Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 56 of 91
Found at i:12804681 original size:31 final size:31
Alignment explanation
Indices: 12804638--12804704 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
12804628 ACTAAATTTG
12804638 TAAAA-AAATATAATATTTAAAATAATATCC
1 TAAAACAAATATAATATTTAAAATAATATCC
12804668 TAAAACAAATATAATATTTAAAATAATATCC
1 TAAAACAAATATAATATTTAAAATAATATCC
12804699 TAAAAC
1 TAAAAC
12804705 TTGAGTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (31 bp):
TAAAACAAATATAATATTTAAAATAATATCC
Found at i:12805269 original size:17 final size:19
Alignment explanation
Indices: 12805249--12805287 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
12805239 AGTGATAATA
12805249 ATTCTATA-CATT-TTTAC
1 ATTCTATATCATTCTTTAC
12805266 ATTCTATATCATTCTTTAC
1 ATTCTATATCATTCTTTAC
12805285 ATT
1 ATT
12805288 TTGATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.28, C:0.18, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTCTATATCATTCTTTAC
Found at i:12806653 original size:10 final size:9
Alignment explanation
Indices: 12806640--12806736 Score: 61
Period size: 10 Copynumber: 10.0 Consensus size: 9
12806630 CTCGAAATAG
12806640 AAAGAAAAGA
1 AAAGAAAA-A
12806650 AAAGATAAAA
1 AAAGA-AAAA
*
12806660 AGAGAAAAA
1 AAAGAAAAA
12806669 AGAAGAAAAA
1 A-AAGAAAAA
*
12806679 GAAGAAGAAA
1 AAAGAA-AAA
12806689 ACAA-ATAAAA
1 A-AAGA-AAAA
12806699 GAAAGAAAAA
1 -AAAGAAAAA
**
12806709 AAATGAAATT
1 AAA-GAAAAA
* *
12806719 GAAGAAATA
1 AAAGAAAAA
12806728 AAAGAAAAA
1 AAAGAAAAA
12806737 TGGAGTTCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
9 25 0.36
10 36 0.52
11 8 0.12
ACGTcount: A:0.76, C:0.01, G:0.16, T:0.06
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:12806674 original size:12 final size:12
Alignment explanation
Indices: 12806640--12806689 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
12806630 CTCGAAATAG
12806640 AAAGAA-AAGAA
1 AAAGAAGAAGAA
* *
12806651 AAGATAAAAAGAGA
1 AA-AGAAGAAGA-A
12806665 AAA-AAGAAGAA
1 AAAGAAGAAGAA
12806676 AAAGAAGAAGAA
1 AAAGAAGAAGAA
12806688 AA
1 AA
12806690 CAAATAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
11 6 0.18
12 19 0.58
13 5 0.15
14 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (12 bp):
AAAGAAGAAGAA
Found at i:12806709 original size:20 final size:20
Alignment explanation
Indices: 12806638--12806711 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 20
12806628 AACTCGAAAT
12806638 AGAAAGAAAAGAAAAGATAAA
1 AGAAAGAAAA-AAAAGATAAA
*
12806659 A-AGAGAAAAAAGAAGA-AAA
1 AGAAAGAAAAAA-AAGATAAA
12806678 AG-AAGAAGAAAACAA-ATAAA
1 AGAAAGAA-AAAA-AAGATAAA
12806698 AGAAAGAAAAAAAA
1 AGAAAGAAAAAAAA
12806712 TGAAATTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 13 0.29
20 26 0.58
21 6 0.13
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (20 bp):
AGAAAGAAAAAAAAGATAAA
Found at i:12807130 original size:116 final size:116
Alignment explanation
Indices: 12806930--12807166 Score: 257
Period size: 116 Copynumber: 2.0 Consensus size: 116
12806920 TCAAAAGTTA
* *
12806930 ACCTATACACTTCGAGATTATATCCATTTGATTAATTTAGAAAGCCTGGCATTTTGGGAGAAGTT
1 ACCTCTACACTTCGAGATTATATCCATTTGATTAATTTAGAAAGCCTGGCATTTTGGGAGAAGCT
**
12806995 TTTCATTCACAAAAGTTTTAGTAAAATTTTAAG-TCTTGTAGAC-AAAATCTT
66 TCACATTCACAAAAGTTTTAGTAAAA-TTTAAGATCTTGTAGACTAAAA-CTT
* * * * * * * * *
12807046 ACCTCTACGCTTCGGGATTATATCCATTTGATTAGTTTAGAGATCTTGGTATTTTGTGATAAGCT
1 ACCTCTACACTTCGAGATTATATCCATTTGATTAATTTAGAAAGCCTGGCATTTTGGGAGAAGCT
* * * *
12807111 TCACA-TCTATAAACA-TTTTAGTAACATTTAAGATCTTTTAGACTTAAACTT
66 TCACATTC-ACAAA-AGTTTTAGTAAAATTTAAGATCTTGTAGACTAAAACTT
12807162 ACCTC
1 ACCTC
12807167 ACCGCTCTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
115 8 0.08
116 88 0.88
117 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (116 bp):
ACCTCTACACTTCGAGATTATATCCATTTGATTAATTTAGAAAGCCTGGCATTTTGGGAGAAGCT
TCACATTCACAAAAGTTTTAGTAAAATTTAAGATCTTGTAGACTAAAACTT
Found at i:12808280 original size:17 final size:18
Alignment explanation
Indices: 12808242--12808290 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
12808232 ATGAATGTGC
12808242 AAAGATGAAGACTCAACA
1 AAAGATGAAGACTCAACA
* *
12808260 AAAGATTAAGACTCAATA
1 AAAGATGAAGACTCAACA
12808278 AAGAGAATGAAGA
1 AA-AG-ATGAAGA
12808291 AAATATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 18 0.69
19 2 0.08
20 6 0.23
ACGTcount: A:0.57, C:0.10, G:0.18, T:0.14
Consensus pattern (18 bp):
AAAGATGAAGACTCAACA
Found at i:12809135 original size:327 final size:327
Alignment explanation
Indices: 12808557--12809435 Score: 996
Period size: 327 Copynumber: 2.7 Consensus size: 327
12808547 TCATGATGCA
* * * * *
12808557 AAGAACTCGACCACCAAGGAAGAGAAAGTTC--ATAGGAGAGCTTGTTCAACCTTTGATCCATCA
1 AAGAACTCGACCATCAAGGAAGAGGAAGTTCATATAGGAGATCTTGTTCAACCTTTGATCTATAA
* * * * * * *
12808620 TAAAAAGAGATGGAATAGCATTTCTAAT-GAAGAGTTCATAACATGAAGAACTCGACCATCAAGT
66 TAGAAGGAGGTGGAATAGAATTTC-AATAG-AGAGTTCATAATATGAAGAACTCGACCACCAAGA
* * ** * * *** *
12808684 AAGAGGAAGTTAATAT-AGAAGAGCTTGTTCAATATTTGATTCATCTGAACATGAGGCAGAATAT
129 AAGAGGAAGTTCATATAAG-AGAACTTGTTCAACCTTTGATTCATC-AAAAATGAGATGGAATAG
* * * * * * *
12808748 CATTTCCAATGAAAACTTCATAACATGAAGAACTCGACCACCATGTATAAGGAAGTTCATATATG
192 CATTTCTAATG-AGAGTTCATAATATGAAGAAATCGACCACCAAGGATAAGGAAGTTCATATATG
*
12808813 AGAACATGCTCAACCTTTGGTCCA-TA-ATAA-GAGAT-GAAATGAAATTTTCAAGGGAGAGTTC
256 AGAACATGCTCAACCTTTGATCCACTACATAAGGAGATAG-AATGAAATTTTCAAGGGAGAGTTC
12808874 ATAATATG
320 ATAATATG
* *
12808882 AAGAACTCGACAATCAAGGAAGAGGAAGTTCATATAGGAGATCTTGTTCAACCTTTGATATATAA
1 AAGAACTCGACCATCAAGGAAGAGGAAGTTCATATAGGAGATCTTGTTCAACCTTTGATCTATAA
*
12808947 TAGAAGGAGGTGGAATAGAATTTTCAATAGAGAGTTCATAATATGAAGAACTCGACCACCAAGGA
66 TAGAAGGAGGTGGAATAGAA-TTTCAATAGAGAGTTCATAATATGAAGAACTCGACCACCAAGAA
* *
12809012 AGATGAAGTTCATATAAGAGAACTTGTTCAACCTTTGATCCATCAAATAATGAGATGGAATAGCA
130 AGAGGAAGTTCATATAAGAGAACTTGTTCAACCTTTGATTCATCAAA-AATGAGATGGAATAGCA
*
12809077 TTTCTAATTGAGAGTTCATAATATGAAGAAATCGACTACCAAGGA-AGAGGAAGTTCATATATGA
194 TTTCTAA-TGAGAGTTCATAATATGAAGAAATCGACCACCAAGGATA-AGGAAGTTCATATATGA
* *
12809141 GAACTTGCTCAACCTTTGATCCACTACATAAGGAGATAGAATGAAATTTTCAATGGAGAGTTCAT
257 GAACATGCTCAACCTTTGATCCACTACATAAGGAGATAGAATGAAATTTTCAAGGGAGAGTTCAT
12809206 AATATG
322 AATATG
* *
12809212 AAGAACTCGACCTTCACA-GAAGAGGAAGTTCATATAGGAGATCTTGTGCAACCTTTGATCTATC
1 AAGAACTCGACCATCA-AGGAAGAGGAAGTTCATATAGGAGATCTTGTTCAACCTTTGATCTAT-
* * * * * *
12809276 AA-AGAAGG-GGTGGAATA-ACGCTTCCAATAGAGAGTTCATATTATGAACAAATCAACCACCAA
64 AATAGAAGGAGGTGGAATAGA--ATTTCAATAGAGAGTTCATAATATGAAGAACTCGACCACCAA
* * * * * * *
12809338 GAAAAAGGAAGTTCATATAGGAAAACTTGTTCAACCTATAATTCATCATAAAAGGAGATGAAAT-
127 GAAAGAGGAAGTTCATATAAGAGAACTTGTTCAACCTTTGATTCATCA-AAAATGAGATGGAATA
**
12809402 GACATTT-TAAACAATGAGTTCATAATATGAAGAA
191 G-CATTTCT-AATGA-GAGTTCATAATATGAAGAA
12809436 CTCAATCATA
Statistics
Matches: 475, Mismatches: 59, Indels: 36
0.83 0.10 0.06
Matches are distributed among these distances:
325 28 0.06
326 3 0.01
327 198 0.42
328 15 0.03
329 126 0.27
330 101 0.21
331 4 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (327 bp):
AAGAACTCGACCATCAAGGAAGAGGAAGTTCATATAGGAGATCTTGTTCAACCTTTGATCTATAA
TAGAAGGAGGTGGAATAGAATTTCAATAGAGAGTTCATAATATGAAGAACTCGACCACCAAGAAA
GAGGAAGTTCATATAAGAGAACTTGTTCAACCTTTGATTCATCAAAAATGAGATGGAATAGCATT
TCTAATGAGAGTTCATAATATGAAGAAATCGACCACCAAGGATAAGGAAGTTCATATATGAGAAC
ATGCTCAACCTTTGATCCACTACATAAGGAGATAGAATGAAATTTTCAAGGGAGAGTTCATAATA
TG
Found at i:12809155 original size:220 final size:218
Alignment explanation
Indices: 12808511--12809489 Score: 867
Period size: 220 Copynumber: 4.5 Consensus size: 218
12808501 TCTATCCATC
* * * * * ***
12808511 ATAGAATGAGGTTGAGTAGAATTTCCAATGATGAGTTCATGATGCAAAGAACTCGACCACCAAGG
1 ATAGAAGGAGGTAGAATAGAATTTTCAATGA-GAGTTCATAATATGAAGAACTCGACCACCAAGG
* * *
12808576 AAGAGAAAGTTC--ATAGGAGAGCTTGTTCAACCTTTGATCCATCATAAAAAGAGATGGAATAGC
65 AAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATCCATCA-AATAAGAGATGGAATAGC
* * * * * *
12808639 ATTTCTAA-TGAAGAGTTCATAACATGAAGAACTCGACCATCAAGTAAGAGGAAGTTAATATAGA
129 ATTTCTAATTG-AGAGTTCATAATATGAAGAAATCGACCACCAAGGAAGAGGAAGTTCATATAGG
* **
12808703 AGAGCTTGTTCAATATTTGATTCAT-
193 AGAACTTGTTCAACCTTTGATTCATA
* * * ** * * * * *
12808728 CT-GAACATGAGGCAGAATATCATTTCCAATGAAAACTTCATAACATGAAGAACTCGACCACCAT
1 ATAG-A-AGGAGGTAGAATAGAATTTTCAATG-AGAGTTCATAATATGAAGAACTCGACCACCAA
* * * * * *
12808792 GTATA-AGGAAGTTCATATATGAGAACATGCTCAACCTTTGGTCCAT--AATAAGAGATGAAAT-
63 GGA-AGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATCCATCAAATAAGAGATGGAATA
* ** * * *
12808853 GAAATTT-TCAAGGGAGAGTTCATAATATGAAGAACTCGACAATCAAGGAAGAGGAAGTTCATAT
127 G-CATTTCT-AATTGAGAGTTCATAATATGAAGAAATCGACCACCAAGGAAGAGGAAGTTCATAT
*
12808917 AGGAGATCTTGTTCAACCTTTGATAT-ATA
190 AGGAGAACTTGTTCAACCTTTGAT-TCATA
*
12808946 ATAGAAGGAGGTGGAATAGAATTTTCAATAGAGAGTTCATAATATGAAGAACTCGACCACCAAGG
1 ATAGAAGGAGGTAGAATAGAATTTTCAAT-GAGAGTTCATAATATGAAGAACTCGACCACCAAGG
* *
12809011 AAGATGAAGTTCATATAAGAGAACTTGTTCAACCTTTGATCCATCAAATAATGAGATGGAATAGC
65 AAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATCCATCAAATAA-GAGATGGAATAGC
* *
12809076 ATTTCTAATTGAGAGTTCATAATATGAAGAAATCGACTACCAAGGAAGAGGAAGTTCATATATGA
129 ATTTCTAATTGAGAGTTCATAATATGAAGAAATCGACCACCAAGGAAGAGGAAGTTCATATAGGA
* *
12809141 GAACTTGCTCAACCTTTGATCCACTA
194 GAACTTGTTCAACCTTTGATTCA-TA
* **
12809167 CAT--AAGGAGATAGAAT-GAAATTTTCAATGGAGAGTTCATAATATGAAGAACTCGACCTTCAC
1 -ATAGAAGGAGGTAGAATAG-AATTTTCAAT-GAGAGTTCATAATATGAAGAACTCGACCACCA-
* * * * * *
12809229 A-GAAGAGGAAGTTCATATAGGAGATCTTGTGCAACCTTTGATCTATCAAAGAAGGGGTGGAATA
62 AGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATCCATCAAATAAGAGATGGAATA
* ** * * * * * * *
12809293 ACGCTTCCAATAGAGAGTTCATATTATGAACAAATCAACCACCAAGAAAAAGGAAGTTCATATAG
127 GCATTTCTAATTGAGAGTTCATAATATGAAGAAATCGACCACCAAGGAAGAGGAAGTTCATATAG
* * * *
12809358 GAAAACTTGTTCAACCTATAATTCATC
192 GAGAACTTGTTCAACCTTTGATTCATA
* * * ** * * **
12809385 ATAAAAGGAGAT-GAA-ATGACATTTTAAACAATGAGTTCATAATATGAAGAACTCAATCATAAA
1 ATAGAAGGAGGTAGAATA-GA-ATTTTCAATGA-GAGTTCATAATATGAAGAACTCGACCACCAA
* * * * * *
12809448 GAAATAAGAAGTTCATATAGGAGATCTTGTTTAAACTTTGAT
63 GGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGAT
12809490 TCGTCATAGA
Statistics
Matches: 626, Mismatches: 105, Indels: 60
0.79 0.13 0.08
Matches are distributed among these distances:
216 4 0.01
217 175 0.28
218 65 0.10
219 168 0.27
220 207 0.33
221 5 0.01
222 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (218 bp):
ATAGAAGGAGGTAGAATAGAATTTTCAATGAGAGTTCATAATATGAAGAACTCGACCACCAAGGA
AGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATCCATCAAATAAGAGATGGAATAGCAT
TTCTAATTGAGAGTTCATAATATGAAGAAATCGACCACCAAGGAAGAGGAAGTTCATATAGGAGA
ACTTGTTCAACCTTTGATTCATA
Found at i:12809489 original size:329 final size:326
Alignment explanation
Indices: 12808794--12809476 Score: 871
Period size: 329 Copynumber: 2.1 Consensus size: 326
12808784 ACCACCATGT
* *
12808794 ATAAGGAAGTTCATATATGAGAACATGCTCAACCTTTGGTCCATAATAAGAGATGAAATGAAATT
1 ATAA-GAAGTTCATATATGAGAACTTGCTCAACCTTTGATCCATAATAAGAGATGAAATGAAATT
