Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 101 of 228
Found at i:29308164 original size:47 final size:46
Alignment explanation
Indices: 29308022--29308173 Score: 147
Period size: 47 Copynumber: 3.4 Consensus size: 46
29308012 CATTTAATGG
* * *
29308022 CACTTTCCTCACAAACG-C-C--GCTAAAGAACATGGCCTTTAGCGG
1 CACTTTCCCCACAAACGTCGCTAGCTAAAG-ACATGACCTTTAGCGA
* * * *
29308065 CACTTTCCCCACAAAAACATCGCTA--TAAA-ATATGCCCTTTAGTGA
1 CACTTTCCCCAC--AAACGTCGCTAGCTAAAGACATGACCTTTAGCGA
*
29308110 CGCTTTCCCCACAAACGTCGCTAGCTAAAGAGCATGACCTTTAGCGA
1 CACTTTCCCCACAAACGTCGCTAGCTAAAGA-CATGACCTTTAGCGA
29308157 CACTTTCCCCACAAACG
1 CACTTTCCCCACAAACG
29308174 CCACTACTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
43 21 0.24
45 31 0.36
46 2 0.02
47 33 0.38
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.22
Consensus pattern (46 bp):
CACTTTCCCCACAAACGTCGCTAGCTAAAGACATGACCTTTAGCGA
Found at i:29312786 original size:36 final size:36
Alignment explanation
Indices: 29312739--29312809 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
29312729 ATCATTCCCG
29312739 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
1 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
29312775 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGAT
1 AGACCTTTCTCTTCAGCGATAATCATAGGTAAGAT
29312810 AAAAGAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (36 bp):
AGACCTTTCTCTTCAGCGATAATCATAGGTAAGATT
Found at i:29314236 original size:36 final size:36
Alignment explanation
Indices: 29314195--29314271 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
29314185 ATCCAAAGTT
*
29314195 TTATGTAAGTTATGATATGATATATATTTATGTAAG
1 TTATGTAAGTTATGATATAATATATATTTATGTAAG
29314231 TTATGTAAGTTATGATATAATATATATTTATGTAAG
1 TTATGTAAGTTATGATATAATATATATTTATGTAAG
29314267 TTATG
1 TTATG
29314272 ATCCAAAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (36 bp):
TTATGTAAGTTATGATATAATATATATTTATGTAAG
Found at i:29321787 original size:41 final size:41
Alignment explanation
Indices: 29321657--29321833 Score: 223
Period size: 41 Copynumber: 4.4 Consensus size: 41
29321647 AAAATGATAC
* * *
29321657 TTTGCGGCTTTTTTCTCAT-AGCGCCGCTAATGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
29321697 TTTGTGGCGTTTTTCTCAT-AGCGCCGTTAATGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* * * *
29321737 TTTGCGGCGTTTTTCTCATAAACACTGCTAGTGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
29321778 TTTGTGGCGTTTTTCTCATAAACGCCGCTACTGCTTTACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
* *
29321819 ATTGTGGCATTTTTC
1 TTTGTGGCGTTTTTC
29321834 CGTTAGCGTC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 55 0.46
41 65 0.54
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (41 bp):
TTTGTGGCGTTTTTCTCATAAACGCCGCTAATGCTTGACCT
Found at i:29321791 original size:81 final size:81
Alignment explanation
Indices: 29321657--29321833 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
29321647 AAAATGATAC
* * * *
29321657 TTTGCGGCTTTTTTCTCATAGCGCCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCAT-AGCGC
1 TTTGCGGCATTTTTCTCATAACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACGC
*
29321721 CGTTAATGCTTGACCT
66 CGCTAATGCTTGACCT
* * *
29321737 TTTGCGGCGTTTTTCTCATAAACACTGCTAGTGCTTGACCTTTTGTGGCGTTTTTCTCATAAACG
1 TTTGCGGCATTTTTCTCAT-AACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACG
* *
29321802 CCGCTACTGCTTTACCT
65 CCGCTAATGCTTGACCT
* *
29321819 ATTGTGGCATTTTTC
1 TTTGCGGCATTTTTC
29321834 CGTTAGCGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 18 0.22
81 36 0.43
82 29 0.35
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (81 bp):
TTTGCGGCATTTTTCTCATAACACCGCTAATGCTTGACCTTTTGTGGCGTTTTTCTCATAAACGC
CGCTAATGCTTGACCT
Found at i:29323101 original size:16 final size:16
Alignment explanation
Indices: 29323080--29323110 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29323070 ATATTTAGTC
29323080 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
29323096 ATATAATTAATTATT
1 ATATAATAAATTATT
29323111 TTTAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:29324479 original size:21 final size:21
Alignment explanation
Indices: 29324426--29324481 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 21
29324416 ATATATGCCT
*
29324426 TAAAAATT-ATAAAAA--ATA
1 TAAAAATTCAGAAAAATTATA
*
29324444 TAAATATTCAGAAAAATTATA
1 TAAAAATTCAGAAAAATTATA
*
29324465 TAAAAATTTCAAAAAAA
1 TAAAAA-TTCAGAAAAA
29324482 ATAAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 7 0.23
19 6 0.20
21 8 0.27
22 9 0.30
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAATTCAGAAAAATTATA
Found at i:29328730 original size:17 final size:17
Alignment explanation
Indices: 29328710--29328770 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
29328700 ATTTGTTTTA
29328710 AAAAATAAAAAATAAAT
1 AAAAATAAAAAATAAAT
* * *
29328727 AAAAACAACAAATATAT
1 AAAAATAAAAAATAAAT
* * *
29328744 ATAAATAAAAACTAATT
1 AAAAATAAAAAATAAAT
29328761 AAAAATAAAA
1 AAAAATAAAA
29328771 GAAATAATTA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAAATAAAT
Found at i:29329398 original size:22 final size:21
Alignment explanation
Indices: 29329363--29329420 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
29329353 AAAGGGTATC
* *
29329363 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
29329384 TACAAAATCATATCTTGTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
29329407 TACATATCATATCT
1 TACAAATCATATCT
29329421 AAGATTGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:29329408 original size:23 final size:22
Alignment explanation
Indices: 29329378--29329420 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
29329368 ATTAAATCTC
29329378 TAAGATTACAAAATCATATCTTG
1 TAAGATTAC-AAATCATATCTTG
*
29329401 TAAGATTACATATCATATCT
1 TAAGATTACAAATCATATCT
29329421 AAGATTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAGATTACAAATCATATCTTG
Found at i:29329425 original size:19 final size:19
Alignment explanation
Indices: 29329376--29329473 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
29329366 AAATTAAATC
*
29329376 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
29329396 TCTTGTAAGATTACATATCATA
1 TC---TAAGATTACATATCATA
*
29329418 TCTAAGATTGCCTATATCATA
1 TCTAAGATT-AC-ATATCATA
*
29329439 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
29329458 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
29329474 CTCGAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
19 31 0.44
20 4 0.06
21 17 0.24
22 9 0.13
23 9 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:29329436 original size:21 final size:20
Alignment explanation
Indices: 29329409--29329473 Score: 107
Period size: 19 Copynumber: 3.3 Consensus size: 20
29329399 TGTAAGATTA
29329409 CATATCATATCTAAGATTGC
1 CATATCATATCTAAGATTGC
29329429 CTATATCATATCTAAGATTG-
1 C-ATATCATATCTAAGATTGC
29329449 CATATCATATCTAAGATTG-
1 CATATCATATCTAAGATTGC
29329468 CATATC
1 CATATC
29329474 CTCGAAGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
19 24 0.55
20 2 0.05
21 18 0.41
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
CATATCATATCTAAGATTGC
Found at i:29329483 original size:17 final size:18
Alignment explanation
Indices: 29329402--29329483 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 18
29329392 CATATCTTGT
* *
29329402 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
*
29329421 AAGATTGCCTATATCATATCT
1 AAGATTG-C-ATATCA-ATCG
*
29329442 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
29329461 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
29329478 AAGATT
1 AAGATT
29329484 ATGTTTCCAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.14
19 30 0.52
20 2 0.03
21 18 0.31
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:29330045 original size:174 final size:176
Alignment explanation
Indices: 29329776--29330288 Score: 489
Period size: 173 Copynumber: 2.9 Consensus size: 176
29329766 TCCATCACTC
*
29329776 TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAATTTC
1 TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAACTTC
* * ** *
29329841 AGGGGGATAAGGCTTGCTTTCTTGAGTCTG-CTCCACTACAACTTCAGG-GAGATAAGACTCGA-
66 AGGGAGATAAGGATTGCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAAGACTCGAT
*
29329903 TA-TGA-TCTACTCTACTGCAACTTC-AGAGAGATAAGATCTGTGGTTT
129 TACTGAGTCTACTCCACTGCAACTTCAAG-GAGATAAGATCTGTGGTTT
* *
29329949 TAATCCGCTCCACTACAACTTCAGGGAGACA-AGATTTGTTTATTTAGTATGCCTCACTGCAACT
1 TAATCCACTCCACTACAACTT-AGGGAGACAGA-ATTTGTTTATTTAGTATGCCCCACTGCAACT
* * *
29330013 TCAGGGAGAT-AGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGATAAGACTTGA
64 TCAGGGAGATAAGGATT-GCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTCGA
* * * *
29330077 TTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGA-C--TAGATG
128 TTACTGAGTCTACTCCACTGCAACTTCAAGGAGATAAGATCTGTGGTTT
* ** * * * * * ** *** *
29330123 TGATCTGCT-CTCTGCAACTTCAGGAAGATAGGATTATCG--GCTTTAACCTGCTCCACTGCAAC
1 TAATCCACTCCACTACAACTT-AGGGAGACAGAATT-T-GTTTATTTAGTATGCCCCACTGCAAC
* *
29330185 TTCAGGGAGATAA-GATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
63 TTCAGGGAGATAAGGA-TTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTCG
* * * * * *
29330249 CTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGA
127 ATTACTGAGTCTACTCCACTGCAACTTCAAGGAGATAAGA
29330289 CTAGATGCGA
Statistics
Matches: 290, Mismatches: 36, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
173 155 0.53
174 97 0.33
175 6 0.02
176 3 0.01
177 27 0.09
178 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (176 bp):
TAATCCACTCCACTACAACTTAGGGAGACAGAATTTGTTTATTTAGTATGCCCCACTGCAACTTC
AGGGAGATAAGGATTGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTCGATTA
CTGAGTCTACTCCACTGCAACTTCAAGGAGATAAGATCTGTGGTTT
Found at i:29330096 original size:89 final size:89
Alignment explanation
Indices: 29330003--29330288 Score: 336
Period size: 89 Copynumber: 3.3 Consensus size: 89
29329993 TAGTATGCCT
* *
29330003 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTAGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
