Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 69 of 109
Found at i:22195498 original size:10 final size:9
Alignment explanation
Indices: 22195481--22195600 Score: 104
Period size: 9 Copynumber: 12.8 Consensus size: 9
22195471 TCGGTAGAGG
22195481 TTTTTTTGT
1 TTTTTTTGT
22195490 TTCTTTTTG-
1 TT-TTTTTGT
22195499 TTTTTTTG-
1 TTTTTTTGT
*
22195507 TTCTTTTGT
1 TTTTTTTGT
22195516 TCTTTTTTGTT
1 T-TTTTTTG-T
22195527 CTCTTTTTTGT
1 -T-TTTTTTGT
* *
22195538 TTTTTCT-C
1 TTTTTTTGT
22195546 TTTTTTTGT
1 TTTTTTTGT
22195555 TTTTTTTGT
1 TTTTTTTGT
22195564 TTTTTTT-T
1 TTTTTTTGT
22195572 TGTTTTTTGTT
1 T-TTTTTTG-T
22195583 TTTGTCTTTGT
1 TTT-T-TTTGT
22195594 TTTTTTT
1 TTTTTTT
22195601 TAATTGAATC
Statistics
Matches: 94, Mismatches: 6, Indels: 22
0.77 0.05 0.18
Matches are distributed among these distances:
8 21 0.22
9 35 0.37
10 16 0.17
11 9 0.10
12 13 0.14
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:22195522 original size:26 final size:26
Alignment explanation
Indices: 22195484--22195585 Score: 91
Period size: 26 Copynumber: 3.8 Consensus size: 26
22195474 GTAGAGGTTT
22195484 TTTTGTT-TCTTTTTGTTTTTTTGTTC
1 TTTTGTTCT-TTTTTGTTTTTTTGTTC
*
22195510 TTTTGTTCTTTTTTGTTCTCTTTT-TTG
1 TTTTGTTCTTTTTTGTT-T-TTTTGTTC
* *
22195537 TTTTTTCTCTTTTTTTGTTTTTTTTGTTT
1 TTTTGT-TC-TTTTTTG-TTTTTTTGTTC
* *
22195566 TTTTTTTGTTTTTTGTTTTT
1 TTTTGTTCTTTTTTGTTTTT
22195586 GTCTTTGTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
26 20 0.31
27 16 0.25
28 11 0.17
29 16 0.25
30 2 0.03
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (26 bp):
TTTTGTTCTTTTTTGTTTTTTTGTTC
Found at i:22195578 original size:56 final size:55
Alignment explanation
Indices: 22195493--22195598 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 55
22195483 TTTTTGTTTC
22195493 TTTTTGTTTTTTTGTTCTTTTGTTCTTTTTTGTTCTCTT-T-TTTGTTTTTTCTCTT
1 TTTTTGTTTTTTTGTTCTTTTGTTCTTTTTTGTT-T-TTGTCTTTGTTTTTTCTCTT
* * *
22195548 TTTTTGTTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTGTCTTTGTTTTTT
1 TTTTTG-TTTTTTTGTTCTTTTGTTCTTTTTTGTTTTTGTCTTTGTTTTTT
22195599 TTTAATTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 2 0.04
55 8 0.18
56 35 0.78
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (55 bp):
TTTTTGTTTTTTTGTTCTTTTGTTCTTTTTTGTTTTTGTCTTTGTTTTTTCTCTT
Found at i:22195596 original size:26 final size:25
Alignment explanation
Indices: 22195493--22195598 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 25
22195483 TTTTTGTTTC
22195493 TTTTTGTTTTTTTGTTCTTTTGTTCTTTT
1 TTTTTG-TTTTTTG-T-TTTTG-TCTTTT
* *
22195522 TTGTTCTCTTTTTTGTTTTT-TCTCTT
1 TT-TT-TGTTTTTTGTTTTTGTCTTTT
22195548 TTTTTG---TTT-TTTTTGT-TTTT
1 TTTTTGTTTTTTGTTTTTGTCTTTT
22195568 TTTTTGTTTTTTGTTTTTGTCTTTGT
1 TTTTTGTTTTTTGTTTTTGTCTTT-T
22195594 TTTTT
1 TTTTT
22195599 TTTAATTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
20 14 0.22
21 4 0.06
23 3 0.05
24 8 0.12
25 5 0.08
26 13 0.20
28 4 0.06
29 3 0.05
30 9 0.14
31 1 0.02
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (25 bp):
TTTTTGTTTTTTGTTTTTGTCTTTT
Found at i:22199186 original size:16 final size:16
Alignment explanation
Indices: 22199165--22199200 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22199155 TTCTAAGATG
22199165 AAAATGTAATGCAATC
1 AAAATGTAATGCAATC
* *
22199181 AAAATGTCATGCAGTC
1 AAAATGTAATGCAATC
22199197 AAAA
1 AAAA
22199201 CAAAACACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (16 bp):
AAAATGTAATGCAATC
Found at i:22204107 original size:16 final size:15
Alignment explanation
Indices: 22204078--22204117 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
22204068 GGATCGCTTA
*
22204078 AATTATTTTGATTTG
1 AATTAATTTGATTTG
22204093 AATTAATTTGTATTTG
1 AATTAATTTG-ATTTG
*
22204109 TATTAATTT
1 AATTAATTT
22204118 TGACAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
AATTAATTTGATTTG
Found at i:22204280 original size:14 final size:13
Alignment explanation
Indices: 22204255--22204286 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
22204245 GAATAATTCT
22204255 AAATATTATATAA
1 AAATATTATATAA
22204268 AAATATATATATAA
1 AAATAT-TATATAA
22204282 AAATA
1 AAATA
22204287 AAATCTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATATTATATAA
Found at i:22205005 original size:34 final size:33
Alignment explanation
Indices: 22204967--22205076 Score: 93
Period size: 34 Copynumber: 3.4 Consensus size: 33
22204957 ACTTAATCAT
22204967 TTTGATTATTTGACATATATTTTTAATAATGAAA
1 TTTGATT-TTTGACATATATTTTTAATAATGAAA
* * * * ** *
22205001 TTTGACTTTAGA-A-AT-TTTTT-CTTATTCAT
1 TTTGATTTTTGACATATATTTTTAATAATGAAA
*
22205030 TTTGATTATTTGACATATATTTTTAATAAAGAAA
1 TTTGATT-TTTGACATATATTTTTAATAATGAAA
22205064 TTTGACTTTTTGA
1 TTTGA-TTTTTGA
22205077 TACAATGCTT
Statistics
Matches: 55, Mismatches: 15, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
29 10 0.18
30 9 0.16
31 3 0.05
32 3 0.05
33 9 0.16
34 19 0.35
35 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (33 bp):
TTTGATTTTTGACATATATTTTTAATAATGAAA
Found at i:22209814 original size:18 final size:18
Alignment explanation
Indices: 22209791--22209829 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
22209781 TTTCCCTAAC
22209791 AAATACAATATAATCAAT
1 AAATACAATATAATCAAT
22209809 AAATACAATATAATCAAT
1 AAATACAATATAATCAAT
22209827 AAA
1 AAA
22209830 CACACTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATACAATATAATCAAT
Found at i:22217278 original size:33 final size:32
Alignment explanation
Indices: 22217241--22217317 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
22217231 TGGCCCTGCC
** * *
22217241 ATGGTCTTACATTTGTAGTGCCATAACCCAATT
1 ATGGTCTTACATCAG-AATGCCATAACCCAACT
* *
22217274 ATGGTCTTATCATCAGAATGTCATAGCCCAACT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAACT
22217307 ATGGTCTTACA
1 ATGGTCTTACA
22217318 CATGTATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAACT
Found at i:22224850 original size:58 final size:55
Alignment explanation
Indices: 22224762--22224883 Score: 163
Period size: 58 Copynumber: 2.2 Consensus size: 55
22224752 AAATAGTATG
**
22224762 TTTTTTAATGGCGCATATCTGACAGGCGCCAATGAAGTTTTTATATTAAAATTTTCTT
1 TTTTTTAATCACGCATATCTGACAGGCGCCAATGAAGTTTTTATATT--AATTTT-TT
* * *
22224820 TTTTTTAATCACGCCTATTTGACAGGCGCCAATGAATTTTTTATATTAATTTTTT
1 TTTTTTAATCACGCATATCTGACAGGCGCCAATGAAGTTTTTATATTAATTTTTT
*
22224875 TCTTTTAAT
1 TTTTTTAAT
22224884 AAAATATTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
55 10 0.17
56 6 0.10
58 42 0.72
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (55 bp):
TTTTTTAATCACGCATATCTGACAGGCGCCAATGAAGTTTTTATATTAATTTTTT
Found at i:22227934 original size:44 final size:44
Alignment explanation
Indices: 22227886--22228289 Score: 106
Period size: 44 Copynumber: 9.3 Consensus size: 44
22227876 ACCATCTTTG
22227886 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCA
* * ** * ** *
22227930 ATCTATTCCTCTGTTGCCCAGGGA-AGT-AGAATTACTG---GCTTCA
1 ATCTACTCCACTACTACTTAGGGAGA-TAAG-A-T-CTGAAATCTTCA
* ** * * * ** * *
22227973 ATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGTCATCCTCG
1 ATCTACTCCACTACT-A-CTTAGGGAGATAAGATCTGAAATCTTCA
* * *
22228018 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTAAATCTTCA
1 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCA
* ** * *
22228062 ATCTATTCCACTGTTGAC-TA-GGAAAGT-AGAAT-T--ATTGGCTTCA
1 ATCTACTCCACTACT-ACTTAGGGAGA-TAAG-ATCTGAAAT--CTTCA
* ** * * ** *
22228105 ATGTACTCCACTA-TAACCACAGGGAGGTAAAATCTGCCATCTTCG
1 ATCTACTCCACTACT-A-CTTAGGGAGATAAGATCTGAAATCTTCA
* * * *
22228150 ATCTGCTCCACTACTGCTTAGCGAGATAAGATTTGAAATCTTCA
1 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCA
* * ** * * ** *
22228194 ATCTATTCCACT-GTTGTCCA-GG-GA-AA-ATCCGCCATCTTCG
1 ATCTACTCCACTACTACT-TAGGGAGATAAGATCTGAAATCTTCA
* *
22228234 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCA
*
22228278 ATCTATTCCACT
1 ATCTACTCCACT
22228290 GTTGTCCAGG
Statistics
Matches: 242, Mismatches: 87, Indels: 62
0.62 0.22 0.16
Matches are distributed among these distances:
40 20 0.08
41 8 0.03
42 9 0.04
43 46 0.19
44 116 0.48
45 37 0.15
46 5 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCA
Found at i:22227965 original size:132 final size:132
Alignment explanation
Indices: 22227773--22228218 Score: 626
Period size: 132 Copynumber: 3.4 Consensus size: 132
22227763 CTGCAACTGC
* * * * **
22227773 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGAG-AGATAGGTTTACTGG
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGACCAGGGAAG-TAGAATTACTGG
* * * * * * *
22227836 CTTCAATGAACTCTACTGTAACCACAGTGAGGTAAAATCCACCATCTTTGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
*
22227901 ACTT
129 GCTT
* *
22227905 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCTCTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGACCAGGGAAGTAGAATTACTGGCT
* *
22227970 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGTCATCCTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
22228035 TT
131 TT
* * * *
22228037 AGGGAGATAAGATCTTAAATCTTCAATCTATTCCACTGTTGACTAGGAAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGACCAGGGAAGTAGAATTACTGGCT
*
22228102 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
22228167 TT
131 TT
* * *
22228169 AGCGAGATAAGATTTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAA
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGACCAGGGAA
22228219 AATCCGCCAT
Statistics
Matches: 279, Mismatches: 33, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
132 274 0.98
133 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGACCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:22228235 original size:84 final size:84
Alignment explanation
Indices: 22228133--22228302 Score: 313
Period size: 84 Copynumber: 2.0 Consensus size: 84
22228123 ACAGGGAGGT
* *
22228133 AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGCGAGATAAGATTTGAAATCTTCAATCT
1 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGCGAGATAAGATCTGAAATCTTCAATCT
22228198 ATTCCACTGTTGTCCAGGG
66 ATTCCACTGTTGTCCAGGG
*
22228217 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCT
1 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGCGAGATAAGATCTGAAATCTTCAATCT
22228282 ATTCCACTGTTGTCCAGGG
66 ATTCCACTGTTGTCCAGGG
22228301 AA
1 AA
22228303 GTAGAATTAC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (84 bp):
AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGCGAGATAAGATCTGAAATCTTCAATCT
ATTCCACTGTTGTCCAGGG
Found at i:22228257 original size:40 final size:40
Alignment explanation
Indices: 22228133--22228257 Score: 108
Period size: 40 Copynumber: 3.0 Consensus size: 40
22228123 ACAGGGAGGT
22228133 AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGCGAG
1 AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAG-G-G
