Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 48 of 213
Found at i:13029342 original size:62 final size:58
Alignment explanation
Indices: 13029257--13029374 Score: 150
Period size: 57 Copynumber: 2.0 Consensus size: 58
13029247 AATTGACAGT
*
13029257 AAAAAGGATCTATCCCAGATGGGTGATCCTATCTTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGGATCTATCCCAGATGGGTG-----ATCTTGATATAGCCCTCCCGAAAAATATGTGTG
*
13029320 AAAAA-GATCTAGT-CCGGATGGGTGATCTTGATATAGCCCTCCCGAAAAATATGTG
1 AAAAAGGATCTA-TCCCAGATGGGTGATCTTGATATAGCCCTCCCGAAAAATATGTG
13029375 AAAAATAGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
57 30 0.58
62 16 0.31
63 6 0.12
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (58 bp):
AAAAAGGATCTATCCCAGATGGGTGATCTTGATATAGCCCTCCCGAAAAATATGTGTG
Found at i:13029394 original size:57 final size:57
Alignment explanation
Indices: 13029287--13029399 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
13029277 GGGTGATCCT
* * * *
13029287 ATCTTGATATAGCCCTCCCGAAGAATATGTGTGAAAAAGATCTAGTCCGGATGGGTG
1 ATCTTGATATAGCCCTCCCGAAAAATATGTGTAAAAAAGATCTAGCCCGGACGGGTG
*
13029344 ATCTTGATATAGCCCTCCCGAAAAATATGTG-AAAAATAGATTTAGCCCGGACGGGT
1 ATCTTGATATAGCCCTCCCGAAAAATATGTGTAAAAA-AGATCTAGCCCGGACGGGT
13029400 AATCCAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
56 4 0.08
57 46 0.92
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (57 bp):
ATCTTGATATAGCCCTCCCGAAAAATATGTGTAAAAAAGATCTAGCCCGGACGGGTG
Found at i:13030996 original size:9 final size:9
Alignment explanation
Indices: 13030982--13031111 Score: 95
Period size: 9 Copynumber: 14.0 Consensus size: 9
13030972 TAAGTATAAT
13030982 TAAGTTATG
1 TAAGTTATG
13030991 TAAGTTATG
1 TAAGTTATG
* * *
13031000 ATATGATATA
1 -TAAGTTATG
*
13031010 T-ATTTATG
1 TAAGTTATG
13031018 T-A-TTATG
1 TAAGTTATG
13031025 TAAGTTATG
1 TAAGTTATG
* *
13031034 ATATGATATATA
1 -TAAG-T-TATG
13031046 TAAGTTATG
1 TAAGTTATG
13031055 TAAGTTATG
1 TAAGTTATG
* *
13031064 ATATGATATATA
1 -TAAG-T-TATG
13031076 TAAGTTATG
1 TAAGTTATG
13031085 TAAGTTATG
1 TAAGTTATG
*
13031094 TGAGTTATG
1 TAAGTTATG
13031103 TAAGTTATG
1 TAAGTTATG
13031112 ATATGATATA
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
7 6 0.06
8 6 0.06
9 55 0.58
10 14 0.15
11 8 0.08
12 6 0.06
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:13031056 original size:30 final size:30
Alignment explanation
Indices: 13030982--13031192 Score: 192
Period size: 30 Copynumber: 7.5 Consensus size: 30
13030972 TAAGTATAAT
13030982 TAAGTTATGTAAGTTATGATATGATATATA
1 TAAGTTATGTAAGTTATGATATGATATATA
*
13031012 TTTATGTATTATGTAAGTTATGATATGATATATA
1 --TAAG--TTATGTAAGTTATGATATGATATATA
13031046 TAAGTTATGTAAGTTATGATATGATATATA
1 TAAGTTATGTAAGTTATGATATGATATATA
*
13031076 TAAGTTATGTAAGTTATG---TGAGT-TATG
1 TAAGTTATGTAAGTTATGATATGA-TATATA
13031103 TAAGTTATG--A--TATGATAT-ATATATA
1 TAAGTTATGTAAGTTATGATATGATATATA
*
13031128 TAAG---T-T-A-TTATG-TATG---TATG
1 TAAGTTATGTAAGTTATGATATGATATATA
* *
13031148 TGAGTTATGTAAATTATGATATGATATATA
1 TAAGTTATGTAAGTTATGATATGATATATA
13031178 TAAGTTAT-TAAGTTA
1 TAAGTTATGTAAGTTA
13031193 AGATCCCAAG
Statistics
Matches: 150, Mismatches: 9, Indels: 43
0.74 0.04 0.21
Matches are distributed among these distances:
20 6 0.04
22 5 0.03
23 9 0.06
24 2 0.01
25 10 0.07
26 6 0.04
27 19 0.13
28 1 0.01
29 6 0.04
30 54 0.36
32 6 0.04
34 26 0.17
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.45
Consensus pattern (30 bp):
TAAGTTATGTAAGTTATGATATGATATATA
Found at i:13031151 original size:54 final size:52
Alignment explanation
Indices: 13031048--13031179 Score: 184
Period size: 54 Copynumber: 2.6 Consensus size: 52
13031038 GATATATATA
13031048 AGTTATGTAAGTTATGATATG----ATATATATAAGTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATATATAAGTTATGTAAGTTATGTG
*
13031096 AGTTATGTAAGTTATGATATGATATATATATATAAGTTAT-TATGTATGTATGTG
1 AGTTATGTAAGTTATGATATGATATATATATATAAGTTATGTAAG--T-TATGTG
*
13031150 AGTTATGTAAATTATGATATGATATATATA
1 AGTTATGTAAGTTATGATATGATATATATA
13031180 AGTTATTAAG
Statistics
Matches: 75, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
48 21 0.28
51 3 0.04
52 15 0.20
53 1 0.01
54 35 0.47
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (52 bp):
AGTTATGTAAGTTATGATATGATATATATATATAAGTTATGTAAGTTATGTG
Found at i:13031245 original size:9 final size:9
Alignment explanation
Indices: 13031221--13031309 Score: 72
Period size: 9 Copynumber: 9.9 Consensus size: 9
13031211 CAATTCTTTA
*
13031221 AAGTTAAGT
1 AAGTTATGT
*
13031230 AAATTATGT
1 AAGTTATGT
13031239 AAGTTATGT
1 AAGTTATGT
*
13031248 AAGTTTTGAT
1 AAGTTATG-T
* * *
13031258 ATGATATAT
1 AAGTTATGT
*
13031267 -ATTTATGT
1 AAGTTATGT
*
13031275 AAGTTATAT
1 AAGTTATGT
* *
13031284 AAATTATGC
1 AAGTTATGT
13031293 AAGTTATGT
1 AAGTTATGT
13031302 AAGTTATG
1 AAGTTATG
13031310 ATATATATTT
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
8 4 0.07
9 50 0.85
10 5 0.08
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.44
Consensus pattern (9 bp):
AAGTTATGT
Found at i:13031485 original size:19 final size:20
Alignment explanation
Indices: 13031444--13031486 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
13031434 ATTATATTGA
* * *
13031444 TAAAAAATATTTATAAGTTT
1 TAAAAAATATTTAAAAATAT
13031464 TAAAAAA-ATTTAAAAATAT
1 TAAAAAATATTTAAAAATAT
13031483 TAAA
1 TAAA
13031487 TATTAAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAAATATTTAAAAATAT
Found at i:13032175 original size:21 final size:21
Alignment explanation
Indices: 13032151--13032195 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
13032141 TGAAGTAATG
13032151 AATGATACAGAAGCAGAGACA
1 AATGATACAGAAGCAGAGACA
* *
13032172 AATGATGCAGAGGCAGAGACA
1 AATGATACAGAAGCAGAGACA
13032193 AAT
1 AAT
13032196 TTCATGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.27, T:0.11
Consensus pattern (21 bp):
AATGATACAGAAGCAGAGACA
Found at i:13033261 original size:25 final size:25
Alignment explanation
Indices: 13033210--13033259 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
13033200 AATTATTATA
* * *
13033210 TAATTCATATCAATTTTTGAAATTT
1 TAATTAATATCAAATTTTAAAATTT
13033235 TAATTAATAT-AAATTTTAAAATTT
1 TAATTAATATCAAATTTTAAAATTT
13033259 T
1 T
13033260 TATATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATTAATATCAAATTTTAAAATTT
Found at i:13033266 original size:20 final size:21
Alignment explanation
Indices: 13033241--13033279 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13033231 ATTTTAATTA
13033241 ATATAA-ATTTTAAAATTTTT
1 ATATAATATTTTAAAATTTTT
*
13033261 ATATAATTTTTTAAAATTT
1 ATATAATATTTTAAAATTT
13033280 AAACTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATAATATTTTAAAATTTTT
Found at i:13033466 original size:14 final size:14
Alignment explanation
Indices: 13033447--13033476 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13033437 AAATCCTAAA
*
13033447 CCCTAACCCTTAAC
1 CCCTAACACTTAAC
13033461 CCCTAACACTTAAC
1 CCCTAACACTTAAC
13033475 CC
1 CC
13033477 TTAAACCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.50, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAACACTTAAC
Found at i:13033706 original size:7 final size:7
Alignment explanation
Indices: 13033696--13033744 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
13033686 AAACTCCAAC
13033696 CCATAAT
1 CCATAAT
13033703 CCATAAT
1 CCATAAT
13033710 CCATAAT
1 CCATAAT
13033717 CCATAAT
1 CCATAAT
* *
13033724 CCCTAAAC
1 CCAT-AAT
13033732 CCATAAT
1 CCATAAT
*
13033739 TCATAA
1 CCATAA
13033745 ACATTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.27
Consensus pattern (7 bp):
CCATAAT
Found at i:13033745 original size:15 final size:15
Alignment explanation
Indices: 13033703--13033746 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
13033693 AACCCATAAT
*
13033703 CCATAATCCAT-AAT
1 CCATAATCCATAAAC
*
13033717 CCATAATCCCTAAAC
1 CCATAATCCATAAAC
*
13033732 CCATAATTCATAAAC
1 CCATAATCCATAAAC
13033747 ATTAAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (15 bp):
CCATAATCCATAAAC
Found at i:13033793 original size:14 final size:14
Alignment explanation
Indices: 13033771--13033815 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
13033761 TCTTAAGCCT
13033771 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
13033785 TATACCCTAAACCA
1 TAAACCCTAAACTA
*
13033799 TAAACTCTAAACTA
1 TAAACCCTAAACTA
13033813 TAA
1 TAA
13033816 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:13034207 original size:21 final size:21
Alignment explanation
Indices: 13034142--13034207 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
13034132 CGATTTTCAA
* * *
13034142 AAACCCTAAACCATAGACATT
1 AAACCCTAAACCCTAAACCTT
* ** *
13034163 AAACCTTAAATACTAACCCTT
1 AAACCCTAAACCCTAAACCTT
*
13034184 AAACCCTAAACCCTAAACCGT
1 AAACCCTAAACCCTAAACCTT
13034205 AAA
1 AAA
13034208 GCTTAAAATA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (21 bp):
AAACCCTAAACCCTAAACCTT
Found at i:13034214 original size:14 final size:14
Alignment explanation
Indices: 13034142--13034214 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 14
13034132 CGATTTTCAA
*
13034142 AAACCCTAAACCAT
1 AAACCCTAAACCTT
* **
13034156 AGACATTAAACCTT
1 AAACCCTAAACCTT
** *
13034170 AAATACTAACCCTT
1 AAACCCTAAACCTT
*
13034184 AAACCCTAAACCCT
1 AAACCCTAAACCTT
* *
13034198 AAACCGTAAAGCTT
1 AAACCCTAAACCTT
13034212 AAA
1 AAA
13034215 ATAAAATGAT
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.21
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:13034513 original size:152 final size:155
Alignment explanation
Indices: 13034232--13034562 Score: 424
Period size: 152 Copynumber: 2.1 Consensus size: 155
13034222 GATTTTTTGC
* * * * *
13034232 TGTTAGAAAGCGCTGCTAATGCCACTAAAGCTCAAAAAGAAAACGATGTCGTTTTGCTTAACTTC
1 TGTTAAAAATCGCCGCTAATGCTACTAAAGCTC-AAAAGAAAACGACGTCGTTTTGCTTAACTTC
*** * *
13034297 TTTGCGGCGTTTTCCAAAAAGCGCCGTTAATGCTTGATCTATAGCAGTGTTTATCAAAAGGCGCC
65 TTTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACCTATAGCAGTGTTTATCAAAAGGCGCC
*
13034362 GCTAATT-CTCGATCTATTACGGCGTT
130 GCT-ATTGCTCAATCTATTACGGCGTT
* *
13034388 TGTTAAAAATCGCCGCTAATGCTGCTAAAGCTC-AAA-AAAA-GACGTCGTTTTGCTTAACTTTT
1 TGTTAAAAATCGCCGCTAATGCTACTAAAGCTCAAAAGAAAACGACGTCGTTTTGCTTAACTTCT
* *
13034450 TTGCGGCGTTTTTCAAAAAGCGCAACTAATGCTTAACCTATAGCGGCAT-TTTA-CAGAAA-GCG
66 TTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACCTATAGCAG--TGTTTATCA-AAAGGCG
*
13034512 CCGCTATTGCTCAATCTATTGCGGCGTT
128 CCGCTATTGCTCAATCTATTACGGCGTT
13034540 TGTTAAAAATCGCCGCTAATGCT
1 TGTTAAAAATCGCCGCTAATGCT
