Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 166 of 182
Found at i:50440219 original size:26 final size:28
Alignment explanation
Indices: 50440190--50440254 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 28
50440180 TAGAAAATAA
50440190 TAAAATAAATAAATAAT-A-TATTAAAT
1 TAAAATAAATAAATAATAACTATTAAAT
* * *
50440216 TAAATTAAA-AAA-AATAACTCTTAATT
1 TAAAATAAATAAATAATAACTATTAAAT
50440242 TAAAA-AAATAAAT
1 TAAAATAAATAAAT
50440255 GTAATTATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
24 3 0.10
25 7 0.23
26 21 0.68
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (28 bp):
TAAAATAAATAAATAATAACTATTAAAT
Found at i:50440259 original size:19 final size:20
Alignment explanation
Indices: 50440218--50440261 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50440208 TATTAAATTA
* *
50440218 AATTAAAAAAAATAACTCTT
1 AATTAAAAAAAATAAATCGT
*
50440238 AATTTAAAAAAATAAAT-GT
1 AATTAAAAAAAATAAATCGT
50440257 AATTA
1 AATTA
50440262 TCTTTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTAAAAAAAATAAATCGT
Found at i:50449106 original size:35 final size:34
Alignment explanation
Indices: 50449067--50449178 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 34
50449057 CCAAATCCAT
**
50449067 TTTAAATTTATCTTAAGA-TTAAATTTGTTTTAAAG
1 TTTAAATTTATCTTAA-ATTTAAATTTAATTT-AAG
*
50449102 TTTAAATTTATTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATCTTAAATTTAAATTTAATTTAAG
* * * * *
50449136 TTTGAATTTGTTTTCAAATTTAAAATT-ATTATAAA
1 TTTAAATTTATCTT-AAATTTAAATTTAATT-TAAG
50449171 TTTAAATT
1 TTTAAATT
50449179 CAAATGTCCA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 19 0.29
35 47 0.71
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATCTTAAATTTAAATTTAATTTAAG
Found at i:50449122 original size:6 final size:6
Alignment explanation
Indices: 50449095--50449183 Score: 53
Period size: 6 Copynumber: 15.2 Consensus size: 6
50449085 TTAAATTTGT
* * *
50449095 TTTAAA GTTTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTAAG TTTGAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * *
50449142 TTT-GT TTTCAAA TTTAAA ATT--A TTATAAA TTTAAA TTCAAA T
1 TTTAAA TTT-AAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA T
50449184 GTCCAAATTA
Statistics
Matches: 63, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
4 2 0.03
5 13 0.21
6 36 0.57
7 12 0.19
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:50449135 original size:52 final size:52
Alignment explanation
Indices: 50449067--50449178 Score: 156
Period size: 52 Copynumber: 2.2 Consensus size: 52
50449057 CCAAATCCAT
* *
50449067 TTTAAATTTATCTTAAGATTAAATTTGTTTT-AAAGTTTAAATTTATTTTAAA
1 TTTAAATTTATCTTAAGATTAAATTTGTTTTCAAA-TTTAAAATTATTATAAA
* *
50449119 TTTAAATTTAAT-TTAAGTTTGAATTTGTTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTT-ATCTTAAGATTAAATTTGTTTTCAAATTTAAAATTATTATAAA
50449171 TTTAAATT
1 TTTAAATT
50449179 CAAATGTCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
52 49 0.91
53 5 0.09
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (52 bp):
TTTAAATTTATCTTAAGATTAAATTTGTTTTCAAATTTAAAATTATTATAAA
Found at i:50449173 original size:17 final size:17
Alignment explanation
Indices: 50449067--50449178 Score: 118
Period size: 17 Copynumber: 6.5 Consensus size: 17
50449057 CCAAATCCAT
*
50449067 TTTAAATTTATCTTAAGA
1 TTTAAATTTATTTTAA-A
*
50449085 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
50449101 GTTTAAATTTATTTTAAA
1 -TTTAAATTTATTTTAAA
* *
50449119 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
* *
50449136 TTTGAATTTGTTTTCAAA
1 TTTAAATTTATTTT-AAA
* *
50449154 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
50449171 TTTAAATT
1 TTTAAATT
50449179 CAAATGTCCA
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
16 1 0.01
17 49 0.64
18 27 0.35
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:50452476 original size:30 final size:29
Alignment explanation
Indices: 50452443--50452759 Score: 218
Period size: 30 Copynumber: 10.7 Consensus size: 29
50452433 AAACTATCCA
* *
50452443 AAAATTATATTTTGAACCTAAAACTTTCT
1 AAAATTACATTTTGAACCCAAAACTTTCT
*
50452472 AAAAATTACATTTTG-ACCACAAAACTTTTCC
1 -AAAATTACATTTTGAACC-CAAAAC-TTTCT
*
50452503 AAAATTGCATTTTG-ACCCTAAAACTTTTCT
1 AAAATTACATTTTGAACCC-AAAAC-TTTCT
*
50452533 AAAATTACATTTT-AACCGCAAAACTTTTCC
1 AAAATTACATTTTGAACC-CAAAAC-TTTCT
* *
50452563 AAAATTATATTTTGACCCCAAAACTTTTCT
1 AAAATTACATTTTGAACCCAAAAC-TTTCT
* *
50452593 AATATTACATTTTG-ACCGCAAAACTTTTCC
1 AAAATTACATTTTGAACC-CAAAAC-TTTCT
* * *
50452623 AATATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGAACCCAAAAC-TTTCT
**
50452653 AAAATTACATTTT-AACCCTCGAACTTT-T
1 AAAATTACATTTTGAACCC-AAAACTTTCT
* * ** * *
50452681 CAAAATTCCATTTTTAACCC-TGATTTTACCA
1 -AAAATTACATTTTGAACCCAAAACTTT--CT
* *
50452712 AAAATTACCATTTT-ACCCCCAAACTTTCT
1 AAAATTA-CATTTTGAACCCAAAACTTTCT
* *
50452741 AAAATTCCATTTTTAACCC
1 AAAATTACATTTTGAACCC
50452760 CAATTTCACC
Statistics
Matches: 237, Mismatches: 33, Indels: 35
0.78 0.11 0.11
Matches are distributed among these distances:
28 10 0.04
29 36 0.15
30 171 0.72
31 20 0.08
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTGAACCCAAAACTTTCT
Found at i:50452526 original size:60 final size:60
Alignment explanation
Indices: 50452443--50452665 Score: 331
Period size: 60 Copynumber: 3.7 Consensus size: 60
50452433 AAACTATCCA
* * * *
50452443 AAAATTATATTTTGAACCTAAAAC-TTTCTAAAAATTACATTTTGACCACAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCT-AAAATTACATTTTGACCGCAAAACTTTTCC
* * *
50452503 AAAATTGCATTTTGACCCTAAAACTTTTCTAAAATTACATTTTAACCGCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCTAAAATTACATTTTGACCGCAAAACTTTTCC
* *
50452563 AAAATTATATTTTGACCCCAAAACTTTTCTAATATTACATTTTGACCGCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCTAAAATTACATTTTGACCGCAAAACTTTTCC
* *
50452623 AATATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
1 AAAATTACATTTTGACCCCAAAACTTTTCTAAAATTACATTTT
50452666 AACCCTCGAA
Statistics
Matches: 148, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
60 143 0.97
61 5 0.03
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (60 bp):
AAAATTACATTTTGACCCCAAAACTTTTCTAAAATTACATTTTGACCGCAAAACTTTTCC
Found at i:50452539 original size:90 final size:90
Alignment explanation
Indices: 50452443--50452665 Score: 299
Period size: 90 Copynumber: 2.5 Consensus size: 90
50452433 AAACTATCCA
* * *
50452443 AAAATTATATTTTGAACCTAAAAC-TTTCTAAAAATTACATTTTGACCACAAAACTTTTCCAAAA
1 AAAATTACATTTTGAACCCAAAACTTTTC-CAAAATTACATTTTGACCACAAAACTTTTCCAAAA
* *
50452507 TTGCATTTTGACC-CTAAAACTTTTCT
65 TTACATTTTGACCGC-AAAACTTTTCC
* * * *
50452533 AAAATTACATTTT-AACCGCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCTAATA
1 AAAATTACATTTTGAACC-CAAAACTTTTCCAAAATTACATTTTGACCACAAAACTTTTCCAAAA
50452597 TTACATTTTGACCGCAAAACTTTTCC
65 TTACATTTTGACCGCAAAACTTTTCC
* *
50452623 AATATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
1 AAAATTACATTTTGAACCCAAAACTTTTCCAAAATTACATTTT
50452666 AACCCTCGAA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
89 4 0.03
90 105 0.90
91 8 0.07
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (90 bp):
AAAATTACATTTTGAACCCAAAACTTTTCCAAAATTACATTTTGACCACAAAACTTTTCCAAAAT
TACATTTTGACCGCAAAACTTTTCC
Found at i:50452678 original size:60 final size:60
Alignment explanation
Indices: 50452443--50452694 Score: 330
Period size: 60 Copynumber: 4.2 Consensus size: 60
50452433 AAACTATCCA
* * * * *
50452443 AAAATTATATTTTGAACCTAAAAC-TTTCTAAAAATTACATTTTGACCACAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCT-AAAATTACATTTTAACCGCAAAACTTTTCC
* *
50452503 AAAATTGCATTTTGACCCTAAAACTTTTCTAAAATTACATTTTAACCGCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCTAAAATTACATTTTAACCGCAAAACTTTTCC
* * *
50452563 AAAATTATATTTTGACCCCAAAACTTTTCTAATATTACATTTTGACCGCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCTAAAATTACATTTTAACCGCAAAACTTTTCC
* * **
50452623 AATATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACC-CTCGAACTTTT-C
1 AAAATTACATTTTGACCCCAAAACTTTTCTAAAATTACATTTTAACCGC-AAAACTTTTCC
*
50452682 AAAATTCCATTTT
1 AAAATTACATTTT
50452695 TAACCCTGAT
Statistics
Matches: 171, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
59 13 0.08
60 153 0.89
61 5 0.03
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (60 bp):
AAAATTACATTTTGACCCCAAAACTTTTCTAAAATTACATTTTAACCGCAAAACTTTTCC
Found at i:50452678 original size:90 final size:88
Alignment explanation
Indices: 50452443--50452762 Score: 294
Period size: 90 Copynumber: 3.6 Consensus size: 88
50452433 AAACTATCCA
* * * * *
50452443 AAAATTATATTTTGAACCTAAAAC-TTTCTAAAAATTACATTTTGACCACAAAACTTTTCCAAAA
1 AAAATTACATTTTGACCCCAAAACTTTTC-CAAAATTACATTTTGACC-CCAAACTTTT-CAAAA
* *
50452507 TTGCATTTTGACCCTAAAACTTTTCT
63 TTACATTTTGACCCTAAAACTTTTCC
* * * *
50452533 AAAATTACATTTTAACCGCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCTAATAT
1 AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCC-AAACTTTTC-AAAAT
50452598 TACATTTTGACCGC-AAAACTTTTCC
64 TACATTTTGACC-CTAAAACTTTTCC
* * *
50452623 AATATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTCGAACTTTTCAAAATT
1 AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCC-CAAACTTTTCAAAATT
* * *
50452688 CCATTTTTAACCCT--GA-TTTTACC
65 ACA-TTTTGACCCTAAAACTTTT-CC
* * * *
50452711 AAAAATTACCATTTT-ACCCCCAAAC-TTTCTAAAATTCCATTTTTAACCCCAA
1 -AAAATTA-CATTTTGACCCCAAAACTTTTCCAAAATTACA-TTTTGACCCCAA
50452763 TTTCACCAAA
Statistics
Matches: 193, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
87 4 0.02
88 17 0.09
89 34 0.18
90 132 0.68
91 6 0.03
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (88 bp):
AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAACTTTTCAAAATTA
CATTTTGACCCTAAAACTTTTCC
Found at i:50452737 original size:59 final size:59
Alignment explanation
Indices: 50452653--50452966 Score: 352
Period size: 59 Copynumber: 5.3 Consensus size: 59
50452643 AAACTTTTCC
* *
50452653 AAAATTA-CATTTTAACCCTCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTTACCA
1 AAAATTACCATTTT-ACCCCCAAACTTTTCAAAATTCCATTTTTAACCCTGATTTTACCA
** *
50452712 AAAATTACCATTTTACCCCCAAAC-TTTCTAAAATTCCATTTTTAACCCCAATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTTC-AAAATTCCATTTTTAACCCTGATTTTACCA
* * * * * *
50452771 AAAAATATCGTTTTACCCTCTAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTTACCA
1 AAAATTACCATTTTACCCCCAAACTTTTCAAAATTCCATTTTTAACCCT-GATTTTACCA
* ** * *
50452830 AAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTTGCCA
1 AAAATTACCATTTTACCCCCAAACTTTTCAAAATTCCATTTTTAACCCT-GATTTTACCA
* * * *
50452889 AAAATTACCATTTTACCCCTAAA-TTTTCCAAAATTCCATTTTTAGCCCCGATTTCA-CA
1 AAAATTACCATTTTACCCCCAAACTTTT-CAAAATTCCATTTTTAACCCTGATTTTACCA
*
50452947 AAAATTACCATTTTGCCCCC
1 AAAATTACCATTTTACCCCC
50452967 GAAAGTCCAA
Statistics
Matches: 220, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
58 29 0.13
59 180 0.82
60 11 0.05
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAACTTTTCAAAATTCCATTTTTAACCCTGATTTTACCA
Found at i:50452813 original size:118 final size:118
Alignment explanation
Indices: 50452660--50452989 Score: 409
Period size: 118 Copynumber: 2.8 Consensus size: 118
50452650 TCCAAAATTA
* *
50452660 CATTTTAACCCTCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTTACCAAAAATTACCATTT
1 CATTTT-ACCCTCTAACTTTCCAAAATTCCATTTTTAACCCTGATTTTACCAAAAATTACCATTT
* *
50452725 TACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCAATTTCACCAAAAAATAT
65 TACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAAATAC
* *
50452779 CGTTTTACCCTCTAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTTACCAAAAATTACCGTTT
1 CATTTTACCCTCTAACTTTCCAAAATTCCATTTTTAACCCT-GATTTTACCAAAAATTACCATTT
** * * ** *
50452843 TACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTGCCAAAAATTAC
65 TACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAAATAC
* * * *
50452897 CATTTTACCC-CTAAATTTTCCAAAATTCCATTTTTAGCCCCGATTTCA-CAAAAATTACCATTT
1 CATTTTACCCTCT-AACTTTCCAAAATTCCATTTTTAACCCTGATTTTACCAAAAATTACCATTT
* *
50452960 TGCCCCCGAAA--GTCCAAAATTACCATTTTT
65 TACCCCC-AAACTTTCCAAAATT-CCATTTTT
50452990 CCCCCGGGTA
Statistics
Matches: 183, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
116 9 0.05
117 32 0.17
118 135 0.74
119 7 0.04
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (118 bp):
CATTTTACCCTCTAACTTTCCAAAATTCCATTTTTAACCCTGATTTTACCAAAAATTACCATTTT
ACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAAATAC
Found at i:50452844 original size:30 final size:29
Alignment explanation
Indices: 50452647--50452960 Score: 147
Period size: 29 Copynumber: 10.7 Consensus size: 29
50452637 ACCCCAAAAC
50452647 TTTTCC-AAAATTA-CATTTTAACCCTCGAA
1 TTTTCCAAAAATTACCATTTTAA-CCTCG-A
50452676 CTTTT-C-AAAATT-CCATTTTTAACC-CTGA
1 -TTTTCCAAAAATTACCA-TTTTAACCTC-GA
* * *
50452704 TTTTACCAAAAATTACCATTTTACCCCCAAA
1 TTTT-CCAAAAATTACCATTTTAACCTC-GA
* * * *
50452735 CTTT-CTAAAATT-CCATTTTTAACCCCAA
1 TTTTCCAAAAATTACCA-TTTTAACCTCGA
* * * * * *
50452763 TTTCACCAAAAAATATCGTTTTACCCTCTAA
1 TTT-TCCAAAAATTACCATTTTAACCTC-GA
*
50452794 CTTTCC-AAAATT-CCATTTTTAACCTCGA
1 TTTTCCAAAAATTACCA-TTTTAACCTCGA
* *
50452822 TTTTACCAAAAATTACCGTTTT-ACCCCTGAA
1 TTTT-CCAAAAATTACCATTTTAACCTC-G-A
*
50452853 CTTTCC-AAAATT-CCATTTTTAACCTCGA
1 TTTTCCAAAAATTACCA-TTTTAACCTCGA
* **
50452881 TTTTGCCAAAAATTACCATTTTACCCCTAAA
1 TTTT-CCAAAAATTACCATTTTA-ACCTCGA
* *
50452912 TTTTCC-AAAATT-CCATTTTTAGCCCCGA
1 TTTTCCAAAAATTACCA-TTTTAACCTCGA
50452940 -TTTCACAAAAATTACCATTTT
1 TTTTC-CAAAAATTACCATTTT
50452961 GCCCCCGAAA
Statistics
Matches: 220, Mismatches: 35, Indels: 59
0.70 0.11 0.19
Matches are distributed among these distances:
27 8 0.04
28 27 0.12
29 83 0.38
30 72 0.33
31 30 0.14
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTTCCAAAAATTACCATTTTAACCTCGA
Found at i:50452966 original size:29 final size:27
Alignment explanation
