTAGGTGCCGAAATACTAACCTCATAACCCTCTGCCGATTTT
1 GGCACCACTCATTACTCTAGGTGCCGAAATACTAACCTCATAACCCTCTGCCGATTTT
22362805 CCCTCTTCAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.28
Consensus pattern (58 bp):
GGCACCACTCATTACTCTAGGTGCCGAAATACTAACCTCATAACCCTCTGCCGATTTT
Found at i:22362786 original size:29 final size:29
Alignment explanation
Indices: 22362696--22362787 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
22362686 AACGGCACCA
22362696 CTCATTACTCTAGGTGCCGAAATACTAAC
1 CTCATTACTCTAGGTGCCGAAATACTAAC
* * * ** * *
22362725 CTCATAACCCT--CTGCCGATTTTGGC-ACC
1 CTCATTACTCTAGGTGCCGA-AAT-ACTAAC
22362753 ACTCATTACTCTAGGTGCCGAAATACTAAC
1 -CTCATTACTCTAGGTGCCGAAATACTAAC
22362783 CTCAT
1 CTCAT
22362788 AACCCTCTGC
Statistics
Matches: 43, Mismatches: 14, Indels: 12
0.62 0.20 0.17
Matches are distributed among these distances:
27 6 0.14
28 3 0.07
29 25 0.58
30 3 0.07
31 6 0.14
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (29 bp):
CTCATTACTCTAGGTGCCGAAATACTAAC
Found at i:22363599 original size:16 final size:16
Alignment explanation
Indices: 22363580--22363610 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22363570 CTTCTTCACT
22363580 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
22363596 TACTTACTTACTTAA
1 TACTCACTTACTTAA
22363611 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:22363616 original size:20 final size:20
Alignment explanation
Indices: 22363577--22363616 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22363567 AAACTTCTTC
* *
22363577 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
22363597 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
22363617 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:22363935 original size:53 final size:54
Alignment explanation
Indices: 22363805--22364056 Score: 191
Period size: 55 Copynumber: 4.7 Consensus size: 54
22363795 CGGGTACCTT
* ** * * *
22363805 ACCATTGCCATGAATTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAACTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTC
* * * *
22363854 ACCATTGCCGTGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTC
* *
22363907 ACCAATGCCATGCCTTGGCATGGTCTTACATAGG-A-CCTTTGCCTTATAGTAAC-C
1 ACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATCC-TTGCCTTAT-GAAACTC
* * * * * *
22363961 TATCAATGCCATGTCTTGACATGGTCTTACAAGATTTCCTTGCCTTA-GAAACCTT
1 -ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTC
* * *
22364016 ACCAATTGCCATGCCTTGGCATAGTCTTACACGGTATCCTT
1 ACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
22364057 AAACCCTAAT
Statistics
Matches: 162, Mismatches: 26, Indels: 24
0.76 0.12 0.11
Matches are distributed among these distances:
49 32 0.20
50 1 0.01
52 2 0.01
53 46 0.28
54 12 0.07
55 67 0.41
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTC
Found at i:22365682 original size:108 final size:110
Alignment explanation
Indices: 22365542--22365739 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
22365532 ATCCTTTTGA
* * *
22365542 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTTACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACAAGATAGCCTTGCCTTA-GAAACCTTACCAA
*
22365605 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGT
* **
22365650 AACTTATCAATGCCATGTCTTGACATGGTCTTACAAGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACAAGATAGCCTTGCCTTAGAAACCTTACCAAT
22365715 TGCCATGCCTTGGCATAGTCTTACA
66 TGCCATGCCTTGGCATAGTCTTACA
22365740 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 8 0.10
110 24 0.30
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACAAGATAGCCTTGCCTTAGAAACCTTACCAAT
TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:22365749 original size:55 final size:54
Alignment explanation
Indices: 22365495--22365749 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
22365485 ACACGGGTAC
* *
22365495 CTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
22365544 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * *
22365597 CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * *
22365652 CTTATCAA-TGCCATGTCTTGACATGGTCTTACAAGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
22365705 CCTTACCAATTGCCATGCCTTGGCATAGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
22365750 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 4 0.02
53 45 0.26
54 12 0.07
55 69 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:22366285 original size:98 final size:98
Alignment explanation
Indices: 22366133--22366311 Score: 340
Period size: 98 Copynumber: 1.8 Consensus size: 98
22366123 CACATATTTG
*
22366133 CATTTTTGCCCCAAGGCTCGTAAATCAAACTTAATCCTATTTTCTTATGTTTTATGACATGCTGA
1 CATTTTTGCCCCAAGGCTCGTAAATCAAAATTAATCCTATTTTCTTATGTTTTATGACATGCTGA
22366198 TCATTTTTTCCTTCTAAAACTTTGGCAAAATTA
66 TCATTTTTTCCTTCTAAAACTTTGGCAAAATTA
*
22366231 CATTTTTGCCCCAAGGCTCGTAAATCAAAATTCATCCTATTTTCTTATGTTTTATGACATGCTGA
1 CATTTTTGCCCCAAGGCTCGTAAATCAAAATTAATCCTATTTTCTTATGTTTTATGACATGCTGA
22366296 TCATTTTTTCCTTCTA
66 TCATTTTTTCCTTCTA
22366312 TGACAACATC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 79 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (98 bp):
CATTTTTGCCCCAAGGCTCGTAAATCAAAATTAATCCTATTTTCTTATGTTTTATGACATGCTGA
TCATTTTTTCCTTCTAAAACTTTGGCAAAATTA
Found at i:22379258 original size:27 final size:27
Alignment explanation
Indices: 22379228--22379405 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
22379218 ATATTGAGCC
* *
22379228 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
22379255 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
22379282 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
22379310 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
22379337 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
22379364 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
22379391 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22379406 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:22379367 original size:82 final size:81
Alignment explanation
Indices: 22379248--22379404 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
22379238 GTGCTATATA
* *
22379248 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGC
22379313 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * **
22379330 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGC
22379394 ACACTTAGTGC
65 ACACTTAGTGC
22379405 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 53 0.78
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:22383113 original size:16 final size:16
Alignment explanation
Indices: 22383092--22383126 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22383082 TATAAAATGG
22383092 CATGCTCGATTACAGT
1 CATGCTCGATTACAGT
22383108 CATGCTCGATTACAGT
1 CATGCTCGATTACAGT
22383124 CAT
1 CAT
22383127 ACATACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (16 bp):
CATGCTCGATTACAGT
Found at i:22386204 original size:29 final size:29
Alignment explanation
Indices: 22386162--22386219 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
22386152 GTTCAACTTG
22386162 GCCGAATAGAAGAAAGAAAAAGAAGGGAA
1 GCCGAATAGAAGAAAGAAAAAGAAGGGAA
*
22386191 GCCGAATAGAAGAAAGAAAAAGAGGGGAA
1 GCCGAATAGAAGAAAGAAAAAGAAGGGAA
22386220 AGAGCTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.07, G:0.33, T:0.03
Consensus pattern (29 bp):
GCCGAATAGAAGAAAGAAAAAGAAGGGAA
Found at i:22387484 original size:40 final size:40
Alignment explanation
Indices: 22387429--22387644 Score: 271
Period size: 40 Copynumber: 5.4 Consensus size: 40
22387419 GATGATAACG
22387429 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA-TCC
*
22387469 GGGCTAAGTCCCGAAGGCATTTGTGCTAGGGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA-TCC
* *
22387509 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
* *
22387549 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTATATCC
* * *
22387589 GGGCTAAGTCCCAAAGGCATTTGAGCGAGT-AGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CTATATCC
* *
22387629 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
22387645 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.10
40 141 0.88
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
