Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 3 of 250
Found at i:738404 original size:43 final size:43
Alignment explanation
Indices: 738356--738442 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
738346 TGATCTACAA
738356 ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
1 ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
738399 ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
1 ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
738442 A
1 A
738443 TGTAATTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (43 bp):
ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
Found at i:739172 original size:11 final size:11
Alignment explanation
Indices: 739135--739193 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
739125 TAAATATTAT
739135 AAATTTA-AAA
1 AAATTTATAAA
*
739145 AAATTATAAATATA
1 AAATT-T--ATAAA
739159 AAATTTATAAA
1 AAATTTATAAA
739170 AAA-TTATAAAA
1 AAATTTAT-AAA
*
739181 AAATTAATAAA
1 AAATTTATAAA
739192 AA
1 AA
739194 TCTTTACCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
10 9 0.22
11 19 0.47
12 3 0.08
13 2 0.05
14 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTTATAAA
Found at i:739176 original size:25 final size:26
Alignment explanation
Indices: 739125--739179 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
739115 TGTAATATAT
739125 TAAATATTATAAATTTAAAAAAATTA
1 TAAATATTATAAATTTAAAAAAATTA
739151 TAAATA-TA-AAATTTATAAAAAATTA
1 TAAATATTATAAATTTA-AAAAAATTA
739176 TAAA
1 TAAA
739180 AAAATTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
TAAATATTATAAATTTAAAAAAATTA
Found at i:747629 original size:100 final size:100
Alignment explanation
Indices: 747456--747653 Score: 396
Period size: 100 Copynumber: 2.0 Consensus size: 100
747446 TAGTTGCTAG
747456 ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
1 ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
747521 CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCTAA
66 CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCTAA
747556 ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
1 ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
747621 CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCT
66 CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCT
747654 CGTCTTTTTT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (100 bp):
ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCTAA
Found at i:752511 original size:43 final size:44
Alignment explanation
Indices: 752450--752542 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
752440 TCCTAATTGG
752450 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACAT-AAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
752493 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
752537 -AAAATA
1 GAAAATA
752543 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 42 0.89
44 5 0.11
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:752586 original size:19 final size:18
Alignment explanation
Indices: 752564--752603 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
752554 TGAATAAAAC
752564 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
752583 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
752601 TTA
1 TTA
752604 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:757240 original size:43 final size:44
Alignment explanation
Indices: 757179--757271 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
757169 TCCTAATTGG
757179 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
757222 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
757266 -AAAATA
1 GAAAATA
757272 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:757315 original size:19 final size:18
Alignment explanation
Indices: 757293--757332 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
757283 TGAATAAAAC
757293 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
757312 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
757330 TTA
1 TTA
757333 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:766653 original size:13 final size:13
Alignment explanation
Indices: 766629--766674 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
766619 CATACAAAAT
766629 CACATGAGGGTTCG
1 CACAT-AGGGTTCG
*
766643 CACATAGGGTTCA
1 CACATAGGGTTCG
*
766656 CATATAGGGTTCG
1 CACATAGGGTTCG
*
766669 AACATA
1 CACATA
766675 CAGAGTTTGC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (13 bp):
CACATAGGGTTCG
Found at i:766758 original size:24 final size:24
Alignment explanation
Indices: 766697--766818 Score: 72
Period size: 24 Copynumber: 5.1 Consensus size: 24
766687 GTAGGGGTTG
* * * *
766697 CACATACAGGGTTCGGATACTAAGT
1 CACATAGA-GGTTCGCATAATAAAT
766722 CACAT-GAGAGTTCGCATAATAAAT
1 CACATAGAG-GTTCGCATAATAAAT
* *
766746 CACATAGAGGTTCACA-AACATAAT
1 CACATAGAGGTTCGCATAATA-AAT
** * *
766770 CGTATAGGGGTTCGCATACTAAAT
1 CACATAGAGGTTCGCATAATAAAT
* *
766794 C-CATA-AGGGTTCACATAGTAAAT
1 CACATAGA-GGTTCGCATAATAAAT
766817 CA
1 CA
766819 TATTAAAGTT
Statistics
Matches: 75, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
23 22 0.29
24 43 0.57
25 10 0.13
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
CACATAGAGGTTCGCATAATAAAT
Found at i:766810 original size:23 final size:24
Alignment explanation
Indices: 766772--766875 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
766762 AACATAATCG
*
766772 TATAGGGGTTCGCATACTAAATCCA
1 TATA-GGGTTCACATACTAAATCCA
*
766797 TA-AGGGTTCACATAGTAAAT-CA
1 TATAGGGTTCACATACTAAATCCA
** ** * *
766819 TATTAAAGTTTGCATATTAAA-ACA
1 TA-TAGGGTTCACATACTAAATCCA
766843 TATTAGGGTTCACATACTAAATCCA
1 TA-TAGGGTTCACATACTAAATCCA
766868 TA-AGGGTT
1 TATAGGGTT
766876 TGCATGAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
22 4 0.06
23 21 0.34
24 31 0.50
25 6 0.10
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (24 bp):
TATAGGGTTCACATACTAAATCCA
Found at i:767713 original size:127 final size:127
Alignment explanation
Indices: 767487--767741 Score: 440
Period size: 127 Copynumber: 2.0 Consensus size: 127
767477 GGGTCTACGT
**
767487 TAAAAGCCAGAGGAAAAAGAAGGTTCGAAGTTAGTTACGTGCGAGGAAGGTATTAGCACCCTCGC
1 TAAAAGCCAGAGGAAAAAGAAGGTTCGAAGTTAGTTACGCACGAGGAAGGTATTAGCACCCTCGC
*
767552 GACGCTCAAAACTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
66 GACGCCCAAAACTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
*
767614 TAAAAGCCAGAGGAAAAATAAGGTTC-AGAGTTAGTTACGCACGAGGAAGGTATTAGCACCCTCG
1 TAAAAGCCAGAGGAAAAAGAAGGTTCGA-AGTTAGTTACGCACGAGGAAGGTATTAGCACCCTCG
* *
767678 TGACGCCCAAAATTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
65 CGACGCCCAAAACTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
767741 T
1 T
767742 TTGACATTTA
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
126 1 0.01
127 120 0.99
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (127 bp):
TAAAAGCCAGAGGAAAAAGAAGGTTCGAAGTTAGTTACGCACGAGGAAGGTATTAGCACCCTCGC
GACGCCCAAAACTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
Found at i:768250 original size:11 final size:10
Alignment explanation
Indices: 768232--768261 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
768222 TAATGTTAAA
768232 ATATATATAC
1 ATATATATAC
768242 ATGATATATAC
1 AT-ATATATAC
768253 ATATATATA
1 ATATATATA
768262 AAATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (10 bp):
ATATATATAC
Found at i:768624 original size:15 final size:15
Alignment explanation
Indices: 768606--768662 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
768596 ATATTGAAAG
*
768606 TATATATATACATAA
1 TATACATATACATAA
* *
768621 TATATATATATATAA
1 TATACATATACATAA
768636 -A-ACATATACGAT-A
1 TATACATATAC-ATAA
768649 TATACATATACATA
1 TATACATATACATA
768663 GAAATGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.20
14 6 0.17
15 22 0.63
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.37
Consensus pattern (15 bp):
TATACATATACATAA
Found at i:768785 original size:11 final size:11
Alignment explanation
Indices: 768769--769000 Score: 60
Period size: 11 Copynumber: 22.1 Consensus size: 11
768759 TAATACTTGA
768769 AATATATACAT
1 AATATATACAT
*
768780 AATATA-AAAT
1 AATATATACAT
768790 ATATATATA-AT
1 A-ATATATACAT
*
768801 -GTAGTATTA-A-
1 AATA-TA-TACAT
*
768811 AATATATACAC
1 AATATATACAT
768822 AATATATACAT
1 AATATATACAT
*
768833 ATTA-ATA-AT
1 AATATATACAT
768842 AATA-ATA-AT
1 AATATATACAT
768851 AATA-ATA-AT
1 AATATATACAT
**
768860 AA-ACTATTGAT
1 AATA-TATACAT
*
768871 AATATTTCACAAAT
1 AATATAT-AC--AT
768885 ATATATATAC-T
1 A-ATATATACAT
*
768896 AAAAATATACAT
1 -AATATATACAT
*
768908 AATA-ATATAT
1 AATATATACAT
768918 AA-ATATA-AT
1 AATATATACAT
768927 -AT-TA-ACAT
1 AATATATACAT
768935 -ATATAT--AT
1 AATATATACAT
*
768943 AATATATGA-AA
1 AATATAT-ACAT
*
768954 AATATATATAT
1 AATATATACAT
* *
768965 AATATAATATTAA
1 AATAT-ATA-CAT
* *
768978 AATATTTACAA
1 AATATATACAT
768989 AATATATACAT
1 AATATATACAT
769000 A
1 A
769001 TTAGAAATAA
Statistics
Matches: 172, Mismatches: 21, Indels: 56
0.69 0.08 0.22
Matches are distributed among these distances:
7 1 0.01
8 10 0.06
9 36 0.21
10 25 0.15
11 74 0.43
12 9 0.05
13 7 0.04
14 5 0.03
15 5 0.03
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (11 bp):
