Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 78 of 187
Found at i:22845653 original size:105 final size:107
Alignment explanation
Indices: 22845530--22845727 Score: 301
Period size: 107 Copynumber: 1.9 Consensus size: 107
22845520 TGAAATTCAA
* *
22845530 AAGGATATTTGACTATTTGGTTAAAC-GAGAAATCGAAACCCAACACATTAGGGCACG-TTCCTC
1 AAGGATATTCGACTATTTGGTTAAACGGAAAAATCGAAACCCAACACATTAGGGCACGTTTCCTC
* *
22845593 GAATTTCCAAACGTAAAACATTGCCTTATTTGAAATTTTTGG
66 GAATTTCCAAACGCAAAACATTACCTTATTTGAAATTTTTGG
* * *
22845635 AAGGATATTCGACTATTTGGTTGAACGTGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
1 AAGGATATTCGACTATTTGGTTAAACG-GAAAAATCGAAACCCAACACATTAGGGCACGTTTCCT
*
22845700 CGAATTTCCAAACGCAAAATATTACCTT
65 CGAATTTCCAAACGCAAAACATTACCTT
22845728 TATTATTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 24 0.29
107 29 0.35
108 29 0.35
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (107 bp):
AAGGATATTCGACTATTTGGTTAAACGGAAAAATCGAAACCCAACACATTAGGGCACGTTTCCTC
GAATTTCCAAACGCAAAACATTACCTTATTTGAAATTTTTGG
Found at i:22846560 original size:3 final size:3
Alignment explanation
Indices: 22846516--22846540 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22846506 CAAGATATAG
22846516 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
22846541 CTTATTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22847280 original size:13 final size:13
Alignment explanation
Indices: 22847262--22847286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22847252 TAAAAAGGGT
22847262 ATAAAACAAAATG
1 ATAAAACAAAATG
22847275 ATAAAACAAAAT
1 ATAAAACAAAAT
22847287 AAAATGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16
Consensus pattern (13 bp):
ATAAAACAAAATG
Found at i:22847732 original size:27 final size:28
Alignment explanation
Indices: 22847697--22847751 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
22847687 GTTTTGGGCC
*
22847697 TGTTGGGTATTTGGGCTT-GGTT-TAATT
1 TGTTAGGTA-TTGGGCTTGGGTTGTAATT
*
22847724 TGTTAGGTATTGGGTTTGGGTTGTAATT
1 TGTTAGGTATTGGGCTTGGGTTGTAATT
22847752 GGGTTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.13, C:0.02, G:0.35, T:0.51
Consensus pattern (28 bp):
TGTTAGGTATTGGGCTTGGGTTGTAATT
Found at i:22848114 original size:44 final size:45
Alignment explanation
Indices: 22848064--22848664 Score: 141
Period size: 44 Copynumber: 13.6 Consensus size: 45
22848054 AGATTCACCG
*
22848064 TCTTTGATCTGCTCCACTATTGCTTAGGGAT-ACAGAATCTACAA
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGAATCTACAA
* ** * * *
22848108 TCTTTGACCTATTCCACTACTTCTTAGGG-TGATAGGA-CT--AA
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGAATCTACAA
* ** * *
22848149 TGGTTCAAATCTGCTTCTCAACTA-T-CTTAGGAAGAT-A-AG-ATTTACCA
1 T-CTT-TGATCTGC-TC-C-ACTACTGCTTAGG--GATGACAGAATCTACAA
*
22848196 TCTTTGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCAA
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGAATCTACAA
* * * * *
22848240 TCTTCGACCTACTCCACTACTGCTTAGGGA-GATAGGA-CT--AA
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGAATCTACAA
** * * * * * * * * *
22848281 TGGCTTAAATCTGCTTCTCCAATGTCTT-GGGAAGATAAAATTTACCA
1 T--CTTTGATCTGCTCCACTACTG-CTTAGGGATGACAGAATCTACAA
* * * *
22848328 TCTTCGATCTACTCCACTACTGCTTAGGG-TGACAAAATCTGCAA
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGAATCTACAA
* * ** * *
22848372 TCTTCGACCTATTCCACTACTGCTTAGGG-TGATA-AGA-CTA-ACG
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGA-ATCTACA-A
* ** * * * * * * * * *
22848415 GCTTAAATATGCTTCTCCACTG-TATTGGGAAGATAAGATTC-ACCA
1 TCTTTGATCTGCTCCACTACTGCT-TAGGGATGA-CAGAATCTACAA
* *
22848460 TCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCAA
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGAATCTACAA
* * * *
22848504 TCTTCGACCTACTCCACTACTGCTTAGGG-TGATA-AGA-CT--AA
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGA-ATCTACAA
** * * * * * * * * *
22848545 TGGCTTAAATCTACTTCTCCACTG-TATTGGGAAGATAAGATTC-ACCA
1 T--CTTTGATCTGCTCCACTACTGCT-TAGGGATGA-CAGAATCTACAA
* *
22848592 TCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCAA
1 TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGAATCTACAA
** * *
22848636 TCTTCAACCTACTCCACTACTGCTTAGGG
1 TCTTTGATCTGCTCCACTACTGCTTAGGG
22848665 TGATAGGACA
Statistics
Matches: 396, Mismatches: 113, Indels: 96
0.65 0.19 0.16
Matches are distributed among these distances:
41 10 0.03
42 11 0.03
43 80 0.20
44 204 0.52
45 70 0.18
46 14 0.04
47 7 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTACTGCTTAGGGATGACAGAATCTACAA
Found at i:22848183 original size:132 final size:132
Alignment explanation
Indices: 22848043--22848764 Score: 1151
Period size: 132 Copynumber: 5.5 Consensus size: 132
22848033 CCCTACTATC
* * * *
22848043 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTATTGCTTAGGGAT-ACAGAATCTACA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCA
* * * *
22848107 ATCTTTGACCTATTCCACTACTTCTTAGGGTGATAGGACTAATGG-TTCAAATCTGCTTCTCAAC
65 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTT-AAATCTGCTTCTCCAC
* *
22848171 TATC
129 TGTA
* * *
22848175 TTAGGAAGATAAGATTTACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
22848240 TCTTCGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAATG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
*
22848305 TC
131 TA
* * * *
22848307 TTGGGAAGATAAAATTTACCATCTTCGATCTACTCCACTACTGCTTAGGGTGACAAAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * * *
22848372 TCTTCGACCTATTCCACTACTGCTTAGGGTGATAAGACTAACGGCTTAAATATGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22848437 TA
131 TA
22848439 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
22848504 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAAGACTAATGGCTTAAATCTACTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22848569 TA
131 TA
22848571 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
22848636 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACAAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
22848701 TA
131 TA
*
22848703 TTGGGAAGATAACATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTG
22848765 ATTCGTAGCT
Statistics
Matches: 551, Mismatches: 37, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 548 0.99
133 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
TCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
TA
Found at i:22848665 original size:44 final size:44
Alignment explanation
Indices: 22848195--22848667 Score: 204
Period size: 44 Copynumber: 10.8 Consensus size: 44
22848185 AAGATTTACC
* *
22848195 ATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCA
* * * *
22848239 ATCTTCGACCTACTCCACTACTGCTTAGGGAGATAGGA-CT--A
1 ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCA
** * * * * * * * * * * *
22848280 ATGGCTTAAATCTGCTTCTCCAATGTCTT-GGGAAGATAAAATTTACC
1 AT--CTTCGATCTACTCCACTACTG-CTTAGGG-TGACAGAATCTGCA
*
22848327 ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAAAATCTGCA
1 ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCA
* * *
22848371 ATCTTCGACCTATTCCACTACTGCTTAGGGTGATA-AGA-CT--A
1 ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGA-ATCTGCA
* ** * * * * * * * * * * *
22848412 ACGGCTTAAATATGCTTCTCCACTG-TATTGGGAAGATAAGATTC-ACC
1 A--TCTTCGATCTACTCCACTACTGCT-TAGGG-TGA-CAGAATCTGCA
*
22848459 ATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCA
* *
22848503 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATA-AGA-CT--A
1 ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGA-ATCTGCA
** * * * * * * * * *
22848544 ATGGCTTAAATCTACTTCTCCACTG-TATTGGGAAGATAAGATTC-ACC
1 AT--CTTCGATCTACTCCACTACTGCT-TAGGG-TGA-CAGAATCTGCA
*
22848591 ATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCA
* *
22848635 ATCTTCAACCTACTCCACTACTGCTTAGGGTGA
1 ATCTTCGATCTACTCCACTACTGCTTAGGGTGA
22848668 TAGGACAAAT
Statistics
Matches: 307, Mismatches: 90, Indels: 64
0.67 0.20 0.14
Matches are distributed among these distances:
41 8 0.03
42 2 0.01
43 69 0.22
44 159 0.52
45 58 0.19
46 6 0.02
47 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCA
Found at i:22849873 original size:298 final size:298
Alignment explanation
Indices: 22849262--22850375 Score: 1234
Period size: 298 Copynumber: 3.7 Consensus size: 298
22849252 GGATTGGCTT
**
22849262 CTTCAATATGTTT-AATTGCAATGTCGAGGAAGTA-AGATTCGCTATCGTAGCTTCAATCTATTC
1 CTTCAATAT-TTTAAATTGCAATGTCGAGGAAG-AGAGATTCGCCGTCGTAGCTTCAATCTATTC
** * * *
22849325 CACTACACCGCCAGGGAAAGTAAGATTCGTCGTTGCGGCCTCAATCTATTT-ACCAT--AATGTC
64 CACTACACCGCC--GGAAAGTAAGATTCACCGTTGTGGCTTCAATCT-TTTGAAC-TGCAATGTC
** * * * *
22849387 GGGGAAACAAGATTCACCATTGTAGCTTCAATCTGTTCCGTTGCACCGCCTGGAAAGTAAGATTC
125 AAGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGAAAGTAAGATTC
* * * * *
22849452 GCCATTGCAGCTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCACCATCGTAGCTTCA
190 GCCATTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTTA
* *
22849517 ATCTATTCCG-TCGCATCGCCTAGG-AGTAAGATTCGCCGTTGTAG
255 ATCTGTTCCGCT-GCATCGCCT-GGAAGTAAGATTCGCCGTTGTGG
* * *
22849561 CCTCAATCTTTTAAATTGCAATGTC-AGGGAAGCAG-GATTCGCCGTTGTAGCTTCAATCTATTC
1 CTTCAATATTTTAAATTGCAATGTCGA-GGAAG-AGAGATTCGCCGTCGTAGCTTCAATCTATTC
* * * * *
22849624 CGCTGCACCGCCTGAAAGGTAAGATTCGCCGTTGTAGCTTCAATC-TTTGAAACTGCAATGTCAA
64 CACTACACCGCCGGAAA-GTAAGATTCACCGTTGTGGCTTCAATCTTTTG-AACTGCAATGTCAA
* *
22849688 GGAAGCAAGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATCGCCT-GAAAGTAAGATTCGC
127 GGAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGAAAGTAAGATTCGC
* * * * *
22849752 CGTTGTGGCTTCAATCTTTT-AATTGCAATGTCGGGGAAGTGAGATTCGCTGTCGTAGCTTTAAT
192 CATTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTTAAT
22849816 CTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
257 CTGTTCCGCTGCATCGCCT-GGAAGTAAGATTCGCCGTTGTGG
** * * *
22849859 CTTTGATATTTTAAATTGCAATGTCGAGGAAGGGAGATTCGTCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATATTTTAAATTGCAATGTCGAGGAAGAGAGATTCGCCGTCGTAGCTTCAATCTATTCCA
* * * * **
22849924 CTACATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGA
66 CTACACCGCC-GGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAACTGCAATGTCAAGGA
* * ** * * * *
22849989 AGCAGGATTCGCCGTTATAGCTTCAATATGTTCCGTTGCACCGCCT-GAAAGGTAAAATTCACCA
130 AGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGAAA-GTAAGATTCGCCA
* * * * *
22850053 TTGTAGCTTCAATCTTTGAAACTGCAATGTCGAGGAAGCAAGATTCACCGTCGTAGCTTTAATTT
194 TTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTTAATCT
* *
22850118 GTTCCGCTGCATCACCTAGAAGTAAGATTCGCCGTTGTGG
259 GTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGG
* * * * *
22850158 CTTCAAT-TTTTTAATTACAATGTCG-GGAAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCC
1 CTTCAATATTTTAAATTGCAATGTCGAGG-AAGAGAGATTCGCCGTCGTAGCTTCAATCTATTCC
* * * * *
22850221 GCTGCATCAC-CCGGGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCAAG
65 ACTACA-C-CGCCGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAACTGCAATGTCAAG
** * * *
22850285 GAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCC
128 GAAGCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCC
* * * *
22850350 GTTGTGGCTTCGATCTTTTGAATTGC
193 ATTGTAGCTTCAATCTTTTAAATTGC
22850376 CAAGGAAGCA
Statistics
Matches: 690, Mismatches: 105, Indels: 41
0.83 0.13 0.05
Matches are distributed among these distances:
296 3 0.00
297 63 0.09
298 393 0.57
299 175 0.25
300 56 0.08
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (298 bp):
CTTCAATATTTTAAATTGCAATGTCGAGGAAGAGAGATTCGCCGTCGTAGCTTCAATCTATTCCA
CTACACCGCCGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAACTGCAATGTCAAGGAA
GCAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCATT
GTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCGAGATTCACCGTCGTAGCTTTAATCTGT
TCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGG
Found at i:22850091 original size:398 final size:396
Alignment explanation
Indices: 22849278--22850375 Score: 1484
Period size: 398 Copynumber: 2.8 Consensus size: 396
22849268 TATGTTTAAT
* * ** * * * * * *
22849278 TGCAATGTCGAGGAAGTAAGATTCGCTATCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAA
1 TGCAATGTCGAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATCGCC--TGAA
* * * *** *
22849343 AGTAAGATTCGTCGTTGCGGCCTCAATCTATTTACCA-T-AATGTCGGGGAAACAAGATTCACCA
64 AGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTA--ATTCAATGTCGGGGAAGTGAGATTCACCG
* * * * * ** *
22849406 TTGTAGCTTCAATCTGTTCCGTTGCACCGCCTGGAAAGTAAGATTCGCCATTGCAGCTTCAATCT
126 TCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGATCT
* * * * * * *
22849471 TTTAAATTGCAATGTTGGGGAAACGAGATTCACCATCGTAGCTTCAATCTATTCCGTCGCATCGC
191 TTTAAATTGCAATGTCGAGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCCCT-GCATCGC
* * * * *
22849536 CTAGG-AGTAAGATTCGCCGTTGTAGCCTCAATCTTTTAAATTGCAATGTCAGGGAAGCAGGATT
255 CTGGGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCAGGGAAGCAGGATT
* * * * *
22849600 CGCCGTTGTAGCTTCAATCTATTCCGCTGCACCGCCTGAAAGGTAAGATTCGCCGTTGTAGCTTC
320 CGCCGTTATAGCTTCAATATATTCCGCTGCACCGCCTGAAAGGTAAAATTCACCATTGTAGCTTC
22849665 AATCTTTGAAAC
385 AATCTTTGAAAC
*
22849677 TGCAATGTCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATCGCCTGAAAG
1 TGCAATGTCGAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATCGCCTGAAAG
* *
22849742 TAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTCGCTGTCGT
66 TAAGATTCGCCGTTGTGGCTTCAATCTTTTAATT-CAATGTCGGGGAAGTGAGATTCACCGTCGT
* * *
22849807 AGCTTTAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTTGATATTTTA
130 AGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTA
* * *
22849872 AATTGCAATGTCGAGGAAGGGAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTACATCGCCTGG
195 AATTGCAATGTCGAGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCC-CTGCATCGCCTGG
* *
22849937 GAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCAGGATTCGCC
259 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCAGGGAAGCAGGATTCGCC
* *
22850002 GTTATAGCTTCAATATGTTCCGTTGCACCGCCTGAAAGGTAAAATTCACCATTGTAGCTTCAATC
324 GTTATAGCTTCAATATATTCCGCTGCACCGCCTGAAAGGTAAAATTCACCATTGTAGCTTCAATC
22850067 TTTGAAAC
389 TTTGAAAC
* *
22850075 TGCAATGTCGAGGAAGCAAGATTCACCGTCGTAGCTTTAATTTGTTCCGCTGCATCACCT-AGAA
1 TGCAATGTCGAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATCGCCTGA-AA
* *
22850139 GTAAGATTCGCCGTTGTGGCTTCAATTTTTTAATTACAATGTCGGGAAAGTGAGATTCACCGTCG
65 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTAATT-CAATGTCGGGGAAGTGAGATTCACCGTCG
* * *
22850204 TAGCTTCAATCTGTTCCGCTGCATCACCCGGGAAGTAAGATTCACCGTTGTGGCTTCGATCTTTT
129 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTT
* * *
22850269 GAATTGCAATGTCAAGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
194 AAATTGCAATGTCGAGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCC-CTGCATCGCCTG
22850334 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGC
258 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGC
22850376 CAAGGAAGCA
Statistics
Matches: 617, Mismatches: 76, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
394 1 0.00
395 1 0.00
396 4 0.01
397 160 0.26
398 402 0.65
399 49 0.08
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (396 bp):
TGCAATGTCGAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATCGCCTGAAAG
TAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTCAATGTCGGGGAAGTGAGATTCACCGTCGTA
GCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAA
ATTGCAATGTCGAGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCCCTGCATCGCCTGGGA
AGTAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCAGGGAAGCAGGATTCGCCGT
TATAGCTTCAATATATTCCGCTGCACCGCCTGAAAGGTAAAATTCACCATTGTAGCTTCAATCTT
TGAAAC
Found at i:22850354 original size:100 final size:100
Alignment explanation
Indices: 22849262--22850375 Score: 1164
Period size: 100 Copynumber: 11.2 Consensus size: 100
22849252 GGATTGGCTT
* * ** ** *
22849262 CTTCAATATGTTT-AATTGCAATGTCGAGGAAGTAAGATTCGCTATCGTAGCTTCAATCTATTCC
1 CTTCAATCT-TTTGAATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
* * * * * *
22849326 ACTACACCGCCAGGGAAAGTAAGATTCGTCGTTGCGG
65 GCTGCATCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
* * * * * *
22849363 CCTCAATCTATTT-ACCA-T--AATGTCGGGGAAACAAGATTCACCATTGTAGCTTCAATCTGTT
1 CTTCAATCT-TTTGA--ATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTT
* * * * **
22849424 CCGTTGCACCGCCTGGAAAGTAAGATTCGCCATTGCAG
63 CCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * * *
22849462 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCACCATCGTAGCTTCAATCTATTCCG
1 CTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCCG
* *
22849527 -TCGCATCGCCTAGG-AGTAAGATTCGCCGTTGTAG
66 CT-GCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
22849561 CCTCAATCTTTTAAATTGCAATGTCAGGGAAGC-AGGATTCGCCGTTGTAGCTTCAATCTATTCC
1 CTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGA-GATTCGCCGTCGTAGCTTCAATCTGTTCC
* * *
22849625 GCTGCACCGCCT-GAAAGGTAAGATTCGCCGTTGTAG
65 GCTGCATCGCCTGGGAA-GTAAGATTCGCCGTTGTGG
* ** * * *
22849661 CTTCAATC-TTTGAAACTGCAATGTCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGTTCC
1 CTTCAATCTTTTG-AATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
*
22849725 GCTGCATCGCCT-GAAAGTAAGATTCGCCGTTGTGG
65 GCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * *
22849760 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGTGAGATTCGCTGTCGTAGCTTTAATCTGTTCCG
1 CTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCCG
22849824 CTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
66 CTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
** * * * * * *
22849859 CTTTGATATTTTAAATTGCAATGTCGAGGAAGGGAGATTCGTCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCCG
* *
22849924 CTACATCGCCTGGGAAGTAAGATTCACCGTTGTGG
66 CTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* ** *
22849959 CTTCGATCTTTTGAATTGCAATGTCGGGGAAGC-AGGATTCGCCGTTATAGCTTCAATATGTTCC
1 CTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGA-GATTCGCCGTCGTAGCTTCAATCTGTTCC
* * * * * * *
22850023 GTTGCACCGCCT-GAAAGGTAAAATTCACCATTGTAG
65 GCTGCATCGCCTGGGAA-GTAAGATTCGCCGTTGTGG
* * * * * *
22850059 CTTCAATC-TTTGAAACTGCAATGTCGAGGAAGCAAGATTCACCGTCGTAGCTTTAATTTGTTCC
1 CTTCAATCTTTTG-AATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
* *
22850123 GCTGCATCACCT-AGAAGTAAGATTCGCCGTTGTGG
65 GCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
22850158 CTTCAAT-TTTTTAATTACAATGTCGGGAAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCCG
1 CTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCCG
* * *
22850222 CTGCATCACCCGGGAAGTAAGATTCACCGTTGTGG
66 CTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* ** *
22850257 CTTCGATCTTTTGAATTGCAATGTCAAGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCG
1 CTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCCG
22850322 CTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
66 CTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
*
22850357 CTTCGATCTTTTGAATTGC
1 CTTCAATCTTTTGAATTGC
22850376 CAAGGAAGCA
Statistics
Matches: 868, Mismatches: 122, Indels: 47
0.84 0.12 0.05
Matches are distributed among these distances:
97 1 0.00
98 116 0.13
99 231 0.27
100 505 0.58
101 13 0.01
102 1 0.00
103 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (100 bp):
CTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGCCGTCGTAGCTTCAATCTGTTCCG
CTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
Found at i:22850439 original size:50 final size:50
Alignment explanation
Indices: 22850385--22850745 Score: 331
Period size: 50 Copynumber: 7.5 Consensus size: 50
22850375 CCAAGGAAGC
* * * *
22850385 AAGATCCGCTGCTGTAGCTTCAATCCGTTTCACTGTAACACTAGGAAAAT
1 AAGATCCGCTGTTGTAGCTTCAATCTGTTTCACTGCAACACTAGGAAAGT
* * * * * * *
22850435 AAGATCCGCTGTTGTAGCTTCAACCTTTTTAACTG----TC-GGGGAAGC
1 AAGATCCGCTGTTGTAGCTTCAATCTGTTTCACTGCAACACTAGGAAAGT
*
22850480 AAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGT
1 AAGATCCGCTGTTGTAGCTTCAATCTGTTTCACTGCAACACTAGGAAAGT
* * * * *
22850530 AAGATCCGCTGTTGTAGCTTCACTCTTTTTAACTG---C-CGAGG-AAGC
1 AAGATCCGCTGTTGTAGCTTCAATCTGTTTCACTGCAACACTAGGAAAGT
* * * **
22850575 AAGATCCACTGCTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGT
1 AAGATCCGCTGTTGTAGCTTCAATCTGTTTCACTGCAACACTAGGAAAGT
* * * * *
22850625 AAGATCCGCTATTGTAGCTTCAATCTTTTTAATTG---C-C-AGGGAAGT
1 AAGATCCGCTGTTGTAGCTTCAATCTGTTTCACTGCAACACTAGGAAAGT
* * *
22850670 AAGATCCGCTGCTGTAGCTTCAATCTGTTCCATTGCAACGA-TAGGAAAGT
1 AAGATCCGCTGTTGTAGCTTCAATCTGTTTCACTGCAAC-ACTAGGAAAGT
22850720 AAGATCCGCTGTTGTAGCTTCAATCT
1 AAGATCCGCTGTTGTAGCTTCAATCT
22850746 TTTTAATTGT
Statistics
Matches: 246, Mismatches: 49, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
45 104 0.42
46 6 0.02
47 1 0.00
48 1 0.00
49 5 0.02
50 129 0.52
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
AAGATCCGCTGTTGTAGCTTCAATCTGTTTCACTGCAACACTAGGAAAGT
Found at i:22850449 original size:95 final size:95
Alignment explanation
Indices: 22850203--22850754 Score: 615
Period size: 95 Copynumber: 5.8 Consensus size: 95
22850193 ATTCACCGTC
* * ** * * * * * *
22850203 GTAGCTTCAATCTGTTCCGCTGCATCACCCGGGAAGTAAGATTCACCGTTGTGGCTTCGATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* ** * *
22850268 TGAATTGCAATGTCAAGGAAGTGAGATTCGCCG-T
66 TTAATTGC-----CAAGGAAGCAAGATCCGCTGCT
* * * * * * * *
22850302 CGTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGGAAGTAAGATTCGCCGTTGTGGCTTCGATCT
1 -GTAGCTTCAATCTGTTCCACTGCAAC-ACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
*
22850366 TTTGAATTGCCAAGGAAGCAAGATCCGCTGCT
64 TTTTAATTGCCAAGGAAGCAAGATCCGCTGCT
* * * * *
22850398 GTAGCTTCAATCCGTTTCACTGTAACACTAGGAAAATAAGATCCGCTGTTGTAGCTTCAACCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* * ** *
22850463 TTAACTGTCGGGGAAGCAAGATCCGCTGTT
66 TTAATTGCCAAGGAAGCAAGATCCGCTGCT
*
22850493 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCACTCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* * *
22850558 TTAACTGCCGAGGAAGCAAGATCCACTGCT
66 TTAATTGCCAAGGAAGCAAGATCCGCTGCT
** *
22850588 GTAGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* *
22850653 TTAATTGCCAGGGAAGTAAGATCCGCTGCT
66 TTAATTGCCAAGGAAGCAAGATCCGCTGCT
*
22850683 GTAGCTTCAATCTGTTCCATTGCAACGA-TAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCAAC-ACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
22850747 TTTAATTG
65 TTTAATTG
22850755 TCATCTATGG
Statistics
Matches: 399, Mismatches: 49, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
94 2 0.01
95 327 0.82
96 1 0.00
100 68 0.17
101 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (95 bp):
GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
TTAATTGCCAAGGAAGCAAGATCCGCTGCT
Found at i:22855830 original size:90 final size:90
Alignment explanation
Indices: 22855693--22855916 Score: 265
Period size: 90 Copynumber: 2.5 Consensus size: 90
22855683 AACCACAAAA
* *
22855693 GTTGCAAGTTAATACACTGCCAGATGGTTGTGAA-AGCACAACATATTTGCAAATGAGAGCTG-C
1 GTTGCAAGTTAATACGCTGCCAGATGGTTGTGAATA-CACAACATATTTGCAAATAAGAGCTGCC
** *
22855756 -TTAAATGTCGGTGGATGGACCACCAGT
65 AGAAAATG--GGTGGATGAACCACCAGT
* * *
22855783 GTTGCAAGTTAATACGTTGTCAGATGGTTGTGAATACACAACATATTTGCAGATAAGAGCTGCCA
1 GTTGCAAGTTAATACGCTGCCAGATGGTTGTGAATACACAACATATTTGCAAATAAGAGCTGCCA
*
22855848 GAAAATGGGTGGATGAACCACTAGT
66 GAAAATGGGTGGATGAACCACCAGT
* * * * * *
22855873 ATTGTAGGTTAATACGCTACCAAATGGTTGTGAATGCACAACAT
1 GTTGCAAGTTAATACGCTGCCAGATGGTTGTGAATACACAACAT
22855917 TTTTTGTAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
90 107 0.94
91 2 0.02
92 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (90 bp):
GTTGCAAGTTAATACGCTGCCAGATGGTTGTGAATACACAACATATTTGCAAATAAGAGCTGCCA
GAAAATGGGTGGATGAACCACCAGT
Found at i:22857416 original size:14 final size:13
Alignment explanation
Indices: 22857378--22857408 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22857368 TTAAATCATA
*
22857378 ATTTTAGTAAAAT
1 ATTTTAGTAAAAC
22857391 ATTTTAGTAAAAC
1 ATTTTAGTAAAAC
22857404 ATTTT
1 ATTTT
22857409 TGGTAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (13 bp):
ATTTTAGTAAAAC
Found at i:22858028 original size:35 final size:35
Alignment explanation
Indices: 22857989--22858058 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
22857979 AGTATAAGAA
22857989 AAAAATTTAAATAAAATATTAAACTATTGATATTT
1 AAAAATTTAAATAAAATATTAAACTATTGATATTT
22858024 AAAAATTTAAATAAAATATTAAACTATTGATATTT
1 AAAAATTTAAATAAAATATTAAACTATTGATATTT
22858059 TGTAGATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (35 bp):
AAAAATTTAAATAAAATATTAAACTATTGATATTT
Found at i:22860415 original size:30 final size:27
Alignment explanation
Indices: 22860356--22860414 Score: 100
Period size: 29 Copynumber: 2.1 Consensus size: 27
22860346 AATAAATATA
22860356 TTTATTTTTTTTATTTTTAAAATACTT
1 TTTATTTTTTTTATTTTTAAAATACTT
22860383 TTTATTATTATTTTATTTTTAAAATACTT
1 TTTATT-TT-TTTTATTTTTAAAATACTT
22860412 TTT
1 TTT
22860415 TTTAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 6 0.20
28 2 0.07
29 22 0.73
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTATTTTTTTTATTTTTAAAATACTT
Found at i:22860893 original size:50 final size:50
Alignment explanation
Indices: 22860839--22860938 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
22860829 ATTCATTTAA
22860839 TTTTTATCTCTTTTAGCCCTTGAGTTTATATATTTTTTTATTAAATCACC
1 TTTTTATCTCTTTTAGCCCTTGAGTTTATATATTTTTTTATTAAATCACC
22860889 TTTTTATCTCTTTTAGCCCTTGAGTTTATATATTTTTTTATTAAATCACC
1 TTTTTATCTCTTTTAGCCCTTGAGTTTATATATTTTTTTATTAAATCACC
22860939 CCAAAATAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (50 bp):
TTTTTATCTCTTTTAGCCCTTGAGTTTATATATTTTTTTATTAAATCACC
Found at i:22864239 original size:21 final size:22
Alignment explanation
Indices: 22864192--22864242 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
22864182 ATTCTTTGCA
*
22864192 ATTGTAGTAAAAAGAGTGAGAT
1 ATTGTAGTAAAAAGAGTGAAAT
22864214 ATTGTAGTAAAAAGAGTGAAAT
1 ATTGTAGTAAAAAGAGTGAAAT
22864236 -TTGTAGT
1 ATTGTAGT
22864243 TATTTGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.31
Consensus pattern (22 bp):
ATTGTAGTAAAAAGAGTGAAAT
Found at i:22868593 original size:17 final size:17
Alignment explanation
Indices: 22868571--22868604 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22868561 TGATAGATGT
22868571 TAAATTAAATTAATTAA
1 TAAATTAAATTAATTAA
22868588 TAAATTAAATTAATTAA
1 TAAATTAAATTAATTAA