Indices: 50452889--50452995 Score: 83
Period size: 29 Copynumber: 3.8 Consensus size: 27
50452879 GATTTTGCCA
* **
50452889 AAAATTACCATTTTACCCCTAAATTTTCC
1 AAAATTACCATTTTGCCCC-CGA-TTTCC
50452918 AAAATT-CCATTTTTAG-CCCCGATTTCAC
1 AAAATTACCA-TTTT-GCCCCCGATTTC-C
**
50452946 AAAAATTACCATTTTGCCCCCGAAAGTCC
1 -AAAATTACCATTTTGCCCCCG-ATTTCC
*
50452975 AAAATTACCATTTTTCCCCCG
1 AAAATTACCATTTTGCCCCCG
50452996 GGTATCCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
27 4 0.06
28 26 0.40
29 29 0.45
30 6 0.09
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.33
Consensus pattern (27 bp):
AAAATTACCATTTTGCCCCCGATTTCC
Found at i:50457197 original size:58 final size:59
Alignment explanation
Indices: 50457124--50457523 Score: 338
Period size: 59 Copynumber: 6.8 Consensus size: 59
50457114 GGATGCTCGG
** ** * * *
50457124 GGGTAAAACGGTAA-TTTTGAAAGGTTCATAGTCAAATATGGAGTTTTTAGATATTCGA
1 GGGTAAAATAGTAATTTTTGAAAGGTTCAGGGTCAAAAATGGAATTTTTAGACATTCGA
* * * *
50457182 GGATAAAATAATAATTTTTGGAAA-GTTTAGGGTTAAAAATGGAATTTTTAGACATTCGA
1 GGGTAAAATAGTAATTTTT-GAAAGGTTCAGGGTCAAAAATGGAATTTTTAGACATTCGA
* * *
50457241 GGGTAAAATGGTAATTTTTGGAAGGTTC-GAGGTCAAAAATGGAATTTTTAGACATTCAA
1 GGGTAAAATAGTAATTTTTGAAAGGTTCAG-GGTCAAAAATGGAATTTTTAGACATTCGA
* * *
50457300 GGGTAAAATAGTAA-TTTTGGAAGGTTCGGGGGT-TAAAATGGAATTTTTAGACATTCGA
1 GGGTAAAATAGTAATTTTTGAAAGGTTC-AGGGTCAAAAATGGAATTTTTAGACATTCGA
* * * * * *
50457358 GGGTAAAATGGTAATTTTTGAAAGGTTCAGGGTTAAAAATAGATTTTTTTCGACA-TCTAA
1 GGGTAAAATAGTAATTTTTGAAAGGTTCAGGGTCAAAAATGGA-ATTTTTAGACATTC-GA
* * * * * * * *
50457418 GGGTAAAATAGTATTTTTTGGAAGATTC-GGGATTAAAAATGGAA-ATTTGGAAAGTTATG-
1 GGGTAAAATAGTAATTTTTGAAAGGTTCAGGG-TCAAAAATGGAATTTTTAGACA-TT-CGA
*
50457477 GGGTAAAA-ATGTAATTTTTGGAAA-ATTC-GGGTCAAAAATGGAATTTT
1 GGGTAAAATA-GTAATTTTT-GAAAGGTTCAGGGTCAAAAATGGAATTTT
50457524 GAAAAATTTG
Statistics
Matches: 281, Mismatches: 44, Indels: 33
0.78 0.12 0.09
Matches are distributed among these distances:
58 85 0.30
59 143 0.51
60 53 0.19
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.34
Consensus pattern (59 bp):
GGGTAAAATAGTAATTTTTGAAAGGTTCAGGGTCAAAAATGGAATTTTTAGACATTCGA
Found at i:50457200 original size:29 final size:29
Alignment explanation
Indices: 50457167--50457376 Score: 112
Period size: 29 Copynumber: 7.2 Consensus size: 29
50457157 AAATATGGAG
* *
50457167 TTTTTAGATATTCGAGGATAAAATAATAA
1 TTTTTAGACATTCGAGGGTAAAATAATAA
* * * *
50457196 TTTTTGGAAAGTT-TAGGGTTAAA-AATGGAA
1 TTTTTAGACA-TTCGAGGGTAAAATAAT--AA
**
50457226 TTTTTAGACATTCGAGGGTAAAATGGTAA
1 TTTTTAGACATTCGAGGGTAAAATAATAA
* *
50457255 TTTTTGGA-AGGTTCGA-GGTCAAA-AATGGAA
1 TTTTTAGACA--TTCGAGGGTAAAATAAT--AA
* *
50457285 TTTTTAGACATTCAAGGGTAAAATAGTAA
1 TTTTTAGACATTCGAGGGTAAAATAATAA
* * **
50457314 -TTTTGGA-AGGTTCGGGGGTTAAAAT-GGAA
1 TTTTTAGACA--TTCGAGGG-TAAAATAATAA
**
50457343 TTTTTAGACATTCGAGGGTAAAATGGTAA
1 TTTTTAGACATTCGAGGGTAAAATAATAA
50457372 TTTTT
1 TTTTT
50457377 GAAAGGTTCA
Statistics
Matches: 137, Mismatches: 26, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
27 1 0.01
28 17 0.12
29 62 0.45
30 52 0.38
31 5 0.04
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (29 bp):
TTTTTAGACATTCGAGGGTAAAATAATAA
Found at i:50457513 original size:29 final size:27
Alignment explanation
Indices: 50457433--50457531 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 27
50457423 AAATAGTATT
*
50457433 TTTTGGAAGATTCGGGATTAAAAATGGAA
1 TTTTGGAAAATTCGGG--TAAAAATGGAA
* * * *
50457462 ATTTGGAAAGTTATGGGGTAAAAATGTAA
1 TTTTGGAAA-AT-TCGGGTAAAAATGGAA
50457491 TTTTTGGAAAATTCGGGTCAAAAATGGAA
1 -TTTTGGAAAATTCGGGT-AAAAATGGAA
*
50457520 TTTTGAAAAATT
1 TTTTGGAAAATT
50457532 TGGGGGGCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
28 16 0.29
29 27 0.48
30 9 0.16
31 4 0.07
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.33
Consensus pattern (27 bp):
TTTTGGAAAATTCGGGTAAAAATGGAA
Found at i:50457544 original size:59 final size:59
Alignment explanation
Indices: 50457422--50457553 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 59
50457412 ATCTAAGGGT
* * * * * *
50457422 AAAATAGTATTTTTTGGAAGATTCGGGATTAAAAATGGAAATTTGGAAAGTTATGGGGTA
1 AAAAT-GTAATTTTTGGAAAATTCGGGATCAAAAATGGAAATTTGAAAAATTATGGGGCA
*
50457482 AAAATGTAATTTTTGGAAAATTCGGG-TCAAAAATGGAATTTTGAAAAATT-TGGGGGGCA
1 AAAATGTAATTTTTGGAAAATTCGGGATCAAAAATGGAAATTTGAAAAATTAT--GGGGCA
*
50457541 AAAATGTGATTTT
1 AAAATGTAATTTT
50457554 CAAGAATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
57 1 0.02
58 20 0.32
59 36 0.58
60 5 0.08
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAAATTCGGGATCAAAAATGGAAATTTGAAAAATTATGGGGCA
Found at i:50457619 original size:29 final size:29
Alignment explanation
Indices: 50457452--50457726 Score: 106
Period size: 29 Copynumber: 9.5 Consensus size: 29
50457442 ATTCGGGATT
*
50457452 AAAAATGGAAA-TTTGGAAAGTTATGGGGT-
1 AAAAAT-GAAATTTTGAAAAGTT-TGGGGTC
* *
50457481 AAAAATGTAATTTTTGGAAAA--TTCGGGTC
1 AAAAATG-AAATTTT-GAAAAGTTTGGGGTC
* * *
50457510 AAAAATGGAATTTTGAAAAATTTGGGGGGC
1 AAAAATGAAATTTTGAAAAGTTT-GGGGTC
** * * ***
50457540 AAAAATGTGATTTTCAAGAATTTTGCAATC
1 AAAAATGAAATTTTGAA-AAGTTTGGGGTC
* * * *
50457570 GAAAATGGAATTTT-ATGAAGTTTTGGGTC
1 AAAAATGAAATTTTGA-AAAGTTTGGGGTC
* *
50457599 AAAAATGAAATTTTGAAAAGTTCGAGGTC
1 AAAAATGAAATTTTGAAAAGTTTGGGGTC
* * * *
50457628 -AAAATTAGAATTTTGGAACA-TTCGGGG-A
1 AAAAATGA-AATTTT-GAAAAGTTTGGGGTC
* *
50457656 AAAAAT-AATTTTTCAAAAGTTTAGGGG--
1 AAAAATGAAATTTTGAAAAGTTT-GGGGTC
* **
50457683 AAAAATGTAATTTTTGTGAAGTTTAGGGGT-
1 AAAAATG-AAATTTTGAAAAGTTT-GGGGTC
50457713 AAAAATGAAATTTT
1 AAAAATGAAATTTT
50457727 TGGACAGTTT
Statistics
Matches: 186, Mismatches: 42, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
26 3 0.02
27 18 0.10
28 22 0.12
29 88 0.47
30 46 0.25
31 9 0.05
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (29 bp):
AAAAATGAAATTTTGAAAAGTTTGGGGTC
Found at i:50457719 original size:30 final size:28
Alignment explanation
Indices: 50457672--50457738 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 28
50457662 AATTTTTCAA
*
50457672 AAGTTTAGGGGAAAAATGTAATTTTTGTG
1 AAGTTTAGGGGAAAAATGAAATTTTTG-G
50457701 AAGTTTAGGGGTAAAAATGAAATTTTTGG
1 AAGTTTAGGGG-AAAAATGAAATTTTTGG
50457730 ACAGTTTAG
1 A-AGTTTAG
50457739 AGACCTTCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 13 0.37
30 22 0.63
ACGTcount: A:0.36, C:0.01, G:0.27, T:0.36
Consensus pattern (28 bp):
AAGTTTAGGGGAAAAATGAAATTTTTGG
Found at i:50458917 original size:14 final size:15
Alignment explanation
Indices: 50458898--50458927 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50458888 ATTTGGCCAA
50458898 TTGGGT-TTTCAAAT
1 TTGGGTCTTTCAAAT
50458912 TTGGGTCTTTCAAAT
1 TTGGGTCTTTCAAAT
50458927 T
1 T
50458928 GTACTAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (15 bp):
TTGGGTCTTTCAAAT
Found at i:50459040 original size:17 final size:17
Alignment explanation
Indices: 50459015--50459078 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
50459005 TAAATAAATT
* *
50459015 TAAACTTAAATTTATTA
1 TAAATTTAAATTTATAA
50459032 TAAATTTAAATTTCA-AA
1 TAAATTTAAATTT-ATAA
* *
50459049 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTATAA
50459066 TAAATTTAAATTT
1 TAAATTTAAATTT
50459079 TGTTAGGCCC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.02
17 39 0.95
18 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:50459041 original size:6 final size:6
Alignment explanation
Indices: 50459009--50459078 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
50458999 ATTATTTAAA
*
50459009 TAAATT TAAACT TAAATT T--ATT ATAAATT TAAATT TCAAA-- TAAATT
1 TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT T-AAATT TAAATT
* *
50459055 TAAACT TAAA-A TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
50459079 TGTTAGGCCC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
4 6 0.12
5 6 0.12
6 34 0.65
7 6 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:50459076 original size:40 final size:39
Alignment explanation
Indices: 50459002--50459078 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 39
50458992 ATTGGACATT
**
50459002 ATTTAAATAAATTTAAACTTAAATTTATTATAAATTTAA
1 ATTTAAATAAATTTAAACTTAAATAAATTATAAATTTAA
50459041 ATTTCAAATAAATTTAAACTTAAAATAAATT-TAAATTT
1 ATTT-AAATAAATTTAAACTT-AAATAAATTATAAATTT
50459079 TGTTAGGCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 4 0.12
40 23 0.68
41 7 0.21
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (39 bp):
ATTTAAATAAATTTAAACTTAAATAAATTATAAATTTAA
Found at i:50459547 original size:39 final size:39
Alignment explanation
Indices: 50459504--50459724 Score: 178
Period size: 39 Copynumber: 5.7 Consensus size: 39
50459494 GCTGATGATG
* *
50459504 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGTAGCA
* * * * * * *
50459543 ATCTGCCTCATGATCGGGGTAAGAGATTGG-CGATAGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGTAGCA
*
50459581 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGTCGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGTAGCA
** * * * * ** **
50459620 GCCTGCCCCAGGCTCGGGATAAGAGATTGGCTTATAGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGTAGCA
* * * *
50459659 ATCTGTCCTAAGCTCGGGGTAAAAGATCGGGTGGCT-GCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGG-TAGCA
*
50459698 ATCTACCCC-AGCCTCGGGGTAAGAGAT
1 ATCTGCCCCAAG-CTCGGGGTAAGAGAT
50459725 TGGTTGTAAC
Statistics
Matches: 134, Mismatches: 45, Indels: 6
0.72 0.24 0.03
Matches are distributed among these distances:
38 32 0.24
39 101 0.75
40 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.22
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGTAGCA
Found at i:50459597 original size:77 final size:77
Alignment explanation
Indices: 50459461--50459727 Score: 295
Period size: 78 Copynumber: 3.4 Consensus size: 77
50459451 TTTGGATAAC
** ** * *
50459461 TGCAATCTGCCCCAAGCTAAGGGTGGGAGATTAGCTGAT-GATGATCTGCCCCAAGCTCGGGGTA
1 TGCAATCTGCCCC-AGCTCGGGGTAAGAGATTGGCTGATAG-TAATCTGCCCCAAGCTCGGGGTA
50459525 AAAGATCGGATGGT
64 AAAGATCGGATGGT
* *
50459539 TGCAATCTGCCTCATGATCGGGGTAAGAGATTGGC-GATAGTAATCTGCCCCAAGCTCGGGGTAA
1 TGCAATCTGCCCCA-GCTCGGGGTAAGAGATTGGCTGATAGTAATCTGCCCCAAGCTCGGGGTAA
*
50459603 GAGATCGGATGGT
65 AAGATCGGATGGT
* ** * * * * *
50459616 CGCAGCCTGCCCCAGGCTCGGGATAAGAGATTGGCTTATAGTGATCTGTCCTAAGCTCGGGGTAA
1 TGCAATCTGCCCCA-GCTCGGGGTAAGAGATTGGCTGATAGTAATCTGCCCCAAGCTCGGGGTAA
* *
50459681 AAGATCGGGTGGC
65 AAGATCGGATGGT
*
50459694 TGCAATCTACCCCAGCCTCGGGGTAAGAGATTGG
1 TGCAATCTGCCCCAG-CTCGGGGTAAGAGATTGG
50459728 TTGTAACTTC
Statistics
Matches: 157, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
77 68 0.43
78 89 0.57
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (77 bp):
TGCAATCTGCCCCAGCTCGGGGTAAGAGATTGGCTGATAGTAATCTGCCCCAAGCTCGGGGTAAA
AGATCGGATGGT
Found at i:50460190 original size:98 final size:99
Alignment explanation
Indices: 50460006--50460222 Score: 255
Period size: 98 Copynumber: 2.2 Consensus size: 99
50459996 TCGTTGCGGT
* *
50460006 TTAAAT-TTTCCTTTCATG-CTCCTGAAGTATGAGCTTTGCCATTGTGACTTAAACCTTTCCCCT
1 TTAAATCTTTCCCTTCATGTCTCCTGAAGTATGAGCTTTGCCATTGCGACTTAAACCTTTCCCCT
* * *
50460069 CGTGTCTTCGCGGTATTAAATTTACTGCTGCAGC
66 CATGTCTTCGCGGTACTAAATTTACCGCTGCAGC
*
50460103 TTAAATCTTTCCCTTCATGTCT-CTGAAGTACT-AGGTTTGCCATTGCGACTTAAACC-TTCCTC
1 TTAAATCTTTCCCTTCATGTCTCCTGAAGTA-TGAGCTTTGCCATTGCGACTTAAACCTTTCC-C
* * * ** * *
50460165 TTTATGTCTTCGTGGTACTGGATTTACCGTTGCGGC
64 CTCATGTCTTCGCGGTACTAAATTTACCGCTGCAGC
*
50460201 TTAAATCTTTCCCTTCGTGTCT
1 TTAAATCTTTCCCTTCATGTCT
50460223 TTGCGGTACT
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
97 10 0.10
98 89 0.87
99 3 0.03
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.41
Consensus pattern (99 bp):
TTAAATCTTTCCCTTCATGTCTCCTGAAGTATGAGCTTTGCCATTGCGACTTAAACCTTTCCCCT
CATGTCTTCGCGGTACTAAATTTACCGCTGCAGC
Found at i:50460419 original size:99 final size:99
Alignment explanation
Indices: 50460190--50460569 Score: 396
Period size: 99 Copynumber: 3.9 Consensus size: 99
50460180 TACTGGATTT
** * * * * **
50460190 ACCGTTGCGGCTTAAATCTTTCCCTTCGTGTCTTTGCGGTACTGGATTCGTAGTTGCGGCTTAAA
1 ACCGTTGCAACTTAAACCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAA
* * * * *
50460255 ACTTTCCC-TTCATGAC-TATATGGTGCT-AGGTTC
66 TCTTTCCCTTTTATG-CTTCTAAGGT-ATAAGGTTC
* ***
50460288 ACCGTTGCAACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCCGTTGTAACTTAAA
1 ACCGTTGCAACTTAAACCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAA
* *
50460353 TCTTTCCCTTTTATGCTTTTGAGGTATAAGGTTC
66 TCTTTCCCTTTTATGCTTCTAAGGTATAAGGTTC
* * *
50460387 ACCGTTGCTACTTAAACCTTT-CCTGTCATGTCTTCGTGGTACTGGATTCGCCATCGCGGCTTAA
1 ACCGTTGCAACTTAAACCTTTCCCT-TCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAA
*
50460451 ATCTTTCCCTTTTATGCTTCTAAGGTATCAGGTTC
65 ATCTTTCCCTTTTATGCTTCTAAGGTATAAGGTTC
* * * * * *
50460486 GCTAG-TGCGACTTAAACCTTTCCCTT-ACTGTCTTCATGGTATTGGATTCGCTGTTGCGGCTTA
1 AC-CGTTGCAACTTAAACCTTTCCCTTCA-TGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
*
50460549 AATCTTTCCC-TTCATGCTTCT
64 AATCTTTCCCTTTTATGCTTCT
50460570 GAGATACAAG
Statistics
Matches: 240, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
98 78 0.32
99 158 0.66
100 4 0.02
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (99 bp):
ACCGTTGCAACTTAAACCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAA
TCTTTCCCTTTTATGCTTCTAAGGTATAAGGTTC
Found at i:50460549 original size:49 final size:49
Alignment explanation
Indices: 50460102--50460568 Score: 289
Period size: 49 Copynumber: 9.5 Consensus size: 49
50460092 ACTGCTGCAG
* * *
50460102 CTTAAATCTTTCCCTTCATGTC-TC-TGAAGTACTAGG-TTTGCCATTGCGA
1 CTTAAACCTTTCCCTTCATGTCTTCATG--GTACT-GGATTCGCCGTTGCGA
* * ** *
50460151 CTTAAACC-TTCCTCTTTATGTCTTCGTGGTACTGGATTTACCGTTGCGG
1 CTTAAACCTTTCC-CTTCATGTCTTCATGGTACTGGATTCGCCGTTGCGA
* * *** ** *