13034563 CGATCTATTG
Statistics
Matches: 155, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
151 3 0.02
152 109 0.70
153 11 0.07
154 4 0.03
156 28 0.18
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (155 bp):
TGTTAAAAATCGCCGCTAATGCTACTAAAGCTCAAAAGAAAACGACGTCGTTTTGCTTAACTTCT
TTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACCTATAGCAGTGTTTATCAAAAGGCGCCG
CTATTGCTCAATCTATTACGGCGTT
Found at i:13034536 original size:40 final size:39
Alignment explanation
Indices: 13034450--13034574 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 39
13034440 CTTAACTTTT
* * ** * *
13034450 TTGCGGCGTTTTTCAAAAAGCGCAACTAATGCTTAACCTA
1 TTGCGGCATTTTAC-AAAAGCGCCGCTAATGCTCAATCTA
* *
13034490 TAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTA
1 TTGCGGCATTTTACA-AAAGCGCCGCTAATGCTCAATCTA
* * *
13034530 TTGCGGCGTTTGTTA-AAAATCGCCGCTAATGCTCGATCTA
1 TTGCGGC-ATT-TTACAAAAGCGCCGCTAATGCTCAATCTA
13034570 TTGCG
1 TTGCG
13034575 ATGTTTGTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 62 0.90
41 3 0.04
42 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (39 bp):
TTGCGGCATTTTACAAAAGCGCCGCTAATGCTCAATCTA
Found at i:13034581 original size:40 final size:40
Alignment explanation
Indices: 13034510--13034589 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
13034500 TTACAGAAAG
* *
13034510 CGCCGCTATTGCTCAATCTATTGCGGCGTTTGTTAAAAAT
1 CGCCGCTAATGCTCAATCTATTGCGACGTTTGTTAAAAAT
* *
13034550 CGCCGCTAATGCTCGATCTATTGCGATGTTTGTTAAAAAT
1 CGCCGCTAATGCTCAATCTATTGCGACGTTTGTTAAAAAT
13034590 TTGTCGCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (40 bp):
CGCCGCTAATGCTCAATCTATTGCGACGTTTGTTAAAAAT
Found at i:13034699 original size:195 final size:192
Alignment explanation
Indices: 13034352--13034756 Score: 528
Period size: 195 Copynumber: 2.1 Consensus size: 192
13034342 AGTGTTTATC
* * * *
13034352 AAAAGGCGCCGCTAATTCTCGATCTATTACGGCGTTTGTTAAAAATCGCCGCTAATGCTGCTAAA
1 AAAAAGCGCCGCTAATGCTCGATCTATTACGACGTTTGTTAAAAATCGCCGCTAATGCTGCCAAA
* *
13034417 GCTCAAAAAAAGACGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTTCAAAAAGCGCAACTAATGC
66 GCTCAAAAAAAGAAGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGC
*
13034482 TTAACCTATAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTATT-GCGGCGTTTGTT
131 TTAACCTATAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCT-TTAGCGGCGTTTCTT
* * * * *
13034544 AAAAATCGCCGCTAATGCTCGATCTATTGCGATGTTTGTTAAAAATTTGTCGCTAATGCCT-CCA
1 AAAAAGCGCCGCTAATGCTCGATCTATTACGACGTTTGTTAAAAA-TCGCCGCTAATG-CTGCCA
* * **
13034608 AAGCTCAACAAAAAACGAAGTTGTTTTGCTTAAC-TTTTTGCGGTGTTTTCCAAAAAGCGCCGCT
64 AAGCTC-A-AAAAAA-GAAGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACT
* * * * *
13034672 AATGCTTGACCTATAGTGGCGTTTTACAGAAAGCGCCGCTATTGCTCGATCTTTAGTGGCGTTTC
126 AATGCTTAACCTATAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTTTAGCGGCGTTTC
13034737 TT
191 TT
* *
13034739 AATAAGCGCCGCCAATGC
1 AAAAAGCGCCGCTAATGC
13034757 CACTAAAGCT
Statistics
Matches: 183, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
192 39 0.21
193 18 0.10
194 5 0.03
195 105 0.57
196 16 0.09
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (192 bp):
AAAAAGCGCCGCTAATGCTCGATCTATTACGACGTTTGTTAAAAATCGCCGCTAATGCTGCCAAA
GCTCAAAAAAAGAAGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGC
TTAACCTATAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTTTAGCGGCGTTTCTT
Found at i:13034709 original size:155 final size:156
Alignment explanation
Indices: 13034544--13034906 Score: 403
Period size: 156 Copynumber: 2.3 Consensus size: 156
13034534 GGCGTTTGTT
* * * * ** * * *
13034544 AAAAATCGCCGCTAATGCTCGATCTATT-GCGATGTTTGTTAAAAATTTGTCGCTAATGCCTCCA
1 AAAAAGCGCCGCTATTGCTCGATCT-TTAGCGACGTTTCTTAAAAA-GCGCCGCCAATGCCACCA
* * * *
13034608 AAGCTCAACAAA-A-AACGAAGTTGTTTTGCTTAAC-TTTTTGCGGTGTTTTCCAAAAAGCGCCG
64 AAGCTCAA-AAAGAGAACGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCA
* *
13034670 CTAATGCTTGACCTATAGTGGCGTTTTAC
128 CTAATGCTTGACATATAGCGGCGTTTTAC
* * * * *
13034699 AGAAAGCGCCGCTATTGCTCGATCTTTAGTGGCGTTTCTTAATAAGCGCCGCCAATGCCACTAAA
1 AAAAAGCGCCGCTATTGCTCGATCTTTAGCGACGTTTCTTAAAAAGCGCCGCCAATGCCACCAAA
* * *
13034764 GCTCAAAAAGAGGACGATGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTC
66 GCTCAAAAAGAGAACGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTA
* *
13034829 ATGCTTGACATGTAGCGGTGTTTTAC
131 ATGCTTGACATATAGCGGCGTTTTAC
* * *
13034855 AAAAAGTGCCGCTATTGCTCAATCTTTAGCGGCGTTT-TTCAAAAAGCGCCGC
1 AAAAAGCGCCGCTATTGCTCGATCTTTAGCGACGTTTCTT-AAAAAGCGCCGC
13034907 TAATTCTCGA
Statistics
Matches: 173, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
153 3 0.02
154 23 0.13
155 53 0.31
156 94 0.54
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (156 bp):
AAAAAGCGCCGCTATTGCTCGATCTTTAGCGACGTTTCTTAAAAAGCGCCGCCAATGCCACCAAA
GCTCAAAAAGAGAACGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTA
ATGCTTGACATATAGCGGCGTTTTAC
Found at i:13034750 original size:40 final size:40
Alignment explanation
Indices: 13034652--13034735 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
13034642 TTTTTGCGGT
* * *
13034652 GTTTTCCAAAAAGCGCCGCTAATGCTTGACCTATAGTGGC
1 GTTTTACAGAAAGCGCCGCTAATGCTCGACCTATAGTGGC
* * *
13034692 GTTTTACAGAAAGCGCCGCTATTGCTCGATCTTTAGTGGC
1 GTTTTACAGAAAGCGCCGCTAATGCTCGACCTATAGTGGC
13034732 GTTT
1 GTTT
13034736 CTTAATAAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (40 bp):
GTTTTACAGAAAGCGCCGCTAATGCTCGACCTATAGTGGC
Found at i:13034903 original size:196 final size:196
Alignment explanation
Indices: 13034647--13035126 Score: 540
Period size: 196 Copynumber: 2.5 Consensus size: 196
13034637 TTAACTTTTT
* ** * *
13034647 GCGGTGTTTTCCAAAAAGCGCCGCTAATGCTTGACCTATAGTGGCGTTTTACAGAAAGCGCCGCT
1 GCGGTGTTTTACAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTACAAAAAGCGCCGCT
* * *
13034712 -ATTGCTCGATCTT-TAGTGGCGTTTCTTAATAAGCGCCGCCAATGCCACTAAAGCTCAAAAAGA
66 AATT-CTCGAT-TTATAGCGGCGTTTCTTAAAAAGCGCAGCCAATGCCACTAAAGCTCAAAAAGA
** ** *
13034775 GGACGATGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTCATGCTTGACAT
129 AAACGAAATCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTAATGCTTGACAT
13034840 GTA
194 GTA
* * * * *
13034843 GCGGTGTTTTACAAAAAGTGCCGCTATTGCTCAATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCT
1 GCGGTGTTTTACAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTACAAAAAGCGCCGCT
* * * * *
13034908 AATTCTCGATTTATTGCGGTGTTTGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAA
66 AATTCTCGATTTATAGCGGCGTTTCTTAAAAAGCGCAGCCAATGCCACTAAAGCTCAAAAAGAAA
* *
13034973 ACGAAATCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCGAAAAGCGCCGCTAATGCTTGATCTAT
131 ACGAAATCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTAATGCTTGA-C-AT
13035038 -T-
194 GTA
* * * * * * * * * * *
13035039 GCGGCGATTTAGAGAAAGCGCTGCTATTGCT-TACCTATTGTGGTGTTTGT-TAAAAAGCGCCGC
1 GCGGTGTTTTACAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTT-TACAAAAAGCGCCGC
*
13035102 TAATTCTCGATTTATTGCGGCGTTT
65 TAATTCTCGATTTATAGCGGCGTTT
13035127 TTTTGTTCAA
Statistics
Matches: 240, Mismatches: 39, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
195 49 0.20
196 184 0.77
197 5 0.02
198 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (196 bp):
GCGGTGTTTTACAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTACAAAAAGCGCCGCT
AATTCTCGATTTATAGCGGCGTTTCTTAAAAAGCGCAGCCAATGCCACTAAAGCTCAAAAAGAAA
ACGAAATCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTAATGCTTGACATGT
A
Found at i:13034927 original size:80 final size:81
Alignment explanation
Indices: 13034788--13034948 Score: 182
Period size: 80 Copynumber: 2.0 Consensus size: 81
13034778 CGATGTCGTT
* * * * *
13034788 TTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTCATGCTTGACATGTAGCGGTGTTT-
1 TTGCTCAACTCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGACATATAGCGGTGTTTG
*
13034852 TACAAAAAGTGCCGCTA
66 T-CAAAAAGTGCAGCTA
* * * ** *
13034869 TTGCTCAA-TCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTCGATTTATTGCGGTGTTTG
1 TTGCTCAACTCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGACATATAGCGGTGTTTG
*
13034933 TTAAAAAGTGCAGCTA
66 TCAAAAAGTGCAGCTA
13034949 ATGCCACTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
80 57 0.86
81 9 0.14
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (81 bp):
TTGCTCAACTCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGACATATAGCGGTGTTTG
TCAAAAAGTGCAGCTA
Found at i:13034936 original size:351 final size:346
Alignment explanation
Indices: 13034232--13035101 Score: 1090
Period size: 351 Copynumber: 2.5 Consensus size: 346
13034222 GATTTTTTGC
* * * *
13034232 TGTTAGAAAGCGCTGCTAATGCCACTAAAGCTCAAAAAGAAAACGATGTCGTTTTGCTTAACTTC
1 TGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAGTCGTTTTGCTTAACTT-
* * *
13034297 TTTGCGGCGTTTTCCAAAAAGCGCCGTTAATGCTTGATCTATAGCAGTGTTTATCA-AAAGGCGC
65 TTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTA-CAGAAA-GCGC
* * * **
13034361 CGCTAATT-CTCGATCTATTACGGCGTTTGTTAAAAATCGCCGCTAATGCTGCTAAAGCTCAAAA
128 CGCT-ATTGCTCGATCTATTACGGCGTTTCTTAAAAAGCGCCGCCAATGCCACTAAAGCTCAAAA
* * *
13034425 AAAGACGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTTCAAAAAGCGCAACTAATGCTTAACCTA
192 AAAGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACATA
* *
13034490 TAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTATTGCGGCGTTTGTTAAAAATCGCCG
257 TAGCGGCATTTTACAAAAAGCGCCGCTATTGCTCAATCTATTGCGGCGTTTGTTAAAAAGCGCCG
13034555 CTAATGCTCGATCTATTGCGATGTT
322 CTAATGCTCGATCTATTGCGATGTT
* * * * *
13034580 TGTTAAAAATTTGTC-GCTAATGCCTCCAAAGCTCAACAA-AAAACGAAGTTGTTTTGCTTAACT
1 TGTTAAAAA-GTG-CAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAGTCGTTTTGCTTAACT
* * *
13034643 TTTTGCGGTGTTTTCCAAAAAGCGCCGCTAATGCTTGACCTATAGTGGCGTTTTACAGAAAGCGC
64 TTTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TTTACAGAAAGCGC
* *
13034708 CGCTATTGCTCGATCT-TTAGTGGCGTTTCTTAATAAGCGCCGCCAATGCCACTAAAGCTCAAAA
128 CGCTATTGCTCGATCTATTA-CGGCGTTTCTTAAAAAGCGCCGCCAATGCCACTAAAGCTCAAAA
* * * *
13034772 AGAGGACGATGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTCATGCTTGA
192 A-A--A-GACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAA
* ** *
13034837 CATGTAGCGGTGTTTTACAAAAAGTGCCGCTATTGCTCAATCT-TTAGCGGCGTTT-TTCAAAAA
253 CATATAGCGGCATTTTACAAAAAGCGCCGCTATTGCTCAATCTATT-GCGGCGTTTGTT-AAAAA
* * *
13034900 GCGCCGCTAATTCTCGATTTATTGCGGTGTT
316 GCGCCGCTAATGCTCGATCTATTGCGATGTT
* *
13034931 TGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAATCGTTTTGCTCAACTTT
1 TGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAGTCGTTTTGCTTAAC-TT
* * * *
13034996 TTTGCGGCGTTTTCCGAAAAGCGCCGCTAATGCTTGATCTATTGCGGCGATTTAGAGAAAGCGCT
65 TTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TTTACAGAAAGCGCC
* * ** * *
13035061 GCTATTGCT-TACCTATTGTGGTGTTTGTTAAAAAGCGCCGC
129 GCTATTGCTCGATCTATTACGGCGTTTCTTAAAAAGCGCCGC
13035102 TAATTCTCGA
Statistics
Matches: 448, Mismatches: 58, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
346 6 0.01
347 99 0.22
348 39 0.09
349 23 0.05
350 29 0.06
351 182 0.41
352 70 0.16
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (346 bp):
TGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAGTCGTTTTGCTTAACTTT
TTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTACAGAAAGCGCCGC
TATTGCTCGATCTATTACGGCGTTTCTTAAAAAGCGCCGCCAATGCCACTAAAGCTCAAAAAAAG
ACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACATATAGC
GGCATTTTACAAAAAGCGCCGCTATTGCTCAATCTATTGCGGCGTTTGTTAAAAAGCGCCGCTAA
TGCTCGATCTATTGCGATGTT
Found at i:13035041 original size:40 final size:39
Alignment explanation
Indices: 13034997--13035127 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 39
13034987 CTCAACTTTT
*
13034997 TTGCGGCGTTTTCCGAAAAGCGCCGCTAATGCTTGATCTA
1 TTGCGGCGTTTT-AGAAAAGCGCCGCTAATGCTTGATCTA
* * * *
13035037 TTGCGGCGATTTAGAGAAAGCGCTGCTATTGCTT-ACCTA
1 TTGCGGCGTTTTAGA-AAAGCGCCGCTAATGCTTGATCTA
* * * * *
13035076 TTGTGGTGTTTGTTA-AAAAGCGCCGCTAATTCTCGATTTA
1 TTGCGGCG-TT-TTAGAAAAGCGCCGCTAATGCTTGATCTA
13035116 TTGCGGCGTTTT
1 TTGCGGCGTTTT
13035128 TTTGTTCAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
38 2 0.03
39 28 0.39
40 38 0.54
41 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (39 bp):
TTGCGGCGTTTTAGAAAAGCGCCGCTAATGCTTGATCTA
Found at i:13037412 original size:37 final size:37
Alignment explanation
Indices: 13037370--13037440 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
13037360 TGATTGTTTA
* * *
13037370 ATTATAAAATATATT-ATTATTGTTATTATTTTATTAT
1 ATTATAAAATAAATTGATTA-TATTATTATATTATTAT
*
13037407 ATTATAAATTAAATTGATTATATTATTATATTAT
1 ATTATAAAATAAATTGATTATATTATTATATTAT
13037441 GAAATAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 25 0.86
38 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (37 bp):
ATTATAAAATAAATTGATTATATTATTATATTATTAT
Found at i:13037417 original size:29 final size:29
Alignment explanation
Indices: 13037394--13037450 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
13037384 TATTATTGTT
*
13037394 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAATT-AATTG
*
13037423 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATTAATT
13037451 AAGAAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATTAATTG
Found at i:13037549 original size:31 final size:32
Alignment explanation
Indices: 13037509--13037578 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
13037499 AAATGAGTAC
13037509 ATTTGTATTATATA-TA-TAATTAGTAAAAAGAT
1 ATTT-TATTATATATTATTAATTAGT-AAAAGAT
*
13037541 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATATATTATTAATTAGTAAAAGAT
13037573 -TTTTAT
1 ATTTTAT
13037579 ATGATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 14 0.40
32 13 0.37
33 8 0.23
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTATTATATATTATTAATTAGTAAAAGAT
Found at i:13037563 original size:33 final size:33
Alignment explanation
Indices: 13037516--13037578 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
13037506 TACATTTGTA
13037516 TTATATATATAATTAGTAAAAAGATATTTTATTAT
1 TTATATATATAATTAGT-AAAAGAT-TTTTATTAT
13037551 TTAT-TAT-TAATTAGTAAAAGATTTTTAT
1 TTATATATATAATTAGTAAAAGATTTTTAT
13037579 ATGATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.21
32 7 0.25
33 8 0.29
34 3 0.11
35 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (33 bp):
TTATATATATAATTAGTAAAAGATTTTTATTAT
Found at i:13037687 original size:18 final size:19
Alignment explanation
Indices: 13037664--13037699 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13037654 TGTAATATTT
*
13037664 ATATTTGTTATTA-AATAG
1 ATATTTATTATTATAATAG
13037682 ATATTTATTATTATAATA
1 ATATTTATTATTATAATA
13037700 ATTATTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
ATATTTATTATTATAATAG
Found at i:13040742 original size:29 final size:29
Alignment explanation
Indices: 13040701--13040758 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
13040691 TTTTTTAGTA
13040701 GGGTTCATGTTGAATA-AATGATTGAATTAG
1 GGGTTCATGTTG-ATAGAATGATTG-ATTAG
* *
13040731 GGGTTTAT-TTGATAGAATTATTGATTAG
1 GGGTTCATGTTGATAGAATGATTGATTAG
13040759 AATTGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.32
29 10 0.40
30 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (29 bp):
GGGTTCATGTTGATAGAATGATTGATTAG
Found at i:13041237 original size:18 final size:19
Alignment explanation
Indices: 13041201--13041237 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13041191 AGTAACTTTA
*
13041201 TTGAATTGAATTTAGAAAT
1 TTGAATTGAATTGAGAAAT
13041220 TTGAATTGAA-TGAGAAAT
1 TTGAATTGAATTGAGAAAT
13041238 ATGTGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGAATTGAATTGAGAAAT
Found at i:13043361 original size:12 final size:12
Alignment explanation
Indices: 13043344--13043369 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13043334 CAAAACAGGC
13043344 TTTTAGCGGCGT
1 TTTTAGCGGCGT
13043356 TTTTAGCGGCGT
1 TTTTAGCGGCGT
13043368 TT
1 TT
13043370 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:13043584 original size:41 final size:41
Alignment explanation
Indices: 13043515--13043880 Score: 507
Period size: 41 Copynumber: 8.9 Consensus size: 41
13043505 TGAGTTTTTG
* * * *
13043515 GGGCATTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTA
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
13043556 GGGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
13043597 GGGCCTTTAGCGGCGTTTGTGAAGAAGCGCCGCTAATGCTG
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
*
13043638 GGGCCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * *
13043679 AGGCCTTTTAGCGGCGTTTCTGAGGAAGCGCCGCTAATTCTC
1 GGGCC-TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
13043721 GGGCCTTTAGCGACGTTTTTGACGAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
13043762 TGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
13043803 TGGTCTTTAGCAGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
13043844 CGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAT
13043881 AATAATAAAA
Statistics
Matches: 289, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
41 253 0.88
42 36 0.12
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:13043727 original size:165 final size:163
Alignment explanation
Indices: 13043520--13043880 Score: 524
Period size: 165 Copynumber: 2.2 Consensus size: 163
13043510 TTTTGGGGCA
* *
13043520 TTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTAGGGCCTTTAGCGGCATTTTTGAGGAAGCG
1 TTTAGCGGCGTTTT-GAAAAAGCGCCGCTAATGCTAGGGCCTTTAGCGACATTTTTGACGAAGCG
* * * *
13043585 CCGCTAATGCTCGGGCCTTTAGCGGCGTTTGTGAAGAAGCGCCGCTAATGCTGGGGCCTTTAGCG
65 CCACTAATGCTCGGGCCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCA
13043650 GCATTTTTGAAGAAGCGCCGCTAATGCTCAGGCC
130 GCATTTTTGAAGAAGCGCCGCTAATGCTCAGGCC
** * * *
13043684 TTTTAGCGGCGTTTCTGAGGAAGCGCCGCTAATTCTCGGGCCTTTAGCGACGTTTTTGACGAAGC
1 -TTTAGCGGCGTTT-TGAAAAAGCGCCGCTAATGCTAGGGCCTTTAGCGACATTTTTGACGAAGC
* * * *
13043749 GCCACTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGTCTTTAGC
64 GCCACTAATGCTCGGGCCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGC
* * *
13043814 AGCGTTTTTGAAGAAGCGCCGCTAATGCTCCGGTC
129 AGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGCC
13043849 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 TTTAGCGGCG-TTTTGAAAAAGCGCCGCTAAT
13043881 AATAATAAAA
Statistics
Matches: 174, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
164 26 0.15
165 147 0.84
166 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (163 bp):
TTTAGCGGCGTTTTGAAAAAGCGCCGCTAATGCTAGGGCCTTTAGCGACATTTTTGACGAAGCGC
CACTAATGCTCGGGCCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCAG
CATTTTTGAAGAAGCGCCGCTAATGCTCAGGCC
Found at i:13044016 original size:21 final size:20
Alignment explanation
Indices: 13043992--13044042 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
13043982 ATTTCGTTGT
*
13043992 ATTTATTATATATGATAACAA
1 ATTTATT-TAAATGATAACAA
13044013 ATTTACATTTAAATGATAACAA
1 ATTT--ATTTAAATGATAACAA
13044035 ATTATATT
1 ATT-TATT
13044043 GTTTAATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTTATTTAAATGATAACAA
Found at i:13044589 original size:7 final size:7
Alignment explanation
Indices: 13044516--13044620 Score: 90
Period size: 7 Copynumber: 15.0 Consensus size: 7
13044506 TATTAAATAA
13044516 GGTTTAG
1 GGTTTAG
*
13044523 GGGTTAG
1 GGTTTAG
13044530 AGG-TTAG
1 -GGTTTAG
13044537 GG-TT-G
1 GGTTTAG
*
13044542 GGGTTATG
1 GGTTTA-G
13044550 GGTTTAG
1 GGTTTAG
13044557 GGTTTAG
1 GGTTTAG
13044564 GGTTTAG
1 GGTTTAG
*
13044571 GGTCTAG
1 GGTTTAG
13044578 GGTTTAG
1 GGTTTAG
* *
13044585 AGTTTTAA
1 -GGTTTAG
*
13044593 GGTTTAA
1 GGTTTAG
*
13044600 GGTTAAG
1 GGTTTAG
*
13044607 GGTTCAG
1 GGTTTAG
13044614 GGTTTAG
1 GGTTTAG
13044621 AATTTAAGGG
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
5 3 0.04
6 6 0.07
7 60 0.73
8 13 0.16
ACGTcount: A:0.18, C:0.02, G:0.42, T:0.38
Consensus pattern (7 bp):
GGTTTAG
Found at i:13044609 original size:36 final size:35
Alignment explanation
Indices: 13044552--13044634 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 35
13044542 GGGTTATGGG
* * * *
13044552 TTTAGGGTTTAGGGTTTAGGG-TCTAGGGTTTAGAGT
1 TTTAAGGTTTAAGGTTAAGGGTTC-AGGGTTTAGA-A
13044588 TTTAAGGTTTAAGGTTAAGGGTTCAGGGTTTAGAA
1 TTTAAGGTTTAAGGTTAAGGGTTCAGGGTTTAGAA
*
13044623 TTTAAGGGTTAA
1 TTTAAGGTTTAA
13044635 TGGTCGGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 11 0.27
36 28 0.68
37 2 0.05
ACGTcount: A:0.24, C:0.02, G:0.34, T:0.40
Consensus pattern (35 bp):
TTTAAGGTTTAAGGTTAAGGGTTCAGGGTTTAGAA
Found at i:13045386 original size:29 final size:30
Alignment explanation
Indices: 13045315--13045386 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 30
13045305 GCCAATGCCC
* * *
13045315 AATTTAAGGTTTAGGGGTTAGGGGTTTAAG
1 AATTTAAAGTTTAGGGGTTAAGAGTTTAAG
* *
13045345 -AGTTAAA-TGTTAGGGGTTAAGAG-TTAGG
1 AATTTAAAGT-TTAGGGGTTAAGAGTTTAAG
13045373 AATTTAAAGTTTAG
1 AATTTAAAGTTTAG
13045387 AGATTTAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 5 0.15
29 27 0.82
