Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 113 of 113
Found at i:22137624 original size:18 final size:16
Alignment explanation
Indices: 22137603--22137654 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
22137593 TGGGAAGAAC
22137603 AAAAAAAGAGAAAAAA
1 AAAAAAAGAGAAAAAA
22137619 GAAAAAAAGTAGAAAAAA
1 -AAAAAAAG-AGAAAAAA
22137637 AAAGAAAA-AGAAACAAA
1 AAA-AAAAGAGAAA-AAA
22137654 A
1 A
22137655 TAAATGATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.16
17 15 0.47
18 12 0.38
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAA
Found at i:22137626 original size:20 final size:21
Alignment explanation
Indices: 22137597--22137645 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
22137587 AAAAAATGGG
* *
22137597 AAGAACAAAAAAAG-AGAAAA
1 AAGAAAAAAAAAAGAAAAAAA
**
22137617 AAGAAAAAAAGTAGAAAAAAA
1 AAGAAAAAAAAAAGAAAAAAA
22137638 AAGAAAAA
1 AAGAAAAA
22137646 GAAACAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (21 bp):
AAGAAAAAAAAAAGAAAAAAA
Found at i:22142202 original size:7 final size:7
Alignment explanation
Indices: 22142190--22142673 Score: 201
Period size: 7 Copynumber: 69.0 Consensus size: 7
22142180 TCAAACTTAT
22142190 GGTTTAG
1 GGTTTAG
22142197 GGTTTAAG
1 GGTTT-AG
*
22142205 GTTTTAG
1 GGTTTAG
*
22142212 GATTTAG
1 GGTTTAG
*
22142219 GGTTTAA
1 GGTTTAG
*
22142226 GATTT--
1 GGTTTAG
22142231 GGTTTAG
1 GGTTTAG
*
22142238 GTTTTTA-
1 G-GTTTAG
22142245 GGTTTA-
1 GGTTTAG
22142251 -GTTT-G
1 GGTTTAG
*
22142256 AGGTTTAA
1 -GGTTTAG
*
22142264 GGTTTAT
1 GGTTTAG
* *
22142271 GGCTTAT
1 GGTTTAG
22142278 GGTTTAGG
1 GGTTTA-G
*
22142286 GGTTTAT
1 GGTTTAG
22142293 GGTTTAG
1 GGTTTAG
22142300 GGTTTTAG
1 GG-TTTAG
* *
22142308 GTTTTAA
1 GGTTTAG
*
22142315 GGTTTAT
1 GGTTTAG
22142322 GG-TTAG
1 GGTTTAG
22142328 GGTTTAG
1 GGTTTAG
* * *
22142335 AGTTCAA
1 GGTTTAG
22142342 GGTTTAG
1 GGTTTAG
22142349 GGTTT--
1 GGTTTAG
*
22142354 -TTTTAG
1 GGTTTAG
*
22142360 GTTTTGAG
1 GGTTT-AG
22142368 GG-TTAG
1 GGTTTAG
*
22142374 GGATTAG
1 GGTTTAG
*
22142381 TGTTTAG
1 GGTTTAG
22142388 GGTTTTA-
1 GG-TTTAG
* * *
22142395 AGATTGG
1 GGTTTAG
22142402 GGTTTAG
1 GGTTTAG
22142409 GGTTTTAG
1 GG-TTTAG
22142417 TGGTTT-G
1 -GGTTTAG
*
22142424 AGGTTTGG
1 -GGTTTAG
22142432 GGTTTCA-
1 GGTTT-AG
*
22142439 AGTTTAG
1 GGTTTAG
22142446 GGTTTTAG
1 GG-TTTAG
*
22142454 GGTTTGAA
1 GGTTT-AG
22142462 GGTTTCAG
1 GGTTT-AG
**
22142470 ATTTTAG
1 GGTTTAG
22142477 GGTTTAG
1 GGTTTAG
*
22142484 AGTTTAG
1 GGTTTAG
** *
22142491 GAATCAG
1 GGTTTAG
* *
22142498 GGTTAAT
1 GGTTTAG
* * *
22142505 GGATCAA
1 GGTTTAG
22142512 GGTTTAG
1 GGTTTAG
*
22142519 GG-TTAA
1 GGTTTAG
* *
22142525 AGTTTAA
1 GGTTTAG
* *
22142532 GATTTTG
1 GGTTTAG
* *
22142539 GATTTTG
1 GGTTTAG
*
22142546 GGGTTAG
1 GGTTTAG
22142553 GGTTTTA-
1 GG-TTTAG
22142560 GGTTTAG
1 GGTTTAG
*
22142567 GATTTAAG
1 GGTTT-AG
*
22142575 GTTTTAG
1 GGTTTAG
*
22142582 GGTTTAA
1 GGTTTAG
*
22142589 GGTTTGG
1 GGTTTAG
22142596 GGTTT-G
1 GGTTTAG
*
22142602 GGGTTAGG
1 GGTTTA-G
*
22142610 GGTTTGG
1 GGTTTAG
22142617 GGTTTAAG
1 GGTTT-AG
22142625 GGTTTAG
1 GGTTTAG
22142632 GGTTTAG
1 GGTTTAG
*
22142639 GGGTTAG
1 GGTTTAG
*
22142646 GGTATAG
1 GGTTTAG
*
22142653 GGGTTAG
1 GGTTTAG
22142660 GGTTTAG
1 GGTTTAG
22142667 GGTTTAG
1 GGTTTAG
22142674 AGCTTAATTT
Statistics
Matches: 356, Mismatches: 89, Indels: 64
0.70 0.17 0.13
Matches are distributed among these distances:
4 3 0.01
5 8 0.02
6 29 0.08
7 239 0.67
8 75 0.21
9 2 0.01
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:22142266 original size:19 final size:18
Alignment explanation
Indices: 22142191--22142269 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 18