12808859 TTCAAGGGAGAGTTCATAATATGAAGAACTCGACAATCAAGGAAGAGGAAGTTCATATAGGAGAT
65 TTCAAGGGAGAGTTCATAATATGAAGAACTCGACAATCAAGGAAGAGGAAGTTCATATAGGAGAT
* * *
12808924 CTTGTTCAACCTTTGATATATAATAGAAGGAGGTGGAATAGAATTTTCAATAGAGAGTTCATAAT
130 CTTGTGCAACCTTTGATATATAATAGAAGGAGGTGGAATAGAACTTCCAATAGAGAGTTCATAAT
* * * * * * * * *
12808989 ATGAAGAACTCGACCACCAAGGAAGATGAAGTTCATATAAGAGAACTTGTTCAACCTTTGATCCA
195 ATGAACAAATCAACCACCAAGAAAAAGGAAGTTCATATAAGAAAACTTGTTCAACCTATAATCCA
* * *** *
12809054 TCAAATAATGAGATGGAATAGCATTTCTAATTGAGAGTTCATAATATGAAGAAATCGACTACCAA
260 TCAAATAAGGAGATGAAATAGCATTTCTAAACAAGAGTTCATAATATGAAGAAATCAACTA-CAA
*
12809119 GGA
324 GAA
* *
12809122 AGAGGAAGTTCATATATGAGAACTTGCTCAACCTTTGATCCACTACATAAGGAGAT-AGAATGAA
1 ATAAGAAGTTCATATATGAGAACTTGCTCAACCTTTGATCCA-TA-ATAA-GAGATGA-AATGAA
* **
12809186 ATTTTCAATGGAGAGTTCATAATATGAAGAACTCGACCTTCACA-GAAGAGGAAGTTCATATAGG
62 ATTTTCAAGGGAGAGTTCATAATATGAAGAACTCGACAATCA-AGGAAGAGGAAGTTCATATAGG
* *
12809250 AGATCTTGTGCAACCTTTGATCTATCAA-AGAAGG-GGTGGAATA-ACGCTTCCAATAGAGAGTT
126 AGATCTTGTGCAACCTTTGATATAT-AATAGAAGGAGGTGGAATAGA-ACTTCCAATAGAGAGTT
* *
12809312 CATATTATGAACAAATCAACCACCAAGAAAAAGGAAGTTCATATAGGAAAACTTGTTCAACCTAT
189 CATAATATGAACAAATCAACCACCAAGAAAAAGGAAGTTCATATAAGAAAACTTGTTCAACCTAT
* *
12809377 AATTCATCATAA-AAGGAGATGAAAT-GACATTT-TAAACAATGAGTTCATAATATGAAGAACTC
254 AATCCATCA-AATAAGGAGATGAAATAG-CATTTCTAAACAA-GAGTTCATAATATGAAGAAATC
12809439 AATCATA-AAGAA
316 AA-C-TACAAGAA
* *
12809451 ATAAGAAGTTCATATAGGAGATCTTG
1 ATAAGAAGTTCATATATGAGAACTTG
12809477 TTTAAACTTT
Statistics
Matches: 307, Mismatches: 36, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
327 36 0.12
328 10 0.03
329 154 0.50
330 102 0.33
331 5 0.02
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (326 bp):
ATAAGAAGTTCATATATGAGAACTTGCTCAACCTTTGATCCATAATAAGAGATGAAATGAAATTT
TCAAGGGAGAGTTCATAATATGAAGAACTCGACAATCAAGGAAGAGGAAGTTCATATAGGAGATC
TTGTGCAACCTTTGATATATAATAGAAGGAGGTGGAATAGAACTTCCAATAGAGAGTTCATAATA
TGAACAAATCAACCACCAAGAAAAAGGAAGTTCATATAAGAAAACTTGTTCAACCTATAATCCAT
CAAATAAGGAGATGAAATAGCATTTCTAAACAAGAGTTCATAATATGAAGAAATCAACTACAAGA
A
Found at i:12809503 original size:110 final size:109
Alignment explanation
Indices: 12808557--12809503 Score: 674
Period size: 110 Copynumber: 8.7 Consensus size: 109
12808547 TCATGATGCA
** * * *
12808557 AAGAACTCGACCACCAAGGAAGAGAAAGTTC--ATAGGAGAGCTTGTTCAACCTTTGATCCATCA
1 AAGAACTCGACCATAAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTCATCA
* * *
12808620 TAAAAAGAGATGGAAT-AGCATTTCT-AATGAAGAGTTCATAACATG
66 TAGAAGGAGATGGAATGA-CATTT-TAAAT-AAGAGTTCATAATATG
* * * * * **
12808665 AAGAACTCGACCATCAAGTAAGAGGAAGTTAATATAGAAGAGCTTGTTCAATATTTGATTCATC-
1 AAGAACTCGACCATAAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTCATCA
* * ** * * *
12808729 T-GAA-CATGAGGCAGAAT-ATCATTTCCAATGAAAACTTCATAACATG
66 TAGAAGGA-GATG--GAATGA-CATTTTAAAT-AAGAGTTCATAATATG
** * * * * * * *
12808775 AAGAACTCGACCACCATGTATA-AGGAAGTTCATATATGAGAACATGCTCAACCTTTGGTCCAT-
1 AAGAACTCGACCATAAAGGA-AGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTCATC
* * * ***
12808838 A-ATAA-GAGATGAAATGAAATTTTCAAGGGAGAGTTCATAATATG
65 ATAGAAGGAGATGGAATGACATTTT-AAATAAGAGTTCATAATATG
* * * *
12808882 AAGAACTCGACAATCAAGGAAGAGGAAGTTCATATAGGAGATCTTGTTCAACCTTTGATAT-ATA
1 AAGAACTCGACCATAAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGAT-TCATC
* *
12808946 ATAGAAGGAGGTGGAATAGA-ATTTTCAATAGAGAGTTCATAATATG
65 ATAGAAGGAGATGGAAT-GACATTTTAAATA-AGAGTTCATAATATG
** * * *
12808992 AAGAACTCGACCACCAAGGAAGATGAAGTTCATATAAGAGAACTTGTTCAACCTTTGATCCATCA
1 AAGAACTCGACCATAAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTCATCA
* * * * *
12809057 AATAATGAGATGGAAT-AGCATTTCTAATTGAGAGTTCATAATATG
66 TAGAAGGAGATGGAATGA-CATTT-TAAATAAGAGTTCATAATATG
* * ** * * *
12809102 AAGAAATCGACTACCAAGGAAGAGGAAGTTCATATATGAGAACTTGCTCAACCTTTGATCCACTA
1 AAGAACTCGACCATAAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTCA-T-
* * * *
12809167 CAT--AAGGAGATAGAATGAAATTTTCAATGGAGAGTTCATAATATG
64 CATAGAAGGAGATGGAATGACATTTTAAAT-AAGAGTTCATAATATG
* * * *
12809212 AAGAACTCGACCTTCACA-GAAGAGGAAGTTCATATAGGAGATCTTGTGCAACCTTTGA-TCTAT
1 AAGAACTCGACCAT-AAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTC-AT
* * * ** ** *
12809275 CAAAGAAGG-GGTGGAATAACGCTTCCAATAGAGAGTTCATATTATG
64 CATAGAAGGAGATGGAATGACATTTTAAATA-AGAGTTCATAATATG
* * * ** * * * * *
12809321 AACAAATCAACCACCAAGAAAAAGGAAGTTCATATAGGAAAACTTGTTCAACCTATAATTCATCA
1 AAGAACTCGACCATAAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTCATCA
* * *
12809386 TAAAAGGAGATGAAATGACATTTTAAACAATGAGTTCATAATATG
66 TAGAAGGAGATGGAATGACATTTTAAATAA-GAGTTCATAATATG
* * * * * * * * *
12809431 AAGAACTCAATCATAAAGAAATAAGAAGTTCATATAGGAGATCTTGTTTAAACTTTGATTCGTCA
1 AAGAACTCGACCATAAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTCATCA
12809496 TAGAAGGA
66 TAGAAGGA
12809504 TGTTGAATAG
Statistics
Matches: 661, Mismatches: 143, Indels: 68
0.76 0.16 0.08
Matches are distributed among these distances:
106 1 0.00
107 70 0.11
108 39 0.06
109 92 0.14
110 448 0.68
111 9 0.01
112 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (109 bp):
AAGAACTCGACCATAAAGGAAGAGGAAGTTCATATAGGAGAACTTGTTCAACCTTTGATTCATCA
TAGAAGGAGATGGAATGACATTTTAAATAAGAGTTCATAATATG
Found at i:12809622 original size:29 final size:30
Alignment explanation
Indices: 12809553--12809611 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
12809543 TAATTTAAGG
12809553 CAAAATGTTTTTGGACTTGAATAGAATTTA
1 CAAAATGTTTTTGGACTTGAATAGAATTTA
* *
12809583 CAAAATATTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATAGAATTTA
12809612 TTAAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATAGAATTTA
Found at i:12811227 original size:15 final size:15
Alignment explanation
Indices: 12811196--12811226 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
12811186 GATGATGGTG
12811196 AAGGAAGATGAAGAA
1 AAGGAAGATGAAGAA
12811211 AAGGAAGA-GAAGAA
1 AAGGAAGATGAAGAA
12811225 AA
1 AA
12811227 ACAAGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (15 bp):
AAGGAAGATGAAGAA
Found at i:12813073 original size:29 final size:30
Alignment explanation
Indices: 12813004--12813062 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
12812994 CAATTTAAGG
*
12813004 CAAAATGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTAAATTTA
*
12813034 CAAAATATTTTTGGACTT-AATTAAATTTA
1 CAAAATGTTTTTGGACTTGAATTAAATTTA
12813063 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTAAATTTA
Found at i:12813168 original size:21 final size:20
Alignment explanation
Indices: 12813142--12813239 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 20
12813132 AGGGTGTCAA
12813142 AGTGCATCCATGCATCCTTGC
1 AGTGCATCCATGCATCC-TGC
*
12813163 AGTGCATCCATGTATCCCTGC
1 AGTGCATCCATGCAT-CCTGC
12813184 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCATCCTG--C
* * *
12813205 TAATGCATCGATGCATCATGC
1 -AGTGCATCCATGCATCCTGC
*
12813226 AATGCATCCATGCA
1 AGTGCATCCATGCA
12813240 CTCAAACATC
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.06
20 13 0.20
21 32 0.48
22 14 0.21
23 3 0.05
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (20 bp):
AGTGCATCCATGCATCCTGC
Found at i:12813231 original size:20 final size:18
Alignment explanation
Indices: 12813206--12813295 Score: 60
Period size: 20 Copynumber: 4.9 Consensus size: 18
12813196 CACCTGCACT
12813206 AATGCATCGATGCATCATGC
1 AATGCATCGATGCATC-T-C
*
12813226 AATGCATCCATGCA-CTC
1 AATGCATCGATGCATCTC
* *
12813243 AA-ACATCGAATGCA-CTT
1 AATGCATCG-ATGCATCTC
*
12813260 AGTGCATCGATGCATCCTGC
1 AATGCATCGATGCAT-CT-C
* *
12813280 CATGCATCCATGCATC
1 AATGCATCGATGCATC
12813296 AAGGCTGCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
16 4 0.07
17 16 0.29
18 6 0.11
19 4 0.07
20 25 0.45
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (18 bp):
AATGCATCGATGCATCTC
Found at i:12828764 original size:18 final size:18
Alignment explanation
Indices: 12828722--12828767 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
12828712 TAGTTTGATT
*
12828722 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
12828740 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
12828758 AATGAACTAA
1 AATGAACTAA
12828768 AGGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:12832396 original size:17 final size:18
Alignment explanation
Indices: 12832356--12832399 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
12832346 TAGTTTGATT
*
12832356 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
12832374 AA-GAACTAAC-TTATTC
1 AATGAACTAACATTATTC
12832390 AATGAACTAA
1 AATGAACTAA
12832400 AGGCATGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 14 0.58
18 2 0.08
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:12832975 original size:29 final size:29
Alignment explanation
Indices: 12832904--12832975 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
12832894 ATATAATCTT
*
12832904 ATGTAGAATCAGAACGGGGATCAAATTCC
1 ATGTAGAATCAGGACGGGGATCAAATTCC
*
12832933 ATGTAGAATTAGGACGGGGATCAAA-TCC
1 ATGTAGAATCAGGACGGGGATCAAATTCC
12832961 AATGTAGAATCAGGA
1 -ATGTAGAATCAGGA
12832976 TAAGAATCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (29 bp):
ATGTAGAATCAGGACGGGGATCAAATTCC
Found at i:12833041 original size:43 final size:43
Alignment explanation
Indices: 12832993--12833079 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
12832983 CAAATCATAC
* *
12832993 ATAGAATCAAGG-TGAGGATCATACCCTCCGTAAAGGATCCCAT
1 ATAGAATC-AGGAAGAGGAACATACCCTCCGTAAAGGATCCCAT
* ** *
12833036 ATAGAATCAGGAAGGGGAACATGTCCTCCGTATAGGATCCCAT
1 ATAGAATCAGGAAGAGGAACATACCCTCCGTAAAGGATCCCAT
12833079 A
1 A
12833080 CAATAACATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (43 bp):
ATAGAATCAGGAAGAGGAACATACCCTCCGTAAAGGATCCCAT
Found at i:12837140 original size:22 final size:23
Alignment explanation
Indices: 12837115--12837157 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12837105 AAGATATTCA
12837115 TTGACTTTTTCTCTT-TTATTAT
1 TTGACTTTTTCTCTTGTTATTAT
*
12837137 TTGACTTTTTCTTTTGTTATT
1 TTGACTTTTTCTCTTGTTATT
12837158 TTCTGTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.70
Consensus pattern (23 bp):
TTGACTTTTTCTCTTGTTATTAT
Found at i:12838193 original size:21 final size:23
Alignment explanation
Indices: 12838169--12838230 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
12838159 AGTGCCAGAT
12838169 TACACAAAGTACTAC-T-CCA-AG
1 TACACAAAGTACT-CTTACCATAG
12838190 TACACAAAGTACTCTTACCATAG
1 TACACAAAGTACTCTTACCATAG
12838213 TACACAAAGTACTCTTAC
1 TACACAAAGTACTCTTAC
12838231 GAAAATGCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.03
21 14 0.37
22 3 0.08
23 20 0.53
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.24
Consensus pattern (23 bp):
TACACAAAGTACTCTTACCATAG
Found at i:12851818 original size:24 final size:24
Alignment explanation
Indices: 12851773--12851818 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12851763 CCAAGTACAC
* *
12851773 AAAGTACTCTTACCATAGTACATA
1 AAAGTACTCTTACCAAAATACATA
*
12851797 AAAGTACTCTTACGAAAATACA
1 AAAGTACTCTTACCAAAATACA
12851819 ATAAGCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (24 bp):
AAAGTACTCTTACCAAAATACATA
