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 63 of 91
Found at i:14356330 original size:76 final size:77
Alignment explanation
Indices: 14356214--14356395 Score: 266
Period size: 76 Copynumber: 2.4 Consensus size: 77
14356204 AAATATTTTT
* **
14356214 AAAACTATATA-T-TATATA-ATTTTCAAAAATGTTTTCAAAACTATATATTATATATGTTTTCA
1 AAAACTATATATTATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATACATTTTCA
14356276 AAATG-AATTTA
66 AAATGTAATTTA
*
14356287 AAAACTATATATTATATATATATTTTCTAAAATGTTTTAAAAACTATATATTATATACATTTTCA
1 AAAACTATATATTATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATACATTTTCA
**
14356352 AAATGTTTTTTA
66 AAATGTAATTTA
14356364 AAAACTATATATTATATACT-TATTTTCAAAAA
1 AAAACTATATATTATATA-TATATTTTCAAAAA
14356396 ACCGTTTGCA
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
73 11 0.11
74 1 0.01
75 6 0.06
76 45 0.46
77 33 0.34
78 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (77 bp):
AAAACTATATATTATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATACATTTTCA
AAATGTAATTTA
Found at i:14356418 original size:76 final size:74
Alignment explanation
Indices: 14356204--14356426 Score: 254
Period size: 76 Copynumber: 2.9 Consensus size: 74
14356194 TGTTTTCAAC
* *
14356204 AAATATTTTT-AAAACTATATATTATATA--ATTTTCAAAAATGTTTTCAAAACTATATATTATA
1 AAATGTTTTTAAAAACTATATATTATATATTATTTTCAAAAATGTTTAC-AAACTATATATTATA
**
14356266 TATGTTTTCA
65 TACATTTTCA
** * *
14356276 AAATGAATTTAAAAACTATATATTATATATATATTTTCTAAAATGTTTTAAAAACTATATATTAT
1 AAATGTTTTTAAAAACTATATATTATATAT-TATTTTCAAAAATG-TTTACAAACTATATATTAT
14356341 ATACATTTTCA
64 ATACATTTTCA
* *
14356352 AAATGTTTTTTAAAAACTATATATTATATACTTATTTTCAAAAAACCGTTTGCAAACTATAATAT
1 AAATG-TTTTTAAAAACTATATATTATATA-TTATTTTC-AAAAA-TGTTTACAAACTAT-ATAT
14356417 ATATATACAT
61 -TATATACAT
14356427 ACATATATAT
Statistics
Matches: 126, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
72 7 0.06
73 18 0.14
76 40 0.32
77 32 0.25
78 15 0.12
79 5 0.04
80 9 0.07
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (74 bp):
AAATGTTTTTAAAAACTATATATTATATATTATTTTCAAAAATGTTTACAAACTATATATTATAT
ACATTTTCA
Found at i:14357163 original size:84 final size:84
Alignment explanation
Indices: 14357018--14358547 Score: 1748
Period size: 84 Copynumber: 18.3 Consensus size: 84
14357008 TGACATATAG
* * * * * * *
14357018 CCCTTCTTGCCTTGAGCTATGCTGTAAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
1 CCCTTCTAGCCTTGAGTTATGCTG-CAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAA
*
14357083 GGTCTTTTGTTGGTAGATAA
65 GGTCTTTTGTTGGCAGATAA
*
14357103 CCCTTCTAGCCTTGATTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* * *
14357168 GTCTTTCGTTAGCAGATAG
66 GTCTTTTGTTGGCAGATAA
* * ** * * * * * *
14357187 CCCTTATCGCCTAAAGCTATTCTGCAATTGATGTG-CTTTGAGTTGAGCGTAATCAAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
*
14357251 GTC-TTTGTTGGCATATAA
66 GTCTTTTGTTGGCAGATAA
* * * *
14357269 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTACCTTAGAGTTGAACGTAGT-AGAACTCGAA
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCA-AACTCGAA
* *
14357333 GGTCTTTGGTTGGCAGATAG
65 GGTCTTTTGTTGGCAGATAA
* * * * * *
14357353 CCCTTCTCGACTTAAGATATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
*
14357418 GTCTTTTGTTGGTAGATAA
66 GTCTTTTGTTGGCAGATAA
* *
14357437 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* * *
14357502 GTC-TTTGTTGGAAAATAT
66 GTCTTTTGTTGGCAGATAA
* ** *
14357520 CCCTTCTAGCCTTGAGCTATATTGCAAATGATGTGGCTTGGAGCTGAGCGTAGTCAAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
*
14357585 GTCTTTT-TTGGTAGATAA
66 GTCTTTTGTTGGCAGATAA
* *
14357603 CCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTCT-GAGCTGAGCGTAGTCAAACTCGAA
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCT-TGGAGCTGAGCGTAGTCAAACTCGAA
*
14357667 GGTCTTTTGTTGGCAAATAA
65 GGTCTTTTGTTGGCAGATAA
* * * * * * *
14357687 CCCTTCTTGCCTTGAGTTATGTTACAAATGATGTGCCCTGGAGCTGAGCATAGTTAAACGCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* *
14357752 GTCTTTGGTTGACAGATAA
66 GTCTTTTGTTGGCAGATAA
* * * *
14357771 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCATTGGAGCTTAGCGTAGTCAAACTTGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
** *
14357836 GTCTTTTGTTCACAGATAG
66 GTCTTTTGTTGGCAGATAA
* * * * * *
14357855 CCCTTATCGCCTTGAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTGGTCGAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
**
14357920 GTC-TTTGTTGATAGATAA
66 GTCTTTTGTTGGCAGATAA
* * * * *
14357938 CCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAATTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* * * *
14358003 GACTTTAGTTGGCAGGTAG
66 GTCTTTTGTTGGCAGATAA
* * * * * * *
14358022 CCCTTCTCGACTTAAGTTATGCTACAAATGATGTACCTTAGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* *
14358087 GTCTTTTATTGGCAAATAA
66 GTCTTTTGTTGGCAGATAA
* * * *
14358106 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCATGGAGCTGAGCGTAGTCAAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* * *
14358171 GTATTTGGTAGGCAGATAA
66 GTCTTTTGTTGGCAGATAA
* * * * * *
14358190 CCCTTCTAGTCTTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAGTGTAGTCGAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* * *
14358255 GTCTTCTATTGGCA-AAAA
66 GTCTTTTGTTGGCAGATAA
* * * * *
14358273 GCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTA-TTAGAACTTGA
1 -CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCA-AACTCGA
* *
14358337 AGGTCTTTGGTTGGCAAATAA
64 AGGTCTTTTGTTGGCAGATAA
* * * * *
14358358 CCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTTTGAGCTGAGCATAGTCGAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* *
14358423 GTCTTTTGTTGACAAATAA
66 GTCTTTTGTTGGCAGATAA
* ** * * * *
14358442 CCCTTATTTCCTTGAGCTATGTTGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* **
14358507 GTC-TTTGCTGATAGATAA
66 GTCTTTTGTTGGCAGATAA
* *
14358525 CCCTTCTCGCATTGAGTTATGCT
1 CCCTTCTAGCCTTGAGTTATGCT
14358548 ACCGATAGTT
Statistics
Matches: 1210, Mismatches: 222, Indels: 28
0.83 0.15 0.02
Matches are distributed among these distances:
82 39 0.03
83 309 0.26
84 837 0.69
85 25 0.02
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
GTCTTTTGTTGGCAGATAA
Found at i:14357589 original size:251 final size:251
Alignment explanation
Indices: 14357018--14358547 Score: 1746
Period size: 251 Copynumber: 6.1 Consensus size: 251
14357008 TGACATATAG
* * * * * *
14357018 CCCTTCTTGCCTTGAGCTATGCTGTAAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
1 CCCTTCTAGCCTTGAGCTATGCTG-CAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAA
* *
14357083 GGTCTTTTGTTGGTAGATAACCCTTCTAGCCTTGATTTATGCTGCAAATGATGTGCCTTGGAGCT
65 GGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCT
* * * * * ** * *
14357148 GAGCGTAGTCAAACTCGAAGGTCTTTCGTTAGCAGATAGCCCTTATCGCCTAAAGCTATTCTGCA
130 GAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCA
* * * * * * *
14357213 ATTGATGTG-CTTTGAGTTGAGCGTAATCAAACTCGAAGGTCTTTGTTGGCATATAA
195 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGAAAATAA
* * * * *
14357269 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTACCTTAGAGTTGAACGTAGT-AGAACTCGAA
1 CCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCA-AACTCGAA
* * * * * * *
14357333 GGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGATATGTTGCAAATGATGTGCCTTGGAGCT
65 GGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCT
* * *
14357398 GAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
130 GAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCA
*
14357463 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGAAAATAT
195 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGAAAATAA
** *
14357520 CCCTTCTAGCCTTGAGCTATATTGCAAATGATGTGGCTTGGAGCTGAGCGTAGTCAAACTCGAAG
1 CCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* * *
14357585 GTCTTTT-TTGGTAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTCT-GAGCT
66 GTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCT-TGGAGCT
* * * *
14357648 GAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGTTATGTTACA
130 GAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCA
* * ** * *
14357713 AATGATGTGCCCTGGAGCTGAGCATAGTTAAACGCGAAGGTCTTTGGTT-GACAGATAA
195 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGA-AAATAA
* * * * *
14357771 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCATTGGAGCTTAGCGTAGTCAAACTTGAAG
1 CCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
** * * * * *
14357836 GTCTTTTGTTCACAGATAGCCCTTATCGCCTTGAGCTATGCTACAAATGATGTGCCTTGGAGCTG
66 GTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTG
* * ** * *
14357901 AGCGTGGTCGAACTCGAAGGTC-TTTGTTGATAGATAACCCTTTTAGCCTTGAGTTATGCTGTAA
131 AGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAA
* * * * ** *
14357965 ATGATGTGCCTTAGAGCTGAGCGTAGTCGAATTCGAAGGACTTTAGTTGGCAGGTAG
196 ATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGAAAATAA
* * * * * * * *
14358022 CCCTTCTCGACTTAAGTTATGCTACAAATGATGTACCTTAGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
* * * * * *
14358087 GTCTTTTATTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCATGGAGCTG
66 GTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTG
* * * * *
14358152 AGCGTAGTCAAACTCGAAGGTATTTGGTAGGCAGATAACCCTTCTAGTCTTGAGTTATGCTGTAA
131 AGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAA
* * * * *
14358217 ATGATATGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTCTATTGGCAAAA-AG
196 ATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGTTGG-AAAATAA
* * * *
14358274 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTA-TTAGAACTTGAA
1 CCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCA-AACTCGAA
* * * * *
14358338 GGTCTTTGGTTGGCAAATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATGCCTTTGAGCT
65 GGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCT
* * * * * ** * *
14358403 GAGCATAGTCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTATTTCCTTGAGCTATGTTGCA
130 GAGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCA
* * *
14358468 AATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGCT-GATAGATAA
195 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGA-AAATAA
* * *
14358525 CCCTTCTCGCATTGAGTTATGCT
1 CCCTTCTAGCCTTGAGCTATGCT
14358548 ACCGATAGTT
Statistics
Matches: 1068, Mismatches: 196, Indels: 30
0.83 0.15 0.02
Matches are distributed among these distances:
249 1 0.00
250 296 0.28
251 424 0.40
252 345 0.32
253 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (251 bp):
CCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAG
GTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTG
AGCGTAGTCAAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAA
ATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGAAAATAA
Found at i:14357665 original size:334 final size:335
Alignment explanation
Indices: 14357044--14358513 Score: 1804
Period size: 334 Copynumber: 4.4 Consensus size: 335
14357034 CTATGCTGTA
* * * *
14357044 AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC
*
14357109 TAGCCTTGATTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
66 TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
* * * ** * * * *
14357174 CGTTAGCAGATAGCCCTTATCGCCTAAAGCTATTCTGCAATTGATGTG-CTTTGAGTTGAGCGTA
131 -GTTGGAAGATAGCCCTTATAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* *
14357238 ATCAAACTCGAAGGTCTTTGTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
195 GTCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * * * *
14357303 ACCTTAGAGTTGAACGTAGT-AGAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTA
