Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 110 of 129
Found at i:19852023 original size:29 final size:28
Alignment explanation
Indices: 19851979--19852037 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
19851969 AAATTAAATA
** *
19851979 TTATATTTTGATTTTGTTATTTATTAAT
1 TTATATTTTGATTTTGAAATTTAATAAT
19852007 TTATAATTTT-ATATTTGAAATTTAATAAT
1 TTAT-ATTTTGAT-TTTGAAATTTAATAAT
19852036 TT
1 TT
19852038 TTTTGTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (28 bp):
TTATATTTTGATTTTGAAATTTAATAAT
Found at i:19854810 original size:132 final size:132
Alignment explanation
Indices: 19854569--19854817 Score: 320
Period size: 132 Copynumber: 1.9 Consensus size: 132
19854559 AAAATGTTAC
* * * *
19854569 TGCAAAAACTTATTTTATTTACAATGATTTTTAAATGTTATTACTTAACTTATTTTTTTTATTAT
1 TGCAAAAACTTATTTTATTTACAATGATTTTTAAATGTCATTACTTAACTTATATTTTTAAATAT
** *
19854634 TTTACACAATGACAAAAAAATTGTTATACAAGTATCTATCATATTTGCAACAATAAAATATTATT
66 TTTACACAACAACAAAAAAATTGTTACACAAGTATCTATCATATTTGCAACAATAAAATATTATT
19854699 GT
131 GT
* * * * *
19854701 TGCAAAAATTTATTTTATTTACAATGATTTTTCAATGTCCTTGCTTAATTTATATTTTTAAATAT
1 TGCAAAAACTTATTTTATTTACAATGATTTTTAAATGTCATTACTTAACTTATATTTTTAAATAT
* * * * * *
19854766 TTTATACAACAACAAAAAAGTTGTTGCATAAGTAT-TCATTATATTTGTAACA
66 TTTACACAACAACAAAAAAATTGTTACACAAGTATCT-ATCATATTTGCAACA
19854818 CTAGTAATTG
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
131 1 0.01
132 97 0.99
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (132 bp):
TGCAAAAACTTATTTTATTTACAATGATTTTTAAATGTCATTACTTAACTTATATTTTTAAATAT
TTTACACAACAACAAAAAAATTGTTACACAAGTATCTATCATATTTGCAACAATAAAATATTATT
GT
Found at i:19857080 original size:17 final size:16
Alignment explanation
Indices: 19857059--19857107 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
19857049 CAAAAAATAT
19857059 AAAAAATACTAAAAAGA
1 AAAAAATAC-AAAAAGA
* *
19857076 GAAAAATACAAAAACAA
1 AAAAAATACAAAAA-GA
19857093 AAAAAATACAAAAAG
1 AAAAAATACAAAAAG
19857108 GTCAGTGGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (16 bp):
AAAAAATACAAAAAGA
Found at i:19857089 original size:9 final size:9
Alignment explanation
Indices: 19857048--19857106 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
19857038 TATTAATTAA
19857048 ACAAAAAAT
1 ACAAAAAAT
*
19857057 ATAAAAAAT
1 ACAAAAAAT
* *
19857066 ACTAAAAAG
1 ACAAAAAAT
*
19857075 A-GAAAAAT
1 ACAAAAAAT
19857083 ACAAAAACA-
1 ACAAAAA-AT
19857092 A-AAAAAAT
1 ACAAAAAAT
19857100 ACAAAAA
1 ACAAAAA
19857107 GGTCAGTGGC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
7 1 0.03
8 12 0.31
9 25 0.64
10 1 0.03
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.10
Consensus pattern (9 bp):
ACAAAAAAT
Found at i:19867125 original size:3 final size:3
Alignment explanation
Indices: 19867117--19867141 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19867107 TGTATTAAAC
19867117 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
19867142 ATTTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19868269 original size:24 final size:24
Alignment explanation
Indices: 19868237--19868286 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
19868227 TGATAATTTT
19868237 AAAATAAA-CTAAATAATAATAATA
1 AAAATAAACCT-AATAATAATAATA
**
19868261 AAAATAAACCTTTTAATAATAATA
1 AAAATAAACCTAATAATAATAATA
19868285 AA
1 AA
19868287 TTAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATAAACCTAATAATAATAATA
Found at i:19870527 original size:74 final size:74
Alignment explanation
Indices: 19870405--19870552 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 74
19870395 TCTTGGAATA
* * *
19870405 GAACTATAGTGTCCAGATAAAGGATTTAGTCGAAAGCTAAAATCAGGTTATCCCTAAAAGTTAGC
1 GAACTATAGTGTCCAGATAAAGGATTTACTCGAAAGCCAAAATCAGGTTATCCCAAAAAGTTAGC
19870470 CAAGCTTAT
66 CAAGCTTAT
* *
19870479 GAACTATAGTGTCCAGATAAAGTG-TTTACTCGAAAGCCAAAATTAGGTTATCCCAAAAAGTTGG
1 GAACTATAGTGTCCAGATAAAG-GATTTACTCGAAAGCCAAAATCAGGTTATCCCAAAAAGTTAG
19870543 CCAAGCTTAT
65 CCAAGCTTAT
19870553 ATGGGTTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
74 67 0.99
75 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (74 bp):
GAACTATAGTGTCCAGATAAAGGATTTACTCGAAAGCCAAAATCAGGTTATCCCAAAAAGTTAGC
CAAGCTTAT
Found at i:19872146 original size:17 final size:19
Alignment explanation
Indices: 19872103--19872146 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
19872093 AAGGTAGTGA
19872103 AAAAAGCATAGAAGATGGTT
1 AAAAAG-ATAGAAGATGGTT
*
19872123 GAAAAGATAGAAG-T-GTT
1 AAAAAGATAGAAGATGGTT
19872140 AAAAAGA
1 AAAAAGA
19872147 GAAGTCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 9 0.41
18 1 0.05
19 7 0.32
20 5 0.23
ACGTcount: A:0.55, C:0.02, G:0.25, T:0.18
Consensus pattern (19 bp):
AAAAAGATAGAAGATGGTT
Found at i:19879767 original size:9 final size:9
Alignment explanation
Indices: 19879753--19879809 Score: 55
Period size: 8 Copynumber: 6.3 Consensus size: 9
19879743 ATATTTTGCT
19879753 TGAAAAAAA
1 TGAAAAAAA
19879762 TGAAAAAAA
1 TGAAAAAAA
19879771 T-AAAAAAA
1 TGAAAAAAA
*
19879779 T-AAAAAAG
1 TGAAAAAAA
*
19879787 TAAAAAAAAA
1 T-GAAAAAAA
*
19879797 AGAAAAATAA
1 TGAAAAA-AA
19879807 TGA
1 TGA
19879810 CTTATCTAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
8 15 0.38
9 15 0.38
10 10 0.25
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:19879777 original size:16 final size:16
Alignment explanation
Indices: 19879755--19879806 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
19879745 ATTTTGCTTG
19879755 AAAAAAATGAAAAAAAT
1 AAAAAAAT-AAAAAAAT
*
19879772 AAAAAAATAAAAAAGT
1 AAAAAAATAAAAAAAT
*
19879788 AAAAAAAAAAGAAAAAT
1 AAAAAAATAA-AAAAAT
19879805 AA
1 AA
19879807 TGACTTATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAAAATAAAAAAAT
Found at i:19879804 original size:25 final size:25
Alignment explanation
Indices: 19879755--19879806 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
19879745 ATTTTGCTTG
*
19879755 AAAAAAATGAAAAAAATAAAAAAAT
1 AAAAAAATGAAAAAAAAAAAAAAAT
*
19879780 AAAAAAGT-AAAAAAAAAAGAAAAAT
1 AAAAAAATGAAAAAAAAAA-AAAAAT
19879805 AA
1 AA
19879807 TGACTTATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.10
Consensus pattern (25 bp):
AAAAAAATGAAAAAAAAAAAAAAAT
Found at i:19880778 original size:49 final size:48
Alignment explanation
Indices: 19880591--19880841 Score: 238
Period size: 48 Copynumber: 5.2 Consensus size: 48
19880581 TCAAGAAAAT
** * * ** *
19880591 ATGAATTTTTAAAGCTGTTGAGCCTCTGCTTAGAAAAAC-TTTTCTAAG
1 ATGAATTTTTAAAATTATTGAGCCTTTGCTTAGAGGAGCTTTTTC-AAG
*
19880639 ATGAA-TTTTAAAATTATTGAGCCTCTT-CTTAGGGGAGCTTTTTCAAG
1 ATGAATTTTTAAAATTATTGAGCCT-TTGCTTAGAGGAGCTTTTTCAAG
* * * * * *
19880686 ATAAAGTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTCAAG
1 ATGAATTTTTAAAATTATTGAGCCTTTGCTTAGAGGAGCTTTTTCAAG
* * * * *
19880734 ATGAGACTTTTAAAATTATTGAGCCTTTACTGAGATGAGTTTTTTCAAG
1 ATGA-ATTTTTAAAATTATTGAGCCTTTGCTTAGAGGAGCTTTTTCAAG
* * * *
19880783 ATGAATTTTTAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTTCCAAG
1 ATGAATTTTTAAAATTATTGAGCCTTTGCTTAGAGGAGCTTTTTCAAG
19880831 ATGAGATTTTT
1 ATGA-ATTTTT
19880842 TGAGATGAGC
Statistics
Matches: 164, Mismatches: 33, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
47 31 0.19
48 88 0.54
49 45 0.27
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (48 bp):
ATGAATTTTTAAAATTATTGAGCCTTTGCTTAGAGGAGCTTTTTCAAG
Found at i:19880794 original size:97 final size:96
Alignment explanation
Indices: 19880591--19881241 Score: 456
Period size: 97 Copynumber: 7.0 Consensus size: 96
19880581 TCAAGAAAAT
* * ** *
19880591 ATGAATTTTTAAAGCTGTTGAGCCTCTGCTTAGAAAAAC-TTTTCTAAGATGA-ATTTTAAAATT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTC-AAGATGAGATTTTAAAATT
* *
19880654 ATTGAGCCTCTTCTTAGGGGAGCTTTTTCAAG
65 ATTGAGCCTCTTCTGAGAGGAGCTTTTTCAAG
* *
19880686 ATAAAGTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTCAAGATGAGACTTTTAAAATT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTCAAGATGAGA-TTTTAAAATT
* *
19880751 ATTGAGCCT-TTACTGAGATGAGTTTTTTCAAG
65 ATTGAGCCTCTT-CTGAGAGGAGCTTTTTCAAG
* * *** *
19880783 ATGAATTTTTAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTTCCAAGATGAGATTTTTTGA-GA
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTCAAGATGAGATTTTAAAATTA
* * * * *
19880847 -TGAGCTTTTTC-AAGATGA---ATTT----
66 TTGAGCCTCTTCTGAGAGGAGCTTTTTCAAG
* * * *
19880869 -T---T----AAAGTTCTTGAGCCTTTGTTTAGAGGAGCTTTTCCAAGATGAGATTTTTAAAGTT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTCAAGATGAGA-TTTTAAAATT
* * * * * * *
19880926 GTTAAGCCTCTACTTAAAAGAGTTTTTTCAAG
65 ATTGAGCCTCTTCTGAGAGGAGCTTTTTCAAG
* * ** * * *
19880958 ATGAGATTTTTTAAAGTTATTGAGCCTATACTGAGAGGAGCTTTTTCAAGAT-AGTTTTTTAAAG
1 ATGA-A-TTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTCAAGATGAG-ATTTTAAAA
* * *
19881022 TTGTTGAGCC-CTGCTTAGAGGAGCTTTTTCAAG
63 TTATTGAGCCTCTTCTGAGAGGAGCTTTTTCAAG
* * * * *
19881055 ATAAATTTTTAAAGTTGTTAAGGCTCTGCTTAGAGGAG-TTTTTCTAAGATGAGATTTTGAAAGT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTC-AAGATGAGATTTT-AAAAT
* * * * *
19881119 TGTTGAGCCTCTGCTTAAATGAGCTTTTT-AAG
64 TATTGAGCCTCTTCTGAGAGGAGCTTTTTCAAG
* ** * * * *
19881151 AT-AATTTTTTAAGTTGTTGAGCCTCTCCTGAGAGGAGCTTTTTCAAGAT-AAATTTTAAAGTTG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTCAAGATGAGATTTTAAAATTA
* * *
19881214 TTGAGCTTCTGCTTAGAGGAGCATTTTT
66 TTGAGCCTCTTCTGAGAGGAGC-TTTTT
19881242 AAATTTTCAA
Statistics
Matches: 455, Mismatches: 68, Indels: 67
0.77 0.12 0.11
Matches are distributed among these distances:
78 43 0.09
79 4 0.01
81 7 0.02
82 5 0.01
85 4 0.01
90 4 0.01
93 32 0.07
94 24 0.05
95 114 0.25
96 41 0.09
97 124 0.27
98 19 0.04
99 34 0.07
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.41
Consensus pattern (96 bp):
ATGAATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTTCAAGATGAGATTTTAAAATTA
TTGAGCCTCTTCTGAGAGGAGCTTTTTCAAG
Found at i:19880840 original size:15 final size:15
Alignment explanation
Indices: 19880822--19880870 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
19880812 TTAGAGGAGC
*
19880822 TTTTCCAAGATGAGA
1 TTTTTCAAGATGAGA
** *
19880837 TTTTTTGAGATGAGC
1 TTTTTCAAGATGAGA
19880852 TTTTTCAAGATGA-A
1 TTTTTCAAGATGAGA
19880866 TTTTT
1 TTTTT
19880871 AAAGTTCTTG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (15 bp):
TTTTTCAAGATGAGA
Found at i:19880893 original size:78 final size:78
Alignment explanation
Indices: 19880764--19880919 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
19880754 GAGCCTTTAC
* *
19880764 TGAGATGAGTTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTTCCA
1 TGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTCTTGAGCCTTTGTTTAGAGGAGCTTTTCCA
19880829 AGATGAGATTTTT
66 AGATGAGATTTTT
19880842 TGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTCTTGAGCCTTTGTTTAGAGGAGCTTTTCCA
1 TGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTCTTGAGCCTTTGTTTAGAGGAGCTTTTCCA
19880907 AGATGAGATTTTT
66 AGATGAGATTTTT
19880920 AAAGTTGTTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (78 bp):
TGAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTCTTGAGCCTTTGTTTAGAGGAGCTTTTCCA
AGATGAGATTTTT
Found at i:19880958 original size:127 final size:127
Alignment explanation
Indices: 19880721--19880969 Score: 329
Period size: 127 Copynumber: 2.0 Consensus size: 127
19880711 CTGTTTAGAG
* * *
19880721 GAGCTTTTTCAAGATGAGACTTTTAAAATTATTGAGCCTTTACTGAGATGAGTTTTTTCAAGATG