30 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (30 bp):
AATTTAAAGTTTAGGGGTTAAGAGTTTAAG
Found at i:13050124 original size:86 final size:86
Alignment explanation
Indices: 13049979--13050194 Score: 215
Period size: 86 Copynumber: 2.5 Consensus size: 86
13049969 TGTTTTTAGT
* * * * * * *
13049979 GGCGTTT-TTGCAAGAAGCGTTGCTAAAGGT-TTGTTCTATAGCAGCGTTTGTGGGAAAAGCGCC
1 GGCGTTTGTTGGAA-AAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGCAAAAGCGCC
*
13050042 ACT-AAAGATCCTGATCTATAGC
65 ACTAAAAG-TCATGATCTATAGC
* *
13050064 GGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGCAAAAGCGTCG
1 GGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGCAAAAGCGCCA
* *
13050129 CTAAAAGTCATGGTCTTTAGC
66 CTAAAAGTCATGATCTATAGC
* * * * * * *
13050150 TGCGTTTGTAGG-AAAGTGCCGCTAAAGCTCATGGTCTTTAGCGGC
1 GGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGC
13050195 ATTTATTGCT
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
85 50 0.46
86 55 0.50
87 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (86 bp):
GGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGCAAAAGCGCCA
CTAAAAGTCATGATCTATAGC
Found at i:13050183 original size:42 final size:42
Alignment explanation
Indices: 13050013--13050221 Score: 195
Period size: 43 Copynumber: 4.9 Consensus size: 42
13050003 AAAGGTTTGT
* * * *
13050013 TCTATAGCAGCGTTTGTGGGAAAAGCGCCACTAAAGATCCTGA
1 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAG-TCATGA
* *
13050056 TCTATAGCGGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGA
1 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAA-GTCATGA
* * *
13050099 TCTATAGCGGCGTTTGTAGCAAAAGCGTCGCTAAAAGTCATGG
1 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCT-AAAGTCATGA
* * * *
13050142 TCTTTAGCTGCGTTTGTAGG-AAAGTGCCGCTAAAGCTCATGG
1 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAG-TCATGA
* * * * * *
13050184 TCTTTAGCGGCATTTATTGCTAAAAACGCCGCTAAAGT
1 TCTATAGCGGCGTTTGTAG-GAAAAGCGCCGCTAAAGT
13050222 TAGCGATGCT
Statistics
Matches: 139, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.03
42 30 0.22
43 88 0.63
44 17 0.12
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (42 bp):
TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGTCATGA
Found at i:13050320 original size:22 final size:22
Alignment explanation
Indices: 13050292--13050334 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13050282 TAGTGGCGCT
*
13050292 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
13050314 AAAAAGCGCTGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
13050335 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:13061175 original size:43 final size:43
Alignment explanation
Indices: 13061128--13061312 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
13061118 TTTATGTGAA
*
13061128 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCAC
* * *
13061171 AAACGCCGCTAAAGACCATAACCTTTTAACGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACC-TTTAGCGGCGCTTTTATCAC
* * *
13061215 AAACGCCGCTAAAGACCATGACCTTTAGCAGCGTTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCAC
* * ** *
13061258 AAATGCCACTAAAGAATATGACCTTTAGCGGCACTTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTATCAC
13061302 AAACGCCGCTA
1 AAACGCCGCTA
13061313 TAGAACAAAC
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
43 65 0.53
44 57 0.47
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCAC
Found at i:13061226 original size:87 final size:87
Alignment explanation
Indices: 13061107--13061312 Score: 254
Period size: 87 Copynumber: 2.4 Consensus size: 87
13061097 AGTGTCGTTA
* * * *
13061107 TTTTAACGGCG-TTTATGTGAAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
1 TTTTAACGGCGCTTT-TGTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTATCAC
* *
13061171 AAACGCCGCTAAAGACCATAACC
65 AAACGCCACTAAAGAACATAACC
* *
13061194 TTTTAACGGCGCTTTTGTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGTTTTTGTCACA
1 TTTTAACGGCGCTTTTGTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTATCACA
* * *
13061259 AATGCCACTAAAGAATATGACC
66 AACGCCACTAAAGAACATAACC
* * *
13061281 -TTTAGCGGCACTTTTTATCACAAACGCCGCTA
1 TTTTAACGGCGC-TTTTGTCACAAACGCCGCTA
13061313 TAGAACAAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
86 9 0.09
87 91 0.88
88 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (87 bp):
TTTTAACGGCGCTTTTGTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTATCACA
AACGCCACTAAAGAACATAACC
Found at i:13061784 original size:43 final size:42
Alignment explanation
Indices: 13061718--13061808 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 42
13061708 CTCATTGCAA
* * *
13061718 TGTAATAAAAAATACAATGCATTTTCTTAATCAAGTAAATCT
1 TGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
* *
13061760 TGGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCT
1 T-GTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
13061803 TGTAAT
1 TGTAAT
13061809 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 6 0.14
43 37 0.86
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (42 bp):
TGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
Found at i:13062415 original size:148 final size:150
Alignment explanation
Indices: 13062145--13062442 Score: 519
Period size: 148 Copynumber: 2.0 Consensus size: 150
13062135 TCAAATCCCA
13062145 ACATCATAACCATTTTAATATATCTAATGTTATATAAAATGGGGTACAACAAAGGATGAGAAAAC
1 ACATCATAACCATTTTAATATATCTAATGTTATATAAAATGGGGTACAACAAAGGATGAGAAAAC
13062210 TTACTCGTTATTATTAACAAGCCCCATTCTCTTTACCGTTTATGGAATTGCCATAATGAAATGAT
66 TTACTCGTTATTATTAACAAGCCCCATTCTCTTTACCGTTTATGGAATTGCCATAATGAAATGAT
*
13062275 GAATCCAAGCATCCGGTAGC
131 GAATCCAAGCATCCGATAGC
*
13062295 ACATCATAACCATTTTAGTATATCTAATG-T-TATAAAATGGGGTACAACAAAGGATGAGAAAAC
1 ACATCATAACCATTTTAATATATCTAATGTTATATAAAATGGGGTACAACAAAGGATGAGAAAAC
** * * *
13062358 TTACTCGTTATTATTGGCAGGCCCCATTCTCTTTACCGTTTATGGAATTGTCATAATGACATGAT
66 TTACTCGTTATTATTAACAAGCCCCATTCTCTTTACCGTTTATGGAATTGCCATAATGAAATGAT
13062423 GAATCCAAGCATCCGATAGC
131 GAATCCAAGCATCCGATAGC
13062443 CTTTGCTTTT
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 112 0.79
149 1 0.01
150 28 0.20
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (150 bp):
ACATCATAACCATTTTAATATATCTAATGTTATATAAAATGGGGTACAACAAAGGATGAGAAAAC
TTACTCGTTATTATTAACAAGCCCCATTCTCTTTACCGTTTATGGAATTGCCATAATGAAATGAT
GAATCCAAGCATCCGATAGC
Found at i:13070796 original size:22 final size:22
Alignment explanation
Indices: 13070761--13070802 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13070751 AGTCAGATAT
13070761 GAAACAAAGGAGGAAAGAAGTA
1 GAAACAAAGGAGGAAAGAAGTA
*
13070783 GAAA-AAAGGCAGGAGAGAAG
1 GAAACAAAGG-AGGAAAGAAG
13070803 AAGGGCACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.57, C:0.05, G:0.36, T:0.02
Consensus pattern (22 bp):
GAAACAAAGGAGGAAAGAAGTA
Found at i:13076200 original size:44 final size:44
Alignment explanation
Indices: 13076151--13076572 Score: 220
Period size: 44 Copynumber: 9.2 Consensus size: 44
13076141 AGTGTAAGGA
* *
13076151 AGCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCAG
1 AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* * * * *
13076195 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACTGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* **
13076239 AGCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAATAG
1 AGCAGATTGAAGCTAGAA--ATCTTATCTCTCTGAGA-TTAC---AG--TAG
* *
13076288 ATCGCATCAGATTGAAGCCAGAAATCTTATCTCTTTGAGATTACAGT-G
1 A--G---CAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* * * *
13076336 AAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 -AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* **
13076381 AGTAGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAG
1 AGCAGATTGAAGCTAGAA--ATCTTATCTCTCTGAGA-TTAC-----AGTAG
* *
13076430 ATCGCATCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAG-CG
1 A--G---CAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
** * * *
13076478 AAGCAGATTGAAGCTAGTGATCCTATCTCCCTGAGATTACAGTGG
1 -AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* * *
13076523 AGCGGATT-AAG--AGACCGATCTTATCTCTCTGA-AGTTGCAGTAG
1 AGCAGATTGAAGCTAGA--AATCTTATCTCTCTGAGA-TTACAGTAG
13076566 AGCAGAT
1 AGCAGAT
13076573 CGCATCAAGT
Statistics
Matches: 289, Mismatches: 50, Indels: 79
0.69 0.12 0.19
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
43 40 0.14
44 161 0.56
45 2 0.01
47 3 0.01
48 2 0.01
49 13 0.04
51 4 0.01
54 47 0.16
55 8 0.03
56 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
Found at i:13076409 original size:142 final size:141
Alignment explanation
Indices: 13076153--13076579 Score: 703
Period size: 142 Copynumber: 3.0 Consensus size: 141
13076143 TGTAAGGAAG
*
13076153 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGGA-AGCAGATTGAAGCTAGTAATCCT
*
13076218 ATCTCCCTGAGATTACTGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
65 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
13076283 AATAGATCGCAT
130 AGTAGATCGCAT
*
13076295 CAGATTGAAGCCAGAAATCTTATCTCTTTGAGATTACAGTGAAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAG-GAAGCAGATTGAAGCTAGTAATCCT
**
13076360 ATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
65 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
13076425 AGTAGATCGCAT
130 AGTAGATCGCAT
*
13076437 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGAAGCAGATTGAAGCTAGTGATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAG-GAAGCAGATTGAAGCTAGTAATCCT
* * ** *
13076502 ATCTCCCTGAGATTACAGTGGAGCGGATTAAGA-GACCGATCTTATCTCTCTGAAGTTGCAGTAG
65 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
13076566 AGCAGATCGCAT
130 AGTAGATCGCAT
13076578 CA
1 CA
13076580 AGTCTTGCCA
Statistics
Matches: 267, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
141 40 0.15
142 226 0.85
143 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (141 bp):
CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGGAAGCAGATTGAAGCTAGTAATCCTA
TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
GTAGATCGCAT
Found at i:13076518 original size:98 final size:97
Alignment explanation
Indices: 13076339--13076520 Score: 215
Period size: 98 Copynumber: 1.9 Consensus size: 97
13076329 TACAGTGAAG
* * * * * *
13076339 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGAAGCAGATTAAAAT-AAGGATCCT
*
13076404 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* * **
13076437 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGAAGCAGATTGAAGCT-AGTGATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGAAGCAGATT-AAAATAAG-GATCC