50460200 CTTAAATCTTTCCCTTCGTGTCTTTGCGGTACTGGATTCGTAGTTGCGG
1 CTTAAACCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGCGA
* * * * *
50460249 CTTAAAACTTTCCCTTCATGACTAT-ATGGTGCTAGG-TTCACCGTTGCAA
1 CTTAAACCTTTCCCTTCATGTCT-TCATGGTACT-GGATTCGCCGTTGCGA
* * **
50460298 CTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCCGTTGTAA
1 CTTAAACCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGCGA
* * * * * *
50460347 CTTAAATCTTTCCCTTTTATGCTTTTGA-GGTA-TAAGG-TTCACCGTTGCTA
1 CTTAAACCTTTCCC-TTCATG-TCTTCATGGTACT--GGATTCGCCGTTGCGA
* * * *
50460397 CTTAAACCTTT-CCTGTCATGTCTTCGTGGTACTGGATTCGCCATCGCGG
1 CTTAAACCTTTCCCT-TCATGTCTTCATGGTACTGGATTCGCCGTTGCGA
* * * * *
50460446 CTTAAATCTTTCCCTTTTATG-CTTCTAAGGTATCAGG-TTCGCTAG-TGCGA
1 CTTAAACCTTTCCC-TTCATGTCTTC-ATGGTA-CTGGATTCGC-CGTTGCGA
* * *
50460496 CTTAAACCTTTCCCTT-ACTGTCTTCATGGTATTGGATTCGCTGTTGCGG
1 CTTAAACCTTTCCCTTCA-TGTCTTCATGGTACTGGATTCGCCGTTGCGA
*
50460545 CTTAAATCTTTCCCTTCATG-CTTC
1 CTTAAACCTTTCCCTTCATGTCTTC
50460569 TGAGATACAA
Statistics
Matches: 324, Mismatches: 67, Indels: 55
0.73 0.15 0.12
Matches are distributed among these distances:
48 23 0.07
49 216 0.67
50 74 0.23
51 11 0.03
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.40
Consensus pattern (49 bp):
CTTAAACCTTTCCCTTCATGTCTTCATGGTACTGGATTCGCCGTTGCGA
Found at i:50460715 original size:171 final size:172
Alignment explanation
Indices: 50460420--50460742 Score: 465
Period size: 171 Copynumber: 1.9 Consensus size: 172
50460410 TGTCATGTCT
*
50460420 TCGTGGTACTGGATTCGCCATCGCGGCTTAAATCTTTCCCTTTTATGCTTCTAAGGTATCAGGTT
1 TCGTGGTACTGGATTCACCATCGCGGCTTAAATCTTTCCCTTTTATGCTTCTAAGGTATCAGGTT
*
50460485 CGCTAGTGCGACTTAAACCTTTCCCTTACTGTCTTCATGGTATTGGATTCGCTGTTGCGGCTTAA
66 CGCTAGTGCGACTTAAACCTTTCCCTTACTGTCTTCATGGTATTGGATTCGCCGTTGCGGCTTAA
*
50460550 ATCTTTCCC-TTCATGCTTCTGAGATACAAGGTCCGCAACGA
131 ATATTTCCCTTTCATGCTTCTGAGATACAAGGTCCGCAACGA
* * * * *
50460591 TCGTGGTACTGGATTCACCGTTGTGGCTTAAATCTTTCCTTTTTATGCTTCTGAGGTA-CAAGGT
1 TCGTGGTACTGGATTCACCATCGCGGCTTAAATCTTTCCCTTTTATGCTTCTAAGGTATC-AGGT
* * * * *
50460655 TCG-TCATTGCGACTTAAACCTTTCCCTT-CGTGTTTTCGTGGTATTTGATTTGCCGTTGCGGCT
65 TCGCT-AGTGCGACTTAAACCTTTCCCTTAC-TGTCTTCATGGTATTGGATTCGCCGTTGCGGCT
*
50460718 TAAATATTTCCCTTTTATGCTTCTG
128 TAAATATTTCCCTTTCATGCTTCTG
50460743 CGGTATAAGG
Statistics
Matches: 134, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
170 3 0.02
171 120 0.90
172 11 0.08
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (172 bp):
TCGTGGTACTGGATTCACCATCGCGGCTTAAATCTTTCCCTTTTATGCTTCTAAGGTATCAGGTT
CGCTAGTGCGACTTAAACCTTTCCCTTACTGTCTTCATGGTATTGGATTCGCCGTTGCGGCTTAA
ATATTTCCCTTTCATGCTTCTGAGATACAAGGTCCGCAACGA
Found at i:50460728 original size:49 final size:49
Alignment explanation
Indices: 50460661--50461409 Score: 482
Period size: 49 Copynumber: 15.2 Consensus size: 49
50460651 AGGTTCGTCA
* * * *
50460661 TTGCGACTTAAACCTTTCCCTTCGTGTTTTCGTGGTATTTGATTTGCCG
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTAGATTCGCCG
* ** * * * *
50460710 TTGCGGCTTAAATATTTCCCTT-TTATGCTTCTGCGGTA-TAAGGTTCGCCG
1 TTGCGACTTAAACCTTTCCCTTCGTGT-CTTC-GTGGTACT-AGATTCGCCG
** * *
50460760 TTATGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCTG
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTAGATTCGCCG
* * * * *
50460809 TTGCGTCTTAAATCTTTCCCTTCATG-CTTCTGAGGTACAAGATTCGCCG
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTC-GTGGTACTAGATTCGCCG
* * * *
50460858 TTACGACTTAAACCTTTCCC-TCTATGTCTTCATGGTACTAGATTCACCG
1 TTGCGACTTAAACCTTTCCCTTC-GTGTCTTCGTGGTACTAGATTCGCCG
** * * * *
50460907 TTGC-AGCTTAAATATTTCCCTT-TTATGCTTCTGAGGTA-TAAGGTTCGCCG
1 TTGCGA-CTTAAACCTTTCCCTTCGTGT-CTTC-GTGGTACT-AGATTCGCCG
* * * * * **
50460957 TTGCGACTTAAACCTTTCCTTTCGTGTCTTTGTTGTATTGGATTTACCG
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTAGATTCGCCG
* * * * * *
50461006 TTGCGACTTAAATCTTTCCCTTCATG-CTTCTGAGGTACAAGGTTCGCCA
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTC-GTGGTACTAGATTCGCCG
* * *
50461055 TTGCGACTTAAACCTTTCCC-TCTGTGTCTTCATGGTACTGGATTTGCCG
1 TTGCGACTTAAACCTTTCCCTTC-GTGTCTTCGTGGTACTAGATTCGCCG
* * * * * * *
50461104 TTGCGGCTTAAATCTTTCCCTTCAT-ACTTC-TAAGGTACAAGGTTCGCCA
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTCGT--GGTACTAGATTCGCCG
* * *
50461153 TTGCGACTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATTCACCG
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTAGATTCGCCG
* * * *** * * *
50461202 TTGCGGCTTAAATCTTTTCCTTTACG-CTTCTGAGGTACAAGGTTCGCCG
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTC-GTGGTACTAGATTCGCCG
* * * * * *
50461251 TTGTGACTTAAACCTTTCCC-TCTATATCTTCGTGGTACTGGATTCACTG
1 TTGCGACTTAAACCTTTCCCTTC-GTGTCTTCGTGGTACTAGATTCGCCG
* * * * * * *
50461300 TTGCGGCTTAAATCTTTCCCTTCATG-CTTCTGAGGTACAAGGTTCACCG
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTC-GTGGTACTAGATTCGCCG
* * * * * *
50461349 TTGCGACTTAAAACTTTTCCTCCATATCTTTGTGGTACTAGATTCGCCG
1 TTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTAGATTCGCCG
* *
50461398 TTGTGGCTTAAA
1 TTGCGACTTAAA
50461410 TGCATAAATA
Statistics
Matches: 527, Mismatches: 143, Indels: 60
0.72 0.20 0.08
Matches are distributed among these distances:
47 1 0.00
48 29 0.06
49 400 0.76
50 91 0.17
51 6 0.01
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (49 bp):
TTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTAGATTCGCCG
Found at i:50460804 original size:270 final size:270
Alignment explanation
Indices: 50460321--50460849 Score: 758
Period size: 270 Copynumber: 2.0 Consensus size: 270
50460311 CTTCGTGTCT
* * *
50460321 TCGTGGTACTGGATTCGCCGTTGTAACTTAAATCTTTCCCTTTTATGCTTTTGAGGTATAAGGTT
1 TCGTGGTACTGGATTCACCGTTGTAACTTAAATCTTTCCCTTTTATGCTTCTGAGGTACAAGGTT
* *
50460386 CACCGTTGCTACTTAAACCTTTCCTGTCATGTCTTCGTGGTACTGGATTCGCCATCGCGGCTTAA
66 CACCATTGCGACTTAAACCTTTCCTGTCATGTCTTCGTGGTACTGGATTCGCCATCGCGGCTTAA
* * *
50460451 ATCTTTCCCTTTTATGCTTCTAAGGTATCAGGTTCGCTAGTGCGACTTAAACCTTTCCCTTACTG
131 ATATTTCCCTTTTATGCTTCTAAGGTATAAGGTTCGCTAGTACGACTTAAACCTTTCCCTTACTG
*
50460516 TCTTCATGGTATTGGATTCGCTGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGATACAAGG
196 TCTTCATGGTACTGGATTCGCTGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGATACAAGG
50460581 TCCGCAACGA
261 TCCGCAACGA
** *
50460591 TCGTGGTACTGGATTCACCGTTGTGGCTTAAATCTTTCCTTTTTATGCTTCTGAGGTACAAGGTT
1 TCGTGGTACTGGATTCACCGTTGTAACTTAAATCTTTCCCTTTTATGCTTCTGAGGTACAAGGTT
** * * * * * * *
50460656 CGTCATTGCGACTTAAACCTTTCCCT-TCGTGTTTTCGTGGTATTTGATTTGCCGTTGCGGCTTA
66 CACCATTGCGACTTAAACCTTT-CCTGTCATGTCTTCGTGGTACTGGATTCGCCATCGCGGCTTA
** * *
50460720 AATATTTCCCTTTTATGCTTCTGCGGTATAAGGTTCGC-CGTTATGACTTAAACCTTTCCCTT-C
130 AATATTTCCCTTTTATGCTTCTAAGGTATAAGGTTCGCTAG-TACGACTTAAACCTTTCCCTTAC
* * *
50460783 GTGTCTTCGTGGTACTGGATTCGCTGTTGCGTCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
194 -TGTCTTCATGGTACTGGATTCGCTGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGATACA
50460848 AG
258 AG
50460850 ATTCGCCGTT
Statistics
Matches: 228, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
269 2 0.01
270 223 0.98
271 3 0.01
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (270 bp):
TCGTGGTACTGGATTCACCGTTGTAACTTAAATCTTTCCCTTTTATGCTTCTGAGGTACAAGGTT
CACCATTGCGACTTAAACCTTTCCTGTCATGTCTTCGTGGTACTGGATTCGCCATCGCGGCTTAA
ATATTTCCCTTTTATGCTTCTAAGGTATAAGGTTCGCTAGTACGACTTAAACCTTTCCCTTACTG
TCTTCATGGTACTGGATTCGCTGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGATACAAGG
TCCGCAACGA
Found at i:50460886 original size:98 final size:98
Alignment explanation
Indices: 50460591--50461410 Score: 1034
Period size: 98 Copynumber: 8.3 Consensus size: 98
50460581 TCCGCAACGA
* * *
50460591 TCGTGGTACTGGATTCACCGTTGTGGCTTAAATCTTTCCTTTTTATGCTTCTGAGGTACAAGGTT
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCC-CTTCATGCTTCTGAGGTACAAGGTT
* * *
50460656 CGTCATTGCGACTTAAACCTTTCCCT-TCGTGTTT
65 CGCCGTTGCGACTTAAACCTTTCCCTCT-GTGTCT
* * ** * * * *
50460690 TCGTGGTATTTGATTTGCCGTTGCGGCTTAAATATTTCCCTTTTATGCTTCTGCGGTATAAGGTT
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCC-TTCATGCTTCTGAGGTACAAGGTT
**
50460755 CGCCGTTATGACTTAAACCTTTCCCT-TCGTGTCT
65 CGCCGTTGCGACTTAAACCTTTCCCTCT-GTGTCT
* * * *
50460789 TCGTGGTACTGGATTCGCTGTTGCGTCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGATTC
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* *
50460854 GCCGTTACGACTTAAACCTTTCCCTCTATGTCT
66 GCCGTTGCGACTTAAACCTTTCCCTCTGTGTCT
* * * * * *
50460887 TCATGGTACTAGATTCACCGTTGCAGCTTAAATATTTCCCTTTTATGCTTCTGAGGTATAAGGTT
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCC-TTCATGCTTCTGAGGTACAAGGTT
*
50460952 CGCCGTTGCGACTTAAACCTTT-CCTTTCGTGTCT
65 CGCCGTTGCGACTTAAACCTTTCCCTCT-GTGTCT
* * * * *
50460986 TTGTTGTATTGGATTTACCGTTGCGACTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
*
50461051 GCCATTGCGACTTAAACCTTTCCCTCTGTGTCT
66 GCCGTTGCGACTTAAACCTTTCCCTCTGTGTCT
* ** * *
50461084 TCATGGTACTGGATTTGCCGTTGCGGCTTAAATCTTTCCCTTCATACTTCTAAGGTACAAGGTTC
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* *
50461149 GCCATTGCGACTTAAACCTTTCCCTTTGTGTCT
66 GCCGTTGCGACTTAAACCTTTCCCTCTGTGTCT
* * *
50461182 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTTCCTTTACGCTTCTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* * *
50461247 GCCGTTGTGACTTAAACCTTTCCCTCTATATCT
66 GCCGTTGCGACTTAAACCTTTCCCTCTGTGTCT
*
50461280 TCGTGGTACTGGATTCACTGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* * * ** *
50461345 ACCGTTGCGACTTAAAACTTTTCCTCCATATCT
66 GCCGTTGCGACTTAAACCTTTCCCTCTGTGTCT
* * * *
50461378 TTGTGGTACTAGATTCGCCGTTGTGGCTTAAAT
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAAT
50461411 GCATAAATAG
Statistics
Matches: 628, Mismatches: 88, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
98 427 0.68
99 201 0.32
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (98 bp):
TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
GCCGTTGCGACTTAAACCTTTCCCTCTGTGTCT
Found at i:50460927 original size:197 final size:196
Alignment explanation
Indices: 50460591--50461410 Score: 1066
Period size: 197 Copynumber: 4.2 Consensus size: 196
50460581 TCCGCAACGA
* * *
50460591 TCGTGGTACTGGATTCACCGTTGTGGCTTAAATCTTTCCTTTTTATGCTTCTGAGGTACAAGGTT
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCC-CTTCATGCTTCTGAGGTACAAGGTT
* * * * * * **
50460656 CGTCATTGCGACTTAAACCTTTCCCT-TCGTGTTTTCGTGGTATTTGATTTGCCGTTGCGGCTTA
65 CGCCATTGCGACTTAAACCTTTCCCTCT-ATGTCTTCATGGTACTGGATTCACCGTTGCGGCTTA
* * * **
50460720 AATATTTCCCTTTTATGCTTCTGCGGTATAAGGTTCGCCGTTATGACTTAAACCTTTCCCTTCGT
129 AATATTTCCC-TTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCGT
50460785 GTCT
193 GTCT
* * * *
50460789 TCGTGGTACTGGATTCGCTGTTGCGTCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGATTC
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* * * *
50460854 GCCGTTACGACTTAAACCTTTCCCTCTATGTCTTCATGGTACTAGATTCACCGTTGCAGCTTAAA
66 GCCATTGCGACTTAAACCTTTCCCTCTATGTCTTCATGGTACTGGATTCACCGTTGCGGCTTAAA
* * *
50460919 TATTTCCCTTTTATGCTTCTGAGGTATAAGGTTCGCCGTTGCGACTTAAACCTTTCCTTTCGTGT
131 TATTTCCC-TTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCGTGT
50460984 CT
195 CT
* * * * *
50460986 TTGTTGTATTGGATTTACCGTTGCGACTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* **
50461051 GCCATTGCGACTTAAACCTTTCCCTCTGTGTCTTCATGGTACTGGATTTGCCGTTGCGGCTTAAA
66 GCCATTGCGACTTAAACCTTTCCCTCTATGTCTTCATGGTACTGGATTCACCGTTGCGGCTTAAA
* * * * *
50461116 TCTTTCCCTTCATACTTCTAAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTGTGTC
131 TATTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCGTGTC
50461181 T
196 T
* * *
50461182 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTTCCTTTACGCTTCTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* * * * *
50461247 GCCGTTGTGACTTAAACCTTTCCCTCTATATCTTCGTGGTACTGGATTCACTGTTGCGGCTTAAA
66 GCCATTGCGACTTAAACCTTTCCCTCTATGTCTTCATGGTACTGGATTCACCGTTGCGGCTTAAA
* * * * * * *
50461312 TCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCACCGTTGCGACTTAAAACTTTTCCTCCATATC
131 TATTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCGTGTC
50461377 T
196 T
* * * *
50461378 TTGTGGTACTAGATTCGCCGTTGTGGCTTAAAT
1 TCGTGGTACTGGATTCACCGTTGCGGCTTAAAT
50461411 GCATAAATAG
Statistics
Matches: 546, Mismatches: 75, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
196 250 0.46
197 260 0.48
198 36 0.07
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (196 bp):
TCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
GCCATTGCGACTTAAACCTTTCCCTCTATGTCTTCATGGTACTGGATTCACCGTTGCGGCTTAAA
TATTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTTCGTGTC
T
Found at i:50461606 original size:49 final size:48
Alignment explanation
Indices: 50461549--50461712 Score: 163
Period size: 49 Copynumber: 3.4 Consensus size: 48
50461539 TGGTACTGGA
* *
50461549 TTCACCGTTGCGGCTTAAATCTTTTCCTTTACGCTTCTGAGGTATAAGG
1 TTCACCGTTGCGACTTAAATCTTTCCCTTTA-GCTTCTGAGGTATAAGG
* * * * *
50461598 TTCGCCGTTGTGACTTAAACCTTTCCCTCTATATCTTC-GTGGTACT--GG
1 TTCACCGTTGCGACTTAAATCTTTCCCT-T-TAGCTTCTGAGGTA-TAAGG
* * *
50461646 ATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGG
1 -TTCACCGTTGCGACTTAAATCTTTCCCTTTA-GCTTCTGAGGTATAAGG
50461696 TTCACCGTTGCGACTTA
1 TTCACCGTTGCGACTTA
50461713 CAACTTTTCC
Statistics
Matches: 91, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
47 1 0.01
48 7 0.08
49 73 0.80
50 8 0.09
51 2 0.02
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.37
Consensus pattern (48 bp):
TTCACCGTTGCGACTTAAATCTTTCCCTTTAGCTTCTGAGGTATAAGG
Found at i:50461683 original size:98 final size:98
Alignment explanation
Indices: 50461513--50461764 Score: 353
Period size: 98 Copynumber: 2.6 Consensus size: 98
50461503 TGTTTTGGGG
* * * *
50461513 CTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTTCCTT
1 CTTAAACCTTTCCCTCTATATCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTT
* * * *
50461578 TACGCTTCTGAGGTATAAGGTTCGCCGTTGTGA
66 CACGCTTCTGAGGTACAAGGTTCACCGTTGCGA
50461611 CTTAAACCTTTCCCTCTATATCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTT
1 CTTAAACCTTTCCCTCTATATCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTT
*
50461676 CATGCTTCTGAGGTACAAGGTTCACCGTTGCGA
66 CACGCTTCTGAGGTACAAGGTTCACCGTTGCGA
* * * * * *
50461709 CTTACAA-CTTTTCCTCCATATCTTTGTGGTACTAGATTCGCCGTTGTGGCTTAAAT
1 CTTA-AACCTTTCCCTCTATATCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAAT
50461765 GCATAAATAG
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
98 136 0.99
99 2 0.01
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (98 bp):
CTTAAACCTTTCCCTCTATATCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTT
CACGCTTCTGAGGTACAAGGTTCACCGTTGCGA
Found at i:50461740 original size:49 final size:49
Alignment explanation
Indices: 50461589--50461763 Score: 149
Period size: 49 Copynumber: 3.6 Consensus size: 49
50461579 ACGCTTCTGA
* * * * *
50461589 GGTATAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCTATATCTTCGT
1 GGTACAAGGTTCACCGTTGCGACTTAAACCTTTCCCTCCATATCTTTGT
* * * * * *
50461638 GGTAC-TGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCAT-GCTTCTGA
1 GGTACAAGG-TTCACCGTTGCGACTTAAACCTTTCCCTCCATATCTT-TGT
*
50461687 GGTACAAGGTTCACCGTTGCGACTTACAA-CTTTTCCTCCATATCTTTGT
1 GGTACAAGGTTCACCGTTGCGACTTA-AACCTTTCCCTCCATATCTTTGT
* * * * *
50461736 GGTACTAGATTCGCCGTTGTGGCTTAAA
1 GGTACAAGGTTCACCGTTGCGACTTAAA
50461764 TGCATAAATA
Statistics
Matches: 99, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
48 7 0.07
49 85 0.86
50 7 0.07
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (49 bp):
GGTACAAGGTTCACCGTTGCGACTTAAACCTTTCCCTCCATATCTTTGT
Found at i:50461808 original size:354 final size:354
Alignment explanation
Indices: 50461159--50461871 Score: 1345
Period size: 354 Copynumber: 2.0 Consensus size: 354
50461149 GCCATTGCGA
50461159 CTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTTCCTT
1 CTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTTCCTT
50461224 TACGCTTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCTATATCTTCGTGGTAC
66 TACGCTTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCTATATCTTCGTGGTAC
*
50461289 TGGATTCACTGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCACCGTTGCG
131 TGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCACCGTTGCG
50461354 ACTTAAAACTTTTCCTCCATATCTTTGTGGTACTAGATTCGCCGTTGTGGCTTAAATGCATAAAT
196 ACTTAAAACTTTTCCTCCATATCTTTGTGGTACTAGATTCGCCGTTGTGGCTTAAATGCATAAAT
* *
50461419 AGACCAATTCCTAAAAACACGTGGATCCTTGACTTGGAGCCGGTCAGGTTGGATCGGTCCATGGG
261 AGACCAATTCCTAAAAACACATGGATCCTTGACTTGGAGCCGGTCAGGTTGGATCGGTCAATGGG
* *
50461484 TTAGGGCATGAAACAGCACTGTTTTGGGG
326 TTAGGGCATGAAACAACACCGTTTTGGGG
50461513 CTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTTCCTT
1 CTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTTCCTT
*
50461578 TACGCTTCTGAGGTATAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCTATATCTTCGTGGTAC
66 TACGCTTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCTATATCTTCGTGGTAC
50461643 TGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCACCGTTGCG
131 TGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCACCGTTGCG
*
50461708 ACTTACAACTTTTCCTCCATATCTTTGTGGTACTAGATTCGCCGTTGTGGCTTAAATGCATAAAT
196 ACTTAAAACTTTTCCTCCATATCTTTGTGGTACTAGATTCGCCGTTGTGGCTTAAATGCATAAAT
* *
50461773 AGACCAATTTCTAAAAACACATGGATCCTTGACTTGGAGCGGGTCAGGTTGGATCGGTCAATGGG
261 AGACCAATTCCTAAAAACACATGGATCCTTGACTTGGAGCCGGTCAGGTTGGATCGGTCAATGGG
50461838 TTAGGGCATGAAACAACACCGTTTTGGGG
326 TTAGGGCATGAAACAACACCGTTTTGGGG
50461867 CTTAA
1 CTTAA
50461872 GAGCCTAGAC
Statistics
Matches: 350, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
354 350 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (354 bp):
CTTAAACCTTTCCCTTTGTGTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTTCCTT
TACGCTTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTCTATATCTTCGTGGTAC
TGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCACCGTTGCG
ACTTAAAACTTTTCCTCCATATCTTTGTGGTACTAGATTCGCCGTTGTGGCTTAAATGCATAAAT
AGACCAATTCCTAAAAACACATGGATCCTTGACTTGGAGCCGGTCAGGTTGGATCGGTCAATGGG
TTAGGGCATGAAACAACACCGTTTTGGGG
Found at i:50490475 original size:603 final size:602
Alignment explanation
Indices: 50489114--50490689 Score: 2240
Period size: 603 Copynumber: 2.6 Consensus size: 602
50489104 CAATCTTTCT
* * * * * *
50489114 TTTTTAAAGTCAAATGTATTATAATAAGAAACTAAAAGATTGTGAAGCTAATTAATAATAGATAA
1 TTTTTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATAA
* * * *
50489179 CAAAATTCTATTGCAACTAGAAGAGTTTGTTTAATTGTAACAATAAAAAGGAGAAGAAAAATGAT
66 CAAAATTCTATTGCAATTAGAAGAGATTGCTTAATTGT-A-AA-AAAAAGAAGAAGAAAAATGAT
* * * * * *
50489244 ATGATACCTGTTAAGTTGTTATTAGAAAACCCAATCATCTTGAGAGAAATAAAGTTTCCAATAAC
128 ATAATACCTGTTAAGTTGTTATTAGAAAAACTAATGACCTTGAGAGAAGTAAA-TTTCCAATAAC
* * * * *
50489309 TAGATA--AATTTCACATGAAACATATAATTAAATTTGTCAAAATTTATTA--ATTTTTTTAGCA
192 -AGA-AGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTAACA
* * *
50489370 AGCTATTAATTTATTTTTTTTGAGCATTATAGGCATCTATTTTTCTTCATCTT-TT-TTGTTTTT
255 AGCCATTAATTTA---TTTTT-----TTA-A-GTATCTA-TTTTCTTCATCTTATTATTATTTTT
50489433 TAAAACTTGTAAATTGTATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCA
309 TAAAACTTGTAAATTGTATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCA
* *
50489498 TCATTCATGTTTTAAATGGTTTTAATAAAATTTAATATGGCATAAAAGAGTTTAAAGAATAAAAT
374 TCATTCATGTTTTAAATGGTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAAT
* * *
50489563 ATTCCTATTCTGAGTCCAAATTTCATTCATTTGAGTTTAACTTTCAAATTCTTAAATCATTGAAT
439 ATTCCCATTCTGAGTCCAAAATTCATTCATTAGAGTTTAACTTTCAAATTCTTAAATCATTGAAT
* *
50489628 TTAAGTAATTTTAATTCAAATTATTGATTCTACTAATATTTCCTACATTTTTCTAATGTTAAAGT
504 TTAAGTAATTTTAATTCAAATTATTGACTCTACTAATATTTCCTACATTTTTCTAATGTTAAAAT
*
50489693 AGTTAAAACTATTGAATGCGCCATTAAGTCTCTC
569 AGTTAAAACTATTGAATGCGCCATTAAGCCTCTC
*
50489727 TTTTCTAAAGTCAAACATATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATA
1 TTTT-TAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATA
* *
50489792 ACAAAATTCTATTACAATTAGAAGAGATTGCTTAATTGTAAAAATAAA-AAGAGAAAAAAATGAT
65 ACAAAATTCTATTGCAATTAGAAGAGATTGCTTAATTGTAAAAA-AAAGAAGA-AGAAAAATGAT
* *
50489856 ATAGTACCTGTTAAGTTGTTATTAGAAAAACTAATGACCTCGAGAGAAGTAATATTTCCAATAAC
128 ATAATACCTGTTAAGTTGTTATTAGAAAAACTAATGACCTTGAGAGAAGTAA-ATTTCCAATAAC
* *
50489921 AGAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTACCGAG
192 AGAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTAACAAG
50489986 CCATTAATTTATTTTTTTAAGTATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAA
257 CCATTAATTTATTTTTTTAAGTATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAA
*
50490051 TTGTATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGATATGCATCATTCATGTTTT
322 TTGTATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTT
*
50490116 AAATGTTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGA
387 AAATGGTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGA
*
50490181 GT-CAAGAATTCATT-ATTAGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTT
452 GTCCAA-AATTCATTCATTAGAGTTTAACTTTCAAATTCTTAAATCATTGAATTTAAGTAATTTT
*
50490244 AATTTAAATTATTGACTCTACTAATATTTCCTACATTTTTCTAATGTTAAAATAGTTAAAA-TAT
516 AATTCAAATTATTGACTCTACTAATATTTCCTACATTTTTCTAATGTTAAAATAGTTAAAACTAT
*
50490308 TGAATGCGTCATTAAGCCTCTC
581 TGAATGCGCCATTAAGCCTCTC
*
50490330 TTTCTTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTAATAATGGATA
1 TTT-TTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATA
* * *
50490395 ACAGAATTCTATTGCAATTAGAAGAGATCGGTTAATTGTAAAAAAGAAGAAGAAGAAAAATGATA
65 ACAAAATTCTATTGCAATTAGAAGAGATTGCTTAATTGTAAAAAA-AAGAAGAAGAAAAATGATA
* * * *
50490460 CAATACCTATTAAGTTGTTATAAGAAAAA-TCAATGGCCTTGAGAGAAGTAAGATTTCCAATAAC
129 TAATACCTGTTAAGTTGTTATTAGAAAAACT-AATGACCTTGAGAGAAGTAA-ATTTCCAATAAC
* *
50490524 TGAAGGAATTTCACCTGAAACATATAATTAAATTTATCAAGATTCA-TATTATTTTTTCTAACAA
192 AGAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTA-TTTTTCTAACAA
*
50490588 GCCATTAATTTATTTTTTTAAGCATTATAGGCATCTATTTTCTTCATCTTATTATTATTATTTAA
256 GCCATTAATTTATTTTTTTAAG-----T----ATCTATTTTCTTCATCTTATTATTATTTTTTAA
*
50490653 AACTTGTAAATTGTATTCTATTTTATAGTACTTATAA
312 AACTTGTAAATTGTATTCAATTTTATAGTACTTATAA
50490690 TAATTAGAAA
Statistics
Matches: 875, Mismatches: 63, Indels: 51
0.88 0.06 0.05
Matches are distributed among these distances:
602 7 0.01
603 281 0.32
604 121 0.14
605 155 0.18
606 3 0.00
608 1 0.00
610 1 0.00
611 13 0.01
612 178 0.20
613 6 0.01
614 109 0.12
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (602 bp):
TTTTTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATAA
CAAAATTCTATTGCAATTAGAAGAGATTGCTTAATTGTAAAAAAAAGAAGAAGAAAAATGATATA
ATACCTGTTAAGTTGTTATTAGAAAAACTAATGACCTTGAGAGAAGTAAATTTCCAATAACAGAA
GGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTAACAAGCCAT
TAATTTATTTTTTTAAGTATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGT
ATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAAT
GGTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCC
AAAATTCATTCATTAGAGTTTAACTTTCAAATTCTTAAATCATTGAATTTAAGTAATTTTAATTC
AAATTATTGACTCTACTAATATTTCCTACATTTTTCTAATGTTAAAATAGTTAAAACTATTGAAT
GCGCCATTAAGCCTCTC
Found at i:50497266 original size:12 final size:12
Alignment explanation
Indices: 50497251--50497279 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
50497241 AAAATCCATA
50497251 TATTACTTATTT
1 TATTACTTATTT
50497263 TATTACTTATTT
1 TATTACTTATTT
50497275 TATTA
1 TATTA
50497280 ATATATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTACTTATTT
Found at i:50523278 original size:59 final size:59
Alignment explanation
Indices: 50523196--50523452 Score: 254
Period size: 59 Copynumber: 4.4 Consensus size: 59
50523186 AATGTAATCG
* * * * * *
50523196 GGGTTAAAAATGAGACTTTTTGGATACTCGGGGGTAAAATGGTAAATTTAAAAAGTTTCA
1 GGGTCAAAAATG-GAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTAGAAAGTTTTA
* * *
50523256 GGGTCAAAAATGGAATTTTTGGATGTTCGAGGGTAAAATGGTAATTTTTGAAAGTTTTA
1 GGGTCAAAAATGGAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTAGAAAGTTTTA
* * *
50523315 GGGTCAAAAATGTAA-TTTTGGA-AGTTCAGGGGTAAAATGGTAATTTTGGAAAGTTTTA
1 GGGTCAAAAATGGAATTTTTGGATA-TTCGGGGGTAAAATGGTAATTTTAGAAAGTTTTA
* * * * * *
50523373 GGGTCAAAAATGTAATTTTTGGA-AGTTTCGAGGTTAAAA-GTGTAATTTTTGGAATTTTTA
1 GGGTCAAAAATGGAATTTTTGGATA--TTCGGGGGTAAAATG-GTAATTTTAGAAAGTTTTA
* *
50523433 GGGT-TAAAATGTAATTTTTG
1 GGGTCAAAAATGGAATTTTTG
50523453 AAAGTTCGAG
Statistics
Matches: 171, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
58 53 0.31
59 77 0.45
60 41 0.24
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (59 bp):
GGGTCAAAAATGGAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTAGAAAGTTTTA
Found at i:50523332 original size:30 final size:30
Alignment explanation
Indices: 50523247--50523470 Score: 194
Period size: 29 Copynumber: 7.6 Consensus size: 30
50523237 GTAAATTTAA
* *
50523247 AAAGTTTCAGGGTCAAAAATGGAATTTTTG
1 AAAGTTTTAGGGTCAAAAATGTAATTTTTG
* * **
50523277 GATGTTCGAGGGT--AAAATGGTAATTTTTG
1 AAAGTTTTAGGGTCAAAAAT-GTAATTTTTG
50523306 AAAGTTTTAGGGTCAAAAATGTAA-TTTTG
1 AAAGTTTTAGGGTCAAAAATGTAATTTTTG
* * *
50523335 GAAG-TTCAGGGGT--AAAATGGTAATTTTGG
1 AAAGTTTTA-GGGTCAAAAAT-GTAATTTTTG
50523364 AAAGTTTTAGGGTCAAAAATGTAATTTTTG
1 AAAGTTTTAGGGTCAAAAATGTAATTTTTG
* * * *
50523394 GAAG-TTTCGAGGTTAAAAGTGTAATTTTTG
1 AAAGTTTTAG-GGTCAAAAATGTAATTTTTG
* * *
50523424 GAATTTTTAGGGT-TAAAATGTAATTTTTG
1 AAAGTTTTAGGGTCAAAAATGTAATTTTTG
**
50523453 AAAGTTCGAGGGTCAAAA
1 AAAGTTTTAGGGTCAAAA
50523471 TACAATTTTT
Statistics
Matches: 154, Mismatches: 28, Indels: 24
0.75 0.14 0.12
Matches are distributed among these distances:
27 5 0.03
28 12 0.08
29 68 0.44
30 55 0.36
31 14 0.09
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAGTTTTAGGGTCAAAAATGTAATTTTTG
Found at i:50523349 original size:58 final size:58
Alignment explanation
Indices: 50523226--50523471 Score: 300
Period size: 59 Copynumber: 4.2 Consensus size: 58
50523216 TGGATACTCG
* ** * * *
50523226 GGGGTAAAATGGTAAATTTAAAAAGTTTCAGGGTCAAAAATGGAATTTTTGGATGTTC
1 GGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAATTTTTGGAAGTTC
50523284 GAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAA-TTTTGGAAGTTC
1 G-GGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAATTTTTGGAAGTTC
*
50523342 AGGGGTAAAATGGTAATTTTGGAAAGTTTTAGGGTCAAAAATGTAATTTTTGGAAGTTTC
1 -GGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAATTTTTGGAAG-TTC
* * * * *
50523402 GAGGTTAAAA-GTGTAATTTTTGGAATTTTTAGGGT-TAAAATGTAATTTTTGAAAGTTC
1 G-GGGTAAAATG-GTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAATTTTTGGAAGTTC
50523460 GAGGGTCAAAAT
1 G-GGGT-AAAAT
50523472 ACAATTTTTG
Statistics
Matches: 166, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
58 63 0.38
59 73 0.44
60 30 0.18
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAATTTTTGGAAGTTC
Found at i:50525466 original size:17 final size:17
Alignment explanation
Indices: 50525435--50525538 Score: 79
Period size: 17 Copynumber: 6.1 Consensus size: 17
50525425 TTGGGTTTCC
*
50525435 ATTTATAAT-AATTTAA
1 ATTTAAAATAAATTTAA
*
50525451 ATTTAAAATAAATTTAG
1 ATTTAAAATAAATTTAA
* * *
50525468 ACTTAAATTAAATTCAA
1 ATTTAAAATAAATTTAA
*
50525485 ATTTAAAGTTTAAATTTAA
1 ATTTAAA--ATAAATTTAA
* *
50525504 A-ATAAATCTAAATTT-A
1 ATTTAAA-ATAAATTTAA
50525520 ATCTTAAAATAAATTTAA
1 AT-TTAAAATAAATTTAA
50525538 A
1 A
50525539 GGGGCTCGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
16 10 0.14
17 40 0.57
18 10 0.14
19 10 0.14
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:50525498 original size:7 final size:6
Alignment explanation
Indices: 50525444--50525538 Score: 74
Period size: 6 Copynumber: 16.3 Consensus size: 6
50525434 CATTTATAAT
* * * *