AATATATACAT
Found at i:768843 original size:3 final size:3
Alignment explanation
Indices: 768835--768861 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
768825 ATATACATAT
768835 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
768862 ACTATTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:768927 original size:13 final size:12
Alignment explanation
Indices: 768885--768996 Score: 73
Period size: 11 Copynumber: 9.8 Consensus size: 12
768875 TTTCACAAAT
768885 ATATATATACTAA
1 ATATATATA-TAA
* *
768898 AAATATACAT-A
1 ATATATATATAA
768909 ATA-ATATATAA
1 ATATATATATAA
768920 ATATA-ATATTAA
1 ATATATATA-TAA
768932 CATATATATAT-A
1 -ATATATATATAA
768944 ATATATGA-A-AA
1 ATATAT-ATATAA
768955 ATATATATAT-A
1 ATATATATATAA
768966 ATATA-ATATTAA
1 ATATATATA-TAA
* *
768978 A-ATATTTACAA
1 ATATATATATAA
768989 A-ATATATA
1 ATATATATA
768997 CATATTAGAA
Statistics
Matches: 80, Mismatches: 7, Indels: 26
0.71 0.06 0.23
Matches are distributed among these distances:
10 9 0.11
11 44 0.55
12 11 0.14
13 13 0.16
14 3 0.04
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.38
Consensus pattern (12 bp):
ATATATATATAA
Found at i:769085 original size:167 final size:166
Alignment explanation
Indices: 768785--769088 Score: 364
Period size: 167 Copynumber: 1.8 Consensus size: 166
768775 TACATAATAT
* * * * *
768785 AAAATATATATATAATGTAGTATTAAAATATATACACAATATATACATATTAATAATAATAATAA
1 AAAATATATATATAATATAATATTAAAATATATACAAAATATATACATATTAATAATAAAAAAAA
* * * * *
768850 TAATAATAATAAACTATTGATAATATTTCACAAATATATATATACTAAAAATATACATAATAATA
66 GAATAATAATAAACTA-TCATAATATTACACAAATATATAAATACTAAAAATATAAATAATAATA
768915 TATAAATATAATATTAACATATATATATAATATATGA
130 TATAAATATAATATTAACATATATATATAATATATGA
*
768952 AAAATATATATATAATATAATATTAAAATATTTACAAAATATATACATATTAGA-AATAAAAAAA
1 AAAATATATATATAATATAATATTAAAATATATACAAAATATATACATATTA-ATAATAAAAAAA
* * * * *
769016 ACGACTAATAATAATGCTA-CATAAGTATATACATAAATATATTAAATAC-ATATATATAAAT-A
65 A-GAATAATAATAA-ACTATCATAA-TAT-TACACAAATATA-TAAATACTAAAAATATAAATAA
769078 TATATATATAA
125 TA-ATATATAA
769089 TTATGCACTG
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
167 61 0.54
168 17 0.15
169 30 0.26
170 6 0.05
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (166 bp):
AAAATATATATATAATATAATATTAAAATATATACAAAATATATACATATTAATAATAAAAAAAA
GAATAATAATAAACTATCATAATATTACACAAATATATAAATACTAAAAATATAAATAATAATAT
ATAAATATAATATTAACATATATATATAATATATGA
Found at i:769265 original size:9 final size:9
Alignment explanation
Indices: 769235--769266 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
769225 ACACTACTAC
769235 ATATAATAA
1 ATATAATAA
*
769244 ATACAATAA
1 ATATAATAA
769253 ATATAATAA
1 ATATAATAA
769262 ATATA
1 ATATA
769267 TAGAGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
ATATAATAA
Found at i:771209 original size:74 final size:74
Alignment explanation
Indices: 771119--771464 Score: 566
Period size: 74 Copynumber: 4.6 Consensus size: 74
771109 AGCATGTGAG
*
771119 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATACTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATATTGAAATTACCT
771184 CAGCGTGTC
66 CAGCGTGTC
* *
771193 CTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTCGACAAACAGAATATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATATTGAAATTACCT
771258 CAGCGTGTC
66 CAGCGTGTC
* * * *
771267 CTGAGGTTCAACTCACCTCTTGCAATATGAGTTGATTTTCGACAAATAGAATATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATATTGAAATTACCT
771332 CAGCGTGTC
66 CAGCGTGTC
771341 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGACAAACAGAATATTGAAATT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGACAAACAGAATATTGAAATT
*
771406 ACCTCAACGTGTC
62 ACCTCAGCGTGTC
* *
771419 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAACAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA
771465 ATTGAAAATA
Statistics
Matches: 254, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
74 184 0.72
78 70 0.28
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATATTGAAATTACCT
CAGCGTGTC
Found at i:772395 original size:43 final size:43
Alignment explanation
Indices: 772303--772428 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
772293 GTGTTTTACC
* * *
772303 TCATTAAAATGCCCTTTT-GGGTTTTCATCC-TAATCTTTTGTGT
1 TCATCAAAATGCCCTTTTCGGGTTTTCA-CCTTGATCCTTT-TGT
*
772346 TAATCAAAATGCCCTTTTCGGGTTTTCACCTTGATCCTTTTGT
1 TCATCAAAATGCCCTTTTCGGGTTTTCACCTTGATCCTTTTGT
**
772389 TCATCAAGGCT-CCCTTTTCGGGTTTTCACCTTGAT-CTTTT
1 TCATCAA-AATGCCCTTTTCGGGTTTTCACCTTGATCCTTTT
772429 CCTTCTTCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 5 0.07
43 51 0.70
44 17 0.23
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (43 bp):
TCATCAAAATGCCCTTTTCGGGTTTTCACCTTGATCCTTTTGT
Found at i:773713 original size:26 final size:26
Alignment explanation
Indices: 773684--773791 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
773674 TGATACAAAT
*
773684 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
773710 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
773736 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
773762 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
773788 TGAT
1 TGAT
773792 GGGAATTTTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:773804 original size:21 final size:21
Alignment explanation
Indices: 773780--773848 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
773770 GATTAGGTAA
773780 ATGTTCCATGATGGGAATTTT
1 ATGTTCCATGATGGGAATTTT
* * * ** *
773801 ATG-TCTGATAATGGGTTAGGTA
1 ATGTTC-CATGATGGG-AATTTT
773823 AATGTTCCATGATGGGAATTTT
1 A-TGTTCCATGATGGGAATTTT
773845 ATGT
1 ATGT
773849 CTTTTATATT
Statistics
Matches: 32, Mismatches: 12, Indels: 8
0.62 0.23 0.15
Matches are distributed among these distances:
20 2 0.06
21 13 0.41
22 6 0.19
23 9 0.28
24 2 0.06
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (21 bp):
ATGTTCCATGATGGGAATTTT
Found at i:773825 original size:44 final size:44
Alignment explanation
Indices: 773762--773850 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
773752 AAATGTTCCA
773762 TGATAATGGATTAGGTAAATGTTCCATGATGGGAATTTTATGTC
1 TGATAATGGATTAGGTAAATGTTCCATGATGGGAATTTTATGTC
*
773806 TGATAATGGGTTAGGTAAATGTTCCATGATGGGAATTTTATGTC
1 TGATAATGGATTAGGTAAATGTTCCATGATGGGAATTTTATGTC
773850 T
1 T
773851 TTTATATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (44 bp):
TGATAATGGATTAGGTAAATGTTCCATGATGGGAATTTTATGTC
Found at i:775538 original size:54 final size:53
Alignment explanation
Indices: 775456--775596 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
775446 AGGAAGCGTC
775456 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
775510 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
775564 CTGGTGGTTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
775597 ACTTCATCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:775592 original size:32 final size:27
Alignment explanation
Indices: 775456--775596 Score: 189
Period size: 27 Copynumber: 5.2 Consensus size: 27
775446 AGGAAGCGTC
*
775456 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
775483 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
775510 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
775537 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
775564 CTGGTGGTTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
775591 CTGGTG
1 CTGGTG
775597 ACTTCATCAC
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.09
27 90 0.88
28 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:779819 original size:42 final size:41
Alignment explanation
Indices: 779665--779820 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
779655 TATGTTATCG
*
779665 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
779707 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
779751 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
779793 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
779821 TGTCCGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:787151 original size:42 final size:41
Alignment explanation
Indices: 786997--787152 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
786987 TATGTTATCG
*
786997 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
787039 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
787083 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
787125 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
787153 TGTCCGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:798423 original size:22 final size:22
Alignment explanation
Indices: 798385--798431 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
798375 ATATAAAATG
798385 TAATATTAAAAACATATATATA
1 TAATATTAAAAACATATATATA
*
798407 TAATATATGAAAA-ATATATATA
1 TAATAT-TAAAAACATATATATA
798429 TAA
1 TAA
798432 CATAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TAATATTAAAAACATATATATA
Found at i:798444 original size:24 final size:23
Alignment explanation
Indices: 798344--798447 Score: 72
Period size: 24 Copynumber: 4.3 Consensus size: 23
798334 AATACTTCAC
798344 AAATATATATACTAAA-AATA-TA
1 AAATATATATA-TAAATAATATTA
798366 CATAATA-ATATATAAAATGTAATATTAA