Found at i:12854004 original size:118 final size:116
Alignment explanation
Indices: 12853740--12854032 Score: 279
Period size: 118 Copynumber: 2.5 Consensus size: 116
12853730 AACTTCTTCA
* * * * **
12853740 TTGAAAATTTTGATCCACCTCCTTTTGTGGTGGATTTCAGCAAAAGATCAAACAAGTTTTTCTCA
1 TTGAAAATGTTGATCCACCTCCTTTTGTGATGGATTT-AACAAAAAATTGAACAAGTTTTTCTCA
* * * *
12853805 TTATGATTTTTTCTCTCTCTTTGGATGAGTTCTTCTCATTTTGAACTCCACG
65 TTATAAATTCTTCTCTCTCTTTGGATGAGTTCTTCTCATTATGAACTCCACG
** * **
12853857 TCAAAAAAGTTGATCCACCTCCTCCTGTGATGGATTTGAACAAAAAATTGAACAAGTTCTTT-TC
1 TTGAAAATGTTGATCCACCTCCTTTTGTGATGGATTT-AACAAAAAATTGAACAAGTT-TTTCTC
* * *
12853921 ATTATAAAATTCTTCATC-CTTTTTGGATGAGTTCTTCTTATTATGAAATTCC-CG
64 ATTAT-AAATTCTTC-TCTCTCTTTGGATGAGTTCTTCTCATTATG-AACTCCACG
* * * * *
12853975 TTGAAAATGTTAATACACCTCTTTTTGTGATTGATTTAGAC-AAAAGTTGGAACAAGTT
1 TTGAAAATGTTGATCCACCTCCTTTTGTGATGGATTTA-ACAAAAAATT-GAACAAGTT
12854033 GTTATCACTA
Statistics
Matches: 141, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
117 60 0.43
118 74 0.52
119 7 0.05
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (116 bp):
TTGAAAATGTTGATCCACCTCCTTTTGTGATGGATTTAACAAAAAATTGAACAAGTTTTTCTCAT
TATAAATTCTTCTCTCTCTTTGGATGAGTTCTTCTCATTATGAACTCCACG
Found at i:12855800 original size:3 final size:3
Alignment explanation
Indices: 12855794--12855834 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
12855784 GTTATTGTTC
12855794 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12855835 GACATTTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12856800 original size:2 final size:2
Alignment explanation
Indices: 12856793--12856833 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
12856783 GTTTACTAAT
*
12856793 AC AC AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
12856834 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.46, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:12856838 original size:2 final size:2
Alignment explanation
Indices: 12856833--12856876 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
12856823 ACACACACAC
12856833 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12856875 AT
1 AT
12856877 TACTTTTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12863353 original size:57 final size:56
Alignment explanation
Indices: 12863282--12863389 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 56
12863272 GAAACGGTTC
* *
12863282 CTCTCAAAACAAAATTACATCTCACTTGAGATTTTTTTACCTTGAAATTTTTTGTCT
1 CTCTCAAAACAAAATTACATCTCACTTGAGA-TATTTTACCTTGAAAATTTTTGTCT
* * *
12863339 CTCTCGAAACAAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAATTTT
1 CTCTCAAAACAAAATTACATCTCACTTGAGATATTTTACCTTGAAAATTTT
12863390 CATCTCACTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 17 0.37
57 29 0.63
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (56 bp):
CTCTCAAAACAAAATTACATCTCACTTGAGATATTTTACCTTGAAAATTTTTGTCT
Found at i:12863419 original size:71 final size:71
Alignment explanation
Indices: 12863338--12863514 Score: 318
Period size: 71 Copynumber: 2.5 Consensus size: 71
12863328 ATTTTTTGTC
12863338 TCTCTCGAAACAAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAATTTTCATCTCACTCGAG
1 TCTCTCGAAACAAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAATTTTCATCTCACTCGAG
12863403 ATAGTT
66 ATAGTT
* * *
12863409 TCTCTCGAAACAAAATTGCATCTCACTTGAGGTATTTTCCCTTGAAACTTTTCATCTCACTCGAG
1 TCTCTCGAAACAAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAATTTTCATCTCACTCGAG
12863474 ATAGTT
66 ATAGTT
*
12863480 TCTCTCGAAACAAAATTTCATATCACTTGAGATAT
1 TCTCTCGAAACAAAATTTCATCTCACTTGAGATAT
12863515 CTTGAAATAT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 100 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (71 bp):
TCTCTCGAAACAAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAATTTTCATCTCACTCGAG
ATAGTT
Found at i:12863432 original size:37 final size:37
Alignment explanation
Indices: 12863338--12863513 Score: 193
Period size: 34 Copynumber: 4.9 Consensus size: 37
12863328 ATTTTTTGTC
*
12863338 TCTCTCGAAACAAAATTTCATCTCACTTGAGATATTT
1 TCTCTCGAAACAAAATTTCATCTCACTTGAGATAGTT
* * * *
12863375 TCCCTTG--A-AAATTTTCATCTCACTCGAGATAGTT
1 TCTCTCGAAACAAAATTTCATCTCACTTGAGATAGTT
* * *
12863409 TCTCTCGAAACAAAATTGCATCTCACTTGAGGTATTT
1 TCTCTCGAAACAAAATTTCATCTCACTTGAGATAGTT
* * * *
12863446 TCCCTTGAAAC---TTTTCATCTCACTCGAGATAGTT
1 TCTCTCGAAACAAAATTTCATCTCACTTGAGATAGTT
*
12863480 TCTCTCGAAACAAAATTTCATATCACTTGAGATA
1 TCTCTCGAAACAAAATTTCATCTCACTTGAGATA
12863514 TCTTGAAATA
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
34 55 0.50
35 1 0.01
36 1 0.01
37 52 0.48
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTCTCGAAACAAAATTTCATCTCACTTGAGATAGTT
Found at i:12865418 original size:4 final size:5
Alignment explanation
Indices: 12865398--12865538 Score: 57
Period size: 5 Copynumber: 28.2 Consensus size: 5
12865388 AATTTTTTTC
* * * * *
12865398 TTATA -TATA TTATA TTA-A TTATC TTATA -TAAA TTTTA -CATA TT-CA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
* * *
12865443 TTATA TATATA TT-TA TTTATA TT-T- TTATA TTATTA ATATA TAATTT
1 TTATA T-TATA TTATA -TTATA TTATA TTATA TTA-TA TTATA TTA-TA
*
12865489 TTTTCA TTACTA TTATA TTAT- TTATA TTTATA TTATA TATATA TATATA
1 TTAT-A TTA-TA TTATA TTATA TTATA -TTATA TTATA T-TATA T-TATA
12865538 T
1 T
12865539 ATGCATATTT
Statistics
Matches: 101, Mismatches: 18, Indels: 33
0.66 0.12 0.22
Matches are distributed among these distances:
3 2 0.02
4 24 0.24
5 39 0.39
6 35 0.35
7 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:12865497 original size:23 final size:22
Alignment explanation
Indices: 12865463--12865527 Score: 53
Period size: 23 Copynumber: 3.0 Consensus size: 22
12865453 ATTTATTTAT
*
12865463 ATTTTTATATTATTAATATATA
1 ATTTTTATATTACTAATATATA
* * *
12865485 ATTTTTTTCATTACTATTATATT
1 ATTTTTAT-ATTACTAATATATA
* *
12865508 ATTTATAT-TTA-TATTATATA
1 ATTTTTATATTACTAATATATA
12865528 TATATATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 8 0.23
21 3 0.09
22 7 0.20
23 17 0.49
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTTATATTACTAATATATA
Found at i:12866610 original size:4 final size:4
Alignment explanation
Indices: 12866603--12866627 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12866593 AAATGAATGG
12866603 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
12866628 TGTAAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:12870055 original size:287 final size:286
Alignment explanation
Indices: 12869539--12870120 Score: 1121
Period size: 287 Copynumber: 2.0 Consensus size: 286
12869529 TAGATTTCTA
12869539 TTTGAAAATATTTTGAAATGTGAGGAGTCGCCACCAATCATTTAAGGTGCGATTGGAACACCATA
1 TTTGAAAATATTTTGAAATGTGAGGAGTCGCCACCAATCATTTAAGGTGCGATTGGAACACCATA
12869604 AAAACTGGGTGATTTTAATAAAACATTTTATTTTTATCAAGATAATGAATTTTGGGGTCTACAAA
66 AAAACTGGGTGATTTTAATAAAACATTTTATTTTTATCAAGATAATGAATTTTGGGGTCTACAAA
12869669 AATCTAGAAATCAGGTTCGGGGGAGTCGGTAGCGTGGGGAAGGATTAGCACCCCCACAAGCGCCC
131 AATCTAGAAATCAGGTTC-GGGGAGTCGGTAGCGTGGGGAAGGATTAGCACCCCCACAAGCGCCC
*
12869734 AAAAATTGGTACCTAGTTGATTACCCTATATTTAAAATAAAAAATTTTGAGTTTGATCTTTATTT
195 AAAAATTGGTACCTAGTTGATTACCCTATATTTAAAATAAAAAAATTTGAGTTTGATCTTTATTT
12869799 AATTTAAAAATCATTAGGAATGTAGAG
260 AATTTAAAAATCATTAGGAATGTAGAG
12869826 TTTGAAAATATTTTGAAATGTGAGGAGTCGCCACCAATCATTTAAGGTGCGATTGGAACACCATA
1 TTTGAAAATATTTTGAAATGTGAGGAGTCGCCACCAATCATTTAAGGTGCGATTGGAACACCATA
12869891 AAAACTGGGTGATTTTAATAAAACATTTTATTTTTATCAAGATAATGAATTTTGGGGTCTACAAA
66 AAAACTGGGTGATTTTAATAAAACATTTTATTTTTATCAAGATAATGAATTTTGGGGTCTACAAA
12869956 AATCTAGAAATCAGGTTC-GGGAGTCGGTTATGCGTGGGGAAGGATTAGCACCCCCACAAGCGCC
131 AATCTAGAAATCAGGTTCGGGGAGTCGG-TA-GCGTGGGGAAGGATTAGCACCCCCACAAGCGCC
12870020 CAAAAATTGGTACCTAGTTGATTACCCTATATTTAAAATAAAAAAATTTGAGTTTGATCTTTATT
194 CAAAAATTGGTACCTAGTTGATTACCCTATATTTAAAATAAAAAAATTTGAGTTTGATCTTTATT
12870085 TAATTTAAAAATCATTAGGAATGTAGAG
259 TAATTTAAAAATCATTAGGAATGTAGAG
12870113 TTTGAAAA
1 TTTGAAAA
12870121 GGGTATTTGT
Statistics
Matches: 292, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
285 9 0.03
286 2 0.01
287 281 0.96
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (286 bp):
TTTGAAAATATTTTGAAATGTGAGGAGTCGCCACCAATCATTTAAGGTGCGATTGGAACACCATA
AAAACTGGGTGATTTTAATAAAACATTTTATTTTTATCAAGATAATGAATTTTGGGGTCTACAAA
AATCTAGAAATCAGGTTCGGGGAGTCGGTAGCGTGGGGAAGGATTAGCACCCCCACAAGCGCCCA
AAAATTGGTACCTAGTTGATTACCCTATATTTAAAATAAAAAAATTTGAGTTTGATCTTTATTTA
ATTTAAAAATCATTAGGAATGTAGAG
Found at i:12873729 original size:2 final size:2
Alignment explanation
Indices: 12873722--12873763 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12873712 ACCCAAAATC
12873722 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12873764 ATAAAGCTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12875196 original size:36 final size:37
Alignment explanation
Indices: 12875127--12875196 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
12875117 CATAAATTGT
* * *
12875127 AAAACAAATTTTGTCTCGCTTGAGACAGATTTCTTTA
1 AAAACAAATTTTATCTCCCTTAAGACAGATTTCTTTA
12875164 AAAACAAATTTTATCTCCCTTAAGACAG-TTTCT
1 AAAACAAATTTTATCTCCCTTAAGACAGATTTCT
12875197 CTTGAAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 5 0.17
37 25 0.83
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (37 bp):
AAAACAAATTTTATCTCCCTTAAGACAGATTTCTTTA
Found at i:12875205 original size:36 final size:36
Alignment explanation
Indices: 12875128--12875205 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
12875118 ATAAATTGTA
* * *
12875128 AAACAAATTTTGTCTCGCTTGAGACAGATTTCT-TTAA
1 AAACAAATTTTATCTCCCTTGAGACAG-TTTCTCTT-G
*
12875165 AAACAAATTTTATCTCCCTTAAGACAGTTTCTCTTG
1 AAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTG
12875201 AAACA
1 AAACA
12875206 TAAACTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 10 0.28
37 26 0.72
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (36 bp):
AAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTG
Found at i:12875288 original size:37 final size:36
Alignment explanation
Indices: 12875220--12875396 Score: 232
Period size: 37 Copynumber: 4.9 Consensus size: 36
12875210 CTTTGAAAAT
* * * *
12875220 GTTTCCATTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
*
12875256 GTTTCCCTTGAAACAAAATTTCATCTCCCTTGAGATA
1 GTTTCCCTTGAAAC-AAATTTCGTCTCCCTTGAGATA
* *
12875293 GTTTCTCTTG-AA-AAATTTTGTCTCCCTTGAGATA
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
*
12875327 GTTTCTCTTGAAACAAATTTCGTCTCCCTTGAGATA
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
*
12875363 GTTTTCCCTTGAAACGAAATTTCATCTCCCTTGA
1 G-TTTCCCTTGAAAC-AAATTTCGTCTCCCTTGA
12875397 AACAAAATTT
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
34 30 0.24
35 2 0.02
36 37 0.30
37 39 0.31
38 17 0.14
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
Found at i:12875324 original size:71 final size:71
Alignment explanation
Indices: 12875234--12875376 Score: 225
Period size: 71 Copynumber: 2.0 Consensus size: 71
12875224 CCATTGAAAC
*
12875234 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTCATCTCCCTTGAGATAG-TTTC