1 GAGCTTTTTCAAGATGAGACTTTTAAAATTATTGAGCCTTTACTGAGAGGAGCTTTTCCAAGATG
* * ** * *
19880786 AATTTTTAAAGTTGTTGAGCCTTTGTTTAGAGGAGCTTTTCCAAGATGAGATTTTTTGAGAT
66 AATTTTTAAAGTTGTTAAGCCTCTACTTAAAAGAGCTTTTCCAAGATGAGATTTTTTGAGAT
* * * ** *
19880848 GAGCTTTTTCAAGATGA-ATTTTTAAAGTTCTTGAGCCTTTGTTTAGAGGAGCTTTTCCAAGATG
1 GAGCTTTTTCAAGATGAGACTTTTAAAATTATTGAGCCTTTACTGAGAGGAGCTTTTCCAAGATG
* *
19880912 AGATTTTTAAAGTTGTTAAGCCTCTACTTAAAAGAGTTTTTTCAAGATGAGATTTTTT
66 A-ATTTTTAAAGTTGTTAAGCCTCTACTTAAAAGAGCTTTTCCAAGATGAGATTTTTT
19880970 AAAGTTATTG
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
126 39 0.38
127 65 0.62
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (127 bp):
GAGCTTTTTCAAGATGAGACTTTTAAAATTATTGAGCCTTTACTGAGAGGAGCTTTTCCAAGATG
AATTTTTAAAGTTGTTAAGCCTCTACTTAAAAGAGCTTTTCCAAGATGAGATTTTTTGAGAT
Found at i:19881045 original size:47 final size:48
Alignment explanation
Indices: 19880848--19881241 Score: 458
Period size: 47 Copynumber: 8.2 Consensus size: 48
19880838 TTTTTGAGAT
* * *
19880848 GAGCTTTTTCAAGAT-GAATTTTTAAAGTTCTTGAGCCTTTGTTTAGAG
1 GAGCTTTTTCAAGATAG-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
* * * * *
19880896 GAGCTTTTCCAAGATGAGATTTTTAAAGTTGTTAAGCCTCTACTTAAAA
1 GAGCTTTTTCAAGAT-AGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
* * * * *
19880945 GAGTTTTTTCAAGATGAGATTTTTTAAAGTTATTGAGCCTATACTGAGAG
1 GAGCTTTTTCAAGAT-AGA-TTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
*
19880995 GAGCTTTTTCAAGATAGTTTTTTAAAGTTGTTGAGCC-CTGCTTAGAG
1 GAGCTTTTTCAAGATAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
* * *
19881042 GAGCTTTTTCAAGATAAATTTTTAAAGTTGTTAAGGCTCTGCTTAGAG
1 GAGCTTTTTCAAGATAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
* * *
19881090 GAG-TTTTTCTAAGATGAGATTTTGAAAGTTGTTGAGCCTCTGCTTAAAT
1 GAGCTTTTTC-AAGAT-AGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
* * *
19881139 GAGCTTTTT-AAGATA-ATTTTTTAAGTTGTTGAGCCTCTCCTGAGAG
1 GAGCTTTTTCAAGATAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
* *
19881185 GAGCTTTTTCAAGATA-AATTTTAAAGTTGTTGAGCTTCTGCTTAGAG
1 GAGCTTTTTCAAGATAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
19881232 GAGCATTTTT
1 GAGC-TTTTT
19881242 AAATTTTCAA
Statistics
Matches: 294, Mismatches: 43, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
46 34 0.12
47 83 0.28
48 60 0.20
49 73 0.25
50 44 0.15
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (48 bp):
GAGCTTTTTCAAGATAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAG
Found at i:19881286 original size:93 final size:95
Alignment explanation
Indices: 19880900--19881347 Score: 231
Period size: 95 Copynumber: 4.7 Consensus size: 95
19880890 TTAGAGGAGC
* * * * * * *
19880900 TTTTCCAAGATGAGATTTTTAAAGTTGTTAAGCCTCTACTTAAAAGAGTTTTTTCAAGATGAGAT
1 TTTTCTAAGATGAAATTTTGAAAGTTGTTGAGCCTCTGCTTAAAGGAGCTTTTT-AAGAT---A-
** ** * * * * *
19880965 TTTTTAAAGTTATTGAGCCTATACTGAGAGGAGCT
61 TTTCAAAAGTCGTTGAACCTCTCCTGAGAGAACCT
** * *
19881000 TTTTC-AAGAT-AGTTTTTTAAAGTTGTTGAGCC-CTGCTTAGAGGAGCTTTTTCAAGATAAATT
1 TTTTCTAAGATGAAATTTTGAAAGTTGTTGAGCCTCTGCTTAAAGGAGCTTTTT-AAGAT--ATT
** * * * * * *
19881062 TTTAAAGTTGTT-AAGGCTCTGCTTAGAGGA-GT
63 TCAAAAGTCGTTGAA-CCTCTCCTGAGAGAACCT
* * *
19881094 TTTTCTAAGATGAGATTTTGAAAGTTGTTGAGCCTCTGCTTAAATGAGCTTTTTAAGATAATTTT
1 TTTTCTAAGATGAAATTTTGAAAGTTGTTGAGCCTCTGCTTAAAGGAGCTTTTTAAGAT-ATTTC
** * * * *
19881159 TTAAGTTGTTGAGCCTCTCCTGAGAGGAGCT
65 AAAAGTCGTTGAACCTCTCCTGAGAGAACCT
* *
19881190 TTTTC-AAGAT-AAATTTT-AAAGTTGTTGAGCTTCTGCTTAGAGGAGCATTTTTAA-AT-TTTC
1 TTTTCTAAGATGAAATTTTGAAAGTTGTTGAGCCTCTGCTTAAAGGAGC-TTTTTAAGATATTTC
19881250 AAAAGTCGTTGAACCTCTACCT-AGAAGAACCT
65 AAAAGTCGTTGAACCTCT-CCTGAG-AGAACCT
**** * * * * * *
19881282 TTTT-TTTTTTTAATTTTTCAAAAGTTGTTGAGCCTCTTCTCAAAAGAGCTTTTTAA-AT-TTTC
1 TTTTCTAAGATGAAATTTT-GAAAGTTGTTGAGCCTCTGCTTAAAGGAGCTTTTTAAGATATTTC
19881344 AAAA
65 AAAA
19881348 ATGTTGTTGA
Statistics
Matches: 290, Mismatches: 45, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
91 19 0.07
92 13 0.04
93 34 0.12
94 37 0.13
95 85 0.29
96 34 0.12
97 38 0.13
98 20 0.07
99 5 0.02
100 5 0.02
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (95 bp):
TTTTCTAAGATGAAATTTTGAAAGTTGTTGAGCCTCTGCTTAAAGGAGCTTTTTAAGATATTTCA
AAAGTCGTTGAACCTCTCCTGAGAGAACCT
Found at i:19881289 original size:142 final size:141
Alignment explanation
Indices: 19880998--19881286 Score: 333
Period size: 143 Copynumber: 2.0 Consensus size: 141
19880988 CTGAGAGGAG
* * * *
19880998 CTTTTTCAAGATAGTTTTTTAAAGTTGTTGAGCCCTGCTTAGAGGAGCTTTTTCAAGATAAATTT
1 CTTTTTTAAGATAATTTTTTAAAGTTGTTGAGCCCTCCTGAGAGGAGCTTTTTCAAGATAAATTT
* ** * *
19881063 TTAAAGTTGTTAAGGCTCTGCTTAGAGGAGTTTTTCTAAGATGAGATTTTGAAAGTTGTTGAGCC
66 TTAAAGTTGTTAAGGCTCTGCTTAGAGGAGATTTTCTAAGAT---ATTTCAAAAGTCGTTGAACC
* * *
19881128 TCTGCTTAAATGAG
128 TCTACCTAAATGAC
19881142 C-TTTTTAAGATAATTTTTT-AAGTTGTTGAGCCTCTCCTGAGAGGAGCTTTTTCAAGATAAA-T
1 CTTTTTTAAGATAATTTTTTAAAGTTGTTGAGCC-CTCCTGAGAGGAGCTTTTTCAAGATAAATT
*
19881204 TTTAAAGTTGTTGA-GCTTCTGCTTAGAGGAGCATTTT-TAA-AT-TTTCAAAAGTCGTTGAACC
65 TTTAAAGTTGTTAAGGC-TCTGCTTAGAGGAG-ATTTTCTAAGATATTTCAAAAGTCGTTGAACC
19881265 TCTACCTAGAA-GAAC
128 TCTACCTA-AATG-AC
19881280 CTTTTTT
1 CTTTTTT
19881287 TTTTTTAATT
Statistics
Matches: 126, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
137 22 0.17
138 4 0.03
139 5 0.04
141 4 0.03
142 44 0.35
143 46 0.37
144 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (141 bp):
CTTTTTTAAGATAATTTTTTAAAGTTGTTGAGCCCTCCTGAGAGGAGCTTTTTCAAGATAAATTT
TTAAAGTTGTTAAGGCTCTGCTTAGAGGAGATTTTCTAAGATATTTCAAAAGTCGTTGAACCTCT
ACCTAAATGAC
Found at i:19881528 original size:9 final size:9
Alignment explanation
Indices: 19881516--19881564 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
19881506 CTTATTATTA
19881516 TTATATTTT
1 TTATATTTT
*
19881525 TTATTTTTTT
1 TTA-TATTTT
* *
19881535 TCTTTCTTTT
1 T-TATATTTT
19881545 TTATATTTT
1 TTATATTTT
19881554 TTATATTTT
1 TTATATTTT
19881563 TT
1 TT
19881565 CTTTCTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 20 0.61
10 12 0.36
11 1 0.03
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (9 bp):
TTATATTTT
Found at i:19881549 original size:29 final size:29
Alignment explanation
Indices: 19881516--19881572 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
19881506 CTTATTATTA
*
19881516 TTATATTTTTTATTTTTTTTCTTTCTTTT
1 TTATATTTTTTATATTTTTTCTTTCTTTT
19881545 TTATATTTTTTATATTTTTTCTTTCTTT
1 TTATATTTTTTATATTTTTTCTTTCTTT
19881573 ATTTGTCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (29 bp):
TTATATTTTTTATATTTTTTCTTTCTTTT
Found at i:19886425 original size:10 final size:10
Alignment explanation
Indices: 19886410--19886443 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19886400 TTTTGCTTGA
19886410 AAAAAAAAAG
1 AAAAAAAAAG
19886420 -AAAAAAAAG
1 AAAAAAAAAG
*
19886429 AAAAAATAAG
1 AAAAAAAAAG
19886439 AAAAA
1 AAAAA
19886444 TAATGACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:19886446 original size:9 final size:9
Alignment explanation
Indices: 19886411--19886443 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
19886401 TTTGCTTGAA
19886411 AAAAAAAAG
1 AAAAAAAAG
19886420 AAAAAAAAG
1 AAAAAAAAG
19886429 AAAAAATAAG
1 AAAAAA-AAG
19886439 AAAAA
1 AAAAA
19886444 TAATGACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:19887372 original size:51 final size:51
Alignment explanation
Indices: 19887241--19888013 Score: 628
Period size: 51 Copynumber: 15.4 Consensus size: 51
19887231 AAGAAAGGAT
* *
19887241 GATG-AAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGC-TTTTTCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
* * * * *
19887290 AATG--AATTTTTAAAATTATTGAGCCTCTACTTAGATGAGCTTTTTTCGAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTC-AA
* * * * *
19887340 GATTAGAA-TTTTAAAATTGTTAAGCTTCTACTTA-AAGGAGCTTTTTTCGA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAA-GAGCTTTTTTCAA
* * *
19887390 GATGAAAATTTTTAAAATTGTTGAA-CCTTTACTTA-AAGGAGCTTTTTCCAA
1 GATGAAAATTTTTAAAGTTGTT-AAGCCTCTACTTAGAA-GAGCTTTTTTCAA
* * *
19887441 GAT-AAAA-TTTTAAAGTTATTGAGCCTCTACTTAAAAGAGCTTTTTTCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
* * * * *
19887490 GATAAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAACCTTTTTCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
* * * * *
19887541 GAT-AAAA-TTTTAAAGTTGTTAAGCCTTTAC-CAAAAGAAACCTTTTTCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAG-AGCTTTTTTCAA
* * * * *
19887590 AATGAGAATTTTTTAAAAGTTATTTAGCTTCTACTTAGAAGAGC--TTTTCAA
1 GATGA-AAATTTTT-AAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
* *
19887641 GATG-AAATTTTTAAAGTTGTTAAGCCTCT-GTTCAGAGGAGCTTTTTCTCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTT-AGAAGAGCTTTTT-TCAA
* * * *
19887692 GATG-AAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCCTTTTCCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
* * * *
19887742 GA-CAAAA-TTTTAAAGTTGTTAAACCTCTATTTAGAAAAGCTTTTTTCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
** * * * *
19887791 GAT-AAGAACCTTTAAAGTTGTTGAGCCTTTGCTTAG-AGAAGC-TTTTTCTAG
1 GATGAA-AATTTTTAAAGTTGTTAAGCCTCTACTTAGAAG-AGCTTTTTTC-AA
* * * *
19887842 GATAAAAACTTTTAAAGTTGTTAAGCCTCTACTTAGAAAAGC-CTTTTCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
* * *
19887892 GATGATAGAATTTTTAAAGTTGTTATGCCTCTGCTTA-AATGAG-TTTTTTTAA
1 GATGA-A-AATTTTTAAAGTTGTTAAGCCTCTACTTAGAA-GAGCTTTTTTCAA
* * * * * ** *
19887944 CATGAGAATTTTTAGAGCTGTTAAGCTTCCGCTTAGAGGAG-TTTTTTCAA
1 GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
*
19887994 GATGAAATTTTTTTAAAGTT
1 GATGAAA-ATTTTTAAAGTT
19888014 ATTGAATCTG
Statistics
Matches: 591, Mismatches: 97, Indels: 70
0.78 0.13 0.09
Matches are distributed among these distances:
47 2 0.00
48 59 0.10
49 124 0.21
50 92 0.16
51 242 0.41
52 51 0.09
53 17 0.03
54 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (51 bp):
GATGAAAATTTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCTTTTTTCAA
Found at i:19887473 original size:100 final size:101
Alignment explanation
Indices: 19887249--19888048 Score: 658
Period size: 100 Copynumber: 8.0 Consensus size: 101
19887239 ATGATGAAAT
* * * * *
19887249 TTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGC-TTTTTCAAAATG--AATTTTTAAAATTATTG
1 TTTTAAAGTTGTTAAGCCTCTACTTAAAGGAGCTTTTTTCAAGATGAAAATTTTTAAAGTTGTTG
* * *
19887311 AGCCTCTACTTAG-ATGAGCTTTTTTCGAAGATTAGAA
66 AGCCTCTACTTAGAAGGAGC-TTTTTCCAAGA-TAAAA
* * * *
19887348 TTTTAAAATTGTTAAGCTTCTACTTAAAGGAGCTTTTTTCGAGATGAAAATTTTTAAAATTGTTG
1 TTTTAAAGTTGTTAAGCCTCTACTTAAAGGAGCTTTTTTCAAGATGAAAATTTTTAAAGTTGTTG
* *
19887413 AACCTTTACTTA-AAGGAGCTTTTTCCAAGATAAAA
66 AGCCTCTACTTAGAAGGAGCTTTTTCCAAGATAAAA
* * * *
19887448 TTTTAAAGTTATTGAGCCTCTACTTAAAAGAGCTTTTTTCAAGATAAAAATTTTTAAAGTTGTTG
1 TTTTAAAGTTGTTAAGCCTCTACTTAAAGGAGCTTTTTTCAAGATGAAAATTTTTAAAGTTGTTG
* * *
19887513 AGCCTCTGCTTAGAAGAACCTTTTT-CAAGATAAAA
66 AGCCTCTACTTAGAAGGAGCTTTTTCCAAGATAAAA
* ** * * * * * *
19887548 TTTTAAAGTTGTTAAGCCTTTACCAAAAGAAACCTTTTTCAAAATGAGAATTTTTTAAAAGTTAT
1 TTTTAAAGTTGTTAAGCCTCTACTTAAAGGAGCTTTTTTCAAGATGA-AAATTTTT-AAAGTTGT
* * *
19887613 TTAGCTTCTACTTAGAA-GAGC-TTTT-CAAGATGAAAT
64 TGAGCCTCTACTTAGAAGGAGCTTTTTCCAAGAT-AAAA
* *
19887649 TTTTAAAGTTGTTAAGCCTCT-GTTCAGAGGAGCTTTTTCTCAAGATG-AAATTTTTAAAGTTGT