* *
29330068 AAGACTTGATTACTTAGTCTACTC
66 AAGACTTGATTGCTTAGTCTGCTC
* * * * *
29330092 CACTGCAACTTCAAGGAGATAAGACTAG--AT-GTGA-TCTG-CTC-TCTGCAACTTCAGGAAGA
1 CACTGCAACTTCAGGGAGATAAGATTAGCCATCTTCAGTCTGCCTCAT-TGCAACTTCAGGAGGA
* * **
29330151 TAGGA-TT-ATCGGCTTTAACCTGCTC
65 TAAGACTTGAT-TGC-TTAGTCTGCTC
* *
29330176 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTAGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
*
29330241 AAGACTTGCTTGCTTAGTCTGCTC
66 AAGACTTGATTGCTTAGTCTGCTC
*
29330265 CATTGCAACTTCAGGGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGA
29330289 CTAGATGCGA
Statistics
Matches: 160, Mismatches: 26, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
82 2 0.01
83 4 0.03
84 55 0.34
85 4 0.03
86 4 0.03
87 4 0.03
88 4 0.03
89 78 0.49
90 4 0.03
91 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (89 bp):
CACTGCAACTTCAGGGAGATAAGATTAGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
AAGACTTGATTGCTTAGTCTGCTC
Found at i:29330116 original size:44 final size:43
Alignment explanation
Indices: 29329818--29330465 Score: 354
Period size: 44 Copynumber: 14.9 Consensus size: 43
29329808 ATTTGTTTAT
* * * * * *
29329818 TTAGTATGCCCCACTGCAATTTCAGGGGGATAAGGCTTGCTTTC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-ATTC
* * *
29329862 TTGAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGA-TA
1 TT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * * * *
29329905 TGA-TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTC
* * * * * * *
29329948 TTAATCCGCTCCACTACAACTTCAGGGAGACAAGATTTGTTTAT
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATT-C
* *
29329992 TTAGTATGC-CTCACTGCAACTTCAGGGAGATAGGA-TTCGCCA-TC
1 TTAGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTT-G--ATTC
*
29330036 TTCAGTCTGC-CTCATTGCAACTTCA-GGAGGATAAGACTTGATTAC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATT-C
* * * *
29330081 TTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGA-TG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * * * *
29330123 TGA-TCTGCT-CTCTGCAACTTCAGGAAGATAGGA-TT-ATCGGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGAT--TC
** *
29330164 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA-TC
1 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTC
*
29330209 TTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGC
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATT-C
* * *
29330254 TTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
* * * **
29330297 -GA-TCTACT-CTCTGCAACTTCAAAGAGATAAGATCTGTGATT-
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTC
* * * *
29330338 TTAATCTGCTCCACTGCAACTTTAGGGAGATAGGA-TTG-TCGGC
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGAT--TC
* * * *
29330381 TTTAATCTGCTCCACTGCAACCTCAGGGAGATAATATTTGCCA-TC
1 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTC
* *
29330426 TTCAGTCTGC-CTCACTGCAACTTCAGGGAGACAAGGCTTG
1 TT-AGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTG
29330466 GTGGCTTAAA
Statistics
Matches: 464, Mismatches: 90, Indels: 99
0.71 0.14 0.15
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 41 0.09
41 41 0.09
42 17 0.04
43 22 0.05
44 202 0.44
45 136 0.29
46 2 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTC
Found at i:29330184 original size:84 final size:83
Alignment explanation
Indices: 29330089--29330369 Score: 271
Period size: 84 Copynumber: 3.3 Consensus size: 83
29330079 ACTTAGTCTA
* *
29330089 CTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGAAGATAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGAAGATAA
*
29330154 GATTATCGGCTTTAACCTG
66 GATT-TCGGCTTTAATCTG
* * * * * *
29330173 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAG--AT-GTGA-TCTG-CTCTCTGCAACTTCAGGAA
* * *
29330238 GATAAGACTTGCTTGC-TTAGTCTG
61 GATAAGA-TTTC-GGCTTTAATCTG
* * * *
29330262 CTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCA-AAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGA-AGATA
**
29330326 AGATCTGT-GATTTTAATCTG
65 AGAT-T-TCGGCTTTAATCTG
*
29330346 CTCCACTGCAACTTTAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
29330370 GGATTGTCGG
Statistics
Matches: 157, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
83 2 0.01
84 79 0.50
85 3 0.02
86 3 0.02
87 4 0.03
88 4 0.03
89 58 0.37
90 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (83 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGAAGATAA
GATTTCGGCTTTAATCTG
Found at i:29330193 original size:173 final size:173
Alignment explanation
Indices: 29330003--29330374 Score: 559
Period size: 173 Copynumber: 2.2 Consensus size: 173
29329993 TAGTATGCCT
*
29330003 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
* *
29330068 AAGACTTGATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTC
66 AAGACTTGATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTACTC
* * *
29330133 TCTGCAACTTC-AGGAAGATAGGAT-TATCGGCTTTAACCTGCTC
131 TCTGCAACTTCAAAG-AGATAAGATCTAT-GACTTTAACCTGCTC
* *
29330176 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
* * * * *
29330241 AAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
66 AAGACTTGATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTACTC
* * *
29330306 TCTGCAACTTCAAAGAGATAAGATCTGTGATTTTAATCTGCTC
131 TCTGCAACTTCAAAGAGATAAGATCTATGACTTTAACCTGCTC
*
29330349 CACTGCAACTTTAGGGAGATAGGATT
1 CACTGCAACTTCAGGGAGATAGGATT
29330375 GTCGGCTTTA
Statistics
Matches: 179, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
173 175 0.98
174 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (173 bp):
CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
AAGACTTGATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTACTC
TCTGCAACTTCAAAGAGATAAGATCTATGACTTTAACCTGCTC
Found at i:29330194 original size:217 final size:216
Alignment explanation
Indices: 29329818--29330465 Score: 692
Period size: 217 Copynumber: 3.0 Consensus size: 216
29329808 ATTTGTTTAT
* * * * * * * * *
29329818 TTAGTATGCCCCACTGCAATTTCAGGGGGATAAGGCTTGCTTTCTTGAGTCTGCTCCACTACAAC
1 TTAGTCTGCTCCATTGCAACTTCA-GGGGATAAGACTTGATTACTT-AGTCTACTCCACTGCAAC
* * * *
29329883 TTCAGGGAGATAAGACTCGATATGATCTACTCTACTGCAACTTCA-GAGAGATAAGATCTGT-GG
64 TTCAAGGAGATAAGACTAGATATGATCTGCTCT-CTGCAACTTCAGGA-AGATAGGAT-TGTCGG
* * * ** *
29329946 TTTTAATCC-GCTCCACTACAACTTCAGGGAGACAAGATTTGTTTAT-TT-AGTATGCCTCACTG
126 CTTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CCATCTTCAGTCTGCCTCACTG
*
29330008 CAACTTCAGGGAGATAGGA-TTCGCCAT-C
189 CAACTTCAGGGAGATAAGACTT-G-CATGC
29330036 TTCAGTCTGC-CTCATTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTACTCCACTGCAA
1 TT-AGTCTGCTC-CATTGCAACTTCAGG-GGATAAGACTTGATTACTTAGTCTACTCCACTGCAA
* *
29330100 CTTCAAGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGGAAGATAGGATTATCGGCT
63 CTTCAAGGAGATAAGACTAGATATGATCTGCTCTCTGCAACTTCAGGAAGATAGGATTGTCGGCT
29330165 TTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
128 TTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
*
29330230 TTCA-GGAGGATAAGACTTGCTTGC
193 TTCAGGGA-GATAAGACTTGCATGC
* * * *
29330254 TTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTACT-CTCTGCAACT
1 TTAGTCTGCTCCATTGCAACTTCAGGG-GATAAGACTTGATTACTTAGTCTACTCCACTGCAACT
* * * * * * *
29330315 TCAAAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTTAGGGAGATAGGATTGTCGG
65 TCAAGGAGATAAGA-CT-AGA-TATGATCTGCT-CTCTGCAACTTCAGGAAGATAGGATTGTCGG
* * *
29330380 CTTTAATCTGCTCCACTGCAACCTCAGGGAGATAATATTTGCCATCTTCAGTCTGCCTCACTGCA
126 CTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCA
* *
29330445 ACTTCAGGGAGACAAGGCTTG
191 ACTTCAGGGAGATAAGACTTG
29330466 GTGGCTTAAA
Statistics
Matches: 373, Mismatches: 39, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
213 22 0.06
214 8 0.02
215 3 0.01
216 18 0.05
217 200 0.54
218 87 0.23
219 35 0.09
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (216 bp):
TTAGTCTGCTCCATTGCAACTTCAGGGGATAAGACTTGATTACTTAGTCTACTCCACTGCAACTT
CAAGGAGATAAGACTAGATATGATCTGCTCTCTGCAACTTCAGGAAGATAGGATTGTCGGCTTTA
ACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
AGGGAGATAAGACTTGCATGC
Found at i:29330435 original size:173 final size:173
Alignment explanation
Indices: 29330003--29330456 Score: 519
Period size: 173 Copynumber: 2.6 Consensus size: 173
29329993 TAGTATGCCT
* * * * * *
29330003 CACTGCAACTTCAGGGAGATAGGATTCGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGAT
* * * * *
29330068 AAGACTTG-ATTACTTAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCT
66 AAGACTTGCA-TGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACT
* * *
29330132 CTCTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTC
130 CTCTGCAACTTCAAGAAGATAAGATTATCGACTTTAACCTGCTC
* * *
29330176 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGAT
* *
29330241 AAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
66 AAGACTTGCATGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
* * *
29330306 TCTGCAACTTCAA-AGAGATAAGATCTGT-GATTTTAATCTGCTC
131 TCTGCAACTTCAAGA-AGATAAGAT-TATCGACTTTAACCTGCTC
* * * * *
29330349 CACTGCAACTTTAGGGAGATAGGA-TTGTCGGCTTTAATCTG-CTCCACTGCAACCTCAGG-GAG
1 CACTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAATCTGCCT-CACTGCAACCTCAGGAG-G
* *
29330411 ATAATATTTGCCAT-CTTCAGTCTGC-CTCACTGCAACTTCAGGGAGA
64 ATAAGACTTG-CATGCTT-AGTCTGCTC-CACTGCAACTTCAGGGAGA
29330457 CAAGGCTTGG
Statistics
Matches: 245, Mismatches: 28, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
171 3 0.01
172 40 0.16
173 200 0.82
174 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (173 bp):
CACTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAATCTGCCTCACTGCAACCTCAGGAGGAT
AAGACTTGCATGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
TCTGCAACTTCAAGAAGATAAGATTATCGACTTTAACCTGCTC
Found at i:29330605 original size:132 final size:132
Alignment explanation
Indices: 29330448--29330860 Score: 664
Period size: 132 Copynumber: 3.1 Consensus size: 132
29330438 CACTGCAACT
*
29330448 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* * *