* ** * ** ** *
22228175 ATAAGATTTGAAATCTTCAATCTATTCCACTGTTG-TCCAGGG
1 A-AA-ATCTGCCATCTTCGATCTGCTCCACTACTGCT-TAGGG
*
22228217 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
22228257 A
1 A
22228258 GATAAGATCT
Statistics
Matches: 60, Mismatches: 19, Indels: 10
0.67 0.21 0.11
Matches are distributed among these distances:
40 26 0.43
41 3 0.05
42 3 0.05
43 4 0.07
44 24 0.40
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (40 bp):
AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
Found at i:22228262 original size:216 final size:216
Alignment explanation
Indices: 22228001--22228434 Score: 742
Period size: 216 Copynumber: 2.0 Consensus size: 216
22227991 ACAGGGAGGT
* *
22228001 AAAATCCGTCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTAAATCTTCAATCT
1 AAAATCCGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCT
* * *
22228066 ATTCCACTGTTGACTAGGAAAGTAGAATTATTGGCTTCAATGTACTCCACTATAACCACAGGGAG
66 ATTCCACTGTTGACCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAG
* *
22228131 GTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGCGAGATAAGATTTGAAATCTTCAAT
131 GTAAAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGCGAGATAAGATCTGAAATCTTCAAT
22228196 CTATTCCACTGTTGTCCAGGG
196 CTATTCCACTGTTGTCCAGGG
*
22228217 AAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCT
1 AAAATCCGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCT
* *
22228282 ATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAG
66 ATTCCACTGTTGACCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAG
* * * *
22228347 GTAAAATTTACCATCTTCGATTTGCTCCACTACTGCTTAGGGATATAAGATCTGAAATCTTCAAT
131 GTAAAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGCGAGATAAGATCTGAAATCTTCAAT
22228412 CTATTCCACTGTTGTCCAGGG
196 CTATTCCACTGTTGTCCAGGG
22228433 AA
1 AA
22228435 GTAGAATTAC
Statistics
Matches: 204, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
216 204 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (216 bp):
AAAATCCGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCT
ATTCCACTGTTGACCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAG
GTAAAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGCGAGATAAGATCTGAAATCTTCAAT
CTATTCCACTGTTGTCCAGGG
Found at i:22228301 original size:44 final size:44
Alignment explanation
Indices: 22228172--22228301 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 44
22228162 ACTGCTTAGC
*
22228172 GAGATAAGATTTGAAATCTTCAATCTATTCCACTGTTGTCCA-G
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGG
* ** * ** ** *
22228215 G-GA-AA-ATCCGCCATCTTCGATCTGCTCCACTACTG-CTTAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTC-CAGG
22228256 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGG
22228300 GA
1 GA
22228302 AGTAGAATTA
Statistics
Matches: 62, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
39 1 0.02
40 22 0.35
41 4 0.06
42 4 0.06
43 3 0.05
44 27 0.44
45 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
GAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGG
Found at i:22228375 original size:132 final size:131
Alignment explanation
Indices: 22228225--22228572 Score: 592
Period size: 132 Copynumber: 2.7 Consensus size: 131
22228215 GGAAAATCCG
22228225 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGAT-TGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
*
22228290 GTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATT
65 GTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATC
22228355 TA
130 TA
*
22228357 CCATCTTCGATTTGCTCCACTACTGCTTAGGGATATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGA-TTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* **
22228422 GTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTATAACCACGGGGAGGTAAAATC
65 GTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATC
*
22228487 TG
130 TA
* *
22228489 CCATCTTCGA-T-CTTCACTACTGCTTAGGGAGATAAGATCTGAAATATTCAATCTATTCCACTG
1 CCATCTTCGATTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG
22228552 TTGTCCAGGGAAGTAGAATTA
66 TTGTCCAGGGAAGTAGAATTA
22228573 ATGTACTCCA
Statistics
Matches: 206, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
129 70 0.34
130 1 0.00
132 134 0.65
133 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (131 bp):
CCATCTTCGATTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG
TTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCT
A
Found at i:22230025 original size:21 final size:21
Alignment explanation
Indices: 22229982--22230025 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22229972 CCTTGGCCTA
*
22229982 TTCTTTTTCTTTGTTTTCTTT
1 TTCTTTTTCTTTGTTTTCATT
22230003 TTCTTTTTCTTTGTTATT-ATT
1 TTCTTTTTCTTTGTT-TTCATT
22230024 TT
1 TT
22230026 GAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.80
Consensus pattern (21 bp):
TTCTTTTTCTTTGTTTTCATT
Found at i:22235045 original size:54 final size:54
Alignment explanation
Indices: 22234986--22235164 Score: 134
Period size: 54 Copynumber: 3.1 Consensus size: 54
22234976 AATTTATAAC
22234986 AAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTATAACACATGTGTTAA
1 AAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTATAACACATGTGTT-A
* * * * * * *
22235041 AAATATAAATAAGTAATTAAACATTTT-TGAAAAT-AA-ATAAAT-TTGGACTTAGA-ATTTATA
1 AAA-AT--AT-A-TAA-T--GC-TTTTATGAAAATAAAGAAAAATATT--A-TAACACATGTGTT
22235101 A
54 A
22235102 CAAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTATAACACATGTGTTA
1 -AAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTATAACACATGTGTTA
22235157 AAAATATA
1 AAAATATA
22235165 AATAAAGAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 37
0.64 0.10 0.26
Matches are distributed among these distances:
53 4 0.04
54 19 0.21
55 11 0.12
56 8 0.09
57 5 0.05
58 3 0.03
59 3 0.03
60 5 0.05
61 9 0.10
62 10 0.11
63 11 0.12
64 4 0.04
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (54 bp):
AAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTATAACACATGTGTTA
Found at i:22235106 original size:117 final size:118
Alignment explanation
Indices: 22234961--22235197 Score: 451
Period size: 117 Copynumber: 2.0 Consensus size: 118
22234951 TTTACATATA
22234961 AAATTTGGACTATAGAATTTATAACAAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTA
1 AAATTTGGACTATAGAATTTATAACAAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTA
22235026 TAACACATGTGTTAAAAATATAAAT-AAGTAATTAAACATTTTTGAAAATAAAT
66 TAACACATGTGTTAAAAATATAAATAAAG-AATTAAACATTTTTGAAAATAAAT
22235079 AAATTTGGACT-TAGAATTTATAACAAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTA
1 AAATTTGGACTATAGAATTTATAACAAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTA
22235143 TAACACATGTGTTAAAAATATAAATAAAGAATTAAACATTTTTGAAAATAAAT
66 TAACACATGTGTTAAAAATATAAATAAAGAATTAAACATTTTTGAAAATAAAT
22235196 AA
1 AA
22235198 TAAATAAATA
Statistics
Matches: 118, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
117 104 0.88
118 14 0.12
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (118 bp):
AAATTTGGACTATAGAATTTATAACAAAATATATAATGCTTTTATGAAAATAAAGAAAAATATTA
TAACACATGTGTTAAAAATATAAATAAAGAATTAAACATTTTTGAAAATAAAT
Found at i:22235223 original size:2 final size:2
Alignment explanation
Indices: 22235216--22235245 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22235206 TATACATACC
22235216 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22235246 AAAGATGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22250310 original size:16 final size:16
Alignment explanation
Indices: 22250291--22250329 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
22250281 AAAATCAAAT
*
22250291 AAAATTATATTATATA
1 AAAATTACATTATATA
22250307 AAAATTACATTATATA
1 AAAATTACATTATATA
22250323 AAAATTA
1 AAAATTA
22250330 AATGAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:22252662 original size:4 final size:4
Alignment explanation
Indices: 22252653--22252691 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
22252643 ATGGGTTTGG
*
22252653 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCAA TC-A TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
22252692 CGGGTGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (4 bp):
TCTA
Found at i:22271855 original size:6 final size:6
Alignment explanation
Indices: 22271844--22271868 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22271834 ACAGATACGG
22271844 AAGCAA AAGCAA AAGCAA AAGCAA A
1 AAGCAA AAGCAA AAGCAA AAGCAA A
22271869 CACAAACAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGCAA
Found at i:22273054 original size:38 final size:38
Alignment explanation
Indices: 22273007--22273138 Score: 164
Period size: 38 Copynumber: 3.5 Consensus size: 38
22272997 TTATACATTG
*
22273007 TAATTTATATATACATATATACATACGTATATTTTTTA
1 TAATCTATATATACATATATACATACGTATATTTTTTA
**
22273045 TAATCTATATATACATATATACATACGTGCA-TTTTTA
1 TAATCTATATATACATATATACATACGTATATTTTTTA
* *
22273082 TAATCTATATATACATAGATACATTC--ATATTTTTTA
1 TAATCTATATATACATATATACATACGTATATTTTTTA
22273118 TAA-CTTATATATGTACATATA
1 TAATC-TATATA--TACATATA
22273139 CGTACTCATA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
35 2 0.02
36 15 0.18
37 30 0.37
38 35 0.43
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (38 bp):
TAATCTATATATACATATATACATACGTATATTTTTTA
Found at i:22285340 original size:23 final size:23
Alignment explanation
Indices: 22285314--22285435 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
22285304 AGAAGTGCAA
22285314 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22285337 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22285360 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22285383 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22285406 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22285429 CACTGAT
1 CACTGAT
22285436 CAATAACACT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 90 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22285381 original size:46 final size:46
Alignment explanation
Indices: 22285314--22285433 Score: 222
Period size: 46 Copynumber: 2.6 Consensus size: 46
22285304 AGAAGTGCAA
*
22285314 CACTGATATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
22285360 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
*
22285406 CACTGAAACGTAGCCGAAGCTACCACTG
1 CACTGAAATGTAGCCGAAGCTACCACTG
22285434 ATCAATAACA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
Found at i:22293767 original size:14 final size:14
Alignment explanation
Indices: 22293748--22293779 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22293738 AGTAAATGAG
22293748 ATAATTAATTAAAC
1 ATAATTAATTAAAC
*
22293762 ATAATTAATTAATC
1 ATAATTAATTAAAC
22293776 ATAA
1 ATAA
22293780 ATAAATACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATTAATTAAAC
Found at i:22296837 original size:17 final size:18
Alignment explanation
Indices: 22296811--22296845 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22296801 TATTTTAAAC
22296811 TGTTTCATTTA-TTATTT
1 TGTTTCATTTATTTATTT
*
22296828 TGTTTGATTTATTTATTT
1 TGTTTCATTTATTTATTT
22296846 ATTTATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (18 bp):
TGTTTCATTTATTTATTT
Found at i:22297314 original size:20 final size:21
Alignment explanation
Indices: 22297277--22297315 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22297267 TCATTTTTTA
*
22297277 TTTTCTTTTATATTTATATAG
1 TTTTATTTTATATTTATATAG
22297298 TTTTATTTTAT-TTTATAT
1 TTTTATTTTATATTTATAT
22297316 TTTATTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTTTATATTTATATAG
Found at i:22301503 original size:3 final size:3
Alignment explanation
Indices: 22301495--22301534 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
22301485 TACAACATCA
*
22301495 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
22301535 TGATCACCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22301852 original size:13 final size:13
Alignment explanation
Indices: 22301834--22301859 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22301824 AAGGAGATTG
22301834 CATCAACTATGCC
1 CATCAACTATGCC
22301847 CATCAACTATGCC
1 CATCAACTATGCC
22301860 AAGAGATGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (13 bp):
CATCAACTATGCC
Found at i:22302803 original size:3 final size:3
Alignment explanation
Indices: 22302789--22302821 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
22302779 ATTCACGTAA
*
22302789 AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
22302822 GTGAGGCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:22304016 original size:44 final size:44
Alignment explanation
Indices: 22303938--22304576 Score: 433
Period size: 44 Copynumber: 14.2 Consensus size: 44
22303928 CATCATGGCG
** ** **
22303938 AATCTTATCTCCCTGAAGTTGCAGAAGAACAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
* * * * * *
22303982 AATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAATATGCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
* * * *
22304026 AATCTTATCTCCTTGAAGTTGTAGTGGAGTAAATTGAAA-ACACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGATACA
* * * * * * *
22304070 AATCCTATCTCCCTAAAGTTGCATTGGAATAGATTGAATATACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
* * *
22304114 AATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAA-ACACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGATACA
* * * * *
22304158 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGTTTGAATATACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
* * * *
22304202 AATCTTATATCTCTGAAGTTGCAGTGGAGTATATTGAA-A-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
* * * * *
22304244 TCAATATTATCTCCCTGAAGTCGCAGTGTAGTAGATTGAAGTTACA
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
* * **
22304290 AATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAAATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATA-CA
* * * * * *
22304335 AATCTTATCTCTCTGAAGTTACAGTAGAGTATATTAAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
* * ** * *
22304379 AATCTCATCTCCCTGAAGTTGCAGTAGAACAAATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
* * * * * *
22304423 AATCTAATTTCCCTGAAGTTTCAGTGGAACATATTGAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGG-A-GTA--G-A-TTA-AAGATACA
* * * * *
22304474 AATATTATCTCCCTGAAGTTGCAGTGCAACAGATTGAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTG---GAG-TAG-A-TTA-AAGATACA
* * *
22304525 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAGGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTA-AAGATACA
22304569 AATCTTAT
1 AATCTTAT
22304577 TACCACAGTT
Statistics
Matches: 470, Mismatches: 105, Indels: 40
0.76 0.17 0.07
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
44 339 0.72
45 40 0.09
46 6 0.01
47 1 0.00
48 2 0.00
49 1 0.00
50 2 0.00
51 70 0.15
53 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATACA
Found at i:22304070 original size:88 final size:88
Alignment explanation
Indices: 22303938--22304329 Score: 497
Period size: 88 Copynumber: 4.5 Consensus size: 88
22303928 CATCATGGCG
* ** ** *
22303938 AATCTTATCTCCCTGAAGTTGCAGAAGAACAGATT-AAAGCCACAAATCTTATCTCCCTAAAGTT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAA-ACACAAATCTTATCTCCCTAAAGTT
*
22304002 GCAGTGGAATAGATTGAATATGCT
65 GCAGTGGAATAGATTGAATATACT
* * *
22304026 AATCTTATCTCCTTGAAGTTGTAGTGGAGTAAATTGAAAACACAAATCCTATCTCCCTAAAGTTG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAAACACAAATCTTATCTCCCTAAAGTTG
*
22304091 CATTGGAATAGATTGAATATACT
66 CAGTGGAATAGATTGAATATACT
*
22304114 AATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAAACACAAATCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAAACACAAATCTTATCTCCCTAAAGTTG
* *
22304179 CAGTGGAGTAGTTTGAATATACT
66 CAGTGGAATAGATTGAATATACT
* * * *
22304202 AATCTTATAT-CTCTGAAGTTGCAGTGGAGTATATTGAAAACATC-AATATTATCTCCCTGAAGT
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGTAGATTGAAAACA-CAAATCTTATCTCCCTAAAGT
* * * *
22304265 CGCAGTGTAGTAGATTGAAGT-TACA
64 TGCAGTGGAATAGATTGAA-TATACT
*
22304290 AATCTTATCTTCC-TGAAGTTGCAGTGGAGTAGATTAAAAA
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGTAGATTGAAAA
22304330 TAGTGAATCT
Statistics
Matches: 270, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
87 2 0.01
88 261 0.97
89 6 0.02
90 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (88 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAAACACAAATCTTATCTCCCTAAAGTTG
CAGTGGAATAGATTGAATATACT
Found at i:22304415 original size:89 final size:89
Alignment explanation
Indices: 22304250--22304416 Score: 210
Period size: 89 Copynumber: 1.9 Consensus size: 89
22304240 AACATCAATA
* * * *
22304250 TTATCTCCCTGAAGTCGCAGTGTAGTAGATTGAAGTTACAAATCTTATCTTCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTCACAGTGTAGTAGATTAAAGTTACAAATCTCATCTCCCTGAAGTTGCAGT
* ** *
22304315 GGAGTAGATTAAAAATAGTGAATC
66 AGAACAAATTAAAAATAGTGAATC
* * * *
22304339 TTATCTCTCTGAAGTTACAGTAG-AGTATATTAAAGTTATAAATCTCATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTCACAGT-GTAGTAGATTAAAGTTACAAATCTCATCTCCCTGAAGTTGCAG
22304403 TAGAACAAATTAAA
65 TAGAACAAATTAAA
22304417 GCTACAAATC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
89 64 0.98
90 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (89 bp):
TTATCTCCCTGAAGTCACAGTGTAGTAGATTAAAGTTACAAATCTCATCTCCCTGAAGTTGCAGT
AGAACAAATTAAAAATAGTGAATC
Found at i:22304423 original size:133 final size:132
Alignment explanation
Indices: 22304155--22304450 Score: 337
Period size: 133 Copynumber: 2.2 Consensus size: 132
22304145 GATTGAAAAC
* * * * *
22304155 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGTTTGAATATACTAATCTTATATCTCTGAAG
1 ACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAAATACTAATCTTATATCTCTGAAG
* * * * ** * *
22304220 TTGCAGTGGAGTATATTGAAAACATCAATATTATCTCCCTGAAGTCGCAGTGTAGTAGATTGAAG
66 TTACAGTAGAGTATATTGAAAACATAAATATCATCTCCCTGAAGTCGCAGTGTAACAAATTAAAG
*
22304285 TT
131 CT
* *
22304287 ACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAAATAGTGAATCTTATCTCTCTGAA
1 ACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAAATACT-AATCTTATATCTCTGAA
** * *
22304352 GTTACAGTAGAGTATATT-AAAGTTATAAATCTCATCTCCCTGAAGTTGCAGTAG-AACAAATTA
65 GTTACAGTAGAGTATATTGAAA-ACATAAATATCATCTCCCTGAAGTCGCAGT-GTAACAAATTA
22304415 AAGCT
128 AAGCT
* *
22304420 ACAAATCTAAT-TTCCCTGAAGTTTCAGTGGA
1 ACAAATCTTATCTT-CCTGAAGTTGCAGTGGA
22304451 ACATATTGAA
Statistics
Matches: 138, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
132 46 0.33
133 91 0.66
134 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (132 bp):
ACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAAATACTAATCTTATATCTCTGAAG
TTACAGTAGAGTATATTGAAAACATAAATATCATCTCCCTGAAGTCGCAGTGTAACAAATTAAAG
CT
Found at i:22304499 original size:51 final size:51
Alignment explanation
Indices: 22304432--22304569 Score: 213
Period size: 51 Copynumber: 2.7 Consensus size: 51
22304422 AAATCTAATT
* *
22304432 TCCCTGAAGTTTCAGTGGAACATATTGAAGCTACAAGTTACAAATATTATC
1 TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAGTTACAAATATTATC
* *
22304483 TCCCTGAAGTTGCAGTGCAACAGATTGAAGCTACAAGTTACAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAGTTACAAATATTATC
* * *
22304534 TCCCTGAAGTTGCAGTGGAGCAGATAGAGGCTACAA
1 TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAA
22304570 ATCTTATTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 79 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (51 bp):
TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAGTTACAAATATTATC
Found at i:22306924 original size:17 final size:17
Alignment explanation
Indices: 22306902--22306935 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22306892 AAAAAAGATG
*
22306902 AAAAAAAAATAAGAGCA
1 AAAAAAAAATAAAAGCA
*
22306919 AAAAAATAATAAAAGCA
1 AAAAAAAAATAAAAGCA
22306936 CCTTTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAAAAAATAAAAGCA
Found at i:22307886 original size:138 final size:139
Alignment explanation
Indices: 22307580--22307908 Score: 378
Period size: 139 Copynumber: 2.4 Consensus size: 139
22307570 AGATTCGTGG
* * * * * *
22307580 TTTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTTGCTTCAACCTGCTCCACTGCGA
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGACTTGTAGCTTCAACATGCTCCACTGCAA
** * * *
22307645 CTTCAGGGAGATAAGGTTTGATACGATAAGATCTAATTCGACCTACTGCAACTTCAGAGGTATAT
66 CTTCAGGGAGATAAGACTTGATACGATAAGATCTAATCCGACCTACTGCAACTTCAGAAGTATAA
*
22307710 GATTCATCG
131 GATTCATCA
* * * **
22307719 TTTTAATCCACTCCATTGTAACTTCAGGGAGATAGGA-TTAGTAGGTTCAGTATGCTCCACTGCA
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGACTT-GTAGCTTCAACATGCTCCACTGCA
* * ** * * *
22307783 ACTTCATGGAGATAAGACTTGTTGTGGTAA-ATTTAATCCGACCTACTGCAACTTGAGATAG-AT
65 ACTTCAGGGAGATAAGACTTGATACGATAAGATCTAATCCGACCTACTGCAACTTCAGA-AGTAT
22307846 AAGA-TCAATCA
129 AAGATTC-ATCA
22307857 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGACTTGGTAGCTTCAAC
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGACTT-GTAGCTTCAAC
22307909 TTGATCTACT
Statistics
Matches: 156, Mismatches: 30, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
137 2 0.01
138 70 0.45
139 84 0.54
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (139 bp):
TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGACTTGTAGCTTCAACATGCTCCACTGCAA
CTTCAGGGAGATAAGACTTGATACGATAAGATCTAATCCGACCTACTGCAACTTCAGAAGTATAA
GATTCATCA
Found at i:22307999 original size:130 final size:130
Alignment explanation
Indices: 22307825--22308155 Score: 500
Period size: 130 Copynumber: 2.5 Consensus size: 130