1 TTTTAAAGTTGTTAAGCCTCTACTT-AAAGGAGCTTTTT-TCAAGATGAAAATTTTTAAAGTTGT
* * *
19887712 TGAGCCTCTGCTTAGAA-GAGCCTTTTCCAAGACAAAA
64 TGAGCCTCTACTTAGAAGGAGCTTTTTCCAAGATAAAA
* * * **
19887749 TTTTAAAGTTGTTAAACCTCTATTTAGAA-AAGCTTTTTTCAAGAT-AAGAACCTTTAAAGTTGT
1 TTTTAAAGTTGTTAAGCCTCTACTTA-AAGGAGCTTTTTTCAAGATGAA-AATTTTTAAAGTTGT
* * * * *
19887812 TGAGCCTTTGCTTAG-AGAAGCTTTTTCTAGGATAAAAA
64 TGAGCCTCTACTTAGAAGGAGCTTTTTCCAAGAT-AAAA
* *
19887850 CTTTTAAAGTTGTTAAGCCTCTACTTAGAA-AAGC-CTTTTCAAGATGATAGAATTTTTAAAGTT
1 -TTTTAAAGTTGTTAAGCCTCTACTTA-AAGGAGCTTTTTTCAAGATGA-A-AATTTTTAAAGTT
* * ** * *
19887913 GTT-ATGCCTCTGCTTA-AATGAG-TTTTTTTAACATGAGAAT
62 GTTGA-GCCTCTACTTAGAAGGAGCTTTTTCCAAGAT-A-AAA
* * * ** * * *
19887953 TTTTAGAGCTGTTAAGCTTCCGCTTAGAGGAG-TTTTTTCAAGATGAAATTTTTTTAAAGTTATT
1 TTTTAAAGTTGTTAAGCCTCTACTTAAAGGAGCTTTTTTCAAGATGAAA-ATTTTTAAAGTTGTT
* ** *
19888017 GA--ATCTGTTTAGAA-GAGCTTTTTCTAAGATAA
65 GAGCCTCTACTTAGAAGGAGCTTTTTCCAAGATAA
19888049 GAGCTTTTTC
Statistics
Matches: 572, Mismatches: 99, Indels: 61
0.78 0.14 0.08
Matches are distributed among these distances:
98 1 0.00
99 74 0.13
100 230 0.40
101 98 0.17
102 138 0.24
103 31 0.05
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (101 bp):
TTTTAAAGTTGTTAAGCCTCTACTTAAAGGAGCTTTTTTCAAGATGAAAATTTTTAAAGTTGTTG
AGCCTCTACTTAGAAGGAGCTTTTTCCAAGATAAAA
Found at i:19887537 original size:151 final size:150
Alignment explanation
Indices: 19887241--19888048 Score: 607
Period size: 151 Copynumber: 5.4 Consensus size: 150
19887231 AAGAAAGGAT
* * * * * *
19887241 GATG-AAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTCAAAATGAATTTTTAAAA
1 GATGAAAATTTTTAAAGTTGTTGAACCTCTACTTAAAGGAGCTTTTTCAAGATAAAATTTTAAAG
* * * * * *
19887305 TTATTGAGCCTCTACTTAGATGAGCTTTTTTCGAAGATTAGAA-TTTTAAAATTGTTAAGCTTCT
66 TTATTGAGCCTCTACTTAAAAGAGCTTTTTTC-AAGATAAAAATTTTTAAAGTTGTTAAGCCTCT
* * * *
19887369 ACTTA-AAGGAGCTTTTTTCGA
130 GCTTAGAA-GAACCTTTTTCAA
* *
19887390 GATGAAAATTTTTAAAATTGTTGAACCTTTACTTAAAGGAGCTTTTTCCAAGATAAAATTTTAAA
1 GATGAAAATTTTTAAAGTTGTTGAACCTCTACTTAAAGGAGCTTTTT-CAAGATAAAATTTTAAA
*
19887455 GTTATTGAGCCTCTACTTAAAAGAGCTTTTTTCAAGATAAAAATTTTTAAAGTTGTTGAGCCTCT
65 GTTATTGAGCCTCTACTTAAAAGAGCTTTTTTCAAGATAAAAATTTTTAAAGTTGTTAAGCCTCT
19887520 GCTTAGAAGAACCTTTTTCAA
130 GCTTAGAAGAACCTTTTTCAA
* ** * * * *
19887541 GAT-AAAA-TTTTAAAGTTGTT-AAGCCTTTACCAAAAGAAACCTTTTTCAAAATGAGAATTTTT
1 GATGAAAATTTTTAAAGTTGTTGAA-CCTCTACTTAAAG-GAGCTTTTTCAAGAT-A-AA-ATTT
* * * *
19887603 TAAAAGTTATTTAGCTTCTACTTAGAAGAGC--TTTTCAAGAT-GAAATTTTTAAAGTTGTTAAG
61 T-AAAGTTATTGAGCCTCTACTTAAAAGAGCTTTTTTCAAGATAAAAATTTTTAAAGTTGTTAAG
* * *
19887665 CCTCTG-TTCAGAGGAGCTTTTTCTCAA
125 CCTCTGCTT-AGAAGAACCTTTT-TCAA
* * * *
19887692 GATG-AAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAA-GAGCCTTTTCCAAGACAAAATTTTAA
1 GATGAAAATTTTTAAAGTTGTTGAACCTCTACTTA-AAGGAG-CTTTTTCAAGATAAAATTTTAA
* * * * * ** *
19887755 AGTTGTTAAACCTCTATTTAGAAA-AGCTTTTTTCAAGATAAGAACCTTTAAAGTTGTTGAGCCT
64 AGTTATTGAGCCTCTACTTA-AAAGAGCTTTTTTCAAGATAAAAATTTTTAAAGTTGTTAAGCCT
* * *
19887819 TTGCTTAG-AGAAGCTTTTTCTAG
128 CTGCTTAGAAGAACCTTTTTC-AA
* * * *
19887842 GATAAAAACTTTTAAAGTTGTT-AAGCCTCTACTTAGAA-AAGCCTTTTCAAGATGATAGAATTT
1 GATGAAAATTTTTAAAGTTGTTGAA-CCTCTACTTA-AAGGAGCTTTTTCAAGAT-A-A-AA-TT
* * * * * * * * *
19887905 TTAAAGTTGTT-ATGCCTCTGCTTAAATGAG-TTTTTTTAACATGAGAATTTTTAGAGCTGTTAA
60 TTAAAGTTATTGA-GCCTCTACTTAAAAGAGCTTTTTTCAAGATAAAAATTTTTAAAGTTGTTAA
* * * **
19887968 GCTTCCGCTTAG-AGGAGTTTTTTCAA
124 GCCTCTGCTTAGAAGAACCTTTTTCAA
* * **
19887994 GATGAAATTTTTTTAAAGTTATTGAA--TCTGTTTAGAA-GAGCTTTTTCTAAGATAA
1 GATGAAA-ATTTTTAAAGTTGTTGAACCTCTACTTA-AAGGAGCTTTTTC-AAGATAA
19888049 GAGCTTTTTC
Statistics
Matches: 529, Mismatches: 96, Indels: 67
0.76 0.14 0.10
Matches are distributed among these distances:
148 22 0.04
149 42 0.08
150 126 0.24
151 175 0.33
152 49 0.09
153 90 0.17
154 25 0.05
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (150 bp):
GATGAAAATTTTTAAAGTTGTTGAACCTCTACTTAAAGGAGCTTTTTCAAGATAAAATTTTAAAG
TTATTGAGCCTCTACTTAAAAGAGCTTTTTTCAAGATAAAAATTTTTAAAGTTGTTAAGCCTCTG
CTTAGAAGAACCTTTTTCAA
Found at i:19887702 original size:201 final size:200
Alignment explanation
Indices: 19887241--19887928 Score: 655
Period size: 201 Copynumber: 3.4 Consensus size: 200
19887231 AAGAAAGGAT
*
19887241 GATGAAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGC-TTTTTCAAAATG-AATTTTTAAA
1 GATGAAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTTCAAGATGAAATTTTTAAA
* * * * * * *
19887304 ATTATTGAGCCTCTACTTAGATGAGCTTTTTTCGAAGATTAGAATTTTAAAATTGTTAAGCTTCT
66 GTTGTTGAGCCTCTGCTTAGAAGAGCCTTTTTC-AAGA-TAAAATTTTAAAGTTGTTAAGCTTCT
** * * * * * *
19887369 ACTTAAAGGAGCTTTTTTCGAGATGAAAATTTTTAAAATTGTTGAACCTTTACTTAAAGGAGCTT
129 ACCAAAAGAAACCTTTTTCAAAATGAAAATTTTTAAAATTATTGAACCTTTACTTAAAGGAGCTT
19887434 TTTCCAA
194 TTTCCAA
* * * * *
19887441 GAT-AAAATTTTAAAGTTATTGAGCCTCTACTTAAAAGAGCTTTTTTCAAGATAAAAATTTTTAA
1 GATGAAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTTCAAGAT-GAAATTTTTAA
*
19887505 AGTTGTTGAGCCTCTGCTTAGAAGAACCTTTTTCAAGATAAAATTTTAAAGTTGTTAAGCCTT-T
65 AGTTGTTGAGCCTCTGCTTAGAAGAGCCTTTTTCAAGATAAAATTTTAAAGTTGTTAAG-CTTCT
* * *
19887569 ACCAAAAGAAACCTTTTTCAAAATGAGAATTTTTTAAAAGTTATT-TAGCTTCTACTTAGAA-GA
129 ACCAAAAGAAACCTTTTTCAAAATGA-AAATTTTTAAAA-TTATTGAACCTT-TACTTA-AAGGA
19887632 GC-TTTT-CAA
190 GCTTTTTCCAA
* *
19887641 GATGAAATTTTTAAAGTTGTTAAGCCTCT-GTTCAGAGGAGCTTTTTCTCAAGATGAAATTTTTA
1 GATGAAATTTTTAAAGTTGTTGAGCCTCTACTT-AGAGGAGCTTTTT-TCAAGATGAAATTTTTA
* * * *
19887705 AAGTTGTTGAGCCTCTGCTTAGAAGAGCCTTTTCCAAGACAAAATTTTAAAGTTGTTAAACCTCT
64 AAGTTGTTGAGCCTCTGCTTAGAAGAGCCTTTTTCAAGATAAAATTTTAAAGTTGTTAAGCTTCT
** * * * * ** * * * * * *
19887770 ATTTAGAA-AAGCTTTTTTCAAGAT-AAGAACCTTTAAAGTTGTTGAGCCTTTGCTTAGAGAAGC
129 A-CCAAAAGAAACCTTTTTCAAAATGAA-AATTTTTAAAATTATTGAACCTTTACTTAAAGGAGC
* *
19887833 TTTTTCTAG
192 TTTTTCCAA
* * * ** *
19887842 GATAAAAACTTTTAAAGTTGTTAAGCCTCTACTTAGAAAAGC-CTTTTCAAGATGATAGAATTTT
1 GAT-GAAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTTCAAGATG--A-AATTTT
19887906 TAAAGTTGTT-ATGCCTCTGCTTA
62 TAAAGTTGTTGA-GCCTCTGCTTA
19887929 AATGAGTTTT
Statistics
Matches: 402, Mismatches: 62, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
198 1 0.00
199 46 0.11
200 85 0.21
201 146 0.36
202 93 0.23
203 31 0.08
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (200 bp):
GATGAAATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTTCAAGATGAAATTTTTAAA
GTTGTTGAGCCTCTGCTTAGAAGAGCCTTTTTCAAGATAAAATTTTAAAGTTGTTAAGCTTCTAC
CAAAAGAAACCTTTTTCAAAATGAAAATTTTTAAAATTATTGAACCTTTACTTAAAGGAGCTTTT
TCCAA
Found at i:19888052 original size:18 final size:18
Alignment explanation
Indices: 19888029--19888068 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
19888019 ATCTGTTTAG
19888029 AAGAGCTTTTTCTAAGAT
1 AAGAGCTTTTTCTAAGAT
19888047 AAGAGCTTTTTCTAAGAT
1 AAGAGCTTTTTCTAAGAT
19888065 AAGA
1 AAGA
19888069 ATTTTTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (18 bp):
AAGAGCTTTTTCTAAGAT
Found at i:19888074 original size:18 final size:18
Alignment explanation
Indices: 19888029--19888074 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
19888019 ATCTGTTTAG
*
19888029 AAGAGCTTTTTCTAAGAT
1 AAGAACTTTTTCTAAGAT
*
19888047 AAGAGCTTTTTCTAAGAT
1 AAGAACTTTTTCTAAGAT
19888065 AAGAA-TTTTT
1 AAGAACTTTTT
19888075 AAAGTTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (18 bp):
AAGAACTTTTTCTAAGAT
Found at i:19888601 original size:17 final size:17
Alignment explanation
Indices: 19888559--19888609 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
19888549 AATATTAATT
*
19888559 AAACAAAAAATATA-AA
1 AAACAAAAAAAATACAA
* *
19888575 AAA-GAGAAAAATACAA
1 AAACAAAAAAAATACAA
*
19888591 AAACAAAAAAAAAACAA
1 AAACAAAAAAAATACAA
19888608 AA
1 AA
19888610 GGCTAATGGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 7 0.26
16 8 0.30
17 12 0.44
ACGTcount: A:0.82, C:0.08, G:0.04, T:0.06
Consensus pattern (17 bp):
AAACAAAAAAAATACAA
Found at i:19888951 original size:20 final size:22
Alignment explanation
Indices: 19888928--19888967 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19888918 ATGAAAGTAG
19888928 ATTCTAT-AAAAAAA-AAAAGC
1 ATTCTATCAAAAAAACAAAAGC
*
19888948 ATTCTGTCAAAAAAACAAAA
1 ATTCTATCAAAAAAACAAAA
19888968 ACTCAATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (22 bp):
ATTCTATCAAAAAAACAAAAGC
Found at i:19895847 original size:14 final size:15
Alignment explanation
Indices: 19895828--19895859 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
19895818 TTTATTCAAA
19895828 AAAATTTTAAAAT-T
1 AAAATTTTAAAATAT
19895842 AAAATTTTAAAATAT
1 AAAATTTTAAAATAT
19895857 AAA
1 AAA
19895860 TAATAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTTTAAAATAT
Found at i:19902830 original size:22 final size:21
Alignment explanation
Indices: 19902779--19902819 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19902769 ATAAATTTAA
*
19902779 ATAAATAAACCCTAAACGAAT
1 ATAAATAAACCCTAAAAGAAT
19902800 ATAAATAAACCC-AAAAGAAT
1 ATAAATAAACCCTAAAAGAAT
19902820 CTTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.61, C:0.17, G:0.05, T:0.17
Consensus pattern (21 bp):
ATAAATAAACCCTAAAAGAAT
Found at i:19905655 original size:3 final size:3
Alignment explanation
Indices: 19905634--19905677 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
19905624 TATTTTTAAT
19905634 TTA TTA GTTAA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19905678 ATAACTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.05
3 31 0.82
4 4 0.11
5 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:19905885 original size:20 final size:21
Alignment explanation
Indices: 19905856--19905895 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19905846 TATTTTGGTA
*
19905856 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTCATTTTT
*
19905876 TTATTTTTAAAGTTCATTTT
1 TTATTATTAAAGTTCATTTT
19905896 AAAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTATTAAAGTTCATTTTT
Found at i:19906021 original size:21 final size:21
Alignment explanation
Indices: 19905976--19906014 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
19905966 AAATATTAAT
*
19905976 AAAATAATAATTAAAATAACA
1 AAAATAATAATTAAAAAAACA
19905997 AAAATAAT-ATTAAAAAAA
1 AAAATAATAATTAAAAAAA
19906015 TTCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAATTAAAAAAACA
Found at i:19906200 original size:32 final size:32
Alignment explanation
Indices: 19906159--19906233 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
19906149 AAGGAAGTGG
*
19906159 GTCGTGGGTTGGATGCACAGATTTCGGGTCGA
1 GTCGTGGGTTGGATGCACAGATTTCGGGTCAA
* *
19906191 GTCGTGGGTTGGATGCACTGGTTTCGGGTCAA
1 GTCGTGGGTTGGATGCACAGATTTCGGGTCAA
19906223 GTCGTGGGTTG
1 GTCGTGGGTTG
19906234 ACGAGTAGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.12, C:0.15, G:0.43, T:0.31
Consensus pattern (32 bp):
GTCGTGGGTTGGATGCACAGATTTCGGGTCAA
Found at i:19906945 original size:24 final size:24
Alignment explanation
Indices: 19906918--19906966 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19906908 AAGGTGATCA
*
19906918 GAGGGGTGAGAGGTAGGGCATGGT
1 GAGGGATGAGAGGTAGGGCATGGT
* * *
19906942 GAGGGATGGGTGGTAGGGTATGGT
1 GAGGGATGAGAGGTAGGGCATGGT
19906966 G
1 G
19906967 GCAGTGGTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.18, C:0.02, G:0.59, T:0.20
