Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 148 of 161
Found at i:46212382 original size:113 final size:113
Alignment explanation
Indices: 46212254--46212468 Score: 324
Period size: 113 Copynumber: 1.9 Consensus size: 113
46212244 ATTTTTCAGA
* * *
46212254 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTTTCGTTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCA-TTTCATTTTC
*
46212319 ATTTTGGAGAAAATCGTAATAATTTCCAAATG-TTTCCACTTGTCCATT
65 ATTTTGGAGAAAATCATAATAATTTCCAAATGATTTCCACTTGTCCATT
* * *
46212367 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTATTTCTCCATTTCATTTTCA
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCATTTCATTTTCA
* * *
46212432 TTTTGTAGAAAATCATAATCATTTCTAAATGATTTCC
66 TTTTGGAGAAAATCATAATAATTTCCAAATGATTTCC
46212469 TATTTCTCCA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 37 0.41
113 54 0.59
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (113 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCATTTCATTTTCA
TTTTGGAGAAAATCATAATAATTTCCAAATGATTTCCACTTGTCCATT
Found at i:46212400 original size:56 final size:56
Alignment explanation
Indices: 46212254--46212481 Score: 303
Period size: 56 Copynumber: 4.0 Consensus size: 56
46212244 ATTTTTCAGA
* * * *
46212254 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCA-TT
* * * * * *
46212311 TCGTTTTCATTTTGGAGAAAATCGTAATAATTTCCAAATGTTTCCACTTGTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
*
46212367 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
* * *
46212423 TCATTTTCATTTTGTAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATG-TTTCC-ATTTCTCCATT
46212481 T
1 T
46212482 TCACCAATTT
Statistics
Matches: 148, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
56 88 0.59
57 48 0.32
58 12 0.08
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (56 bp):
TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
Found at i:46213971 original size:102 final size:103
Alignment explanation
Indices: 46213844--46214049 Score: 333
Period size: 103 Copynumber: 2.0 Consensus size: 103
46213834 TTAGTTACTA
* * * *
46213844 AATCTCTTTAGTTGTTTGAAAGTTAGTTTCTAATGATAATAGC-AAAAAAACTAGCATACATTGG
1 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAAACTAGCATACATTGA
* *
46213908 ATCTGAAGAAGAGGCTCGGAGACTACCTTTTTCTAGCC
66 ATCTGAAGAAGAGGCTCAGAGACTACATTTTTCTAGCC
* *
46213946 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAGTGGCAATAGCAAAAAAAACTAGCATACATTGA
1 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAAACTAGCATACATTGA
46214011 ATCTGAAGAAGAGGCTCAGAGACTACATTTTTCTAGCC
66 ATCTGAAGAAGAGGCTCAGAGACTACATTTTTCTAGCC
46214049 A
1 A
46214050 GGTTGGATGT
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 38 0.40
103 57 0.60
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (103 bp):
AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAAACTAGCATACATTGA
ATCTGAAGAAGAGGCTCAGAGACTACATTTTTCTAGCC
Found at i:46220023 original size:25 final size:25
Alignment explanation
Indices: 46219963--46220033 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
46219953 AGGGTTATCG
* *
46219963 ATTCTAGCTCTTATAAGCTTATCGAT
1 ATTC-AGCTCGTATGAGCTTATCGAT
* * *
46219989 ACTCATCTCGTATGAGCTTATCGTT
1 ATTCAGCTCGTATGAGCTTATCGAT
* *
46220014 ATTCAGCTCGGAGGAGCTTA
1 ATTCAGCTCGTATGAGCTTA
46220034 CATTTTATAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 33 0.92
26 3 0.08
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (25 bp):
ATTCAGCTCGTATGAGCTTATCGAT
Found at i:46220240 original size:28 final size:28
Alignment explanation
Indices: 46220174--46220241 Score: 91
Period size: 30 Copynumber: 2.4 Consensus size: 28
46220164 ATATGAATTT
**
46220174 GATACATGGAAATGGTTTATATATATGT
1 GATACATGGAAATGGTTTATATATATAA
46220202 GAATTACATGGAAATGGTTTATATATATAA
1 G-A-TACATGGAAATGGTTTATATATATAA
*
46220232 GATATATGGA
1 GATACATGGA
46220242 TACATGGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.23
29 2 0.06
30 25 0.71
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.37
Consensus pattern (28 bp):
GATACATGGAAATGGTTTATATATATAA
Found at i:46220249 original size:30 final size:30
Alignment explanation
Indices: 46220176--46220233 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
46220166 ATGAATTTGA
**
46220176 TACATGGAAATGGTTTATATATATGTGAAT
1 TACATGGAAATGGTTTATATATATAAGAAT
46220206 TACATGGAAATGGTTTATATATATAAGA
1 TACATGGAAATGGTTTATATATATAAGA
46220234 TATATGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (30 bp):
TACATGGAAATGGTTTATATATATAAGAAT
Found at i:46236456 original size:24 final size:25
Alignment explanation
Indices: 46236407--46236457 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
46236397 ACCCTTCTCA
* *
46236407 TTTCTTCACTTCTCTCTCATTTTTC
1 TTTCTTCACTTCCCTCTCATTGTTC
46236432 TTTCTTCA-TTCCCT-TCCATTGTTC
1 TTTCTTCACTTCCCTCT-CATTGTTC
46236456 TT
1 TT
46236458 CATTTTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.04
24 14 0.61
25 8 0.35
ACGTcount: A:0.08, C:0.31, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTCTTCACTTCCCTCTCATTGTTC
Found at i:46236709 original size:20 final size:18
Alignment explanation
Indices: 46236676--46236712 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
46236666 TGTGATGTTG
46236676 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
46236694 ATATGTCTTAAATTTAATT
1 ATATGT-TT-AATTTAATT
46236713 TGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:46240566 original size:13 final size:12
Alignment explanation
Indices: 46240543--46240580 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
46240533 TTTTAAAAAT
46240543 AAAAA-ATTTTA
1 AAAAATATTTTA
46240554 AAAAAGTATTTT-
1 AAAAA-TATTTTA
46240566 AAAAATATTTTA
1 AAAAATATTTTA
46240578 AAA
1 AAA
46240581 TAAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.46
12 8 0.33
13 5 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (12 bp):
AAAAATATTTTA
Found at i:46240597 original size:40 final size:41
Alignment explanation
Indices: 46240525--46240606 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 41
46240515 ATAAACACCA
** *
46240525 AAAAATTATTTTAAAAATAAAAAATTTTAAAAAAGTAT-TTT
1 AAAAATTATTTTAAAAATAAAAAA-TAAAAAAAAATATATTT
46240566 AAAAA-TATTTT-AAAATAAAAAATAAAAAAAAAATATATTT
1 AAAAATTATTTTAAAAATAAAAAAT-AAAAAAAAATATATTT
46240606 A
1 A
46240607 TTATATTCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.03
39 20 0.56
40 10 0.28
41 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (41 bp):
AAAAATTATTTTAAAAATAAAAAATAAAAAAAAATATATTT
Found at i:46245007 original size:16 final size:17
Alignment explanation
Indices: 46244986--46245021 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
46244976 TTTTTGTTTT
*
46244986 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
46245002 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
46245019 TTT
1 TTT
46245022 ATTGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:46245551 original size:44 final size:44
Alignment explanation
Indices: 46245485--46245845 Score: 187
Period size: 44 Copynumber: 8.2 Consensus size: 44
46245475 CTGTAACCTC
* * ** *
46245485 AGGGAGGTAAAATCTGCCATCTTCAATTTACTCCACTACTGCCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * ** *
46245529 AGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * *
46245573 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTA-TAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTACT-GCCT
* * **** ** * *
46245616 CAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * *
46245661 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
* * * * * **
46245705 AGGGAGAT-AGA-AT-TACTGGCTTCAATATACTCCGCTGCAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTACTGCCT
* * ** * * *
46245748 CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
** * * * *
46245793 AAAGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTGCAT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
46245837 AGGGAGATA
1 AGGGAGATA
46245846 GAATTACTGG
Statistics
Matches: 223, Mismatches: 80, Indels: 28
0.67 0.24 0.08
Matches are distributed among these distances:
41 6 0.03
42 3 0.01
43 40 0.18
44 134 0.60
45 36 0.16
46 2 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTACTGCCT
Found at i:46245694 original size:132 final size:132
Alignment explanation
Indices: 46245457--46246622 Score: 1712
Period size: 132 Copynumber: 8.8 Consensus size: 132
46245447 GATATAGGAT
* ** * *
46245457 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCAATTTACTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
* * * * *
46245522 ACTGCCTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCCAGGG-AGATAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAAT
46245586 TAC
130 TAC
* *
46245589 TGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
* *
46245654 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAAT
46245718 TAC
130 TAC
* * * * *
46245721 TGGCTTCAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
** * * * **
46245786 ACTGCTTAAAGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTGCATAGGG-AGATAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAAT
46245850 TAC
130 TAC
*
46245853 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
* *
46245918 ACTGCTTAGGGAGACAAGATCTAAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
46245983 AC
131 AC
* * *
46245985 TGGCTTCAATGTACTCCACTGCAACCTCAAGGAGGTAAAATCCGCCATCCTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
* * * * *
46246050 ACTGCTTAGGGAGACAAGATCTAAAATCTTTAATTTATTCCACTGCTGCCTAGGGAAATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
46246115 AC
131 AC
* * *
46246117 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
* *
46246182 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGAGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
46246247 AC
131 AC
* * *
46246249 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
* * * *
46246314 ACTGCTTAGGCAGACAAGATCTAAAATCTTTAATCTATTCCACTGCTGCCCAGGAAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
46246379 AC
131 AC
* * * *
46246381 TGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
46246446 ACTGCTT-GGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
66 ACTGCTTAGGG-AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
46246510 TAC
130 TAC
* * * * *
46246513 TGGTTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCGACATCCTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
* *
46246578 ACTGGTTAGGGAGACAAGATCTAAAATCTTTC-ATCTATTCCACTG
66 ACTGCTTAGGGAGACAAGATCTGAAATC-TTCAATCTATTCCACTG
46246623 TCTCCGAGGG
Statistics
Matches: 941, Mismatches: 89, Indels: 8
0.91 0.09 0.01
Matches are distributed among these distances:
131 2 0.00
132 931 0.99
133 8 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACT
ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
AC
Found at i:46252675 original size:12 final size:13
Alignment explanation
Indices: 46252654--46252686 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46252644 AATAAACATT
*
46252654 TACAAATAT-ATA
1 TACAAGTATAATA
46252666 TACAAGTATAATA
1 TACAAGTATAATA
46252679 TACAAGTA
1 TACAAGTA
46252687 AATTTGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (13 bp):
TACAAGTATAATA
Found at i:46253025 original size:17 final size:17
Alignment explanation
Indices: 46252996--46253030 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46252986 TAAAGTATAT
46252996 AAAGAAAATTAAAAAAA
1 AAAGAAAATTAAAAAAA
46253013 AAAGTAAAA-TAAAAAAA
1 AAAG-AAAATTAAAAAAA
46253030 A
1 A
46253031 GTATGCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAGAAAATTAAAAAAA
Found at i:46253027 original size:18 final size:17
Alignment explanation
Indices: 46252996--46253030 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46252986 TAAAGTATAT
*
46252996 AAAGAAAATTAAAAAAA
1 AAAGAAAATAAAAAAAA
46253013 AAAGTAAAATAAAAAAAA
1 AAAG-AAAATAAAAAAAA
46253031 GTATGCATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAGAAAATAAAAAAAA
Found at i:46253608 original size:16 final size:17
Alignment explanation
Indices: 46253587--46253622 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
46253577 TTTTTGTTTT
*
46253587 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
46253603 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
46253620 TTT
1 TTT
46253623 ATTGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:46254310 original size:42 final size:40
Alignment explanation
Indices: 46254232--46254310 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
46254222 AAAATTTATG
* *
46254232 TTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAAGTCAT
1 TTTTTAGCGGCGTTTGTGAAAAAGCGCCACTAAAAGTCAT
46254272 TTTTATAGCGGCGTTTGT-AATATAAGCGCCACTAAAAGT
1 TTTT-TAGCGGCGTTTGTGAA-A-AAGCGCCACTAAAAGT
46254311 TATGACCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 6 0.18
41 14 0.41
42 14 0.41
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTGTGAAAAAGCGCCACTAAAAGTCAT
Found at i:46254376 original size:43 final size:42
Alignment explanation
Indices: 46254328--46254584 Score: 266
Period size: 43 Copynumber: 6.0 Consensus size: 42
46254318 TATAGTGGTG
* * *
46254328 TTTGTGGTAGAAGTGCCGCTAAAGGTCATGGTATTTAGCGGCA
1 TTTGTGG-AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCA
* **
46254371 TTTGTGGGAAAAGCGCCGATAAAGGTCATGGTCTTTAGCCGGTG
1 TTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG-CGGCA
* *
46254415 TTTGTCGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCG
1 TTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCA
* * *
46254458 CTAGTGGGAAAAGCGCCGCTAAAGGTCATGGTCGTTAGCGGCA
1 TTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCA
**
46254501 TTTGTAGG-ATTGCGCCGCTAAAGGTCATGGTCTTTAGCGGCA
1 TTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCA
* ** * *
46254543 CTTTTTCCACAAA-CGCCGTTAAAGGTCATGATCTTTAGCGGC
1 -TTTGTGGA-AAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGC
46254585 GTTTTTTGTG
Statistics
Matches: 180, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
42 31 0.17
43 107 0.59
44 42 0.23
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (42 bp):
TTTGTGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCA
Found at i:46254438 original size:87 final size:86
Alignment explanation
Indices: 46254324--46254581 Score: 281
Period size: 87 Copynumber: 3.0 Consensus size: 86
46254314 GACCTATAGT
* * *
46254324 GGTGTTTGTGGTAGAAGTGCCGCTAAAGGTCATGGTATTTAGCGGCATTTGTGGGAAAAGCGCCG
1 GGTGTTTGTGG-AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCG
46254389 ATAAAGGTCATGGTCTTTAGCC
65 ATAAAGGTCATGGTCTTTAGCC
* ** *
46254411 GGTGTTTGTCGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGCTAGTGGGAAAAGCGCCG
1 GGTGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCG
* *
46254476 CTAAAGGTCATGGTCGTTAG-C
65 ATAAAGGTCATGGTCTTTAGCC
** ** ***
46254497 GGCATTTGTAGG-ATTGCGCCGCTAAAGGTCATGGTCTTTAGCGGCACTTT-TTCCACAAA-CGC
1 GGTGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCA-TTTGTGGGA-AAAGCGC
* *
46254559 CGTTAAAGGTCATGATCTTTAGC
63 CGATAAAGGTCATGGTCTTTAGC
46254582 GGCGTTTTTT
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
85 54 0.38
86 14 0.10
87 73 0.51
88 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (86 bp):
GGTGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGA
TAAAGGTCATGGTCTTTAGCC
Found at i:46254566 original size:85 final size:86
Alignment explanation
Indices: 46254342--46254584 Score: 285
Period size: 85 Copynumber: 2.8 Consensus size: 86
46254332 TGGTAGAAGT
*
46254342 GCCGCTAAAGGTCATGGTATTTAGCGGCA-TTTGTGGGAAAAGCGCCGATAAAGGTCATGGTCTT
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCACTTT-TGGGAAAAGCGCCGATAAAGGTCATGGTCTT
** *
46254406 TAGCCGGTGTTTGTCGGAAAAGC
65 TAG-CGGCATTTGTAGGAAAAGC
* * ** * *
46254429 GCCGCTAAAGGTCATGGTCTTTAGTGGCGCTAGTGGGAAAAGCGCCGCTAAAGGTCATGGTCGTT
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCACTTTTGGGAAAAGCGCCGATAAAGGTCATGGTCTTT
**
46254494 AGCGGCATTTGTAGG-ATTGC
66 AGCGGCATTTGTAGGAAAAGC
*** * *
46254514 GCCGCTAAAGGTCATGGTCTTTAGCGGCACTTTTTCCACAAA-CGCCGTTAAAGGTCATGATCTT
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCACTTTTGGGA-AAAGCGCCGATAAAGGTCATGGTCTT
46254578 TAGCGGC
65 TAGCGGC
46254585 GTTTTTTGTG
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
85 60 0.45
86 13 0.10
87 58 0.44
88 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (86 bp):
GCCGCTAAAGGTCATGGTCTTTAGCGGCACTTTTGGGAAAAGCGCCGATAAAGGTCATGGTCTTT
AGCGGCATTTGTAGGAAAAGC
Found at i:46255746 original size:3 final size:3
Alignment explanation
Indices: 46255738--46255892 Score: 247
Period size: 3 Copynumber: 51.7 Consensus size: 3
46255728 ATGAGGTAAG
46255738 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** * *
46255786 TAT TAT TAT TAT GAT GAG TGG GAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46255834 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46255882 TAT TAT TAT TA
1 TAT TAT TAT TA
46255893 AGATGAGTGG
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 143 1.00
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:46263647 original size:3 final size:3
Alignment explanation
Indices: 46263639--46263670 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
46263629 ATGAGGTAAG
*
46263639 TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
46263671 AGATGAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:46267185 original size:16 final size:16
Alignment explanation
Indices: 46267154--46267187 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46267144 TAATATAGAA
* *
46267154 TTTTTAAAACTTAATT
1 TTTTTAAAAATAAATT
46267170 TTTTTAAAAATAAATT
1 TTTTTAAAAATAAATT
46267186 TT
1 TT
46267188 CTAATGTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTAAAAATAAATT
Found at i:46267602 original size:23 final size:23
Alignment explanation
Indices: 46267576--46267624 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
46267566 TATTTATTTT
*
46267576 TTAAAAAATAATTAATTAAAA-TA
1 TTAAAAAAT-ATTAATAAAAACTA
*
46267599 TTAATAAATATTAATAAAAACTA
1 TTAAAAAATATTAATAAAAACTA
46267622 TTA
1 TTA
46267625 TTTATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TTAAAAAATATTAATAAAAACTA
Found at i:46268707 original size:43 final size:43
Alignment explanation
Indices: 46268646--46268871 Score: 254
Period size: 43 Copynumber: 5.2 Consensus size: 43
46268636 AAATAAAGGT
* *
46268646 CGCTATAGACCATAACCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
** ** *
46268689 CGCTAAAGACCATGACCTTTAATGGCATTTTTTCCACAAACGC
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * * * * * *
46268732 CGGTAAAAACCACGAGCTTTAACGGCACTATTCCCACAAACGC
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * *
46268775 CGCTAAATACCATGACCTTTAGCAGCGCTTTTTCGCACAAACGC
1 CGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCACAAACGC
** * *
46268819 CGCTAAAGACCATGACCTTTAGCAACGCTTTTCGCGCAAACGC
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
46268862 CGCTAAAGAC
1 CGCTAAAGAC
46268872 ATATCATACA
Statistics
Matches: 155, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 116 0.75
44 39 0.25
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (43 bp):
CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGC
Found at i:46270136 original size:88 final size:88
Alignment explanation
Indices: 46269987--46270282 Score: 592
Period size: 88 Copynumber: 3.4 Consensus size: 88
46269977 TTTTAGGGAA
46269987 ATGATATAGATTCCTAGAAACTTAATACCTCAGCAGTAGGATAGTTTCCTTGTTTTGCTTTGAAT
1 ATGATATAGATTCCTAGAAACTTAATACCTCAGCAGTAGGATAGTTTCCTTGTTTTGCTTTGAAT
46270052 AATTCTCTTAATGCTGCAAGTAG
66 AATTCTCTTAATGCTGCAAGTAG
46270075 ATGATATAGATTCCTAGAAACTTAATACCTCAGCAGTAGGATAGTTTCCTTGTTTTGCTTTGAAT
1 ATGATATAGATTCCTAGAAACTTAATACCTCAGCAGTAGGATAGTTTCCTTGTTTTGCTTTGAAT
46270140 AATTCTCTTAATGCTGCAAGTAG
66 AATTCTCTTAATGCTGCAAGTAG
46270163 ATGATATAGATTCCTAGAAACTTAATACCTCAGCAGTAGGATAGTTTCCTTGTTTTGCTTTGAAT
1 ATGATATAGATTCCTAGAAACTTAATACCTCAGCAGTAGGATAGTTTCCTTGTTTTGCTTTGAAT
46270228 AATTCTCTTAATGCTGCAAGTAG
66 AATTCTCTTAATGCTGCAAGTAG
46270251 ATGATATAGATTCCTAGAAACTTAATACCTCA
1 ATGATATAGATTCCTAGAAACTTAATACCTCA
46270283 ATGATCACAC
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 208 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (88 bp):
ATGATATAGATTCCTAGAAACTTAATACCTCAGCAGTAGGATAGTTTCCTTGTTTTGCTTTGAAT
AATTCTCTTAATGCTGCAAGTAG
Found at i:46273694 original size:19 final size:17
Alignment explanation
Indices: 46273640--46273697 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 17
46273630 TATTAATTTT
*
46273640 AAATAAATAAATTTTGAA
1 AAATTAATAAATTTT-AA
46273658 AAATTAAGTAATATTTTAA
1 AAATTAA-TAA-ATTTTAA
46273677 AGAATTAGATAAATTTTAA
1 A-AATTA-ATAAATTTTAA
46273696 AA
1 AA
46273698 TTTTTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 7 0.20
19 14 0.40
20 13 0.37
21 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
AAATTAATAAATTTTAA
Found at i:46273999 original size:10 final size:10
Alignment explanation
Indices: 46273952--46274011 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
46273942 AAAATAAAAG
46273952 TTTAAAATCTT
1 TTTAAAATC-T
* *
46273963 TTTTAAAT-A
1 TTTAAAATCT
**
46273972 TTTAAAAAAT
1 TTTAAAATCT
46273982 TTTAAAATCT
1 TTTAAAATCT
46273992 TTTAAAATTCAT
1 TTTAAAA-TC-T
46274004 TTTAAAAT
1 TTTAAAAT
46274012 TTTAAATCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 6 0.15
10 15 0.38
11 10 0.26
12 8 0.21
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTAAAATCT
Found at i:46274008 original size:12 final size:12
Alignment explanation
Indices: 46273980--46274012 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46273970 TATTTAAAAA
46273980 ATTTTAAAA-TC
1 ATTTTAAAATTC
46273991 -TTTTAAAATTC
1 ATTTTAAAATTC
46274002 ATTTTAAAATT
1 ATTTTAAAATT
46274013 TTAAATCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.40
11 2 0.10
12 10 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTTAAAATTC
Found at i:46274011 original size:30 final size:30
Alignment explanation
Indices: 46273945--46274017 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
46273935 TATTATAAAA
* *
46273945 ATAAAAGTTTAAAATCTTTTTTAAATATTT
1 ATAAAATTTTAAAATCTTTTTAAAATATTT
*
46273975 AAAAAATTTTAAAATC-TTTTAAAATTCATTT
1 ATAAAATTTTAAAATCTTTTTAAAA-T-ATTT
46274006 -TAAAATTTTAAA
1 ATAAAATTTTAAA
46274018 TCACGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.19
30 26 0.70
31 4 0.11
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (30 bp):
ATAAAATTTTAAAATCTTTTTAAAATATTT
Found at i:46274014 original size:20 final size:19
Alignment explanation
Indices: 46273946--46274017 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
46273936 ATTATAAAAA
* *
46273946 TAAAAGTTTAAAATCTTTT
1 TAAAATTTTAAAATCATTT
* *
46273965 TTAAATATTTAAAA-AATTT
1 TAAAAT-TTTAAAATCATTT
46273984 TAAAATCTTTTAAAATTCATTT
1 TAAAA--TTTTAAAA-TCATTT
46274006 TAAAATTTTAAA
1 TAAAATTTTAAA
46274018 TCACGAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
19 11 0.26
20 21 0.50
21 1 0.02
22 9 0.21
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (19 bp):
TAAAATTTTAAAATCATTT
Found at i:46274816 original size:21 final size:21
Alignment explanation
Indices: 46274766--46274827 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
46274756 CTAACTCGAC
46274766 CCCAAATCTCTAAACCCTAAAT
1 CCCAAA-CTCTAAACCCTAAAT
* *
46274788 CTCTAACTCTAAACCTCT-AAT
1 CCCAAACTCTAAACC-CTAAAT
46274809 CCCAAACTC-ATAACCCTAA
1 CCCAAACTCTA-AACCCTAA
46274828 TTACCCCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.09
21 24 0.73
22 6 0.18
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCAAACTCTAAACCCTAAAT
Found at i:46274947 original size:7 final size:7
Alignment explanation
Indices: 46274936--46275030 Score: 50
Period size: 7 Copynumber: 13.3 Consensus size: 7
46274926 GACCCTTAAC
46274936 CCCTAAA
1 CCCTAAA
*
46274943 TCCTAAA
1 CCCTAAA
46274950 CCCTAAA
1 CCCTAAA
*
46274957 CCCTTAA
1 CCCTAAA
*
46274964 CCCTGAA
1 CCCTAAA
*
46274971 CCTTAAAA
1 CCCT-AAA
46274979 CCC-ATAA
1 CCCTA-AA
46274986 CCC-ATAA