Found at i:22391357 original size:16 final size:17
Alignment explanation
Indices: 22391328--22391359 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22391318 ACAAGATTAT
22391328 ATTATCTATTTAATTTA
1 ATTATCTATTTAATTTA
22391345 ATTATCT-TTTAATTT
1 ATTATCTATTTAATTT
22391360 TGTCACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATCTATTTAATTTA
Found at i:22394998 original size:25 final size:25
Alignment explanation
Indices: 22394969--22395016 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
22394959 TTATAACATG
* *
22394969 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22394994 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22395017 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22395119 original size:20 final size:20
Alignment explanation
Indices: 22395053--22395119 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
22395043 ATTTTGATAA
*
22395053 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
22395073 ACATGACATGTATGATCTGC
1 ACATGATATGTATGATATGC
22395093 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22395113 ACATGAT
1 ACATGAT
22395120 GTATTCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22395269 original size:47 final size:46
Alignment explanation
Indices: 22395170--22395311 Score: 180
Period size: 47 Copynumber: 3.1 Consensus size: 46
22395160 AGGAAGTGAA
* * * *
22395170 AAAGGGCTTA-GGCCTAGTTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
*
22395216 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
22395263 AAAGGGCTTATGCCCCAGTTGTTAAAAGGGCTT-TGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTT-ATAAAAGGGCTTATGCCCCAGTTATT
22395309 AAA
1 AAA
22395312 AGAGGCTAGG
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
46 24 0.28
47 39 0.46
48 22 0.26
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:22395290 original size:71 final size:69
Alignment explanation
Indices: 22395169--22395318 Score: 219
Period size: 71 Copynumber: 2.1 Consensus size: 69
22395159 GAGGAAGTGA
* *
22395169 AAAAGGGCTTAGGCCTAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTAGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT-TGCCCCAG
22395234 TTATC
65 TTATC
* * *
22395239 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTGTTAAAAGGGCTTTGCCCTAG
1 AAAAGGGCTTA-GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAG
*
22395304 TTATT
65 TTATC
22395309 AAAAGAGGCT
1 AAAAG-GGCT
22395319 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
70 27 0.38
71 45 0.62
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (69 bp):
AAAAGGGCTTAGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAGT
TATC
Found at i:22395312 original size:23 final size:24
Alignment explanation
Indices: 22395169--22395318 Score: 200
Period size: 24 Copynumber: 6.4 Consensus size: 24
22395159 GAGGAAGTGA
* *
22395169 AAAAGGGCTTA-GGCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
22395192 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
22395215 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
22395239 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
22395263 -AAAGGGCTTATGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
22395286 AAAAGGGCTT-TGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
22395309 AAAAGAGGCT
1 AAAAG-GGCT
22395319 AGGCCTCCAG
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
22 10 0.09
23 46 0.40
24 58 0.51
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:22395561 original size:31 final size:31
Alignment explanation
Indices: 22395526--22395589 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
22395516 CGTTTACAGT
* *
22395526 AAAGGCTTTGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
22395557 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22395588 AA
1 AA
22395590 TATGAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22395588 original size:7 final size:7
Alignment explanation
Indices: 22395576--22395603 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22395566 GGCCCAGTGT
22395576 TATGAAA
1 TATGAAA
22395583 TATGAAA
1 TATGAAA
22395590 TATGAAA
1 TATGAAA
22395597 TATGAAA
1 TATGAAA
22395604 AGGGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:22402482 original size:17 final size:18
Alignment explanation
Indices: 22402454--22402487 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22402444 TCTCCCAAAA
22402454 TTCAATTTTATTTAATTT
1 TTCAATTTTATTTAATTT
22402472 TTCAA-TTTATTTAATT
1 TTCAATTTTATTTAATT
22402488 GTTAGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TTCAATTTTATTTAATTT
Found at i:22409385 original size:17 final size:17
Alignment explanation
Indices: 22409363--22409401 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
22409353 GATGTGGGGA
*
22409363 GGTGTTGAGTTTATTCT
1 GGTGTTGAGCTTATTCT
*
22409380 GGTGTTGAGCTTGTTCT
1 GGTGTTGAGCTTATTCT
22409397 GGTGT
1 GGTGT
22409402 AGTTCTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.08, C:0.08, G:0.36, T:0.49
Consensus pattern (17 bp):
GGTGTTGAGCTTATTCT
Found at i:22411621 original size:9 final size:9
Alignment explanation
Indices: 22411601--22411679 Score: 131
Period size: 9 Copynumber: 8.8 Consensus size: 9
22411591 GGTATTTTTC
*
22411601 GGTAATTAG
1 GGTAATTCG
*
22411610 GTTAATTCG
1 GGTAATTCG
*
22411619 GTTAATTCG
1 GGTAATTCG
22411628 GGTAATTCG
1 GGTAATTCG
22411637 GGTAATTCG
1 GGTAATTCG
22411646 GGTAATTCG
1 GGTAATTCG
22411655 GGTAATTCG
1 GGTAATTCG
22411664 GGTAATTCG
1 GGTAATTCG
22411673 GGTAATT
1 GGTAATT
22411680 TTTAACCAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 67 1.00
ACGTcount: A:0.24, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:22412438 original size:40 final size:40
Alignment explanation
Indices: 22412375--22412539 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
22412365 CGGAATTTAA
** *
22412375 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
22412415 CCGG-TCATAGTAACTCGCACAAATGCCTTCAGGACTTAAC
1 CCGGAT-ATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
22412455 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
22412495 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
22412535 CCGGA
1 CCGGA
22412540 CATCATTCAA
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
39 5 0.05
40 89 0.84
41 12 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:22427397 original size:40 final size:40
Alignment explanation
Indices: 22427245--22427390 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
22427235 TTGAATGTTG
* * * * *
22427245 TCCGGGCTAAGTCCAGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
22427285 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
22427325 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22427366 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22427391 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.89
41 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22427456 original size:73 final size:73
Alignment explanation
Indices: 22427366--22427502 Score: 247
Period size: 73 Copynumber: 1.9 Consensus size: 73
22427356 GTTACTATGA
* *
22427366 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTACGTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGT
22427431 TATTAAAT
66 TATTAAAT
*
22427439 CCGGGTTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTG
22427503 ATTTGGGAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (73 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGT
TATTAAAT
Found at i:22427494 original size:39 final size:39
Alignment explanation
Indices: 22427378--22427496 Score: 117
Period size: 39 Copynumber: 3.2 Consensus size: 39
22427368 GGGCTATGTC
22427378 CCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
1 CCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
* * * * *
22427417 CCGAAGG----T--ACGTGTTA-TTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATT
*
22427451 CCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATT
1 CCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
22427490 CCGAAGG
1 CCGAAGG
22427497 TACGTGATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 18
0.67 0.12 0.20