22142181 CAAACTTATG
22142191 GTTTAGGGTTTAAGGTTTTA
1 GTTTA-GGTTTAAGG-TTTA
* *
22142211 GGATTTAGGGTTTAAGATTTG
1 -G-TTTA-GGTTTAAGGTTTA
*
22142232 GTTTAGGTTTTTAGGTTTA
1 GTTTAGG-TTTAAGGTTTA
22142251 GTTTGAGGTTTAAGGTTTA
1 GTTT-AGGTTTAAGGTTTA
22142270 TGGCTTATGG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
18 2 0.04
19 26 0.53
20 4 0.08
21 4 0.08
22 13 0.27
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (18 bp):
GTTTAGGTTTAAGGTTTA
Found at i:22142466 original size:44 final size:44
Alignment explanation
Indices: 22142382--22142481 Score: 103
Period size: 45 Copynumber: 2.2 Consensus size: 44
22142372 AGGGATTAGT
* * *
22142382 GTTTAGGGTTTTAAGATTGGGGTTTAGGGTTTTAGTGGTTTGAG
1 GTTTAGGGTTTCAAGATTGGGGTTTAGGGTTTGAGAGGTTTGAG
* * * *
22142426 GTTTGGGGTTTCAAGTTTAGGGTTTTAGGGTTTGA-AGGTTTCAG
1 GTTTAGGGTTTCAAGATT-GGGGTTTAGGGTTTGAGAGGTTTGAG
*
22142470 ATTTTAGGGTTT
1 -GTTTAGGGTTT
22142482 AGAGTTTAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (44 bp):
GTTTAGGGTTTCAAGATTGGGGTTTAGGGTTTGAGAGGTTTGAG
Found at i:22142582 original size:15 final size:15
Alignment explanation
Indices: 22142549--22142593 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
22142539 GATTTTGGGG
*
22142549 TTAGGGTTTTAGG-T
1 TTAGGGTTTAAGGTT
*
22142563 TTAGGATTTAAGGTT
1 TTAGGGTTTAAGGTT
22142578 TTAGGGTTTAAGGTT
1 TTAGGGTTTAAGGTT
22142593 T
1 T
22142594 GGGGTTTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (15 bp):
TTAGGGTTTAAGGTT
Found at i:22142967 original size:43 final size:43
Alignment explanation
Indices: 22142885--22143250 Score: 194
Period size: 43 Copynumber: 8.6 Consensus size: 43
22142875 TGGCAGAGGT
*
22142885 TTGAAACTTTAGAAAAAAATAAAATGCTC-CCCAACAATTGAGACC
1 TTGAAACTTTTG--AAAAATAAAATGCTCTCCC-ACAATTGAGACC
* * * **
22142930 TTGAAACTTTTGAAAAATAAAATGCTTTCACATAATTGA-AGTT
1 TTGAAACTTTTGAAAAATAAAATGCTCTCCCACAATTGAGA-CC
* * * **
22142973 TTGAAACTTTTG-AAAATAAATTGCTC-CCTTACAGTTGAG-GT
1 TTGAAACTTTTGAAAAATAAAATGCTCTCC-CACAATTGAGACC
** * * **
22143014 TATGAAACTTTTGAAAAATAAAATG-TCCTTTCACCACT-AGGGC
1 T-TGAAACTTTTGAAAAATAAAATGCT-CTCCCACAATTGAGACC
* * *
22143057 TTGGAAACTTTTG--AAATAAAATGC-C-CCATACAATTGAGGCT
1 TT-GAAACTTTTGAAAAATAAAATGCTCTCC-CACAATTGAGACC
* * *
22143098 TTGAAAC-ATTGAAAAATAAAATGCTCTCCCACAATT-AAAGCA
1 TTGAAACTTTTGAAAAATAAAATGCTCTCCCACAATTGAGA-CC
* *
22143140 TTGAAAC-TTTGAAAAAAAAATATTGCTCCCCCACAATTGA-ATCC
1 TTGAAACTTTTGAAAAATAAA-A-TGCTCTCCCACAATTGAGA-CC
* * *
22143184 TTGAAAC-TTTGAAAAAATAAAATGC-C-CCCTTACAACTGAGGCT
1 TTGAAACTTTTG-AAAAATAAAATGCTCTCCC--ACAATTGAGACC
22143227 TTGAAAC-TTTGAAGAAATAAAATG
1 TTGAAACTTTTGAA-AAATAAAATG
22143251 AGATATATGA
Statistics
Matches: 253, Mismatches: 42, Indels: 54
0.72 0.12 0.15
Matches are distributed among these distances:
39 3 0.01
40 10 0.04
41 33 0.13
42 63 0.25
43 94 0.37
44 30 0.12
45 20 0.08
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (43 bp):
TTGAAACTTTTGAAAAATAAAATGCTCTCCCACAATTGAGACC
Found at i:22142998 original size:85 final size:84
Alignment explanation
Indices: 22142900--22143208 Score: 274
Period size: 85 Copynumber: 3.6 Consensus size: 84
22142890 ACTTTAGAAA
*
22142900 AAAATAAAATGCTCCCCAACAATTGAGACCTTGAAACTTTTGAAAAATAAAATGCTTTCACATAA
1 AAAATAAAATGCTCCCCAACAATTGAGACCTTGAAAC-TTTGAAAAATAAAATGCTTTCACACAA
*
22142965 TTGAAGTTTTGAAACTTTTG
65 TTGAAGCTTTGAAACTTTTG
* ** * **
22142985 AAAATAAATTGCTCCCTTACAGTTGAG-GTTATGAAACTTTTGAAAAATAAAATGTCCTTTCAC-
1 AAAATAAAATGCTCCCCAACAATTGAGACCT-TGAAAC-TTTGAAAAATAAAATG--CTTTCACA
* * * *
22143048 CACTAG-GGCTTGGAAACTTTTG
62 CAATTGAAGCTTTGAAACTTTTG
* * * * *
