Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 62 of 145
Found at i:21319795 original size:10 final size:10
Alignment explanation
Indices: 21319780--21319878 Score: 75
Period size: 10 Copynumber: 10.3 Consensus size: 10
21319770 TTCTCTTCCC
21319780 CTTTCCTTTT
1 CTTTCCTTTT
21319790 CTTTCCTTATT
1 CTTTCCTT-TT
21319801 -TTT-C-TTT
1 CTTTCCTTTT
***
21319808 CTTTCCTCCC
1 CTTTCCTTTT
21319818 CTTTCCTTTT
1 CTTTCCTTTT
21319828 CTTTCCTTCTT
1 CTTTCCTT-TT
21319839 -TTT-C-TTT
1 CTTTCCTTTT
* *
21319846 CTTTCCTCTC
1 CTTTCCTTTT
21319856 CTTTCCTTTT
1 CTTTCCTTTT
* *
21319866 CCTTCTTTTT
1 CTTTCCTTTT
21319876 CTT
1 CTT
21319879 GCTTCCTTTC
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
7 4 0.06
8 8 0.12
9 4 0.06
10 48 0.71
11 4 0.06
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:21319808 original size:18 final size:18
Alignment explanation
Indices: 21319787--21319897 Score: 86
Period size: 18 Copynumber: 6.1 Consensus size: 18
21319777 CCCCTTTCCT
*
21319787 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTCTTTTTC
* * *
21319805 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-TCTTTTTC
21319824 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTTCTTTTTC
*
21319843 TTTCTTTCC-TCTCCTTTC
1 TTTCTTTCCTTCT-TTTTC
*
21319861 -CT-TTTCCTTCTTTTTC
1 TTTCTTTCCTTCTTTTTC
*
21319877 TTGC-TTCCTTTCTTTCTTC
1 TTTCTTTCC-TTCTTT-TTC
21319896 TT
1 TT
21319898 CTTCCCCTCT
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
16 9 0.12
17 11 0.15
18 29 0.40
19 14 0.19
20 10 0.14
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTCTTTCCTTCTTTTTC
Found at i:21319849 original size:28 final size:28
Alignment explanation
Indices: 21319818--21319897 Score: 76
Period size: 34 Copynumber: 2.8 Consensus size: 28
21319808 CTTTCCTCCC
*
21319818 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTG
21319846 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTG
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTG
21319880 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
21319898 CTTCCCCTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.16
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 17 0.38
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTG
Found at i:21319893 original size:22 final size:23
Alignment explanation
Indices: 21319858--21319900 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21319848 TTCCTCTCCT
*
21319858 TTCCTTTTCCTTCTTTTTCTTGC
1 TTCCTTTTCCTTCTTCTTCTTGC
*
21319881 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
21319901 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.67
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTGC
Found at i:21319898 original size:28 final size:30
Alignment explanation
Indices: 21319820--21319901 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 30
21319810 TTCCTCCCCT
*
21319820 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
* *
21319852 TCTCCTTTCCTTT-TCCTTCTT-TTTC-TTGC
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
21319881 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
21319902 CCCTCTCCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
27 4 0.10
28 13 0.31
29 4 0.10
30 4 0.10
31 6 0.14
32 4 0.10
33 7 0.17
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:21319987 original size:27 final size:27
Alignment explanation
Indices: 21319949--21320017 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
21319939 ATATTTAAGG
21319949 TGGTGCCGCCAACAGGGAATCC-TTGTT
1 TGGTGCCGCCAACAGGG-ATCCTTTGTT
* * *
21319976 TGGTGTCGCCAACAAGGTTCCTTTGTT
1 TGGTGCCGCCAACAGGGATCCTTTGTT
21320003 TGGTGCCGCCAACAG
1 TGGTGCCGCCAACAG
21320018 TGTTCCCTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGATCCTTTGTT
Found at i:21320108 original size:27 final size:28
Alignment explanation
Indices: 21320073--21320141 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
21320063 TCTGTTTTTT
*
21320073 TATATATTTTGGTAAATAGAAAAAT-TA
1 TATATATTTTGGTAAATAAAAAAATGTA
21320100 TATATATTTTGGTAAATAAAAAAATGTA
1 TATATATTTTGGTAAATAAAAAAATGTA
*
21320128 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
21320142 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.46, C:0.01, G:0.12, T:0.41
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAATGTA
Found at i:21321171 original size:21 final size:21
Alignment explanation
Indices: 21321145--21321218 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
21321135 AGTTTTAAAA
21321145 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
** *** ***
21321166 TTAGGGTTAGGTTTGTAGGGT
1 TTAGGGTTTTGTTAAAATAAT
*
21321187 TTAGAGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
21321208 TTAGGGTTTTG
1 TTAGGGTTTTG
21321219 GGTTTTAAGA
Statistics
Matches: 35, Mismatches: 18, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:21321358 original size:34 final size:33
Alignment explanation
Indices: 21321240--21321369 Score: 138
Period size: 34 Copynumber: 3.8 Consensus size: 33
21321230 TTTTAAAAAA
* *
21321240 TAAATTAGGATTTAGTGTTCTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAGTG---TTTTTAAAAAATTAAT
* * *
21321276 TAAATCAGGGTTTAAG-GGTTTTAAATAAATAAAT
1 TAAATTAGGGTTT-AGTGTTTTTAAA-AAATTAAT
*
21321310 AAAATTAGGGTTTAGTGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGTGTTTTTAA-AAAATTAAT
21321344 TAAATTAGGGTTTAGT-TTTTTAAAAA
1 TAAATTAGGGTTTAGTGTTTTTAAAAA
21321370 TAATATTGTG
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
32 3 0.04
33 15 0.19
34 47 0.59
35 1 0.01
36 12 0.15
37 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (33 bp):
TAAATTAGGGTTTAGTGTTTTTAAAAAATTAAT
Found at i:21321606 original size:126 final size:125
Alignment explanation
Indices: 21321430--21321697 Score: 376
Period size: 126 Copynumber: 2.1 Consensus size: 125
21321420 GATTTTGTTT
* * * * *
21321430 TTTTTTTACAGTAGTTCCTAAAATATAATTTTGAGAATACGATTCTGAACAAATAGTGTGAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCCGAACAAATAGTGTCAAAAA
* * *
21321495 CACTTCAAGCAGGATGCACTGTCACCAAAATT-ATTGAAAAAAGCTCCCACATGGACTCTC
66 CACTTCAAGCAGGATGCACTATCACCAAAATTGA-TGAAAAAAGCTCCCACATCGACGCTC
* *
21321555 TTTTTCTACAGTTGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCCGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCCGAACAAATAGTGTCAAAA
** * *
21321620 ATGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTCGACGCTC
65 ACACTTCAAGCAGGATGCACTATCACCAAAATTGATGAAAAAAGCTCCCACATCGACGCTC
*
21321681 TTTTTCTATAGTAGTTC
1 TTTTTCTACAGTAGTTC
21321698 ATGTTTGGCC
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
125 17 0.14
126 107 0.86
127 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCCGAACAAATAGTGTCAAAAA
CACTTCAAGCAGGATGCACTATCACCAAAATTGATGAAAAAAGCTCCCACATCGACGCTC
Found at i:21324775 original size:24 final size:23
Alignment explanation
Indices: 21324719--21324775 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
21324709 AAGAACTTCT
*
21324719 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
21324742 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
21324767 ACTTTTATT
1 A-TTTTATT
21324776 TTATTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:21325795 original size:7 final size:7
Alignment explanation
Indices: 21325785--21325816 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
21325775 TTATATACAT
21325785 AATACTA
1 AATACTA
21325792 AATACTA
1 AATACTA
21325799 AATACTA
1 AATACTA
21325806 AATACTA
1 AATACTA
21325813 AATA
1 AATA
21325817 TGAAATGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:21327000 original size:30 final size:30
Alignment explanation
Indices: 21326966--21327030 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
21326956 ATTAATTAAA
*
21326966 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAAATTAAGGAGAAATTT
21326996 GAGAGCTTTGAGAAAATTAAGGAGAAATTT
1 GAGAGCTTTGAGAAAATTAAGGAGAAATTT
21327026 GAGAG
1 GAGAG
21327031 TTTTTTGGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.29, T:0.26
Consensus pattern (30 bp):
GAGAGCTTTGAGAAAATTAAGGAGAAATTT
Found at i:21327650 original size:152 final size:153
Alignment explanation
Indices: 21327480--21327783 Score: 601
Period size: 152 Copynumber: 2.0 Consensus size: 153
21327470 AAAATCAAAA
21327480 GAATATATAAATTTTTTTTAAATCGAAAATAATAATTTGAAGACCTAAAAAAGTAAATTACAAAT
1 GAATATATAAATTTTTTTTAAATCGAAAATAATAATTTGAAGACCTAAAAAAGTAAATTACAAAT
21327545 TCAAGTTTATTGTAACGACTCAATTTTTAGTGATAACGAAAAATGTGCTTTTAAAACTTCATTTC
66 TCAAGTTTATTGTAACGACTCAATTTTTAGTGATAACGAAAAATGTGCTTTTAAAACTTCATTTC
21327610 TGTAAACCTAGTCCGTAAATATG
131 TGTAAACCTAGTCCGTAAATATG
21327633 GAATATAT-AATTTTTTTTAAATCGAAAATAATAATTTGAAGACCTAAAAAAGTAAATTACAAAT
1 GAATATATAAATTTTTTTTAAATCGAAAATAATAATTTGAAGACCTAAAAAAGTAAATTACAAAT
21327697 TCAAGTTTATTGTAACGACTCAATTTTTAGTGATAACGAAAAATGTGCTTTTAAAACTTCATTTC
66 TCAAGTTTATTGTAACGACTCAATTTTTAGTGATAACGAAAAATGTGCTTTTAAAACTTCATTTC
21327762 TGTAAACCTAGTCCGTAAATAT
131 TGTAAACCTAGTCCGTAAATAT
21327784 TAAATATGAA
Statistics
Matches: 151, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
152 143 0.95
153 8 0.05
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (153 bp):
GAATATATAAATTTTTTTTAAATCGAAAATAATAATTTGAAGACCTAAAAAAGTAAATTACAAAT
TCAAGTTTATTGTAACGACTCAATTTTTAGTGATAACGAAAAATGTGCTTTTAAAACTTCATTTC
TGTAAACCTAGTCCGTAAATATG
Found at i:21328046 original size:20 final size:19
Alignment explanation
Indices: 21328023--21328081 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
21328013 ACTAAAATTG
21328023 ATTAAAGTTAGATTAAGTTA
1 ATTAAA-TTAGATTAAGTTA
* *
21328043 ATTAAATCATGATTATGTTA
1 ATTAAATTA-GATTAAGTTA
*
21328063 ATTAAATTAGTTTAA-TTA
1 ATTAAATTAGATTAAGTTA
21328081 A
1 A
21328082 ACTTTAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 4 0.12
19 6 0.18
20 23 0.70
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTAAATTAGATTAAGTTA
Found at i:21332659 original size:12 final size:13
Alignment explanation
Indices: 21332614--21332660 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
21332604 GAATTTCAAA
21332614 TAATATTATTAATT
1 TAATATTA-TAATT
*
21332628 TAATATATACAATCT
1 TAATAT-TATAAT-T
21332643 TAATATTA-AATT
1 TAATATTATAATT
21332655 TAATAT
1 TAATAT
21332661 GTATTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 11 0.37
15 9 0.30