Matches are distributed among these distances:
33 10 0.17
34 16 0.27
35 1 0.02
38 1 0.02
39 22 0.37
40 10 0.17
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
Found at i:22428805 original size:40 final size:40
Alignment explanation
Indices: 22428750--22428830 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
22428740 TTTTTTATAA
22428750 GGGGTTTAAAGTTTGTTAAAACCTCGTGTTCGACTCCGGT
1 GGGGTTTAAAGTTTGTTAAAACCTCGTGTTCGACTCCGGT
22428790 GGGGTTTAAAGTTTGTTAAAACCTCGTGTTCGACTCCGGT
1 GGGGTTTAAAGTTTGTTAAAACCTCGTGTTCGACTCCGGT
22428830 G
1 G
22428831 TCGGTCTCGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (40 bp):
GGGGTTTAAAGTTTGTTAAAACCTCGTGTTCGACTCCGGT
Found at i:22439567 original size:13 final size:12
Alignment explanation
Indices: 22439533--22439571 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
22439523 GAATATTGAT
22439533 TTGATAGAAAAA
1 TTGATAGAAAAA
22439545 TTG-TATGAAAATA
1 TTGATA-GAAAA-A
22439558 TTGATAGAAAAA
1 TTGATAGAAAAA
22439570 TT
1 TT
22439572 TTACTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.08
12 11 0.46
13 9 0.38
14 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (12 bp):
TTGATAGAAAAA
Found at i:22442308 original size:18 final size:19
Alignment explanation
Indices: 22442271--22442311 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22442261 ATTTAGAATC
22442271 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
22442290 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
22442308 AAAA
1 AAAA
22442312 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:22442313 original size:31 final size:31
Alignment explanation
Indices: 22442237--22442310 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
22442227 TCAAGTTATC
*
22442237 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
22442269 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
22442299 TTAAATATAAAA
1 TTAAATATAAAA
22442311 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:22446149 original size:21 final size:19
Alignment explanation
Indices: 22446118--22446204 Score: 74
Period size: 20 Copynumber: 4.6 Consensus size: 19
22446108 TAATTTTATT
22446118 TTTTTTATTTTTAACATATA
1 TTTTTTATTTTT-ACATATA
* *
22446138 TTTTTTAGTTTTT-CTTTTA
1 TTTTTTA-TTTTTACATATA
* *
22446157 TTGTTTAATTTTA-AT-T-
1 TTTTTTATTTTTACATATA
*
22446173 TTTTTCATTTTTAACATATA
1 TTTTTTATTTTT-ACATATA
22446193 TTTTTTATTTTT
1 TTTTTTATTTTT
22446205 TTCTTTCAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
16 9 0.17
17 2 0.04
18 7 0.13
19 11 0.21
20 18 0.35
21 5 0.10
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTATTTTTACATATA
Found at i:22446166 original size:54 final size:56
Alignment explanation
Indices: 22446101--22446210 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 56
22446091 TTCACGCCAC
*
22446101 TATTGTTTAATTTT-ATTTTTTTTATTTTTAACATATATTTTTTA-GTTTTTCTTT
1 TATTGTTTAATTTTAATTTTTTTCATTTTTAACATATATTTTTTATGTTTTTCTTT
*
22446155 TATTGTTTAATTTTAATTTTTTTCATTTTTAACATATATTTTTTATTTTTTTCTTT
1 TATTGTTTAATTTTAATTTTTTTCATTTTTAACATATATTTTTTATGTTTTTCTTT
22446211 CAAATTTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 14 0.27
55 29 0.56
56 9 0.17
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (56 bp):
TATTGTTTAATTTTAATTTTTTTCATTTTTAACATATATTTTTTATGTTTTTCTTT
Found at i:22446207 original size:29 final size:29
Alignment explanation
Indices: 22446111--22446207 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
22446101 TATTGTTTAA
*
22446111 TTTTATTTTTTTTATTTTTAACATATATT
1 TTTTATTTTTTTCATTTTTAACATATATT
* *** * *
22446140 TTTTA-GTTTTTC--TTTTATTGTTTAAT
1 TTTTATTTTTTTCATTTTTAACATATATT
*
22446166 TTTAATTTTTTTCATTTTTAACATATATT
1 TTTTATTTTTTTCATTTTTAACATATATT
22446195 TTTTATTTTTTTC
1 TTTTATTTTTTTC
22446208 TTTCAAATTT
Statistics
Matches: 50, Mismatches: 15, Indels: 6
0.70 0.21 0.08
Matches are distributed among these distances:
26 13 0.26
27 6 0.12
28 5 0.10
29 26 0.52
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (29 bp):
TTTTATTTTTTTCATTTTTAACATATATT
Found at i:22446318 original size:7 final size:7
Alignment explanation
Indices: 22446298--22446389 Score: 102
Period size: 8 Copynumber: 12.9 Consensus size: 7
22446288 TTAAATATTA
22446298 AATTTTT
1 AATTTTT
22446305 AAGTTTTT
1 AA-TTTTT
22446313 AATTTTTTT
1 AA--TTTTT
22446322 AATTTTTT
1 AA-TTTTT
22446330 AATTTTTT
1 AA-TTTTT
22446338 AATTTTTT
1 AA-TTTTT
22446346 AA-TTTT
1 AATTTTT
22446352 AA-TTTT
1 AATTTTT
22446358 AA-TTTT
1 AATTTTT
22446364 AATTTTT
1 AATTTTT
22446371 AATTTTT
1 AATTTTT
22446378 AATTTTT
1 AATTTTT
22446385 -ATTTT
1 AATTTT
22446390 GATTTAATGT
Statistics
Matches: 81, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
6 23 0.28
7 20 0.25
8 31 0.38
9 7 0.09
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (7 bp):
AATTTTT
Found at i:22446327 original size:6 final size:6
Alignment explanation
Indices: 22446326--22446394 Score: 66
Period size: 6 Copynumber: 10.5 Consensus size: 6
22446316 TTTTTTAATT
22446326 TTTTAA TTTTTTAA TTTTTTAA TTTTAA TTTTAA TTTTAA TTTTTAA TTTTTAA
1 TTTTAA -TT-TTAA -TTT-TAA TTTTAA TTTTAA TTTTAA -TTTTAA -TTTTAA
* *
22446380 TTTTTA TTTTGA TTT
1 TTTTAA TTTTAA TTT
22446395 AATGTGTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
6 28 0.49
7 19 0.33
8 10 0.18
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:22446339 original size:33 final size:29
Alignment explanation
Indices: 22446298--22446389 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 29
22446288 TTAAATATTA
22446298 AATTTTTAAGTTTTTAATTTTTTTAATTTTTT
1 AATTTTTAA-TTTTTAATTTTTTTAA--TTTT
22446330 AATTTTTTAATTTTTTAA---TTTTAATTTT
1 AA-TTTTTAA-TTTTTAATTTTTTTAATTTT
22446358 AA-TTTTAATTTTTAA--TTTTTAATTTT
1 AATTTTTAATTTTTAATTTTTTTAATTTT
*
22446384 TATTTT
1 AATTTT
22446390 GATTTAATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
25 7 0.13
26 17 0.31
27 3 0.05
28 6 0.11
30 6 0.11
32 2 0.04
33 14 0.25
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (29 bp):
AATTTTTAATTTTTAATTTTTTTAATTTT
Found at i:22446363 original size:26 final size:27
Alignment explanation
Indices: 22446334--22446394 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
22446324 TTTTTTAATT
22446334 TTTTAATTTTTTAA-TTTTAATTTTAA
1 TTTTAATTTTTTAATTTTTAATTTTAA
*
22446360 TTTTAA-TTTTTAATTTTTAATTTTTA
1 TTTTAATTTTTTAATTTTTAATTTTAA
*
22446386 TTTTGATTT
1 TTTTAATTT
22446395 AATGTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 7 0.23
26 22 0.71
27 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTTAATTTTTTAATTTTTAATTTTAA
Found at i:22447210 original size:23 final size:22
Alignment explanation
Indices: 22447184--22447231 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
22447174 TGTTTAGGAT
* *
22447184 TTTTAGGGTTTAGAGTTTTAGTG
1 TTTTAGGGGTTAGAG-ATTAGTG
*
22447207 TTTTAGGGGTTATAGATTAGTG
1 TTTTAGGGGTTAGAGATTAGTG
22447229 TTT
1 TTT
22447232 ATGATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (22 bp):
TTTTAGGGGTTAGAGATTAGTG
Found at i:22447212 original size:16 final size:15
Alignment explanation
Indices: 22447147--22447209 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
22447137 GTTTTTTGGG
* *
22447147 GTTTAGGGTTTTAGA
1 GTTTAGAGTTTTAGT
*
22447162 G-TTATAG-TTTAGT
1 GTTTAGAGTTTTAGT
* *
22447175 GTTTAGGATTTTTAGG
1 GTTTA-GAGTTTTAGT
22447191 GTTTAGAGTTTTAGT
1 GTTTAGAGTTTTAGT
22447206 GTTT
1 GTTT
22447210 TAGGGGTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
13 6 0.16
14 7 0.19
15 14 0.38
16 10 0.27
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (15 bp):
GTTTAGAGTTTTAGT
Found at i:22447327 original size:41 final size:41
Alignment explanation
Indices: 22447264--22447482 Score: 298
Period size: 41 Copynumber: 5.4 Consensus size: 41
22447254 GTTATATAAC
** *
22447264 TTTTAGCGGCGTTTTATTGAAAGCGCCGCTAATGTTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
** *
22447305 TTTTAGCGGCGTTTTACCGAAAGCGTTGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
22447346 TTTTAGCGGTGTTTTACCGAAAGCACCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
22447387 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
22447428 TTTTAGTGGCGTTTTACC-AAATGCGCCGCTATTGCACT-GT
1 TTTTAGCGGCGTTTTACCGAAA-GCGCCGCTAATGCTCTGGT