1 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTCATCTCCCTTGAGATAGTTTTC
*
12875298 TCTTGAA
65 CCTTGAA
* * *
12875305 AAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAATTTCGTCTCCCTTGAGATAGTTTTCC
1 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGATAGTTTTCC
12875370 CTTGAA
66 CTTGAA
12875376 A
1 A
12875377 CGAAATTTCA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 22 0.33
71 44 0.67
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (71 bp):
AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGATAGTTTTCC
CTTGAA
Found at i:12875333 original size:17 final size:17
Alignment explanation
Indices: 12875279--12875333 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
12875269 CAAAATTTCA
12875279 TCTCCCTTGAGATAGTT
1 TCTCCCTTGAGATAGTT
* * *
12875296 TCT--CTTGAAAAATTTT
1 TCTCCCTTGAGATA-GTT
12875312 GTCTCCCTTGAGATAGTT
1 -TCTCCCTTGAGATAGTT
12875330 TCTC
1 TCTC
12875334 TTGAAACAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
15 7 0.25
16 2 0.07
17 10 0.36
18 2 0.07
19 7 0.25
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (17 bp):
TCTCCCTTGAGATAGTT
Found at i:12875427 original size:130 final size:129
Alignment explanation
Indices: 12875259--12875530 Score: 370
Period size: 130 Copynumber: 2.1 Consensus size: 129
12875249 TGAGACAGTT
* *
12875259 TCCCTTGAAACAAAATTTCATCTCCCTTGAGATAGTTTCTCTTG-AA-AAATTTTGTCTCCCTTG
1 TCCCTTGAAACAAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTG
* * * *
12875322 AGATAGTTTCTCTTGAAACAAA-TTTCGTCTCCCTTGAGATAGTTTTCCCTTGAAACGAAATTTC
66 AGACAATTTCTCTTGAAA-AAAGTTTCGTCTCCCTTGAGACA--TTTCCCTTAAAAC-AAATTTC
*
12875386 ATC
127 ATA
** *
12875389 TCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTG
1 TCCCTTGAAACAAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTG
* *
12875454 AGACAATTTCTCTTGAAAAAAGTTTTGTCTCTCTTGAGACATTTCCCTTAAAACAAATTTCATA
66 AGACAATTTCTCTTGAAAAAAGTTTCGTCTCCCTTGAGACATTTCCCTTAAAACAAATTTCATA
*
12875518 TCCCTTGAGACAA
1 TCCCTTGAAACAA
12875531 TTTCTCTTGA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
129 21 0.17
130 51 0.40
131 5 0.04
132 49 0.39
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (129 bp):
TCCCTTGAAACAAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTG
AGACAATTTCTCTTGAAAAAAGTTTCGTCTCCCTTGAGACATTTCCCTTAAAACAAATTTCATA
Found at i:12875427 original size:167 final size:166
Alignment explanation
Indices: 12875227--12875527 Score: 471
Period size: 167 Copynumber: 1.8 Consensus size: 166
12875217 AATGTTTCCA
*
12875227 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTCATCTCCCTTGAGAT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTCATCTCCCTTGAGAC
* * * * * *
12875292 AGTTTCTCTTG-AAAAA-TTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAATTTCGTCTCCC
65 AATTTCTCTTGAAAAAAGTTTTGTCTCCCTTGAGACA-TTTCCCTTAAAACAAATTTCATATCCC
12875355 TTGAGATAGTTTTCCCTTGAAACGAAATTTCATCTCCC
129 TTGAGATAGTTTTCCCTTGAAACGAAATTTCATCTCCC
**
12875393 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
1 TTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGAC
*
12875458 AATTTCTCTTGAAAAAAGTTTTGTCTCTCTTGAGACATTTCCCTTAAAACAAATTTCATATCCCT
65 AATTTCTCTTGAAAAAAGTTTTGTCTCCCTTGAGACATTTCCCTTAAAACAAATTTCATATCCCT
12875523 TGAGA
130 TGAGA
12875528 CAATTTCTCT
Statistics
Matches: 122, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
166 35 0.29
167 70 0.57
168 17 0.14
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (166 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGACA
ATTTCTCTTGAAAAAAGTTTTGTCTCCCTTGAGACATTTCCCTTAAAACAAATTTCATATCCCTT
GAGATAGTTTTCCCTTGAAACGAAATTTCATCTCCC
Found at i:12875431 original size:59 final size:59
Alignment explanation
Indices: 12875333--12875459 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
12875323 GATAGTTTCT
*
12875333 CTTGAAAC-AAATTTCGTCTCCCTTGAGATAGTTTTCCCTTGAAACGAAATTTCATCTCC
1 CTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTTCCCTTGAAAC-AAATTTCATCTCC
* * **
12875392 CTTGAAACAAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAATTTTGTCTCC
1 CTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTTCCCTTGAAACAAATTTCATCTCC
*
12875450 CTTGAGACAA
1 CTTGAAACAA
12875460 TTTCTCTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 20 0.33
59 21 0.34
60 20 0.33
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (59 bp):
CTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTTCCCTTGAAACAAATTTCATCTCC
Found at i:12875448 original size:36 final size:36
Alignment explanation
Indices: 12875389--12875583 Score: 259
Period size: 36 Copynumber: 5.4 Consensus size: 36
12875379 AAATTTCATC
*
12875389 TCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTT
1 TCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAATT
*
12875426 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAATT
1 TCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATT
*
12875462 TCTCTTGAAA-AAAGTTTTGTCTCTCTTGAGAC-ATT
1 TCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAATT
* ** * *
12875497 TCCCTTAAAACAAATTTCATATCCCTTGAGACAATT
1 TCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATT
* *
12875533 TCTCTTGAAACAAAGTTTAGTCTCTCTTGAGACAATT
1 TCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAATT
12875570 TCCCTTGAAACAAA
1 TCCCTTGAAACAAA
12875584 AATCTTTGAA
Statistics
Matches: 137, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
35 28 0.20
36 67 0.49
37 42 0.31
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (36 bp):
TCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATT
Found at i:12875483 original size:72 final size:72
Alignment explanation
Indices: 12875392--12875583 Score: 305
Period size: 71 Copynumber: 2.7 Consensus size: 72
12875382 TTTCATCTCC
* ** *
12875392 CTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGA
1 CTTGAAACAAAGTTTTGTCTCTCTTGAGACA-TTTCCCTTGAAACAAATTTCATATCCCTTGAGA
12875457 CAATTTCT
65 CAATTTCT
*
12875465 CTTGAAA-AAAGTTTTGTCTCTCTTGAGACATTTCCCTTAAAACAAATTTCATATCCCTTGAGAC
1 CTTGAAACAAAGTTTTGTCTCTCTTGAGACATTTCCCTTGAAACAAATTTCATATCCCTTGAGAC
12875529 AATTTCT
66 AATTTCT
*
12875536 CTTGAAACAAAGTTTAGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
1 CTTGAAACAAAGTTTTGTCTCTCTTGAGAC-ATTTCCCTTGAAACAAA
12875584 AATCTTTGAA
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
71 44 0.40
72 43 0.39
73 23 0.21
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (72 bp):
CTTGAAACAAAGTTTTGTCTCTCTTGAGACATTTCCCTTGAAACAAATTTCATATCCCTTGAGAC
AATTTCT
Found at i:12875626 original size:21 final size:21
Alignment explanation
Indices: 12875600--12875649 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
12875590 TGAATATGTT
*
12875600 TCCCTTTAAACAAAATTCGTC
1 TCCCTTGAAACAAAATTCGTC
*
12875621 TCCCTTGAAACAAAATTTGTC
1 TCCCTTGAAACAAAATTCGTC
12875642 TCCCTTGA
1 TCCCTTGA
12875650 GACAGTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (21 bp):
TCCCTTGAAACAAAATTCGTC
Found at i:12876072 original size:22 final size:22
Alignment explanation
Indices: 12876047--12876099 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
12876037 CAGGCCAAGT
12876047 GAAGCCCAAACCAGGTTACACC
1 GAAGCCCAAACCAGGTTACACC
* *
12876069 GAAGCCCAAACTAGGTTACACT
1 GAAGCCCAAACCAGGTTACACC
*
12876091 GAACCCCAA
1 GAAGCCCAA
12876100 TTACAAAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.34, G:0.17, T:0.11
Consensus pattern (22 bp):
GAAGCCCAAACCAGGTTACACC
Found at i:12877487 original size:24 final size:24
Alignment explanation
Indices: 12877443--12877489 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12877433 ATTTTATGAT
*
12877443 TTTGTTTTTACTGTTATTTATTTA
1 TTTGTTTTTACTGTTAATTATTTA
*
12877467 TTTGTTTGTTA-TTTTAATTATTT
1 TTTGTTT-TTACTGTTAATTATTT
12877490 TAATTCAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (24 bp):
TTTGTTTTTACTGTTAATTATTTA
Found at i:12880133 original size:34 final size:34
Alignment explanation
Indices: 12880092--12880169 Score: 147
Period size: 34 Copynumber: 2.3 Consensus size: 34
12880082 TATATTTTCT
*
12880092 TTTTGAGATTTCTGAATACCCTTATCCATTCATC
1 TTTTGAGATTTCTGAATACCCTTATCCAGTCATC
12880126 TTTTGAGATTTCTGAATACCCTTATCCAGTCATC
1 TTTTGAGATTTCTGAATACCCTTATCCAGTCATC
12880160 TTTTGAGATT
1 TTTTGAGATT
12880170 CCTTCATGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (34 bp):
TTTTGAGATTTCTGAATACCCTTATCCAGTCATC
Found at i:12898841 original size:19 final size:19
Alignment explanation
Indices: 12898817--12898863 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
12898807 ATAATTTTTC
*
12898817 TTTTGAAATCTAAAATG-GA
1 TTTTGAAATC-AAAATGAAA
12898836 TTTTGAAAATCAAAATGAAA
1 TTTTG-AAATCAAAATGAAA
12898856 TTTTGAAA
1 TTTTGAAA
12898864 AAAGGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (19 bp):
TTTTGAAATCAAAATGAAA
Found at i:12898858 original size:20 final size:20
Alignment explanation
Indices: 12898817--12898864 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
12898807 ATAATTTTTC
*
12898817 TTTTG-AAATCTAAAATGGA
1 TTTTGAAAATCTAAAATGAA
12898836 TTTTGAAAATC-AAAATGAAA
1 TTTTGAAAATCTAAAATG-AA
12898856 TTTTGAAAA
1 TTTTGAAAA
12898865 AAGGATTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (20 bp):
TTTTGAAAATCTAAAATGAA
Found at i:12900012 original size:2 final size:2
Alignment explanation
Indices: 12900005--12900068 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
12899995 GCATATTTGC
12900005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12900047 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
12900069 GCTTTTTCAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12906940 original size:7 final size:7
Alignment explanation
Indices: 12906900--12906962 Score: 58
Period size: 8 Copynumber: 8.6 Consensus size: 7
12906890 CCCATTGTTT
12906900 TTTTTAA
1 TTTTTAA
12906907 TTCTGTTACA
1 TT-T-TTA-A
12906917 TTTTTAA
1 TTTTTAA
12906924 -TTTTAA
1 TTTTTAA
12906930 -TTTTAA
1 TTTTTAA
12906936 TTTTTAAA
1 TTTTT-AA
12906944 TTTTTAAA
1 TTTTT-AA
*
12906952 TTTTTTA
1 TTTTTAA
12906959 TTTT
1 TTTT
12906963 GCAGGAACCG
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
6 12 0.24
7 12 0.24
8 19 0.38
9 4 0.08
10 3 0.06
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (7 bp):
TTTTTAA
Found at i:12910914 original size:18 final size:19
Alignment explanation
Indices: 12910891--12910928 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
12910881 CTGTGCTTAT
12910891 TTTTCAAAATCAAA-ATTG
1 TTTTCAAAATCAAAGATTG
12910909 TTTTCAAAATCAAAGATTG
1 TTTTCAAAATCAAAGATTG
12910928 T
1 T
12910929 CTTTGGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (19 bp):
TTTTCAAAATCAAAGATTG
Found at i:12912464 original size:20 final size:20
Alignment explanation
Indices: 12912430--12912478 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
12912420 ATTTATCCTG
12912430 TGCTGGGCTCC-CACCAGGTT
1 TGCTGGG-TCCTCACCAGGTT
* *
12912450 TGTTGGGTCCTCACCGGGTT
1 TGCTGGGTCCTCACCAGGTT
12912470 TGCTGGGTC
1 TGCTGGGTC
12912479 AGGCTACCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.06, C:0.29, G:0.35, T:0.31
Consensus pattern (20 bp):
TGCTGGGTCCTCACCAGGTT
Found at i:12912580 original size:19 final size:20
Alignment explanation
Indices: 12912551--12912589 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