22143070 -AAATAAAATG--CCCCATACAATTGAGGCTTTGAAACATTGAAAAATAAAATGCTCTCCCACAA
1 AAAATAAAATGCTCCCCA-ACAATTGAGACCTTGAAACTTTGAAAAATAAAATGCTTTCACACAA
* *
22143132 TTAAAGCATTGAAAC-TTTG
65 TTGAAGCTTTGAAACTTTTG
* *
22143151 AAAAAAAAATATTGCTCCCCCACAATTGA-ATCCTTGAAACTTTGAAAAAATAAAATGC
1 -AAAATAAA-A-TGCTCCCCAACAATTGAGA-CCTTGAAACTTTG-AAAAATAAAATGC
22143209 CCCCTTACAA
Statistics
Matches: 178, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
80 5 0.03
81 7 0.04
82 26 0.15
83 20 0.11
84 13 0.07
85 61 0.34
86 22 0.12
87 24 0.13
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (84 bp):
AAAATAAAATGCTCCCCAACAATTGAGACCTTGAAACTTTGAAAAATAAAATGCTTTCACACAAT
TGAAGCTTTGAAACTTTTG
Found at i:22143020 original size:42 final size:42
Alignment explanation
Indices: 22142931--22143038 Score: 130
Period size: 42 Copynumber: 2.5 Consensus size: 42
22142921 ATTGAGACCT
*
22142931 TGAAACTTTTGAAAAATAAAATGCTTTCACATAATTGAAGTTT
1 TGAAACTTTTGAAAAATAAAATGC-TTCACATAATTGAAGTTA
* * * *
22142974 TGAAACTTTTG-AAAATAAATTGC-TCCCTTACAGTTGAGGTTA
1 TGAAACTTTTGAAAAATAAAATGCTTCACATA-A-TTGAAGTTA
22143016 TGAAACTTTTGAAAAATAAAATG
1 TGAAACTTTTGAAAAATAAAATG
22143039 TCCTTTCACC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
40 5 0.09
41 1 0.02
42 29 0.52
43 21 0.38
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (42 bp):
TGAAACTTTTGAAAAATAAAATGCTTCACATAATTGAAGTTA
Found at i:22143173 original size:44 final size:42
Alignment explanation
Indices: 22143098--22143250 Score: 146
Period size: 44 Copynumber: 3.5 Consensus size: 42
22143088 AATTGAGGCT
* * *
22143098 TTGAAACATTGAAAAATAAAATGCTCTCCCACAATTAAAGCA
1 TTGAAACTTTGAAAAAAAAAATGCTCCCCCACAATTAAAGCA
* * *
22143140 TTGAAACTTTGAAAAAAAAATATTGCTCCCCCACAATTGAATCC
1 TTGAAACTTTGAAAAAAAAA-A-TGCTCCCCCACAATTAAAGCA
* * * * *
22143184 TTGAAACTTTGAAAAAATAAAATGC-CCCCTTACAACTGAGGCT
1 TTGAAACTTTGAAAAAA-AAAATGCTCCCC-CACAATTAAAGCA
*
22143227 TTGAAACTTTGAAGAAATAAAATG
1 TTGAAACTTTGAA-AAAAAAAATG
22143251 AGATATATGA
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 22 0.23
43 31 0.33
44 38 0.40
45 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (42 bp):
TTGAAACTTTGAAAAAAAAAATGCTCCCCCACAATTAAAGCA
Found at i:22143235 original size:169 final size:169
Alignment explanation
Indices: 22142901--22143250 Score: 367
Period size: 169 Copynumber: 2.1 Consensus size: 169
22142891 CTTTAGAAAA
* * *
22142901 AAATAAAATGCTCCCCAACAATTGAGACCTTGAAACTTTTGAAAAATAAAATGCTTTCACATAAT
1 AAATAAAATGC-CCCCAACAATTGAGACCTTGAAACTATTGAAAAATAAAATGCTCTCACACAAT
* ** * ** * *
22142966 TGAAGTTTTGAAACTTTTGAAAATAAATTGCTCCCTTACAGTTGAGGTTATGAAACTTTTGAAAA
65 TAAAGCATTGAAACTTTTGAAAAAAAATTGCTCCCCCACAATTGAGATTATGAAACTTTTGAAAA
* * * *
22143031 ATAAAATGTCCTTTCACCACTAGGGCTTGGAAACTTT-TG
130 ATAAAATGCCCCTTCACAACTAGGGCTTGGAAACTTTAAG
* * *
22143070 AAATAAAATG-CCCCATACAATTGAGGCTTTGAAAC-ATTGAAAAATAAAATGCTCTCCCACAAT
1 AAATAAAATGCCCCCA-ACAATTGAGACCTTGAAACTATTGAAAAATAAAATGCTCTCACACAAT
22143133 TAAAGCATTGAAAC-TTTGAAAAAAAAATATTGCTCCCCCACAATTGA-ATCCT-TGAAAC-TTT
65 TAAAGCATTGAAACTTTTG--AAAAAAA-ATTGCTCCCCCACAATTGAGAT--TATGAAACTTTT
*
22143194 GAAAAAATAAAATGCCCCCTT-ACAACT-GAGGCTTTGAAACTTTGAAG
125 G-AAAAATAAAATG-CCCCTTCACAACTAG-GGCTTGGAAACTTT-AAG
22143241 AAATAAAATG
1 AAATAAAATG
22143251 AGATATATGA
Statistics
Matches: 151, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
166 4 0.03
167 40 0.26
168 29 0.19
169 62 0.41
170 5 0.03
171 11 0.07
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (169 bp):
AAATAAAATGCCCCCAACAATTGAGACCTTGAAACTATTGAAAAATAAAATGCTCTCACACAATT
AAAGCATTGAAACTTTTGAAAAAAAATTGCTCCCCCACAATTGAGATTATGAAACTTTTGAAAAA
TAAAATGCCCCTTCACAACTAGGGCTTGGAAACTTTAAG