1 CCCTA-AA
* *
46274993 CCCTCAG
1 CCCTAAA
*
46275000 CCCTTAA
1 CCCTAAA
*
46275007 CCTCTAAC
1 CC-CTAAA
*
46275015 CCCTAAC
1 CCCTAAA
*
46275022 CCCTGAA
1 CCCTAAA
46275029 CC
1 CC
46275031 TTATTTAATA
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
6 1 0.01
7 59 0.86
8 9 0.13
ACGTcount: A:0.34, C:0.44, G:0.03, T:0.19
Consensus pattern (7 bp):
CCCTAAA
Found at i:46275674 original size:41 final size:41
Alignment explanation
Indices: 46275629--46275739 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
46275619 ATATGTTTTT
*
46275629 GCGGCGCTT-TACCAAAAACGTCGCTAAAGGTCTGCGCATTA
1 GCGGCGCTTCT-CCAAAAACGCCGCTAAAGGTCTGCGCATTA
** *
46275670 GCGGCGCTTCTTTACAAACGCCGCTAAAGGTCTGCGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGGTCTGCGCATTA
** *
46275711 GCGGCGCTTCTTGAAAAACGCTGCTAAAG
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAG
46275740 ACCCGCAAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 61 0.98
42 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTCTCCAAAAACGCCGCTAAAGGTCTGCGCATTA
Found at i:46275842 original size:40 final size:40
Alignment explanation
Indices: 46275798--46275873 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
46275788 GCTTTCCTAA
*
46275798 AAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTGGGG
1 AAGCGCCGCTAATACTCGATCTTTAGCGGCATTTTTGGGG
* * *
46275838 AAGCGCTGCTAATGCTCGATTTTTAGCGGCATTTTT
1 AAGCGCCGCTAATACTCGATCTTTAGCGGCATTTTT
46275874 TCTACAAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (40 bp):
AAGCGCCGCTAATACTCGATCTTTAGCGGCATTTTTGGGG
Found at i:46276072 original size:9 final size:9
Alignment explanation
Indices: 46276042--46276088 Score: 69
Period size: 9 Copynumber: 5.2 Consensus size: 9
46276032 AAACCCTTTT
46276042 AAAATT-TA
1 AAAATTATA
*
46276050 ACAATTATTA
1 AAAATTA-TA
46276060 AAAATTATA
1 AAAATTATA
46276069 AAAATTATA
1 AAAATTATA
46276078 AAAATTATA
1 AAAATTATA
46276087 AA
1 AA
46276089 CTAAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
8 5 0.14
9 22 0.63
10 8 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:46276106 original size:12 final size:11
Alignment explanation
Indices: 46276059--46276113 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 11
46276049 AACAATTATT
46276059 AAAAATTAT--
1 AAAAATTATAA
46276068 AAAAATTAT--
1 AAAAATTATAA
46276077 AAAAATTATAA
1 AAAAATTATAA
*
46276088 ACTAAATTTATAA
1 A--AAAATTATAA
46276101 AAAAATTATAA
1 AAAAATTATAA
46276112 AA
1 AA
46276114 TTTTTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 18 0.45
11 12 0.30
13 10 0.25
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:46281269 original size:26 final size:25
Alignment explanation
Indices: 46281240--46281320 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 25
46281230 AATTTAATAT
*
46281240 TTGATAAAAAAATTAAAAAAGTTTTG
1 TTGATAAAAAAATTAAAAAA-TTTTA
*
46281266 TTGATAAAAAAGTTTAAAAAATTTTA
1 TTGATAAAAAA-ATTAAAAAATTTTA
46281292 TTGATAAAAAAATTAAAAAAAATTTTA
1 TTGATAAAAAAATT--AAAAAATTTTA
46281319 TT
1 TT
46281321 TTTGAGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
25 2 0.04
26 26 0.53
27 21 0.43
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (25 bp):
TTGATAAAAAAATTAAAAAATTTTA
Found at i:46281283 original size:27 final size:25
Alignment explanation
Indices: 46281240--46281320 Score: 99
Period size: 27 Copynumber: 3.1 Consensus size: 25
46281230 AATTTAATAT
* *
46281240 TTGATAAAAAAATTAAAAAAGTTTTG
1 TTGATAAAAAATTTAAAAAA-TTTTA
46281266 TTGATAAAAAAGTTTAAAAAATTTTA
1 TTGATAAAAAA-TTTAAAAAATTTTA
*
46281292 TTGATAAAAAAATTAAAAAAAATTTTA
1 TTGAT-AAAAAATT-TAAAAAATTTTA
46281319 TT
1 TT
46281321 TTTGAGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 22 0.45
27 27 0.55
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (25 bp):
TTGATAAAAAATTTAAAAAATTTTA
Found at i:46285584 original size:26 final size:25
Alignment explanation
Indices: 46285555--46285747 Score: 117
Period size: 26 Copynumber: 7.6 Consensus size: 25
46285545 ATCTTCTTTC
46285555 GAGCCATATAACAGGAAGCTCACAAA
1 GAGCCAT-TAACAGGAAGCTCACAAA
*
46285581 GAGCCATTAATCGGGAAGCTCACAAA
1 GAGCCATTAA-CAGGAAGCTCACAAA
* * ***
46285607 GAGCC-TT-TCAGGAAGCTTATTCA
1 GAGCCATTAACAGGAAGCTCACAAA
* * *
46285630 G-GCTATATAACAGGAAGCTAACATA
1 GAGCCAT-TAACAGGAAGCTCACAAA
* *
46285655 GAGCCA-TAATCAGGAAGTTCATAAA
1 GAGCCATTAA-CAGGAAGCTCACAAA
* ** * *
46285680 GAACTTTTAATCAGGAAGATCACGAA
1 GAGCCATTAA-CAGGAAGCTCACAAA
* *
46285706 GAGCCTTTAAACGGGAAGCTCACGAAA
1 GAGCCATT-AACAGGAAGCTCAC-AAA
46285733 -AGCCATTAATCAGGA
1 GAGCCATTAA-CAGGA
46285748 GCTTCGGATA
Statistics
Matches: 126, Mismatches: 31, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
22 2 0.02
23 12 0.10
24 4 0.03
25 33 0.26
26 71 0.56
27 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (25 bp):
GAGCCATTAACAGGAAGCTCACAAA
Found at i:46285902 original size:65 final size:65
Alignment explanation
Indices: 46285822--46286000 Score: 243
Period size: 65 Copynumber: 2.7 Consensus size: 65
46285812 GTTTATGCCT
* * *
46285822 ACAACATATGCAGGATCACAACTGATCATAAAATAGGACGCTCAAAAAGACCTGGGTTTCTGTTC
1 ACAATATATGCAGGATCACAACTGATCATATAATAGGACGCTCAAAAAGACCTGGGTTTCTGTCC
* * * * * *
46285887 GCAATATATGCAGGATCATAA-TAGATCATATAATAGGACGCTCACAAAGAGCTGTGTTTGTGTC
1 ACAATATATGCAGGATCACAACT-GATCATATAATAGGACGCTCAAAAAGACCTGGGTTTCTGTC
46285951 C
65 C
*
46285952 ACAATATATACAGGATCACAACTGATCATATAATAGGACGCTCACAAAA
1 ACAATATATGCAGGATCACAACTGATCATATAATAGGACGCTCA-AAAA
46286001 TGCTACGGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
64 1 0.01
65 93 0.95
66 4 0.04
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (65 bp):
ACAATATATGCAGGATCACAACTGATCATATAATAGGACGCTCAAAAAGACCTGGGTTTCTGTCC
Found at i:46305224 original size:27 final size:27
Alignment explanation
Indices: 46305194--46305401 Score: 186
Period size: 27 Copynumber: 7.8 Consensus size: 27
46305184 TATAACAGTT
46305194 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* ** *
46305221 ATTTTA-CC-ATGAGCTTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * **
46305246 ATTCTACCTTATGGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* ** * ** *
46305273 ATTCTATTCTATAGGGGTATTTCAATT
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
46305300 ATTTTACCCTATGAGGGTATATCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
46305327 ATTTTACCCTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
46305354 ATTTTACCTTATGGGGGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
46305381 TTTTTATCCTATGAGGGTATT
1 ATTTTACCCTATGGGGGTATT
46305402 GTGGTAATTT
Statistics
Matches: 141, Mismatches: 38, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
25 18 0.13
26 3 0.02
27 120 0.85
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:46305358 original size:54 final size:54
Alignment explanation
Indices: 46305194--46305411 Score: 210
Period size: 54 Copynumber: 4.1 Consensus size: 54
46305184 TATAACAGTT
* **
46305194 ATTTTACCCTATGGGGGTATTTCGGTCATTTTA-CC-ATGAGCTTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTATCCTATGAGGGTATTTTGGTC
* * * * * *** *
46305246 ATTCTACCTTATGGGGGTATTTCAATCATTCTATTCTAT-AGGGGTATTTCAATT
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTATCCTATGA-GGGTATTTTGGTC
* * * *
46305300 ATTTTACCCTATGAGGGTATATCGGTCATTTTACCCTAT-AGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTATCCTATGA-GGGTATTTTGGTC
* * * *
46305354 ATTTTACCTTATGGGGGTATTTCAGTCTTTTTATCCTATGAGGGTATTGTGGTA
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTATCCTATGAGGGTATTTTGGTC
46305408 ATTT
1 ATTT
46305412 ATTGACCCCT
Statistics
Matches: 129, Mismatches: 33, Indels: 6
0.77 0.20 0.04
Matches are distributed among these distances:
52 28 0.22
53 2 0.02
54 98 0.76
55 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCAGTCATTTTATCCTATGAGGGTATTTTGGTC
Found at i:46311981 original size:63 final size:62
Alignment explanation
Indices: 46311902--46312026 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 62
46311892 TTAGAGAGAG
46311902 AAAGAGTGCGAACATAAGTTGTTGGAGGTTTTTAAGTATTTAAAAATCCCTAATAATGATTC
1 AAAGAGTGCGAACATAAGTTGTTGGAGGTTTTTAAGTATTTAAAAATCCCTAATAATGATTC
*
46311964 NAAAGAGTGTGAACATAAGTTGTTGGAGGTTTTTAAGTATTTAAAAATCCCTAATAATGATTC
1 -AAAGAGTGCGAACATAAGTTGTTGGAGGTTTTTAAGTATTTAAAAATCCCTAATAATGATTC
46312027 TAAATTTAGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.34
Consensus pattern (62 bp):
AAAGAGTGCGAACATAAGTTGTTGGAGGTTTTTAAGTATTTAAAAATCCCTAATAATGATTC
Found at i:46312333 original size:16 final size:16
Alignment explanation
Indices: 46312312--46312342 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46312302 TTGAGTGATT
46312312 TAGCTTGTTAGTAACC
1 TAGCTTGTTAGTAACC
46312328 TAGCTTGTTAGTAAC
1 TAGCTTGTTAGTAAC
46312343 TAACAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (16 bp):
TAGCTTGTTAGTAACC
Found at i:46313833 original size:28 final size:27
Alignment explanation
Indices: 46313801--46313892 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 27
46313791 AGTTCTTCTA
46313801 GACTCTTGCTTGAAAGATAGTCCATCTG
1 GACTCTTGCTTGAAAGATAGTCCATC-G
* * * *
46313829 GACTCTTGGTCGAAAGATAGTCTAAGCG
1 GACTCTTGCTTGAAAGATAGTC-CATCG
* * *
46313857 GACTCTTCCTTGAAAGAGAGTCCATGCA
1 GACTCTTGCTTGAAAGATAGTCCAT-CG
46313885 GACTCTTG
1 GACTCTTG
46313893 TATGGCGGAG
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.02
28 47 0.94
29 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (27 bp):
GACTCTTGCTTGAAAGATAGTCCATCG
Found at i:46322758 original size:12 final size:12
Alignment explanation
Indices: 46322741--46322770 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46322731 GACTAATACG
*
46322741 ATTATGCATGTT
1 ATTATGCATGAT
46322753 ATTATGCATGAT
1 ATTATGCATGAT
46322765 ATTATG
1 ATTATG
46322771 TTTTATCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (12 bp):
ATTATGCATGAT
Found at i:46338304 original size:23 final size:25
Alignment explanation
Indices: 46338269--46338314 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
46338259 TTATGGTTTT
46338269 CTTGACTATTGAT-GTAAATTTAAA
1 CTTGACTATTGATGGTAAATTTAAA
*
46338293 CTTGAC-ATTGATGGTTAATTTA
1 CTTGACTATTGATGGTAAATTTA
46338315 CTTAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (25 bp):
CTTGACTATTGATGGTAAATTTAAA
Found at i:46340405 original size:45 final size:44
Alignment explanation
Indices: 46340256--46340467 Score: 226
Period size: 44 Copynumber: 4.8 Consensus size: 44
46340246 TTCTTGCTTC
* * * * * ** *
46340256 AATCTACTTCACTGCAACTTCAGGGAGATGAGGTTTGCAACTTA
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGACTTT
* * * *
46340300 AATCTACTCTATTGCAACTTTAGAGAGATAAGATTTGTGACTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGACTTT
* * ***
46340344 AATATGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTCTTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TGACTTT
* *
46340389 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGACTTT
* *
46340433 AATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
46340468 CACCACAGTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 104 0.73
45 38 0.27
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGACTTT
Found at i:46347404 original size:25 final size:25
Alignment explanation
Indices: 46347359--46347421 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
46347349 GCAAACATGT
*
46347359 AAACGGGAAGCTCTTTCGAGCCATA
1 AAACGGGAAGCTCTGTCGAGCCATA
* *
46347384 AAATGGGAAGCTCATGT-GAGCCATG
1 AAACGGGAAGCTC-TGTCGAGCCATA
*
46347409 TAACGGGAAGCTC
1 AAACGGGAAGCTC
46347422 CATAAAGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.19
Consensus pattern (25 bp):
AAACGGGAAGCTCTGTCGAGCCATA
Found at i:46347454 original size:24 final size:23
Alignment explanation
Indices: 46347389--46347465 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 23
46347379 CCATAAAATG
* *
46347389 GGAAGCTCATGTGAGCCATGTAAC
1 GGAAACTCATATGAGCCAT-TAAC
* *
46347413 GGGAAGCTCCATA-AAGCCATTAAC
1 -GGAAACT-CATATGAGCCATTAAC
*
46347437 GAGAAACTCATATGAGCCAATAAC
1 G-GAAACTCATATGAGCCATTAAC