22868605 CTAAGTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTAAATTAATTAA
Found at i:22870192 original size:21 final size:21
Alignment explanation
Indices: 22870146--22870195 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22870136 TCGTGTTTAC
*
22870146 TTTCTGTTTATCTCTCACGAG
1 TTTCTGTTTAACTCTCACGAG
* *
22870167 CTTCTGTTTAACTCAT-ATGAG
1 TTTCTGTTTAACTC-TCACGAG
22870188 TTTCTGTT
1 TTTCTGTT
22870196 CAGCTCTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (21 bp):
TTTCTGTTTAACTCTCACGAG
Found at i:22870211 original size:42 final size:41
Alignment explanation
Indices: 22870165--22870262 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
22870155 ATCTCTCACG
* **
22870165 AGCTTCTGTTTAACTCATAT-GAGTTTCTGTTCAGCTCTATTA
1 AGCTTTTGTTTAAC-CATATGGAGTTTC-GTTCAAATCTATTA
* * * *
22870207 AGCTTTTGTTTGACCTTATGGATTTTCGTTCAAATTTATTA
1 AGCTTTTGTTTAACCATATGGAGTTTCGTTCAAATCTATTA
22870248 AGCTTTTGTTTAACC
1 AGCTTTTGTTTAACC
22870263 CTTATGGGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 29 0.62
42 18 0.38
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (41 bp):
AGCTTTTGTTTAACCATATGGAGTTTCGTTCAAATCTATTA
Found at i:22870294 original size:42 final size:42
Alignment explanation
Indices: 22870248--22870341 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
22870238 AAATTTATTA
* * *
22870248 AGCTTTTGTTTAACCCTTATGGGTTT-TAGTCCAGCTCTTATG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTA-TCCAGCTCTCATG
* **
22870290 AGCTTCCGTTCAACCCTTATGGGTTTCTATTTAGCTCTCATG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTATCCAGCTCTCATG
22870332 AGCTTCTGTT
1 AGCTTCTGTT
22870342 AAGCTTTTGG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 42 0.95
43 2 0.05
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
AGCTTCTGTTCAACCCTTATGGGTTTCTATCCAGCTCTCATG
Found at i:22872641 original size:16 final size:15
Alignment explanation
Indices: 22872616--22872650 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
22872606 ATGAATGAAT
22872616 TTAAAATCAATTCATA
1 TTAAAATCAATTCA-A
*
22872632 TTAAATTCAATTCAA
1 TTAAAATCAATTCAA
22872647 TTAA
1 TTAA
22872651 CATCTTTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAATCAATTCAA
Found at i:22873971 original size:22 final size:22
Alignment explanation
Indices: 22873946--22873987 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22873936 ACCAGACCGA
22873946 AGATACAAATTCAGAAATATCT
1 AGATACAAATTCAGAAATATCT
**
22873968 AGATATGAATTCAGAAATAT
1 AGATACAAATTCAGAAATAT
22873988 TACGCTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (22 bp):
AGATACAAATTCAGAAATATCT
Found at i:22879115 original size:25 final size:25
Alignment explanation
Indices: 22879038--22879142 Score: 72
Period size: 25 Copynumber: 4.2 Consensus size: 25
22879028 ATGTGAGCAT
* *
22879038 AGCCATATAACGAGAAGCTCATGTG
1 AGCCATATAACGAGAAGCTCAAGAG
* * **
22879063 AGTCATGTAACG-GAAAGCTCTGGAG
1 AGCCATATAACGAG-AAGCTCAAGAG
*
22879088 AGCCAT-TAACGAGAAGGCTCAAGCG
1 AGCCATATAACGAGAA-GCTCAAGAG
* * **
22879113 AGCCA-ATATCGGGAAGCTCTGGAG
1 AGCCATATAACGAGAAGCTCAAGAG
22879137 AGCCAT
1 AGCCAT
22879143 CAATCGGGAA
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
24 19 0.31
25 42 0.69
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
AGCCATATAACGAGAAGCTCAAGAG
Found at i:22879148 original size:25 final size:24
Alignment explanation
Indices: 22879077--22879156 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
22879067 ATGTAACGGA
*
22879077 AAGCTCTGGAGAGCCATTAA-CGAG
1 AAGCTCTGGAGAGCCA-TAATCGGG
** *
22879101 AAGGCTCAAGCGAGCCA-ATATCGGG
1 AA-GCTCTGGAGAGCCATA-ATCGGG
22879126 AAGCTCTGGAGAGCCATCAATCGGG
1 AAGCTCTGGAGAGCCAT-AATCGGG
22879151 AAGCTC
1 AAGCTC
22879157 ATGAAAGATC
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.02
24 14 0.32
25 28 0.64
26 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.30, T:0.15
Consensus pattern (24 bp):
AAGCTCTGGAGAGCCATAATCGGG
Found at i:22879500 original size:13 final size:13
Alignment explanation
Indices: 22879482--22879513 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
22879472 TGATCAGTGC
22879482 ATTATACATAGCA
1 ATTATACATAGCA
22879495 ATTATACATAGCA
1 ATTATACATAGCA
22879508 ATTATA
1 ATTATA
22879514 TCAAAGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (13 bp):
ATTATACATAGCA
Found at i:22893492 original size:16 final size:16
Alignment explanation
Indices: 22893471--22893504 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22893461 CATATTTCTT
*
22893471 ATTTTCTTGCCTTTCA
1 ATTTTCTTGCCTATCA
*
22893487 ATTTTCTTTCCTATCA
1 ATTTTCTTGCCTATCA
22893503 AT
1 AT
22893505 CACACTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTTTCTTGCCTATCA
Found at i:22913996 original size:52 final size:52
Alignment explanation
Indices: 22913914--22914017 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
22913904 ATGCAATGAG
*
22913914 CTCTTCTGAGTCAGTCTACTTCTCAATCTAAGAGGTCAGCAAGAACAGCACA
1 CTCTTCCGAGTCAGTCTACTTCTCAATCTAAGAGGTCAGCAAGAACAGCACA
*
22913966 CTCTTCCGAGTCAGTCTACTTCTCAGTCTAAGAGGTCAGCAAGAACAGCACA
1 CTCTTCCGAGTCAGTCTACTTCTCAATCTAAGAGGTCAGCAAGAACAGCACA
22914018 AAGAGCAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (52 bp):
CTCTTCCGAGTCAGTCTACTTCTCAATCTAAGAGGTCAGCAAGAACAGCACA
Found at i:22914419 original size:48 final size:48
Alignment explanation
Indices: 22914354--22914448 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
22914344 TTCACCTTGA
*
22914354 AAACCGAGTTGGAATGCTTTTAGAATAGAATGCTTTGTAACCTCACCT
1 AAACCGAGTTGGAATGCTTTTAGAATAGAATGCTTCGTAACCTCACCT
22914402 AAACCGAGTTGGAATGCTTTTAGAATAGAATGCTTCGTAACCTCACC
1 AAACCGAGTTGGAATGCTTTTAGAATAGAATGCTTCGTAACCTCACC
22914449 CTTTCCATCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (48 bp):
AAACCGAGTTGGAATGCTTTTAGAATAGAATGCTTCGTAACCTCACCT
Found at i:22914849 original size:49 final size:49
Alignment explanation
Indices: 22914777--22914871 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
22914767 GTTTTGGGGG
*
22914777 AAAGAGAATCAGAAATCTAAGCTGGCACGCTCTTATCTGGAAAAAGGGT
1 AAAGAGAATCAGAAATCTAAGCTGGAACGCTCTTATCTGGAAAAAGGGT
* *
22914826 AAAGAGTATCAGAACTCTAAGCTGGAACGCTCTTATCTGGAAAAAG
1 AAAGAGAATCAGAAATCTAAGCTGGAACGCTCTTATCTGGAAAAAG
22914872 TGTTCTACCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (49 bp):
AAAGAGAATCAGAAATCTAAGCTGGAACGCTCTTATCTGGAAAAAGGGT
Found at i:22923270 original size:39 final size:39
Alignment explanation
Indices: 22923215--22923298 Score: 141
Period size: 39 Copynumber: 2.1 Consensus size: 39
22923205 TTTCCCGAGG
*
22923215 AAGAGGGAAGCAAGCAAAGCTAGCCCCGGATCGTAGGGGA
1 AAGA-GGAAGCAAGCAAACCTAGCCCCGGATCGTAGGGGA
*
22923255 AAGAGGAAGCAAGCAAACCTAGCCCCGGATCGTAGGGGC
1 AAGAGGAAGCAAGCAAACCTAGCCCCGGATCGTAGGGGA
22923294 AAGAG
1 AAGAG
22923299 TGTTGTAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.36, C:0.21, G:0.36, T:0.07
Consensus pattern (39 bp):
AAGAGGAAGCAAGCAAACCTAGCCCCGGATCGTAGGGGA
Found at i:22931930 original size:76 final size:76
Alignment explanation
Indices: 22931804--22931955 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
22931794 TTGACAGCTT
22931804 TTTGGGAGCTCCAAAGTGTTGTTAAATTCCTTTCTTTTTGGGATGTTGTAATTGGACTTATTATT
1 TTTGGGAGCTCCAAAGTGTTGTTAAATTCCTTTCTTTTTGGGATGTTGTAATTGGACTTATTATT
22931869 ATTATTATAAG
66 ATTATTATAAG
*
22931880 TTTGGGAGCTCCAAGGTGTTGTTAAATTCCTTTCTTTTTGGGATGTTGTAATTGGACTTATTATT
1 TTTGGGAGCTCCAAAGTGTTGTTAAATTCCTTTCTTTTTGGGATGTTGTAATTGGACTTATTATT
22931945 ATTATTATAAG
66 ATTATTATAAG
22931956 ATTTCTTCCA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.47
Consensus pattern (76 bp):
TTTGGGAGCTCCAAAGTGTTGTTAAATTCCTTTCTTTTTGGGATGTTGTAATTGGACTTATTATT
ATTATTATAAG
Found at i:22934310 original size:25 final size:24
Alignment explanation
Indices: 22934267--22934315 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
22934257 TTTTAAAAAG
22934267 TTGGAGATTCTATTATGATTTGAT
1 TTGGAGATTCTATTATGATTTGAT
* *
22934291 TTGGTGATTACTATTTTGATTTGAT
1 TTGGAGATT-CTATTATGATTTGAT
22934316 ATTTTTCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.22, C:0.04, G:0.20, T:0.53
Consensus pattern (24 bp):
TTGGAGATTCTATTATGATTTGAT
Found at i:22936178 original size:17 final size:16
Alignment explanation
Indices: 22936146--22936186 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
22936136 TTACTATGAA
*
22936146 AATATAATTATAATTT
1 AATATAATAATAATTT
22936162 AATATAATAATTAATTT
1 AATATAATAA-TAATTT
*
22936179 AAAATAAT
1 AATATAAT
22936187 TTTATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATAATAATAATTT
Found at i:22936209 original size:18 final size:19
Alignment explanation
Indices: 22936162--22936209 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
22936152 ATTATAATTT
*
22936162 AATATAATAATTAATTTAA
1 AATATTATAATTAATTTAA
22936181 AATAATTTTATAATTAA-TTAA
1 AAT-A--TTATAATTAATTTAA
22936202 AATATTAT
1 AATATTAT
22936210 GATACATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 7 0.28
22 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATTATAATTAATTTAA
Found at i:22940939 original size:22 final size:22
Alignment explanation
Indices: 22940908--22940950 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22940898 AGGGTGAAGA
22940908 TAATTCTTTTGGCTATCCATAC
1 TAATTCTTTTGGCTATCCATAC
* *
22940930 TAATTTTTTTGGCTATTCATA
1 TAATTCTTTTGGCTATCCATA
22940951 TTTGAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.51
Consensus pattern (22 bp):
TAATTCTTTTGGCTATCCATAC
Found at i:22943602 original size:47 final size:50
Alignment explanation
Indices: 22943505--22943613 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 50
22943495 CATGGCAATA
* *
22943505 TGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATC-G-G
1 TGTGATATGTGACTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTG
* * * * *
22943553 TGTGATATGTG-CTTCCATGTAAGACCATGGTTGGGCTATGGCTTTGGTG
1 TGTGATATGTGACTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTG
22943602 TGTGATATGTGA
1 TGTGATATGTGA
22943614 TTATGTGGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
47 27 0.53
48 12 0.24
49 12 0.24
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.35
Consensus pattern (50 bp):
TGTGATATGTGACTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTG
Found at i:22943626 original size:49 final size:46
Alignment explanation
Indices: 22943505--22943631 Score: 121
Period size: 47 Copynumber: 2.6 Consensus size: 46
22943495 CATGGCAATA
* *
22943505 TGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
1 TGTGATATGTGA-TT-CATGTAAGACCATAGCTGGGCTATGGCATCGG
* * * * *
22943553 TGTGATATGTGCTTCCATGTAAGACCATGGTTGGGCTATGGCTTTGGTG
1 TGTGATATGTGATT-CATGTAAGACCATAGCTGGGCTATGGC-ATCG-G
22943602 TGTGATATGTGATT-ATGTGGAAGACCATAG
1 TGTGATATGTGATTCATGT--AAGACCATAG
22943632 TTATACTATG
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
47 30 0.45
48 13 0.20
49 23 0.35
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (46 bp):
TGTGATATGTGATTCATGTAAGACCATAGCTGGGCTATGGCATCGG
Found at i:22944203 original size:25 final size:25
Alignment explanation
Indices: 22944175--22944236 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
22944165 ACCTTAGCGC
*
22944175 GCTCTTTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
22944200 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACATCAGT
*
22944225 GCTCTCCGATTA
1 GCTCTCTGATTA
22944237 GCATATTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:22944239 original size:22 final size:22
Alignment explanation
Indices: 22944186--22944296 Score: 89
Period size: 22 Copynumber: 4.9 Consensus size: 22
22944176 CTCTTTGATT
* *
22944186 ATTAGCACATCAGTGCTCTCTG
1 ATTAGCACATTAGTGCTCTCCG
*
22944208 ATTATTAGCACGTTAGTGCTCTCCG
1 ---ATTAGCACATTAGTGCTCTCCG
* *
22944233 ATTAGCATATTTGTGCTCTCCG
1 ATTAGCACATTAGTGCTCTCCG
* * *
22944255 ATTAGCTCATTTGTGCTCTCTG
1 ATTAGCACATTAGTGCTCTCCG
* *
22944277 -TATAGTACTTTAGTGCTCTC
1 AT-TAGCACATTAGTGCTCTC
22944297 TGTTCATTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
21 1 0.01
22 52 0.72
25 19 0.26
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (22 bp):
ATTAGCACATTAGTGCTCTCCG
Found at i:22957304 original size:3 final size:3
Alignment explanation
Indices: 22957296--22957325 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22957286 TTGACACTTG
22957296 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22957326 TTCTCTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22957690 original size:100 final size:100
Alignment explanation
Indices: 22957517--22957777 Score: 486
Period size: 100 Copynumber: 2.6 Consensus size: 100
22957507 TTTAAGAACA
* * * *
22957517 TGTTGAGCTGAGTAACCGGGGTGGGGTGCTTGGCTTTCATCTCTCTTCGCGTTAAAAGGTTTGAT
1 TGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTTTGAT
22957582 GTGTTCTTAAGAAAAATTATAATAAATTAGGAGTT
66 GTGTTCTTAAGAAAAATTATAATAAATTAGGAGTT
22957617 TGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTTTGAT
1 TGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTTTGAT
22957682 GTGTTCTTAAGAAAAATTATAATAAATTAGGAGTT
66 GTGTTCTTAAGAAAAATTATAATAAATTAGGAGTT
22957717 TGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTT
1 TGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTT
22957778 CAGTATATTC
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 157 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.35