1 -A-AATATATATAT-AAA--TAATATT-A
* *
798394 AAACATATATATATAAT-ATATGAA
1 AAATATATATATA-AATAATAT-TA
798418 AAATATATATATAACATAATATTA
1 AAATATATATATAA-ATAATATTA
798442 AAATAT
1 AAATAT
798448 TTACATAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
22 1 0.02
23 10 0.15
24 30 0.46
25 5 0.08
26 8 0.12
27 10 0.15
28 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATATATATATAAATAATATTA
Found at i:798730 original size:9 final size:9
Alignment explanation
Indices: 798697--798776 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
798687 TATACACTAC
*
798697 TAAAAATAA
1 TAAATATAA
*
798706 TAAATACAA
1 TAAATATAA
798715 TAAATATAA
1 TAAATATAA
798724 TAAATAT-A
1 TAAATATAA
798732 TAGAGATTATAA
1 TA-A-A-TATAA
*
798744 TTAATAATAA
1 TAAAT-ATAA
*
798754 TAATAAATAA
1 TAA-ATATAA
*
798764 TAGAAAATAA
1 TA-AATATAA
798774 TAA
1 TAA
798777 CAAGTAATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
8 3 0.05
9 25 0.43
10 22 0.38
11 6 0.10
12 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAATATAA
Found at i:798784 original size:20 final size:21
Alignment explanation
Indices: 798741--798802 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
798731 ATAGAGATTA
* * *
798741 TAATTA-ATAATAATAATAAA
1 TAATTAGAAAATAATAACAAG
798761 TAA-TAGAAAATAATAACAAG
1 TAATTAGAAAATAATAACAAG
*
798781 TAATTTGAAAATAA-AAC-AG
1 TAATTAGAAAATAATAACAAG
798800 TAA
1 TAA
798803 ACTAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 7 0.19
20 20 0.56
21 9 0.25
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.27
Consensus pattern (21 bp):
TAATTAGAAAATAATAACAAG
Found at i:805560 original size:46 final size:43
Alignment explanation
Indices: 805508--805741 Score: 235
Period size: 37 Copynumber: 5.6 Consensus size: 43
805498 TTTGAGTACT
**
805508 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG---TAGCTACACTTA
805554 TCTGATCAAGAAACAAAGTGATAAGT-G--GT---TACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
805591 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG---TAGCTACACTTA
805637 TCTGATCAAGAAACAAAGTGATAA---GT-G--GCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
****
805674 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG--TAGCTACACTTA
*
805719 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGAAACAAAGTGATAAG
805742 AGGTCATATG
Statistics
Matches: 163, Mismatches: 8, Indels: 37
0.78 0.04 0.18
Matches are distributed among these distances:
37 64 0.39
38 1 0.01
40 4 0.02
41 1 0.01
42 1 0.01
43 14 0.09
44 1 0.01
45 21 0.13
46 56 0.34
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (43 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
Found at i:805612 original size:83 final size:83
Alignment explanation
Indices: 805508--805741 Score: 375
Period size: 83 Copynumber: 2.9 Consensus size: 83
805498 TTTGAGTACT
805508 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
*
805573 GATAAGTGGTTACACTTA
66 GATAAGTGGCTACACTTA
**
805591 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
805656 GATAAGTGGCTACACTTA
66 GATAAGTGGCTACACTTA
** ** *
805674 TCTGATCAAGTGGTAAAGTGATAAGTGGTAG-CCTAGCTACACTTATCTGATCAAG-GAC-AAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
805736 GATAAG
66 GATAAG
805742 AGGTCATATG
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
80 10 0.07
81 2 0.01
82 22 0.16
83 107 0.76
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (83 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
GATAAGTGGCTACACTTA
Found at i:814974 original size:61 final size:61
Alignment explanation
Indices: 814905--815030 Score: 243
Period size: 61 Copynumber: 2.1 Consensus size: 61
814895 AATTGAATCT
814905 GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTAAAATA
1 GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTAAAATA
*
814966 GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTGAAATA
1 GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTAAAATA
815027 GAAT
1 GAAT
815031 AGAATCGAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.40
Consensus pattern (61 bp):
GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTAAAATA
Found at i:815896 original size:9 final size:9
Alignment explanation
Indices: 815856--815897 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
815846 AAATGTTATA
815856 AAAAAATATT
1 AAAAAAT-TT
815866 AAAAAA-TT
1 AAAAAATTT
815874 ATAAAAATTAT
1 A-AAAAATT-T
815885 AAAAAATTT
1 AAAAAATTT
815894 AAAA
1 AAAA
815898 GCAACAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 3 0.10
9 10 0.34
10 14 0.48
11 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAAATTT
Found at i:827243 original size:21 final size:21
Alignment explanation
Indices: 827217--827257 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
827207 ATCTGCTCAA
* *
827217 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
827238 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
827258 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:830726 original size:17 final size:16
Alignment explanation
Indices: 830704--830764 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
830694 ATAAAAAAAA
830704 TTATAATTTTAAATTTT
1 TTATAATTTT-AATTTT
*
830721 TTATAAATTT-A-TTT
1 TTATAATTTTAATTTT
*
830735 TTATAATTTTTATGTTT
1 TTATAATTTTAAT-TTT
830752 TTAATAATTTTAA
1 TT-ATAATTTTAA
830765 GCTTTAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.32
15 2 0.05
17 14 0.38
18 9 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATAATTTTAATTTT
Found at i:830753 original size:31 final size:32
Alignment explanation
Indices: 830704--830763 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
830694 ATAAAAAAAA
830704 TTATAATTTTAAATTTTTT-ATAAATTTATTT
1 TTATAATTTTAAATTTTTTAATAAATTTATTT
* *
830735 TTATAATTTT-TATGTTTTTAATAATTTTA
1 TTATAATTTTAAAT-TTTTTAATAAATTTA
830764 AGCTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 15 0.60
32 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (32 bp):
TTATAATTTTAAATTTTTTAATAAATTTATTT
Found at i:831196 original size:24 final size:25
Alignment explanation
Indices: 831142--831199 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
831132 AGCTTAATAA
*
831142 TAAATTTATCCTTTATATTATTTTAT
1 TAAATTTA-GCTTTATATTATTTTAT
831168 T-AATTTAGCTTT-TATT-TTTTAGT
1 TAAATTTAGCTTTATATTATTTTA-T
831191 TAAATTTAG
1 TAAATTTAG
831200 TGTCCTCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 5 0.17
23 6 0.21
24 11 0.38
25 6 0.21
26 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (25 bp):
TAAATTTAGCTTTATATTATTTTAT
Found at i:831949 original size:27 final size:27
Alignment explanation
Indices: 831918--831971 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
831908 AGTATTTTAA
* *
831918 AATTTATTAAATTATAAATTTATATTT
1 AATTTATTAAATAATAAAATTATATTT
*
831945 AATTTTTTAAATAATAAAATTATATTT
1 AATTTATTAAATAATAAAATTATATTT
831972 TTACCCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
AATTTATTAAATAATAAAATTATATTT
Found at i:839937 original size:25 final size:25
Alignment explanation
Indices: 839909--839973 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
839899 CTGAGTAACA
839909 GGAAGCTCATACGAGTTGTATATCT
1 GGAAGCTCATACGAGTTGTATATCT
839934 GGAAGCTCATACGAGTTGTATATCT
1 GGAAGCTCATACGAGTTGTATATCT
* *
839959 GGAAGCCCTTACGAG
1 GGAAGCTCATACGAG
839974 CAAAATATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (25 bp):
GGAAGCTCATACGAGTTGTATATCT
Found at i:839988 original size:25 final size:25
Alignment explanation
Indices: 839960--840014 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
839950 TGTATATCTG
* *
839960 GAAGCCCTTACGAGCAAAATATCGA
1 GAAGCCCATAAGAGCAAAATATCGA
* *
839985 GAAGCTCATAAGAGCTAAATATCGA
1 GAAGCCCATAAGAGCAAAATATCGA
840010 GAAGC
1 GAAGC
840015 TCAAGAGAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (25 bp):
GAAGCCCATAAGAGCAAAATATCGA
Found at i:840015 original size:25 final size:25
Alignment explanation
Indices: 839971--840025 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
839961 AAGCCCTTAC
*
839971 GAGCAAAATATCGAGAAGCTCATA-A
1 GAGCTAAATATCGAGAAGCTCA-AGA
839996 GAGCTAAATATCGAGAAGCTCAAGA
1 GAGCTAAATATCGAGAAGCTCAAGA
840021 GAGCT
1 GAGCT
840026 GTGGTATGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (25 bp):
GAGCTAAATATCGAGAAGCTCAAGA
Found at i:850702 original size:73 final size:73
Alignment explanation
Indices: 850625--850785 Score: 171
Period size: 73 Copynumber: 2.2 Consensus size: 73
850615 TATAATGGGG
* ** * *
850625 AGCTCAAAAGAGCCATA-ATCAAGAAGCTCATGTGAGCCAATAACGAGTAGCTCTGAAGAGCCAT
1 AGCTCAAAAGAGCCATATATCAAGAAGCTCAAGCAAGCC-ATAACGAGAAGCTCCGAAGAGCCAT
850689 TAATCAAGA
65 TAATCAAGA
*** * * * * *
850698 AGCTCCGGATAGCCATATATCAGGAAGTTCAAGCAAGCCATATCGGGAAGCTCCGAAGAGCCATT
1 AGCTCAAAAGAGCCATATATCAAGAAGCTCAAGCAAGCCATAACGAGAAGCTCCGAAGAGCCATT
*
850763 AATCAGGA
66 AATCAAGA
850771 AGCTCACAAAGAGCC
1 AGCTCA-AAAGAGCC
850786 TTTAATCGGG
Statistics
Matches: 68, Mismatches: 18, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
73 47 0.69
74 21 0.31
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (73 bp):
AGCTCAAAAGAGCCATATATCAAGAAGCTCAAGCAAGCCATAACGAGAAGCTCCGAAGAGCCATT
AATCAAGA
Found at i:850773 original size:25 final size:25