260 GCCTTAGAGCTGAGCGTAGTCAGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTA
* * *
14357367 AGATATGTTGC
325 AGTTATGCTAC
*
14357378 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC
* *
14357443 TAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
66 TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
* * * ** *
14357508 GTTGGAAAATATCCCTTCTAGCCTTGAGCTATATTGCAAATGATGTGGCTTGGAGCTGAGCGTAG
131 GTTGGAAGATAGCCCTTATAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * * *
14357573 TCAAACTCGAAGGTCTTTTTTGGTAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATATG
196 TCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
* * * *
14357638 CCTCT-GAGCTGAGCGTAGTCA-AACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTG
261 CCT-TAGAGCTGAGCGTAGTCAGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTA
*
14357701 AGTTATGTTAC
325 AGTTATGCTAC
* * ** * * *
14357712 AAATGATGTGCCCTGGAGCTGAGCATAGTTAAACGCGAAGGTCTTTGGTTGACAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC
* * * *
14357777 TAGCCTTGAGTTATGCTGCAAATGATATGCATTGGAGCTTAGCGTAGTCAAACTTGAAGGTCTTT
66 TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TT
* * *
14357842 TGTT-CACAGATAGCCCTTATCGCCTTGAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGT
130 TGTTGGA-AGATAGCCCTTATAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGT
* * ** * *
14357906 GGTCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATG
194 AGTCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
* * * ** *
14357971 TGCCTTAGAGCTGAGCGTAGTC-GAATTCGAAGGACTTTAGTTGGCAGGTAGCCCTTCTCGACTT
259 TGCCTTAGAGCTGAGCGTAGTCAGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTT
14358035 AAGTTATGCTAC
324 AAGTTATGCTAC
* * * *
14358047 AAATGATGTACCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTATTGGCAAATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC
* * * * *
14358112 TTGCCTTGAGCTATGTTGCAAATGATGTGCCATGGAGCTGAGCGTAGTCAAACTCGAAGGTATTT
66 TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
* * * * * * * * * *
14358177 GGTAGGCAGATAACCCTTCTAGTCTTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAGTGTA
131 -GTTGGAAGATAGCCCTTATAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* * * * * *
14358242 GTCGAACTCGAAGGTCTTCTATTGGCA-AAAAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGAT
195 GTCAAACTCGAAGGTCTT-TGTTGGCAGATAA-CCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
* * * * *
14358306 GTGCCTTGGAGCTGAGCGTA-TTAGAACTTGAAGGTCTTTGGTTGGCAAATAACCCTTCTAGCCT
258 GTGCCTTAGAGCTGAGCGTAGTCAGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACT
* * *
14358370 TGAGTTATACTGC
323 TAAGTTATGCTAC
* * * * * *
14358383 AAATGATATGCCTTTGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGACAAATAACCCTTA
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC
** * * * *
14358448 TTTCCTTGAGCTATGTTGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
66 TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
14358513 G
131 G
14358514 CTGATAGATA
Statistics
Matches: 978, Mismatches: 146, Indels: 23
0.85 0.13 0.02
Matches are distributed among these distances:
333 36 0.04
334 375 0.38
335 356 0.36
336 211 0.22
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (335 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTC
TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT
GTTGGAAGATAGCCCTTATAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
TCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
CCTTAGAGCTGAGCGTAGTCAGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAA
GTTATGCTAC
Found at i:14359850 original size:95 final size:95
Alignment explanation
Indices: 14359649--14359911 Score: 339
Period size: 95 Copynumber: 2.7 Consensus size: 95
14359639 GGATAACTGG
* * * *
14359649 ATCCATAAAGCCGGGGCGTTTAACCAGTTATTCTAGAGGGACAACTCAATATCGTTGTA-TAGAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTACTCTAGAGGGACAACTC-A-AGC-TT-TATTATAT
14359713 ATTATAATCACCTTTATCAGGCTAGCTAAATATT
62 ATTATAATCACCTTTATCAGGCTAGCTAAATATT
* * * * *
14359747 ATACATAAAGCCGAGCCGTTTAACCAATTACTCTAGAGGGATAACTCGAGCTTTATTATATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTATATATTA
* *
14359812 TAATCACCTTTATCAGGCTAGCTGAATCTT
66 TAATCACCTTTATCAGGCTAGCTAAATATT
* * * *
14359842 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTATATAT-T
14359907 ATAAT
65 ATAAT
14359912 ATTATAATCT
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
94 2 0.01
95 92 0.64
96 8 0.06
98 41 0.29
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTATATATTA
TAATCACCTTTATCAGGCTAGCTAAATATT
Found at i:14362516 original size:9 final size:9
Alignment explanation
Indices: 14362502--14362679 Score: 80
Period size: 9 Copynumber: 20.1 Consensus size: 9
14362492 AATAGATAAG
14362502 TAAAAAAAA
1 TAAAAAAAA
14362511 T-AAAAAAA
1 TAAAAAAAA
***
14362519 GGCA-AAAA
1 TAAAAAAAA
14362527 TAAAAAATAA
1 TAAAAAA-AA
*
14362537 -AAATAAAA
1 TAAAAAAAA
14362545 TAAAATAAAA
1 TAAAA-AAAA
14362555 TAAAATAAAA
1 TAAAA-AAAA
*
14362565 TAAAAAATA
1 TAAAAAAAA
* **
14362574 TAATAGTAA
1 TAAAAAAAA
*
14362583 TAAAAAATA
1 TAAAAAAAA
14362592 T-AAAAAAA
1 TAAAAAAAA
* **
14362600 TGAACCAAA
1 TAAAAAAAA
*
14362609 GAAAAAAAA
1 TAAAAAAAA
* * *
14362618 CATAAAAAC
1 TAAAAAAAA
*
14362627 TACAAAAAA
1 TAAAAAAAA
**
14362636 TAATTAAAA
1 TAAAAAAAA
*
14362645 T-AAAATAA
1 TAAAAAAAA
*
14362653 -AAAATAAA
1 TAAAAAAAA
* *
14362661 TCAAAGAAA
1 TAAAAAAAA
14362670 TAAAAAAAA
1 TAAAAAAAA
14362679 T
1 T
14362680 GAAGTAATTA
Statistics
Matches: 120, Mismatches: 41, Indels: 16
0.68 0.23 0.09
Matches are distributed among these distances:
8 30 0.25
9 69 0.57
10 21 0.17
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:14362518 original size:10 final size:10
Alignment explanation
Indices: 14362503--14362678 Score: 86
Period size: 10 Copynumber: 15.7 Consensus size: 10
14362493 ATAGATAAGT
14362503 AAAAAAAATA
1 AAAAAAAATA
14362513 AAAAAAGGCAA-A
1 AAAAAA---AATA
14362525 AATAAAAAATA
1 AA-AAAAAATA
14362536 AAAATAAAATA
1 AAAA-AAAATA
*
14362547 AAATAAAATA
1 AAAAAAAATA
*
14362557 AAATAAAATA
1 AAAAAAAATA
14362567 AAAAATATAATA
1 AAAAA-A-AATA
14362579 GTAATAAAAAATA
1 --AA-AAAAAATA
*
14362592 TAAAAAAATGA
1 AAAAAAAAT-A
*
14362603 ACCAAAGAAAAAA
1 A--AAA-AAAATA
14362616 AACATAAAAACTA
1 AA-A-AAAAA-TA
14362629 CAAAAAATAATTA
1 -AAAAAA-AA-TA
*
14362642 AAATAAAATA
1 AAAAAAAATA
14362652 AAAAATAAAT-
1 AAAAA-AAATA
* *
14362662 CAAAGAAATA
1 AAAAAAAATA
14362672 AAAAAAA
1 AAAAAAA
14362679 TGAAGTAATT
Statistics
Matches: 131, Mismatches: 13, Indels: 44
0.70 0.07 0.23
Matches are distributed among these distances:
9 4 0.03
10 51 0.39
11 22 0.17
12 20 0.15
13 22 0.17
14 9 0.07
15 3 0.02
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:14362578 original size:5 final size:5
Alignment explanation
Indices: 14362530--14362569 Score: 71
Period size: 5 Copynumber: 7.8 Consensus size: 5
14362520 GCAAAAATAA
14362530 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
14362570 AATATAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:14362781 original size:26 final size:26
Alignment explanation
Indices: 14362752--14362838 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
14362742 AAATGGAACC
* *
14362752 AATATAAAGTAAACATA-AATAATATT
1 AATATAAA-TAAAAATATAATAATAAT
*
14362778 AATATTAATAAAAATATAATAATAAT
1 AATATAAATAAAAATATAATAATAAT
*
14362804 AATA-ATAATAATAATAATAATAATAAT
1 AATATA-AATAAAAAT-ATAATAATAAT
*
14362831 AAAATAAA
1 AATATAAA
14362839 ATAAGATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.14
26 27 0.53
27 16 0.31
28 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (26 bp):
AATATAAATAAAAATATAATAATAAT
Found at i:14362801 original size:3 final size:3
Alignment explanation
Indices: 14362769--14362842 Score: 100
Period size: 3 Copynumber: 25.7 Consensus size: 3
14362759 AGTAAACATA
* * *
14362769 AAT AAT ATT AAT ATT AAT AAA AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14362816 AAT AAT AAT AAT AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14362843 GATATTAGGG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 6 0.10
3 56 0.90
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14369363 original size:14 final size:14
Alignment explanation
Indices: 14369344--14369373 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14369334 AAGAAAGAAC
14369344 ACTAAAAAATGAAT
1 ACTAAAAAATGAAT
14369358 ACTAAAAAATGAAT
1 ACTAAAAAATGAAT
14369372 AC
1 AC
14369374 AATTGAGCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (14 bp):
ACTAAAAAATGAAT
Found at i:14369756 original size:20 final size:20
Alignment explanation
Indices: 14369690--14369760 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
14369680 CAAACCAACG
* * *
14369690 GTATCGATATTGTCCAGAGG
1 GTATCGATATCGTCCAGTGA
*
14369710 GTATCGATACTACTGTGCAGT-A
1 GTATCGATA-T-C-GTCCAGTGA
14369732 GTATCGATATCGTCCAGTGA
1 GTATCGATATCGTCCAGTGA
14369752 GTATCGATA
1 GTATCGATA
14369761 CTACTATGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 6 0.14
20 20 0.48
21 2 0.05
22 9 0.21
23 5 0.12
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (20 bp):
GTATCGATATCGTCCAGTGA
Found at i:14369756 original size:42 final size:43
Alignment explanation
Indices: 14369690--14369784 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 43
14369680 CAAACCAACG
* * **
14369690 GTATCGATATTGTCCAGAGGGTATCGATACTAC-TGTGCAGTA
1 GTATCGATATCGTCCAGAGAGTATCGATACTACATGTAAAGTA
*
14369732 GTATCGATATCGTCCAGTGAGTATCGATACTACTATGTAAAGTA
1 GTATCGATATCGTCCAGAGAGTATCGATACTAC-ATGTAAAGTA
14369776 GTATCGATA
1 GTATCGATA
14369785 CCTAACATGG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 30 0.65
44 16 0.35
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
GTATCGATATCGTCCAGAGAGTATCGATACTACATGTAAAGTA
Found at i:14369798 original size:42 final size:41
Alignment explanation
Indices: 14369709--14369799 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 41
14369699 TTGTCCAGAG
** * *
14369709 GGTATCGATACTACTGTGCAGTAGTATCGATATCGTCCAGT
1 GGTATCGATACTACTGTAAAGTAGTATCGATATCCTACAGT
14369750 GAGTATCGATACTACTATGTAAAGTAGTATCGATA-CCTAACA-T
1 G-GTATCGATACTAC--TGTAAAGTAGTATCGATATCCT-ACAGT
14369793 GGTATCG
1 GGTATCG
14369800 GTACCCGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.02
42 19 0.45
43 4 0.10
44 18 0.43
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (41 bp):
GGTATCGATACTACTGTAAAGTAGTATCGATATCCTACAGT
Found at i:14370149 original size:18 final size:18
Alignment explanation
Indices: 14370132--14370165 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14370122 TATTCGAATA
14370132 ATTT-AATCAAATATAAT
1 ATTTAAATCAAATATAAT
*
14370149 ATTTAAATCGAATATAA
1 ATTTAAATCAAATATAA
14370166 AATCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTTAAATCAAATATAAT
Found at i:14370562 original size:31 final size:31
Alignment explanation
Indices: 14370527--14370602 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
14370517 TCAAAAAAAC
14370527 ATAAGATATGGTCACTTTCGTTTTTATTTAA
1 ATAAGATATGGTCACTTTCGTTTTTATTTAA
*
14370558 ATAAGATATGGACACTTTCGTTTTTATTTAA
1 ATAAGATATGGTCACTTTCGTTTTTATTTAA
* *
14370589 TTAAGACATGGTCA
1 ATAAGATATGGTCA
14370603 TCACGGGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (31 bp):
ATAAGATATGGTCACTTTCGTTTTTATTTAA
Found at i:14374386 original size:216 final size:216
Alignment explanation
Indices: 14374137--14375272 Score: 1646
Period size: 216 Copynumber: 5.3 Consensus size: 216
14374127 ATTTTATGAA
* * * *
14374137 AAATATAAATTT-AAGAATTAACTTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTG
1 AAATAT-AATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTA
* *
14374201 CACAACACACATTGATGAGGGATCAAATTGAAATAATTTTAAATTGTGAGGTTGAAATTAATACA
65 AACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACA
* *
14374266 AAAAAGTATTAAATTATACCCATTTAAAAAGCTATGGGCCAATTAAAAAATATAAATAAGTAATA
130 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
* *
14374331 AGTATGGGTCAATTTTAGATGT
195 AGTATGGGTCAATTTCAGATGC
* * * *
14374353 AAATATAATTTGGAGGACTAAATTGAACAAATATAAAATTAAAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* * * *
14374418 ACAACGCA-A---A--A-GGATGAAATC-AATATAATTTTAAATTATAAGGTTGAAATTAATACA
66 ACAACACACATTGATGAGGGATCAAATCGAA-ATAATTTTAAATTGTGAGGTTGAAATTAATACA
* *
14374475 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGTCAATTAAAAAATATAAATATGTAATA
130 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
*
14374540 AGTATGGGTCAATATCA-ATGC
195 AGTATGGGTCAATTTCAGATGC
14374561 AAATATAATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* * * * *
14374626 ACAAAACACATTGATGAGGGATCAAATCGAAATAATTTAAAATTGTGCGGTTTATATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-A
* *
14374691 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGTCCAATTTAAAAATATAAATAAGTAATA
130 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
**
14374756 AGTATCTGTCAATTTCAGATGC
195 AGTATGGGTCAATTTCAGATGC
* * *
14374778 GAATATAATTTTAAGAACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
*
14374843 AC-A-ACACA---A--ACGGATCAAATCGAAATAATTTTAAA-T-TGAGGTTGAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
* **
14374899 AAAA-TATTAAATTATACTTATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
131 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
* *
14374963 GTATGGGTCAATTTGAGATGG
196 GTATGGGTCAATTTCAGATGC
*
14374984 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* * *
14375049 ACAACACACATTGATGAGTGATCAAATCAAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
* *
14375114 AAAAGTACCAAATTATACCCTTTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
131 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
*
14375179 GTATGTGTCAATTTCAGATGC
196 GTATGGGTCAATTTCAGATGC
* ** * *
14375200 AAATATAATTTGGAGGAAAAAATTGAACAAATATGAAACTACAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
14375265 ACAACACA
66 ACAACACA
14375273 GAAGGATCAA
Statistics
Matches: 820, Mismatches: 78, Indels: 44
0.87 0.08 0.05
Matches are distributed among these distances:
206 137 0.17
207 7 0.01
208 92 0.11
209 117 0.14
210 25 0.03
211 1 0.00
212 3 0.00
213 23 0.03
214 2 0.00
215 69 0.08
216 276 0.34
217 68 0.08
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (216 bp):
AAATATAATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
GTATGGGTCAATTTCAGATGC
Found at i:14375207 original size:422 final size:423
Alignment explanation
Indices: 14374137--14375290 Score: 1796
Period size: 422 Copynumber: 2.7 Consensus size: 423
14374127 ATTTTATGAA
* * * * **
14374137 AAATATAAATTTAAGAATTAACTTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTGC
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* *
14374202 ACAACACACATTGATGAGGGATCAAATTGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
* *
14374267 AAAAGTATTAAATTATACCCATTTAAAAAGCTATGGGCCAATTAAAAAATATAAATAAGTAATAA
131 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
* * * * * * *
14374332 GTATGGGTCAATTTTAGATGTAAATATAATTTGGAGGACTAAATTGAACAAATATAAAATTAAAA
196 GTATGTGTCAATTTCAGATGCAAATATAATTTGAAGAACTAAATTGAACAAATATGAAATTACAA
* *
14374397 ATAAAAATTTAAATAAATTAAACAACGCAAAAGGATGAAATC-AATATAATTTTAAATTATAAGG
261 ATAAAAATTTAAATAAATTAAACAACAC-AAAGGATCAAATCGAA-ATAATTTTAAATTATAAGG
*
14374461 TTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGTCAATTAAAAAAT
324 TTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAAT
*
14374526 ATAAATATGTAATAAGTATGGGTCAATATCAATGC
389 ATAAATAAGTAATAAGTATGGGTCAATATCAATGC
*
14374561 AAATATAATTTGAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* * * *
14374626 ACAAAACACATTGATGAGGGATCAAATCGAAATAATTTAAAATTGTGCGGTTTATATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAC-A
* *
14374691 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGTCCAATTTAAAAATATAAATAAGTAATA
130 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
* * *
14374756 AGTATCTGTCAATTTCAGATGCGAATATAATTTTAAGAACTAAATTGAACAAATATGAAATTACA
195 AGTATGTGTCAATTTCAGATGCAAATATAATTTGAAGAACTAAATTGAACAAATATGAAATTACA
* *
14374821 AATTAAAATTTAAATAAATTAAACAACACAAACGGATCAAATCGAAATAATTTTAAA-T-TGAGG
260 AATAAAAATTTAAATAAATTAAACAACACAAA-GGATCAAATCGAAATAATTTTAAATTATAAGG
* **
14374884 TTGAAATTAATACAAAAAA-TATTAAATTATACTTATTTAAAAAGTTATGGGCCAATTAAAAAAT
324 TTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAAT
* * *
14374948 ATAAATAAGTAATAAGTATGGGTCAATTTGAGATGG
389 ATAAATAAGTAATAAGTATGGGTCAATATCA-ATGC
14374984 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* *
14375049 ACAACACACATTGATGAGTGATCAAATCAAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
* *
14375114 AAAAGTACCAAATTATACCCTTTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
131 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
* * *
14375179 GTATGTGTCAATTTCAGATGCAAATATAATTTGGAGGAA-AAAATTGAACAAATATGAAACTACA
196 GTATGTGTCAATTTCAGATGCAAATATAATTT-GAAGAACTAAATTGAACAAATATGAAATTACA
14375243 AATAAAAATTTAAATAAATTAAACAACACAGAAGGATCAAATCGAAAT
260 AATAAAAATTTAAATAAATTAAACAACACA-AAGGATCAAATCGAAAT
14375291 GATTGCAAAA
Statistics
Matches: 667, Mismatches: 57, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
422 229 0.34
423 153 0.23
424 119 0.18
425 164 0.25
426 2 0.00
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (423 bp):
AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
GTATGTGTCAATTTCAGATGCAAATATAATTTGAAGAACTAAATTGAACAAATATGAAATTACAA
ATAAAAATTTAAATAAATTAAACAACACAAAGGATCAAATCGAAATAATTTTAAATTATAAGGTT
GAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAT
AAATAAGTAATAAGTATGGGTCAATATCAATGC
Found at i:14375569 original size:21 final size:21
Alignment explanation
Indices: 14375553--14375596 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14375543 GCGTTGCATT
14375553 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
14375574 TCGCGTTGCGATAGTAGAAAA
1 TCGCGTTGCGATAGTTGAAAA
14375595 TC
1 TC
14375597 ACAACACGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:14375620 original size:6 final size:6
Alignment explanation
Indices: 14375609--14375640 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14375599 AACACGTATT
14375609 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
14375641 CGAGACGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:14376144 original size:6 final size:6
Alignment explanation
Indices: 14376133--14376187 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
14376123 TCTCGTCTCG
14376133 GGTCGT GGTCGT --TCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
14376179 GGTCGT GGT
1 GGTCGT GGT
14376188 AATACGTGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.09
6 43 0.91
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
GGTCGT
Found at i:14376326 original size:19 final size:19
Alignment explanation
Indices: 14376304--14376351 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
14376294 ACTGTAAACT
14376304 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
*
14376323 ATCGCAACAAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
14376342 ATCGCAACGA
1 ATCGCAACGA
14376352 CAACTGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:14376427 original size:34 final size:33
Alignment explanation
Indices: 14376384--14376463 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 33
14376374 GATTTTCAAC
* *
14376384 TATCGCAACGCGAACTGAAAAATCACAACGCGA
1 TATCGCAACGCGAAATGAAAAATCACAACACGA
*
14376417 TTATCGCAACGCGAAATGAAAAATCTCAACACGA
1 -TATCGCAACGCGAAATGAAAAATCACAACACGA
*
14376451 AAT-GCAACGCGAA
1 TATCGCAACGCGAA
14376464 TTTGCGATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 10 0.24
33 2 0.05
34 30 0.71
ACGTcount: A:0.44, C:0.25, G:0.17, T:0.14
Consensus pattern (33 bp):
TATCGCAACGCGAAATGAAAAATCACAACACGA
Found at i:14376652 original size:20 final size:20
Alignment explanation
Indices: 14376636--14376686 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
14376626 AACTATATAT
14376636 TATATATATTATGTATAAAC
1 TATATATATTATGTATAAAC
*
14376656 TATATATATCATGTATAAAC
1 TATATATATTATGTATAAAC
14376676 TATA-ATATTAT
1 TATATATATTAT
14376687 ATAGTGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (20 bp):
TATATATATTATGTATAAAC
Found at i:14376661 original size:22 final size:22
Alignment explanation
Indices: 14376636--14376823 Score: 80
Period size: 22 Copynumber: 8.8 Consensus size: 22
14376626 AACTATATAT
*
14376636 TATATATATTATGTATAAACTA
1 TATATATATTATATATAAACTA
*
14376658 TATATATCATGTATAAACTATAA-TA
1 TATATAT-AT-TATATA-TA-AACTA
*
14376683 T-TATATAGTGTATATATAAACTC
1 TATATATA-T-TATATATAAACTA
14376706 TATATGA-ATTATATATAAACTA
1 TATAT-ATATTATATATAAACTA
* * *
14376728 TACA-AT-TTATATTTATA-TA
1 TATATATATTATATATAAACTA
* *
14376747 T-TATGTATAAT-TATAAA-TA
1 TATATATATTATATATAAACTA
* *
14376766 -ATATATA-T-TGTATAAATTA
1 TATATATATTATATATAAACTA
* *
14376785 TATAGTTTATTA-ATATAAACTC
1 TATA-TATATTATATATAAACTA
*
14376807 TATAGTTTA-TATATATA
1 TATA-TATATTATATATA
14376824 GTATACATGC
Statistics
Matches: 128, Mismatches: 19, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
17 1 0.01
18 7 0.05
19 17 0.13
20 16 0.12
21 5 0.04
22 46 0.36
23 8 0.06
24 20 0.16
25 6 0.05
26 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (22 bp):
TATATATATTATATATAAACTA
Found at i:14376755 original size:17 final size:17
Alignment explanation
Indices: 14376735--14376788 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
14376725 CTATACAATT
* *
14376735 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
14376752 TATAATTATAAATAATA
1 TATATTTATAAATTATA
14376769 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
14376787 TA
1 TA
14376789 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:14376899 original size:11 final size:11
Alignment explanation
Indices: 14376883--14376936 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
14376873 TAGTAGTATT
14376883 TAAACTATATA
1 TAAACTATATA
14376894 TAAAC--TATA
1 TAAACTATATA
14376903 TAAACTA-ACT-
1 TAAACTATA-TA
* *
14376913 TATACTATATG
1 TAAACTATATA
14376924 TAAACTATATA
1 TAAACTATATA
14376935 TA
1 TA
14376937 CTATATAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
9 9 0.26
10 8 0.23
11 18 0.51
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (11 bp):
TAAACTATATA
Found at i:14376908 original size:20 final size:20
Alignment explanation
Indices: 14376890--14376993 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
14376880 ATTTAAACTA
14376890 TATATAAAC--TATATAAAC
1 TATATAAACTATATATAAAC
* *
14376908 TA-ACTTATACTATATGTAAAC
1 TATA--TAAACTATATATAAAC
* **
14376929 TATATATACTATATAGTTTAC
1 TATATAAACTATATA-TAAAC
*
14376950 -ATATGAACTATATGTATAAAC
1 TATATAAACTATA--TATAAAC
* *
14376971 TATGTAAATTATATATAAAC
1 TATATAAACTATATATAAAC
14376991 TAT
1 TAT
14376994 TTATATAGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
17 1 0.02
18 2 0.03
19 4 0.06
20 30 0.46
21 16 0.25
22 12 0.18
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (20 bp):
TATATAAACTATATATAAAC
Found at i:14377010 original size:18 final size:17
Alignment explanation
Indices: 14376980--14377018 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
14376970 CTATGTAAAT
*
14376980 TATATATAAACTATTTA
1 TATATATAAACTATATA
*
14376997 TATAGTATATACTATATA
1 TATA-TATAAACTATATA
14377015 TATA