Found at i:22143627 original size:18 final size:18
Alignment explanation
Indices: 22143604--22143640 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22143594 GTGAATGCAA
22143604 TGCAAAAGATTCAAGATT
1 TGCAAAAGATTCAAGATT
*
22143622 TGCAAAAGATTTAAGATT
1 TGCAAAAGATTCAAGATT
22143640 T
1 T
22143641 ATAAAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (18 bp):
TGCAAAAGATTCAAGATT
Found at i:22143720 original size:18 final size:18
Alignment explanation
Indices: 22143660--22143722 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
22143650 TCAAAGTTAA
*
22143660 TAAAGGTTCCAAGATTTG
1 TAAAGGTCCCAAGATTTG
* **
22143678 CCAAA-GTTTCAAGATTTTG
1 -TAAAGGTCCCAAGA-TTTG
22143697 TAAAGGTCCCAAGATTTG
1 TAAAGGTCCCAAGATTTG
22143715 TAAAGGTC
1 TAAAGGTC
22143723 TCGAAATACA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
18 23 0.62
19 14 0.38
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (18 bp):
TAAAGGTCCCAAGATTTG
Found at i:22143881 original size:36 final size:36
Alignment explanation
Indices: 22143808--22143900 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 36
22143798 ATATCCAAAT
** * * *
22143808 ATTCACATTTGAAAATCTTAGAAGTTCACCGTTAAG
1 ATTCACATTAAAAAATCTTAGAAGCTCAACATTAAG
*
22143844 ATTTACATTAAAAAATCTTAGAAGCT-AACATTCAAG
1 ATTCACATTAAAAAATCTTAGAAGCTCAACATT-AAG
*
22143880 ATTCACATTAAAAAATTTTAG
1 ATTCACATTAAAAAATCTTAG
22143901 CGATTCATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 4 0.08
36 44 0.92
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (36 bp):
ATTCACATTAAAAAATCTTAGAAGCTCAACATTAAG
Found at i:22143913 original size:36 final size:36
Alignment explanation
Indices: 22143848--22143941 Score: 100
Period size: 36 Copynumber: 2.6 Consensus size: 36
22143838 GTTAAGATTT
* * * * *
22143848 ACATTAAAAAATCTTAGA-AGCTAACATTCAAGATTC
1 ACATTAAAAAATCTTAGAGA-TTCATATTCAAGACTA
* *
22143884 ACATTAAAAAATTTTAGCGATTCATATTCAAGACTA
1 ACATTAAAAAATCTTAGAGATTCATATTCAAGACTA
*
22143920 ACTTTAAAAAATCTTAGAGATT
1 ACATTAAAAAATCTTAGAGATT
22143942 TGCATCCAAG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 46 0.98
37 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.32
Consensus pattern (36 bp):
ACATTAAAAAATCTTAGAGATTCATATTCAAGACTA
Found at i:22144702 original size:21 final size:22
Alignment explanation
Indices: 22144675--22144725 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
22144665 TTTTAGTTAT
22144675 TAAAAAAGATTTCATTATTGAA
1 TAAAAAAGATTTCATTATTGAA
22144697 TAAAAAAGATTTCATTATTGAA
1 TAAAAAAGATTTCATTATTGAA
22144719 TAAAAAA
1 TAAAAAA
22144726 ATGATAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (22 bp):
TAAAAAAGATTTCATTATTGAA
Found at i:22145748 original size:14 final size:14
Alignment explanation
Indices: 22145729--22145778 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
22145719 TTACAATCAA
22145729 TTCTTTTTCTATTT
1 TTCTTTTTCTATTT
* *
22145743 TTCTTTTGCTCTTGT
1 TTCTTTTTCTATT-T
22145758 TTCTTTTTTCTATTT
1 TTC-TTTTTCTATTT
22145773 TT-TTTT
1 TTCTTTT
22145779 GGAAACTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.13
14 11 0.37
15 7 0.23
16 8 0.27
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (14 bp):
TTCTTTTTCTATTT
Found at i:22146714 original size:123 final size:124
Alignment explanation
Indices: 22146550--22147015 Score: 413
Period size: 131 Copynumber: 3.6 Consensus size: 124
22146540 TATTTATGTA
* *
22146550 GCAAAGATTGCCCAAACAAATGAAATAATGTACATAGAAAAATGTTTACATGGATAAAAATGTGT
1 GCAAAGATTGCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATAAAAATGTAT
* * * *
22146615 ATGCAAATATATGT-ATGCAAT-GCATTCATATTCACAACTATATACAAAATTGAAAAG