Alignment explanation
Indices: 850673--850812 Score: 119
Period size: 25 Copynumber: 5.6 Consensus size: 25
850663 AATAACGAGT
* *
850673 AGCTCTGAAGAGCCATTAATCAAGA
1 AGCTCCGAAGAGCCATTAATCAGGA
* *
850698 AGCTCCGGATAGCCA-TATATCAGGA
1 AGCTCCGAAGAGCCATTA-ATCAGGA
* *
850723 AG-TTC-AAGCAAGCCA-T-ATCGGGA
1 AGCTCCGAAG--AGCCATTAATCAGGA
850746 AGCTCCGAAGAGCCATTAATCAGGA
1 AGCTCCGAAGAGCCATTAATCAGGA
* * *
850771 AGCTCACAAAGAGCCTTTAATCGGGA
1 AGCTC-CGAAGAGCCATTAATCAGGA
*
850797 AGCTCCAAAGAGCCAT
1 AGCTCCGAAGAGCCAT
850813 ATATCGGGAC
Statistics
Matches: 93, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
23 14 0.15
24 7 0.08
25 50 0.54
26 22 0.24
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCAGGA
Found at i:850818 original size:25 final size:26
Alignment explanation
Indices: 850739--850821 Score: 109
Period size: 25 Copynumber: 3.3 Consensus size: 26
850729 AGCAAGCCAT
*
850739 ATCGGGAAGCTCCGAAGAGCCAT-TA
1 ATCGGGAAGCTCCAAAGAGCCATATA
* *
850764 ATCAGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTC-CAAAGAGCCATATA
850790 ATCGGGAAGCTCCAAAGAGCCATAT-
1 ATCGGGAAGCTCCAAAGAGCCATATA
850815 ATCGGGA
1 ATCGGGA
850822 CACTCATAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
25 28 0.55
26 23 0.45
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
ATCGGGAAGCTCCAAAGAGCCATATA
Found at i:854278 original size:29 final size:24
Alignment explanation
Indices: 854235--854290 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 24
854225 AGATTACAAA
854235 ATCATATATTCAAGATTGCATATCAT
1 ATCATATATTCAAGATT--ATATCAT
854261 ATCATATTATATCTAAGATTATATCAT
1 ATCATA-TAT-TC-AAGATTATATCAT
854288 ATC
1 ATC
854291 TAAGATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 6 0.22
27 13 0.48
28 2 0.07
29 6 0.22
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (24 bp):
ATCATATATTCAAGATTATATCAT
Found at i:854305 original size:19 final size:19
Alignment explanation
Indices: 854263--854323 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
854253 CATATCATAT
*
854263 CATATTATATCTAAGATT-
1 CATATCATATCTAAGATTG
854281 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
854299 CATATCATACCTAAGATTG
1 CATATCATATCTAAGATTG
854318 CATATC
1 CATATC
854324 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
17 16 0.41
19 23 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:855083 original size:261 final size:256
Alignment explanation
Indices: 854609--855121 Score: 688
Period size: 261 Copynumber: 2.0 Consensus size: 256
854599 CATGGTCCTC
* * **
854609 AATCTGCTCATTGCAAACTCAAGACTGTCATGTTTATATCTTCGATATGCTCTCCGTCGAACACA
1 AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATATACTCTCCACCGAACACA
* * * *
854674 GAGACGCCAAATCTACTTCTTCGATTTGTTTTCTGACAATACAGAGATGCCAAATTATCTTAGAT
66 GAGACGCCAAATCTACTTCTTCGATTTCTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
* * * * * *
854739 CTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACAGA
131 CTGCTTCAGCGTAAACACGCGAAAACCAAATCAGCTATGCCTTCGATTTGCTCCTTGTGAACACA
* *
854804 AGGATGTCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTT
196 AGGATGCCAAACCATCTTGGATCTGCTTCAG-----TCATCTGAAGGTCAGATCTGCTATGTCTT
854869 T
256 T
* * * * * * *
854870 AATCTGCTTC-TTGTAAACTTATGACTGTCCTGTTGATATCTTTGATCTACTCTCCACCGAATAC
1 AATCTGC-TCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATATACTCTCCACCGAACAC
* *
854934 TGAGACGCCAAATCTATTTCTTCGATTTCTTCTCTAACAATACAGAGATGCCAAATCATCTTAGA
65 AGAGACGCCAAATCTACTTCTTCGATTTCTTCTCTAACAATACAGAGATGCCAAATCATCTTAGA
* * *
854999 TTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGT-AAGCA
130 TCTGCTTCAGCGTAAACACGCGAAAACCAAATCAGCTATGCCTTCGATTTGCTCCTTGTGAA-CA
*
855063 CAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGT
194 CAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGT
855122 ATCTGCTCTC
Statistics
Matches: 221, Mismatches: 29, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
256 25 0.11
260 2 0.01
261 192 0.87
262 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (256 bp):
AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATATACTCTCCACCGAACACA
GAGACGCCAAATCTACTTCTTCGATTTCTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
CTGCTTCAGCGTAAACACGCGAAAACCAAATCAGCTATGCCTTCGATTTGCTCCTTGTGAACACA
AGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGTCTTT
Found at i:855433 original size:41 final size:41
Alignment explanation
Indices: 855387--855498 Score: 100
Period size: 46 Copynumber: 2.6 Consensus size: 41
855377 ATACAGAGAT
**
855387 GCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAA
1 GCCAAATCATCTTAGATTTGCTTCATCGTAAGCACAAGAAA
* * * *
855428 GCCAAATCAGCTATGTCTTCGATTTG-TTCCTTGTAAGCACAAGAAT
1 GCCAAAT---C-A--TCTTAGATTTGCTTCATCGTAAGCACAAGAAA
*
855474 GCCAAATCATCTTGGATTTGCTTCA
1 GCCAAATCATCTTAGATTTGCTTCA
855499 GTATAAACAT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
40 10 0.18
41 10 0.18
42 1 0.02
43 1 0.02
44 1 0.02
45 1 0.02
46 22 0.39
47 10 0.18
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (41 bp):
GCCAAATCATCTTAGATTTGCTTCATCGTAAGCACAAGAAA
Found at i:855675 original size:206 final size:205
Alignment explanation
Indices: 854953--855892 Score: 1525
Period size: 206 Copynumber: 4.6 Consensus size: 205
854943 AAATCTATTT
* * *
854953 CTTCGATTTCTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * *
855018 GCGAAAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
855083 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
* *
855143 AGATGCCAGA
196 AGACGCCAAA
*
855153 CTTCGATTTGTTCTCTGACTATA-AGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
855217 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
855282 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCCGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
** *
855347 AGATACCAGA
196 AGACGCCAAA
855357 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
855422 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
855487 GGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAA-ATG
855552 GAGACGCCAAA
195 GAGACGCCAAA
855563 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
855628 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * ** * * *
855693 GGATTTGCTTCAGTATAAACATATGAAGGCCAGATTTACTATGTGTCTGCTCTTCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAA-ATG
855758 GAGACGCCAAA
195 GAGACGCCAAA
* * * * *
855769 CTTTGATTTGTTCTCTAACAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC-C
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
855833 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
855893 TGCTATCTTC
Statistics
Matches: 702, Mismatches: 31, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
199 115 0.16
200 20 0.03
201 1 0.00
204 75 0.11
205 223 0.32
206 268 0.38
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
AGACGCCAAA
Found at i:855735 original size:411 final size:405
Alignment explanation
Indices: 854953--855892 Score: 1533
Period size: 411 Copynumber: 2.3 Consensus size: 405
854943 AAATCTATTT
*
854953 CTTCGATTTCTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
855018 GCGAAAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
855083 GGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
131 GGATCTGCTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGACG
* *
855148 CCAGACTTCGATTTGTTCTCTGACTATAAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAA
196 CCAAACTTCGATTTGTTCTCTGACAATAAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAA
855213 GCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
261 GCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
* * **
855278 TCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCCGCTCTCCGTCGAA
326 CCTTGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTATCCGCTCTCCGTCGAA
* *
855343 -ATGGAGATACCAGA
391 TATGGAGACACCAAA
* *
855357 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
855422 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
855487 GGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAA-ATG
855552 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
190 GAGACGCCAAACTTCGATTTGTTCTCTGACAATA-AGAGATGCCAAATCATCTTAGATTTGCTTC
855617 ATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
254 ATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
* * * * * *
855682 CAAATCACCTTGGATTTGCTTCAGTATAAACATATGAAGGCCAGATTTACTATGTGTCTGCTCTT
319 CAAACCACCTTGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTATCCGCTCTC
*
855747 CGTCGAATATGGAGACGCCAAA
384 CGTCGAATATGGAGACACCAAA
* * *
855769 CTTTGATTTGTTCTCTAACAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC-C
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
855833 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
855893 TGCTATCTTC
Statistics
Matches: 495, Mismatches: 33, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
404 134 0.27
406 1 0.00
409 40 0.08
410 34 0.07
411 217 0.44
412 69 0.14
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (405 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGACG
CCAAACTTCGATTTGTTCTCTGACAATAAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAA
GCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
CCTTGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTATCCGCTCTCCGTCGAA
TATGGAGACACCAAA
Found at i:855913 original size:44 final size:43
Alignment explanation
Indices: 855839--856156 Score: 187
Period size: 44 Copynumber: 7.2 Consensus size: 43
855829 AACCGTGAAA
* * * * * *
855839 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAT
1 GCCAAATCTGCTA--TCTTCAACTTGTTCC-TATAAACACAGGGAT
855885 GCCAAATCTGCTATCTTCAACTTGTTCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCAACTTGTTCCTATAAACACAGGGAT
*** * ** * * *
855928 GCC--ATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAGGAAT
1 GCCAAAT-CTGCTATCTTC-AACTTGTTC-CTATAAACACAGGGAT
* * * * *
855972 GTCAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCAACTTGTT-CCTATAAACACAGGGAT
856016 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCAACTTGTT-CCTATAAACACAGGGAT
** ** * * * * *
856060 GCC--ATGCTGAAATCTTTGA-TCTGCTTCGCTGTAAGCATAAGAAT
1 GCCAAAT-CTGCTATCTTCAACT-TG-TTC-CTATAAACACAGGGAT
* * * *
856104 GTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCAACTTGTT-CCTATAAACACAGGGAT
856148 GCCAAATCT
1 GCCAAATCT
856157 TGTTTCTTTA
Statistics
Matches: 206, Mismatches: 52, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
41 2 0.01
42 11 0.05
43 33 0.16
44 121 0.59
45 22 0.11
46 17 0.08
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
GCCAAATCTGCTATCTTCAACTTGTTCCTATAAACACAGGGAT
Found at i:856092 original size:132 final size:131
Alignment explanation
Indices: 855854--856156 Score: 507
Period size: 132 Copynumber: 2.3 Consensus size: 131
855844 ATCAGCTATG
* * * *
855854 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCTATAAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTATAAA
* *
855919 CACAGGGATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGTT
66 CACAGGGATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGCT
855984 A
131 A
855985 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT-CCTATAA
* * * *
856050 ACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCATAAGAATGTCAGATCTGC
65 ACACAGGGATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGC
856115 TA
130 TA
856117 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
856157 TGTTTCTTTA
Statistics
Matches: 161, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
131 53 0.33
132 108 0.67
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (131 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCTATAAA
CACAGGGATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGCT
A
Found at i:857032 original size:24 final size:22
Alignment explanation
Indices: 857004--857071 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
856994 CACCTTGGCC
857004 TCTCTATTTTTCTTTTTTCATTTT
1 TCTCT-TTTTTCTTTTTT-ATTTT
*
857028 TCTCTTTTTT-TATTATTATTTT
1 TCTCTTTTTTCT-TTTTTATTTT
*
857050 TTTCTTTTTT-TTCTTTT-TTTT
1 TCTCTTTTTTCTT-TTTTATTTT
857071 T
1 T
857072 GAAATAAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 6 0.15
22 19 0.49
23 9 0.23
24 5 0.13
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (22 bp):
TCTCTTTTTTCTTTTTTATTTT
Found at i:857060 original size:9 final size:9
Alignment explanation
Indices: 857046--857070 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
857036 TTTATTATTA
857046 TTTTTTTCT
1 TTTTTTTCT
857055 TTTTTTTCT
1 TTTTTTTCT
857064 TTTTTTT
1 TTTTTTT
857071 TGAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:863747 original size:17 final size:18
Alignment explanation
Indices: 863725--863777 Score: 90
Period size: 17 Copynumber: 2.9 Consensus size: 18
863715 ATATCATATC
863725 ATATCATATCTAAGATT-
1 ATATCATATCTAAGATTA
863742 ATATCATATCTAAGATTA
1 ATATCATATCTAAGATTA
863760 CATATCATATCTAAGATT
1 -ATATCATATCTAAGATT
863778 GCATATCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.50
19 17 0.50
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.40
Consensus pattern (18 bp):
ATATCATATCTAAGATTA
Found at i:863766 original size:19 final size:18
Alignment explanation
Indices: 863723--863784 Score: 99
Period size: 19 Copynumber: 3.4 Consensus size: 18
863713 GTATATCATA
863723 TCATATCATATCTAAGAT
1 TCATATCATATCTAAGAT
863741 T-ATATCATATCTAAGAT
1 TCATATCATATCTAAGAT
863758 TACATATCATATCTAAGAT
1 T-CATATCATATCTAAGAT
863777 TGCATATC
1 T-CATATC
863785 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 17 0.41
18 1 0.02
19 23 0.56
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATATCATATCTAAGAT
Found at i:884269 original size:12 final size:12
Alignment explanation
Indices: 884249--884282 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
884239 GTTCTTGTAC
*
884249 ATTAGATTAAAG
1 ATTAAATTAAAG
884261 ATTAAATTAAAG
1 ATTAAATTAAAG
*
884273 AGTAAATTAA
1 ATTAAATTAA
884283 TCTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (12 bp):
ATTAAATTAAAG
Found at i:894421 original size:38 final size:38
Alignment explanation
Indices: 894379--894477 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
894369 AAAGACCCGT
*
894379 AGGCTTTATGCTGGAATTATATCCGGGTTAAATCCCAC
1 AGGCTTTATGCTGGTATTATATCCGGGTTAAATCCCAC
** * **
894417 AGGCTTCGTGTTGGTATTATATCCGGGTTAAATCCTGC
1 AGGCTTTATGCTGGTATTATATCCGGGTTAAATCCCAC
*
894455 AGGC-CTAGTGCTGGTATTATATC
1 AGGCTTTA-TGCTGGTATTATATC
894478 TGAGTTTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (38 bp):
AGGCTTTATGCTGGTATTATATCCGGGTTAAATCCCAC
Found at i:895951 original size:21 final size:22
Alignment explanation
Indices: 895926--895967 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
895916 AAGATACATT
*
895926 TTTCA-ATTTTTGAGTACCTCA
1 TTTCACATTTTGGAGTACCTCA
895947 TTTCATCATTTTGGAGTACCT
1 TTTCA-CATTTTGGAGTACCT
895968 TGCTGATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
23 13 0.72
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (22 bp):
TTTCACATTTTGGAGTACCTCA
Found at i:899723 original size:46 final size:46
Alignment explanation
Indices: 899663--899773 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
899653 TGTGAATTGG
* *
899663 GACCACAAACTCCCCTTGCAAGCACACATTGGCATGTGCGAGCTGA
1 GACCGCAAGCTCCCCTTGCAAGCACACATTGGCATGTGCGAGCTGA
* *** * *
899709 GACCGTAAGCTCCCCTTATGAGCACTCCTTGGCATGTGCGAGCTGA
1 GACCGCAAGCTCCCCTTGCAAGCACACATTGGCATGTGCGAGCTGA
*
899755 GACCGCGAGCTCCCCTTGC
1 GACCGCAAGCTCCCCTTGC
899774 TGACTTCTCA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.20
Consensus pattern (46 bp):
GACCGCAAGCTCCCCTTGCAAGCACACATTGGCATGTGCGAGCTGA
Found at i:899969 original size:22 final size:22
Alignment explanation
Indices: 899925--899969 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
899915 TTCTATTTTG
* ** *
899925 ATCATTGAACTTTTTTTATTTA
1 ATCATTAAACTTTTTAAAATTA
899947 ATCATTAAACTTTTTAAAATTA
1 ATCATTAAACTTTTTAAAATTA
899969 A
1 A
899970 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (22 bp):
ATCATTAAACTTTTTAAAATTA
Found at i:906423 original size:29 final size:28
Alignment explanation
Indices: 906368--906441 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
906358 TTACAAGTTG
* * *
906368 ATTTTATAT-ATTATATATCATATTTAA
1 ATTTGATATAATTATATATAAAATTTAA
906395 ATTTGATATAATTATATATAAAACTTTAA
1 ATTTGATATAATTATATATAAAA-TTTAA
*
906424 TTTTGAT-TAAATTATATA
1 ATTTGATAT-AATTATATA
906442 CATATTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 8 0.20
28 12 0.30
29 20 0.50
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
ATTTGATATAATTATATATAAAATTTAA
Found at i:912360 original size:42 final size:42
Alignment explanation
Indices: 912239--912360 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
912229 TACCGTACCA
*
912239 ATGTCATATCTCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGTCATATCTCAGATATGGTCTTACATGTAATCTCATATCG
* * * * *
912281 ATGCCAATAGCCCAGTTATGGTCTTACACG-AAGTCTCATATCG
1 ATGTC-ATATCTCAGATATGGTCTTACATGTAA-TCTCATATCG
912324 ATGTCATATCTCAGATATGGTCTTACATGTAATCTCA
1 ATGTCATATCTCAGATATGGTCTTACATGTAATCTCA
912361 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (42 bp):
ATGTCATATCTCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:914176 original size:32 final size:32
Alignment explanation
Indices: 914140--914200 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
914130 TCATAAACTT
* *
914140 ATAAATTGATTACTTGAATTTAATAACTCGTG
1 ATAAATTAATTAATTGAATTTAATAACTCGTG
* *
914172 ATAAATTAATTAATTTAATTTGATAACTC
1 ATAAATTAATTAATTGAATTTAATAACTC
914201 ATATTGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCGTG
Found at i:921566 original size:18 final size:18
Alignment explanation
Indices: 921545--921589 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
921535 CATTCTTCTC
921545 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
921563 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTCTCCTT
921581 CCCTTTCCC
1 CCCTTTCCC
921590 GTTTCGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (18 bp):
CCCTTTCCCCTTCTCCTT
Found at i:922767 original size:35 final size:34
Alignment explanation
Indices: 922728--922793 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
922718 CAAACACCAG
*
922728 AAAACATTTTCCAGTAAGTCATTTTACAGAAATAT
1 AAAACATTTTCCAG-AAATCATTTTACAGAAATAT
*
922763 AAAACATTTTCCAGAAATCATTTTACGGAAA