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATATTATAATT
Found at i:21333685 original size:5 final size:5
Alignment explanation
Indices: 21333675--21333713 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
21333665 ACAATTTCAC
* * *
21333675 TCGAT TCGAT TCGAT TTGAT TCGAT TCGAC TCGAC TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
21333714 ATTTCATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (5 bp):
TCGAT
Found at i:21348093 original size:19 final size:20
Alignment explanation
Indices: 21348046--21348093 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
21348036 AATTTCTAAC
* *
21348046 AAAAGTATTGGTATAGTGTT
1 AAAAGTTTTGGTATAGAGTT
21348066 AGAAA-TTTTGGTATA-AGTT
1 A-AAAGTTTTGGTATAGAGTT
21348085 AAAAGTTTT
1 AAAAGTTTT
21348094 AGTAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 8 0.33
20 10 0.42
21 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.42
Consensus pattern (20 bp):
AAAAGTTTTGGTATAGAGTT
Found at i:21348472 original size:24 final size:25
Alignment explanation
Indices: 21348420--21348480 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
21348410 GAAATGAAAA
* *
21348420 AAATAATTAAATTAAAATGAATTGC
1 AAATAATAAAAATAAAATGAATTGC
21348445 -AATAATAAAAATAAAATGTAA-T-C
1 AAATAATAAAAATAAAATG-AATTGC
*
21348468 AAATAAAAAAAAT
1 AAATAATAAAAAT
21348481 TATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 1 0.03
24 28 0.90
25 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (25 bp):
AAATAATAAAAATAAAATGAATTGC
Found at i:21353277 original size:36 final size:36
Alignment explanation
Indices: 21353229--21353336 Score: 171
Period size: 36 Copynumber: 3.0 Consensus size: 36
21353219 TTGCTATTAT
* *
21353229 AACATTCAATAAATCCGGAGTTTGAATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGAATTTGAACATC
*
21353265 AACATTCCATAAATCTGGAGTTTGTATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGAATTTGAACATC
* *
21353301 AACATTCCATAAATCTGGCGTTTGCATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGAATTTGAACATC
21353337 TACAATCATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (36 bp):
AACATTCCATAAATCTGGAGTTTGAATTTGAACATC
Found at i:21355848 original size:3 final size:3
Alignment explanation
Indices: 21355842--21355892 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
21355832 AAATTAAATT
21355842 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21355889 TAA T
1 TAA T
21355893 GGGAAATGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:21356179 original size:3 final size:3
Alignment explanation
Indices: 21356171--21356208 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21356161 GAACGATGAC
21356171 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21356209 CTCCATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21358369 original size:206 final size:206
Alignment explanation
Indices: 21358138--21358539 Score: 795
Period size: 206 Copynumber: 2.0 Consensus size: 206
21358128 GGGAAAAAGT
21358138 TATATATTTCGTTTTAAGTAAAAAAAAAAAAGATGAAGAAGATGAAAACAAATATTTTCCATCTT
1 TATATATTTCGTTTTAAGTAAAAAAAAAAAAGATGAAGAAGATGAAAACAAATATTTTCCATCTT
21358203 GTTTTCCCTTTATATTGGTAAAATCTGTGAAATTCGCCATTAATTAGTTTTAAATTATTTATAAA
66 GTTTTCCCTTTATATTGGTAAAATCTGTGAAATTCGCCATTAATTAGTTTTAAATTATTTATAAA
*
21358268 ATATATTAATAAAAAATTATAAACAAGGAGAACTTTAAATTTTAAATATATATAAAAAAAAGGGT
131 ATATATTAATAAAAAATTATAAACAAGGAGAACTTTAAATTTTAAATATATATAAAAAAAAAGGT
21358333 TAGGCCGACCG
196 TAGGCCGACCG
21358344 TATATATTTCGTTTTAAGTAAAAAAAAAAAAGATGAAGAAGATGAAAACAAATATTTTCCATCTT
1 TATATATTTCGTTTTAAGTAAAAAAAAAAAAGATGAAGAAGATGAAAACAAATATTTTCCATCTT
21358409 GTTTTCCCTTTATATTGGTAAAATCTGTGAAATTCGCCATTAATTAGTTTTAAATTATTTATAAA
66 GTTTTCCCTTTATATTGGTAAAATCTGTGAAATTCGCCATTAATTAGTTTTAAATTATTTATAAA
21358474 ATATATTAATAAAAAATTATAAACAAGGAGAACTTTAAATTTTAAATATATATAAAAAAAAAGGT
131 ATATATTAATAAAAAATTATAAACAAGGAGAACTTTAAATTTTAAATATATATAAAAAAAAAGGT
21358539 T
196 T
21358540 GAGTCGACCC
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 195 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.36
Consensus pattern (206 bp):
TATATATTTCGTTTTAAGTAAAAAAAAAAAAGATGAAGAAGATGAAAACAAATATTTTCCATCTT
GTTTTCCCTTTATATTGGTAAAATCTGTGAAATTCGCCATTAATTAGTTTTAAATTATTTATAAA
ATATATTAATAAAAAATTATAAACAAGGAGAACTTTAAATTTTAAATATATATAAAAAAAAAGGT
TAGGCCGACCG
Found at i:21364107 original size:21 final size:23
Alignment explanation
Indices: 21364083--21364124 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21364073 TGCTTTTTTT
21364083 TAAT-ATTT-TTCATTTTTTACA
1 TAATAATTTATTCATTTTTTACA
*
21364104 TAATAATTTATTTATTTTTTA
1 TAATAATTTATTCATTTTTTA
21364125 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
TAATAATTTATTCATTTTTTACA
Found at i:21365895 original size:25 final size:26
Alignment explanation
Indices: 21365844--21365895 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
21365834 GTCTGAACAA
* *
21365844 TTTAATTTTTTTTCTTTTATGTTTCT
1 TTTAATTTTTTTTCTTTCATGTCTCT
21365870 TTTAACTTTTTTTT-TTTCAT-TCTCT
1 TTTAA-TTTTTTTTCTTTCATGTCTCT
21365895 T
1 T
21365896 CTGTCAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 10 0.43
27 8 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTAATTTTTTTTCTTTCATGTCTCT
Found at i:21372897 original size:17 final size:17
Alignment explanation
Indices: 21372850--21372897 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
21372840 TTTACCAACT
*
21372850 TTTTAAATTTTTTTATTA
1 TTTT-AATTTTTTTATAA
* *
21372868 TTTGAATATTTTTATAA
1 TTTTAATTTTTTTATAA
21372885 TTTTAATTTTTTT
1 TTTTAATTTTTTT
21372898 TGTTGAGGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTTTTATAA
Found at i:21379498 original size:16 final size:16
Alignment explanation
Indices: 21379473--21379505 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21379463 GGTAGGAAAT
*
21379473 TTGTATTCTGTATCTG
1 TTGTAATCTGTATCTG
21379489 TTGTAATCTGTATCTG
1 TTGTAATCTGTATCTG
21379505 T
1 T
21379506 AACTGATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.55
Consensus pattern (16 bp):
TTGTAATCTGTATCTG
Found at i:21383053 original size:58 final size:60
Alignment explanation
Indices: 21382956--21383118 Score: 156
Period size: 58 Copynumber: 2.7 Consensus size: 60
21382946 TTTTTATAAT
* * * * *
21382956 ATTATATATTATGACTTTTATT-AATTCATATTTTAATAATAATTATGTTAAGAATGTTATT-A
1 ATTATATATT-T-ATTTTTATTAAAATAATA-TTTAATAATAATTATGTTAA-AATATGATTAA
** *
21383018 ATTCATATA-TTA-TTTTATT-AAATTGTATTTAATAATTATTATGTTAAAATATGATTAA
1 ATT-ATATATTTATTTTTATTAAAATAATATTTAATAATAATTATGTTAAAATATGATTAA
21383076 ATTATATATTTTTATTTTTATTAAAATAATATTTAATAATAAT
1 ATTATATA--TTTATTTTTATTAAAATAATATTTAATAATAAT
21383119 CTTATTAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
57 12 0.14
58 23 0.27
59 12 0.14
60 4 0.05
61 8 0.09
62 21 0.25
63 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (60 bp):
ATTATATATTTATTTTTATTAAAATAATATTTAATAATAATTATGTTAAAATATGATTAA
Found at i:21386407 original size:3 final size:3
Alignment explanation
Indices: 21386396--21386444 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
21386386 TTCTATAATA
21386396 ATT AGTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21386442 ATT
1 ATT
21386445 TTGATCTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21394143 original size:17 final size:17
Alignment explanation
Indices: 21394121--21394172 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
21394111 AATTTCCCAA
21394121 AGTAATAATGTAATATT
1 AGTAATAATGTAATATT
*
21394138 AGTAATAATATAATATT
1 AGTAATAATGTAATATT
*
21394155 AGTAATAACGTAATATT
1 AGTAATAATGTAATATT
21394172 A
1 A
21394173 ATAGAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (17 bp):
AGTAATAATGTAATATT
Found at i:21394782 original size:90 final size:90
Alignment explanation
Indices: 21394681--21394879 Score: 328
Period size: 90 Copynumber: 2.2 Consensus size: 90
21394671 GCTGTTGTAC
21394681 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTT-AAACGATAGCTCAACA
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAACG-TAGCTCAACA
21394745 GACTTTTTTTTGTTTAATTTATGCTA
65 GACTTTTTTTTGTTTAATTTATGCTA
* * * *
21394771 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAATGTAGTTTAACAT
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAACGTAGCTCAACAG
*
21394836 ACTTTTTTTTGTTTAATTTATGCTG
66 ACTTTTTTTTGTTTAATTTATGCTA
*
21394861 CTGTACTATTATATTAATT
1 TTGTACTATTATATTAATT
21394880 AATTTTTAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
90 98 0.96
91 4 0.04
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.48
Consensus pattern (90 bp):
TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAACGTAGCTCAACAG
ACTTTTTTTTGTTTAATTTATGCTA
Found at i:21404857 original size:46 final size:46
Alignment explanation
Indices: 21404796--21404894 Score: 153
Period size: 46 Copynumber: 2.2 Consensus size: 46
21404786 ATAATATCCT
* * * *
21404796 ATAATATCCTGTTAGGAATAAAATTGCTAAAATATAATATCTAATA
1 ATAATATACTATTAGGAATAAAATTGCTAAAAAATAAAATCTAATA
*
21404842 ATAATATACTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
1 ATAATATACTATTAGGAATAAAATTGCTAAAAAATAAAATCTAATA
21404888 ATAATAT
1 ATAATAT
21404895 CCTAACACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.33
Consensus pattern (46 bp):
ATAATATACTATTAGGAATAAAATTGCTAAAAAATAAAATCTAATA
Found at i:21407560 original size:45 final size:45
Alignment explanation
Indices: 21407511--21407685 Score: 275
Period size: 45 Copynumber: 3.9 Consensus size: 45
21407501 AATCCTGAAG
*
21407511 TAATGCCAT-AGTATCTTTCAA-CTATGGTCTTTTCCTTTTTGATTA
1 TAATGCCATGA-TATCTTTCAATC-ATGGTCTTTTCCTTTTCGATTA
*
21407556 TAATGCCATGATATCTTTTAATCATGGTCTTTTCCTTTTCGATTA
1 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTCGATTA
*
21407601 TAATGTCATGATATCTTTCAATCATGG-CATTTTCCTTTTCGATTA
1 TAATGCCATGATATCTTTCAATCATGGTC-TTTTCCTTTTCGATTA
21407646 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTC
1 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTC
21407686 TTAAACAATG
Statistics
Matches: 121, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
44 1 0.01
45 117 0.97
46 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (45 bp):
TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTCGATTA
Found at i:21407619 original size:24 final size:24
Alignment explanation
Indices: 21407592--21407664 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