12912541 AAATTAAAAT
*
12912551 TAAATAAATAAGTAATAATA
1 TAAATAAATAAATAATAATA
12912571 TAAA-AAATAAATAATAATA
1 TAAATAAATAAATAATAATA
12912590 ATAATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
TAAATAAATAAATAATAATA
Found at i:12912671 original size:37 final size:36
Alignment explanation
Indices: 12912630--12912726 Score: 108
Period size: 35 Copynumber: 2.6 Consensus size: 36
12912620 ATATATATAT
* *
12912630 ATATATTATATTCATTTTCCAATATGTTTT-TAAAACC
1 ATATATTATATT-ATTTT-CAAAATGTTTTCAAAAACC
*
12912667 ATATATTATA-TATTTTCAAAATGTTTTCAAAAACT
1 ATATATTATATTATTTTCAAAATGTTTTCAAAAACC
12912702 ATATATTATATATATGTTTTCAAAA
1 ATATATTATAT-TA--TTTTCAAAA
12912727 ATCATTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
34 10 0.19
35 20 0.38
36 1 0.02
37 12 0.23
39 9 0.17
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.47
Consensus pattern (36 bp):
ATATATTATATTATTTTCAAAATGTTTTCAAAAACC
Found at i:12912712 original size:33 final size:35
Alignment explanation
Indices: 12912630--12912714 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
12912620 ATATATATAT
* *
12912630 ATATATTATATTCATTTTCCAATATGTTTTTAAAACC
1 ATATATTATA-T-ATTTTCCAAAATGTTTTAAAAACC
*
12912667 ATATATTATATATTTT-CAAAATGTTTTCAAAAACT
1 ATATATTATATATTTTCCAAAATGTTTT-AAAAACC
12912702 ATATATTATATAT
1 ATATATTATATAT
12912715 ATGTTTTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 10 0.23
35 23 0.52
36 1 0.02
37 10 0.23
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.48
Consensus pattern (35 bp):
ATATATTATATATTTTCCAAAATGTTTTAAAAACC
Found at i:12912754 original size:47 final size:49
Alignment explanation
Indices: 12912701--12912807 Score: 168
Period size: 49 Copynumber: 2.3 Consensus size: 49
12912691 TTTCAAAAAC
* *
12912701 TATATAT-TATATATATGTTTTC-AAAAATCATTTTCAAAA-C-TATAA
1 TATATATATATATATATATATTCAAAAAATCATTTTCAAAACCATATAA
12912746 TATATATATATATATATATATTCAAAAAATCATTTTCAAAACCATATAA
1 TATATATATATATATATATATTCAAAAAATCATTTTCAAAACCATATAA
12912795 TATATATATATAT
1 TATATATATATAT
12912808 TCAAAAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
45 7 0.12
46 13 0.23
47 17 0.30
48 1 0.02
49 18 0.32
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (49 bp):
TATATATATATATATATATATTCAAAAAATCATTTTCAAAACCATATAA
Found at i:12912822 original size:37 final size:39
Alignment explanation
Indices: 12912747--12912873 Score: 120
Period size: 37 Copynumber: 3.3 Consensus size: 39
12912737 AAACTATAAT
*
12912747 ATATATATATATATATATATTCAAAAAATCATTTTCAAAACC
1 ATATA-ATATATATATATATTCAAAAAA-CA-TATCAAAACC
*
12912789 ATATAATATATATATATATTCAAAAAA-A-ATCAAAACT
1 ATATAATATATATATATATTCAAAAAACATATCAAAACC
* * * * *
12912826 ATATAATA-A-ATATCT-TTCAAAAATCGTTTTCAAAACT
1 ATATAATATATATATATATTCAAAAAAC-ATATCAAAACC
12912863 ATATAATATAT
1 ATATAATATAT
12912874 TTTCAAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
34 8 0.11
35 5 0.07
36 1 0.01
37 31 0.42
38 1 0.01
39 1 0.01
41 22 0.30
42 5 0.07
ACGTcount: A:0.52, C:0.10, G:0.01, T:0.37
Consensus pattern (39 bp):
ATATAATATATATATATATTCAAAAAACATATCAAAACC
Found at i:12913870 original size:85 final size:84
Alignment explanation
Indices: 12913721--12914214 Score: 508
Period size: 85 Copynumber: 5.8 Consensus size: 84
12913711 AAATCTCATC
* * * *
12913721 GAGCTGAATGAAATCGAACTCG-AGAGT-TTTGTTTACAGAGATCCCTTCTCGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAG-GTCTTTGTTGACAGATA-CCCTTCTCGCCTTGAGCTATG
* *
12913784 CTATAAATTTGATATGCCCTC
64 CTGTAAATTTGATATGCCCTT
* * *** * *
12913805 GAGCTGAATGTAATCGAAGTCGAAGGTCTTTATTGACAGATAGTTTTCCTCGCCTTAAGATATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATACCCTT-CTCGCCTTGAGCTATGC
12913870 TGTAAATTTGATATGCCCTT
65 TGTAAATTTGATATGCCCTT
* * * * * * * * * * * * * *
12913890 GAGATTAATTTAATCAAACTTGAGGGTCTTTATTGATAGATAGTCTTTCTTGCCTTTAGGTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATA-CCCTTCTCGCCTTGAGCTATGC
12913955 TGTAAATTTGATATGCCCTT
65 TGTAAATTTGATATGCCCTT
* * * *
12913975 GAGCTGAATGTAATTGAACTC-AAGGGTCTTTGTTGACAGATAACCCTTATCACATTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAA-GGTCTTTGTTGACAGAT-ACCCTTCTCGCCTTGAGCTATG
*
12914039 TTGTAAATTTGATATGCCCTT
64 CTGTAAATTTGATATGCCCTT
* * * * * *
12914060 GAGCTAAATGTAATCGAACACGAGGGTCTTTGTTGATAGATAACCCTTCTCTCCTTGAGCTATGA
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGAT-ACCCTTCTCGCCTTGAGCTATGC
12914125 TGTAAATTTGATATGCCCTT
65 TGTAAATTTGATATGCCCTT
* * * * *
12914145 AAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACGGATAACCCTTCTTGCCTTGAGCTATAC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGAT-ACCCTTCTCGCCTTGAGCTATGC
12914210 TGTAA
65 TGTAA
12914215 TAGGTTTGGA
Statistics
Matches: 340, Mismatches: 63, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
84 25 0.07
85 310 0.91
86 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (84 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATACCCTTCTCGCCTTGAGCTATGCT
GTAAATTTGATATGCCCTT
Found at i:12914259 original size:18 final size:19
Alignment explanation
Indices: 12914224--12914259 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12914214 ATAGGTTTGG
12914224 AGATAACTCATATTGTTGC
1 AGATAACTCATATTGTTGC
*
12914243 AGATGACTCAT-TTGTTG
1 AGATAACTCATATTGTTG
12914260 TGAAACTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (19 bp):
AGATAACTCATATTGTTGC
Found at i:12918994 original size:24 final size:24
Alignment explanation
Indices: 12918962--12919022 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
12918952 AATAATAAAT
* * *
12918962 AAATATTAAATAAGTTATAGGGAA
1 AAATATTAAATAAATCAAAGGGAA
12918986 AAATATTAAATAAATCAAAGGGAA
1 AAATATTAAATAAATCAAAGGGAA
*
12919010 AAA-ATAAAATAAA
1 AAATATTAAATAAA
12919023 ATAAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.23
Consensus pattern (24 bp):
AAATATTAAATAAATCAAAGGGAA
Found at i:12919077 original size:16 final size:14
Alignment explanation
Indices: 12919042--12919091 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
12919032 TGTTAAATTT
*
12919042 TAAAAGTAATAAAA
1 TAAAAATAATAAAA
12919056 TAAAAATAATAAGAA
1 TAAAAATAATAA-AA
*
12919071 GTAAAAATAAAAAAA
1 -TAAAAATAATAAAA
12919086 TAAAAA
1 TAAAAA
12919092 ACATACTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 17 0.53
15 4 0.12
16 11 0.34
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (14 bp):
TAAAAATAATAAAA
Found at i:12919107 original size:26 final size:25
Alignment explanation
Indices: 12919074--12919138 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 25
12919064 ATAAGAAGTA
12919074 AAAATAAAAAAATAAAAAACAT-ACT
1 AAAATAAAAAAATAAAAAA-ATAACT
*
12919099 AAAATTAAAAGGAAA-AAAAGAATAACT
1 AAAA-TAAAA--AAATAAAAAAATAACT
12919126 AAAATAAAAAAAT
1 AAAATAAAAAAAT
12919139 GCTGAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
24 3 0.09
25 4 0.12
26 12 0.35
27 12 0.35
28 3 0.09
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (25 bp):
AAAATAAAAAAATAAAAAAATAACT
Found at i:12919147 original size:43 final size:46
Alignment explanation
Indices: 12919082--12919174 Score: 147
Period size: 44 Copynumber: 2.1 Consensus size: 46
12919072 TAAAAATAAA
12919082 AAAATAAAAAACATACTAAAATT-AAAAGGAAAAAAA-GAATAACT
1 AAAATAAAAAACATACTAAAATTAAAAAGGAAAAAAATGAATAACT
* *
12919126 AAAATAAAAAA-ATGCTGAAATTAAAAAGGAAAAAAATGAATAACT
1 AAAATAAAAAACATACTAAAATTAAAAAGGAAAAAAATGAATAACT
12919171 AAAA
1 AAAA
12919175 ATTTAAAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 9 0.20
44 24 0.53
45 12 0.27
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (46 bp):
AAAATAAAAAACATACTAAAATTAAAAAGGAAAAAAATGAATAACT
Found at i:12919191 original size:44 final size:43
Alignment explanation
Indices: 12919100--12919191 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 43
12919090 AAACATACTA
* * *
12919100 AAATTAAAAGGAAAAAAAGAATAACTAAAATAAAAAAATGCTG
1 AAATTAAAAGGAAAAAAAGAATAACTAAAATAAAAAAAGGATC
***
12919143 AAATTAAAAAGGAAAAAAATGAATAACTAAAA-ATTTAAAGGATC
1 AAATT-AAAAGGAAAAAAA-GAATAACTAAAATAAAAAAAGGATC
12919187 AAATT
1 AAATT
12919192 GAAATAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 5 0.12
44 24 0.59
45 12 0.29
ACGTcount: A:0.65, C:0.04, G:0.11, T:0.20
Consensus pattern (43 bp):
AAATTAAAAGGAAAAAAAGAATAACTAAAATAAAAAAAGGATC
Found at i:12920271 original size:3 final size:3
Alignment explanation
Indices: 12920263--12920310 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
12920253 ATTAAAATTA
12920263 AAT AAT AAT AAAT AAT -AT AA- AA- AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
12920307 AAT A
1 AAT A
12920311 TTATTATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.15
3 29 0.71
4 6 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:12920310 original size:22 final size:20
Alignment explanation
Indices: 12920262--12920310 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
12920252 AATTAAAATT
12920262 AAATAATAATAAATAATATA
1 AAATAATAATAAATAATATA
12920282 AAA-AATAATAAATAATA-A
1 AAATAATAATAAATAATATA
*
12920300 TAATAATAATA
1 AAATAATAATA
12920311 TTATTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 21 0.78
20 3 0.11
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATAATAATAAATAATATA
Found at i:12920432 original size:36 final size:39
Alignment explanation
Indices: 12920379--12920504 Score: 100
Period size: 38 Copynumber: 3.3 Consensus size: 39
12920369 CATATATTAT
** * *
12920379 ATATATATATATTTTCAAAAATCATTTT-CAAAACT-ATA
1 ATATATATATA-TTAAAAAAATAATTTTAAAAAACTAATA
* * * *
12920417 ATATATATAGATTCAAAAAATCATTTTAAAAAATTATATA
1 ATATATATATATTAAAAAAATAATTTTAAAAAACTA-ATA
* * *
12920457 ATATATATAT-TTTAAAAAATAATTTT-CAAATCT-ATA
1 ATATATATATATTAAAAAAATAATTTTAAAAAACTAATA
12920493 ATATATATATAT
1 ATATATATATAT
12920505 ATATATATAT
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
36 13 0.18
37 15 0.21
38 19 0.26
39 14 0.19
40 12 0.16
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (39 bp):
ATATATATATATTAAAAAAATAATTTTAAAAAACTAATA
Found at i:12920457 original size:40 final size:38
Alignment explanation
Indices: 12920374--12920502 Score: 126
Period size: 36 Copynumber: 3.5 Consensus size: 38
12920364 AAAACCATAT
*
12920374 ATTATAT-ATATATATATTTTC-AAAAATCATTTTCAAA
1 ATTATATAATATATATA-TTTCAAAAAATCATTTTAAAA
* *
12920411 A--CTATAATATATATAGATTCAAAAAATCATTTTAAAAA
1 ATTATATAATATATATA-TTTCAAAAAATCATTTT-AAAA
* * *
12920449 ATTATATAATATATATATTTTAAAAAATAATTTT-CAA
1 ATTATATAATATATATATTTCAAAAAATCATTTTAAAA
*
12920486 A-TCTATAATATATATAT
1 ATTATATAATATATATAT
12920503 ATATATATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
35 3 0.04
36 27 0.35
37 16 0.21
38 4 0.05
39 14 0.18
40 13 0.17
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (38 bp):
ATTATATAATATATATATTTCAAAAAATCATTTTAAAA
Found at i:12920461 original size:38 final size:38
Alignment explanation
Indices: 12920374--12920506 Score: 139
Period size: 37 Copynumber: 3.5 Consensus size: 38
12920364 AAAACCATAT
* *
12920374 ATTATATATATATATATTTTC-AAAAATCATTTTCAAA
1 ATTATATATATATATATATTCAAAAAATCATTTTAAAA
* *
12920411 ACTATA-ATATATATAGATTCAAAAAATCATTTTAAAAA
1 ATTATATATATATATATATTCAAAAAATCATTTT-AAAA
* * *
12920449 ATTATATA-ATATATATATTTTAAAAAATAATTTT-CAA