1 AAAACATTTTCCAGAAATCATTTTACAGAAA
922794 ACATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGAAATCATTTTACAGAAATAT
Found at i:922786 original size:14 final size:14
Alignment explanation
Indices: 922763--922802 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
922753 ACAGAAATAT
*
922763 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
922777 AAATCATTTTACGG
1 AAAACATTTTACAG
922791 AAAACATTTTAC
1 AAAACATTTTAC
922803 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:923820 original size:22 final size:22
Alignment explanation
Indices: 923777--923821 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
923767 AATTCATGAG
**
923777 AGGTTAAGCAAAATTATTTTTA
1 AGGTTAAGCAAAATTAGCTTTA
*
923799 AGGTTAAGCAAATTTAGCTTTA
1 AGGTTAAGCAAAATTAGCTTTA
923821 A
1 A
923822 AATTATAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
AGGTTAAGCAAAATTAGCTTTA
Found at i:926413 original size:25 final size:26
Alignment explanation
Indices: 926371--926419 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
926361 ATTATTATTA
*
926371 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
926396 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
926420 CAGAATAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:928139 original size:23 final size:23
Alignment explanation
Indices: 928109--928195 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
928099 GCTTTATCGA
* *
928109 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
928132 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
928153 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
928175 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
928196 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:929473 original size:23 final size:23
Alignment explanation
Indices: 929442--929486 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
929432 TATAACATTA
*
929442 CAAGTAATGAGTGACATCTTAGT
1 CAAGCAATGAGTGACATCTTAGT
*
929465 CAAGCAATGAGTGACATTTTAG
1 CAAGCAATGAGTGACATCTTAG
929487 CAATGTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (23 bp):
CAAGCAATGAGTGACATCTTAGT
Found at i:934285 original size:16 final size:16
Alignment explanation
Indices: 934264--934294 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
934254 AATATAATAG
*
934264 ATGATATATGATATAC
1 ATGATATATAATATAC
934280 ATGATATATAATATA
1 ATGATATATAATATA
934295 ATTTATATAT
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:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (16 bp):
ATGATATATAATATAC
Found at i:934699 original size:22 final size:21
Alignment explanation
Indices: 934669--934715 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
934659 TACAAATTAA
934669 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
934691 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
934712 ATCT
1 ATCT
934716 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:934721 original size:19 final size:19
Alignment explanation
Indices: 934686--934745 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
934676 AGATTACAAG
934686 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
934707 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
934724 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
934743 ATC
1 ATC
934746 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:935630 original size:44 final size:44
Alignment explanation
Indices: 935576--935674 Score: 153
Period size: 44 Copynumber: 2.2 Consensus size: 44
935566 ATCAGCTATG
* * *
935576 TCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAACCTGGTA
1 TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAACCTGCTA
* *
935620 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAACCTGCTA
935664 TCTTCGATCTG
1 TCTTCGATCTG
935675 TTCCCTATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAACCTGCTA
Found at i:935696 original size:44 final size:44
Alignment explanation
Indices: 935599--936055 Score: 383
Period size: 44 Copynumber: 10.4 Consensus size: 44
935589 CTCCGCCAAT
* * * * * * *
935599 ACAGAGATGCCAAACCTGGTATCTTCGATCTGCTCTCTGA-CAAT
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCT-ATAAAC
*
935643 ACAGAGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
** * * ** *
935687 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGCAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
935731 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
*
935775 ACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* * ** * * * *
935819 ACAGGGATGTCATA-CTGAAATCTTTGATCTGCTTCACTGTAAGC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * *
935863 ACAGGAATGTCAGATCTTCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
935907 ACAGGGATGTCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * *
935951 ACAGGGATGCC--ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * * *
935995 ACATGAATGTCAGATCTGCTATCTTCGATCTGTTTCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
936039 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
936056 TGTTTCTTTG
Statistics
Matches: 328, Mismatches: 68, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
42 4 0.01
43 43 0.13
44 232 0.71
45 45 0.14
46 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:935863 original size:132 final size:132
Alignment explanation
Indices: 935643--936055 Score: 677
Period size: 132 Copynumber: 3.1 Consensus size: 132
935633 CTCTGACAAT
* *
935643 ACAGAGATGCCAAATCTGCTATCTTCGA-TCTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
1 ACAGGGATGCCAAATCTGCTATCTTCAACT-TGTTCCCTATAAACACAGGGATGCCATGCTGAAA
* * *
935707 TCCTCGATCTGCTTCGCTGCAAGCACAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATA
65 TCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATA
935772 AAC
130 AAC
* *
935775 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGTCATACTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* *
935840 CTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCT-TCTATCTTCGATCTGTTCCCTATA
66 CTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGT-TATCTTCGATCTGTTCCCTATA
935904 AAC
130 AAC
*
935907 ACAGGGATGTCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* * *
935972 CTTCGATCTGCTTCGCTGTAAGCACATGAATGTCAGATCTGCTATCTTCGATCTGTTTCCTATAA
66 CTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
936037 AC
131 AC
936039 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
936056 TGTTTCTTTG
Statistics
Matches: 260, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
131 1 0.00
132 258 0.99
133 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
CTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
AC
Found at i:936953 original size:7 final size:7
Alignment explanation
Indices: 936941--936991 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
936931 GGCCTCTCCA
936941 TTTTTTC
1 TTTTTTC
936948 TTTTTTC
1 TTTTTTC
936955 TTTTTT-
1 TTTTTTC
*
936961 TTTCTCTTT
1 TTT-T-TTC
936970 TTCTTTTC
1 TT-TTTTC
936978 TTTTTTCC
1 TTTTTT-C
936986 TTTTTT
1 TTTTTT
936992 TTGAAATAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
6 3 0.08
7 18 0.47
8 13 0.34
9 3 0.08
10 1 0.03
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:936968 original size:19 final size:19
Alignment explanation
Indices: 936941--936991 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
936931 GGCCTCTCCA
936941 TTTTTTCTTTTTTC-TTT-
1 TTTTTTCTTTTTTCTTTTC
936958 TTTTTTCTCTTTTTCTTTTC
1 TTTTTTCT-TTTTTCTTTTC
936978 TTTTTTCCTTTTTT
1 TTTTTT-CTTTTTT
936992 TTGAAATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.27
18 6 0.20
19 3 0.10
20 11 0.37
21 2 0.07
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTCTTTTTTCTTTTC
Found at i:936970 original size:18 final size:17
Alignment explanation
Indices: 936941--936982 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
936931 GGCCTCTCCA
936941 TTTTTTCTTTTTTCTTT
1 TTTTTTCTTTTTTCTTT
936958 TTTTTTCTCTTTTTCTTT
1 TTTTTTCT-TTTTTCTTT
936976 TCTTTTT
1 T-TTTTT
936983 TCCTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
18 10 0.43
19 5 0.22
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTCTTTTTTCTTT
Found at i:936988 original size:13 final size:12
Alignment explanation
Indices: 936941--936993 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
936931 GGCCTCTCCA
936941 TTTTTTCTTTT-
1 TTTTTTCTTTTC
*
936952 TTCTTTTTTTTTC
1 TT-TTTTCTTTTC
936965 TCTTTTTCTTTTC
1 T-TTTTTCTTTTC
936978 TTTTTTCCTTTT-
1 TTTTTT-CTTTTC
936990 TTTT
1 TTTT
936994 GAAATAGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.47
13 16 0.44
14 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:936989 original size:18 final size:18
Alignment explanation
Indices: 936941--936993 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
936931 GGCCTCTCCA
*
936941 TTTTTTCT-TTTTTCTTT
1 TTTTTTCTCCTTTTCTTT
*
936958 TTTTTTCTCTTTTTCTTT
1 TTTTTTCTCCTTTTCTTT
936976 TCTTTTT-TCCTTTT-TTT
1 T-TTTTTCTCCTTTTCTTT
936993 T
1 T
936994 GAAATAGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 12 0.36
18 16 0.48
19 5 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCTCCTTTTCTTT
Found at i:943345 original size:29 final size:28
