Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 57 of 190
Found at i:9399862 original size:23 final size:23
Alignment explanation
Indices: 9399802--9399856 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
9399792 TGAGGTATTT
*
9399802 AAAAAAAGGTAAAAAAAAAGTAAA
1 AAAAAAAGGCAAAAAAAAAG-AAA
*
9399826 AAAAAAGGGCAAAAAAAAA-AAA
1 AAAAAAAGGCAAAAAAAAAGAAA
9399848 AACAAAAAG
1 AA-AAAAAG
9399857 TGAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 17 0.63
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.04
Consensus pattern (23 bp):
AAAAAAAGGCAAAAAAAAAGAAA
Found at i:9400861 original size:120 final size:120
Alignment explanation
Indices: 9400666--9400927 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 120
9400656 TCATCCTTGG
** ** *
9400666 CATTCATCTTTGACCTCAACTTGATCTCGATCACTTTACCTTTTAGGCTTGTAGTTTTGTCTTGG
1 CATTCATCTTTGACCTCAACTTGATCTCGATCACTTTACCTTTTAGGCTTACAGTTTCATCTTGA
* * *
9400731 TCATTCGATCTCGGCTCAGTCTATATCATTTTTTTAACTTGCAATTTTTTTTCGAT
66 TCATTCGATCTCGGCTCAGT-TAGATCATTTTTTTAACTTGCAATTTTATCTCGAT
* * * *** *
9400787 CATTCATCTTTGACCTCGACTTGATTTTG-TTGTTTTATCTTTTAGGCTTACAGTTTCATCTTGA
1 CATTCATCTTTGACCTCAACTTGATCTCGATCACTTTACCTTTTAGGCTTACAGTTTCATCTTGA
* * * * *
9400851 TCATTTGATCTTGGCTTAGTTAGATCATTTTTTTTACTTGCGATTTTATCTCGAT
66 TCATTCGATCTCGGCTCAGTTAGATCATTTTTTTAACTTGCAATTTTATCTCGAT
* * * *
9400906 TATTCATTTTTTACTTCAACTT
1 CATTCATCTTTGACCTCAACTT
9400928 AATCATGGTC
Statistics
Matches: 116, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
119 47 0.41
120 43 0.37
121 26 0.22
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.50
Consensus pattern (120 bp):
CATTCATCTTTGACCTCAACTTGATCTCGATCACTTTACCTTTTAGGCTTACAGTTTCATCTTGA
TCATTCGATCTCGGCTCAGTTAGATCATTTTTTTAACTTGCAATTTTATCTCGAT
Found at i:9400944 original size:120 final size:120
Alignment explanation
Indices: 9400666--9400949 Score: 282
Period size: 120 Copynumber: 2.4 Consensus size: 120
9400656 TCATCCTTGG
* * * * ** ** *
9400666 CATTCATCTTTGACCTCAACTTGATCTCGATCACTTTACCTTTTAGGCTTGTAGTTTTGTCTTGG
1 CATTCATCTTTGACCTCAACTTAATAT-GGTCACTTTATCTTTTAGGCTTACAGTTTCATCTTGA
* * *
9400731 TCATTCGATCTCGGCTCAGTCTATATCATTTTTTTAACTTGCAATTTTTTTTCGAT
65 TCATTCGATCTCGGCTCAGTCTAGATCATTTTTTTAACTTGCAATTTTATCTCGAT
* * * * ***
9400787 CATTCATCTTTGACCTCGACTTGATTTTGTTGTTTTATCTTTTAGGCTTACAGTTTCATCTTGAT
1 CATTCATCTTTGACCTCAACTTAATATGGTCACTTTATCTTTTAGGCTTACAGTTTCATCTTGAT
* * * * *
9400852 CATTTGATCTTGGCTTAGT-TAGATCATTTTTTTTACTTGCGATTTTATCTCGAT
66 CATTCGATCTCGGCTCAGTCTAGATCATTTTTTTAACTTGCAATTTTATCTCGAT
* * * * *
9400906 TATTCATTTTTTACTTCAACTTAATCATGGTCACTTTATTTTTT
1 CATTCATCTTTGACCTCAACTTAAT-ATGGTCACTTTATCTTTT
9400950 GGACTCACTA
Statistics
Matches: 129, Mismatches: 33, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
119 49 0.38
120 55 0.43
121 25 0.19
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (120 bp):
CATTCATCTTTGACCTCAACTTAATATGGTCACTTTATCTTTTAGGCTTACAGTTTCATCTTGAT
CATTCGATCTCGGCTCAGTCTAGATCATTTTTTTAACTTGCAATTTTATCTCGAT
Found at i:9401562 original size:5 final size:5
Alignment explanation
Indices: 9401548--9401738 Score: 121
Period size: 5 Copynumber: 37.6 Consensus size: 5
9401538 GTTATCATAC
* * *
9401548 TATAC TATAT TATAT TGTAT CATAT TAT-T T-TAT TATAT TATA- T-TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * *
9401594 TATTAT TATTAT TATAT TATAT TATAT TATAA TATA- T-TAG TATAT TACAT
1 TA-TAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
*
9401644 TACTACT ACTACTAT TATTAT TATAT CATAT CT-TAT TATAT TATAT TATAT
1 TA-TA-T --TA-TAT TA-TAT TATAT TATAT -TATAT TATAT TATAT TATAT
* * *
9401695 TATAC TATAT TATAA TA-AT AATAAT TATTAT TATTAT T-TAT TAT
1 TATAT TATAT TATAT TATAT TAT-AT TA-TAT TA-TAT TATAT TAT
9401739 TATTGTTATT
Statistics
Matches: 151, Mismatches: 18, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
3 5 0.03
4 15 0.10
5 92 0.61
6 31 0.21
7 2 0.01
8 1 0.01
9 5 0.03
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:9401583 original size:3 final size:3
Alignment explanation
Indices: 9401570--9401757 Score: 116
Period size: 3 Copynumber: 66.3 Consensus size: 3
9401560 TATTGTATCA
9401570 TAT TAT T-T TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
9401613 TAT TA- TAT TAT AAT ATAT TAG TA- TAT TA- CAT TAC TAC TAC TAC
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9401656 TAT TAT TAT TA- TAT CAT ATCT TAT TA- TAT TA- TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
9401697 TAC TA- TAT TAT AAT AAT AAT AAT TAT TAT TAT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
*
9401742 TGT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
9401758 TAGTTTATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
2 27 0.18
3 120 0.78
4 6 0.04
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:9404237 original size:24 final size:24
Alignment explanation
Indices: 9404191--9404237 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9404181 TAAAATAATG
* *
9404191 TTGTAGAGATGTAACCTAGCAAAC
1 TTGTAGAGATGCAACCTAACAAAC
*
9404215 TTGTAGAGATGCAATCTAACAAA
1 TTGTAGAGATGCAACCTAACAAA
9404238 ATCTAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (24 bp):
TTGTAGAGATGCAACCTAACAAAC
Found at i:9404648 original size:25 final size:23
Alignment explanation
Indices: 9404586--9404648 Score: 54
Period size: 25 Copynumber: 2.6 Consensus size: 23
9404576 AATATTACGT
* *
9404586 GTTTGTGTTTATTTGATATTTAA
1 GTTTTTGTTTATTTAATATTTAA
* **
9404609 ATTTTTGATGCATTTAATATTATAA
1 GTTTTTG-TTTATTTAATATT-TAA
9404634 GTTTTTGTTATATTT
1 GTTTTTGTT-TATTT
9404649 GTATTAATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
23 5 0.17
24 11 0.38
25 13 0.45
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (23 bp):
GTTTTTGTTTATTTAATATTTAA
Found at i:9404772 original size:14 final size:14
Alignment explanation
Indices: 9404753--9404794 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
9404743 TATCTTTATA
9404753 TTAAATAAAAAATT
1 TTAAATAAAAAATT
* *
9404767 TTAAAT-AAATATA
1 TTAAATAAAAAATT
*
9404780 TTATATAAAAAATT
1 TTAAATAAAAAATT
9404794 T
1 T
9404795 ACCCCCACTG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAATAAAAAATT
Found at i:9409955 original size:38 final size:38
Alignment explanation
Indices: 9409880--9409975 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
9409870 AAAAATGAAA
* * ** **
9409880 ATAATAAGATAATACATGTACCCCATCTCATGTAAATC
1 ATAATAAGATAATATATGCATTCCATCTCATCCAAATC
9409918 ATAATAAGATAATATATGCATTCCATCTCATCCAAATC
1 ATAATAAGATAATATATGCATTCCATCTCATCCAAATC
9409956 --AAT-AGATAGA-ATATGCATTC
1 ATAATAAGATA-ATATATGCATTC
9409976 TATTTCATGC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
35 15 0.29
36 4 0.08
38 32 0.63
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (38 bp):
ATAATAAGATAATATATGCATTCCATCTCATCCAAATC
Found at i:9414240 original size:13 final size:13
Alignment explanation
Indices: 9414224--9414258 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
9414214 AATGCTTTAT
*
9414224 AAAAAAAGAATAA
1 AAAAAAAGAAGAA
9414237 AAAAAAAG-AGAA
1 AAAAAAAGAAGAA
9414249 AAAAAAAGAA
1 AAAAAAAGAA
9414259 AGGGAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:9414260 original size:16 final size:16
Alignment explanation
Indices: 9414230--9414277 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
9414220 TTATAAAAAA
*
9414230 AGAATAAAAAA-AAAG
1 AGAAAAAAAAAGAAAG
9414245 AGAAAAAAAAAGAAAG
1 AGAAAAAAAAAGAAAG
* *
9414261 GGAAGAAAAAAGAAAG
1 AGAAAAAAAAAGAAAG
9414277 A
1 A
9414278 TAACAAGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (16 bp):
AGAAAAAAAAAGAAAG
Found at i:9415020 original size:30 final size:30
Alignment explanation
Indices: 9414984--9415047 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
9414974 CGAAATTAAT
* * * *
9414984 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATAATTA
*
9415014 AAAATATCATTATATAAATATATATAATTA
1 AAAATATCATTATATAAATATAAATAATTA
9415044 AAAA
1 AAAA
9415048 CTTAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATAATTA
Found at i:9415985 original size:145 final size:152
Alignment explanation
Indices: 9415683--9416023 Score: 367
Period size: 158 Copynumber: 2.2 Consensus size: 152
9415673 GAATCTTAGA
* *
9415683 AATTTAAGAAAGGAGAATGCTAAAGTTGAAGTCAAATGTTATAAAAAAAAAGAGTAAAAGAAAAA
1 AATTCAAGAAAGAAGAATGCTAAAGTTGAAGTCAAATGTTATAAAAAAAAAGAGT---AGAAAAA
* ** * * * * *
9415748 AAAGACATGCATCTCGGAGATGAGAGTTTAGGGCAAAAAGTGAATGAAGCTTCAGTTAGTATCTC
63 AAAGACATGCACCTCAAAGATGAGAATTGAGGACAAAAAGTGAATGAAGCTTCAGCTAGAATCT-
9415813 AAGTAAAAGAAAAAAGAAAAGAAGATAG
127 -A-TAAAAGAAAAAAGAAAAGAAGATAG
*
9415841 AATTCAAGAAAGAAGAATGCTAAAGTTGAAGTCAAATGTTATAAAAAAAAA-AGT-GAAAAAGGA
1 AATTCAAGAAAGAAGAATGCTAAAGTTGAAGTCAAATGTTATAAAAAAAAAGAGTAGAAAAA-AA
* * *
9415904 ATACATGCACCTCAAAGATGAGAATTCGA-GACAAAAAGTGAATTAAGTTTCAGCTAGAAT-T-T
65 AGACATGCACCTCAAAGATGAGAATT-GAGGACAAAAAGTGAATGAAGCTTCAGCTAGAATCTAT
* * *
9415966 -TAA-CAAAAA-AAAA-TAGATAG
129 AAAAGAAAAAAGAAAAGAAGATAG
* * *
9415986 GATTCAAGAAAGTAGAATGCTAAAGTTAAAGTCAAATG
1 AATTCAAGAAAGAAGAATGCTAAAGTTGAAGTCAAATG
9416024 ATTTTTTTTT
Statistics
Matches: 161, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
145 41 0.25
146 4 0.02
147 5 0.03
148 2 0.01
149 1 0.01
153 7 0.04
154 48 0.30
155 1 0.01
157 3 0.02
158 49 0.30
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.21
Consensus pattern (152 bp):
AATTCAAGAAAGAAGAATGCTAAAGTTGAAGTCAAATGTTATAAAAAAAAAGAGTAGAAAAAAAA
GACATGCACCTCAAAGATGAGAATTGAGGACAAAAAGTGAATGAAGCTTCAGCTAGAATCTATAA
AAGAAAAAAGAAAAGAAGATAG
Found at i:9417035 original size:86 final size:87
Alignment explanation
Indices: 9416924--9417085 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 87
9416914 TACATTTGCA
* * * * ** * *
9416924 TCACTTACATGTGTATTATGAAAAAGATATTTAATCTACCTATTGTAAAAA-CAAAAAAGACATT
1 TCACTGACATGTGCATCATGAAAAAGACATTTAATCTACCTATTACAAAAATAAAAAAAAACATT
9416988 CGCATTTGCATTACTTTTATTT
66 CGCATTTGCATTACTTTTATTT
