Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 48 of 125
Found at i:14761581 original size:11 final size:11
Alignment explanation
Indices: 14761552--14761613 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
14761542 AATTTAGAGT
* *
14761552 TTAAATTGATT
1 TTAAATTTATC
14761563 TTAAATTTATC
1 TTAAATTTATC
**
14761574 TTAAATTTAAA
1 TTAAATTTATC
*
14761585 TTTAA-TTAT-
1 TTAAATTTATC
*
14761594 TTAAATTTACC
1 TTAAATTTATC
14761605 TTAAATTTA
1 TTAAATTTA
14761614 AATTTAAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 4 0.10
10 6 0.15
11 31 0.76
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (11 bp):
TTAAATTTATC
Found at i:14761583 original size:6 final size:6
Alignment explanation
Indices: 14761562--14761634 Score: 71
Period size: 6 Copynumber: 12.0 Consensus size: 6
14761552 TTAAATTGAT
* *
14761562 TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA TTTAAA TTT-AC CTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA
14761610 TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TT-TAAA
14761635 ACAAATTTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
4 2 0.04
5 5 0.09
6 37 0.66
7 6 0.11
8 6 0.11
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:14761600 original size:31 final size:29
Alignment explanation
Indices: 14761562--14761629 Score: 109
Period size: 31 Copynumber: 2.3 Consensus size: 29
14761552 TTAAATTGAT
*
14761562 TTTAAATTTATCTTAAATTTAAATTTAATTA
1 TTTAAATTTACCTTAAATTTAAATTTAA--A
14761593 TTTAAATTTACCTTAAATTTAAATTTAAA
1 TTTAAATTTACCTTAAATTTAAATTTAAA
14761622 TTTAAATT
1 TTTAAATT
14761630 ATAAAACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 9 0.25
31 27 0.75
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTAAATTTACCTTAAATTTAAATTTAAA
Found at i:14762866 original size:14 final size:14
Alignment explanation
Indices: 14762818--14762866 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
14762808 TATGAAGAAC
14762818 AAAAAATAATAAATG
1 AAAAAA-AATAAATG
* *
14762833 GAAAATAA-AAATG
1 AAAAAAAATAAATG
*
14762846 AACAAAAATAAATG
1 AAAAAAAATAAATG
14762860 AAAAAAA
1 AAAAAAA
14762867 GAAAACAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 10 0.37
14 13 0.48
15 4 0.15
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (14 bp):
AAAAAAAATAAATG
Found at i:14763807 original size:59 final size:58
Alignment explanation
Indices: 14763716--14764086 Score: 478
Period size: 59 Copynumber: 6.3 Consensus size: 58
14763706 AAAATTTTAG
* *
14763716 AAAATTA-CATTTTAACTCGAAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCG-AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * *
14763773 AAAATTACCATTTTACCCTCGAACTCTCCAAAATTCTATTTTTAACCTCAATTTCACCA
1 AAAATTACCATTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
14763832 AAAAATACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACAA
1 AAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
14763891 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAAACCCTGATTTCACCA
1 AAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTT-AACCCCGATTTCACCA
* **
14763951 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACC-
1 AAAATTACCATTTTACCCC-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * **
14764009 AAAATTACCATTTTACCCCTAATTTTTCCAAAATTCTAGTTTCGACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
14764068 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
14764087 TGTAAGTCCA
Statistics
Matches: 280, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
57 9 0.03
58 58 0.21
59 160 0.57
60 53 0.19
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:14764086 original size:29 final size:29
Alignment explanation
Indices: 14763741--14764081 Score: 199
Period size: 29 Copynumber: 11.6 Consensus size: 29
14763731 CTCGAAACTT
14763741 CCAAAATT-CCATTTTTAACCCCGATTTCA
1 CCAAAATTACCA-TTTTAACCCCGATTTCA
** *
14763770 CCAAAAATTACCATTTT-ACCCTCGAACTCT
1 CC-AAAATTACCATTTTAACCC-CGATTTCA
* * *
14763800 CCAAAATT-CTATTTTTAACCTCAATTTCA
1 CCAAAATTACCA-TTTTAACCCCGATTTCA
* *
14763829 CCAAAAAATACCATTTTACCCCCGAACTTT--
1 CC-AAAATTACCATTTTAACCCCG-A-TTTCA
*
14763859 CCAAAATT-CCATTTTTAACCTCGATTTCA
1 CCAAAATTACCA-TTTTAACCCCGATTTCA
* *
14763888 CAAAAAATTACCATTTTACCCCCGAACTTT--
1 C-CAAAATTACCATTTTAACCCCG-A-TTTCA
*
14763918 CCAAAATT-CCATTTTTAAACCCTGATTTCA
1 CCAAAATTACCA-TTTT-AACCCCGATTTCA
*
14763948 CCAAAAATTACCATTTT-ACCCCTAAACTTT--
1 CC-AAAATTACCATTTTAACCCC--GA-TTTCA
**
14763978 CCAAAATT-CCATTTTTAACCCTAATTTCA
1 CCAAAATTACCA-TTTTAACCCCGATTTCA
* **
14764007 CCAAAATTACCATTTT-ACCCCTAATTTTT
1 CCAAAATTACCATTTTAACCCC-GATTTCA
* **
14764036 CCAAAATT-CTAGTTTCGACCCCGATTTCA
1 CCAAAATTACCA-TTTTAACCCCGATTTCA
14764065 CCAAAAATTACCATTTT
1 CC-AAAATTACCATTTT
14764082 GCCCCTGTAA
Statistics
Matches: 241, Mismatches: 36, Indels: 69
0.70 0.10 0.20
Matches are distributed among these distances:
27 6 0.02
28 23 0.10
29 96 0.40
30 81 0.34
31 23 0.10
32 12 0.05
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
CCAAAATTACCATTTTAACCCCGATTTCA
Found at i:14765628 original size:32 final size:32
Alignment explanation
Indices: 14765564--14765635 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
14765554 GTTTTTAAAA
*
14765564 TATATATATTAATATATTTACTTATTATTTAT
1 TATATATATTAATATATTTACTTATTACTTAT
* *
14765596 TATATATATTAATTTATTTA-TTAGTTGCTTAT
1 TATATATATTAATATATTTACTTA-TTACTTAT
14765628 T-TAT-TATT
1 TATATATATT
14765636 TTTTGCGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 4 0.11
31 6 0.17
32 26 0.72
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (32 bp):
TATATATATTAATATATTTACTTATTACTTAT
Found at i:14765652 original size:100 final size:98
Alignment explanation
Indices: 14765466--14765658 Score: 244
Period size: 100 Copynumber: 1.9 Consensus size: 98
14765456 CTTATTTAAG
*
14765466 TATAAATATTAATATATTTATTTACTATTTATTATATAGTAACATACTCATTAACTGCTCATTTA
1 TATAAATATTAATATATTTACTTACTATTTATTATATAGTAACATACTCATTAACTGCTCATTTA
*
14765531 TTATTTTCTTGTAAATTCAAAACGTTTTTAAAA
66 TTATTTTCTTGGAAATTCAAAACGTTTTTAAAA
* * * ** * * ** *
14765564 TATATATATTAATATATTTACTTATTATTTATTATATATATTAATTTATTTATTAGTTGCTTATT
1 TATAAATATTAATATATTTACTTACTATTTA-T-TATATAGTAACATACTCATTAACTGCTCATT
14765629 TATTATTTT-TTGCGAAATTCAAAACGTTTT
64 TATTATTTTCTTG-GAAATTCAAAACGTTTT
14765659 AATAATAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
98 28 0.35
99 4 0.05
100 48 0.60
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (98 bp):
TATAAATATTAATATATTTACTTACTATTTATTATATAGTAACATACTCATTAACTGCTCATTTA
TTATTTTCTTGGAAATTCAAAACGTTTTTAAAA
Found at i:14766593 original size:30 final size:29
Alignment explanation
Indices: 14766555--14766727 Score: 195
Period size: 29 Copynumber: 5.9 Consensus size: 29
14766545 TAGGTCCTTG
* *
14766555 AACTTTTCCAAAATTATATTTTGACACCCA
1 AACTTTTCCAAAATTACATTTTAAC-CCCA
* *
14766585 AGCTTTTCCAAAATTACATTTTGACCCCTA
1 AACTTTTCCAAAATTACATTTTAACCCC-A
* * *
14766615 AACTTTTTCAAAATTACATTTTAATCCTA
1 AACTTTTCCAAAATTACATTTTAACCCCA
****
14766644 AACTTTTCCAAAATTACATTTTAACTTTG
1 AACTTTTCCAAAATTACATTTTAACCCCA
* *
14766673 AACTTTTCTAAAATTATATTTTAACCCCTA
1 AACTTTTCCAAAATTACATTTTAACCCC-A
14766703 AACTTTT-CAAAATTACATTTTAACC
1 AACTTTTCCAAAATTACATTTTAACC
14766728 TTAAATTTTT
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
29 67 0.55
30 54 0.45
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (29 bp):
AACTTTTCCAAAATTACATTTTAACCCCA
Found at i:14766655 original size:29 final size:28
Alignment explanation
Indices: 14766555--14766752 Score: 191
Period size: 29 Copynumber: 6.8 Consensus size: 28
14766545 TAGGTCCTTG
* *
14766555 AACTTTTCCAAAATTATATTTTGACACCCA
1 AACTTTTCCAAAATTACATTTT-A-ACCTA
* *
14766585 AGCTTTTCCAAAATTACATTTTGACCCCTA
1 AACTTTTCCAAAATTACATTTT-A-ACCTA
*
14766615 AACTTTTTCAAAATTACATTTTAATCCTA
1 AACTTTTCCAAAATTACATTTTAA-CCTA
* *
14766644 AACTTTTCCAAAATTACATTTTAACTTTG
1 AACTTTTCCAAAATTACATTTTAAC-CTA
* *
14766673 AACTTTTCTAAAATTATATTTTAACCCCTA
1 AACTTTTCCAAAATTACATTTTAA--CCTA
14766703 AACTTTT-CAAAATTACATTTTAACCTTA
1 AACTTTTCCAAAATTACATTTTAACC-TA
* ** *
14766731 AATTTTTTTAAAATCACATTTT
1 AACTTTTCCAAAATTACATTTT
14766753 GACCCCTTAA
Statistics
Matches: 143, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.01
28 9 0.06
29 77 0.54
30 54 0.38
31 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (28 bp):
AACTTTTCCAAAATTACATTTTAACCTA
Found at i:14766752 original size:58 final size:59
Alignment explanation
Indices: 14766550--14766770 Score: 232
Period size: 58 Copynumber: 3.8 Consensus size: 59
14766540 CCTAATAGGT
* ** * * * *
14766550 CCTTGAACTTTTCCAAAATTATATTTTGACACCC-AAGCTTTTCCAAAATTACATTTTGAC
1 CCTTAAACTTTTTTAAAATTACATTTTAAC-CCCTAAACTTTTCCAAAATTACATTTT-AA
* * *
14766610 CCCTAAACTTTTTCAAAATTACATTTTAA-TCCTAAACTTTTCCAAAATTACATTTTAA
1 CCTTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAA
* * * *
14766668 CTTTGAACTTTTCTAAAATTATATTTTAACCCCTAAACTTTT-CAAAATTACATTTTAA
1 CCTTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAA
* * * * *
14766726 CCTTAAATTTTTTTAAAATCACATTTTGACCCCTTAACCTTTCCA
1 CCTTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCA
14766771 TTTTAATCCC
Statistics
Matches: 134, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
58 75 0.56
59 35 0.26
60 24 0.18
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.42
Consensus pattern (59 bp):
CCTTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAA
Found at i:14766843 original size:29 final size:29
Alignment explanation
Indices: 14766790--14766871 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
14766780 CAAATTTCCC
*
14766790 CAAAATCAAATTTTAACTCCTAAACTTTCT
1 CAAAATTAAATTTTAAC-CCTAAACTTTCT
* *
14766820 CATAATTATAATTTT-ACCCTAAACTTTTT
1 CAAAATTA-AATTTTAACCCTAAACTTTCT
* *
14766849 CAAAATTACATTTTGACCCTAAA
1 CAAAATTAAATTTTAACCCTAAA
14766872 ATTCTCTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.11
29 26 0.58
30 8 0.18
31 6 0.13
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (29 bp):
CAAAATTAAATTTTAACCCTAAACTTTCT
Found at i:14769773 original size:100 final size:99
Alignment explanation
Indices: 14769514--14769879 Score: 354
Period size: 100 Copynumber: 3.7 Consensus size: 99
14769504 ACAACTTCAA
** * *
14769514 GGAGATAAGGTTTGTTGTTGTAGTTTTCAATCCGATCCACTGTAACTGT-AGGGATATAGGATTT
1 GGAGATAAAATTTGTTATTGTAG-TTTCAATCTGATCCACTGTAACT-TCAGGGATATAGGATTT
*
14769578 GATGTCGTAACATCATCTTGCT-TCACTGCATCTTTAG
64 GATGT-GTAACTTCATCTTGCTCT-ACTGCATCTTTAG
* * * * * * *
14769615 GGAGATAAGATTTGCTT-CTGTAGCTTCAATCTAACCCACTGTAGCTTTAGGGGA-ATAGGATTT
1 GGAGATAAAATTTG-TTATTGTAGTTTCAATCTGATCCACTGTAACTTCA-GGGATATAGGATTT
* * *
14769678 GATGTGGTATCTTCATCTTGCTCTACTGCAACTTCAG
64 GATGT-GTAACTTCATCTTGCTCTACTGCATCTTTAG
* * *
14769715 AGAGATAAATATTTGTTATTGTAGTTTTAAT-TCGATCC-CTGCAACTTCAGGGATATAGGATTT
1 GGAGATAAA-ATTTGTTATTGTAGTTTCAATCT-GATCCACTGTAACTTCAGGGATATAGGATTT
* * *
14769778 AATGT-T-GCTTCATCTTGCTCCACTGCATCTTTAG
64 GATGTGTAACTTCATCTTGCTCTACTGCATCTTTAG
* * * *
14769812 GGAGATAAAATTTGTTA-TGATGGTTTCAATCTGATCTACTGTAACTTCAGGGGTATATGATTTG
1 GGAGATAAAATTTGTTATTG-TAGTTTCAATCTGATCCACTGTAACTTCAGGGATATAGGATTTG
14769876 ATGT
65 ATGT
14769880 TTCACTAATC
Statistics
Matches: 219, Mismatches: 35, Indels: 26
0.78 0.12 0.09
Matches are distributed among these distances:
95 2 0.01
96 20 0.09
97 59 0.27
98 1 0.00
99 5 0.02
100 89 0.41
101 41 0.19
102 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (99 bp):
GGAGATAAAATTTGTTATTGTAGTTTCAATCTGATCCACTGTAACTTCAGGGATATAGGATTTGA
TGTGTAACTTCATCTTGCTCTACTGCATCTTTAG