1 ATTATATATATATATATA-TTCAAAAAATCATTTTAAAA
12920486 ATCTATAATATATATATATAT
1 AT-TAT-ATATATATATATAT
12920507 ATATATATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
36 12 0.15
37 21 0.26
38 19 0.24
39 19 0.24
40 9 0.11
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (38 bp):
ATTATATATATATATATATTCAAAAAATCATTTTAAAA
Found at i:12920500 original size:2 final size:2
Alignment explanation
Indices: 12920489--12920522 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
12920479 TTTTCAAATC
12920489 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12920523 TTTCAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12920524 original size:56 final size:57
Alignment explanation
Indices: 12920451--12920560 Score: 170
Period size: 56 Copynumber: 1.9 Consensus size: 57
12920441 TTTAAAAAAT
*
12920451 TATATAATATATATATTTTAAAAAATAATTTTC-AAATC-TATAATATATATATATA
1 TATATAATATATATATTTTAAAAAATAATTTTCAAAACCATATAATATATATATATA
* *
12920506 TATATATATATATATATTTTCAAAAATCATTTTCAAAACCATATAATATATATAT
1 TATATA-ATATATATATTTTAAAAAATAATTTTCAAAACCATATAATATATATAT
12920561 TTTTAAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
55 6 0.12
56 25 0.51
57 4 0.08
58 14 0.29
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (57 bp):
TATATAATATATATATTTTAAAAAATAATTTTCAAAACCATATAATATATATATATA
Found at i:12920529 original size:132 final size:129
Alignment explanation
Indices: 12920370--12920632 Score: 361
Period size: 132 Copynumber: 2.0 Consensus size: 129
12920360 TTTTAAAACC
12920370 ATATATTATATATATATATATTTTCAAAAATCATTTTCAAAA-C-TATAATATATATAGATTCAA
1 ATATATTATATATATATATATTTTCAAAAATCATTTTCAAAACCATATAATATATATA-ATTCAA
* * *
12920433 AAAATCATTTTAAAAAATTATATAATATATATA-TTTTAAAAAATAATTTTCAAATCTATAATAT
65 AAAATAATTTT-AAAAACTATATAATATATA-ACTTTTAAAAAATAATTTTCAAAACTAT-ATA-
12920497 ATAT
126 ATAT
* **
12920501 ATATATATATATATATATATATTTTCAAAAATCATTTTCAAAACCATATAATATATATATTTTTA
1 ATATAT-TATATATATATATATTTTCAAAAATCATTTTCAAAACCATATAATATATATAATTCAA
* * **
12920566 AAAATAATTTTTAAAACTATATAATATATAACTTTTCAAAAATCGTTTTCAAAACTATATAATAT
65 AAAATAATTTTAAAAACTATATAATATATAACTTTTAAAAAATAATTTTCAAAACTATATAATAT
12920631 AT
1 AT
12920633 TTTCGAAAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
130 6 0.05
131 10 0.08
132 75 0.64
133 14 0.12
134 13 0.11
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (129 bp):
ATATATTATATATATATATATTTTCAAAAATCATTTTCAAAACCATATAATATATATAATTCAAA
AAATAATTTTAAAAACTATATAATATATAACTTTTAAAAAATAATTTTCAAAACTATATAATAT
Found at i:12920553 original size:94 final size:93
Alignment explanation
Indices: 12920413--12920595 Score: 253
Period size: 94 Copynumber: 2.0 Consensus size: 93
12920403 TTTTCAAAAC
**
12920413 TATAATATATATAGATTCAAAAAATCATTTTAAAAAATTATATAATATATATATTTTAAAAAATA
1 TATAATATATATAGATTCAAAAAATCATTTTAAAAAACCATATAATATATATATTTTAAAAAATA
*
12920478 ATTTTCAAATCTATAATATATATATATATA
66 ATTTTCAAAACTAT-ATA-ATATATATATA
** * *
12920508 TATATATATATATATTTTC-AAAAATCATTTT-CAAAACCATATAATATATATATTTTTAAAAAT
1 TATA-ATATATATAGATTCAAAAAATCATTTTAAAAAACCATATAATATATATATTTTAAAAAAT
*
12920571 AATTTTTAAAACTATATAATATATA
65 AATTTTCAAAACTATATAATATATA
12920596 ACTTTTCAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
92 7 0.09
93 3 0.04
94 41 0.52
95 16 0.20
96 12 0.15
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (93 bp):
TATAATATATATAGATTCAAAAAATCATTTTAAAAAACCATATAATATATATATTTTAAAAAATA
ATTTTCAAAACTATATAATATATATATA
Found at i:12920559 original size:38 final size:38
Alignment explanation
Indices: 12920506--12920632 Score: 184
Period size: 38 Copynumber: 3.3 Consensus size: 38
12920496 TATATATATA
12920506 TATATATATATATATATTTTCAAAAATCATTTTCAAAAC
1 TATATA-ATATATATATTTTCAAAAATCATTTTCAAAAC
* * * *
12920545 CATATAATATATATATTTTTAAAAATAATTTTTAAAAC
1 TATATAATATATATATTTTCAAAAATCATTTTCAAAAC
*
12920583 TATATAATATATA-ACTTTTCAAAAATCGTTTTCAAAAC
1 TATATAATATATATA-TTTTCAAAAATCATTTTCAAAAC
12920621 TATATAATATAT
1 TATATAATATAT
12920633 TTTCGAAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.01
38 72 0.92
39 5 0.06
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (38 bp):
TATATAATATATATATTTTCAAAAATCATTTTCAAAAC
Found at i:12922694 original size:16 final size:16
Alignment explanation
Indices: 12922672--12922708 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
12922662 TTCCTTAGAA
12922672 CCACACTAAATTCAAC
1 CCACACTAAATTCAAC
*
12922688 TCACACTAAATTCAAC
1 CCACACTAAATTCAAC
12922704 CCACA
1 CCACA
12922709 TTATGAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (16 bp):
CCACACTAAATTCAAC
Found at i:12922876 original size:15 final size:15
Alignment explanation
Indices: 12922856--12922886 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12922846 ATCCGATTCG
*
12922856 ATCCAAATAATACAT
1 ATCCAAATAACACAT
12922871 ATCCAAATAACACAT
1 ATCCAAATAACACAT
12922886 A
1 A
12922887 CTCGGTCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (15 bp):
ATCCAAATAACACAT
Found at i:12923724 original size:25 final size:25
Alignment explanation
Indices: 12923690--12923738 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
12923680 GTAAACGACG
*
12923690 ACACTAAGGAGAAGGAAGATCGGCA
1 ACACTAAGGAGAAGAAAGATCGGCA
*
12923715 ACACTAAGGAGATGAAAGATCGGC
1 ACACTAAGGAGAAGAAAGATCGGC
12923739 GATAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.31, T:0.10
Consensus pattern (25 bp):
ACACTAAGGAGAAGAAAGATCGGCA
Found at i:12925528 original size:29 final size:29
Alignment explanation
Indices: 12925493--12925574 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
12925483 AAACTAAATT
*
12925493 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
12925522 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
12925551 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
12925575 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:12926886 original size:15 final size:15
Alignment explanation
Indices: 12926863--12926892 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12926853 ACGAGGCTGG
12926863 AATTACAACAATAAC
1 AATTACAACAATAAC
*
12926878 AATTCCAACAATAAC
1 AATTACAACAATAAC
12926893 TATAAGAAAG
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:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AATTACAACAATAAC
Found at i:12930296 original size:29 final size:29
Alignment explanation
Indices: 12930261--12930342 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
12930251 AAACTAAATT
*
12930261 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
12930290 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
12930319 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
12930343 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:12930737 original size:20 final size:20
Alignment explanation
Indices: 12930709--12930747 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12930699 CCACTGGAAT
*
12930709 TGGAGGATTAACTCTAGCTG
1 TGGAAGATTAACTCTAGCTG
12930729 TGGAAGATTAACTCTAGCT
1 TGGAAGATTAACTCTAGCT
12930748 CTAGAGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (20 bp):
TGGAAGATTAACTCTAGCTG
Found at i:12930906 original size:3 final size:3
Alignment explanation
Indices: 12930898--12930928 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
12930888 AATACTTAAA
*
12930898 AAT AAT AAT AAT AAT AAT AAA AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12930929 TTTTCAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:12931530 original size:51 final size:51
Alignment explanation
Indices: 12931467--12931568 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
12931457 TATAAGATAT
12931467 TAAGCTTAGTGTGTTTCTAAAGTGCAAACAATCACAAATATATCATAATCC
1 TAAGCTTAGTGTGTTTCTAAAGTGCAAACAATCACAAATATATCATAATCC
12931518 TAAGCTTAGTGTGTTTCTAAAGTGCAAACAATCACAAATATATCATAATCC
1 TAAGCTTAGTGTGTTTCTAAAGTGCAAACAATCACAAATATATCATAATCC
12931569 GAACAACAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (51 bp):
TAAGCTTAGTGTGTTTCTAAAGTGCAAACAATCACAAATATATCATAATCC
Found at i:12939631 original size:19 final size:20
Alignment explanation
Indices: 12939585--12939644 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
12939575 TTCCCCTGTG
12939585 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
12939608 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
12939627 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
12939645 TACACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:12949423 original size:26 final size:26
Alignment explanation
Indices: 12949389--12949457 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
12949379 CTTTTTTTAC
* * *
12949389 CTTTAAATTTGACTTGTGACTGTTGA
1 CTTTGAATTTGACTTGTGACTATTAA
* *
12949415 CTTTGAATTTGACTTTTGAGTATTAA
1 CTTTGAATTTGACTTGTGACTATTAA
*
12949441 CTTTGACTTTGACTTGT
1 CTTTGAATTTGACTTGT
12949458 TGACATTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (26 bp):
CTTTGAATTTGACTTGTGACTATTAA
Found at i:12949433 original size:19 final size:19
Alignment explanation
Indices: 12949400--12949455 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
12949390 TTTAAATTTG
*
12949400 ACTTGTGACTGTTGACTTTGA
1 ACTT-TGACTTTTGACTTT-A
*
12949421 A-TTTGACTTTTGAGTATTA
1 ACTTTGACTTTTGACT-TTA
12949440 ACTTTGAC-TTTGACTT
1 ACTTTGACTTTTGACTT
12949456 GTTGACATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.03
19 18 0.60
20 10 0.33
21 1 0.03
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.48
Consensus pattern (19 bp):
ACTTTGACTTTTGACTTTA
Found at i:12949451 original size:6 final size:6
Alignment explanation
Indices: 12949396--12949455 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
12949386 TACCTTTAAA
* * *
12949396 TTTGAC TTGTGAC TGTTGAC TTTGAA TTTGAC TTTTGAG TATTAAC TTTGAC
1 TTTGAC TT-TGAC T-TTGAC TTTGAC TTTGAC -TTTGAC T-TTGAC TTTGAC
12949448 TTTGAC TT
1 TTTGAC TT
12949456 GTTGACATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 24 0.55
7 19 0.43
8 1 0.02
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.50
Consensus pattern (6 bp):
TTTGAC
Found at i:12957402 original size:25 final size:25
Alignment explanation
Indices: 12957365--12957413 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
12957355 TAACATTCTT
12957365 TTCAAAGTAAATCGCAATATAATAA
1 TTCAAAGTAAATCGCAATATAATAA
*
12957390 TTCAAAGTGAATCGCAATATAATA
1 TTCAAAGTAAATCGCAATATAATA
12957414 GTGTAACACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (25 bp):
TTCAAAGTAAATCGCAATATAATAA
Found at i:12965294 original size:49 final size:51
Alignment explanation
Indices: 12965215--12965319 Score: 117
Period size: 49 Copynumber: 2.1 Consensus size: 51
12965205 TTTACATTTT
* * * ***
12965215 CATTTGTGGCATCCTTTCATGCCAATTATGCACTGTTCTTCATCTAACTTG
1 CATTAGTGGCATCATTTCATGCCAATTATGCACCGTTAGGCATCTAACTTG
*
12965266 CATTAGTGGCAT-ATTTC-TGCCAGA-TATGCACCGTTAGGCATCTATCTTG
1 CATTAGTGGCATCATTTCATGCCA-ATTATGCACCGTTAGGCATCTAACTTG
12965315 CATTA
1 CATTA
12965320 ATGGAACTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 30 0.65
50 5 0.11
51 11 0.24
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (51 bp):
CATTAGTGGCATCATTTCATGCCAATTATGCACCGTTAGGCATCTAACTTG
Found at i:12965563 original size:54 final size:54