Consensus pattern (24 bp):
GAGGGATGAGAGGTAGGGCATGGT
Found at i:19907063 original size:19 final size:19
Alignment explanation
Indices: 19907027--19907065 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19907017 TGTTTGTTTT
* * *
19907027 TTTTTATATTTTTGTTTAA
1 TTTTTATAATTGTATTTAA
19907046 TTTTTATAATTGTATTTAA
1 TTTTTATAATTGTATTTAA
19907065 T
1 T
19907066 AATATTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTTATAATTGTATTTAA
Found at i:19907226 original size:12 final size:11
Alignment explanation
Indices: 19907205--19907231 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19907195 TCCAAATAGA
19907205 TTTTTCTTTTT
1 TTTTTCTTTTT
19907216 TTTTTCTTTTT
1 TTTTTCTTTTT
19907227 TTTTT
1 TTTTT
19907232 GAACATAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:19907514 original size:47 final size:49
Alignment explanation
Indices: 19907406--19907578 Score: 262
Period size: 49 Copynumber: 3.6 Consensus size: 49
19907396 TCAATAATTT
*
19907406 TCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTTT-AAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT-TTTGAAAAAGCTCC
*
19907455 TCTCAGCAGAGGCTCAACAACTTT-AAAATC-CATTTTGAAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTTGAAAAAGCTCC
* * *
19907502 TCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGTTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTTGAAAAAGCTCC
*
19907551 TCTCAGCAGAGGCTCAACAATTTTAAAA
1 TCTCAGCAGAGGCTCAACAACTTTAAAA
19907579 TCAATCTCAT
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
46 3 0.03
47 35 0.31
48 12 0.11
49 63 0.56
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.27
Consensus pattern (49 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTTGAAAAAGCTCC
Found at i:19908345 original size:9 final size:9
Alignment explanation
Indices: 19908333--19908373 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
19908323 TTATTTTTTA
19908333 TTTTTTACT
1 TTTTTTACT
*
19908342 TTTTTTCATT
1 TTTTTT-ACT
19908352 TTTTTTA-T
1 TTTTTTACT
19908360 TTTTTT-CT
1 TTTTTTACT
19908368 TTTTTT
1 TTTTTT
19908374 TTTCAAGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 14 0.48
9 7 0.24
10 8 0.28
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTACT
Found at i:19908374 original size:27 final size:27
Alignment explanation
Indices: 19908320--19908373 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
19908310 CTTAGATGAA
19908320 TCATTATTTTTTATTTTTTACTTTTTT
1 TCATTATTTTTTATTTTTTACTTTTTT
*
19908347 TCATT-TTTTTTATTTTTTTCTTTTTT
1 TCATTATTTTTTATTTTTTACTTTTTT
19908373 T
1 T
19908374 TTTCAAGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (27 bp):
TCATTATTTTTTATTTTTTACTTTTTT
Found at i:19908375 original size:18 final size:19
Alignment explanation
Indices: 19908333--19908374 Score: 70
Period size: 17 Copynumber: 2.3 Consensus size: 19
19908323 TTATTTTTTA
19908333 TTTTTTACTTTTTTTCATT
1 TTTTTTACTTTTTTTCATT
19908352 TTTTTTA-TTTTTTTC-TT
1 TTTTTTACTTTTTTTCATT
19908369 TTTTTT
1 TTTTTT
19908375 TTCAAGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTACTTTTTTTCATT
Found at i:19920264 original size:56 final size:57
Alignment explanation
Indices: 19920098--19920327 Score: 347
Period size: 57 Copynumber: 4.0 Consensus size: 57
19920088 TTTTGTGCAG
*
19920098 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTATTTTTAA
*
19920155 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTATTTTTAA
* ***
19920212 GAAAAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTT-GAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTATTTTTAA
19920268 GAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGGAAATTTTGATTTTTA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATA--TTTTTTGGAAA-TTT-ATTTTTA
19920328 TTTAAAGAAA
Statistics
Matches: 156, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
55 1 0.01
56 45 0.29
57 91 0.58
58 5 0.03
59 4 0.03
60 3 0.02
61 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTATTTTTAA
Found at i:19920300 original size:113 final size:117
Alignment explanation
Indices: 19920098--19920327 Score: 353
Period size: 113 Copynumber: 2.0 Consensus size: 117
19920088 TTTTGTGCAG
* * *
19920098 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTATTTTTAAGAAAAATT
19920163 GATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGGAAA-TTT-ATTTTTAA
66 GATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTTGATTTTTAA
* * *
19920212 GAAAAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTT-GAAATTTATTTTTAAGAAAAATT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTATTTTTAAGAAAAATT
19920276 GATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGGAAATTTTGATTTTTA
66 GATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTTGGAAATTTTGATTTTTA
19920328 TTTAAAGAAA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
112 1 0.01
113 47 0.45
114 36 0.34
115 11 0.10
116 3 0.03
117 7 0.07
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (117 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTATTTTTAAGAAAAATT
GATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTTGATTTTTAA
Found at i:19920368 original size:18 final size:18
Alignment explanation
Indices: 19920345--19920495 Score: 80
Period size: 18 Copynumber: 8.6 Consensus size: 18
19920335 AAAATAGAAT
19920345 AATAAAAAAATAAATAAA
1 AATAAAAAAATAAATAAA
19920363 AAT-AAAAAATAAA-AAA
1 AATAAAAAAATAAATAAA
* *
19920379 AGTAAAACAA-AAATAAA
1 AATAAAAAAATAAATAAA
* *
19920396 AATAAAATAA-AGAT-AA
1 AATAAAAAAATAAATAAA
* * *
19920412 AA-AGAATATTAAATAAA
1 AATAAAAAAATAAATAAA
** ***
19920429 CCTAATCTAATAAATAAACA
1 AATAAAAAAATAAAT-AA-A
* *
19920449 AATAAACAAATAAATGAA
1 AATAAAAAAATAAATAAA
* * *
19920467 AATAAAAAAACAATTCAA
1 AATAAAAAAATAAATAAA
19920485 AATAAATAAAA
1 AATAAA-AAAA
19920496 CCTAGAGCGG
Statistics
Matches: 102, Mismatches: 23, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
15 5 0.05
16 15 0.15
17 31 0.30
18 32 0.31
19 7 0.07
20 12 0.12
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (18 bp):
AATAAAAAAATAAATAAA
Found at i:19920377 original size:26 final size:26
Alignment explanation
Indices: 19920335--19920412 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 26
19920325 TTATTTAAAG
* *
19920335 AAAATAGAATAAT-AAAAAAATAAATA
1 AAAATA-AAAAATAAAAAAAATAAACA
*
19920361 AAAATAAAAAATAAAAAAAGTAAAACA
1 AAAATAAAAAATAAAAAAAAT-AAACA
19920388 AAAAT-AAAAATAAAATAAAGATAAA
1 AAAATAAAAAATAAAA-AAA-ATAAA
19920413 AAGAATATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
25 5 0.11
26 23 0.52
27 15 0.34
28 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (26 bp):
AAAATAAAAAATAAAAAAAATAAACA
Found at i:19920419 original size:26 final size:26
Alignment explanation
Indices: 19920330--19920428 Score: 70
Period size: 26 Copynumber: 4.0 Consensus size: 26
19920320 GATTTTTATT
*
19920330 TAAAGA-AAATAGAATAATAAA-AAAA
1 TAAAGATAAAAAGAATAA-AAATAAAA
*
19920355 T-AA-ATAAAAA-TA-AAAAATAAAA
1 TAAAGATAAAAAGAATAAAAATAAAA
*
19920377 -AAAG-TAAAACAAAAATAAAAATAAAA
1 TAAAGAT-AAA-AAGAATAAAAATAAAA
*
19920403 TAAAGATAAAAAGAATATTAAATAAA
1 TAAAGATAAAAAGAATA-AAAATAAA
19920429 CCTAATCTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
21 3 0.05
22 9 0.16
23 5 0.09
24 8 0.14
25 2 0.03
26 16 0.28
27 14 0.24
28 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (26 bp):
TAAAGATAAAAAGAATAAAAATAAAA
Found at i:19921337 original size:18 final size:16
Alignment explanation
Indices: 19921294--19921338 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
19921284 CTCCAAAATC
19921294 AAATAAAAAAATAGAT
1 AAATAAAAAAATAGAT
* *
19921310 AATTAGAAAAGATAGGAT
1 AAATA-AAAAAATA-GAT
19921328 AAATAAAAAAA
1 AAATAAAAAAA
19921339 AAAAATAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (16 bp):
AAATAAAAAAATAGAT
Found at i:19921461 original size:15 final size:15
Alignment explanation
Indices: 19921420--19921470 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
19921410 ATACAATAAG
19921420 ATAAAACAAAAAAATA
1 ATAAAA-AAAAAAATA
*
19921436 TTACAAGAAAAAAAATA
1 ATA-AA-AAAAAAAATA
*
19921453 ATAAAAAAATAAATA
1 ATAAAAAAAAAAATA
19921468 ATA
1 ATA
19921471 TATAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 12 0.40
16 4 0.13
17 13 0.43
18 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (15 bp):
ATAAAAAAAAAAATA
Found at i:19921466 original size:4 final size:4
Alignment explanation
Indices: 19921448--19921547 Score: 71
Period size: 4 Copynumber: 23.8 Consensus size: 4
19921438 ACAAGAAAAA
* *
19921448 AAAT -AAT AAAA AAAT AAAT AATAT ATAAT AAAT ATAA- AAAT ATAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT A-AAT AAAT A-AAT AAAT AAAT AAAT
* *
19921497 AAAAT ACATAT AAAT ATTAAC AAA- AAAT AAAT AAAT AAAT AAAT AAGT
1 -AAAT A-A-AT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
19921545 AAA
1 AAA
19921548 AATTATACAT
Statistics
Matches: 78, Mismatches: 7, Indels: 22
0.73 0.07 0.21
Matches are distributed among these distances:
3 8 0.10
4 49 0.63
5 14 0.18
6 7 0.09
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:19921475 original size:7 final size:7
Alignment explanation
Indices: 19921448--19921578 Score: 67
Period size: 7 Copynumber: 18.4 Consensus size: 7
19921438 ACAAGAAAAA
19921448 AAATAAT
1 AAATAAT
*
19921455 AAAAAAAT
1 -AAATAAT
19921463 AAATAAT
1 AAATAAT
*
19921470 ATATAAT
1 AAATAAT
19921477 AAAT-AT
1 AAATAAT
19921483 AAA-AAT
1 AAATAAT
*
19921489 ATATAAAT
1 AAAT-AAT
19921497 AAAATACAT
1 -AAATA-AT
*
19921506 ATA-AAT
1 AAATAAT
* *
19921512 -ATTAAC
1 AAATAAT
*
19921518 AAAAAAT
1 AAATAAT
19921525 AAATAAAT
1 AAAT-AAT
19921533 AAATAAAT
1 AAAT-AAT
*
19921541 AAGTAA-
1 AAATAAT
*
19921547 AAATTAT
1 AAATAAT
19921554 ACATATAAT
1 A-A-ATAAT
19921563 -AATAAT
1 AAATAAT
19921569 AAATAAT
1 AAATAAT
19921576 AAA
1 AAA
19921579 ATACATAAAA
Statistics
Matches: 93, Mismatches: 18, Indels: 25
0.68 0.13 0.18
Matches are distributed among these distances:
6 22 0.24
7 35 0.38
8 27 0.29
9 9 0.10
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:19921489 original size:19 final size:19
Alignment explanation
Indices: 19921446--19921579 Score: 75
Period size: 19 Copynumber: 6.9 Consensus size: 19
19921436 TTACAAGAAA
19921446 AAAAATA-ATAA-AAAAAT
1 AAAAATATATAATAAAAAT
*
19921463 AAATAATATATAATAAATAT
1 AAA-AATATATAATAAAAAT
19921483 AAAAATATATAAATAAAATACAT
1 AAAAATATAT-AAT-AAA-A-AT
* *
19921506 ATAAATAT-TAACAAAAAAT
1 AAAAATATATAA-TAAAAAT
19921525 AAATAA-ATA-AATAAATAAGT
1 AAA-AATATATAATAAA-AA-T
*
19921545 AAAAAT-TATACAT-ATAAT
1 AAAAATATATA-ATAAAAAT
* *
19921563 AATAATAAATAATAAAA
1 AAAAATATATAATAAAA
19921580 TACATAAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 32
0.68 0.08 0.24
Matches are distributed among these distances:
17 3 0.03
18 15 0.17
19 32 0.36
20 20 0.22
21 10 0.11
22 1 0.01
23 9 0.10
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (19 bp):
AAAAATATATAATAAAAAT
Found at i:19921507 original size:25 final size:25
Alignment explanation
Indices: 19921447--19921510 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
19921437 TACAAGAAAA
*
19921447 AAAATAATAAAAAAATAAATAATAT
1 AAAATAATATAAAAATAAATAATAT
* *
19921472 ATAATAAATATAAAAATATATAA-AT
1 AAAAT-AATATAAAAATAAATAATAT
19921497 AAAATACATATAAA
1 AAAATA-ATATAAA
19921511 TATTAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 17 0.52
26 15 0.45