46347461 GGAAA
1 GGAAA
46347466 GGTTCAAGCG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
23 9 0.20
24 19 0.43
25 13 0.30
26 3 0.07
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (23 bp):
GGAAACTCATATGAGCCATTAAC
Found at i:46347553 original size:27 final size:27
Alignment explanation
Indices: 46347496--46347551 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
46347486 GAGAAGCTCC
* *
46347496 AAAGAGCTATTAATTGGGAAGCTTATG
1 AAAGAGCTATTAATCGGGAAGCTCATG
46347523 AAAGAGCCT-TTAATCGGGAAGCTCA-G
1 AAAGAG-CTATTAATCGGGAAGCTCATG
46347549 AAA
1 AAA
46347552 AGCCATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 20 0.77
28 2 0.08
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (27 bp):
AAAGAGCTATTAATCGGGAAGCTCATG
Found at i:46349673 original size:41 final size:39
Alignment explanation
Indices: 46349574--46349680 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 39
46349564 CATTGAATGT
**
46349574 AAGGGGTTGCTAAGTGCAGATTCTCAGAATCACTGATCAA
1 AAGGGGTTGCTAAGTGCAGATTC-CCCAATCACTGATCAA
46349614 AAGGGGTTGCTAAGTGCAGATTCCCCAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCAATCACTGATC-AA
46349654 AAGGGGGTTG-TCAAGTGCAGATTCCCC
1 AA-GGGGTTGCT-AAGTGCAGATTCCCC
46349681 GAGGGGTTAC
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
39 12 0.19
40 28 0.45
41 22 0.35
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (39 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCAATCACTGATCAA
Found at i:46349774 original size:43 final size:42
Alignment explanation
Indices: 46349685--46349830 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 42
46349675 TTCCCCGAGG
* * * * *
46349685 GGTTACTAAGTGCTGATTCCCTGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
* * *
46349727 GGTTGCTAAGTGCTAATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT-AAAGGT
* *
46349770 GGTTGCTATGTGCTGATTCCCCGTATCATTGAATAT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
46349811 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
46349831 ACCAAGTAAC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 19 0.22
42 31 0.35
43 29 0.33
44 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
Found at i:46358689 original size:22 final size:23
Alignment explanation
Indices: 46358636--46358689 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
46358626 TTAAATATGT
* *
46358636 AAAAAAGTAAAGAAATAACAAAT
1 AAAAAAATAAAGAAATAACAAAG
** *
46358659 AAATGAATAAATAAAT-ACAAAG
1 AAAAAAATAAAGAAATAACAAAG
46358681 AAAAAAATA
1 AAAAAAATA
46358690 GAACAATATA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAAAAATAAAGAAATAACAAAG
Found at i:46363968 original size:21 final size:20
Alignment explanation
Indices: 46363942--46363985 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
46363932 ACATCAACGC
46363942 ATGCTAACTAACTGCTAACTG
1 ATGCTAACTAACTGC-AACTG
*
46363963 ATGCTAACTATCTGCAACTG
1 ATGCTAACTAACTGCAACTG
46363983 ATG
1 ATG
46363986 AATAACCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGCTAACTAACTGCAACTG
Found at i:46363991 original size:21 final size:21
Alignment explanation
Indices: 46363946--46363991 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
46363936 CAACGCATGC
*
46363946 TAACTAACTGCTAACTGATGC
1 TAACTAACTGCTAACTGATGA
*
46363967 TAACTATCTGC-AACTGATGAA
1 TAACTAACTGCTAACTGATG-A
46363988 TAAC
1 TAAC
46363992 CGTTTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (21 bp):
TAACTAACTGCTAACTGATGA
Found at i:46389949 original size:21 final size:21
Alignment explanation
Indices: 46389925--46389964 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46389915 TTAGCACACT
46389925 CAGATACATCCACAACAAAGC
1 CAGATACATCCACAACAAAGC
* *
46389946 CAGATGCATCCACACCAAA
1 CAGATACATCCACAACAAA
46389965 ATCAAACGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.35, G:0.10, T:0.10
Consensus pattern (21 bp):
CAGATACATCCACAACAAAGC
Found at i:46391561 original size:17 final size:17
Alignment explanation
Indices: 46391539--46391573 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46391529 GCAAACAATC
46391539 GATTGAGCAATAAAGAA
1 GATTGAGCAATAAAGAA
46391556 GATTGAGCAATAAAGAA
1 GATTGAGCAATAAAGAA
46391573 G
1 G
46391574 GTTAAACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.26, T:0.17
Consensus pattern (17 bp):
GATTGAGCAATAAAGAA
Found at i:46398609 original size:7 final size:7
Alignment explanation
Indices: 46398599--46398677 Score: 56
Period size: 7 Copynumber: 11.3 Consensus size: 7
46398589 TGAGAGCTAA
*
46398599 GAGAGTT
1 GAGAGAT
46398606 GAGAGA-
1 GAGAGAT
46398612 GAG-GAT
1 GAGAGAT
46398618 GAGAGAT
1 GAGAGAT
46398625 GAGAGAT
1 GAGAGAT
*
46398632 GAGAGGGAA
1 GAGA--GAT
*
46398641 GAGTGAT
1 GAGAGAT
46398648 GATG-GAT
1 GA-GAGAT
*
46398655 GAGGGAT
1 GAGAGAT
*
46398662 GAGGGAT
1 GAGAGAT
*
46398669 GAGGGAT
1 GAGAGAT
46398676 GA
1 GA
46398678 TTGAAAAAGT
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
5 2 0.03
6 7 0.11
7 47 0.76
8 1 0.02
9 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.49, T:0.15
Consensus pattern (7 bp):
GAGAGAT
Found at i:46412471 original size:102 final size:102
Alignment explanation
Indices: 46412297--46412641 Score: 532
Period size: 102 Copynumber: 3.4 Consensus size: 102
46412287 CCAGTGATTT
*
46412297 GGGGAATCAGCACTTAGCAA-CCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCCTTT-ACATTCAAA-ATACGGTGGAATCAGCACTTAGCAAC
* *
46412361 CACCAATGATTCGGGGAATCAACACATAGCAACCCCTTG
64 CACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
* *
46412400 GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
*
46412465 CCAATGAATT-GGGGAATCAGCACTTAGCAACCCCTTA
66 CCAATG-ATTCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
46412502 GGAGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
46412567 CCAATGAGTCGGGCAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
* *
46412604 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAA
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAA
46412642 ATACTTTTGC
Statistics
Matches: 220, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
101 2 0.01
102 180 0.82
103 31 0.14
104 7 0.03
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:46412611 original size:27 final size:30
Alignment explanation
Indices: 46412546--46412627 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 30
46412536 AAGATACGGT
46412546 GGAATCAGCACTTAGCAACCACCAATGAGTCG
1 GGAATCAGCACTTAGCAACC-CCAATGAG-CG
*
46412578 GGCAATCAGCACTTAGCAACCCC-TTG-G-G
1 GG-AATCAGCACTTAGCAACCCCAATGAGCG
46412606 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
46412628 CTTCACATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
27 20 0.42
28 3 0.06
30 1 0.02
31 2 0.04
32 4 0.08
33 18 0.38
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (30 bp):
GGAATCAGCACTTAGCAACCCCAATGAGCG
Found at i:46416972 original size:16 final size:17
Alignment explanation
Indices: 46416945--46416979 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
46416935 AGAGAGCTGA
46416945 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
46416962 GAGAG-GGATGAGTGAT
1 GAGAGAGGATGAGAGAT
46416978 GA
1 GA
46416980 TGGATGAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.49, T:0.14
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:46417570 original size:32 final size:29
Alignment explanation
Indices: 46417529--46417587 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
46417519 TAAAAAATAA
*
46417529 TATGCTTAAATTAATATAAAATAAGACATTT
1 TATGCTTAAA--AATATAAAATAAAACATTT
*
46417560 TATGCATTAAAAATATATAATAAAACAT
1 TATGC-TTAAAAATATAAAATAAAACAT
46417588 AAAATCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.60
31 5 0.20
32 5 0.20
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.36
Consensus pattern (29 bp):
TATGCTTAAAAATATAAAATAAAACATTT
Found at i:46420684 original size:78 final size:78
Alignment explanation
Indices: 46420596--46420751 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
46420586 TAAATATTTA
46420596 ATAATTATTATGTTTAATTACTATAATTATAAAAAATTTGAAATGACAAATAACTAGAAAAATAA
1 ATAATTATTATGTTTAATTACTATAATTATAAAAAATTTGAAATGACAAATAACTAGAAAAATAA
46420661 TGTAAAATTCAAT
66 TGTAAAATTCAAT
46420674 ATAATTATTATGTTTAATTACTATAATTATAAAAAATTTGAAATGACAAATAACTAGAAAAATAA
1 ATAATTATTATGTTTAATTACTATAATTATAAAAAATTTGAAATGACAAATAACTAGAAAAATAA
46420739 TGTAAAATTCAAT
66 TGTAAAATTCAAT
46420752 GGAAGTGAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (78 bp):
ATAATTATTATGTTTAATTACTATAATTATAAAAAATTTGAAATGACAAATAACTAGAAAAATAA
TGTAAAATTCAAT
Found at i:46421269 original size:17 final size:17
Alignment explanation
Indices: 46421240--46421272 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46421230 ATAAATATAA
46421240 AAAATATTTATTTTTAT
1 AAAATATTTATTTTTAT
46421257 AAAAT-TTTAATTTTTA
1 AAAATATTT-ATTTTTA
46421273 AATATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAAATATTTATTTTTAT
Found at i:46434433 original size:68 final size:67
Alignment explanation
Indices: 46434358--46434552 Score: 309
Period size: 68 Copynumber: 2.9 Consensus size: 67
46434348 TGTGAGTTGC
*
46434358 TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTATCTATGTT
1 TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTATCTATATT
46434423 TGT
66 T-T
* * *
46434426 TTTATCTATTTCTTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTAATATTATGTATATT
1 TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTATCTATATT
46434491 TT
66 TT
* *
46434493 TTTATCTATTTATTTATTCGTTATTCTTTTACTTTTTAAATATGTAAAATTTGATATTAT
1 TTTATCTATTTATTTATTTGTTATTCTTTTAC-TTTTAAATAT-TTAAATTTGATATTAT
46434553 TTAGAGCTCT
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
67 31 0.26
68 72 0.62
69 14 0.12
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.63
Consensus pattern (67 bp):
TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTATCTATATT
TT
Found at i:46436804 original size:44 final size:44
Alignment explanation
Indices: 46436745--46436842 Score: 178
Period size: 44 Copynumber: 2.2 Consensus size: 44
46436735 TATCACTTGC
*
46436745 CACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTAT
1 CACTTGTCACCGATCAGATAAGTGTAACTAAAGCTACCACTTAT
*
46436789 CACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCACCGATCAGATAAGTGTAACTAAAGCTACCACTTAT
46436833 CACTTGTCAC
1 CACTTGTCAC
46436843 TTGTCACTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (44 bp):
CACTTGTCACCGATCAGATAAGTGTAACTAAAGCTACCACTTAT
Found at i:46436879 original size:47 final size:47
Alignment explanation
Indices: 46436810--46436900 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 47
46436800 GATCAGATAA
* *
46436810 GTGTAGCTAAAGCTACCACTTATCACTTGT-CACTTGTCACTGATTAG
1 GTGTAGATAAAGCTACCACTTATCACTT-TCCACGTGTCACTGATTAG
*
46436857 GTGTAGATAAAGGTACCACTTATCACTTTCCACGTGTCACTGAT
1 GTGTAGATAAAGCTACCACTTATCACTTTCCACGTGTCACTGAT
46436901 CAGATAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (47 bp):
GTGTAGATAAAGCTACCACTTATCACTTTCCACGTGTCACTGATTAG
Found at i:46441009 original size:68 final size:68
Alignment explanation
Indices: 46440911--46441179 Score: 380
Period size: 68 Copynumber: 3.8 Consensus size: 68
46440901 TTGTTTTATC
* *
46440911 TATCTATTTATTTATTTGTTATCCTTTTACTTTTAAATATTTAAATTTGATATTATCTATATTTG
1 TATCCATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTATCTATATTTG
46440976 TTT
66 TTT
*
46440979 TATCCATTTATTTATTTGTTATTATTTTACTTTTAAATATTTAAATTTGATATTATCTATATTT-
1 TATCCATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTATCTATATTTG
46441043 TTCT
66 TT-T
46441047 TATCTATCTATTTATTTATTTGTTATTC-TTTACTTTTAAATATTTAAATTTGATATTATCTATA
1 TATC---C-ATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTATCTATA
46441111 TTTGTTT
62 TTTGTTT
* *
46441118 TATCTATTTATTTATTTATTCGTTATTCTTTTACTTTTTAAATATTTAAAATTTGATGTTAT
1 TATCCATTTATTTA--T-TT-GTTATTCTTTTAC-TTTTAAATATTT-AAATTTGATATTAT
46441180 TTGTATTTCC
Statistics
Matches: 182, Mismatches: 6, Indels: 20
0.88 0.03 0.10
Matches are distributed among these distances:
67 11 0.06
68 66 0.36
69 1 0.01