13076501 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
13076521 GGAGCGGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
97 4 0.06
98 63 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGAAGCAGATTAAAATAAGGATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:13082707 original size:14 final size:14
Alignment explanation
Indices: 13082676--13082723 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
13082666 TCCCAACTCT
* *
13082676 TAAACAATAAACCA
1 TAAACCATAATCCA
* *
13082690 TAAACCGTAATCCC
1 TAAACCATAATCCA
13082704 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
13082719 TAAAC
1 TAAAC
13082724 TTTAAAATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:13082777 original size:14 final size:14
Alignment explanation
Indices: 13082748--13082792 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
13082738 TCTTAAACTT
*
13082748 TAAACCCTACACCA
1 TAAACCCTAAACCA
* *
13082762 TATACCTTAAACCA
1 TAAACCCTAAACCA
*
13082776 TAAACCCTAAACTA
1 TAAACCCTAAACCA
13082790 TAA
1 TAA
13082793 TCATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:13083473 original size:41 final size:41
Alignment explanation
Indices: 13083428--13083661 Score: 299
Period size: 41 Copynumber: 5.7 Consensus size: 41
13083418 CATTAACAGT
* *
13083428 GCTTTTTTAGAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
* **
13083469 GCTTTTACAAAAATGCCGCTAAAGCCCCTATAATTAGCGAC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
* * * *
13083510 GCTTTTTCAAAAACGCTGCTAAAGCCCCTAGCATTAGTGGC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
* * *
13083551 GCTCTTTCAAAAATGCCGCTAAAGCCCCTATCATTAGCGGC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
*
13083592 GCTTTTTCAAAAATGCCGCCAAAAG-CCCTGAGCATTAGCGAC
1 GCTTTTTCAAAAATGCCG-CTAAAGCCCCT-AGCATTAGCGAC
* * *
13083634 GCTTTTTTAAAAACGCCGATAAAGCCCC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCC
13083662 GAAATGTCAG
Statistics
Matches: 165, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
41 131 0.79
42 34 0.21
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (41 bp):
GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
Found at i:13083605 original size:123 final size:124
Alignment explanation
Indices: 13083438--13083661 Score: 344
Period size: 123 Copynumber: 1.8 Consensus size: 124
13083428 GCTTTTTTAG
* *
13083438 AAATGCCGCTAAAGCCCCTAGCATTAGCGACGCTTTTACAAAAATGCCG-CTAAAGCCCCT-ATA
1 AAATGCCGCTAAAGCCCCTAGCATTAGCGACGCTTTTACAAAAATGCCGCCAAAAG-CCCTGAGA
* *
13083501 ATTAGCGACGCTTTTTCAAAAACGCTGCTAAAGCCCCTAGCATTAGTGGCGCTCTTTCAA
65 ATTAGCGACGCTTTTTCAAAAACGCCGATAAAGCCCCTAGCATTAGTGGCGCTCTTTCAA
* * * *
13083561 AAATGCCGCTAAAGCCCCTATCATTAGCGGCGCTTTTTCAAAAATGCCGCCAAAAGCCCTGAGCA
1 AAATGCCGCTAAAGCCCCTAGCATTAGCGACGCTTTTACAAAAATGCCGCCAAAAGCCCTGAGAA
*
13083626 TTAGCGACGCTTTTTTAAAAACGCCGATAAAGCCCC
66 TTAGCGACGCTTTTTCAAAAACGCCGATAAAGCCCC
13083662 GAAATGTCAG
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
123 50 0.56
124 40 0.44
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (124 bp):
AAATGCCGCTAAAGCCCCTAGCATTAGCGACGCTTTTACAAAAATGCCGCCAAAAGCCCTGAGAA
TTAGCGACGCTTTTTCAAAAACGCCGATAAAGCCCCTAGCATTAGTGGCGCTCTTTCAA
Found at i:13093394 original size:20 final size:20
Alignment explanation
Indices: 13093365--13093430 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
13093355 AGAAAAAGCT
* *
13093365 TTTACTAATATTTCTAACGA
1 TTTACCAATATTTCTAAGGA
*
13093385 TTTACCAATA--T-T--GGC
1 TTTACCAATATTTCTAAGGA
13093400 TTTACCAATATTTCTAAGGA
1 TTTACCAATATTTCTAAGGA
13093420 TTTACCAATAT
1 TTTACCAATAT
13093431 CGTAAGATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
15 11 0.30
17 2 0.05
18 2 0.05
20 22 0.59
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTACCAATATTTCTAAGGA
Found at i:13099516 original size:25 final size:25
Alignment explanation
Indices: 13099484--13099538 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
13099474 TAATTTAATC
*
13099484 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
13099508 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
13099533 ATATAT
1 ATATAT
13099539 AACTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:13099771 original size:47 final size:43
Alignment explanation
Indices: 13099713--13099945 Score: 156
Period size: 47 Copynumber: 5.2 Consensus size: 43
13099703 TATGAATTTG
13099713 TATAA-TTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTTAAAATAATTA-TATTAAATATAATTTAATAAT-ATA
** * * ** *
13099757 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTCT-ATGAATTTA
1 TATAATTT--TAAAATAATT-ATATTAAATATAATT-TAAT-AATATA
13099804 TATAA-TTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTTAAAATAATT-ATATTAAATATAATTTAATAAT-ATA
** * * *
13099848 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT--TAAAATAATT-ATATTAAATATAAT-TTA-AT-AATATA
13099895 TATAA-TTTAAAAT-ATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTTAAAATAATT-ATATTAAATATAATTTAATAAT-ATA
13099938 TATAATTT
1 TATAATTT
13099946 ATACATTTAA
Statistics
Matches: 145, Mismatches: 26, Indels: 36
0.70 0.13 0.17
Matches are distributed among these distances:
42 3 0.02
43 23 0.16
44 45 0.31
45 6 0.04
46 8 0.06
47 52 0.36
48 8 0.06
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (43 bp):
TATAATTTTAAAATAATTATATTAAATATAATTTAATAATATA
Found at i:13099784 original size:91 final size:91
Alignment explanation
Indices: 13099688--13099945 Score: 473
Period size: 91 Copynumber: 2.8 Consensus size: 91
13099678 TAATTATACC
* *
13099688 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
13099753 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
13099779 TAATAAATTTTCTTCTATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
13099844 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
13099870 TAATAAATTTTCTTATATGAATTTATATAATTTAAAAT-ATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
13099934 GATATATAATTT
66 GATATATAATTT
13099946 ATACATTTAA
Statistics
Matches: 162, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 38 0.23
91 124 0.77
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:13106394 original size:22 final size:19
Alignment explanation
Indices: 13106356--13106395 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
13106346 AATTGTAACA
13106356 TATAATTTAAAATTTTAAT
1 TATAATTTAAAATTTTAAT
13106375 TATAATATTAACATATTTTAA
1 TATAAT-TTAA-A-ATTTTAA
13106396 CTTTAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 1 0.06
22 7 0.39
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATTTAAAATTTTAAT
Found at i:13106605 original size:16 final size:16
Alignment explanation
Indices: 13106584--13106614 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13106574 ATACTTTAAT
13106584 TTCAGTGGTTAAGTGG
1 TTCAGTGGTTAAGTGG
13106600 TTCAGTGGTTAAGTG
1 TTCAGTGGTTAAGTG
13106615 TCTGGTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.35, T:0.39
Consensus pattern (16 bp):
TTCAGTGGTTAAGTGG
Found at i:13108335 original size:34 final size:34
Alignment explanation
Indices: 13108292--13108360 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
13108282 ACTTTGATTC
*
13108292 AGATTCTCATAAATAAACTGGGTTTCAAAGGTTT
1 AGATTCTCATAAACAAACTGGGTTTCAAAGGTTT
13108326 AGATTCTCATAAACAAACTGGGTTTCAAAGGTTT
1 AGATTCTCATAAACAAACTGGGTTTCAAAGGTTT
13108360 A
1 A
13108361 TTTTGATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (34 bp):
AGATTCTCATAAACAAACTGGGTTTCAAAGGTTT
Found at i:13109531 original size:5 final size:5
Alignment explanation
Indices: 13109521--13109548 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13109511 AAAAATATTT
13109521 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
13109549 GAGATGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:13118598 original size:21 final size:21
Alignment explanation
Indices: 13118572--13118612 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13118562 ATCTGCTCAA
* *
13118572 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
13118593 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
13118613 TTGCTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:13125898 original size:35 final size:35
Alignment explanation
Indices: 13125858--13125927 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
13125848 TTTGCGAACA
13125858 TCGTCCCATTGAACTATTTCAACTTCGAGACATCT
1 TCGTCCCATTGAACTATTTCAACTTCGAGACATCT
*
13125893 TCGTCCCATTGAACTATTTCAACTTTGAGACATCT
1 TCGTCCCATTGAACTATTTCAACTTCGAGACATCT
13125928 ACTTTAGGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (35 bp):
TCGTCCCATTGAACTATTTCAACTTCGAGACATCT
Found at i:13131450 original size:22 final size:23
Alignment explanation
Indices: 13131420--13131472 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
13131410 CAATATTATT
13131420 AAATATATTTAATA-ATATAATAA
1 AAAT-TATTTAATATATATAATAA
* *
13131443 AAATTA-TTAATATATTTAATAT
1 AAATTATTTAATATATATAATAA
*
13131465 AATTTATT
1 AAATTATT
13131473 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 6 0.24
22 14 0.56
23 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATTATTTAATATATATAATAA
Found at i:13131498 original size:16 final size:14
Alignment explanation
Indices: 13131477--13131532 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 14
13131467 TTTATTATTT
13131477 TAATAATTTTTTGATA
1 TAATAATTTTTT-A-A
*
13131493 TTATAATTTTTTAA
1 TAATAATTTTTTAA
*
13131507 TAATAATTTTTAACAA
1 TAATAATTTTT--TAA
13131523 TAATAATTTT
1 TAATAATTTT
13131533 AAATTTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.31
15 1 0.03
16 23 0.66
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (14 bp):
TAATAATTTTTTAA
Found at i:13135810 original size:13 final size:13
Alignment explanation
Indices: 13135792--13135818 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13135782 TATAATAACA
13135792 TGTTTTAGATTCC
1 TGTTTTAGATTCC
13135805 TGTTTTAGATTCC
1 TGTTTTAGATTCC
13135818 T
1 T
13135819 CTTGTAACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TGTTTTAGATTCC
Found at i:13143925 original size:46 final size:46
Alignment explanation
Indices: 13143824--13143985 Score: 249
Period size: 46 Copynumber: 3.6 Consensus size: 46
13143814 TACATATGAT
* *
13143824 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTCC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
13143867 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
13143913 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