21407582 GTCTTTTCCT
*
21407592 TTTCGATTATAATGTCATGATATC
1 TTTCGATTATAATGCCATGATATC
* * *
21407616 TTTC-A--ATCATGGCAT--TTTCC
1 TTTCGATTATAATGCCATGATAT-C
21407636 TTTTCGATTATAATGCCATGATATC
1 -TTTCGATTATAATGCCATGATATC
21407661 TTTC
1 TTTC
21407665 AATCATGGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
19 2 0.06
20 1 0.03
21 12 0.33
22 1 0.03
23 1 0.03
24 16 0.44
25 1 0.03
26 2 0.06
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.47
Consensus pattern (24 bp):
TTTCGATTATAATGCCATGATATC
Found at i:21411642 original size:46 final size:46
Alignment explanation
Indices: 21411585--21411685 Score: 166
Period size: 46 Copynumber: 2.2 Consensus size: 46
21411575 AATATCCTAC
* * * *
21411585 AATATCGTATTATGAATCAAATTGCTAAAAGATAATATCTAATAAT
1 AATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATAAT
21411631 AATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATAAT
1 AATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATAAT
21411677 AATATCCTA
1 AATATCCTA
21411686 ACAACACTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (46 bp):
AATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATAAT
Found at i:21416514 original size:46 final size:46
Alignment explanation
Indices: 21416301--21416518 Score: 210
Period size: 46 Copynumber: 4.8 Consensus size: 46
21416291 GGCTTGAAGG
* * * * *
21416301 AAATGATTAAGAACATAGTTGAAAGACACTATGGCACCA-TACTAGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGA-A
* * ** * * *
21416347 AAA-GAGTAAGACCATAGTTGAAAAATGCTATGGCATCTCGA--ATC
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGA-A
* * * * * *
21416391 AAATGAATAAGACCATAGTTGAAATACACTACGACAATACGATGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
21416437 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
* *
21416483 AAATGAATAAGACCATGGTTGAAAGATACTATGGCA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA
21416519 TCAAGTCGAG
Statistics
Matches: 139, Mismatches: 29, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
44 4 0.03
45 57 0.41
46 78 0.56
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.20
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
Found at i:21416551 original size:45 final size:46
Alignment explanation
Indices: 21416391--21416561 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 46
21416381 ATCTCGAATC
* * * * * * * * *
21416391 AAATGAATAAGACCATAGTTGAAATACACTACGACAATACGATGGA
1 AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAA
* * *
21416437 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
1 AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAA
* * * *
21416483 AAATGAATAAGACCATGGTTGAAAGATACTATGGCATCAAGTCG-A
1 AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAA
* * * *
21416528 GAATAAATAAGACTATGGTTGAAAGGCACAATGG
1 AAATAAATAAGACCATGGTTGAAAGACACTATGG
21416562 AACCCTCCAA
Statistics
Matches: 108, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 29 0.27
46 79 0.73
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (46 bp):
AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAA
Found at i:21435712 original size:29 final size:29
Alignment explanation
Indices: 21435670--21435727 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
21435660 CAAGAAAAAG
21435670 AAGAAATCTGATGCTCGTGATAATATGTC
1 AAGAAATCTGATGCTCGTGATAATATGTC
21435699 AAGAAATCTGATGCTCGTGATAATATGTC
1 AAGAAATCTGATGCTCGTGATAATATGTC
21435728 TTCTTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (29 bp):
AAGAAATCTGATGCTCGTGATAATATGTC
Found at i:21436301 original size:91 final size:92
Alignment explanation
Indices: 21436174--21436353 Score: 335
Period size: 91 Copynumber: 2.0 Consensus size: 92
21436164 TTGATTTTAG
* *
21436174 TAAATTCATATAAGAAGATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAAGAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
21436239 ATTTAATATTAATTATTTTAAATTGTA
66 ATTTAATATTAATTATTTTAAATTGTA
21436266 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAAGAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
21436330 ATTTAATATTAATTATTTTAAATT
66 ATTTAATATTAATTATTTTAAATT
21436354 NNNNNNNNNN
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 70 0.81
92 16 0.19
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (92 bp):
TAAATTCATATAAGAAGAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
ATTTAATATTAATTATTTTAAATTGTA
Found at i:21436334 original size:47 final size:47
Alignment explanation
Indices: 21436193--21436341 Score: 157
Period size: 47 Copynumber: 3.2 Consensus size: 47
21436183 ATAAGAAGAT
21436193 TTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* ** * * *
21436240 TTTAATATTAATTA-TTT-T-AAATTGTATA-AATTCATATAAGA--AAA
1 TTTATTATTAAGAATTTTATGAAATTATATATCATT-AT-TAA-ATTATA
*
21436284 TTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
21436331 TTTAATATTAA
1 TTTATTATTAA
21436342 TTATTTTAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
43 3 0.04
44 23 0.29
45 8 0.10
46 8 0.10
47 33 0.42
48 3 0.04
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (47 bp):
TTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
Found at i:21436516 original size:18 final size:17
Alignment explanation
Indices: 21436488--21436522 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21436478 ATTATTAAGA
*
21436488 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21436505 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21436523 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21443496 original size:17 final size:17
Alignment explanation
Indices: 21443474--21443531 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
21443464 TGTTTGTGAA
21443474 TTCATAATTTTTTTCTG
1 TTCATAATTTTTTTCTG
* *
21443491 TTCAT-ATATGTTTCTG
1 TTCATAATTTTTTTCTG
* *
21443507 CATTAATAATTTTTGTCTG
1 --TTCATAATTTTTTTCTG
21443526 TTCATA
1 TTCATA
21443532 CATTGATGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 9 0.29
17 10 0.32
18 4 0.13
19 8 0.26
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.57
Consensus pattern (17 bp):
TTCATAATTTTTTTCTG
Found at i:21443498 original size:35 final size:35
Alignment explanation
Indices: 21443459--21443531 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
21443449 TTTTTTCCAT
* * *
21443459 ATATATGTTTGTGAATTCATAATTTTTTTCTGTTC
1 ATATATGTTTCTGAATTAATAATTTTTGTCTGTTC
*
21443494 ATATATGTTTCTGCATTAATAATTTTTGTCTGTTC
1 ATATATGTTTCTGAATTAATAATTTTTGTCTGTTC
21443529 ATA
1 ATA
21443532 CATTGATGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.55
Consensus pattern (35 bp):
ATATATGTTTCTGAATTAATAATTTTTGTCTGTTC
Found at i:21450046 original size:13 final size:14
Alignment explanation
Indices: 21450008--21450049 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
21449998 TATGTGAAGA
21450008 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
21450023 ATCATTTTTAAAATT
1 AT-ATTATTAAAATT
21450038 -TATTATTAAAAT
1 ATATTATTAAAAT
21450050 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:21457122 original size:43 final size:43
Alignment explanation
Indices: 21457055--21457192 Score: 183
Period size: 42 Copynumber: 3.3 Consensus size: 43
21457045 TTGCTTCCAC
*
21457055 GTTGCTTCCTTTTTTT-TCTGAACCTGGATGTTGCTTTCCCAA
1 GTTGCTTCCTTTTTTTGTCTGAACCTGGATGTTGTTTTCCCAA
* * *
21457097 GTTACTTCCTTTTTTTGTTTGAACCTGGTTGTTGTTTTCCCAA
1 GTTGCTTCCTTTTTTTGTCTGAACCTGGATGTTGTTTTCCCAA
* * *
21457140 GTTGTTTCC-TTTTTTGTCT-AGACATGGATGTTGTTTTCCCAT
1 GTTGCTTCCTTTTTTTGTCTGA-ACCTGGATGTTGTTTTCCCAA
21457182 GTTGCTTCCTT
1 GTTGCTTCCTT
21457193 AATATTTTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 50 0.61
43 31 0.38
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.51
Consensus pattern (43 bp):
GTTGCTTCCTTTTTTTGTCTGAACCTGGATGTTGTTTTCCCAA
Found at i:21459751 original size:16 final size:16
Alignment explanation
Indices: 21459730--21459761 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21459720 ATGAAAATAT
*
21459730 CACATATTTTTTCATA
1 CACATATTTTCTCATA
21459746 CACATATTTTCTCATA
1 CACATATTTTCTCATA
21459762 TTCGACATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (16 bp):
CACATATTTTCTCATA
Found at i:21460967 original size:20 final size:21
Alignment explanation
Indices: 21460944--21460982 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
21460934 GATTACATTC
*
21460944 AAAACATCTAA-TAATATAAA
1 AAAACATATAATTAATATAAA
*
21460964 AAAACTTATAATTAATATA
1 AAAACATATAATTAATATA
21460983 TATTCCCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAACATATAATTAATATAAA
Found at i:21473462 original size:102 final size:99
Alignment explanation
Indices: 21473349--21473583 Score: 271
Period size: 101 Copynumber: 2.3 Consensus size: 99
21473339 TGTTTTTTTT
* *
21473349 ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCATG-TAGAAT-GACACCTCCAATATACTGTT
1 ATTTTTAAAAAA-AATATTTTATTTGGTGGAGCCA-GATAGAATAG-CACCACCAATATA-T-TG
21473412 TAT-GTTTTTTCTT-AATGTGTTGTTTTTTTTTAATTTAAA
61 TATGGTTTTTTCTTAAATGTGTTG--TTTTTTTAATTTAAA
** * *
21473451 ATTTTTAAAAAACAATATTTTATTTGGTGGAGCCAGATAGAATAGCGTCACCAGTGTATTGTATG
1 ATTTTTAAAAAA-AATATTTTATTTGGTGGAGCCAGATAGAATAGCACCACCAATATATTGTATG
*
21473516 GTTTTTTTTTAAAATGTGTTGTTTTTTTAATTTAAA
65 GTTTTTTCTT-AAATGTGTTGTTTTTTTAATTTAAA
* *
21473552 ATTTTTAAAAAAGATACTTTATTTTGGTGGAG
1 ATTTTTAAAAAAAATATTTTA-TTTGGTGGAG
21473584 GCATTCTTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
100 11 0.09
101 48 0.41
102 48 0.41
103 10 0.09
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (99 bp):
ATTTTTAAAAAAAATATTTTATTTGGTGGAGCCAGATAGAATAGCACCACCAATATATTGTATGG
TTTTTTCTTAAATGTGTTGTTTTTTTAATTTAAA
Found at i:21477619 original size:26 final size:26
Alignment explanation
Indices: 21477585--21477648 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
21477575 ATAAGAGCCA
* *
21477585 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAAGCTCACAAAGAACCTT
* * *
21477611 TAATTAGGAGGCTCACGAAGAACCTT
1 TAATCAGGAAGCTCACAAAGAACCTT
21477637 TAATCA-GAAGCT
1 TAATCAGGAAGCT
21477649 TCGGATAGCC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAACCTT
Found at i:21486676 original size:14 final size:14
Alignment explanation
Indices: 21486657--21486684 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21486647 CTCCTATCCT
21486657 GCTGCTGGACTTGG