70 2 0.01
71 52 0.29
72 25 0.14
73 12 0.07
74 13 0.07
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (68 bp):
TATCCATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTATCTATATTTG
TTT
Found at i:46441106 original size:139 final size:145
Alignment explanation
Indices: 46440906--46441179 Score: 461
Period size: 139 Copynumber: 1.9 Consensus size: 145
46440896 TTGAGTTGTT
46440906 TTATCTATCTATTTATTTATTTGTTATCCTTTTACTTTTAAATATTTAAATTTGATATTATCTAT
1 TTATCTATCTATTTATTTATTTGTTATCCTTTTACTTTTAAATATTTAAATTTGATATTATCTAT
46440971 ATTTGTTTTATCCATTTATTTA-T-TT-GTTATTATTTTAC-TTTTAAATATTT-AAATTTGATA
66 ATTTGTTTTATCCATTTATTTATTATTCGTTATTATTTTACTTTTTAAATATTTAAAATTTGATA
46441031 TTATCTATATTTTTC
131 TTATCTATATTTTTC
*
46441046 TTATCTATCTATTTATTTATTTGTTATTC-TTTACTTTTAAATATTTAAATTTGATATTATCTAT
1 TTATCTATCTATTTATTTATTTGTTATCCTTTTACTTTTAAATATTTAAATTTGATATTATCTAT
* *
46441110 ATTTGTTTTATCTATTTATTTATTTATTCGTTATTCTTTTACTTTTTAAATATTTAAAATTTGAT
66 ATTTGTTTTATCCATTTATTTA-TTATTCGTTATTATTTTACTTTTTAAATATTTAAAATTTGAT
*
46441175 GTTAT
130 ATTAT
46441180 TTGTATTTCC
Statistics
Matches: 124, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
139 56 0.45
140 28 0.23
141 1 0.01
142 2 0.02
143 12 0.10
144 12 0.10
145 13 0.10
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (145 bp):
TTATCTATCTATTTATTTATTTGTTATCCTTTTACTTTTAAATATTTAAATTTGATATTATCTAT
ATTTGTTTTATCCATTTATTTATTATTCGTTATTATTTTACTTTTTAAATATTTAAAATTTGATA
TTATCTATATTTTTC
Found at i:46441110 original size:71 final size:72
Alignment explanation
Indices: 46440901--46441179 Score: 444
Period size: 71 Copynumber: 3.9 Consensus size: 72
46440891 CTTTTTTGAG
*
46440901 TTGTTTTATCTATCTATTTATTTATTTGTTATCCTTTTACTTTTAAATATTTAAATTTGATATTA
1 TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTA
46440966 TCTATAT
66 TCTATAT
*
46440973 TTGTTTTATC---C-ATTTATTTATTTGTTATTATTTTACTTTTAAATATTTAAATTTGATATTA
1 TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTA
46441034 TCTATAT
66 TCTATAT
46441041 TT-TTCTTATCTATCTATTTATTTATTTGTTATTC-TTTACTTTTAAATATTTAAATTTGATATT
1 TTGTT-TTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATT
46441104 ATCTATAT
65 ATCTATAT
* * *
46441112 TTGTTTTATCTATTTATTTATTTATTCGTTATTCTTTTACTTTTTAAATATTTAAAATTTGATGT
1 TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTAC-TTTTAAATATTT-AAATTTGATAT
46441177 TAT
64 TAT
46441180 TTGTATTTCC
Statistics
Matches: 192, Mismatches: 6, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
67 2 0.01
68 62 0.32
69 1 0.01
71 67 0.35
72 35 0.18
73 12 0.06
74 13 0.07
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (72 bp):
TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTAAATATTTAAATTTGATATTA
TCTATAT
Found at i:46441244 original size:139 final size:139
Alignment explanation
Indices: 46440907--46441219 Score: 383
Period size: 139 Copynumber: 2.3 Consensus size: 139
46440897 TGAGTTGTTT
** * *
46440907 TATCTATCTATTTATTTATTTGTTATCCTTTTACTTTTAAATATTTAAATTTGATATTATCTATA
1 TATCTATCTATTTATGCATTTGTTATTC-TTTACTTTTAAATACTTAAATTTGATATTATCTATA
46440972 TTTGTTTTATCCATTTATTTATTTGTTATTATTTTACTTTTAAATATTTAAATTTGATATTATCT
65 TTTGTTTTATCCATTTATTTATTTGTTATTATTTTACTTTTAAATATTTAAATTTGATATTATCT
* *
46441037 ATATTTTTCT
130 ATATATTTCC
** *
46441047 TATCTATCTATTTATTTATTTGTTATTCTTTACTTTTAAATATTTAAATTTGATATTATCTATAT
1 TATCTATCTATTTATGCATTTGTTATTCTTTACTTTTAAATACTTAAATTTGATATTATCTATAT
* * *
46441112 TTGTTTTATCTATTTATTTATTTATTCGTTATTCTTTTACTTTTTAAATATTTAAAATTTGATGT
66 TTGTTTTATCCATTTATTTA--T-TT-GTTATTATTTTAC-TTTTAAATATTT-AAATTTGATAT
*
46441177 TAT-T-TGTATTTCC
125 TATCTATATATTTCC
46441190 T-T-T-TC-A-TTATGCATTTGTT-TTCTTT-CTTTT
1 TATCTATCTATTTATGCATTTGTTATTCTTTACTTTT
46441220 TTGTCCTTAC
Statistics
Matches: 158, Mismatches: 9, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
136 5 0.03
137 6 0.04
138 11 0.07
139 57 0.36
140 29 0.18
141 2 0.01
142 3 0.02
143 19 0.12
144 13 0.08
145 13 0.08
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (139 bp):
TATCTATCTATTTATGCATTTGTTATTCTTTACTTTTAAATACTTAAATTTGATATTATCTATAT
TTGTTTTATCCATTTATTTATTTGTTATTATTTTACTTTTAAATATTTAAATTTGATATTATCTA
TATATTTCC
Found at i:46443401 original size:108 final size:108
Alignment explanation
Indices: 46443280--46443494 Score: 421
Period size: 108 Copynumber: 2.0 Consensus size: 108
46443270 AAATTTGATT
46443280 TTTAATATTTATATATTTTGTTAAATTAATTTTAATTATAGTTTTGAATCTTTTTGTCATTAATT
1 TTTAATATTTATATATTTTGTTAAATTAATTTTAATTATAGTTTTGAATCTTTTTGTCATTAATT
46443345 TTTTTAAAATTATTTTTAACATATTTGATAAAAGTACTGTTAA
66 TTTTTAAAATTATTTTTAACATATTTGATAAAAGTACTGTTAA
*
46443388 TTTAATATTTATATATTTTGTTAAATTAATTTTAATTGTAGTTTTGAATCTTTTTGTCATTAATT
1 TTTAATATTTATATATTTTGTTAAATTAATTTTAATTATAGTTTTGAATCTTTTTGTCATTAATT
46443453 TTTTTAAAATTATTTTTAACATATTTGATAAAAGTACTGTTA
66 TTTTTAAAATTATTTTTAACATATTTGATAAAAGTACTGTTA
46443495 GAAAAGAAGA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (108 bp):
TTTAATATTTATATATTTTGTTAAATTAATTTTAATTATAGTTTTGAATCTTTTTGTCATTAATT
TTTTTAAAATTATTTTTAACATATTTGATAAAAGTACTGTTAA
Found at i:46448176 original size:21 final size:21
Alignment explanation
Indices: 46448147--46448208 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
46448137 AGCAGTTACA
* *
46448147 GTTCCCATATAATTTCTATGG
1 GTTCACATATAATTTCTACGG
* *
46448168 GTTCACATATAACTTCTACGT
1 GTTCACATATAATTTCTACGG
*
46448189 GTTCACATTATAATTCCTAC
1 GTTCACA-TATAATTTCTAC
46448209 AGTACTCTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 24 0.71
22 10 0.29
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (21 bp):
GTTCACATATAATTTCTACGG
Found at i:46451347 original size:43 final size:43
Alignment explanation
Indices: 46451286--46451553 Score: 330
Period size: 43 Copynumber: 6.2 Consensus size: 43
46451276 CGCTATTGTC
*
46451286 AACGCCGATATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
* *
46451329 AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTGTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
*
46451372 AACACCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
* * *
46451415 AATGCCGCTATAGATCAGGACCTTTAGCGACGCATTTTT-CACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTACAAA
* * *
46451458 AACGCCGCTATA-ACTCAAGACCTTTAGCGGCGCTTTTTTCACA
1 AACGCCGCTATAGA-TCAGGACCTTTAGCGGCGCTTTTTACAAA
* * * *
46451501 AACGCCACTATA-ACTCAAGACATTTAGCGACGCTTTGATTAC--A
1 AACGCCGCTATAGA-TCAGGACCTTTAGCGGCGCTTT--TTACAAA
46451544 AACGCCGCTA
1 AACGCCGCTA
46451554 AAAGTACCAT
Statistics
Matches: 202, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
42 6 0.03
43 188 0.93
44 5 0.02
45 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
Found at i:46451741 original size:14 final size:14
Alignment explanation
Indices: 46451718--46451747 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46451708 AAATCATGTT
46451718 AAATTACAAGTTCA
1 AAATTACAAGTTCA
*
46451732 AAATTTCAAGTTCA
1 AAATTACAAGTTCA
46451746 AA
1 AA
46451748 TAGTGCAACT
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:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (14 bp):
AAATTACAAGTTCA
Found at i:46456334 original size:21 final size:22
Alignment explanation
Indices: 46456311--46456361 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
46456301 ACCCTTAAAA
* *
46456311 CCCTAAATCTCTAACTCTTAAC
1 CCCTAAACCCCTAACTCTTAAC
46456333 CCCT-AACCCCTAACTCTTAAC
1 CCCTAAACCCCTAACTCTTAAC
46456354 CCCTAAAC
1 CCCTAAAC
46456362 ATTAAATCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.43, G:0.00, T:0.25
Consensus pattern (22 bp):
CCCTAAACCCCTAACTCTTAAC
Found at i:46456413 original size:15 final size:15
Alignment explanation
Indices: 46456378--46456415 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
46456368 TCCCAACACT
46456378 TAAAT-CATAATCCA
1 TAAATCCATAATCCA
*
46456392 T-AATCCATAATCCC
1 TAAATCCATAATCCA
46456406 TAAATCCATA
1 TAAATCCATA
46456416 TATAATCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:46456612 original size:29 final size:29
Alignment explanation
Indices: 46456580--46456664 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 29
46456570 ATCCATGTTT
46456580 CTTAAACCCTAA-ATTACAAACCCCT-AAAC
1 CTTAAACCCTAACA-T-CAAACCCCTAAAAC
*
46456609 CTTAAACCCCAACCATCAAACCCCTAAAAC
1 CTTAAACCCTAA-CATCAAACCCCTAAAAC
*
46456639 C-TAAATCCCTAACTAT-TAACCCCTAA
1 CTTAAA-CCCTAAC-ATCAAACCCCTAA
46456665 CATCTAACAC
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
29 34 0.71
30 13 0.27
31 1 0.02
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (29 bp):
CTTAAACCCTAACATCAAACCCCTAAAAC
Found at i:46456615 original size:15 final size:15
Alignment explanation
Indices: 46456597--46456650 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
46456587 CCTAAATTAC
46456597 AAACCCCTAAACCTT
1 AAACCCCTAAACCTT
*
46456612 AAACCCC--AACCATC
1 AAACCCCTAAACC-TT
46456626 AAACCCCTAAAACC-T
1 AAACCCCT-AAACCTT
*
46456641 AAATCCCTAA
1 AAACCCCTAA
46456651 CTATTAACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.12
14 10 0.31
15 14 0.44
17 4 0.12
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCCCTAAACCTT
Found at i:46457162 original size:41 final size:40
Alignment explanation
Indices: 46457066--46457298 Score: 252
Period size: 41 Copynumber: 5.7 Consensus size: 40
46457056 AATACATTTT
* * *
46457066 GCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CAAAGTAATA
1 GCGGCGCTTT-CCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
46457106 GCGGCACTTCTACAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTT-TCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * **
46457147 GCGGCGTTTTCACAAAAGCGCCGCTAAAGAATAGAGCATTA
1 GCGGCGCTTTC-CAAAAACGCCGCTAAAGACCAGAGCATTA
* *
46457188 GCGGCGCTGTCCAAAAAATGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTCC-AAAAACGCCGCTAAAGACCAGAGCATTA
*
46457229 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCTTTA
1 GCGGCGC-TTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * ** *
46457270 GTGGCACTTTTTGAAAAACGCCACTAAAG
1 GCGGCGC-TTTCCAAAAACGCCGCTAAAG
46457299 CCCCAAAAAC
Statistics
Matches: 163, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
40 28 0.17
41 131 0.80
42 4 0.02
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (40 bp):
GCGGCGCTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:46457641 original size:69 final size:70
Alignment explanation
Indices: 46457530--46457672 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 70
46457520 ACAATTTTAC
* * * * * *
46457530 TTGTTACCATCTATTAATTTATATTTTTAAGTTGACTTTTATTTTTATAGGTTTCGATAA-TAAC
1 TTGTTACCATCTATTAATTCATATTTTTAAGTGGACTATTATTTTTATAAGTCTCGAAAACTAAC
46457594 AATGA
66 AATGA
* * *
46457599 TTGTTACGATCTATTAATTCATATTTTTAAGTAGGTC-ATTATTTTTGTAAGTCTCGAAAACCTA
1 TTGTTACCATCTATTAATTCATATTTTTAAGT-GGACTATTATTTTTATAAGTCTCGAAAA-CTA
46457663 ACAATGA
64 ACAATGA
46457670 TTG
1 TTG
46457673 ATGAAAAGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
69 48 0.77
70 2 0.03
71 12 0.19
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (70 bp):
TTGTTACCATCTATTAATTCATATTTTTAAGTGGACTATTATTTTTATAAGTCTCGAAAACTAAC
AATGA
Found at i:46458113 original size:40 final size:39
Alignment explanation
Indices: 46458031--46458124 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
46458021 TTTGGACGAC
*
46458031 AAACGCTGCTAAAAATCGAGCATTAGCGGCGCACAGCATA
1 AAACGCCGCTAAAAATCGAGCATTAGCGGCGCACAG-ATA
* * *
46458071 AAACGCCGCTAAAGATCTAGCATTAGCGGCGCTATCTG-TA
1 AAACGCCGCTAAAAATCGAGCATTAGCGGCGC-A-CAGATA
46458111 AAACGCCGC-AAAAA
1 AAACGCCGCTAAAAA
46458125 GTCAGACCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.09
40 40 0.85
41 1 0.02
42 2 0.04
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (39 bp):
AAACGCCGCTAAAAATCGAGCATTAGCGGCGCACAGATA
Found at i:46458523 original size:113 final size:114
Alignment explanation
Indices: 46458308--46459272 Score: 1179
Period size: 114 Copynumber: 8.4 Consensus size: 114
46458298 TATTTGCAAG
*
46458308 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTAGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