Alignment explanation
Indices: 12965522--12965769 Score: 336
Period size: 54 Copynumber: 4.6 Consensus size: 54
12965512 ACTCTATAGT
* ** * * * **
12965522 TTGCACACGTAGTGCCAATACGGTAATTCACAAACTTATTATGAATTATGTGGGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATT-TCTTAGG
* *
12965577 TTGCACACACAGTGCCAATAC-ATAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGA-AAATTCATAAACTCATTATGAATTTCTTAGG
*
12965631 TTACACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGG
* *
12965685 TTGCACACATAGTGCCTATAAGAAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGG
* *
12965739 TTGCACACATAGTGCAAATACGGAAATTCAT
1 TTGCACACATAGTGCCAATACGAAAATTCAT
12965770 TACACACATT
Statistics
Matches: 173, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
54 131 0.76
55 42 0.24
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGG
Found at i:12968141 original size:65 final size:65
Alignment explanation
Indices: 12968008--12968167 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
12967998 TGCACTAAGA
* * *
12968008 GTGCACCGATGCATGAAATGCATTTGATG-TTTCAAAATAGCTAGAGGGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCTAGAGGGCATCGATGCATAGCTG
* * *
12968072 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGCT-AGAGGGCATCGATGCATAGC
*
12968134 TAT
64 T-G
12968137 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
12968168 CAATTTATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 29 0.35
65 52 0.62
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCTAGAGGGCATCGATGCATAGCTG
Found at i:12968598 original size:16 final size:17
Alignment explanation
Indices: 12968550--12968598 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
12968540 GTACCATAGT
*
12968550 ATGGTAGTATCGATACC
1 ATGGTAATATCGATACC
12968567 ATGGTAAGTGTATCGATACC
1 ATGGTAA---TATCGATACC
12968587 A-GGTAATATCGA
1 ATGGTAATATCGA
12968599 ACATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
19 5 0.18
20 11 0.39
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (17 bp):
ATGGTAATATCGATACC
Found at i:12968632 original size:95 final size:96
Alignment explanation
Indices: 12968459--12968656 Score: 233
Period size: 95 Copynumber: 2.1 Consensus size: 96
12968449 TGTTTTCAAC
*
12968459 AGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAATATAATTTTAGTATCGATA
1 AGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAACATAATTTTAGTATCGATA
* * * *
12968524 CTGGAAGGGGGTATCAG-TACCATAGTATGGT
66 CCGGAAGGAGGTAT-AGCTACCATAGTATAGA
* * * * * *
12968555 AGTATCGATACCATGGTAA-GTGTATCGATACCAGGTAATATCGAACATAATTTT-GATATCTAT
1 AGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAACATAATTTTAG-TATCGAT
*
12968618 ACCGGATA-GAGGTATTGCTACCATAGTATAGA
65 ACCGGA-AGGAGGTATAGCTACCATAGTATAGA
12968650 AGTATCG
1 AGTATCG
12968657 GTACAAGGGA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
94 2 0.02
95 66 0.76
96 19 0.22
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (96 bp):
AGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAACATAATTTTAGTATCGATA
CCGGAAGGAGGTATAGCTACCATAGTATAGA
Found at i:12969071 original size:55 final size:55
Alignment explanation
Indices: 12969006--12969512 Score: 569
Period size: 55 Copynumber: 9.3 Consensus size: 55
12968996 CTCTGTGTAC
* * * * *
12969006 TACATGCACCTTGTGTTCATATTCGCGGAAATCATCATGGGTTGATGAATCACCC
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* * *
12969061 TACATGCACCTTGTGTGCATATTCACGGAATTCATTATGGGTTGATGAATCACCA
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* * *
12969116 TACAAGAACCTTGTATGAATATTCACGGAATTCATCATGGGTTGATGAATCACCG
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* * * *
12969171 TACAAGCACTTTGTATGCATATTCATGGAATTCATCATGGGTTAATGAATCACCG
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* *
12969226 TAC-A--A-C-T-T-TGCATATTCATGGAATTCATCATGGGTTGATGAATCACCA
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* * * * * * *
12969274 TACAGGCACATTATGTTCATATTCACAGAATTCATCATGGGTTGATAAATCAACG
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* * * * *
12969329 TACAGGTACTTTGTGTGTATATTCACGGAATTCATCATGGGTTGATGAATCACTG
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* * * * *
12969384 TATAGGCACTTTGTGTGCATATTCACGAAATTCACCATGGGTTGATGAATCACCG
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* * * * * * *
12969439 TATAAACACTTTTTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATCACCG
1 TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
* **
12969494 TACATGCACAATGTGTGCA
1 TACAAGCACCTTGTGTGCA
12969513 ACCCGTTGAA
Statistics
Matches: 389, Mismatches: 56, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
48 41 0.11
49 1 0.00
50 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 2 0.01
55 341 0.88
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (55 bp):
TACAAGCACCTTGTGTGCATATTCACGGAATTCATCATGGGTTGATGAATCACCG
Found at i:12969395 original size:213 final size:217
Alignment explanation
Indices: 12969023--12969512 Score: 628
Period size: 213 Copynumber: 2.3 Consensus size: 217
12969013 ACCTTGTGTT
* * * * * *
12969023 CATATTCGCGGAAATCATCATGGGTTGATGAATCACCCTACATGCACCTTGTGTGCATATTCACG
1 CATATTCACGGAATTCATCATGGGTTGATGAATCACCATACATGCACATTATGTGCATATTCACA
* * *
12969088 GAATTCATTATGGGTTGATGAATCACCATACAAGAACCTTGTATGAATATTCACGGAATTCATCA
66 GAATTCATCATGGGTTGATAAATCAACATACAAGAACCTTGTATGAATATTCACGGAATTCATCA
* * *
12969153 TGGGTTGATGAATCACCGTACAAGCACTTTGTATGCATATTCATGGAATTCATCATGGGTTAATG
131 TGGGTTGATGAATCACCGTACAAGCACTTTGTATGCATATTCACGAAATTCACCATGGGTTAATG
*
12969218 AATCACCG-TACA-AC-TT-TG
196 AATCACCGATAAACACTTTGTG
* * *
12969236 CATATTCATGGAATTCATCATGGGTTGATGAATCACCATACAGGCACATTATGTTCATATTCACA
1 CATATTCACGGAATTCATCATGGGTTGATGAATCACCATACATGCACATTATGTGCATATTCACA
* * * * * *
12969301 GAATTCATCATGGGTTGATAAATCAACGTACAGGTACTTTGTGTGTATATTCACGGAATTCATCA
66 GAATTCATCATGGGTTGATAAATCAACATACAAGAACCTTGTATGAATATTCACGGAATTCATCA
* * * * *
12969366 TGGGTTGATGAATCACTGTATAGGCACTTTGTGTGCATATTCACGAAATTCACCATGGGTTGATG
131 TGGGTTGATGAATCACCGTACAAGCACTTTGTATGCATATTCACGAAATTCACCATGGGTTAATG
12969431 AATCACCGTATAAACACTTTTTGTG
196 AATCACCG-ATAAACAC--TTTGTG
* * * * * *
12969456 CAAATCCACGGAATTCATCATGAGTTGATGAATCACCGTACATGCACAATGTGTGCA
1 CATATTCACGGAATTCATCATGGGTTGATGAATCACCATACATGCACATTATGTGCA
12969513 ACCCGTTGAA
Statistics
Matches: 234, Mismatches: 36, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
213 177 0.76
215 3 0.01
216 2 0.01
219 2 0.01
220 50 0.21
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (217 bp):
CATATTCACGGAATTCATCATGGGTTGATGAATCACCATACATGCACATTATGTGCATATTCACA
GAATTCATCATGGGTTGATAAATCAACATACAAGAACCTTGTATGAATATTCACGGAATTCATCA
TGGGTTGATGAATCACCGTACAAGCACTTTGTATGCATATTCACGAAATTCACCATGGGTTAATG
AATCACCGATAAACACTTTGTG
Found at i:12972792 original size:41 final size:41
Alignment explanation
Indices: 12972705--12972792 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 41
12972695 TTAAAACTCG
* * * *
12972705 AACTC-AAACTCGATTGAAGCTCGATTCTGAGCTCAATTCA
1 AACTCGAAACTCAATTAAAGCTCAATTCTGAGCTCAATTAA
* * *
12972745 AGCTCGAAACTCAATTAAAGCTCAATTTTGAGCTCGATTAA
1 AACTCGAAACTCAATTAAAGCTCAATTCTGAGCTCAATTAA
12972786 AACTCGA
1 AACTCGA
12972793 GACATGACAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 4 0.10
41 35 0.90
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (41 bp):
AACTCGAAACTCAATTAAAGCTCAATTCTGAGCTCAATTAA
Found at i:12974064 original size:14 final size:14
Alignment explanation
Indices: 12974032--12974121 Score: 51
Period size: 14 Copynumber: 6.4 Consensus size: 14
12974022 TCAAATTAAG
* *
12974032 GGTTTAGGGCTTA-
1 GGTTTAAGGTTTAT
*
12974045 GGTTTATGGTTTAT
1 GGTTTAAGGTTTAT
*
12974059 GGTTTAAGATTT-T
1 GGTTTAAGGTTTAT
*
12974072 AGGATTTAAGGTTTAG
1 -GG-TTTAAGGTTTAT
12974088 GGTTTATA-GTTTAT
1 GGTTTA-AGGTTTAT
* * * *
12974102 AGATTAAAGTTTAA
1 GGTTTAAGGTTTAT
12974116 GGTTTA
1 GGTTTA
12974122 TGGTGTAATC
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
13 13 0.22
14 34 0.58
15 12 0.20
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.47
Consensus pattern (14 bp):
GGTTTAAGGTTTAT
Found at i:12974106 original size:29 final size:30
Alignment explanation
Indices: 12974042--12974122 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 30
12974032 GGTTTAGGGC
* *
12974042 TTAGG-TTTATGGTTTATGGTTTA-AGATT
1 TTAGGATTTAAGGTTTAAGGTTTATAGATT
*
12974070 TTAGGATTTAAGGTTTAGGGTTTATAG-TT
1 TTAGGATTTAAGGTTTAAGGTTTATAGATT
*
12974099 TATA-GA-TTAAAGTTTAAGGTTTAT
1 T-TAGGATTTAAGGTTTAAGGTTTAT
12974123 GGTGTAATCT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 21 0.46
29 21 0.46
30 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.49
Consensus pattern (30 bp):
TTAGGATTTAAGGTTTAAGGTTTATAGATT
Found at i:12974258 original size:6 final size:7
Alignment explanation
Indices: 12974196--12974262 Score: 73
Period size: 7 Copynumber: 9.7 Consensus size: 7
12974186 AATCAAAATA
12974196 AGGGTTT
1 AGGGTTT
12974203 AGGGTTT
1 AGGGTTT
**
12974210 AGGACTT
1 AGGGTTT
*
12974217 AGGGCTT
1 AGGGTTT
*
12974224 AAGGTTT
1 AGGGTTT
**
12974231 ATAGTTT
1 AGGGTTT
12974238 AGGGTTT
1 AGGGTTT
12974245 AGGGTTT
1 AGGGTTT
12974252 A-GGTTT
1 AGGGTTT
12974258 AGGGT
1 AGGGT
12974263 GTAATCTAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
6 6 0.12
7 44 0.88
ACGTcount: A:0.19, C:0.03, G:0.37, T:0.40
Consensus pattern (7 bp):
AGGGTTT
Found at i:12977854 original size:21 final size:20
Alignment explanation
Indices: 12977808--12977859 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
12977798 TGATTCAATC
12977808 AGTATCGATACTGAAGAGGT
1 AGTATCGATACTGAAGAGGT
12977828 AGTATCGATACAATGATA-AGG-
1 AGTATCGATAC--TGA-AGAGGT
12977849 AGTATCGATAC
1 AGTATCGATAC
12977860 CAAGCAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.38
21 11 0.38
22 6 0.21
23 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (20 bp):
AGTATCGATACTGAAGAGGT
Found at i:12977964 original size:95 final size:94
Alignment explanation
Indices: 12977825--12978013 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 94
12977815 ATACTGAAGA
* * * *
12977825 GGTAGTATCGATACAATGATAAGGAGTATCGATACCAAGCAACATCGAATCTAATTTTGGTATCA
1 GGTAGTATCGATACAATGATAAGAAGTATCAATACCAAGCAACATCGAACCTAATTTTGATATCA
*
12977890 -ATTCCGGAAGGGGGTATCGGTACCATAGTAT
66 TA-T-CGG-AGGGGGTATCAGTACCATAGTAT
* * *
12977921 GGTAGTATCGATACCATGGTAA-AAGTATCAATACCAGGCAACATCGAACCTAATTTTGATATCA
1 GGTAGTATCGATACAATGATAAGAAGTATCAATACCAAGCAACATCGAACCTAATTTTGATATCA
*
12977985 TATCGGATGGGGTATCAGTACCATAGTAT
66 TATCGGAGGGGGTATCAGTACCATAGTAT
12978014 AGAAGTATTG
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 21 0.25
94 3 0.04
95 38 0.46
96 21 0.25
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (94 bp):
GGTAGTATCGATACAATGATAAGAAGTATCAATACCAAGCAACATCGAACCTAATTTTGATATCA
TATCGGAGGGGGTATCAGTACCATAGTAT
Found at i:12978444 original size:55 final size:55
Alignment explanation
Indices: 12978376--12978862 Score: 620
Period size: 55 Copynumber: 8.9 Consensus size: 55
12978366 TGTGTACTAT
*
12978376 AGGCACCTTGTGTGCATATTCGCTGAATTCATCATGGGTTGATGAATCACCGTAC
1 AGGCACCTTGTGTGCATATTCACTGAATTCATCATGGGTTGATGAATCACCGTAC
* * * *