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAATAATATAAAAATAAATAATAT
Found at i:19921534 original size:25 final size:25
Alignment explanation
Indices: 19921443--19921542 Score: 75
Period size: 25 Copynumber: 4.1 Consensus size: 25
19921433 ATATTACAAG
* *
19921443 AAAAAAAAT-AATAAAAAAATAAAT
1 AAAAAAAATAAATAAATAAATATAT
* *
19921467 AATATATAATAAATATAA-AAATATAT
1 AA-AAAAAATAAATA-AATAAATATAT
* *
19921493 AAATAAAATACAT--ATAAATAT-T
1 AAAAAAAATAAATAAATAAATATAT
*
19921515 AACAAAAAATAAATAAATAAATAAAT
1 AA-AAAAAATAAATAAATAAATATAT
19921541 AA
1 AA
19921543 GTAAAAATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
22 4 0.07
23 15 0.25
24 2 0.03
25 21 0.35
26 16 0.27
27 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAAAAAATAAATAAATAAATATAT
Found at i:19921548 original size:25 final size:24
Alignment explanation
Indices: 19921448--19921587 Score: 64
Period size: 23 Copynumber: 5.8 Consensus size: 24
19921438 ACAAGAAAAA
19921448 AAATAATAAAA-AAATAAAT-AAT
1 AAATAATAAAATAAATAAATAAAT
* *
19921470 ATATAATAAATATAAAAATATATAAAT
1 AAATAATAAA-AT--AAATAAATAAAT
* *
19921497 AAAATACATATAAAT--ATTAACAAA-
1 -AAATA-ATA-AAATAAATAAATAAAT
*
19921521 AAATAA-ATAAATAAATAAATAAGT
1 AAATAATA-AAATAAATAAATAAAT
*
19921545 AAA-AATTATACATATAAT-AAT-AAT
1 AAATAA-TA-AAATA-AATAAATAAAT
*
19921569 AAATAATAAAATACATAAA
1 AAATAATAAAATAAATAAA
19921588 ATACAAAAGA
Statistics
Matches: 89, Mismatches: 13, Indels: 31
0.67 0.10 0.23
Matches are distributed among these distances:
21 6 0.07
22 12 0.13
23 20 0.22
24 10 0.11
25 17 0.19
26 10 0.11
27 3 0.03
28 4 0.04
29 5 0.06
30 2 0.02
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (24 bp):
AAATAATAAAATAAATAAATAAAT
Found at i:19921612 original size:17 final size:17
Alignment explanation
Indices: 19921592--19921626 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
19921582 CATAAAATAC
19921592 AAAAGAAAAGAAAAGAAA
1 AAAAGAAAA-AAAAGAAA
19921610 AAAAGAAAAAAAAGAAA
1 AAAAGAAAAAAAAGAAA
19921627 TAATACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAGAAA
Found at i:19921621 original size:9 final size:9
Alignment explanation
Indices: 19921592--19921626 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
19921582 CATAAAATAC
19921592 AAAAGAAAA
1 AAAAGAAAA
19921601 GAAAAG-AAA
1 -AAAAGAAAA
19921610 AAAAGAAAA
1 AAAAGAAAA
19921619 AAAAGAAA
1 AAAAGAAA
19921627 TAATACAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 5 0.21
9 14 0.58
10 5 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:19921805 original size:1 final size:1
Alignment explanation
Indices: 19921795--19921864 Score: 77
Period size: 1 Copynumber: 70.0 Consensus size: 1
19921785 AACATTGTCA
* * * * * * *
19921795 TTTTTGTTTTTTTGTTTTTTGTGTTTTTTTTTTGTTTTTTGTTTTTTGTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19921860 TTTTT
1 TTTTT
19921865 ACCAAAGCTC
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:19921812 original size:7 final size:7
Alignment explanation
Indices: 19921795--19921864 Score: 94
Period size: 7 Copynumber: 10.4 Consensus size: 7
19921785 AACATTGTCA
19921795 TTTTTGTT
1 TTTTTG-T
19921803 TTTTTGT
1 TTTTTGT
19921810 TTTTTGT
1 TTTTTGT
*
19921817 GTTTT-T
1 TTTTTGT
19921823 TTTTTGT
1 TTTTTGT
19921830 TTTTTGT
1 TTTTTGT
19921837 TTTTTGT
1 TTTTTGT
19921844 TTTTT-T
1 TTTTTGT
19921850 TTTTT-T
1 TTTTTGT
19921856 TTTTT-T
1 TTTTTGT
19921862 TTT
1 TTT
19921865 ACCAAAGCTC
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
6 21 0.36
7 32 0.54
8 6 0.10
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (7 bp):
TTTTTGT
Found at i:19921832 original size:27 final size:26
Alignment explanation
Indices: 19921795--19921864 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 26
19921785 AACATTGTCA
19921795 TTTTTGTTTTTTTGTTTTTTGTGTTTTT
1 TTTTTG-TTTTTTGTTTTTTGT-TTTTT
19921823 TTTTTGTTTTTTGTTTTTTGTTTTTT
1 TTTTTGTTTTTTGTTTTTTGTTTTTT
19921849 TTTTT-TTTTTT-TTTTT
1 TTTTTGTTTTTTGTTTTT
19921865 ACCAAAGCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 5 0.12
25 6 0.14
26 10 0.24
27 15 0.36
28 6 0.14
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (26 bp):
TTTTTGTTTTTTGTTTTTTGTTTTTT
Found at i:19921930 original size:42 final size:42
Alignment explanation
Indices: 19921871--19922043 Score: 294
Period size: 42 Copynumber: 4.1 Consensus size: 42
19921861 TTTTACCAAA
* *
19921871 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
19921913 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
19921955 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* *
19921997 GCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
19922038 GCTCCT
1 GCTCCT
19922044 TGACAATCAT
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
41 20 0.16
42 105 0.84
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
Found at i:19927450 original size:116 final size:118
Alignment explanation
Indices: 19927274--19927502 Score: 340
Period size: 116 Copynumber: 2.0 Consensus size: 118
19927264 TTGTGCAGAA
* * *
19927274 AAAATTGATACTTTTAACTTTTTCCTGAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTTCCTGAAAATACTTTTTGGAAATTTATTTTTAAAGAAAATTGA
* * *
19927339 TACTTTCAACTTTTCCCT-AAAATTTTTTTTTTAGAAATTTTGATTTTAAAGG
66 TAATTTCAACTTTTACCTAAAAATATTTTTTTTAGAAATTTTGATTTTAAAGG
*
19927391 AAAATTGATACTTTCAAC-TTTTCCTTAAAA-ACCCTTTTT-GAAATTTATTTTTAAAGAAAATT
1 AAAATTGATACTTTCAACTTTTTCCTGAAAATA--CTTTTTGGAAATTTATTTTTAAAGAAAATT
*
19927453 GATAATTTCAACTTTTACCTAAAAATATTTTTTTTGGAAATTTTGATTTT
64 GATAATTTCAACTTTTACCTAAAAATATTTTTTTTAGAAATTTTGATTTT
19927503 TATTTAAAGA
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
115 1 0.01
116 51 0.50
117 49 0.49
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTTCCTGAAAATACTTTTTGGAAATTTATTTTTAAAGAAAATTGA
TAATTTCAACTTTTACCTAAAAATATTTTTTTTAGAAATTTTGATTTTAAAGG
Found at i:19927520 original size:7 final size:6
Alignment explanation
Indices: 19927512--19927593 Score: 73
Period size: 6 Copynumber: 13.7 Consensus size: 6
19927502 TTATTTAAAG
*
19927512 AAAATA GAATAATA AAAA-A ATAAATA AAAATA AAAA-A TAAAACA AAAAT-
1 AAAATA -AA-AATA AAAATA A-AAATA AAAATA AAAATA -AAAATA AAAATA
* *
19927561 AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
19927594 GAATATTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
5 12 0.19
6 40 0.63
7 7 0.11
8 4 0.06
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:19927540 original size:11 final size:11
Alignment explanation
Indices: 19927519--19927653 Score: 57
Period size: 11 Copynumber: 11.8 Consensus size: 11
19927509 AAGAAAATAG
19927519 AATAATAAAA-A
1 AATAA-AAAATA
*
19927530 AATAAATAA-A
1 AATAAAAAATA
19927540 AATAAAAAATA
1 AATAAAAAATA
19927551 AA-ACAAAAATA
1 AATA-AAAAATA
19927562 AA-ACAAAAATA
1 AATA-AAAAATA
19927573 AA-AATAAAATA
1 AATAA-AAAATA
* *
19927584 AAGATAAAAA-G
1 AATA-AAAAATA
**
19927595 AATATTAAATA
1 AATAAAAAATA
**
19927606 AACCTAATCTAATA
1 AA--TAA-AAAATA
19927620 AATAAAAAATA
1 AATAAAAAATA
*
19927631 AACAAATAAATGAA
1 AATAAA-AAAT--A
19927645 AATAAAAAA
1 AATAAAAAA
19927654 AAAAACCTAG
Statistics
Matches: 98, Mismatches: 14, Indels: 22
0.73 0.10 0.16
Matches are distributed among these distances:
10 17 0.17
11 51 0.52
12 12 0.12
13 6 0.06
14 12 0.12
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:19927545 original size:18 final size:18
Alignment explanation
Indices: 19927522--19927654 Score: 87
Period size: 18 Copynumber: 7.6 Consensus size: 18
19927512 AAAATAGAAT
19927522 AATAAAAAAATAAATAAA
1 AATAAAAAAATAAATAAA
*
19927540 AAT-AAAAAATAAAACAAA
1 AATAAAAAAAT-AAATAAA
*
19927558 AATAAAACAA-AAATAAA
1 AATAAAAAAATAAATAAA
* *
19927575 AATAAAATAA-AGAT-AA
1 AATAAAAAAATAAATAAA
* * *
19927591 AA-AGAATATTAAATAAA
1 AATAAAAAAATAAATAAA
** ***
19927608 CCTAATCTAATAAATAAAA
1 AATAAAAAAATAAAT-AAA
* *
19927627 AATAAACAAATAAATGAA
1 AATAAAAAAATAAATAAA
19927645 AATAAAAAAA
1 AATAAAAAAA
19927655 AAAACCTAGA
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
15 5 0.06
16 7 0.08
17 27 0.30
18 31 0.35
19 19 0.21
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (18 bp):
AATAAAAAAATAAATAAA
Found at i:19927559 original size:28 final size:28
Alignment explanation
Indices: 19927519--19927640 Score: 88
Period size: 28 Copynumber: 4.2 Consensus size: 28
19927509 AAGAAAATAG
19927519 AATAATAA-AAAAATAAATAAAAATAAAA
1 AATAA-AACAAAAATAAATAAAAATAAAA
*
19927547 AATAAAACAAAAATAAAACAAAAAT-AAA
1 AATAAAACAAAAAT-AAATAAAAATAAAA
* * * **
19927575 AATAAAATAAAGATAAA-AAGAATATTA
1 AATAAAACAAAAATAAATAAAAATAAAA
* *
19927602 AATAAACCTAATCTAATAAATAAAAAATAAACA
1 AATAAAAC-AA--AAATAAAT-AAAAATAAA-A
19927635 AATAAA
1 AATAAA
19927641 TGAAAATAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
26 5 0.07
27 12 0.17
28 28 0.39
29 9 0.12
30 5 0.07
32 6 0.08
33 7 0.10
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (28 bp):
AATAAAACAAAAATAAATAAAAATAAAA
Found at i:19928698 original size:21 final size:22
Alignment explanation
Indices: 19928648--19928699 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
19928638 AAAAAAAAAT
19928648 TAAA-AAAATAATAAATAATATA
1 TAAATAAAAT-ATAAATAATATA
*
19928670 T-AAT-AAATATAAA-ACTATA
1 TAAATAAAATATAAATAATATA
19928689 TAAATAAAATA
1 TAAATAAAATA
19928700 CATATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 6 0.23
20 8 0.31
21 11 0.42
22 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATAAAATATAAATAATATA
Found at i:19928723 original size:69 final size:67
Alignment explanation
Indices: 19928649--19928790 Score: 157
Period size: 68 Copynumber: 2.1 Consensus size: 67
19928639 AAAAAAAATT
* *
19928649 AAAAAAAT-AATAAATAATATATAATAAATATAA-AACT-ATATA-AATAAAATACATATAAATA
1 AAAAAAATAAATAAATAA-AAAT-ATAAATATAATAA-TAATAAATAATAAAATACATA-AAATA
* *
19928710 TTAACAG
62 -CAAAAG
* *
19928717 AAAAAAATAAATAAGTAAAAATATACATATAATAATAATAAATAATAAAATACATAAAATACAAA
1 AAAAAAATAAATAAATAAAAATATAAATATAATAATAATAAATAATAAAATACATAAAATACAAA
19928782 AG
66 AG
19928784 AAAAAAA
1 AAAAAAA
19928791 AACAAATAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
67 21 0.33
68 22 0.34
69 21 0.33
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (67 bp):
AAAAAAATAAATAAATAAAAATATAAATATAATAATAATAAATAATAAAATACATAAAATACAAA
AG
Found at i:19929169 original size:15 final size:15
Alignment explanation
Indices: 19929149--19929186 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
19929139 AAAAAGTTAG
*
19929149 ATTTTAATTTTAATA
1 ATTTTAATTTTAAAA
*
19929164 ATTTTAAATTTAAAA
1 ATTTTAATTTTAAAA
19929179 ATTTTAAT
1 ATTTTAAT
19929187 GTAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTAATTTTAAAA
Found at i:19931518 original size:15 final size:15
Alignment explanation
Indices: 19931494--19931532 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
19931484 AAAATGGATT
*
19931494 AAAAATAAAATCAAA
1 AAAAAAAAAATCAAA
*
19931509 AAAAAAAAAATGAAA
1 AAAAAAAAAATCAAA
19931524 AAGAAAAAA
1 AA-AAAAAA
19931533 CCTACGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAATCAAA
Found at i:19932367 original size:17 final size:17
Alignment explanation
Indices: 19932333--19932375 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
19932323 GGATTGAAGC
19932333 AAAAAAAGAAAGAAGAAA
1 AAAAAAAGAAAG-AGAAA
19932351 AAAAAAAGAACAG-GAAA
1 AAAAAAAGAA-AGAGAAA
19932368 AATAAAAA
1 AA-AAAAA
19932376 CAAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.26
18 15 0.65
19 2 0.09