1 GCTGCTGGACTTGG
21486671 GCTGCTGGACTTGG
1 GCTGCTGGACTTGG
21486685 ACGGGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (14 bp):
GCTGCTGGACTTGG
Found at i:21487015 original size:26 final size:28
Alignment explanation
Indices: 21486968--21487030 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 28
21486958 TTTTCCTTAG
21486968 TTAAAAA-ATAATAATAACAACACTAAA
1 TTAAAAACATAATAATAACAACACTAAA
* *
21486995 TTAAAAACATAATAAT-A-AACATTACA
1 TTAAAAACATAATAATAACAACACTAAA
21487021 TTAAAAACAT
1 TTAAAAACAT
21487031 TATTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 17 0.52
27 8 0.24
28 8 0.24
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.25
Consensus pattern (28 bp):
TTAAAAACATAATAATAACAACACTAAA
Found at i:21493073 original size:25 final size:25
Alignment explanation
Indices: 21493036--21493083 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
21493026 TCCTGATATT
*
21493036 TGGTTCTCACGAGCTTCTCGTTATA
1 TGGTTCTCACGAGCTTCCCGTTATA
** *
21493061 TGGTTCTTGCGAGTTTCCCGTTA
1 TGGTTCTCACGAGCTTCCCGTTA
21493084 ATAGCTCTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (25 bp):
TGGTTCTCACGAGCTTCCCGTTATA
Found at i:21500082 original size:45 final size:45
Alignment explanation
Indices: 21499983--21500157 Score: 228
Period size: 45 Copynumber: 3.9 Consensus size: 45
21499973 ACCGTTACAT
* *
21499983 GGTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATTC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTC
** *
21500026 GGTGGAATCAGCACATAGCAACCACCTTTATTTTCAATGATTTTC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTC
* * * * **
21500071 GATGGAGTCAGCACATGGCAACCACCTTTATAATCAATGGTACCC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTC
*
21500116 GGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATA
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATA
21500158 CTCAGTACAC
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 5 0.05
44 13 0.12
45 93 0.84
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTC
Found at i:21503058 original size:29 final size:30
Alignment explanation
Indices: 21503014--21503073 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
21503004 TGATTCATCC
* *
21503014 TTGGAAAATTAAATAAAGAAA-ATGACTAAA
1 TTGGAAAAGTAAATAAAAAAAGATGA-TAAA
21503044 TTGG-AAAGTAAATAAAAAAAGATGATAAA
1 TTGGAAAAGTAAATAAAAAAAGATGATAAA
21503073 T
1 T
21503074 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.60, C:0.02, G:0.15, T:0.23
Consensus pattern (30 bp):
TTGGAAAAGTAAATAAAAAAAGATGATAAA
Found at i:21504099 original size:27 final size:26
Alignment explanation
Indices: 21504041--21504100 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
21504031 GTCCCGATAT
21504041 ATGGCTC-TTCAGAGCTTTCTGATTA
1 ATGGCTCTTTCAGAGCTTTCTGATTA
**
21504066 AAAGCTCTTTCATGAGCTTTCTGATTA
1 ATGGCTCTTTCA-GAGCTTTCTGATTA
21504093 ATGGCTCT
1 ATGGCTCT
21504101 CTGGATCTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 5 0.17
26 4 0.14
27 20 0.69
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (26 bp):
ATGGCTCTTTCAGAGCTTTCTGATTA
Found at i:21505459 original size:42 final size:42
Alignment explanation
Indices: 21505409--21505541 Score: 205
Period size: 42 Copynumber: 3.2 Consensus size: 42
21505399 ATTTCGAATG
21505409 GCCACACGGCCTGAGACACGGGTGTGTCTCTCGACAGTGTGA
1 GCCACACGGCCTGAGACACGGGTGTGTCTCTCGACAGTGTGA
* *
21505451 GCCACACGGCCTGAGACACGGGTGTGTCTCTCGACCGTGTAA
1 GCCACACGGCCTGAGACACGGGTGTGTCTCTCGACAGTGTGA
* * *
21505493 GCCACACGGCCTAAGACACGGGCGTGTCTCTTGACTA-TGTGA
1 GCCACACGGCCTGAGACACGGGTGTGTCTCTCGAC-AGTGTGA
21505535 GCCACAC
1 GCCACAC
21505542 AGCTTGACCA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.20, C:0.31, G:0.30, T:0.19
Consensus pattern (42 bp):
GCCACACGGCCTGAGACACGGGTGTGTCTCTCGACAGTGTGA
Found at i:21506893 original size:53 final size:53
Alignment explanation
Indices: 21506829--21506965 Score: 184
Period size: 53 Copynumber: 2.6 Consensus size: 53
21506819 CATGTGGGTT
* * *
21506829 ACACGGGCTAGGCCGACTTGGGCATGTGGGTTGTGGGCCAGGCCGTGTGGGGC
1 ACACGGGCTAGGCCGACTTGGGCGTGTGGGCTGTGGGCCAGGCCGTGTGGGCC
* * * *
21506882 ACACGGACTAGGACGACTTGGCCGTGTGGCCTGTGGGCCAGGCCGTGTGGGCC
1 ACACGGGCTAGGCCGACTTGGGCGTGTGGGCTGTGGGCCAGGCCGTGTGGGCC
* * *
21506935 ACACGGGCAAGGCCAATTTGGGCGTGTGGGC
1 ACACGGGCTAGGCCGACTTGGGCGTGTGGGC
21506966 CACACGAGCG
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 70 1.00
ACGTcount: A:0.14, C:0.25, G:0.44, T:0.18
Consensus pattern (53 bp):
ACACGGGCTAGGCCGACTTGGGCGTGTGGGCTGTGGGCCAGGCCGTGTGGGCC
Found at i:21507225 original size:13 final size:13
Alignment explanation
Indices: 21507200--21507238 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
21507190 TAATTTTGTA
*
21507200 TATCTGCATCTGT
1 TATCTGTATCTGT
*
21507213 TATTTGTATCTGT
1 TATCTGTATCTGT
*
21507226 TATCTGTAACTGT
1 TATCTGTATCTGT
21507239 ATATGGGGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (13 bp):
TATCTGTATCTGT
Found at i:21514567 original size:27 final size:26
Alignment explanation
Indices: 21514536--21514634 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
21514526 GCAATCTAAT
* *
21514536 CAGAGTACACCATAAAGGTGATCCATA
1 CAGAGTACGCCACAAAGG-GATCCATA
* *
21514563 CAGAGTATGCCACAAAGGGTATCTATA
1 CAGAGTACGCCACAAAGGG-ATCCATA
* *
21514590 CAGAGTACGCCACAAAGGCGATTCATT
1 CAGAGTACGCCACAAAGG-GATCCATA
*
21514617 CAGAATACGCCACAAAGG
1 CAGAGTACGCCACAAAGG
21514635 CTGACAGGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.02
27 59 0.97
28 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CAGAGTACGCCACAAAGGGATCCATA
Found at i:21535418 original size:38 final size:38
Alignment explanation
Indices: 21535364--21535473 Score: 157
Period size: 38 Copynumber: 2.9 Consensus size: 38
21535354 TTTAATACAT
* *
21535364 TGGCACTAAGCCTGCTAGGTAAAAAGCCTGAATAACAC
1 TGGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACAC
* *
21535402 TGGCATTAAGCTTGCTAGGCACAAAGCCTGAATAACAC
1 TGGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACAC
* * *
21535440 CGGTACTAAGCCTGCTAGGCACAAAGCCTAAATA
1 TGGCACTAAGCCTGCTAGGCACAAAGCCTGAATA
21535474 GCGCTATAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (38 bp):
TGGCACTAAGCCTGCTAGGCACAAAGCCTGAATAACAC
Found at i:21540861 original size:14 final size:15
Alignment explanation
Indices: 21540837--21540865 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21540827 TTTTTCTATG
21540837 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
21540852 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
21540866 AGTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:21541975 original size:43 final size:42
Alignment explanation
Indices: 21541913--21542036 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 42
21541903 GATTTCCGAG
21541913 ATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 ATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
21541957 -TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 ATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
** * * *
21541999 ACATGATTACATATAAGACCATGTCTGGGACGTTGGCA
1 ATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
21542037 CTGTATGAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
42 3 0.04
43 61 0.90
44 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
ATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:21542950 original size:23 final size:23
Alignment explanation
Indices: 21542924--21542973 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
21542914 AAATGTTGCT
*
21542924 CAAACTGTTGTATATATGCTGCC
1 CAAACTGATGTATATATGCTGCC
* * *
21542947 CAAATTGATGTATTTATGCTGTC
1 CAAACTGATGTATATATGCTGCC
21542970 CAAA
1 CAAA
21542974 TTTTGGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (23 bp):
CAAACTGATGTATATATGCTGCC
Found at i:21543014 original size:71 final size:71
Alignment explanation
Indices: 21542888--21543045 Score: 180
Period size: 71 Copynumber: 2.2 Consensus size: 71
21542878 AATTTGTTAC
* *
21542888 ATATATGCTGTCC-AGTTTTGGTGTAAAAATGTTGCTCAAACTGTTGTATATATGCTGCCCAAAT
1 ATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAAACTGTTGTATATATGCTGCCCAAAT
21542952 TGATGT
66 TGATGT
* * * **
21542958 ATTTATGCTGTCCAAATTTTGGTGTGAAAATGCTG-TCTAA-T-TTGGTATATAAATGCTGTTCA
1 ATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAAACTGTT-GTATAT--ATGCTGCCCA
21543020 AATTGATGT
63 AATTGATGT
* *
21543029 ATAAAAGCTGTCCAAAT
1 ATATATGCTGTCCAAAT
21543046 AGGGTAGATT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
68 2 0.03
69 7 0.09
70 16 0.22
71 49 0.66
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (71 bp):
ATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAAACTGTTGTATATATGCTGCCCAAAT
TGATGT
Found at i:21543031 original size:23 final size:23
Alignment explanation
Indices: 21542932--21543045 Score: 95
Period size: 23 Copynumber: 4.9 Consensus size: 23
21542922 CTCAAACTGT
* *
21542932 TGTATATATGCTGCCCAAATTGA
1 TGTATAAATGCTGTCCAAATTGA
** *
21542955 TGTATTTATGCTGTCCAAATTTTGG
1 TGTATAAATGCTGTCCAAA--TTGA
* * *
21542980 TGTGA-AAATGCTGTCTAATTTGG
1 TGT-ATAAATGCTGTCCAAATTGA
* *
21543003 TATATAAATGCTGTTCAAATTGA
1 TGTATAAATGCTGTCCAAATTGA
*
21543026 TGTATAAAAGCTGTCCAAAT
1 TGTATAAATGCTGTCCAAAT
21543046 AGGGTAGATT
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.01
23 54 0.75
25 16 0.22
26 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (23 bp):
TGTATAAATGCTGTCCAAATTGA
Found at i:21545829 original size:27 final size:27
Alignment explanation
Indices: 21545795--21546073 Score: 335
Period size: 27 Copynumber: 10.4 Consensus size: 27
21545785 CCCTAAAATA
* * **
21545795 GGTAAAATGACCAAAATATCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
21545822 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* **
21545849 GGTAAAATGGCTTAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
21545876 GGTAAAATGATCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
21545903 GGTAAAATGGCCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
21545930 GGTAAAATGATCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
*
21545957 GGTAAAATGATCGAAATA-CCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
21545983 GGTAAAATGGCTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
21546010 GGTAAAATGACTGAAATACCCCTATAA
1 GGTAAAATGACCGAAATACCCCCATAG