29330513 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTACT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
29330578 GC
131 GC
29330580 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* * * * *
29330645 TCTTCAATCTTCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
29330710 GC
131 GC
* * *
29330712 TCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTTTTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
* * * * * *
29330777 TCCTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGTTGTT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
29330842 GC
131 GC
29330844 TCAGGGAGACAAGGCTT
1 TCAGGGAGACAAGGCTT
29330861 AGTGTTTCAC
Statistics
Matches: 258, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 258 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GC
Found at i:29332165 original size:19 final size:21
Alignment explanation
Indices: 29332120--29332160 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
29332110 CTCCATTTTC
29332120 CTTTTCTTTTTCTTTTTATCA
1 CTTTTCTTTTTCTTTTTATCA
29332141 CTTTTTCTTCTTT-TTTTTAT
1 C-TTTTCTT-TTTCTTTTTAT
29332161 ATTTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.06
22 14 0.78
23 3 0.17
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (21 bp):
CTTTTCTTTTTCTTTTTATCA
Found at i:29346167 original size:928 final size:928
Alignment explanation
Indices: 29344367--29346222 Score: 3568
Period size: 928 Copynumber: 2.0 Consensus size: 928
29344357 CCGAAGAAGG
* *
29344367 GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACTTCGTACGCTGCAGATGATTGTAGGTT
1 GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGCACGCTGCAGATGATTGTAGGTT
*
29344432 AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCTGGATGGTGCAGAAGTTGGCTTAT
66 AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTAT
29344497 TTTCTGAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
131 TTTCTGAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
*
29344562 AATCCATAATTCAGAGCATACTCACCTCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
196 AATCCATAATTCAGAGAATACTCACCTCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
29344627 TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTG
261 TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTG
29344692 CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACAT
326 CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACAT
* *
29344757 AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATTCAAATCTGATAAGTTTGAGGCGAAGTG
391 AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCAAAGTG
* *
29344822 TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTACGCCTCGTTAAGGAAAAGGACAGGGTTGT
456 TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTACGCCTCGTTAAGGAAAAGAACAGAGTTGT
29344887 GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTGACGGTATATGAA
521 GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTGACGGTATATGAA
29344952 TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
586 TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
29345017 ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
651 ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
29345082 ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
716 ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
*
29345147 GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTGGGTGGGATGCCTTGTAACACC
781 GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTGGGTGGGACGCCTTGTAACACC
29345212 CCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
846 CCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
29345277 ATTATTACCAAAATTAGT
911 ATTATTACCAAAATTAGT
*
29345295 GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGCACGCTGCAGATGATTGTGGGTT
1 GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGCACGCTGCAGATGATTGTAGGTT
29345360 AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTAT
66 AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTAT
29345425 TTTCTGAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
131 TTTCTGAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
29345490 AATCCATAATTCAGAGAATACTCACCTCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
196 AATCCATAATTCAGAGAATACTCACCTCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
*
29345555 TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGGTCGTACAAGTTCGGGGGTAGATTCTG
261 TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTG
*
29345620 CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGGATAGTTTTATTGGTGCTTTGAAACAACAT
326 CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACAT
29345685 AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCAAAGTG
391 AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCAAAGTG
*
29345750 TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTATGCCTCGTTAAGGAAAAGAACAGAGTTGT
456 TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTACGCCTCGTTAAGGAAAAGAACAGAGTTGT
29345815 GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTGACGGTATATGAA
521 GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTGACGGTATATGAA
29345880 TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
586 TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
29345945 ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
651 ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
29346010 ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
716 ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
*
29346075 GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAATATGCATAGTGGGTGGGACGCCTTGTAACACC
781 GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTGGGTGGGACGCCTTGTAACACC
* *
29346140 CCGACCCGAGTCCGTCGCCGGATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
846 CCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
29346205 ATTATTACCAAAATTAGT
911 ATTATTACCAAAATTAGT
29346223 CAACAATTTA
Statistics
Matches: 912, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
928 912 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (928 bp):
GATGACATACTCCCTACGACGTCAACCGGTGAGGGGACCTCGCACGCTGCAGATGATTGTAGGTT
AGAAGATGAGTCCGATGTGGATCCACCTCGAGAGCCCGGGCCGGATGGTGCAGAAGTTGGCTTAT
TTTCTGAACCGGAGCCTATTCCAACAGAACCTAAAGATGCTGAAAGGAGTTCAGACGAAGAAGAA
AATCCATAATTCAGAGAATACTCACCTCCGGCCCACATGCATAACGTCGATCTCTCTGCAGATGA
TGCGTTAGAGTTTCTAGATCTACCACACCGGTTGCGTGATCGTACAAGTTCGGGGGTAGATTCTG
CTGAATTTGAAGGTGGTAATCAGTTTACCAACAAGAATAGTTTTATTGGTGCTTTGAAACAACAT
AGCATCAAAAACGGCGTTAACTACCACGTCGTTAAATCCAAATCTGATAAGTTTGAGGCAAAGTG
TGCGGTGCAAGACGGCACATGTTCATGGAAAATCTACGCCTCGTTAAGGAAAAGAACAGAGTTGT
GGGAGATAAAAAAGTACAAAGGTCCACATACATGTGCTGCAGGTACAGTATTGACGGTATATGAA
TAATACTTTTATTATGTAATGTTGCATTATTTAATGTACTCCGTTAATAGGTGTTTCACAAGATC
ATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGATACTGCCTACGGTAAGAGCAGATCCTAGG
ACTTCAGTGCCGGTGTTAATTGCCAGTATCCGTAGCCAAATGGGGTACACTCCCTCTTACCGTAA
GGCTTGGATAGCTAGGCAAAAGGCGTTGGAGAAGATGCATAGTGGGTGGGACGCCTTGTAACACC
CCGACCCGAGTCCGTCACCGAATTAGAGTTACGAGGCATTACCAATCAAAATCTGACCCAAAATT
ATTATTACCAAAATTAGT
Found at i:29347147 original size:41 final size:41
Alignment explanation
Indices: 29347085--29347219 Score: 216
Period size: 41 Copynumber: 3.3 Consensus size: 41
29347075 AATTTAACAT
* *
29347085 ATTCAGATCACCAGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
* * * *
29347126 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
29347167 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
29347208 ATTCAGATCACC
1 ATTCAGATCACC
29347220 AATTCCAAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAGCCTG
Found at i:29347452 original size:41 final size:41
Alignment explanation
Indices: 29347395--29347489 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
29347385 TTCGTTCCTT
*
29347395 TGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
29347436 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
29347477 TGATTCAGATCAC
1 TGATTCAGATCAC
29347490 AAATTTCAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
Found at i:29351026 original size:23 final size:23
Alignment explanation
Indices: 29350995--29351196 Score: 332
Period size: 23 Copynumber: 8.8 Consensus size: 23
29350985 GTTTTTAAGT
29350995 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
*
29351018 ATAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
*
29351041 ATAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
* * *
29351064 ATAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
29351087 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
*
29351110 TTAGGTTAAGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
* *
29351133 TTAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
29351156 TTAGGTTAGGGTTTTCAACTTAA
1 TTAGGTTAGGGTTTTCAACTTAA
29351179 TTAGGTTAGGGTTTTCAA
1 TTAGGTTAGGGTTTTCAA
29351197 TTTTTATCAC
Statistics
Matches: 167, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 167 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTCAACTTAA
Found at i:29351233 original size:25 final size:24
Alignment explanation
Indices: 29351198--29351405 Score: 127
Period size: 25 Copynumber: 8.8 Consensus size: 24
29351188 GGTTTTCAAT
*
29351198 TTTTATCACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAA-TTCTA
29351223 TTTTATTACATCAAATAAATTTCTA
1 TTTTATTACATCAAATAAA-TTCTA
29351248 TTTTATTACATCAAAT-AATATC-A
1 TTTTATTACATCAAATAAAT-TCTA
** * *
29351271 --AAATAAC-TCAAAAAAATT-TAAA
1 TTTTATTACATCAAATAAATTCT--A
29351293 TTTTTATTACATC-AATAAAACTTCTA
1 -TTTTATTACATCAAAT-AAA-TTCTA
*
29351319 TTTTATTACATAAAAT-AATATC-A
1 TTTTATTACATCAAATAAAT-TCTA
** * **
29351342 --AAATAAC-TCAAA-AAATTAAA
1 TTTTATTACATCAAATAAATTCTA
29351362 TTTTTATTACATCAAATAAATTTCTA
1 -TTTTATTACATCAAATAAA-TTCTA
29351388 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
29351406 TATCAAAATA
Statistics
Matches: 140, Mismatches: 21, Indels: 44
0.68 0.10 0.21
Matches are distributed among these distances:
19 1 0.01
20 14 0.10
21 11 0.08
22 1 0.01
23 8 0.06
24 13 0.09
25 77 0.55
26 12 0.09
27 2 0.01
