Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold462
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: 1234098
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 8 of 8
Found at i:1213283 original size:474 final size:471
Alignment explanation
Indices: 1212051--1213322 Score: 1384
Period size: 475 Copynumber: 2.7 Consensus size: 471
1212041 ACATATAGTC
* * * * * *
1212051 TTCTCTTAAAGATACGCGATATTGAAGTTTTGGTTTCACAA-AAAAGGCTTTATTCCCACCAATT
1 TTCTCATAAGGATACACGATATTGATGCTTT-GTTTTACAAGAAAAGGCTTTATT-CCACCAATT
* ** * *
1212115 TTTGTAAAGTTTAAGTTCGTGCCTCAAAATGAGATGAACATGAATTCTAGTAGTGATCTTCATTC
64 TTTGTAAAGTCTAAGTTCGTGCCT--AAATGAGACAAACATGGATTCTAGTAATGATCTTCATTC
** * *
1212180 ATTTTGTGATTAGGCACTATAAACACTTTCTCCTTATTAGGATAAATGATATTTATGATTTTTGT
127 ATTTTGTGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGATGA-TTTT-T
* * * *
1212245 TTTGTATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCTCCTAATAAGACA
190 TTTGTATGGAAATCTTTTCTTTGCCCTATTTTTCTTAAAATCAATGTTTATCTCATAATAAGACA
* * * * * * *
1212310 ACCATCAATTCCCATAATAGTCTCCATTCCTTTCAAGATTGGGAACCAAAAAGACATTCCCTTCG
255 AGCATCGATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGAACC-AAAACACATTCCCTTCA
* * * ** *
1212375 TTAAGGTACATGACATTGATGCTTTGGTGTTGTAAGAAAAGCTTTTTTTTCTATAATTTTTGATA
319 TTAAGGTACATGACATTGATGCTTTGCTGTTGCAACAAAAGCTTTACTTTCCATAATTTTTGATA
* * * * *
1212440 GAATCAAAGTTTGTCTCTTAAAAAAGACTAACATGAATACTCATACTAATCTCTATTCTTTTCAG
384 AAATCAAAGTTTGCCTCTTAAAAAAGACTAACATGAATACTCATACTAATCCCCATTCATTTCAG
* *
1212505 GATTTGGCACCATAAACATAATC
449 GATCTGGCACCATAAACATAATA
* * * * * * * **
1212528 TTCTCATTAGGACACATGATATTGGTGC-CTGGTTTCCTAAGAAAATGTG-TTT-TTCCAATAAT
1 TTCTCATAAGGATACACGATATTGATGCTTTGTTTTAC-AAGAAAA-G-GCTTTATTCCACCAAT
* * *
1212590 TTTTGTAAAGTCTATGTTCATGTGAC-AAATGAGACAAACATGGATTCTAGTAATGATCTTCACT
63 TTTTGTAAAGTCTAAGTTC--GTGCCTAAATGAGACAAACATGGATTCTAGTAATGATCTTCATT
* * *
1212654 CATTTTGGGATTAGGCACTATAAACAAATTCTCCTCATTGGGATAAATGATATTGATCATTTTTT
126 CATTTTGTGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGATGATTTTTT
* * * * * * *
1212719 CTTGCATTGAAATATTTCCTTTGCCCTATTTTTCTTAAAATCAATGTTCATCCCATGAACAAGAC
191 -TTGTATGGAAATCTTTTCTTTGCCCTATTTTTCTTAAAATCAATGTTTATCTCAT-AATAAGAC
* * * * * * *
1212784 AAGCATGGATTCTAGTAATAGTCTCCATTATTTTCTAGATTGAGAACCTAAAACACTTTCCTTTC
254 AAGCATCGATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGAACC-AAAACACATTCCCTTC
* **
1212849 ATT-AGGCTCCATGACATTGATGCTTTGCTGTTGCAACAAAAGCTTTACTTTCCATCGTTTTTGA
318 ATTAAGG-TACATGACATTGATGCTTTGCTGTTGCAACAAAAGCTTTACTTTCCATAATTTTTGA
* * * *
1212913 TAAAATCAAAGTTTGCCTCTTAAATAGGAC-ACATATGAATAGTCATACTAATCCCCATTCATTT
382 TAAAATCAAAGTTTGCCTCTTAAAAAAGACTA-ACATGAATACTCATACTAATCCCCATTCATTT
*
1212977 CAGGA-CTGGCACC-TAAGCA-AAGTA
446 CAGGATCTGGCACCATAAACATAA-TA
**
1213001 TTCTCATAAGGATACACGATATTGATGCTTTAGTTTTACAAGAAAA-GCTTCCTTCCTACCAA-T