*
22447468 TTTTAGCGGTGTTTT
1 TTTTAGCGGCGTTTT
22447483 TGGTAAAACG
Statistics
Matches: 157, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 18 0.11
41 139 0.89
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:22447552 original size:12 final size:12
Alignment explanation
Indices: 22447537--22447562 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22447527 GTTTTTTGAT
22447537 AAAACGCCGCTA
1 AAAACGCCGCTA
22447549 AAAACGCCGCTA
1 AAAACGCCGCTA
22447561 AA
1 AA
22447563 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:22447973 original size:14 final size:14
Alignment explanation
Indices: 22447950--22447979 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22447940 TTGAAAATAT
22447950 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
22447964 GTTGATTTGGATTG
1 GTTGAATTGGATTG
22447978 GT
1 GT
22447980 CTAGGTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:22449509 original size:21 final size:21
Alignment explanation
Indices: 22449459--22449509 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
22449449 GTGCAGGGCT
*
22449459 CACACGACCGTGTGATCTGGG
1 CACACGCCCGTGTGATCTGGG
*
22449480 CACACGCCCGTGTGCTCTGGG
1 CACACGCCCGTGTGATCTGGG
* *
22449501 GACATGCCC
1 CACACGCCC
22449510 ATATGGTCAG
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:0.16, C:0.35, G:0.31, T:0.18
Consensus pattern (21 bp):
CACACGCCCGTGTGATCTGGG
Found at i:22463201 original size:13 final size:13
Alignment explanation
Indices: 22463183--22463207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22463173 TAATGGTATA
22463183 TTGAATCCATGAC
1 TTGAATCCATGAC
22463196 TTGAATCCATGA
1 TTGAATCCATGA
22463208 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:22463788 original size:27 final size:27
Alignment explanation
Indices: 22463753--22463931 Score: 175
Period size: 27 Copynumber: 6.6 Consensus size: 27
22463743 TTAAATTGTA
22463753 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * * *
22463780 TTGCACTAAGTGTGCGAAAAGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
22463807 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
22463834 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
22463862 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
22463889 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
22463916 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
22463932 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 104 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:22463895 original size:82 final size:81
Alignment explanation
Indices: 22463755--22463910 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
22463745 AAATTGTATA
* *
22463755 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAAAGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAAGTGT
22463820 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *** *
22463836 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAAAGAATACGAT-GCACTAAGT
*
22463900 GTGCGAGTTGA
64 GTGCGAATTGA
22463911 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22463922 original size:82 final size:81
Alignment explanation
Indices: 22463751--22463931 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
22463741 GATTAAATTG
* *
22463751 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAAAGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAA
22463816 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * *** *
22463832 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAAAGAATACGAT-GCACT
* **
22463896 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
22463914 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
22463932 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22463942 original size:27 final size:27
Alignment explanation
Indices: 22463836--22463942 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
22463826 TGACCATGCG
* * * *
22463836 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
22463864 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
22463891 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
22463918 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
22463943 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:22465763 original size:41 final size:41
Alignment explanation
Indices: 22465710--22465851 Score: 248
Period size: 41 Copynumber: 3.5 Consensus size: 41
22465700 ACCGAAATAT
* *
22465710 AAAGCCTGCTAGGCAATAAGCTTGATATAATACACCGGCAC
1 AAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGCAC
22465751 AAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGCAC
1 AAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGCAC
* *
22465792 AAAGCCTGCTAGGAAATAAGCCTGATTTAATACAGCGGCAC
1 AAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGCAC
22465833 AAAGCCTGCTAGGCAATAA
1 AAAGCCTGCTAGGCAATAA
22465852 AGCCCGAATA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
AAAGCCTGCTAGGCAATAAGCCTGATTTAATACACCGGCAC
Found at i:22474081 original size:24 final size:23
Alignment explanation
Indices: 22474054--22474098 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
22474044 CTTGCAAATT
22474054 AAGA-AGAAGCAAATCTTGGAAAGG
1 AAGAGAGAAG-AAAT-TTGGAAAGG
22474078 AAGAGAGAAGAAATTTGGAAA
1 AAGAGAGAAGAAATTTGGAAA
22474099 ATGCTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 8 0.40
25 5 0.25
ACGTcount: A:0.53, C:0.04, G:0.29, T:0.13
Consensus pattern (23 bp):
AAGAGAGAAGAAATTTGGAAAGG
Found at i:22475851 original size:39 final size:39
Alignment explanation
Indices: 22475802--22475890 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 39
22475792 TTTATTTTTA
22475802 TTGCATTTTATTTTTGTTTTTACTTTAATTTACTAACTT
1 TTGCATTTTATTTTTGTTTTTACTTTAATTTACTAACTT
22475841 TTGCATTTTATTTTTGTTTTTACTTTAATTTACTAACTT
1 TTGCATTTTATTTTTGTTTTTACTTTAATTTACTAACTT
22475880 TT-C-TTTTATTT
1 TTGCATTTTATTT
22475891 GCTTCTGGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 8 0.16
38 1 0.02
39 41 0.82
ACGTcount: A:0.19, C:0.10, G:0.04, T:0.66
Consensus pattern (39 bp):
TTGCATTTTATTTTTGTTTTTACTTTAATTTACTAACTT
Found at i:22479125 original size:15 final size:15
Alignment explanation
Indices: 22479107--22479147 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
22479097 TTATTTTATT
22479107 TATTATTAATTTTTA
1 TATTATTAATTTTTA
22479122 TATTATTAATTTTTA
1 TATTATTAATTTTTA
* *
22479137 TTTTACTAATT
1 TATTATTAATT
22479148 AATTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTATTAATTTTTA
Found at i:22479138 original size:13 final size:14
Alignment explanation
Indices: 22479090--22479135 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
22479080 ATCACCCCAA
*
22479090 TTTTATT-TTATTT
1 TTTTATTATTAATT
22479103 TATTTATTATTAATT
1 T-TTTATTATTAATT
22479118 TTTATATTATTAATT
1 TTT-TATTATTAATT
22479133 TTT
1 TTT
22479136 ATTTTACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 1 0.03
14 8 0.28
15 20 0.69
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTATTAATT
Found at i:22491198 original size:37 final size:37
Alignment explanation
Indices: 22491148--22491218 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
22491138 ATTGAACTAA
22491148 TCTATGTATTGAATAATATAACATTTTATAGAATATT
1 TCTATGTATTGAATAATATAACATTTTATAGAATATT
22491185 TCTATGTATTGAATAATATAACATTTTATAGAAT
1 TCTATGTATTGAATAATATAACATTTTATAGAAT
22491219 CATGAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (37 bp):
TCTATGTATTGAATAATATAACATTTTATAGAATATT
Found at i:22491218 original size:20 final size:20
Alignment explanation
Indices: 22491158--22491218 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
22491148 TCTATGTATT
22491158 GAATAATATAACATTTTATA
1 GAATAATATAACATTTTATA
* * *
22491178 GAAT-AT-T-TC-TATGTATT
1 GAATAATATAACAT-TTTATA
22491195 GAATAATATAACATTTTATA
1 GAATAATATAACATTTTATA
22491215 GAAT
1 GAAT
22491219 CATGAAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 1 0.03
17 9 0.30
18 3 0.10
19 3 0.10
20 13 0.43
21 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (20 bp):
GAATAATATAACATTTTATA
Found at i:22496037 original size:115 final size:115
Alignment explanation
Indices: 22495835--22496048 Score: 428
Period size: 115 Copynumber: 1.9 Consensus size: 115