66 ATGCAAATACATGTAATACAATAGAATTCATATTCACAACTATGTACAAAATTGAAAAG
*
22146672 GCAAAGATTGCCCTAAACAAAT-AATATAATATACATACAAAAATGTTTACATGGATAAAAATGT
1 GCAAAGATTGCCC-AAACAAATGAA-ATAATGTACATACAAAAATGTTTACATGGATAAAAATGT
* * * * *
22146736 ATATACAAGTATATAATGCATAATAACAATAAGAATTCACATTCACAACTATGTACAAAACTAAA
64 ATATGCAA--ATA-CATG--TAAT-ACAAT-AGAATTCATATTCACAACTATGTACAAAATTGAA
*
22146801 AAT
122 AAG
* * * * * * ** * **
22146804 GAAAAAATTCTCCCAAGCCAATAAAATAATGTACATACAAAAATGGATAAAAATTTATATGCAAA
1 GCAAAGATT-GCCCAAACAAATGAAATAATGTACATACAAAAAT-G-TTTACATGGATA---AAA
** * * * *
22146869 CACATGTATGC-AATACATAGTGAA-A-AATAAGAATTTATATCCAAAACTATGTACAAAATTGA
60 -ATGTATATGCAAATACAT-GT-AATACAAT-AGAATTCATATTCACAACTATGTACAAAATTGA
22146931 AAAG
121 AAAG
** *
22146935 GCAAAGAATTTTCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGCATAAAAATGTA
1 GCAAAG-ATTGCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATAAAAATGTA
22147000 TATGCAAATACATGTA
65 TATGCAAATACATGTA
22147016 TGCAATACAT
Statistics
Matches: 272, Mismatches: 49, Indels: 44
0.75 0.13 0.12
Matches are distributed among these distances:
122 15 0.06
123 51 0.19
124 1 0.00
125 12 0.04
126 13 0.05
128 1 0.00
129 9 0.03
130 5 0.02
131 68 0.25
132 65 0.24
133 7 0.03
134 11 0.04
135 4 0.01
137 4 0.01
138 6 0.02
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (124 bp):
GCAAAGATTGCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATAAAAATGTAT
ATGCAAATACATGTAATACAATAGAATTCATATTCACAACTATGTACAAAATTGAAAAG
Found at i:22147034 original size:139 final size:137
Alignment explanation
Indices: 22146650--22147078 Score: 449
Period size: 139 Copynumber: 3.2 Consensus size: 137
22146640 TCATATTCAC
* * *
22146650 AACTATATACAAAATTGAAAAGGCAAAG-ATTGCCCTAAACAAATAATATAATATACATACAAAA
1 AACTATGTACAAAATTGAAAAGGCAAAGAATTTCCC-AAACAAATAA-ATAATGTACATACAAAA
* * * * *
22146714 ATGTTTACATGGATAAAAATGTATATACAAGT--A--TAT--AATGCATAAT-AACAATAAGAAT
64 ATGTTTACAT-GATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAATAAGAAT
* * * *
22146772 TCACATTCAC
128 TTATATCCAA
* * * * * *
22146782 AACTATGTACAAAACTAAAAATG-AAAAAATTCTCCCAAGCCAATAAAATAATGTACATACAAAA
1 AACTATGTACAAAATTGAAAAGGCAAAGAATT-TCCCAAACAAAT-AAATAATGTACATACAAAA
* *
22146846 ATG-------GATAAAAATTTATATGCAAACACATGTATGCAATACATAGTGAAAAATAAGAATT
64 ATGTTTACATGATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAATAAGAATT
22146904 TATATCCAA
129 TATATCCAA
*
22146913 AACTATGTACAAAATTGAAAAGGCAAAGAATTTTCCAAACAAATGAAATAATGTACATACAAAAA
1 AACTATGTACAAAATTGAAAAGGCAAAGAATTTCCCAAACAAAT-AAATAATGTACATACAAAAA
*
22146978 TGTTTACATGCATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAACAAGAATT
65 TGTTTACATG-ATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAATAAGAATT
* *
22147043 TATATCTAT
129 TATATCCAA
* *
22147052 AACTATGTGCAAAATTGAAAGGGCAAA
1 AACTATGTACAAAATTGAAAAGGCAAA
22147079 TGAAATAATG
Statistics
Matches: 243, Mismatches: 35, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
124 17 0.07
126 1 0.00
128 3 0.01
130 8 0.03
131 71 0.29
132 54 0.22
133 5 0.02
138 1 0.00
139 83 0.34
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.26
Consensus pattern (137 bp):
AACTATGTACAAAATTGAAAAGGCAAAGAATTTCCCAAACAAATAAATAATGTACATACAAAAAT
GTTTACATGATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAATAAGAATTTA
TATCCAA
Found at i:22148710 original size:10 final size:10
Alignment explanation
Indices: 22148695--22148740 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
22148685 TAGGAAGAAT
22148695 AAAAAAAGAG
1 AAAAAAAGAG
22148705 -AAAAAAGA-
1 AAAAAAAGAG
*
22148713 AAAAAAGGAG
1 AAAAAAAGAG
*
22148723 AAAAAAAAAG
1 AAAAAAAGAG
22148733 AAACAAAA
1 AAA-AAAA