1 TTCTCATAAGGATACACGATATTGATGCTTT-GTTTTACAAGAAAAGGCTTTATTCC-ACCAATT
* *
1213064 TTTGTAAAGTCTAAGTTCGTGCCTTAATTGAGACAAATATGGATTCTAGTAAAT-ATTCTTCATT
64 TTTGTAAAGTCTAAGTTCGTGCC-TAAATGAGACAAACATGGATTCTAGT-AATGA-TCTTCATT
* * * * *
1213128 CATTTTGTAATTAGGCATTATAATCAGATTCTCCTCATTAGGATAAATCATATTGATGATTTTCT
126 CATTTTGTGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGATGATTTT-T
* *
1213193 TTTGTATGGAAACCTTTTCTTT-CTCCTATTTTTCTTAAAATCAATGTTTATCTCTTAAATAAGA
190 TTTGTATGGAAATCTTTTCTTTGC-CCTATTTTTCTTAAAATCAATGTTTATCTCAT-AATAAGA
* * * *
1213257 CAAGCATTGATTTTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAATAACACAATCCCTT
253 CAAGCATCGATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAA-AACACATTCCCTT
1213322 C
317 C
1213323 GTCTCTTGAA
Statistics
Matches: 652, Mismatches: 120, Indels: 49
0.79 0.15 0.06
Matches are distributed among these distances:
471 5 0.01
472 4 0.01
473 81 0.12
474 240 0.37
475 262 0.40
476 26 0.04
477 25 0.04
478 8 0.01
479 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (471 bp):
TTCTCATAAGGATACACGATATTGATGCTTTGTTTTACAAGAAAAGGCTTTATTCCACCAATTTT
TGTAAAGTCTAAGTTCGTGCCTAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTT
TGTGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGATGATTTTTTTTGTA
TGGAAATCTTTTCTTTGCCCTATTTTTCTTAAAATCAATGTTTATCTCATAATAAGACAAGCATC
GATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAACACATTCCCTTCATTAAGGT
ACATGACATTGATGCTTTGCTGTTGCAACAAAAGCTTTACTTTCCATAATTTTTGATAAAATCAA
AGTTTGCCTCTTAAAAAAGACTAACATGAATACTCATACTAATCCCCATTCATTTCAGGATCTGG
CACCATAAACATAATA
Found at i:1213597 original size:393 final size:393
Alignment explanation
Indices: 1212929--1213715 Score: 946
Period size: 393 Copynumber: 2.0 Consensus size: 393
1212919 CAAAGTTTGC
* * * * *
1212929 CTCTTAAATAGGACACATATGAATAGTCATACTAATCCCCATTCATTTCAGGACTGGCACCTAAG
1 CTCTTAAATAAGACAAACATGAATAGTCATACTAATCACCATTCATTTCAGGACTGGCACCTAAA
* *
1212994 CAAAGTATTCTCATAAGGATACACGATATTGATGCTTTAGTTTTACAAGAAAAGCTTCCTTCCTA
66 CAAAGTATTCTCATAAGGATACACGATATTGATGCTTTAGTTTTACAAGAAAAGCTTCCTCCCCA
* *** * *
1213059 CCAATTTTGTAAAGTCTAAGTTCGTGCCTTAATTGAGACAAATATGGATTCTAGTAAATATTCTT
131 CC-ATTTTGT--AGTCTAAGTTCGTGCCTCAAACAAGACAAACAGGGATTCTAGTAAATATTCTT
* * * * * * *
1213124 CATTCATTTTGTAATTAGGCATTATAATCAGATTCTCCTCATTAGGATAAATCATATTGATGATT
193 CATTCATTTTATAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATCATACTAACGATT
* * * * **
1213189 TTCTTTTGTATGGAAACCTTTTCTTTCTCCTATTTTTCT-TAAAATCAATGTTTATCTCTTAAAT
258 TTCTATTGCATGGAAACCTTTTCTTTCCCCTATTTTT-TATAAAAACAAAATTTATCTCTTAAAT
* * * * *
1213253 AAGACAAGCATTGATTTTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAATAACACAATC
322 AAGACAAGCATCGATTCTCATAACAGTCACCATTCTTTTCAAGATTGGGAACCAAAAACACAATC
1213318 CCTTCGT
387 CCTTCGT
* * * *
1213325 CTCTTGAATAAGACAAACATGAATAGTCATACTAATCACCATTCTTTTCGGGATTAGGCACCCTA
1 CTCTTAAATAAGACAAACATGAATAGTCATACTAATCACCATTCATTTCAGGACT-GGCA-CCTA