22495825 CTCAATTCGA
22495835 CTGAGATACGAAATCCAAAAGCCCTGTACGAACCTTAGGAAAAGCTAGGATACATATGTCATGAC
1 CTGAGATACGAAATCCAAAAGCCCTGTACGAACCTTAGGAAAAGCTAGGATACATATGTCATGAC
22495900 ATAGGATTTTCGATATGTGATTACGTGTAAGACCCTGTCCGGGACAATGG
66 ATAGGATTTTCGATATGTGATTACGTGTAAGACCCTGTCCGGGACAATGG
22495950 CTGAGATACGAAATCCAAAAGCCCTGTACGAACCTTAGGAAAAGCTAGGATACATATGTCATGAC
1 CTGAGATACGAAATCCAAAAGCCCTGTACGAACCTTAGGAAAAGCTAGGATACATATGTCATGAC
22496015 ATAGGATTTTCGATATGTGATTACGTGTAAGACC
66 ATAGGATTTTCGATATGTGATTACGTGTAAGACC
22496049 ACGTCTGGGA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 99 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (115 bp):
CTGAGATACGAAATCCAAAAGCCCTGTACGAACCTTAGGAAAAGCTAGGATACATATGTCATGAC
ATAGGATTTTCGATATGTGATTACGTGTAAGACCCTGTCCGGGACAATGG
Found at i:22496088 original size:43 final size:43
Alignment explanation
Indices: 22496027--22496153 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 43
22496017 AGGATTTTCG
* *
22496027 ATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCATCA
1 ATATGTGATTACGTGTAAGACCACATCTGGGAAGTTGGCATCA
22496070 ATATGTGATTACGTGTAAGACC-CTATCTGGGACAG-TGGCATCA
1 ATATGTGATTACGTGTAAGACCAC-ATCTGGGA-AGTTGGCATCA
* * *
22496113 ATATGTGATTACGTGTAAAACCATATCTGGGACGTTGGCAT
1 ATATGTGATTACGTGTAAGACCACATCTGGGAAGTTGGCAT
22496154 TGCGCGATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
42 2 0.03
43 72 0.96
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACATCTGGGAAGTTGGCATCA
Found at i:22498739 original size:36 final size:36
Alignment explanation
Indices: 22498692--22498764 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
22498682 TAAAGATTAC
22498692 CAAAAAAATAACAAAAACTCAAGGAAAAGATTCAAA
1 CAAAAAAATAACAAAAACTCAAGGAAAAGATTCAAA
*
22498728 CAAAAAAATAACAAAAACTTAAGGAAAAGATTCAAA
1 CAAAAAAATAACAAAAACTCAAGGAAAAGATTCAAA
22498764 C
1 C
22498765 CCAAAACCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.66, C:0.14, G:0.08, T:0.12
Consensus pattern (36 bp):
CAAAAAAATAACAAAAACTCAAGGAAAAGATTCAAA
Found at i:22502555 original size:25 final size:25
Alignment explanation
Indices: 22502522--22502578 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
22502512 AAATTCGATA
22502522 AAAATCGATTTACAAGCCTAGGGGT
1 AAAATCGATTTACAAGCCTAGGGGT
* *
22502547 AAAATCGATTTACGAGCCTAGTGGT
1 AAAATCGATTTACAAGCCTAGGGGT
22502572 AAAATCG
1 AAAATCG
22502579 TAATTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAATCGATTTACAAGCCTAGGGGT
Found at i:22503025 original size:48 final size:49
Alignment explanation
Indices: 22502953--22503173 Score: 185
Period size: 48 Copynumber: 4.6 Consensus size: 49
22502943 TACGTGTGCT
* *
22502953 AGTGTAAGACCATGT-TGGGAACATGGCATCGA-TAATGTAATGAGATCC
1 AGTGTAAGACCATGTCTAGG-ACATGGCATCGACTAATGTAATGAGAGCC
* * * * *
22503001 AGTGTAAGACCATGTCT-GGTACATGGCATC-AGTATTG-ATATGTGCGCT
1 AGTGTAAGACCATGTCTAGG-ACATGGCATCGACTAATGTA-ATGAGAGCC
*
22503049 AGTGTAAGACCATGTCTAGGACATGGCATCGACCACAT-T-ATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACTA-ATGTAATGAGAGCC
* * * *
22503097 AGTGTAAGACCATGTCTAGGACATGGCTTCGGCCT--CG-ACATGTGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATC-GACTAATGTA-ATGAGAGCC
*
22503145 AGTGTAAGACCATGT-TCGGAACATGGCAT
1 AGTGTAAGACCATGTCTAGG-ACATGGCAT
22503174 TGGCAATTCA
Statistics
Matches: 142, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.04
48 129 0.91
49 7 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGACTAATGTAATGAGAGCC
Found at i:22503104 original size:96 final size:96
Alignment explanation
Indices: 22502940--22503173 Score: 278
Period size: 96 Copynumber: 2.4 Consensus size: 96
22502930 GACATTTGGG
* * * * *
22502940 TGATACGTGTGCTAGTGTAAGACCATGTTGGGAACATGGCATCGATAATGTAATGAGATCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTTAGGAACATGGCATCGACAATGTAATGAGAGCCAGTG
*
22503005 TAAGACCATGTCT-GGTACATGGCATCAGTAT
66 TAAGACCATGTCTAGG-ACATGGCATCAGCAT
*
22503036 TGATATGTGCGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGACCACAT-T-ATGAGAGCCA
1 TGATATGTGAGCTAGTGTAAGACCATGT-TAGGAACATGGCATCGA-CA-ATGTAATGAGAGCCA
* * *
22503098 GTGTAAGACCATGTCTAGGACATGGCTTCGGCCT
63 GTGTAAGACCATGTCTAGGACATGGCATCAGCAT
* * * *
22503132 CGACATGTGAGCCAGTGTAAGACCATGTTCGGAACATGGCAT
1 TGATATGTGAGCTAGTGTAAGACCATGTTAGGAACATGGCAT
22503174 TGGCAATTCA
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
95 3 0.03
96 107 0.90
97 7 0.06
98 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (96 bp):
TGATATGTGAGCTAGTGTAAGACCATGTTAGGAACATGGCATCGACAATGTAATGAGAGCCAGTG
TAAGACCATGTCTAGGACATGGCATCAGCAT
Found at i:22504422 original size:21 final size:21
Alignment explanation
Indices: 22504362--22504412 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
22504352 GTTAACAAGA
22504362 CACACGGGCGTGTTACCCTTC
1 CACACGGGCGTGTTACCCTTC
22504383 CACACGGGCGTGTTACCCTTC
1 CACACGGGCGTGTTACCCTTC
22504404 CACACGGGC
1 CACACGGGC
22504413 ATGTGTCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.39, G:0.25, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTGTTACCCTTC
Found at i:22505527 original size:22 final size:22
Alignment explanation
Indices: 22505485--22505527 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
22505475 TAATTATTTT
* *
22505485 TTATTATTTTCTATTAATATTA
1 TTATAATTTTCTAGTAATATTA
22505507 TTATAATTTT-TAGTAACTATT
1 TTATAATTTTCTAGTAA-TATT
22505528 TGTTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATAATTTTCTAGTAATATTA
Found at i:22505906 original size:177 final size:177
Alignment explanation
Indices: 22505610--22505965 Score: 667
Period size: 177 Copynumber: 2.0 Consensus size: 177
22505600 AAAACAAATC
* *
22505610 TTAATATTTGACTTATAATATATCCTATCTAACATCTAACACAATGATGCAGGTTTTAAAGGTAG
1 TTAATATTTGACTTATAATATATCCTATCTAACATCTAACACAACGATGCAGGTTCTAAAGGTAG
*
22505675 ATCCTTTTTATATGAATTGGTTATGGCCTAGTATTATTTTACCAAGTATTCAAAATTCTAATTTT
66 ATCCTTTTGATATGAATTGGTTATGGCCTAGTATTATTTTACCAAGTATTCAAAATTCTAATTTT
*
22505740 TGAATTGAACTCAGTGTTTCTGACATGGTTTTCTTCAAATGTCAGGT
131 TGAATTGAACTCAGTGTTGCTGACATGGTTTTCTTCAAATGTCAGGT
*
22505787 TTAATATTTGACTTATAATATATCCTATCTAACATCTAACACAACGATGCAGGTTCTAAGGGTAG
1 TTAATATTTGACTTATAATATATCCTATCTAACATCTAACACAACGATGCAGGTTCTAAAGGTAG
22505852 ATCCTTTTGATATGAATTGGTTATGGCCTAGTATTATTTTACCAAGTATTCAAAATTCTAATTTT
66 ATCCTTTTGATATGAATTGGTTATGGCCTAGTATTATTTTACCAAGTATTCAAAATTCTAATTTT
22505917 TGAATTGAACTCAGTGTTGCTGACATGGTTTTCTTCAAATGTCAGGT
131 TGAATTGAACTCAGTGTTGCTGACATGGTTTTCTTCAAATGTCAGGT
22505964 TT
1 TT
22505966 GGCAGTTAGA
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 174 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (177 bp):
TTAATATTTGACTTATAATATATCCTATCTAACATCTAACACAACGATGCAGGTTCTAAAGGTAG
ATCCTTTTGATATGAATTGGTTATGGCCTAGTATTATTTTACCAAGTATTCAAAATTCTAATTTT
TGAATTGAACTCAGTGTTGCTGACATGGTTTTCTTCAAATGTCAGGT
Found at i:22508190 original size:21 final size:21
Alignment explanation
Indices: 22508166--22508225 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
22508156 AGGCTGCACA
* *
22508166 TAAGTGCTAAACGGAAACTTG
1 TAAGAGCTAAACGGAAACTCG
* * * *
22508187 TAAGGGTTAAATGGAAGCTCG
1 TAAGAGCTAAACGGAAACTCG
*
22508208 TAGGAGCTAAACGGAAAC
1 TAAGAGCTAAACGGAAAC
22508226 CTATAAGGAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.20
Consensus pattern (21 bp):
TAAGAGCTAAACGGAAACTCG
Found at i:22508233 original size:42 final size:43
Alignment explanation
Indices: 22508171--22508281 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
22508161 GCACATAAGT
* * ** *
22508171 GCTAAACGGAAACTTGTAAGGGTTAAAT-GGAAGCTCGTAGGA
1 GCTAAACGGAAACCTATAAGGGTTAAATCGGAAGCTCAAAAGA
* *
22508213 GCTAAACGGAAACCTATAAGGATT-AATCTGAAGCTCAAAAGA
1 GCTAAACGGAAACCTATAAGGGTTAAATCGGAAGCTCAAAAGA
* * *
22508255 GCTAAACTGAAACCCAAAAGGGTTAAA
1 GCTAAACGGAAACCTATAAGGGTTAAA
22508282 CTGAAACTCA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.05
42 51 0.91
43 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (43 bp):
GCTAAACGGAAACCTATAAGGGTTAAATCGGAAGCTCAAAAGA
Found at i:22508272 original size:21 final size:21
Alignment explanation
Indices: 22508248--22508288 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22508238 ATCTGAAGCT
22508248 CAAAAGAGCTAAACTGAAACC
1 CAAAAGAGCTAAACTGAAACC
* *