Consensus pattern (100 bp):
TGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTTTGAT
GTGTTCTTAAGAAAAATTATAATAAATTAGGAGTT
Found at i:22960474 original size:21 final size:21
Alignment explanation
Indices: 22960450--22960493 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
22960440 CTCTTCAATT
22960450 GACACTCACAGCAGACTCAAA
1 GACACTCACAGCAGACTCAAA
22960471 GACACTCACAGCAGACTCAAA
1 GACACTCACAGCAGACTCAAA
22960492 GA
1 GA
22960494 AGCTCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.32, G:0.16, T:0.09
Consensus pattern (21 bp):
GACACTCACAGCAGACTCAAA
Found at i:22963490 original size:379 final size:379
Alignment explanation
Indices: 22962791--22963535 Score: 1481
Period size: 379 Copynumber: 2.0 Consensus size: 379
22962781 GCATTCAATA
*
22962791 GCAATAAATTATAATGAGAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
1 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
22962856 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
66 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
22962921 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
131 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
22962986 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
196 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
22963051 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
261 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
22963116 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAAGAAACTTACAAAT
326 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAAGAAACTTACAAAT
22963170 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
1 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
22963235 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
66 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
22963300 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
131 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
22963365 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
196 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
22963430 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
261 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
22963495 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAA
326 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAA
22963536 NNNNNNNNNN
Statistics
Matches: 365, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
379 365 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (379 bp):
GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAAGAAACTTACAAAT
Found at i:22968687 original size:21 final size:23
Alignment explanation
Indices: 22968645--22968687 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
22968635 TTATCATTGT
**
22968645 TATAAAAAATATTTAATTATAAC
1 TATAAAAAATATTTAAAAATAAC
22968668 TATAAAAAA-A-TTAAAAATAA
1 TATAAAAAATATTTAAAAATAA
22968688 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAAAAATATTTAAAAATAAC
Found at i:22968978 original size:21 final size:21
Alignment explanation
Indices: 22968927--22968979 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
22968917 ACCATTGTTT
*
22968927 CTAATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAA
*
22968948 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
*
22968969 CTAATTTCACC
1 CTAATCTCACC
22968980 ACCACCGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.38, G:0.08, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:22970348 original size:13 final size:14
Alignment explanation
Indices: 22970320--22970364 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
22970310 ATAACTTGAA
*
22970320 TTCAATACTTCAATT
1 TTCAACACTT-AATT
*
22970335 TTCAACACTTATTT
1 TTCAACACTTAATT
*
22970349 TTTAACACTTAATT
1 TTCAACACTTAATT
22970363 TT
1 TT
22970365 TTAATTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (14 bp):
TTCAACACTTAATT
Found at i:22970355 original size:14 final size:15
Alignment explanation
Indices: 22970333--22970368 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
22970323 AATACTTCAA
*
22970333 TTTTCAACACTT-AT
1 TTTTTAACACTTAAT
22970347 TTTTTAACACTTAAT
1 TTTTTAACACTTAAT
22970362 TTTTTAA
1 TTTTTAA
22970369 TTTATCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTTAACACTTAAT
Found at i:22976976 original size:92 final size:90
Alignment explanation
Indices: 22976831--22977056 Score: 293
Period size: 92 Copynumber: 2.5 Consensus size: 90
22976821 TTTTTTTTTT
*
22976831 AAAAAAAGG-AGGGGCTTAATTG-TTTTTTTTTT--AAGTTTGAGGGTCTTTTTGATGCATTTTG
1 AAAAAAAGGTAGGGGCTTAATTGCTTTTTTTTTTAAAAGTTTGAGGGTCTTTTTGATGCATTTTA
* * *
22976892 AAAGTTCAAGTACACAATTGAGTTC
66 AAAGTTCAAATACACAAATGAGTAC
*
22976917 AAAACAAAGGTAGGGGCTTCATTGCTTTTTTTTTTAAAAGGTTTGAGGG-CTTTTTTGATGCATT
1 AAAA-AAAGGTAGGGGCTTAATTGCTTTTTTTTTTAAAA-GTTTGAGGGTC-TTTTTGATGCATT
*
22976981 TTAAAAGTTCAAATACCCAAATGAGTAC
63 TTAAAAGTTCAAATACACAAATGAGTAC
* * *
22977009 AAAAAAAAGTAGGGTCTTAATTGC-TTTTTTTTGAAAATGTTTGAGGGT
1 AAAAAAAGGTAGGGGCTTAATTGCTTTTTTTTTTAAAA-GTTTGAGGGT
22977057 AGCACCCTTA
Statistics
Matches: 121, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
86 4 0.03
87 5 0.04
88 12 0.10
89 10 0.08
90 21 0.17
91 20 0.17
92 49 0.40
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (90 bp):
AAAAAAAGGTAGGGGCTTAATTGCTTTTTTTTTTAAAAGTTTGAGGGTCTTTTTGATGCATTTTA
AAAGTTCAAATACACAAATGAGTAC
Found at i:22978628 original size:169 final size:169
Alignment explanation
Indices: 22978274--22978783 Score: 774
Period size: 169 Copynumber: 3.0 Consensus size: 169
22978264 ACTATGACCA
* * * * * * * *
22978274 TGTGACATTTGAAAATTCAACCTATAGGGAAGACA-TGATCGTGTGGGAGGCCGTG-TGAGGGTC
1 TGTGACATTCGAAAATTTAACCTACAGGAAAGACACAG-TCGTGTGGAAGGCCATGTTGAAGGTC
* * *
22978337 CTAGGCCGTGTGAAAGTCGAGCATGCTAAGGTTTTAGGGGTGTCATGGACGTGTAT-GGGTCGTG
65 CTAGGCCGTGTAAAAGTCGAACATGCTAGGGTTTTAGGGGTGTCATGGACGTGTATGGGGTCGTG
*
22978401 TAGTCCACACAGGCGGCCCACATGCCTATGTGGCTGGCCG
130 TAGTCCACACAGGCGGCCCACATGCCCATGTGGCTGGCCG
*
22978441 TGTGACATTCGAAAATTTAACCTACAGGAAAGACACAGTCGTGTGGAAGGCTATGTTGAAGGTCC
1 TGTGACATTCGAAAATTTAACCTACAGGAAAGACACAGTCGTGTGGAAGGCCATGTTGAAGGTCC
*
22978506 TAGGCCGTGTAAAAGTCGAACATGCTAGGGTTTTAGGGGTGTCATGGACGTGTATGGGGTTGTGT
66 TAGGCCGTGTAAAAGTCGAACATGCTAGGGTTTTAGGGGTGTCATGGACGTGTATGGGGTCGTGT
*
22978571 AGTCCACACAAGCGGCCCACATGCCCATGTGGCTGGCCG
131 AGTCCACACAGGCGGCCCACATGCCCATGTGGCTGGCCG
* * *
22978610 TGTGACATTCGAAAATTTAACCTACAGGAAAGACACAGTTGTGTGGAAGGCCATGTTGGAGGTCT
1 TGTGACATTCGAAAATTTAACCTACAGGAAAGACACAGTCGTGTGGAAGGCCATGTTGAAGGTCC
*
22978675 TAGGCAGTGTAAAAGTCGAACATGCTAGGGTTTTAGGGGTGTCATGGACGTGTATGGGGTCGTGT
66 TAGGCCGTGTAAAAGTCGAACATGCTAGGGTTTTAGGGGTGTCATGGACGTGTATGGGGTCGTGT
* ** * *
22978740 AGTCCATACAGGTAGCCCACATACCCATGTGGCTAGCCG
131 AGTCCACACAGGCGGCCCACATGCCCATGTGGCTGGCCG
22978779 TGTGA
1 TGTGA
22978784 TCTAACCTAG
Statistics
Matches: 313, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
167 45 0.14
168 61 0.19
169 207 0.66
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (169 bp):
TGTGACATTCGAAAATTTAACCTACAGGAAAGACACAGTCGTGTGGAAGGCCATGTTGAAGGTCC
TAGGCCGTGTAAAAGTCGAACATGCTAGGGTTTTAGGGGTGTCATGGACGTGTATGGGGTCGTGT
AGTCCACACAGGCGGCCCACATGCCCATGTGGCTGGCCG
Found at i:22980375 original size:19 final size:18
Alignment explanation
Indices: 22980343--22980403 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
22980333 TATTGTCATA
22980343 AAAAATTCATAAAAAT-T
1 AAAAATTCATAAAAATAT
22980360 AAAAATATCATAAAAAATAT
1 AAAAAT-TCAT-AAAAATAT
** *
22980380 AAAACCTCATAAATATAAT
1 AAAAATTCATAAAAAT-AT
22980399 AAAAA
1 AAAAA
22980404 AATATTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 6 0.17
18 9 0.25
19 16 0.44
20 5 0.14
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATTCATAAAAATAT
Found at i:22980536 original size:10 final size:9
Alignment explanation
Indices: 22980522--22980607 Score: 66
Period size: 10 Copynumber: 9.0 Consensus size: 9
22980512 ATTTAAAATT
22980522 TTATAAAAA
1 TTATAAAAA
22980531 TGTATAAAAA
1 T-TATAAAAA
*
22980541 TTCTTAAAAAA
1 TT-AT-AAAAA
*
22980552 CATATAAAAA
1 -TTATAAAAA
*
22980562 GTCATAAAAA
1 -TTATAAAAA
*
22980572 TTATAACATA
1 TTATAA-AAA
*
22980582 TCATAAAAA
1 TTATAAAAA
22980591 TTAT-AAAA
1 TTATAAAAA
22980599 TTATAAAAA
1 TTATAAAAA
22980608 ACCTAATAAG
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
8 8 0.13
9 16 0.27
10 29 0.48
11 6 0.10
12 1 0.02
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (9 bp):
TTATAAAAA
Found at i:22980558 original size:21 final size:21
Alignment explanation
Indices: 22980500--22980571 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
22980490 TTTTATAAAA
*
22980500 TTAATAAAACATATTTAAAATT-
1 TTAA-AAAACATA-TAAAAATTC
**
22980522 TTATAAAAATGTATAAAAATTC
1 TTA-AAAAACATATAAAAATTC
*
22980544 TTAAAAAACATATAAAAAGTC
1 TTAAAAAACATATAAAAATTC
*
22980565 ATAAAAA
1 TTAAAAA
22980572 TTATAACATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
21 28 0.68
22 12 0.29
23 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.32
Consensus pattern (21 bp):
TTAAAAAACATATAAAAATTC
Found at i:22980576 original size:19 final size:18
Alignment explanation
Indices: 22980524--22980607 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 18
22980514 TTAAAATTTT
22980524 ATAAAAATGTATAAAAATTC
1 ATAAAAAT-TATAAAAA-TC
* *
22980544 TTAAAAAACATATAAAAAGTC
1 AT-AAAAA-TTATAAAAA-TC
*
22980565 ATAAAAATTATAACATATC
1 ATAAAAATTATAA-AAATC
*
22980584 ATAAAAATTAT-AAAATT
1 ATAAAAATTATAAAAATC
22980601 ATAAAAA
1 ATAAAAA
22980608 ACCTAATAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
17 10 0.19
18 1 0.02
19 18 0.34
20 8 0.15
21 16 0.30
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAAAATTATAAAAATC
Found at i:22980608 original size:19 final size:19
Alignment explanation
Indices: 22980492--22980608 Score: 55
Period size: 19 Copynumber: 5.9 Consensus size: 19
22980482 TTATAATTTT
*
22980492 TTATAAAATTAATAAAACATA
1 TTATAAAATT-ATAAAA-AAA
* *
22980513 TT-TAAAATTTTATAAAAA
1 TTATAAAATTATAAAAAAA
*
22980531 TGTATAAAAATTCTTAAAAAACA
1 T-TAT-AAAATT-ATAAAAAA-A
*
22980554 -TATAAAA--AGTCATAAAAA
1 TTATAAAATTA-T-AAAAAAA
* *
22980572 TTATAACA-TATCATAAAAA
1 TTATAAAATTAT-AAAAAAA
22980591 TTATAAAATTATAAAAAA
1 TTATAAAATTATAAAAAA
22980609 CCTAATAAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
18 5 0.06
19 37 0.48
20 16 0.21
21 11 0.14
22 7 0.09
23 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
TTATAAAATTATAAAAAAA
Found at i:22996659 original size:103 final size:103
Alignment explanation
Indices: 22996439--22997005 Score: 512
Period size: 113 Copynumber: 5.2 Consensus size: 103
22996429 ATTGTAAAGT
22996439 TGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAATTTGGAAAAAGGTGGTGCCGACCATTG
1 TGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAA-TTGGAAAAAGGTGGTG-CGACCATTG
* *
22996504 GCAGGCCACCACTAA-ATTTTTTTTACTTTTTTCGTATAT
64 GCAGGCCACCACTAATTTTTTTTTTACTTTTTTCGTATAC
* * * ** *
22996543 TGGTACCGGCCATTGATAGACCAAATGTAAAAAAAAAA-TAAAAAAATGTGGTGTCGACCATTGG
1 TGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAATTGGAAAAAGGTGGTG-CGACCATTGG
22996607 CAGGCCACCACTAATTTTTTTTTTACTTTTTTCGTATAC
65 CAGGCCACCACTAATTTTTTTTTTACTTTTTTCGTATAC
* *
22996646 TGGTGCCGGCCATTGACAGATCAAAAGTAAAAAAAAAAATTGGGAAAAAGGTGGTGCTGACCACT
1 TGGTGCCGGCCATTGACAGACCAAAAGT-AAAAAAAAAATT-GGAAAAAGGTGGTGC-GACCATT
* *
22996711 GGCAGGCCACCACAAAAAAAAAATTTCTTTTTTACTTTTTTCGTATAC
63 GGCAGGCCACCAC-------TAATTTTTTTTTTACTTTTTTCGTATAC
* * ** * *
22996759 TGGTGTCGGCAATTGACAGACCAAAAGTAAAAAAAAAAAACTATATCCCATAAAGGTGGTGCCGG
1 TGGTGCCGGCCATTGACAGACCAAAAGT---AAAAAAAAA--AT-T-GGAAAAAGGTGGTG-CGA
* * * *
22996824 CCATTGGCAGACCACCACAAAAAAAATATTTTTTTTACTTTTTTCGTATAT
58 CCATTGGCAGGCCACCAC-----TAATTTTTTTTTTACTTTTTTCGTATAC
** * * * * *
22996875 TGGTGCCTACCATTGACACGA-AAAAAGTAAAAGAAAATATTTTGAAAAAGGTGGTACCAGCCAT
1 TGGTGCCGGCCATTGACA-GACCAAAAGTAAAA-AAAA-AATTGGAAAAAGGTGGTGCGA-CCAT
* *
22996939 TGGCAGGCCACCACCAAATTTTTTTTTTTAC-TTTTTCGTATTC
62 TGGCAGGCCACCA-CTAA-TTTTTTTTTTACTTTTTTCGTATAC
** *
22996982 TGGTGCTAGCCATTTACAGACCAA
1 TGGTGCCGGCCATTGACAGACCAA
22997006 TACCCGAAAA
Statistics
Matches: 385, Mismatches: 53, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
102 36 0.09
103 46 0.12
104 45 0.12
105 2 0.01
106 32 0.08
107 29 0.08
108 11 0.03
110 1 0.00
111 26 0.07
112 2 0.01
113 56 0.15
114 4 0.01
115 11 0.03
116 50 0.13
117 4 0.01
118 29 0.08
119 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (103 bp):
TGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAAATTGGAAAAAGGTGGTGCGACCATTGGC
AGGCCACCACTAATTTTTTTTTTACTTTTTTCGTATAC
Found at i:22997604 original size:47 final size:47
Alignment explanation
Indices: 22997535--22997629 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
22997525 CAAAGCTTGT
22997535 TTTAATAGTTTACCACAAATTTATGACTCTCCTACACTCCCTATATA
1 TTTAATAGTTTACCACAAATTTATGACTCTCCTACACTCCCTATATA
22997582 TTTAATAGTTTACCACAAATTTATGACTCTCCTACACTCCCTATATA
1 TTTAATAGTTTACCACAAATTTATGACTCTCCTACACTCCCTATATA
22997629 T
1 T
22997630 AAACAACCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (47 bp):
TTTAATAGTTTACCACAAATTTATGACTCTCCTACACTCCCTATATA
Found at i:23000743 original size:20 final size:19