* * *
1213390 AACATAGTATTCTCATAAGGATACACGATATTGATGCTTT-GCTTTGGTA-AA-AAAGGCTTTCT
64 AACAAAGTATTCTCATAAGGATACACGATATTGATGCTTTAG-TTT--TACAAGAAAAGCTTCCT
*
1213452 CCCCACC-TTGTT-T-TTCTAAAG-TCTGTGCCTCAAACAAGACAAACAGGGATTCTAGT-AATG
126 CCCCACCATT-TTGTAGTCT-AAGTTC-GTGCCTCAAACAAGACAAACAGGGATTCTAGTAAAT-
* * **
1213512 A-TCTTCATTCATTTTATGATTAGGGACTATAAACACATTCTCCTCATTAGGATAAATGGTACTA
187 ATTCTTCATTCATTTTATAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATCATACTA
*
1213576 ACGATTTTCTATTGCATGGAAATCTTTTCTTTCCCCTATTTTTTATAAAAACAAAATTTATCTCT
252 ACGATTTTCTATTGCATGGAAACCTTTTCTTTCCCCTATTTTTTATAAAAACAAAATTTATCTCT
* * * *
1213641 TAATTAAGACAAGCATCGATTCTCATAACTGTCACTATTCTTTTCAAGATTGGGAACCAAAAAGA
317 TAAATAAGACAAGCATCGATTCTCATAACAGTCACCATTCTTTTCAAGATTGGGAACCAAAAACA
*
1213706 CATTCCCTTC
382 CAATCCCTTC
1213716 ATTAGGATAC
Statistics
Matches: 332, Mismatches: 49, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
392 1 0.00
393 181 0.55
394 30 0.09
396 50 0.15
397 7 0.02
398 59 0.18
399 2 0.01
400 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (393 bp):
CTCTTAAATAAGACAAACATGAATAGTCATACTAATCACCATTCATTTCAGGACTGGCACCTAAA
CAAAGTATTCTCATAAGGATACACGATATTGATGCTTTAGTTTTACAAGAAAAGCTTCCTCCCCA
CCATTTTGTAGTCTAAGTTCGTGCCTCAAACAAGACAAACAGGGATTCTAGTAAATATTCTTCAT
TCATTTTATAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATCATACTAACGATTTTC
TATTGCATGGAAACCTTTTCTTTCCCCTATTTTTTATAAAAACAAAATTTATCTCTTAAATAAGA
CAAGCATCGATTCTCATAACAGTCACCATTCTTTTCAAGATTGGGAACCAAAAACACAATCCCTT
CGT
Found at i:1214991 original size:475 final size:475
Alignment explanation
Indices: 1213873--1215086 Score: 1451
Period size: 475 Copynumber: 2.5 Consensus size: 475
1213863 TCCCACCAAT
** * *
1213873 TTTTGTAAAGTCTAAGTTCAAGCCTCAAATGAGATAAACATGAATTCTAGTAATGATCTTCATTC
1 TTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTC
* * ** *
1213938 ATTTTGTGATTAGGCATTATAAGCACTTTCTCCTCATTAGGATAAATGATATTTATGATTTTTTG
66 ATTTTGTGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGATGA--TTTT-
* * *
1214003 TTTTGTATGGAAATCTTTTCTTTGCCCTATTTTCCTCAAAATCAAAGTTTATCTCCTAAATAAGA
128 TTTTGTATGGAAATCTTTTCTTTGCCCTATTTTTCTTAAAATCAAAGTTTATCTCATAAATAAGA
* * *
1214068 CAACCATTGATTCTCA-TAATAGTCTCCATTCCTTTCAAGATTGGGAACCAAAAAGACATTCCCT
193 CAAGCATTGATTCT-AGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCT
* * * * * *
1214132 TCATTAGGGTACATGACATTGATGCTTTGGTGTTGCAAGAAAAGCTTTTTTTTCTATAGTTTTTG
257 TCACTAGGCTACATGACATTGATGCTTTGGTGTCGCAACAAAAGCTTTTGTTTCCATAGTTTTTG
* ** * *
1214197 ATAGAATCAAAGTTTGTCTCTTAAAAAAGACTAACATGAATACTCATATTAATCTCCATTCTTTT
322 ATAAAATCAAAGTTTACCTCTTAAAAAAGACTAACATGAATACTCATACTAATCCCCATTCTTTT
* * * * *
1214262 CTAGATTTGGCACCATAAACATAATCTTCTCATTAGGACACATGATATTGGTGCCATGGTTTCAT
387 CTAGATTTGGCACCATAAACATAAGCTTCTCATAAGGACACACGATAATGATGCCATGGTTTCAT
** *
1214327 AAGAAAATGTGTTTTTCCAACAAT
452 AAGAAAATGTGTCCTTCCAACAAG
* ***