Alignment explanation
Indices: 943290--943345 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
943280 GATATACACA
* *
943290 ATATAAAAATATATAAAAGAATTAGTAT
1 ATATAAAAATATATAAAAAAATGAGTAT
943318 ATATAAAAA-ATATAAAATAAAGTGAGTA
1 ATATAAAAATATATAAAA-AAA-TGAGTA
943346 ATTGTTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (28 bp):
ATATAAAAATATATAAAAAAATGAGTAT
Found at i:943492 original size:16 final size:15
Alignment explanation
Indices: 943451--943502 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 15
943441 TGAAACATAA
943451 ATAATATAATAGATGAT
1 ATAATATAAT-GAT-AT
943468 ATACGATATACATGATAT
1 ATA--ATATA-ATGATAT
943486 ATAATATAAT-ATAT
1 ATAATATAATGATAT
943500 ATA
1 ATA
943503 CATGCATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.22
15 2 0.06
16 5 0.16
17 3 0.09
18 5 0.16
19 8 0.25
20 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (15 bp):
ATAATATAATGATAT
Found at i:943900 original size:22 final size:21
Alignment explanation
Indices: 943870--943935 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
943860 TACAAATTAA
943870 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
943892 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
943913 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
943932 ATCT
1 ATCT
943936 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:943922 original size:19 final size:19
Alignment explanation
Indices: 943887--943965 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
943877 AGATTACAAG
943887 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
943908 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
943927 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
943944 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
943963 ATC
1 ATC
943966 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:943929 original size:14 final size:15
Alignment explanation
Indices: 943909--943965 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
943899 AGATTGCATA
943909 TCATATCTAAGATTG
1 TCATATCTAAGATTG
943924 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
943943 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
943960 -CATATC
1 TCATATC
943966 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:943951 original size:36 final size:39
Alignment explanation
Indices: 943887--943965 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
943877 AGATTACAAG
943887 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
943927 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
943963 ATC
1 ATC
943966 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:945273 original size:43 final size:43
Alignment explanation
Indices: 945212--945297 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
945202 CTTTAGAATG
*
945212 TAAGTTGTTGTCTTTAGAGGCACTAACCAAATAAGCACTTTTA
1 TAAGTTGTTGTCTTTAGAGGCACTAACAAAATAAGCACTTTTA
*
945255 TAAGTTGTTGTCTTTAGAGGCACTAACAAAATGAGCACTTTTA
1 TAAGTTGTTGTCTTTAGAGGCACTAACAAAATAAGCACTTTTA
945298 GACTTATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (43 bp):
TAAGTTGTTGTCTTTAGAGGCACTAACAAAATAAGCACTTTTA
Found at i:961170 original size:15 final size:16
Alignment explanation
Indices: 961144--961176 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
961134 CTGGAACTGT
*
961144 TTATGACATTCATTTA
1 TTATGACATTCATGTA
961160 TTATG-CATTCATGTA
1 TTATGACATTCATGTA
961175 TT
1 TT
961177 TCTATGTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (16 bp):
TTATGACATTCATGTA
Found at i:964769 original size:14 final size:15
Alignment explanation
Indices: 964751--964799 Score: 59
Period size: 14 Copynumber: 3.3 Consensus size: 15
964741 AGAAGTGGTA
964751 AAAGAAGATGAAGA-
1 AAAGAAGATGAAGAG
964765 AAAGAAGCAT-AAGGAG
1 AAAGAAG-ATGAA-GAG
964781 AAA-AAGATGAAGAG
1 AAAGAAGATGAAGAG
964795 AAAGA
1 AAAGA
964800 TGAGAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 17 0.57
15 10 0.33
16 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.29, T:0.06
Consensus pattern (15 bp):
AAAGAAGATGAAGAG
Found at i:964813 original size:29 final size:29
Alignment explanation
Indices: 964750--964813 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
964740 AAGAAGTGGT
* * *
964750 AAAAGAAGATGAAGAAAAGAAGCATAAGG
1 AAAAAAAGATGAAGAAAAGAAGCAGAAAG
* *
964779 AGAAAAAGATGAAGAGAAAGATG-AGAAAG
1 AAAAAAAGATGAAGA-AAAGAAGCAGAAAG
964808 AAAAAA
1 AAAAAA
964814 GTAAAACCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.66, C:0.02, G:0.27, T:0.06
Consensus pattern (29 bp):
AAAAAAAGATGAAGAAAAGAAGCAGAAAG
Found at i:966906 original size:12 final size:12
Alignment explanation
Indices: 966889--966929 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
966879 TAAAAACATA
966889 AAAACAAATATT
1 AAAACAAATATT
966901 AAAACAAATA--
1 AAAACAAATATT
966911 AAAA-ATAATATT
1 AAAACA-AATATT
966923 AAAACAA
1 AAAACAA
966930 TTCTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 1 0.04
10 8 0.32
12 15 0.60
13 1 0.04
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAACAAATATT
Found at i:966943 original size:23 final size:22
Alignment explanation
Indices: 966878--966929 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
966868 TAAAATACGT
*
966878 TTAAAA-ACATAAAAACA-AATA
1 TTAAAACAAATAAAAA-ATAATA
966899 TTAAAACAAATAAAAAATAATA
1 TTAAAACAAATAAAAAATAATA
966921 TTAAAACAA
1 TTAAAACAA
966930 TTCTTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (22 bp):
TTAAAACAAATAAAAAATAATA
Found at i:968843 original size:45 final size:45
Alignment explanation
Indices: 968779--968868 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
968769 GATTGAGAAT
*
968779 GTGGTTCACCGAGTCTCTA-GCTCCGATCCTATAAGTATTTTTGTA
1 GTGGTTCACCGAGTCTCTAGGAT-CGATCCTATAAGTATTTTTGTA
*
968824 GTGGTTCACCGAGTCTCTAGGATCGATCCTGTAAGTATTTTTGTA
1 GTGGTTCACCGAGTCTCTAGGATCGATCCTATAAGTATTTTTGTA
968869 CTTAGTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (45 bp):
GTGGTTCACCGAGTCTCTAGGATCGATCCTATAAGTATTTTTGTA
Found at i:981024 original size:29 final size:29
Alignment explanation
Indices: 980968--981063 Score: 102
Period size: 31 Copynumber: 3.2 Consensus size: 29
980958 ATCTCAAAAT
980968 TATACATGAACTTTAATTTAATGTGCAATTG
1 TATACATGAACTTTAATTTAA--TGCAATTG
*
980999 TATACATGAACTTTAATTTAATGCAATTA
1 TATACATGAACTTTAATTTAATGCAATTG
* * * * *
981028 TACACGTGAAATTCTAATTGTGATTCAATTG
1 TATACATGAACTT-TAATT-TAATGCAATTG
981059 TATAC
1 TATAC
981064 TAGAAGATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 17 0.31
30 5 0.09
31 33 0.60
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
TATACATGAACTTTAATTTAATGCAATTG
Found at i:981202 original size:16 final size:17
Alignment explanation
Indices: 981170--981202 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
981160 ATATAAACAT
981170 AAAATGATGTTATATAA
1 AAAATGATGTTATATAA
*
981187 AAAATTATGTTA-ATAA
1 AAAATGATGTTATATAA
981203 TTTACAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAATGATGTTATATAA
Found at i:981295 original size:31 final size:29
Alignment explanation
Indices: 981230--981299 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
981220 AAATCAAAAT
* *
981230 TTCATGTACAAAATTGCACAAAATCAAAG
1 TTCATGTATAAAATTGCACAAAACCAAAG
* * *
981259 CTCATGTATACAATTGCACATTAAACCATAG
1 TTCATGTATAAAATTGCACA--AAACCAAAG
981290 TTCATGTATA
1 TTCATGTATA
981300 GTTTTGGGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 17 0.52
31 16 0.48
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (29 bp):
TTCATGTATAAAATTGCACAAAACCAAAG
Found at i:982788 original size:46 final size:44
Alignment explanation
Indices: 982684--982791 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
982674 TGTCTTTGAC
** * * *
982684 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
982728 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
982774 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
982792 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:987974 original size:19 final size:20
Alignment explanation
Indices: 987952--988008 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
987942 AAATTGCAAA
987952 AAAAAATT-AAAATAATTT-T
1 AAAAAATTCAAAAT-ATTTAT
*
987971 AAAAAGTTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
*
987991 -AAAAATTCTAAA-ATTTAT
1 AAAAAATTCAAAATATTTAT
988009 GTAACACCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 6 0.18
19 21 0.64
20 6 0.18
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:987983 original size:20 final size:20
Alignment explanation
Indices: 987959--988004 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
987949 AAAAAAAAAT
987959 TAAAATAATTT-TAAAAAGTTC
1 TAAAAT-ATTTATAAAAA-TTC
987980 -AAAATATTTATAAAAATTC
1 TAAAATATTTATAAAAATTC
987999 TAAAAT
1 TAAAAT
988005 TTATGTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAATATTTATAAAAATTC
Found at i:989699 original size:11 final size:10
Alignment explanation
Indices: 989654--989720 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 10
989644 TTATGTTTTT
989654 TAAAAAATTA
1 TAAAAAATTA
*
989664 TAAAAGAAAT-
1 TAAAA-AATTA
*
989674 TAAAAAATTCT
1 TAAAAAATT-A
989685 TAAAAAATATA
1 TAAAAAAT-TA
*
989696 TAAAAAAGT-
1 TAAAAAATTA
*
989705 T-AAAAATTT
1 TAAAAAATTA