Found at i:14778162 original size:17 final size:17
Alignment explanation
Indices: 14778086--14778180 Score: 68
Period size: 17 Copynumber: 5.5 Consensus size: 17
14778076 TCCAATTTTT
*
14778086 AATTTTAATTTACTTTA
1 AATTTAAATTTACTTTA
* * *
14778103 AGTTTGAATTT-GTTCTA
1 AATTTAAATTTACTT-TA
* * *
14778120 AATTTAAATTCATTTTTG
1 AATTTAAATTTA-CTTTA
*
14778138 AGTTTAAATTTACTTTA
1 AATTTAAATTTACTTTA
14778155 AATTTAAATTTA-TTGTA
1 AATTTAAATTTACTT-TA
*
14778172 AATTAAAAT
1 AATTTAAAT
14778181 AAAAGGTCCA
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
16 4 0.07
17 43 0.72
18 11 0.18
19 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTTAAATTTACTTTA
Found at i:14780123 original size:29 final size:28
Alignment explanation
Indices: 14780052--14780199 Score: 98
Period size: 30 Copynumber: 5.0 Consensus size: 28
14780042 GGAGGTCCCT
* * *
14780052 AAACTGTCCAAAAATCACATTTTGACCCCG
1 AAACT-TCC-AAAATTACATTTTTACCCCC
*
14780082 AAACTTCTAAAAATTACATTTTTACCCTCC
1 AAACTTC-CAAAATTACATTTTTACCC-CC
* * * ***
14780112 GAGCTTCCAAAAATTCCATTTTTGACCTTAA
1 AAACTTCC-AAAATTACATTTTT-ACC-CCC
* * *
14780143 AAATTTCAAAAATTACATTTTTATCCCC
1 AAACTTCCAAAATTACATTTTTACCCCC
*
14780171 AAACTTCCAAAATTTTCATTTTTACCCCC
1 AAACTTCCAAAA-TTACATTTTTACCCCC
14780200 GAATATCTAA
Statistics
Matches: 88, Mismatches: 24, Indels: 13
0.70 0.19 0.10
Matches are distributed among these distances:
28 10 0.11
29 34 0.39
30 37 0.42
31 7 0.08
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.34
Consensus pattern (28 bp):
AAACTTCCAAAATTACATTTTTACCCCC
Found at i:14780126 original size:30 final size:28
Alignment explanation
Indices: 14780053--14780281 Score: 138
Period size: 29 Copynumber: 7.8 Consensus size: 28
14780043 GAGGTCCCTA
* *
14780053 AACTGTCCAAAAATCACATTTTGACCCCG
1 AACT-TCCAAAAATTACATTTTTACCCCG
*
14780082 AAACTTCTAAAAATTACATTTTTACCCTCCG
1 -AACTTCCAAAAATTACATTTTTA-CC-CCG
* * ***
14780113 AGCTTCCAAAAATTCCATTTTTGACCTTAA
1 AACTTCCAAAAATTACATTTTT-ACC-CCG
* * *
14780143 AAATTTCAAAAATTACATTTTTATCCCCA
1 AACTTCCAAAAATTACATTTTTA-CCCCG
* *
14780172 AACTTCCAAAATTTTCATTTTTACCCCCG
1 AACTTCCAAAAATTACATTTTTA-CCCCG
* * * * *
14780201 AA-TATCTAAAAACTCCATCTTTAACCCG
1 AACT-TCCAAAAATTACATTTTTACCCCG
* *
14780229 AAATTTCCAAAAATTATCA-TTTTACCCCC
1 -AACTTCCAAAAATTA-CATTTTTACCCCG
* *
14780258 AAGTGTCCAAAAATTTCATTTTTA
1 AACT-TCCAAAAATTACATTTTTA
14780282 ATCTCGATTT
Statistics
Matches: 154, Mismatches: 35, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
28 10 0.06
29 89 0.58
30 51 0.33
31 4 0.03
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.34
Consensus pattern (28 bp):
AACTTCCAAAAATTACATTTTTACCCCG
Found at i:14780282 original size:58 final size:58
Alignment explanation
Indices: 14780149--14780368 Score: 164
Period size: 58 Copynumber: 3.8 Consensus size: 58
14780139 TTAAAAATTT
* * * * * *
14780149 CAAAAATTACATTTTTATCCCCAAACTTCC-AAAATTTTCATTTTTACCCCCGAATATC
1 CAAAAATTTCATTTTTAACCCGAAATTTCCAAAAATTATCA-TTTTACCCCCGAATGTC
* * * *
14780207 TAAAAACTCCATCTTTAACCCGAAATTTCCAAAAATTATCATTTTACCCCC-AAGTGTC
1 CAAAAATTTCATTTTTAACCCGAAATTTCCAAAAATTATCATTTTACCCCCGAA-TGTC
* * * * *
14780265 CAAAAATTTCATTTTTAATCTCG-ATTTTCTTAAAACTTA-CTGTTTTACCCCCGAATGT-
1 CAAAAATTTCATTTTTAA-CCCGAAATTTC-CAAAAATTATC-ATTTTACCCCCGAATGTC
* * * *
14780323 CTAAAATGTCA-TTTTAACCCTAAATTTTCCCAAAAATTACCATTTT
1 CAAAAATTTCATTTTTAACCCGAAA-TTT-CCAAAAATTATCATTTT
14780369 TGCCCTTGAG
Statistics
Matches: 126, Mismatches: 26, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
56 2 0.02
57 9 0.07
58 79 0.63
59 34 0.27
60 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (58 bp):
CAAAAATTTCATTTTTAACCCGAAATTTCCAAAAATTATCATTTTACCCCCGAATGTC
Found at i:14783022 original size:66 final size:64
Alignment explanation
Indices: 14782902--14783024 Score: 142
Period size: 65 Copynumber: 1.9 Consensus size: 64
14782892 TAAAATATAT
* *
14782902 AAAAAAATGAAAGACCAAATTGAAAAGTAAAAGAAAATTAAAGTGCCAAATAAAAAAACACAAG
1 AAAAAAATGAAAGACCAAATTGAAAAGTAAAACAAAATTAAAGTGCAAAATAAAAAAACACAAG
* * * * *
14782966 AAAAACAATTAAAGGACCAAATTG-AAATTTAAACAAAATTTAAG-GCAAAAATTAAAAAA
1 AAAAA-AATGAAA-GACCAAATTGAAAAGTAAAACAAAATTAAAGTGC-AAAATAAAAAAA
14783025 TGAAATAGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
64 7 0.14
65 32 0.65
66 10 0.20
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.16
Consensus pattern (64 bp):
AAAAAAATGAAAGACCAAATTGAAAAGTAAAACAAAATTAAAGTGCAAAATAAAAAAACACAAG
Found at i:14787850 original size:19 final size:20
Alignment explanation
Indices: 14787828--14787865 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
14787818 AAAAGTTATA
*
14787828 AAAAAGATTAAAT-TTTAAT
1 AAAAAGATAAAATATTTAAT
*
14787847 AAAAATATAAAATATTTAA
1 AAAAAGATAAAATATTTAA
14787866 AATTTATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAAGATAAAATATTTAAT
Found at i:14787917 original size:29 final size:29
Alignment explanation
Indices: 14787885--14787976 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
14787875 AAAATTAGAA
14787885 AAAAATTTATAAAAATCGTAAAAAATTAT
1 AAAAATTTATAAAAATCGTAAAAAATTAT
* *
14787914 -AAAATATATAGAAAT-GTGGAAAAAATTAT
1 AAAAATTTATAAAAATCGT--AAAAAATTAT
* *
14787943 AAAATTTTAT-AAAGTCGTAAGAAAATTAT
1 AAAAATTTATAAAAATCGTAA-AAAATTAT
14787972 AAAAA
1 AAAAA
14787977 AATGTAAAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
27 2 0.04
28 15 0.29
29 25 0.49
30 9 0.18
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (29 bp):
AAAAATTTATAAAAATCGTAAAAAATTAT
Found at i:14788222 original size:9 final size:9
Alignment explanation
Indices: 14788201--14788271 Score: 70
Period size: 9 Copynumber: 7.4 Consensus size: 9
14788191 TTTTGATGTG
14788201 TTTTATAATT
1 TTTTATAA-T
*
14788211 TTTTATGAT
1 TTTTATAAT
*
14788220 TTTTATAGAA
1 TTTTATA-AT
*
14788230 TTTTACAAT
1 TTTTATAAT
14788239 TTTTATAAT
1 TTTTATAAT
*
14788248 TTTTTTACATT
1 TTTTATA-A-T
14788259 TTTTATAAT
1 TTTTATAAT
14788268 TTTT
1 TTTT
14788272 TTTTTCTAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
9 27 0.54
10 16 0.32
11 7 0.14
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:14788223 original size:19 final size:19
Alignment explanation
Indices: 14788201--14788272 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
14788191 TTTTGATGTG
*
14788201 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTATAAT
* *
14788220 TTTTATAGA-ATTTTACAAT
1 TTTTATA-ATTTTTTATAAT
14788239 TTTTATAATTTTTT-TACATT
1 TTTTATAATTTTTTATA-A-T
14788259 TTTTATAATTTTTT
1 TTTTATAATTTTTT
14788273 TTTTCTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.05
19 26 0.59
20 16 0.36
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:14788285 original size:10 final size:10
Alignment explanation
Indices: 14788201--14788272 Score: 71
Period size: 10 Copynumber: 7.4 Consensus size: 10
14788191 TTTTGATGTG
14788201 TTTTATAATT
1 TTTTATAATT
*
14788211 TTTTATGA-T
1 TTTTATAATT
*
14788220 TTTTATAGA-A
1 TTTTATA-ATT
*
14788230 TTTTACAA-T
1 TTTTATAATT
14788239 TTTTATAATT
1 TTTTATAATT
14788249 TTTT-TACATT
1 TTTTATA-ATT
14788259 TTTTATAATT
1 TTTTATAATT
14788269 TTTT
1 TTTT
14788273 TTTTCTAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
9 17 0.33
10 33 0.63
11 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:14788294 original size:26 final size:25
Alignment explanation
Indices: 14788246--14788338 Score: 91
Period size: 26 Copynumber: 3.6 Consensus size: 25
14788236 AATTTTTATA
*
14788246 ATTTTTTTACATTTTT--TATAATTT
1 ATTTTTTTA-ATTTTTAATAAAATTT
*
14788270 TTTTTTTCTAATTTTTAATAAAATTT
1 ATTTTTT-TAATTTTTAATAAAATTT
* *
14788296 AATTTTTTATATTTTTATTAAAATTT
1 ATTTTTTTA-ATTTTTAATAAAATTT
*
14788322 ATTTTTTATAACTTTTA
1 ATTTTTT-TAATTTTTA
14788339 TTGATTTCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
24 12 0.21
25 4 0.07
26 39 0.68
27 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (25 bp):
ATTTTTTTAATTTTTAATAAAATTT
Found at i:14788301 original size:25 final size:26
Alignment explanation
Indices: 14788273--14788331 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
14788263 ATAATTTTTT
14788273 TTTTCTA-ATTTTTAATAAAATTTAA
1 TTTTCTATATTTTTAATAAAATTTAA
* *
14788298 TTTTTTATATTTTTATTAAAATTT-A
1 TTTTCTATATTTTTAATAAAATTTAA
*
14788323 TTTTTTATA
1 TTTTCTATA
14788332 ACTTTTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTCTATATTTTTAATAAAATTTAA
Found at i:14788339 original size:26 final size:26
Alignment explanation
Indices: 14788257--14788340 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
14788247 TTTTTTTACA
* * *
14788257 TTTT-TTATAATTTTTTTTTTCTAAT
1 TTTTATTAAAATTTATTTTTTATAAT
*
14788282 TTTTAATAAAATTTAATTTTTTAT-AT
1 TTTTATTAAAATTT-ATTTTTTATAAT
*
14788308 TTTTATTAAAATTTATTTTTTATAAC
1 TTTTATTAAAATTTATTTTTTATAAT
14788334 TTTTATT
1 TTTTATT
14788341 GATTTCTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
25 13 0.26
26 30 0.60
27 7 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTATTAAAATTTATTTTTTATAAT
Found at i:14788653 original size:86 final size:90
Alignment explanation
Indices: 14788479--14788675 Score: 208
Period size: 86 Copynumber: 2.2 Consensus size: 90
14788469 TTCTATTACT
** *
14788479 CAATTGAGTGAAAAAAAAATTAGAGACTTAATTATTTTTTTCTTAAAAAAGTTTGAAGATCTTTT
1 CAATTGAGTGAAAAAAAAAGCAGAGACTTAATTATTTTTTTCTTAAAAAAGCTTGAAGATCTTTT
* * *
14788544 TGATGCATTTTGAAAGTTAAAATATC
66 TGATGCATTATAAAAATTAAAATA-C
* * *
14788570 CAATTGAGTG-AAAAAAAAGCA-AGGCTTAA-T-TTTTTTT-TTGAAAAAGCTTG-AGAGTTTTT
1 CAATTGAGTGAAAAAAAAAGCAGAGACTTAATTATTTTTTTCTTAAAAAAGCTTGAAGA-TCTTT
* *
14788629 TTGATGTATTATAAAAATTCAAATAC
65 TTGATGCATTATAAAAATTAAAATAC
*
14788655 CTAATTGAATGCAAAAAAAAA
1 C-AATTGAGTG-AAAAAAAAA
14788676 AAAAAAAAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
85 5 0.06
86 43 0.48
87 7 0.08
88 9 0.10
89 7 0.08
90 9 0.10
91 10 0.11
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.37
Consensus pattern (90 bp):
CAATTGAGTGAAAAAAAAAGCAGAGACTTAATTATTTTTTTCTTAAAAAAGCTTGAAGATCTTTT
TGATGCATTATAAAAATTAAAATAC
Found at i:14797609 original size:332 final size:332
Alignment explanation
Indices: 14797003--14797667 Score: 1186
Period size: 332 Copynumber: 2.0 Consensus size: 332
14796993 CTACCGATAC
*
14797003 ATGTGACACTACTATCGAAACAAGTCATGATTTTACCGATACTAAAAACTCTAGAAGGCTAAGAA
1 ATGTGACACTACTATCGAAACAAGTCATGATTCTACCGATACTAAAAACTCTAGAAGGCTAAGAA
** *
14797068 GTTCTACCCTACCACTTCTACCGATGTAAGTTCACAAGTAACCGATACTTATATGAGTAGAACTA
66 GTTCTACCCTACCACTTCTACCGATACAAGTTCACAAGCAACCGATACTTATATGAGTAGAACTA
**
14797133 CCGATACTTATCTTTCATCTACCGATACAAATCAGGTCAGTGAGCAACCTCTCTTTTACCCTATA
131 CCGATACTTATCTTTCATCTACCGATACAAATCAGGTCAGTGAGCAACCTCTCTCCTACCCTATA
*
14797198 CTTCTACCGATACAATCATGCGTTCTACCGAAACAAGTATACAGATATCAATTATATACATAAAT
196 CTTCTACCGATACAACCATGCGTTCTACCGAAACAAGTATACAGATATCAATTATATACATAAAT
14797263 TTCCAAGTTTGCACAACAATCTACAACATTTACCAATTTCTCAAAATCATACCTATCAAATCATT
261 TTCCAAGTTTGCACAACAATCTACAACATTTACCAATTTCTCAAAATCATACCTATCAAATCATT
14797328 CATCTAA
326 CATCTAA
* *
14797335 ATGTGACATTACTATCGAAACAAGTCATGCTTCTACCGATACTAAAAACTCTAGAAGGCTAAGAA
1 ATGTGACACTACTATCGAAACAAGTCATGATTCTACCGATACTAAAAACTCTAGAAGGCTAAGAA
* *
14797400 GTTCTACCCTGCCACTTCTACCGATACAAGTTCACAAGCAACCGATACTTCTATGAGTAGAACTA
66 GTTCTACCCTACCACTTCTACCGATACAAGTTCACAAGCAACCGATACTTATATGAGTAGAACTA
* *
14797465 CCGATACTTATCTTTCATCTACCGATACAAATCAGGTCAGTGAGCAACCTCTCTCCTACCTTGTA
131 CCGATACTTATCTTTCATCTACCGATACAAATCAGGTCAGTGAGCAACCTCTCTCCTACCCTATA
* * *
14797530 CTTCTACCGATACAACCATGGGTTCTACCGAAACAAGTATGCAGATGTCAATTATATACATAAAT
196 CTTCTACCGATACAACCATGCGTTCTACCGAAACAAGTATACAGATATCAATTATATACATAAAT