50525444 AATTTA AATTTA AA-ATA AATTTA GACTTA AA-TTA AATTCA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
50525490 AAGTTTA AATTTA AA-ATA AATCTA AATTT- AATCTTA AA-ATA AATTTA
1 AA-TTTA AATTTA AATTTA AATTTA AATTTA AAT-TTA AATTTA AATTTA
50525537 AA
1 AA
50525539 GGGGCTCGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
5 20 0.29
6 42 0.60
7 8 0.11
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:50525501 original size:13 final size:12
Alignment explanation
Indices: 50525444--50525538 Score: 74
Period size: 11 Copynumber: 8.2 Consensus size: 12
50525434 CATTTATAAT
50525444 AATTTAAATTTA
1 AATTTAAATTTA
*
50525456 AA-ATAAATTTA
1 AATTTAAATTTA
* *
50525467 GACTTAAA-TTA
1 AATTTAAATTTA
*
50525478 AATTCAAATTTA
1 AATTTAAATTTA
50525490 AAGTTTAAATTTA
1 AA-TTTAAATTTA
* *
50525503 AA-ATAAATCTA
1 AATTTAAATTTA
50525514 AATTT-AATCTTA
1 AATTTAAAT-TTA
*
50525526 AA-ATAAATTTA
1 AATTTAAATTTA
50525537 AA
1 AA
50525539 GGGGCTCGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
11 35 0.54
12 19 0.29
13 11 0.17
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
AATTTAAATTTA
Found at i:50525534 original size:47 final size:47
Alignment explanation
Indices: 50525446--50525539 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
50525436 TTTATAATAA
* * *
50525446 TTTAAATTTAAAATAAATTTAGACTTAAATTAAATTCAAATTTAAAG
1 TTTAAATTTAAAATAAATCTAAACTTAAATTAAAATCAAATTTAAAG
* *
50525493 TTTAAATTTAAAATAAATCTAAATTTAATCTTAAAAT-AAATTTAAAG
1 TTTAAATTTAAAATAAATCTAAACTTAA-ATTAAAATCAAATTTAAAG
50525540 GGGCTCGATC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
47 35 0.85
48 6 0.15
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.40
Consensus pattern (47 bp):
TTTAAATTTAAAATAAATCTAAACTTAAATTAAAATCAAATTTAAAG
Found at i:50526365 original size:202 final size:199
Alignment explanation
Indices: 50525869--50526490 Score: 684
Period size: 202 Copynumber: 3.1 Consensus size: 199
50525859 TTCTTCTCAG
* ** * * *
50525869 TATCTCATCAGGAAGATGAT-CGCATCACTTGTTTTGATCCAGTTCTCTGTATTTCATCAGGAAG
1 TATCTCATCAGGAAGATG-TCCACATCACTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAG
* * * ** * *
50525933 ATGGATTTGGTTTACTTCTTTGTATCTCATCAGGAAGCTAAACACTTTATTGCTTCGACCTGCTT
65 ACGAATTTGG-TAACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * ** * * * * * *
50525998 CTCGGTATCTCATCAGGAAGCTAAGG-TCCGA-ATAT-CAAGCGTG-G-GTCTAGTTTGGTCTTC
129 CTCAGTATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTAGCTTGAGCGTCAAG-TTGGTATAC
50526058 TTC-TTA
193 TTCTTTA
* ** * *
50526064 GTATCTCATCAGGAAGAT-TACCACAGCACTTGTTTCAATTTGCTTCTATGTATCTCATCAAGAA
1 -TATCTCATCAGGAAGATGT-CCACATCACTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAA
*
50526128 GACGAATTTGGTACACTTCTCAGTATCTAATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
64 GACGAATTTGGTA-ACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
* * * * *
50526193 TCTCAGTATATCATCAGGAAGCTGTGGTTCAAAGATTTGCTCGCATTGAGCTTCGAGTTGGTATA
128 TCTCAGTATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTAGC-TTGAGCGTCAAGTTGGTATA
50526258 CTTCTTTA
192 CTTCTTTA
* * *
50526266 TGTCTCATCAGGAAGATGTCCACAATCATTTGTTTCAATTCACTTCTCTGTGTCTCATCAGGAAG
1 TATCTCATCAGGAAGATGTCCAC-ATCACTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAG
* *
50526331 ACGAATTTGGTCAACTTCTCAGTATCTCATCAGGAAGTTAACCATTTTATTGCTTTGACCTGCTT
65 ACGAATTTGGT-AACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * * *
50526396 CTCAATATCTCATCAGGAAGCTGGGGTTCAAAGATTTGCTTGCGTTGAACGTCAAGTTGGTATAC
129 CTCAGTATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTAGC-TTGAGCGTCAAGTTGGTATAC
* *
50526461 TTCTCTG
193 TTCTTTA
*
50526468 TATCTCATCAGGAAGATGACCAC
1 TATCTCATCAGGAAGATGTCCAC
50526491 CTCGCTGTTT
Statistics
Matches: 357, Mismatches: 56, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
194 1 0.00
195 1 0.00
196 127 0.36
197 3 0.01
198 3 0.01
199 3 0.01
200 2 0.01
201 31 0.09
202 185 0.52
203 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (199 bp):
TATCTCATCAGGAAGATGTCCACATCACTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGA
CGAATTTGGTAACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCT
CAGTATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTAGCTTGAGCGTCAAGTTGGTATACTTC
TTTA
Found at i:50530030 original size:29 final size:30
Alignment explanation
Indices: 50529987--50530067 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
50529977 ATCTGGGTCA
* *
50529987 AAAATATAATATTTGGAAAGTTCA-AGGTT
1 AAAATGTAATTTTTGGAAAGTTCAGAGGTT
* * * * *
50530016 AAAATTTGATTTTTGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAAGTTCAGAGGTT
50530046 AAAATGTAATTTTTGGAAAGTT
1 AAAATGTAATTTTTGGAAAGTT
50530068 TAGGGGTCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.40, C:0.01, G:0.20, T:0.40
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTCAGAGGTT
Found at i:50530048 original size:30 final size:29
Alignment explanation
Indices: 50530012--50530102 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 29
50530002 GAAAGTTCAA
*
50530012 GGTTAAAATTTGATTTTTGAAAAGTTTAGG
1 GGTTAAAATATGATTTTTG-AAAGTTTAGG
* *
50530042 GGTTAAAATGTAATTTTTGGAAAGTTTAGG
1 GGTTAAAATATGATTTTT-GAAAGTTTAGG
* *
50530072 GGTCAAAATATGATTTTTTGATAGTTTAGG
1 GGTTAAAATATGA-TTTTTGAAAGTTTAGG
50530102 G
1 G
50530103 ACCTCTTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 47 0.89
31 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.25, T:0.42
Consensus pattern (29 bp):
GGTTAAAATATGATTTTTGAAAGTTTAGG
Found at i:50530098 original size:60 final size:59
Alignment explanation
Indices: 50529987--50530102 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 59
50529977 ATCTGGGTCA
* *
50529987 AAAATATAATATTTGGAAAGTTCAAGGTTAAAATTTGATTTTTGAAAAGTTTAGGGGTT
1 AAAATATAATATTTGGAAAGTTCAAGGTCAAAATATGATTTTTGAAAAGTTTAGGGGTT
* * * * *
50530046 AAAATGTAATTTTTGGAAAGTTTAGGGGTCAAAATATGATTTTTTG-ATAGTTTAGGG
1 AAAATATAATATTTGGAAAGTTCA-AGGTCAAAATATGA-TTTTTGAAAAGTTTAGGG
50530103 ACCTCTTGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
60 21 0.44
61 6 0.12
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (59 bp):
AAAATATAATATTTGGAAAGTTCAAGGTCAAAATATGATTTTTGAAAAGTTTAGGGGTT
Found at i:50530778 original size:76 final size:77
Alignment explanation
Indices: 50530691--50530834 Score: 245
Period size: 76 Copynumber: 1.9 Consensus size: 77
50530681 GCGACTCACA
* * *
50530691 TTTTTTCCAATTTTCGATAGTTTTAAAATATTGTTCGAGACCTG-CTTGTTTTCCCTAAAATAAA
1 TTTTTTCCAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTCTTATTTTCCCTAAAATAAA
50530755 TGTGACTTCCAT
66 TGTGACTTCCAT
*
50530767 TTTTTTCCAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTTATTTTCCCTAAAATAAA
1 TTTTTTCCAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTCTTATTTTCCCTAAAATAAA
50530832 TGT
66 TGT
50530835 TTGAACAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 42 0.67
77 21 0.33
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (77 bp):
TTTTTTCCAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTCTTATTTTCCCTAAAATAAA
TGTGACTTCCAT
Found at i:50533909 original size:30 final size:28
Alignment explanation
Indices: 50533873--50533941 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 28
50533863 TTAAAATGTA
*
50533873 ATTTTGGAAAGCTTTAGGGGTAAAAAAGTC
1 ATTTTGGAAA-ATTT-GGGGTAAAAAAGTC
*
50533903 ATTTTGGGAAAATTTGGGGTAAAAAAGTG
1 ATTTT-GGAAAATTTGGGGTAAAAAAGTC
50533932 ATTTTTGGAA
1 A-TTTTGGAA
50533942 GTTCGGGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 18 0.51
30 12 0.34
31 5 0.14
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (28 bp):
ATTTTGGAAAATTTGGGGTAAAAAAGTC
Found at i:50533950 original size:29 final size:29
Alignment explanation
Indices: 50533889--50533975 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
50533879 GAAAGCTTTA
* * * *
50533889 GGGGTAAAAAAGTCATTTTGGGAAAATT-T
1 GGGGTAAAAAAGTGATTTTTGG-AAGTTCG
50533918 GGGGTAAAAAAGTGATTTTTGGAAGTTCG
1 GGGGTAAAAAAGTGATTTTTGGAAGTTCG
*
50533947 GGGGTAAAAATG-GAATTTTTGGAAGTTCG
1 GGGGTAAAAAAGTG-ATTTTTGGAAGTTCG
50533976 AGGCAAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
28 5 0.10
29 46 0.90
ACGTcount: A:0.33, C:0.03, G:0.32, T:0.31
Consensus pattern (29 bp):
GGGGTAAAAAAGTGATTTTTGGAAGTTCG
Found at i:50533991 original size:27 final size:27
Alignment explanation
Indices: 50533932--50534021 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
50533922 TAAAAAAGTG
* *
50533932 ATTTTTGGAAGTTCGGGGGTAAAAATGGA
1 ATTTTTGGAAGTTC-GAGG-CAAAATGGA
50533961 ATTTTTGGAAGTTCGAGGCAAAATGGA
1 ATTTTTGGAAGTTCGAGGCAAAATGGA
* * * *
50533988 ATTTTTTGAAGTTCTATGGCAAAATTGT
1 ATTTTTGGAAGTTCGA-GGCAAAATGGA
50534016 ATTTTT
1 ATTTTT
50534022 TGAAAAGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
27 22 0.41
28 18 0.33
29 14 0.26
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.39
Consensus pattern (27 bp):
ATTTTTGGAAGTTCGAGGCAAAATGGA
Found at i:50533994 original size:29 final size:28
Alignment explanation
Indices: 50533933--50534023 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
50533923 AAAAAAGTGA
* *
50533933 TTTTTGGAAGTTCGGGGGTAAAAATGGAA-
1 TTTTTGGAAGTTC-GAGG-CAAAATGGAAT
50533962 TTTTTGGAAGTTCGAGGCAAAATGGAAT
1 TTTTTGGAAGTTCGAGGCAAAATGGAAT
* * *
50533990 TTTTT-GAAGTTCTATGGCAAAATTGTAT
1 TTTTTGGAAGTTCGA-GGCAAAATGGAAT
50534018 TTTTTG
1 TTTTTG
50534024 AAAAGTTTAG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 17 0.31
28 24 0.44
29 13 0.24
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (28 bp):
TTTTTGGAAGTTCGAGGCAAAATGGAAT
Found at i:50534012 original size:28 final size:27
Alignment explanation
Indices: 50533953--50534025 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
50533943 TTCGGGGGTA
*
50533953 AAAATGGAATTTTTGGAAGTTCGAGGC
1 AAAATGGAATTTTTTGAAGTTCGAGGC
*
50533980 AAAATGGAATTTTTTGAAGTTCTATGGC
1 AAAATGGAATTTTTTGAAGTTCGA-GGC
* *
50534008 AAAATTGTATTTTTTGAA
1 AAAATGGAATTTTTTGAA
50534026 AAGTTTAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (27 bp):
AAAATGGAATTTTTTGAAGTTCGAGGC
Found at i:50534058 original size:30 final size:30
Alignment explanation
Indices: 50534008--50534083 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
50533998 GTTCTATGGC
* *
50534008 AAAATTGTATTTTTTGAAAAGTTTAGGGGGTT
1 AAAATT-TAATTTTTGAAAAGTTTA-GGGATT
50534040 AAAATTTAATTTTT-AAAAGTTTAGGGATT
1 AAAATTTAATTTTTGAAAAGTTTAGGGATT
*
50534069 AAAATATAATTTTTG
1 AAAATTTAATTTTTG
50534084 GCCAGTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 18 0.45
30 9 0.22
31 7 0.17
32 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (30 bp):
AAAATTTAATTTTTGAAAAGTTTAGGGATT
Found at i:50535712 original size:17 final size:17
Alignment explanation
Indices: 50535692--50535769 Score: 77
Period size: 17 Copynumber: 4.6 Consensus size: 17
50535682 AATTAATTTT
*
50535692 AATTTAAAATTAAAGTA
1 AATTTAAAATTAAAATA
* * *
50535709 AATTTAAACTCAAAATG
1 AATTTAAAATTAAAATA
*
50535726 AATTTAAATTTAAAATA
1 AATTTAAAATTAAAATA
* * *
50535743 AATTCAGACTTAAAATA
1 AATTTAAAATTAAAATA
50535760 AA-TTAAAATT
1 AATTTAAAATT
50535770 TGGACTCAGT
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
16 5 0.10
17 43 0.90
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (17 bp):
AATTTAAAATTAAAATA
Found at i:50535733 original size:34 final size:33
Alignment explanation
Indices: 50535691--50535769 Score: 95
Period size: 34 Copynumber: 2.4 Consensus size: 33
50535681 TAATTAATTT
* *
50535691 TAATTTAAAATTAAAGTAAATTTAAACTCAAAA
1 TAATTTAAAATTAAAATAAATTCAAACTCAAAA
* * *
50535724 TGAATTTAAATTTAAAATAAATTCAGACTTAAAA
1 T-AATTTAAAATTAAAATAAATTCAAACTCAAAA
*
50535758 TAAATTAAAATT
1 TAATTTAAAATT
50535770 TGGACTCAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 10 0.26
34 28 0.74
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (33 bp):
TAATTTAAAATTAAAATAAATTCAAACTCAAAA
Found at i:50536516 original size:210 final size:210
Alignment explanation
Indices: 50536154--50536756 Score: 837
Period size: 210 Copynumber: 2.9 Consensus size: 210
50536144 GAATGTGGTT
* * * * * * * * * * *
50536154 CACTTCTCTATGTCTCGTCAGAAAGATGGCTATTTTATTGCTTCAATCTGCTTCTTCGTATCTCA
1 CACTTCTCTATATCTCATCAGGAAGACGACCACTTTATTGCTTCGACCTGCTTCTTAGTACCTCA
* * * *
50536219 TCAGGAAGCTGGGGTTCGAAGTTTTGCTCACATTGATCTTTGGTTTCATTGATTTGGTTTACTTC
66 TCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTC
* * * * *
50536284 TCAGTATCTCATTAGGAAGATGACCGCATCGCTTGTTTCGATCTGCTTCTCTGTATCTTATCAGG
131 TTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAGG
*
50536349 AAGACGGATTTGGTC
196 AAGACGGATTTCGTC
* *
50536364 CACTTCTCTGTATCTCATCAGGAAGACGACCACTTTATTGCTTCGACCTGCTTCGTAGTACCTCA
1 CACTTCTCTATATCTCATCAGGAAGACGACCACTTTATTGCTTCGACCTGCTTCTTAGTACCTCA
*
50536429 TTAGGAAGCTGGGGTTCGAAGTTTCGCTCACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTC
66 TCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTC
* * *
50536494 TTAGTATCTCATCAGGAAGATGACTGCATCACTTGTTTTAATCTACTTCTCTGTATCTCATCAGG
131 TTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAGG
* *
50536559 AAGATGGATTTCGTT
196 AAGACGGATTTCGTC
* * * * *
50536574 CACTTCTTTATATCTCATTAGGAAGACGACCGCATTATTACTTCGACCTGCTTCTTAGTACCTCA
1 CACTTCTCTATATCTCATCAGGAAGACGACCACTTTATTGCTTCGACCTGCTTCTTAGTACCTCA
* * *
50536639 TCAGGAAGCTGAGGTTTGAAGTTTCGCTAACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTC
66 TCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTC
* * * *
50536704 TTTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTTGCTTCTCTG
131 TTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTG
50536757 CCCGTTGATC
Statistics
Matches: 346, Mismatches: 47, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
210 346 1.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (210 bp):
CACTTCTCTATATCTCATCAGGAAGACGACCACTTTATTGCTTCGACCTGCTTCTTAGTACCTCA
TCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATCGAGCTTTGGTTTCATTGATTTGGTCTACTTC
TTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCTGTATCTCATCAGG
AAGACGGATTTCGTC
Found at i:50546745 original size:75 final size:75
Alignment explanation
Indices: 50546656--50546795 Score: 244
Period size: 75 Copynumber: 1.9 Consensus size: 75
50546646 TGTCGAAATG
50546656 TTTATTTTAAGGAAAAAAAACAGGTCTCGAACAATATTCTAAAATTATCGAAAATTGGAAAAAAT
1 TTTATTTTAAGGAAAAAAAACAGGTCTCGAACAATATTCTAAAATTATCGAAAATTGGAAAAAAT
50546721 GCGAGTCACA
66 GCGAGTCACA
* * * *
50546731 TTTATTTTAAGGAAAACAAATAGGTCTCGAACAATATTTTAAAATTATCGATAATTGGAAAAAAT
1 TTTATTTTAAGGAAAAAAAACAGGTCTCGAACAATATTCTAAAATTATCGAAAATTGGAAAAAAT
50546796 AGGGGTCGTC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (75 bp):
TTTATTTTAAGGAAAAAAAACAGGTCTCGAACAATATTCTAAAATTATCGAAAATTGGAAAAAAT
GCGAGTCACA
Found at i:50547774 original size:28 final size:29
Alignment explanation
Indices: 50547717--50547779 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
50547707 GTAAAAATGT
*
50547717 ATTTTTGGAAGCTCGAGGGTAAAATTGAA
1 ATTTTTGGAAGCTCGAGGGGAAAATTGAA
*
50547746 ATTTTTGGAAGTTCG-GGAGGAAAA-TGAA
1 ATTTTTGGAAGCTCGAGG-GGAAAATTGAA
50547774 ATTTTT
1 ATTTTT
50547780 AGGGTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (29 bp):
ATTTTTGGAAGCTCGAGGGGAAAATTGAA
Found at i:50547828 original size:29 final size:29
Alignment explanation
Indices: 50547777--50547846 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
50547767 AAATGAAATT
*
50547777 TTTA-GGGTAAAAATATAATTTTTCAAAA
1 TTTAGGGGTCAAAATATAATTTTTCAAAA
*
50547805 GTTTAGGGGTCAAAATATAATTTTTGAAAA
1 -TTTAGGGGTCAAAATATAATTTTTCAAAA
50547835 TTT-GGGGTCAAA
1 TTTAGGGGTCAAA
50547847 TGTTATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 9 0.24
29 7 0.18
30 22 0.58
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (29 bp):
TTTAGGGGTCAAAATATAATTTTTCAAAA
Found at i:50549499 original size:13 final size:13
Alignment explanation
Indices: 50549481--50549505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50549471 TGAAGCAAGA
50549481 AATAATAATAAAT
1 AATAATAATAAAT
50549494 AATAATAATAAA
1 AATAATAATAAA
50549506 CCCAAAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:50549827 original size:16 final size:15
Alignment explanation
Indices: 50549803--50549833 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
50549793 AAAATATAAC
50549803 AAAAAATAAAAAACG
1 AAAAAATAAAAAACG
50549818 AAAAATATAAAAAACG
1 AAAAA-ATAAAAAACG
50549834 GATTTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (15 bp):
AAAAAATAAAAAACG
Found at i:50562084 original size:21 final size:22
Alignment explanation
Indices: 50562058--50562114 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
50562048 ATGCATCTAA
50562058 TATTGTTCTTTGTAATTATTT-
1 TATTGTTCTTTGTAATTATTTG
* *
50562079 TATTGTTCCTTATAATTATTTGG
1 TATTGTTCTTTGTAATTATTT-G
50562102 TAATTGTTCTTTG
1 T-ATTGTTCTTTG
50562115 GCCAATGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 19 0.66
23 1 0.03
24 9 0.31
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.61
Consensus pattern (22 bp):
TATTGTTCTTTGTAATTATTTG
Found at i:50562709 original size:99 final size:98
Alignment explanation
Indices: 50562536--50562909 Score: 401
Period size: 99 Copynumber: 3.9 Consensus size: 98
50562526 ACATGATGGG
* * * * * * *
50562536 AAAGATTTAAGCAGCAACTGTGAATCTAGTACCACGAAGATAATGGAGGGAAAGGTTTAAGTTGC
1 AAAGATTTAAGCTGCAACGGCGAATCCAGTACCATGAAGATAATGGAGGAAAAGGTTTAAGTCGC
50562601 AACGGCGAACCTTGTACCTCAAAAGTGTGAAGGA
66 AACGGCGAACCTTGTACCTCAAAAG-GTGAAGGA
* *
50562635 AAAGATTTAAGCTGCAATGGCAAATCCAGTACCATGAAGATAATGGAGGAAAAGGTTTAAGTCGC
1 AAAGATTTAAGCTGCAACGGCGAATCCAGTACCATGAAGATAATGGAGGAAAAGGTTTAAGTCGC
* * *
50562700 AACGACGAACCTTGTACCTCAAAAGCATGAAGGG
66 AACGGCGAACCTTGTACCTCAAAAG-GTGAAGGA
* * ** * *
50562734 AAAGATTTAAGCGGCAACGGTGAATCCAGTACCATGAAGAT-ATAAAGGGAAAGGTTTAAGTCGT
1 AAAGATTTAAGCTGCAACGGCGAATCCAGTACCATGAAGATAATGGAGGAAAAGGTTTAAGTCGC
* *
50562798 AATGGTGAACCTTG----T----AGGATGAAGGGA
66 AACGGCGAACCTTGTACCTCAAAAGG-TGAA-GGA
* * * *
50562825 AAA-TTTTAAGTTGCAACGACGAATCCAGTACCATGAAGATAGTGGA-GAGAAAGGTTTAAGTCG
1 AAAGATTTAAGCTGCAACGGCGAATCCAGTACCATGAAGATAATGGAGGA-AAAGGTTTAAGTCG
*
50562888 CAACGGCGAACCTTATACCTCA
65 CAACGGCGAACCTTGTACCTCA
50562910 GAAGCATAAA
Statistics
Matches: 226, Mismatches: 39, Indels: 22
0.79 0.14 0.08
Matches are distributed among these distances:
90 39 0.17
91 32 0.14
94 1 0.00
95 1 0.00
98 30 0.13
99 123 0.54
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (98 bp):
AAAGATTTAAGCTGCAACGGCGAATCCAGTACCATGAAGATAATGGAGGAAAAGGTTTAAGTCGC
AACGGCGAACCTTGTACCTCAAAAGGTGAAGGA
Found at i:50562782 original size:49 final size:49
Alignment explanation
Indices: 50562519--50562897 Score: 196
Period size: 49 Copynumber: 7.8 Consensus size: 49
50562509 CCGTAGGTTT
* * * * * *
50562519 CATGAAGACATGATGGGAAAGATTTAAGCAGCAACTGTGAATCTAGTAC
1 CATGAAGATATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTAC
* * * * *
50562568 CACGAAGATAATGGAGGGAAAGGTTTAAGTTGCAACGGCGAA-CCTTGTAC
1 CATGAAGAT-ATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCC-AGTAC
* * * * * *
50562618 C-TCAAAAGTGTGAAGGAAAAGATTTAAGCTGCAATGGCAAATCCAGTAC
1 CATGAAGA-TATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTAC
* * * * *
50562667 CATGAAGATAATGGAGGAAAAGGTTTAAG-TCGCAACGACGAA-CCTTGTAC
1 CATGAAGAT-ATGAAGGGAAAGATTTAAGCT-GCAACGGCGAATCC-AGTAC
* * * * *
50562717 C-TCAAAAGCATGAAGGGAAAGATTTAAGCGGCAACGGTGAATCCAGTAC
1 CATGAAGA-TATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTAC
* * * * *
50562766 CATGAAGATATAAAGGGAAAGGTTTAAG-TCGTAATGGTGAA-CC--T--
1 CATGAAGATATGAAGGGAAAGATTTAAGCT-GCAACGGCGAATCCAGTAC
* * * *
50562810 --TGTAG-GATGAAGGGAAA-ATTTTAAGTTGCAACGACGAATCCAGTAC
1 CATGAAGATATGAAGGGAAAGA-TTTAAGCTGCAACGGCGAATCCAGTAC
* * *
50562856 CATGAAGATAGTGGAGAGAAAGGTTTAAG-TCGCAACGGCGAA
1 CATGAAGATA-TGAAGGGAAAGATTTAAGCT-GCAACGGCGAA
50562898 CCTTATACCT
Statistics
Matches: 241, Mismatches: 63, Indels: 51
0.68 0.18 0.14
Matches are distributed among these distances:
41 23 0.10
42 7 0.03
44 1 0.00
46 1 0.00
48 6 0.02
49 107 0.44
50 96 0.40
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (49 bp):
CATGAAGATATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTAC
Found at i:50562889 original size:189 final size:192
Alignment explanation
Indices: 50562527--50562940 Score: 498
Period size: 189 Copynumber: 2.1 Consensus size: 192
50562517 TTCATGAAGA
* * * **
50562527 CATGATGGGAAAGATTTAAGCAGCAACTGTGAATCTAGTACCACGAAGATAATGGAGGGAAAGGT
1 CATGAAGGGAAAGATTTAAGCAGCAACGGTGAATCCAGTACCACGAAGATAATAAAGGGAAAGGT
* * *
50562592 TTAAGTTGCAACGGCGAACCTTGTACCTCAAAAGTGTGAAGGAAAAGATTTAAGCTGCAATGGCA
66 TTAAGTCGCAACGGCGAACCTTG---CT---AAGTGTGAAGGAAAAGATTTAAGCTGCAACGACA
*
50562657 AATCCAGTACCATGAAGATAATGGAGGAAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAA
125 AATCCAGTACCATGAAGATAATGGAGGAAAAGGTTTAAGTCGCAACGACGAACCTTATACCTCAA
50562722 AAG
190 AAG
* *
50562725 CATGAAGGGAAAGATTTAAGCGGCAACGGTGAATCCAGTACCATGAAGAT-ATAAAGGGAAAGGT
1 CATGAAGGGAAAGATTTAAGCAGCAACGGTGAATCCAGTACCACGAAGATAATAAAGGGAAAGGT
* * * * * *
50562789 TTAAGTCGTAATGGTGAACCTTG-T-AG-GATGAAGGGAAAA-TTTTAAGTTGCAACGACGAATC
66 TTAAGTCGCAACGGCGAACCTTGCTAAGTG-TGAA-GGAAAAGATTTAAGCTGCAACGACAAATC
* * *
50562850 CAGTACCATGAAGATAGTGGA-GAGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAG
129 CAGTACCATGAAGATAATGGAGGA-AAAGGTTTAAGTCGCAACGACGAACCTTATACCTCAAAAG
* * *
50562914 CATAAAGGGAAAGATTGAAGCCGCAAC
1 CATGAAGGGAAAGATTTAAGCAGCAAC
50562941 AGTAAATCTT
Statistics
Matches: 190, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
188 3 0.02
189 104 0.55
190 6 0.03
193 1 0.01
197 31 0.16
198 45 0.24
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.20
Consensus pattern (192 bp):
CATGAAGGGAAAGATTTAAGCAGCAACGGTGAATCCAGTACCACGAAGATAATAAAGGGAAAGGT
TTAAGTCGCAACGGCGAACCTTGCTAAGTGTGAAGGAAAAGATTTAAGCTGCAACGACAAATCCA
GTACCATGAAGATAATGGAGGAAAAGGTTTAAGTCGCAACGACGAACCTTATACCTCAAAAG
Found at i:50566887 original size:26 final size:27
Alignment explanation
Indices: 50566850--50566906 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
50566840 TGGACATTCT
* *
50566850 ATTTGGGTTTGTATTTG-GACCTTTTA
1 ATTTGGGCTTGTATGTGAGACCTTTTA
*
50566876 ATTTGGGCTTGTATGTGAGACTTTTTA
1 ATTTGGGCTTGTATGTGAGACCTTTTA
50566903 ATTT
1 ATTT
50566907 AAATTTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.18, C:0.07, G:0.23, T:0.53
Consensus pattern (27 bp):
ATTTGGGCTTGTATGTGAGACCTTTTA
Found at i:50566924 original size:17 final size:17
Alignment explanation
Indices: 50566902--50566985 Score: 87
Period size: 17 Copynumber: 4.9 Consensus size: 17
50566892 GAGACTTTTT
*
50566902 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
* * *
50566919 AATTTAAACTCAAAATG
1 AATTTAAATTTAAAATA
*
50566936 AATCTAAATTTAAAATA
1 AATTTAAATTTAAAATA
* *
50566953 AATTCAAACTTAAAATA
1 AATTTAAATTTAAAATA
*
50566970 AATTAAAATTTTAAAA
1 AATTTAAA-TTTAAAA
50566986 CTTAAAATTT
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
17 47 0.89
18 6 0.11
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:50566944 original size:34 final size:33
Alignment explanation
Indices: 50566905--50566985 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
50566895 ACTTTTTAAT
* * *
50566905 TTAAATTTAAAGTAAATTTAAACTCAAAATGAA
1 TTAAATTTAAAATAAATTCAAACTCAAAATAAA
*
50566938 TCTAAATTTAAAATAAATTCAAACTTAAAATAAA
1 T-TAAATTTAAAATAAATTCAAACTCAAAATAAA
50566972 TTAAAATTTTAAAA
1 TT-AAA-TTTAAAA
50566986 CTTAAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.05
34 32 0.78
35 7 0.17
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (33 bp):
TTAAATTTAAAATAAATTCAAACTCAAAATAAA
Found at i:50566956 original size:11 final size:11
Alignment explanation
Indices: 50566906--50566962 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
50566896 CTTTTTAATT
*
50566906 TAAATTTAAAG
1 TAAATTTAAAC
50566917 TAAATTTAAAC
1 TAAATTTAAAC
* * *
50566928 TCAAAATGAATC
1 T-AAATTTAAAC
*
50566940 TAAATTTAAAA
1 TAAATTTAAAC
*
50566951 TAAATTCAAAC
1 TAAATTTAAAC
50566962 T
1 T
50566963 TAAAATAAAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
11 27 0.77
12 8 0.23
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (11 bp):
TAAATTTAAAC
Found at i:50568147 original size:20 final size:20
Alignment explanation
Indices: 50568115--50568153 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50568105 ATAATTAAGA
*
50568115 AATTAAAACTTAAA-AAAAT
1 AATTAAAAATTAAATAAAAT
50568134 AATTGAAAAATTAAATAAAA
1 AATT-AAAAATTAAATAAAA
50568154 ACAATATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
AATTAAAAATTAAATAAAAT
Found at i:50568624 original size:166 final size:170
Alignment explanation
Indices: 50568343--50568717 Score: 607
Period size: 166 Copynumber: 2.2 Consensus size: 170
50568333 TTTACCACTA
*
50568343 CACAAGCTAAGTTATTTAAAGACTGCATGATTCACGTTTGGATGGACATACATTGGGTTGAGCCA
1 CACAAGATAAGTTATTTAAAGACTGCATGATTCACGTTTGGATGGACATACATTGGGTTGAGCCA
50568408 TTATTCATCTCCCTTAAATCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTT-TA
66 TTATTCATCTCCCTTAAATCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTTGT-
*
50568472 AAAGAATGA-CCTCCTTTTT-ACCAC-T-ACACAAGCTTTC
130 AAAGAATGACCCACCTTTTTCACCACTTCACACAAGCTTTC
* *
50568509 CACAAGATAAGTTATTTTAAGACTGCATGATTCACGTTTGGATGGATATACATTGGGTTGAGCCA
1 CACAAGATAAGTTATTTAAAGACTGCATGATTCACGTTTGGATGGACATACATTGGGTTGAGCCA
*
50568574 TTATTCATCTCCCTTAATTCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTTGTA
66 TTATTCATCTCCCTTAAATCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTTGTA
50568639 AAGAATGACCCACCTTTTTCCACCACTAATTTCACACAAGCTTTC
131 AAGAATGACCCACCTTTTT-CACCAC----TTCACACAAGCTTTC
*
50568684 CACAAGATAAGTTATTTGAAGACTGCATGATTCA
1 CACAAGATAAGTTATTTAAAGACTGCATGATTCA
50568718 AACATTGAAT
Statistics
Matches: 193, Mismatches: 6, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
166 132 0.68
167 10 0.05
169 5 0.03
174 1 0.01
175 45 0.23
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (170 bp):
CACAAGATAAGTTATTTAAAGACTGCATGATTCACGTTTGGATGGACATACATTGGGTTGAGCCA
TTATTCATCTCCCTTAAATCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTTGTA
AAGAATGACCCACCTTTTTCACCACTTCACACAAGCTTTC
Found at i:50570235 original size:24 final size:22
Alignment explanation
Indices: 50570202--50570257 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
50570192 AAATCATCAA
*
50570202 TTTGAATTTTAAATATTAATGAG
1 TTTGAGTTTTAAATATTAATG-G
*
50570225 TATTGAGTTTTAAATTTTAATGG
1 T-TTGAGTTTTAAATATTAATGG
50570248 TTTGAGTTTT
1 TTTGAGTTTT
50570258 TAAGAGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 9 0.30
23 3 0.10
24 18 0.60
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (22 bp):
TTTGAGTTTTAAATATTAATGG
Found at i:50572845 original size:30 final size:30
Alignment explanation
Indices: 50572811--50572869 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50572801 TCCGATAATT
*
50572811 ATGTTTT-ATCCTCTAAACTTTCCAAAAATC
1 ATGTTTTGA-CCTCCAAACTTTCCAAAAATC
*
50572841 ATGTTTTGACCTCCAAACTTTCTAAAAAT
1 ATGTTTTGACCTCCAAACTTTCCAAAAAT
50572870 TACAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (30 bp):
ATGTTTTGACCTCCAAACTTTCCAAAAATC
Found at i:50573316 original size:24 final size:24
Alignment explanation
Indices: 50573288--50573339 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50573278 TTCGTAGGTC
* *
50573288 AAATAAATTATGCTAATAAATAGT
1 AAATAAATTATACTAATAAATAAT
**
50573312 AAATATGTTATACTAATAAATAAT
1 AAATAAATTATACTAATAAATAAT
50573336 AAAT
1 AAAT
50573340 CTTCTTGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATAAT
Found at i:50574890 original size:21 final size:21
Alignment explanation
Indices: 50574848--50574886 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
50574838 CAAACGTTAA
50574848 ATTCTAAGTCTTATAAATTAT
1 ATTCTAAGTCTTATAAATTAT
50574869 ATTC-AAGT-TTAT-AATTAT
1 ATTCTAAGTCTTATAAATTAT