* * * *
9417010 TCACTGACATGTGCATCATGGAAAAGACATTTGATCTACGTGTTACAAAAATAAAAAAAAACATT
1 TCACTGACATGTGCATCATGAAAAAGACATTTAATCTACCTATTACAAAAATAAAAAAAAACATT
9417075 CGCATTTGCAT
66 CGCATTTGCAT
9417086 CACTCGCATT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 41 0.65
87 22 0.35
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (87 bp):
TCACTGACATGTGCATCATGAAAAAGACATTTAATCTACCTATTACAAAAATAAAAAAAAACATT
CGCATTTGCATTACTTTTATTT
Found at i:9417817 original size:32 final size:32
Alignment explanation
Indices: 9417731--9417818 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
9417721 AGATAAGATT
* *
9417731 TAAGTCCAATT-TAACTAGCACATAGATCAAAC
1 TAAGTCC-ATTCTAGCTAGCACCTAGATCAAAC
* * *
9417763 TAAGCCCAATCTAGCTAACACCTAGATCAAAC
1 TAAGTCCATTCTAGCTAGCACCTAGATCAAAC
*
9417795 TAAGTCCATTCTAGCTGGCACCTA
1 TAAGTCCATTCTAGCTAGCACCTA
9417819 AATGATATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 2 0.04
32 44 0.96
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (32 bp):
TAAGTCCATTCTAGCTAGCACCTAGATCAAAC
Found at i:9417904 original size:23 final size:23
Alignment explanation
Indices: 9417878--9417944 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 23
9417868 GTTTATCTGG
9417878 CACTTTAAGCCCAAATTAGCTAA
1 CACTTTAAGCCCAAATTAGCTAA
* * *
9417901 CACTTTAAG-CCAACTTAACTAG
1 CACTTTAAGCCCAAATTAGCTAA
* *
9417923 TACTTTAAGCCCAGATTAGCTA
1 CACTTTAAGCCCAAATTAGCTA
9417945 GCACCGATAG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.28
Consensus pattern (23 bp):
CACTTTAAGCCCAAATTAGCTAA
Found at i:9418567 original size:29 final size:26
Alignment explanation
Indices: 9418532--9418617 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 26
9418522 TGTTCAAAAT
9418532 AAAAAAAAAATCAAAAAGTCAAAAATCA
1 AAAAAAAAAATCAAAAA--CAAAAATCA
*
9418560 AAACAAAATAAGAACAAAAACAAAAATCA
1 AAA-AAAA-AA-ATCAAAAACAAAAATCA
* *
9418589 AGAAAAAAAATACAAACAAAAAAAATCA
1 AAAAAAAAAAT-CAAA-AACAAAAATCA
9418617 A
1 A
9418618 TCACAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.02
27 6 0.12
28 18 0.37
29 15 0.31
30 2 0.04
31 7 0.14
ACGTcount: A:0.77, C:0.12, G:0.03, T:0.08
Consensus pattern (26 bp):
AAAAAAAAAATCAAAAACAAAAATCA
Found at i:9418599 original size:31 final size:29
Alignment explanation
Indices: 9418527--9418627 Score: 77
Period size: 31 Copynumber: 3.5 Consensus size: 29
9418517 AAAGTTGTTC
* **
9418527 AAAATAAAAAAAAAAT-C-AA-AAAGTCA
1 AAAATCAAAAAAAAATACAAACAAAAACA
*
9418553 AAAATCAAAACAAAATA-AGAACAAAAACA
1 AAAATCAAAAAAAAATACA-AACAAAAACA
9418582 AAAATCAAGAAAAAAAATACAAACAAAAA-A
1 AAAATC-A-AAAAAAAATACAAACAAAAACA
*
9418612 AATCAATCACAAAAAA
1 AA--AATCAAAAAAAA
9418628 CCAATAAAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
26 14 0.23
28 2 0.03
29 11 0.18
30 10 0.17
31 18 0.30
32 5 0.08
ACGTcount: A:0.76, C:0.12, G:0.03, T:0.09
Consensus pattern (29 bp):
AAAATCAAAAAAAAATACAAACAAAAACA
Found at i:9418625 original size:14 final size:14
Alignment explanation
Indices: 9418581--9418641 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
9418571 GAACAAAAAC
*
9418581 AAAAATCAA-GAAA
1 AAAAATCAATCAAA
*
9418594 AAAAATACAAACAAA
1 AAAAAT-CAATCAAA
*
9418609 AAAAATCAATCACA
1 AAAAATCAATCAAA
*
9418623 AAAAACCAAT-AAA
1 AAAAATCAATCAAA
9418636 GAAAAA
1 -AAAAA
9418642 AAAATTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
13 8 0.20
14 23 0.57
15 9 0.22
ACGTcount: A:0.75, C:0.13, G:0.03, T:0.08
Consensus pattern (14 bp):
AAAAATCAATCAAA
Found at i:9421262 original size:17 final size:18
Alignment explanation
Indices: 9421236--9421270 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9421226 ATAATTATAT
9421236 TATTACATAAATTTTAAA
1 TATTACATAAATTTTAAA
*
9421254 TATTA-ATAATTTTTAAA
1 TATTACATAAATTTTAAA
9421271 AACGCAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTACATAAATTTTAAA
Found at i:9423973 original size:40 final size:41
Alignment explanation
Indices: 9423918--9424001 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 41
9423908 ATATTACCAT
* * *
9423918 TATGATTTTTCAAAAGATAGCAAATGCTACCTAAGAG-TTA
1 TATGATCTTTCAAAAGATACCAAAAGCTACCTAAGAGTTTA
9423958 TATGATCTTTCAAAAGATACCAAAAGCTACCTAAGAGTTTA
1 TATGATCTTTCAAAAGATACCAAAAGCTACCTAAGAGTTTA
9423999 TAT
1 TAT
9424002 TTTTTTTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 34 0.85
41 6 0.15
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (41 bp):
TATGATCTTTCAAAAGATACCAAAAGCTACCTAAGAGTTTA
Found at i:9424261 original size:2 final size:2
Alignment explanation
Indices: 9424242--9424287 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
9424232 TAAATAGTAA
*
9424242 AT AT AT TT A- AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9424282 AA AT AT
1 AT AT AT
9424288 GAATCCTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9427945 original size:28 final size:29
Alignment explanation
Indices: 9427898--9427954 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
9427888 ATTTTTTGTT
9427898 TTTGAATTAAAATTAAAA-TTAAAATTTA
1 TTTGAATTAAAATTAAAATTTAAAATTTA
* *
9427926 TTTGAATT-AAATTATTAATTTTAAATTTA
1 TTTGAATTAAAATTA-AAATTTAAAATTTA
9427955 GTAGTTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 10 0.40
29 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTTGAATTAAAATTAAAATTTAAAATTTA
Found at i:9428010 original size:15 final size:16
Alignment explanation
Indices: 9427979--9428011 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9427969 TATTTGATAT
*
9427979 ATAAAATTATAATAAG
1 ATAAAATAATAATAAG
9427995 ATAAAATAAT-ATAAG
1 ATAAAATAATAATAAG
9428010 AT
1 AT
9428012 TATAGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATAAAATAATAATAAG
Found at i:9430041 original size:18 final size:19
Alignment explanation
Indices: 9430011--9430056 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
9430001 CTCATATTGC
9430011 ACATGCTTTTATGACTCAA
1 ACATGCTTTTATGACTCAA
9430030 ACATGC-TTTATGACTCAA
1 ACATGCTTTTATGACTCAA
9430048 ACATG-TTTT
1 ACATGCTTTT
9430057 CTTATTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (19 bp):
ACATGCTTTTATGACTCAA
Found at i:9430779 original size:3 final size:3
Alignment explanation
Indices: 9430771--9430819 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
9430761 AATTTTTTAA
9430771 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9430819 A
1 A
9430820 GCAATTGATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9431106 original size:42 final size:42
Alignment explanation
Indices: 9431047--9431132 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
9431037 TTAGTTGAGT
* * **
9431047 TGTGTTAGATTAGGATGCATATATTG-AGGGGGAGTTTTGCCA
1 TGTGTTAGATTAAGATGCATAAATTGTA-GAAGAGTTTTGCCA
*
9431089 TGTGTTGGATTAAGATGCATAAATTGTAGAAGAGTTTTGCCA
1 TGTGTTAGATTAAGATGCATAAATTGTAGAAGAGTTTTGCCA
9431131 TG
1 TG
9431133 CGGGAGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.30, T:0.36
Consensus pattern (42 bp):
TGTGTTAGATTAAGATGCATAAATTGTAGAAGAGTTTTGCCA
Found at i:9433790 original size:73 final size:73
Alignment explanation
Indices: 9433699--9433841 Score: 259
Period size: 73 Copynumber: 2.0 Consensus size: 73
9433689 ATCCTATGCC
* *
9433699 TTTTTGTAGAGATCGATCCCTTTTACTAGTTTTTCAATATTTTGGCTTTCTTGACAAATACCCAA
1 TTTTTCTAGAGATCGATCCCTTTTACTAATTTTTCAATATTTTGGCTTTCTTGACAAATACCCAA
9433764 TCAATAAT
66 TCAATAAT
*
9433772 TTTTTCTAGAGATTGATCCCTTTTACTAATTTTTCAATATTTTGGCTTTCTTGACAAATACCCAA
1 TTTTTCTAGAGATCGATCCCTTTTACTAATTTTTCAATATTTTGGCTTTCTTGACAAATACCCAA
9433837 TCAAT
66 TCAAT
9433842 CCTATATTAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (73 bp):
TTTTTCTAGAGATCGATCCCTTTTACTAATTTTTCAATATTTTGGCTTTCTTGACAAATACCCAA
TCAATAAT
Found at i:9436690 original size:3 final size:3
Alignment explanation
Indices: 9436682--9436717 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9436672 GGACTTCAAA
9436682 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9436718 TATTATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9441191 original size:12 final size:12
Alignment explanation
Indices: 9441176--9441220 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
9441166 GTTTTATCAC
*
9441176 TCATTCATTTGT
1 TCATTCATTTGA
9441188 TCATTCATTTGA
1 TCATTCATTTGA
*
9441200 TCATTCATTCGA
1 TCATTCATTTGA
*
9441212 TCATCCATT
1 TCATTCATT
9441221 CATTTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (12 bp):
TCATTCATTTGA
Found at i:9444230 original size:18 final size:18
Alignment explanation
Indices: 9444202--9444263 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
9444192 GAATGAGTGC
9444202 AAAAAATAGTAAAAAGAAG
1 AAAAAA-AGTAAAAAGAAG
*
9444221 AAAAAAAGT-AAAGGTAAG
1 AAAAAAAGTAAAAAG-AAG
* *
9444239 AAAAGAA-TAAAAAAAAG
1 AAAAAAAGTAAAAAGAAG
9444256 AACAAAAA
1 AA-AAAAA
9444264 AGAGATGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 10 0.29
18 19 0.54
19 6 0.17
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.08
Consensus pattern (18 bp):
AAAAAAAGTAAAAAGAAG
Found at i:9446068 original size:20 final size:20
Alignment explanation
Indices: 9446043--9446097 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
9446033 CTGTTAAGAA
*
9446043 AAAAAAAGAGAAAAATAAAT
1 AAAAAAAGAAAAAAATAAAT
** *
9446063 AAAAAATTACAAAAATAAAT
1 AAAAAAAGAAAAAAATAAAT
9446083 -AAAAAAGAAAAAAAT
1 AAAAAAAGAAAAAAAT
9446098 CTATCATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.13
Consensus pattern (20 bp):
AAAAAAAGAAAAAAATAAAT
Found at i:9449033 original size:51 final size:49
Alignment explanation
Indices: 9448897--9449123 Score: 197
Period size: 51 Copynumber: 4.4 Consensus size: 49
9448887 ATCAAAGGCA
* * * *
9448897 TTGAAAC-TTAAAAAGGTCTTGCTTGAAGATGGCTTCCC-CTAAATAGTAGTT
1 TTGAAACTTTAAAAA--TCTTGTTTGAAAATGGC-TCCCTTTAAATAG-AGGT
* *
9448948 TTGAAAGTCTTTTAAAAAAATCTTGTTTAAAAATGGCTCCTTTTAAATAGAGGT
1 TTGAAA--C-TTT--AAAAATCTTGTTTGAAAATGGCTCCCTTTAAATAGAGGT
* * *
9449002 TATGAAACTTTCAAAAATCCTGTTTGAAAATGGCTCCCTTTAAACAGAAGCT
1 T-TGAAACTTT-AAAAATCTTGTTTGAAAATGGCTCCCTTTAAATAG-AGGT