12978431 ATGCACCTTGTGTGCATATTCACAGAATTTATCATGGGTTGATGAATCACCATAC
1 AGGCACCTTGTGTGCATATTCACTGAATTCATCATGGGTTGATGAATCACCGTAC
*
12978486 AGGCACCTTGTGTGCATATTCAC-GAAATTCATCATGGGTTGATGAATCATCGTAC
1 AGGCACCTTGTGTGCATATTCACTG-AATTCATCATGGGTTGATGAATCACCGTAC
* * * * * **
12978541 AGGAACTTTGTATGAATATTCACAGAATTCAAAATGGGTTGATGAATCACCGTAC
1 AGGCACCTTGTGTGCATATTCACTGAATTCATCATGGGTTGATGAATCACCGTAC
* * *
12978596 AGGCACCTTGTGTGCATATTTA-TGGAATTCATAATGGGTTGATGAATCATCGTAC
1 AGGCACCTTGTGTGCATATTCACT-GAATTCATCATGGGTTGATGAATCACCGTAC
* * *
12978651 AGGAACCTTGTGTGCATATTCACAT-AATTCATCATGGGTTAATGAATCATCGTAC
1 AGGCACCTTGTGTGCATATTCAC-TGAATTCATCATGGGTTGATGAATCACCGTAC
* *
12978706 ACGCACTTTGTGTGCATATTCACTGAATTCATCATGGGTTGATGAATCACCGTAC
1 AGGCACCTTGTGTGCATATTCACTGAATTCATCATGGGTTGATGAATCACCGTAC
* * * * * *
12978761 ATGCACTTTGTATGCATATTCACGGAATTCATCATGGGTTGATGAATCACCATAA
1 AGGCACCTTGTGTGCATATTCACTGAATTCATCATGGGTTGATGAATCACCGTAC
** * * * * *
12978816 AGGCAATTTGTATGCAAATCCACGGAATTCATCATGAGTTGATGAAT
1 AGGCACCTTGTGTGCATATTCACTGAATTCATCATGGGTTGATGAAT
12978863 TTTCGTATAG
Statistics
Matches: 383, Mismatches: 43, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
54 2 0.01
55 379 0.99
56 1 0.00
57 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (55 bp):
AGGCACCTTGTGTGCATATTCACTGAATTCATCATGGGTTGATGAATCACCGTAC
Found at i:12985348 original size:26 final size:26
Alignment explanation
Indices: 12985319--12985383 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
12985309 AATGACGCTC
* *
12985319 AATGCGCGTCATAAATGTGTGTCCTA
1 AATGCGCGTCATAAATATGTGTCATA
*
12985345 AATGCGCATCATAAATATGTGTCATA
1 AATGCGCGTCATAAATATGTGTCATA
*
12985371 AATTCGCGTCATA
1 AATGCGCGTCATA
12985384 GATTTATGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (26 bp):
AATGCGCGTCATAAATATGTGTCATA
Found at i:12985359 original size:13 final size:13
Alignment explanation
Indices: 12985319--12985383 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
12985309 AATGACGCTC
12985319 AATGCGCGTCATA
1 AATGCGCGTCATA
* * *
12985332 AATGTGTGTCCTA
1 AATGCGCGTCATA
*
12985345 AATGCGCATCATA
1 AATGCGCGTCATA
** *
12985358 AATATGTGTCATA
1 AATGCGCGTCATA
*
12985371 AATTCGCGTCATA
1 AATGCGCGTCATA
12985384 GATTTATGAC
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:12990514 original size:74 final size:74
Alignment explanation
Indices: 12990393--12990536 Score: 252
Period size: 74 Copynumber: 1.9 Consensus size: 74
12990383 TGATGTATAG
*
12990393 GGAATCGATTTTATAGGACCCTTCCAATTATCCTTTAGCGATCTGTACATACCTTTATATGTGGA
1 GGAATCAATTTTATAGGACCCTTCCAATTATCCTTTAGCGATCTGTACATACCTTTATATGTGGA
12990458 CTACGATGT
66 CTACGATGT
* * *
12990467 GGAATCAATTTTATAGGACCCTTCCAATTATCCTTTGGCGATCTGTACATACTTTTATCTGTGGA
1 GGAATCAATTTTATAGGACCCTTCCAATTATCCTTTAGCGATCTGTACATACCTTTATATGTGGA
12990532 CTACG
66 CTACG
12990537 TATCCAAATG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (74 bp):
GGAATCAATTTTATAGGACCCTTCCAATTATCCTTTAGCGATCTGTACATACCTTTATATGTGGA
CTACGATGT
Found at i:13001810 original size:21 final size:23
Alignment explanation
Indices: 13001765--13001811 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
13001755 AAAATTTTGG
*
13001765 TTAGTGGCCAAAATGTTTGAAAGT
1 TTAGTGGCC-AAATGTATGAAAGT
13001789 TTAGTGGCC-AATGTAT-AAAGT
1 TTAGTGGCCAAATGTATGAAAGT
13001810 TT
1 TT
13001812 GAAAAGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 6 0.27
24 9 0.41
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (23 bp):
TTAGTGGCCAAATGTATGAAAGT
Found at i:13001847 original size:30 final size:30
Alignment explanation
Indices: 13001813--13001877 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
13001803 ATAAAGTTTG
*
13001813 AAAAGTTTAAAGACCAAAAGGGTAATTTTC
1 AAAAGTTCAAAGACCAAAAGGGTAATTTTC
** *
13001843 AAAAGTTCATGGACCAAAAGTGTAATTTTC
1 AAAAGTTCAAAGACCAAAAGGGTAATTTTC
13001873 AAAAG
1 AAAAG
13001878 CTAATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (30 bp):
AAAAGTTCAAAGACCAAAAGGGTAATTTTC
Found at i:13004293 original size:22 final size:22
Alignment explanation
Indices: 13004265--13004307 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13004255 ATTAGTTATT
*
13004265 ATATATGATGTTTATCATGAAA
1 ATATATGATGTTTACCATGAAA
13004287 ATATATGATGTTTACCATGAA
1 ATATATGATGTTTACCATGAA
13004308 TTTTATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (22 bp):
ATATATGATGTTTACCATGAAA
Found at i:13024729 original size:90 final size:89
Alignment explanation
Indices: 13024577--13024741 Score: 267
Period size: 90 Copynumber: 1.8 Consensus size: 89
13024567 TTTTACAGCC
*
13024577 AAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTAATTAATTG
1 AAGTTACCCTAATCATATTAGGGTTTAATTATTTCAAATTAATTAAATATATATTTAATTAATTG
* *
13024642 GAATTTAATAATCCTCTTATATCT
66 AAATTAAATAATCCTCTTATATCT
* * *
13024666 AAGTTACCCTAATCGTATTAGGGATTTAATTATTTGAAATTAATTAAATCTATATTTAATTAATT
1 AAGTTACCCTAATCATATTAGGG-TTTAATTATTTCAAATTAATTAAATATATATTTAATTAATT
13024731 GAAATTAAATA
65 GAAATTAAATA
13024742 TTCGGGATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 22 0.32
90 47 0.68
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (89 bp):
AAGTTACCCTAATCATATTAGGGTTTAATTATTTCAAATTAATTAAATATATATTTAATTAATTG
AAATTAAATAATCCTCTTATATCT
Found at i:13029799 original size:90 final size:90
Alignment explanation
Indices: 13029683--13029860 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
13029673 TAATCTCGAA
* * * *
13029683 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAAATAATTTGAAATAATAAAAACCCTAATATGAT
* *
13029748 TAGGGTAACTTGGATATGAAAGGAT
66 TAGGGTAACCTGGATATAAAAGGAT
13029773 TATTAAATTCCAATTAATTAAATATAGATTTAAATAATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAAATAATTTGAAATAATAAAAACCCTAATATGAT
*
13029838 TAGGGTAACCTGGCTATAAAAGG
66 TAGGGTAACCTGGATATAAAAGG
13029861 GTGTGTTAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAAATAATTTGAAATAATAAAAACCCTAATATGAT
TAGGGTAACCTGGATATAAAAGGAT
Found at i:13031220 original size:95 final size:96
Alignment explanation
Indices: 13031063--13031239 Score: 230
Period size: 95 Copynumber: 1.9 Consensus size: 96
13031053 ATATCGAAGT
* * *
13031063 GGTAGTATCAATATCACGATAAGGGGTATTGATACGAGGAAACATTAAATCTAATTTTGGTATCG
1 GGTAGTATCAATACCACGATAAGGGGTATTGATACGAGGAAACATCAAACCTAATTTTGGTATCG
*
13031128 ATACCGGTAGGGGGTATTAGTATCATAGTAG
66 ATACCGGAAGGGGGTATTAGTATCATAGTAG
* * * * * * * *
13031159 GGTAGTATCGATACCATGGTAA-GGGTATTGATACTAGGCAACATCGAACCTATTTTTGGTATTG
1 GGTAGTATCAATACCACGATAAGGGGTATTGATACGAGGAAACATCAAACCTAATTTTGGTATCG
*
13031223 ATACCTGAAGGGGGTAT
66 ATACCGGAAGGGGGTAT
13031240 CAATACTATA
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
95 50 0.74
96 18 0.26
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (96 bp):
GGTAGTATCAATACCACGATAAGGGGTATTGATACGAGGAAACATCAAACCTAATTTTGGTATCG
ATACCGGAAGGGGGTATTAGTATCATAGTAG
Found at i:13031263 original size:95 final size:95
Alignment explanation
Indices: 13031086--13031269 Score: 208
Period size: 95 Copynumber: 1.9 Consensus size: 95
13031076 TCACGATAAG
* * * * *
13031086 GGGTATTGATACGAGGAAACATTAAATCTAATTTTGGTATCGATACCGGTAGGGGGTATTAGTAT
1 GGGTATTGATACGAGGAAACATCAAACCTAATTTTGGTATCGATACCGGAAGGGGGTATCAATAT
* * *
13031151 CATAGTAGGGTAGTATCGATACCATGGTAA
66 CATAGTAGAGAAATATCGATACCATGGTAA
* * * * * *
13031181 GGGTATTGATACTAGGCAACATCGAACCTATTTTTGGTATTGATACCTGAAGGGGGTATCAATA-
1 GGGTATTGATACGAGGAAACATCAAACCTAATTTTGGTATCGATACCGGAAGGGGGTATCAATAT
* *
13031245 CTATAGTATAGAAATATCGGTACCA
66 C-ATAGTAGAGAAATATCGATACCA
13031270 GTGTAGTATC
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
94 1 0.01
95 71 0.99
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (95 bp):
GGGTATTGATACGAGGAAACATCAAACCTAATTTTGGTATCGATACCGGAAGGGGGTATCAATAT
CATAGTAGAGAAATATCGATACCATGGTAA
Found at i:13031702 original size:59 final size:58
Alignment explanation
Indices: 13031633--13031769 Score: 188
Period size: 59 Copynumber: 2.3 Consensus size: 58
13031623 TGTTAAAAAC
*
13031633 TCATACTAAGTGTATGAATTTCAGTATAGGGCA-CTTCATGTTCTAACAT-GATAAGAAAT
1 TCATACTAAGTGTATGAATTTCAGTATAGGGCACCTT-ATGTGCT-A-ATGGATAAGAAAT
* * * *
13031692 TCATACTAAGTGTATTAATTTCTGTATTGGGCACCTTGTGTGCTAATGGATAAGAAAT
1 TCATACTAAGTGTATGAATTTCAGTATAGGGCACCTTATGTGCTAATGGATAAGAAAT
13031750 TCATACTAAGTGTATGAATT
1 TCATACTAAGTGTATGAATT
13031770 CTGTATGGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
57 2 0.03
58 30 0.43
59 35 0.50
60 3 0.04
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (58 bp):
TCATACTAAGTGTATGAATTTCAGTATAGGGCACCTTATGTGCTAATGGATAAGAAAT
Found at i:13032251 original size:68 final size:68
Alignment explanation
Indices: 13032097--13032251 Score: 229
Period size: 68 Copynumber: 2.3 Consensus size: 68
13032087 AAAAGATCAA
** *
13032097 GAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTACACCAGTTAGATGAAAGACTAAGTGTC
13032162 TTT
66 TTT
* * * * *
13032165 GAAGCCTAACTATCCATATGACAGAAAGGTGTCATTTACACCAGTTAGATGAAAGACTATGTGTC
1 GAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTACACCAGTTAGATGAAAGACTAAGTGTC
13032230 TTT
66 TTT
*
13032233 GAGGCCTAGTTGTGCATAT
1 GAGGCCTAATTGTGCATAT
13032252 TATGCCAGTT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (68 bp):
GAGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTACACCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:13032425 original size:81 final size:81
Alignment explanation
Indices: 13032290--13032523 Score: 317
Period size: 81 Copynumber: 2.9 Consensus size: 81
13032280 CTTTGAGGCT
* * * *
13032290 TAGCTATGCAACTGACAGAAAGGTGTCAATTATGCTAGTTAGATTAATGGTTAAGTACTGTTGAG
1 TAGCTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACTGTTGAG
*
13032355 TAAAAGCAAAATGGCC
66 TAAAAGAAAAATGGCC
*
13032371 TAGCTGTGCAATTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACTGTTGAG
1 TAGCTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACTGTTGAG
13032436 TAAAAGAAAAATGGCC
66 TAAAAGAAAAATGGCC
** * * * * * **
13032452 TAGCTGACCAATTAACAGAAATGTGTCAATTACGCCAGTTAGACGAA-CGTTAAACACTGTTGAG
1 TAGCTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACTGTTGAG
*
13032516 TAAGAGAA
66 TAAAAGAA
13032524 TAAAGAAATA
Statistics
Matches: 136, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 21 0.15
81 115 0.85
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.26
Consensus pattern (81 bp):
TAGCTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACTGTTGAG
TAAAAGAAAAATGGCC
Found at i:13032567 original size:2 final size:2
Alignment explanation
Indices: 13032560--13032599 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13032550 TAAAGAGATG
13032560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13032600 TGTATAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13036454 original size:22 final size:20
Alignment explanation
Indices: 13036420--13036475 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
13036410 TACCGGTAGG
*
13036420 GGGTATC-AGTACCATAGTAG
1 GGGTATCGA-TACCATAGTAA
*
13036440 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
13036462 GGGTATCGATACCA
1 GGGTATCGATACCA
13036476 GGCAACATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 14 0.45
22 16 0.52
23 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Done.