14797595 TTCCAAGTTTGCACAACAATCTACAACATTTACCAATTTCTCAAAATCATACCTATCAAATCATT
261 TTCCAAGTTTGCACAACAATCTACAACATTTACCAATTTCTCAAAATCATACCTATCAAATCATT
14797660 CATCTAA
326 CATCTAA
14797667 A
1 A
14797668 AGATATCATG
Statistics
Matches: 317, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
332 317 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (332 bp):
ATGTGACACTACTATCGAAACAAGTCATGATTCTACCGATACTAAAAACTCTAGAAGGCTAAGAA
GTTCTACCCTACCACTTCTACCGATACAAGTTCACAAGCAACCGATACTTATATGAGTAGAACTA
CCGATACTTATCTTTCATCTACCGATACAAATCAGGTCAGTGAGCAACCTCTCTCCTACCCTATA
CTTCTACCGATACAACCATGCGTTCTACCGAAACAAGTATACAGATATCAATTATATACATAAAT
TTCCAAGTTTGCACAACAATCTACAACATTTACCAATTTCTCAAAATCATACCTATCAAATCATT
CATCTAA
Found at i:14798164 original size:49 final size:48
Alignment explanation
Indices: 14798111--14798227 Score: 121
Period size: 48 Copynumber: 2.4 Consensus size: 48
14798101 TAGCTCATAC
*
14798111 AAGCCCAGACAACTTTAGCTCACACGAG-CTCAGAATGGTTAGCTCTCAG
1 AAGCCCAGA-AACGTTAGCTCACACGAGCCT-AGAATGGTTAGCTCTCAG
** ** *
14798160 AAGCCCAGAATGGTTAGCTCTTACGAGCCTAGAATGGTTAGCTCTTACG
1 AAGCCCAGAAACGTTAGCTCACACGAGCCTAGAATGGTTAGCTCTCA-G
**
14798209 -AGCCCAGAATGGTTAGCTC
1 AAGCCCAGAAACGTTAGCTC
14798228 TTACGAGCGC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
48 48 0.80
49 12 0.20
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (48 bp):
AAGCCCAGAAACGTTAGCTCACACGAGCCTAGAATGGTTAGCTCTCAG
Found at i:14798168 original size:24 final size:24
Alignment explanation
Indices: 14798125--14798235 Score: 161
Period size: 24 Copynumber: 4.6 Consensus size: 24
14798115 CCAGACAACT
** *
14798125 TTAGCTCACACGAGCTCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
14798149 TTAGCTCTCA-GAAGCCCAGAATGG
1 TTAGCTCTTACG-AGCCCAGAATGG
*
14798173 TTAGCTCTTACGAGCCTAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
14798197 TTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
14798221 TTAGCTCTTACGAGC
1 TTAGCTCTTACGAGC
14798236 GCAAACAGAG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 78 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:14815775 original size:20 final size:21
Alignment explanation
Indices: 14815739--14815785 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
14815729 AGATTATCAT
*
14815739 CAAAATTATGTTAAAAGTTAG
1 CAAAATTATGATAAAAGTTAG
14815760 CAAAATTAT-ATAAAAGTTAG
1 CAAAATTATGATAAAAGTTAG
*
14815780 AAAAAT
1 CAAAAT
14815786 GGTATAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.30
Consensus pattern (21 bp):
CAAAATTATGATAAAAGTTAG
Found at i:14815791 original size:20 final size:20
Alignment explanation
Indices: 14815750--14815798 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
14815740 AAAATTATGT
* *
14815750 TAAAAGTTAGCAAAATTATA
1 TAAAAGTTAGAAAAATGATA
*
14815770 TAAAAGTTAGAAAAATGGTA
1 TAAAAGTTAGAAAAATGATA
*
14815790 TAAATGTTA
1 TAAAAGTTA
14815799 TCTAATTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (20 bp):
TAAAAGTTAGAAAAATGATA
Found at i:14818233 original size:29 final size:29
Alignment explanation
Indices: 14818177--14818247 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
14818167 TTTTTATTTG
* * ** *
14818177 AGGTTTTCAAGTTTTGGGATTTTTGTTTA
1 AGGTTTTCAATTTTTGAGATAGTAGTTTA
*
14818206 GGGTTTTCAATTTTTGAGATAGTAGTTTA
1 AGGTTTTCAATTTTTGAGATAGTAGTTTA
*
14818235 AGGTTTTCGATTT
1 AGGTTTTCAATTT
14818248 GGCTACTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.20, C:0.04, G:0.24, T:0.52
Consensus pattern (29 bp):
AGGTTTTCAATTTTTGAGATAGTAGTTTA
Found at i:14823384 original size:30 final size:31
Alignment explanation
Indices: 14823348--14823414 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
14823338 AAAAGTTACT
*
14823348 ATTTAATT-ATTGAATTA-TCTAAAAATTTTC
1 ATTTAATTCATTGAATTAGT-AAAAAATTTTC
14823378 ATTTAATTCATTGAATTAGTAAAAAATTTTC
1 ATTTAATTCATTGAATTAGTAAAAAATTTTC
14823409 ATTTAA
1 ATTTAA
14823415 GTCAATTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.24
31 25 0.74
32 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (31 bp):
ATTTAATTCATTGAATTAGTAAAAAATTTTC
Found at i:14825094 original size:15 final size:15
Alignment explanation
Indices: 14825074--14825139 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
14825064 ACTACAAAAA
14825074 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
14825089 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
14825108 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
14825123 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
14825136 ATTT
1 ATTT
14825140 TCAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:14825189 original size:16 final size:16
Alignment explanation
Indices: 14825158--14825194 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14825148 ATGTGAAGAA
14825158 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
14825174 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
14825190 TATTA
1 TATTA
14825195 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:14825543 original size:22 final size:22
Alignment explanation
Indices: 14825518--14825568 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
14825508 CTTATTTTAT
*
14825518 GTTGACCTATAAGTTATTATCC
1 GTTGACCTATAAGTCATTATCC
14825540 GTTGACCTATAAGTCATTATCC
1 GTTGACCTATAAGTCATTATCC
*
14825562 ATTGACC
1 GTTGACC
14825569 AAGTTACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (22 bp):
GTTGACCTATAAGTCATTATCC
Found at i:14829705 original size:25 final size:25
Alignment explanation
Indices: 14829677--14829725 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14829667 GAGTCAAAGT
* *
14829677 AATTAAATTAACTCAATTAATTAAG
1 AATTAAATAAACCCAATTAATTAAG
* *
14829702 AATTTAATAAACCCAATTTATTAA
1 AATTAAATAAACCCAATTAATTAA
14829726 TGAAATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (25 bp):
AATTAAATAAACCCAATTAATTAAG
Found at i:14834522 original size:21 final size:21
Alignment explanation
Indices: 14834498--14834548 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
14834488 ATGCTAGCTA
* *
14834498 TACCGATACCAGT-ATGATTT
1 TACCGATACAAGTCATGAATT
14834518 CTACCGATACAAGTCATGAATT
1 -TACCGATACAAGTCATGAATT
14834540 TACCGATAC
1 TACCGATAC
14834549 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (21 bp):
TACCGATACAAGTCATGAATT
Found at i:14846645 original size:7 final size:7
Alignment explanation
Indices: 14846633--14846665 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
14846623 ATTACTTAGA
14846633 TTAGTTT
1 TTAGTTT
14846640 TTAG-TT
1 TTAGTTT
14846646 TTAGTTT
1 TTAGTTT
14846653 TTAGTTT
1 TTAGTTT
*
14846660 TCAGTT
1 TTAGTT
14846666 GTGAAACGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (7 bp):
TTAGTTT
Found at i:14846651 original size:13 final size:13
Alignment explanation
Indices: 14846633--14846665 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
14846623 ATTACTTAGA
14846633 TTAGTTTTTAGTT
1 TTAGTTTTTAGTT
14846646 TTAGTTTTTAGTT
1 TTAGTTTTTAGTT
14846659 TTCAGTT
1 TT-AGTT
14846666 GTGAAACGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (13 bp):
TTAGTTTTTAGTT
Found at i:14849982 original size:52 final size:50
Alignment explanation
Indices: 14849920--14850160 Score: 162
Period size: 52 Copynumber: 4.8 Consensus size: 50
14849910 TTCATTAAAA
* *
14849920 AAAGAGAAAGTTTATATTTTTAAAAATAAAAATTTTATTTTTTAGTTATTTT
1 AAAGAAAAAGTTTAAATTTTT--AAATAAAAATTTTATTTTTTAGTTATTTT
**
14849972 AAAGAAAAAGTTTAAATTTTTAAAT-AAAATTTTGATTTTTTTTAACTATTTCT
1 AAAGAAAAAGTTTAAATTTTTAAATAAAAATTTT-A--TTTTTTAGTTATTT-T
* * * * * * * **
14850025 AAA-TAAAAGTTTGAATTTTTAAGT-AAAGTAGTGA-TTTTCA-TTA--AC
1 AAAGAAAAAGTTTAAATTTTTAAATAAAAAT-TTTATTTTTTAGTTATTTT
* *
14850070 AAAAAAAAAGTTTATATTTTTTAAAAATAAAAA---TATGTTTTTAGTTATTTT
1 AAAGAAAAAGTTTA-AATTTTT--AAATAAAAATTTTAT-TTTTTAGTTATTTT
*
14850121 AAAG-AAAAGTTTAAATTTTTAAATAAAATTTTTATTTTTT
1 AAAGAAAAAGTTTAAATTTTTAAATAAAAATTTTATTTTTT
14850161 TAACTATTTC
Statistics
Matches: 145, Mismatches: 26, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
45 3 0.02
46 9 0.06
47 14 0.10
48 7 0.05
49 30 0.21
50 20 0.14
51 3 0.02
52 54 0.37
53 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (50 bp):
AAAGAAAAAGTTTAAATTTTTAAATAAAAATTTTATTTTTTAGTTATTTT
Found at i:14849993 original size:149 final size:149
Alignment explanation
Indices: 14849717--14850364 Score: 765
Period size: 149 Copynumber: 4.4 Consensus size: 149
14849707 AAGTTTTGGG
* * * * * * * *
14849717 TTTTTTTTAAACAATTTCAAAATAAAAACTTTAAATTTTAAGTAAATTATTGATTTTCTTTAAAA
1 TTTTTTTT-AACTATTTCGAAATAAAAATTTTGATTTTTAAGTAAAGTAGTGATTTTCATT-AAA
* * * *
14849782 AAAAAAGAAAGTCTAGATTTTTAAAAAT-AAAA--A---TCTAGTT-TTTT--AG-AAAAGTTTA
64 AAAAGAGAAAGTTTATATTTTTAAAAATAAAAATTATTTTTTAGTTATTTTAAAGAAAAAGTTTA
*
14849837 AATTTTTAAACAAAGTTTTGA
129 AATTTTTAAACAAAATTTTGA
*
14849858 -TTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAG-AAAGTAGTGATTTTCATTAAAAA
1 TTTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAA
14849921 AAGAGAAAGTTTATATTTTTAAAAATAAAAATTTTATTTTTTAGTTATTTTAAAGAAAAAGTTTA
66 AAGAGAAAGTTTATATTTTTAAAAATAAAAA--TTATTTTTTAGTTATTTTAAAGAAAAAGTTTA
*
14849986 AATTTTTAAATAAAATTTTGA
129 AATTTTTAAACAAAATTTTGA
* *
14850007 TTTTTTTTAACTATTTCTAAAT-AAAAGTTTGAATTTTTAAGTAAAGTAGTGATTTTCATTAACA
1 TTTTTTTTAACTATTTCGAAATAAAAATTTTG-ATTTTTAAGTAAAGTAGTGATTTTCATTAA-A
14850071 AAAA-A-AAAGTTTATATTTTTTAAAAATAAAAA-TATGTTTTTAGTTATTTTAAAG-AAAAGTT
64 AAAAGAGAAAGTTTATA-TTTTTAAAAATAAAAATTAT-TTTTTAGTTATTTTAAAGAAAAAGTT
* *
14850132 TAAATTTTTAAATAAAATTTTTA
127 TAAATTTTTAAACAAAATTTTGA
* *
14850155 -TTTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTAAGTAGAGTAGTGATTTTCATTAAAAA
1 TTTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAA
* * * * *
14850219 AAGAAAGGAAGTTTAGATTTTAAAGAAATAAAAATCTGTTTTTTAGTGATTTTAAAGAAAAAAGT
66 AAG--AGAAAGTTTATATTTTTAA-AAATAAAAAT-TATTTTTTAGTTATTTTAAAG-AAAAAGT
* *
14850284 TTAAATTTTTAAACAAAGTTCTGA
126 TTAAATTTTTAAACAAAATTTTGA
* * *
14850308 TTTTTTTTAATTATTTCGAAATAAAAAGTTTTGATTTTGAAGTAGAGTAGTGATTTT
1 TTTTTTTTAACTATTTCGAAATAAAAA-TTTTGATTTTTAAGTAAAGTAGTGATTTT
14850365 ATTTTAATCA
Statistics
Matches: 442, Mismatches: 35, Indels: 46
0.85 0.07 0.09
Matches are distributed among these distances:
137 28 0.06
138 19 0.04
139 27 0.06
140 7 0.02
142 1 0.00
145 6 0.01
146 9 0.02
147 49 0.11
148 41 0.09
149 60 0.14
150 56 0.13
151 54 0.12
152 7 0.02
153 26 0.06
154 24 0.05
155 28 0.06
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (149 bp):
TTTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAA
AAGAGAAAGTTTATATTTTTAAAAATAAAAATTATTTTTTAGTTATTTTAAAGAAAAAGTTTAAA
TTTTTAAACAAAATTTTGA
Found at i:14850080 original size:150 final size:146
Alignment explanation
Indices: 14849828--14850364 Score: 731
Period size: 150 Copynumber: 3.6 Consensus size: 146
14849818 AGTTTTTTAG
* * *
14849828 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
1 AAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTTGATTT
14849893 TTAAG-AAAGTAGTGATTTTCATTAAAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATTTTA
66 TTAAGTAAAGTAGTGATTTTCATTAAAAAAA-A-AAAGTTTATATTTTTAAAAATAAAAA--TTA
14849957 TTTTTTAGTTATTTTAAAGA
127 TTTTTTAGTTATTTTAAAGA
* *
14849977 AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTTAACTATTTCTAAATAAAAG-TTTGAAT
1 AAAAGTTTAAATTTTTAAACAAAATTTTGA-TTTTTTTAACTATTTCGAAATAAAAGTTTTG-AT
14850041 TTTTAAGTAAAGTAGTGATTTTCATTAACAAAAAAAAAGTTTATATTTTTTAAAAATAAAAA-TA
64 TTTTAAGTAAAGTAGTGATTTTCATTAA-AAAAAAAAAGTTTATA-TTTTTAAAAATAAAAATTA
14850105 TGTTTTTAGTTATTTTAAAG-
127 T-TTTTTAGTTATTTTAAAGA
* *