22148741 TAAATGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 15 0.50
10 11 0.37
11 4 0.13
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:22148716 original size:18 final size:18
Alignment explanation
Indices: 22148673--22148728 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
22148663 GAAATGAAGG
* *
22148673 AAAGAAAAAAAATAGGAA
1 AAAGAAAAAAAAGAGAAA
* *
22148691 GAA-TAAAAAAAGAGAAA
1 AAAGAAAAAAAAGAGAAA
*
22148708 AAAGAAAAAAAGGAGAAA
1 AAAGAAAAAAAAGAGAAA
22148726 AAA
1 AAA
22148729 AAAGAAACAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (18 bp):
AAAGAAAAAAAAGAGAAA
Found at i:22149100 original size:11 final size:11
Alignment explanation
Indices: 22149080--22149112 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
22149070 GATAATCAGC
22149080 AAAG-AAAAAA
1 AAAGAAAAAAA
22149090 AAAGAAAAAAA
1 AAAGAAAAAAA
*
22149101 AAGGAAAAAAA
1 AAAGAAAAAAA
22149112 A
1 A
22149113 GGAAGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:22149116 original size:10 final size:10
Alignment explanation
Indices: 22149080--22149113 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22149070 GATAATCAGC
22149080 AAAGAAAAAA
1 AAAGAAAAAA
22149090 AAAGAAAAAA
1 AAAGAAAAAA
*
22149100 AAAGGAAAAA
1 AAAGAAAAAA
22149110 AAAG
1 AAAG
22149114 GAAGAGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:22150180 original size:25 final size:26
Alignment explanation
Indices: 22150137--22150185 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
22150127 GATGAGTAAA
*
22150137 AAAAAAAATCAGTAGAAATAATATCT
1 AAAAAAAATCAGTAAAAATAATATCT
*
22150163 AAAAAAAATGAG-AAAAATAATAT
1 AAAAAAAATCAGTAAAAATAATAT
22150186 TTTCATGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.20
Consensus pattern (26 bp):
AAAAAAAATCAGTAAAAATAATATCT
Found at i:22153402 original size:7 final size:7
Alignment explanation
Indices: 22153332--22153819 Score: 178
Period size: 7 Copynumber: 68.4 Consensus size: 7
22153322 TCAAACTTAT
22153332 GGTTTAG
1 GGTTTAG
22153339 GGTTTTAG
1 GG-TTTAG
* *
22153347 GATGTAG
1 GGTTTAG
*
22153354 GGTTTAA
1 GGTTTAG
*
22153361 GATTT--
1 GGTTTAG
22153366 GGTTTAG
1 GGTTTAG
* *
22153373 GTTTTTG
1 GGTTTAG
22153380 GGTTTA-
1 GGTTTAG
22153386 -GTTT-G
1 GGTTTAG
22153391 AGGTTTAG
1 -GGTTTAG
*
22153399 GGTTTAT
1 GGTTTAG
* *
22153406 GGCTTAT
1 GGTTTAG
22153413 GGTTTAGG
1 GGTTTA-G
*
22153421 GGTTTAA
1 GGTTTAG
22153428 GGTTTAG
1 GGTTTAG
* *
22153435 GGTTCAA
1 GGTTTAG
22153442 GGTTTAG
1 GGTTTAG
22153449 GGTATTTTTAG
1 GG----TTTAG
22153460 GGTTTGAG
1 GGTTT-AG
22153468 GG-TTAG
1 GGTTTAG
*
22153474 GGATT-G
1 GGTTTAG
22153480 GTGTTTAG
1 G-GTTTAG
22153488 GGTTTCA-
1 GGTTT-AG
* * *
22153495 AGATTGG
1 GGTTTAG
22153502 GGTTTAG
1 GGTTTAG
22153509 GGTTTTAAG
1 GG-TTT-AG
22153518 GGTTT-G
1 GGTTTAG
*
22153524 AGGTTTGG
1 -GGTTTAG
22153532 GGTTTCA-
1 GGTTT-AG
*
22153539 AGTTTAG
1 GGTTTAG
22153546 GGTTTTAG
1 GG-TTTAG
*
22153554 GGTTTCAA
1 GGTTT-AG
*
22153562 GGTTCCAG
1 GGTT-TAG
**
22153570 ATTTTAG
1 GGTTTAG
22153577 GGTTTAG
1 GGTTTAG
*
22153584 AGTTTAG
1 GGTTTAG
** *
22153591 GAATCAG
1 GGTTTAG
* *
22153598 GGTTAAT
1 GGTTTAG
* * *
22153605 GGATCAA
1 GGTTTAG
*
22153612 GGTTTAA
1 GGTTTAG
*
22153619 GGTTAAG
1 GGTTTAG
22153626 GGTTTAG
1 GGTTTAG
22153633 GG-TTAG
1 GGTTTAG
*
22153639 GGTTTAA
1 GGTTTAG
* *
22153646 GATTTTG
1 GGTTTAG
* *
22153653 GATTTTG
1 GGTTTAG
*
22153660 GGGTTAG
1 GGTTTAG
22153667 GGTTTTA-
1 GG-TTTAG
22153674 GGTTTAG
1 GGTTTAG
*
22153681 GATTTAAG
1 GGTTT-AG
* *
22153689 GTTTTAA
1 GGTTTAG
*
22153696 GGTTTAA
1 GGTTTAG
*
22153703 GGTTTGG
1 GGTTTAG
22153710 GGTTT-G
1 GGTTTAG
22153716 GGATTTAG
1 GG-TTTAG