1 TATA
14377019 AATTATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (17 bp):
TATATATAAACTATATA
Found at i:14377018 original size:20 final size:20
Alignment explanation
Indices: 14376958--14377073 Score: 55
Period size: 20 Copynumber: 6.0 Consensus size: 20
14376948 ACATATGAAC
* *
14376958 TATAT-GTATAAACTATGTA
1 TATATAGTATATACTATATA
* *
14376977 AATTATA-TATAAACTAT-T-
1 TA-TATAGTATATACTATATA
14376995 TATATAGTATATACTATATA
1 TATATAGTATATACTATATA
* * * *
14377015 TATAAATTATAGT-TTATATT
1 TATATAGTATA-TACTATATA
* * *
14377035 TATATACTACATACTATAGTT
1 TATATAGTATATACTATA-TA
*
14377056 TATAT-TTATATACTATAT
1 TATATAGTATATACTATAT
14377074 TTTATACTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
17 4 0.05
18 10 0.13
19 5 0.07
20 49 0.64
21 8 0.11
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (20 bp):
TATATAGTATATACTATATA
Found at i:14377032 original size:27 final size:27
Alignment explanation
Indices: 14377002--14377156 Score: 88
Period size: 27 Copynumber: 5.7 Consensus size: 27
14376992 ATTTATATAG
14377002 TATATACTATATATATAAATTATAGTT
1 TATATACTATATATATAAATTATAGTT
* * * *
14377029 TATAT-TTATATACTACATACTATAGTT
1 TATATACTATATA-TATAAATTATAGTT
* ** *
14377056 TATAT-TTATATACTATATTTTATACTAT
1 TATATACTATATA-TATAAATTATAGT-T
* **
14377084 T-TATA-TAAAT-TATAGTTTATA-TT
1 TATATACTATATATATAAATTATAGTT
* *
14377107 TATATACTATATATATGAACTATAGTT
1 TATATACTATATATATAAATTATAGTT
14377134 TACATATGAACTATATATATAAA
1 T--ATAT--ACTATATATATAAA
14377157 CTGAGAAAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
23 2 0.02
24 5 0.05
25 14 0.14
26 13 0.13
27 48 0.48
28 2 0.02
29 4 0.04
31 13 0.13
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.48
Consensus pattern (27 bp):
TATATACTATATATATAAATTATAGTT
Found at i:14377077 original size:20 final size:20
Alignment explanation
Indices: 14377045--14377117 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 20
14377035 TATATACTAC
14377045 ATACTATAGTTTATATTTAT
1 ATACTATAGTTTATATTTAT
*
14377065 ATACTATATTTTATACTATTTAT
1 ATACTATA-GTT-TA-TATTTAT
*
14377088 ATAAATTATAGTTTATATTTAT
1 AT--ACTATAGTTTATATTTAT
14377110 ATACTATA
1 ATACTATA
14377118 TATATGAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 11 0.25
23 11 0.25
24 2 0.05
25 5 0.11
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
ATACTATAGTTTATATTTAT
Found at i:14377081 original size:12 final size:13
Alignment explanation
Indices: 14377029--14377118 Score: 54
Period size: 13 Copynumber: 7.4 Consensus size: 13
14377019 AATTATAGTT
14377029 TATATTTATATAC
1 TATATTTATATAC
* * *
14377042 TACATACTATAGT-T
1 TATAT-TTATA-TAC
14377056 TATATTTATATAC
1 TATATTTATATAC
14377069 TATATTT-TATAC
1 TATATTTATATAC
14377081 --TATTTATATA-
1 TATATTTATATAC
*
14377091 -A-A-TTATAGT-T
1 TATATTTATA-TAC
14377101 TATATTTATATAC
1 TATATTTATATAC
14377114 TATAT
1 TATAT
14377119 ATATGAACTA
Statistics
Matches: 59, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
9 5 0.08
10 7 0.12
11 5 0.08
12 8 0.14
13 25 0.42
14 8 0.14
15 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (13 bp):
TATATTTATATAC
Found at i:14377122 original size:33 final size:33
Alignment explanation
Indices: 14377069--14377158 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
14377059 ATTTATATAC
* *
14377069 TATATTT-TATACTATTTATATAAATTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
*
14377101 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
*
14377134 TACA--TATGA-ACTATATATATAAACT
1 TATATTTAT-ATACTATATATATAAACT
14377159 GAGAAAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 18 0.35
32 8 0.16
33 25 0.49
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (33 bp):
TATATTTATATACTATATATATAAACTATAGTT
Found at i:14377361 original size:92 final size:92
Alignment explanation
Indices: 14377217--14377399 Score: 269
Period size: 92 Copynumber: 2.0 Consensus size: 92
14377207 CAGTTCTTCA
* * *
14377217 CCAAAACCCTCCTTTGATATTCAAAAACACCAAAACCAAAACAATTTCGTGTTTTTTCGATCAAA
1 CCAAAACCCTCATTTAATATTCAAAAACACCAAAACCAAAACAATTTCGTGTTTTTTCAATCAAA
* *
14377282 CACCCAAAAATTTATCCGTGTTCATCC
66 CACCAAAAAATTCATCCGTGTTCATCC
* * * *
14377309 CCAAAACCCTCATTTAATCTTTAAAAACACCAAAACTC-AAACCATTTTGTGTTTTTTCAATCAA
1 CCAAAACCCTCATTTAATATTCAAAAACACCAAAAC-CAAAACAATTTCGTGTTTTTTCAATCAA
14377373 ACACCAAAAAATTCATCCGTGTTCATC
65 ACACCAAAAAATTCATCCGTGTTCATC
14377400 TGAGTTCTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 80 0.99
93 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (92 bp):
CCAAAACCCTCATTTAATATTCAAAAACACCAAAACCAAAACAATTTCGTGTTTTTTCAATCAAA
CACCAAAAAATTCATCCGTGTTCATCC
Found at i:14377498 original size:102 final size:102
Alignment explanation
Indices: 14377300--14377517 Score: 271
Period size: 102 Copynumber: 2.1 Consensus size: 102
14377290 AATTTATCCG
* * * **
14377300 TGTTCATCCCCAAAACCCTCATTTAATCTTTAAAAACACCAAAACTCAAACCATTTTGTGTTTTT
1 TGTTCTTCCCCAAAACCCTCATTTAATCTTCAAAAACACCAAAACCCAAACCATTTCATGTTTTT
*
14377365 TCAATCAAACACCAAAAAATTCATCCGTGTTCATCTGA
66 TCAATCAAACACCAAAAAATTCATCCGTGTTCATC-AA
* *
14377403 -GTTCTTCCCCAAAACCCTTC-TTTGATCTTCAAAAACACCGAAACCCAAACCATTTCATGTTTT
1 TGTTCTTCCCCAAAACCC-TCATTTAATCTTCAAAAACACCAAAACCCAAACCATTTCATGTTTT
* *** *
14377466 TT-GATCAAACACCCCCAAATTCATCCATTGTTCATCAA
65 TTCAATCAAACACCAAAAAATTCATCC-GTGTTCATCAA
14377504 TGTTCTTCCCCAAA
1 TGTTCTTCCCCAAA
14377518 TCCTTACAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
101 21 0.21
102 76 0.77
103 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (102 bp):
TGTTCTTCCCCAAAACCCTCATTTAATCTTCAAAAACACCAAAACCCAAACCATTTCATGTTTTT
TCAATCAAACACCAAAAAATTCATCCGTGTTCATCAA
Found at i:14377732 original size:6 final size:6
Alignment explanation
Indices: 14377703--14377766 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
14377693 TCTAACCCCT
* * * * ** * *
14377703 AACCCG AACCAA AACCCG ATCCCA AACCCA AACCTG ATCCCA AACCCG
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
14377751 AACCCA AACCCA AACC
1 AACCCA AACCCA AACC
14377767 TAGGGATAGA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.42, C:0.47, G:0.06, T:0.05
Consensus pattern (6 bp):
AACCCA
Found at i:14377735 original size:18 final size:18
Alignment explanation
Indices: 14377709--14377766 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
14377699 CCCTAACCCG
*
14377709 AACCAAAACCCGATCCCA
1 AACCCAAACCCGATCCCA
*
14377727 AACCCAAACCTGATCCCA
1 AACCCAAACCCGATCCCA
* * *
14377745 AACCCGAACCCAAACCCA
1 AACCCAAACCCGATCCCA
14377763 AACC
1 AACC
14377767 TAGGGATAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.43, C:0.47, G:0.05, T:0.05
Consensus pattern (18 bp):
AACCCAAACCCGATCCCA
Found at i:14379280 original size:6 final size:6
Alignment explanation
Indices: 14379258--14379359 Score: 100
Period size: 6 Copynumber: 17.3 Consensus size: 6
14379248 CACCATCCCT
* * *
14379258 ACCCAA ACCCGA TCCCAA ACCCAA ACCCAA A-CCAA ACCCGA ACCCAA
1 ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA
* * * * * *
14379305 TCCCGA ACCCAA ATCCAA ATCCAA ACCCAA A-CCAA ACCCGA ACCCGA
1 ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA
*
14379352 ATCCAA AC
1 ACCCAA AC
14379360 TATTCAAAAC
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
5 10 0.13
6 68 0.87
ACGTcount: A:0.44, C:0.46, G:0.05, T:0.05
Consensus pattern (6 bp):
ACCCAA
Found at i:14379314 original size:35 final size:34
Alignment explanation
Indices: 14379258--14379359 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 34
14379248 CACCATCCCT
* * *
14379258 ACCCAAACCCGATCCCAAACCCAAACCCAAACCAA
1 ACCC-AACCCAATCCCGAACCCAAATCCAAACCAA
14379293 ACCCGAACCCAATCCCGAACCCAAATCCAAATCCAA
1 ACCC-AACCCAATCCCGAACCCAAATCCAAA-CCAA
* * *
14379329 ACCCAAACCAAACCCGAACCCGAATCCAAAC
1 ACCCAACCCAATCCCGAACCCAAATCCAAAC
14379360 TATTCAAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 1 0.02
35 50 0.85
36 8 0.14
ACGTcount: A:0.44, C:0.46, G:0.05, T:0.05
Consensus pattern (34 bp):
ACCCAACCCAATCCCGAACCCAAATCCAAACCAA
Found at i:14379576 original size:2 final size:2
Alignment explanation
Indices: 14379571--14379607 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14379561 TATATTCTTG
14379571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14379608 CTTGTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14379687 original size:63 final size:63
Alignment explanation
Indices: 14379620--14379744 Score: 205
Period size: 63 Copynumber: 2.0 Consensus size: 63
14379610 TGTATAAATT
* ** *
14379620 TGTTGATGTAAATGATATACTATTAGAAGCATTTAATGTAAACTAACTTTGTTTTTTTATTGA
1 TGTTGATGTAAATGATATACTATCAGAAGCATTTAATGTAAACTAACCATGGTTTTTTATTGA
*
14379683 TGTTGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTTTTTATTG
1 TGTTGATGTAAATGATATACTATCAGAAGCATTTAATGTAAACTAACCATGGTTTTTTATTG
14379745 CAAGGTGATA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (63 bp):
TGTTGATGTAAATGATATACTATCAGAAGCATTTAATGTAAACTAACCATGGTTTTTTATTGA
Found at i:14379775 original size:64 final size:63
Alignment explanation
Indices: 14379623--14379782 Score: 194
Period size: 63 Copynumber: 2.5 Consensus size: 63
14379613 ATAAATTTGT
* * * ** * * *
14379623 TGATGTAAATGATATACTATTAGAAGCATTTAATGTAAACTAACTTTGTTTTTTTATTGATGT
1 TGATATAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTTTTTATTGAAGG
*
14379686 TGATGTAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTTTTTATTGCAAGG
1 TGATATAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTTTTTATTG-AAGG
* **
14379750 TGATATAAATTATATGTTGTCAGAAGCAATTTA
1 TGATATAAATGATATACTGTCAGAAGC-ATTTA
14379783 TATCAATAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 54 0.64
64 25 0.30
65 5 0.06
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (63 bp):
TGATATAAATGATATACTGTCAGAAGCATTTAATGTAAACTAACCATGGTTTTTTATTGAAGG
Found at i:14381368 original size:17 final size:17
Alignment explanation
Indices: 14381346--14381387 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
14381336 ATTTTATCTT
14381346 ATTTATTTATTATTT-TC
1 ATTTATTTATT-TTTGTC
*
14381363 ATTTATTAATTTTTGTC
1 ATTTATTTATTTTTGTC
*
14381380 TTTTATTT
1 ATTTATTT
14381388 TTTAGACTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (17 bp):
ATTTATTTATTTTTGTC
Found at i:14382062 original size:20 final size:20
Alignment explanation
Indices: 14382006--14382073 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
14381996 TATTTGGTGC
*
14382006 TTGATTTTGCTTGA-TTCTGT
1 TTGATATTGCTT-ACTTCTGT
* ** *
14382026 TTTATATTTTTTGCTTCTGT
1 TTGATATTGCTTACTTCTGT
**
14382046 TTGATATTGCTTACTTCTAC
1 TTGATATTGCTTACTTCTGT
14382066 TTGATATT
1 TTGATATT
14382074 TGTAAGGGTT
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.15, C:0.12, G:0.13, T:0.60
Consensus pattern (20 bp):
TTGATATTGCTTACTTCTGT
Found at i:14382215 original size:23 final size:23
Alignment explanation
Indices: 14382166--14382222 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
14382156 CTTAATTCAG
*
14382166 GATGCTTGCTGAATTTATGCAAC
1 GATGCTTGCTGAATTTATACAAC
**
14382189 GATGCTTGCTGAA-TTAGTACATT
1 GATGCTTGCTGAATTTA-TACAAC
14382212 GATGCTTGCTG
1 GATGCTTGCTG
14382223 GTTACTGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 3 0.10
23 27 0.90
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (23 bp):
GATGCTTGCTGAATTTATACAAC
Found at i:14383649 original size:30 final size:30
Alignment explanation
Indices: 14383610--14383719 Score: 123
Period size: 30 Copynumber: 3.7 Consensus size: 30
14383600 TGAAAAATAA
*
14383610 TTTACGTAAAATCAATTACATAAAAATTGT
1 TTTACGTAAAATGAATTACATAAAAATTGT
* * *
14383640 TTTGCGTAAAATGAATTACATGAAAATTGG
1 TTTACGTAAAATGAATTACATAAAAATTGT
** *
14383670 TTTATATAAAATGAATTAC-TTAAAATTGT