1214351 TTTTGTAAAGTCTATGTTCGTGTGACAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTC
1 TTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTC
* **
1214416 ATTTTGGGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGACCATTTTTTC
66 ATTTTGTGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGATGATTTTTT-
* * * * * *
1214481 TTGCATTGAAATCTTTCCTTTGCCCTATTTTTCTTAAAATCAAAGTTCATCTCATGAACAAGACA
130 TTGTATGGAAATCTTTTCTTTGCCCTATTTTTCTTAAAATCAAAGTTTATCTCATAAATAAGACA
* * * ** * *
1214546 AGCATGGATTCTAGTAATAGTCTCCATTATTTTCTAGATTTTGAACCTAAAACACTTTCCCTTCA
195 AGCATTGATTCTAGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCA
*
1214611 CTAGGCT-CAATGACATTGATGCTTTGTTGTCGCAACAAAAGCTTTTAGTTTCCA-ACGTTTTTG
260 CTAGGCTAC-ATGACATTGATGCTTTGGTGTCGCAACAAAAGCTTTT-GTTTCCATA-GTTTTTG
* * * *
1214674 ATAAAATCAAAGTTTACCTCTTAAATAGGAC-ACATATGAATAGTCATACTAATCCCCATTCTTT
322 ATAAAATCAAAGTTTACCTCTTAAAAAAGACTA-ACATGAATACTCATACTAATCCCCATTCTTT
* * * * ** *
1214738 TTTGGA-TTGGCACC-TAAACA-AAGCATTCTCATAAGGATATACGATAATGATGCTTTGGTTTT
386 TCTAGATTTGGCACCATAAACATAAGC-TTCTCATAAGGACACACGATAATGATGCCATGGTTTC
* * *
1214800 ATAGGAAAA-GCT-TCCTTCCTACTAG
450 ATAAGAAAATG-TGTCCTTCCAACAAG
* * *
1214825 TTTTGTAAAGTCTAAGTTCGTGCCTTAATTGAGACAAATATGGATTCTAGTAAAT-ATTCTTCAT
1 TTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGT-AATGA-TCTTCAT
* * * *
1214889 TCATTTTGTAATTAGGCACTATAATCAGATTCTCCTCATTAGGATAAATCATATTGATGATTTTC
64 TCATTTTGTGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGATGATTTT-
* * *
1214954 TTTTGTATGGAAACCTTTTCTTT-CTCCTATTTTTCTTAAAATCAATGTTTATCTCTTAAATAAG
128 TTTTGTATGGAAATCTTTTCTTTGC-CCTATTTTTCTTAAAATCAAAGTTTATCTCATAAATAAG
* * * * * *
1215018 ACAAGCATTGATTTTCGTAACAGTCTCCATTCTTTTCAAGATTGGCAACCAATAACACAATCCCT
192 ACAAGCATTGATTCTAGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCT
1215083 TCAC
257 TCAC
1215087 CTCTTGAATA
Statistics
Matches: 619, Mismatches: 105, Indels: 27
0.82 0.14 0.04
Matches are distributed among these distances:
474 58 0.09
475 221 0.36
476 164 0.26
477 69 0.11
478 107 0.17
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (475 bp):
TTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTC
ATTTTGTGATTAGGCACTATAAACAAATTCTCCTCATTAGGATAAATGATATTGATGATTTTTTT
TGTATGGAAATCTTTTCTTTGCCCTATTTTTCTTAAAATCAAAGTTTATCTCATAAATAAGACAA
GCATTGATTCTAGTAATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCAC
TAGGCTACATGACATTGATGCTTTGGTGTCGCAACAAAAGCTTTTGTTTCCATAGTTTTTGATAA
AATCAAAGTTTACCTCTTAAAAAAGACTAACATGAATACTCATACTAATCCCCATTCTTTTCTAG
ATTTGGCACCATAAACATAAGCTTCTCATAAGGACACACGATAATGATGCCATGGTTTCATAAGA
AAATGTGTCCTTCCAACAAG
Found at i:1216042 original size:159 final size:158
Alignment explanation
Indices: 1215874--1216520 Score: 380
Period size: 159 Copynumber: 4.1 Consensus size: 158
1215864 TAAATTGGGA
*
1215874 ACCAAAAACACATTCCCTTCATTAGGATAAATGACATTGATGCTTTGGTGTCGTAAGAAAAGCTT