28 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTTATTACATCAAATAAATTCTA
Found at i:29351393 original size:69 final size:71
Alignment explanation
Indices: 29351223--29351472 Score: 420
Period size: 71 Copynumber: 3.6 Consensus size: 71
29351213 TAAACTTCTA
*
29351223 TTTTATTACATCAA-ATAAATTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
1 TTTTATTACATCAATA-AAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
29351287 TTTAAAT
65 TTTAAAT
*
29351294 TTTTATTACATCAATAAAACTTCTATTTTATTACATAAAATAATATCAAAATAACTC-AAAAAA-
1 TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
29351357 TTAAAT
66 TTAAAT
*
29351363 TTTTATTACATCAA-ATAAATTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
1 TTTTATTACATCAATA-AAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAA
29351427 TTTAAAT
65 TTTAAAT
29351434 TTTT-TTACATCAATAAAACTTCTATTTTATTACATCAAA
1 TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAA
29351473 CAAACTTCAA
Statistics
Matches: 169, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
68 1 0.01
69 59 0.35
70 44 0.26
71 64 0.38
72 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (71 bp):
TTTTATTACATCAATAAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAAT
TTAAAT
Found at i:29351446 original size:25 final size:25
Alignment explanation
Indices: 29351418--29351479 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
29351408 TCAAAATAAC
* *
29351418 TCAAAAAAATTTAAATTTTTTTACA
1 TCAAAAAAACTTAAATTTTATTACA
* **
29351443 TCAATAAAACTTCTATTTTATTACA
1 TCAAAAAAACTTAAATTTTATTACA
*
29351468 TCAAACAAACTT
1 TCAAAAAAACTT
29351480 CAAAATATTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (25 bp):
TCAAAAAAACTTAAATTTTATTACA
Found at i:29351480 original size:25 final size:25
Alignment explanation
Indices: 29351432--29351480 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
29351422 AAAAATTTAA
*
29351432 ATTTTTTTACATCAATAAAACTTCT
1 ATTTTATTACATCAATAAAACTTCT
29351457 ATTTTATTACATCAA-ACAAACTTC
1 ATTTTATTACATCAATA-AAACTTC
29351481 AAAATATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTTATTACATCAATAAAACTTCT
Found at i:29352598 original size:7 final size:7
Alignment explanation
Indices: 29352588--29352619 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
29352578 TTATATACAT
29352588 AATACTA
1 AATACTA
29352595 AATACTA
1 AATACTA
29352602 AATACTA
1 AATACTA
29352609 AATACTA
1 AATACTA
29352616 AATA
1 AATA
29352620 TCTATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:29353794 original size:51 final size:51
Alignment explanation
Indices: 29353732--29353857 Score: 182
Period size: 51 Copynumber: 2.5 Consensus size: 51
29353722 TATTTTAAAA
* *
29353732 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGCTTTGA-GAGATTTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTT-ATGAGAATTTTGG
* * * *
29353783 AATGATATTGAGAGGAAATTAAAATTAAATATGGATTTATGAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
29353834 AAGGAAATTGAGAGAAAATTGAAA
1 AAGGAAATTGAGAGAAAATTGAAA
29353858 GGAAATTGAG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 63 0.98
ACGTcount: A:0.45, C:0.01, G:0.24, T:0.30
Consensus pattern (51 bp):
AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
Found at i:29353854 original size:11 final size:11
Alignment explanation
Indices: 29353835--29353874 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
29353825 GAATTTTGGA
29353835 AGGAAATTGAG
1 AGGAAATTGAG
* *
29353846 AGAAAATTGAA
1 AGGAAATTGAG
29353857 AGGAAATTGAG
1 AGGAAATTGAG
29353868 AGGAAAT
1 AGGAAAT
29353875 ATAAGAGAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:29355658 original size:17 final size:17
Alignment explanation
Indices: 29355606--29355658 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
29355596 TATGGAAACA
* *
29355606 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
29355623 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
29355642 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
29355659 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:29355658 original size:22 final size:23
Alignment explanation
Indices: 29355630--29355674 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
29355620 ATGCAATCTT
29355630 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
29355652 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
29355675 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:29355684 original size:22 final size:23
Alignment explanation
Indices: 29355640--29355684 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
29355630 AGATATGATA
*
29355640 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
29355663 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
29355685 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:29361674 original size:18 final size:17
Alignment explanation
Indices: 29361653--29361686 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29361643 TTAACATGGG
29361653 AAATTATAAAATTTTGAT
1 AAATT-TAAAATTTTGAT
*
29361671 AAATTTAGAATTTTGA
1 AAATTTAAAATTTTGA
29361687 GTTTAAAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
AAATTTAAAATTTTGAT
Found at i:29367324 original size:2 final size:2
Alignment explanation
Indices: 29367317--29367344 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29367307 ATGGTAAAGC
29367317 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
29367345 TGAAAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:29369927 original size:24 final size:23
Alignment explanation
Indices: 29369880--29369928 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
29369870 AAAAAGAAAC
***
29369880 ATATTTATACTAATAAATGTTAA
1 ATATTTATACTAATAAAAACTAA
29369903 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAATAAAAACTAA
29369927 AT
1 AT
29369929 CTTCTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:29375041 original size:13 final size:13
Alignment explanation
Indices: 29375023--29375048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29375013 TGTTCAATTT
29375023 TTTACTAGAAAAC
1 TTTACTAGAAAAC
29375036 TTTACTAGAAAAC
1 TTTACTAGAAAAC
29375049 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:29380169 original size:3 final size:3
Alignment explanation
Indices: 29380163--29380190 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
29380153 CCACCACCAC
29380163 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
29380191 GTCAAGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:29380591 original size:20 final size:19
Alignment explanation
Indices: 29380564--29380617 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
29380554 ATATATTTTT
29380564 TATTTTTTTAATTTTAAAA
1 TATTTTTTTAATTTTAAAA
*
29380583 TATTTTTTTTATTTTTAAAA
1 TA-TTTTTTTAATTTTAAAA
**
29380603 TAAATTTTTAATTTT
1 TATTTTTTTAATTTT
29380618 TATTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTTTAATTTTAAAA
Found at i:29381996 original size:31 final size:32
Alignment explanation
Indices: 29381958--29382032 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
29381948 TATAATTTGA
* *
29381958 TCACTAAACTATTTGAAAGT-TTTCATTTAAG
1 TCACTAAACTATTTAAAAATATTTCATTTAAG
*
29381989 TCACTAAACTA-TTAAAAATATTTTATTTAAG
1 TCACTAAACTATTTAAAAATATTTCATTTAAG
*
29382020 TCACTAGACTATT
1 TCACTAAACTATT
29382033 AAGTTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 6 0.16
31 31 0.82
32 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (32 bp):
TCACTAAACTATTTAAAAATATTTCATTTAAG
Found at i:29388505 original size:15 final size:15
Alignment explanation
Indices: 29388485--29388514 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29388475 ACCAATTTGG
29388485 TTAATTTGATTAATT
1 TTAATTTGATTAATT
*
29388500 TTAATTTGGTTAATT
1 TTAATTTGATTAATT
29388515 CGGTTAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTAATTTGATTAATT
Found at i:29399425 original size:18 final size:18
Alignment explanation
Indices: 29399399--29399445 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
29399389 CGTGTCGTTC
29399399 ATTTCCAAAACCTTATT-A
1 ATTT-CAAAACCTTATTCA
* *
29399417 ATTTACAAATCGTTATTCA
1 ATTT-CAAAACCTTATTCA
29399436 ATTTCAAAAC
1 ATTTCAAAAC
29399446 ATTTCCTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTTCAAAACCTTATTCA
Found at i:29405928 original size:21 final size:22
Alignment explanation
Indices: 29405891--29405933 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
29405881 CCAATTAACC
29405891 TAGCCCAAACACTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
*
29405913 TAGCCTAAAC-CTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
29405934 ACCCTGGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (22 bp):
TAGCCCAAACACTAAACCCAAT
Found at i:29407567 original size:10 final size:10
Alignment explanation
Indices: 29407523--29407570 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
29407513 TCACATTTTT
29407523 AATTTATTTC
1 AATTTATTTC
*
29407533 AACTTATTTC
1 AATTTATTTC
29407543 AATATTA-TT-
1 AAT-TTATTTC
*
29407552 AATTTATTTA
1 AATTTATTTC
29407562 AATTTATTT
1 AATTTATTT
29407571 TAACATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 22 0.67
11 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTATTTC
Found at i:29410284 original size:41 final size:41
Alignment explanation
Indices: 29410227--29410312 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
29410217 AAAAAGAGAA
29410227 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
1 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
29410268 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
1 TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
29410309 TGAA
1 TGAA
29410313 CCAGCCAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (41 bp):
TGAAGTGAACCATGTGAGTACATACAACAAATCGATTACGG
Found at i:29411666 original size:31 final size:32
Alignment explanation
Indices: 29411629--29411731 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 32
29411619 AATCTTACCT
*
29411629 AAAAAAATCAATCAAAATTAAAATCAAAA-TCA
1 AAAAAAATCAATCAAAATCAAAATCAAAAGT-A
** *
29411661 AAAAAAA--AAGGAAAAATCAAAGTCAAAAGTA