1 TTTACGTAAAATGAATTACATAAAAATTGT
* * *
14383699 CTTACGTAAAATAAATAACAT
1 TTTACGTAAAATGAATTACAT
14383720 TTTATGGGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
29 22 0.34
30 43 0.66
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (30 bp):
TTTACGTAAAATGAATTACATAAAAATTGT
Found at i:14383998 original size:30 final size:27
Alignment explanation
Indices: 14383964--14384033 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 27
14383954 ACTTAATTTT
*
14383964 AATTATTAGTATT-TTATTAACATAATACTA
1 AATTATTA-TATTAATATTAA-AT-ATA-TA
14383994 AATTATTATATTAATATTAAATATATA
1 AATTATTATATTAATATTAAATATATA
14384021 AATTA--ATATTAAT
1 AATTATTATATTAAT
14384034 CAATATTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
25 8 0.21
27 7 0.18
28 3 0.08
29 6 0.16
30 14 0.37
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (27 bp):
AATTATTATATTAATATTAAATATATA
Found at i:14384008 original size:19 final size:19
Alignment explanation
Indices: 14383986--14384028 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14383976 TTTATTAACA
*
14383986 TAATACTAAAT-TATTATAT
1 TAATACTAAATATA-TAAAT
*
14384005 TAATATTAAATATATAAAT
1 TAATACTAAATATATAAAT
14384024 TAATA
1 TAATA
14384029 TTAATCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATACTAAATATATAAAT
Found at i:14386652 original size:65 final size:64
Alignment explanation
Indices: 14386563--14386752 Score: 240
Period size: 65 Copynumber: 2.9 Consensus size: 64
14386553 TACAACTGGG
* * * *
14386563 GTGCATCGGTACACTAATTACATTCGATGTTTCAA-AAGAGCCAAGAGTGTATCGATGCATTGTC
1 GTGCATC-GTACACAAAATGCATTCGATGTTTCAATAA-AACCAAGAGTGTATCGATGCATTGTC
14386627 T
64 T
* *
14386628 GTGCATCAGTACACAAAATGCATTCGATGTTTTAATAAAACCAAGAGTGTATCGATGCATTGTTT
1 GTGCATC-GTACACAAAATGCATTCGATGTTTCAATAAAACCAAGAGTGTATCGATGCATTGTCT
* **
14386693 GTGCATCGACACACAAAATGCATTCGATGTTTTGATAAAA-CAAGGAGTGTATCGATGCAT
1 GTGCATCG-TACACAAAATGCATTCGATGTTTCAATAAAACCAA-GAGTGTATCGATGCAT
14386753 CAAAGAGTGT
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
64 4 0.04
65 107 0.95
66 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (64 bp):
GTGCATCGTACACAAAATGCATTCGATGTTTCAATAAAACCAAGAGTGTATCGATGCATTGTCT
Found at i:14387093 original size:15 final size:14
Alignment explanation
Indices: 14387073--14387110 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
14387063 TAAGATTTTC
*
14387073 TTTGAAAAATCATT
1 TTTGAAAAATCAAT
14387087 ATTTGAAAAA-CAAT
1 -TTTGAAAAATCAAT
14387101 TTTGAAAAAT
1 TTTGAAAAAT
14387111 TACTCCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 9 0.43
14 3 0.14
15 9 0.43
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (14 bp):
TTTGAAAAATCAAT
Found at i:14395230 original size:65 final size:64
Alignment explanation
Indices: 14395141--14395330 Score: 238
Period size: 65 Copynumber: 2.9 Consensus size: 64
14395131 TACACTTGGG
* * * * *
14395141 GTGCATCGGTACACTAATTACATTCGATGTTTCAA-AAGAGCCAGGAGTGTATCGATGCATTGTC
1 GTGCATCGGTACACAAAATGCATTCGATGTTTTAATAA-A-CAAGGAGTGTATCGATGCATTGTC
14395205 T
64 T
* * *
14395206 GTGCATCGGTACACAAAATGCATTCGATGTTTTAATAAAACTAGGAATGTATCGTTGCATTGTCT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTTAAT-AAACAAGGAGTGTATCGATGCATTGTCT
* * *
14395271 GTGCATCGATACACAAAATGAATTTGATGTTTTAATTAAACAAGGAGTGTATCGATGCAT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTTAA-TAAACAAGGAGTGTATCGATGCAT
14395331 CAAAGAGTGT
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
65 105 0.96
66 2 0.02
67 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTTAATAAACAAGGAGTGTATCGATGCATTGTCT
Found at i:14395723 original size:2 final size:2
Alignment explanation
Indices: 14395718--14395760 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14395708 TACATAATGT
14395718 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
14395760 T
1 T
14395761 CTTTTTTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14395814 original size:35 final size:37
Alignment explanation
Indices: 14395746--14395818 Score: 96
Period size: 35 Copynumber: 2.0 Consensus size: 37
14395736 TATATATATA
* * *
14395746 TATATATATATATATCTTTTTTCTTTTTCTTTTTTAT
1 TATATATATATATATATGTTTTCGTTTTCTTTTTTAT
*
14395783 TATATATATATAT-TATGTTTT-GTTTTGTTTTTTAT
1 TATATATATATATATATGTTTTCGTTTTCTTTTTTAT
14395818 T
1 T
14395819 TGTCTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 13 0.41
36 6 0.19
37 13 0.41
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (37 bp):
TATATATATATATATATGTTTTCGTTTTCTTTTTTAT
Found at i:14395922 original size:15 final size:15
Alignment explanation
Indices: 14395874--14395941 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
14395864 GTTTTTATTC
* *
14395874 TTTTTCTTTTTCTTA
1 TTTTTATTTATCTTA
* *
14395889 TTTTAATTT-GCTT-
1 TTTTTATTTATCTTA
14395902 TGTTTTATTTATCTTA
1 T-TTTTATTTATCTTA
14395918 TTTTTATTTTAT-TTA
1 TTTTTA-TTTATCTTA
14395933 TTTATTATT
1 TTT-TTATT
14395942 ATTGTTTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 1 0.02
14 10 0.23
15 23 0.53
16 9 0.21
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTTTATTTATCTTA
Found at i:14395940 original size:16 final size:16
Alignment explanation
Indices: 14395904--14395941 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
14395894 ATTTGCTTTG
14395904 TTTTA-TTTATCTTAT
1 TTTTATTTTATCTTAT
14395919 TTTTATTTTAT-TTAT
1 TTTTATTTTATCTTAT
14395934 TTATTATT
1 TT-TTATT
14395942 ATTGTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTTTATCTTAT
Found at i:14396498 original size:40 final size:40
Alignment explanation
Indices: 14396443--14396522 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
14396433 CTGCGATAGC
14396443 TTGGCGACGTAGTTGGGGATAAGTAAGTGAGTCAGGCTAA
1 TTGGCGACGTAGTTGGGGATAAGTAAGTGAGTCAGGCTAA
14396483 TTGGCGACGTAGTTGGGGATAAGTAAGTGAGTCAGGCTAA
1 TTGGCGACGTAGTTGGGGATAAGTAAGTGAGTCAGGCTAA
14396523 AATTTAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.10, G:0.38, T:0.25
Consensus pattern (40 bp):
TTGGCGACGTAGTTGGGGATAAGTAAGTGAGTCAGGCTAA
Found at i:14403035 original size:22 final size:21
Alignment explanation
Indices: 14403009--14403049 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
14402999 ATGAATGTAA
14403009 AAACATGGAAAATATAAAAAAT
1 AAACATGGAAAA-ATAAAAAAT
14403031 AAACATGGAAAAATAAAAA
1 AAACATGGAAAAATAAAAA
14403050 TACAAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AAACATGGAAAAATAAAAAAT
Found at i:14406429 original size:14 final size:14
Alignment explanation
Indices: 14406404--14406458 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
14406394 ACTAATCTAA
*
14406404 AAATAGAATAAAAT
1 AAATAAAATAAAAT
14406418 -AATAATAAT-AAAT
1 AAATAA-AATAAAAT
14406431 AAATAAAATAAAAAT
1 AAATAAAAT-AAAAT
14406446 AAGAT-AAATAAAA
1 AA-ATAAAATAAAA
14406459 CAAAGCAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.31
14 12 0.34
15 10 0.29
16 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:14406452 original size:27 final size:28
Alignment explanation
Indices: 14406404--14406457 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14406394 ACTAATCTAA
*
14406404 AAATAGAATAAAATAATAAT-AATAAAT
1 AAATAAAATAAAATAATAATAAATAAAT
*
14406431 AAATAAAATAAAAATAA-GATAAATAAA
1 AAATAAAAT-AAAATAATAATAAATAAA
14406458 ACAAAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (28 bp):
AAATAAAATAAAATAATAATAAATAAAT
Found at i:14410052 original size:7 final size:7
Alignment explanation
Indices: 14410028--14410090 Score: 76
Period size: 7 Copynumber: 8.7 Consensus size: 7
14410018 ACCCTAAATT
14410028 GAAAAAA
1 GAAAAAA
14410035 TGAAAAGAAA
1 -G-AAA-AAA
14410045 GAAAAAA
1 GAAAAAA
14410052 GAAAAAGA
1 GAAAAA-A
14410060 GAAAAAA
1 GAAAAAA
14410067 GAAAAAA
1 GAAAAAA
14410074 G-AAAAA
1 GAAAAAA
14410080 G-AAAAA
1 GAAAAAA
14410086 GAAAA
1 GAAAA
14410091 GAAAATAAGG
Statistics
Matches: 51, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.24
7 21 0.41
8 11 0.22
9 4 0.08
10 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:14410056 original size:6 final size:6
Alignment explanation
Indices: 14410037--14410095 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
14410027 TGAAAAAATG
* * *
14410037 AAAAGA AAGA-A AAAAGA AAAAGA GAAA-A AAGA-A AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
14410082 AAAAG- AAAAGA AAA
1 AAAAGA AAAAGA AAA
14410096 TAAGGTGGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 16 0.36
6 28 0.64
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:14410056 original size:22 final size:22
Alignment explanation
Indices: 14410030--14410095 Score: 89
Period size: 22 Copynumber: 2.9 Consensus size: 22
14410020 CCTAAATTGA
14410030 AAAAATGAAAAGAAAGAAAAAAG
1 AAAAA-GAAAAGAAAGAAAAAAG
14410053 AAAAAGAGAAA-AAAGAAAAAAG
1 AAAAAGA-AAAGAAAGAAAAAAG
14410075 AAAAAGAAAAAGAAAAGAAAA
1 AAAAAG-AAAAG-AAAGAAAA
14410096 TAAGGTGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
22 22 0.56
23 9 0.23
24 8 0.21
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAGAAAGAAAAAAG
Found at i:14412766 original size:2 final size:2
Alignment explanation
Indices: 14412759--14412791 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14412749 TATGTTTTAT
14412759 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14412792 TTCTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14412933 original size:3 final size:3
Alignment explanation
Indices: 14412925--14412966 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14412915 TTTATTTGTC
14412925 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14412967 ATTTTTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14413043 original size:14 final size:14
Alignment explanation
Indices: 14413022--14413059 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
14413012 TTTGCTTCGT
14413022 TTTA-TTTATGTTA
1 TTTATTTTATGTTA
*
14413035 TTTATTTTATTTTA
1 TTTATTTTATGTTA
14413049 TTTATTATTAT
1 TTTATT-TTAT
14413060 TTTTTCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTATTTTATGTTA
Found at i:14417980 original size:23 final size:21
Alignment explanation
Indices: 14417923--14417980 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
14417913 CTGACGTGGT
*
14417923 AGTTCATCAGTAGCTTCTAGA
1 AGTTCATCAGTAGCTTCCAGA
*
14417944 AGTTCCACTAAGTAGCTTCCAGA
1 AGTT-CA-TCAGTAGCTTCCAGA
14417967 AGGTTCAGTCAGTA
1 A-GTTCA-TCAGTA
14417981 ATTCTAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 4 0.13
22 2 0.07
23 21 0.70
24 3 0.10
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (21 bp):
AGTTCATCAGTAGCTTCCAGA
Found at i:14420534 original size:55 final size:55
Alignment explanation
Indices: 14420445--14420570 Score: 198
Period size: 55 Copynumber: 2.3 Consensus size: 55
14420435 TTTAGTAGGG
* * *
14420445 ATAAGTTTATGAATTTCCGTATGGGCACTATGTGTGCAAAACTATGAAATTCATA
1 ATAAGTTTATGAATTTCAGTATGGGAACTATGTGTGCAAAACTAAGAAATTCATA
* *
14420500 ATAAATTTATGAATTTCAGTATGGGAACTGTGTGTGCAAAACTAAGAAATTCATA
1 ATAAGTTTATGAATTTCAGTATGGGAACTATGTGTGCAAAACTAAGAAATTCATA
*
14420555 ATAAGTTAATGAATTT
1 ATAAGTTTATGAATTT
14420571 TCGTATTGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (55 bp):
ATAAGTTTATGAATTTCAGTATGGGAACTATGTGTGCAAAACTAAGAAATTCATA
Found at i:14420879 original size:45 final size:45
Alignment explanation
Indices: 14420830--14421130 Score: 476
Period size: 45 Copynumber: 6.7 Consensus size: 45
14420820 CTAATTGAGT
* *
14420830 TTAAAGGCATGAAATGATGTCATAAATGAAATGCATAACGGTGCA
1 TTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCA
* * *
14420875 TTAAAGGCATAAAAGGATGCCATAAATAAAATACATAACGGTGCA
1 TTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCA
* *
14420920 TTAAAGGTATGAAAGGATGCCATAAATGAAATGCATAATGGTGCA