22508269 CAAAAGGGTTAAACTGAAAC
1 CAAAAGAGCTAAACTGAAAC
22508289 TCATGAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (21 bp):
CAAAAGAGCTAAACTGAAACC
Found at i:22513732 original size:12 final size:12
Alignment explanation
Indices: 22513715--22513741 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22513705 CACGTTATGC
22513715 AGCCTATTTTGG
1 AGCCTATTTTGG
22513727 AGCCTATTTTGG
1 AGCCTATTTTGG
22513739 AGC
1 AGC
22513742 TGATTCTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (12 bp):
AGCCTATTTTGG
Found at i:22528905 original size:40 final size:40
Alignment explanation
Indices: 22528821--22529043 Score: 256
Period size: 40 Copynumber: 5.5 Consensus size: 40
22528811 ACCCAAGTAT
* * *
22528821 CTTCGGGATTTAG-CCGAATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
22528860 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
22528900 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
22528940 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
** * *
22528983 CTTCGATACTTAG-CCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
22529022 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
22529044 CATCCGAATA
Statistics
Matches: 156, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 33 0.21
40 89 0.57
41 1 0.01
42 12 0.08
43 21 0.13
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:22531649 original size:40 final size:40
Alignment explanation
Indices: 22531605--22531749 Score: 238
Period size: 40 Copynumber: 3.6 Consensus size: 40
22531595 GCCACTAGCT
* *
22531605 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAGCTCGCA
22531645 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
22531685 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
* *
22531725 CAAATGCCTTCGGGACATGGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
22531750 TTATCATCCG
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 99 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
Found at i:22539688 original size:40 final size:39
Alignment explanation
Indices: 22539633--22539784 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 39
22539623 GGATATAGCT
* *
22539633 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT--AGTA
*
22539673 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTAGTA
22539713 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATTAGTA
22539753 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
22539785 TTATCATCCG
Statistics
Matches: 105, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
40 102 0.97
41 1 0.01
42 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTA
Found at i:22545544 original size:17 final size:17
Alignment explanation
Indices: 22545522--22545555 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22545512 ACAGGTCACT
22545522 CGAGACGACTGTGGACC
1 CGAGACGACTGTGGACC
22545539 CGAGACGACTGTGGACC
1 CGAGACGACTGTGGACC
22545556 TACTGTTGGG
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:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (17 bp):
CGAGACGACTGTGGACC
Found at i:22546198 original size:20 final size:20
Alignment explanation
Indices: 22546170--22546209 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22546160 AAGGTGGCCA
*
22546170 CACATCTGCATGGACTTTCT
1 CACAACTGCATGGACTTTCT
*
22546190 CACAACTGCGTGGACTTTCT
1 CACAACTGCATGGACTTTCT
22546210 TATTACATTT
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:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (20 bp):
CACAACTGCATGGACTTTCT
Found at i:22547114 original size:25 final size:25
Alignment explanation
Indices: 22547083--22547165 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
22547073 GCTATAATCG
*
22547083 GTAAGCTCATACGAGCTGAGTAACA
1 GTAAGCTCATACGAGCTGAATAACA
** *
22547108 GTAAGCTCATACGAATTGAATAATA
1 GTAAGCTCATACGAGCTGAATAACA
* * * *
22547133 GCAAGCTCATACGAGCTAAATATCG
1 GTAAGCTCATACGAGCTGAATAACA
22547158 GTAAGCTC
1 GTAAGCTC
22547166 TCTCGAGAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATAACA
Found at i:22550057 original size:45 final size:45
Alignment explanation
Indices: 22549954--22550304 Score: 440
Period size: 45 Copynumber: 7.9 Consensus size: 45
22549944 TTTTCTCAAA
* * * * *
22549954 TCACCAGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATC
* * **
22549996 TCACCTGCATTATAGCCTGTTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAACATC
* * * *
22550041 TCATCGGCATTATAGCCTACTAGGCTCAAAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATC
* *
22550086 TCACCGGCATTATAGCCTTCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATC
* *
22550131 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATC
* *
22550176 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATC
* * *
22550221 TCATCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATC
** *
22550266 TCACTAGCATTATAGCCTGCTAGGCTCAAAAGCCCGAAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAAT
22550305 TCCGTCAACT
Statistics
Matches: 276, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
42 10 0.04
43 13 0.05
44 8 0.03
45 245 0.89
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATC
Found at i:22553771 original size:40 final size:40
Alignment explanation
Indices: 22553693--22553916 Score: 265
Period size: 40 Copynumber: 5.5 Consensus size: 40
22553683 ACCTAAGTAT
* *
22553693 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
** * **
22553732 CTTCGGGTTTTAGCCCGGATATGGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
22553772 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
22553812 CTTCAGGACTTAGCCCGGGTATAG-CAACTACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
22553855 CTTCGAGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
22553895 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
22553917 CATCCGAATA
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 13 0.08
40 111 0.70
41 1 0.01
43 33 0.21
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:22557187 original size:46 final size:44
Alignment explanation
Indices: 22557114--22557241 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 44
22557104 AGGTTAATTG
* * * * *
22557114 TGTGCTAGTGTAAGACATGTCTTGGACATGCATTGGGCT-TAAGA
1 TGTGCCAGTGTAAAACATGTCTGGGACATGCA-TCGGCTACAAGA
22557158 TGTAAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCTACAAGA
1 TGT--GCCAGTGTAAAACATGTCTGGGACATGCATCGGCTACAAGA
* *
22557204 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 TGTGCCAGTGTAA-AACATGTCTGGGACAT-GCATCGG
22557242 TATTATACCC
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
44 12 0.17
45 20 0.28
46 40 0.56
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (44 bp):
TGTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCTACAAGA
Found at i:22571133 original size:44 final size:44
Alignment explanation
Indices: 22571064--22571232 Score: 188
Period size: 42 Copynumber: 4.0 Consensus size: 44
22571054 CATAGGATTT
* *
22571064 TCGATATGTGATTT-CATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACATTGGCA
* *
22571107 TCGAT-TTTAGATTTACGTGTAAGACCATGTCTGGGACATTGACA
1 TCGATATTT-GATTTACGTGTAAGACCACGTCTGGGACATTGGCA
* ** *
22571151 TCG-TATTTGATTT-CGTGTAAGACCATGTCTATGACAGTGGCA
1 TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACATTGGCA
* * *
22571193 TCTATATTTGA--TACATGTAAGACCACGTCTGGGACTTTGG
1 TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACATTGG
22571233 TATTGTACGA
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 50 0.47
43 23 0.22
44 32 0.30
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:22579409 original size:43 final size:43
Alignment explanation
Indices: 22579256--22579428 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
22579246 CATAGGATTT
* * *
22579256 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGA-TGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACAG-TGGCA
* * *
22579299 TCGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACAGTGGCA
* * * *
22579343 TC-TTATTTAATTTCGTGAAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATTTGATTACGTGTAAGACCAC-GTCTGGGACAGTGGCA
* * *
22579385 TCGATATTTGATTACATGTAAGACCACGTCTAGGACATTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCA
22579428 T
1 T
22579429 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
42 30 0.29
43 41 0.40
44 32 0.31
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCA
Found at i:22580862 original size:26 final size:26
Alignment explanation
Indices: 22580825--22580908 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
22580815 TGATGCAAAT
*
22580825 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22580851 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
22580877 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22580903 TGATAA
1 TGATAA
22580909 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22582942 original size:137 final size:137
Alignment explanation
Indices: 22582696--22582982 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
22582686 GAGTAGTCTC
* * *
22582696 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATATTGCATGCATTTTGAAATGGGCCTATGGGCCATAC
*
22582761 TGTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
22582826 ACTGTTA
131 ACTGTTA
22582833 CCCAAATGGGCTTGCATATGTTTACTAATATTGCATGCATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATATTGCATGCATTTTGAAATGGGCCTATGGGCCATAC
22582898 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
22582963 ACTGTTA
131 ACTGTTA
**
22582970 CCTGAATGGGCTT
1 CCCAAATGGGCTT
22582983 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTAATATTGCATGCATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:22584778 original size:8 final size:7
Alignment explanation
Indices: 22584754--22584888 Score: 126
Period size: 7 Copynumber: 18.3 Consensus size: 7
22584744 ATAGTAGTAA
22584754 GTTTAGG
1 GTTTAGG
22584761 GTTTATGG
1 GTTTA-GG
*
22584769 TTTTAGG
1 GTTTAGG
22584776 GTTTTAGG
1 G-TTTAGG
22584784 GTTTATGG
1 GTTTA-GG
*
22584792 TTTTAAGG
1 GTTT-AGG
*
22584800 TTTTAGG
1 GTTTAGG
22584807 GTTTTAGG
1 G-TTTAGG
22584815 GTTTTAGAG
1 G-TTTAG-G
* *
22584824 TTTTATG
1 GTTTAGG
**
22584831 GTTTATA
1 GTTTAGG
*
22584838 GTTTATG
1 GTTTAGG
22584845 GTTTAGG
1 GTTTAGG
22584852 GTTTAGG
1 GTTTAGG
22584859 GTTTAGG
1 GTTTAGG
*
22584866 GTTTAAG
1 GTTTAGG
22584873 GTTTAGG
1 GTTTAGG
22584880 GTTTAGG
1 GTTTAGG
22584887 GT
1 GT
22584889 GGAAGCTTCA
Statistics
Matches: 110, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
7 67 0.61
8 41 0.37
9 2 0.02
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:22595450 original size:48 final size:48
Alignment explanation
Indices: 22595388--22595709 Score: 297
Period size: 48 Copynumber: 6.7 Consensus size: 48
22595378 TGATATGTAT
* *
22595388 GCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACGATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGA
* * * * * * * *
22595436 GCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCGATGTTGTGAAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGA
* * * * * *
22595484 GCTAATGTAAGACCATGTCTGGGACATGGCATCGG-TATTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGA
** * * *
22595532 GCTGGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGA
* * * * * * *
22595580 GCCAGTGCAAGACCATGTCTAGGAAATGGCACCGG-CATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGA
* * * * *
22595628 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGACATGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGA
* *
22595676 GCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
22595710 ACAATTCACC
Statistics
Matches: 218, Mismatches: 52, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
47 3 0.01
48 213 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGA
Found at i:22595638 original size:144 final size:143
Alignment explanation
Indices: 22595378--22595709 Score: 400
Period size: 144 Copynumber: 2.3 Consensus size: 143
22595368 GACATTTGGG
* * * * * *
22595378 TGATATGTATGCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACGATATGAGAGCCAGTG
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACACGAGAGCCAGTG
* * * * *
22595443 TAAGACCATGTTTGGAACATGGCATCAGCGATGTTGTGAAAGCTAATGTAAGACCATGTCTGGGA
66 CAAGACCATGTTAGGAACATGGCACCAGCGA-GTTGAGAAAGCTAATGTAAGACCATGTCTAGGA
*
22595508 CATGGCATCGGTAT
130 CATGGCATCGGCAT
**
22595522 TGATATGTGTGCTGGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACACGAGAGCCAGTG
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACACGAGAGCCAGTG
* *
22595587 CAAGACCATGTCTAGGAA-ATGGCACCGGC-A-TTGAGACGAGAGCTAGTGTAAGACCATGTCTA
66 CAAGACCATGT-TAGGAACATGGCACCAGCGAGTTGAGA--A-AGCTAATGTAAGACCATGTCTA
*
22595649 GGACATGGCATCGGCCT
127 GGACATGGCATCGGCAT
* * * * *
22595666 CGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
22595710 ACAATTCACC
Statistics
Matches: 160, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
141 5 0.03
143 2 0.01
144 148 0.93
145 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (143 bp):
TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACACGAGAGCCAGTG
CAAGACCATGTTAGGAACATGGCACCAGCGAGTTGAGAAAGCTAATGTAAGACCATGTCTAGGAC
ATGGCATCGGCAT
Found at i:22598296 original size:22 final size:23
Alignment explanation
Indices: 22598259--22598306 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
22598249 AAAGATGCAG
22598259 AAAAATACCTTATTTTTATTTAAT
1 AAAAATA-CTTATTTTTATTTAAT
*
22598283 AAAAATA-TTATTTTTATTTTAT
1 AAAAATACTTATTTTTATTTAAT
22598305 AA
1 AA
22598307 CATTTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAAATACTTATTTTTATTTAAT
Found at i:22598414 original size:27 final size:27
Alignment explanation
Indices: 22598378--22598431 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22598368 CTATTTTATC
22598378 AAAAAATTCTCGTAAAAAAGGATTACA
1 AAAAAATTCTCGTAAAAAAGGATTACA
22598405 AAAAAATTCTCGTAAAAAAGGATTACA
1 AAAAAATTCTCGTAAAAAAGGATTACA
22598432 TTTCTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (27 bp):
AAAAAATTCTCGTAAAAAAGGATTACA
Found at i:22601374 original size:19 final size:18
Alignment explanation
Indices: 22601339--22601377 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
22601329 TAATTGATAT
22601339 ATTATTTAATTTAATTTA
1 ATTATTTAATTTAATTTA
*
22601357 ATTATTTAAATTTTATTTA
1 ATTATTT-AATTTAATTTA
22601376 AT
1 AT
22601378 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATTTAATTTAATTTA
Found at i:22602011 original size:31 final size:30
Alignment explanation
Indices: 22601952--22602011 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22601942 GCTCAATTAT
*
22601952 TTAAATAAAAATTTTCAAATATTCAATGAC
1 TTAAATAAAAATATTCAAATATTCAATGAC
*
22601982 TTAAATAAAAA-ATTCAGAATAATTTAATGA
1 TTAAATAAAAATATTCA-AAT-ATTCAATGA
22602012 TCATTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 14 0.54
31 8 0.31
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (30 bp):
TTAAATAAAAATATTCAAATATTCAATGAC
Found at i:22602558 original size:44 final size:44
Alignment explanation
Indices: 22602490--22602580 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
22602480 AACTCTGATT
* * * *
22602490 TTAGTTTCTCATTTAAACTTTAATTAGTGTAGCTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAATGTAGCTTATTTTAATA
* *
22602534 TTAGTTTCCCACTTAAACTCTAATTAATGTAGGTTTTTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAATGTAGCTTATTTTAATA
22602578 TTA
1 TTA
22602581 TTTGACTTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTAATTAATGTAGCTTATTTTAATA
Found at i:22616749 original size:28 final size:28
Alignment explanation
Indices: 22616716--22616773 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
22616706 CCAGAAACGA
22616716 AAATTAATCTAAATGCAGAAAAGTTTCT
1 AAATTAATCTAAATGCAGAAAAGTTTCT
22616744 AAATTAATCTAAATGCAGAAAAGTTTCT
1 AAATTAATCTAAATGCAGAAAAGTTTCT
22616772 AA
1 AA
22616774 CTTGTCATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (28 bp):
AAATTAATCTAAATGCAGAAAAGTTTCT
Found at i:22619018 original size:23 final size:23
Alignment explanation
Indices: 22618992--22619036 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22618982 ACGTCGATTG
22618992 CATCAA-TAAAACATTTAATTTAC
1 CATCAATTAAAAC-TTTAATTTAC
*
22619015 CATCAATTAAAACTTTATTTTA
1 CATCAATTAAAACTTTAATTTA
22619037 ATACTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (23 bp):
CATCAATTAAAACTTTAATTTAC
Found at i:22620465 original size:7 final size:7
Alignment explanation