14850125 AAAAGTTTAAATTTTTAAATAAAATTTTTATTTTTTTAACTATTTCGAAATAAAAGTTTTGATTT
1 AAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTTGATTT
* * *
14850190 TTAAGTAGAGTAGTGATTTTCATTAAAAAAAGAAAGGAAGTTTAGATTTTAAAGAAATAAAAATC
66 TTAAGTAAAGTAGTGATTTTCATT-AAAAAA-AAA--AAGTTTATATTTTTAA-AAATAAAAAT-
* *
14850255 TGTTTTTTAGTGATTTTAAAGAA
125 TATTTTTTAGTTATTTTAAAG-A
* * *
14850278 AAAAGTTTAAATTTTTAAACAAAGTTCTGATTTTTTTTAATTATTTCGAAATAAAAAGTTTTGAT
1 AAAAGTTTAAATTTTTAAACAAAATTTTGA-TTTTTTTAACTATTTCGAAAT-AAAAGTTTTGAT
* *
14850343 TTTGAAGTAGAGTAGTGATTTT
64 TTTTAAGTAAAGTAGTGATTTT
14850365 ATTTTAATCA
Statistics
Matches: 352, Mismatches: 18, Indels: 30
0.88 0.05 0.08
Matches are distributed among these distances:
147 56 0.16
148 41 0.12
149 55 0.16
150 60 0.17
151 54 0.15
152 7 0.02
153 26 0.07
154 20 0.06
155 33 0.09
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (146 bp):
AAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTTGATTT
TTAAGTAAAGTAGTGATTTTCATTAAAAAAAAAAAGTTTATATTTTTAAAAATAAAAATTATTTT
TTAGTTATTTTAAAGA
Found at i:14850159 original size:20 final size:20
Alignment explanation
Indices: 14850107--14850160 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
14850097 TAAAAATATG
14850107 TTTTTAGTTATTTTAAAGAAAA
1 TTTTTA-TT-TTTTAAAGAAAA
* * * *
14850129 GTTTAAATTTTTAAATAAAA
1 TTTTTATTTTTTAAAGAAAA
14850149 TTTTTATTTTTT
1 TTTTTATTTTTT
14850161 TAACTATTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
20 20 0.80
21 1 0.04
22 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTTATTTTTTAAAGAAAA
Found at i:14851328 original size:21 final size:21
Alignment explanation
Indices: 14851303--14851342 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14851293 AATTTTTACG
14851303 AATTTAAAAGT-TAGATAAAAA
1 AATTTAAAAGTAT-GATAAAAA
*
14851324 AATTTTAAAGTATGATAAA
1 AATTTAAAAGTATGATAAA
14851343 TCATAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (21 bp):
AATTTAAAAGTATGATAAAAA
Found at i:14851839 original size:239 final size:240
Alignment explanation
Indices: 14851410--14851892 Score: 853
Period size: 239 Copynumber: 2.0 Consensus size: 240
14851400 AAATCTTTTA
*
14851410 AAATCATAATAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATATTTCTCTTAATTCAT
1 AAATCATAATAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATAATTCTCTTAATTCAT
*
14851475 TAGTAATTTTTTTTAGGGTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATT
66 TAGTAATTCTTTTTAGGGTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATT
14851540 TTACTAGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTT
131 TTACTAGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTT
*
14851605 AAAATTAGATAAGTTTGGTGAACACGTCTTAGTCAAGTTACAAGT
196 AAAATTAGATAAGTTTGGTGAACACATCTTAGTCAAGTTACAAGT
* *
14851650 AAATCA-AAGTAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATAATTCTCTTAATTTA
1 AAATCATAA-TAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATAATTCTCTTAATTCA
*
14851714 TTAGTAATTCTTTTTA-GGTTTTTTAGGATTCTAAAATAGAATTAATTTTACGAATTGAAAGTAT
65 TTAGTAATTCTTTTTAGGGTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTAT
* *
14851778 TTTATTAGAATTATTTAGGTATCTTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTT
130 TTTACTAGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTT
* *
14851843 TTAAATTAGATAAGTTTGGTGAACACATCTTAGTTAAGTTACAAGT
195 TAAAATTAGATAAGTTTGGTGAACACATCTTAGTCAAGTTACAAGT
14851889 AAAT
1 AAAT
14851893 TGGAGGCATT
Statistics
Matches: 232, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
239 159 0.69
240 73 0.31
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (240 bp):
AAATCATAATAATGATAAAAGATCGAATAAGTTATAGATGAATTTTAATAATTCTCTTAATTCAT
TAGTAATTCTTTTTAGGGTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATT
TTACTAGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTT
AAAATTAGATAAGTTTGGTGAACACATCTTAGTCAAGTTACAAGT
Found at i:14860081 original size:14 final size:14
Alignment explanation
Indices: 14860062--14860090 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14860052 TGGATAATTC
14860062 TATAGGTTGTGTTT
1 TATAGGTTGTGTTT
14860076 TATAGGTTGTGTTT
1 TATAGGTTGTGTTT
14860090 T
1 T
14860091 GAGGCAACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (14 bp):
TATAGGTTGTGTTT
Found at i:14863393 original size:12 final size:12
Alignment explanation
Indices: 14863378--14863419 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
14863368 GAAAATACAA
14863378 AAAAAAAATTAG
1 AAAAAAAATTAG
*
14863390 AAAAGAAAA-AAG
1 AAAA-AAAATTAG
14863402 -AAAAAAATTAG
1 AAAAAAAATTAG
14863413 AAAAAAA
1 AAAAAAA
14863420 TAGAAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 4 0.16
11 5 0.20
12 12 0.48
13 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (12 bp):
AAAAAAAATTAG
Found at i:14863884 original size:42 final size:42
Alignment explanation
Indices: 14863825--14864325 Score: 630
Period size: 42 Copynumber: 11.9 Consensus size: 42
14863815 AAGGAAAGCA
* *
14863825 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
* *
14863867 TTCATCGAATTCAGAGG-CCAAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAA-GTGTGGAGGCCCATTTACTT
*
14863909 TTCATCGCATTCAGAGGCCC-AGATGTGGAGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAG-TGTGGAGGCCCATTTACTT
*
14863951 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
* * *
14863993 TTCTTTGCATTCAGAGG-TCAAGGTGTGGATGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAA-GTGTGGAGGCCCATTTACTT
* * ** * *
14864035 TTCTTTGCATTTATTGGCCCAGGTGTGAAGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
* *
14864077 TTCATCGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
* *
14864119 TTCATTGCATTCAGAGGCCCAGGTGTGGAGCCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
* * * *
14864161 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
* * * * *
14864203 TTCATTGTATTTAGAAGTCCAAGTGTGAAGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
* * *
14864245 TTCATTGCATTTAGAAGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
* * * * *
14864287 TTTATTGCATTTAGAGGCCTAAGTGTAGAGGTCCATTTA
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTA
14864326 TTTATTTTTT
Statistics
Matches: 406, Mismatches: 47, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
41 7 0.02
42 394 0.97
43 5 0.01
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (42 bp):
TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
Found at i:14864054 original size:126 final size:126
Alignment explanation
Indices: 14863825--14864325 Score: 696
Period size: 126 Copynumber: 4.0 Consensus size: 126
14863815 AAGGAAAGCA
* * * *
14863825 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTTCATCGAATTCAGAGGCCAAGG
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGG
* * *
14863890 TGTGGAGGCCCATTTACTTTTCATCGCATTCAGAGGCCCAGATGTGGAGGCCCATTTACTT
66 TGTGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
14863951 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCTTTGCATTCAGAGGTCAAGG
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGG
* * ** *
14864016 TGTGGATGCCCATTTACTTTTCTTTGCATTTATTGGCCCAGGTGTGAAGGCCCATTTACTT
66 TGTGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
14864077 TTCATCGCATTCAGAGGCCCAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCCAGG
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGG
* * *
14864142 TGTGGAGCCCCATTTACTTTTCATTGCATTTAGAGGCTCAGGTGTGGAGGTCCATTTACTT
66 TGTGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * * * * * *
14864203 TTCATTGTATTTAGAAGTCCAAGTGTGAAGGCCCATTTACTTTTCATTGCATTTAGAAGCCCAGG
1 TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGG
* * * * *
14864268 TGTGGAGGCCCATTTACTTTTTATTGCATTTAGAGGCCTAAGTGTAGAGGTCCATTTA
66 TGTGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTA
14864326 TTTATTTTTT
Statistics
Matches: 333, Mismatches: 42, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 333 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (126 bp):
TTCATTGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAGGCCAAGG
TGTGGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
Found at i:14864780 original size:3 final size:3
Alignment explanation
Indices: 14864772--14864823 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
14864762 AAAGGCCCAA
14864772 ATT ATT ATT ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14864818 ATT ATT
1 ATT ATT
14864824 TTTAGGGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14865401 original size:96 final size:97
Alignment explanation
Indices: 14865229--14865433 Score: 276
Period size: 96 Copynumber: 2.1 Consensus size: 97
14865219 AAAATAGCTT
*
14865229 GATTTTGAAAAAAGTTTTGGTTTTTTTAAACAATTTCTAAATAAAAACTTTGATTTTTAAGTAAA
1 GATTTTGAAAAAAGTTTTGATTTTTTTAAACAATTTCTAAATAAAAACTTTGATTTTTAAGTAAA
* * *
14865294 ATAGTGATTTTCTTTAAAAAAGAGAGAGTTTA
66 ATAGTGATTTTCATTAAAAAAAAGAAAGTTTA
* *
14865326 GATTTTTAAACAAAGTTTTGATTTTTTT-AACTATTT-TAAA-ATAAAACTTTAGATTTTTAAG-
1 GATTTTGAAA-AAAGTTTTGATTTTTTTAAACAATTTCTAAATA-AAAACTTT-GATTTTTAAGT
*
14865387 AAATTAGTGATTTTCATTAAAAAAAAGAAAGTTTA
63 AAAATAGTGATTTTCATTAAAAAAAAGAAAGTTTA
*
14865422 TATTTT-AAAAAA
1 GATTTTGAAAAAA
14865434 TAAAATATTT
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
94 3 0.03
95 4 0.04
96 48 0.49
97 26 0.27
98 16 0.16
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (97 bp):
GATTTTGAAAAAAGTTTTGATTTTTTTAAACAATTTCTAAATAAAAACTTTGATTTTTAAGTAAA
ATAGTGATTTTCATTAAAAAAAAGAAAGTTTA
Found at i:14865479 original size:95 final size:96
Alignment explanation
Indices: 14865249--14865496 Score: 227
Period size: 96 Copynumber: 2.6 Consensus size: 96
14865239 AAAGTTTTGG
* * *
14865249 TTTTTTTAAACAATTTCT-AAATAAAAACTTT-GATTTTTAAGTAAAATAGTGATTTTCTTTAAA
1 TTTTTTT-AACTATTT-TAAAAT-AAAACTTTAAATTTTTAAGTAAAATAGTGATTTTCATTAAA
* * * * ** *
14865312 AAAGAGAGAGTTTAGATTTTTAAACAAAGTTTTGA
63 AAAAAGAAAGTTTAGATTTTAAAAAAAAAATAT-A
* *
14865347 TTTTTTTAACTATTTTAAAATAAAACTTTAGATTTTTAAG-AAATTAGTGATTTTCATTAAAAAA
1 TTTTTTTAACTATTTTAAAATAAAACTTTAAATTTTTAAGTAAAATAGTGATTTTCATTAAAAAA
*
14865411 AAGAAAGTTTATATTTTAAAAAATAAAATAT-
66 AAGAAAGTTTAGATTTTAAAAAA-AAAATATA
** ** * **
14865442 TTTTTTTAGTTATTTTAAAGA-AAATGTTTAAATTTTTAAATAAAATTTTGATTTT
1 TTTTTTTAACTATTTTAAA-ATAAAACTTTAAATTTTTAAGTAAAATAGTGATTTT
14865497 TCAACTATTT
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
95 32 0.26
96 61 0.49
97 25 0.20
98 7 0.06
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (96 bp):
TTTTTTTAACTATTTTAAAATAAAACTTTAAATTTTTAAGTAAAATAGTGATTTTCATTAAAAAA
AAGAAAGTTTAGATTTTAAAAAAAAAATATA
Found at i:14865481 original size:146 final size:148
Alignment explanation
Indices: 14865320--14865696 Score: 528
Period size: 148 Copynumber: 2.5 Consensus size: 148
14865310 AAAAAGAGAG
* * * *
14865320 AGTTTAGATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTTAAAATAAAACTTTAGATTTTTA
1 AGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTTTA
* *
14865385 AGAAATTAGTGATTTTCA-TTAAAAAAAAGAAAGTTTATATTTTAAAAAAT-AAAATATT-TTTT
66 AGAAAGTAGTGATTTTCATTTAAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAAT-TTGTTTT
*
14865447 TTAGTTATTTTAAAGAAAA
130 TTAGTGATTTTAAAGAAAA
* * * *
14865466 TGTTTAAATTTTTAAATAAAATTTTGA-TTTTTCAACTATTTTGAAATAAAAGTTTTGATTTTTA
1 AGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTTTA
* *
14865530 AGTATAGTAGTGATTTTCATTTTAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAATTTGTTTT
66 AG-AAAGTAGTGATTTTCATTTAAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAATTTGTTTT
14865595 TTAGTGATTTTAAAGAAAA
130 TTAGTGATTTTAAAGAAAA