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAGAGAAA
Found at i:19932386 original size:17 final size:17
Alignment explanation
Indices: 19932366--19932401 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19932356 AAGAACAGGA
19932366 AAAATAAAAACAAAAAT
1 AAAATAAAAACAAAAAT
* *
19932383 AAAATAATAACAATAAT
1 AAAATAAAAACAAAAAT
19932400 AA
1 AA
19932402 TAATGGCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAATAAAAACAAAAAT
Found at i:19932464 original size:3 final size:3
Alignment explanation
Indices: 19932456--19932485 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
19932446 AAATAAAGAA
19932456 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19932486 GTGACATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19932873 original size:115 final size:114
Alignment explanation
Indices: 19932645--19933176 Score: 527
Period size: 115 Copynumber: 4.6 Consensus size: 114
19932635 AAAAATGATC
* * * * *
19932645 CATGAATC-TGA-AAGATGATTTAGACTAAACCAAGATCAAGTGATC-GGGTTATAACCACAAGT
1 CATGAATCATGAGAA-ATGATCTAGA-TTAACCAAGATCAAGTGATCAGGATGA-AACCACGAGT
* * * *
19932707 CAAAATGAAACGATCAAGATCGAGTCGA-AGTTAAAAATGACCGAGATGAAAT
63 CAAAATGAAGCGACCAAGATCAAGTCGAGA-TAAAAAATGACCGAGATGAAAT
* *
19932759 CATGAATCATGAGAAATGATTTAGATTGAACCAAGATCAAGTGACCAGGATGAAACCACGAGTCA
1 CATGAATCATGAGAAATGATCTAGATT-AACCAAGATCAAGTGATCAGGATGAAACCACGAGTCA
* * * * *
19932824 AAATGAAGTGACCAAGATCAAGTTGAGATAAAAAATAACTG-GAACGAAAT
65 AAATGAAGCGACCAAGATCAAGTCGAGATAAAAAATGACCGAG-ATGAAAT
* * * * ** * *
19932874 CACGAATCATGAGAAATGATATGGATTAAGCCAAGATCAAGTGA-CTGAGACAAAATCATGAGTC
1 CATGAATCATGAGAAATGATCTAGATTAA-CCAAGATCAAGTGATCAG-GATGAAACCACGAGTC
* ** * * * *
19932938 AAAATGAAGTGACCAAGATTGAGTCAAGATGAAAAATGACCGAGATAAAAC
64 AAAATGAAGCGACCAAGATCAAGTCGAGATAAAAAATGACCGAGATGAAAT
* * *
19932989 CATGAATCATGAGAAATGATCTAGATTAAGCCAAGATCAAATGATCATGATGAAATCACGAGTCA
1 CATGAATCATGAGAAATGATCTAGATTAA-CCAAGATCAAGTGATCAGGATGAAACCACGAGTCA
* * * **
19933054 AAATAAAGCAACCAAGATCAAGTCGAGGTCGAAAATGACCGAGATGAAAT
65 AAATGAAGCGACCAAGATCAAGTCGAGATAAAAAATGACCGAGATGAAAT
* * ** *
19933104 CACGAATCATAAGAAATGATCTAGATTAAACCAAGATCAAGCAATCAGGATGAAAACCATGAGTC
1 CATGAATCATGAGAAATGATCTAGATT-AACCAAGATCAAGTGATCAGGATG-AAACCACGAGTC
19933169 AAAATGAA
64 AAAATGAA
19933177 ATTATATGGA
Statistics
Matches: 345, Mismatches: 61, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
114 14 0.04
115 303 0.88
116 28 0.08
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (114 bp):
CATGAATCATGAGAAATGATCTAGATTAACCAAGATCAAGTGATCAGGATGAAACCACGAGTCAA
AATGAAGCGACCAAGATCAAGTCGAGATAAAAAATGACCGAGATGAAAT
Found at i:19933105 original size:230 final size:230
Alignment explanation
Indices: 19932704--19933144 Score: 600
Period size: 230 Copynumber: 1.9 Consensus size: 230
19932694 TATAACCACA
* * * *
19932704 AGTCAAAATGAAACGATCAAGATCGAGTCGAAGTTAAAAATGACCGAGATGAAATCATGAATCAT
1 AGTCAAAATGAAACGACCAAGATCGAGTCGAAGTGAAAAATGACCGAGATAAAACCATGAATCAT
* * * **
19932769 GAGAAATGATTTAGATTGAACCAAGATCAAGTGACCAGGATGAAACCACGAGTCAAAATGAAGTG
66 GAGAAATGATCTAGATTGAACCAAGATCAAATGACCAGGATGAAACCACGAGTCAAAATAAAGCA
* * * *
19932834 ACCAAGATCAAGTTGAGATAAAAAATAACTGGAACGAAATCACGAATCATGAGAAATGATATGGA
131 ACCAAGATCAAGTCGAGATAAAAAATAACCGGAACGAAATCACGAATCATAAGAAATGATATAGA
*
19932899 TTAAGCCAAGATCAAGTGACTGAGACAAAATCATG
196 TTAAACCAAGATCAAGTGACTGAGACAAAATCATG
** *
19932934 AGTCAAAATGAAGTGACCAAGATTGAGTC-AAGATGAAAAATGACCGAGATAAAACCATGAATCA
1 AGTCAAAATGAAACGACCAAGATCGAGTCGAAG-TGAAAAATGACCGAGATAAAACCATGAATCA
* * *
19932998 TGAGAAATGATCTAGATT-AAGCCAAGATCAAATGATCATGATGAAATCACGAGTCAAAATAAAG
65 TGAGAAATGATCTAGATTGAA-CCAAGATCAAATGACCAGGATGAAACCACGAGTCAAAATAAAG
* ** * * *
19933062 CAACCAAGATCAAGTCGAGGTCGAAAATGACC-GAGATGAAATCACGAATCATAAGAAATGATCT
129 CAACCAAGATCAAGTCGAGATAAAAAATAACCGGA-ACGAAATCACGAATCATAAGAAATGATAT
19933126 AGATTAAACCAAGATCAAG
193 AGATTAAACCAAGATCAAG
19933145 CAATCAGGAT
Statistics
Matches: 182, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
229 7 0.04
230 175 0.96
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (230 bp):
AGTCAAAATGAAACGACCAAGATCGAGTCGAAGTGAAAAATGACCGAGATAAAACCATGAATCAT
GAGAAATGATCTAGATTGAACCAAGATCAAATGACCAGGATGAAACCACGAGTCAAAATAAAGCA
ACCAAGATCAAGTCGAGATAAAAAATAACCGGAACGAAATCACGAATCATAAGAAATGATATAGA
TTAAACCAAGATCAAGTGACTGAGACAAAATCATG
Found at i:19943983 original size:16 final size:15
Alignment explanation
Indices: 19943973--19944014 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19943963 AAATAGATTA
19943973 AAAATAAAATAAAGT
1 AAAATAAAATAAAGT
*
19943988 AAAATAAAAT-TAG-
1 AAAATAAAATAAAGT
19944001 AAAATAAAAATAAA
1 AAAAT-AAAATAAA
19944015 ACAGAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 7 0.30
15 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
AAAATAAAATAAAGT
Found at i:19943985 original size:11 final size:11
Alignment explanation
Indices: 19943958--19944015 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
19943948 AAGAAAAAGT
*
19943958 AATAAAAATAG
1 AATAAAAATAA
*
19943969 ATTAAAAATAA
1 AATAAAAATAA
*
19943980 AAT-AAAGTAA
1 AATAAAAATAA
*
19943990 AATAAAATTAGAA
1 AATAAAA--ATAA
19944003 AATAAAAATAA
1 AATAAAAATAA
19944014 AA
1 AA
19944016 CAGAAAAGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 9 0.24
11 19 0.51
13 9 0.24
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:19944020 original size:18 final size:19
Alignment explanation
Indices: 19943983--19944028 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
19943973 AAAATAAAAT
* *
19943983 AAAGTAAAATAAAATTAGA
1 AAAGAAAAATAAAATCAGA
*
19944002 AAATAAAAATAAAA-CAGA
1 AAAGAAAAATAAAATCAGA
19944020 AAAGAAAAA
1 AAAGAAAAA
19944029 ACCTACGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAGAAAAATAAAATCAGA
Found at i:19944853 original size:11 final size:10
Alignment explanation
Indices: 19944828--19944880 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
19944818 GAATTGAAAC
19944828 AAAAAAA-AA
1 AAAAAAATAA
*
19944837 ATAAAAATAA
1 AAAAAAATAA
19944847 AGAAAAAATGAA
1 A-AAAAAAT-AA
19944859 AACAAAAATAA
1 AA-AAAAATAA
19944870 AAAAAATATAA
1 AAAAAA-ATAA
19944881 TATAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.16
10 7 0.19
11 15 0.41
12 9 0.24
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.11
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:19946047 original size:1 final size:1
Alignment explanation
Indices: 19946043--19946072 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
19946033 CCCCTTTTAC
*
19946043 AAAAACAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19946073 GCTAGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19947948 original size:22 final size:23
Alignment explanation
Indices: 19947906--19947948 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19947896 GGTGAGGATC
* *
19947906 TTATTTTTCAAGAATTTATATAA
1 TTATTTTTCAAGAAGTGATATAA
19947929 TTATTTTT-AAGAAGTGATAT
1 TTATTTTTCAAGAAGTGATAT
19947949 TTTTTATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (23 bp):
TTATTTTTCAAGAAGTGATATAA
Found at i:19948788 original size:2 final size:2
Alignment explanation
Indices: 19948781--19948831 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
19948771 TTCATTCATA
19948781 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19948823 AG AG AG AG A
1 AG AG AG AG A
19948832 ACCTTTTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19948897 original size:15 final size:15
Alignment explanation
Indices: 19948874--19948903 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19948864 CTGATGGGTC
*
19948874 ATTTTTTTAATTTTT
1 ATTTGTTTAATTTTT
19948889 ATTTGTTTAATTTTT
1 ATTTGTTTAATTTTT
19948904 CTATAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
ATTTGTTTAATTTTT
Found at i:19948987 original size:26 final size:26
Alignment explanation
Indices: 19948926--19948987 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
19948916 TTACACACTT
* *
19948926 AAATTTTCTAAAACTTGTAATCTCTA
1 AAATTTTATTAAACTTGTAATCTCTA
19948952 AAATTTTATTAAACTTGTAATCTCTA
1 AAATTTTATTAAACTTGTAATCTCTA
19948978 AAATTTTATT
1 AAATTTTATT
19948988 GAATATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (26 bp):
AAATTTTATTAAACTTGTAATCTCTA
Found at i:19953245 original size:14 final size:14
Alignment explanation
Indices: 19953223--19953252 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19953213 AGACTTAAGG
*
19953223 ACAAGTCTTTTCCA
1 ACAACTCTTTTCCA
19953237 ACAACTCTTTTCCA
1 ACAACTCTTTTCCA
19953251 AC
1 AC
19953253 CAGAGGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.33
Consensus pattern (14 bp):
ACAACTCTTTTCCA
Found at i:19954046 original size:35 final size:35
Alignment explanation
Indices: 19953996--19954063 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
19953986 CATATGTAAA
* *
19953996 GTCAGTTGTAGATTTATACCCAGAAAACGTTTGAT
1 GTCAGTTGTAGATTTATACCCAAAAAACATTTGAT
* *
19954031 GTCAGTTGTATATTTATGCCCAAAAAACATTTG
1 GTCAGTTGTAGATTTATACCCAAAAAACATTTG
19954064 GTTTATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (35 bp):
GTCAGTTGTAGATTTATACCCAAAAAACATTTGAT
Found at i:19954784 original size:17 final size:16
Alignment explanation
Indices: 19954749--19954787 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19954739 CTTTTCCTCA
**
19954749 AAAATTTATTTTTTTG
1 AAAATTTATTTTTAGG
19954765 AAAATTTATTTTTAAGG
1 AAAATTTATTTTT-AGG
19954782 AAAATT
1 AAAATT
19954788 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
AAAATTTATTTTTAGG
Found at i:19954793 original size:60 final size:58
Alignment explanation
Indices: 19954664--19955179 Score: 601
Period size: 60 Copynumber: 8.7 Consensus size: 58
19954654 TTGTGCAGGA
* * * * ** *
19954664 AAAATTGATACTTTCAACATTTCCCCAAAAATATTCTTTTGAAACTTTAATTTCGAA-A
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTT-ATTTTTAAGG
19954722 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAATTTATTTTTAAGG
*
19954782 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* * * *
19954839 AAAATTGATACTTTTAACTTTTCCCCAAAAATA-TTTTTTGAAAACTTTTATTTTTGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA--TTTATTTTTAAGG
*
19954898 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAATTTATTTTTAAGG
* **
19954958 AAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTTGGAAACTTTGATTTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATA--TTTTTTT-GAAAATTT-ATTTTTAAGG
* * ** *
19955020 AAAATTGATACTTTTAACTTTTCCCCAAAAATA-TTTTTTGAAAACTTTGATTTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA-TTT-ATTTTTAAGG
* * * * *
19955079 AAAATTGATGCTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTTAAAATTTTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATA--TTTTTTTGAAAATTTATTTTTAAGG
*
19955140 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
19955180 TGGATTTTAT
Statistics
Matches: 398, Mismatches: 40, Indels: 40
0.83 0.08 0.08
Matches are distributed among these distances:
57 65 0.16
58 41 0.10
59 87 0.22
60 99 0.25
61 50 0.13
62 46 0.12
63 10 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
Found at i:19955204 original size:5 final size:5
Alignment explanation
Indices: 19955196--19955276 Score: 60
Period size: 5 Copynumber: 15.8 Consensus size: 5
19955186 TTATTTAAAG
* * *
19955196 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AAAGT AAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