1 AAAAAAATCAA-TCAAAATCAAAATCAAAAGTA
*
29411692 AAAAAAATCAATCAAAGTCAAAAT-AAAAGTA
1 AAAAAAATCAATCAAAATCAAAATCAAAAGTA
*
29411723 TGAAAAAAT
1 -AAAAAAAT
29411732 AAAAGAAAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
30 2 0.04
31 29 0.51
32 24 0.42
33 2 0.04
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (32 bp):
AAAAAAATCAATCAAAATCAAAATCAAAAGTA
Found at i:29412577 original size:9 final size:9
Alignment explanation
Indices: 29412563--29412605 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
29412553 TTGATTCCAA
29412563 AAAAAAAAG
1 AAAAAAAAG
*
29412572 AAAAAAAATA
1 AAAAAAAA-G
29412582 AAAAAAAAG
1 AAAAAAAAG
*
29412591 AGAAAAAAG
1 AAAAAAAAG
29412600 AAAAAA
1 AAAAAA
29412606 GATGAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:29412586 original size:19 final size:19
Alignment explanation
Indices: 29412562--29412605 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
29412552 CTTGATTCCA
*
29412562 AAAAAAAAAGAAAAAAAAT
1 AAAAAAAAAGAAAAAAAAG
*
29412581 AAAAAAAAAGAGAAAAAAG
1 AAAAAAAAAGAAAAAAAAG
29412600 AAAAAA
1 AAAAAA
29412606 GATGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAAG
Found at i:29412614 original size:17 final size:16
Alignment explanation
Indices: 29412565--29412620 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 16
29412555 GATTCCAAAA
29412565 AAAAAAG-AAAAA-A-
1 AAAAAAGAAAAAAGAG
*
29412578 AATAAA-AAAAAAGAG
1 AAAAAAGAAAAAAGAG
29412593 AAAAAAGAAAAAAGATG
1 AAAAAAGAAAAAAGA-G
*
29412610 AAAAATGAAAA
1 AAAAAAGAAAA
29412621 TGAAAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
15 5 0.14
16 8 0.23
17 11 0.31
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAG
Found at i:29414345 original size:44 final size:44
Alignment explanation
Indices: 29414293--29414511 Score: 172
Period size: 44 Copynumber: 4.8 Consensus size: 44
29414283 TTTCAGATCT
29414293 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCC
* * * *
29414337 TATCTCCCTGAGATTACAGTGGAGCGGATTAAA-ATA-AAGGATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAA--ATCC
* * * * * * **
29414381 TATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATTT
1 TATCTCCCTG-AG--AT--T--A-CAG--CGGAGCAGATTAAAGCTAGAAATCC
* * *
29414435 TATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCC
*
29414479 TATCTCCCTGAGATTACAGTGGAGCAGATTAAA
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAA
29414512 ATAAAGGATA
Statistics
Matches: 135, Mismatches: 26, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 91 0.67
45 2 0.01
46 2 0.01
47 3 0.02
49 2 0.01
51 3 0.02
52 2 0.01
53 2 0.01
54 21 0.16
55 1 0.01
56 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCC
Found at i:29414548 original size:142 final size:142
Alignment explanation
Indices: 29414289--29414644 Score: 615
Period size: 142 Copynumber: 2.5 Consensus size: 142
29414279 AGAATTTCAG
* * *
29414289 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGAAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * *
29414354 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
29414419 TTGAAGCCAGAA
131 TTGAAGCCAGAA
* *
29414431 ATTTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
29414496 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
29414561 TTGAAGCCAGAA
131 TTGAAGCCAGAA
*
29414573 ATCTTATCTCCCTGAGATTACAGCAGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGATG-TTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGA-GATTA
29414637 CAGTGGAG
65 CAGTGGAG
29414645 TGGATCGAAG
Statistics
Matches: 203, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
142 202 1.00
143 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
TTGAAGCCAGAA
Found at i:29416602 original size:10 final size:10
Alignment explanation
Indices: 29416558--29416605 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
29416548 TCACATTTTT
29416558 AATTTATTTC
1 AATTTATTTC
*
29416568 AACTTATTTC
1 AATTTATTTC
29416578 AATATTA-TT-
1 AAT-TTATTTC
*
29416587 AATTTATTTA
1 AATTTATTTC
29416597 AATTTATTT
1 AATTTATTT
29416606 TAACATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 22 0.67
11 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTATTTC
Found at i:29417787 original size:25 final size:25
Alignment explanation
Indices: 29417745--29417807 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
29417735 TTAAATGTTT
* *
29417745 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
29417770 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
29417795 TCAGGATATACTA
1 TCAGTATATACTA
29417808 TCAAAGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:29418159 original size:18 final size:17
Alignment explanation
Indices: 29418136--29418188 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
29418126 AATCGTGTTG
29418136 TTCATTTCCAAAACATTA
1 TTCATTT-CAAAACATTA
* *
29418154 TTCATTTACAAATCGTTA
1 TTCATTT-CAAAACATTA
29418172 TTCAATTTCAAAACATT
1 TTC-ATTTCAAAACATT
29418189 TTCTTATTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (17 bp):
TTCATTTCAAAACATTA
Found at i:29423597 original size:18 final size:19
Alignment explanation
Indices: 29423574--29423614 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
29423564 TTTGATTCAG
29423574 TTATTAC-TAATTTAATTT
1 TTATTACTTAATTTAATTT
*
29423592 TTATTACTTAATTTATTTT
1 TTATTACTTAATTTAATTT
29423611 TTAT
1 TTAT
29423615 AATTAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTACTTAATTTAATTT
Found at i:29423620 original size:18 final size:19
Alignment explanation
Indices: 29423581--29423620 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
29423571 CAGTTATTAC
*
29423581 TAATTTAATTTTTATTACT
1 TAATTTAATTTTTATTAAT
*
29423600 TAATTTATTTTTTA-TAAT
1 TAATTTAATTTTTATTAAT
29423618 TAA
1 TAA
29423621 AATGATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATTTAATTTTTATTAAT
Found at i:29438169 original size:20 final size:21
Alignment explanation
Indices: 29438141--29438179 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
29438131 TAGGGACTAA
*
29438141 TTTGAACAGTTTTC-AAAAGT
1 TTTGAACAGATTTCTAAAAGT
*
29438161 TTTGGACAGATTTCTAAAA
1 TTTGAACAGATTTCTAAAA
29438180 TAAGGGCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTGAACAGATTTCTAAAAGT
Found at i:29439105 original size:22 final size:22
Alignment explanation
Indices: 29439051--29439106 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
29439041 CAATTTTGTT
*
29439051 TCATATTACATATCAAAGCATA
1 TCATATAACATATCAAAGCATA
* * * *
29439073 TCTTGTAACATATCAGAGCTTA
1 TCATATAACATATCAAAGCATA
*
29439095 TCATATCACATA
1 TCATATAACATA
29439107 ATTTTAGAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (22 bp):
TCATATAACATATCAAAGCATA
Found at i:29441964 original size:28 final size:26
Alignment explanation
Indices: 29441913--29441965 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
29441903 TAAGTTGAAA
*
29441913 TTTTTAAAAATAAATAAAACAAATTT
1 TTTTTAAAAATAAATAAAAAAAATTT
29441939 TTTTTAAAGAAATACAA-AAAAAAAATT
1 TTTTT-AA-AAATA-AATAAAAAAAATT
29441966 GTAATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 2 0.09
28 14 0.61
29 2 0.09
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
TTTTTAAAAATAAATAAAAAAAATTT
Found at i:29442815 original size:14 final size:14
Alignment explanation
Indices: 29442796--29442833 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
29442786 GTTGATAAAT
29442796 GACGATAATAATGC
1 GACGATAATAATGC
29442810 GACGATAATAATGC
1 GACGATAATAATGC
* *
29442824 AACTATAATA
1 GACGATAATA
29442834 GTAATAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (14 bp):
GACGATAATAATGC
Found at i:29444523 original size:44 final size:44
Alignment explanation
Indices: 29444469--29444843 Score: 189
Period size: 44 Copynumber: 8.2 Consensus size: 44
29444459 GTATAGGAAA
* * *
29444469 TGTAGTTTCAATCTACTCTACTACAACTTCAGTGAGATAAGACT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
** * *
29444513 TGTAGCTTCAATCTGTTCCACTATAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * * *
29444557 TGTAACTTGTTACTTTAATCTATTCCACTACAACTTTAGGGAAATAAGACTCGAT
1 TGT-A---G---CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGA--C--T
* * * * * * *
29444612 GTGGTGGATTTAATCTGAC-CCACTACAATTTCAGAGG-TATAGGATT
1 -T-GTAGCTTCAATCT-ACTCCACTACAACTTCAG-GGAGATAAGACT
* * * * ** * *
29444658 TTTCGCTTCAATTTGCTCCACTGTAACTTCAGAGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * * * * *
29444702 TGTACCTTCAATCTGCTCCACTGCAACTTCAGAGAGATTAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * *
29444746 TGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * * * * * ** *
29444790 TGCAACTTTAATTCGA-TCCACTACAATTTCAGGGATATGGGATT
1 TGTAGCTTCAA-TCTACTCCACTACAACTTCAGGGAGATAAGACT
29444834 TGTAGCTTCA
1 TGTAGCTTCA
29444844 TCTTTCTCTA
Statistics
Matches: 258, Mismatches: 55, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
43 2 0.01
44 184 0.71
45 4 0.02
46 1 0.00
48 1 0.00
50 26 0.10
51 35 0.14
53 1 0.00
55 1 0.00
56 1 0.00
57 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
Found at i:29444735 original size:88 final size:88
Alignment explanation
Indices: 29444623--29444843 Score: 216
Period size: 88 Copynumber: 2.5 Consensus size: 88
29444613 TGGTGGATTT
* * * * **
29444623 AATCTGACCCACTACAATTTCAGAG-G-TATAGGATTTTTCGCTTCAATTTGCTCCACTGTAACT
1 AATCTGACCCACTACAACTTCAGAGAGAT-TA-GATTTGTAGCTTCAATCTGCTCCACTACAACT
29444686 TCAGAGAGATAAGATTTGTACCTTC
64 TCAGAGAGATAAGATTTGTACCTTC
* *
29444711 AATCTG-CTCCACTGCAACTTCAGAGAGATTAGATTTGTAGCTTTAATCTGCTCCACTACAACTT
1 AATCTGAC-CCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCAATCTGCTCCACTACAACTT
* * * *
29444775 CAGGGAGATAAGATTTGCAACTTT
65 CAGAGAGATAAGATTTGTACCTTC
* * * * **
29444799 AAT-TCGATCCACTACAATTTCAGGGATATGGGATTTGTAGCTTCA
1 AATCT-GACCCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCA
29444844 TCTTTCTCTA
Statistics
Matches: 108, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
87 2 0.02
88 102 0.94
89 3 0.03
90 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
AATCTGACCCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCAATCTGCTCCACTACAACTTC
AGAGAGATAAGATTTGTACCTTC
Found at i:29456522 original size:5 final size:5
Alignment explanation
Indices: 29456512--29456541 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
29456502 TAAATAAAAG
29456512 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
29456542 GAACATGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:29456532 original size:15 final size:14
Alignment explanation
Indices: 29456500--29456541 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 14
29456490 ATATTAGGGT
29456500 AATAAATAAAAGATAA
1 AATAAAT-AAA-ATAA
29456516 AATAAAATAAAATAA
1 AAT-AAATAAAATAA
29456531 AATAAATAAAA
1 AATAAATAAAA
29456542 GAACATGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.32
15 7 0.28
16 6 0.24
17 4 0.16
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
AATAAATAAAATAA
Found at i:29458900 original size:42 final size:43
Alignment explanation
Indices: 29458850--29458950 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 43
29458840 TTTTAGAAAA
* *
29458850 AAACGCCGCTAAAGATCAAGACCTTTAACGGTAC-TTTTCCAC
1 AAACGCCGCTAAAGATCAAGACCTTTAACAGCACTTTTTCCAC
* * * *
29458892 AATCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCAAGACCTTTAACAGCACTTTTTCCAC
*
29458935 AAAAGCCGCTAAAGAT
1 AAACGCCGCTAAAGAT
29458951 TTTTTCCACA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCAAGACCTTTAACAGCACTTTTTCCAC
Found at i:29459014 original size:67 final size:68
Alignment explanation
Indices: 29458884--29459014 Score: 151
Period size: 67 Copynumber: 1.9 Consensus size: 68
29458874 TTAACGGTAC
* * ** *
29458884 TTTTCCACAATCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTTCCACAAAAGCCGCTAAAG
1 TTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTCTAACACAAAAGCCACTAAAG
29458949 ATT
66 ATT
* * *
29458952 TTTTCCACAAACGCTGCTATAGATCAA-ACCTTTAGC-GACGCTTCTAACA-AAAACGCCACTAA
1 TTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCAG-CGCTTCTAACACAAAA-GCCACTAA
29459014 A
64 A
29459015 AACATAACCT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
66 5 0.09
67 25 0.47
68 23 0.43
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (68 bp):
TTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTCTAACACAAAAGCCACTAAAG
ATT
Found at i:29464398 original size:21 final size:22
Alignment explanation
Indices: 29464359--29464399 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29464349 TCTAAAACCC
29464359 TAAACCCCTAACCCCTAAACTT
1 TAAACCCCTAACCCCTAAACTT
* *
29464381 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
29464400 AATAAACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACTT
Found at i:29464627 original size:16 final size:17
Alignment explanation
Indices: 29464591--29464632 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
29464581 CACTATAATC
29464591 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
29464609 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
29464625 ATTATTTA
1 ATTATTTA
29464633 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:29464773 original size:21 final size:21
Alignment explanation
Indices: 29464739--29464802 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
29464729 ACTAATTAAT
* *
29464739 CTAAACCCTAAATCCTAAACCC
1 CTAAA-CCTTAATCCTCAACCC
29464761 CT-AACTCTTAATCCTCAACCC
1 CTAAAC-CTTAATCCTCAACCC
*
29464782 CTAAACCTTAAACCTCAACCC
1 CTAAACCTTAATCCTCAACCC
29464803 TTAATCTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.03
21 31 0.84
22 5 0.14
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACCTTAATCCTCAACCC
Found at i:29464829 original size:14 final size:14
Alignment explanation
Indices: 29464783--29464963 Score: 52
Period size: 14 Copynumber: 12.9 Consensus size: 14
29464773 CCTCAACCCC
29464783 TAAACCTTAAACC-
1 TAAACCTTAAACCA
* * *
29464796 TCAACCCTTAATCTA
1 T-AAACCTTAAACCA
29464811 T-AACCTTAAACCA
1 TAAACCTTAAACCA
**
29464824 TAAACC-GCAA-CA
1 TAAACCTTAAACCA
* * *
29464836 TTTAAACCCTAAATCT
1 --TAAACCTTAAACCA
* *
29464852 TAAACCATAAACTA
1 TAAACCTTAAACCA
* * *
29464866 TAAACCATAACCCC
1 TAAACCTTAAACCA
* *
29464880 TAAACTCATAATCCA
1 TAAAC-CTTAAACCA
29464895 TAAACCTTAAA--A
1 TAAACCTTAAACCA
* *
29464907 TAGTAACTCCTAAACCT
1 TA--AAC-CTTAAACCA
*
29464924 TAAA-CTCTAAATCA
1 TAAACCT-TAAACCA
* *
29464938 TATACCCTAAACCA
1 TAAACCTTAAACCA
*
29464952 AAAACCTTAAAC
1 TAAACCTTAAAC
29464964 TATAGTGATA
Statistics
Matches: 120, Mismatches: 33, Indels: 29
0.66 0.18 0.16
Matches are distributed among these distances:
12 5 0.04
13 14 0.12
14 75 0.62
15 23 0.19
16 1 0.01
17 2 0.02
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:29464905 original size:22 final size:23
Alignment explanation
Indices: 29464880--29464930 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
29464870 CCATAACCCC
29464880 TAAACTCA-TAA-TCCATAAACCT
1 TAAACTCAGTAACTCC-TAAACCT
*
29464902 TAAAAT-AGTAACTCCTAAACCT
1 TAAACTCAGTAACTCCTAAACCT
29464924 TAAACTC
1 TAAACTC
29464931 TAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACTCAGTAACTCCTAAACCT
Found at i:29465249 original size:19 final size:20
Alignment explanation
Indices: 29465223--29465268 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
29465213 ATATAATTTT
29465223 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
29465241 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
29465261 AATAAAAT
1 AATTAAAT
29465269 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:29465339 original size:41 final size:41
Alignment explanation
Indices: 29465275--29465465 Score: 233
Period size: 41 Copynumber: 4.7 Consensus size: 41
29465265 AAATGTTTTT
** * * * *
29465275 GCGGCGCTTTTTTAGAAATGCCGCTAAAGACCGGAGAATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
*
29465316 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACTTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
* * * *
29465357 GCGGCGC-TTCCCAGAAACGCCACTAAAG-CCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
* *
29465396 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
**
29465437 GCGGCGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
29465466 CCCCGAAAGG
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 16 0.13
40 35 0.28
41 76 0.60
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
Found at i:29468129 original size:14 final size:14
Alignment explanation
Indices: 29468107--29468149 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
29468097 TACGTTAGCG
*
29468107 AATAAAAATATATA
1 AATATAAATATATA
*
29468121 AATATAAATAAATA
1 AATATAAATATATA
**
29468135 AATATTTATATATA
1 AATATAAATATATA
29468149 A
1 A
29468150 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATATAAATATATA
Found at i:29468147 original size:22 final size:22
Alignment explanation
Indices: 29468112--29468159 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
29468102 TAGCGAATAA
29468112 AAATATATAAATATAA-ATAAAT
1 AAATATATAAATATAATA-AAAT
* *
29468134 AAATATTTATATATAATAAAAT
1 AAATATATAAATATAATAAAAT
29468156 AAAT
1 AAAT
29468160 TTAATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATATAAATATAATAAAAT
Found at i:29468224 original size:7 final size:7
Alignment explanation
Indices: 29468212--29468266 Score: 110
Period size: 7 Copynumber: 7.9 Consensus size: 7
29468202 CCTAACATAA
29468212 CAAAAAT
1 CAAAAAT
29468219 CAAAAAT
1 CAAAAAT
29468226 CAAAAAT
1 CAAAAAT
29468233 CAAAAAT
1 CAAAAAT
29468240 CAAAAAT
1 CAAAAAT
29468247 CAAAAAT
1 CAAAAAT
29468254 CAAAAAT
1 CAAAAAT
29468261 CAAAAA
1 CAAAAA
29468267 AAGAAGAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.13
Consensus pattern (7 bp):
CAAAAAT
Found at i:29469644 original size:24 final size:25
Alignment explanation
Indices: 29469607--29469656 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
29469597 CACGCTAGCG
29469607 AACAAAAATATATAAATATAA-ATA
1 AACAAAAATATATAAATATAATATA
* * *
29469631 AACAAATATTTATATATATAATATA
1 AACAAAAATATATAAATATAATATA
29469656 A
1 A
29469657 TAAATTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
AACAAAAATATATAAATATAATATA
Found at i:29469726 original size:7 final size:7
Alignment explanation
Indices: 29469714--29469747 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
29469704 CATAACATAA
29469714 CAAAAAT
1 CAAAAAT
29469721 CAAAAAT
1 CAAAAAT
*
29469728 TAAAAAT
1 CAAAAAT
29469735 CAAAAAT
1 CAAAAAT
*
29469742 TAAAAA
1 CAAAAA
29469748 AATAAGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (7 bp):
CAAAAAT
Found at i:29469734 original size:14 final size:14
Alignment explanation
Indices: 29469715--29469747 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
29469705 ATAACATAAC
29469715 AAAAATCAAAAATT
1 AAAAATCAAAAATT
29469729 AAAAATCAAAAATT
1 AAAAATCAAAAATT
29469743 AAAAA
1 AAAAA
29469748 AATAAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAATCAAAAATT
Found at i:29471144 original size:20 final size:20
Alignment explanation
Indices: 29471121--29471160 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
29471111 TATAAATATA
*
29471121 AATAAAA-ATATTTATATAAT
1 AATAAAATAAATTTA-ATAAT
29471141 AATAAAATAAATTTAATAAT
1 AATAAAATAAATTTAATAAT
29471161 TTATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAAAATAAATTTAATAAT
Found at i:29472617 original size:18 final size:20
Alignment explanation
Indices: 29472569--29472615 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
29472559 ACACGTTAGC
29472569 AAATAAAAATATATAAATAT
1 AAATAAAAATATATAAATAT
* *
29472589 AAATAAAAATATTTATATAT
1 AAATAAAAATATATAAATAT
29472609 -AATAAAA
1 AAATAAAA
29472616 TAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAAAAATATATAAATAT
Found at i:29472622 original size:20 final size:18
Alignment explanation
Indices: 29472585--29472627 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
29472575 AAATATATAA
*
29472585 ATATAAATAAAAATATTT
1 ATATAAATAAAAAAATTT
29472603 ATATATAATAAAATAAATTT
1 ATATA-AATAAAA-AAATTT
29472623 A-ATAA
1 ATATAA
29472628 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATAAAAAAATTT
Found at i:29482228 original size:24 final size:25
Alignment explanation