* * **
9449054 TTGACACTTTAACAAATTTTGTTTGAAAATGGCTCCCCCTAAATAGAGGCT
1 TTGAAACTTTAA-AAATCTTGTTTGAAAATGGCTCCCTTTAAATAGAGG-T
9449105 TTGAAACTTTAAAAATCTT
1 TTGAAACTTTAAAAATCTT
9449124 CTCTCTCTCT
Statistics
Matches: 144, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
50 10 0.07
51 85 0.59
52 7 0.05
53 2 0.01
54 7 0.05
55 28 0.19
57 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (49 bp):
TTGAAACTTTAAAAATCTTGTTTGAAAATGGCTCCCTTTAAATAGAGGT
Found at i:9449130 original size:2 final size:2
Alignment explanation
Indices: 9449123--9449175 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
9449113 TTAAAAATCT
*
9449123 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
9449165 TT TG TC TC TC T
1 TC TC TC TC TC T
9449176 TTTTAATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.43, G:0.02, T:0.55
Consensus pattern (2 bp):
TC
Found at i:9458613 original size:20 final size:21
Alignment explanation
Indices: 9458580--9458619 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9458570 GAGTCTCAAA
* *
9458580 TTTTCTTTTCTCAATTTCTTT
1 TTTTCTATTCTCAAGTTCTTT
9458601 TTTTCTATT-TCAAGTTCTT
1 TTTTCTATTCTCAAGTTCTT
9458620 GCTTAACAAG
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:0.12, C:0.17, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTCTATTCTCAAGTTCTTT
Found at i:9464684 original size:28 final size:28
Alignment explanation
Indices: 9464638--9465021 Score: 214
Period size: 29 Copynumber: 13.5 Consensus size: 28
9464628 ATGCAAGATA
* *
9464638 AGATCTTAAACCCAATTTAGCTAGCACAC
1 AGAT-TTAAGCCCAGTTTAGCTAGCACAC
* * * *
9464667 AGATTTAAACGCAGTTTAGCTTGCACCC
1 AGATTTAAGCCCAGTTTAGCTAGCACAC
* * *
9464695 AAATTTTAAGCCCAATTTAGCTAGCACAT
1 AGA-TTTAAGCCCAGTTTAGCTAGCACAC
* * *
9464724 AGAGTTAAGCACAGTTTAGCTAGCATAC
1 AGATTTAAGCCCAGTTTAGCTAGCACAC
**
9464752 AGATTTTAAGCCCAGTTTAGCTAGCATGC
1 AGA-TTTAAGCCCAGTTTAGCTAGCACAC
* * * * ** ** *
9464781 ATAGTTAAGCCTAATAAAATTGGCAC-C
1 AGATTTAAGCCCAGTTTAGCTAGCACAC
* * * *
9464808 TGAATTTAAGTCCAATTTAGTTAGCACAC
1 AG-ATTTAAGCCCAGTTTAGCTAGCACAC
* ** * **
9464837 AAATTTTAAGCATAGTTTAGCTGGCACGT
1 AGA-TTTAAGCCCAGTTTAGCTAGCACAC
* * **
9464866 AGATTTTAAGCCCAATTTAGCTATCATTC
1 AGA-TTTAAGCCCAGTTTAGCTAGCACAC
*
9464895 -GAATTTAAGCCTAGTTTAGCTAGCACAC
1 AG-ATTTAAGCCCAGTTTAGCTAGCACAC
* * * *
9464923 AAATCTTAAGCCTAGCTTAGCTAGCACTC
1 AGAT-TTAAGCCCAGTTTAGCTAGCACAC
* * * *
9464952 AAATTTAAGCTCAATTTAGCAAGCACAC
1 AGATTTAAGCCCAGTTTAGCTAGCACAC
* * *
9464980 AGATTTTAAGCCTAGTTTAGCTGGCATAC
1 AGA-TTTAAGCCCAGTTTAGCTAGCACAC
* *
9465009 ACAATTAAGCCCA
1 AGATTTAAGCCCA
9465022 AAACAATTGG
Statistics
Matches: 264, Mismatches: 82, Indels: 19
0.72 0.22 0.05
Matches are distributed among these distances:
27 1 0.00
28 128 0.48
29 135 0.51
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (28 bp):
AGATTTAAGCCCAGTTTAGCTAGCACAC
Found at i:9464739 original size:57 final size:57
Alignment explanation
Indices: 9464643--9465001 Score: 188
Period size: 57 Copynumber: 6.3 Consensus size: 57
9464633 AGATAAGATC
* * * * *
9464643 TTAAACCCAATTTAGCTAGCACACAGATTTAAACGCAGTTTAGCTTGCACCCAAATT
1 TTAAGCCCAATTTAGCTAGCACACAGAGTTAAACACAGTTTAGCTAGCACACAAATT
* * * *
9464700 TTAAGCCCAATTTAGCTAGCACATAGAGTTAAGCACAGTTTAGCTAGCATACAGATT
1 TTAAGCCCAATTTAGCTAGCACACAGAGTTAAACACAGTTTAGCTAGCACACAAATT
* ** * * * ** ** * *
9464757 TTAAGCCCAGTTTAGCTAGCATGCATAGTTAAGC-CTAATAAAATTGGCAC-CTGAA-T
1 TTAAGCCCAATTTAGCTAGCACACAGAGTTAAACAC-AGTTTAGCTAGCACAC-AAATT
* * * * * * * ** *
9464813 TTAAGTCCAATTTAGTTAGCACACAAATTTTAAGCATAGTTTAGCTGGCACGTAGATT
1 TTAAGCCCAATTTAGCTAGCACACAGA-GTTAAACACAGTTTAGCTAGCACACAAATT
* ** * * *
9464871 TTAAGCCCAATTTAGCTATCATTC-GAATTTAAGC-CTAGTTTAGCTAGCACACAAATC
1 TTAAGCCCAATTTAGCTAGCACACAG-AGTTAAACAC-AGTTTAGCTAGCACACAAATT
* ** * * * * * * * *
9464928 TTAAGCCTAGCTTAGCTAGCACTCAAATTTAAGCTCAATTTAGCAAGCACACAGATT
1 TTAAGCCCAATTTAGCTAGCACACAGAGTTAAACACAGTTTAGCTAGCACACAAATT
* *
9464985 TTAAGCCTAGTTTAGCT
1 TTAAGCCCAATTTAGCT
9465002 GGCATACACA
Statistics
Matches: 230, Mismatches: 62, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
56 24 0.10
57 184 0.80
58 22 0.10
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (57 bp):
TTAAGCCCAATTTAGCTAGCACACAGAGTTAAACACAGTTTAGCTAGCACACAAATT
Found at i:9464854 original size:114 final size:111
Alignment explanation
Indices: 9464699--9465057 Score: 301
Period size: 114 Copynumber: 3.1 Consensus size: 111
9464689 GCACCCAAAT
* * * * *
9464699 TTTAAGCCCAATTTAGCTAGCACATAGAGTTAAGCACAGTTTAGCTAGCATACAGATTTTAAGCC
1 TTTAAG-CCAATTTAGCTAGCACACAAATTTAAGCATAGTTTAGCTAGCACACAGATTTTAAGCC
* *
9464764 CAGTTTAGCTAGCATGCATAGTTAAGCCTAATAAAATTGGCACCTGAA
65 CAGTTTAGCTAGCATACA-AATTAAGCCTAATAAAATTGGCACCTGAA
* * **
9464812 TTTAAGTCCAATTTAGTTAGCACACAAATTTTAAGCATAGTTTAGCTGGCACGTAGATTTTAAGC
1 TTTAAG-CCAATTTAGCTAGCACACAAA-TTTAAGCATAGTTTAGCTAGCACACAGATTTTAAGC
* * * * * ** ** * *
9464877 CCAATTTAGCTATCATTCGAATTTAAGCCTAGTTTAGCTAGCACAC-AAA
64 CCAGTTTAGCTAGCATAC-AAATTAAGCCTAATAAAATTGGCAC-CTGAA
** * * *
9464926 TCTTAAGCCTAGCTTAGCTAGCACTCAAATTTAAGC-TCAATTTAGCAAGCACACAGATTTTAAG
1 T-TTAAGCC-AATTTAGCTAGCACACAAATTTAAGCAT-AGTTTAGCTAGCACACAGATTTTAAG
* * *
9464990 CCTAGTTTAGCTGGCATACACAATTAAGCCCAA-AACAATTGGCACCCTGAA
63 CCCAGTTTAGCTAGCATACA-AATTAAGCCTAATAA-AATTGGCA-CCTGAA
*
9465041 TTTAAGCTCAGTTTAGC
1 TTTAAGC-CAATTTAGC
9465058 AGGCATAGAT
Statistics
Matches: 190, Mismatches: 45, Indels: 21
0.74 0.18 0.08
Matches are distributed among these distances:
113 26 0.14
114 137 0.72
115 27 0.14
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (111 bp):
TTTAAGCCAATTTAGCTAGCACACAAATTTAAGCATAGTTTAGCTAGCACACAGATTTTAAGCCC
AGTTTAGCTAGCATACAAATTAAGCCTAATAAAATTGGCACCTGAA
Found at i:9464919 original size:86 final size:86
Alignment explanation
Indices: 9464653--9465001 Score: 237
Period size: 86 Copynumber: 4.1 Consensus size: 86
9464643 TTAAACCCAA
* * ** * * * *
9464653 TTTAGCTAGCACACAGAT-TTAAACGCAGTTTAGCTTGCACCCAAATTTTAAGCCCAATTTAGCT
1 TTTAGCTAGCACACAAATCTTAAGCATAGCTTAGCTAGCACTCAAA-TTTAAGCCCAATTTAGCA
* *
9464717 AGCACATAG-AGTTAAGCAC-AG
65 AGCACACAGAATTTAAGC-CTAG
* * * ** * * * * ** ***
9464738 TTTAGCTAGCATACAGATTTTAAGCCCAGTTTAGCTAGCA-TGCATAGTTAAGCCTAATAAAATT
1 TTTAGCTAGCACACAAATCTTAAGCATAGCTTAGCTAGCACT-CAAATTTAAGCCCAATTTAGCA
* * *
9464802 GGCAC-CTGAATTTAAGTCC-AA
65 AGCACACAGAATTTAAG-CCTAG
* * * * *
9464823 TTTAGTTAGCACACAAATTTTAAGCATAGTTTAGCTGGCACGT-AGATTTTAAGCCCAATTTAGC
1 TTTAGCTAGCACACAAATCTTAAGCATAGCTTAGCTAGCAC-TCA-AATTTAAGCCCAATTTAGC
* * **
9464887 TATCATTC-GAATTTAAGCCTAG
64 AAGCACACAGAATTTAAGCCTAG
* *
9464909 TTTAGCTAGCACACAAATCTTAAGCCTAGCTTAGCTAGCACTCAAATTTAAGCTCAATTTAGCAA
1 TTTAGCTAGCACACAAATCTTAAGCATAGCTTAGCTAGCACTCAAATTTAAGCCCAATTTAGCAA
*
9464974 GCACACAGATTTTAAGCCTAG
66 GCACACAGAATTTAAGCCTAG
9464995 TTTAGCT
1 TTTAGCT
9465002 GGCATACACA
Statistics
Matches: 206, Mismatches: 47, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
84 1 0.00
85 100 0.49
86 103 0.50
87 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (86 bp):
TTTAGCTAGCACACAAATCTTAAGCATAGCTTAGCTAGCACTCAAATTTAAGCCCAATTTAGCAA
GCACACAGAATTTAAGCCTAG
Found at i:9465094 original size:23 final size:23
Alignment explanation
Indices: 9465068--9465113 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9465058 AGGCATAGAT
* *
9465068 TTTAAACCCAGTTTAGTTGGCAC
1 TTTAAACCCAATTTAGCTGGCAC
* *
9465091 TTTAAGCTCAATTTAGCTGGCAC
1 TTTAAACCCAATTTAGCTGGCAC
9465114 CTAGATTTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (23 bp):
TTTAAACCCAATTTAGCTGGCAC
Found at i:9465140 original size:52 final size:50
Alignment explanation
Indices: 9465041--9465141 Score: 121
Period size: 52 Copynumber: 2.0 Consensus size: 50
9465031 GCACCCTGAA
* * * ** *
9465041 TTTAAGCTCAGTTTAGCAGGCATAGATTTTAAACCCAGTTTAGTTGGCAC
1 TTTAAGCTCAATTTAGCAGGCATAGATTTCAAACCCAATACAATTGGCAC
*
9465091 TTTAAGCTCAATTTAGCTGGCACCTAGATTTCAAACCCAATACAATTGGCA
1 TTTAAGCTCAATTTAGCAGGCA--TAGATTTCAAACCCAATACAATTGGCA
9465142 TCAGTTAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 20 0.48
52 22 0.52
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (50 bp):
TTTAAGCTCAATTTAGCAGGCATAGATTTCAAACCCAATACAATTGGCAC
Found at i:9465615 original size:81 final size:81
Alignment explanation
Indices: 9465449--9465626 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 81
9465439 GGAATAATAT
* *
9465449 TTTAAATTTTAAAGTTTCAAAGCCTCTTTTAAGAAGAGCATTTGTAGATGTCGAGATTCGTAAAT
1 TTTAAATTTTAAAGTTTCAAAGCCTCTTTTAAGAAGAGCATTTGTAGATATCGACATTCGTAAAT
* *
9465514 CCTTCAAGCATAACAT
66 CCTCCAAGCATAACAA
* * * * * * *
9465530 TTTAAATTTTAAAGTTTCAAGGGCTCTTTTCAGAGGAGCATTTGTAGATATTGACATTTGTAAGT
1 TTTAAATTTTAAAGTTTCAAAGCCTCTTTTAAGAAGAGCATTTGTAGATATCGACATTCGTAAAT
* * *
9465595 CCTCCGAGTA-AAGTAA
66 CCTCCAAGCATAA-CAA
9465611 TTTAAATTTTAAAGTT
1 TTTAAATTTTAAAGTT
9465627 ATGGAGTCTC
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 2 0.02
81 80 0.98
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (81 bp):
TTTAAATTTTAAAGTTTCAAAGCCTCTTTTAAGAAGAGCATTTGTAGATATCGACATTCGTAAAT
CCTCCAAGCATAACAA
Found at i:9468372 original size:15 final size:16
Alignment explanation
Indices: 9468327--9468388 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 16
9468317 TCTCATAAAA
* *
9468327 AAAATTTCAAAACCCT
1 AAAATCTCAAAACCTT
**
9468343 AAAATCTTGAAACCTT
1 AAAATCTCAAAACCTT
9468359 AAAAT-TCAAAACCTT
1 AAAATCTCAAAACCTT
9468374 AAAATCCTCAAAACC
1 AAAAT-CTCAAAACC
9468389 CTAGAACCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.34
16 17 0.45
17 8 0.21
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAATCTCAAAACCTT
Found at i:9468438 original size:41 final size:42
Alignment explanation
Indices: 9468408--9468510 Score: 93
Period size: 47 Copynumber: 2.4 Consensus size: 42
9468398 AAAAACCTTC
* *
9468408 AAACCTTGACACCCTTTGAAACCCTA-AACCTTAAAACCCTA
1 AAACCTTGAAACCCTTTGAAACCCTAGAACCTAAAAACCCTA
* *
9468449 AAACTTTGAAACCCTAAAACCTTGAAACCCTA-AACCTTAAAACCCTA