22307815 TTAATCCGAC
* * *
22307825 CTACTGCAACTTGAGATAGATAAGATCAATCATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT
1 CTACTGCAACTTCAGATAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
22307890 AGGACTTGGTAGCTTCAACTTGATCTACTGCATCTTTAAGAAAATAAAGTCTGATGCGATCTACT
66 AGGACTTGGTAGCTTCAACTTGATCTACTGCATCTTTAAGAAAATAAAGTCTGATGCGATCTACT
* * * * *
22307955 TTACTGCAAGTTCAGATAGATAATATCCATCATTTTAATCCGCTCCACTGCAACTTTAGGAAGAT
1 CTACTGCAACTTCAGATAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* * * *
22308020 GGGACTTGGTAGCTTCAACTTGATTTACTGCGTCTTTAAGAAAATAAAGTCTGATGCGATCTGCT
66 AGGACTTGGTAGCTTCAACTTGATCTACTGCATCTTTAAGAAAATAAAGTCTGATGCGATCTACT
* ** * *
22308085 CTACTGGAACTTCAGATAGATAAGATCCATCATTTTAATTTGCTACATTGCAACTTCAGGGAGAT
1 CTACTGCAACTTCAGATAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
22308150 AAGACT
66 AGGACT
22308156 CCACTCGATC
Statistics
Matches: 177, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
130 177 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (130 bp):
CTACTGCAACTTCAGATAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
AGGACTTGGTAGCTTCAACTTGATCTACTGCATCTTTAAGAAAATAAAGTCTGATGCGATCTACT
Found at i:22308190 original size:41 final size:42
Alignment explanation
Indices: 22308076--22308280 Score: 136
Period size: 41 Copynumber: 4.8 Consensus size: 42
22308066 AAGTCTGATG
* *
22308076 CGATCTGCTCTACTGGAACTTCAGATAGATAAGATCCATCATTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATC--TT
** * * *
22308120 TAATTTGCTAC-ATTGCAACTTCAGGGAGATAAGACTCCA-C-T
1 CGATCTGCT-CTACTGCAACTTCAGAGAGATAAGA-TCCATCTT
22308161 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCGTTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATC--TT
** * * * * *
22308205 TAATCCGCTCCACTGTAACTTCA-AGGAGAT-AGAAT-TAACTT
1 CGATCTGCTCTACTGCAACTTCAGA-GAGATAAG-ATCCATCTT
* *
22308246 -GAATCTGCTCGACTGCAACTTTAGAGAGATAAGAT
1 CG-ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
22308281 TAATCATTTT
Statistics
Matches: 125, Mismatches: 24, Indels: 27
0.71 0.14 0.15
Matches are distributed among these distances:
40 5 0.04
41 55 0.44
42 3 0.02
43 5 0.04
44 52 0.42
45 5 0.04
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (42 bp):
CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCTT
Found at i:22308225 original size:85 final size:84
Alignment explanation
Indices: 22308076--22308316 Score: 302
Period size: 85 Copynumber: 2.8 Consensus size: 84
22308066 AAGTCTGATG
* * ** * *
22308076 CGATCTGCTCTACTGGAACTTCAGATAGATAAGATCCATCATTTTAATTTGCTACATTGCAACTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTT
* * *
22308141 CAGGGAGATAAGACTCCACT
66 CAAGGAGAT-AGAATCAACT
* *
22308161 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCGTTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTT
*
22308226 CAAGGAGATAGAATTAACT
66 CAAGGAGATAGAATCAACT
* * * **
22308245 TGAATCTGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTTAATCCGCTCCACTGCAACT
1 CG-ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACT
*
22308310 TTAAGGA
65 TCAAGGA
22308317 AATTGGATTA
Statistics
Matches: 135, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
84 8 0.06
85 127 0.94
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (84 bp):
CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCAACTT
CAAGGAGATAGAATCAACT
Found at i:22308234 original size:44 final size:44
Alignment explanation
Indices: 22308078--22308316 Score: 158
Period size: 44 Copynumber: 5.6 Consensus size: 44
22308068 GTCTGATGCG
* * *
22308078 ATCTGCTCTACTGGAACTTC-AGATAGATAAGATCCATCATTTTA
1 ATCTGCTCCACTGCAACTTCAAG-GAGATAAGATCCATCATTTTA
* * * * **
22308122 ATTTGCTACATTGCAACTTCAGGGAGATAAGACTCCA-C---TCG
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TCCATCATTTTA
* *
22308163 ATCTGCTCTACTGCAACTTC-AGAGAGATAAGATCCATCGTTTTA
1 ATCTGCTCCACTGCAACTTCAAG-GAGATAAGATCCATCATTTTA
* * * * *
22308207 ATCCGCTCCACTGTAACTTCAAGGAGAT-AGA---ATTAACTTGA
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCCA-TCATTTTA
* * **
22308248 ATCTGCTCGACTGCAACTT-TAGAGAGATAAGATTAATCATTTTA
1 ATCTGCTCCACTGCAACTTCAAG-GAGATAAGATCCATCATTTTA
* *
22308292 ATCCGCTCCACTGCAACTTTAAGGA
1 ATCTGCTCCACTGCAACTTCAAGGA
22308317 AATTGGATTA
Statistics
Matches: 147, Mismatches: 33, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
40 8 0.05
41 52 0.35
42 3 0.02
43 3 0.02
44 71 0.48
45 10 0.07
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCCATCATTTTA
Found at i:22308283 original size:41 final size:42
Alignment explanation
Indices: 22308163--22308366 Score: 148
Period size: 41 Copynumber: 4.8 Consensus size: 42
22308153 ACTCCACTCG
* * * *
22308163 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCGTTTTA
1 ATCTGCTCCACTGCAACTTTAGAGAGATAAGAT-TAAC-TTTTA
* * * *
22308207 ATCCGCTCCACTGTAACTTCA-AGGAGAT-AGAATTAAC-TTGA
1 ATCTGCTCCACTGCAACTTTAGA-GAGATAAG-ATTAACTTTTA
*
22308248 ATCTGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTTA
1 ATCTGCTCCACTGCAACTTTAGAGAGATAAGATTAA-C-TTTTA
* * ** * *
22308292 ATCCGCTCCACTGCAACTTTA-AGGAAATTGGATTAGC-TTCA
1 ATCTGCTCCACTGCAACTTTAGA-GAGATAAGATTAACTTTTA
* * *
22308333 ATATGCTCCGCTGCAACTTTAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTTAGAGAGATAAGATT
22308367 GGTATCTTCA
Statistics
Matches: 126, Mismatches: 25, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
41 59 0.47
42 4 0.03
43 7 0.06
44 56 0.44
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (42 bp):
ATCTGCTCCACTGCAACTTTAGAGAGATAAGATTAACTTTTA
Found at i:22308340 original size:85 final size:85
Alignment explanation
Indices: 22308081--22308366 Score: 261
Period size: 85 Copynumber: 3.4 Consensus size: 85
22308071 TGATGCGATC
* * * * ** ** * * *
22308081 TGCTCTACTGGAACTTCAGATAGATAAGATCCATCATTTTAATTTGCTACATTGCAACTTCAGGG
1 TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTTAATCCGCTCCACTGCAACTTCAAGG
* * ** * *
22308146 AGATAAGACTCCAC-TCGATC
66 AAAT-AGAATTAACTTCAATA
* * ** * *
22308166 TGCTCTACTGCAACTTCAGAGAGATAAGATCCATCGTTTTAATCCGCTCCACTGTAACTTCAAGG
1 TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTTAATCCGCTCCACTGCAACTTCAAGG
* * *
22308231 AGATAGAATTAACTTGAATC
66 AAATAGAATTAACTTCAATA
*
22308251 TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTTAATCCGCTCCACTGCAACTTTAAGG
1 TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTTAATCCGCTCCACTGCAACTTCAAGG
* * *
22308316 AAATTGGATTAGCTTCAATA
66 AAATAGAATTAACTTCAATA
*
22308336 TGCTCCG-CTGCAACTTTAGGGAGATAAGATT
1 TGCT-CGACTGCAACTTTAGAGAGATAAGATT
22308367 GGTATCTTCA
Statistics
Matches: 171, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
84 6 0.04
85 163 0.95
86 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (85 bp):
TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTTAATCCGCTCCACTGCAACTTCAAGG
AAATAGAATTAACTTCAATA
Found at i:22308387 original size:85 final size:85
Alignment explanation
Indices: 22308166--22308397 Score: 245
Period size: 85 Copynumber: 2.7 Consensus size: 85
22308156 CCACTCGATC
* * ** * *
22308166 TGCTCTACTGCAACTTCAGAGAGATAAGATCCATCGTTTTAATCCGCTCCACTGTAACTTCAAGG
1 TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTCAATCCGCTCCACTGTAACTTCAAGG
* * *
22308231 AGATAGAATTAACTTGAATC
66 AAATAGAATTAACTTCAATA
* * *
22308251 TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTTAATCCGCTCCACTGCAACTTTAAGG
1 TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTCAATCCGCTCCACTGTAACTTCAAGG
* * *
22308316 AAATTGGATTAGCTTCAATA
66 AAATAGAATTAACTTCAATA
* ** *
22308336 TGCTCCG-CTGCAACTTTAGGGAGATAAGATTGGT-ATCTTCAA-CCTGTTCCACTGTAACTTCA
1 TGCT-CGACTGCAACTTTAGAGAGATAAGATTAATCAT-TTCAATCC-GCTCCACTGTAACTTCA
22308398 GGCAGATAAG
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
84 4 0.03
85 118 0.95
86 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (85 bp):
TGCTCGACTGCAACTTTAGAGAGATAAGATTAATCATTTCAATCCGCTCCACTGTAACTTCAAGG
AAATAGAATTAACTTCAATA
Found at i:22308988 original size:220 final size:220
Alignment explanation
Indices: 22308581--22309158 Score: 807
Period size: 220 Copynumber: 2.6 Consensus size: 220
22308571 CAACTTTAGA
* * * * *
22308581 GAGATAAGACTTGTGGCTTAAATCTGCTTCCCGACTATCTTGGGAAGATAAGATTCATCGTCTTC
1 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTC
* **
22308646 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTGCTCA
66 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACCACTGCTCA
* * * *
22308711 AGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAAGAAGACAAGATCTAAAATTT
131 AGGAGATAAGGCTGGCGCTTTCGATCTGCTTCAATGCCAATACAAGAAGACAAGATCTAAAATCT
* ** *
22308776 TCGACCTACTTCACTTTTTCTCAGG
196 TCGACCTACTCCACTGCTGCTCAGG
* *
22308801 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAAATAAGATTCGCCGTCTTC
1 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTC
* * * * * *
22308866 GATCTACTCCACTACTGTTTAGGGACATAGGATCTGTAATCTTCAACCTACTCCACCATTGTTCA
66 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACCACTGCTCA
* * ** *
22308931 GGGAGATAAGGCTGGCGCTTTCGATCTGCATT-AATGCCAATACAGGAAGGTAAGATCTACAATC
131 AGGAGATAAGGCTGGCGCTTTCGATCTGC-TTCAATGCCAATACAAGAAGACAAGATCTAAAATC
22308995 TTCGACCTACTCCACTGCTGCTCAGG
195 TTCGACCTACTCCACTGCTGCTCAGG
* * * *
22309021 GAGATAAGGCTAGTGGTTTAAATCTGTTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTT
1 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTC
* * **
22309086 GATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCA
66 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACCACTGCTCA
22309151 AGGAGATA
131 AGGAGATA
22309159 GGATAGGTGG
Statistics
Matches: 311, Mismatches: 46, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
220 309 0.99
221 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (220 bp):
GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACCACTGCTCA
AGGAGATAAGGCTGGCGCTTTCGATCTGCTTCAATGCCAATACAAGAAGACAAGATCTAAAATCT
TCGACCTACTCCACTGCTGCTCAGG
Found at i:22309439 original size:87 final size:88
Alignment explanation
Indices: 22309087--22309467 Score: 205
Period size: 87 Copynumber: 4.4 Consensus size: 88
22309077 ACCATCTTTG
* * * *
22309087 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTACTACTCAG
* *
22309152 GGAGAT-AGGATAGGTGGCTTAA
66 GGAGATAAGGCTAGCTGGCTTAA
* * * * * *
22309174 ATCTGCTTCCTACTA-T-C-TCGGGAAGATAAGAT-T-CACCGTCTTCGATCTGCTCCACTACTG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCTGCA--ATCTTCAACCTACTCCACTACTA
* * *** *
22309234 CTTAGGGAGATAAGATCT-GCAATCTTTA
61 CTCAGGGAGATAAG-GCTAGCTGGCTTAA
* * * **** * * * *
22309262 ACCTACTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTC-CTACTATCTC-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTACTA-CTCA
* ** * * *
22309324 GGAAAGATAAGATTCA-CCGTCTTTA
65 GG-GAGATAAGGCT-AGCTGGCTTAA
* * *