** * *
21546037 AATAAAGTGACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
21546064 GGTAAAATGA
1 GGTAAAATGA
21546074 ATGTTATACC
Statistics
Matches: 212, Mismatches: 39, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.10
27 190 0.90
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:21546100 original size:134 final size:135
Alignment explanation
Indices: 21545824--21546073 Score: 387
Period size: 134 Copynumber: 1.9 Consensus size: 135
21545814 CCTTATAGGG
*
21545824 TAAAATGACCGAAATACCCCCATAAGGTAAAATGGCTTAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCGAAATACCCCCATAAGGTAAAATGGCTGAAATACCCCCATAGGGTAAAATGATCG
** *
21545889 AAATACCCCCATAAGGTAAAATGGCCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCA
66 AAATACCCCCATAAAATAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCA
* *
21545954 TAAGG
131 GAAGA
* *
21545959 TAAAATGATCGAAATA-CCCCATAGGGTAAAATGGCTGAAATACCCCCATAGGGTAAAATGA-CT
1 TAAAATGACCGAAATACCCCCATAAGGTAAAATGGCTGAAATACCCCCATAGGGTAAAATGATC-
* *
21546022 GAAATACCCCTATAAAATAAAGTGACCGAAATACCCTCATAGGGTAAAATGA
65 GAAATACCCCCATAAAATAAAATGACCGAAATACCCTCATAGGGTAAAATGA
21546074 ATGTTATACC
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
133 1 0.01
134 90 0.85
135 15 0.14
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (135 bp):
TAAAATGACCGAAATACCCCCATAAGGTAAAATGGCTGAAATACCCCCATAGGGTAAAATGATCG
AAATACCCCCATAAAATAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCA
GAAGA
Found at i:21548514 original size:3 final size:3
Alignment explanation
Indices: 21548506--21548544 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
21548496 ACCACTTAAG
*
21548506 GAA GAA GAA GAA GAA GAA GAA GAA GAC GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21548545 CATCTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21549573 original size:24 final size:24
Alignment explanation
Indices: 21549546--21549595 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
21549536 CAAAAGGATG
21549546 TCATCAATATATATCAATGCATTA
1 TCATCAATATATATCAATGCATTA
21549570 TCATCAATATATATCAATGCATTA
1 TCATCAATATATATCAATGCATTA
21549594 TC
1 TC
21549596 TATAATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (24 bp):
TCATCAATATATATCAATGCATTA
Found at i:21551238 original size:2 final size:2
Alignment explanation
Indices: 21551233--21551259 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21551223 TTAAAAGAAG
21551233 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21551260 AAGGAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21552638 original size:29 final size:27
Alignment explanation
Indices: 21552601--21552689 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 27
21552591 TGAATAAAAA
21552601 AATAATTATCATATATAGAATGCGTGTAG
1 AATAATTATCATATATAGAAT--GTGTAG
* *
21552630 AAT-ATT-T-ATATTTAGAA--TATAG
1 AATAATTATCATATATAGAATGTGTAG
21552652 AATAATTATCATATATAGAATGTATGTAG
1 AATAATTATCATATATAGAATG--TGTAG
*
21552681 AATATTTAT
1 AATAATTAT
21552690 ATAGAGAGAG
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
22 7 0.15
23 3 0.06
24 1 0.02
25 9 0.19
26 9 0.19
27 1 0.02
28 3 0.06
29 15 0.31
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.40
Consensus pattern (27 bp):
AATAATTATCATATATAGAATGTGTAG
Found at i:21553133 original size:13 final size:13
Alignment explanation
Indices: 21553115--21553141 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21553105 TTTTTTTCCT
21553115 TTTTAAATTTAAG
1 TTTTAAATTTAAG
21553128 TTTTAAATTTAAG
1 TTTTAAATTTAAG
21553141 T
1 T
21553142 AAATCATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTTTAAATTTAAG
Found at i:21559063 original size:26 final size:26
Alignment explanation
Indices: 21559026--21559077 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
21559016 ATTGGATAAA
21559026 AAGGGGTCGCTAAATGCAGATTCCCC
1 AAGGGGTCGCTAAATGCAGATTCCCC
* * *
21559052 AAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGTCGCTAAATGCAGATTCCCC
21559078 GAATTATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (26 bp):
AAGGGGTCGCTAAATGCAGATTCCCC
Found at i:21559153 original size:42 final size:41
Alignment explanation
Indices: 21559052--21559281 Score: 218
Period size: 42 Copynumber: 5.5 Consensus size: 41
21559042 CAGATTCCCC
* *
21559052 AAGGGGTTGCTAAGTGCTGATTCCCCGAAT-TATTGATTTTA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTA
* *
21559093 AAGGTGGTTACTAAGTGCTGATTCCACCTTATATTTGATTGTA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGTA
* * * * *
21559136 AAGGGGTTGCTATGTGCTGATTCCTCGTATCA-CTGAATATA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTA
* *
21559177 AAGGTGGTTACTAAGTGCTGATTCCACCGTATCTTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-A
* *
21559221 AAGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTGAATT-T-
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTG-ATTGTA
21559261 AAGGTGGTTGCTAAGTGCTGA
1 AAGG-GGTTGCTAAGTGCTGA
21559282 ATCCACCGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
40 4 0.03
41 33 0.21
42 65 0.42
43 47 0.30
44 6 0.04
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTGTA
Found at i:21559193 original size:84 final size:84
Alignment explanation
Indices: 21559052--21559289 Score: 352
Period size: 84 Copynumber: 2.8 Consensus size: 84
21559042 CAGATTCCCC
* * * * *
21559052 AAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTTTAAAGGTGGTTACTAAGTGCTGATTC
1 AAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGA-ATTAAAGGTGGTTACTAAGTGCTGATTC
*
21559117 CACCTTATATTTGATTGT-A
65 CACCGTATATTTGATTGTGA
*
21559136 AAGGGGTTGCTATGTGCTGATTCCTCGTATCACTGAATATAAAGGTGGTTACTAAGTGCTGATTC
1 AAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTACTAAGTGCTGATTC
*
21559201 CACCGTATCTTTGATTGTGA
65 CACCGTATATTTGATTGTGA
* * *
21559221 AAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATCC
1 AAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTACTAAGTGCTGATTCC
21559286 ACCG
66 ACCG
21559290 AGTAACGGAT
Statistics
Matches: 140, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
83 1 0.01
84 101 0.72
85 38 0.27
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (84 bp):
AAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTACTAAGTGCTGATTCC
ACCGTATATTTGATTGTGA
Found at i:21562140 original size:6 final size:6
Alignment explanation
Indices: 21562131--21562165 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
21562121 CATATTCTGA
*
21562131 AGCTGT AGCTGT AGCTGT AGCTAT AGCTGT AGCTG
1 AGCTGT AGCTGT AGCTGT AGCTGT AGCTGT AGCTG
21562166 AAACATCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (6 bp):
AGCTGT
Found at i:21567676 original size:23 final size:22
Alignment explanation
Indices: 21567617--21567684 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
21567607 AATAAATTAC
21567617 GATTACTTAAGTGTTCTAAATA
1 GATTACTTAAGTGTTCTAAATA
* * *
21567639 GATTTAATTCA-TGTT-TATACTA
1 GA-TTACTTAAGTGTTCTA-AATA
21567661 TGATTACTTAAGTGTTCTAAATA
1 -GATTACTTAAGTGTTCTAAATA
21567684 G
1 G
21567685 GTTTAAGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
21 2 0.06
22 16 0.46
23 15 0.43
24 2 0.06
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (22 bp):
GATTACTTAAGTGTTCTAAATA
Found at i:21572395 original size:27 final size:27
Alignment explanation
Indices: 21572361--21572631 Score: 191
Period size: 27 Copynumber: 10.1 Consensus size: 27
21572351 AAGTATAATA
*
21572361 ACCGTAATGCCCTAGTAGGATAAAATG
1 ACCGTAATGCCCTAGTAGGGTAAAATG
* *
21572388 ACTGTAATGCCCTTGTAGGGTAAAATG
1 ACCGTAATGCCCTAGTAGGGTAAAATG
* * * *
21572415 ACCATAATACCCCT-GTAGGGTAAATTA
1 ACCGTAAT-GCCCTAGTAGGGTAAAATG
* * * *
21572442 ATCGTAATGCCCCCA-TAGGTTAAAATA
1 ACCGTAATG-CCCTAGTAGGGTAAAATG
* * *
21572469 ATCGTAATACCCTCA-TAGGGTAAAATA
1 ACCGTAATGCCCT-AGTAGGGTAAAATG
* *
21572496 ACCGTAATACCCCT-GTAAGGTAAAATG
1 ACCGTAAT-GCCCTAGTAGGGTAAAATG
21572523 ACCGTAATGCCCCTA-TAGGGTAAAATG
1 ACCGTAATG-CCCTAGTAGGGTAAAATG
*
21572550 ACCGTAATGCCCCT-GTAAGGTAAAATG
1 ACCGTAATG-CCCTAGTAGGGTAAAATG
* * * **
21572577 ATCGTAATACCTCCA-TAACGTAAAATG
1 ACCGTAATGCC-CTAGTAGGGTAAAATG
* *
21572604 ATCGTAATG-CCTATGAAGGGT-AAATG
1 ACCGTAATGCCCTA-GTAGGGTAAAATG
21572630 AC
1 AC
21572632 TATTTTGCCC
Statistics
Matches: 197, Mismatches: 34, Indels: 27
0.76 0.13 0.10
Matches are distributed among these distances:
25 2 0.01
26 12 0.06
27 175 0.89
28 8 0.04
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
ACCGTAATGCCCTAGTAGGGTAAAATG
Found at i:21572572 original size:81 final size:81
Alignment explanation
Indices: 21572361--21572614 Score: 280
Period size: 81 Copynumber: 3.1 Consensus size: 81
21572351 AAGTATAATA
* * *
21572361 ACCGTAATG-CCCTAGTAGGATAAAATGACTGTAATGCCCTTGTAGGGTAAAATGACCATAATAC
1 ACCGTAATGCCCCTA-TAGGATAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATAC
* * *
21572425 CCCTGTAGGGTAAATTA
65 CCCTGTAAGGTAAAATG
* * * * * * * *
21572442 ATCGTAATGCCCCCATAGGTTAAAATAATCGTAAT-ACCCTCATAGGGTAAAATAACCGTAATAC
1 ACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCT-GTAGGGTAAAATGACCGTAATAC
21572506 CCCTGTAAGGTAAAATG
65 CCCTGTAAGGTAAAATG
* * *
21572523 ACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGATCGTAATACC
1 ACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACC
* *
21572588 TCC-ATAACGTAAAATG
66 -CCTGTAAGGTAAAATG
*
21572604 ATCGTAATGCC
1 ACCGTAATGCC
21572615 TATGAAGGGT
Statistics
Matches: 142, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 3 0.02
81 129 0.91
82 10 0.07
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (81 bp):
ACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACC
CCTGTAAGGTAAAATG
Found at i:21572627 original size:54 final size:53
Alignment explanation
Indices: 21572376--21572614 Score: 246
Period size: 54 Copynumber: 4.4 Consensus size: 53
21572366 AATGCCCTAG
* * * * * * *
21572376 TAGGATAAAATGACTGTAATGCCCTTGTAGGGTAAAATGACCATAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGATCGTAATACCCC-A
* * * ** *
21572430 TAGGGTAAATTAATCGTAATGCCCCCAT-AGGTTAAAATAATCGTAATACCCTCA
1 TAGGGTAAAATGACCGTAATGCCCCTGTAAGG-TAAAATGATCGTAATACCC-CA
* * * *
21572484 TAGGGTAAAATAACCGTAATACCCCTGTAAGGTAAAATGACCGTAATGCCCCTA
1 TAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGATCGTAATACCCC-A
21572538 TAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGATCGTAATACCTCCA
1 TAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGATCGTAATACC-CCA
** *
21572592 TAACGTAAAATGATCGTAATGCC
1 TAGGGTAAAATGACCGTAATGCC
21572615 TATGAAGGGT
Statistics
Matches: 152, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
53 3 0.02
54 143 0.94
55 6 0.04
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (53 bp):
TAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGATCGTAATACCCCA
Found at i:21572687 original size:24 final size:24
Alignment explanation
Indices: 21572650--21572696 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21572640 CCATCGAGTA
*
21572650 TAAATGATTGATTTGTCTGTGATG
1 TAAATGATTGATTTGTATGTGATG
21572674 TAAATGACTT-ATTTGTATGTGAT
1 TAAATGA-TTGATTTGTATGTGAT
21572697 TTGTATGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (24 bp):
TAAATGATTGATTTGTATGTGATG
Found at i:21572844 original size:27 final size:27
Alignment explanation
Indices: 21572792--21572844 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
21572782 TAGTAGCTCT
* * **
21572792 GCCACAATTACTGTTACTGGTGGCTTG
1 GCCACAAATACTATTACTGGCAGCTTG
21572819 GCCACAAATACTATTACTGGCAGCTT
1 GCCACAAATACTATTACTGGCAGCTT
21572845 TGCTGCGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAAATACTATTACTGGCAGCTTG
Found at i:21572864 original size:26 final size:26
Alignment explanation
Indices: 21572826--21572880 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
21572816 TTGGCCACAA
21572826 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
21572852 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
21572878 ATA
1 ATA
21572881 TTACTGATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:21572938 original size:32 final size:32
Alignment explanation
Indices: 21572881--21573038 Score: 149
Period size: 32 Copynumber: 4.9 Consensus size: 32
21572871 TGCTGCGATA
* * * *
21572881 TTACTGATGGATTTATGTCGATCATATTACCG
1 TTACTAATGGCTTTGTGCCGATCATATTACCG
* *
21572913 TTACTAATGGCTTTGTGCCGGTCATATTACTG
1 TTACTAATGGCTTTGTGCCGATCATATTACCG
* *
21572945 TTACTGAGGGCTTTGTGCCGATCATATTACCG
1 TTACTAATGGCTTTGTGCCGATCATATTACCG
* * **
21572977 TTACTAATGG-TTGTGTGCCGAACATATCACTA
1 TTACTAATGGCTT-TGTGCCGATCATATTACCG
* * *
21573009 CTACTGATGGCTTTATGCC-AGTCATATTAC
1 TTACTAATGGCTTTGTGCCGA-TCATATTAC
21573039 TGCACTTTTG
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
31 3 0.03
32 97 0.95
33 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (32 bp):
TTACTAATGGCTTTGTGCCGATCATATTACCG
Found at i:21572982 original size:64 final size:64
Alignment explanation
Indices: 21572879--21573038 Score: 207
Period size: 64 Copynumber: 2.5 Consensus size: 64
21572869 TTTGCTGCGA
* * ** *
21572879 TATTACTGATGGATTTATGTCGATCATATTACCGTTACTAATGGCTT-TGTGCCGGTCATATTAC
1 TATTACTGATGGCTTTATGCCGATCATATTACCGTTACTAATGG-TTGTGTGCCGAACATATCAC
* * *
21572943 TGTTACTGAGGGCTTTGTGCCGATCATATTACCGTTACTAATGGTTGTGTGCCGAACATATCAC
1 TATTACTGATGGCTTTATGCCGATCATATTACCGTTACTAATGGTTGTGTGCCGAACATATCAC
*
21573007 TACTACTGATGGCTTTATGCC-AGTCATATTAC
1 TATTACTGATGGCTTTATGCCGA-TCATATTAC
21573039 TGCACTTTTG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 3 0.04
64 79 0.96
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (64 bp):
TATTACTGATGGCTTTATGCCGATCATATTACCGTTACTAATGGTTGTGTGCCGAACATATCAC
Found at i:21576370 original size:27 final size:27
Alignment explanation
Indices: 21576335--21576568 Score: 247
Period size: 27 Copynumber: 8.7 Consensus size: 27
21576325 CCCTAAAATA
*
21576335 GGTATAATGACCGTAATACCCTTGTAG
1 GGTAAAATGACCGTAATACCCTTGTAG
* *
21576362 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCTTGTAG
* * * * *
21576389 GGAAAAATGGCCATAATGCCCTTGTAA
1 GGTAAAATGACCGTAATACCCTTGTAG
* * *
21576416 GGTAAAATAACC-AAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCTTGTAG
* **
21576442 GGTAAAATGACCGTAAT-GCCTCCATAG
1 GGTAAAATGACCGTAATACCCT-TGTAG
* **
21576469 GGTAAAATAACCGTAATACCCTCATAG
1 GGTAAAATGACCGTAATACCCTTGTAG
* * *
21576496 GGTAAAATGACCGTAATGCCTTTATAG
1 GGTAAAATGACCGTAATACCCTTGTAG
* *
21576523 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCTTGTAG
21576550 GGTAAAATGACCGTAATAC
1 GGTAAAATGACCGTAATAC
21576569 TCCCATAATG
Statistics
Matches: 173, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 23 0.13
27 147 0.85
28 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCTTGTAG
Found at i:21576504 original size:54 final size:54
Alignment explanation
Indices: 21576359--21576613 Score: 254
Period size: 54 Copynumber: 4.8 Consensus size: 54
21576349 AATACCCTTG
* * * * **
21576359 TAGGGTAAAATGACCGTAATGCCCCTGTAGGGAAAAATGGCCATAATGCC-CTTG
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCTC-CA
* * *
21576413 TAAGGTAAAATAACC-AAATACCCCTGTAGGGTAAAATGACCGTAATGCCTCCA
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCTCCA
* * **
21576466 TAGGGTAAAATAACCGTAATA-CCCTCATAGGGTAAAATGACCGTAATGCCTTTA
1 TAGGGTAAAATGACCGTAATACCCCT-GTAGGGTAAAATGACCGTAATGCCTCCA
* *
21576520 TAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAAT-ACTCCCA
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCT-CCA
** *
21576574 TAATGTAAAATGATCGTAATGA-CCCTAG-AGGGT-AAATGAC
1 TAGGGTAAAATGACCGTAAT-ACCCCT-GTAGGGTAAAATGAC
21576614 TATTTTGCCC
Statistics
Matches: 170, Mismatches: 24, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
53 56 0.33
54 109 0.64
55 5 0.03
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (54 bp):
TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCTCCA
Found at i:21576541 original size:81 final size:81
Alignment explanation
Indices: 21576334--21576613 Score: 327
Period size: 81 Copynumber: 3.5 Consensus size: 81
21576324 ACCCTAAAAT
* * *
21576334 AGGTATAATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGAAAAATGG
1 AGGTAAAATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGA
* * **
21576399 CCATAATGCCCTTGTA
66 CCGTAATACCCTCATA
* * * * *
21576415 AGGTAAAATAACC-AAATACCCCTGTAGGGTAAAATGACCGTAATGCCTCC-ATAGGGTAAAATA
1 AGGTAAAATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCC-CCTGTAGGGTAAAATG
21576478 ACCGTAATACCCTCATA
65 ACCGTAATACCCTCATA
* * * *
21576495 GGGTAAAATGACCGTAATGCCTTTATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGA
1 AGGTAAAATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGA
21576560 CCGTAATACTCC-CATA
66 CCGTAATAC-CCTCATA
* * *
21576576 ATGTAAAATGATCGTAATGACCCTAG-AGGGT-AAATGAC
1 AGGTAAAATGACCGTAAT-ACCCTTGTAGGGTAAAATGAC
21576614 TATTTTGCCC
Statistics
Matches: 166, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
80 74 0.45
81 87 0.52
82 5 0.03
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (81 bp):
AGGTAAAATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGA
CCGTAATACCCTCATA
Found at i:21576581 original size:27 final size:26
Alignment explanation
Indices: 21576335--21576613 Score: 220
Period size: 27 Copynumber: 10.4 Consensus size: 26
21576325 CCCTAAAATA
* * **
21576335 GGTATAATGACCGTAATACCCTTGTAG
1 GGTAAAATGACCGTAATGCCC-CATAG
*
21576362 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCC-ATAG
* * * ** *
21576389 GGAAAAATGGCCATAATGCCCTTGTAA
1 GGTAAAATGACCGTAATGCCC-CATAG
* * * *
21576416 GGTAAAATAACC-AAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCC-ATAG
21576442 GGTAAAATGACCGTAATGCCTCCATAG
1 GGTAAAATGACCGTAATGCC-CCATAG
* *
21576469 GGTAAAATAACCGTAATACCCTCATAG
1 GGTAAAATGACCGTAATGCCC-CATAG
**
21576496 GGTAAAATGACCGTAATGCCTTTATAG
1 GGTAAAATGACCGTAATGCC-CCATAG
*
21576523 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCC-ATAG
* *
21576550 GGTAAAATGACCGTAATACTCCCATAA
1 GGTAAAATGACCGTAATGC-CCCATAG
* * * *
21576577 TGTAAAATGATCGTAATGACCCTAGAG
1 GGTAAAATGACCGTAATG-CCCCATAG
21576604 GGT-AAATGAC
1 GGTAAAATGAC
21576614 TATTTTGCCC
Statistics
Matches: 203, Mismatches: 39, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
26 27 0.13
27 170 0.84
28 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (26 bp):
GGTAAAATGACCGTAATGCCCCATAG
Found at i:21576688 original size:24 final size:24
Alignment explanation
Indices: 21576630--21576678 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
21576620 GCCCCTTGAG
*
21576630 TGTAAATGATTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
21576654 TGTAAATGACTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCTGTGA
21576678 T
1 T
21576679 TTGTATGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCTGTGA
Found at i:21576693 original size:24 final size:24
Alignment explanation
Indices: 21576630--21576693 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
21576620 GCCCCTTGAG
* *
21576630 TGTAAATGATTGATTTGTCTGTGA
1 TGTAAATGACTAATTTGTCTGTGA
*
21576654 TGTAAATGACTGATTTGTCTGTGA
1 TGTAAATGACTAATTTGTCTGTGA
* **
21576678 TTTGTATGACTAATTT
1 TGTAAATGACTAATTT
21576694 TAAGCATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.06, G:0.22, T:0.47
Consensus pattern (24 bp):
TGTAAATGACTAATTTGTCTGTGA
Found at i:21576846 original size:26 final size:26
Alignment explanation
Indices: 21576808--21576861 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
21576798 TTGGCCACAA
* *
21576808 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAACTTTACTGCG
* *
21576834 ATACTGTTGCTGGCAACTTTACTGCG
1 ATACTATTACTGGCAACTTTACTGCG
21576860 AT
1 AT
21576862 GTTACTGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTACTGCG
Found at i:21576903 original size:32 final size:32
Alignment explanation
Indices: 21576862--21577098 Score: 298
Period size: 32 Copynumber: 7.4 Consensus size: 32
21576852 TTACTGCGAT
*
21576862 GTTACTGATGGATTTGTGCC-AGTCATATTACC
1 GTTACTGATGGCTTTGTGCCGA-TCATATTACC
*
21576894 GTTACTGATGGCTTTGTACCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
*
21576926 GTTACTGATGGCTTTGTGCCGATCATATTATC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
*
21576958 GTTACTGATGGCTTTGTTCCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
*
21576990 GTTACTAATGGCTTTGTGCCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* * * * *
21577022 GTTACTGATGGCTGTGTGCCAAACATATCACT
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
** * ** *
21577054 ACTACTAATGGCTTTGTGCAAATCATATTACT
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
*
21577086 G-TACTTATGGCTT
1 GTTACTGATGGCTT
21577099 GTAGCCATTC
Statistics
Matches: 181, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
31 11 0.06