22153724 GGTTT-G
1 GGTTTAG
22153730 GTGTTT-G
1 G-GTTTAG
* *
22153737 AGTTTTG
1 GGTTTAG
22153744 GGTTTAG
1 GGTTTAG
*
22153751 GGGTTAGG
1 GGTTTA-G
*
22153759 GGTTTCG
1 GGTTTAG
22153766 GGTTTTAG
1 GG-TTTAG
* *
22153774 GATTTTTG
1 G-GTTTAG
22153782 GGTTTAG
1 GGTTTAG
22153789 GGTTTAG
1 GGTTTAG
*
22153796 GGTTTAA
1 GGTTTAG
*
22153803 GGTGTAG
1 GGTTTAG
*
22153810 GGTTAAG
1 GGTTTAG
22153817 GGT
1 GGT
22153820 GTAATTTTTA
Statistics
Matches: 357, Mismatches: 86, Indels: 76
0.69 0.17 0.15
Matches are distributed among these distances:
5 8 0.02
6 27 0.08
7 242 0.68
8 69 0.19
9 4 0.01
11 7 0.02
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:22153425 original size:29 final size:29
Alignment explanation
Indices: 22153392--22153450 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
22153382 TTTAGTTTGA
* *
22153392 GGTTTAGGGTTTATGGCTT-ATGGTTTAGG
1 GGTTTAAGGTTTA-GGCTTCAAGGTTTAGG
*
22153421 GGTTTAAGGTTTAGGGTTCAAGGTTTAGG
1 GGTTTAAGGTTTAGGCTTCAAGGTTTAGG
22153450 G
1 G
22153451 TATTTTTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.17, C:0.03, G:0.39, T:0.41
Consensus pattern (29 bp):
GGTTTAAGGTTTAGGCTTCAAGGTTTAGG
Found at i:22153713 original size:22 final size:21
Alignment explanation
Indices: 22153663--22153714 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
22153653 GATTTTGGGG
22153663 TTAGGGTTTTAGGTTTAGGAT
1 TTAGGGTTTTAGGTTTAGGAT
*
22153684 TTAAGGTTTTAAGGTTTAAGG-T
1 TTAGGGTTTT-AGGTTT-AGGAT
*
22153706 TTGGGGTTT
1 TTAGGGTTT
22153715 GGGATTTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.35
22 14 0.54
23 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (21 bp):
TTAGGGTTTTAGGTTTAGGAT
Found at i:22154095 original size:43 final size:42
Alignment explanation
Indices: 22154028--22154181 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
22154018 TTGGCAAAGG
* *
22154028 TTTGAAGCTTTAGAAAAAATAAAATGCTCCCCAACAATTGAGAA
1 TTTGAAACTTTTG-AAAAATAAAATGCTCCCC-ACAATTGAGAA
* * * *
22154072 CTTGAAACTTTTGAAAAATAAAATGCTATCCCATAATTGA-AGT
1 TTTGAAACTTTTGAAAAATAAAATGCT-CCCCACAATTGAGA-A
* *
22154115 TTTGAAACTTTTG-AAAATAAAATGTTCCCCTACAATTGAG-G
1 TTTGAAACTTTTGAAAAATAAAATGCTCCCC-ACAATTGAGAA
*
22154156 TTATGAAACTTTTGAAAGATAAAATG
1 TT-TGAAACTTTTGAAAAATAAAATG
22154182 TCCTTTCACC
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
41 5 0.05
42 31 0.34
43 43 0.47
44 13 0.14
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (42 bp):
TTTGAAACTTTTGAAAAATAAAATGCTCCCCACAATTGAGAA
Found at i:22154263 original size:43 final size:41
Alignment explanation
Indices: 22154073--22154265 Score: 146
Period size: 43 Copynumber: 4.6 Consensus size: 41
22154063 AATTGAGAAC
* * *
22154073 TTGAAACTTTTGAAAAATAAAATGCTATCCC--ATAATTGAAGTT
1 TTGAAACTTTTG-AAAATAAAATGC---CCCTTACAACTGAGGTT
*
22154116 TTGAAACTTTTGAAAATAAAATGTTCCCC-TACAATTGAGGTT
1 TTGAAACTTTTGAAAATAAAATG--CCCCTTACAACTGAGGTT
* * * * *
22154158 ATGAAACTTTTGAAAGATAAAATGTCCTTTCACCACT-AGGGCT
1 TTGAAACTTTTGAAA-ATAAAATGCCCCTT-ACAACTGA-GGTT
*
22154201 TGGAAACTTTTG-AAATAAAATGCCCCCTTACAACTGAGGTT
1 TTGAAACTTTTGAAAATAAAATG-CCCCTTACAACTGAGGTT
22154242 TTGAAAC-TTTGAAGAAATAAAATG
1 TTGAAACTTTTG-A-AAATAAAATG
22154266 AGATATATGA
Statistics
Matches: 123, Mismatches: 15, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
40 4 0.03
41 27 0.22
42 44 0.36
43 47 0.38
44 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (41 bp):
TTGAAACTTTTGAAAATAAAATGCCCCTTACAACTGAGGTT
Found at i:22154781 original size:317 final size:318
Alignment explanation
Indices: 22154213--22154802 Score: 1040
Period size: 317 Copynumber: 1.9 Consensus size: 318
22154203 GAAACTTTTG
* *