* * * *
14865614 AGTTTAAATTTTTAATCAAAGTTTTGATTTTTTTTAATTATTTCGAAATAAAAGTTTTGATTTTG
1 AGTTTAAATTTTTAAACAAAGTTTTGA-TTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTTT
*
14865679 AATTAAAGTAGTGATTTT
65 AA-GAAAGTAGTGATTTT
14865697 GTTTTAATCA
Statistics
Matches: 201, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
145 35 0.17
146 37 0.18
147 32 0.16
148 50 0.25
150 47 0.23
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (148 bp):
AGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTTTA
AGAAAGTAGTGATTTTCATTTAAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAATTTGTTTTT
TAGTGATTTTAAAGAAAA
Found at i:14865595 original size:21 final size:22
Alignment explanation
Indices: 14865548--14865589 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14865538 AGTGATTTTC
*
14865548 ATTTTAAAAAAAGAAAGTTTAG
1 ATTTTAAAAAAAGAAAATTTAG
14865570 ATTTTAAAAAATA-AAAATTT
1 ATTTTAAAAAA-AGAAAATTT
14865590 GTTTTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
ATTTTAAAAAAAGAAAATTTAG
Found at i:14865619 original size:148 final size:148
Alignment explanation
Indices: 14865320--14865713 Score: 530
Period size: 150 Copynumber: 2.7 Consensus size: 148
14865310 AAAAAGAGAG
* * * * *
14865320 AGTTTAGATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTTAAAATAAAACTTTAGATTTTTA
1 AGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTTTA
* * *
14865385 AG-AAATTAGTGATTTTCA-TTAAAAAAAAGAAAGTTTATATTTTAAAAAATAAAATATTTTTTT
66 AGTAAAGTAGTGATTTTCATTTTAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAATATTTTTTT
*
14865448 TAGTTATTTTAAAGAAAA
131 TAGTGATTTTAAAGAAAA
* * *
14865466 TGTTTAAATTTTTAAATAAAATTTTGA-TTTTTCAACTATTTTGAAATAAAAGTTTTGATTTTTA
1 AGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTTTA
*
14865530 AGTATAGTAGTGATTTTCATTTTAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAA-ATTTGTTT
66 AGTAAAGTAGTGATTTTCATTTTAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAATA-TT-TTT
14865594 TTTAGTGATTTTAAAGAAAA
129 TTTAGTGATTTTAAAGAAAA
* *
14865614 AGTTTAAATTTTT-AATCAAAGTTTTGATTTTTTTTAATTATTTCGAAATAAAAGTTTTGATTTT
1 AGTTTAAATTTTTAAAT-AAAGTTTTGA-TTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTT
* * * *
14865678 GAATTAAAGTAGTGATTTT-GTTTTAATCAAAAGAAA
64 TAAGTAAAGTAGTGATTTTCATTTTAA-AAAAAGAAA
14865714 ACTTTTGATT
Statistics
Matches: 217, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
145 35 0.16
146 38 0.18
147 39 0.18
148 43 0.20
149 6 0.03
150 56 0.26
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (148 bp):
AGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTTGAAATAAAAGTTTTGATTTTTA
AGTAAAGTAGTGATTTTCATTTTAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAATATTTTTTT
TAGTGATTTTAAAGAAAA
Found at i:14867170 original size:243 final size:244
Alignment explanation
Indices: 14866733--14867197 Score: 770
Period size: 243 Copynumber: 1.9 Consensus size: 244
14866723 AAAATCATAA
* *
14866733 TAATTATAAAAGATCAAATAAGTTATAAATGAATTTTAATGTTTCTCTTAATTCATTACTAATTT
1 TAATGATAAAAGATCAAATAAGTTATAAATGAATTTTAATATTTCTCTTAATTCATTACTAA---
* *
14866798 TTTTTAGGTTTTTTTAGGATTCTAAAATAGAATTAATTTCAAGAATTGAAAGTATTTTACCAGAA
63 TTTTTAGATTTTTTTAGGATTCTAAAATAGAATTAATTTCAAGAATTGAAAGTATTTTACCAAAA
14866863 TTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGA
128 TTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGA
*
14866928 TAAGTTTGGTAAACATGTCTTAGTCAATATACAAGTAATCAGTAAATCGGAG
193 TAAGTTTGGTAAACACGTCTTAGTCAATATACAAGTAATCAGTAAATCGGAG
* * * *
14866980 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAA-TT
1 TAATGATAAAAGATCAAATAAGTTATAAATGAATTTTAATATTTCTCTTAATTCATTACTAATTT
* * *
14867044 TTAGATTTTTTTAGGATTCTAAAATCGAATTAATTTTAAGAATTGAAAGTATTTTACTAAAATTA
66 TTAGATTTTTTTAGGATTCTAAAATAGAATTAATTTCAAGAATTGAAAGTATTTTACCAAAATTA
*
14867109 TTTAGGTATCCTTTAGGGTTTTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATAA
131 TTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATAA
*
14867174 GTTTGGTGAACACGTCTTAGTCAA
196 GTTTGGTAAACACGTCTTAGTCAA
14867198 GTTAAAGTAA
Statistics
Matches: 204, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
243 148 0.73
247 56 0.27
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (244 bp):
TAATGATAAAAGATCAAATAAGTTATAAATGAATTTTAATATTTCTCTTAATTCATTACTAATTT
TTAGATTTTTTTAGGATTCTAAAATAGAATTAATTTCAAGAATTGAAAGTATTTTACCAAAATTA
TTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATAA
GTTTGGTAAACACGTCTTAGTCAATATACAAGTAATCAGTAAATCGGAG
Found at i:14872016 original size:16 final size:16
Alignment explanation
Indices: 14871995--14872027 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14871985 TTAACGCTAG
14871995 AAAACACCATCGATTT
1 AAAACACCATCGATTT
14872011 AAAACACCATCGATTT
1 AAAACACCATCGATTT
14872027 A
1 A
14872028 TCAAAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAACACCATCGATTT
Found at i:14873317 original size:24 final size:24
Alignment explanation
Indices: 14873290--14873420 Score: 145
Period size: 24 Copynumber: 5.5 Consensus size: 24
14873280 GTGTGCAAGT
**
14873290 TGACGAGCGTAAATTTATATAAGC
1 TGACGAGCGTAAACGTATATAAGC
* ** *
14873314 TGACGAGCGTAAACGTGTGCAAAC
1 TGACGAGCGTAAACGTATATAAGC
*
14873338 TGATGAGCGTAAACGTATATAAGC
1 TGACGAGCGTAAACGTATATAAGC
* **
14873362 TGACGAGCGTAAACGTCTGCAAGC
1 TGACGAGCGTAAACGTATATAAGC
* *
14873386 TGTCGAGTGTAAACGTATATAAGC
1 TGACGAGCGTAAACGTATATAAGC
*
14873410 TGATGAGCGTA
1 TGACGAGCGTA
14873421 CATGTGTGCA
Statistics
Matches: 84, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 84 1.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (24 bp):
TGACGAGCGTAAACGTATATAAGC
Found at i:14873433 original size:24 final size:24
Alignment explanation
Indices: 14873274--14873434 Score: 133
Period size: 24 Copynumber: 6.7 Consensus size: 24
14873264 GCTGAATCAT
* * *
14873274 GTAAATGTGTGCAAGTTGACGAGC
1 GTAAACGTATGCAAGCTGACGAGC
** **
14873298 GTAAATTTATATAAGCTGACGAGC
1 GTAAACGTATGCAAGCTGACGAGC
* * *
14873322 GTAAACGTGTGCAAACTGATGAGC
1 GTAAACGTATGCAAGCTGACGAGC
**
14873346 GTAAACGTATATAAGCTGACGAGC
1 GTAAACGTATGCAAGCTGACGAGC
* * *
14873370 GTAAACGTCTGCAAGCTGTCGAGT
1 GTAAACGTATGCAAGCTGACGAGC
** *
14873394 GTAAACGTATATAAGCTGATGAGC
1 GTAAACGTATGCAAGCTGACGAGC
* * *
14873418 GTACATGTGTGCAAGCT
1 GTAAACGTATGCAAGCT
14873435 AGCGAGTGAG
Statistics
Matches: 104, Mismatches: 33, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 104 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (24 bp):
GTAAACGTATGCAAGCTGACGAGC
Found at i:14873434 original size:72 final size:72
Alignment explanation
Indices: 14873274--14873434 Score: 169
Period size: 72 Copynumber: 2.2 Consensus size: 72
14873264 GCTGAATCAT
* ** * * *
14873274 GTAAATGTGTGCAAGTTGACGAGCGTAAATTTATATAAGCTGACGAGCGTAAACGTGTGCAAACT
1 GTAAATGTGTGCAAGCTGACGAGCGTAAACGTATACAAGCTGACGAGCGTAAACGTATACAAACT
14873339 GATGAGC
66 GATGAGC
* * ** * * * * * *
14873346 GTAAACGTATATAAGCTGACGAGCGTAAACGTCTGCAAGCTGTCGAGTGTAAACGTATATAAGCT
1 GTAAATGTGTGCAAGCTGACGAGCGTAAACGTATACAAGCTGACGAGCGTAAACGTATACAAACT
14873411 GATGAGC
66 GATGAGC
*
14873418 GTACATGTGTGCAAGCT
1 GTAAATGTGTGCAAGCT
14873435 AGCGAGTGAG
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (72 bp):
GTAAATGTGTGCAAGCTGACGAGCGTAAACGTATACAAGCTGACGAGCGTAAACGTATACAAACT
GATGAGC
Found at i:14873442 original size:48 final size:48
Alignment explanation
Indices: 14873274--14873434 Score: 214
Period size: 48 Copynumber: 3.4 Consensus size: 48
14873264 GCTGAATCAT
* * **
14873274 GTAAATGTGTGCAAGTTGACGAGCGTAAATTTATATAAGCTGACGAGC
1 GTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTGACGAGC
* *
14873322 GTAAACGTGTGCAAACTGATGAGCGTAAACGTATATAAGCTGACGAGC
1 GTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTGACGAGC
* * * *
14873370 GTAAACGTCTGCAAGCTGTCGAGTGTAAACGTATATAAGCTGATGAGC
1 GTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTGACGAGC
* *
14873418 GTACATGTGTGCAAGCT
1 GTAAACGTGTGCAAGCT
14873435 AGCGAGTGAG
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (48 bp):
GTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTGACGAGC
Found at i:14874137 original size:21 final size:22
Alignment explanation
Indices: 14874113--14874155 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
14874103 TAGTAGTTCT
* *
14874113 CATACTTGTATCGGTAG-AAAC
1 CATACTTCTACCGGTAGCAAAC
14874134 CATACTTCTACCGGTAGCAAAC
1 CATACTTCTACCGGTAGCAAAC
14874156 TGCAGCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (22 bp):
CATACTTCTACCGGTAGCAAAC
Found at i:14880894 original size:80 final size:80
Alignment explanation
Indices: 14880757--14880908 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
14880747 AACCAAAACC
* * * * *
14880757 GTCAATTCATGGCACCCGATGCCTAATGGATAAACCATAGTAAGTAAGACCAGCTCTAGTTGGAT
1 GTCAATTCATGGCACCCGATGCCTAACGGATAAACCACAATAAGTAAGACCAACTCTAGTTAGAT
14880822 TAACCAATGAAATCT
66 TAACCAATGAAATCT
* * * * *
14880837 GTCAATTCGTGGCACCC-AGTGCCTAGCGGATAAGCCGCAATAAGTGAGACCAACTCTAGTTAGA
1 GTCAATTCATGGCACCCGA-TGCCTAACGGATAAACCACAATAAGTAAGACCAACTCTAGTTAGA
14880901 TTAACCAA
65 TTAACCAA
14880909 CGATTTTGCG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (80 bp):
GTCAATTCATGGCACCCGATGCCTAACGGATAAACCACAATAAGTAAGACCAACTCTAGTTAGAT
TAACCAATGAAATCT
Found at i:14882012 original size:5 final size:5
Alignment explanation
Indices: 14882002--14882026 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14881992 TTGTTTCTAA
14882002 TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT
14882027 ATTTTTGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:14897591 original size:24 final size:23
Alignment explanation
Indices: 14897531--14897600 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
14897521 TTTATTTAAT
*
14897531 TTAATCGAACATGTTCACAAACA
1 TTAATTGAACATGTTCACAAACA
* **
14897554 TTAAATGAACATGTTCATGAACA
1 TTAATTGAACATGTTCACAAACA
*
14897577 TATAATTGAATATGTTCACAAACA
1 T-TAATTGAACATGTTCACAAACA
14897601 ATGTTAATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (23 bp):
TTAATTGAACATGTTCACAAACA
Found at i:14898751 original size:15 final size:15
Alignment explanation
Indices: 14898726--14898764 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14898716 ACTTGGGGTT
*
14898726 ATTCTCTCATCAATC
1 ATTCACTCATCAATC
* *
14898741 GTTCACTCATCGATC
1 ATTCACTCATCAATC
14898756 ATTCACTCA
1 ATTCACTCA
14898765 CACCACATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (15 bp):
ATTCACTCATCAATC
Found at i:14898994 original size:28 final size:28
Alignment explanation
Indices: 14898954--14899011 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
14898944 ATATTGGAAC
14898954 TGTTGTTGGAAAAATCTTGATTTGAAAA
1 TGTTGTTGGAAAAATCTTGATTTGAAAA
14898982 TGTTGTTGGAAAAATCTTGATTTGAAAA
1 TGTTGTTGGAAAAATCTTGATTTGAAAA
14899010 TG
1 TG
14899012 ATTTTCTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (28 bp):
TGTTGTTGGAAAAATCTTGATTTGAAAA
Found at i:14898995 original size:14 final size:14
Alignment explanation
Indices: 14898954--14898996 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
14898944 ATATTGGAAC
14898954 TGTTGTTGGAAAAA
1 TGTTGTTGGAAAAA
* *
14898968 TCTTGATTTG-AAAA
1 TGTTG-TTGGAAAAA
14898982 TGTTGTTGGAAAAA
1 TGTTGTTGGAAAAA
14898996 T
1 T
14898997 CTTGATTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (14 bp):
TGTTGTTGGAAAAA
Found at i:14899009 original size:14 final size:14
Alignment explanation
Indices: 14898964--14899010 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
14898954 TGTTGTTGGA
14898964 AAAATCTTGATTTG
1 AAAATCTTGATTTG
* *
14898978 AAAATGTTG-TTGG
1 AAAATCTTGATTTG