13143959 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
13143986 AGTACTCAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
43 10 0.09
44 5 0.05
45 19 0.17
46 75 0.69
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:13148370 original size:27 final size:27
Alignment explanation
Indices: 13148332--13148426 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
13148322 TCCATTCAGT
*
13148332 GTTCACCACAAAAGCATTCCTTTTAGA
1 GTTCACCACAAAGGCATTCCTTTTAGA
* * *
13148359 GTTCGCCACAAAGGAATTCCTTTTAAA
1 GTTCACCACAAAGGCATTCCTTTTAGA
* * *
13148386 GTTCGCCACAAAGGCTATT-ATTTAAGA
1 GTTCACCACAAAGGC-ATTCCTTTTAGA
13148413 GTTCACCACAAAGG
1 GTTCACCACAAAGG
13148427 TTATTCTTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 55 0.95
28 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (27 bp):
GTTCACCACAAAGGCATTCCTTTTAGA
Found at i:13152490 original size:19 final size:20
Alignment explanation
Indices: 13152461--13152501 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
13152451 GTAATATTGG
13152461 TTGAGACTCACTAAGT-TCTA
1 TTGAGACTCAC-AAGTATCTA
13152481 TTGA-ACTCACAAGTATCTA
1 TTGAGACTCACAAGTATCTA
13152500 TT
1 TT
13152502 TGTAATGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TTGAGACTCACAAGTATCTA
Found at i:13160194 original size:19 final size:20
Alignment explanation
Indices: 13160170--13160209 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
13160160 TAAATTGTAT
*
13160170 AAAATTGAAAACT-TAAATA
1 AAAATTAAAAACTCTAAATA
*
13160189 AAAATTAAAAATTCTAAATA
1 AAAATTAAAAACTCTAAATA
13160209 A
1 A
13160210 TATAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATTAAAAACTCTAAATA
Found at i:13160341 original size:21 final size:22
Alignment explanation
Indices: 13160317--13160359 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
13160307 AATTTCAATA
13160317 ATTTATAAAATTTTAT-AAAAT
1 ATTTATAAAATTTTATCAAAAT
**
13160338 ATTTATGTAATTTTATCAAAAT
1 ATTTATAAAATTTTATCAAAAT
13160360 TTAGGCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTATAAAATTTTATCAAAAT
Found at i:13160360 original size:11 final size:10
Alignment explanation
Indices: 13160318--13160361 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
13160308 ATTTCAATAA
13160318 TTTATAAAAT
1 TTTATAAAAT
13160328 TTTATAAAAT
1 TTTATAAAAT
**
13160338 ATTTATGTAAT
1 -TTTATAAAAT
13160349 TTTATCAAAAT
1 TTTAT-AAAAT
13160360 TT
1 TT
13160362 AGGCTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (10 bp):
TTTATAAAAT
Found at i:13167807 original size:15 final size:14
Alignment explanation
Indices: 13167786--13167821 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
13167776 ATAATCCTTA
*
13167786 ATAATTATCTTAAT
1 ATAATTATCCTAAT
13167800 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
13167815 ATAATTA
1 ATAATTA
13167822 AAATATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:13173785 original size:11 final size:11
Alignment explanation
Indices: 13173771--13173812 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
13173761 ATGCTGTCTG
13173771 AATGTTGTTTA
1 AATGTTGTTTA
13173782 AATGTTGTCTT-
1 AATGTTGT-TTA
*
13173793 AATGTTGGTTA
1 AATGTTGTTTA
13173804 AATGTTGTT
1 AATGTTGTT
13173813 CGTTTTTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 2 0.07
11 23 0.85
12 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.21, T:0.52
Consensus pattern (11 bp):
AATGTTGTTTA
Found at i:13173790 original size:22 final size:22
Alignment explanation
Indices: 13173760--13173880 Score: 102
Period size: 22 Copynumber: 5.4 Consensus size: 22
13173750 TTAGCATACT
* *
13173760 AATGCTGTCTGAATGTTGTTTA
1 AATGTTGTCTGAATGTTGGTTA
*
13173782 AATGTTGTCTTAATGTTGGTTA
1 AATGTTGTCTGAATGTTGGTTA
* * *
13173804 AATGTTGT-TCG-TTTTTGAGCATA
1 AATGTTGTCT-GAATGTTG-G-TTA
* *
13173827 CTAATGTTGTCCGAATGTTGTTTA
1 --AATGTTGTCTGAATGTTGGTTA
*
13173851 AATGTTGTCCGAATGTTGGTTA
1 AATGTTGTCTGAATGTTGGTTA
13173873 AATGTTGT
1 AATGTTGT
13173881 TCGTTTTTGA
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
21 5 0.06
22 57 0.72
23 2 0.03
24 2 0.03
25 9 0.11
26 4 0.05
ACGTcount: A:0.22, C:0.08, G:0.23, T:0.46
Consensus pattern (22 bp):
AATGTTGTCTGAATGTTGGTTA
Found at i:13173829 original size:69 final size:69
Alignment explanation
Indices: 13173713--13173907 Score: 302
Period size: 69 Copynumber: 2.8 Consensus size: 69
13173703 GCTTGATAAT
* * * *
13173713 AATGCTGTCTGAATGTTGGTTAAACGATGTTCGTTTTTTAGCATACTAATGCTGTCTGAATGTTG
1 AATGTTGTCTGAATGTTGGTTAAATGTTGTTCGTTTTTGAGCATACTAATGCTGTCTGAATGTTG
13173778 TTTA
66 TTTA
* * *
13173782 AATGTTGTCTTAATGTTGGTTAAATGTTGTTCGTTTTTGAGCATACTAATGTTGTCCGAATGTTG
1 AATGTTGTCTGAATGTTGGTTAAATGTTGTTCGTTTTTGAGCATACTAATGCTGTCTGAATGTTG
13173847 TTTA
66 TTTA
*
13173851 AATGTTGTCCGAATGTTGGTTAAATGTTGTTCGTTTTTGAGCATA-TCAATGCTGTCT
1 AATGTTGTCTGAATGTTGGTTAAATGTTGTTCGTTTTTGAGCATACT-AATGCTGTCT
13173908 AAATTGGAAC
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
68 1 0.01
69 113 0.99
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.45
Consensus pattern (69 bp):
AATGTTGTCTGAATGTTGGTTAAATGTTGTTCGTTTTTGAGCATACTAATGCTGTCTGAATGTTG
TTTA
Found at i:13173845 original size:11 final size:11
Alignment explanation
Indices: 13173829--13173868 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
13173819 TGAGCATACT
13173829 AATGTTGTCCG
1 AATGTTGTCCG
***
13173840 AATGTTGTTTA
1 AATGTTGTCCG
13173851 AATGTTGTCCG
1 AATGTTGTCCG
13173862 AATGTTG
1 AATGTTG
13173869 GTTAAATGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (11 bp):
AATGTTGTCCG
Found at i:13178208 original size:23 final size:22
Alignment explanation
Indices: 13178168--13178221 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
13178158 AAATAAAACA
* *
13178168 TTTGTAGATAAACTACTAGTTGG
1 TTTGTAGATAAACCACTA-CTGG
* *
13178191 TTTGTGGATAAGCCACTACTGG
1 TTTGTAGATAAACCACTACTGG
*
13178213 TTTGCAGAT
1 TTTGTAGAT
13178222 TATTAAACTG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (22 bp):
TTTGTAGATAAACCACTACTGG
Found at i:13178357 original size:38 final size:38
Alignment explanation
Indices: 13178308--13178405 Score: 160
Period size: 38 Copynumber: 2.6 Consensus size: 38
13178298 AATGCAAAAA
* *
13178308 CAGTGGACATGCTTTACATGTATTCAGTTCAAAACTAC
1 CAGTAGACATGCTTAACATGTATTCAGTTCAAAACTAC
* *
13178346 CAGTAGACATGCTTAACATGTATTCAGTTCAACACTAG
1 CAGTAGACATGCTTAACATGTATTCAGTTCAAAACTAC
13178384 CAGTAGACATGCTTAACATGTA
1 CAGTAGACATGCTTAACATGTA
13178406 CTCAATAGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (38 bp):
CAGTAGACATGCTTAACATGTATTCAGTTCAAAACTAC
Found at i:13179682 original size:2 final size:2
Alignment explanation
Indices: 13179675--13179699 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13179665 ATTGAAGGGT
13179675 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
13179700 ATTATCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13184067 original size:52 final size:52
Alignment explanation
Indices: 13184010--13184109 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
13184000 ACAAATTTAG
**
13184010 CCCTCAA-ATTTCACATATTGTATCAATTTAGTCATAATTTTAAAAAAATTAA
1 CCCTCAACATTT-ACATATTGTATCAATTTAGTCATAATACTAAAAAAATTAA
* * *
13184062 CCCTCAACATTTACATATTGTCTCAATTTGGTCCTAATACTAAAAAAA
1 CCCTCAACATTTACATATTGTATCAATTTAGTCATAATACTAAAAAAA
13184110 ATCCAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 38 0.90
53 4 0.10
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (52 bp):
CCCTCAACATTTACATATTGTATCAATTTAGTCATAATACTAAAAAAATTAA
Found at i:13185955 original size:21 final size:20
Alignment explanation
Indices: 13185917--13185957 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
13185907 ATGATAATAG
*
13185917 TATTTTAATTTTAGAATATA
1 TATTTTAATTTTAAAATATA
13185937 TATTTTAATTTTTAAAATATA
1 TATTTTAA-TTTTAAAATATA
13185958 ATAATATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTTAATTTTAAAATATA
Found at i:13186324 original size:17 final size:17
Alignment explanation
Indices: 13186299--13186332 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13186289 TTTTTCTTAA
*
13186299 GTATTATTGATAATTTT
1 GTATAATTGATAATTTT
*
13186316 GTATAATTGATTATTTT
1 GTATAATTGATAATTTT
13186333 TAGAATTTAA
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:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (17 bp):
GTATAATTGATAATTTT
Found at i:13187298 original size:25 final size:24
Alignment explanation
Indices: 13187264--13187312 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
13187254 GTAAATTTTA
* * *
13187264 CAAAAATTATTATTTTAAAATATT
1 CAAAAATTATAAGTATAAAATATT
13187288 CAAAAATTTATAAGTATAAAATATT
1 CAAAAA-TTATAAGTATAAAATATT
13187313 GCTTCCCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
CAAAAATTATAAGTATAAAATATT
Found at i:13206830 original size:21 final size:20
Alignment explanation
Indices: 13206785--13206830 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
13206775 ATAGCCATAT
* *
13206785 AAGTGCATATAGGGGCATGA
1 AAGTGCAAATAGGGGCACGA
*
13206805 GAGTGCAAATCAGGGGCACGA
1 AAGTGCAAAT-AGGGGCACGA
13206826 AAGTG
1 AAGTG
13206831 TAATCAAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.35, C:0.13, G:0.37, T:0.15
Consensus pattern (20 bp):
AAGTGCAAATAGGGGCACGA
Found at i:13215872 original size:36 final size:37
Alignment explanation
Indices: 13215825--13215896 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
13215815 AAAAGGTTGA
13215825 AAATAAATTTTT-TTATTTTTT-AATAATTTTAAAATTT
1 AAATAAATTTTTATT-TTTTTTGAAT-ATTTTAAAATTT
*
13215862 AAAT-AATTTTTATTTTTTTTGAATTTTTTAAAATT
1 AAATAAATTTTTATTTTTTTTGAATATTTTAAAATT
13215897 AGAAGTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 23 0.72
37 9 0.28
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (37 bp):
AAATAAATTTTTATTTTTTTTGAATATTTTAAAATTT
Found at i:13219335 original size:18 final size:18
Alignment explanation
Indices: 13219312--13219352 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
13219302 TTTAAAAATC
13219312 AAATTTAAACCAGAGATT
1 AAATTTAAACCAGAGATT
*
13219330 AAATTTAAACTAGAGATT
1 AAATTTAAACCAGAGATT
13219348 AAATT
1 AAATT
13219353 CACACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (18 bp):
AAATTTAAACCAGAGATT
Found at i:13219359 original size:18 final size:18
Alignment explanation
Indices: 13219312--13219359 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
13219302 TTTAAAAATC
* *
13219312 AAATTTAAACCAGAGATT
1 AAATTCAAACTAGAGATT
*
13219330 AAATTTAAACTAGAGATT
1 AAATTCAAACTAGAGATT
*
13219348 AAATTCACACTA
1 AAATTCAAACTA
13219360 TATAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.29