Indices: 29482184--29482231 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
29482174 AATTTAATTT
*
29482184 TTTTAGAAATATTTTTGAAAAAATA
1 TTTTAGAAATATTTTTAAAAAAATA
29482209 TTTT-GAAA-ATTTTCTAAAAAAAT
1 TTTTAGAAATATTTT-TAAAAAAAT
29482232 TCAAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (25 bp):
TTTTAGAAATATTTTTAAAAAAATA
Found at i:29485160 original size:21 final size:22
Alignment explanation
Indices: 29485131--29485177 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
29485121 CAGAAGGAGT
*
29485131 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
29485153 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
29485174 GAGT
1 GAGT
29485178 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:29489331 original size:29 final size:30
Alignment explanation
Indices: 29489298--29489367 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 30
29489288 TTATTGAATG
29489298 AATTTTA-GCTGAGATTGTATTTCATTTCA
1 AATTTTAGGCTGAGATTGTATTTCATTTCA
29489327 AATTTTAGCGTTGGCTGAGATTGTATTTCATTTCA
1 AATTTTA-----GGCTGAGATTGTATTTCATTTCA
29489362 AATTTT
1 AATTTT
29489368 CAACCACCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 7 0.20
35 28 0.80
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.49
Consensus pattern (30 bp):
AATTTTAGGCTGAGATTGTATTTCATTTCA
Found at i:29490605 original size:21 final size:21
Alignment explanation
Indices: 29490579--29490635 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
29490569 CAGGACAAAA
29490579 AAGTATCGATACTTTTTGTCT
1 AAGTATCGATACTTTTTGTCT
29490600 AAGTATCGATACTTTTTGTCT
1 AAGTATCGATACTTTTTGTCT
*
29490621 AAGCATCGATA-TTTT
1 AAGTATCGATACTTTT
29490636 ACAAGATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (21 bp):
AAGTATCGATACTTTTTGTCT
Found at i:29490738 original size:20 final size:20
Alignment explanation
Indices: 29490710--29490753 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
29490700 GTAAGTATCA
*
29490710 ATATTTTTCTTAAGGTACTG
1 ATATATTTCTTAAGGTACTG
*
29490730 ATATATTTCTTAAGGTATTG
1 ATATATTTCTTAAGGTACTG
29490750 ATAT
1 ATAT
29490754 TCCTGCTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (20 bp):
ATATATTTCTTAAGGTACTG
Found at i:29494793 original size:40 final size:40
Alignment explanation
Indices: 29494749--29494868 Score: 222
Period size: 40 Copynumber: 3.0 Consensus size: 40
29494739 AAAAATTAAT
29494749 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
29494789 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
* *
29494829 TTGGTAGAAATCCATTCAAGCAAAACGAGAAAACGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
29494869 AGAAAGTGAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (40 bp):
TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
Found at i:29495619 original size:19 final size:20
Alignment explanation
Indices: 29495576--29495619 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
29495566 GCCACACAGA
*
29495576 CATGTGTGAGGCCATATGGG
1 CATGTGTGAGGCCACATGGG
*
29495596 -TTGTGT-AGGCCACATGGG
1 CATGTGTGAGGCCACATGGG
29495614 CATGTG
1 CATGTG
29495620 GGCCCAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (20 bp):
CATGTGTGAGGCCACATGGG
Found at i:29497358 original size:50 final size:49
Alignment explanation
Indices: 29497252--29497419 Score: 149
Period size: 50 Copynumber: 3.2 Consensus size: 49
29497242 GGGAATGAGA
*
29497252 TCCCATGTAAGACGATGTTTAGGACATGGCATTGGCATCATTAAGATTATGAGAGG
1 TCCCATGTAAGACCATGTTTAGGACATGGC-TTGGCA-C--T--GA-TATGAGAGG
* * *
29497308 TCCCATGTAAGACTATGTTTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTAGGACATGGC-TTGGCACTGATATGAGAGG
* * * * **
29497358 TCTCC-CGTAAGACCATGTCTAGGACATGGCATGAGCACCGATATGAGAAC
1 TC-CCATGTAAGACCATGTTTAGGACATGGCTTG-GCACTGATATGAGAGG
29497408 TCCCATGTAAGA
1 TCCCATGTAAGA
29497420 TCATATATGG
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
49 4 0.04
50 51 0.54
51 4 0.04
53 1 0.01
55 1 0.01
56 34 0.36
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTTTAGGACATGGCTTGGCACTGATATGAGAGG
Found at i:29497741 original size:32 final size:32
Alignment explanation
Indices: 29497704--29497774 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
29497694 TTAAGTAAGT
29497704 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
1 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
29497736 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
1 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
29497768 AAGTAAA
1 AAGTAAA
29497775 GAGCATGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.52, C:0.03, G:0.30, T:0.15
Consensus pattern (32 bp):
AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
Found at i:29497756 original size:16 final size:16
Alignment explanation
Indices: 29497705--29497757 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
29497695 TAAGTAAGTA
29497705 AGTAAATGAGTAAGAG
1 AGTAAATGAGTAAGAG
* *
29497721 AGTAAGTACAG-AAG-G
1 AGTAAAT-GAGTAAGAG
29497736 AAGTAAATGAGTAAGAG
1 -AGTAAATGAGTAAGAG
29497753 AGTAA
1 AGTAA
29497758 GTACAGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.30, T:0.17
Consensus pattern (16 bp):
AGTAAATGAGTAAGAG
Found at i:29497772 original size:16 final size:16
Alignment explanation
Indices: 29497721--29497773 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
29497711 TGAGTAAGAG
29497721 AGTAAGTACAGAAGGA
1 AGTAAGTACAGAAGGA
* *
29497737 AGTAAAT-GAGTAA-GA
1 AGTAAGTACAG-AAGGA
29497752 GAGTAAGTACAGAAGGA
1 -AGTAAGTACAGAAGGA
29497769 AGTAA
1 AGTAA
29497774 AGAGCATGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.30, T:0.15
Consensus pattern (16 bp):
AGTAAGTACAGAAGGA
Found at i:29504663 original size:13 final size:14
Alignment explanation
Indices: 29504640--29504677 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
29504630 TTCTTTATAT
29504640 ATTATATTATTTCA
1 ATTATATTATTTCA
29504654 ATTA-ATTATTTCA
1 ATTATATTATTTCA
*
29504667 AATATCATTAT
1 ATTAT-ATTAT
29504678 GTTTATACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTATATTATTTCA
Found at i:29511622 original size:21 final size:22
Alignment explanation
Indices: 29511598--29511645 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
29511588 TTCATTGTTG
*
29511598 TTTTGTTGTTG-TTTGCTGTCA
1 TTTTGATGTTGTTTTGCTGTCA
29511619 TTTTGATGTTGTTTTGCTGTCA
1 TTTTGATGTTGTTTTGCTGTCA
29511641 TTTTG
1 TTTTG
29511646 CTTTTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.06, C:0.08, G:0.23, T:0.62
Consensus pattern (22 bp):
TTTTGATGTTGTTTTGCTGTCA
Found at i:29511644 original size:11 final size:11
Alignment explanation
Indices: 29511609--29511647 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
29511599 TTTGTTGTTG
29511609 TTTGCTGTCAT
1 TTTGCTGTCAT
* **
29511620 TTTGATGTTGT
1 TTTGCTGTCAT
29511631 TTTGCTGTCAT
1 TTTGCTGTCAT
29511642 TTTGCT
1 TTTGCT
29511648 TTTATATTGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.08, C:0.13, G:0.21, T:0.59
Consensus pattern (11 bp):
TTTGCTGTCAT
Found at i:29521289 original size:14 final size:15
Alignment explanation
Indices: 29521254--29521295 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
29521244 AAAAATGTTG
* *
29521254 AAAAAATAAGTGTTC
1 AAAAATTAAGTATTC
29521269 AAAAATTAAGTATT-
1 AAAAATTAAGTATTC
29521283 AAAAATTTAAGTA
1 AAAAA-TTAAGTA
29521296 ATGAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (15 bp):
AAAAATTAAGTATTC
Found at i:29527534 original size:13 final size:13
Alignment explanation
Indices: 29527502--29527534 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
29527492 ACTGCTCTCT
*
29527502 AAATCCCCTTCCA
1 AAATCCTCTTCCA
29527515 AAATCCTCTTCCA
1 AAATCCTCTTCCA
29527528 AAATCCT
1 AAATCCT
29527535 TGTTTCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATCCTCTTCCA
Found at i:29529168 original size:15 final size:16
Alignment explanation
Indices: 29529131--29529172 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
29529121 AATGCATGTA
29529131 AAAATGAAAAAAATAT
1 AAAATGAAAAAAATAT
29529147 AATAATGAAAAAAATA-
1 AA-AATGAAAAAAATAT
*
29529163 CAAATGAAAA
1 AAAATGAAAA
29529173 GGAAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 3 0.12
17 13 0.54
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATGAAAAAAATAT
Found at i:29537650 original size:24 final size:24
Alignment explanation
Indices: 29537621--29537670 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
29537611 GTTTTTCACG
29537621 ACACGAACATGGGCATTTAATGAC
1 ACACGAACATGGGCATTTAATGAC
29537645 ACACGAACATGGGCATTTAATGAC
1 ACACGAACATGGGCATTTAATGAC
29537669 AC
1 AC
29537671 CAAAAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (24 bp):
ACACGAACATGGGCATTTAATGAC
Found at i:29538807 original size:22 final size:22
Alignment explanation
Indices: 29538780--29538834 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
29538770 ATATGGGTTA
29538780 AAAACCCAAAACCAAGATAATT
1 AAAACCCAAAACCAAGATAATT
29538802 AAAACCCAAAACCAAGATAATT
1 AAAACCCAAAACCAAGATAATT
*
29538824 ACAACCCAAAA
1 AAAACCCAAAA
29538835 ACTTAGCCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.60, C:0.25, G:0.04, T:0.11
Consensus pattern (22 bp):
AAAACCCAAAACCAAGATAATT
Found at i:29554259 original size:29 final size:29
Alignment explanation
Indices: 29554226--29554389 Score: 165
Period size: 29 Copynumber: 5.6 Consensus size: 29
29554216 GTCGTATTCG
* **
29554226 TCCCTTTTCATATTCGATGGCCGAAACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCA
*
29554255 TCCCTTTTCATTAATCGATGGTCGTCACCA
1 TCCCTTTTCA-TATTCGATGGTCGTCACCA
29554285 TCCCCTTTT-ATAGTT-GATGGTCGTCACCA
1 T-CCCTTTTCATA-TTCGATGGTCGTCACCA
* * * * *
29554314 TACCTTTTCATAATT-GATAGTTG-AAGCTA
1 TCCCTTTTCAT-ATTCGATGGTCGTCA-CCA
29554343 TCCCTTTTCATATTCGATGGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCA
*
29554372 TCCCTTTTCATAATCGAT
1 TCCCTTTTCATATTCGAT
29554390 ACTGAAGCTA
Statistics
Matches: 111, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
28 10 0.09
29 74 0.67
30 20 0.18
31 7 0.06
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCGTCACCA
Found at i:29554366 original size:58 final size:58
Alignment explanation