14898991 AAAAATCTTGATTTG
1 -AAAATCTTGATTTG
14899006 AAAAT
1 AAAAT
14899011 GATTTTCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 3 0.11
14 21 0.78
15 3 0.11
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (14 bp):
AAAATCTTGATTTG
Found at i:14902079 original size:3 final size:3
Alignment explanation
Indices: 14902071--14902108 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14902061 TCGTATGCTT
14902071 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14902109 TAGTTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14913043 original size:24 final size:23
Alignment explanation
Indices: 14912994--14913043 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
14912984 TAAAGTAGGT
* *
14912994 TATATATTATTTTTCTAATATTA
1 TATATATGATTTTTCTAATATCA
14913017 TATATTATGATTTTTACTAAT-TCA
1 TATA-TATGATTTTT-CTAATATCA
14913041 TAT
1 TAT
14913044 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATGATTTTTCTAATATCA
Found at i:14913120 original size:57 final size:59
Alignment explanation
Indices: 14913013--14913126 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 59
14913003 TTTTTCTAAT
14913013 ATTATATATTATGATTTTTACTAATTCATATTTTAATAATAATTATATTAAAAATTTATTGA
1 ATTATATATTAT-ATTTTTAC-AATTCATATTTTAATAATAATTATATT-AAAATTTATTGA
*
14913075 ATTATATATTAT-TTTATTA-AATT-ATA-TTTAATAATAATTTTATTAAAATTTA
1 ATTATATATTATATTT-TTACAATTCATATTTTAATAATAATTATATTAAAATTTA
14913127 ATAACAATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
56 8 0.16
57 17 0.34
58 3 0.06
59 4 0.08
60 3 0.06
61 3 0.06
62 12 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (59 bp):
ATTATATATTATATTTTTACAATTCATATTTTAATAATAATTATATTAAAATTTATTGA
Found at i:14913315 original size:16 final size:16
Alignment explanation
Indices: 14913294--14913324 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14913284 TGAATATAAT
14913294 TCTATTCTATTACAGC
1 TCTATTCTATTACAGC
14913310 TCTATTCTATTACAG
1 TCTATTCTATTACAG
14913325 TGAACCAAAT
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:0.23, G:0.06, T:0.45
Consensus pattern (16 bp):
TCTATTCTATTACAGC
Found at i:14917656 original size:51 final size:51
Alignment explanation
Indices: 14917576--14917813 Score: 293
Period size: 51 Copynumber: 4.6 Consensus size: 51
14917566 CTATAAACAA
* *
14917576 AAAGGTCCGATGACTAAGTGTCATTGTGAGTAAATGAATCATTTACGGATT
1 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGATT
* * *
14917627 AAAGGTCTGATGACTTATTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGATT
* *
14917678 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCA-TGATGGATT
1 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAAT-CATTTACGGATT
* * * * **
14917729 AAAGGTCCGATGACTCAGTGTCATCGTGAGTATATGAATTC-TTATATGGAAC
1 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAA-TCATT-TACGGATT
14917781 AAGAGGTCTGATGACTATA-TGTCATCGTGAGTA
1 AA-AGGTCTGATGACTA-AGTGTCATCGTGAGTA
14917814 TTAAATGAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
51 127 0.78
52 9 0.06
53 26 0.16
54 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (51 bp):
AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGATT
Found at i:14918518 original size:21 final size:21
Alignment explanation
Indices: 14918492--14918544 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
14918482 GGAGTTTTTA
14918492 GTATCGGTAGATGCATGACAT
1 GTATCGGTAGATGCATGACAT
14918513 GTATCGGTAGATGCATGACAT
1 GTATCGGTAGATGCATGACAT
14918534 GTATCGGTAGA
1 GTATCGGTAGA
14918545 AATTATACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (21 bp):
GTATCGGTAGATGCATGACAT
Found at i:14922070 original size:90 final size:87
Alignment explanation
Indices: 14921976--14922208 Score: 281
Period size: 89 Copynumber: 2.6 Consensus size: 87
14921966 TCCTAAATTT
*
14921976 TTTTTTCAATAAAAAAGCAATTAAGTCCCTGCTTTTTTTCACTCAATTAGGTACTTAAACTGTCA
1 TTTTTTCAATAAAAAA-CAATTAAGTCCCTCCTTTTTTTCACTCAATTAGGTACTTAAACTGTCA
*
14922041 AAATGCATCAAAAAGGCCCTCAAA
65 AAATGCATC-AAAAGACCCTCAAA
* * *
14922065 TTTTTTCAATAAAAAA-ATTTAAGTCCCTCCTTTTTTTTTGCACTCAATT-GTGTACTTGAACTT
1 TTTTTTCAATAAAAAACAATTAAGTCCCTCC--TTTTTTT-CACTCAATTAG-GTACTTAAACTG
14922128 TCAAAATGCATCAAAAGACCCTCAAA
62 TCAAAATGCATCAAAAGACCCTCAAA
* ** * * ** *
14922154 TGTTTAAAAAAAAAAACAATTAAGCCCCTTATTTTTTTAACTCAATTAGGTACTT
1 TTTTTTCAATAAAAAACAATTAAGTCCCTCCTTTTTTTCACTCAATTAGGTACTT
14922209 GAACCACCTC
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
87 26 0.21
88 8 0.06
89 49 0.40
90 41 0.33
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (87 bp):
TTTTTTCAATAAAAAACAATTAAGTCCCTCCTTTTTTTCACTCAATTAGGTACTTAAACTGTCAA
AATGCATCAAAAGACCCTCAAA
Found at i:14922302 original size:10 final size:9
Alignment explanation
Indices: 14922287--14922484 Score: 78
Period size: 9 Copynumber: 20.8 Consensus size: 9
14922277 ATAAAATTCA
*
14922287 ATAAAAGTT
1 ATAAAAATT
14922296 ATAAAAATT
1 ATAAAAATT
**
14922305 ATTAAATTTT
1 A-TAAAAATT
*
14922315 AATAAAAAAT
1 -ATAAAAATT
*
14922325 ATAAAAAAT
1 ATAAAAATT
**
14922334 ATTAAATTTT
1 A-TAAAAATT
14922344 ATTAAAAATT
1 A-TAAAAATT
*
14922354 ATAAAAAAT
1 ATAAAAATT
*
14922363 ATAAAATTTT
1 ATAAAA-ATT
*
14922373 ATAAAAATC
1 ATAAAAATT
* *
14922382 GTAAAAAAT
1 ATAAAAATT
14922391 ATAAAAATAT
1 ATAAAAAT-T
*
14922401 AGAAAAAAATT
1 --ATAAAAATT
* *
14922412 AT-ATAGTT
1 ATAAAAATT
*
14922420 TTATAAAATCGT
1 ATA-AAAAT--T
14922432 A-AGAAAATT
1 ATA-AAAATT
14922441 ATAAAAA-T
1 ATAAAAATT
*
14922449 ATAAAAAAT
1 ATAAAAATT
*
14922458 ATAAAATTCGT
1 ATAAAAAT--T
*
14922469 AAAAAAATT
1 ATAAAAATT
14922478 ATAAAAA
1 ATAAAAA
14922485 GTATTGTACT
Statistics
Matches: 139, Mismatches: 35, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
8 13 0.09
9 66 0.47
10 37 0.27
11 15 0.11
12 8 0.06
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:14922310 original size:19 final size:18
Alignment explanation
Indices: 14922287--14922484 Score: 78
Period size: 20 Copynumber: 10.4 Consensus size: 18
14922277 ATAAAATTCA
*
14922287 ATAAAAGTTATAAAAATT
1 ATAAAAATTATAAAAATT
** *
14922305 ATTAAATTTTAATAAAAAAT
1 A-TAAAAATT-ATAAAAATT
* **
14922325 ATAAAAAATATTAAATTTT
1 ATAAAAATTA-TAAAAATT
*
14922344 ATTAAAAATTATAAAAAAT
1 A-TAAAAATTATAAAAATT
* *
14922363 ATAAAATTTTATAAAAATC
1 ATAAAA-ATTATAAAAATT
* *
14922382 GTAAAAAATATAAAAATAT
1 ATAAAAATTATAAAAAT-T
* * *
14922401 AGAAAAAAATTAT-ATAGTT
1 --ATAAAAATTATAAAAATT
*
14922420 TTATAAAATCGTA-AGAAAATT
1 ATA-AAAAT--TATA-AAAATT
*
14922441 ATAAAAA-TATAAAAAAT
1 ATAAAAATTATAAAAATT
* *
14922458 ATAAAATTCGTAAAAAAATT
1 ATAAAAAT--TATAAAAATT
14922478 ATAAAAA
1 ATAAAAA
14922485 GTATTGTACT
Statistics
Matches: 128, Mismatches: 35, Indels: 32
0.66 0.18 0.16
Matches are distributed among these distances:
17 14 0.11
18 22 0.17
19 38 0.30
20 40 0.31
21 14 0.11
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (18 bp):
ATAAAAATTATAAAAATT
Found at i:14922318 original size:29 final size:29
Alignment explanation
Indices: 14922286--14922392 Score: 144
Period size: 29 Copynumber: 3.7 Consensus size: 29
14922276 AATAAAATTC
* *
14922286 AATAAAAGTTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAAATATTAAATTTT
*
14922315 AATAAAAAATATAAAAAATATTAAATTTT
1 AATAAAAATTATAAAAAATATTAAATTTT
* *
14922344 ATTAAAAATTATAAAAAATATAAAATTTT
1 AATAAAAATTATAAAAAATATTAAATTTT
**
14922373 -ATAAAAATCGTAAAAAATAT
1 AATAAAAATTATAAAAAATAT
14922393 AAAAATATAG
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
28 17 0.25
29 52 0.75
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAATTATAAAAAATATTAAATTTT
Found at i:14922380 original size:28 final size:28
Alignment explanation
Indices: 14922273--14922396 Score: 142
Period size: 29 Copynumber: 4.4 Consensus size: 28
14922263 GACACGTGGC
** *
14922273 AAAA-ATAAAATTCAATAAAAGTTATAA
1 AAAATATAAAATTTTATAAAAATTATAA
* * *
14922300 AAATTATTAAATTTTAATAAAAAATATAA
1 AAAATATAAAATTTT-ATAAAAATTATAA
*
14922329 AAAATATTAAATTTTATTAAAAATTATAA
1 AAAATATAAAATTTTA-TAAAAATTATAA
**
14922358 AAAATATAAAATTTTATAAAAATCGTAA
1 AAAATATAAAATTTTATAAAAATTATAA
14922386 AAAATATAAAA
1 AAAATATAAAA
14922397 ATATAGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
27 3 0.04
28 29 0.35
29 51 0.61
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAATATAAAATTTTATAAAAATTATAA
Found at i:14922409 original size:48 final size:46
Alignment explanation
Indices: 14922346--14922465 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 46
14922336 TAAATTTTAT
14922346 TAAAAATTATAAAAAATATAAAATTTTATAAAAATCGTAA-AAAA-TA
1 TAAAAA-TATAAAAAATATAAAATTTTAT-AAAATCGTAAGAAAATTA
* *
14922392 TAAAAATATAGAAAAAAATTATATAGTTTTATAAAATCGTAAGAAAATTA
1 TAAAAATAT---AAAAAA-TATAAAATTTTATAAAATCGTAAGAAAATTA
14922442 TAAAAATATAAAAAATATAAAATT
1 TAAAAATATAAAAAATATAAAATT
14922466 CGTAAAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
45 3 0.05
46 13 0.20
47 6 0.09
48 16 0.25
49 15 0.23
50 11 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (46 bp):
TAAAAATATAAAAAATATAAAATTTTATAAAATCGTAAGAAAATTA
Found at i:14922735 original size:10 final size:10
Alignment explanation
Indices: 14922720--14922776 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
14922710 AAAAAATTCC
14922720 TAATTTTTAA
1 TAATTTTTAA
14922730 TAATTTTT-A
1 TAATTTTTAA
** *
14922739 TGTTTTTTAT
1 TAATTTTTAA
**
14922749 TAAAATTTAA
1 TAATTTTTAA
14922759 TAATTTTT-A
1 TAATTTTTAA
14922768 TAATTTTTA
1 TAATTTTTA
14922777 TTTTTTATAG
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
9 16 0.46
10 19 0.54
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:14922745 original size:38 final size:37
Alignment explanation
Indices: 14922703--14922782 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 37
14922693 AAAGTTTACA
**
14922703 TTTTTATAAAAAATTCCTAATTTTTAATAATTTTTATGT
1 TTTTTATAAAAAATTAATAATTTTT-ATAATTTTTAT-T
* *
14922742 TTTTTATTAAAATTTAATAATTTTTATAATTTTTATT
1 TTTTTATAAAAAATTAATAATTTTTATAATTTTTATT
14922779 TTTT
1 TTTT
14922783 ATAGTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 5 0.14
38 11 0.30
39 21 0.57
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (37 bp):
TTTTTATAAAAAATTAATAATTTTTATAATTTTTATT
Found at i:14922772 original size:9 final size:9
Alignment explanation
Indices: 14922720--14922791 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
14922710 AAAAAATTCC
14922720 TAATTTTTAA
1 TAATTTTT-A
14922730 TAATTTTTA
1 TAATTTTTA
**
14922739 TGTTTTTTA
1 TAATTTTTA
* *
14922748 TTAAAATTTAA
1 -T-AATTTTTA
14922759 TAATTTTTA
1 TAATTTTTA
14922768 TAATTTTTA
1 TAATTTTTA
14922777 T--TTTTTA
1 TAATTTTTA
*
14922784 TAGTTTTT
1 TAATTTTT
14922792 TGCCACATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
7 7 0.14
9 29 0.58
10 10 0.20
11 4 0.08
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TAATTTTTA
Found at i:14923104 original size:88 final size:87
Alignment explanation
Indices: 14922957--14923143 Score: 205
Period size: 88 Copynumber: 2.1 Consensus size: 87
14922947 TCAATTTTTT
14922957 TTTTTTTGAAAATGTTTAAGGGTCTTTTTGATACATTTTAAAAGTTCAAACACCCAATTGACTGC
1 TTTTTTT-AAAATGTTTAAGGGTCTTTTTGATACATTTTAAAAGTTCAAACACCCAATTGACTG-
** * *
14923022 AAAAAAAAGGCAAGGGCTTAATTG
64 AAAAAAAAAACAAAGACTTAATTG
* * *** *** * *
14923046 CTTTTTTTAAAA-GTTTGAGGGTCTTTTTGATGCATTTTGGCAGTTCAAGTGCCTAATTGAGTGA
1 -TTTTTTTAAAATGTTTAAGGGTCTTTTTGATACATTTTAAAAGTTCAAACACCCAATTGACTGA
14923110 AAAAAAAAACAAAGACTTAATTG
65 AAAAAAAAACAAAGACTTAATTG
*
14923133 TTTTTTGAAAA
1 TTTTTTTAAAA
14923144 AAATGATGGC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
86 10 0.12
87 20 0.24
88 41 0.50
89 4 0.05
90 7 0.09