*
46458373 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTGTAAAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * *
46458422 CGCCGCAAAATATCTTGACCAAATCGCAGTGTTTGGTCTTGAGGTATATTA-AATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * **
46458486 TATGCAAAAATGCCACTAAAGCACAGTATTAGTGGCGCATTATAAAAGG
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
** *
46458535 CGCCGCAAAATATCTTAACCAAAATACAGCGTTTGGTCTTGAGGTATATTAAAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * *
46458600 TATGGAAAAACGCCGCTAAAGCACAGTATTAGCAGCGCATTATACAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* *
46458649 CACCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* *
46458714 TATGCAAAAATGCCGCTAAAGCACAGTATTTGCGGCGC-----------
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * **
46458752 C-CCGCAAAATATCTTAACCAAAACGCAGCGTTTGGACTTGAGGTATAGTAGAATTAGTGGTACT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * *
46458816 TATGCAAAAAACAG-CGCTTATGGAAAAACACCGCTA-AAGCACAGTATTAACGGCGCATTATAA
66 TATGC-AAAAAC-GCCGC---T---AAAGCACAG-TATTAG--C-G----G----CGCATTATAA
*
46458879 AAAG
111 AAAA
* * *
46458883 CTCCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCACT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * *
46458948 TATGGAAAAACGCCACTGAAGCACAGTATTAGCGGCGCATTATAAAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * *
46458997 CGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* *
46459062 TATGAAAAAACGCCGCTAAAGCATAGTATTAGCGGCGCATTATAAAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* *
46459111 CGCAGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * * * * *
46459176 TATG-AAGAAACGCCGCAAAATCACAGTATTAGCGACGCTTTGTGAAAAG
66 TATGCAA-AAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
*
46459225 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGTTATA
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
46459273 GAGCCAATAG
Statistics
Matches: 734, Mismatches: 81, Indels: 72
0.83 0.09 0.08
Matches are distributed among these distances:
102 63 0.09
103 9 0.01
104 1 0.00
106 1 0.00
109 8 0.01
110 2 0.00
111 1 0.00
112 1 0.00
113 104 0.14
114 455 0.62
120 3 0.00
122 1 0.00
123 1 0.00
124 2 0.00
125 8 0.01
128 1 0.00
130 1 0.00
131 9 0.01
132 63 0.09
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (114 bp):
CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
Found at i:46458954 original size:348 final size:350
Alignment explanation
Indices: 46458481--46459171 Score: 1008
Period size: 348 Copynumber: 2.0 Consensus size: 350
46458471 TAAATTAGTG
** ** *
46458481 GCGCTTATGCAAAAATGCCACTAAAGCACAGTATTAGTGGCGCATTATAAAAGGCGCCGCAAAAT
1 GCGCTTATGCAAAAACACCACTAAAGCACAGTATTAACGGCGCATTATAAAAAGCGCCGCAAAAT
* *
46458546 ATCTTAACCAAAATACAGCGTTTGGTCTTGAGGTATATTAAAATTAGTGGCGCTTATGGAAAAAC
66 ATCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAAAATTAGTGGCACTTATGGAAAAAC
* * *
46458611 GCCGCTAAAGCACAGTATTAGCAGCGCATTATACAAAACACCGTAAAATATCTTAACCAAAACGC
131 GCCACTAAAGCACAGTATTAGCAGCGCATTATAAAAAACACCGCAAAATATCTTAACCAAAACGC
* * *
46458676 AGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAATGCCGCTAAAGCACAGT
196 AGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGCACAGT
* *
46458741 ATTTGCGGCGC-C-CCGCAAAATATCTTAACCAAAACGCAGCGTTTGGACTTGAGGTATAGTAGA
261 ATTAGCGGCGCACGCAGCAAAATATCTTAACCAAAACGCAGCGTTTGGACTTGAGGTATAGTAGA
46458804 ATTAGTGGTACTTATGCAAAAAACA
326 ATTAGTGGTACTTATGCAAAAAACA
* * * *
46458829 GCGCTTATGGAAAAACACCGCTAAAGCACAGTATTAACGGCGCATTATAAAAAGCTCCGTAAAAT
1 GCGCTTATGCAAAAACACCACTAAAGCACAGTATTAACGGCGCATTATAAAAAGCGCCGCAAAAT
* *
46458894 ATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGGAAAAAC
66 ATCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAAAATTAGTGGCACTTATGGAAAAAC
* * * *
46458959 GCCACTGAAGCACAGTATTAGCGGCGCATTATAAAAAACGCCGCAAAATATCTTAACCAAAATGC
131 GCCACTAAAGCACAGTATTAGCAGCGCATTATAAAAAACACCGCAAAATATCTTAACCAAAACGC
* *
46459024 AGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGTTTATGAAAAAACGCCGCTAAAGCATAGT
196 AGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGCACAGT
* *
46459089 ATTAGCGGCGCATTATAAAAAACGCAGCAAAATATCTTAACCAAAACGTAGCGTTTGGTCTTGAG
261 ATTAGCGGCGC----------ACGCAGCAAAATATCTTAACCAAAACGCAGCGTTTGGACTTGAG
*
46459154 GTATATTAGAATTAGTGG
316 GTATAGTAGAATTAGTGG
46459172 CGCTTATGAA
Statistics
Matches: 301, Mismatches: 30, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
348 245 0.81
359 1 0.00
360 55 0.18
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (350 bp):
GCGCTTATGCAAAAACACCACTAAAGCACAGTATTAACGGCGCATTATAAAAAGCGCCGCAAAAT
ATCTTAACCAAAACACAGCGTTTGGTCTTGAGGTATATTAAAATTAGTGGCACTTATGGAAAAAC
GCCACTAAAGCACAGTATTAGCAGCGCATTATAAAAAACACCGCAAAATATCTTAACCAAAACGC
AGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGCACAGT
ATTAGCGGCGCACGCAGCAAAATATCTTAACCAAAACGCAGCGTTTGGACTTGAGGTATAGTAGA
ATTAGTGGTACTTATGCAAAAAACA
Found at i:46461838 original size:16 final size:16
Alignment explanation
Indices: 46461817--46461874 Score: 80
Period size: 16 Copynumber: 3.4 Consensus size: 16
46461807 ATGTTAAGCT
46461817 ATGTTAAACATTTTGA
1 ATGTTAAACATTTTGA
*
46461833 ATGTTAAGCATAGTTTTGA
1 ATGTTAA--ACA-TTTTGA
46461852 ATGTTAAACATTTTGA
1 ATGTTAAACATTTTGA
46461868 ATGTTAA
1 ATGTTAA
46461875 GCATATGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 20 0.54
17 2 0.05
18 2 0.05
19 13 0.35
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (16 bp):
ATGTTAAACATTTTGA
Found at i:46461851 original size:19 final size:18
Alignment explanation
Indices: 46461826--46461880 Score: 78
Period size: 16 Copynumber: 3.1 Consensus size: 18
46461816 TATGTTAAAC
46461826 ATTTTGAATGTTAAGCAT
1 ATTTTGAATGTTAAGCAT
*
46461844 AGTTTTGAATGTTAA--AC
1 A-TTTTGAATGTTAAGCAT
46461861 ATTTTGAATGTTAAGCAT
1 ATTTTGAATGTTAAGCAT
46461879 AT
1 AT
46461881 GAGTTTCTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 13 0.41
17 2 0.06
18 4 0.12
19 13 0.41
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (18 bp):
ATTTTGAATGTTAAGCAT
Found at i:46462009 original size:29 final size:30
Alignment explanation
Indices: 46461937--46462010 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 30
46461927 ATAATCTTTG
*
46461937 AAAACTGAACAAAAAAATTATGCACAGTTA
1 AAAACTGAACAAAAAAAATATGCACAGTTA
* * ***
46461967 AACA-TAAACTAAAAAAAATA-GTTTAGTTA
1 AAAACTGAAC-AAAAAAAATATGCACAGTTA
46461996 AAAACTGAACAAAAA
1 AAAACTGAACAAAAA
46462011 TCCAGCAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.20
Consensus pattern (30 bp):
AAAACTGAACAAAAAAAATATGCACAGTTA
Found at i:46462291 original size:21 final size:21
Alignment explanation
Indices: 46462267--46462339 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
46462257 GTTTTGGGAC
*
46462267 TATTTATTTATATTTTCAGCG
1 TATTTATTTATATTTTCAGCA
* *
46462288 TATTTAATATTAT-TTATATTA-TA
1 TATTT-AT-TTATATT-T-TCAGCA
46462311 TTATTTATTTATATTTTCAGCA
1 -TATTTATTTATATTTTCAGCA
46462333 TATTTAT
1 TATTTAT
46462340 ATAAATATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
21 14 0.35
22 10 0.25
23 9 0.22
24 7 0.17
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.60
Consensus pattern (21 bp):
TATTTATTTATATTTTCAGCA
Found at i:46462313 original size:14 final size:13
Alignment explanation
Indices: 46462288--46462325 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
46462278 ATTTTCAGCG
46462288 TATTTAATATTATT
1 TATTT-ATATTATT
46462302 TATATTATATTATT
1 TAT-TTATATTATT
46462316 TATTTATATT
1 TATTTATATT
46462326 TTCAGCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 14 0.61
15 2 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTATATTATT
Found at i:46463045 original size:9 final size:9
Alignment explanation
Indices: 46463031--46463588 Score: 135
Period size: 9 Copynumber: 64.4 Consensus size: 9
46463021 ACTATCACAT
46463031 CTTACATAA
1 CTTACATAA
*
46463040 CTTACATAG
1 CTTACATAA
*
46463049 CTTA-ATTA
1 CTTACATAA
*
46463057 --TACTTAA
1 CTTACATAA
46463064 CTTACATAA
1 CTTACATAA
*
46463073 CTTACATTA
1 CTTACATAA
*
46463082 --TACACAA
1 CTTACATAA
46463089 CTTACATAA
1 CTTACATAA
*
46463098 CTTTCATTATACA
1 C-TT-A-CATA-A
*
46463111 CATACATAA
1 CTTACATAA
*
46463120 ATTACATATA
1 CTTACATA-A
* *
46463130 -ATACACAA
1 CTTACATAA
*
46463138 CATACATAA
1 CTTACATAA
46463147 CTTACATAA
1 CTTACATAA
*
46463156 --TA-TTGAA
1 CTTACAT-AA
46463163 CTTACATAA
1 CTTACATAA
* *
46463172 TTTTCATAA
1 CTTACATAA
46463181 --TACATAA
1 CTTACATAA
* *
46463188 CTTACTTAT
1 CTTACATAA
* *
46463197 TTTTCATAA
1 CTTACATAA
* *
46463206 --AAAATAA
1 CTTACATAA
46463213 CTTACATAA
1 CTTACATAA
46463222 CTTACATAA
1 CTTACATAA
* *
46463231 ATTTCATAA
1 CTTACATAA
*
46463240 CCTACATAA
1 CTTACATAA
*
46463249 CTTACACAA
1 CTTACATAA
*
46463258 --TACACAA
1 CTTACATAA
46463265 CTTACATAA
1 CTTACATAA
* *
46463274 TTTTCATAA
1 CTTACATAA
46463283 C--ACATAA
1 CTTACATAA
46463290 CTTACATAA
1 CTTACATAA
*
46463299 --TA-TTGAA
1 CTTACAT-AA
46463306 CTTACATAA
1 CTTACATAA
* * *
46463315 TTTTCGTAA
1 CTTACATAA
46463324 --TACATAA
1 CTTACATAA
*
46463331 CTTACGTAA
1 CTTACATAA
*
46463340 --TA-TTGAA
1 CTTACAT-AA
*
46463347 CTAACATAA
1 CTTACATAA
* *
46463356 TTTTCATAA
1 CTTACATAA
46463365 --TACATAA
1 CTTACATAA
* *
46463372 GTTACTTAA
1 CTTACATAA
* *
46463381 TTTTCATAA
1 CTTACATAA
46463390 -TATA-A-AA
1 CT-TACATAA
46463397 CTTACATAA
1 CTTACATAA
46463406 CTTATACAGTACA
1 C-T-TACA-TA-A
46463419 CTGCTTACATAA
1 ---CTTACATAA
* *
46463431 TTTTCATAA
1 CTTACATAA
46463440 --TACATAA
1 CTTACATAA
46463447 CTTACA-AA
1 CTTACATAA
*
46463455 ATTGATCATAA
1 CTT-A-CATAA
46463466 --TACA-ACA
1 CTTACATA-A
46463473 CTTACATAA
1 CTTACATAA
* *
46463482 --TCCACAA
1 CTTACATAA
46463489 CTTACATAA
1 CTTACATAA
*
46463498 -TATTCATAA
1 CT-TACATAA
*
46463507 --TACATAG
1 CTTACATAA
46463514 CTTACATAA
1 CTTACATAA
* *
46463523 TTTTCATAA
1 CTTACATAA
*
46463532 --TAAATAA
1 CTTACATAA
46463539 CTTAATACATAA
1 C-T--TACATAA
46463551 CTTACATAA
1 CTTACATAA
46463560 --TACATAA
1 CTTACATAA
46463567 CTTACATAA
1 CTTACATAA
*
46463576 CTTACATAG
1 CTTACATAA
46463585 CTTA
1 CTTA
46463589 ATTATACTTA
Statistics
Matches: 397, Mismatches: 85, Indels: 134
0.64 0.14 0.22
Matches are distributed among these distances:
6 6 0.02
7 88 0.22
8 13 0.03
9 243 0.61
10 13 0.03
11 9 0.02
12 14 0.04
13 5 0.01
14 4 0.01
15 1 0.00
16 1 0.00
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
CTTACATAA
Found at i:46463090 original size:25 final size:25
Alignment explanation
Indices: 46463033--46463298 Score: 209
Period size: 25 Copynumber: 10.6 Consensus size: 25
46463023 TATCACATCT
* *
46463033 TACATAACTTACATAGCTTA-ATTA
1 TACATAACTTACATAACTTACATAA
* *
46463057 TACTTAACTTACATAACTTACATTA
1 TACATAACTTACATAACTTACATAA
* * *
46463082 TACACAACTTACATAACTTTCATTA
1 TACATAACTTACATAACTTACATAA
* *
46463107 TAC---ACATACATAAATTACATATAA
1 TACATAACTTACATAACTTAC--ATAA
* *
46463131 TACACAACATACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
46463156 TA-TTGAACTTACATAATTTTCATAA
1 TACAT-AACTTACATAACTTACATAA
* ** *
46463181 TACATAACTTACTTATTTTTCATAA
1 TACATAACTTACATAACTTACATAA
* *
46463206 AAAATAACTTACATAACTTACATAAA
1 TACATAACTTACATAACTTACAT-AA
* * *
46463232 TTTCATAACCTACATAACTTACACAA
1 -TACATAACTTACATAACTTACATAA
* * *
46463258 TACACAACTTACATAATTTTCATAA
1 TACATAACTTACATAACTTACATAA
*
46463283 CACATAACTTACATAA
1 TACATAACTTACATAA
46463299 TATTGAACTT
Statistics
Matches: 195, Mismatches: 37, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
22 12 0.06
24 24 0.12
25 122 0.63
26 5 0.03
27 32 0.16
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.35
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:46463308 original size:41 final size:41
Alignment explanation
Indices: 46463220--46463381 Score: 198
Period size: 41 Copynumber: 3.9 Consensus size: 41
46463210 TAACTTACAT
* * ***
46463220 AACTTACATAAATTTCATAACCTACATAACTTACACAATACAC
1 AACTTACATAATTTTCATAA-C-ACATAACTTACATAATATTG
46463263 AACTTACATAATTTTCATAACACATAACTTACATAATATTG
1 AACTTACATAATTTTCATAACACATAACTTACATAATATTG
* * *