Alignment explanation
Indices: 23000699--23000739 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
23000689 AACATTATAT
23000699 GAAA-AATTAAATAAAACA
1 GAAATAATTAAATAAAACA
23000717 GAAATAATTAAATTAAAA-A
1 GAAATAATTAAA-TAAAACA
23000736 GAAA
1 GAAA
23000740 ATAACTAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 12 0.57
20 5 0.24
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (19 bp):
GAAATAATTAAATAAAACA
Found at i:23001173 original size:19 final size:18
Alignment explanation
Indices: 23001149--23001184 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
23001139 CAAAGTATAC
*
23001149 AACTAACTCACCTCAAATT
1 AACTAACTAACC-CAAATT
23001168 AACTAACTAACCCAAAT
1 AACTAACTAACCCAAAT
23001185 ACGAAAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (18 bp):
AACTAACTAACCCAAATT
Found at i:23003248 original size:6 final size:6
Alignment explanation
Indices: 23003237--23003278 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
23003227 ATGGAGCTGG
23003237 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC
1 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC
23003279 TGCTCCACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (6 bp):
CTGAGC
Found at i:23004287 original size:43 final size:43
Alignment explanation
Indices: 23004232--23004322 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
23004222 CTTTAGCGGT
*
23004232 GCTTTTCTCACAAACGCCGCTAAAGACCAAGACCATTAGCGAC
1 GCTTTTCCCACAAACGCCGCTAAAGACCAAGACCATTAGCGAC
* *
23004275 GCTTTTCCCACAAACGTCGCTAAAGACCAAGACCTTTAGCGAC
1 GCTTTTCCCACAAACGCCGCTAAAGACCAAGACCATTAGCGAC
*
23004318 ACTTT
1 GCTTT
23004323 AGCCACTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (43 bp):
GCTTTTCCCACAAACGCCGCTAAAGACCAAGACCATTAGCGAC
Found at i:23006510 original size:40 final size:40
Alignment explanation
Indices: 23006447--23006531 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
23006437 TAGCTTGAAC
* * *
23006447 ATCAACACTTCAATATTTAATATGTAAGGAATTATCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
* *
23006487 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACACAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
23006527 ATCAA
1 ATCAA
23006532 TCTTACAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:23006644 original size:88 final size:87
Alignment explanation
Indices: 23006538--23006791 Score: 246
Period size: 86 Copynumber: 2.9 Consensus size: 87
23006528 TCAATCTTAC
* * * * ***
23006538 AACAGTTTATGTGAAACAAATTAGCAAAAAATCAATTATTCATAGTTCATATATTTACC-GGCAT
1 AACAATTTATATGCAACAAATTAGCAAAAAATCAATGATTCA-AGTTCATATATTTACCAAAAAT
* *
23006602 TAGGGCTAAATCTTCAAT-TTCTAT
65 CA-GACTAAATCTTCAATATT-TAT
* * * *
23006626 AACGATTTATATGCAACAAATTAAC-AAAAATCAATGGTTCAAGTTCATGTATTTACCAAAAATC
1 AACAATTTATATGCAACAAATTAGCAAAAAATCAATGATTCAAGTTCATATATTTACCAAAAATC
* *
23006690 AGACTAATTTTTCAATATTTAT
66 AGACTAAATCTTCAATATTTAT
* * * ** * *
23006712 AACAACTTATATGCAACAAATTAGC-AAAAATAAATGGTTCAAGTTCATCCATTTACCAACAAGC
1 AACAATTTATATGCAACAAATTAGCAAAAAATCAATGATTCAAGTTCATATATTTACCAAAAATC
*
23006776 AGACTAAATTTTCAAT
66 AGACTAAATCTTCAAT
23006792 TTTCAATTTT
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
86 101 0.72
87 19 0.14
88 20 0.14
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (87 bp):
AACAATTTATATGCAACAAATTAGCAAAAAATCAATGATTCAAGTTCATATATTTACCAAAAATC
AGACTAAATCTTCAATATTTAT
Found at i:23006704 original size:86 final size:85
Alignment explanation
Indices: 23006607--23006794 Score: 268
Period size: 86 Copynumber: 2.2 Consensus size: 85
23006597 GGCATTAGGG
* * * *
23006607 CTAAATCTTCAATTTCTATAACGATTTATATGCAACAAATTAACAAAAATCAATGGTTCAAGTTC
1 CTAAATTTTCAATTT-TATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTTC
** *
23006672 ATGTATTTACCAAAAATCAGA
65 ATCCATTTACCAAAAAGCAGA
* *
23006693 CTAATTTTTCAATATTTATAACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTC
1 CTAAATTTTCAAT-TTTATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTTC
*
23006758 ATCCATTTACCAACAAGCAGA
65 ATCCATTTACCAAAAAGCAGA
23006779 CTAAATTTTCAATTTT
1 CTAAATTTTCAATTTT
23006795 CAATTTTTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
85 3 0.03
86 85 0.94
87 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (85 bp):
CTAAATTTTCAATTTTATAACAACTTATATGCAACAAATTAACAAAAATAAATGGTTCAAGTTCA
TCCATTTACCAAAAAGCAGA
Found at i:23009757 original size:98 final size:98
Alignment explanation
Indices: 23009464--23009760 Score: 585
Period size: 98 Copynumber: 3.0 Consensus size: 98
23009454 TCCATTTTAC
23009464 ATTTGCCACTCACCACTCACCCACTCTAACGAAGTACCCAACGTAATTCAATTAATGATTGCAAA
1 ATTTGCCACTCACCACTCACCCACTCTAACGAAGTACCCAACGTAATTCAATTAATGATTGCAAA
*
23009529 TACAAGATATTTGCTTTCTTTTGCAATTGGGCC
66 TACAAGATATTTGCTTTCTTTTGCAATTGGGCT
23009562 ATTTGCCACTCACCACTCACCCACTCTAACGAAGTACCCAACGTAATTCAATTAATGATTGCAAA
1 ATTTGCCACTCACCACTCACCCACTCTAACGAAGTACCCAACGTAATTCAATTAATGATTGCAAA
23009627 TACAAGATATTTGCTTTCTTTTGCAATTGGGCT
66 TACAAGATATTTGCTTTCTTTTGCAATTGGGCT
23009660 ATTTGCCACTCACCACTCACCCACTCTAACGAAGTACCCAACGTAATTCAATTAATGATTGCAAA
1 ATTTGCCACTCACCACTCACCCACTCTAACGAAGTACCCAACGTAATTCAATTAATGATTGCAAA
23009725 TACAAGATATTTGCTTTCTTTTGCAATTGGGCT
66 TACAAGATATTTGCTTTCTTTTGCAATTGGGCT
23009758 ATT
1 ATT
23009761 CAAATAAATT
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 198 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (98 bp):
ATTTGCCACTCACCACTCACCCACTCTAACGAAGTACCCAACGTAATTCAATTAATGATTGCAAA
TACAAGATATTTGCTTTCTTTTGCAATTGGGCT
Found at i:23009946 original size:28 final size:28
Alignment explanation
Indices: 23009903--23009959 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
23009893 ATCTAGCTAG
*
23009903 TATTGGAATTTCAATATTTAATAA-ATTT
1 TATTCGAATTTCAATATTT-ATAATATTT
*
23009931 TATTCGAATTTTAATATTTATAATATTT
1 TATTCGAATTTCAATATTTATAATATTT
23009959 T
1 T
23009960 CCTATAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (28 bp):
TATTCGAATTTCAATATTTATAATATTT
Found at i:23010664 original size:41 final size:41
Alignment explanation
Indices: 23010595--23010836 Score: 314
Period size: 41 Copynumber: 5.9 Consensus size: 41
23010585 ATTTTATTAT
* *
23010595 TATTAGTGGCGCTT-TTCAAAAACACCGCTAAAGGCCTGAG
1 TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGAG
23010635 TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGG-CTCGAG
1 TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCT-GAG
* * *
23010676 CATTAGCGGTGCATT-TTCAAAAACGCCGCTAAAGGCCCGA-
1 TATTAGCGGCGC-TTCTTCAAAAACGCCGCTAAAGGCCTGAG
* * *
23010716 TCATTACCGGCGCTTCTTCAAAAATGCCGCTAAAGGCCAGA-
1 T-ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGAG
*
23010757 TCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAG
1 T-ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGAG
* *
23010799 CATTAGCGGCGCTTCTTCAAAAACGCCGCTAAATGCCT
1 TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCT
23010837 CAGAGTTGGG
Statistics
Matches: 180, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
40 17 0.09
41 160 0.89
42 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
TATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGAG
Found at i:23010828 original size:123 final size:122
Alignment explanation
Indices: 23010602--23010831 Score: 367
Period size: 123 Copynumber: 1.9 Consensus size: 122
23010592 TATTATTAGT
*
23010602 GGCGCTTTTCAAAAACACCGCTAAAGGCCTGAGTATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
1 GGCGCTTTTCAAAAACACCGCTAAAGGCCAGAGTATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
*
23010667 AGGCTCGAGCATTAGCGGTGCATTTTCAAAAACGCCGCTAAAGGCCCGATCATTACC
66 AGGCTCGAGCATTAGCGGCGCATTTTCAAAAACGCCGCTAAAGGCCCGATCATTACC
**
23010724 GGCGCTTCTTCAAAAATGCCGCTAAAGGCCAGA-TCATTAGCGGCGCTTCTTCAAAAACGCCGCT
1 GGCGCTT-TTCAAAAACACCGCTAAAGGCCAGAGT-ATTAGCGGCGCTTCTTCAAAAACGCCGCT
23010788 AAAGGC-CAGAGCATTAGCGGCGC-TTCTTCAAAAACGCCGCTAAA
64 AAAGGCTC-GAGCATTAGCGGCGCATT-TTCAAAAACGCCGCTAAA
23010832 TGCCTCAGAG
Statistics
Matches: 100, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
122 11 0.11
123 89 0.89
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (122 bp):
GGCGCTTTTCAAAAACACCGCTAAAGGCCAGAGTATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
AGGCTCGAGCATTAGCGGCGCATTTTCAAAAACGCCGCTAAAGGCCCGATCATTACC
Found at i:23010908 original size:38 final size:39
Alignment explanation
Indices: 23010854--23010928 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
23010844 GGGCTTAGGC
*
23010854 TTTTTGCGGCGCTTTT-CAAAAAACGCTGCTAATGCTTA
1 TTTTTGCGGCGCTTTTCCAAAAAACGCCGCTAATGCTTA
*
23010892 TTTTTAGCGGCG-TTTTCCAAAAAGCGCCGCTAATGCT
1 TTTTT-GCGGCGCTTTTCCAAAAAACGCCGCTAATGCT
23010929 CGACCTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 9 0.27
39 24 0.73
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (39 bp):
TTTTTGCGGCGCTTTTCCAAAAAACGCCGCTAATGCTTA
Found at i:23010978 original size:40 final size:39
Alignment explanation
Indices: 23010881--23010988 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 39
23010871 AAAAAACGCT
* * *
23010881 GCTAATGCTT-ATTTTTAGCGGCGTTTTCCAAAAAGCGCC
1 GCTAATGCTTGATTTTTAGCGGCATTTT-TAAAAAGCACC
* **
23010920 GCTAATGCTCGACCTTTAGCGGCATTTTTATAAAAGCACC
1 GCTAATGCTTGATTTTTAGCGGCATTTTTA-AAAAGCACC
* *
23010960 GCTAATGCTTGGTTTTTAGTGGCATTTTT
1 GCTAATGCTTGATTTTTAGCGGCATTTTT
23010989 TGTCCAAACG
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 10 0.18
40 46 0.82
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (39 bp):
GCTAATGCTTGATTTTTAGCGGCATTTTTAAAAAGCACC
Found at i:23011172 original size:30 final size:30
Alignment explanation
Indices: 23011138--23011198 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
23011128 ATTAAACAAG
23011138 AAAAACTATTTTACATAGTATCGTCCAAAT
1 AAAAACTATTTTACATAGTATCGTCCAAAT
23011168 AAAAACTATTTTACATAGTATCGTCCAAAT
1 AAAAACTATTTTACATAGTATCGTCCAAAT
23011198 A
1 A
23011199 CCGAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (30 bp):
AAAAACTATTTTACATAGTATCGTCCAAAT
Found at i:23014852 original size:30 final size:30
Alignment explanation
Indices: 23014816--23014897 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
23014806 GATATATTGT
*
23014816 CAGCTTGTGTGAGCAACTCTATTATAGTGC
1 CAGCTTGTGTGAGCAACTCTATTATAGTGA
*
23014846 CAGCTTGTGTGAGCAAC-C-ATGATATATTGA
1 CAGCTTGTGTGAGCAACTCTAT--TATAGTGA
23014876 CAGCTTGTGTGAGCAACT-TATT
1 CAGCTTGTGTGAGCAACTCTATT
23014898 CTCGTGTGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 40 0.87
31 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (30 bp):
CAGCTTGTGTGAGCAACTCTATTATAGTGA
Found at i:23022178 original size:6 final size:6
Alignment explanation
Indices: 23022167--23022195 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23022157 ATGTTAAATA
23022167 ATATTT ATATTT ATATTT ATATTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATATT
23022196 AAATCACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:23022312 original size:11 final size:12
Alignment explanation
Indices: 23022295--23022349 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
23022285 ATTGTATGTA
23022295 ATTTAATGTATT
1 ATTTAATGTATT
23022307 -TTTAATGTATT
1 ATTTAATGTATT
**
23022318 ATTTAACATATAT
1 ATTTAATGTAT-T
*
23022331 AATTAATGTATT
1 ATTTAATGTATT
*
23022343 TTTTAAT
1 ATTTAAT
23022350 TTAAATACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
11 11 0.32
12 14 0.41
13 9 0.26
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (12 bp):
ATTTAATGTATT
Found at i:23023151 original size:17 final size:17
Alignment explanation
Indices: 23023131--23023163 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23023121 ATTTAATATA
23023131 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
23023148 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
23023164 TACAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:23024590 original size:29 final size:30
Alignment explanation
Indices: 23024540--23024598 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
23024530 TATGGTTTAA
*
23024540 TGTGCAATTGTATACATAAAA-TTTGATTT
1 TGTGCAATTGTAAACATAAAATTTTGATTT
*
23024569 TGTGCAATTTTAAACA-AGAAATTTTGATTT
1 TGTGCAATTGTAAACATA-AAATTTTGATTT
23024599 GATCAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.04
29 17 0.65
30 8 0.31
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.44
Consensus pattern (30 bp):
TGTGCAATTGTAAACATAAAATTTTGATTT
Found at i:23026359 original size:26 final size:26
Alignment explanation
Indices: 23026325--23026436 Score: 134
Period size: 26 Copynumber: 4.1 Consensus size: 26
23026315 ATAGTAATTC
*
23026325 TCTCTTAAAATTTAAAATTATTATTA
1 TCTCTTAAATTTTAAAATTATTATTA
* *
23026351 TCTCTTAAAGTTTAAAATAATTATTA
1 TCTCTTAAATTTTAAAATTATTATTA
23026377 TCATCTATTAAATTTTAAAATAGTTATTATTA
1 TC-TC--TTAAATTTT-AAA-A-TTATTATTA
*
23026409 TCCCTTAAATTTTAAAATTATTATTA
1 TCTCTTAAATTTTAAAATTATTATTA
23026435 TC
1 TC
23026437 ATGAATTTCC
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
26 37 0.49
27 3 0.04
28 3 0.04
29 17 0.23
30 3 0.04
31 2 0.03
32 10 0.13
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (26 bp):
TCTCTTAAATTTTAAAATTATTATTA
Found at i:23026372 original size:29 final size:29
Alignment explanation
Indices: 23026325--23026435 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