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTTTTAAAATGTTTAAGGGTCTTTTTGATACATTTTAAAAGTTCAAACACCCAATTGACTGAA
AAAAAAAACAAAGACTTAATTG
Found at i:14932442 original size:7 final size:7
Alignment explanation
Indices: 14932430--14932482 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
14932420 TGATCGGTTG
14932430 TTGACCA
1 TTGACCA
14932437 TTGACCA
1 TTGACCA
**
14932444 TTGACTG
1 TTGACCA
*
14932451 TTGA-CT
1 TTGACCA
14932457 TTGACCA
1 TTGACCA
*
14932464 TTGACCG
1 TTGACCA
*
14932471 TTGACCG
1 TTGACCA
14932478 TTGAC
1 TTGAC
14932483 TTTAACTGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 4 0.10
7 35 0.90
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (7 bp):
TTGACCA
Found at i:14932462 original size:20 final size:20
Alignment explanation
Indices: 14932437--14932498 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
14932427 TTGTTGACCA
14932437 TTGACCATTGACTGTTGACT
1 TTGACCATTGACTGTTGACT
* *
14932457 TTGACCATTGACCGTTGACCG
1 TTGACCATTGACTGTTGA-CT
* *
14932478 TTGA-CTTTAACTGTTGACT
1 TTGACCATTGACTGTTGACT
14932497 TT
1 TT
14932499 TTTTGAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 3 0.09
20 27 0.77
21 5 0.14
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
TTGACCATTGACTGTTGACT
Found at i:14932465 original size:27 final size:27
Alignment explanation
Indices: 14932430--14932485 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
14932420 TGATCGGTTG
*
14932430 TTGACCATTGACCATTGACTGTTGACT
1 TTGACCATTGACCATTGACCGTTGACT
*
14932457 TTGACCATTGACCGTTGACCGTTGACT
1 TTGACCATTGACCATTGACCGTTGACT
14932484 TT
1 TT
14932486 AACTGTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
TTGACCATTGACCATTGACCGTTGACT
Found at i:14933675 original size:22 final size:22
Alignment explanation
Indices: 14933636--14933677 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14933626 GTAAATATAA
*
14933636 TTTATTTTGGGACTTTTGATAT
1 TTTATTTTGGGACGTTTGATAT
14933658 TTTATTTTTGGGA-GTTTGAT
1 TTTA-TTTTGGGACGTTTGAT
14933678 TAACTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.17, C:0.02, G:0.21, T:0.60
Consensus pattern (22 bp):
TTTATTTTGGGACGTTTGATAT
Found at i:14933688 original size:22 final size:22
Alignment explanation
Indices: 14933632--14933688 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
14933622 GGTTGTAAAT
* *
14933632 ATAATTTATTTTGGGACTTTTG
1 ATAACTTATTTTGGGACGTTTG
**
14933654 ATATTTTATTTTTGGGA-GTTTG
1 ATAACTTA-TTTTGGGACGTTTG
14933676 ATTAACTTATTTT
1 A-TAACTTATTTT
14933689 ATTATTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.23, C:0.04, G:0.16, T:0.58
Consensus pattern (22 bp):
ATAACTTATTTTGGGACGTTTG
Found at i:14939586 original size:24 final size:23
Alignment explanation
Indices: 14939554--14939634 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 23
14939544 AATCTTCGAG
*
14939554 TTAAACTCTGTTTATTTGTTTCTA
1 TTAAACTCTATTTATTTGTTTC-A
14939578 TTAAACTCTATTTATTTGTTTCAA
1 TTAAACTCTATTTATTTGTTTC-A
*
14939602 ATAAACTCTATTTATTTGTTTCA
1 TTAAACTCTATTTATTTGTTTCA
14939625 GTTAAACTCT
1 -TTAAACTCT
14939635 TATTAGTCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 1 0.02
24 51 0.98
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (23 bp):
TTAAACTCTATTTATTTGTTTCA
Found at i:14945248 original size:55 final size:55
Alignment explanation
Indices: 14945181--14945345 Score: 267
Period size: 55 Copynumber: 3.0 Consensus size: 55
14945171 GACGTGCATG
* * * *
14945181 TAACAATTGATTTAAACATATAAATAATTGATTAAAAAGAAGCAATATTCCATCA
1 TAACAATCGATTTAAACATATAAATAATCGATTAAAAAGAAGCAGTATTCCAACA
*
14945236 TAACAATCGATTTAAACATATAAATAATCAATTAAAAAGAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAATAATCGATTAAAAAGAAGCAGTATTCCAACA
* *
14945291 TGACAATCGATTTAAACATATAAATAATCGATTCAAAAGAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAATAATCGATTAAAAAGAAGCAGTATTCCAACA
14945346 ATTAAGAAGA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 102 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.27
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAATAATCGATTAAAAAGAAGCAGTATTCCAACA
Found at i:14946337 original size:21 final size:21
Alignment explanation
Indices: 14946270--14946327 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
14946260 TACTGCAGAT
14946270 TTCTATCGATACAAGTGACTC
1 TTCTATCGATACAAGTGACTC
14946291 TTCTATCGATACAAGTGACTC
1 TTCTATCGATACAAGTGACTC
14946312 TTCTATCGATACAAGT
1 TTCTATCGATACAAGT
14946328 TTCACCTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (21 bp):
TTCTATCGATACAAGTGACTC
Found at i:14976225 original size:18 final size:18
Alignment explanation
Indices: 14976182--14976225 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14976172 AGAAGATAAA
14976182 AAAGAAAAGAAAAATGAG
1 AAAGAAAAGAAAAATGAG
* **
14976200 AAACAAAAGAATCATGAG
1 AAAGAAAAGAAAAATGAG
*
14976218 TAAGAAAA
1 AAAGAAAA
14976226 CCTGAGAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAGAAAAGAAAAATGAG
Found at i:14984877 original size:24 final size:24
Alignment explanation
Indices: 14984850--14984897 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14984840 GACTAAGATA
* *
14984850 GTGCTTCAATTGTTGGCCATTCAC
1 GTGCTTAAATCGTTGGCCATTCAC
14984874 GTGCTTAAATCGTTGGCCATTCAC
1 GTGCTTAAATCGTTGGCCATTCAC
14984898 CTTGAATTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
GTGCTTAAATCGTTGGCCATTCAC
Found at i:14989047 original size:18 final size:18
Alignment explanation
Indices: 14989026--14989081 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
14989016 TGCATTTTAC
*
14989026 TGTGGCTGCATAC-GAGCA
1 TGTGACTGCAT-CTGAGCA
*
14989044 TGTGACTGCATCTGAGTA
1 TGTGACTGCATCTGAGCA
*
14989062 TGTGACTGCATCTGATCA
1 TGTGACTGCATCTGAGCA
14989080 TG
1 TG
14989082 ATGTGCCTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (18 bp):
TGTGACTGCATCTGAGCA
Found at i:15019854 original size:24 final size:22
Alignment explanation
Indices: 15019810--15019855 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
15019800 AGAAGAGAAG
*
15019810 AAAAATAAAGAAAAGTGAAAGA
1 AAAAATAAAGAAAAGTAAAAGA
*
15019832 AAAAATAGAGAGAAAGATAAAAGA
1 AAAAATAAAGA-AAAG-TAAAAGA
15019856 GGAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAATAAAGAAAAGTAAAAGA
Found at i:15021110 original size:24 final size:24
Alignment explanation
Indices: 15021092--15021138 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
15021082 ATTTACTTAT
15021092 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTTATTAGC
* *
15021116 ATAATATATTTACCATTGATTAG
1 ATAATATATTTAACATTTATTAG
15021139 AATTAGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAACATTTATTAGC
Found at i:15021801 original size:12 final size:11
Alignment explanation
Indices: 15021772--15021799 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15021762 TTATAATATA
15021772 TTAAAATGTTT
1 TTAAAATGTTT
15021783 TTAAAATGTTT
1 TTAAAATGTTT
15021794 TTAAAA
1 TTAAAA
15021800 ATTTATACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (11 bp):
TTAAAATGTTT
Found at i:15022272 original size:118 final size:119
Alignment explanation
Indices: 15022047--15022281 Score: 359
Period size: 118 Copynumber: 2.0 Consensus size: 119
15022037 CATTAAATCC
*
15022047 ATTCTTCAAATCATTAATGAATGATGATTTTCTTCTATAATTTTATATAAAAAAATTAAAGAATA
1 ATTCTTCAAATCATTAATGAA-GATGATTCTCTTCTATAATTTTATATAAAAAAATTAAAGAATA
* *
15022112 AATTACGTTAAAAGTAAATTATGCAAAACAGAATTAAAAGATATAAAGTAAATGA
65 AACTACGTTAAAAGCAAATTATGCAAAACAGAATTAAAAGATATAAAGTAAATGA
* *
15022167 ATTCTTCAAATCATTAGTG-A-ATGATTCTCTTCTATAATTTTAATGTAAAAAAAATTAAAGAAT
1 ATTCTTCAAATCATTAATGAAGATGATTCTCTTCTATAATTTT-ATAT-AAAAAAATTAAAGAAT
* *
15022230 AAACTATGTT-AAAGCAAATTATGCAAAATAGAATTAAAAGATATAAAGTAAA
64 AAACTACGTTAAAAGCAAATTATGCAAAACAGAATTAAAAGATATAAAGTAAA
15022282 AAAAAAGAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
117 20 0.19
118 43 0.41
119 25 0.24
120 18 0.17
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (119 bp):
ATTCTTCAAATCATTAATGAAGATGATTCTCTTCTATAATTTTATATAAAAAAATTAAAGAATAA
ACTACGTTAAAAGCAAATTATGCAAAACAGAATTAAAAGATATAAAGTAAATGA
Found at i:15030688 original size:27 final size:25
Alignment explanation
Indices: 15030654--15030728 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 25
15030644 AATATGCTAG
15030654 AAAATAAAATAAAAAGATAAATAAGTA
1 AAAATAAAA-AAAAAGATAAATAAG-A
*
15030681 AAAATAAAAAAAAGAAATAAA-AAGA
1 AAAATAAAAAAAA-AGATAAATAAGA
* * *
15030706 ATAATATAAAAAAAGAAAAATAA
1 AAAATAAAAAAAAAGATAAATAA
15030729 TATAGTGGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
24 5 0.12
25 14 0.34
26 7 0.17
27 15 0.37
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.15
Consensus pattern (25 bp):
AAAATAAAAAAAAAGATAAATAAGA
Found at i:15030714 original size:14 final size:13
Alignment explanation
Indices: 15030682--15030723 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
15030672 AAATAAGTAA
15030682 AAATAAAAAAAAG
1 AAATAAAAAAAAG
*
15030695 AAATAAAAAGAA-
1 AAATAAAAAAAAG
*
15030707 TAATATAAAAAAAG
1 AAATA-AAAAAAAG
15030721 AAA
1 AAA
15030724 AATAATATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 4 0.17
13 17 0.74
14 2 0.09
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (13 bp):
AAATAAAAAAAAG
Found at i:15036612 original size:14 final size:14
Alignment explanation
Indices: 15036593--15036631 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
15036583 AGTCATTTAT
*
15036593 CAAATATATGTATA
1 CAAATATATATATA
15036607 CAAATATATATATA
1 CAAATATATATATA
* *
15036621 TAAATGTATAT
1 CAAATATATAT
15036632 TTCCTTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (14 bp):
CAAATATATATATA
Found at i:15040016 original size:10 final size:9
Alignment explanation
Indices: 15039973--15040146 Score: 54
Period size: 8 Copynumber: 19.9 Consensus size: 9
15039963 TTTAATAGGT
15039973 TTAATTAT-
1 TTAATTATA
15039981 TTAATTATA
1 TTAATTATA
*
15039990 TTAAACTA-A
1 TT-AATTATA
*
15039999 ATAATTATA
1 TTAATTATA
15040008 TTAAATTAT-
1 TT-AATTATA
*
15040017 TTAATTATGT
1 TTAATTAT-A
15040027 TTAATTATGTA
1 TTAATTA--TA
15040038 TTAAATTATA
1 TT-AATTATA
*
15040048 --AA-CAGTA
1 TTAATTA-TA
*
15040055 TCAATTA-A
1 TTAATTATA
*
15040063 TTAAATA-A
1 TTAATTATA
15040071 TTAATT-TA
1 TTAATTATA
*
15040079 --AAATAT-
1 TTAATTATA
15040085 TTAATTAT-
1 TTAATTATA
15040093 TTAATTATA
1 TTAATTATA
*
15040102 TTAAAGTA-A
1 TT-AATTATA
*
15040111 ATAATTATA
1 TTAATTATA
*
15040120 TTAAATCA-A
1 TT-AATTATA
*
15040129 TTAATTATGT
1 TTAATTAT-A
15040139 TTAATTAT
1 TTAATTAT
15040147 GTATTAAATT
Statistics
Matches: 124, Mismatches: 19, Indels: 44
0.66 0.10 0.24
Matches are distributed among these distances:
6 4 0.03
7 5 0.04
8 52 0.42
9 19 0.15
10 36 0.29
11 2 0.02
12 6 0.05
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (9 bp):
TTAATTATA
Found at i:15040021 original size:18 final size:18
Alignment explanation
Indices: 15039945--15040457 Score: 135
Period size: 18 Copynumber: 27.8 Consensus size: 18
15039935 AAACAGTACC
15039945 AATTA-ATTAAA-TATTT
1 AATTATATTAAATTATTT
*
15039961 AATTTAATAGGTTTAATTATTT
1 AA-TT-ATA--TTAAATTATTT
* **
15039983 AATTATATTAAACTAAAT
1 AATTATATTAAATTATTT
15040001 AATTATATTAAATTATTT
1 AATTATATTAAATTATTT
* * *
15040019 AATTATGTTTAATTATGT
1 AATTATATTAAATTATTT
* ** *
15040037 -ATTAAATTATAAACAGTATC
1 AATTATATTA-AATTA-T-TT
15040057 AATTA-ATTAAATAATTAATTT
1 AATTATATT--A-AATT-ATTT
* *
15040078 AA-AATATTTAATTATTT
1 AATTATATTAAATTATTT
* **
15040095 AATTATATTAAAGTAAAT
1 AATTATATTAAATTATTT
* *
15040113 AATTATATTAAATCAATT
1 AATTATATTAAATTATTT
* * *
15040131 AATTATGTTTAATTATGT
1 AATTATATTAAATTATTT