Consensus pattern (18 bp):
AAATTCAAACTAGAGATT
Found at i:13229070 original size:205 final size:205
Alignment explanation
Indices: 13228718--13229096 Score: 578
Period size: 205 Copynumber: 1.8 Consensus size: 205
13228708 AATTTAATTT
* * *
13228718 CTATTTGACAAATCAGTTTTTATTGAATTATTTGAAATTGTGTATGCCATTGAATTATTCAAATA
1 CTATTTGACAAATCAATTGTTATTGAATTATTTGAAATTGTGTATGCCAATGAATTATTCAAATA
* * * * *
13228783 TGATACAAAACATATTTTAAATGTTGATTCAAATGTGATTATTTTTTGTATCAAACTGAATTGCA
66 TGATACAAAACATATTTTAAATATTAATTCAAATATGATTATTGTTTGTATCAAACTGAATTACA
*
13228848 TGTTTGGATTTTTGTAAACTTATTGTCTGCCATGTGCAAACTAAGAGACTTAGGAAATTAGACAC
131 AGTTTGGATTTTTGTAAACTTATTGTCTGCCATGTGCAAACTAAGAGACTTAGGAAATTAGACAC
13228913 AAATAAGTTC
196 AAATAAGTTC
* *
13228923 CTATTTGACAAATCAATTGTTATTGAATTATTTGAAGTTGTGTATGTCAATGAATTATTCAAATA
1 CTATTTGACAAATCAATTGTTATTGAATTATTTGAAATTGTGTATGCCAATGAATTATTCAAATA
* * * * * *
13228988 TGTTTCAAAATATTTTTTAGATATTAATTCAAATATGATTATTGTTTGTATCAAATTGAATTACA
66 TGATACAAAACATATTTTAAATATTAATTCAAATATGATTATTGTTTGTATCAAACTGAATTACA
* * *
13229053 AGTTTGGATTTTTGTAAACTTTTTGTCTGTCATGTGCATACTAA
131 AGTTTGGATTTTTGTAAACTTATTGTCTGCCATGTGCAAACTAA
13229097 TAGCCTTGGG
Statistics
Matches: 154, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
205 154 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (205 bp):
CTATTTGACAAATCAATTGTTATTGAATTATTTGAAATTGTGTATGCCAATGAATTATTCAAATA
TGATACAAAACATATTTTAAATATTAATTCAAATATGATTATTGTTTGTATCAAACTGAATTACA
AGTTTGGATTTTTGTAAACTTATTGTCTGCCATGTGCAAACTAAGAGACTTAGGAAATTAGACAC
AAATAAGTTC
Found at i:13229463 original size:40 final size:40
Alignment explanation
Indices: 13229399--13229532 Score: 214
Period size: 40 Copynumber: 3.4 Consensus size: 40
13229389 TATTTTTGTA
* *
13229399 TTGGATATTGTTTGTCATTGTCTAGGTTGTATTAAAGTGT
1 TTGGTTATTGTCTGTCATTGTCTAGGTTGTATTAAAGTGT
* *
13229439 TTGGTTATTGTCTGTCATTATCTAGGTTGTATGAAAGTGT
1 TTGGTTATTGTCTGTCATTGTCTAGGTTGTATTAAAGTGT
* *
13229479 TTGGCTATTGTCTGTCATTGCCTAGGTTGTATTAAAGTGT
1 TTGGTTATTGTCTGTCATTGTCTAGGTTGTATTAAAGTGT
13229519 TTGGTTATTGTCTG
1 TTGGTTATTGTCTG
13229533 CCACTACCTT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.18, C:0.08, G:0.25, T:0.49
Consensus pattern (40 bp):
TTGGTTATTGTCTGTCATTGTCTAGGTTGTATTAAAGTGT
Found at i:13231598 original size:14 final size:15
Alignment explanation
Indices: 13231579--13231615 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
13231569 AATGGCATAG
13231579 AAATAATATAAA-AA
1 AAATAATATAAATAA
13231593 AAATAA-ATAAATAA
1 AAATAATATAAATAA
13231607 AAATCAATA
1 AAAT-AATA
13231616 ACATGCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 12 0.60
15 2 0.10
16 1 0.05
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATAATATAAATAA
Found at i:13231994 original size:17 final size:17
Alignment explanation
Indices: 13231947--13232017 Score: 67
Period size: 17 Copynumber: 4.3 Consensus size: 17
13231937 AAAGTATATA
*
13231947 TATATGCATATAAAA-G
1 TATATGTATATAAAATG
* *
13231963 T-TAGGATATAAAAAATG
1 TATATG-TATATAAAATG
13231980 TATATGTATATAAAATG
1 TATATGTATATAAAATG
* *
13231997 TAAATGTATAT-ATATG
1 TATATGTATATAAAATG
13232013 TATAT
1 TATAT
13232018 AAAAGTTATG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 3 0.07
16 16 0.36
17 22 0.50
18 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.13, T:0.38
Consensus pattern (17 bp):
TATATGTATATAAAATG
Found at i:13232148 original size:3 final size:3
Alignment explanation
Indices: 13232140--13232234 Score: 97
Period size: 3 Copynumber: 32.0 Consensus size: 3
13232130 GTATATATAG
* *
13232140 TAA TAA TAA TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
13232188 TAA TAA CTTAA TAA CAA GAA -AA TAA -AA T-T TAA TAA AAA TAA TAA
1 TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13232232 TAA
1 TAA
13232235 ATAAAAAAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
2 5 0.06
3 69 0.90
5 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13232520 original size:21 final size:23
Alignment explanation
Indices: 13232499--13232553 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
13232489 GGGTATCTAC
*
13232499 AAATTATATCTT-TAAGATTACA
1 AAATCATATCTTCTAAGATTACA
*
13232521 AAATCATATCTTCTAAGATTTC-
1 AAATCATATCTTCTAAGATTACA
*
13232543 ATATCATATCT
1 AAATCATATCT
13232554 AAGATTGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.42
Consensus pattern (23 bp):
AAATCATATCTTCTAAGATTACA
Found at i:13232529 original size:22 final size:22
Alignment explanation
Indices: 13232499--13232574 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
13232489 GGGTATCTAC
*
13232499 AAATTATATCTTTAAGATTACA
1 AAATCATATCTTTAAGATTACA
*
13232521 AAATCATATCTTCTAAGATTTC-
1 AAATCATATCTT-TAAGATTACA
* *
13232543 ATATCATATC--TAAGATTGCA
1 AAATCATATCTTTAAGATTACA
*
13232563 TATATCATATCT
1 -AAATCATATCT
13232575 AAGATCATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.17
21 10 0.22
22 20 0.43
23 8 0.17
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
AAATCATATCTTTAAGATTACA
Found at i:13232556 original size:19 final size:19
Alignment explanation
Indices: 13232524--13232579 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 19
13232514 GATTACAAAA
13232524 TCATATC-T-TCTAAGATT
1 TCATATCATATCTAAGATT
13232541 TCATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
13232560 GCATATATCATATCTAAGAT
1 TC--ATATCATATCTAAGAT
13232580 CATATCTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.21
18 1 0.03
19 10 0.29
21 16 0.47
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (19 bp):
TCATATCATATCTAAGATT
Found at i:13232599 original size:14 final size:12
Alignment explanation
Indices: 13232566--13232591 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13232556 GATTGCATAT
13232566 ATCATATCTAAG
1 ATCATATCTAAG
13232578 ATCATATCTAAG
1 ATCATATCTAAG
13232590 AT
1 AT
13232592 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:13233451 original size:44 final size:44
Alignment explanation
Indices: 13233403--13233586 Score: 228
Period size: 44 Copynumber: 4.2 Consensus size: 44
13233393 CTGTTGCTTG
*
13233403 GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGATCA
1 GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
* ** * *
13233447 GGGAGATAGGA-CCTACAATCTTCAATTTATTCCACTACT-TCCTA
1 GGGAGATAGGATTC-ACAATCTTCAACCTATTCCACTGCTGACC-A
* * * * *
13233491 GGGGGATAGAATTCTCAATCGTCAACCTATTCCACTGTTGACCA
1 GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
*
13233535 GGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCA
1 GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
13233579 GGGAGATA
1 GGGAGATA
13233587 AGGCTAGAGT
Statistics
Matches: 114, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
43 2 0.02
44 109 0.96
45 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
GGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCA
Found at i:13233704 original size:88 final size:88
Alignment explanation
Indices: 13233576--13233993 Score: 638
Period size: 88 Copynumber: 4.8 Consensus size: 88
13233566 CCACTGCTGA
** * * * * *
13233576 CCAGGGAGATAAGGCTAGAGTCATCGATCTGCTTCGCTGTCGGTACAGGAATGCAAGATCTGCTA
1 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
*
13233641 TTTTTAACCTACTCCGCTGCAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* *
13233664 CCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGAGCTGCTA
1 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
**
13233729 TTTTTTGCCTGCTCCGCTGCAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* *
13233752 CCAGGGAGGCAAGGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGAGCTGCTA
1 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
* *
13233817 TTTTTTACCTGCTCCGCTGTAAC
66 TTTTTAACCTGCTCCGCTGCAAC
13233840 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
1 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
*
13233905 TTTTTAGCCTGCTCCGCTGCAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* * * * *
13233928 CTAGGGAGGCAAAGCTAGTGTATTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTA
1 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
13233993 T
66 T
13233994 CTTCGATCTA
Statistics
Matches: 306, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 306 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (88 bp):
CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
TTTTTAACCTGCTCCGCTGCAAC
Found at i:13233806 original size:44 final size:44
Alignment explanation
Indices: 13233665--13233896 Score: 182
Period size: 44 Copynumber: 5.3 Consensus size: 44
13233655 CGCTGCAACC
* *
13233665 CAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * * * ****
13233709 CAGGAAGGCAAGAGCTGCTATTTTTTG-CCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGT-GTCTTCGATCTGCTTCGCTGTCGGTG
* *
13233753 CAGGGAGGCAAGGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * ** * * ****
13233797 CAGGAAGGCAAGAGCTGCTATTTTTTACCTGCTCCGCTGT-AACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
*
13233841 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
13233885 CAGGAAGGCAAG
1 CAGGAAGGCAAG
13233897 ATCTGCTATT
Statistics
Matches: 132, Mismatches: 50, Indels: 12
0.68 0.26 0.06
Matches are distributed among these distances:
42 4 0.03
43 34 0.26
44 56 0.42
45 34 0.26
46 4 0.03
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
Found at i:13233982 original size:44 final size:44
Alignment explanation
Indices: 13233681--13234002 Score: 176
Period size: 44 Copynumber: 7.3 Consensus size: 44
13233671 GGTAAGGCTG
*
13233681 GTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGAGCT
1 GTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGAGCT
* * * * * *** *
13233725 GCTATTTTTTG-CCTGCTCCGCTG-CAACCCAGGGAGGCAAG-GCT
1 G-T-GTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGAGCT
* *
13233768 GGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGAGCT
1 -GTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGAGCT
* * ** * * *** *
13233813 GCTATTTTTTACCTGCTCCGCTGT-AACCCAGGGAGGCAAG-GCT
1 G-TGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGAGCT
* *
13233856 GGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT
1 -GTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGAGCT
* ** * * ** *
13233901 GCTAT-TTTTAGCCTGCTCCGCTG-CA-ACCTAGGGAGGCAA-AGCT
1 G-TGTCTTCGA-TCTGCTTCGCTGTCAGTGC-AGGAAGGCAAGAGCT
* *
13233944 AGTGTATTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCT
1 -GTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGAGCT
*
13233989 GCTATCTTCGATCT
1 G-TGTCTTCGATCT
13234003 ACTTTACGTC
Statistics
Matches: 193, Mismatches: 66, Indels: 37
0.65 0.22 0.12
Matches are distributed among these distances:
42 4 0.02
43 48 0.25
44 80 0.41
45 57 0.30
46 4 0.02
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.28
Consensus pattern (44 bp):
GTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGAGCT
Found at i:13234032 original size:44 final size:44
Alignment explanation
Indices: 13233973--13234262 Score: 228
Period size: 44 Copynumber: 6.6 Consensus size: 44
13233963 GCTGTCAGTG
* *
13233973 CAGGAAGGCAAGATCTGCTATCTTCGATCTACTTTACGTCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTTACGCCAATA
* * * * *
13234017 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTTA-CGCCAATA
** * *
13234062 TGGGAAGACAAGATCTAC-ATCTTCGATCCACTTCCTA--CCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTT--TACGCCAATA
* * * *
13234105 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTTACGCCAATA
* * * * *
13234149 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGTA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTT-ACGCCAATA
** * * ** * *
13234194 TGGGAAGACAAGATCTAC-ATCTTCGATCCACTTCGCTACCTATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTTAC-GCCAATA
* * *
13234238 TAGGAAGATAGGATCTGCTATCTTC
1 CAGGAAGACAAGATCTGCTATCTTC
13234263 ACTAATCTGC
Statistics
Matches: 193, Mismatches: 44, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.01
43 20 0.10
44 126 0.65
45 45 0.23
46 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTACTTTACGCCAATA
Found at i:13234113 original size:88 final size:88
Alignment explanation
Indices: 13233973--13234262 Score: 284
Period size: 88 Copynumber: 3.3 Consensus size: 88
13233963 GCTGTCAGTG
* * *
13233973 CAGGAAGGCAAGATCTGCTATCTTCGATCTACTT--TACGTCAATACATGAAGACAAGATCTGCT
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCTAC--CAATATAGGAAGACAAGATCTGCT
* *
13234036 TTCTTCGATCTACTTCACCACCAGTA
64 ATCTTCGATCTACTTCA-CACCAATA
** * * * *
13234062 TGGGAAGACAAGATCTAC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTAT
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTAT
*
13234126 CTTCGATCTACTTCACGCCAATA
66 CTTCGATCTACTTCACACCAATA
* * * * *
13234149 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCC-ACCAGTATGGGAAGACAAGATCTAC-
1 CAGGAAGACAAGATCTGCTATCTTCGATCTAC-TT-CCTACCAATATAGGAAGACAAGATCTGCT
* * *
13234212 ATCTTCGATCCACTTCGCTACCTATA
64 ATCTTCGATCTACTTCAC-ACCAATA
* * *
13234238 TAGGAAGATAGGATCTGCTATCTTC
1 CAGGAAGACAAGATCTGCTATCTTC
13234263 ACTAATCTGC
Statistics
Matches: 163, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
87 20 0.12
88 77 0.47
89 61 0.37
90 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (88 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTAT
CTTCGATCTACTTCACACCAATA
Found at i:13234134 original size:132 final size:133
Alignment explanation
Indices: 13233987--13234262 Score: 482
Period size: 132 Copynumber: 2.1 Consensus size: 133
13233977 AAGGCAAGAT
* *
13233987 CTGCTATCTTCGATCTACTTTACGTCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
13234052 ACCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTC-CTACCAATATAGGAAGACAG
66 ACCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACAG
13234116 GAC
131 GAC
*
13234119 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTT
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * *
13234184 GCCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCTATATAGGAAGATAG
66 ACCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACAG
*
13234249 GAT
131 GAC
13234252 CTGCTATCTTC
1 CTGCTATCTTC
13234263 ACTAATCTGC
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
132 105 0.77
133 31 0.23
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (133 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
ACCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACAG
GAC
Found at i:13235884 original size:16 final size:16
Alignment explanation
Indices: 13235863--13235903 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
13235853 CGGTAGAGTT
13235863 TTTTTTTTGCGCCATC
1 TTTTTTTTGCGCCATC
*
13235879 TTTTTTTTACGCCATC
1 TTTTTTTTGCGCCATC
13235895 TTTTTTTTG
1 TTTTTTTTG
13235904 GGCAATATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.20, G:0.10, T:0.63
Consensus pattern (16 bp):
TTTTTTTTGCGCCATC
Found at i:13239494 original size:27 final size:26
Alignment explanation
Indices: 13239438--13239510 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 26
13239428 AAAAGGGTAC
* *
13239438 AAAATATATACATGTACATATATAAA
1 AAAATATATACATATACATAGATAAA
*
13239464 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TA-AA
*
13239493 AAAAGATAATTACATATA
1 AAAATAT-A-TACATATA
13239511 TATATAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 4 0.11
29 7 0.18
30 8 0.21
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATATATACATATACATAGATAAA
Found at i:13239494 original size:30 final size:30
Alignment explanation
Indices: 13239458--13239514 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13239448 CATGTACATA
*
13239458 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
13239488 TATAAAAAAGATAATTACATATATATA
1 TATAAAAAAGATAATTACATATATATA
13239515 TAAACAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:13239699 original size:17 final size:17
Alignment explanation
Indices: 13239677--13239720 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
13239667 TAGGAAATAA
13239677 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
13239694 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
13239711 -ATATGTATAT
1 AAAATGTATAT
13239721 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:13239851 original size:3 final size:3
Alignment explanation
Indices: 13239845--13239877 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
13239835 TATATAGTAG
13239845 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13239878 TGTACAAGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13252905 original size:14 final size:15
Alignment explanation
Indices: 13252886--13252922 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
13252876 AATGGCATAG
13252886 AAATAATATAAA-AA
1 AAATAATATAAATAA
13252900 AAATAA-ATAAATAA
1 AAATAATATAAATAA
13252914 AAATCAATA
1 AAAT-AATA
13252923 ACATGCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 12 0.60
15 2 0.10
16 1 0.05
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATAATATAAATAA
Found at i:13253099 original size:28 final size:29
Alignment explanation
Indices: 13253051--13253121 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
13253041 GGGTACAAGA
* *
13253051 TATATACATGTACATATATAAAAA-A-AAT
1 TATATACATATA-ATAAATAAAAAGATAAT
13253079 TATATACATATAATAGAATAAAAAGATAAT
1 TATATACATATAATA-AATAAAAAGATAAT
* *
13253109 TACATATATATAA
1 TATATACATATAA
13253122 ACAAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.08
28 18 0.50
29 1 0.03
30 14 0.39
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (29 bp):
TATATACATATAATAAATAAAAAGATAAT
Found at i:13253122 original size:22 final size:22
Alignment explanation
Indices: 13253061--13253131 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 22
13253051 TATATACATG
* *
13253061 TACATATATAAAAAAAATTATA
1 TACATATATATAAAAAATAATA
13253083 TACATATAATAGAATAAAAAGATAAT-
1 TACATAT-AT---ATAAAAA-ATAATA
13253109 TACATATATATAAACAAATAATA
1 TACATATATATAAA-AAATAATA
13253132 ATAATTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
22 17 0.43
23 4 0.10
25 2 0.05
26 13 0.32
27 4 0.10
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.30
Consensus pattern (22 bp):
TACATATATATAAAAAATAATA
Found at i:13253297 original size:17 final size:17
Alignment explanation
Indices: 13253263--13253303 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13253253 AAAAGTTAGG
*
13253263 ATATAAAAAAGTATATGT
1 ATAT-AAAAAGTAAATGT
*
13253281 ATATAAAATGTAAATGT
1 ATATAAAAAGTAAATGT
13253298 ATATAA
1 ATATAA
13253304 TGTATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (17 bp):
ATATAAAAAGTAAATGT
Found at i:13253437 original size:3 final size:3
Alignment explanation
Indices: 13253429--13253523 Score: 85
Period size: 3 Copynumber: 33.0 Consensus size: 3
13253419 GTATATATAG
* *
13253429 TAA TAA TAA TAA TAA TGA TAA TGA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
13253476 TAA TAA CTTAA TAA CAA GAA -AA TAA -AA T-T TAA TAA -AA -AA TAA
1 TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13253518 TAA TAA
1 TAA TAA
13253524 AAAAAGACTA
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
2 11 0.14
3 63 0.82
5 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13253487 original size:17 final size:15
Alignment explanation
Indices: 13253431--13253489 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 15
13253421 ATATATAGTA
13253431 ATAA-TAATAATAAT
1 ATAATTAATAATAAT
13253445 GATAATGATAATAATAAT
1 -ATAAT--TAATAATAAT
13253463 ATAA-TAATAATAAT
1 ATAATTAATAATAAT
13253477 AATAACTTAATAA
1 -ATAA-TTAATAA
13253490 CAAGAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 10 0.26
15 8 0.21
17 10 0.26
18 10 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (15 bp):
ATAATTAATAATAAT
Found at i:13253815 original size:22 final size:22
Alignment explanation
Indices: 13253787--13253828 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13253777 AATTATATCT
13253787 TAAGATTACAAATCATATCTTC
1 TAAGATTACAAATCATATCTTC
* *
13253809 TAAGATTTCATATCATATCT
1 TAAGATTACAAATCATATCT
13253829 AAGATTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAGATTACAAATCATATCTTC
Found at i:13253831 original size:19 final size:19
Alignment explanation
Indices: 13253799--13253852 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
13253789 AGATTACAAA
13253799 TCATATC-T-TCTAAGATT
1 TCATATCATATCTAAGATT
13253816 TCATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
13253835 GCATATCATATCTAAGAT
1 TCATATCATATCTAAGAT
13253853 CATATCTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 7 0.21
18 1 0.03
19 26 0.76
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (19 bp):
TCATATCATATCTAAGATT
Found at i:13253872 original size:14 final size:12
Alignment explanation
Indices: 13253839--13253864 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13253829 AAGATTGCAT
13253839 ATCATATCTAAG
1 ATCATATCTAAG
13253851 ATCATATCTAAG
1 ATCATATCTAAG
13253863 AT
1 AT
13253865 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Done.