Indices: 22620453--22620485 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
22620443 ATCACATTTA
22620453 TCACTTG
1 TCACTTG
22620460 TCACTTG
1 TCACTTG
22620467 TCAC-TG
1 TCACTTG
22620473 ATCACTTG
1 -TCACTTG
22620481 TCACT
1 TCACT
22620486 AATCAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.08
7 20 0.83
8 2 0.08
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (7 bp):
TCACTTG
Found at i:22620477 original size:14 final size:14
Alignment explanation
Indices: 22620438--22620490 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
22620428 CACGGTCTTA
*
22620438 CACTGATCACATTTAT
1 CACTGATCAC--TTGT
22620454 CACTTG-TCACTTGT
1 CAC-TGATCACTTGT
22620468 CACTGATCACTTGT
1 CACTGATCACTTGT
*
22620482 CACTAATCA
1 CACTGATCA
22620491 GATAAGTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 2 0.06
14 22 0.67
16 7 0.21
17 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.36
Consensus pattern (14 bp):
CACTGATCACTTGT
Found at i:22620545 original size:51 final size:51
Alignment explanation
Indices: 22620461--22620579 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
22620451 TATCACTTGT
*
22620461 CACTTGTCAC-TGATCACTTGTCACTAATCAGATAAGTGCAACTAAAGCTAC
1 CACTTATCACTTG-TCACTTGTCACTAATCAGATAAGTGCAACTAAAGCTAC
* * * * * * *
22620512 CACTTATCACTTGTCATTTGTCACTGATTAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTGTCACTTGTCACTAATCAGATAAGTGCAACTAAAGCTAC
22620563 CAC-TATCACTTGTCACT
1 CACTTATCACTTGTCACT
22620580 GATCAGAAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 13 0.22
51 43 0.74
52 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTGTCACTAATCAGATAAGTGCAACTAAAGCTAC
Found at i:22623306 original size:20 final size:20
Alignment explanation
Indices: 22623281--22623318 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22623271 TCGTGCTTTT
*
22623281 ATATATATTATAGATTATAG
1 ATATATATTATAAATTATAG
22623301 ATATATATTATAAATTAT
1 ATATATATTATAAATTAT
22623319 CATATATTAT
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:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATATATTATAAATTATAG
Found at i:22625886 original size:3 final size:3
Alignment explanation
Indices: 22625880--22625967 Score: 63
Period size: 3 Copynumber: 29.0 Consensus size: 3
22625870 TTGATAATAA
* * * * * *
22625880 TAT TAT TAT T-T TAA TAT TAT TAT TAT TAC TAC TAT TAG TAC TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
22625927 CAC TAT TAT TAT TAT TAT TAT TCATT TAT GTAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-A-T TAT -TAT TAT TAT TAT
22625968 AAGTTGTACC
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.06
3 58 0.84
4 5 0.07
5 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:22625896 original size:14 final size:14
Alignment explanation
Indices: 22625877--22625903 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22625867 ATTTTGATAA
22625877 TAATATTATTATTT
1 TAATATTATTATTT
22625891 TAATATTATTATT
1 TAATATTATTATT
22625904 ATTACTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TAATATTATTATTT
Found at i:22625900 original size:17 final size:17
Alignment explanation
Indices: 22625874--22625906 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22625864 TTAATTTTGA
22625874 TAATAATATTATTATTT
1 TAATAATATTATTATTT
*
22625891 TAATATTATTATTATT
1 TAATAATATTATTATT
22625907 ACTACTATTA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATAATATTATTATTT
Found at i:22625942 original size:18 final size:18
Alignment explanation
Indices: 22625894--22625943 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
22625884 ATTATTTTAA
*
22625894 TATTATTATTATTACTAC
1 TATTATTATTATTACCAC
* *
22625912 TATTAGTACTATTACCAC
1 TATTATTATTATTACCAC
22625930 TATTATTATTATTA
1 TATTATTATTATTA
22625944 TTATTCATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (18 bp):
TATTATTATTATTACCAC
Found at i:22627267 original size:27 final size:27
Alignment explanation
Indices: 22627237--22627297 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
22627227 TCATTATTTG
** * *
22627237 CCACAAATGTTTTTCTTTTATATTGCA
1 CCACAAATGCATTCCTTTCATATTGCA
*
22627264 CCACAAATGCATTCCTTTCATATTGCG
1 CCACAAATGCATTCCTTTCATATTGCA
22627291 CCACAAA
1 CCACAAA
22627298 GGAATTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (27 bp):
CCACAAATGCATTCCTTTCATATTGCA
Found at i:22627304 original size:27 final size:26
Alignment explanation
Indices: 22627249--22627309 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
22627239 ACAAATGTTT
* * *
22627249 TTCTTTTATATTGCACCACAAATGCA
1 TTCTTTCATATTGCACCACAAAGGAA
*
22627275 TTCCTTTCATATTGCGCCACAAAGGAA
1 TT-CTTTCATATTGCACCACAAAGGAA
22627302 TTCTTTCA
1 TTCTTTCA
22627310 ATGTTCGCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (26 bp):
TTCTTTCATATTGCACCACAAAGGAA
Found at i:22631480 original size:32 final size:32
Alignment explanation
Indices: 22631439--22631502 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
22631429 TCGCCTTTTC
22631439 CACATTATGATGTCTCTATACTATATTTACTA
1 CACATTATGATGTCTCTATACTATATTTACTA
*
22631471 CACATTATGATGTCTTTATACTATATTTACTA
1 CACATTATGATGTCTCTATACTATATTTACTA
22631503 AATAAACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.45
Consensus pattern (32 bp):
CACATTATGATGTCTCTATACTATATTTACTA
Found at i:22639678 original size:29 final size:29
Alignment explanation
Indices: 22639617--22639680 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
22639607 GTGTCTCAGT
* * *
22639617 CGTGTGTGCTACATGGCTTAGCACTCTGC
1 CGTGTGTGCTACATGGCTTAGAACACGGC
*
22639646 CGTGTGTGCTACATGGCTTAGAACACGGG
1 CGTGTGTGCTACATGGCTTAGAACACGGC
22639675 CGTGTG
1 CGTGTG
22639681 GCATGGCCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.16, C:0.23, G:0.33, T:0.28
Consensus pattern (29 bp):
CGTGTGTGCTACATGGCTTAGAACACGGC
Found at i:22641583 original size:103 final size:104
Alignment explanation
Indices: 22641339--22641604 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
22641329 GTTGTACATA
** *
22641339 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
22641404 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
22641443 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
22641507 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
22641546 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
22641605 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:22649061 original size:103 final size:104
Alignment explanation
Indices: 22648829--22649094 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 104
22648819 GTTGTACATA
** *
22648829 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* ***
22648894 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATCAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
22648933 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
22648997 TCTGAAA-CAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATCAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
22649036 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
22649095 AATAACGGTT
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATCAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:22670146 original size:20 final size:20
Alignment explanation
Indices: 22670119--22670166 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
22670109 GTCACAGTAG
22670119 TCGACACATATAGTGTCTCA
1 TCGACACATATAGTGTCTCA
*
22670139 TTGACACATATAGTGTCTCA
1 TCGACACATATAGTGTCTCA
22670159 TCGACACA
1 TCGACACA
22670167 CAGTTGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (20 bp):
TCGACACATATAGTGTCTCA
Found at i:22672962 original size:42 final size:42
Alignment explanation
Indices: 22672915--22673011 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
22672905 AATAAAATAT
* * * *
22672915 TATCTAAATAAATATTTAATTTAATTTAATATCTCATATTAA
1 TATCTAAATAAATATTAAATTAAATATAATATATCATATTAA
* * *
22672957 TATCTAGACAAATATTAAATTAAATATAATATATCGTATTAA
1 TATCTAAATAAATATTAAATTAAATATAATATATCATATTAA
*
22672999 TAT-TAAATTAATA
1 TATCTAAATAAATA
22673012 AAATACTATC
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 7 0.16
42 38 0.84
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (42 bp):
TATCTAAATAAATATTAAATTAAATATAATATATCATATTAA
Done.