* * *
15040149 -ATTAAATTGTAAA-CAGTATC
1 AATTATA-T-TAAATTA-T-TT
15040169 AATTA-ATTAAA-TATTT
1 AATTATATTAAATTATTT
* *
15040185 AATTTAAAGATTTAATTATTT
1 AA-TT--ATATTAAATTATTT
* **
15040206 AATTATATTAAACTAAAT
1 AATTATATTAAATTATTT
* *
15040224 AATTATATTAAATCAATT
1 AATTATATTAAATTATTT
* * *
15040242 AATTATGTTTAATTATGT
1 AATTATATTAAATTATTT
* ** *
15040260 -ATTAAATTGTAAACAATATC
1 AATTATA-T-TAAATTAT-TT
15040280 AATTA-ATTAAA-TATTT
1 AATTATATTAAATTATTT
*
15040296 AATTTAAAAGATTTAAA-TATTT
1 AA-TT---ATA-TTAAATTATTT
* **
15040318 AATTTATATTAAAGTAAAT
1 AA-TTATATTAAATTATTT
15040337 AATTATATTAAATTATTT
1 AATTATATTAAATTATTT
* **
15040355 AATTATATTTAATTAAAT
1 AATTATATTAAATTATTT
* *
15040373 ATTTA-ATTTAAAATATTT
1 AATTATA-TTAAATTATTT
*** * *
15040391 TCCTA-AATAAATATATAT
1 AATTATATTAAAT-TATTT
* *
15040409 AATTAT-TTAATTTTAATT
1 AATTATATTAA-ATTATTT
15040427 AATTA-ATT-AATTATTT
1 AATTATATTAAATTATTT
*
15040443 AATTATACTAAATTA
1 AATTATATTAAATTA
15040458 AATATTTAAT
Statistics
Matches: 357, Mismatches: 97, Indels: 84
0.66 0.18 0.16
Matches are distributed among these distances:
16 18 0.05
17 37 0.10
18 203 0.57
19 22 0.06
20 17 0.05
21 32 0.09
22 27 0.08
23 1 0.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (18 bp):
AATTATATTAAATTATTT
Found at i:15040050 original size:112 final size:112
Alignment explanation
Indices: 15039916--15040369 Score: 730
Period size: 112 Copynumber: 4.1 Consensus size: 112
15039906 AATAATTAAA
* * * * *
15039916 TAATTATATATTTAATTATAAACAGTACCAATTAATTAAATATTTAATTTAATAGGTTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
* *
15039981 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
66 TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTT
* *
15040028 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
*
15040093 TTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATGTT
66 TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTT
*
15040140 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTT-AAAGATTTAATTAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
15040204 TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTT
66 TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTT
* * *
15040251 TAATTATGTATTAAATTGTAAACAATATCAATTAATTAAATATTTAATTTAAAAGATTTAAATAT
1 TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
* * * *
15040316 TTAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATATT
66 TTAA-TTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTT
15040364 TAATTA
1 TAATTA
15040370 AATATTTAAT
Statistics
Matches: 320, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
111 108 0.34
112 167 0.52
113 45 0.14
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (112 bp):
TAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTT
Found at i:15040234 original size:223 final size:225
Alignment explanation
Indices: 15039916--15040384 Score: 764
Period size: 223 Copynumber: 2.1 Consensus size: 225
15039906 AATAATTAAA
* *
15039916 TAATTATATATTTAATTATAAACAGTACCAATTAATTAAATATTTAATTTAATAGGTTTAATTAT
1 TAATTATATATTAAATTATAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAATTAT
* *
15039981 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTAAATTA
66 TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTA
* * *
15040046 TAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTTAATTATTTAA-TTATATTAAAGTA
131 TAAACAATATCAATTAATTAAATAATTAATTTAAAAGATTTAAATATTTAATTTATATTAAAGTA
*
15040110 AATAATTATATTAAATCAATTAATTATGTT
196 AATAATTATATTAAATCAATTAATTATATT
* * *
15040140 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAA-AGATTTAATTAT
1 TAATTATATATTAAATTATAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAATTAT
*
15040204 TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTG
66 TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTA
*
15040269 TAAACAATATCAATTAATTAAATATTTAATTTAAAAGATTTAAATATTTAATTTATATTAAAGTA
131 TAAACAATATCAATTAATTAAATAATTAATTTAAAAGATTTAAATATTTAATTTATATTAAAGTA
* *
15040334 AATAATTATATTAAATTATTTAATTATATT
196 AATAATTATATTAAATCAATTAATTATATT
* *
15040364 TAATTAAATATTTAATT-TAAA
1 TAATTATATATTAAATTATAAA
15040385 ATATTTTCCT
Statistics
Matches: 226, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
223 124 0.55
224 102 0.45
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (225 bp):
TAATTATATATTAAATTATAAACAGTACCAATTAATTAAATATTTAATTTAATAGATTTAATTAT
TTAATTATATTAAACTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTA
TAAACAATATCAATTAATTAAATAATTAATTTAAAAGATTTAAATATTTAATTTATATTAAAGTA
AATAATTATATTAAATCAATTAATTATATT
Found at i:15040386 original size:14 final size:12
Alignment explanation
Indices: 15040282--15040469 Score: 86
Period size: 12 Copynumber: 15.6 Consensus size: 12
15040272 ACAATATCAA
15040282 TTAATTAAATAT
1 TTAATTAAATAT
15040294 TTAATTTAAA-A-
1 TTAA-TTAAATAT
* *
15040305 -GATTTAAATAT
1 TTAATTAAATAT
*
15040316 TTAATT-TATAT
1 TTAATTAAATAT
* * *
15040327 TAAAGTAAATAA
1 TTAATTAAATAT
15040339 TTATATTAAATTAT
1 TTA-ATTAAA-TAT
15040353 TTAATT--ATAT
1 TTAATTAAATAT
15040363 TTAATTAAATAT
1 TTAATTAAATAT
15040375 TTAATTTAAAATAT
1 TTAA-TT-AAATAT
*** *
15040389 TTTCCTAAATAA
1 TTAATTAAATAT
* *
15040401 ATATATATAATTAT
1 TTA-AT-TAAATAT
* *
15040415 TTAATTTTAATTAA
1 TTAA--TTAAATAT
*
15040429 TTAATTAATTAT
1 TTAATTAAATAT
*
15040441 TTAATT--ATAC
1 TTAATTAAATAT
*
15040451 TAAATTAAATAT
1 TTAATTAAATAT
15040463 TTAATTA
1 TTAATTA
15040470 TTTAATTAAT
Statistics
Matches: 129, Mismatches: 30, Indels: 34
0.67 0.16 0.18
Matches are distributed among these distances:
9 5 0.04
10 18 0.14
11 9 0.07
12 49 0.38
13 17 0.13
14 30 0.23
15 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (12 bp):
TTAATTAAATAT
Found at i:15040428 original size:4 final size:4
Alignment explanation
Indices: 15040408--15040479 Score: 58
Period size: 4 Copynumber: 18.0 Consensus size: 4
15040398 TAAATATATA
* * *
15040408 TAAT TATT TAAT T--T TAAT TAAT TAAT TAAT TATT TAAT TATACT AAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA-A-T TAAT
* * *
15040456 TAAA TATT TAAT TATT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT
15040480 AAAAACAACC
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 2 0.04
4 46 0.88
5 2 0.04
6 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (4 bp):
TAAT
Found at i:15040437 original size:26 final size:29
Alignment explanation
Indices: 15040423--15040482 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
15040413 ATTTAATTTT
*
15040423 AATTAATTAATTAATTATTTAATTATACTA
1 AATTAAATAATTAATTATTTAATTATA-TA
*
15040453 AATTAAATATTTAATTATTTAATTA-ATA
1 AATTAAATAATTAATTATTTAATTATATA
15040481 AA
1 AA
15040483 AACAACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 4 0.14
29 1 0.04
30 23 0.82
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
AATTAAATAATTAATTATTTAATTATATA
Found at i:15040460 original size:62 final size:62
Alignment explanation
Indices: 15040308--15040461 Score: 150
Period size: 62 Copynumber: 2.5 Consensus size: 62
15040298 TTTAAAAGAT
* * * *
15040308 TTAAATATTTAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATATTTAATTAA
1 TTAATTATTTAA-TTATATTAAACTAAATAAATATATTAAATTATTTAATTATAATTAATTAA
* * * *** *
15040371 ATATTTAATTTAA-AATATTTTCCTAAATAAATATA-TATAATTATTTAATTTTAATTAATTAA
1 TTAATT-ATTTAATTATATTAAACTAAATAAATATATTA-AATTATTTAATTATAATTAATTAA
* *
15040433 TTAATTATTTAATTATACTAAATTAAATA
1 TTAATTATTTAATTATATTAAACTAAATA
15040462 TTTAATTATT
Statistics
Matches: 69, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
61 8 0.12
62 52 0.75
63 3 0.04
64 6 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (62 bp):
TTAATTATTTAATTATATTAAACTAAATAAATATATTAAATTATTTAATTATAATTAATTAA
Found at i:15040555 original size:31 final size:33
Alignment explanation
Indices: 15040499--15040565 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
15040489 CAAAATATTT
15040499 AAGTAAAATGTTGTCACTAATATATATATTTTA
1 AAGTAAAATGTTGTCACTAATATATATATTTTA
15040532 AAGTAAAATGTTGTCACTAATATATAT-TTTTA
1 AAGTAAAATGTTGTCACTAATATATATATTTTA
15040564 AA
1 AA
15040566 TTTAAATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (33 bp):
AAGTAAAATGTTGTCACTAATATATATATTTTA
Found at i:15046021 original size:66 final size:66
Alignment explanation
Indices: 15045915--15046071 Score: 251
Period size: 66 Copynumber: 2.4 Consensus size: 66
15045905 CAAATTGCTC
* *
15045915 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
15045980 A
66 A
* *
15045981 AACTTAAAGAGGAGGCTGCAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
*
15046046 C
66 A
* *
15046047 AACTTAAAGTGGAGGCAGCAGCGAG
1 AACTTAAAGAGGAGGCTGCAGCGAG
15046072 GCAAGCGGAG
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 83 1.00
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
A
Found at i:15046083 original size:21 final size:21
Alignment explanation
Indices: 15046057--15046109 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
15046047 AACTTAAAGT
15046057 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
*
15046078 GGAGGCAGCAGTGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
* *
15046099 GAAGGAAGCAG
1 GGAGGCAGCAG
15046110 AGGCTACAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.47, T:0.02
Consensus pattern (21 bp):
GGAGGCAGCAGCGAGGCAAGC
Found at i:15046330 original size:15 final size:15
Alignment explanation
Indices: 15046310--15046338 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15046300 ATTTGAAGTT
15046310 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
15046325 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
15046339 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:15046621 original size:42 final size:43
Alignment explanation
Indices: 15046407--15046630 Score: 314
Period size: 43 Copynumber: 5.3 Consensus size: 43
15046397 ATCTGTTATA
* *
15046407 TTAGCGGCGCTT-TTGGAGAAAGCGCCGCTAAAGAACAAGGCC-
1 TTAGCGGCGCTTGTGGGA-AAAGCGCCGCTAAAGAACATGGCCT
15046449 -TAGCGGCGCTTGT-GGAGAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGGA-AAAGCGCCGCTAAAGAACATGGCCT
*
15046491 TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAAAACATGGCCT
1 TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCT
15046534 TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCT
* * ** **
15046577 TTAGCGGCGCCTGTGGG-AAAGAGCCGCTAAAGGCCATGTTCT
1 TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCT
15046619 TTAGCGGCGCTT
1 TTAGCGGCGCTT
15046631 TTCCGCATAA
Statistics
Matches: 168, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
41 38 0.23
42 32 0.19
43 95 0.57
44 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (43 bp):
TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCT
Found at i:15055908 original size:20 final size:21
Alignment explanation
Indices: 15055880--15055924 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
15055870 AACTAAAACA
15055880 AAAACAG-AAACAAAACAAAT
1 AAAACAGAAAACAAAACAAAT
* *
15055900 AAAATAGAAAACAAAACAACT
1 AAAACAGAAAACAAAACAAAT
15055921 AAAA
1 AAAA
15055925 ACAAGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.76, C:0.13, G:0.04, T:0.07
Consensus pattern (21 bp):
AAAACAGAAAACAAAACAAAT
Found at i:15059107 original size:2 final size:2
Alignment explanation
Indices: 15059100--15059174 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
15059090 ATCAAATTGG
15059100 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15059142 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15059175 GAAAATGTAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.