1 TTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCA
* *
14420965 TTAAAGGCATGAAAGGATGTCATAAATGAAATGCATAATGGTGCA
1 TTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCA
*
14421010 TTAAATGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCA
1 TTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCA
* *
14421055 TTAAAGGCATGAAAGTATGCCATAAATGAAATGCATAATGGTGCA
1 TTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCA
* *
14421100 TTAAAGGCATGAAAGGGTGCCCTAAATGAAA
1 TTAAAGGCATGAAAGGATGCCATAAATGAAA
14421131 ATAATGAATA
Statistics
Matches: 235, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 235 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (45 bp):
TTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCA
Found at i:14421017 original size:19 final size:19
Alignment explanation
Indices: 14420948--14421019 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 19
14420938 GCCATAAATG
14420948 AAATGCATAATGGTGCATT
1 AAATGCATAATGGTGCATT
* *
14420967 AAAGGCATGAAAGGATGTCATAAAT
1 AAATGCAT-AATGG-TG-CAT---T
14420992 GAAATGCATAATGGTGCATT
1 -AAATGCATAATGGTGCATT
14421012 AAATGCAT
1 AAATGCAT
14421020 GAAAGGATGC
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
19 15 0.36
20 5 0.12
21 2 0.05
22 3 0.07
23 3 0.07
24 2 0.05
25 5 0.12
26 7 0.17
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (19 bp):
AAATGCATAATGGTGCATT
Found at i:14421043 original size:26 final size:26
Alignment explanation
Indices: 14421012--14421090 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
14421002 ATGGTGCATT
14421012 AAATGCATGAAAGGATGCCATAAATG
1 AAATGCATGAAAGGATGCCATAAATG
*
14421038 AAATGCAT-AACGG-TG-CAT---T-
1 AAATGCATGAAAGGATGCCATAAATG
* *
14421057 AAAGGCATGAAAGTATGCCATAAATG
1 AAATGCATGAAAGGATGCCATAAATG
14421083 AAATGCAT
1 AAATGCAT
14421091 AATGGTGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
19 7 0.17
20 4 0.10
21 2 0.05
22 3 0.07
23 3 0.07
24 2 0.05
25 5 0.12
26 15 0.37
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.22
Consensus pattern (26 bp):
AAATGCATGAAAGGATGCCATAAATG
Found at i:14421995 original size:12 final size:13
Alignment explanation
Indices: 14421944--14422012 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
14421934 GACCCTAAAA
*
14421944 ATAAAATAAATAAT
1 ATAATATAAAT-AT
*
14421958 ATAA-ACAAATAT
1 ATAATATAAATAT
* *
14421970 ATAATATCATTAT
1 ATAATATAAATAT
14421983 A-AATATAAATAT
1 ATAATATAAATAT
*
14421995 ACATAATATAAAAAT
1 --ATAATATAAATAT
14422010 ATA
1 ATA
14422013 TGTAATATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
12 15 0.34
13 14 0.32
14 5 0.11
15 10 0.23
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATATAAATAT
Found at i:14422063 original size:12 final size:12
Alignment explanation
Indices: 14421949--14422073 Score: 51
Period size: 12 Copynumber: 11.2 Consensus size: 12
14421939 TAAAAATAAA
14421949 ATAA-ATAATAT
1 ATAATATAATAT
*
14421960 A-AACA-AATAT
1 ATAATATAATAT
*
14421970 ATAATATCAT-T
1 ATAATATAATAT
14421981 ATAAATATAA-AT
1 AT-AATATAATAT
*
14421993 AT-ACATAATAT
1 ATAATATAATAT
*
14422004 A-AAAAT-ATAT
1 ATAATATAATAT
*
14422014 GTAATATAATACT
1 ATAATATAATA-T
* *
14422027 AT-ATAGT-GTAC
1 ATAATA-TAATAT
*
14422038 AT-A-AT-ATGT
1 ATAATATAATAT
14422047 ATAATATAATAT
1 ATAATATAATAT
*
14422059 ATAATATACTAT
1 ATAATATAATAT
14422071 ATA
1 ATA
14422074 TTATGATTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
9 4 0.05
10 19 0.22
11 23 0.27
12 36 0.42
13 3 0.04
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:14422071 original size:17 final size:17
Alignment explanation
Indices: 14421965--14422071 Score: 51
Period size: 17 Copynumber: 6.1 Consensus size: 17
14421955 AATATAAACA
*
14421965 AATATATAATATCATTAT
1 AATATATAATAT-ACTAT
14421983 AA-ATATAAATATAC-AT
1 AATATAT-AATATACTAT
* *
14421999 AATATAAAAATATA-TGT
1 AATAT-ATAATATACTAT
* *
14422016 AATATAATACTATATAGTGT
1 AATAT-ATA--ATATACTAT
* *
14422036 ACATA-ATATGTATAATAT
1 A-ATATATA-ATATACTAT
14422054 AATATATAATATACTAT
1 AATATATAATATACTAT
14422071 A
1 A
14422072 TATTATGATT
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
16 4 0.06
17 33 0.46
18 19 0.27
19 8 0.11
20 4 0.06
21 3 0.04
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (17 bp):
AATATATAATATACTAT
Found at i:14422115 original size:19 final size:19
Alignment explanation
Indices: 14422069--14422175 Score: 66
Period size: 19 Copynumber: 5.7 Consensus size: 19
14422059 ATAATATACT
*
14422069 ATATATTAT-GATTTTTAA
1 ATATATTATACATTTTTAA
*
14422087 AAACTA-TATACATTTTTAA
1 ATA-TATTATACATTTTTAA
* *
14422106 ATATATTATA-A-TATTAT
1 ATATATTATACATTTTTAA
14422123 ATATA-TATACATATTTTTAA
1 ATATATTATAC--ATTTTTAA
*
14422143 A-A-ATTATATATATTTTCAA
1 ATATATTATACAT-TTTT-AA
14422162 TATATATTATACAT
1 -ATATATTATACAT
14422176 ATATATTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 22
0.68 0.09 0.22
Matches are distributed among these distances:
16 4 0.06
17 11 0.16
18 13 0.19
19 24 0.36
20 6 0.09
21 1 0.01
22 8 0.12
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.50
Consensus pattern (19 bp):
ATATATTATACATTTTTAA
Found at i:14422139 original size:56 final size:60
Alignment explanation
Indices: 14422046--14422181 Score: 165
Period size: 56 Copynumber: 2.3 Consensus size: 60
14422036 ACATAATATG
* * *
14422046 TATAATATAATATATAATATACTATATATTATGATTTTTAAAAACTATATACATTTTTAA-A
1 TATATTATAATAT-T-ATATACTATATATCATGATTTTTAAAAACTATATACATTTTCAATA
* *
14422107 TATATTATAATATTATATA-TATATA-CAT-ATTTTTAAAAATTATATATATTTTCAATA
1 TATATTATAATATTATATACTATATATCATGATTTTTAAAAACTATATACATTTTCAATA
14422164 TATATTATACATA-TATAT
1 TATATTATA-ATATTATAT
14422182 TTTAAAATCT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
56 24 0.35
57 17 0.25
58 9 0.13
59 5 0.07
60 1 0.01
61 12 0.18
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (60 bp):
TATATTATAATATTATATACTATATATCATGATTTTTAAAAACTATATACATTTTCAATA
Found at i:14422156 original size:44 final size:44
Alignment explanation
Indices: 14422106--14422200 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
14422096 ACATTTTTAA
14422106 ATATATTATAATATTATATATATATACATAT-T-TTTAAAAAT-TAT
1 ATATATTATAA-A-TATATAT-TATACATATATATTTAAAAATCTAT
* * *
14422150 ATATATTTTCAATATATATTATACATATATATTTTAAAATCTAT
1 ATATATTATAAATATATATTATACATATATATTTAAAAATCTAT
14422194 ATATATT
1 ATATATT
14422201 TGTTATATGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
41 9 0.20
42 8 0.18
43 9 0.20
44 19 0.42
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (44 bp):
ATATATTATAAATATATATTATACATATATATTTAAAAATCTAT
Found at i:14422166 original size:13 final size:13
Alignment explanation
Indices: 14422148--14422185 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14422138 TTTAAAAATT
14422148 ATATATATTTT-C
1 ATATATATTTTAC
*
14422160 AATATATATTATAC
1 -ATATATATTTTAC
14422174 ATATATATTTTA
1 ATATATATTTTA
14422186 AAATCTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 21 0.95
14 1 0.05
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
ATATATATTTTAC
Found at i:14422201 original size:44 final size:42
Alignment explanation
Indices: 14422120--14422201 Score: 121
Period size: 44 Copynumber: 1.9 Consensus size: 42
14422110 ATTATAATAT
14422120 TATATATATATACATATTTTTAAAAATTATATATATTTTCAA
1 TATATATATATACATATTTTTAAAAATTATATATATTTTCAA
*
14422162 TATATAT-TATACATATATATTTTAAAATCTATATATATTT
1 TATATATATATACATAT-T-TTTAAAAAT-TATATATATTT
14422202 GTTATATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 9 0.25
42 8 0.22
43 8 0.22
44 11 0.31
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (42 bp):
TATATATATATACATATTTTTAAAAATTATATATATTTTCAA
Found at i:14422208 original size:42 final size:39
Alignment explanation
Indices: 14422091--14422208 Score: 109
Period size: 44 Copynumber: 3.0 Consensus size: 39
14422081 TTTTAAAAAC
* * *
14422091 TATATAC--ATTTTTAAATA-TAT-TATAATATTATATA
1 TATATACATATTTTTAAAAATTATATATATTTTTATATA
*
14422126 TATATACATATTTTTAAAAATTATATATATTTTCAATATA
1 TATATACATATTTTTAAAAATTATATATATTTT-TATATA
*
14422166 TATTATACATATATATTTTAAAATCTATATATATTTGTTATAT
1 TA-TATACATAT-T-TTTAAAAAT-TATATATATTT-TTATAT
14422209 GTACTATATA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
35 7 0.10
37 10 0.15
38 3 0.04
39 6 0.09
40 7 0.10
41 9 0.13
42 1 0.01
43 8 0.12
44 15 0.22
45 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (39 bp):
TATATACATATTTTTAAAAATTATATATATTTTTATATA
Found at i:14424318 original size:4 final size:4
Alignment explanation
Indices: 14424309--14425325 Score: 1992
Period size: 4 Copynumber: 255.8 Consensus size: 4
14424299 ACTTAAACCA
14424309 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424357 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424405 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424453 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424501 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424549 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424597 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424645 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424693 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424741 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424789 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424837 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424885 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424931 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14424979 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14425027 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14425075 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14425121 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14425169 ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14425215 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14425263 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
14425311 ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATG
14425326 AAGTTACTGT
Statistics
Matches: 1007, Mismatches: 0, Indels: 12
0.99 0.00 0.01
Matches are distributed among these distances:
2 6 0.01
4 1001 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:14430176 original size:29 final size:30
Alignment explanation
Indices: 14430120--14430184 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
14430110 GGCCAAATTT
14430120 TAATATTTCAAAAGTTAAGGGACCTATT-TGG
1 TAAT-TTTCAAAAGTTAAGGGACCTATTGT-G
* * *
14430151 TAATTTTGAAAAGTTATGGG-CTTATTGTG
1 TAATTTTCAAAAGTTAAGGGACCTATTGTG
14430180 TAATT
1 TAATT
14430185 ACTCAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 11 0.37
30 15 0.50
31 4 0.13
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (30 bp):
TAATTTTCAAAAGTTAAGGGACCTATTGTG
Found at i:14438725 original size:16 final size:16
Alignment explanation
Indices: 14438699--14438740 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14438689 TAATGATATT
* *
14438699 AAATAACAAAAGGACT
1 AAATAATAAAAGGACA
*
14438715 AAATCATAAAAGGACA
1 AAATAATAAAAGGACA
14438731 AAATAATAAA
1 AAATAATAAA
14438741 GCATAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.14
Consensus pattern (16 bp):
AAATAATAAAAGGACA
Found at i:14440615 original size:2 final size:2
Alignment explanation
Indices: 14440610--14440662 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
14440600 GCGCGCGCGC
14440610 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
14440652 AT AT AT AT AT A
1 AT AT AT AT AT A
14440663 GAACTTAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14441788 original size:15 final size:15
Alignment explanation