22309349 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAACCTACTCCACTGCTACTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTACTACTCAG
*
22309414 GGAGATAAGGCT-GGTGGCTTAA
66 GGAGATAAGGCTAGCTGGCTTAA
*
22309436 ATCTGCTTCCTACTAC--CTTAGGAAGATAAGAT
1 ATCTGC-TCC-ACTACTGCTTAGGGAGATAAGAT
22309468 TCCCCGTCAT
Statistics
Matches: 218, Mismatches: 54, Indels: 44
0.69 0.17 0.14
Matches are distributed among these distances:
85 2 0.01
86 16 0.07
87 129 0.59
88 50 0.23
89 21 0.10
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (88 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTACTACTCAG
GGAGATAAGGCTAGCTGGCTTAA
Found at i:22309530 original size:44 final size:44
Alignment explanation
Indices: 22309087--22309553 Score: 255
Period size: 44 Copynumber: 10.7 Consensus size: 44
22309077 ACCATCTTTG
* * *
22309087 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAGTCTTCA
* * * * * * ** * *
22309131 ACCTACTCCACTGCTGCTCAAGGAGATAGGAT-AGGTGGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAGTCTTCA
* * *
22309174 ATCTGCTTCCTACTA-T-C-TCGGGAAGATAAGAT-T-CACCGTCTTCG
1 ATCTAC-TCC-ACTACTGCTTAGGG-AGATAAGATCTGCA--GTCTTCA
* * *
22309218 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAGTCTTCA
* * ** * *
22309262 ACCTACTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAGTCTTCA
* * * *
22309305 ATCTGCTTCCTACTA-T-C-TCGGAAAGATAAGAT-T-CACCGTCTTTA
1 ATCTAC-TCC-ACTACTGCTTAGG-GAGATAAGATCTGCA--GTCTTCA
* *
22309349 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAGTCTTCA
* * * * * ** * *
22309393 ACCTACTCCACTGCTACTCAGGGAGATAAG-GCTGGTGGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAGTCTTCA
* * * * * *
22309436 ATCTGCTTCCTACTAC--CTTAGGAAGATAAGAT-TCCCCGTCATCG
1 ATCTAC-TCC-ACTACTGCTTAGGGAGATAAGATCT-GCAGTCTTCA
*
22309480 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAGTCTTCA
* * *
22309524 ACCTACTCCACTACTGATCAGGGAGATAAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAG
22309554 GCTTGATATG
Statistics
Matches: 309, Mismatches: 86, Indels: 56
0.69 0.19 0.12
Matches are distributed among these distances:
42 18 0.06
43 72 0.23
44 194 0.63
45 21 0.07
46 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAGTCTTCA
Found at i:22309552 original size:131 final size:131
Alignment explanation
Indices: 22308981--22309556 Score: 850
Period size: 131 Copynumber: 4.4 Consensus size: 131
22308971 TACAGGAAGG
* * * *
22308981 TAAGATCTACAATCTTCGACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGTTTAAATCT
1 TAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGGCTTAAATCT
* * * * *
22309046 GTTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGAA
66 GCTT-CCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGA
22309111 GA
130 GA
* *
22309113 TAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAAGGAGAT-AGGATAGGTGGCTTAAATC
1 TAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT-GGTGGCTTAAATC
* * *
22309177 TGCTTCCTACTATCTCGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
65 TGCTTCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGA
22309242 GA
130 GA
* * *
22309244 TAAGATCTGCAATCTTTAACCTACTCCACTACTGCTTAGGGAGAT-AGGACTGGTGGCTTAAATC
1 TAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG-CTGGTGGCTTAAATC
* * * **
22309308 TGCTTCCTACTATCTCGGAAAGATAAGATTCACCGTCTTTAATCTACTCCACTACTGCTTAGGGA
65 TGCTTCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGA
22309373 GA
130 GA
* *
22309375 TAAGATCTTCAATCTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTGGTGGCTTAAATCT
1 TAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGGCTTAAATCT
* * *
22309440 GCTTCCTACTACCTTAGGAAGATAAGATTCCCCGTCATCGATCTACTCCACTACTGCTTAGGGAG
66 GCTTCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAG
22309505 A
131 A
* *
22309506 TAAGATCTGCAATCTTCAACCTACTCCACTACTGATCAGGGAGATAAGGCT
1 TAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
22309557 TGATATGATG
Statistics
Matches: 403, Mismatches: 38, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
131 342 0.85
132 61 0.15
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (131 bp):
TAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGGCTTAAATCT
GCTTCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAG
A
Found at i:22310481 original size:5 final size:6
Alignment explanation
Indices: 22310466--22310507 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
22310456 TGGTCTCTCA
22310466 TTTTTC TTTTTC TTTTTCC ATTTTTC -TTTTC TTTTTTC TTTT
1 TTTTTC TTTTTC TTTTT-C -TTTTTC TTTTTC -TTTTTC TTTT
22310508 CGTTTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.16
6 15 0.47
7 7 0.22
8 5 0.16
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:22310487 original size:20 final size:19
Alignment explanation
Indices: 22310464--22310518 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 19
22310454 CTTGGTCTCT
22310464 CATTTTTCTTTTTCTTTTTC
1 CATTTTTC-TTTTCTTTTTC
*
22310484 CATTTTTCTTTTCTTTTTT
1 CATTTTTCTTTTCTTTTTC
*
22310503 C--TTTTCGTTTCTTTTT
1 CATTTTTCTTTTCTTTTT
22310519 TCAAGTGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 14 0.42
19 11 0.33
20 8 0.24
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (19 bp):
CATTTTTCTTTTCTTTTTC
Found at i:22310508 original size:12 final size:11
Alignment explanation
Indices: 22310467--22310517 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 11
22310457 GGTCTCTCAT
22310467 TTTTCTTTTTC
1 TTTTCTTTTTC
22310478 TTTTTCCATTTTTC
1 -TTTT-C-TTTTTC
22310492 TTTTCTTTTTTC
1 TTTTC-TTTTTC
*
22310504 TTTTC-GTTTC
1 TTTTCTTTTTC
22310514 TTTT
1 TTTT
22310518 TTCAAGTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.23
12 16 0.46
13 5 0.14
14 6 0.17
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:22310958 original size:1 final size:1
Alignment explanation
Indices: 22310952--22311070 Score: 85
Period size: 1 Copynumber: 119.0 Consensus size: 1
22310942 TCCGGTAGAG
* * * * * * * * * *
22310952 TTTTTTTTGTTTTGTTTTGTTTTGTTTTGTTTTGTTTTTGTTTTGTTTTTTGTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
22311017 TTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22311071 GCCTCCACTG
Statistics
Matches: 84, Mismatches: 34, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.01, C:0.00, G:0.13, T:0.86
Consensus pattern (1 bp):
T
Found at i:22310985 original size:25 final size:22
Alignment explanation
Indices: 22310952--22311070 Score: 118
Period size: 23 Copynumber: 5.1 Consensus size: 22
22310942 TCCGGTAGAG
22310952 TTTTTTTTGTTTTGTTTTGTTTT
1 TTTTTTTTGTTTT-TTTTGTTTT
22310975 GTTTTGTTTTGTTTTTGTTTTGTTTT
1 -TTTT-TTTTG-TTTT-TTTTGTTTT
22311001 TTGTTTTTTGTTTTTTTT-TTGTT
1 TT-TTTTTTGTTTTTTTTGTT-TT
22311024 TTTTGTTTT-TTGTTTTTTGTTTT
1 TTTT-TTTTGTT-TTTTTTGTTTT
*
22311047 TTGTTTTTTGTTTTTTAT-TTTT
1 TT-TTTTTTGTTTTTTTTGTTTT
22311069 TT
1 TT
22311071 GCCTCCACTG
Statistics
Matches: 85, Mismatches: 1, Indels: 20
0.80 0.01 0.19
Matches are distributed among these distances:
22 12 0.14
23 31 0.36
24 14 0.16
25 12 0.14
26 16 0.19
ACGTcount: A:0.01, C:0.00, G:0.13, T:0.86
Consensus pattern (22 bp):
TTTTTTTTGTTTTTTTTGTTTT
Found at i:22311004 original size:7 final size:7
Alignment explanation
Indices: 22310951--22311069 Score: 140
Period size: 7 Copynumber: 17.0 Consensus size: 7
22310941 CTCCGGTAGA
22310951 GTTTTTT
1 GTTTTTT
22310958 -TTGTTTT
1 GTT-TTTT
22310965 GTTTTGTT
1 GTTTT-TT
22310973 -TTGTTTT
1 GTT-TTTT
22310980 GTTTTGTT
1 GTTTT-TT
*
22310988 TTTGTTTT
1 GTT-TTTT
22310996 GTTTTTT
1 GTTTTTT
22311003 GTTTTTT
1 GTTTTTT
22311010 G--TTTT
1 GTTTTTT
22311015 -TTTTTT
1 GTTTTTT
22311021 GTTTTTT
1 GTTTTTT
22311028 GTTTTTT
1 GTTTTTT
22311035 GTTTTTT
1 GTTTTTT
22311042 GTTTTTT
1 GTTTTTT
22311049 GTTTTTT
1 GTTTTTT
22311056 GTTTTTT
1 GTTTTTT
*
22311063 ATTTTTT
1 GTTTTTT
22311070 TGCCTCCACT
Statistics
Matches: 99, Mismatches: 3, Indels: 20
0.81 0.02 0.16
Matches are distributed among these distances:
5 4 0.04
6 6 0.06
7 71 0.72
8 16 0.16
9 2 0.02
ACGTcount: A:0.01, C:0.00, G:0.14, T:0.85
Consensus pattern (7 bp):
GTTTTTT
Found at i:22314660 original size:18 final size:19
Alignment explanation
Indices: 22314632--22314679 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
22314622 TATGTATATG
* *
22314632 TATATATGTATATTAAAAT-
1 TATATAAGTATA-AAAAATA
22314651 TATA-AAGTATAAAAAATA
1 TATATAAGTATAAAAAATA
22314669 TATATAAGTAT
1 TATATAAGTAT
22314680 GTATATACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATAAGTATAAAAAATA
Found at i:22314788 original size:148 final size:148
Alignment explanation
Indices: 22314615--22315531 Score: 1816
Period size: 148 Copynumber: 6.2 Consensus size: 148
22314605 ATAAGAAGAT
22314615 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
1 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
22314680 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
66 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
22314745 ATAAAATATATATATAAA
131 ATAAAATATATATATAAA
22314763 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
1 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
22314828 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
66 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
22314893 ATAAAATATATATATAAA
131 ATAAAATATATATATAAA
22314911 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
1 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
22314976 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
66 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
22315041 ATAAAATATATATATAAA
131 ATAAAATATATATATAAA
22315059 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
1 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
22315124 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
66 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
22315189 ATAAAATATATATATAAA
131 ATAAAATATATATATAAA
22315207 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
1 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
22315272 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
66 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
22315337 ATAAAATATATATATAAA
131 ATAAAATATATATATAAA
22315355 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
1 ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
22315420 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
66 GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
22315485 ATAAAATATATATATAAA
131 ATAAAATATATATATAAA
* *
22315503 ATATAAGTATGTATATGTACATATATATA
1 ATATAAGTATGTATATGTATATATGTATA
22315532 AATGAGTTAT
Statistics
Matches: 767, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 767 1.00
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.38
Consensus pattern (148 bp):
ATATAAGTATGTATATGTATATATGTATATTAAAATTATAAAGTATAAAAAATATATATAAGTAT