22154213 AAATAAAATGCCCCCTTACAACTGAGGTTTTGAAACTTTGAAGAAATAAAATGAGATATATGATT
1 AAATAAAATGCCCCCTTACAACTGAGGCTTCGAAACTTTGAAGAAATAAAATGAGA-ATATGATT
* * *
22154278 TTCAAGATCATGCCTTAAGGTAGTATAGATCATTCTTATTTTATAAAAAGTTTTTCCCTAATAGA
65 TTCAAGATCACGCCTTAAGGTAGTATAGATCATTCTTATTTTAGAAAAAGTTTTTCCCTAATAAA
*
22154343 GGCATTGAAATTTAAAAAATTCATACCTTAAAGTGATTTCTTTCATCTCAACTGGACCATCATTG
130 GGCATTGAAATTTAAAAAATTCATACCTTAAAGTGATTTCTTCCATCTCAACTGGACCATCATTG
* *
22154408 ATCATTTTTCAATGACTTTTCTCGAAATCATCCTAACATCTACTTTCTCTTTCATACTTTCCAAA
195 ATCATTTTTCAATGACTTTTCTCCAAATCATCCCAACATCTACTTTCTCTTTCATACTTTCCAAA
22154473 CATATGCAATGAAAAAAAATATATTGCTCCCCCACAATTGAAGCCTTGAAACTTTGAAA
260 CATATGCAATGAAAAAAAATATATTGCTCCCCCACAATTGAAGCCTTGAAACTTTGAAA
*
22154532 AAATAAAATGCCTCCTTACAACTGAGGCTTCGAAACTTTGAAGAAATAAAATGAG-ATATGATTT
1 AAATAAAATGCCCCCTTACAACTGAGGCTTCGAAACTTTGAAGAAATAAAATGAGAATATGATTT
*
22154596 TCAAGATCACGCCTTAAGGTATTATAGATCATTCTTATTTTAGAAAAAGTTTTTCCCTAATAAAG
66 TCAAGATCACGCCTTAAGGTAGTATAGATCATTCTTATTTTAGAAAAAGTTTTTCCCTAATAAAG
22154661 GCATTGAAATTTAAAAAATTCATACCTTAAAGTGATTTCTTCCATCTCAACTGGACCATCATTGA
131 GCATTGAAATTTAAAAAATTCATACCTTAAAGTGATTTCTTCCATCTCAACTGGACCATCATTGA
* *
22154726 TCATTTTTCAATGTCTTTTCTCCAAATCTTCCCAACATCTACTTTCT-TCTTCATACTTTCCAAA
196 TCATTTTTCAATGACTTTTCTCCAAATCATCCCAACATCTACTTTCTCT-TTCATACTTTCCAAA
22154790 CATATGCAATGAA
260 CATATGCAATGAA
22154803 TGAAAAAACT
Statistics
Matches: 258, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
316 1 0.00
317 205 0.79
319 52 0.20
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (318 bp):
AAATAAAATGCCCCCTTACAACTGAGGCTTCGAAACTTTGAAGAAATAAAATGAGAATATGATTT
TCAAGATCACGCCTTAAGGTAGTATAGATCATTCTTATTTTAGAAAAAGTTTTTCCCTAATAAAG
GCATTGAAATTTAAAAAATTCATACCTTAAAGTGATTTCTTCCATCTCAACTGGACCATCATTGA
TCATTTTTCAATGACTTTTCTCCAAATCATCCCAACATCTACTTTCTCTTTCATACTTTCCAAAC
ATATGCAATGAAAAAAAATATATTGCTCCCCCACAATTGAAGCCTTGAAACTTTGAAA
Found at i:22155002 original size:36 final size:37
Alignment explanation
Indices: 22154957--22155057 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 37
22154947 CAAGATTTAT
* **
22154957 AAAGTTTTCAA-AGTTCGTAAAGGTTTCAAGATTTGCC
1 AAAGTTTTCAAGA-TTCATAAAGGTCCCAAGATTTGCC
*
22154994 AAAG-TTTCAAGATTCATAAAGGTCCCAAGATTTG-T
1 AAAGTTTTCAAGATTCATAAAGGTCCCAAGATTTGCC
* * * *
22155029 AAAGGTCTCAAAATACATAAAGGTCCCAA
1 AAAGTTTTCAAGATTCATAAAGGTCCCAA
22155058 ATAATTCTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
35 4 0.07
36 46 0.84
37 5 0.09
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (37 bp):
AAAGTTTTCAAGATTCATAAAGGTCCCAAGATTTGCC
Found at i:22155022 original size:18 final size:18
Alignment explanation
Indices: 22155001--22155057 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
22154991 GCCAAAGTTT
22155001 CAAGATTCATAAAGGTCC
1 CAAGATTCATAAAGGTCC
** *
22155019 CAAGATTTGTAAAGGTCT
1 CAAGATTCATAAAGGTCC
* *
22155037 CAAAATACATAAAGGTCC
1 CAAGATTCATAAAGGTCC
22155055 CAA
1 CAA
22155058 ATAATTCTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (18 bp):
CAAGATTCATAAAGGTCC
Found at i:22155194 original size:36 final size:36
Alignment explanation
Indices: 22155121--22155201 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
22155111 ATATCCAAAT
* * * *
22155121 ATTCACATTTGAAAATCTTAGAAGTTCACCGTTAAG
1 ATTCACATTTAAAAATCTTAGAAGCTCAACATTAAG
*
22155157 ATTTACATTTAAAAATCTTAGAAGCT-AACATTCAAG
1 ATTCACATTTAAAAATCTTAGAAGCTCAACATT-AAG
22155193 ATTCACATT
1 ATTCACATT
22155202 AAGAAATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 4 0.11
36 34 0.89
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (36 bp):
ATTCACATTTAAAAATCTTAGAAGCTCAACATTAAG
Done.