*
19955245 AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAA
1 AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAA
19955277 GAACATTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 36 0.58
6 16 0.26
7 4 0.06
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:19955243 original size:20 final size:20
Alignment explanation
Indices: 19955206--19955276 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
19955196 AAAATAAAAT
19955206 AATAAAACAAAATAAAAGTGAA
1 AATAAAA-AAAATAAAAGT-AA
*
19955228 AATAAAAAAAGT-AAAGTAAA
1 AATAAAAAAAATAAAAGT-AA
*
19955248 ACAAAAATAAAAATAAAA-TAA
1 A-ATAAA-AAAAATAAAAGTAA
19955269 AGATAAAA
1 A-ATAAAA
19955277 GAACATTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 9 0.22
21 15 0.38
22 13 0.32
23 3 0.08
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (20 bp):
AATAAAAAAAATAAAAGTAA
Found at i:19955264 original size:17 final size:17
Alignment explanation
Indices: 19955196--19955276 Score: 58
Period size: 17 Copynumber: 4.5 Consensus size: 17
19955186 TTATTTAAAG
19955196 AAAATAAAATAATAAAAC-
1 AAAAT-AAA-AATAAAACA
* *
19955214 AAAATAAAAGTGAAAATA
1 AAAATAAAAAT-AAAACA
19955232 AAAA-AAGTAAAGTAAAACA
1 AAAATAA--AAA-TAAAACA
*
19955251 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAACA
*
19955268 AAGATAAAA
1 AAAATAAAA
19955277 GAACATTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
16 2 0.04
17 23 0.45
18 12 0.24
19 11 0.22
20 3 0.06
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAACA
Found at i:19955274 original size:11 final size:11
Alignment explanation
Indices: 19955196--19955276 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 11
19955186 TTATTTAAAG
19955196 AAAATAAAATAA
1 AAAATAAAAT-A
*
19955208 TAAAACAAAATA
1 -AAAATAAAATA
*
19955220 AAAGTGAAAATAAA
1 AAAAT-AAAAT--A
*
19955234 AAAAGTAAAGTA
1 AAAA-TAAAATA
19955246 AAACA-AAAATA
1 AAA-ATAAAATA
19955257 AAAATAAAATA
1 AAAATAAAATA
*
19955268 AAGATAAAA
1 AAAATAAAA
19955277 GAACATTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
10 1 0.02
11 25 0.45
12 10 0.18
13 10 0.18
14 8 0.15
15 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:19956227 original size:18 final size:18
Alignment explanation
Indices: 19956204--19956247 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
19956194 AAAAAAGAGA
19956204 AAAAAAATCAGATAAACG
1 AAAAAAATCAGATAAACG
*
19956222 AAAAAAATCAGATAAATG
1 AAAAAAATCAGATAAACG
19956240 AATAAAAA
1 AA-AAAAA
19956248 AATTAACAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAAAATCAGATAAACG
Found at i:19956269 original size:23 final size:23
Alignment explanation
Indices: 19956222--19956330 Score: 77
Period size: 21 Copynumber: 4.9 Consensus size: 23
19956212 CAGATAAACG
*
19956222 AAAAA-AATCAGATAAATGAATAAA
1 AAAAATAATAAGATAAAT-AA-AAA
* * *
19956246 AAAATTAA-CAGATAATTAAAAA
1 AAAAATAATAAGATAAATAAAAA
*
19956268 AATAATAATAAGATAAAT--AAA
1 AAAAATAATAAGATAAATAAAAA
* * *
19956289 AAATATTACAAGATAAATAAAAA
1 AAAAATAATAAGATAAATAAAAA
*
19956312 AATAATAAT-A-ATAAATAAA
1 AAAAATAATAAGATAAATAAA
19956331 TTATAATATA
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
21 26 0.39
22 10 0.15
23 17 0.25
24 12 0.18
25 2 0.03
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.22
Consensus pattern (23 bp):
AAAAATAATAAGATAAATAAAAA
Found at i:19956310 original size:44 final size:41
Alignment explanation
Indices: 19956240--19956330 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 41
19956230 CAGATAAATG
*
19956240 AATAAAAAAATTAACAGATAATTAAAAAAATAATAATAAGATA
1 AATAAAAAAATTAACAGATAAATAAAAAAATAATAAT-A-ATA
19956283 AATAAAAAATATT-ACAAGATAAATAAAAAAATAATAATAATA
1 AATAAAAAA-ATTAAC-AGATAAATAAAAAAATAATAATAATA
19956325 AATAAA
1 AATAAA
19956331 TTATAATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
42 9 0.20
43 12 0.27
44 24 0.53
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.23
Consensus pattern (41 bp):
AATAAAAAAATTAACAGATAAATAAAAAAATAATAATAATA
Found at i:19956314 original size:22 final size:22
Alignment explanation
Indices: 19956240--19956315 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
19956230 CAGATAAATG
19956240 AATAAAAAAAT-TAAC-AGATA
1 AATAAAAAAATATAACAAGATA
* *
19956260 ATTAAAAAAATAATAATAAGATA
1 AATAAAAAAAT-ATAACAAGATA
*
19956283 AAT-AAAAAATATTACAAGATA
1 AATAAAAAAATATAACAAGATA
19956304 AATAAAAAAATA
1 AATAAAAAAATA
19956316 ATAATAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
20 10 0.21
21 12 0.26
22 18 0.38
23 7 0.15
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (22 bp):
AATAAAAAAATATAACAAGATA
Found at i:19956328 original size:4 final size:4
Alignment explanation
Indices: 19956233--19956462 Score: 84
Period size: 4 Copynumber: 57.0 Consensus size: 4
19956223 AAAAAATCAG
* * * * * * *
19956233 ATAA ATGA ATAA AAAA ATTA ACAG ATAA TTAA AAAA AT-A AT-A ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * *
19956279 GATAA ATAA A-AA ATATT ACAA GATAA ATAA AAAA AT-A AT-A AT-A ATAA
1 -ATAA ATAA ATAA ATA-A ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * *
19956326 ATAA ATTATA ATATA AT-A ATAA ATAT ATAA CTAG ATAA ATAAA ATAC
1 ATAA A-TA-A ATA-A ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA
* * * * * *
19956373 ATAT ATAA ATATTA ATAGA A-AA ATAA ATAA ATAA AGAT ATAC ATAT ATTA
1 ATAA ATAA ATA--A ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* *
19956423 ATAC ATAGTA AT-A ATAA ATAA ATAA AT-A ATAA ATAC ATAA
1 ATAA ATA--A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
19956463 GATACAAAGG
Statistics
Matches: 167, Mismatches: 42, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
3 29 0.17
4 107 0.64
5 23 0.14
6 8 0.05
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:19956329 original size:25 final size:25
Alignment explanation
Indices: 19956263--19956383 Score: 76
Period size: 25 Copynumber: 5.0 Consensus size: 25
19956253 ACAGATAATT
19956263 AAAAA-AATAATAATAAGATAAAT-A
1 AAAAATAATAATAATAA-ATAAATAA
*
19956287 AAAAAT-AT--TACA-AGATAAATAA
1 AAAAATAATAATA-ATAAATAAATAA
*
19956309 AAAAATAATAATAATAAATAAATTA
1 AAAAATAATAATAATAAATAAATAA
* * * * *
19956334 TAATATAATAATAAATATATAACTAG
1 AAAAATAATAAT-AATAAATAAATAA
* *
19956360 ATAAATAA-AATACATATATAAATA
1 AAAAATAATAATA-ATAAATAAATA
19956384 TTAATAGAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
21 6 0.08
22 10 0.13
23 3 0.04
24 9 0.12
25 33 0.44
26 14 0.19
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAAATAATAATAATAAATAAATAA
Found at i:19956363 original size:22 final size:22
Alignment explanation
Indices: 19956316--19956447 Score: 60
Period size: 22 Copynumber: 5.8 Consensus size: 22
19956306 TAAAAAAATA
* *
19956316 ATAATAATAAATAAATTATAAT
1 ATAATAATAAATAAATAATAAG
*
19956338 ATAATAATAAATATATAACT-AG
1 ATAATAATAAATAAATAA-TAAG
* *
19956360 AT-A-AATAAAATACATATATAAAT
1 ATAATAAT-AAATAAATA-AT-AAG
*
19956383 ATTAATAGAAAAATAAATAAATAAAG
1 A-TAATA-ATAAATAAAT-AAT-AAG
* *
19956409 AT-ATACATATATTAATACAT-AG
1 ATAATA-ATAAATAAATA-ATAAG
19956431 -TAATAATAAATAAATAA
1 ATAATAATAAATAAATAA
19956448 ATAATAAATA
Statistics
Matches: 84, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
20 4 0.05
21 20 0.24
22 25 0.30
23 4 0.05
24 13 0.15
25 2 0.02
26 14 0.17
27 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (22 bp):
ATAATAATAAATAAATAATAAG
Found at i:19956365 original size:16 final size:14
Alignment explanation
Indices: 19956336--19956462 Score: 64
Period size: 15 Copynumber: 8.4 Consensus size: 14
19956326 ATAAATTATA
19956336 ATATAATAATAAAT
1 ATATAATAATAAAT
19956350 ATATAACTAGATAAAT
1 ATATAA-TA-ATAAAT
*
19956366 AAAATACATATATAAAT
1 -ATATA-ATA-ATAAAT
19956383 AT-TAATAGA-AAA-
1 ATATAATA-ATAAAT
*
19956395 ATA-AATAAATAAAG
1 ATATAAT-AATAAAT
*
19956409 ATATACATATATTAATAC
1 ATATA-ATA-A-TAA-AT
19956427 ATAGTAATAATAAAT
1 ATA-TAATAATAAAT
*
19956442 AAATAAATAATAAAT
1 ATAT-AATAATAAAT
*
19956457 ACATAA
1 ATATAA
19956463 GATACAAAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 30
0.70 0.06 0.23
Matches are distributed among these distances:
12 6 0.07
13 7 0.08
14 16 0.18
15 22 0.24
16 13 0.14
17 16 0.18
18 8 0.09
19 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (14 bp):
ATATAATAATAAAT
Found at i:19956490 original size:7 final size:7
Alignment explanation
Indices: 19956478--19956519 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
19956468 AAAGGAAGAA
19956478 AAAATAT
1 AAAATAT
19956485 AAAATA-
1 AAAATAT
*
19956491 AAAATAAA
1 AAAAT-AT
19956499 AATAATAT
1 AA-AATAT
19956507 AAAATAT
1 AAAATAT
19956514 AAAATA
1 AAAATA
19956520 AAAGCCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
6 5 0.16
7 18 0.58
8 5 0.16
9 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:19956493 original size:12 final size:12
Alignment explanation
Indices: 19956483--19956522 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
19956473 AAGAAAAAAT
19956483 ATAAAATA-AAA
1 ATAAAATATAAA
*
19956494 ATAAAA-ATAAT
1 ATAAAATATAAA
19956505 ATAAAATATAAA
1 ATAAAATATAAA
19956517 ATAAAA
1 ATAAAA
19956523 GCCAAATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.04
11 14 0.56
12 10 0.40
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:19956508 original size:22 final size:22
Alignment explanation
Indices: 19956476--19956522 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
19956466 ACAAAGGAAG
19956476 AAAAAATATAAAATA-AAAATA
1 AAAAAATATAAAATATAAAATA
19956497 AAAATAATATAAAATATAAAATA
1 AAAA-AATATAAAATATAAAATA
19956520 AAA
1 AAA
19956523 GCCAAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
22 11 0.46
23 9 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAATATAAAATATAAAATA
Found at i:19956518 original size:17 final size:15
Alignment explanation
Indices: 19956487--19956520 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
19956477 AAAAATATAA
19956487 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
19956502 AATATAAAATATAAAAT
1 AATA-AAAATA-AAAAT
19956519 AA
1 AA
19956521 AAGCCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:19956764 original size:43 final size:42
Alignment explanation
Indices: 19956698--19956856 Score: 162
Period size: 42 Copynumber: 3.8 Consensus size: 42
19956688 TTTTATCAAA
* *
19956698 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTG-GAAAAATAAATG
* * * *
19956741 GCTCTTCTAATCAGAGGTTCAACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAATG
** * *
19956783 GCTCCTCTAAACAGAGGCATC-AC-TTTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGC-TCAACGACTTTGGAAAAATAAATG
* * *
19956823 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAA
19956857 GTAAATTGCA
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 28 0.29
41 10 0.10
42 29 0.30
43 29 0.30
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAAATAAATG
Found at i:19956827 original size:40 final size:40
Alignment explanation
Indices: 19956765--19956865 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
19956755 AGGTTCAACG
* *
19956765 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCATCACT
1 ACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCA-T
*
19956807 -TTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
1 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
19956846 GACTTTGGAAAGTAAATTGC
1 -ACTTTGGAAAGTAAATTGC
19956866 ACCATGACTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 30 0.57