GTATATACGTATGTTTATGAAAATAAAAATATGTGTATAGATATATATAGATATGTAAACAAATT
ATAAAATATATATATAAA
Found at i:22314808 original size:18 final size:19
Alignment explanation
Indices: 22314780--22314827 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
22314770 TATGTATATG
* *
22314780 TATATATGTATATTAAAAT-
1 TATATAAGTATA-AAAAATA
22314799 TATA-AAGTATAAAAAATA
1 TATATAAGTATAAAAAATA
22314817 TATATAAGTAT
1 TATATAAGTAT
22314828 GTATATACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATAAGTATAAAAAATA
Found at i:22314956 original size:18 final size:19
Alignment explanation
Indices: 22314928--22314975 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
22314918 TATGTATATG
* *
22314928 TATATATGTATATTAAAAT-
1 TATATAAGTATA-AAAAATA
22314947 TATA-AAGTATAAAAAATA
1 TATATAAGTATAAAAAATA
22314965 TATATAAGTAT
1 TATATAAGTAT
22314976 GTATATACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATAAGTATAAAAAATA
Found at i:22315104 original size:18 final size:19
Alignment explanation
Indices: 22315076--22315123 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
22315066 TATGTATATG
* *
22315076 TATATATGTATATTAAAAT-
1 TATATAAGTATA-AAAAATA
22315095 TATA-AAGTATAAAAAATA
1 TATATAAGTATAAAAAATA
22315113 TATATAAGTAT
1 TATATAAGTAT
22315124 GTATATACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATAAGTATAAAAAATA
Found at i:22315252 original size:18 final size:19
Alignment explanation
Indices: 22315224--22315271 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
22315214 TATGTATATG
* *
22315224 TATATATGTATATTAAAAT-
1 TATATAAGTATA-AAAAATA
22315243 TATA-AAGTATAAAAAATA
1 TATATAAGTATAAAAAATA
22315261 TATATAAGTAT
1 TATATAAGTAT
22315272 GTATATACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATAAGTATAAAAAATA
Found at i:22315400 original size:18 final size:19
Alignment explanation
Indices: 22315372--22315419 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
22315362 TATGTATATG
* *
22315372 TATATATGTATATTAAAAT-
1 TATATAAGTATA-AAAAATA
22315391 TATA-AAGTATAAAAAATA
1 TATATAAGTATAAAAAATA
22315409 TATATAAGTAT
1 TATATAAGTAT
22315420 GTATATACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATAAGTATAAAAAATA
Found at i:22315742 original size:3 final size:3
Alignment explanation
Indices: 22315728--22315793 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
22315718 ATAATAGCAG
* * *
22315728 TAA TAT TAA TAA TAA TAC TAA TAA TAA TACGA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA
* *
22315775 TAT TAA TAT TAA TTAA TAA
1 TAA TAA TAA TAA -TAA TAA
22315794 AAAATAGCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
3 44 0.88
4 3 0.06
5 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:22315764 original size:20 final size:20
Alignment explanation
Indices: 22315739--22315776 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22315729 AATATTAATA
*
22315739 ATAATACTAATAATAATACG
1 ATAATAATAATAATAATACG
*
22315759 ATAATAATAGTAATAATA
1 ATAATAATAATAATAATA
22315777 TTAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAATAATAATAATAATACG
Found at i:22316480 original size:16 final size:16
Alignment explanation
Indices: 22316467--22316499 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22316457 AAAAAAGATG
22316467 AAAAAAAAATAAGAGC
1 AAAAAAAAATAAGAGC
*
22316483 AAAAAAAAATAAAAGC
1 AAAAAAAAATAAGAGC
22316499 A
1 A
22316500 CCTTTAAAAA
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:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAAAAAATAAGAGC
Found at i:22317049 original size:15 final size:17
Alignment explanation
Indices: 22317029--22317067 Score: 64
Period size: 15 Copynumber: 2.4 Consensus size: 17
22317019 GTTATTATTA
22317029 CTATTATTATCATT-TT
1 CTATTATTATCATTGTT
22317045 C-ATTATTATCATTGTT
1 CTATTATTATCATTGTT
22317061 CTATTAT
1 CTATTAT
22317068 GCATATTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.57
16 4 0.19
17 5 0.24
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.59
Consensus pattern (17 bp):
CTATTATTATCATTGTT
Found at i:22317126 original size:25 final size:24
Alignment explanation
Indices: 22317046--22317126 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
22317036 TATCATTTTC
*
22317046 ATTATTATCATTGTTCTATTATGCAT
1 ATTA-TATCA-TGTTTTATTATGCAT
* *
22317072 ATTAGTATCATGATTTATTATTG-TT
1 ATTA-TATCATGTTTTATTA-TGCAT
* *
22317097 GTTATATTTATGTTTTATTATGCAT
1 ATTATA-TCATGTTTTATTATGCAT
22317122 ATTAT
1 ATTAT
22317127 GGCTTTATTA
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
24 4 0.09
25 28 0.65
26 11 0.26
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (24 bp):
ATTATATCATGTTTTATTATGCAT
Found at i:22318418 original size:18 final size:18
Alignment explanation
Indices: 22318395--22318442 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
22318385 TGGAATGATA
* *
22318395 TTTATCAAAATTATCATT
1 TTTATCAAAATTATAACT
* *
22318413 TTTATCCATATTATAACT
1 TTTATCAAAATTATAACT
22318431 TTTATCTAAAAT
1 TTTATC-AAAAT
22318443 CTTTGTTGTC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATCAAAATTATAACT
Found at i:22319868 original size:3 final size:3
Alignment explanation
Indices: 22319860--22319898 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
22319850 CCTCAAAATA
22319860 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22319899 CTACATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22320055 original size:2 final size:2
Alignment explanation
Indices: 22320048--22320084 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22320038 TCAACTGATC
22320048 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22320085 TTGTCTTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22321564 original size:116 final size:116
Alignment explanation
Indices: 22321420--22321660 Score: 439
Period size: 116 Copynumber: 2.1 Consensus size: 116
22321410 CGTCATACAT
* * * *
22321420 TTAT-AAATTAAAATTTAAATAGTTTTTTCTCTAATTTCTGTCATAGACTGTTAGATTAACTTAG
1 TTATCAAATCAAAATTCAAACAGTTTTTTCTCTAATTTCTATCATAGACTGTTAGATTAACTTAG
22321484 ATCTAAAGTATATTTTTGTATTTATTGATAGACACTGATCTAATATATCAA
66 ATCTAAAGTATATTTTTGTATTTATTGATAGACACTGATCTAATATATCAA
22321535 TTATCAAATCAAAATTCAAACAGTTTTTTCTCTAATTTCTATCATAGACTGTTAGATTAACTTAG
1 TTATCAAATCAAAATTCAAACAGTTTTTTCTCTAATTTCTATCATAGACTGTTAGATTAACTTAG
22321600 ATCTAAAGTATATTTTTGTATTTATTGATAGACACTGATCTAATATATCAA
66 ATCTAAAGTATATTTTTGTATTTATTGATAGACACTGATCTAATATATCAA
22321651 TTATCAAATC
1 TTATCAAATC
22321661 GACACTTAGA
Statistics
Matches: 121, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
115 4 0.03
116 117 0.97
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (116 bp):
TTATCAAATCAAAATTCAAACAGTTTTTTCTCTAATTTCTATCATAGACTGTTAGATTAACTTAG
ATCTAAAGTATATTTTTGTATTTATTGATAGACACTGATCTAATATATCAA
Found at i:22339463 original size:31 final size:30
Alignment explanation
Indices: 22339408--22339484 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
22339398 TTAATGACAC
*
22339408 ATAAATTAT-TTTAAATTTTAAATATAAAA
1 ATAAATTATATTTAAATTCTAAATATAAAA
*
22339437 ATAAATTATATTTAAATAATCT-AATATAATA
1 ATAAATTATATTTAAAT--TCTAAATATAAAA
*
22339468 ATAAATAATATTTAAAT
1 ATAAATTATATTTAAAT
22339485 GATACAAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 9 0.21
30 7 0.17
31 24 0.57
32 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAATTATATTTAAATTCTAAATATAAAA
Found at i:22340506 original size:14 final size:14
Alignment explanation
Indices: 22340487--22340518 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
22340477 GACAGTGACA
22340487 TGTAATATGCCACG
1 TGTAATATGCCACG
22340501 TGTAATATGCCACG
1 TGTAATATGCCACG
22340515 TGTA
1 TGTA
22340519 CCTTATGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (14 bp):
TGTAATATGCCACG
Found at i:22343901 original size:16 final size:16
Alignment explanation
Indices: 22343880--22343910 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22343870 AACAATACAC
22343880 ACATACATACACATAG
1 ACATACATACACATAG
*
22343896 ACATACATATACATA
1 ACATACATACACATA
22343911 CATGCTATAA
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:0.52, C:0.23, G:0.03, T:0.23
Consensus pattern (16 bp):
ACATACATACACATAG
Found at i:22365052 original size:29 final size:30
Alignment explanation
Indices: 22365020--22365100 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 30
22365010 TTTTTAAGTT
*
22365020 CCTTAAAAGTTGGTAAAAAAAATTTTGGG-
1 CCTTAAAAGTTGGTAAAAAAAATTTGGGGC
22365049 CCTTAAAAG-T--TAAAAAAAA--TGGGGC
1 CCTTAAAAGTTGGTAAAAAAAATTTGGGGC
*
22365074 CCTTTAAAAGTTGGTAAAAAGAATTTG
1 CC-TTAAAAGTTGGTAAAAAAAATTTG
22365101 ACCTTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 16 0.37
27 1 0.02
28 1 0.02
29 17 0.40
31 2 0.05
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (30 bp):
CCTTAAAAGTTGGTAAAAAAAATTTGGGGC
Found at i:22368315 original size:14 final size:14
Alignment explanation
Indices: 22368296--22368323 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22368286 TGAGAGGTAA
22368296 TAAATACAATTAGC
1 TAAATACAATTAGC
22368310 TAAATACAATTAGC
1 TAAATACAATTAGC
22368324 CTTTGTAGTT
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:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
TAAATACAATTAGC
Found at i:22370099 original size:6 final size:6
Alignment explanation
Indices: 22370088--22370112 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22370078 AAAAATAATA
22370088 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
22370113 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:22377043 original size:65 final size:65
Alignment explanation
Indices: 22376933--22377054 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 65
22376923 TTAATAAAAA
* * *
22376933 TTTTCTCTCATTTTCTCTCTTTCCTAACAACACTTTTTTTCTTCAAAACACATGGTTATTGGCAT
1 TTTTCTCTCATTTTCTCTCTTGCCAAACAACACTTTTTTTATTCAAAACACATGGTTATTGGCAT
* * *
22376998 TTTTTTCTCATTTTCTCTCTTGCCAAACACCA-TTTTTCTTATTCAAAACATATGGTT
1 TTTTCTCTCATTTTCTCTCTTGCCAAACAACACTTTTT-TTATTCAAAACACATGGTT
22377055 GGCTCATTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 5 0.10
65 45 0.90
ACGTcount: A:0.22, C:0.24, G:0.06, T:0.48
Consensus pattern (65 bp):
TTTTCTCTCATTTTCTCTCTTGCCAAACAACACTTTTTTTATTCAAAACACATGGTTATTGGCAT
Found at i:22378016 original size:21 final size:21
Alignment explanation
Indices: 22377990--22378045 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
22377980 GGTTAGGTAC
22377990 TGAAGAAGAAAAATGGTGTTT
1 TGAAGAAGAAAAATGGTGTTT
22378011 TGAAGAAGAAAAATGGTGTTT
1 TGAAGAAGAAAAATGGTGTTT
*
22378032 GGCAAGAGAGAAAA
1 TG-AAGA-AGAAAA
22378046 TGAGAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 22 0.69
22 4 0.12
23 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.21
Consensus pattern (21 bp):
TGAAGAAGAAAAATGGTGTTT
Found at i:22378248 original size:28 final size:28