46463304 AACTTACATAATTTTCGTAATACATAACTTACGTAATATTG
1 AACTTACATAATTTTCATAACACATAACTTACATAATATTG
* * * *
46463345 AACTAACATAATTTTCATAATACATAAGTTACTTAAT
1 AACTTACATAATTTTCATAACACATAACTTACATAAT
46463382 TTTCATAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 87 0.81
42 1 0.01
43 19 0.18
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (41 bp):
AACTTACATAATTTTCATAACACATAACTTACATAATATTG
Found at i:46463327 original size:16 final size:16
Alignment explanation
Indices: 46463308--46463341 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46463298 ATATTGAACT
* *
46463308 TACATAATTTTCGTAA
1 TACATAACTTACGTAA
46463324 TACATAACTTACGTAA
1 TACATAACTTACGTAA
46463340 TA
1 TA
46463342 TTGAACTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (16 bp):
TACATAACTTACGTAA
Found at i:46463365 original size:25 final size:24
Alignment explanation
Indices: 46463337--46463392 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
46463327 ATAACTTACG
46463337 TAATATTGAACTAACATAATTTTCA
1 TAATATT-AACTAACATAATTTTCA
* * * *
46463362 TAATACATAAGTTACTTAATTTTCA
1 TAATA-TTAACTAACATAATTTTCA
46463387 TAATAT
1 TAATAT
46463393 AAAACTTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (24 bp):
TAATATTAACTAACATAATTTTCA
Found at i:46463401 original size:25 final size:25
Alignment explanation
Indices: 46463353--46463482 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 25
46463343 TGAACTAACA
* *
46463353 TAATTTTCATAATACATAAGTTACT
1 TAATTTTCATAATACAAAACTTACT
* *
46463378 TAATTTTCATAATATAAAACTTACA
1 TAATTTTCATAATACAAAACTTACT
* *** *
46463403 TAA-CTT-ATACAGTACACTGCTTACA
1 TAATTTTCATA-A-TACAAAACTTACT
* *
46463428 TAATTTTCATAATACATAACTTACA
1 TAATTTTCATAATACAAAACTTACT
* * * *
46463453 AAATTGATCATAATACAACACTTACA
1 TAATT-TTCATAATACAAAACTTACT
46463479 TAAT
1 TAAT
46463483 CCACAACTTA
Statistics
Matches: 82, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
23 3 0.04
24 3 0.04
25 50 0.61
26 23 0.28
27 3 0.04
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (25 bp):
TAATTTTCATAATACAAAACTTACT
Found at i:46463548 original size:28 final size:27
Alignment explanation
Indices: 46463491--46463570 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 27
46463481 ATCCACAACT
* *
46463491 TACATAATATTCATAATACATAGC-T-
1 TACATAATTTTCATAATACATAACTTA
*
46463516 TACATAATTTTCATAATAAATAACTTAA
1 TACATAATTTTCATAATACATAACTT-A
* *
46463544 TACATAACTTACATAATACATAACTTA
1 TACATAATTTTCATAATACATAACTTA
46463571 CATAACTTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.46
26 1 0.02
27 1 0.02
28 23 0.50
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (27 bp):
TACATAATTTTCATAATACATAACTTA
Found at i:46463567 original size:16 final size:16
Alignment explanation
Indices: 46463461--46463575 Score: 82
Period size: 16 Copynumber: 7.3 Consensus size: 16
46463451 CAAAATTGAT
46463461 CATAATACA-ACACTTA
1 CATAATACATA-ACTTA
* *
46463477 CATAATCCACAACTTA
1 CATAATACATAACTTA
46463493 CATAATATTCATAA--TA
1 CATAATA--CATAACTTA
* * *
46463509 CATAGCTTACATAATTTT
1 CATA--ATACATAACTTA
*
46463527 CATAATAAATAAC-T-
1 CATAATACATAACTTA
46463541 --TAATACATAACTTA
1 CATAATACATAACTTA
46463555 CATAATACATAACTTA
1 CATAATACATAACTTA
46463571 CATAA
1 CATAA
46463576 CTTACATAGC
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
12 10 0.13
13 1 0.01
15 1 0.01
16 55 0.70
17 1 0.01
18 11 0.14
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (16 bp):
CATAATACATAACTTA
Found at i:46463576 original size:25 final size:25
Alignment explanation
Indices: 46463472--46463583 Score: 118
Period size: 25 Copynumber: 4.4 Consensus size: 25
46463462 ATAATACAAC
* *
46463472 ACTTACATAATCCACAACTTACATA
1 ACTTACATAATACATAACTTACATA
* *
46463497 A-TATTCATAATACATAGCTTACATA
1 ACT-TACATAATACATAACTTACATA
* * *
46463522 ATTTTCATAATAAATAACTTAATACATA
1 ACTTACATAATACATAAC-T--TACATA
46463550 ACTTACATAATACATAACTTACATA
1 ACTTACATAATACATAACTTACATA
46463575 ACTTACATA
1 ACTTACATA
46463584 GCTTAATTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
24 1 0.01
25 48 0.66
26 2 0.03
27 1 0.01
28 21 0.29
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (25 bp):
ACTTACATAATACATAACTTACATA
Found at i:46468526 original size:21 final size:21
Alignment explanation
Indices: 46468476--46468528 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
46468466 CTACAACTTA
** *
46468476 AAGTAGAGGCGGCAGCGAGGG
1 AAGTAGAGGTTGCAGCGAGAG
46468497 AAGTAGAGGTTGCAGCGAGAG
1 AAGTAGAGGTTGCAGCGAGAG
46468518 AAGCT-GAGGTT
1 AAG-TAGAGGTT
46468529 CAAAGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.45, T:0.13
Consensus pattern (21 bp):
AAGTAGAGGTTGCAGCGAGAG
Found at i:46468996 original size:44 final size:43
Alignment explanation
Indices: 46468948--46469079 Score: 140
Period size: 45 Copynumber: 3.0 Consensus size: 43
46468938 AGAGGCATTT
** *
46468948 GTGGAAAAATCCGCCGCTAAAGAGCATGACCTTTAGCGGCGTTC
1 GTGGAAAAAAACGCCGCTAAAGAACATGA-CTTTAGCGGCGTTC
* * *
46468992 GTGGAAAAAAAACGCCGCTAAAGAACATTACTTGTAGCGGTGTTT
1 GTGG-AAAAAAACGCCGCTAAAGAACATGACTT-TAGCGGCGTTC
**
46469037 GTGG-AAAAGGCGCCGCTAAAAGAACATGAGCTTTAGCGGCGTT
1 GTGGAAAAAAACGCCGCT-AAAGAACATGA-CTTTAGCGGCGTT
46469080 TGTTGGTATG
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 11 0.15
44 26 0.35
45 37 0.50
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (43 bp):
GTGGAAAAAAACGCCGCTAAAGAACATGACTTTAGCGGCGTTC
Found at i:46469081 original size:44 final size:42
Alignment explanation
Indices: 46468910--46469082 Score: 150
Period size: 44 Copynumber: 3.9 Consensus size: 42
46468900 GCATTTTTAT
* * * * *
46468910 AAAAGCGCCGCTAAA-AGTCATGTTCTATAGAGGCATTTGTGGA
1 AAAAGCGCCGCTAAAGA-ACATG-ACTTTAGCGGCGTTTGTGGA
* * *
46468953 AAAATCCGCCGCTAAAGAGCATGACCTTTAGCGGCGTTCGTGGAAA
1 AAAA-GCGCCGCTAAAGAACATGA-CTTTAGCGGCGTTTGTGG--A
* * *
46468999 AAAAACGCCGCTAAAGAACATTACTTGTAGCGGTGTTTGTGGA
1 AAAAGCGCCGCTAAAGAACATGACTT-TAGCGGCGTTTGTGGA
*
46469042 AAAGGCGCCGCTAAAAGAACATGAGCTTTAGCGGCGTTTGT
1 AAAAGCGCCGCT-AAAGAACATGA-CTTTAGCGGCGTTTGT
46469083 TGGTATGCGC
Statistics
Matches: 106, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
43 15 0.14
44 53 0.50
45 33 0.31
46 5 0.05
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGAACATGACTTTAGCGGCGTTTGTGGA
Found at i:46472895 original size:17 final size:16
Alignment explanation
Indices: 46472865--46472898 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
46472855 GTGATAGATC
*
46472865 TCCGACGAGTTTCCAA
1 TCCGACGAGCTTCCAA
46472881 TCCGATCGAGCTTCCAA
1 TCCGA-CGAGCTTCCAA
46472898 T
1 T
46472899 AACCTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (16 bp):
TCCGACGAGCTTCCAA
Found at i:46475360 original size:29 final size:29
Alignment explanation
Indices: 46475300--46475360 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
46475290 GACTATCGTC
*
46475300 GCCACACGACCGTATGCCAGGCCGGGTGA
1 GCCACACGACCGTATGCCAGGCCGGGTAA
* * * * *
46475329 GCCACGCGAGCGTGTGCTAGGCCGTGTAA
1 GCCACACGACCGTATGCCAGGCCGGGTAA
46475358 GCC
1 GCC
46475361 CATTTTTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.33, G:0.36, T:0.13
Consensus pattern (29 bp):
GCCACACGACCGTATGCCAGGCCGGGTAA
Found at i:46488853 original size:44 final size:44
Alignment explanation
Indices: 46488790--46489996 Score: 373
Period size: 44 Copynumber: 27.4 Consensus size: 44
46488780 CCACTAATCC
* *
46488790 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTAACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * ** * * *
46488834 TATCTCACTGAAGTTGCAGTAGAGTGGA-T--CGCATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * *
46488875 TATCTCCCTGAAGTTGCAGCGGAGCAGACT-AAGTAACCA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-CAGA-TCT
* * * * ** * *
46488919 TATCCCCCTAAAGTTGCAATGGGGCAGATCGAAG-ATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA--ACAGATCT
* * * * *
46488964 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAGATCT
* ** * * *
46489008 TATCTCCCTGTAGTTGCAACGAAGCAGATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * * * * * *** *
46489052 TATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCAACAGATCT
** * * * * * * *
46489097 TATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAGATCT
* * * *
46489141 TATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * * * *
46489185 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAGATCT
* ** * * *
46489229 TATCTCCCTGTAGTTGCAACGAAGCAGATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * * * * * *** *
46489273 TATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCAACAGATCT
** * * * * * * *
46489318 TATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAGATCT
* ** * * *
46489362 TATCTCCCTGTAGTTGCAACGAAGCAGATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * * * * * *** *
46489406 TATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCAACAGATCT
** * * * * * * *
46489451 TATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAGATCT
* ** * * *
46489495 TATCTCCCTGTAGTTGCAACGAAGCAGATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * * * * * *** *
46489539 TATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCAACAGATCT
** * * * * * * *
46489584 TATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAGATCT
* ** * * *
46489628 TATCTCCCTGTAGTTGCAACGAAGCAGATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * * * * * *** *
46489672 TATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCAACAGATCT
** * * * * * * *
46489717 TATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAGATCT
* ** * * *
46489761 TATCTCCCTGTAGTTGCAACGAAGCAGATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
* * * * * * *** *
46489805 TATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCAACAGATCT
** * * * * * * *
46489850 TATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAGATCT
** * *
46489894 TATCTCCCTGAAGTTGCAACGGAGC-GAATTAAAACATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGCAACAGATCT
* *
46489938 TATCTCTCTGAAGTTGCAGTAGAGCAGATT---GCAACCAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-CAGATCT
* *
46489979 CATCTCCCAGAAGTTGCA
1 TATCTCCCTGAAGTTGCA
46489997 ACGGAACGGA
Statistics
Matches: 783, Mismatches: 346, Indels: 71
0.65 0.29 0.06
Matches are distributed among these distances:
41 51 0.07
42 4 0.01
43 19 0.02
44 488 0.62
45 220 0.28
46 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAGATCT
Found at i:46488949 original size:85 final size:87
Alignment explanation
Indices: 46488785--46488991 Score: 206
Period size: 85 Copynumber: 2.4 Consensus size: 87
46488775 TGAAGCCACT
* * * * *
46488785 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTAACAGATCTTATCTCACTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTAACAGATCTTATCCCACTAAAGTTG
* **
46488850 CAGTAGAGTGGATCG-CAT-CA
66 CAATAGAGCAGATCGACATGCA
** * *
46488870 GGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACT-AAGTAACCA-AGTCTTATCCCCCTAAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTAA-CAGA-TCTTATCCCACTAAAGT
* * *
46488933 TGCAATGGGGCAGATCGAAGATGGCA
64 TGCAATAGAGCAGATCG-ACAT-GCA
*
46488959 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
46488992 TTGAAGCCGA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
84 7 0.07
85 57 0.59
87 2 0.02
89 31 0.32
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTAACAGATCTTATCCCACTAAAGTTG
CAATAGAGCAGATCGACATGCA
Found at i:46489035 original size:133 final size:132
Alignment explanation
Indices: 46488875--46489218 Score: 422
Period size: 133 Copynumber: 2.6 Consensus size: 132
46488865 CATCAGGTCT
* *
46488875 TATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAC-CA-AGTCTTATCCCCCTAAAGTTGCAA
1 TATCTCCCTGAAGTTGCAACGAAGCAGACTAA--AACACAGA-TCTTATCCCCCTAAAGTTGCAA
* *
46488938 TGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGAT
63 TGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAACAAATTGAAGCCGAT
46489003 AATCC
128 AATCC
* * * *
46489008 TATCTCCCTGTAGTTGCAACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTG
1 TATCTCCCTGAAGTTGCAACGAAGCAGACTAAAACA-CAGATCTTATCCCCCTAAAGTTGCAATG
* **
46489073 GGGCAGATCGAAGGTGGCAAATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAA
65 GGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAA
46489138 TCC
130 TCC
*** * * * * * * *
46489141 TATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAACATCAGATCTTATCTCCCTGAGGTTGCAGTG
1 TATCTCCCTGAAGTTGCAACGAAGCAGACTAAAACA-CAGATCTTATCCCCCTAAAGTTGCAATG
* *
46489206 GAGCAGATTGAAG
65 GGGCAGATCGAAG
46489219 CCGATAATCC
Statistics
Matches: 185, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
131 3 0.02
133 181 0.98
134 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (132 bp):
TATCTCCCTGAAGTTGCAACGAAGCAGACTAAAACACAGATCTTATCCCCCTAAAGTTGCAATGG
GGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAAT
CC
Found at i:46489221 original size:221 final size:221
Alignment explanation
Indices: 46488960--46489439 Score: 852
Period size: 221 Copynumber: 2.2 Consensus size: 221
46488950 AAGATGGCAA
46488960 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
1 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
46489025 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
66 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
46489090 CAAATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGAAGT
131 CAAATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGAAGT
*** * *
46489155 TGCGGTGGAGCGGATTAAAACATCAG
196 TGCAACGAAGCAGATTAAAACATCAG
46489181 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
1 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
46489246 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
66 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
*
46489311 CAAATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGT
131 CAAATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGAAGT
46489376 TGCAACGAAGCAGATTAAAACATCAG
196 TGCAACGAAGCAGATTAAAACATCAG
* * * * * *
46489402 ATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAG
1 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAG
46489440 GTGGCAAATC
Statistics
Matches: 247, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
221 247 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (221 bp):
ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
CAAATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGAAGT
TGCAACGAAGCAGATTAAAACATCAG
Found at i:46489421 original size:354 final size:351
Alignment explanation
Indices: 46488775--46489572 Score: 1190
Period size: 354 Copynumber: 2.3 Consensus size: 351
46488765 AACAGGTCGG
** *
46488775 TGAAGCC-ACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTAACAGATCTTATCT
1 TGAAGCCGA-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACATCAGATCTTATCT
* * ** * * ** * * *
46488839 CACTGAAGTTGCAGTAGAGTGGATCGCA-TCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA
65 CCCTGAAGTTGCAGTGGAGCAGATCGAAGCCAAATCCTATCTCCCTGAAGTTGCAACGAAGCAGA
46488903 CTAAGTAACCAAGTCTTATCCCCCTAAAGTTGCAATGGGGCAGATCGAAGATGGCAAATCTTATC
130 CTAAG-AACCAAGTCTTATCCCCCTAAAGTTGCAATGGGGCAGATCGAAGATGGCAAATCTTATC
* *
46488968 TCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGTAGTTGCAACGAAGC
194 TCCCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGCAACGAAGC
46489033 AGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCTT
259 AGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCTT
46489098 ATCTTTCTGAGGTTGCAGTGGAACAAAT
324 ATCTTTCTGAGGTTGCAGTGGAACAAAT
*
46489126 TGAAGCCGATAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAACATCAGATCTTATCTC
1 TGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACATCAGATCTTATCTC
* * *
46489191 CCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGTAGTTGCAACGAAGCAG
66 CCTGAAGTTGCAGTGGAGCAGATCGAAGCC-A-AATCCTATCTCCCTGAAGTTGCAACGAAGCAG
* * * *
46489256 ATTAA-AA-CATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCTT
129 ACTAAGAACCA--AG-TCTTATCCCCCTAAAGTTGCAATGGGGCAGATCGAAGATGGCAAATCTT
**
46489319 ATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGCAACGA
191 ATCTCCCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGCAACGA
46489384 AGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAAT
256 AGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAAT
46489449 CTTATCTTTCTGAGGTTGCAGTGGAACAAAT
321 CTTATCTTTCTGAGGTTGCAGTGGAACAAAT
* ** * * *
46489480 TGAAGCCGATAATCCTATCTCCCTGTAGTTGCAACGAAGCAGATTAAAACATCAGATCTTATCCC
1 TGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACATCAGATCTTATCTC
* * *
46489545 CCTAAAGTTGTAGTGGGGCAGATCGAAG
66 CCTGAAGTTGCAGTGGAGCAGATCGAAG
46489573 GTGGCAAATC
Statistics
Matches: 402, Mismatches: 38, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
351 81 0.20
352 4 0.01
353 3 0.01
354 314 0.78
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (351 bp):
TGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACATCAGATCTTATCTC
CCTGAAGTTGCAGTGGAGCAGATCGAAGCCAAATCCTATCTCCCTGAAGTTGCAACGAAGCAGAC
TAAGAACCAAGTCTTATCCCCCTAAAGTTGCAATGGGGCAGATCGAAGATGGCAAATCTTATCTC
CCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGCAACGAAGCAG
ATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGGCAAATCTTAT
CTTTCTGAGGTTGCAGTGGAACAAAT
Found at i:46489966 original size:133 final size:133
Alignment explanation
Indices: 46489181--46489941 Score: 1452
Period size: 133 Copynumber: 5.7 Consensus size: 133
46489171 AAAACATCAG
** * *
46489181 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
1 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
46489246 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
66 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
46489311 CAA
131 CAA
46489314 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
1 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
46489379 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
66 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
46489444 CAA
131 CAA
46489447 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
1 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
46489512 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
66 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
46489577 CAA
131 CAA
46489580 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
1 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
46489645 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
66 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
46489710 CAA
131 CAA
46489713 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
1 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
46489778 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
66 AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
46489843 CAA
131 CAA
*
46489846 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGAAGTTGC
1 ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
*
46489911 AACGGAGC-GAATTAAAACATCAGATCTTATC
66 AACGAAGCAG-ATTAAAACATCAGATCTTATC
46489942 TCTCTGAAGT
Statistics
Matches: 621, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
132 1 0.00
133 620 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (133 bp):
ATCTTATCTTTCTGAGGTTGCAGTGGAACAAATTGAAGCCGATAATCCTATCTCCCTGTAGTTGC
AACGAAGCAGATTAAAACATCAGATCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGGTGG
CAA
Found at i:46493703 original size:18 final size:19
Alignment explanation
Indices: 46493674--46493710 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
46493664 ACTGTAGATT
46493674 GTTTTGGACTTTTTTTTTC
1 GTTTTGGACTTTTTTTTTC
46493693 GTTTT-GACTTTTTTTTTC
1 GTTTTGGACTTTTTTTTTC
46493711 AGATTAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.05, C:0.11, G:0.14, T:0.70
Consensus pattern (19 bp):
GTTTTGGACTTTTTTTTTC
Found at i:46496001 original size:7 final size:7
Alignment explanation
Indices: 46495991--46496016 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46495981 AATCAAAATC
46495991 AAAAAGA
1 AAAAAGA
46495998 AAAAAGA
1 AAAAAGA
46496005 AAAAAGA
1 AAAAAGA
46496012 AAAAA
1 AAAAA
46496017 TCAAAGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:46496002 original size:14 final size:14
Alignment explanation
Indices: 46495985--46496021 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
46495975 TAAAAAAATC
46495985 AAAATCAAAAAGAA
1 AAAATCAAAAAGAA
**
46495999 AAAAGAAAAAAGAA
1 AAAATCAAAAAGAA
46496013 AAAATCAAA
1 AAAATCAAA
46496022 GTCAAATTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.81, C:0.05, G:0.08, T:0.05
Consensus pattern (14 bp):
AAAATCAAAAAGAA
Found at i:46496972 original size:14 final size:14
Alignment explanation
Indices: 46496940--46496974 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
46496930 AAAAAAGGTG
46496940 AAAAATGAAAAAAT
1 AAAAATGAAAAAAT
* *
46496954 GAAAATGAAAAAGT
1 AAAAATGAAAAAAT
46496968 AAAAATG
1 AAAAATG
46496975 GAAAGGCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:46498404 original size:131 final size:131
Alignment explanation
Indices: 46498170--46498488 Score: 539
Period size: 131 Copynumber: 2.4 Consensus size: 131
46498160 TCAATGAAAT
* ** *
46498170 CACAAGTCATATGTCCCTGACCAGCAGTGGAATAGGTCAGAAATTGTAGATCTTATCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
* *
46498235 CAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
66 CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
46498300 C
131 C
*
46498301 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
*
46498366 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
66 CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
46498431 C
131 C
* * *
46498432 CATAAGCCCTATGTCCCTGACCAGCAGTGGAATAGGTTGAAAATTGCAGATCTTATC
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATC
46498489 GAAGACGACG
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 176 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (131 bp):
CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
C
Found at i:46498645 original size:41 final size:42
Alignment explanation
Indices: 46498585--46498697 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 42
46498575 AAGTAATAGA
* * *
46498585 TCTTATCTCTCTGAAGTTGCAGTAGAG-TG-GA-TCACATCAAG
1 TCTTATCTCCCTGAGGTTGCAGTAGAGCTGAGAGT-A-AGCAAG
*
46498626 TCTTATCTCCCTGAGGTTGCAGTGGAGCTGACTGAGTAAGCAAG
1 TCTTATCTCCCTGAGGTTGCAGTAGAGCTGA--GAGTAAGCAAG
*
46498670 TCTTATCTCCCTGAGGTTGCAGTGGAGC
1 TCTTATCTCCCTGAGGTTGCAGTAGAGC
46498698 AGATTGAAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
41 24 0.38
42 2 0.03
44 33 0.52
45 3 0.05
46 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (42 bp):
TCTTATCTCCCTGAGGTTGCAGTAGAGCTGAGAGTAAGCAAG
Found at i:46499880 original size:20 final size:21
Alignment explanation
Indices: 46499831--46499889 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
46499821 ATTTTTGCAA
46499831 TGTAT-TTATTTATTTTAAAC
1 TGTATATTATTTATTTTAAAC
*
46499851 TTTATATTATTTATTTTAAA-
1 TGTATATTATTTATTTTAAAC
46499871 TCGT-TATTATTTATTTTAA
1 T-GTATATTATTTATTTTAA
46499890 GTTTTTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 20 0.57
21 15 0.43
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (21 bp):
TGTATATTATTTATTTTAAAC
Found at i:46499919 original size:21 final size:21
Alignment explanation
Indices: 46499836--46499983 Score: 84
Period size: 21 Copynumber: 6.5 Consensus size: 21
46499826 TGCAATGTAT
46499836 TTATTTATTTTAAACTT-TATA
1 TTATTTATTTTAAA-TTATATA
**
46499857 TTATTTATTTTAAATCGT-TA
1 TTATTTATTTTAAATTATATA
*
46499877 TTATTTATTTTAAGTTTTTTATATA
1 TTATTTATTTTAA----ATTATATA
*
46499902 TTATGTATTTTAAATTATGTTAATCAA
1 TTATTTATTTTAAATTA---T-AT--A
*
46499929 TTATTCATTTTAAATATATATA
1 TTATTTATTTTAAAT-TATATA
* * *
46499951 TTATTTATGTTAAACTACATA
1 TTATTTATTTTAAATTATATA
46499972 TTTATATTATTT
1 -TTAT-TTATTT
46499984 ATTTGGAATT
Statistics
Matches: 99, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
20 16 0.16
21 23 0.23
22 17 0.17
23 5 0.05
24 5 0.05
25 17 0.17
27 14 0.14
28 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (21 bp):
TTATTTATTTTAAATTATATA
Done.