41 22 0.42
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (40 bp):
ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
Found at i:19956867 original size:25 final size:25
Alignment explanation
Indices: 19956839--19956890 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
19956829 CTAAACAGAG
19956839 GCACCATGACTTTGGAAAGTAAATT
1 GCACCATGACTTTGGAAAGTAAATT
19956864 GCACCATGACTTTGGAAAGTAAATT
1 GCACCATGACTTTGGAAAGTAAATT
19956889 GC
1 GC
19956891 TCCTCTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (25 bp):
GCACCATGACTTTGGAAAGTAAATT
Found at i:19956914 original size:66 final size:66
Alignment explanation
Indices: 19956808--19956931 Score: 239
Period size: 66 Copynumber: 1.9 Consensus size: 66
19956798 GGCATCACTT
19956808 TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATTGCACCATGA
1 TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATTGCACCATGA
19956873 C
66 C
*
19956874 TTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCATGACTTTGGAAAGTAAATTGC
1 TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATTGC
19956932 TCCTTGACAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (66 bp):
TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATTGCACCATGA
C
Found at i:19957790 original size:17 final size:17
Alignment explanation
Indices: 19957768--19957853 Score: 127
Period size: 17 Copynumber: 5.1 Consensus size: 17
19957758 ATAAATACCT
* *
19957768 TAATTATCACTAAGGTC
1 TAATTATCACAAAGGTG
19957785 TAATTATCACAAAGGTG
1 TAATTATCACAAAGGTG
*
19957802 TAATTATCGCAAAGGTG
1 TAATTATCACAAAGGTG
* *
19957819 TAATTATCACAAAGCTA
1 TAATTATCACAAAGGTG
19957836 TAATTATCACAAAGGTG
1 TAATTATCACAAAGGTG
19957853 T
1 T
19957854 TCTCCGGCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 61 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (17 bp):
TAATTATCACAAAGGTG
Found at i:19964178 original size:48 final size:47
Alignment explanation
Indices: 19964074--19964552 Score: 547
Period size: 48 Copynumber: 10.0 Consensus size: 47
19964064 CCTTTCCAAG
* *
19964074 AAGAGAA-TTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTT
* *
19964120 AAGATG-ATTTTTAAAGTTGTTGAGCCTTTTGTTGAGAGGAGCTTTTTT
1 AAGA-GAATTTTTAAAGTTGTTGAGCC-TCTGCTGAGAGGAGCTTTTTT
19964168 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT--T
* ** *
19964217 ATGAG-ATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGCTTTTTT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTT
*
19964263 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTTCAT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT--T
* * * * * *
19964312 ATGAG-ATTTTTGAAGTTGTCGAACCTCTGTTGAAAGGAGCTTTTTT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTT
*
19964358 AAGAGAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT--T
* * **
19964407 ATA-AG-ATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCC
1 A-AGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTT
* * * *
19964454 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAACCTTTTTC
1 AAGA-GA-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG-GAGCTTTTTT
* *
19964504 AAGATAAAATTTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCTTTTTT
1 AAG--AGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTT
19964553 TTCAGATTTT
Statistics
Matches: 368, Mismatches: 44, Indels: 39
0.82 0.10 0.09
Matches are distributed among these distances:
46 16 0.04
47 111 0.30
48 146 0.40
49 25 0.07
50 67 0.18
51 2 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (47 bp):
AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTT
Found at i:19964195 original size:95 final size:94
Alignment explanation
Indices: 19964074--19964552 Score: 631
Period size: 95 Copynumber: 5.0 Consensus size: 94
19964064 CCTTTCCAAG
*
19964074 AAGAGAA-TTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTCA-AGATGATTTTTAAAGT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCATAGA-GATTTTTAAAGT
*
19964137 TGTTGAGCCTTTTGTTGAGAGGAGCTTTTTT
65 TGTTGAGCC-TCTGTTGAGAGGAGCTTTTTT
19964168 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCATATGAGATTTTTAAAGT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCATA-GAGATTTTTAAAGT
* *
19964233 TGTTGAGCCTCTATTGAAAGGAGCTTTTTT
65 TGTTGAGCCTCTGTTGAGAGGAGCTTTTTT
* *
19964263 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTTCATATGAGATTTTTGAAGT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCATA-GAGATTTTTAAAGT
* * *
19964328 TGTCGAACCTCTGTTGAAAGGAGCTTTTTT
65 TGTTGAGCCTCTGTTGAGAGGAGCTTTTTT
* *
19964358 AAGAGAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCATATAAGATTTTTAAAGT
1 AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCATA-GAGATTTTTAAAGT
* * * **
19964423 TATTGAGCCTCTGCTGAGAGGAGCCCTTTCC
65 TGTTGAGCCTCTGTTGAGAGGAG-CTTTTTT
* * * *
19964454 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAACCTTTTTCA-AGATAAAATTTTT
1 AAGA-GA-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAG-GAGCTTTTTCATAG---AGATTTTT
* *
19964518 AAAGTTGTTGAGCTTCTGCTGAGAGGAGCTTTTTT
60 AAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTT
19964553 TTCAGATTTT
Statistics
Matches: 343, Mismatches: 32, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
94 7 0.02
95 226 0.66
96 30 0.09
97 4 0.01
98 30 0.09
99 13 0.04
100 33 0.10
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (94 bp):
AAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCATAGAGATTTTTAAAGTT
GTTGAGCCTCTGTTGAGAGGAGCTTTTTT
Found at i:19964301 original size:190 final size:192
Alignment explanation
Indices: 19964024--19964552 Score: 728
Period size: 190 Copynumber: 2.7 Consensus size: 192
19964014 TTGAGAAAAG
* * * *
19964024 ATAAAATTTTTAAAGTTGTTGAGCTTCTATT-AAGGGGAGCCCTTTCCAAGAAGAGAATTTTAAA
1 ATAAGATTTTTAAAGTTGTTGAGCCTCTATTGAA-AGGAGCCCTTTCCAAG-AGAGATTTTTAAA
* * *
19964088 GTTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGATTTTTAAAGTTGTTGAGCCTTTTGTT
64 GTTGTTGAGCCTCTGCTGAGAGGAACTTTTTCAAGATGATTTTTAAAGTTGTTGAGCCTTCTGTT
*
19964153 GAGAGGAGCTTTTTTAAGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAT
129 GAGAGGAGCTTTTTTAAGAGAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAT
* * **
19964217 ATGAGATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAG-CTTTTTTAAGAGA-ATTTTTAAAGT
1 ATAAGATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGCCCTTTCCAAGAGAGATTTTTAAAGT
* * *
19964280 TGTTGAGCCTCTGCTGAGAGGAACTTTTTCATATGA-GATTTTTGAAGTTGTCGAACC-TCTGTT
66 TGTTGAGCCTCTGCTGAGAGGAACTTTTTCA-A-GATGATTTTTAAAGTTGTTGAGCCTTCTGTT
*
19964343 GAAAGGAGCTTTTTTAAGAGAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAT
129 GAGAGGAGCTTTTTTAAGAGAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAT
* ** *
19964407 ATAAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCCCTTTCCAAGATGAGATTTTTAAAG
1 ATAAGATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGCCCTTTCCAAGA-GAGATTTTTAAAG
* * *
19964472 TTGTTGAGCCTCTGCTGAAAGAAACCTTTTTCAAGATAAAATTTTTAAAGTTGTTGAG-CTTCTG
65 TTGTTGAGCCTCTGCTGAGAGGAA-CTTTTTCAAGAT--GATTTTTAAAGTTGTTGAGCCTTCTG
*
19964536 CTGAGAGGAGCTTTTTT
127 TTGAGAGGAGCTTTTTT
19964553 TTCAGATTTT
Statistics
Matches: 293, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
190 140 0.48
191 30 0.10
192 13 0.04
193 65 0.22
194 11 0.04
195 34 0.12
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.38
Consensus pattern (192 bp):
ATAAGATTTTTAAAGTTGTTGAGCCTCTATTGAAAGGAGCCCTTTCCAAGAGAGATTTTTAAAGT
TGTTGAGCCTCTGCTGAGAGGAACTTTTTCAAGATGATTTTTAAAGTTGTTGAGCCTTCTGTTGA
GAGGAGCTTTTTTAAGAGAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAT
Found at i:19966006 original size:20 final size:21
Alignment explanation
Indices: 19965973--19966012 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19965963 GTTAATTTTT
*
19965973 AAAATGAACTTTAAAAATAAA
1 AAAATAAACTTTAAAAATAAA
*
19965994 AAAATAAAC-TTAATAATAA
1 AAAATAAACTTTAAAAATAA
19966013 TACCAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (21 bp):
AAAATAAACTTTAAAAATAAA
Found at i:19977099 original size:30 final size:32
Alignment explanation
Indices: 19977048--19977110 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
19977038 AAATTTATAT
19977048 TTTACATTTAAATAAATTTTAA-A-TAATAAA
1 TTTACATTTAAATAAATTTTAATATTAATAAA
* *
19977078 TTTACATTT-TATAAGTATTTAATATTAATAAA
1 TTTACATTTAAATAAAT-TTTAATATTAATAAA
19977110 T
1 T
19977111 ATAATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.18
30 14 0.50
31 1 0.04
32 8 0.29
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (32 bp):
TTTACATTTAAATAAATTTTAATATTAATAAA
Found at i:19979621 original size:73 final size:72
Alignment explanation
Indices: 19979524--19979725 Score: 287
Period size: 72 Copynumber: 2.8 Consensus size: 72
19979514 ACAAAGATTA
* *
19979524 TATTTTTTAATCTTAAAAACGTGATTTTTATTAAAATTTTAAAAATTTTGAAAATAAAATTTTAA
1 TATTTTTT-ATCTTAAAAATGTGATTTTTATTAAAATTTT-AAAATTTTAAAAATAAAATTTTAA
19979589 CATCCACTG
64 CATCCACTG
* * *
19979598 TATTTTTTATATTAAAAATGTGATTTTTATTAAAATTTTAAAATTTTCAAAACAAAATTTTAACA
1 TATTTTTTATCTTAAAAATGTGATTTTTATTAAAATTTTAAAATTTTAAAAATAAAATTTTAACA
* *
19979663 TTCATTG
66 TCCACTG
* * * *
19979670 TATATTTTATCTTAAAAATGTAATCTTTATTAAGATTTTAAAATTTTAAAAATAAA
1 TATTTTTTATCTTAAAAATGTGATTTTTATTAAAATTTTAAAATTTTAAAAATAAA
19979726 GTTTAAATGT
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
72 78 0.68
73 29 0.25
74 8 0.07
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (72 bp):
TATTTTTTATCTTAAAAATGTGATTTTTATTAAAATTTTAAAATTTTAAAAATAAAATTTTAACA
TCCACTG
Found at i:19980860 original size:9 final size:9
Alignment explanation
Indices: 19980846--19980900 Score: 74
Period size: 9 Copynumber: 5.8 Consensus size: 9
19980836 TAAATTATAA
19980846 AAAAATTCT
1 AAAAATTCT
19980855 AAAAATTCT
1 AAAAATTCT
*
19980864 AAAAATTTT
1 AAAAATTCT
19980873 AAACAATTCT
1 AAA-AATTCT
19980883 AAAAAAATTCT
1 --AAAAATTCT
19980894 AAAAATT
1 AAAAATT
19980901 TTTAAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
9 27 0.66
10 5 0.12
11 6 0.15
12 3 0.07
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATTCT
Found at i:19980868 original size:10 final size:10
Alignment explanation
Indices: 19980845--19980939 Score: 72
Period size: 10 Copynumber: 9.7 Consensus size: 10
19980835 TTAAATTATA
19980845 AAAAAATTCT
1 AAAAAATTCT
19980855 -AAAAATTCT
1 AAAAAATTCT
*
19980864 -AAAAATTTT
1 AAAAAATTCT
*
19980873 AAACAATTCT
1 AAAAAATTCT
19980883 AAAAAAATTCT
1 -AAAAAATTCT
* *
19980894 AAAAATTTTT
1 AAAAAATTCT
19980904 AAAAATATT-T
1 AAAAA-ATTCT
** *
19980914 TTAAAACT-T
1 AAAAAATTCT
19980923 AAAAAATTCT
1 AAAAAATTCT
*
19980933 CAAAAAT
1 AAAAAAT
19980940 ATTGAATTTT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
9 25 0.37
10 31 0.46
11 11 0.16
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:19980893 original size:11 final size:11
Alignment explanation
Indices: 19980837--19980898 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
19980827 ATTTATTTTT
*
19980837 AAATTATAAAA
1 AAATTCTAAAA
19980848 AAATTCT--AA
1 AAATTCTAAAA
19980857 AAATTCT--AA
1 AAATTCTAAAA
*
19980866 AAATT-TTAAA
1 AAATTCTAAAA
*
19980876 CAATTCTAAAA
1 AAATTCTAAAA
19980887 AAATTCTAAAA
1 AAATTCTAAAA
19980898 A
1 A
19980899 TTTTTAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
8 1 0.02
9 16 0.36
10 6 0.14
11 21 0.48
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTCTAAAA
Done.