50574887 TATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 4 0.22
21 4 0.22
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTCTAAGTCTTATAAATTAT
Found at i:50574970 original size:13 final size:13
Alignment explanation
Indices: 50574952--50574977 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50574942 TATATATCAT
50574952 ACGACTATTAAAA
1 ACGACTATTAAAA
50574965 ACGACTATTAAAA
1 ACGACTATTAAAA
50574978 TAAAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
ACGACTATTAAAA
Found at i:50579965 original size:23 final size:23
Alignment explanation
Indices: 50579929--50579977 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
50579919 TCGAATAAAG
* *
50579929 AAGAAGAAAAAAAAGAATAGCAA
1 AAGAAGAAAAAAAAAAAAAGCAA
50579952 AAGAA-AAAAGAAAAAAAAAGCAA
1 AAGAAGAAAA-AAAAAAAAAGCAA
50579975 AAG
1 AAG
50579978 GTTCGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (23 bp):
AAGAAGAAAAAAAAAAAAAGCAA
Found at i:50579999 original size:10 final size:10
Alignment explanation
Indices: 50579986--50580025 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
50579976 AGGTTCGAAA
50579986 AGAAAAAAAG
1 AGAAAAAAAG
50579996 AGAAAAAAAG
1 AGAAAAAAAG
*
50580006 AGGAGAAAAAG
1 A-GAAAAAAAG
50580017 AAGAAAAAA
1 -AGAAAAAA
50580026 TGGTTGCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 11 0.42
11 14 0.54
12 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:50582671 original size:12 final size:12
Alignment explanation
Indices: 50582649--50582684 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
50582639 ACCCATGCAT
50582649 ATAAG-TATTTA
1 ATAAGATATTTA
50582660 ATAAGATATTTA
1 ATAAGATATTTA
50582672 ATAAGATATTTA
1 ATAAGATATTTA
50582684 A
1 A
50582685 AATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.21
12 19 0.79
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATAAGATATTTA
Found at i:50583953 original size:390 final size:389
Alignment explanation
Indices: 50583231--50584006 Score: 1310
Period size: 390 Copynumber: 2.0 Consensus size: 389
50583221 TATTTAGTCT
* *
50583231 TTTAAGAAAAGGCACATCTCCGGAAATTGATGTGCAATTCTTTTACTTTGTATTTGTACATATAT
1 TTTAAGAAAAGACACATCTCCGGAAATTGATGTGCAATTCTTTTACTTTGTATTTGTACAAATAT
50583296 TTGAAATAAAAAAAATCTCTCGTTTCTTTTAACCTTGGGAGCTATCATTACTAGCATCAATACTA
66 TTGAAATAAAAAAAATCTCTCGTTTCTTTTAACCTTGGGAGCTATCATTACTAGCATCAATACTA
* *
50583361 GTGACGTCTTCCAATCATGTTGTTACTGATATTTCAAATATAAAATCCTGAAATACCAACGTTAA
131 GTGACGTCTTCCAATCATGTTGTTAATGATATTTCAAATATAAAATCCTGAAATACCAACGTCAA
* *
50583426 TACCAATTACATATTTCAACCAAGGCCAAGATGAGTTTTTTAAATCCAAAATCCAAAAATATCAA
196 TACCAATGACATATTTCAACCAAGGCCAAAATGAGTTTTTTAAATCCAAAATCCAAAAATATCAA
*
50583491 TTCATAATGCTTCGAACTAACATGCCATTAGATCCTTTTATCTCTTTTTTAACCGGTGCTCAATG
261 TTCATAATGCTTCGAACCAACATGCCATTAGATCCTTTTATCTCTTTTTTAACCGGTGCTCAATG
* * *
50583556 GGTTATTA-TAAAGGGTTTGATTGACAAAAGGTTAAATGAGTTTGTTTGAATTGATTGATTATGT
326 AGTTATTATTAAA-GGTTTGATCGACAAAAGGTTAAATGAGTTTGTTTGAA-TGAATGATTATGT
50583620 C
389 C
*
50583621 TTTAAGAAAAGACACATCTCTGGAAATTGATGTGCAATTCTTTTACTTTGTATTTGTACAAATAT
1 TTTAAGAAAAGACACATCTCCGGAAATTGATGTGCAATTCTTTTACTTTGTATTTGTACAAATAT
50583686 TTGAAAT-AAAAAAATCTCTCGTTTCTTTTAACCTTGGGAGCTATCATTACTAGCATCAATACT-
66 TTGAAATAAAAAAAATCTCTCGTTTCTTTTAACCTTGGGAGCTATCATTACTAGCATCAATACTA
* * *
50583749 GTTGGCTTCTTCCAATCATGTTGTTAATGATATTTCAGATATAAAATCCTGAAATACCAACGTCA
131 G-TGACGTCTTCCAATCATGTTGTTAATGATATTTCAAATATAAAATCCTGAAATACCAACGTCA
* *
50583814 GTACCAATGACATATTTCAACCAAGGCCAAAATGAGTTTTTTAATTCCAAAATCCAAAAAATATC
195 ATACCAATGACATATTTCAACCAAGGCCAAAATGAGTTTTTTAAATCCAAAATCC-AAAAATATC
*
50583879 AATTCATAATGCTTCGAACCAACATGTCATTAGATCCTTTTATCTCTTTTTCT-A-CGGATGCTC
259 AATTCATAATGCTTCGAACCAACATGCCATTAGATCCTTTTATCTCTTTTT-TAACCGG-TGCTC
50583942 AATGAGTTATTATTAAAGGTTTGATCGACAAAAGGTTAAATGAGTTTGTTTGAATGAATGATTAT
322 AATGAGTTATTATTAAAGGTTTGATCGACAAAAGGTTAAATGAGTTTGTTTGAATGAATGATTAT
50584007 TAGTTTTTTT
Statistics
Matches: 364, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
388 1 0.00
389 178 0.49
390 180 0.49
391 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (389 bp):
TTTAAGAAAAGACACATCTCCGGAAATTGATGTGCAATTCTTTTACTTTGTATTTGTACAAATAT
TTGAAATAAAAAAAATCTCTCGTTTCTTTTAACCTTGGGAGCTATCATTACTAGCATCAATACTA
GTGACGTCTTCCAATCATGTTGTTAATGATATTTCAAATATAAAATCCTGAAATACCAACGTCAA
TACCAATGACATATTTCAACCAAGGCCAAAATGAGTTTTTTAAATCCAAAATCCAAAAATATCAA
TTCATAATGCTTCGAACCAACATGCCATTAGATCCTTTTATCTCTTTTTTAACCGGTGCTCAATG
AGTTATTATTAAAGGTTTGATCGACAAAAGGTTAAATGAGTTTGTTTGAATGAATGATTATGTC
Found at i:50584562 original size:31 final size:30
Alignment explanation
Indices: 50584489--50584562 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
50584479 ATACAAACAC
*
50584489 TTTAT-AATTTTGAAATATCATTTTATATTT
1 TTTATAAATTTT-AAAAATCATTTTATATTT
* * *
50584519 TTAAGAAA-TTTAAAAATTATTTTATATTTT
1 TTTATAAATTTTAAAAATCATTTTATA-TTT
50584549 TTTATAAATTTTAA
1 TTTATAAATTTTAA
50584563 GATCAAATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 13 0.37
30 15 0.43
31 7 0.20
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (30 bp):
TTTATAAATTTTAAAAATCATTTTATATTT
Found at i:50585538 original size:144 final size:144
Alignment explanation
Indices: 50585278--50585562 Score: 498
Period size: 144 Copynumber: 2.0 Consensus size: 144
50585268 ACCAATTAAG
* * * *
50585278 ACAGTATTTATAATGTAGTGCATCACCAGGAAACTCATATAACAAACAACACAGCGTACAATAAA
1 ACAGTATTTATAATGTAGTGCATCAACAGGAAACACATATAACAAACAACACAACATACAATAAA
*
50585343 GCAGAAGGTCACCACAATTATCAAACAACTATAGAGAAAGGCTTGCATACCACCAAGTAATGAAG
66 GCAGAAGGTCACCACAATTATCAAACAACTATAGAGAAAGGCTTGCATACCACCAAGCAATGAAG
50585408 TTTTCTACTCTGCC
131 TTTTCTACTCTGCC
* *
50585422 ACAGTATTTATAATGTAGTGCATCAACAGGAAACACATATTACAAACAACATAACATACAATAAA
1 ACAGTATTTATAATGTAGTGCATCAACAGGAAACACATATAACAAACAACACAACATACAATAAA
*
50585487 GCAGAAGGTCACCACAATTATCAAACAACTATAGAGAGAGGCTTGCATACCACCAAGCAATGAAG
66 GCAGAAGGTCACCACAATTATCAAACAACTATAGAGAAAGGCTTGCATACCACCAAGCAATGAAG
50585552 TTTTCTACTCT
131 TTTTCTACTCT
50585563 CCGCAACTTC
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 133 1.00
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.22
Consensus pattern (144 bp):
ACAGTATTTATAATGTAGTGCATCAACAGGAAACACATATAACAAACAACACAACATACAATAAA
GCAGAAGGTCACCACAATTATCAAACAACTATAGAGAAAGGCTTGCATACCACCAAGCAATGAAG
TTTTCTACTCTGCC
Found at i:50590279 original size:83 final size:83
Alignment explanation
Indices: 50590186--50590350 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
50590176 ATCTATTTTA
50590186 TATACCTACTTTTTAAACATGCAAATTTTGTTTAGTTTTCTAGTGCTGATGACAAGTACAATTAT
1 TATACCTACTTTTTAAACATGCAAATTTTGTTTAGTTTTCTAGTGCTGATGACAAGTACAATTAT
50590251 TTTAAGTATAACTATGAG
66 TTTAAGTATAACTATGAG
*
50590269 TATACCTACTTTTTAAACATGCAAATTTTGTTTAGTTTTCTAGTGCTTATGACAAGTACAATTAT
1 TATACCTACTTTTTAAACATGCAAATTTTGTTTAGTTTTCTAGTGCTGATGACAAGTACAATTAT
50590334 TTTAAGTATAACTATGA
66 TTTAAGTATAACTATGA
50590351 AACTCAAATT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (83 bp):
TATACCTACTTTTTAAACATGCAAATTTTGTTTAGTTTTCTAGTGCTGATGACAAGTACAATTAT
TTTAAGTATAACTATGAG
Found at i:50593994 original size:17 final size:17
Alignment explanation
Indices: 50593972--50594010 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
50593962 AGGTGGAGAA
* *
50593972 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
50593989 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
50594006 CTTGT
1 CTTGT
50594011 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:50596808 original size:3 final size:3
Alignment explanation
Indices: 50596800--50596826 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
50596790 CTCTGAAAAT
50596800 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
50596827 GATTGATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:50601044 original size:16 final size:16
Alignment explanation
Indices: 50601025--50601075 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
50601015 TTAGTTTACG
50601025 ATTGAGAATGCTTATC
1 ATTGAGAATGCTTATC
* *
50601041 ATTGA-CATAG-TTTTC
1 ATTGAGAAT-GCTTATC
50601056 GATTGAGAATGCTTATC
1 -ATTGAGAATGCTTATC
50601073 ATT
1 ATT
50601076 TTACTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
15 6 0.22
16 15 0.56
17 6 0.22
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (16 bp):
ATTGAGAATGCTTATC
Found at i:50601052 original size:32 final size:32
Alignment explanation
Indices: 50601009--50601075 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
50600999 TATATATATA
*
50601009 ATTGACTTAGTTTACGATTGAGAATGCTTATC
1 ATTGACATAGTTTACGATTGAGAATGCTTATC
*
50601041 ATTGACATAGTTTTCGATTGAGAATGCTTATC
1 ATTGACATAGTTTACGATTGAGAATGCTTATC
50601073 ATT
1 ATT
50601076 TTACTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (32 bp):
ATTGACATAGTTTACGATTGAGAATGCTTATC
Found at i:50606079 original size:17 final size:17
Alignment explanation
Indices: 50606057--50606090 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50606047 TAAGTGGATG
50606057 TCTAACTCCTTTAAACC
1 TCTAACTCCTTTAAACC
50606074 TCTAACTCCTTTAAACC
1 TCTAACTCCTTTAAACC
50606091 CTCATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (17 bp):
TCTAACTCCTTTAAACC
Found at i:50615914 original size:6 final size:6
Alignment explanation
Indices: 50615876--50615969 Score: 54
Period size: 6 Copynumber: 15.8 Consensus size: 6
50615866 GACTTAGACT
* **
50615876 TTTAAA GTTTAAA -TTAAT TTTAAA TTT-GT TTTAAA TTTAAA TTT--A
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
50615921 TCTTAAA TTTAAA TTTACTTA TTTAAA TTT-AT TTTAGA TTCAAA TTTAA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
50615970 TCAAATTCAA
Statistics
Matches: 65, Mismatches: 14, Indels: 17
0.68 0.15 0.18
Matches are distributed among these distances:
4 2 0.03
5 13 0.20
6 37 0.57
7 8 0.12
8 5 0.08
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:50615914 original size:17 final size:17
Alignment explanation
Indices: 50615889--50615968 Score: 85
Period size: 17 Copynumber: 4.9 Consensus size: 17
50615879 AAAGTTTAAA
* * *
50615889 TTAATTTTAAATTTGTT
1 TTAAATTTAAATTTATC
50615906 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTATC
50615923 TTAAATTTAAATTTA-C
1 TTAAATTTAAATTTATC
*
50615939 TT--ATTTAAATTTATT
1 TTAAATTTAAATTTATC
* *
50615954 TTAGATTCAAATTTA
1 TTAAATTTAAATTTA
50615969 ATCAAATTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
14 11 0.20
15 2 0.04
16 3 0.05
17 39 0.71
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAAATTTAAATTTATC
Found at i:50615917 original size:28 final size:29
Alignment explanation
Indices: 50615875--50615930 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
50615865 GGACTTAGAC
*
50615875 TTTTAAAGTTTAAATTAATTTTAAATTTG
1 TTTTAAAGTTTAAATTAATCTTAAATTTG
*
50615904 TTTTAAA-TTTAAATTTATCTTAAATTT
1 TTTTAAAGTTTAAATTAATCTTAAATTT
50615931 AAATTTACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTAAAGTTTAAATTAATCTTAAATTTG
Found at i:50615948 original size:31 final size:31
Alignment explanation
Indices: 50615910--50615968 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
50615900 TTTGTTTTAA
*
50615910 ATTTAAATTTATCTTAAATTTAAATTTACTT
1 ATTTAAATTTATCTTAAATTCAAATTTACTT
* *
50615941 ATTTAAATTTATTTTAGATTCAAATTTA
1 ATTTAAATTTATCTTAAATTCAAATTTA
50615969 ATCAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (31 bp):
ATTTAAATTTATCTTAAATTCAAATTTACTT
Found at i:50616802 original size:22 final size:21
Alignment explanation
Indices: 50616757--50616811 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
50616747 CAAGTATTAA
* **
50616757 ATAGTTTTATTAATAATAGTT
1 ATAGTTTTAATAATAATAAAT
*
50616778 ATAAGTTTTAATAGTAATAAAT
1 AT-AGTTTTAATAATAATAAAT
*
50616800 ATAGTATTAATA
1 ATAGTTTTAATA
50616812 TTTTTAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (21 bp):
ATAGTTTTAATAATAATAAAT
Found at i:50617973 original size:30 final size:29
Alignment explanation
Indices: 50617882--50617976 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 29
50617872 CCCCAAACAG
* * * *
50617882 TCCAAAAATTGCTTTTTGATCCC-AAAAT
1 TCCAAAAATTACATTTTGACCCCGAAACT
*
50617910 TTCAGAAAATTACATTTTGACCCCGAAACT
1 TCCA-AAAATTACATTTTGACCCCGAAACT
*
50617940 TCCAAAAATTACCATTTT-ACCCCTAAACTT
1 TCCAAAAATTA-CATTTTGACCCCGAAAC-T
50617970 TCCAAAA
1 TCCAAAA
50617977 TTCTATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 3 0.05
29 32 0.57
30 21 0.38
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (29 bp):
TCCAAAAATTACATTTTGACCCCGAAACT
Found at i:50618015 original size:59 final size:60
Alignment explanation
Indices: 50617941--50618196 Score: 340
Period size: 59 Copynumber: 4.3 Consensus size: 60
50617931 CCCGAAACTT
* * *
50617941 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTATTTTTT-A-CTCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTTAACCT-CGATTTCA
* * * *
50618000 CTAACAATTACCATTTTACCCCCGAACTCTCCGAAATTCCATTTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTTAACCTCGATTTCA
* * *
50618060 CTAAAAATTACCATTTTACCCCTAAACACTCCAAAATTCCATTTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTTAACCTCGATTTCA
* * * * *
50618120 CC-AAAATTACCATTTTACCCCCGAATTTTCCAAAATTCCA-TTTTTGACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTTAACCTCGATTTCA
50618178 CCAAAAATTACCATTTTAC
1 CCAAAAATTACCATTTTAC
50618197 GCCGCGAGTC
Statistics
Matches: 174, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
58 18 0.10
59 89 0.51
60 65 0.37
61 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (60 bp):
CCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTTAACCTCGATTTCA
Found at i:50618156 original size:119 final size:118
Alignment explanation
Indices: 50617941--50618196 Score: 381
Period size: 119 Copynumber: 2.2 Consensus size: 118
50617931 CCCGAAACTT
** * *
50617941 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTATTTTTTACTCCGATTTCACTAACA
1 CCAAAAATTACCATTTTACCCCTAAACACTCCAAAATTCCATTTTTTACTCCGATTTCACCAACA
* *