1 AAACCTTGAAACCCT------TTGAAACCCTAGAACCTAAAAACCCTA
*
9468496 AAACTTTGAAACCCT
1 AAACCTTGAAACCCT
9468511 AAAATGAGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
41 13 0.24
47 41 0.76
ACGTcount: A:0.42, C:0.31, G:0.05, T:0.22
Consensus pattern (42 bp):
AAACCTTGAAACCCTTTGAAACCCTAGAACCTAAAAACCCTA
Found at i:9468452 original size:16 final size:16
Alignment explanation
Indices: 9468352--9468514 Score: 127
Period size: 16 Copynumber: 10.2 Consensus size: 16
9468342 TAAAATCTTG
**
9468352 AAACCTTAAAATTC-A
1 AAACCTTAAAACCCTA
*
9468367 AAACCTTAAAATCCTCA
1 AAACCTTAAAACCCT-A
* *
9468384 AAACCCTAGAA-CCTAA
1 AAACCTTAAAACCCT-A
* *
9468400 AAACCTTCAAACCTTGA
1 AAACCTTAAAACCCT-A
* * *
9468417 CACCCTTTGAAACCCT-
1 AAACC-TTAAAACCCTA
9468433 AAACCTTAAAACCCTA
1 AAACCTTAAAACCCTA
* *
9468449 AAACTTTGAAACCCTA
1 AAACCTTAAAACCCTA
*
9468465 AAACCTTGAAACCCT-
1 AAACCTTAAAACCCTA
9468480 AAACCTTAAAACCCTA
1 AAACCTTAAAACCCTA
* *
9468496 AAACTTTGAAACCCTA
1 AAACCTTAAAACCCTA
9468512 AAA
1 AAA
9468515 TGAGACCCTA
Statistics
Matches: 120, Mismatches: 22, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
15 36 0.30
16 60 0.50
17 16 0.13
18 8 0.07
ACGTcount: A:0.45, C:0.29, G:0.04, T:0.21
Consensus pattern (16 bp):
AAACCTTAAAACCCTA
Found at i:9468459 original size:31 final size:32
Alignment explanation
Indices: 9468421--9468514 Score: 138
Period size: 31 Copynumber: 3.0 Consensus size: 32
9468411 CCTTGACACC
*
9468421 CTTTGAAACCCT-AAACCTTAAAACCCTAAAA
1 CTTTGAAACCCTAAAACCTTGAAACCCTAAAA
9468452 CTTTGAAACCCTAAAACCTTGAAACCCT-AAA
1 CTTTGAAACCCTAAAACCTTGAAACCCTAAAA
* * *
9468483 CCTTAAAACCCTAAAACTTTGAAACCCTAAAA
1 CTTTGAAACCCTAAAACCTTGAAACCCTAAAA
9468515 TGAGACCCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
31 40 0.70
32 17 0.30
ACGTcount: A:0.45, C:0.29, G:0.04, T:0.22
Consensus pattern (32 bp):
CTTTGAAACCCTAAAACCTTGAAACCCTAAAA
Found at i:9468484 original size:47 final size:47
Alignment explanation
Indices: 9468423--9468514 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
9468413 TTGACACCCT
9468423 TTGAAACCCTAAACCTTAAAACCCTAAAACTTTGAAACCCTAAAACC
1 TTGAAACCCTAAACCTTAAAACCCTAAAACTTTGAAACCCTAAAACC
9468470 TTGAAACCCTAAACCTTAAAACCCTAAAACTTTGAAACCCTAAAA
1 TTGAAACCCTAAACCTTAAAACCCTAAAACTTTGAAACCCTAAAA
9468515 TGAGACCCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.46, C:0.28, G:0.04, T:0.22
Consensus pattern (47 bp):
TTGAAACCCTAAACCTTAAAACCCTAAAACTTTGAAACCCTAAAACC
Found at i:9470575 original size:9 final size:9
Alignment explanation
Indices: 9470554--9470582 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
9470544 ATAATTCTTT
9470554 AAAATTA-A
1 AAAATTATA
9470562 AAAATTATA
1 AAAATTATA
9470571 AAAATTATA
1 AAAATTATA
9470580 AAA
1 AAA
9470583 GAATCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATTATA
Found at i:9478496 original size:24 final size:22
Alignment explanation
Indices: 9478445--9478501 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
9478435 CATTTGGGTA
*
9478445 TATTTTAATCCCATTTTTTAAT
1 TATTTTAATGCCATTTTTTAAT
* *
9478467 TTTTTTAATGTCATTATATTTAAT
1 TATTTTAATGCCATT-T-TTTAAT
9478491 TATTTTAATGC
1 TATTTTAATGC
9478502 TTGTTAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 12 0.43
23 1 0.04
24 15 0.54
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTTTAATGCCATTTTTTAAT
Found at i:9480609 original size:16 final size:16
Alignment explanation
Indices: 9480566--9480611 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
9480556 TAACTAGAAT
*
9480566 GAAACTAACTTTATTG
1 GAAACAAACTTTATTG
9480582 GAATTA-AAACTTTATTG
1 GAA--ACAAACTTTATTG
9480599 GAAACAAACTTTA
1 GAAACAAACTTTA
9480612 AGCCTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 1 0.04
16 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (16 bp):
GAAACAAACTTTATTG
Found at i:9482862 original size:143 final size:142
Alignment explanation
Indices: 9482565--9482963 Score: 415
Period size: 143 Copynumber: 2.8 Consensus size: 142
9482555 TCATTTTTGA
* * * *
9482565 GATTTTAAA-GCATCAAAAATCATGAAATATTATAAAAATTAAGATCTAAAAAGTTTTAAGAAAA
1 GATTTTAAATGCATCAAAAATCATGAAATATTAT-GAAATTGAGATCTAAAAAGTTTCATGAAAA
* * * *
9482629 TTCGAGCTTAATAAGGCCAAATTATAAAAATACCCCTAAAAGGTATTTCAATAATTTCACACCTC
65 TTCGAGCTGAA-AAGGCCAAATTA-CAAAATACCCTTAAAAGGTATTTCAATAATATCACACCTC
* *
9482694 TCAAGGTACTGCTAT
128 TCAAGCTACTGATAT
* * * * * * **
9482709 GATTTCAAATGCATAAAAAATCATGAAATATTATGACATGGAGTTCTGAAAAGTTTCATGTGAAT
1 GATTTTAAATGCATCAAAAATCATGAAATATTATGAAATTGAGATCTAAAAAGTTTCATGAAAAT
* ** ** * *
9482774 TCGAGCTCGAAAAGGTCAAATTACAAAATACCCTTAACGGGTATTTTGATAGTATCACACCTTTC
66 TCGAGCT-GAAAAGGCCAAATTACAAAATACCCTTAAAAGGTATTTCAATAATATCACACCTCTC
* * *
9482839 GAGCTATTGATGT
130 AAGCTACTGATAT
* * *
9482852 GATTTTAAATGCACCAAAATTTATGAAATATTATGAAATTGAGATCTAAAAAGTTTCATGAAAAT
1 GATTTTAAATGCATCAAAAATCATGAAATATTATGAAATTGAGATCTAAAAAGTTTCATGAAAAT
* * *
9482917 CCAAGCTTGAGAAGGCCAAATTACGAAAATATCCC-TAAAAGGTATTT
66 TCGAGC-TGAAAAGGCCAAATTAC-AAAATA-CCCTTAAAAGGTATTT
9482964 TAGTAATTTT
Statistics
Matches: 205, Mismatches: 45, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
143 113 0.55
144 64 0.31
145 28 0.14
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (142 bp):
GATTTTAAATGCATCAAAAATCATGAAATATTATGAAATTGAGATCTAAAAAGTTTCATGAAAAT
TCGAGCTGAAAAGGCCAAATTACAAAATACCCTTAAAAGGTATTTCAATAATATCACACCTCTCA
AGCTACTGATAT
Found at i:9483148 original size:19 final size:20
Alignment explanation
Indices: 9483109--9483158 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
9483099 AAGTTTTGTG
*
9483109 TAATTTTGACTTTTTTTGAC
1 TAATTTTGACTTTTATTGAC
*
9483129 TAATTTTTAC-TTTATTGAC
1 TAATTTTGACTTTTATTGAC
*
9483148 TAAGTTTGACT
1 TAATTTTGACT
9483159 AGATTTGACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (20 bp):
TAATTTTGACTTTTATTGAC
Found at i:9483767 original size:35 final size:36
Alignment explanation
Indices: 9483727--9483939 Score: 197
Period size: 35 Copynumber: 6.0 Consensus size: 36
9483717 AAAATAATAT
*
9483727 AGACAACATCAATAGTCAAAAAGAT-AAGATGACTG
1 AGACAACACCAATAGTCAAAAAGATAAAGATGACTG
* * * *
9483762 GGACAACACCAATGGTCGAAAAG-TAAACATGA-TCG
1 AGACAACACCAATAGTCAAAAAGATAAAGATGACT-G
* *
9483797 AGATAACACCAATAGTCAAAAAG-TAAAGATGACCG
1 AGACAACACCAATAGTCAAAAAGATAAAGATGACTG
* *
9483832 AGACAATACCAAT-GATCAAAAAGATAAAGATGA-TT
1 AGACAACACCAATAG-TCAAAAAGATAAAGATGACTG
* * * * *
9483867 ATGATAACACCAATGGTTAAAAAGATAAAAAT-AATCG
1 A-GACAACACCAATAGTCAAAAAGATAAAGATGACT-G
* *
9483904 AGACAACACCAACAGTCAAAAAGATAAAGACGACTG
1 AGACAACACCAATAGTCAAAAAGATAAAGATGACTG
9483940 GGATCTCTTT
Statistics
Matches: 141, Mismatches: 27, Indels: 19
0.75 0.14 0.10
Matches are distributed among these distances:
34 3 0.02
35 75 0.53
36 59 0.42
37 4 0.03
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.16
Consensus pattern (36 bp):
AGACAACACCAATAGTCAAAAAGATAAAGATGACTG
Found at i:9484013 original size:71 final size:73
Alignment explanation
Indices: 9483877--9484013 Score: 179
Period size: 71 Copynumber: 1.9 Consensus size: 73
9483867 ATGATAACAC
* * *
9483877 CAATGGTTAAAAAGATAAAAATAATCGAGACAACACCAACAGTCAAAAAGATAAAGACGACTGGG
1 CAATGGTTAAAAAGATAAAAATAACCGAAACAACACCAACAGTCAAAAAGATAAACACGACTGGG
9483942 ATCTCTTT
66 ATCTCTTT
* * * * * *
9483950 CAATGGTTAAAAA-A-AAAAGTGACCGAAACAACATCAACAGTCGAAAAGATAAACATGATTGGG
1 CAATGGTTAAAAAGATAAAAATAACCGAAACAACACCAACAGTCAAAAAGATAAACACGACTGGG
9484013 A
66 A
9484014 CAACACCAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 41 0.75
72 1 0.02
73 13 0.24
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (73 bp):
CAATGGTTAAAAAGATAAAAATAACCGAAACAACACCAACAGTCAAAAAGATAAACACGACTGGG
ATCTCTTT
Found at i:9484109 original size:71 final size:71
Alignment explanation
Indices: 9484047--9484185 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
9484037 AAATGATGAG
*
9484047 GACAACACCAACGGTCGAAAAGATAAAAATCACCAAGATAGTACTAATGGTCAAGAAATAGAAAT
1 GACAACACCAACGGTCGAAAAGATAAAAATCACCAAGATAGCACTAATGGTCAAGAAATAGAAAT
9484112 AACCAA
66 AACCAA
* *
9484118 GACAACACCAATGGTCGAAAAGATAAAAATCACCAAGATAGCACTAATGGTCAAGAAATAGAAGT
1 GACAACACCAACGGTCGAAAAGATAAAAATCACCAAGATAGCACTAATGGTCAAGAAATAGAAAT
9484183 AAC
66 AAC
9484186 TGGGACAACA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.51, C:0.18, G:0.17, T:0.14
Consensus pattern (71 bp):
GACAACACCAACGGTCGAAAAGATAAAAATCACCAAGATAGCACTAATGGTCAAGAAATAGAAAT
AACCAA
Found at i:9484155 original size:36 final size:36
Alignment explanation
Indices: 9484047--9484169 Score: 133
Period size: 36 Copynumber: 3.4 Consensus size: 36
9484037 AAATGATGAG
*
9484047 GACAACACCAACGGTCGAAAAGATAAAAATCACCAA
1 GACAACACCAATGGTCGAAAAGATAAAAATCACCAA
* ** * * *
9484083 GATAGTACTAATGGTC-AAGAA-ATAGAAATAACCAA
1 GACAACACCAATGGTCGAA-AAGATAAAAATCACCAA
9484118 GACAACACCAATGGTCGAAAAGATAAAAATCACCAA
1 GACAACACCAATGGTCGAAAAGATAAAAATCACCAA
* * *
9484154 GATAGCACTAATGGTC
1 GACAACACCAATGGTC
9484170 AAGAAATAGA
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
35 28 0.41
36 40 0.59
ACGTcount: A:0.50, C:0.20, G:0.16, T:0.15
Consensus pattern (36 bp):
GACAACACCAATGGTCGAAAAGATAAAAATCACCAA
Found at i:9484341 original size:35 final size:35
Alignment explanation
Indices: 9484296--9484422 Score: 173
Period size: 35 Copynumber: 3.6 Consensus size: 35
9484286 AGATGATCGG
* * * *
9484296 GACAATACCAATGGTCAAGAAGTAAAGATTACTGA
1 GACAACACCAATGGTCGAGAAGTAAAGATAACAGA
* *
9484331 AACAACACCAATGGTCGAGAAGTAAAGATAACCGA
1 GACAACACCAATGGTCGAGAAGTAAAGATAACAGA
* * *
9484366 GACAACACCAATGGTTGAGAAGTAAAAATAACAGG
1 GACAACACCAATGGTCGAGAAGTAAAGATAACAGA
9484401 GACAACACCAATGGTCGAGAAG
1 GACAACACCAATGGTCGAGAAG
9484423 ATAATGAATA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 81 1.00
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (35 bp):
GACAACACCAATGGTCGAGAAGTAAAGATAACAGA
Found at i:9484867 original size:32 final size:32
Alignment explanation