Alignment explanation
Indices: 22378216--22378275 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
22378206 AAATGGTGTT
22378216 TGGCAACAGAGAAAAT-GAGAGAAAAAAA
1 TGGCAACAGAGAAAATGGA-AGAAAAAAA
*
22378244 TGGCAAGAGAGAAAATGGCAAGAAAAAAA
1 TGGCAACAGAGAAAATGG-AAGAAAAAAA
22378273 TGG
1 TGG
22378276 TGTTATGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 15 0.52
29 13 0.45
30 1 0.03
ACGTcount: A:0.57, C:0.07, G:0.28, T:0.08
Consensus pattern (28 bp):
TGGCAACAGAGAAAATGGAAGAAAAAAA
Found at i:22378260 original size:15 final size:14
Alignment explanation
Indices: 22378235--22378275 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
22378225 AGAAAATGAG
22378235 AGAAAAAAATGGCA
1 AGAAAAAAATGGCA
*
22378249 AGAGAGAAAATGGCA
1 AGA-AAAAAATGGCA
22378264 AGAAAAAAATGG
1 AGAAAAAAATGG
22378276 TGTTATGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.61, C:0.05, G:0.27, T:0.07
Consensus pattern (14 bp):
AGAAAAAAATGGCA
Found at i:22383126 original size:6 final size:6
Alignment explanation
Indices: 22383115--22383141 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22383105 CTTATATCCT
22383115 TTACAA TTACAA TTACAA TTACAA TTA
1 TTACAA TTACAA TTACAA TTACAA TTA
22383142 GCGGTCGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (6 bp):
TTACAA
Found at i:22384264 original size:26 final size:27
Alignment explanation
Indices: 22384225--22384276 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
22384215 TCCTTCATCG
* *
22384225 AGTCTGCTTTTAATAGCACGT-TTTTC
1 AGTCTACTTCTAATAGCACGTATTTTC
22384251 AGTCTACTTCTAATAGCACGTATTTT
1 AGTCTACTTCTAATAGCACGTATTTT
22384277 AGTTTTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (27 bp):
AGTCTACTTCTAATAGCACGTATTTTC
Found at i:22384851 original size:10 final size:10
Alignment explanation
Indices: 22384830--22384870 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
22384820 TAAACTTAGG
22384830 TTAATT-AAA
1 TTAATTAAAA
22384839 TTAATTAAAA
1 TTAATTAAAA
22384849 TTAATTAAAAA
1 TTAATT-AAAA
*
22384860 CTAATTAAAA
1 TTAATTAAAA
22384870 T
1 T
22384871 ATATAAACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 6 0.21
10 13 0.46
11 9 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
TTAATTAAAA
Found at i:22395078 original size:23 final size:24
Alignment explanation
Indices: 22395038--22395083 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
22395028 ATTGAAATTT
22395038 AATTTATGTATTTTTATTTTTAAG
1 AATTTATGTATTTTTATTTTTAAG
*
22395062 AATTTA-GTCTTTTTATTTTTAA
1 AATTTATGTATTTTTATTTTTAA
22395084 ATTTCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (24 bp):
AATTTATGTATTTTTATTTTTAAG
Found at i:22395369 original size:19 final size:20
Alignment explanation
Indices: 22395344--22395401 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
22395334 ATTTTTTGTC
22395344 ATAAAAATGATTAAAAATAT
1 ATAAAAATGATTAAAAATAT
*
22395364 -TAAAAATTA-TAATAAAT-T
1 ATAAAAATGATTAA-AAATAT
*
22395382 ATAAAAAAGAATTAAAAATA
1 ATAAAAATG-ATTAAAAATA
22395402 AATATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
18 4 0.13
19 18 0.60
20 5 0.17
21 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
ATAAAAATGATTAAAAATAT
Found at i:22395418 original size:45 final size:45
Alignment explanation
Indices: 22395355--22395443 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
22395345 TAAAAATGAT
22395355 TAAAAATATTAAAAATTATA-ATAAATTATAAAAAA-GAATTAAAAA
1 TAAAAATATTAAAAATTATATA-AAATTA-AAAAAACGAATTAAAAA
* * * *
22395400 TAAATATATTAAACATTATTTAAAATTAAAAAAACGTATTAAAA
1 TAAAAATATTAAAAATTATATAAAATTAAAAAAACGAATTAAAA
22395444 TTCTTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 6 0.16
45 31 0.82
46 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (45 bp):
TAAAAATATTAAAAATTATATAAAATTAAAAAAACGAATTAAAAA
Found at i:22395462 original size:30 final size:30
Alignment explanation
Indices: 22395406--22395462 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
22395396 AAAATAAATA
* *
22395406 TATTAAACATTATTTAAAATTAAAAAAACG
1 TATTAAACATTATTAAAAATAAAAAAAACG
* *
22395436 TATTAAA-ATTCTTAAAAATAATAAAAA
1 TATTAAACATTATTAAAAATAAAAAAAA
22395463 TTGGAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (30 bp):
TATTAAACATTATTAAAAATAAAAAAAACG
Found at i:22396055 original size:19 final size:19
Alignment explanation
Indices: 22395985--22396059 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
22395975 TATTTTAATA
*
22395985 TTTAATAATTCTTAT-ATTT
1 TTTAATAATTTTTATGA-TT
*
22396004 TTTGATAATTTTTATGCATT
1 TTTAATAATTTTTATG-ATT
* **
22396024 TTT-TTCCTTTTTTTATGATT
1 TTTAAT--AATTTTTATGATT
22396044 TTTAATAATTTTTATG
1 TTTAATAATTTTTATG
22396060 GAAAAAATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
19 22 0.51
20 11 0.26
21 10 0.23
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTAATAATTTTTATGATT
Found at i:22404677 original size:57 final size:58
Alignment explanation
Indices: 22404578--22404700 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 58
22404568 ATAGAAATGG
* ** *
22404578 TGAAAATGGAGAAATGGGAAACATTTGGAAATGGTTATGGTTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGGGAAACATTTGAAAATGAATATGGTTTTCTCAAAAATAAAAA
* *
22404636 TGAAAATGGAGAAAT-GGAATCATTTGAAAATGAATGTGGTTTTCTCAAAAATAAAAA
1 TGAAAATGGAGAAATGGGAAACATTTGAAAATGAATATGGTTTTCTCAAAAATAAAAA
*
22404693 TAAAAATG
1 TGAAAATG
22404701 AAAATGAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 43 0.74
58 15 0.26
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATGGGAAACATTTGAAAATGAATATGGTTTTCTCAAAAATAAAAA
Found at i:22404693 original size:6 final size:6
Alignment explanation
Indices: 22404682--22404735 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
22404672 TGGTTTTCTC
* * * *
22404682 AAAAAT AAAAAT AAAAAT GAAAAT GAAAAT GAAAAAG AAAAAG AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT
22404731 GAAAA
1 -AAAA
22404736 GACCTAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
6 34 0.81
7 8 0.19
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:22404710 original size:18 final size:19
Alignment explanation
Indices: 22404682--22404735 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
22404672 TGGTTTTCTC
22404682 AAAAATAAAAAT-AAAAATG
1 AAAAATAAAAATGAAAAA-G
*
22404701 -AAAATGAAAATGAAAAAG
1 AAAAATAAAAATGAAAAAG
*
22404719 AAAAAGAAAAATGAAAA
1 AAAAATAAAAATGAAAA
22404736 GACCTAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAAATAAAAATGAAAAAG
Found at i:22404736 original size:18 final size:18
Alignment explanation
Indices: 22404682--22404737 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
22404672 TGGTTTTCTC
* *
22404682 AAAAATAAAAATAAAAATG
1 AAAAAGAAAAATGAAAA-G
*
22404701 AAAATG-AAAATGAAAAAG
1 AAAAAGAAAAATG-AAAAG
22404719 AAAAAGAAAAATGAAAAG
1 AAAAAGAAAAATGAAAAG
22404737 A
1 A
22404738 CCTAGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAAATGAAAAG
Found at i:22412136 original size:3 final size:3
Alignment explanation
Indices: 22412128--22412153 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22412118 CGTCAAAGAA
22412128 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
22412154 GATGACCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22412250 original size:120 final size:121
Alignment explanation
Indices: 22412032--22412273 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 121
22412022 AACCCGACTG
22412032 GATGACCAAGAAATCGAAGCTCGTCAAAAACCACAACACCACCGTTTCCAAAAAAAAAGAAAACA
1 GATGACCAAG-AATCGAAGCTCGTCAAAAACCACAACACCACCGTTTCCAAAAAAAAAGAAAACA
*
22412097 AAAGAAAGGGGAAGAGGAGAACGTCAAAGAAAATAATAATAATAATAATAATAATAA
65 AAAGAAAGGGGAAGAGGAGAACGTCAAAAAAAATAATAATAATAATAATAATAATAA
22412154 GATGACCAAG-ATCGAAGCTCGTCAAAAACCACAACACCACCGTTTCCAAAAAAAAAGAAAACAA
1 GATGACCAAGAATCGAAGCTCGTCAAAAACCACAACACCACCGTTTCCAAAAAAAAAGAAAACAA
22412218 AAGAAAGGGGAAGAGGAGAACGTCAAAAAAAATAATAATAATAATAATAATAATAA
66 AAGAAAGGGGAAGAGGAGAACGTCAAAAAAAATAATAATAATAATAATAATAATAA
22412274 TAATAATAAT
Statistics
Matches: 119, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
120 109 0.92
122 10 0.08
ACGTcount: A:0.56, C:0.16, G:0.15, T:0.13
Consensus pattern (121 bp):
GATGACCAAGAATCGAAGCTCGTCAAAAACCACAACACCACCGTTTCCAAAAAAAAAGAAAACAA
AAGAAAGGGGAAGAGGAGAACGTCAAAAAAAATAATAATAATAATAATAATAATAA
Found at i:22412254 original size:3 final size:3
Alignment explanation
Indices: 22412248--22412294 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
22412238 CGTCAAAAAA
22412248 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22412295 ACACTAAGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22412863 original size:22 final size:23
Alignment explanation
Indices: 22412835--22412878 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
22412825 CATTCTAATG
22412835 AGTTATGTTTA-TT-ATTATTGAA
1 AGTTATG-TTACTTGATTATTGAA
22412857 AGTTATGTTACTTGATTATTGA
1 AGTTATGTTACTTGATTATTGA
22412879 CAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 9 0.45
23 8 0.40
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (23 bp):
AGTTATGTTACTTGATTATTGAA
Found at i:22414581 original size:22 final size:23
Alignment explanation
Indices: 22414553--22414596 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
22414543 CATTCTAATG
22414553 AGTTATGTTTA-TT-ATTATTGAA
1 AGTTATG-TTACTTGATTATTGAA
22414575 AGTTATGTTACTTGATTATTGA
1 AGTTATGTTACTTGATTATTGA
22414597 CAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 9 0.45
23 8 0.40
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (23 bp):
AGTTATGTTACTTGATTATTGAA
Found at i:22415996 original size:17 final size:17
Alignment explanation
Indices: 22415976--22416009 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22415966 TAGTTTACTT
22415976 TTTAT-TATTATTCTAAA
1 TTTATATATTATT-TAAA
22415993 TTTATATATTATTTAAA
1 TTTATATATTATTTAAA
22416010 AACTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATATATTATTTAAA
Found at i:22416057 original size:11 final size:11
Alignment explanation
Indices: 22416041--22416065 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22416031 TATTTAACAA
22416041 TAATTAAAAAT
1 TAATTAAAAAT
22416052 TAATTAAAAAT
1 TAATTAAAAAT
22416063 TAA
1 TAA
22416066 ATGCTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATTAAAAAT
Found at i:22419411 original size:13 final size:13
Alignment explanation
Indices: 22419393--22419418 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22419383 TCTGGTCTTG
22419393 TATGTGATAAGTA
1 TATGTGATAAGTA
22419406 TATGTGATAAGTA
1 TATGTGATAAGTA
22419419 AATTAACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
TATGTGATAAGTA
Found at i:22424330 original size:2 final size:2
Alignment explanation
Indices: 22424318--22424354 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
22424308 ACAACCAAAA
*