23026315 ATAGTAATTC
*
23026325 TCTCTTAAAATTT--AA-AATTATTATTA
1 TCTCTTAAATTTTAAAATAATTATTATTA
* *
23026351 TCTCTTAAAGTTTAAAATAATTATTATCA
1 TCTCTTAAATTTTAAAATAATTATTATTA
* *
23026380 TCTATTAAATTTTAAAATAGTTATTATTA
1 TCTCTTAAATTTTAAAATAATTATTATTA
* *
23026409 TCCCTTAAATTTTAAAATTATTATTAT
1 TCTCTTAAATTTTAAAATAATTATTAT
23026436 CATGAATTTC
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.17
28 2 0.03
29 58 0.81
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.50
Consensus pattern (29 bp):
TCTCTTAAATTTTAAAATAATTATTATTA
Found at i:23026484 original size:24 final size:23
Alignment explanation
Indices: 23026455--23026502 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
23026445 CCATAATATT
23026455 TTTTAATA-AAAATAAAATATTAAA
1 TTTTAATAGAAAAT--AATATTAAA
23026479 TTTTAATAGGAAAATAATATTAAA
1 TTTTAATA-GAAAATAATATTAAA
23026503 AGATAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 17 0.77
26 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
TTTTAATAGAAAATAATATTAAA
Found at i:23026622 original size:16 final size:17
Alignment explanation
Indices: 23026598--23026630 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23026588 TATATATCAA
*
23026598 ATTATAAAA-TAAATAT
1 ATTACAAAATTAAATAT
23026614 ATTACAAAATTAAATAT
1 ATTACAAAATTAAATAT
23026631 TTTGAAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTACAAAATTAAATAT
Found at i:23027468 original size:7 final size:7
Alignment explanation
Indices: 23027458--23027484 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23027448 ATAAATCTTA
23027458 AAAATTG
1 AAAATTG
23027465 AAAATTG
1 AAAATTG
23027472 AAAATTG
1 AAAATTG
23027479 AAAATT
1 AAAATT
23027485 TAAGCACAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
AAAATTG
Found at i:23028222 original size:59 final size:60
Alignment explanation
Indices: 23028158--23028292 Score: 170
Period size: 59 Copynumber: 2.3 Consensus size: 60
23028148 GACGAAATTA
* * **
23028158 AATAGTT-AGGTGACTATTTTGTAACTTTTCATAGTTGGG-TGA-CAAAAAAGAAATTTACT
1 AATAGTTGA-GTGACTATTTTATAACTTTTCATAGTTGGGAT-ATCAAAAAAAAAAAATACT
*
23028217 AATAGTTGAGTGACCT-TTTTATAACTTTTTATAGTTGGGATATCAAAAAAAAAAAATACT
1 AATAGTTGAGTGA-CTATTTTATAACTTTTCATAGTTGGGATATCAAAAAAAAAAAATACT
23028277 AATAGTTGAGTGACTA
1 AATAGTTGAGTGACTA
23028293 CTAGTATGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
59 35 0.53
60 31 0.47
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (60 bp):
AATAGTTGAGTGACTATTTTATAACTTTTCATAGTTGGGATATCAAAAAAAAAAAATACT
Found at i:23030643 original size:233 final size:233
Alignment explanation
Indices: 23030236--23030684 Score: 763
Period size: 233 Copynumber: 1.9 Consensus size: 233
23030226 TTGGTCTCTC
* * * *
23030236 AGTTAATGAATAAACTAAAAAGATAATGATTCCAAAGAGGTTCCAACCGTGAGAGTAGCAGAAGG
1 AGTTAATGAATAAACTAAAAAGATAAAGATTCCAAAGAGGTCCCAACCGTGAAAGTAGCAGAAAG
* * *
23030301 GGTTGAGCTATGGATTGGTCAATAGAAAGGCAAGAAAGACTTCGAGGTAATTCACTTGGATGATT
66 AGTTGAGCTATGGATTGGTCAATAGAAAGGCAAGAAAGACTTCAAGGTAATTCACTAGGATGATT
*
23030366 ACAACTATGTTCTTGGCTTAAATTTCCTTGACAAGATTAATGTTGTTTTGGTTCCTTTTGCCAAA
131 ACAACTATGTTCTTGGCTTAAATTTCCTTGACAAAATTAATGTTGTTTTGGTTCCTTTTGCCAAA
23030431 TGTATATGCATCTTGGATACTCACAAGATTGATGTTTT
196 TGTATATGCATCTTGGATACTCACAAGATTGATGTTTT
* ** *
23030469 AGTTAATGAATTAACTAAAAAGATAAAGATTCCAAAGAGGTCCCAATTGTGAAAGTAGTAGAAAG
1 AGTTAATGAATAAACTAAAAAGATAAAGATTCCAAAGAGGTCCCAACCGTGAAAGTAGCAGAAAG
*
23030534 AGTTGAGCTATGGATTGGTCAATAGAAAGGCAAGGAAGACTTCAAGGTAATTCACTAGGATGATT
66 AGTTGAGCTATGGATTGGTCAATAGAAAGGCAAGAAAGACTTCAAGGTAATTCACTAGGATGATT
*
23030599 ACAACTATGTTCTTGGCTTAAATTTCCTTGACAAAATTAATGTTGTTTTGGTTCCTTTTGCCGAA
131 ACAACTATGTTCTTGGCTTAAATTTCCTTGACAAAATTAATGTTGTTTTGGTTCCTTTTGCCAAA
*
23030664 TGTATATGCATCTTGGTTACT
196 TGTATATGCATCTTGGATACT
23030685 AGACAACAAC
Statistics
Matches: 201, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
233 201 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.32
Consensus pattern (233 bp):
AGTTAATGAATAAACTAAAAAGATAAAGATTCCAAAGAGGTCCCAACCGTGAAAGTAGCAGAAAG
AGTTGAGCTATGGATTGGTCAATAGAAAGGCAAGAAAGACTTCAAGGTAATTCACTAGGATGATT
ACAACTATGTTCTTGGCTTAAATTTCCTTGACAAAATTAATGTTGTTTTGGTTCCTTTTGCCAAA
TGTATATGCATCTTGGATACTCACAAGATTGATGTTTT
Found at i:23031609 original size:30 final size:32
Alignment explanation
Indices: 23031569--23031628 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
23031559 AGCCTTTTTA
*
23031569 TTTTCTCCCAATACTTTTACTC-CCTCCCACT
1 TTTTCTCCCAAAACTTTTACTCTCCTCCCACT
23031600 TTTTC-CCCAAAACTTTTACTCTCCTCCCA
1 TTTTCTCCCAAAACTTTTACTCTCCTCCCA
23031629 TCCCACCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.40
Consensus pattern (32 bp):
TTTTCTCCCAAAACTTTTACTCTCCTCCCACT
Found at i:23031760 original size:20 final size:20
Alignment explanation
Indices: 23031727--23031766 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23031717 CCAACCCTCA
*
23031727 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
23031747 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
23031767 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:23038961 original size:17 final size:17
Alignment explanation
Indices: 23038934--23038976 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
23038924 AAATTTAAGC
23038934 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
23038950 ATTTTAATTAAAATCAT
1 ATTTTAATTAAAATAAT
*
23038967 -TTTTATTTAA
1 ATTTTAATTAA
23038977 TAAATTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:23038976 original size:16 final size:16
Alignment explanation
Indices: 23038934--23038973 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
23038924 AAATTTAAGC
23038934 ATTTTATTAAAATAAT
1 ATTTTATTAAAATAAT
*
23038950 ATTTTAATTAAAATCAT
1 ATTTT-ATTAAAATAAT
23038967 -TTTTATT
1 ATTTTATT
23038974 TAATAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAAATAAT
Found at i:23039744 original size:16 final size:16
Alignment explanation
Indices: 23039723--23039755 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23039713 ACAGACACAC
*
23039723 ATATATATATTTATAA
1 ATATATATATATATAA
23039739 ATATATATATATATAA
1 ATATATATATATATAA
23039755 A
1 A
23039756 AGAAAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATATATATATATAA
Found at i:23045294 original size:22 final size:22
Alignment explanation
Indices: 23045234--23045287 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
23045224 GTATTATCGT
* * *
23045234 AACAGTTCAAATA-AGATGCAG
1 AACAGATCAGATATAGATGCAA
23045255 AACAGATCAGATATAGATGCAA
1 AACAGATCAGATATAGATGCAA
*
23045277 AACATATCAGA
1 AACAGATCAGA
23045288 ATTAGATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (22 bp):
AACAGATCAGATATAGATGCAA
Found at i:23046329 original size:19 final size:19
Alignment explanation
Indices: 23046307--23046343 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23046297 GAAAACGAGA
*
23046307 AAAATAAAGTAAACTAAAT
1 AAAATAAAATAAACTAAAT
23046326 AAAATAAAATAAACTAAA
1 AAAATAAAATAAACTAAA
23046344 ATGATTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAATAAAATAAACTAAAT
Found at i:23047224 original size:369 final size:362
Alignment explanation
Indices: 23046549--23047280 Score: 1279
Period size: 369 Copynumber: 2.0 Consensus size: 362
23046539 GAGATTTAAA
23046549 CCTCTAACCTCTAACACACAAGCAAAGCACTTAACCATAAATACAGAAACTTAATTATATAATTT
1 CCTCTAACCTCTAACACACAAGCAAAGCACTTAACCATAAATACAGAAACTTAATTATATAATTT
*
23046614 AACAAATAATACTCAAACTTTTGGGGCGTTACAAAAAAATAATATTGATTCATGTGACATCATAA
66 AACAAACAATACTCAAACTTTTGGGGCGTTACAAAAAAATAATATTGATTCATGTGACATCATAA
23046679 TTCTTTTATGAGTATAAACAAAAGTAAGTGCAAGTACAAGTACATGTCTAAGCAACTAGAAAGTA
131 TTCTTTTATGAGTATAAACAAAAGTAAGTGCAAGTACAAGTACATGTCTAAGCAACTAGAAAGTA
*
23046744 GAATCTGTTAGAAACTTTGATTGTTATACTTTGTTGTTCTATTATATATTATAACATCAAGTATA
196 GAATCTGTTAGAAACTTTGATTGATATACTTTGTTGTTCTATTATATATTATAACATCAAGTATA
*
23046809 ACAATTGTTTGAGACAATCAAAGTTATTTGATGAGTTGA-ATTTTTTTACTTGTATATGTTTTTT
261 ACAATTGTTTGAGACAATCAAAGTTATTTGATGAGTTGATATTTTTTTACCTGTATATGTTTTTT
23046873 TTGTATTTTAATTAATATGTTAATTAGGCAGCAAATG
326 TTGTATTTTAATTAATATGTTAATTAGGCAGCAAATG
* * *
23046910 CCTCTAACCTTTAACACACAAGCAAAGCACTTAACCATAAATATAGGAACTTAATTATATCATAA
1 CCTCTAACCTCTAACACACAAGCAAAGCACTTAACCATAAATACAGAAACTTAA-T-TAT-ATAA
23046975 TTTAACAAACAATACTCAAACTTTTGGGGCGTTAC-AAAAAATAATATTGATTCATGTGACATCA
63 TTTAACAAACAATACTCAAACTTTTGGGGCGTTACAAAAAAATAATATTGATTCATGTGACATCA
23047039 TAATTCTTTTATGAGTATAAACAAAAGTAAGTGCAAGTGCAAGTACAAGTACATGTCTAAGCAAC
128 TAATTCTTTTATGAGTATAAAC--AA--AAGT--AAGTGCAAGTACAAGTACATGTCTAAGCAAC
* *
23047104 TAGAAAGTAGAATCTGTTAGAAACTTTGATTGATATACTTTTTTGTTCTATTGTATATTATAACA
187 TAGAAAGTAGAATCTGTTAGAAACTTTGATTGATATACTTTGTTGTTCTATTATATATTATAACA
* *
23047169 TCAAGTATAACAATTGTTTGGGACAATCAAAGTTATTTGATGAGTTGATTTTTTTTTACCTGTAT
252 TCAAGTATAACAATTGTTTGAGACAATCAAAGTTATTTGATGAGTTGATATTTTTTTACCTGTAT
23047234 ATGTTTTTTTTGTATTTTAATTAATATGTTAATTAGGCAGCAAATG
317 ATGTTTTTTTTGTATTTTAATTAATATGTTAATTAGGCAGCAAATG
23047280 C
1 C
23047281 AAAATAATTG
Statistics
Matches: 351, Mismatches: 10, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
361 51 0.15
362 1 0.00
363 54 0.15
364 38 0.11
365 2 0.01
367 4 0.01
369 140 0.40
370 61 0.17
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (362 bp):
CCTCTAACCTCTAACACACAAGCAAAGCACTTAACCATAAATACAGAAACTTAATTATATAATTT
AACAAACAATACTCAAACTTTTGGGGCGTTACAAAAAAATAATATTGATTCATGTGACATCATAA
TTCTTTTATGAGTATAAACAAAAGTAAGTGCAAGTACAAGTACATGTCTAAGCAACTAGAAAGTA
GAATCTGTTAGAAACTTTGATTGATATACTTTGTTGTTCTATTATATATTATAACATCAAGTATA
ACAATTGTTTGAGACAATCAAAGTTATTTGATGAGTTGATATTTTTTTACCTGTATATGTTTTTT
TTGTATTTTAATTAATATGTTAATTAGGCAGCAAATG
Found at i:23048663 original size:20 final size:20
Alignment explanation
Indices: 23048625--23048663 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23048615 GTATAGATCA
* *
23048625 ATAATTGAACCAAATCAAAG
1 ATAATTGAACAAAAACAAAG
*
23048645 ATAATTGAAGAAAAACAAA
1 ATAATTGAACAAAAACAAA
23048664 AATTGTTGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (20 bp):
ATAATTGAACAAAAACAAAG
Found at i:23048935 original size:17 final size:17
Alignment explanation
Indices: 23048915--23048948 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23048905 GCTTGTACAT
*
23048915 GATACGTGATTGTAAGA
1 GATAAGTGATTGTAAGA
*
23048932 GATAATTGATTGTAAGA
1 GATAAGTGATTGTAAGA
23048949 AGCTCATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.32
Consensus pattern (17 bp):
GATAAGTGATTGTAAGA
Found at i:23050918 original size:17 final size:17
Alignment explanation
Indices: 23050896--23050929 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23050886 CTGTCCATAG
23050896 CAATTCTAAAGCCCTAA
1 CAATTCTAAAGCCCTAA
23050913 CAATTCTAAAGCCCTAA
1 CAATTCTAAAGCCCTAA
23050930 GTGCAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (17 bp):
CAATTCTAAAGCCCTAA
Found at i:23058711 original size:24 final size:24
Alignment explanation
Indices: 23058684--23058748 Score: 105
Period size: 24 Copynumber: 2.7 Consensus size: 24
23058674 TGTGAATCAA
23058684 TAAGCTCTCACGAGCTGAAATCGG
1 TAAGCTCTCACGAGCTGAAATCGG
*
23058708 TAAGCTCTCACGAGCTAAAATCGG
1 TAAGCTCTCACGAGCTGAAATCGG
23058732 TAAGCTCAT-ACGAGCTG
1 TAAGCTC-TCACGAGCTG
23058749 TGGTGTGTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (24 bp):
TAAGCTCTCACGAGCTGAAATCGG
Found at i:23063004 original size:27 final size:27
Alignment explanation
Indices: 23062945--23063011 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
23062935 CCCAAACTGA
*
23062945 TATAAAATGACCGTTATGCCCCCACGT
1 TATAAAATGACTGTTATGCCCCCACGT
** * *
23062972 GGTAAAATGACTGTTATGCCCCTATGT
1 TATAAAATGACTGTTATGCCCCCACGT
*
23062999 TATAAAATAACTG
1 TATAAAATGACTG
23063012 CATGCTCTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (27 bp):
TATAAAATGACTGTTATGCCCCCACGT
Found at i:23068951 original size:24 final size:24
Alignment explanation
Indices: 23068850--23068961 Score: 118
Period size: 25 Copynumber: 4.6 Consensus size: 24
23068840 GTACATCTAT
*
23068850 GCTCATACGAGC-GATAAACGGTAA
1 GCTCATACGAGCTGA-AATCGGTAA
* * *
23068874 CCTCCTCCGAGCTGAATATCGGTAA
1 GCTCATACGAGCTGAA-ATCGGTAA
* *
23068899 GCTCATACAAGCTGTGAATCGGTAA
1 GCTCATACGAGCTG-AAATCGGTAA
* *
23068924 GCTCTTACGAGCTGAAATAGGTAA
1 GCTCATACGAGCTGAAATCGGTAA
23068948 GCTCATACGAGCTG
1 GCTCATACGAGCTG
23068962 TGGTGTGTCT
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
24 31 0.44
25 39 0.55
26 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGGTAA
Found at i:23071181 original size:25 final size:25
Alignment explanation
Indices: 23071135--23071190 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23071125 TTATATTATA
* *
23071135 TTATTTTTAATTATTTAAAATAAAT
1 TTATTTTTAATAATATAAAATAAAT
* *
23071160 TTATTTTTTATAATATATAATAAAT
1 TTATTTTTAATAATATAAAATAAAT
*
23071185 ATATTT
1 TTATTT
23071191 ATTTTTTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATTTTTAATAATATAAAATAAAT
Found at i:23071767 original size:10 final size:10
Alignment explanation
Indices: 23071754--23071873 Score: 56
Period size: 10 Copynumber: 12.3 Consensus size: 10
23071744 TAAAATTGTT
*
23071754 AAAAATCAT-
1 AAAAATTATA
23071763 AAAAATTATA
1 AAAAATTATA
* *
23071773 GAAAATCATA
1 AAAAATTATA
* *
23071783 ACAAATGTAAA
1 AAAAAT-TATA