Indices: 9484831--9484902 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
9484821 GTGATGCAAC
** * *
9484831 TGCAAATGTCTTTCTCATGATGTAGATACAAG
1 TGCAAATGTCTTTCTCATGATACACAAACAAG
*
9484863 TGCAAATATCTTTCTCATGATACACAAACAAG
1 TGCAAATGTCTTTCTCATGATACACAAACAAG
9484895 TGCAAATG
1 TGCAAATG
9484903 CAAGTGATGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (32 bp):
TGCAAATGTCTTTCTCATGATACACAAACAAG
Found at i:9485133 original size:78 final size:80
Alignment explanation
Indices: 9485051--9485197 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 80
9485041 AATGTGAACA
* * * *
9485051 CAAGTGATGTGCATAC-AA-AAACTTTTTT-TTTTTGCAACATGCAAATCAAATATTTTTTTTTA
1 CAAGTGATGCGAATACGAAGAAACTTTTTTGTTTTTGCAACATGCAAATCAAAT-GTTTTTCTTA
9485113 TGATGCACATGTAGTG
65 TGATGCACATGTAGTG
** *
9485129 CAAGTGATGCGAATACGAAGACTCTTTTTTGTTTTTGCAACTTGCAAATCAAATGTTTTTCTTAT
1 CAAGTGATGCGAATACGAAGAAACTTTTTTGTTTTTGCAACATGCAAATCAAATGTTTTTCTTAT
9485194 GATG
66 GATG
9485198 TAAATGTGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
78 14 0.24
79 2 0.03
80 21 0.36
81 22 0.37
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (80 bp):
CAAGTGATGCGAATACGAAGAAACTTTTTTGTTTTTGCAACATGCAAATCAAATGTTTTTCTTAT
GATGCACATGTAGTG
Found at i:9486211 original size:19 final size:19
Alignment explanation
Indices: 9486161--9486205 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
9486151 TTTTTTTAGA
9486161 AGCATTTGACTTTAACCTT
1 AGCATTTGACTTTAACCTT
9486180 AGCATTTGACTTTAACCTT
1 AGCATTTGACTTTAACCTT
9486199 AGCATTT
1 AGCATTT
9486206 TTCTTTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (19 bp):
AGCATTTGACTTTAACCTT
Found at i:9486684 original size:142 final size:140
Alignment explanation
Indices: 9486205--9486744 Score: 383
Period size: 142 Copynumber: 3.8 Consensus size: 140
9486195 CCTTAGCATT
* * * * *
9486205 TTTCTTTCTTGAATTCTATCTCCTTTTTTTACTTAAGATTCTGACTAAAGCCTTTTTTACTTTTC
1 TTTCATTCTTGAATTCTATCTCCTTTTTTTACTTAGGATTCTAACTAAAGCCTTATTCACTTTTC
* * * * * *
9486270 GCCCATGACTCTTATCTCCAGGGTGCATGTCTTTTCTTCTTTGTTTTTTTTTTTTTCTGAAAACA
66 ACCCAGGACTCTCATCTCCAGAGTGCATGTCTTTTCTTCTTT-CTTTTTTTTTTTT-TGAAAATA
*
9486335 TTTGACTTCAAC
129 TTTGAATTCAAC
* *
9486347 TTTC-TTCTTTTTTGAATTCTATCT-CTCTTTTTTACTT-GG-----GACTAAAGCCTTATTCAT
1 TTTCATTC----TTGAATTCTATCTCCT-TTTTTTACTTAGGATTCTAACTAAAGCCTTATTCAC
** * * * * * * * *
9486404 TTTTTGCCTTA-GACTCTCATCT-CTGAAGTACATCTCTTTTGTTCTTTCTTTTATTTCTTTT-C
61 TTTTCACC-CAGGACTCTCATCTCCAG-AGTGCATGTCTTTTCTTCTTTCTTTTTTTTTTTTTGA
*** *
9486466 TTTTATTT-ATATTAGAAAC
124 AAATATTTGA-ATT--CAAC
* * * * * *
9486485 ATTCATTCTTGAATTTTATCTCCCTTTTTTACTTAGAATTATACCTAAAGCCTTATTCACTTTTC
1 TTTCATTCTTGAATTCTATCTCCTTTTTTTACTTAGGATTCTAACTAAAGCCTTATTCACTTTTC
*
9486550 ACCTC-GGACTCTCATCTTC-GAGATGCATGTC-TTTCTTTCTTTCTTTTTTTTTTTTTGAAAAT
66 ACC-CAGGACTCTCATCTCCAGAG-TGCATGTCTTTTC-TTCTTTCTTTTTTTTTTTTTGAAAAT
9486612 ATTTGAATTCAAC
128 ATTTGAATTCAAC
* * * *
9486625 TTTAACATTCTTGAATTCTATCTTCTTTTTTTACTTGGGATTCTAACTGAAGCCTTATTCATTTT
1 TTT--CATTCTTGAATTCTATCTCCTTTTTTTACTTAGGATTCTAACTAAAGCCTTATTCACTTT
* * * * * * **
9486690 TTACCCTGAACTCTTATCCCCAAAGTGCATGTC-TTTCTTTCTTTGATTTTTTTTT
64 TCACCCAGGACTCTCATCTCCAGAGTGCATGTCTTTTC-TTCTTTCTTTTTTTTTT
9486745 AATGAATGAA
Statistics
Matches: 310, Mismatches: 60, Indels: 56
0.73 0.14 0.13
Matches are distributed among these distances:
135 23 0.07
136 8 0.03
137 1 0.00
138 18 0.06
139 52 0.17
140 11 0.04
141 62 0.20
142 106 0.34
143 3 0.01
144 3 0.01
145 23 0.07
ACGTcount: A:0.19, C:0.20, G:0.09, T:0.52
Consensus pattern (140 bp):
TTTCATTCTTGAATTCTATCTCCTTTTTTTACTTAGGATTCTAACTAAAGCCTTATTCACTTTTC
ACCCAGGACTCTCATCTCCAGAGTGCATGTCTTTTCTTCTTTCTTTTTTTTTTTTTGAAAATATT
TGAATTCAAC
Found at i:9487006 original size:12 final size:11
Alignment explanation
Indices: 9486984--9487025 Score: 61
Period size: 10 Copynumber: 3.9 Consensus size: 11
9486974 TGAGTCCTCC
9486984 TTCATTTTTTA
1 TTCATTTTTTA
9486995 TTCATCTTTTTA
1 TTCAT-TTTTTA
9487007 TTC-TTTTTTA
1 TTCATTTTTTA
9487017 TTC-TTTTTT
1 TTCATTTTTT
9487026 TTAGTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 15 0.50
11 6 0.20
12 9 0.30
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCATTTTTTA
Found at i:9492814 original size:114 final size:114
Alignment explanation
Indices: 9492657--9492862 Score: 306
Period size: 114 Copynumber: 1.8 Consensus size: 114
9492647 ATTTATTCAC
* * * *
9492657 TACAAAATTCTAACTACATAAAGGTTGTCAAGATCTATTTCTTTTAAGACAAACT-AAAGAAAAC
1 TACAAAATTCTAACCACAAAAAGATTGTCAAGATCTATTTCTTTTAAGACAAACTAAAAAAAAAC
*
9492721 CAAGGATATGGCCCCCACGTTGGCTTTTATTGCTTAAAAAAATTATTCTT
66 CAAGGATATGGCCCCCACATTGG-TTTTATTGCTTAAAAAAATTATTCTT
* * * *
9492771 TACAAAATTCTACCCACAAAAATATTGTCAAGATCTATTTCTTTTAAGACAAATTAAAAAAAAAT
1 TACAAAATTCTAACCACAAAAAGATTGTCAAGATCTATTTCTTTTAAGACAAACTAAAAAAAAAC
*
9492836 CAAGGATATGGCCCTCACATTGGTTTT
66 CAAGGATATGGCCCCCACATTGGTTTT
9492863 CACCCATGCT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
114 53 0.65
115 28 0.35
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (114 bp):
TACAAAATTCTAACCACAAAAAGATTGTCAAGATCTATTTCTTTTAAGACAAACTAAAAAAAAAC
CAAGGATATGGCCCCCACATTGGTTTTATTGCTTAAAAAAATTATTCTT
Found at i:9494921 original size:35 final size:35
Alignment explanation
Indices: 9494794--9494947 Score: 98
Period size: 35 Copynumber: 4.3 Consensus size: 35
9494784 TTTGTTTTAG
9494794 AAAATAAAGAATGA-TAAGGACAACACC-CTAAGTCGAA
1 AAAATAAA-AATGACT-AGGACAACACCAC-AAGTC-AA
* * * * * *
9494831 CAAACAAATATAATTGGGACAACACCACAAGTCAA
1 AAAATAAAAATGACTAGGACAACACCACAAGTCAA
** * * *
9494866 AAAATAAAAATGTTTAGGACAACACCGCAGGTCCGA
1 AAAATAAAAATGACTAGGACAACACCACAAGT-CAA
* * * *
9494902 AAAATAAAGATGACT-GGACAACACTATAGGTCAAA
1 AAAATAAAAATGACTAGGACAACACCACAAGTC-AA
9494937 AAAATAAAAAT
1 AAAATAAAAAT
9494948 AACCAAGATA
Statistics
Matches: 91, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
34 1 0.01
35 50 0.55
36 32 0.35
37 8 0.09
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.16
Consensus pattern (35 bp):
AAAATAAAAATGACTAGGACAACACCACAAGTCAA
Found at i:9495261 original size:36 final size:36
Alignment explanation
Indices: 9495153--9495271 Score: 102
Period size: 36 Copynumber: 3.3 Consensus size: 36
9495143 GATCAAAAAA
* *
9495153 ATAAAGATGA-TAAGGACAACACTAATGGTTAGGAAG
1 ATAAAGATGACTGA-GACAACACCAATGGTTAGGAAG
* * * * * *
9495189 CA-AAAGTTGATTTG-GACAAAACCAA-CGATCGAGAAG
1 -ATAAAGATGA-CTGAGACAACACCAATGGTTAG-GAAG
9495225 ATAAAGATGACTGAGACAACACCAATGGTTAGGAAG
1 ATAAAGATGACTGAGACAACACCAATGGTTAGGAAG
9495261 ATAAAGATGAC
1 ATAAAGATGAC
9495272 CAAGATCTCC
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
35 6 0.10
36 52 0.83
37 4 0.06
38 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.18
Consensus pattern (36 bp):
ATAAAGATGACTGAGACAACACCAATGGTTAGGAAG
Found at i:9495447 original size:35 final size:35
Alignment explanation
Indices: 9495348--9495489 Score: 101
Period size: 35 Copynumber: 4.0 Consensus size: 35
9495338 GATCACCAGA
* *
9495348 ACAAAACCAATGGTC-GAGAAGATAAAAATAATTAGG
1 ACAAAACCAATGGTCAG-GAA-ATAAAAATGATTGGG
* * * * *
9495384 ACAACACCAATGATCAAGG-AGTAGAAGTGATTGGG
1 ACAAAACCAATGGTC-AGGAAATAAAAATGATTGGG
* *
9495419 ACAAAACCAATGGTCAGGAAATAAAAGTGACTGGG
1 ACAAAACCAATGGTCAGGAAATAAAAATGATTGGG
* * * * *
9495454 ATAACATCAACGGTCA-GAAAGTAAAAATGATCGGG
1 ACAAAACCAATGGTCAGGAAA-TAAAAATGATTGGG
9495489 A
1 A
9495490 TAATACTAAC
Statistics
Matches: 83, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
34 7 0.08
35 60 0.72
36 14 0.17
37 1 0.01
38 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.16
Consensus pattern (35 bp):
ACAAAACCAATGGTCAGGAAATAAAAATGATTGGG
Found at i:9495574 original size:70 final size:70
Alignment explanation
Indices: 9495500--9495634 Score: 179
Period size: 70 Copynumber: 1.9 Consensus size: 70
9495490 TAATACTAAC
9495500 GGTTGAAAAGATAAAGATGA-CAGAAACAACACCAAC-ATCAAG-AAATAAAAATGA-TCAAGAC
1 GGTTGAAAAG-TAAAGATGACCA-AAACAACACCAACAAT-AAGAAAATAAAAATGACT-AAGAC
9495561 AACATGAAT
62 AACATGAAT
* * *
9495570 GGTTGAGACGTAAAGATGACCAAAACAACACCAACAATAAGAAAATAAAGATGACTAAGACAACA
1 GGTTGAAAAGTAAAGATGACCAAAACAACACCAACAATAAGAAAATAAAAATGACTAAGACAACA
9495635 CCAATGATCG
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
69 25 0.43
70 32 0.55
71 1 0.02
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (70 bp):
GGTTGAAAAGTAAAGATGACCAAAACAACACCAACAATAAGAAAATAAAAATGACTAAGACAACA
TGAAT
Found at i:9502929 original size:2 final size:2
Alignment explanation
Indices: 9502922--9502977 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
9502912 TAGAGCCAAC
* * *
9502922 AT AT AT AT AT AT AC AT AT AT AT CT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9502964 AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT
9502978 GCATTGTAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9502977 original size:14 final size:14
Alignment explanation
Indices: 9502920--9502976 Score: 87
Period size: 14 Copynumber: 4.1 Consensus size: 14
9502910 ACTAGAGCCA
9502920 ACATATATATATAT
1 ACATATATATATAT
*
9502934 ACATATATATCTAT
1 ACATATATATATAT
9502948 ACATATATATATAT
1 ACATATATATATAT
* *
9502962 ATATATACATATAT
1 ACATATATATATAT
9502976 A
1 A
9502977 TGCATTGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (14 bp):
ACATATATATATAT
Found at i:9503677 original size:16 final size:16
Alignment explanation
Indices: 9503656--9503686 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9503646 ATAGGTATAA
*
9503656 TGGAAATAAACTTTAT
1 TGGAAACAAACTTTAT
9503672 TGGAAACAAACTTTA
1 TGGAAACAAACTTTA
9503687 AGCTTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (16 bp):
TGGAAACAAACTTTAT
Found at i:9505621 original size:143 final size:143
Alignment explanation
Indices: 9505346--9505736 Score: 461
Period size: 143 Copynumber: 2.7 Consensus size: 143
9505336 TTAAAGCATC
* ** * ***
9505346 AAAAATCATGAAATATTATAAAATTGAGAT-TTTAAAGTTTCATGAAAATCTAAGCTTGGAAA-G
1 AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCAAAAAGG
* * * * * * *
9505409 CCAAATTACGAAAATACCCCTAATAAGTATTTTCA-TAAATTCACACCTCTTGGGGTATTGCTAT
66 CCAAATTATGAAAATACCCCTAA-AGGTATTTT-AGTAATTTCACACCTCATGAGATATTGATAT
*
9505473 GATTTCAAATGTACT
129 GATTTCAAATGCACT
* * *
9505488 AAAAATCATGAAATATTAAAAAATTAAAATCTAAAAAGTTTCATGACAATCCAAGCTCAAAAAGG
1 AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCAAAAAGG
*
9505553 CCAAATTATGAAAATACCCCTAAAGGGTA-TTTGGTAATTTCACACCTCATGAGATATT-AT-TG
66 CCAAATTATGAAAATACCCCTAAA-GGTATTTTAGTAATTTCACACCTCATGAGATATTGATATG
9505615 AAATTTCAAATGCACT
130 --ATTTCAAATGCACT
* * * *
9505631 AAAAATCATAAAATATTATAAAATTATGATCTAAAAGGTTTCATGAAAATCCGAGCTCAAAAAGG
1 AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCAAAAAGG
* *
9505696 CTAAATTATGAAAATATCCCTAAAAGGTATTTTAGTAATTT
66 CCAAATTATGAAAATACCCCT-AAAGGTATTTTAGTAATTT
9505737 TGTAATTCCC
Statistics
Matches: 212, Mismatches: 29, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
141 2 0.01
142 28 0.13
143 143 0.67
144 39 0.18
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (143 bp):
AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCAAAAAGG
CCAAATTATGAAAATACCCCTAAAGGTATTTTAGTAATTTCACACCTCATGAGATATTGATATGA
TTTCAAATGCACT
Found at i:9506143 original size:3 final size:3
Alignment explanation
Indices: 9506135--9506175 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9506125 CTGGAAGAGA
9506135 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9506176 ATGTAAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9508031 original size:16 final size:16
Alignment explanation
Indices: 9508010--9508041 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9508000 GCTACCAGTG
9508010 CATTAGATCTTACCTT
1 CATTAGATCTTACCTT
9508026 CATTAGATCTTACCTT
1 CATTAGATCTTACCTT
9508042 TTTCTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (16 bp):
CATTAGATCTTACCTT
Found at i:9508293 original size:2 final size:2
Alignment explanation
Indices: 9508286--9508321 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9508276 CGATACAAAC
* *
9508286 AT AT AT AT AC AT AT AT AT AT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9508322 GTTCTCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9511637 original size:20 final size:19
Alignment explanation
Indices: 9511595--9511641 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
9511585 CTATATGTAA
*
9511595 TTTATTATATTATGTATTAC
1 TTTA-TATATTAAGTATTAC
9511615 TTTTATATATTAAGTCATT-C
1 -TTTATATATTAAGT-ATTAC
9511635 TTTATAT
1 TTTATAT
9511642 GCAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 7 0.29
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTATATATTAAGTATTAC
Found at i:9512314 original size:8 final size:8
Alignment explanation
Indices: 9512301--9512326 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9512291 ATAACAACAA
9512301 TATAATAT
1 TATAATAT
9512309 TATAATAT
1 TATAATAT
9512317 TATAATAT
1 TATAATAT
9512325 TA
1 TA
9512327 AAAGAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATAATAT
Found at i:9513624 original size:14 final size:14
Alignment explanation
Indices: 9513605--9513634 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9513595 CCACCACTGT
9513605 ATTTACCTTTCAAA
1 ATTTACCTTTCAAA
9513619 ATTTACCTTTCAAA
1 ATTTACCTTTCAAA
9513633 AT
1 AT
9513635 CAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTACCTTTCAAA
Found at i:9516404 original size:2 final size:2
Alignment explanation
Indices: 9516397--9516430 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9516387 CTTAGAACAG
9516397 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9516431 GACCTTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9518322 original size:23 final size:23
Alignment explanation
Indices: 9518296--9518347 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
9518286 AATACAATGA
9518296 TATAATCCCTACATGTCAATCAC
1 TATAATCCCTACATGTCAATCAC
9518319 TATAATCCCTACATGTCAATCAC
1 TATAATCCCTACATGTCAATCAC
9518342 TATAAT
1 TATAAT
9518348 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.33
Consensus pattern (23 bp):
TATAATCCCTACATGTCAATCAC
Found at i:9522986 original size:6 final size:6
Alignment explanation
Indices: 9522972--9523024 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
9522962 GAAAATAGCA
* * *
9522972 TCCAAC TCCAGC TCCAGC TCCAAC TCCAAC TCCAAC TCCAAT TCCAAC
1 TCCAAC TCCAAC TCCAAC TCCAAC TCCAAC TCCAAC TCCAAC TCCAAC
9523020 TCCAA
1 TCCAA
9523025 TTCCTTCCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.30, C:0.47, G:0.04, T:0.19
Consensus pattern (6 bp):
TCCAAC
Found at i:9523025 original size:12 final size:12
Alignment explanation
Indices: 9522990--9523028 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
9522980 CAGCTCCAGC
*
9522990 TCCAACTCCAAC
1 TCCAACTCCAAT
9523002 TCCAACTCCAAT
1 TCCAACTCCAAT
9523014 TCCAACTCCAAT
1 TCCAACTCCAAT
9523026 TCC
1 TCC
9523029 TTCCAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (12 bp):
TCCAACTCCAAT
Found at i:9523757 original size:3 final size:3
Alignment explanation
Indices: 9523749--9523824 Score: 111
Period size: 3 Copynumber: 26.0 Consensus size: 3
9523739 GTTGATTTTC
* * *
9523749 ATT ATT ATT ATT ACT GTT ATT ATT CTT -TT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9523795 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9523825 TCTTTTTGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
2 4 0.06
3 63 0.94
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9524311 original size:12 final size:12
Alignment explanation
Indices: 9524294--9524319 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9524284 GATGGACATT
9524294 TGAATTTTTTGA
1 TGAATTTTTTGA
9524306 TGAATTTTTTGA
1 TGAATTTTTTGA
9524318 TG
1 TG
9524320 GAGGTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (12 bp):
TGAATTTTTTGA
Found at i:9524319 original size:32 final size:32
Alignment explanation
Indices: 9524278--9524346 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
9524268 GAAATCTGTG
*
9524278 TTTTCTGATGGACATTTGAATTTTTTGATGAA
1 TTTTCTGATGGACATTTGAATTTTTTGACGAA
* **
9524310 TTTTTTGATGGAGGTTTGAATTTTTTGACGAA
1 TTTTCTGATGGACATTTGAATTTTTTGACGAA
9524342 TTTTC
1 TTTTC
9524347 AATGATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.52
Consensus pattern (32 bp):
TTTTCTGATGGACATTTGAATTTTTTGACGAA
Found at i:9524615 original size:19 final size:18
Alignment explanation
Indices: 9524587--9524622 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9524577 ATCGTAGGTT
*
9524587 TTTCTTTTCTTATTTTAA
1 TTTCTTTTCTGATTTTAA
9524605 TTTCATTTTCTGATTTTA
1 TTTC-TTTTCTGATTTTA
9524623 TTTTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTCTTTTCTGATTTTAA
Found at i:9524636 original size:24 final size:23
Alignment explanation
Indices: 9524596--9524670 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 23
9524586 TTTTCTTTTC
*
9524596 TTATTTTAATTTCATTTTCTGATT
1 TTATTTTAATTTCATTTTAT-ATT
*
9524620 TTATTTT-ATTTATATTTTATATTT
1 TTATTTTAATTT-CATTTTATA-TT
9524644 TATATTTTATATTT-ATATTTATATT
1 T-TATTTTA-ATTTCAT-TTTATATT
9524669 TT
1 TT
9524671 TAGTTTTAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
23 5 0.12
24 17 0.40
25 11 0.26
26 6 0.14
27 4 0.09
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (23 bp):
TTATTTTAATTTCATTTTATATT
Found at i:9524640 original size:7 final size:7
Alignment explanation
Indices: 9524628--9524670 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
9524618 TTTTATTTTA
9524628 TTTATAT
1 TTTATAT
9524635 TTTATAT
1 TTTATAT
9524642 TTTATAT
1 TTTATAT
9524649 TTTATA-
1 TTTATAT
9524655 TTTATA-
1 TTTATAT
9524661 TTTATAT
1 TTTATAT
9524668 TTT
1 TTT
9524671 TAGTTTTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 12 0.34
7 23 0.66
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATAT
Found at i:9524672 original size:14 final size:13
Alignment explanation
Indices: 9524628--9524685 Score: 64
Period size: 14 Copynumber: 4.4 Consensus size: 13
9524618 TTTTATTTTA
9524628 TTTATATTTTATAT
1 TTTATATTTTAT-T
*
9524642 TTTATATTTTATA
1 TTTATATTTTATT
9524655 TTTATATTTATATT
1 TTTATATTT-TATT
* *
9524669 TTTA-GTTTTAGT
1 TTTATATTTTATT
9524681 TTTAT
1 TTTAT
9524686 TTATTTCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
12 7 0.18
13 12 0.32
14 19 0.50
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTATATTTTATT
Found at i:9525925 original size:26 final size:29
Alignment explanation
Indices: 9525894--9525961 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
9525884 TGTAAGTATT
*
9525894 ATATTA-ATTAATAAA-TTTATAA-TTAA
1 ATATTAGATTAATAAATTTTAAAATTTAA
*
9525920 ATATTAGACTAA-AAATTTTTAAAATTTAA
1 ATATTAGATTAATAAA-TTTTAAAATTTAA
*
9525949 ATATTATATTAAT
1 ATATTAGATTAAT
9525962 TTGGTTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.27
27 4 0.12
28 6 0.18
29 14 0.42
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
ATATTAGATTAATAAATTTTAAAATTTAA
Found at i:9526437 original size:62 final size:63
Alignment explanation
Indices: 9526371--9526555 Score: 178
Period size: 63 Copynumber: 3.0 Consensus size: 63
9526361 ATTTAAGGTG
* *
9526371 TTTTTAGCCAAAAATGCCTTCAATAACCCCATTCAATATTTTGTAAAAAATTATTCAAGGCAT
1 TTTTTAGCCAAAAATGCCTTCAATAACCTCATTCAATATTTTGTAAAAGATTATTCAAGGCAT
* * * * * **
9526434 TTTTTGGCTAAAAATGCATTCAATAATCTCA-TCATAAAAATTG-AAAGAGATTATTCAAGGCAT
1 TTTTTAGCCAAAAATGCCTTCAATAACCTCATTCA-ATATTTTGTAAA-AGATTATTCAAGGCAT
* * * * * * * *
9526497 TTTTT-GCCATAAACGCCTTGACTAACCTTATTCAATTTTTTCTAAGAGATTATTCAAGG
1 TTTTTAGCCAAAAATGCCTTCAATAACCTCATTCAATATTTTGTAAAAGATTATTCAAGG
9526556 TGTTTTCTCA
Statistics
Matches: 95, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
62 39 0.41
63 56 0.59
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (63 bp):
TTTTTAGCCAAAAATGCCTTCAATAACCTCATTCAATATTTTGTAAAAGATTATTCAAGGCAT
Found at i:9526438 original size:63 final size:62
Alignment explanation
Indices: 9526357--9526555 Score: 177