Indices: 29554226--29554410 Score: 207
Period size: 58 Copynumber: 3.2 Consensus size: 58
29554216 GTCGTATTCG
* ** * * * *
29554226 TCCCTTTTCATATTCGATGGCCGAAACCATCCCTTTTCATTAATCGATGGTCGTCA-CCA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCA-TAATCGATAGTTG-AAGCTA
* *
29554285 TCCCCTTTT-ATAGTT-GATGGTCGTCACCATACCTTTTCATAATTGATAGTTGAAGCTA
1 T-CCCTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTTGAAGCTA
*
29554343 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATA-CTGAAGCTA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTTGAAGCTA
*
29554400 TCCTTTTTCAT
1 TCCCTTTTCAT
29554411 GTTCAATGAT
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
57 28 0.26
58 47 0.44
59 24 0.22
60 9 0.08
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (58 bp):
TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTTGAAGCTA
Found at i:29559067 original size:14 final size:15
Alignment explanation
Indices: 29559048--29559091 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
29559038 ACATCTTTCG
29559048 TTCTCTTTTCCT-CT
1 TTCTCTTTTCCTGCT
29559062 TTCTCTTTTCCTGCT
1 TTCTCTTTTCCTGCT
*
29559077 TT-TCTTTTCTTGCT
1 TTCTCTTTTCCTGCT
29559091 T
1 T
29559092 CATACCTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.66
Consensus pattern (15 bp):
TTCTCTTTTCCTGCT
Found at i:29580747 original size:4 final size:4
Alignment explanation
Indices: 29580738--29580767 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
29580728 GCCAAAACGG
29580738 TTTA TTTA TTTA TTTA TTTA TTTA TATTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA T
29580768 CATTATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:29581108 original size:16 final size:17
Alignment explanation
Indices: 29581087--29581119 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29581077 CAACACGGAG
29581087 ATTAAA-AATCCCAAAA
1 ATTAAACAATCCCAAAA
*
29581103 ATTAAACAATCTCAAAA
1 ATTAAACAATCCCAAAA
29581120 GTCCATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (17 bp):
ATTAAACAATCCCAAAA
Found at i:29583474 original size:21 final size:22
Alignment explanation
Indices: 29583448--29583494 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
29583438 CTCTGCTCAA
*
29583448 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
29583469 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
29583491 ACTC
1 ACTC
29583495 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:29588576 original size:22 final size:22
Alignment explanation
Indices: 29588540--29588581 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
29588530 CTAAGAGCCG
* *
29588540 TAAACAGGATAGTTATAAGCTA
1 TAAACAGAATAGTTACAAGCTA
*
29588562 TAAACAGAATGGTTACAAGC
1 TAAACAGAATAGTTACAAGC
29588582 CATATGTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (22 bp):
TAAACAGAATAGTTACAAGCTA
Found at i:29588677 original size:32 final size:32
Alignment explanation
Indices: 29588598--29588747 Score: 166
Period size: 32 Copynumber: 4.7 Consensus size: 32
29588588 TACAGTAATG
* * *
29588598 TGATTGGCACAAAGTCATCAGTAGA-AGTGA-TA
1 TGATCGGCACAAAGCCATCAGTA-ACGGT-ACTA
*
29588630 TGATC-GCACACAGCCATCAGTAACGGTAAC-A
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
*
29588661 TGATCGGCACAAAGCCATTAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
29588693 TGA-CTGGCACAAAGCCATCAGTAACGGTACTA
1 TGATC-GGCACAAAGCCATCAGTAACGGTACTA
* *
29588725 TGACCGACACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
29588748 GCATCGCAGC
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.01
31 27 0.26
32 74 0.72
33 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTACTA
Found at i:29588802 original size:26 final size:26
Alignment explanation
Indices: 29588750--29588803 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
29588740 CATCAGTAGC
* *
29588750 ATCGCAGCAAAGCTGCTAGCAACAGT
1 ATCGCAGCAAAGCTACCAGCAACAGT
* *
29588776 ATCGCAGCAAAGCTACCAGTAATAGT
1 ATCGCAGCAAAGCTACCAGCAACAGT
29588802 AT
1 AT
29588804 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTACCAGCAACAGT
Found at i:29588820 original size:27 final size:26
Alignment explanation
Indices: 29588785--29588850 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
29588775 TATCGCAGCA
* *
29588785 AAGCTACCAGTAATAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
*
29588812 AAGCCACCAGCAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
29588838 AGAGCCACCAGTA
1 A-AGCCACCAGTA
29588851 TAATACTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 29 0.88
28 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:29589050 original size:27 final size:27
Alignment explanation
Indices: 29588998--29589279 Score: 252
Period size: 27 Copynumber: 10.5 Consensus size: 27
29588988 GGCAAAAATA
29588998 GTCA-TTTACCC-ACCAGG-GCATTACG
1 GTCATTTTACCCTA-CAGGAGCATTACG
* * * *
29589023 GTCATTTTATCGTATAGGAGTATTACG
1 GTCATTTTACCCTACAGGAGCATTACG
** * *
29589050 GTCATTTTACTTTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGAGCATTACG
* * *
29589077 ATCATTTTACCCTATA-GAGGTATTACG
1 GTCATTTTACCCTACAGGA-GCATTACG
* *
29589104 ATCATTTTACCCTACA-AAGGCATTACG
1 GTCATTTTACCCTACAGGA-GCATTACG
* * *
29589131 ATCATTTTACCCTACAGGGGAATTACG
1 GTCATTTTACCCTACAGGAGCATTACG
* *
29589158 GTCATTTTACCTTACAGGTGCATTACG
1 GTCATTTTACCCTACAGGAGCATTACG
29589185 GTCATTTTACCCTACTAGG-GCATTACG
1 GTCATTTTACCCTAC-AGGAGCATTACG
* * *
29589212 GTCATTTTATCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGAGCATTACG
* * **
29589239 GTCATTTTACCCTACAGGGGTATTATA
1 GTCATTTTACCCTACAGGAGCATTACG
*
29589266 ATCATTTTACCCTA
1 GTCATTTTACCCTA
29589280 TGGGGGTATT
Statistics
Matches: 219, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
25 4 0.02
26 12 0.05
27 200 0.91
28 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGAGCATTACG
Found at i:29589082 original size:54 final size:54
Alignment explanation
Indices: 29588998--29589279 Score: 288
Period size: 54 Copynumber: 5.3 Consensus size: 54
29588988 GGCAAAAATA
* * *
29588998 GTCA-TTTACCC-ACCA-GGGCATTACGGTCATTTTATCGTATAGGAGTATTACG
1 GTCATTTTACCCTA-CAGGGGCATTACGATCATTTTACCCTATAGGAGTATTACG
** *
29589050 GTCATTTTACTTTATAGGGGCATTACGATCATTTTACCCTATA-GAGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATAGGA-GTATTACG
* ** * * *
29589104 ATCATTTTACCCTACAAAGGCATTACGATCATTTTACCCTACAGGGGAATTACG
1 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATAGGAGTATTACG
* * * *
29589158 GTCATTTTACCTTACAGGTGCATTACGGTCATTTTACCCTACTAGG-GCATTACG
1 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTA-TAGGAGTATTACG
* * * **
29589212 GTCATTTTATCCTACAGGGGCATTAC-AGTCATTTTACCCTACAGGGGTATTATA
1 GTCATTTTACCCTACAGGGGCATTACGA-TCATTTTACCCTATAGGAGTATTACG
*
29589266 ATCATTTTACCCTA
1 GTCATTTTACCCTA
29589280 TGGGGGTATT
Statistics
Matches: 189, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
52 4 0.02
53 11 0.06
54 170 0.90
55 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATAGGAGTATTACG
Found at i:29595007 original size:76 final size:77
Alignment explanation
Indices: 29594859--29595055 Score: 263
Period size: 76 Copynumber: 2.5 Consensus size: 77
29594849 CTTCGGGACA
* *
29594859 TAGCCCGGTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 TAGCCCGGAT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAACCCGGAATTAGTAACTCGCAC
*
29594923 AAATGCCTTCAGGCT
63 AAAAGCCTTCAGGCT
* *
29594938 TAGCCCGGATTAGTATCTCGCACAAATGCCTTCGG-CTTAGCCCGGAATTAGTATCTCGCACAAA
1 TAGCCCGGATTAGTATCTCGCACAAATGCCTTCGGACTTAACCCGGAATTAGTAACTCGCACAAA
*
29595002 AGCCTTCGGGCT
66 AGCCTTCAGGCT
* *
29595014 TAGCCAAGAATTAGTATCTCGCACAAATGCCTTCGGATCTTA
1 TAGCC-CGGATTAGTATCTCGCACAAATGCCTTCGGA-CTTA
29595056 GTCCGGATAT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
76 41 0.39
77 32 0.30
78 20 0.19
79 13 0.12
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (77 bp):
TAGCCCGGATTAGTATCTCGCACAAATGCCTTCGGACTTAACCCGGAATTAGTAACTCGCACAAA
AGCCTTCAGGCT
Found at i:29595102 original size:40 final size:40
Alignment explanation
Indices: 29594842--29595102 Score: 283
Period size: 40 Copynumber: 6.7 Consensus size: 40
29594832 GCTCCTCGTT
* *
29594842 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATCTCGCA
* * *
29594882 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTATCTCGCA
*
29594922 CAAATGCCTTCAGG-CTTAGCCCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTATCTCGCA
29594960 CAAATGCCTTC-GG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTATCTCGCA
* **
29594998 CAAAAGCCTTCGGG-CTTAGCCAAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTATCTCGCA
* * *
29595037 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ATC-TCGCA
29595078 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29595103 CATCATTCAA
Statistics
Matches: 193, Mismatches: 18, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
37 13 0.07
38 46 0.24
39 47 0.24
40 74 0.38
41 13 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATCTCGCA
Found at i:29602849 original size:79 final size:81
Alignment explanation
Indices: 29602747--29602931 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
29602737 GCTCCTCATT
* *
29602747 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
29602809 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
29602827 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
29602891 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
29602907 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29602932 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:29602931 original size:40 final size:40
Alignment explanation
Indices: 29602747--29602931 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
29602737 GCTCCTCATT
* * *
29602747 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
29602787 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
29602827 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
29602866 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
29602907 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29602932 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Done.