989714 TAAAAAA
1 TAAAAAA
989721 ATAAAATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
8 6 0.13
9 5 0.11
10 16 0.35
11 18 0.39
12 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:989723 original size:30 final size:31
Alignment explanation
Indices: 989651--989720 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
989641 AAATTATGTT
989651 TTTTAAAAAAT-TATAAAAGAAATTAAAAAA
1 TTTTAAAAAATATATAAAAGAAATTAAAAAA
*
989681 TTCTTAAAAAATATATAAAA-AAGTT-AAAAA
1 TT-TTAAAAAATATATAAAAGAAATTAAAAAA
989711 TTTTAAAAAA
1 TTTTAAAAAA
989721 ATAAAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 8 0.22
30 9 0.24
31 13 0.35
32 7 0.19
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (31 bp):
TTTTAAAAAATATATAAAAGAAATTAAAAAA
Found at i:990134 original size:14 final size:15
Alignment explanation
Indices: 990108--990140 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
990098 TAAAAAAGTG
990108 TTAATAAAGATAATA
1 TTAATAAAGATAATA
*
990123 TTAATAAA-ATAATT
1 TTAATAAAGATAATA
990137 TTAA
1 TTAA
990141 ATTTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
TTAATAAAGATAATA
Found at i:991056 original size:15 final size:17
Alignment explanation
Indices: 991035--991079 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
991025 TATTTTTCTG
991035 AATTTTTTAT-ATTTAT
1 AATTTTTTATAATTTAT
991051 -A-TTTTTATAATTTAT
1 AATTTTTTATAATTTAT
*
991066 AATTTTTTAAAATT
1 AATTTTTTATAATT
991080 GATATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.28
15 7 0.28
16 1 0.04
17 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTTTATAATTTAT
Found at i:991062 original size:24 final size:27
Alignment explanation
Indices: 991013--991063 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
991003 CTTTTTTTAC
*
991013 TTTATTATTATATATTTTTCTGAATTT
1 TTTATTATTATATATTTTTATGAATTT
991040 TTTA-TATT-TATATTTTTAT-AATTT
1 TTTATTATTATATATTTTTATGAATTT
991064 ATAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 10 0.43
26 4 0.17
27 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTATTATTATATATTTTTATGAATTT
Found at i:992817 original size:15 final size:15
Alignment explanation
Indices: 992786--992827 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
992776 GATGTTAAGT
992786 CAAGGAGGTAAGCTTC
1 CAAGGA-GTAAGCTTC
*
992802 CAAGGAGTATGCTTC
1 CAAGGAGTAAGCTTC
*
992817 CAAAGAGTAAG
1 CAAGGAGTAAG
992828 TGGGGCACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.19
Consensus pattern (15 bp):
CAAGGAGTAAGCTTC
Found at i:995242 original size:17 final size:16
Alignment explanation
Indices: 995211--995287 Score: 51
Period size: 17 Copynumber: 5.0 Consensus size: 16
995201 TTTTTTTCAG
*
995211 TTTAAATTCTAATTAT
1 TTTAAATTATAATTAT
995227 TTTAAATGTATAATTA-
1 TTTAAAT-TATAATTAT
*
995243 -TCACAATT-T--TTA-
1 TTTA-AATTATAATTAT
995255 -TTAAATTATAATTATT
1 TTTAAATTATAATTA-T
995271 TTTAAATGTATAATTAT
1 TTTAAAT-TATAATTAT
995288 CACAACATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
11 4 0.08
12 6 0.12
14 4 0.08
15 3 0.06
16 10 0.20
17 14 0.29
18 8 0.16
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTATAATTAT
Found at i:997302 original size:21 final size:22
Alignment explanation
Indices: 997273--997313 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
997263 ATTTTAAAAA
997273 ATTACAAAATGATCATTGAACT
1 ATTACAAAATGATCATTGAACT
**
997295 ATTA-AAAATTTTCATTGAA
1 ATTACAAAATGATCATTGAA
997314 AGCTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTACAAAATGATCATTGAACT
Found at i:1007708 original size:29 final size:28
Alignment explanation
Indices: 1007646--1007708 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
1007636 TGTATATTCA
* *
1007646 AAATTTAGTCCTTCTACTTTTATTTCAAG
1 AAATTTAGTCCCTCTACTTTGATTT-AAG
*
1007675 TAATTTAGTCCCTCTACTTTCGGATTT-AG
1 AAATTTAGTCCCTCTACTTT--GATTTAAG
1007704 AAATT
1 AAATT
1007709 CAAGTCCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 24 0.86
31 4 0.14
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (28 bp):
AAATTTAGTCCCTCTACTTTGATTTAAG
Found at i:1013829 original size:14 final size:14
Alignment explanation
Indices: 1013810--1013857 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
1013800 TCAGTGATTT
1013810 AAATAAAAACTTTC
1 AAATAAAAACTTTC
*
1013824 AAATAATTTAA-TTT-
1 AAATAA--AAACTTTC
1013838 AAATAAAAACTTTC
1 AAATAAAAACTTTC
1013852 AAATAA
1 AAATAA
1013858 TTTAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.07
13 3 0.11
14 18 0.64
15 3 0.11
16 2 0.07
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAAAAACTTTC
Found at i:1013846 original size:28 final size:28
Alignment explanation
Indices: 1013806--1013863 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
1013796 TAGTTCAGTG
1013806 ATTTAAATAAAAACTTTCAAATAATTTA
1 ATTTAAATAAAAACTTTCAAATAATTTA
1013834 ATTTAAATAAAAACTTTCAAATAATTTA
1 ATTTAAATAAAAACTTTCAAATAATTTA
1013862 AT
1 AT
1013864 GATTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (28 bp):
ATTTAAATAAAAACTTTCAAATAATTTA
Found at i:1019082 original size:15 final size:14
Alignment explanation
Indices: 1019062--1019091 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1019052 AACTCTTTCC
1019062 TTTAAAATTATAAAA
1 TTTAAAATT-TAAAA
1019077 TTTAAAATTTAAAA
1 TTTAAAATTTAAAA
1019091 T
1 T
1019092 CCTAATCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAAAATTTAAAA
Found at i:1019084 original size:7 final size:7
Alignment explanation
Indices: 1019062--1019091 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
1019052 AACTCTTTCC
1019062 TTTAAAA
1 TTTAAAA
1019069 TTATAAAA
1 TT-TAAAA
1019077 TTTAAAA
1 TTTAAAA
1019084 TTTAAAA
1 TTTAAAA
1019091 T
1 T
1019092 CCTAATCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTTAAAA
Found at i:1020678 original size:105 final size:105
Alignment explanation
Indices: 1020451--1020757 Score: 508
Period size: 105 Copynumber: 2.9 Consensus size: 105
1020441 CTTAACAAGT
* *
1020451 TAGACATAGAACCCATATGAGTAGAGTCGCCGCTAATAATTTGAGTTAGGTTGGTTAGTCGCTTA
1 TAGACATAGAACCCATATGAGTAGAGTCGCCACTAATCATTTGAGTTAGGTTGGTTAGTCG-TTA
*
1020516 TTGCCTAAAGTCTCAAAAACAAATTAAGATATTCCTTAAGC
65 TTGCCTAAAGTCTCAAAAATAAATTAAGATATTCCTTAAGC
*
1020557 TAGACATAGAATCCATATGAGTAGAGTCGCCACTAATCATTTGAGTTAGGTTGGTTAGTCGTTAT
1 TAGACATAGAACCCATATGAGTAGAGTCGCCACTAATCATTTGAGTTAGGTTGGTTAGTCGTTAT
1020622 TGCCTAAAGTCTCAAAAATAAATTAAGATATTCCTTAAGC
66 TGCCTAAAGTCTCAAAAATAAATTAAGATATTCCTTAAGC
* *
1020662 TAGACATAGAACCCATATGAGTAGAGTTGCCACTAATCATTTAAGTTAGGTTGGTTAGTTAC-TT
1 TAGACATAGAACCCATATGAGTAGAGTCGCCACTAATCATTTGAGTTAGGTTGGTTAG-T-CGTT
*
1020726 ATTGCCTAAAGTCTCAAAACTAAAATTAAGAT
64 ATTGCCTAAAGTCTCAAAAAT-AAATTAAGAT
1020758 GTACCTAAGG
Statistics
Matches: 190, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
105 98 0.52
106 81 0.43
107 11 0.06
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (105 bp):
TAGACATAGAACCCATATGAGTAGAGTCGCCACTAATCATTTGAGTTAGGTTGGTTAGTCGTTAT
TGCCTAAAGTCTCAAAAATAAATTAAGATATTCCTTAAGC
Found at i:1036894 original size:127 final size:126
Alignment explanation
Indices: 1036739--1037024 Score: 405
Period size: 127 Copynumber: 2.3 Consensus size: 126
1036729 CTGTTCTCAG
* * *
1036739 AAATCGACTCATATTGCGAGAAGCGAGTTGAGCATTTTAATTTCTATTTTTTAAAAATCAACTCA
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCATTTTAATTTCTATTTTTCAAAAATCAACTCA
* *
1036804 TATTGCGAGAGGTGAGTTGAGCCTC-GAGACAC-ATGGAGGTATTTTCAGTTTTTATTTTTCAA
66 TATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGAT-GAGGTAATTTCA-TTTCTATTTTTCAA
* * * * *
1036866 AAATCAACTTATATTGCGAGATGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTTA
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCATTTTAATTTCTATTTTTCAAAAATCAACTCA
* * *
1036931 TATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCATTTCTGTTTTTCAA
66 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCATTTCTATTTTTCAA
*
1036992 AAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1037025 CTCGAGACAC
Statistics
Matches: 142, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
126 43 0.30
127 97 0.68
128 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (126 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCATTTTAATTTCTATTTTTCAAAAATCAACTCA
TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCATTTCTATTTTTCAA
Found at i:1037022 original size:72 final size:72
Alignment explanation
Indices: 1036905--1037100 Score: 295
Period size: 72 Copynumber: 2.7 Consensus size: 72
1036895 GAGCCTTTTA
* *
1036905 ATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGGATACGCTGAG
1 ATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACACTGAG
1036969 GTAATTTC
65 GTAATTTC
* *
1036977 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACATTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGG
*
1037042 TATTTTC
66 TAATTTC
* *
1037049 AGTTTTTATTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT
1 A-TTTCTGTTTTTC-AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT
1037101 TTTAATTTCT
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
72 66 0.58
73 11 0.10
74 36 0.32
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (72 bp):
ATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGG
TAATTTC
Done.