Period size: 62 Copynumber: 3.2 Consensus size: 62
9526347 ATAATTCATG
* ** * *
9526357 GATTATTTAAGGTGTTTTTAGCCAAAAATGCCTTCAATAACCCCATTCAATATTTTGTAAAA
1 GATTATTCAAGGCATTTTTTGCCAAAAATGCCTTCAATAACCTCATTCAATATTTTGTAAAA
* * * * * **
9526419 AATTATTCAAGGCATTTTTTGGCTAAAAATGCATTCAATAATCTCA-TCATAAAAATTG-AAAGA
1 GATTATTCAAGGCATTTTTT-GCCAAAAATGCCTTCAATAACCTCATTCA-ATATTTTGTAAA-A
* * * * * * * *
9526482 GATTATTCAAGGCATTTTTTGCCATAAACGCCTTGACTAACCTTATTCAATTTTTTCTAAGA
1 GATTATTCAAGGCATTTTTTGCCAAAAATGCCTTCAATAACCTCATTCAATATTTTGTAAAA
9526544 GATTATTCAAGG
1 GATTATTCAAGG
9526556 TGTTTTCTCA
Statistics
Matches: 105, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
62 54 0.51
63 51 0.49
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (62 bp):
GATTATTCAAGGCATTTTTTGCCAAAAATGCCTTCAATAACCTCATTCAATATTTTGTAAAA
Found at i:9526721 original size:62 final size:62
Alignment explanation
Indices: 9526566--9526708 Score: 177
Period size: 62 Copynumber: 2.3 Consensus size: 62
9526556 TGTTTTCTCA
* ** *
9526566 CAAAAATACCTTAAATAAT-CT-TAAAAAAAATGGGAA-GGGATTATTGAAGATGTTTTTGGC
1 CAAAAATACCTTCAATAATCCTATCTAAAAAAT-TGAAGGGGATTATTGAAGATGTTTTTGGC
* * *
9526626 TAAAAATGCCTTTAATAATCCTATCTAAAAAATTGAAGGGGATTATTGAA-AGTGTTTTTGGC
1 CAAAAATACCTTCAATAATCCTATCTAAAAAATTGAAGGGGATTATTGAAGA-TGTTTTTGGC
9526688 CAAAAATACCTTCAATAATCC
1 CAAAAATACCTTCAATAATCC
9526709 ACTCATAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
60 16 0.23
61 6 0.09
62 48 0.69
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (62 bp):
CAAAAATACCTTCAATAATCCTATCTAAAAAATTGAAGGGGATTATTGAAGATGTTTTTGGC
Found at i:9533024 original size:22 final size:22
Alignment explanation
Indices: 9532987--9533031 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
9532977 TTTTATGAAA
*
9532987 TTATTTTGTTTTATTCATTTATT
1 TTATTTTGATTTATTCA-TTATT
9533010 TTATTTT-ATTTATTCATTATT
1 TTATTTTGATTTATTCATTATT
9533031 T
1 T
9533032 GTTCTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 7 0.33
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (22 bp):
TTATTTTGATTTATTCATTATT
Found at i:9534018 original size:18 final size:18
Alignment explanation
Indices: 9533982--9534018 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9533972 ATATTTATAA
*
9533982 AATTATTTATCATATTTT
1 AATTATTTATCATAATTT
*
9534000 AATTATTTATCTTAATTT
1 AATTATTTATCATAATTT
9534018 A
1 A
9534019 CAAAAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTATTTATCATAATTT
Found at i:9536013 original size:17 final size:18
Alignment explanation
Indices: 9535988--9536021 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9535978 ATACGAACAC
*
9535988 AATATGAAT-ATTTAAAT
1 AATACGAATAATTTAAAT
9536005 AATACGAATAATTTAAA
1 AATACGAATAATTTAAA
9536022 CATAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (18 bp):
AATACGAATAATTTAAAT
Found at i:9536142 original size:19 final size:19
Alignment explanation
Indices: 9536117--9536165 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
9536107 GATATAACAT
*
9536117 GATATGATTAACACGATTA
1 GATATGATTAACACAATTA
* *
9536136 TATATGAATAACACAATTA
1 GATATGATTAACACAATTA
9536155 GATATGATTAA
1 GATATGATTAA
9536166 TCCATTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (19 bp):
GATATGATTAACACAATTA
Found at i:9538313 original size:20 final size:21
Alignment explanation
Indices: 9538279--9538330 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
9538269 ATAATTAAAA
*
9538279 ATTT-TTTTATTT-AAACTTAT
1 ATTTATTTT-TTTAAAAATTAT
*
9538299 TTTTATTTTTTTAAAAATTAT
1 ATTTATTTTTTTAAAAATTAT
9538320 ATTTATTTTTT
1 ATTTATTTTTT
9538331 ACTACTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTATTTTTTTAAAAATTAT
Found at i:9539061 original size:29 final size:29
Alignment explanation
Indices: 9539029--9539095 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
9539019 TTAAAATTAA
* * *
9539029 ATAATT-ATTTAACTTTTTATTATTTTATT
1 ATAATTAATTAAAATTTTTAAT-TTTTATT
9539058 ATAATTAATTAAAATTTTTAATTTTTATT
1 ATAATTAATTAAAATTTTTAATTTTTATT
* *
9539087 TTCATTAAT
1 ATAATTAAT
9539096 AGAGTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
ATAATTAATTAAAATTTTTAATTTTTATT
Found at i:9542716 original size:77 final size:77
Alignment explanation
Indices: 9542628--9542783 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 77
9542618 TTCAATTGAC
* *
9542628 GAGCCATTTTTCGGTTATTTCTCTTCTTGTTAAATATGCTTACTCATGCTATAGTTAACAAATTT
1 GAGCCATTTTTCAGTCATTTCTCTTCTTGTTAAATATGCTTACTCATGCTATAGTTAACAAATTT
9542693 CAAGAAGCAAGA
66 CAAGAAGCAAGA
*
9542705 GAGCTATTTTTCAGTCATTTCTCTTCTTGTTAAATATGCTTACTCATGCTATAGTTAACAAATTT
1 GAGCCATTTTTCAGTCATTTCTCTTCTTGTTAAATATGCTTACTCATGCTATAGTTAACAAATTT
9542770 CAAGAAGCAAGA
66 CAAGAAGCAAGA
9542782 GA
1 GA
9542784 TCTTTACTGA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (77 bp):
GAGCCATTTTTCAGTCATTTCTCTTCTTGTTAAATATGCTTACTCATGCTATAGTTAACAAATTT
CAAGAAGCAAGA
Found at i:9544585 original size:21 final size:21
Alignment explanation
Indices: 9544539--9544578 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9544529 TTTTTATTTT
9544539 TATTTTTATTTTCTAAAAAAG
1 TATTTTTATTTTCTAAAAAAG
* *
9544560 AATTTTTATTTTTTAAAAA
1 TATTTTTATTTTCTAAAAA
9544579 TATATTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TATTTTTATTTTCTAAAAAAG
Found at i:9547696 original size:18 final size:18
Alignment explanation
Indices: 9547673--9547718 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9547663 TCTCTCATTT
* *
9547673 TTTATTATTTATTCTTAA
1 TTTATTATTTAGTATTAA
* *
9547691 TTTATTAATTAGTATTTA
1 TTTATTATTTAGTATTAA
9547709 TTTATTATTT
1 TTTATTATTT
9547719 TTTTTATAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTATTATTTAGTATTAA
Found at i:9547926 original size:23 final size:22
Alignment explanation
Indices: 9547891--9547942 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
9547881 TGCATTTTTA
9547891 TTATTTTGGTATTATTATT-AAGT
1 TTATTTTGGTATT-TT-TTAAAGT
**
9547914 TTATTTTTTTATTTTTTAAAGT
1 TTATTTTGGTATTTTTTAAAGT
*
9547936 TCATTTT
1 TTATTTT
9547943 AAAAATTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 11 0.44
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (22 bp):
TTATTTTGGTATTTTTTAAAGT
Found at i:9549140 original size:11 final size:12
Alignment explanation
Indices: 9549098--9549140 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
9549088 TTTGTTCTAT
*
9549098 TTTTTTTTCGTA
1 TTTTTTTTGGTA
9549110 TCTTGTATTTTGGTA
1 T-TT-T-TTTTGGTA
9549125 TTTTTTTTGGTA
1 TTTTTTTTGGTA
9549137 TTTT
1 TTTT
9549141 GTATTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 13 0.48
13 3 0.11
14 3 0.11
15 8 0.30
ACGTcount: A:0.09, C:0.05, G:0.14, T:0.72
Consensus pattern (12 bp):
TTTTTTTTGGTA
Found at i:9549592 original size:49 final size:49
Alignment explanation
Indices: 9549391--9550408 Score: 872
Period size: 49 Copynumber: 21.0 Consensus size: 49
9549381 TTAAAATCTA
* * * *
9549391 AAAAAGACTCATCTCAGCAGAGGCTCAATAACTTTAAAAATTTTATCTTG
1 AAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * * * *
9549441 AAAAGGGTTCTTTTTAGTAGAGGCTTAACAACTTTAAAAATCTCATCTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * ** * *
9549491 AAAAAGGCTTCTCTCAGTAGAGGCTCAATGATTTTAAAAATTTCATC-TG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * ** *
9549540 AAAAAGCTCCTCTCAGTAGAGGCTTAACAATTTTTGAAATCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* *
9549589 AAAAAGCTCCTTTCAGCAAAGGCTCAACAACTTTAAAAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
9549638 AAAAGGGCTCCTCTTAGCAGAGGCTCAATAACTTT-AAAATCTCAT-TTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
9549686 -GAAAGCTCCTCTCAACAGAGGCTCAACAA-TTTTAAAATCTCATC-TG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* ** * * *
9549732 GAAAAGCTAATCTCAACAAAGGCTCAACAACTTTACAAAT-TC-TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * * ** * *
9549779 AAAAAGCTCTTTTCAACAGAGGCTTAACAATTTTTGAAATCTTATCTTA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * *
9549828 AAAAAACTCCTCTTAGTAGAGGCTCAACAATTTTAAAAAT-TC-TCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
** * * * * * ** *
9549875 AAAAAATTCCTATCAACAGAGGCTTACCAATTTTTGAAATCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
9549924 GAAAA-CTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATTCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCATCTTG
* * *
9549973 AAAAGGGCTCCTCTCCGCAGAGGCTCAACAATTTTAAAAA--TCATCTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
9550021 AAAAGGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTAA
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTT-G
* * *
9550072 AAAAAGCTCATCTCAGCAGAGGCTCAATAACTTTAAAAATCCTCATATTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-CTCATCTTG
* * * * * *
9550122 -AAAAGCTCATCGCAACAGAGGCTTAACAAGTTTAAAAA--TCATCTTA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* ** * * * * * *
9550168 AAAAAGGCTCATCTTGGTATAGACTCAATAA-TTTTAAAATCTCATTTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * *
9550217 AAAAGGGCTCCTCTCAGCAGAGGCTTAAAAACTTTAAAAATTTCATCTTA
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* *
9550267 AAAAAGGCTCCTCTCAACAGAGGCTCAACAA-TTTTAAAATCTCAT-TTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * *
9550315 AAAAAACTTCTTTCAACAGAGGCTCAACAACTTTAAAAA--TCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
9550362 AAAAATCTCCTCTCAGCAAAGGCTCAATAACTTTAAAAATCTCATCT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
9550409 GTTCTTTAAA
Statistics
Matches: 777, Mismatches: 160, Indels: 63
0.78 0.16 0.06
Matches are distributed among these distances:
45 3 0.00
46 46 0.06
47 166 0.21
48 144 0.19
49 199 0.26
50 177 0.23
51 42 0.05
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (49 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
Found at i:9562439 original size:18 final size:18
Alignment explanation
Indices: 9562398--9562440 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9562388 TCTCTCATTT
*
9562398 TTTATTATTTAGTCTTAA