Indices: 14441746--14441792 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14441736 GCCTCCACTG
14441746 CCACCTCCTCCTCCA
1 CCACCTCCTCCTCCA
* * *
14441761 CCTCTTCCCCCTCCA
1 CCACCTCCTCCTCCA
*
14441776 CCACCACCTCCTCCA
1 CCACCTCCTCCTCCA
14441791 CC
1 CC
14441793 CTTACCACCA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.13, C:0.68, G:0.00, T:0.19
Consensus pattern (15 bp):
CCACCTCCTCCTCCA
Found at i:14441799 original size:21 final size:21
Alignment explanation
Indices: 14441749--14441807 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
14441739 TCCACTGCCA
* * *
14441749 CCTCCTCCTCCACCTCTTCCC
1 CCTCCACCACCACCTCCTCCC
14441770 CCTCCACCACCACCTCCTCCAC
1 CCTCCACCACCACCTCCTCC-C
14441792 CCTTACCACCACCACC
1 CC-T-CCACCACCACC
14441808 ACTTCCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.53
22 3 0.09
23 1 0.03
24 11 0.34
ACGTcount: A:0.15, C:0.66, G:0.00, T:0.19
Consensus pattern (21 bp):
CCTCCACCACCACCTCCTCCC
Found at i:14441907 original size:24 final size:24
Alignment explanation
Indices: 14441864--14441909 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14441854 CCGCCACCAC
* *
14441864 CACCACCACCTCTCCTACCTCCTT
1 CACCACCACCTATCCCACCTCCTT
*
14441888 CACCACCTCCTATCCCACCTCC
1 CACCACCACCTATCCCACCTCC
14441910 AGATCCATAC
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:0.17, C:0.61, G:0.00, T:0.22
Consensus pattern (24 bp):
CACCACCACCTATCCCACCTCCTT
Found at i:14442082 original size:18 final size:18
Alignment explanation
Indices: 14442059--14442095 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14442049 AAACCATTAG
*
14442059 CACCACCACCACTTCCTC
1 CACCACCACCACCTCCTC
14442077 CACCACCACCACCTCCTC
1 CACCACCACCACCTCCTC
14442095 C
1 C
14442096 TATTCCTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.65, G:0.00, T:0.14
Consensus pattern (18 bp):
CACCACCACCACCTCCTC
Found at i:14444256 original size:29 final size:29
Alignment explanation
Indices: 14444217--14444281 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
14444207 AATTGAAATG
* * * *
14444217 GACTAAGATATAATTCCATGTAGAAACAT
1 GACTGAGATATAATCCCATGCAAAAACAT
14444246 GACTGAGATATAATCCCATGCAAAAACAT
1 GACTGAGATATAATCCCATGCAAAAACAT
14444275 GAC-GAGA
1 GACTGAGA
14444282 ATGTTATCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.22
Consensus pattern (29 bp):
GACTGAGATATAATCCCATGCAAAAACAT
Found at i:14445555 original size:12 final size:12
Alignment explanation
Indices: 14445538--14445572 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14445528 AGGTTATTAG
*
14445538 GTCAAAATCGAA
1 GTCAAAATCAAA
14445550 GTCAAAATCAAA
1 GTCAAAATCAAA
*
14445562 GTCAAAGTCAA
1 GTCAAAATCAA
14445573 CGATCAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (12 bp):
GTCAAAATCAAA
Found at i:14449503 original size:6 final size:6
Alignment explanation
Indices: 14449488--14449518 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14449478 TGGGAGGGGG
*
14449488 GAGGGA GAGGGT GAGGGT GAGGGT GAGGGT G
1 GAGGGT GAGGGT GAGGGT GAGGGT GAGGGT G
14449519 GGATGGGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.68, T:0.13
Consensus pattern (6 bp):
GAGGGT
Found at i:14449654 original size:31 final size:30
Alignment explanation
Indices: 14449586--14449642 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
14449576 TAAATATTAT
* *
14449586 ATATCATAATTAAATATTAATAAAAAATAC
1 ATATCATCATTAAATAATAATAAAAAATAC
*
14449616 ATATCATCATTATATAATAATAAAAAA
1 ATATCATCATTAAATAATAATAAAAAA
14449643 ATCCATGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (30 bp):
ATATCATCATTAAATAATAATAAAAAATAC
Found at i:14449855 original size:16 final size:16
Alignment explanation
Indices: 14449828--14449866 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
14449818 TCTTTAAAGG
14449828 GAAT-TATTTTTTTTT
1 GAATCTATTTTTTTTT
14449843 -AATCTATTTTTTTTT
1 GAATCTATTTTTTTTT
14449858 GAATCTATT
1 GAATCTATT
14449867 AAAGGGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 11 0.50
16 8 0.36
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (16 bp):
GAATCTATTTTTTTTT
Found at i:14449877 original size:26 final size:27
Alignment explanation
Indices: 14449848--14449904 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
14449838 TTTTTAATCT
*
14449848 ATTTTTTTTTGAA-TCTATTAAAGGGA
1 ATTTTTTTTTGAAGACTATTAAAGGGA
14449874 ATTTTTTTTTGAAGGACTATTAAAGGGA
1 ATTTTTTTTTGAA-GACTATTAAAGGGA
14449902 ATT
1 ATT
14449905 AAAATGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 13 0.46
28 15 0.54
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.47
Consensus pattern (27 bp):
ATTTTTTTTTGAAGACTATTAAAGGGA
Found at i:14450093 original size:13 final size:13
Alignment explanation
Indices: 14450062--14450103 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
14450052 ACTTGGGTAC
* *
14450062 AATAAAAAAGAAA
1 AATAATAAATAAA
14450075 AA-AATAAATAAA
1 AATAATAAATAAA
14450087 AATAATAAATAATA
1 AATAATAAATAA-A
14450101 AAT
1 AAT
14450104 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 10 0.40
13 11 0.44
14 4 0.16
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AATAATAAATAAA
Found at i:14450283 original size:28 final size:26
Alignment explanation
Indices: 14450216--14450285 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
14450206 GAAACTGAGG
14450216 AAAATGATTAAACTAAAATAAAATTAAAT
1 AAAAT-ATTAAA-T-AAATAAAATTAAAT
* * *
14450245 AACACAATAAATAAATGAAAATTATAAT
1 AAAATATTAAATAAAT-AAAATTA-AAT
14450273 AAAATATTAAATA
1 AAAATATTAAATA
14450286 TAACAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
26 4 0.12
27 8 0.24
28 18 0.55
29 3 0.09
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (26 bp):
AAAATATTAAATAAATAAAATTAAAT
Found at i:14451212 original size:54 final size:53
Alignment explanation
Indices: 14451148--14451429 Score: 350
Period size: 54 Copynumber: 5.2 Consensus size: 53
14451138 TTTGTTGAGA
* * * *
14451148 TGCACACATAGTGTCAATACGGTCCTTCATCAACATATGATAAATTATGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TGTGGGT
* * *
14451202 TGCACACATAGTGCCTATACGATCGTTCATCAATATATGATGAATTCCT-TAGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATT--TGTGGGT
* * *
14451256 TGCACACATAGTGCCTATACAGTCATTCATCAATATATGATGAATTTCGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTT-GTGGGT
*
14451310 TGCACACATAGTGCCTATACAGTCGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTT-GTGGGT
* * * * * *
14451364 TGCACACATAGTGCTTGTACGATCGTTCATTAACATATGATGAACTTCGTGGCT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAA-TTTGTGGGT
14451418 TGCACACATAGT
1 TGCACACATAGT
14451430 TTCTATAGTA
Statistics
Matches: 203, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
52 1 0.00
54 199 0.98
55 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (53 bp):
TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTGTGGGT
Found at i:14451372 original size:27 final size:27
Alignment explanation
Indices: 14451290--14451373 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
14451280 ATTCATCAAT
14451290 ATATGATGAATTTCGTGGGTTGCACAC
1 ATATGATGAATTTCGTGGGTTGCACAC
** * *
14451317 ATA-G-TGCCTATACAGT-CGTT-CATCAAC
1 ATATGATGAAT-TTC-GTGGGTTGCA-C-AC
14451344 ATATGATGAATTTCGTGGGTTGCACAC
1 ATATGATGAATTTCGTGGGTTGCACAC
14451371 ATA
1 ATA
14451374 GTGCTTGTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
25 5 0.12
26 7 0.17
27 17 0.41
28 7 0.17
29 5 0.12
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (27 bp):
ATATGATGAATTTCGTGGGTTGCACAC
Found at i:14452016 original size:18 final size:18
Alignment explanation
Indices: 14451970--14452016 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
14451960 CCTTCCTCGT
*
14451970 AGTATCGATACCCACATC
1 AGTATCGATATCCACATC
14451988 AGTATCGATATCCACATC
1 AGTATCGATATCCACATC
14452006 AGTATCGATAT
1 AGTATCGATAT
14452017 TAATTGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (18 bp):
AGTATCGATATCCACATC
Found at i:14458016 original size:54 final size:54
Alignment explanation
Indices: 14457932--14458320 Score: 443
Period size: 54 Copynumber: 7.2 Consensus size: 54
14457922 TTCGTTGAGA
* * * *
14457932 TGCACACGTAGTGCCAATAC-GATCG-TCATCAACATATTATAAATTTCTTGGGT
1 TGCACACATAGTGCCTATACAG-TCGTTCATCAACATATGATGAATTTCTTGGGT
* * * *
14457985 TGCATACATACTGCTTAAAC-GCTCGTTCATCAACATATGATGAA-TTCTATGGGT
1 TGCACACATAGTGCCTATACAG-TCGTTCATCAACATATGATGAATTTCT-TGGGT
** *
14458039 TGCACACATAACGCCTATACAGTCGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACATAGTGCCTATACAGTCGTTCATCAACATATGATGAATTTCTTGGGT
* * *
14458093 TGCACACATAGTGCCTATACAGTCGTTCATCAACATATGTTAAATTTCGTGGGT
1 TGCACACATAGTGCCTATACAGTCGTTCATCAACATATGATGAATTTCTTGGGT
* *
14458147 TGCACACATAGTGCCGATAC-GTTTGTTCATCAACATATGATGAATTT-TGTGGGT
1 TGCACACATAGTGCCTATACAG-TCGTTCATCAACATATGATGAATTTCT-TGGGT
* * * *
14458201 TGTACACATAGTTCCTATACAGTCGTCCATCAACATATAAT-AATTT-TGTGGGT
1 TGCACACATAGTGCCTATACAGTCGTTCATCAACATATGATGAATTTCT-TGGGT
* * * *
14458254 TGTACAGATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACATAGTGCCTATACAGTCGTTCATCAACATATGATGAATTTCTTGGGT
*
14458308 TGCAGACATAGTG
1 TGCACACATAGTG
14458321 TTTATAGTAC
Statistics
Matches: 288, Mismatches: 39, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
53 71 0.25
54 212 0.74
55 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTATACAGTCGTTCATCAACATATGATGAATTTCTTGGGT
Found at i:14458187 original size:162 final size:160
Alignment explanation
Indices: 14457932--14458320 Score: 503
Period size: 162 Copynumber: 2.4 Consensus size: 160
14457922 TTCGTTGAGA
* * * *
14457932 TGCACACGTAGTGCCAATACGATCG-TCATCAACATAT-TATAAATTTCTTGGGTTGCATACATA
1 TGCACACATAGTGCCTATACG-TCGTTCATCAACATATGT-TAAATTTCGTGGGTTGCACACATA
* **
14457995 CTGCTTAAACGCTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAACGCCTATACA
64 GTGCCGAAACGCTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAACGCCTATACA
* *
14458060 GTCGTTCATCAACATATGATGAATTTCGTGGGT
129 GTCGTCCATCAACATATAAT-AATTTCGTGGGT
14458093 TGCACACATAGTGCCTATACAGTCGTTCATCAACATATGTTAAATTTCGTGGGTTGCACACATAG
1 TGCACACATAGTGCCTATAC-GTCGTTCATCAACATATGTTAAATTTCGTGGGTTGCACACATAG
* * * * * * ***
14458158 TGCCGATACGTTTGTTCATCAACATATGATGAATTTTGTGGGTTGTACACATAGTTCCTATACAG
65 TGCCGAAACGCTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAACGCCTATACAG
*
14458223 TCGTCCATCAACATATAATAATTTTGTGGGT
130 TCGTCCATCAACATATAATAATTTCGTGGGT
* * * * *
14458254 TGTACAGATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGCAGACATAG
1 TGCACACATAGTGCCTATAC-GTCGTTCATCAACATATGTTAAATTTCGTGGGTTGCACACATAG
14458319 TG
65 TG
14458321 TTTATAGTAC
Statistics
Matches: 200, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
161 93 0.47
162 106 0.53
163 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (160 bp):
TGCACACATAGTGCCTATACGTCGTTCATCAACATATGTTAAATTTCGTGGGTTGCACACATAGT
GCCGAAACGCTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAACGCCTATACAGT
CGTCCATCAACATATAATAATTTCGTGGGT
Found at i:14461939 original size:20 final size:20
Alignment explanation
Indices: 14461897--14461940 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
14461887 CCAAAGGTAG
* *
14461897 GTATCGATACTCAAGGGTGA
1 GTATCGATACTAAAGGGTCA
*
14461917 GTATCGATACTAAAGGTTCA
1 GTATCGATACTAAAGGGTCA
14461937 GTAT
1 GTAT
14461941 TGGTACCAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (20 bp):
GTATCGATACTAAAGGGTCA
Found at i:14468954 original size:207 final size:206
Alignment explanation
Indices: 14468599--14469015 Score: 755
Period size: 207 Copynumber: 2.0 Consensus size: 206
14468589 GACAGTTTTG
*
14468599 GATAAGTAATCCAATGGTTAAAGGATTATACTTGAGGGGCCTAATAACATCAGAATATGAGCAAA
1 GATAAGTAATCCAATGGTTAAAGGATTATACTTGAGGGGCCCAATAACATCAGAATATGAGCAAA