50618006 ATTACCATTTTACCCCCGAACTCTCCGAAATTCCATTTTTTAACCTCGATTTCA
66 ATTACCATTTTACCCCCGAACTCTCCAAAATTCCA-TTTTTAACCCCGATTTCA
*
50618060 CTAAAAATTACCATTTTACCCCTAAACACTCCAAAATTCCATTTTTTAAC-CTCGATTTCACCAA
1 CCAAAAATTACCATTTTACCCCTAAACACTCCAAAATTCCATTTTTT-ACTC-CGATTTCACCAA
* * *
50618124 -AATTACCATTTTACCCCCGAATTTTCCAAAATTCCATTTTTGACCCCGATTTCA
64 CAATTACCATTTTACCCCCGAACTCTCCAAAATTCCATTTTTAACCCCGATTTCA
50618178 CCAAAAATTACCATTTTAC
1 CCAAAAATTACCATTTTAC
50618197 GCCGCGAGTC
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
118 34 0.27
119 77 0.62
120 13 0.10
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCTAAACACTCCAAAATTCCATTTTTTACTCCGATTTCACCAACA
ATTACCATTTTACCCCCGAACTCTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:50618171 original size:29 final size:29
Alignment explanation
Indices: 50617983--50618194 Score: 134
Period size: 30 Copynumber: 7.1 Consensus size: 29
50617973 AAAATTCTAT
* *
50617983 TTTTTACTCCGATTTCACTAACAATTACCA
1 TTTTTACCCCGATTTCACCAA-AATTACCA
** * *
50618013 -TTTTACCCCCGAACTCTCCGAAATT-CCA
1 TTTTTA-CCCCGATTTCACCAAAATTACCA
* *
50618041 TTTTTTAACCTCGATTTCACTAAAAATTACCA
1 -TTTTT-ACCCCGATTTCAC-CAAAATTACCA
* **
50618073 -TTTTACCCCTA-AACACTCCAAAATT-CCA
1 TTTTTACCCCGATTTCA--CCAAAATTACCA
*
50618101 TTTTTTAACCTCGATTTCACCAAAATTACCA
1 -TTTTT-ACCCCGATTTCACCAAAATTACCA
*
50618132 -TTTTACCCCCGAATTT-TCCAAAATT-CCA
1 TTTTTA-CCCCG-ATTTCACCAAAATTACCA
50618160 TTTTTGACCCCGATTTCACCAAAAATTACCA
1 TTTTT-ACCCCGATTTCACC-AAAATTACCA
50618191 TTTT
1 TTTT
50618195 ACGCCGCGAG
Statistics
Matches: 138, Mismatches: 24, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
28 16 0.12
29 47 0.34
30 49 0.36
31 21 0.15
32 5 0.04
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (29 bp):
TTTTTACCCCGATTTCACCAAAATTACCA
Found at i:50622963 original size:15 final size:16
Alignment explanation
Indices: 50622945--50622983 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
50622935 GATTTAAATC
50622945 TAATAAAAGT-AAAAA
1 TAATAAAAGTAAAAAA
* *
50622960 TAATTAAATTAAAAAA
1 TAATAAAAGTAAAAAA
50622976 TAATAAAA
1 TAATAAAA
50622984 ATAAGCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
TAATAAAAGTAAAAAA
Found at i:50624556 original size:42 final size:42
Alignment explanation
Indices: 50624476--50624563 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
50624466 TTATGAGGAG
* * *
50624476 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACACTTTTC-CAC
*
50624519 AAACGCCGCTAAAG-ACATGTTCTTTAGCGACACTTTTCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGACACTTTTCCAC
50624560 AAAC
1 AAAC
50624564 ACCATTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 7 0.17
42 20 0.49
43 14 0.34
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGACACTTTTCCAC
Found at i:50627676 original size:19 final size:21
Alignment explanation
Indices: 50627647--50627696 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
50627637 AAAGGGTAAT
* *
50627647 AGAACAAAGGA-AATCTGAAG
1 AGAACAAAGGATAAACTAAAG
50627667 AGAA-AAAGGATAAACTAAAG
1 AGAACAAAGGATAAACTAAAG
*
50627687 AGAACCAAGG
1 AGAACAAAGG
50627697 GTTAGCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.58, C:0.10, G:0.24, T:0.08
Consensus pattern (21 bp):
AGAACAAAGGATAAACTAAAG
Found at i:50628548 original size:41 final size:41
Alignment explanation
Indices: 50628503--50628662 Score: 205
Period size: 41 Copynumber: 3.9 Consensus size: 41
50628493 TATTATTGAG
** *
50628503 CTTTAGCGGCGCTTTTTCATAAGCGCCGCTATTGCCCTAAC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
* *
50628544 CTTTAGCGGCGCTTCCCCATAAGCGCCACTATTGCCCT-AC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
* * * * * *
50628584 CTTTTGCGGCGCTTACCCATAAGCACCGTTATTTCTCTGAC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
*
50628625 CTTTAGCGGCGCTTTCACATAAGCGCCGCTATTGCCCT
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCT
50628663 ACCCGCGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 33 0.33
41 67 0.67
ACGTcount: A:0.17, C:0.34, G:0.19, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
Found at i:50628729 original size:40 final size:40
Alignment explanation
Indices: 50628674--50628857 Score: 244
Period size: 41 Copynumber: 4.5 Consensus size: 40
50628664 CCCGCGGTTT
50628674 CCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTG
1 CCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTG
*
50628714 CCCTACCTTTTGCGGCACTTTCCCATAAGCGCCGCTATTG
1 CCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTG
*
50628754 CCCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTG
1 CCCT-ACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTG
* ** * ** *
50628795 CCCTGACCTTTAGCGGCGCTTAT-GGAAAAATGCTGCTATTG
1 CCCT-ACCTTTTGCGGCGCTT-TCCCATAAGCGCCGCTATTG
*
50628836 CCCTACCTTTTGCGGCGTTTTC
1 CCCTACCTTTTGCGGCGCTTTC
50628858 TGTCTAAACG
Statistics
Matches: 130, Mismatches: 11, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 57 0.44
41 71 0.55
42 1 0.01
ACGTcount: A:0.15, C:0.34, G:0.21, T:0.30
Consensus pattern (40 bp):
CCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTG
Found at i:50628749 original size:95 final size:96
Alignment explanation
Indices: 50628578--50628757 Score: 281
Period size: 96 Copynumber: 1.9 Consensus size: 96
50628568 GCCACTATTG
* * * *
50628578 CCCTACCTTTTGCGGCGCTTACCCATAAGCACCGTTATTTCTCTGACCTTTAGCGGCGCTTTCAC
1 CCCTACCTTTTGCGGCGCTTACCCATAAGCACCGCTATTGCCCTGACCTTTAGCGGCACTTTCAC
50628643 ATAAGCGCCGCTATTGCCCTACCCGCGGTTT
66 ATAAGCGCCGCTATTGCCCTACCCGCGGTTT
* * * *
50628674 CCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCT-ACCTTTTGCGGCACTTTCCC
1 CCCTACCTTTTGCGGCGCTTACCCATAAGCACCGCTATTGCCCTGACCTTTAGCGGCACTTTCAC
50628738 ATAAGCGCCGCTATTGCCCT
66 ATAAGCGCCGCTATTGCCCT
50628758 GACCTTTAGC
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
95 37 0.49
96 39 0.51
ACGTcount: A:0.14, C:0.37, G:0.18, T:0.30
Consensus pattern (96 bp):
CCCTACCTTTTGCGGCGCTTACCCATAAGCACCGCTATTGCCCTGACCTTTAGCGGCACTTTCAC
ATAAGCGCCGCTATTGCCCTACCCGCGGTTT
Found at i:50628773 original size:24 final size:24
Alignment explanation
Indices: 50628741--50628814 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
50628731 CTTTCCCATA
50628741 AGCGCCGCTATTGCCCTGACCTTT
1 AGCGCCGCTATTGCCCTGACCTTT
* *
50628765 AGCGGCGCT-TT-CCC--A---TA
1 AGCGCCGCTATTGCCCTGACCTTT
50628782 AGCGCCGCTATTGCCCTGACCTTT
1 AGCGCCGCTATTGCCCTGACCTTT
*
50628806 AGCGGCGCT
1 AGCGCCGCT
50628815 TATGGAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
17 9 0.24
18 2 0.05
19 3 0.08
20 1 0.03
21 1 0.03
22 3 0.08
23 2 0.05
24 17 0.45
ACGTcount: A:0.14, C:0.36, G:0.24, T:0.26
Consensus pattern (24 bp):
AGCGCCGCTATTGCCCTGACCTTT
Found at i:50628786 original size:136 final size:137
Alignment explanation
Indices: 50628537--50628798 Score: 427
Period size: 136 Copynumber: 1.9 Consensus size: 137
50628527 GCCGCTATTG
*
50628537 CCCTAACCTTTAGCGGCGCTTCCCCATAAGCGCCACTATTGCCCTACCTTTTGCGGCGCTTACCC
1 CCCTAACCTTTAGCGGCGCTTCCCCATAAGCGCCACTATTGCCCTACCTTTTGCGGCACTTACCC
* * *
50628602 ATAAGCACCGTTATTTCTCTGACCTTTAGCGGCGCTTTCACATAAGCGCCGCTATTGCCCTACCC
66 ATAAGCACCGCTATTGCCCTGACCTTTAGCGGCGCTTTCACATAAGCGCCGCTATTGCCCTACCC
50628667 GCGGTTT
131 GCGGTTT
* * * *
50628674 CCCT-ACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTACCTTTTGCGGCACTTTCCC
1 CCCTAACCTTTAGCGGCGCTTCCCCATAAGCGCCACTATTGCCCTACCTTTTGCGGCACTTACCC
* *
50628738 ATAAGCGCCGCTATTGCCCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCT
66 ATAAGCACCGCTATTGCCCTGACCTTTAGCGGCGCTTTCACATAAGCGCCGCTATTGCCCT
50628799 GACCTTTAGC
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
136 111 0.97
137 4 0.03
ACGTcount: A:0.15, C:0.37, G:0.19, T:0.29
Consensus pattern (137 bp):
CCCTAACCTTTAGCGGCGCTTCCCCATAAGCGCCACTATTGCCCTACCTTTTGCGGCACTTACCC
ATAAGCACCGCTATTGCCCTGACCTTTAGCGGCGCTTTCACATAAGCGCCGCTATTGCCCTACCC
GCGGTTT
Found at i:50628844 original size:81 final size:80
Alignment explanation
Indices: 50628674--50628857 Score: 244
Period size: 81 Copynumber: 2.3 Consensus size: 80
50628664 CCCGCGGTTT
*
50628674 CCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTACCTTTTGCGGCACTTTCCCA
1 CCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTACCTTTAGCGGCACTTTCCCA
* *
50628739 TAAGCGCCGCTATTG
66 AAAACGCCGCTATTG
* *
50628754 CCCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGACCTTTAGCGGCGCTTAT-
1 CCCT-ACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCT-ACCTTTAGCGGCACTT-TC
** * *
50628818 GGAAAAATGCTGCTATTG
63 CCAAAAACGCCGCTATTG
*
50628836 CCCTACCTTTTGCGGCGTTTTC
1 CCCTACCTTTTGCGGCGCTTTC
50628858 TGTCTAAACG
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 4 0.04
81 55 0.61
82 30 0.33
83 1 0.01
ACGTcount: A:0.15, C:0.34, G:0.21, T:0.30
Consensus pattern (80 bp):
CCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTACCTTTAGCGGCACTTTCCCA
AAAACGCCGCTATTG
Found at i:50633800 original size:21 final size:21
Alignment explanation
Indices: 50633774--50633814 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50633764 TGAGTCAAAT
* *
50633774 ATTTTCAAATATGTTTAAACC
1 ATTTTCAAATAAGTTAAAACC
50633795 ATTTTCAAATAAGTTAAAAC
1 ATTTTCAAATAAGTTAAAAC
50633815 TGCTCCAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (21 bp):
ATTTTCAAATAAGTTAAAACC
Found at i:50636671 original size:33 final size:33
Alignment explanation
Indices: 50636607--50636669 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
50636597 ATTTTTATGT
* *
50636607 CTTAAATTGAAAATGATTTTTATATAAGGGGAC
1 CTTAAATTCAAAATGATATTTATATAAGGGGAC
50636640 CTTAAATTCAAAATG-TCATTTAT-TAAGGGG
1 CTTAAATTCAAAATGAT-ATTTATATAAGGGG
50636670 GAGCAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (33 bp):
CTTAAATTCAAAATGATATTTATATAAGGGGAC
Found at i:50636888 original size:21 final size:21
Alignment explanation
Indices: 50636847--50636888 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50636837 TTAAGTCAAA
** *
50636847 CATTTTCAAATATGTTTAAAC
1 CATTTTCAAATAAATTAAAAC
50636868 CATTTTCAAATAAATTAAAAC
1 CATTTTCAAATAAATTAAAAC
50636889 TGCTTTAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (21 bp):
CATTTTCAAATAAATTAAAAC
Found at i:50637068 original size:22 final size:21
Alignment explanation
Indices: 50637027--50637068 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50637017 ATTTCCATAA
*
50637027 GGTATCAATAATTTGTTCCAT
1 GGTATCAATAATTTGGTCCAT
*
50637048 GGTATCGATAATTTTGGTCCA
1 GGTATCAATAA-TTTGGTCCA
50637069 ACGGTCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (21 bp):
GGTATCAATAATTTGGTCCAT
Found at i:50644238 original size:20 final size:22
Alignment explanation
Indices: 50644201--50644241 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50644191 TTTATGACTG
*
50644201 AAAAAAAAGGTAAGGGTAAAAA
1 AAAAAAAAGCTAAGGGTAAAAA
50644223 AAAAAAAAGCT-A-GGTAAAA
1 AAAAAAAAGCTAAGGGTAAAA
50644242 GCTGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.10
Consensus pattern (22 bp):
AAAAAAAAGCTAAGGGTAAAAA
Found at i:50652392 original size:98 final size:98
Alignment explanation
Indices: 50652195--50652389 Score: 288
Period size: 98 Copynumber: 2.0 Consensus size: 98
50652185 ACATTTCGAG
* *
50652195 AAGGATATTTGATTATCTCGATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGATATTTGATTATCTCAATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
*
50652260 AAAACCAGAGATAAAGAAACATTGCCTCGATTT
66 AAAACCAGAAATAAAGAAACATTGCCTCGATTT
*
50652293 AAGGGTATTTGATTAT-TCCAATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTC
1 AAGGATATTTGATTATCT-CAATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTC
* * *
50652357 -AAGACTC-GAAATAAAGGAATATTGCCTCGATTT
65 AAAAAC-CAGAAATAAAGAAACATTGCCTCGATTT
50652390 TAAAGGTTTA
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
97 28 0.32
98 60 0.68
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (98 bp):
AAGGATATTTGATTATCTCAATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
AAAACCAGAAATAAAGAAACATTGCCTCGATTT
Found at i:50652664 original size:29 final size:28
Alignment explanation
Indices: 50652632--50652724 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
50652622 GCTCGGGGAT
* *
50652632 AAAATGGTAATTTTGGATACTTCAGGGGC
1 AAAATGATAATTTTGGA-AGTTCAGGGGC
*
50652661 AAAAAT-ATAATTTTTGGAAGTTCAAGGG-
1 -AAAATGATAA-TTTTGGAAGTTCAGGGGC
* *
50652689 TAAATGATAATTTATGGAAAGTTCGGGGGC
1 AAAATGATAATTT-TGG-AAGTTCAGGGGC
50652719 AAAATG
1 AAAATG
50652725 GAATTTTTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
27 7 0.14
28 7 0.14
29 20 0.39
30 17 0.33
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (28 bp):
AAAATGATAATTTTGGAAGTTCAGGGGC
Found at i:50652718 original size:58 final size:59
Alignment explanation
Indices: 50652631--50652926 Score: 238
Period size: 57 Copynumber: 5.1 Consensus size: 59
50652621 AGCTCGGGGA
* * **
50652631 TAAAATGGTAA-TTTTGGATACTTCAGGGGCAAAAATATAATTTTTGGAAGTTCAAGGG
1 TAAAATGGTAATTTTTGGAAAATTCAGGGGCAAAAATGGAATTTTTGGAAGTTCAAGGG
* * * * * *
50652689 T-AAATGATAATTTATGGAAAGTTCGGGGGC-AAAATGGAATTTTTAGACA-TGCAAGGG
1 TAAAATGGTAATTTTTGGAAAATTCAGGGGCAAAAATGGAATTTTTGGA-AGTTCAAGGG
* ** * *
50652746 TAAAATGGTAATTTTTGGAAAATTTAGGGTAAAAAATGGAACTTTTGGAAGTTCGAGGG
1 TAAAATGGTAATTTTTGGAAAATTCAGGGGCAAAAATGGAATTTTTGGAAGTTCAAGGG
* ** *
50652805 TAAAATGGTAATATTTTGGAAAAATCA---AAAAAAATGGAA-TTTTGGAAGTTCGA-GG
1 TAAAATGGTAAT-TTTTGGAAAATTCAGGGGCAAAAATGGAATTTTTGGAAGTTCAAGGG
* * * *
50652860 TCAAAAATAG-AATTTTTGGAAAAATT-AGGGTC-AAAATGTAATTTTTGGAAAGTTCGAGGG
1 T--AAAATGGTAATTTTTGG-AAAATTCAGGGGCAAAAATGGAATTTTTGG-AAGTTCAAGGG
50652920 TTAAAAT
1 -TAAAAT
50652927 ATGGTTTTTG
Statistics
Matches: 194, Mismatches: 28, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
55 10 0.05
56 22 0.11
57 55 0.28
58 46 0.24
59 46 0.24
60 14 0.07
61 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (59 bp):
TAAAATGGTAATTTTTGGAAAATTCAGGGGCAAAAATGGAATTTTTGGAAGTTCAAGGG
Done.