1 TTTATTAATTAGTCTTAA
*
9562416 TCTATTAATTAGTTCTT-A
1 TTTATTAATTAG-TCTTAA
9562434 TTTATTA
1 TTTATTA
9562441 TTGTTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTATTAATTAGTCTTAA
Found at i:9562650 original size:23 final size:22
Alignment explanation
Indices: 9562615--9562666 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
9562605 TGCATTTTTA
9562615 TTATTTTGGTATTATTATT-AAGT
1 TTATTTTGGTATT-TT-TTAAAGT
**
9562638 TTATTTTTTTATTTTTTAAAGT
1 TTATTTTGGTATTTTTTAAAGT
*
9562660 TGATTTT
1 TTATTTT
9562667 AAAAATTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 11 0.44
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (22 bp):
TTATTTTGGTATTTTTTAAAGT
Found at i:9563844 original size:7 final size:7
Alignment explanation
Indices: 9563801--9563850 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
9563791 GTTCTATTTT
9563801 TTTTCGTA
1 TTTT-GTA
*
9563809 TCTTGTA
1 TTTTGTA
*
9563816 TCTTGTA
1 TTTTGTA
9563823 TTTTG-A
1 TTTTGTA
9563829 TTTT-T-
1 TTTTGTA
9563834 TTTTGTA
1 TTTTGTA
9563841 TTTTGTA
1 TTTTGTA
9563848 TTT
1 TTT
9563851 AATAATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
5 4 0.11
6 6 0.16
7 24 0.65
8 3 0.08
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.70
Consensus pattern (7 bp):
TTTTGTA
Found at i:9566096 original size:143 final size:142
Alignment explanation
Indices: 9565840--9566108 Score: 303
Period size: 143 Copynumber: 1.9 Consensus size: 142
9565830 ATCGCATTAT
* * *
9565840 GAGAGGTGTAAAATTACCAAAATACTCTTAAGGATATTTTCGTAATTTGACTTTTTGAGGTCGAT
1 GAGAGGTGTAAAATTACCAAAATACCCTTAAGAATAATTTCGTAATTTGACTTTTTGAGGTCGAT
* * ** *
9565905 TTTTATCGAAACATTTCAGATCATGTTTTCAAATTATTTGA-TTTTTTTTGTGCATTAAAAATCT
66 TTTCATCAAAACATTTCAGATCATGTTTTCAAATTATTTGAGAATTTTTGGTGCATTAAAAATCT
9565969 TGGTTGTATCTC
131 TGGTTGTATCTC
* * * * *
9565981 GAGAGGTGTGAAATTACTAAAATACCCTTTAGAAGTAATTTCGTAATTTGACATTTTTTATGTCG
1 GAGAGGTGTAAAATTACCAAAATACCCTTAAGAA-TAATTTCGTAATTTGAC-TTTTTGAGGTC-
** * * *
9566046 GATTTTCAT-AAAAGTTTTCATAT-AT-TAATTTCATATTATTTGAGAATTTTTGGTGCTTTAAA
63 GATTTTCATCAAAACATTTCAGATCATGT--TTTCAAATTATTTGAGAATTTTTGGTGCATTAAA
9566108 A
126 A
9566109 TCATAAAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
141 30 0.29
142 18 0.17
143 33 0.32
144 23 0.22
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (142 bp):
GAGAGGTGTAAAATTACCAAAATACCCTTAAGAATAATTTCGTAATTTGACTTTTTGAGGTCGAT
TTTCATCAAAACATTTCAGATCATGTTTTCAAATTATTTGAGAATTTTTGGTGCATTAAAAATCT
TGGTTGTATCTC
Found at i:9566462 original size:11 final size:12
Alignment explanation
Indices: 9566439--9566463 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9566429 GGGAAAAGAG
9566439 AAAAATAGAAAA
1 AAAAATAGAAAA
9566451 AAAAATAGAAAA
1 AAAAATAGAAAA
9566463 A
1 A
9566464 TTGGGAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAATAGAAAA
Found at i:9567510 original size:7 final size:7
Alignment explanation
Indices: 9567498--9567582 Score: 56
Period size: 7 Copynumber: 12.9 Consensus size: 7
9567488 ATTTCTCATA
9567498 AAACCCT
1 AAACCCT
9567505 AAACCCT
1 AAACCCT
*
9567512 -AACCCC
1 AAACCCT
*
9567518 AAA-ACT
1 AAACCCT
*
9567524 AAA-CCA
1 AAACCCT
*
9567530 AGAACCCC
1 A-AACCCT
9567538 AAACCCT
1 AAACCCT
9567545 AAA-CCT
1 AAACCCT
9567551 AAA-CCT
1 AAACCCT
9567557 AAACCCT
1 AAACCCT
* *
9567564 GAA-TCT
1 AAACCCT
*
9567570 AAACCTT
1 AAACCCT
9567577 AAACCC
1 AAACCC
9567583 AAAAAACAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
6 27 0.45
7 30 0.50
8 3 0.05
ACGTcount: A:0.46, C:0.39, G:0.02, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:9567542 original size:33 final size:33
Alignment explanation
Indices: 9567499--9567561 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
9567489 TTTCTCATAA
* *
9567499 AACCCTAAACCCTAACCCCAAAACTAAACCAAG
1 AACCCCAAACCCTAAACCCAAAACTAAACCAAG
* *
9567532 AACCCCAAACCCTAAACCTAAACCTAAACC
1 AACCCCAAACCCTAAACCCAAAACTAAACC
9567562 CTGAATCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.48, C:0.41, G:0.02, T:0.10
Consensus pattern (33 bp):
AACCCCAAACCCTAAACCCAAAACTAAACCAAG
Found at i:9567560 original size:19 final size:19
Alignment explanation
Indices: 9567498--9567752 Score: 73
Period size: 19 Copynumber: 13.2 Consensus size: 19
9567488 ATTTCTCATA
* *
9567498 AAACCCTAAACCCTAACCCC
1 AAACCCTAAA-CCTAAACCT
* * *
9567518 AAA-ACTAAACCAAGAACCCC
1 AAACCCTAAACCTA-AA-CCT
9567538 AAACCCTAAACCTAAACCT
1 AAACCCTAAACCTAAACCT
* *
9567557 AAACCCTGAATCTAAACCTT
1 AAACCCTAAACCTAAACC-T
* *
9567577 AAACCCAAAAAAC-AAACCTT
1 AAACCC-TAAACCTAAACC-T
* * * * * *
9567597 AAATCATAAGCTTAAGCTTT
1 AAACCCTAAACCTAAAC-CT
* *
9567617 AAA-TC-AAACCCCAAACTCT
1 AAACCCTAAA-CCTAAAC-CT
* * *
9567636 AAACCTTTAGCCCTAAACCCT
1 AAACCCTAAAC-CTAAA-CCT
9567657 AAA-CCTAAACCTAAATCC-
1 AAACCCTAAACCTAAA-CCT
* *
9567675 AATCCC-AAACCCTAAACCC
1 AAACCCTAAA-CCTAAACCT
*
9567694 AATCCC-AAATCCTAAACCT
1 AAACCCTAAA-CCTAAACCT
*
9567713 AAACCCT-AACC-AAACAT
1 AAACCCTAAACCTAAACCT
9567730 GAAACCCT-AACCTAAACCCT
1 -AAACCCTAAACCTAAA-CCT
9567750 AAA
1 AAA
9567753 ACAGCCTAAA
Statistics
Matches: 175, Mismatches: 41, Indels: 39
0.69 0.16 0.15
Matches are distributed among these distances:
17 5 0.03
18 25 0.14
19 80 0.46
20 43 0.25
21 21 0.12
22 1 0.01
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.16
Consensus pattern (19 bp):
AAACCCTAAACCTAAACCT
Found at i:9567656 original size:7 final size:7
Alignment explanation
Indices: 9567622--9567769 Score: 79
Period size: 7 Copynumber: 22.4 Consensus size: 7
9567612 GCTTTAAATC
*
9567622 AAACCCC
1 AAACCCT
*
9567629 AAACTCT
1 AAACCCT
*
9567636 AAACCTT
1 AAACCCT
* *
9567643 TAGCCCT
1 AAACCCT
9567650 AAACCCT
1 AAACCCT
9567657 AAA-CCT
1 AAACCCT
9567663 AAA-CCT
1 AAACCCT
*
9567669 AAATCC-
1 AAACCCT
*
9567675 AATCCC-
1 AAACCCT
9567681 AAACCCT
1 AAACCCT
9567688 AAACCC-
1 AAACCCT
*
9567694 AATCCC-
1 AAACCCT
*
9567700 AAATCCT
1 AAACCCT
9567707 AAA-CCT
1 AAACCCT
9567713 AAACCCT
1 AAACCCT
9567720 -AA-CC-
1 AAACCCT
*
9567724 AAA-CAT
1 AAACCCT
9567730 GAAACCCT
1 -AAACCCT
9567738 -AA-CCT
1 AAACCCT
9567743 AAACCCT
1 AAACCCT
9567750 AAAACAGCCT
1 -AAAC--CCT
9567760 AAACCCT
1 AAACCCT
9567767 AAA
1 AAA
9567770 AATGCAAACC
Statistics
Matches: 111, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
5 8 0.07
6 42 0.38
7 48 0.43
8 6 0.05
9 4 0.04
10 3 0.03
ACGTcount: A:0.45, C:0.38, G:0.02, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:9567665 original size:6 final size:6
Alignment explanation
Indices: 9567647--9567752 Score: 58
Period size: 6 Copynumber: 17.0 Consensus size: 6
9567637 AACCTTTAGC
* * * *
9567647 CCTAAA CCCTAAA CCTAAA CCTAAA TCC-AAT CCCAAA CCCTAAA CCCAAT
1 CCTAAA -CCTAAA CCTAAA CCTAAA -CCTAAA CCTAAA -CCTAAA CCTAAA
* *
9567697 CCCAAA TCCTAAA CCTAAA CCCT-AA CC-AAA CATGAAA CCCT-AA CCTAAA
1 CCTAAA -CCTAAA CCTAAA -CCTAAA CCTAAA CCT-AAA -CCTAAA CCTAAA
9567746 CCCTAAA
1 -CCTAAA
9567753 ACAGCCTAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
5 10 0.13
6 37 0.47
7 30 0.38
8 2 0.03
ACGTcount: A:0.45, C:0.39, G:0.01, T:0.15
Consensus pattern (6 bp):
CCTAAA
Found at i:9567718 original size:25 final size:23
Alignment explanation
Indices: 9567654--9567718 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 23
9567644 AGCCCTAAAC
*
9567654 CCTAAACCTAAACCTAAATCCAAT
1 CCTAAACCTAAACC-CAATCCAAT
*
9567678 CCCAAACCCTAAACCCAATCCCAAAT
1 CCTAAA-CCTAAACCCAAT-CC-AAT
9567704 CCTAAACCTAAACCC
1 CCTAAACCTAAACCC
9567719 TAACCAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 8 0.23
25 19 0.54
26 8 0.23
ACGTcount: A:0.43, C:0.42, G:0.00, T:0.15
Consensus pattern (23 bp):
CCTAAACCTAAACCCAATCCAAT
Found at i:9567738 original size:25 final size:25
Alignment explanation
Indices: 9567681--9567739 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
9567671 ATCCAATCCC
*
9567681 AAACCCTAAACCCAATCCCAAATCCT
1 AAACCCTAAACCCAA-CCCAAATCAT
9567707 AAA-CCTAAACCCTAA-CCAAA-CAT
1 AAACCCTAAACCC-AACCCAAATCAT
9567730 GAAACCCTAA
1 -AAACCCTAA
9567740 CCTAAACCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 8 0.28
25 14 0.48
26 5 0.17
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.14
Consensus pattern (25 bp):
AAACCCTAAACCCAACCCAAATCAT
Found at i:9568820 original size:11 final size:11
Alignment explanation
Indices: 9568806--9568834 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
9568796 TAAAAAAATC
9568806 AAAAGAATTGA
1 AAAAGAATTGA
9568817 AAAA-AATTGA
1 AAAAGAATTGA
9568827 AAAAGAAT
1 AAAAGAAT
9568835 AAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (11 bp):
AAAAGAATTGA
Found at i:9569613 original size:17 final size:16
Alignment explanation
Indices: 9569593--9569632 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9569583 AAAAAGAAGG
*
9569593 AAAAAATCCAAAAAAA
1 AAAAAAACCAAAAAAA
*
9569609 AAAAAAACGAAAAAAA
1 AAAAAAACCAAAAAAA
9569625 AAGAAAAA
1 AA-AAAAA
9569633 AATGTTCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.85, C:0.07, G:0.05, T:0.03
Consensus pattern (16 bp):
AAAAAAACCAAAAAAA
Found at i:9569621 original size:11 final size:10
Alignment explanation
Indices: 9569602--9569634 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9569592 GAAAAAATCC
9569602 AAAAAA-AAA
1 AAAAAAGAAA
*
9569611 AAAAACGAAA
1 AAAAAAGAAA
9569621 AAAAAAGAAA
1 AAAAAAGAAA
9569631 AAAA
1 AAAA
9569635 TGTTCTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:9569631 original size:25 final size:26
Alignment explanation
Indices: 9569575--9569634 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
9569565 CCAACACAAC
* *
9569575 AAAAAAAAAAAAAGAAGGAAAAAATC
1 AAAAAAAAAAAAAGAACGAAAAAATA
*
9569601 CAAAAAAAAAAAA-AACGAAAAAA-A
1 AAAAAAAAAAAAAGAACGAAAAAATA
*
9569625 AAGAAAAAAA
1 AAAAAAAAAA
9569635 TGTTCTTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 8 0.28
25 9 0.31
26 12 0.41
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.02
Consensus pattern (26 bp):
AAAAAAAAAAAAAGAACGAAAAAATA
Done.