23071794 AAAAATTATA
1 AAAAATTATA
* *
23071804 AAAAGTGCA-A
1 AAAAAT-TATA
* *
23071814 GAAAA-TATT
1 AAAAATTATA
23071823 AAAAA-TATA
1 AAAAATTATA
*
23071832 TAAAAATTGTA
1 -AAAAATTATA
*
23071843 AAAAAATAT-
1 AAAAATTATA
23071852 AAAAA-TATA
1 AAAAATTATA
23071861 AAAATATT-TA
1 AAAA-ATTATA
23071871 AAA
1 AAA
23071874 TTTTATATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
8 4 0.05
9 24 0.29
10 42 0.51
11 12 0.15
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (10 bp):
AAAAATTATA
Found at i:23071769 original size:19 final size:19
Alignment explanation
Indices: 23071755--23071807 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
23071745 AAAATTGTTA
23071755 AAAATCATAAAAATTATAG
1 AAAATCATAAAAATTATAG
* *
23071774 AAAATCATAACAAATGTAAAA
1 AAAATCATAA-AAAT-TATAG
*
23071795 AAAATTATAAAAA
1 AAAATCATAAAAA
23071808 GTGCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.34
20 7 0.24
21 12 0.41
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAATCATAAAAATTATAG
Found at i:23071834 original size:30 final size:29
Alignment explanation
Indices: 23071794--23071864 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
23071784 CAAATGTAAA
*
23071794 AAAAAT-TATAAAAAGTGCAAGAAAATATT
1 AAAAATATATAAAAAGTGCAAAAAAATA-T
* *
23071823 AAAAATATATAAAAATTGTAAAAAAATAT
1 AAAAATATATAAAAAGTGCAAAAAAATAT
23071852 AAAAATATA-AAAA
1 AAAAATATATAAAA
23071865 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.11
29 16 0.42
30 18 0.47
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (29 bp):
AAAAATATATAAAAAGTGCAAAAAAATAT
Found at i:23071837 original size:19 final size:19
Alignment explanation
Indices: 23071815--23071873 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
23071805 AAAGTGCAAG
23071815 AAAATATTAAAAATATATA
1 AAAATATTAAAAATATATA
*
23071834 AAAAT-TGTAAAAAAATATA
1 AAAATAT-TAAAAATATATA
*
23071853 AAAATA-TAAAAATATTTA
1 AAAATATTAAAAATATATA
23071871 AAA
1 AAA
23071874 TTTTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 14 0.40
19 21 0.60
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATATTAAAAATATATA
Found at i:23073910 original size:14 final size:14
Alignment explanation
Indices: 23073891--23073920 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23073881 TGTCCGCATT
23073891 TCTTACATCATTGA
1 TCTTACATCATTGA
*
23073905 TCTTACGTCATTGA
1 TCTTACATCATTGA
23073919 TC
1 TC
23073921 GATTCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (14 bp):
TCTTACATCATTGA
Found at i:23083207 original size:44 final size:41
Alignment explanation
Indices: 23083110--23083209 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 41
23083100 CGTTGCAACT
* * * * *
23083110 TCAGGGAGATAAGATCTAATTTGATCTACTCTATTGTAACC
1 TCAGGGAGATAAGATCTAATTTAATCCACTCCACTGAAACC
* *
23083151 TCAGAGAAATAAGATCTATTATTTTAATCCACTCCACTGAAACC
1 TCAGGGAGATAAGATCTA--A-TTTAATCCACTCCACTGAAACC
23083195 TCAGGGAGATAAGAT
1 TCAGGGAGATAAGAT
23083210 TCACCATTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 16 0.34
43 1 0.02
44 30 0.64
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (41 bp):
TCAGGGAGATAAGATCTAATTTAATCCACTCCACTGAAACC
Found at i:23083305 original size:129 final size:129
Alignment explanation
Indices: 23083112--23083510 Score: 636
Period size: 129 Copynumber: 3.1 Consensus size: 129
23083102 TTGCAACTTC
* * ** * * * * *
23083112 AGGGAGATAAGATCTAATTTGATCTACTCTATTGTAACCTCAGAGAAATAAGATCTATTATTTTA
1 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTA
* * ** * **
23083177 ATCCACTCCACTGAAACCTCAGGGAGATAAGATTCACCATTTTCAATCTGCTCCACTACTGCTT
66 ATCCGCTTCACTGAAACCTCAGAAAGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTT
*
23083241 AGGGAGATAAGACCTGATGCGATCTACTCTACTACAACTTCAGAGAGATAAGATCTATTGTTTTA
1 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTA
23083306 ATCCGCTTCACTGAAACCTCAGAAAGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTT
66 ATCCGCTTCACTGAAACCTCAGAAAGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTT
*
23083370 AGGGATATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTA
1 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTA
23083435 ATCCGCTTCACTGAAACCTCAGAAAGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTT
66 ATCCGCTTCACTGAAACCTCAGAAAGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTT
23083499 AGGGAGATAAGA
1 AGGGAGATAAGA
23083511 TCTGCTTCTT
Statistics
Matches: 250, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 250 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (129 bp):
AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTA
ATCCGCTTCACTGAAACCTCAGAAAGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTT
Found at i:23083683 original size:129 final size:125
Alignment explanation
Indices: 23083537--23083938 Score: 351
Period size: 129 Copynumber: 3.1 Consensus size: 125
23083527 GCTCTGCTAC
* * ** *
23083537 AACCTCAAGGAGGTAAGACC-TGATGCGATCTACTTTACTACAACTTCAGAGAGATAAGATCT-A
1 AACCTCAGGGAGATAAGACCAT-ATGCGATCTACTCCACTACAACTT-AGAGAGATAAGACCTGA
* *
23083600 TTGTTTTAATCTGCTCTACTACAACTTCAGAGAAATAAGATCTATCATTTTAATCCGCTCCACTG
64 -TG---CAATCTACTCTACTACAACTTCAGAGAAATAAGATCTATCATTTTAATCCGCTCCACTG
23083665 A
125 A
* * * ** *
23083666 AACCTCAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
1 AACCTCAGGGAGATAAG----ACCATATGCGATCTACTCCACTACAACTTAGAGAGATAAGACCT
* * * **
23083731 GATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGA
62 GATGCAATCTACTCTACTACAACTTCAGAGAAATAAGATCTATCATTTTAATCCGCTCCACTGA
* * * *** *
23083795 AACCTCAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTA-AGGAGATAAAACC
1 AACCTCAGGGAGATAAG----ACCATATGCGATCTACTCCACTACAACTTAGA-GAGATAAGACC
* * * * ** *
23083859 TTATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGATCTATTGTTTTAATCCGCTCCACTGC
61 TGATGCAATCTACTCTACTACAACTTCAGAGAAATAAGATCTATCATTTTAATCCGCTCCACTGA
*
23083924 AACTTCAGGGAGATA
1 AACCTCAGGGAGATA
23083939 GGATTATCGG
Statistics
Matches: 240, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
129 203 0.85
132 15 0.06
133 21 0.09
134 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (125 bp):
AACCTCAGGGAGATAAGACCATATGCGATCTACTCCACTACAACTTAGAGAGATAAGACCTGATG
CAATCTACTCTACTACAACTTCAGAGAAATAAGATCTATCATTTTAATCCGCTCCACTGA
Found at i:23083767 original size:302 final size:302
Alignment explanation
Indices: 23083114--23084029 Score: 759
Period size: 302 Copynumber: 3.0 Consensus size: 302
23083104 GCAACTTCAG
* * ** * * *
23083114 GGAGATAAGATCTAATTTGATCTACTCTATTGTAACCTCAGAGAA-ATAAGATCTATTATTTTAA
1 GGAGATAAGACCTGATGCGATCTACTCTACTGAAACCTCAGA-AAGATAAGATCTATTGTTTTAA
* * * *** * *
23083178 TCCACTCCACTGAAACCTCAGGGAGATAAGATTCACCATTTTCAATCTGCTCCACTACTGCTTAG
65 TCCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTAAACCTCAA
* * *
23083243 GGAGATAAGACCTGATGCGATCTACTCTACTACAACTTCAGAGAGATAAGATCTATTGTTTTAAT
130 GGAGATAAAACCTGATGCGATCTACTCTACTACAACTTCAAAGAAATAAGATCTATTGTTTTAAT
* * * * ** * ***
23083308 CCGCTTCACTGA-AACCTCAGA-AAGATAAGATTCA-CTATTTTTGATCTGCTCCACT-ACTGCT
195 CCGCTCCACT-ACAACTTCAGAGAA-ATAAGATT-ATCGA-CTTCAATCCGCTCCACTGAAACCT
* * * * * * * * * ** *
23083369 TAGGGATATAAG----ACC-TGATGCGATCTACTCTACTGCAACTTCA
256 CAAGGAGACAAGATTCACCAT-CTTCGATCTGCTCCACTACTGCTTAA
* * * * *
23083412 GAGAGATAAGATCT-AT-TGTTTTAATCCGCTTCACTGAAACCTCAGAAAGATAAGAT-TCACTA
1 G-GAGATAAGACCTGATGCGATCT-A--CTC-T-ACTGAAACCTCAGAAAGATAAGATCT-A-T-
* * *** * ** * * **
23083474 T-TTTTGATCTGCTCCACT-ACTGCTTAGGGAGATAAGA-TCTGCTTCTTCGGTCTGCTCTGCTA
57 TGTTTTAATCCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTA
* * * * *
23083536 CAACCTCAAGGAGGTAAGACCTGATGCGATCTACTTTACTACAACTTCAGAGAGATAAGATCTAT
122 -AACCTCAAGGAGATAAAACCTGATGCGATCTACTCTACTACAACTTCAAAGAAATAAGATCTAT
* * * *
23083601 TGTTTTAATCTGCTCTACTACAACTTCAGAGAAATAAGATCTATC-ATTTTAATCCGCTCCACTG
186 TGTTTTAATCCGCTCCACTACAACTTCAGAGAAATAAGAT-TATCGACTTCAATCCGCTCCACTG
* * *
23083665 AAACCTCAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAG
250 AAACCTCAAGGAGACAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAA
* * *
23083718 GGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAAT
1 GGAGATAAGACCTGATGCGATCTACTCTACTGAAACCTCAGAAAGATAAGATCTATTGTTTTAAT
*** *
23083783 CCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTAAG
66 CCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTAAACCTCAAG
* *
23083848 GAGATAAAACCTTATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGATCTATTGTTTTAATC
131 GAGATAAAACCTGATGCGATCTACTCTACTACAACTTCAAAGAAATAAGATCTATTGTTTTAATC
* * * * * * *
23083913 CGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAAGG
196 CGCTCCACTACAACTTCAGAGAAATAAGATTATCGACTTCAATCCGCTCCACTGAAACCTCAAGG
* ** *
23083978 TGACAAGATTTGCCATCTTCGATTTGCTCCACTACTGCTTAA
261 AGACAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAA
23084020 GGAGATAAGA
1 GGAGATAAGA
23084030 TCTGCTTCTT
Statistics
Matches: 494, Mismatches: 96, Indels: 52
0.77 0.15 0.08
Matches are distributed among these distances:
297 4 0.01
298 4 0.01
299 12 0.02
300 3 0.01
301 57 0.12
302 332 0.67
303 40 0.08
304 3 0.01
305 11 0.02
306 24 0.05
307 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (302 bp):
GGAGATAAGACCTGATGCGATCTACTCTACTGAAACCTCAGAAAGATAAGATCTATTGTTTTAAT
CCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTAAACCTCAAG
GAGATAAAACCTGATGCGATCTACTCTACTACAACTTCAAAGAAATAAGATCTATTGTTTTAATC
CGCTCCACTACAACTTCAGAGAAATAAGATTATCGACTTCAATCCGCTCCACTGAAACCTCAAGG
AGACAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAA
Found at i:23083853 original size:173 final size:172
Alignment explanation
Indices: 23083330--23084244 Score: 763
Period size: 173 Copynumber: 5.3 Consensus size: 172
23083320 AACCTCAGAA
* * * * * *
23083330 AGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTTAGGGATATAAGACCTGATGCGATCT
1 AGATAAGA-TCACCATCTTCGATCTGCTCCACTACAGCTTAGAGAGATAAGACCTGATGCGATCT
* *
23083395 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTTCACTGAAACCTCAGAAA
65 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAGA
* * * *
23083460 GATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTTAGGG
130 GATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGG
** * * ** * * *
23083503 AGATAAGATCTGCTTCTTCGGTCTGCTCTGCTACAACCTCA-AGGAGGTAAGACCTGATGCGATC
1 AGATAAGATCACCATCTTCGATCTGCTCCACTAC-AGCTTAGA-GAGATAAGACCTGATGCGATC
* * * * *
23083567 TACTTTACTACAACTTCAGAGAGATAAGATCTATTGTTTTAATCTGCTCTACT-ACAACTTCAGA
64 TACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGA-AACCTCAGA
* * ** * *** * *
23083631 GAAATAAGA-TCTATCAT-TTTAATCCGCTCCACTGAAACCTCAGGG
128 GAGATAAGATTC-ACCATCTTCGATCTGCTCCACT-ACTGCTTAAGG
* *
23083676 AGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGATCT
1 AGATAAGA-TCACCATCTTCGATCTGCTCCACTACAGCTTAGAGAGATAAGACCTGATGCGATCT
*
23083741 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGGGA
65 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAGA
*
23083806 GATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTAAGG
130 GATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGG
* * * * * * * * * * **
23083849 AGATAA-A--ACCTTATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGATCT-ATTGTTTTA
1 AGATAAGATCACCATCTTCGATCTGCTCCACTACAGCTT-AGAGAGATAAGACCTGA-TG---CG
** * * * * * * * *
23083910 ATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTGTAACCTC
61 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAT-TGTTTTAATCCGCTCCACTGAAACCTC
* * ** *
23083974 A-AGGTGACAAGATTTGCCATCTTCGATTTGCTCCACTACTGCTTAAGG
125 AGA-GAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGG
** * * ** * * *
23084022 AGATAAGATCTGCTTCTTCGGTCTGCTCTGCTGCAACCTCAGAGAGATAAGACCTGATGCGATCT
1 AGATAAGATCACCATCTTCGATCTGCTCCACTAC-AGCTTAGAGAGATAAGACCTGATGCGATCT
* * *
23084087 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACTGCAACGTCAGAGA
65 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAGA
* * ** * * ** *
23084152 GATAGGATT-ATCGGCTTCAATCTGCTCCACTGCAACCTCAAGG
130 GATAAGATTCACCATCTTCGATCTGCTCCACTAC-TGCTTAAGG
** * * *
23084195 AGATAAGATTTTCCATCTTCGATCTACTCCACTTCTGCTTAGAGAGATAA
1 AGATAAGA-TCACCATCTTCGATCTGCTCCACTACAGCTTAGAGAGATAA
23084245 TATCTGCTTC
Statistics
Matches: 577, Mismatches: 139, Indels: 52
0.75 0.18 0.07
Matches are distributed among these distances:
169 22 0.04
170 13 0.02
172 55 0.10
173 393 0.68
174 59 0.10
176 31 0.05
177 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (172 bp):
AGATAAGATCACCATCTTCGATCTGCTCCACTACAGCTTAGAGAGATAAGACCTGATGCGATCTA
CTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAGAG
ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGG
Found at i:23083929 original size:346 final size:345
Alignment explanation
Indices: 23083262--23084182 Score: 985
Period size: 346 Copynumber: 2.7 Consensus size: 345
23083252 ACCTGATGCG
* ** *
23083262 ATCTACTCTACTACAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTTCACTGAAACCTCA
1 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGAAACCTCA
** * * * *
23083327 GAAAGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTTAGGGATATAAGACCTGATGCGA
66 GGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGA
*
23083392 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTTCACTGAAACCTCAG
131 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAG
* * * * * * * *
23083457 AAAGATAAGATTCACTATTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTTCTTC
196 AGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGAAC-GCTTATGC
* * * * ** * * **
23083522 GGTCTGCTCTGCTACAACCTCAAGGAGGTAAGACCTGATGCGATCTACTTTACTACAACTTCAGA
260 GATCTACTCTACTACAACCTCAAAGAAATAAGACCTGATGCAATCCACTCCACTACAACTTCAGA
* * *
23083587 GAGATAAGATCTAT-TGTTTTA
325 GAGATAAGAT-TATCGGCTTCA
*
23083608 ATCTGCTCTACTACAACTTCAGAGAAATAAGATCTATCATTTTAATCCGCTCCACTGAAACCTCA
1 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGAAACCTCA
23083673 GGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGA
66 GGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGA
23083738 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAG
131 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAG
* *
23083803 GGAGATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTAAGGAGATAA-AAC-CTTATGCG
196 AGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGAACGCTTATGCG
* * * * * *
23083866 ATCTACTCTACTGCAACTTCAAAGAAATAAGATCT-ATTGTTTTAATCCGCTCCACTGCAACTTC
261 ATCTACTCTACTACAACCTCAAAGAAATAAGACCTGA-TG---CAATCCACTCCACTACAACTTC
* *
23083930 AGGGAGATAGGATTATCGGCTTCA
322 AGAGAGATAAGATTATCGGCTTCA
* ** * * * * ** ** ** ***
23083954 ATCTGCTCCACTGTAACCTCA-AGGTGACAAGATTTGCCATCTTCGATTTGCTCCACT-ACTGCT
1 ATCTGCTCTACTACAACTTCAGA-GAGATAAGATCTATCAT-TTTAATCCGCTCCACTGAAACCT
* * ** * * ** * ** * *
23084017 TAAGGAGATAAGA-TCTGCTTCTTCGGTCTGCTCTGCTGCAACCTCAGAGAGATAAGACCTGATG
64 CAGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTAC-TGCTTAGGGAGATAAGACCTGATG
* * *
23084081 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACTGCAACGT
128 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCT
* * ** *
23084146 CAGAGAGATAGGATT-ATCGGCTTCAATCTGCTCCACT
193 CAGAGAGATAAGATTCACCATCTTCGATCTGCTCCACT
23084183 GCAACCTCAA
Statistics
Matches: 485, Mismatches: 82, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
342 1 0.00
343 34 0.07
345 43 0.09
346 395 0.81
347 12 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (345 bp):
ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATCATTTTAATCCGCTCCACTGAAACCTCA
GGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGA
TCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAG
AGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGAACGCTTATGCG
ATCTACTCTACTACAACCTCAAAGAAATAAGACCTGATGCAATCCACTCCACTACAACTTCAGAG
AGATAAGATTATCGGCTTCA
Found at i:23084084 original size:217 final size:216
Alignment explanation
Indices: 23083848--23084466 Score: 915
Period size: 217 Copynumber: 2.9 Consensus size: 216
23083838 ATTGCTTAAG
* * * *
23083848 GAGATAAAACCTTATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGATCTATTGTTTTAATC
1 GAGAT-AAACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATC
23083913 CGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAAGG
65 CGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAAGG
* * *
23083978 TGACAAGATTTGCCATCTTCGATTTGCTCCACTACTGCTTAAGGAGATAAGATCTGCTTCTTCGG
130 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCTTCTTCGG
*
23084043 TCTGCTCTGCTGCAACCTCAGA
195 TCTGCTCCGCTGCAACCTCAGA
23084065 GAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATC
1 GAGATAA-ACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATC
* * *
23084130 CGCTCCACTGCAACGTCAGAGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAAGG
65 CGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAAGG
* * * *
23084195 AGATAAGATTTTCCATCTTCGATCTACTCCACTTCTGCTT-AGAGAGATAATATCTGCTTCTTCG
130 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAAG-GAGATAAGATCTGCTTCTTCG
*
23084259 GTCTGCTCCGCTGCAACCTCAGG
194 GTCTGCTCCGCTGCAACCTCAGA
*
23084282 GAGATGAAACCTGATGCGATCTACTCTACTGCAACTTCAGATAGATAAGATCTATTATTTTAATC
1 GAGAT-AAACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATC
* * * * *
23084347 CACTCCACTGCAACTTTAGGGAGATAGGATTA-CTAGCTTCAATCTGTTCCAC--T-ACTGCTTA
65 CGCTCCACTGCAACTTCAGGGAGATAGGATTATC-GGCTTCAATCTGCTCCACTGTAAC--CTCA
* * *
23084408 AGGAGATAAGATCTGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
127 AGGAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTG
23084467 TAATTCTTCT
Statistics
Matches: 363, Mismatches: 32, Indels: 15
0.89 0.08 0.04
Matches are distributed among these distances:
214 2 0.01
216 58 0.16
217 301 0.83
218 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (216 bp):
GAGATAAACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATCC
GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAAGGA
GATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCTTCTTCGGT
CTGCTCCGCTGCAACCTCAGA
Found at i:23084150 original size:44 final size:44
Alignment explanation
Indices: 23084092--23084204 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
23084082 GATCTACTCT
* * * *
23084092 ACTGCAACTTCAGAGAGATAAGATCTAT-TATTTTAATCCGCTCC
1 ACTGCAACCTCAGAGAGATAAGAT-TATCGACTTCAATCCGCTCC
* * * *
23084136 ACTGCAACGTCAGAGAGATAGGATTATCGGCTTCAATCTGCTCC
1 ACTGCAACCTCAGAGAGATAAGATTATCGACTTCAATCCGCTCC
23084180 ACTGCAACCTCA-AGGAGATAAGATT
1 ACTGCAACCTCAGA-GAGATAAGATT
23084205 TTCCATCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
43 4 0.07
44 54 0.93
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
ACTGCAACCTCAGAGAGATAAGATTATCGACTTCAATCCGCTCC
Found at i:23084202 original size:475 final size:470
Alignment explanation
Indices: 23083092--23084182 Score: 1364
Period size: 475 Copynumber: 2.3 Consensus size: 470
23083082 TGCTTCCTCA
* * * * * * *
23083092 ATCTGCTCCGTTGCAACTTCAGGGAGATAAGATCTAATTTGATCTACTCTATTGTAACCTCAGAG
1 ATCTGCTCTGCTGCAACTTCAGAGAGATAAGATCT-ATGTGATCTACTCTACTGCAACTTCAGAG
* *
23083157 AAATAAGATCTATTATTTTAATCCACTCCACTGAAACCTCAGGGAGATAAGATTCACCATTTTCA
65 AAATAAGATCTATTATTTTAATCCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTTCA
23083222 ATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTACAACTTCAGAGA
130 ATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTACAACTTCAGAGA
* * * *
23083287 GATAAGATCTATTGTTTTAATCCGCTTCACTGAAACCTCAGAAAGATAAGATTCACTATTTTTGA
195 GATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAAAGATAAGATTCACCATCTTCGA
* * * * *
23083352 TCTGCTCCACTACTGCTTAGGGATATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAG
260 TCTGCTCCACTACTGCTTAAGGAGATAAAACCTGATGCGATCTACTCTACTGCAACTTCAAAGAA
* ** **
23083417 ATAAGATCTATTGTTTTAATCCGCTTCACTGAAACCTCAGAAAGATAAGATTCACTATTTTTGAT
325 ATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAAAGATAAGATTCACTAGCTTCAAT
* * * * * **
23083482 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTTCTTCGGTCTGCTCTGCTACAACCTCAAGG
390 CTGCTCCACTAC-GCTCAAGGAGACAAGATCTGCATCTTCGATCTGCTCCACTACAACCTCAAGG
*
23083547 AGGTAAGACCTGATGCG
454 AGATAAGACCTGATGCG
* * * * * * *
23083564 ATCTACTTTACTACAACTTCAGAGAGATAAGATCTATTGTTTTAATCTGCTCTACTACAACTTCA
1 ATCTGCTCTGCTGCAACTTCAGAGAGATAAGATCTA-TG---TGATCTACTCTACTGCAACTTCA
*
23083629 GAGAAATAAGATCTATCATTTTAATCCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCT
62 GAGAAATAAGATCTATTATTTTAATCCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCT
* *
23083694 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAG
127 TCAATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTACAACTTCAG
**
23083759 AGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTT
192 AGAGATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAAAGATAAGATTCACCATCTT
* *
23083824 CGATCTGCTCCACTATTGCTTAAGGAGATAAAACCTTATGCGATCTACTCTACTGCAACTTCAAA
257 CGATCTGCTCCACTACTGCTTAAGGAGATAAAACCTGATGCGATCTACTCTACTGCAACTTCAAA
* * ** * *
23083889 GAAATAAGATCTATTGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-A-TCGGCTT
322 GAAATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAAAGATAAGATTCACT-AGCTT
* * * **
23083952 CAATCTGCTCCACTGTAAC-CTCAAGGTGACAAGATTTGCCATCTTCGATTTGCTCCACTAC-TG
386 CAATCTGCTCCAC--T-ACGCTCAAGGAGACAAGATCTG-CATCTTCGATCTGCTCCACTACAAC
* ** *
23084015 CTTAAGGAGATAAGATCTGCTTCTTCG
447 CTCAAGGAGATAAGA-C--CTGATGCG
* * * *
23084042 GTCTGCTCTGCTGCAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
1 ATCTGCTCTGCTGCAACTTCAGAGAGATAAGATCT-ATGTGATCTACTCTACTGCAACTTCAGAG
* * * * * * **
23084107 AGATAAGATCTATTATTTTAATCCGCTCCACTGCAACGTCAGAGAGATAGGATT-ATCGGCTTCA
65 AAATAAGATCTATTATTTTAATCCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTTCA
23084171 ATCTGCTCCACT
130 ATCTGCTCCACT
23084183 GCAACCTCAA
Statistics
Matches: 525, Mismatches: 81, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
471 1 0.00
472 29 0.06
473 1 0.00
474 32 0.06
475 405 0.77
476 19 0.04
477 2 0.00
478 35 0.07
479 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (470 bp):
ATCTGCTCTGCTGCAACTTCAGAGAGATAAGATCTATGTGATCTACTCTACTGCAACTTCAGAGA
AATAAGATCTATTATTTTAATCCGCTCCACTGAAACCTCAGGGAGATAAGATTCACCATCTTCAA
TCTGCTCCACTACTGCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTACAACTTCAGAGAG
ATAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAAAGATAAGATTCACCATCTTCGAT
CTGCTCCACTACTGCTTAAGGAGATAAAACCTGATGCGATCTACTCTACTGCAACTTCAAAGAAA
TAAGATCTATTGTTTTAATCCGCTCCACTGAAACCTCAGAAAGATAAGATTCACTAGCTTCAATC
TGCTCCACTACGCTCAAGGAGACAAGATCTGCATCTTCGATCTGCTCCACTACAACCTCAAGGAG
ATAAGACCTGATGCG
Found at i:23084436 original size:44 final size:44
Alignment explanation
Indices: 23084383--23084467 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
23084373 GGATTACTAG
*
23084383 CTTCAATCTGTTCCACTACTGCTTAAGGAGATAAGATCTGTCAT
1 CTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTCAT
* *
23084427 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 CTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGT
23084468 AATTCTTCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTCAT
Found at i:23084494 original size:45 final size:44
Alignment explanation
Indices: 23084394--23084503 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
23084384 TTCAATCTGT
* * * *
23084394 TCCACTACTGCTTAAGGAGATAAGATCTGTCATCTTCGATCTGC
1 TCCACCACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTAC
*
23084438 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTTCTG-TCTAC
1 TCCACCACTGCTTAGGGAGATAAGATCTGTAA-TCTTC-GATCTAC
* *
23084483 TCCACCGCTGCTCAGGGAGAT
1 TCCACCACTGCTTAGGGAGAT
23084504 CAGGCTAGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 30 0.52
45 27 0.47
46 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
TCCACCACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTAC
Found at i:23084633 original size:44 final size:43
Alignment explanation
Indices: 23084584--23084693 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 43
23084574 ACTACTATTT
* *
23084584 AGGGAGACATGATCTA-TAATCTTCAACCTATTCCACTACTGACC
1 AGGGAGACAGGAT-TACT-ATCTTCAACCTATCCCACTACTGACC
* * **
23084628 AGGGAGATAGGATTACTATCTTCAACCTATCCCACTGCTGTTC
1 AGGGAGACAGGATTACTATCTTCAACCTATCCCACTACTGACC
* * *
23084671 AGGGAGATAGGACTAGTATCTTC
1 AGGGAGACAGGATTACTATCTTC
23084694 GATCTGCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 45 0.79
44 12 0.21
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
AGGGAGACAGGATTACTATCTTCAACCTATCCCACTACTGACC
Found at i:23084663 original size:43 final size:43
Alignment explanation
Indices: 23084602--23084693 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
23084592 ATGATCTATA
* *
23084602 ATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTACT
1 ATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTACT
* ** *
23084645 ATCTTCAACCTATCCCACTGCTGTTCAGGGAGATAGGACTAGT
1 ATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTACT
23084688 ATCTTC
1 ATCTTC
23084694 GATCTGCTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
ATCTTCAACCTATCCCACTACTGACCAGGGAGATAGGACTACT
Found at i:23086030 original size:19 final size:18
Alignment explanation
Indices: 23086002--23086037 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
23085992 TGGCCTCTCT
*
23086002 ATTTTTTTTTCTTTTTTG
1 ATTTTTTTTTATTTTTTG
23086020 ATTTATTTTTTATTTTTT
1 ATTT-TTTTTTATTTTTT
23086038 AGACTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.83
Consensus pattern (18 bp):
ATTTTTTTTTATTTTTTG
Found at i:23087037 original size:23 final size:20
Alignment explanation
Indices: 23087011--23087071 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 20
23087001 CATTTTCATA
*
23087011 TTTTTTATTTTGACTTTGATTA
1 TTTTTTATTTTGACTTT--TTC
23087033 TTTTTTAATTTTGACTTTTTC
1 TTTTTT-ATTTTGACTTTTTC
23087054 TTTTTTATTTTGA-TTTTT
1 TTTTTTATTTTGACTTTTT
23087072 TTTATTGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 5 0.14
20 7 0.19
21 8 0.22
22 6 0.16
23 11 0.30
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.74
Consensus pattern (20 bp):
TTTTTTATTTTGACTTTTTC
Found at i:23088226 original size:25 final size:25
Alignment explanation
Indices: 23088170--23088232 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
23088160 TGGAAGAAAA
*
23088170 TCCAAAAGAATGAAAGAATAATTAT
1 TCCAAAAGAATGAAAGAATAATTAC
* *
23088195 TCGAAAAGAATGAAAGAAT-ATTGGC
1 TCCAAAAGAATGAAAGAATAATT-AC
23088220 TCCAAAA-AATGAA
1 TCCAAAAGAATGAA
23088233 TGCAAAGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.54, C:0.10, G:0.16, T:0.21
Consensus pattern (25 bp):
TCCAAAAGAATGAAAGAATAATTAC
Done.