32 169 0.93
33 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (32 bp):
GTTACTGATGGCTTTGTGCCGATCATATTACC
Found at i:21579112 original size:48 final size:48
Alignment explanation
Indices: 21579071--21579186 Score: 155
Period size: 48 Copynumber: 2.4 Consensus size: 48
21579061 TTCAAACAAC
* *
21579071 GAAAAGACTGAGAAAGAAAAGGGAC-GGAACTTTGGGGTTTCAAGTAAA
1 GAAAAGACTGAGAAAGAAAAAGGACAAG-ACTTTGGGGTTTCAAGTAAA
* * *
21579119 GAAAAGTCTGGGAAAGAAAAAGGACAAGATTTTGGGGTTTCAAGTAAA
1 GAAAAGACTGAGAAAGAAAAAGGACAAGACTTTGGGGTTTCAAGTAAA
21579167 GAAAAGA-TCGAGAAAGAAAA
1 GAAAAGACT-GAGAAAGAAAA
21579187 TAATTTGTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 1 0.02
48 57 0.97
49 1 0.02
ACGTcount: A:0.47, C:0.07, G:0.29, T:0.16
Consensus pattern (48 bp):
GAAAAGACTGAGAAAGAAAAAGGACAAGACTTTGGGGTTTCAAGTAAA
Found at i:21579343 original size:41 final size:41
Alignment explanation
Indices: 21579269--21579385 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
21579259 TGCTCTTCCT
21579269 ATAAACGCCGCTATTGC-TTACCTTTTGAGGCGTTTTCCCC
1 ATAAACGCCGCTATTGCTTTACCTTTTGAGGCGTTTTCCCC
* *
21579309 ATAAACACCGCTATTGCTTTACCTTTTGCA-GCGTTTTTCCC
1 ATAAACGCCGCTATTGCTTTACCTTTTG-AGGCGTTTTCCCC
* *
21579350 ATAAATGCCGCTATTGCTTTA-CTTATTGAGGTGTTT
1 ATAAACGCCGCTATTGCTTTACCTT-TTGAGGCGTTT
21579386 CTCTATTAGC
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
40 20 0.29
41 47 0.69
42 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (41 bp):
ATAAACGCCGCTATTGCTTTACCTTTTGAGGCGTTTTCCCC
Found at i:21587336 original size:28 final size:27
Alignment explanation
Indices: 21587272--21587336 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
21587262 TTAATAGTAG
* *
21587272 CAGTACAGCGTGGGCCTTAGCCCAATA
1 CAGTACAGTGTGGGCCTAAGCCCAATA
* * *
21587299 TAGAAACAGTGTGGGCCTAAGCCCGATA
1 CAG-TACAGTGTGGGCCTAAGCCCAATA
21587327 CAGTATCAGT
1 CAGTA-CAGT
21587337 ATGATGCAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGTACAGTGTGGGCCTAAGCCCAATA
Found at i:21587516 original size:22 final size:21
Alignment explanation
Indices: 21587457--21587521 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
21587447 ATGTAGTAGT
21587457 CAGAATGGCTAAGAGCCATAAA
1 CAGAATGGCTAA-AGCCATAAA
** *
21587479 CA-AGATAACTATAAGCTATAAA
1 CAGA-ATGGCTA-AAGCCATAAA
*
21587501 CAGAATGGCTACAAGCGATAA
1 CAGAATGGCTA-AAGCCATAA
21587522 GTACAGTAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (21 bp):
CAGAATGGCTAAAGCCATAAA
Found at i:21587619 original size:64 final size:64
Alignment explanation
Indices: 21587540--21587765 Score: 239
Period size: 64 Copynumber: 3.5 Consensus size: 64
21587530 ATGTGATTGA
*
21587540 CACAAAGCCATCAGTAGTAGTGATATGATCGACATACAACCATCAGTAACGGTAACATGATCGG
1 CACAAAGCCATCAGTAATAGTGATATGATCGACATACAACCATCAGTAACGGTAACATGATCGG
* ** * *
21587604 CACAAAGCCATCAGTAGTAGTGATATGATCGGTACACAACCATCAGTAACAGTGAA-ATGATCGG
1 CACAAAGCCATCAGTAATAGTGATATGATCGACATACAACCATCAGTAACGGT-AACATGATCGG
* * * * *
21587668 CACACAA-CCATCGGTAATGGTAATATGATCG--GTACAATGCCATAAGTAACGGT-ACTATGAT
1 CACA-AAGCCATCAGTAATAGTGATATGATCGACATACAA--CCATCAGTAACGGTAAC-ATGAT
*
21587729 AGG
62 CGG
*
21587732 CACAAAGCCATCAGTAATGGT-ACTATGATCGACA
1 CACAAAGCCATCAGTAATAGTGA-TATGATCGACA
21587766 CAAAGCCATT
Statistics
Matches: 137, Mismatches: 15, Indels: 18
0.81 0.09 0.11
Matches are distributed among these distances:
62 5 0.04
63 3 0.02
64 125 0.91
65 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (64 bp):
CACAAAGCCATCAGTAATAGTGATATGATCGACATACAACCATCAGTAACGGTAACATGATCGG
Found at i:21587760 original size:96 final size:96
Alignment explanation
Indices: 21587513--21587767 Score: 257
Period size: 96 Copynumber: 2.7 Consensus size: 96
21587503 GAATGGCTAC
* * * * * * *
21587513 AAGCGATAAGT-ACAGTAATGTGATTGACACAAAGCCATCAGTAGTAGTGATATGATCGACATAC
1 AAGCCATAAGTAACAGTGATATGATAGGCACAAAGCCATCAGTAATAGTGATATGATCGACACAC
21587577 AACCATCAGTAACGGTAACATGATCGGCACA
66 AACCATCAGTAACGGTAACATGATCGGCACA
* ** * * * * *
21587608 AAGCCATCAGTAGTAGTGATATGATCGGTACACAA-CCATCAGTAACAGTGAAATGATCGGCACA
1 AAGCCATAAGTAACAGTGATATGATAGGCACA-AAGCCATCAGTAATAGTGATATGATCGACACA
* * * *
21587672 CAACCATCGGTAATGGTAATATGATCGGTACA
65 CAACCATCAGTAACGGTAACATGATCGGCACA
* * *
21587704 ATGCCATAAGTAACGGT-ACTATGATAGGCACAAAGCCATCAGTAATGGT-ACTATGATCGACAC
1 AAGCCATAAGTAACAGTGA-TATGATAGGCACAAAGCCATCAGTAATAGTGA-TATGATCGACAC
21587767 A
64 A
21587768 AAGCCATTAG
Statistics
Matches: 126, Mismatches: 29, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
95 13 0.10
96 111 0.88
97 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (96 bp):
AAGCCATAAGTAACAGTGATATGATAGGCACAAAGCCATCAGTAATAGTGATATGATCGACACAC
AACCATCAGTAACGGTAACATGATCGGCACA
Found at i:21587768 original size:32 final size:32
Alignment explanation
Indices: 21587533--21587779 Score: 182
Period size: 32 Copynumber: 7.7 Consensus size: 32
21587523 TACAGTAATG
* * *
21587533 TGATTGACACAAAGCCATCAGTAGTAGTGATA
1 TGATCGACACAAAGCCATCAGTAATGGTGATA
* * * *
21587565 TGATCGACATACAA-CCATCAGTAACGGTAACA
1 TGATCGACACA-AAGCCATCAGTAATGGTGATA
* * *
21587597 TGATCGGCACAAAGCCATCAGTAGTAGTGATA
1 TGATCGACACAAAGCCATCAGTAATGGTGATA
** *
21587629 TGATCGGTACAC-AA-CCATCAGTAACAGTGAAA
1 TGATC-G-ACACAAAGCCATCAGTAATGGTGATA
* * *
21587661 TGATCGGCACACAA-CCATCGGTAATGGTAATA
1 TGATCGACACA-AAGCCATCAGTAATGGTGATA
** * * *
21587693 TGATCGGTACAATGCCATAAGTAACGGT-ACTA
1 TGATCGACACAAAGCCATCAGTAATGGTGA-TA
* *
21587725 TGATAGGCACAAAGCCATCAGTAATGGT-ACTA
1 TGATCGACACAAAGCCATCAGTAATGGTGA-TA
*
21587757 TGATCGACACAAAGCCATTAGTA
1 TGATCGACACAAAGCCATCAGTA
21587780 GCATCGCAGT
Statistics
Matches: 170, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
30 3 0.02
31 5 0.03
32 154 0.91
33 5 0.03
34 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (32 bp):
TGATCGACACAAAGCCATCAGTAATGGTGATA
Found at i:21587968 original size:24 final size:25
Alignment explanation
Indices: 21587936--21587982 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
21587926 ATCAATCATT
21587936 CAAATCACAGACAAACCAGTCATAC
1 CAAATCACAGACAAACCAGTCATAC
*
21587961 CAAA-CACAGACAAATCAGTCAT
1 CAAATCACAGACAAACCAGTCAT
21587983 TTAACCACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.49, C:0.30, G:0.09, T:0.13
Consensus pattern (25 bp):
CAAATCACAGACAAACCAGTCATAC
Found at i:21588044 original size:26 final size:27
Alignment explanation
Indices: 21587994--21588047 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21587984 TAACCACAGA
* *
21587994 AAAAATAATCATTTGATCTCGAAGGGC
1 AAAAATAATCATTTAATCACGAAGGGC
*
21588021 AAAAATAGTCATTTAATCAC-AAGGGC
1 AAAAATAATCATTTAATCACGAAGGGC
21588047 A
1 A
21588048 TTACGGTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (27 bp):
AAAAATAATCATTTAATCACGAAGGGC
Found at i:21588087 original size:27 final size:27
Alignment explanation
Indices: 21588047--21588352 Score: 314
Period size: 27 Copynumber: 11.3 Consensus size: 27
21588037 TCACAAGGGC
*
21588047 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
21588074 ATTGCAGTCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
21588101 ATTACAGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
21588128 ATTACGGTCATTTTACCTTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
21588155 ATTACGATCATTTTACCCTACAGGAGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
21588182 ATTACGGTCATTTTACCCGATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
21588209 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
21588236 TTTACGATTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
21588263 ATTATGGTCATTTTACCC-ATC-GAGGGT
1 ATTACGGTCATTTTACCCTA-CAG-GGGT
* **
21588290 ATTTCAATCATTTTACCC-ATC-GAGGGT
1 ATTACGGTCATTTTACCCTA-CAG-GGGT
* * *
21588317 ATTTCGGTCATTTTACCCTTCGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
21588344 ATTTCGGTC
1 ATTACGGTC
21588353 CAGATATCGA
Statistics
Matches: 240, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 237 0.99
28 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:21588138 original size:81 final size:81
Alignment explanation
Indices: 21588043--21588352 Score: 349
Period size: 81 Copynumber: 3.8 Consensus size: 81
21588033 TTAATCACAA
* * *
21588043 GGGCATTACGGTCATTTTACCCTATAGGGGTATTGC-AGTCATTTTACCTTACAGGGGTATTACA
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGA-TCATTTTACCCTACAGGGGTATTACG
*
21588107 GTCATTTTACCCTACAG
65 GTCATTTTACCCGACAG
* * * *
21588124 GGGCATTACGGTCATTTTACCTTACAGGGGCATTACGATCATTTTACCCTACAGGAGTATTACGG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTTTACCCTACAGGGGTATTACGG
*
21588189 TCATTTTACCCGATAG
66 TCATTTTACCCGACAG
* * * *
21588205 GGGCATTACGATCATTTTACCCTATAGGGGTTTTACGATTATTTTACCCTACAGGGGTATTATGG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTTTACCCTACAGGGGTATTACGG
21588270 TCATTTTACCC-ATC-G
66 TCATTTTACCCGA-CAG
* * ** * * * * * *
21588285 AGGGTATTTCAATCATTTTACCC-ATCGAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTC
1 -GGGCATTACGGTCATTTTACCCTATAG-GGGTATTACGATCATTTTACCCTACAGGGGTATTAC
21588349 GGTC
64 GGTC
21588353 CAGATATCGA
Statistics
Matches: 195, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
80 5 0.03
81 189 0.97
82 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (81 bp):
GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTTTACCCTACAGGGGTATTACGG
TCATTTTACCCGACAG
Found at i:21591461 original size:40 final size:38
Alignment explanation
Indices: 21591370--21591478 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 38
21591360 TTGGATAAAA
21591370 AACGCCACTAAAAATCGAGCATTAGCGGCGCTTCACAT
1 AACGCCACTAAAAATCGAGCATTAGCGGCGCTTCACAT
* *
21591408 AACATGCCGCTAAAGATCGAGCATTAGCGGCGCTTACAGCA-
1 AAC--GCCACTAAAAATCGAGCATTAGCGGCGCTT-CA-CAT
21591449 AAGCGCCACTAAAAAT-GAGCATTAGCGGCG
1 AA-CGCCACTAAAAATCGAGCATTAGCGGCG
21591479 TTTTTTGTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.05
39 14 0.23
40 38 0.61
41 4 0.06
42 3 0.05
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.17
Consensus pattern (38 bp):
AACGCCACTAAAAATCGAGCATTAGCGGCGCTTCACAT
Found at i:21591727 original size:41 final size:41
Alignment explanation
Indices: 21591536--21591714 Score: 315
Period size: 41 Copynumber: 4.4 Consensus size: 41
21591526 ATTTTGGGGC
21591536 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCT
21591577 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCT
21591618 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCT
* *
21591659 TTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGC-
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAG-GCT
*
21591700 TTTAGCAGCGTTTTT
1 TTTAGCGGCGTTTTT
21591715 GTTAAAGCGC
Statistics
Matches: 133, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
41 131 0.98
42 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:21591883 original size:25 final size:26
Alignment explanation
Indices: 21591828--21591884 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
21591818 AAAATGGATA
* *
21591828 AATTTGAAATAATGACACATAAAAAT
1 AATTTGAAATAATAAAACATAAAAAT
21591854 AATTTGAAATAA-AAAACATAGAAAAT
1 AATTTGAAATAATAAAACATA-AAAAT
21591880 -ATTTG
1 AATTTG
21591885 TTAAAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (26 bp):
AATTTGAAATAATAAAACATAAAAAT
Found at i:21592150 original size:14 final size:15
Alignment explanation
Indices: 21592124--21592156 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
21592114 AAGGTTTATA
21592124 GATTATGGAATTAGG
1 GATTATGGAATTAGG
*
21592139 GATTAT-GAATTATG
1 GATTATGGAATTAGG
21592153 GATT
1 GATT
21592157 GTGGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:21592311 original size:131 final size:132
Alignment explanation
Indices: 21592176--21592417 Score: 328
Period size: 132 Copynumber: 1.8 Consensus size: 132
21592166 GGGTTGTGAT
* * * * *
21592176 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAATG-TTTATAGATT-TAGTGT-TAGT
1 TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGGGATTT-AGGATTTAGAGATTCGAG-GTCGAGT
** *
21592238 TAGGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATCTATATATTAAATAAAGTTTAGGGGTTA
64 TAGGGTTTAAAGTTTAAATTAATTAGTATTTTTTAATCTATATATTAAATAAAGTTTAGGGGTTA
21592303 GTAG
129 GTAG
* * *
21592307 TTAGGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAGGATTTAGAGATTCGAGGTCGGGTTA
1 TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGGGATTTAGGATTTAGAGATTCGAGGTCGAGTTA
* *
21592372 GGGTTTAAAGTTTAAATTAATTAGTATTTTTTAATTTATGTATTAA
66 GGGTTTAAAGTTTAAATTAATTAGTATTTTTTAATCTATATATTAA
21592418 TTAAGTTCTT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
130 2 0.02
131 46 0.48
132 47 0.49
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.42
Consensus pattern (132 bp):
TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGGGATTTAGGATTTAGAGATTCGAGGTCGAGTTA
GGGTTTAAAGTTTAAATTAATTAGTATTTTTTAATCTATATATTAAATAAAGTTTAGGGGTTAGT
AG
Found at i:21592312 original size:14 final size:14
Alignment explanation
Indices: 21592293--21592330 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
21592283 TAAATAAAGT
21592293 TTAGGGGTTAGTA-G
1 TTAGGGGTTAG-AGG
21592307 TTAGGGGTTAGAGG
1 TTAGGGGTTAGAGG
*
21592321 TTAGAGGTTA
1 TTAGGGGTTA
21592331 AGAGTTAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGAGG
Found at i:21592455 original size:7 final size:7
Alignment explanation
Indices: 21592443--21592484 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
21592433 ATTGTAAAAG
21592443 AGGGGTT
1 AGGGGTT
21592450 AGGGGTT
1 AGGGGTT
*
21592457 AAGGGTT
1 AGGGGTT
21592464 AGGGGTT
1 AGGGGTT
*
21592471 AGTGGTT
1 AGGGGTT
*
21592478 ATGGGTT
1 AGGGGTT
21592485 TACGGTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (7 bp):
AGGGGTT
Found at i:21592469 original size:21 final size:21
Alignment explanation
Indices: 21592443--21592484 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21592433 ATTGTAAAAG
21592443 AGGGGTTAGGGGTTAAGGGTT
1 AGGGGTTAGGGGTTAAGGGTT
* *
21592464 AGGGGTTAGTGGTTATGGGTT
1 AGGGGTTAGGGGTTAAGGGTT
21592485 TACGGTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (21 bp):
AGGGGTTAGGGGTTAAGGGTT
Found at i:21592619 original size:27 final size:29
Alignment explanation
Indices: 21592574--21592628 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
21592564 TTTATATATT
21592574 AAATAATTTATTATATAAT-TG-TAAAAG
1 AAATAATTTATTATATAATATGTTAAAAG
*
21592601 AAATAATATTATT-TTTAATATGTTAAAA
1 AAATAAT-TTATTATATAATATGTTAAAA
21592629 TTATGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 12 0.50
28 7 0.29
29 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATAATTTATTATATAATATGTTAAAAG
Found at i:21594371 original size:30 final size:32
Alignment explanation
Indices: 21594335--21594397 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
21594325 TTGCAGGTAG
21594335 TTCTTC-AA-ATCAAAGAAGGTTTGTTTTGTT
1 TTCTTCAAACATCAAAGAAGGTTTGTTTTGTT
21594365 TTCTTCAAAATCATCAAAGAAGGTTTGTTTTGT
1 TTCTTC-AAA-CATCAAAGAAGGTTTGTTTTGT
21594398 CATTTTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 6 0.21
32 2 0.07
34 21 0.72
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (32 bp):
TTCTTCAAACATCAAAGAAGGTTTGTTTTGTT
Found at i:21596276 original size:43 final size:43
Alignment explanation
Indices: 21596215--21596436 Score: 322
Period size: 43 Copynumber: 5.2 Consensus size: 43
21596205 GACCTATAGT
* * * *
21596215 GGCGTTTCTGGTAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGT
1 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* *
21596258 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGATCTTTAGC
1 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* * *
21596301 GGCGTTGGTCGTAGAAGCGCCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
*
21596344 GGCGTTTGTGAG-AAAAGCGCCGTTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTG-GTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
21596387 GGCGTTTGTGAGT-AAAGCGCCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTG-GTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
21596430 GGCGTTT
1 GGCGTTT
21596437 ATTTTTGAAA
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
43 162 0.99
44 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
Found at i:21611998 original size:41 final size:41
Alignment explanation
Indices: 21611953--21612123 Score: 202
Period size: 41 Copynumber: 4.2 Consensus size: 41
21611943 TTATACTCTG
* *
21611953 AATTGCACATATGTGCCCTTGTTTGTTA-TTCGGTACCCCTA
1 AATTGCACATATGTGCCCCTATTTG-TACTTCGGTACCCCTA
* * *
21611994 AATTGTACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
1 AATTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
* * * * *
21612035 AATTCCACATAAGTGCCCCTATTTGTACTTCAGTACCCTTG
1 AATTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
* *
21612076 AACTGCACATATGTGCCCCTATTTGTACTACGGTACCCC-A
1 AATTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
*
21612116 AATAGCAC
1 AATTGCAC
21612124 TTACATTCCC
Statistics
Matches: 110, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
40 8 0.07
41 102 0.93
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (41 bp):
AATTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:21612871 original size:43 final size:43
Alignment explanation
Indices: 21612810--21612911 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
21612800 CATGGCCTAA
*
21612810 GACACGGGCGTGTGTCTTAGCTGTGTGTGACACACGACCATTC
1 GACACGGGCGTGTGTCTTAGCCGTGTGTGACACACGACCATTC
*
21612853 GACACGGGCGTGTGTCTTAGCCGTGTGTGACACATGACCATTC
1 GACACGGGCGTGTGTCTTAGCCGTGTGTGACACACGACCATTC
* *
21612896 GACACGGTCATGTGTC
1 GACACGGGCGTGTGTC
21612912 CCCTTTAGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.25
Consensus pattern (43 bp):
GACACGGGCGTGTGTCTTAGCCGTGTGTGACACACGACCATTC
Found at i:21615472 original size:22 final size:22
Alignment explanation
Indices: 21615447--21615517 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
21615437 TGGCTCGGCA
* *
21615447 CCATAGACAGAATGGCTAAAAG
1 CCATAGACAGAAAGGCTACAAG
*
21615469 CCATA-AGCAAAAAGGCTACAAG
1 CCATAGA-CAGAAAGGCTACAAG
* *
21615491 CC-TTGAACAGAACGGCTACAAG
1 CCATAG-ACAGAAAGGCTACAAG
21615513 CCATA
1 CCATA
21615518 CACTTCCTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.13
Consensus pattern (22 bp):
CCATAGACAGAAAGGCTACAAG
Found at i:21619651 original size:211 final size:211
Alignment explanation
Indices: 21619287--21619915 Score: 1161
Period size: 211 Copynumber: 3.0 Consensus size: 211
21619277 GTCTATTGAA
* *
21619287 TCTTCCAATAAGCAACATTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
1 TCTTCCAATAAGAAACCTTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
21619352 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
66 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
* *
21619417 ATAAGTCTTTTGGCTACTTGGTTCTCTTTCTTTCCTATTTTTGTGGCCCAGAGAACTTAGCCTTT
131 ATAAGTCTTTTGGCTTCTTGGTTCTCTTTCTTTCCTGTTTTTGTGGCCCAGAGAACTTAGCCTTT
21619482 GTTTCTGTTAACTATT
196 GTTTCTGTTAACTATT
21619498 TCTTCCAATAAGAAACCTTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
1 TCTTCCAATAAGAAACCTTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
21619563 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
66 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
21619628 ATAAGTCTTTTGGCTTCTTGGTTCTCTTTCTTTCCTGTTTTTGTGGCCCAGAGAACTTAGCCTTT
131 ATAAGTCTTTTGGCTTCTTGGTTCTCTTTCTTTCCTGTTTTTGTGGCCCAGAGAACTTAGCCTTT
21619693 GTTTCTGTTAACTATT
196 GTTTCTGTTAACTATT
*
21619709 TCTTCCAATAAGAAACCTTTTATCATATAAAGTTCCATACCTTTTTCCTTAGTGGCCAGGTAATC
1 TCTTCCAATAAGAAACCTTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
*
21619774 TTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
66 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
* *
21619839 ATAAGTCTTTTAGCTTCTTGGTTCTCTTTCTTTCCTGTTTTAT-TGGCCTAGAGAACTTAGCCTT
131 ATAAGTCTTTTGGCTTCTTGGTTCTCTTTCTTTCCTGTTTT-TGTGGCCCAGAGAACTTAGCCTT
*
21619903 TGTTTATGTTAAC
195 TGTTTCTGTTAAC
21619916 ATGCTTTCCC
Statistics
Matches: 408, Mismatches: 9, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
211 407 1.00
212 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (211 bp):
TCTTCCAATAAGAAACCTTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
ATAAGTCTTTTGGCTTCTTGGTTCTCTTTCTTTCCTGTTTTTGTGGCCCAGAGAACTTAGCCTTT
GTTTCTGTTAACTATT
Found at i:21635863 original size:14 final size:15
Alignment explanation
Indices: 21635843--21635877 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21635833 CCTTTAATTA
21635843 GAAAATTAA-TTAAT
1 GAAAATTAATTTAAT
*
21635857 TAAAATTAATTTAAT
1 GAAAATTAATTTAAT
21635872 GAAAAT
1 GAAAAT
21635878 GTCTATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (15 bp):
GAAAATTAATTTAAT
Done.