22424318 AT AT GT AT AT 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 AT AT AT AT AT A
22424355 CCAACTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22424422 original size:65 final size:66
Alignment explanation
Indices: 22424332--22424463 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 66
22424322 GTATATATAT
22424332 ATATATATATATATATATATATACCAACTACATAAGCTTGACGCACAACAATATAAAAACTGATT
1 ATATATATATATATATATATATACCAACTACATAAGCTTGACGCACAACAATATAAAAACTGATT
22424397 A
66 A
22424398 ATATATATAT-TATATATATATACCAACTACATAAGCTTGACGCACAACAATATAAAAACTGATT
1 ATATATATATATATATATATATACCAACTACATAAGCTTGACGCACAACAATATAAAAACTGATT
22424462 A
66 A
22424463 A
1 A
22424464 AAATTGGCAT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 56 0.85
66 10 0.15
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (66 bp):
ATATATATATATATATATATATACCAACTACATAAGCTTGACGCACAACAATATAAAAACTGATT
A
Found at i:22432903 original size:17 final size:17
Alignment explanation
Indices: 22432881--22432916 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
22432871 TTGAATTCAC
22432881 AAAAT-AATATTAAATAA
1 AAAATAAAT-TTAAATAA
22432898 AAAATAAATTTAAATAA
1 AAAATAAATTTAAATAA
22432915 AA
1 AA
22432917 TTTATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATAAATTTAAATAA
Found at i:22433148 original size:22 final size:22
Alignment explanation
Indices: 22433109--22433151 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22433099 CATATGCCGG
*
22433109 ATATTTGAATCAGTAAAAATCT
1 ATATTTGAATCAGCAAAAATCT
22433131 ATATTTGAATCCA-CAAAAATC
1 ATATTTGAAT-CAGCAAAAATC
22433152 CAAATCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (22 bp):
ATATTTGAATCAGCAAAAATCT
Found at i:22445651 original size:23 final size:23
Alignment explanation
Indices: 22445625--22445775 Score: 82
Period size: 23 Copynumber: 6.5 Consensus size: 23
22445615 TGGACAACTA
*
22445625 TTATACATCAATTTCGACAGCAT
1 TTATACATCAATTTGGACAGCAT
* ** *
22445648 TTATATA-CTAAACTAGACAGCAT
1 TTATACATC-AATTTGGACAGCAT
*
22445671 TT-TCACACCAAAATTTGGACAGCAT
1 TTAT-ACATC--AATTTGGACAGCAT
* * *
22445696 ATATACAGCAA-TTGGACTGCAT
1 TTATACATCAATTTGGACAGCAT
22445718 TTATACATCAAAATTT-GACAGCA-
1 TTATACATC--AATTTGGACAGCAT
*
22445741 -TATACAT-ATATAATTGGACTGCAT
1 TTATACATCA-AT--TTGGACAGCAT
22445765 TTATACATCAA
1 TTATACATCAA
22445776 AATTTGACAA
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
19 1 0.01
20 2 0.02
22 28 0.29
23 29 0.30
24 9 0.09
25 26 0.27
26 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.32
Consensus pattern (23 bp):
TTATACATCAATTTGGACAGCAT
Found at i:22445732 original size:47 final size:45
Alignment explanation
Indices: 22445625--22445804 Score: 177
Period size: 47 Copynumber: 3.9 Consensus size: 45
22445615 TGGACAACTA
* * * *
22445625 TTATACATC--AATTTCGACAGCATTTATATACTAAACTAGACAGCAT
1 TTATACATCAAAATTT-GACAGCA--TATATACAAAATTGGACTGCAT
* *
22445671 TT-TCACACCAAAATTTGGACAGCATATATACAGCAATTGGACTGCAT
1 TTAT-ACATCAAAATTT-GACAGCATATATACA-AAATTGGACTGCAT
* *
22445718 TTATACATCAAAATTTGACAGCATATACATATATAATTGGACTGCAT
1 TTATACATCAAAATTTGACAGCATAT--ATACAAAATTGGACTGCAT
* *
22445765 TTATACATCAAAATTTGACAACATATGTACAAAATTGGAC
1 TTATACATCAAAATTTGACAGCATATATACAAAATTGGAC
22445805 AGCACATATT
Statistics
Matches: 113, Mismatches: 14, Indels: 15
0.80 0.10 0.11
Matches are distributed among these distances:
45 12 0.11
46 23 0.20
47 61 0.54
48 17 0.15
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (45 bp):
TTATACATCAAAATTTGACAGCATATATACAAAATTGGACTGCAT
Found at i:22445744 original size:22 final size:22
Alignment explanation
Indices: 22445679--22445808 Score: 86
Period size: 24 Copynumber: 5.7 Consensus size: 22
22445669 ATTTTCACAC
*
22445679 CAAAATTTGGACAGCATATATA-
1 CAAAA-TTGGACAGCATATACAT
* *
22445701 CAGCAATTGGACTGCATTTATACAT
1 CA-AAATTGGACAGCA--TATACAT
*
22445726 CAAAATTTGACAGCATATACAT
1 CAAAATTGGACAGCATATACAT
*
22445748 -ATATAATTGGACTGCATTTATACAT
1 CA-A-AATTGGACAGCA--TATACAT
* * **
22445773 CAAAATTTGACAACATATGTA-
1 CAAAATTGGACAGCATATACAT
22445794 CAAAATTGGACAGCA
1 CAAAATTGGACAGCA
22445809 CATATTCGAT
Statistics
Matches: 84, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
21 14 0.17
22 23 0.27
23 12 0.14
24 24 0.29
25 10 0.12
26 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (22 bp):
CAAAATTGGACAGCATATACAT
Found at i:22445795 original size:24 final size:23
Alignment explanation
Indices: 22445663--22445795 Score: 76
Period size: 24 Copynumber: 5.6 Consensus size: 23
22445653 TACTAAACTA
* *
22445663 GACAGCATTTTCACACCAAAATTT
1 GACAGCATATT-ACATCAAAATTT
* *
22445687 GGACAGCATATATACAGC--AATTG
1 -GACAGCATAT-TACATCAAAATTT
* *
22445710 GACTGCATTTATACATCAAAATTT
1 GACAGCATAT-TACATCAAAATTT
*
22445734 GACAGCATA-TACAT-ATATAATTG
1 GACAGCATATTACATCA-A-AATTT
* *
22445757 GACTGCATTTATACATCAAAATTT
1 GACAGCATAT-TACATCAAAATTT
*
22445781 GACAACATATGTACA
1 GACAGCATAT-TACA
22445796 AAATTGGACA
Statistics
Matches: 83, Mismatches: 17, Indels: 17
0.71 0.15 0.15
Matches are distributed among these distances:
21 1 0.01
22 20 0.24
23 15 0.18
24 26 0.31
25 19 0.23
26 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (23 bp):
GACAGCATATTACATCAAAATTT
Found at i:22446176 original size:14 final size:15
Alignment explanation
Indices: 22446152--22446186 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
22446142 TATACACATT
22446152 ACCATATAAATACTA
1 ACCATATAAATACTA
22446167 ACCATA-AAATACTA
1 ACCATATAAATACTA
22446181 ATCCAT
1 A-CCAT
22446187 GATTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:22446895 original size:43 final size:43
Alignment explanation
Indices: 22446829--22446958 Score: 178
Period size: 43 Copynumber: 3.0 Consensus size: 43
22446819 AACTCGTACA
*
22446829 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
22446872 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATA-TCG
22446915 ATGCCAACGTCCCAGACGTGGTCTTACACG-ATATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTA-ATCACATATCG
22446958 A
1 A
22446959 AAATCCCATG
Statistics
Matches: 77, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
42 5 0.06
43 68 0.88
44 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:22449587 original size:22 final size:22
Alignment explanation
Indices: 22449559--22449606 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
22449549 AGGTAATTAA
*
22449559 GTTTGGTGTTGTCTTACATTGG
1 GTTTGGTGTTATCTTACATTGG
22449581 GTTTGGTGTTATCTTACATTGG
1 GTTTGGTGTTATCTTACATTGG
22449603 GTTT
1 GTTT
22449607 TTGCTCTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.10, C:0.08, G:0.29, T:0.52
Consensus pattern (22 bp):
GTTTGGTGTTATCTTACATTGG
Found at i:22452263 original size:37 final size:37
Alignment explanation
Indices: 22452222--22452341 Score: 95
Period size: 37 Copynumber: 3.2 Consensus size: 37
22452212 TAAAACATTA
22452222 TGAAAAAAATAAAAACTCCTTTGTCGAAACCATCTTT
1 TGAAAAAAATAAAAACTCCTTTGTCGAAACCATCTTT
* * * ** * *
22452259 TGAAAAAAA-AATTATA-T-TTTTTTAC-AAATTAAAACATTA
1 TGAAAAAAATAA--AAACTCCTTTGT-CGAAA--CCATC-TTT
22452298 TGAAAAAAATAAAAACTCCTTTGTCGAAACCATCTTT
1 TGAAAAAAATAAAAACTCCTTTGTCGAAACCATCTTT
22452335 TGAAAAA
1 TGAAAAA
22452342 CAACAATGTT
Statistics
Matches: 59, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
36 9 0.15
37 20 0.34
38 8 0.14
39 13 0.22
40 9 0.15
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (37 bp):
TGAAAAAAATAAAAACTCCTTTGTCGAAACCATCTTT
Found at i:22452269 original size:77 final size:76
Alignment explanation
Indices: 22452186--22452341 Score: 303
Period size: 76 Copynumber: 2.0 Consensus size: 76
22452176 ATAAAAACAT
22452186 AAAAAAATTATATTTTTTTTACAAATTAAAACATTATGAAAAAAATAAAAACTCCTTTGTCGAAA
1 AAAAAAATTATA-TTTTTTTACAAATTAAAACATTATGAAAAAAATAAAAACTCCTTTGTCGAAA
22452251 CCATCTTTTGAA
65 CCATCTTTTGAA
22452263 AAAAAAATTATATTTTTTTACAAATTAAAACATTATGAAAAAAATAAAAACTCCTTTGTCGAAAC
1 AAAAAAATTATATTTTTTTACAAATTAAAACATTATGAAAAAAATAAAAACTCCTTTGTCGAAAC
22452328 CATCTTTTGAA
66 CATCTTTTGAA
22452339 AAA
1 AAA
22452342 CAACAATGTT
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 67 0.85
77 12 0.15
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (76 bp):
AAAAAAATTATATTTTTTTACAAATTAAAACATTATGAAAAAAATAAAAACTCCTTTGTCGAAAC
CATCTTTTGAA
Found at i:22461214 original size:97 final size:97
Alignment explanation
Indices: 22461048--22461463 Score: 814
Period size: 97 Copynumber: 4.3 Consensus size: 97
22461038 TCAGTTACGT
22461048 AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
1 AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
22461113 ACACCCAATACGTTAGGGCACGATTCCTTTAG
66 ACACCCAATACGTTAGGGCACGATTCCTTTAG
22461145 AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
1 AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
22461210 ACACCCAATACGTTAGGGCACGATTCCTTTAG
66 ACACCCAATACGTTAGGGCACGATTCCTTTAG
22461242 AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
1 AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
22461307 ACACCCAATACGTTAGGGCACGATTCCTTTAG
66 ACACCCAATACGTTAGGGCACGATTCCTTTAG
22461339 AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
1 AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
22461404 ACACCCAATACGTTAGGGCACGATTCCTTTAG
66 ACACCCAATACGTTAGGGCACGATTCCTTTAG
* *
22461436 AATCCCAAACTCGGAATATTTCTTTTAC
1 AATCCCAAACTCGAAATATTTCCTTTAC
22461464 AATTTTTAAA
Statistics
Matches: 317, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 317 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (97 bp):
AATCCCAAACTCGAAATATTTCCTTTACTTTAAAGAACATCCGCTTATCCAAGATTTAAGAAATC
ACACCCAATACGTTAGGGCACGATTCCTTTAG
Found at i:22462614 original size:19 final size:19
Alignment explanation
Indices: 22462590--22462681 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
22462580 AATCATATAT
22462590 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
22462609 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
22462628 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22462647 TCTAAGATTGCATATAATA
1 TCTAAGATTGCATATCATA
22462666 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22462682 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22462637 original size:38 final size:38
Alignment explanation
Indices: 22462567--22462681 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
22462557 AAATTAAATC
*
22462567 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATAT-A-ATA-TCTAAGATTGCATATCATA
* *
22462609 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATAATATCTAAGATTGCATATCATA
*
22462647 TCTAAGATTGCATATAATATCTAAGATTGCATATC
1 TCTAAGATTACATATAATATCTAAGATTGCATATC
22462682 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 51 0.76
39 3 0.04
41 3 0.04
42 10 0.15
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATAATATCTAAGATTGCATATCATA
Done.