14468664 TAAAACTACAAGTGAGAATAGTAATAAACTTAGAATAGTTAGAAACTACAACAGTTAGGACGACA
66 TAAAACTACAAGTGAGAATAGTAATAAACTTAGAATAGTTAGAAACTACAACAGTTAGGACGACA
* *
14468729 TAAAACTAGCCTTGTTTGATGCTTGGGACACAGTCGATGG-CTCTTGAGTTATTTTAGCATATAC
131 TAAAACTAGCCTTGTTTGATGCTTGGGACACAGTCG--GGACCCTTGAGTTACTTTAGCATATAC
*
14468793 GATTATCCAGTTT
194 GATTATCCAGTCT
14468806 GATAAGTAATCCAATGGTTAAAGGATTATACTTGAGGGGCCCAATAACATCAGAATATGAGCAAA
1 GATAAGTAATCCAATGGTTAAAGGATTATACTTGAGGGGCCCAATAACATCAGAATATGAGCAAA
14468871 TAAAACTACAAGTGAGAATAGTAATAAACTTAGAATAGTTAGAAACTACAACAGTTAGGACGACA
66 TAAAACTACAAGTGAGAATAGTAATAAACTTAGAATAGTTAGAAACTACAACAGTTAGGACGACA
*
14468936 TAAAACTAGCCTTGTTTGATTCTTGGGACACAGTCGGGACCCTTGAGTTACTTTAGCATATACGA
131 TAAAACTAGCCTTGTTTGATGCTTGGGACACAGTCGGGACCCTTGAGTTACTTTAGCATATACGA
*
14469001 TTGTCCAGTCT
196 TTATCCAGTCT
14469012 GATA
1 GATA
14469016 TCCCCGTCAA
Statistics
Matches: 203, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
205 2 0.01
206 37 0.18
207 164 0.81
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (206 bp):
GATAAGTAATCCAATGGTTAAAGGATTATACTTGAGGGGCCCAATAACATCAGAATATGAGCAAA
TAAAACTACAAGTGAGAATAGTAATAAACTTAGAATAGTTAGAAACTACAACAGTTAGGACGACA
TAAAACTAGCCTTGTTTGATGCTTGGGACACAGTCGGGACCCTTGAGTTACTTTAGCATATACGA
TTATCCAGTCT
Found at i:14469718 original size:24 final size:26
Alignment explanation
Indices: 14469691--14469739 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
14469681 GACTGGATTA
* *
14469691 GAATGTTACAATTGG-A-AGAATATG
1 GAATGTCACAACTGGCATAGAATATG
14469715 GAATGTCACAACTGGCATAGAATAT
1 GAATGTCACAACTGGCATAGAATAT
14469740 TCGTGCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 1 0.05
26 7 0.33
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (26 bp):
GAATGTCACAACTGGCATAGAATATG
Found at i:14470197 original size:14 final size:15
Alignment explanation
Indices: 14470175--14470207 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14470165 CAATCCTACG
14470175 TTTTAGGTTTTCC-A
1 TTTTAGGTTTTCCAA
*
14470189 TTTTTGGTTTTCCAA
1 TTTTAGGTTTTCCAA
14470204 TTTT
1 TTTT
14470208 CTTGCTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (15 bp):
TTTTAGGTTTTCCAA
Found at i:14481891 original size:29 final size:29
Alignment explanation
Indices: 14481859--14481981 Score: 77
Period size: 29 Copynumber: 4.2 Consensus size: 29
14481849 GTATAGTTTA
* * *
14481859 ATGCATAAATAGGAAGAATATATAATCCC
1 ATGCAGAAACAGGAAGAAGATATAATCCC
* **
14481888 ATGCAGAAACAGGACGGGGATATAATCCC
1 ATGCAGAAACAGGAAGAAGATATAATCCC
* * * *
14481917 ATGC-GAAATCAAGACGATGATATAATCCT
1 ATGCAGAAA-CAGGAAGAAGATATAATCCC
* * * * * * *
14481946 ATTCAAAAATAAGACGATGATATAATCTC
1 ATGCAGAAACAGGAAGAAGATATAATCCC
14481975 ATGCAGA
1 ATGCAGA
14481982 GATAAGATGA
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
28 4 0.05
29 68 0.91
30 3 0.04
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (29 bp):
ATGCAGAAACAGGAAGAAGATATAATCCC
Found at i:14481986 original size:29 final size:29
Alignment explanation
Indices: 14481878--14482014 Score: 134
Period size: 29 Copynumber: 4.7 Consensus size: 29
14481868 TAGGAAGAAT
* * **
14481878 ATATAATCCCATGCAGAAACAGGACGGGG
1 ATATAATCCCATGCAGAAATAAGACGATG
14481907 ATATAATCCCATGC-GAAATCAAGACGATG
1 ATATAATCCCATGCAGAAAT-AAGACGATG
* * *
14481936 ATATAATCCTATTCAAAAATAAGACGATG
1 ATATAATCCCATGCAGAAATAAGACGATG
* * *
14481965 ATATAATCTCATGCAGAGATAAGATGA-G
1 ATATAATCCCATGCAGAAATAAGACGATG
* *
14481993 AGTATAATTCCATGCAAAAATA
1 A-TATAATCCCATGCAGAAATA
14482015 GGATGAGATG
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
28 6 0.07
29 78 0.89
30 4 0.05
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.23
Consensus pattern (29 bp):
ATATAATCCCATGCAGAAATAAGACGATG
Found at i:14484847 original size:14 final size:14
Alignment explanation
Indices: 14484828--14484874 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
14484818 TTTTTATGTT
14484828 TATAAATTGTAATC
1 TATAAATTGTAATC
* *
14484842 TATAAA-TAT-ATT
1 TATAAATTGTAATC
14484854 TATAAATTGTAATC
1 TATAAATTGTAATC
14484868 TATAAAT
1 TATAAAT
14484875 ATATTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 8 0.30
13 4 0.15
14 15 0.56
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (14 bp):
TATAAATTGTAATC
Found at i:14484857 original size:26 final size:26
Alignment explanation
Indices: 14484826--14484879 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
14484816 ACTTTTTATG
14484826 TTTATAAATTGTAATCTATAAATATA
1 TTTATAAATTGTAATCTATAAATATA
14484852 TTTATAAATTGTAATCTATAAATATA
1 TTTATAAATTGTAATCTATAAATATA
14484878 TT
1 TT
14484880 AAAAAGTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (26 bp):
TTTATAAATTGTAATCTATAAATATA
Found at i:14487400 original size:51 final size:51
Alignment explanation
Indices: 14487324--14487427 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
14487314 TTGAATCTTC
*
14487324 TTTGATGGCCATGAGACATAGGTTGGCAACTTCATCTTCATTATTGGAGTT
1 TTTGATGGCCATGAGACATAGGTTGGCAACTTCATCTTCATTATTCGAGTT
14487375 TTTGATGGCCATGAGACATAGGTTGGCAACTTCATCTTCATTATTCGAGTT
1 TTTGATGGCCATGAGACATAGGTTGGCAACTTCATCTTCATTATTCGAGTT
14487426 TT
1 TT
14487428 CTTTATCACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (51 bp):
TTTGATGGCCATGAGACATAGGTTGGCAACTTCATCTTCATTATTCGAGTT
Found at i:14488727 original size:21 final size:22
Alignment explanation
Indices: 14488687--14488729 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14488677 ATTTAAAAAT
14488687 ATTAAAGGAAGTACATATACTC
1 ATTAAAGGAAGTACATATACTC
14488709 ATTAAAGG-AGTACCA-ATACTC
1 ATTAAAGGAAGTA-CATATACTC
14488730 CCTGTCCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (22 bp):
ATTAAAGGAAGTACATATACTC
Found at i:14490570 original size:20 final size:20
Alignment explanation
Indices: 14490545--14490587 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
14490535 TTTTCTCTTG
*
14490545 AAAGAAAAATTG-GATTTTGA
1 AAAGAAAAA-TGAAATTTTGA
14490565 AAAGAAAAATGAAATTTTGA
1 AAAGAAAAATGAAATTTTGA
14490585 AAA
1 AAA
14490588 ATGATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAGAAAAATGAAATTTTGA
Found at i:14491952 original size:178 final size:178
Alignment explanation
Indices: 14491719--14492055 Score: 593
Period size: 178 Copynumber: 1.9 Consensus size: 178
14491709 TTAAGGTTGC
* *
14491719 CAAAAACAATTTTTCAAATGTTTTGTTATATCAAAAAGGGGGAGATTGTTGAACCATGTTTTATA
1 CAAAAACAATTTTTCAAATGTTTTGTTATATAAAAAAGGGGGAGATTGTTGAACCATGTATTATA
*
14491784 ATATTTTGATATAACAAATTAAGGCAAAATATTTTGGGACTTGATTGAATTTATTCAAAGTTTTC
66 ATATTTTGATATAACAAATTAAGACAAAATATTTTGGGACTTGATTGAATTTATTCAAAGTTTTC
14491849 AAAAATAATTCAAACTCCATTAACCTTGATTTTTAGGGAGAGTTTTGT
131 AAAAATAATTCAAACTCCATTAACCTTGATTTTTAGGGAGAGTTTTGT
* *
14491897 CAAAAATAATTTTTCAAATGTTTTGTTATATAAAAAATGGGGAGATTGTTGAACCATGTATTATA
1 CAAAAACAATTTTTCAAATGTTTTGTTATATAAAAAAGGGGGAGATTGTTGAACCATGTATTATA
* * *
14491962 ATATTTTGATATAACAAATTAAGACAAAATGTTTTTGGACTTGATTGAATTTGTTCAAAGTTTTC
66 ATATTTTGATATAACAAATTAAGACAAAATATTTTGGGACTTGATTGAATTTATTCAAAGTTTTC
*
14492027 AAAAATAATTCAAAGTCCATTAACCTTGA
131 AAAAATAATTCAAACTCCATTAACCTTGA
14492056 GTTTGATCAC
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
178 150 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (178 bp):
CAAAAACAATTTTTCAAATGTTTTGTTATATAAAAAAGGGGGAGATTGTTGAACCATGTATTATA
ATATTTTGATATAACAAATTAAGACAAAATATTTTGGGACTTGATTGAATTTATTCAAAGTTTTC
AAAAATAATTCAAACTCCATTAACCTTGATTTTTAGGGAGAGTTTTGT
Found at i:14494387 original size:2 final size:2
Alignment explanation
Indices: 14494380--14494408 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14494370 TAAAACTTTA
14494380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14494409 AACATGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14497007 original size:20 final size:20
Alignment explanation
Indices: 14496982--14497032 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
14496972 TGGAGCGTGG
14496982 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
14497002 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
14497022 GGGGAATCGGT
1 GGGGAATCGGT
14497033 TCCCTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTAT
Found at i:14499893 original size:20 final size:21
Alignment explanation
Indices: 14499847--14499907 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
14499837 CCTGTGGGGG
14499847 GGGGGAATCGGTTCCCATTCAAA
1 GGGGGAATCGGTTCCC--TCAAA
14499870 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
14499890 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
14499908 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
23 16 0.44
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:14506657 original size:54 final size:54
Alignment explanation
Indices: 14506589--14506832 Score: 247
Period size: 54 Copynumber: 4.5 Consensus size: 54
14506579 ATTTCTTTAT
* * * * * ** * *
14506589 AATGCACCCGTAGTGCCCATACGGTTATTCATAAACATATTATTAATTCCATGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATACACATAGGATGAATTCCGTGA
** ** *
14506643 AATGCACACTTAGTGTTGAAACTATTATTCA-ACCACATAGGATGAATTTCGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATA-CACATAGGATGAATTCCGTGA
* * *
14506697 AATGCACACTTATTGCCGAAACGGTTATTCATCCATATAGGATGAATTCCGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATACACATAGGATGAATTCCGTGA
** * * *
14506751 AATGCACACTTAGTTTCGAAATGGTTATTCATCCACATAGGATGAATTTCGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATACACATAGGATGAATTCCGTGA
* * *
14506805 AATGCAAACTTAGTGTCGAAACAGTTAT
1 AATGCACACTTAGTGCCGAAACGGTTAT
14506833 AAAATGCACA
Statistics
Matches: 156, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
53 1 0.01
54 155 0.99
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (54 bp):
AATGCACACTTAGTGCCGAAACGGTTATTCATACACATAGGATGAATTCCGTGA
Found at i:14506779 original size:108 final size:108
Alignment explanation
Indices: 14506633--14506832 Score: 305
Period size: 108 Copynumber: 1.9 Consensus size: 108
14506623 ACATATTATT
14506633 AATTCCATGAAATGCACACTTAGTGTTGAAACTATTATTCAACCACATAGGATGAATTTCGTGAA
1 AATTCCATGAAATGCACACTTAGTGTTGAAACTATTATTCAACCACATAGGATGAATTTCGTGAA
* * *
14506698 ATGCACACTTATTGCCGAAACGGTTATTCATCCATATAGGATG
66 ATGCAAACTTAGTGCCGAAACAGTTATTCATCCATATAGGATG
* * *
14506741 AATTCCGTGAAATGCACACTTAGT-TTCGAAA-TGGTTATTCATCCACATAGGATGAATTTCGTG
1 AATTCCATGAAATGCACACTTAGTGTT-GAAACT-ATTATTCAACCACATAGGATGAATTTCGTG
*
14506804 AAATGCAAACTTAGTGTCGAAACAGTTAT
64 AAATGCAAACTTAGTGCCGAAACAGTTAT
14506833 AAAATGCACA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 80 0.96
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (108 bp):
AATTCCATGAAATGCACACTTAGTGTTGAAACTATTATTCAACCACATAGGATGAATTTCGTGAA
ATGCAAACTTAGTGCCGAAACAGTTATTCATCCATATAGGATG
Found at i:14506891 original size:84 final size:84
Alignment explanation
Indices: 14506750--14506916 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
14506740 GAATTCCGTG
* ** * * *
14506750 AAATGCACACTTAGTTTCGAAATGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCAAACT
1 AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGGATGAATTTCGTGAAATGCAAACT
*
14506815 TAGTGTCGAAACAGTTATA
66 TAGTGCCGAAACAGTTATA
* *
14506834 AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGTATGAATTAT-GTGAAATGCACAC
1 AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGGATGAATT-TCGTGAAATGCAAAC
*
14506898 TTAGTGCCGAAACGGTTAT
65 TTAGTGCCGAAACAGTTAT
14506917 TCATCCACTT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 71 0.99
85 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (84 bp):
AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGGATGAATTTCGTGAAATGCAAACT
TAGTGCCGAAACAGTTATA
Done.