1 ACCATAAACACATTCCCTT-ATTAGGATAAATGACATTGATGCTTTGGTGTCGTAAGAAAAGCTT
* *
1215939 TTCACTCCACCATTTCTAATAGAATCAAAGTTTGCCTCTTAAATAGGACAAACATGAATACTCAT
65 TTCACTCCACCATTTCTAATAAAATCAAAGTTTGCCTCTCAAATAGGACAAACATGAATACTCAT
*
1216004 ACCAATCCCTATTCTTTTTAGGATTAGGC
130 AACAATCCCTATTCTTTTTAGGATTAGGC
* *** * * * * * *
1216033 ACCATAAACATAGTCTTCCCTTGA--A-GATATGCGATATTGATGTTTTGGTTTTGCAAGAAAGG
1 ACCATAAACACA---TTCCCTT-ATTAGGATAAATGACATTGATGCTTTGGTGTCGTAAGAAAAG
* ** * * *** * *
1216095 CATTTT-TC-CCACCAATTT-TTGTAAAGTCTAAGTTTGTGACTCAAAT-GAGACAAACTTGGAT
62 C-TTTTCACTCCACC-ATTTCTAATAAAATCAAAGTTTGCCTCTCAAATAG-GACAAACATGAAT
* * * * *
1216156 TCT-AGTAACGAT-CTTCATT-TATTTTATGATTACGC
124 ACTCA-TAACAATCCCT-ATTCT-TTTTAGGATTAGGC
* * * * * ** * * * * *
1216191 ACTATAAACACTTTCTCCTTATTATAGGATAAATGATACTGATGATTTTCTTTTGTATGGAAATC
1 ACCATAAACACATTC-CCTTA-T-TAGGATAAATGACATTGATGCTTTGGTGTCGTAAGAAAAGC
** ** * * *
1216256 TTTTCTTTGCC-TTATTTTCCT--TAAAATCAAAGTTCAT-CC-CTTAAATAAGATAAGA-ATCG
63 TTTTCACT-CCACCA-TTT-CTAATAAAATCAAAGTT--TGCCTCTCAAATAGGACAA-ACAT-G
* * * * * * * *
1216315 -AGAC-CTGTAACAATCTCTATTC-CTTCACAGATTGGGA
121 AATACTC-ATAACAATCCCTATTCTTTTTA-GGATTAGGC
* *
1216352 ACCA-AAAGCACATTCCCTTTATTAGGATATATGACATTGATGCTTTGTTGTCGTAAGAAAAGCT
1 ACCATAAA-CACATTCCC-TTATTAGGATAAATGACATTGATGCTTTGGTGTCGTAAGAAAAGCT
*
1216416 TTTCACTCCACCGTTTCTAATAAAATCAAAGTTTGCCTCTCAAATAGGACAAACATGAATACTCA
64 TTTCACTCCACCATTTCTAATAAAATCAAAGTTTGCCTCTCAAATAGGACAAACATGAATACTCA
* *
1216481 TACCAATCCCCATTCTTTTTAGGATTAGGC
129 TAACAATCCCTATTCTTTTTAGGATTAGGC
1216511 ACCATAAACA
1 ACCATAAACA
1216521 TAGCCTTCTC
Statistics
Matches: 346, Mismatches: 99, Indels: 86
0.65 0.19 0.16
Matches are distributed among these distances:
155 4 0.01
156 4 0.01
157 8 0.02
158 75 0.22
159 138 0.40
160 49 0.14
161 53 0.15
162 13 0.04
163 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (158 bp):
ACCATAAACACATTCCCTTATTAGGATAAATGACATTGATGCTTTGGTGTCGTAAGAAAAGCTTT
TCACTCCACCATTTCTAATAAAATCAAAGTTTGCCTCTCAAATAGGACAAACATGAATACTCATA
ACAATCCCTATTCTTTTTAGGATTAGGC
Found at i:1222269 original size:476 final size:472
Alignment explanation
Indices: 1215600--1225510 Score: 10301
Period size: 476 Copynumber: 20.9 Consensus size: 472
1215590 ATATGGAAGT
* * *
1215600 TTTGGTTTCACAAAAAAGGCATTATTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
** * * * *
1215665 GAGATGAACATGAATTCTAGTAATGATCTTTATTTATTTTGTGATTAGGCACTATAAACACTTTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* *
1215730 TCCTCATTAGGATAAATGATACTGATGATTTTCTTTTGCTTGGAAATCTTTTCTTTGGCCTATTT
131 TCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTT
* * * * *
1215795 TCTTTAAAATCAAAGTTCATCTCT-TAAATAAGACAAGAATCGATTGCT-GTAACAATCTCTATT
194 TCCTTAAAATCAAAGTTCATC-CTATAAATAAGACAAGCATCGATT-CTCATAACAGTCTCCATT
** * *
1215858 -CCTTCATAAATTGGGAACCAAAAACACATTCCCTTCATTAGGATAAATGACATTGATGCTTTGG
257 ATTTTCA-AGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGG
* ** * *
1215922 TGTCGTAAGAAAAGCTTTTCACTCCACCATTTCTAATAGAATCAAAGTTTGCCTCTTAAATAGGA
321 TGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGA
* * * * *
1215987 CAAACATGAATACTCATACCAATCCCTATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCC
386 CAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-T
* * ** * *
1216052 CTTGAAGATATGCGATATTGATGT
450 CAT-AGGATACACGATATTGGTGC
** * * *
1216076 TTTGGTTTTGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGACTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * * * *
1216141 GAGACAAACTTGGATTCTAGTAACGATCTTCATTTATTTTATGATTACGCACTATAAACACTTTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* *
1216206 TCCTTATTATAGGATAAATGATACTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCTTAT
131 TCC-TA-T-TAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTAT
* * ** * * *
1216271 TTTCCTTAAAATCAAAGTTCATCCCT-TAAATAAGATAAGAATCGAGAC-CTGTAACAATCTCTA
192 TTTCCTTAAAATCAAAGTTCAT-CCTATAAATAAGACAAGCATCGATTCTC-ATAACAGTCTCCA
** * * *
1216334 TT-CCTTCACAGATTGGGAACCAAAAGCACATTCCCTTTATTAGGATATATGACATTGATGCTTT
255 TTATTTTCA-AGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTT
* * ** * * * * *
1216398 GTTGTCGTAAGAAAAGCTTTTCACTCCACCGTTTCTAATAAAATCAAAGTTTGCCTCTCAAATAG
319 GGTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAG
* * * *
1216463 GACAAACATGAATACTCATACCAATCCCCATTCTTTTTAGGATTAGGCACCATAAACATAGCCTT
384 GACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT
* * * ** *
1216528 CTCTTAAAGATACACAATATTAATGT
449 -TCAT-AGGATACACGATATTGGTGC
** * * * * * *
1216554 TTTGGTTTTGCAAGAAAGGCATTGTTCCCACCAAATTTTGTAAAGTTTAAGTTTGTGACTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * * *
1216619 GTGACAAACTTGGATTCTAGTAATGATCTTCATTCATTTTATGATTACGCACTATAAACACTTTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* * *
1216684 TCTTTATTATAGGATAAATGATACTGAAGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTAT
131 TC-CTA-T-TAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTAT
* ** * *
1216749 TTTCCTTAAAATCAAAGTTCATCCCT-TAAATAAGACAAGCATCGAATCTTGTAACAATCTCTAT
192 TTTCCTTAAAATCAAAGTTCAT-CCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCAT
* ***
1216813 TATTGTT-AGGATTGGGAATGTAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTG
256 TATT-TTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTG
* * * *
1216877 GTGTCGCAAGAAAAGCTTTTCTTTCAACTATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
320 GTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGG
* * * * *
1216942 ACAAACATGAATAGTCAAACTAATCCCTATTATTTTCAGGATTAGTCACCATAAACACAGTCTTC
385 ACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-
*
1217007 TCATAAGGATACATGATATTGAG-GC
449 TCAT-AGGATACACGATATTG-GTGC
* * * * *
1217032 TTTGGATTCACAAAAAAGGCTTTTTTCCCTCCAATATTTGTAAAGTCTAAGTTTGTGCCTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * * * *
1217097 GAGACAAATATAGATTCTAGTAATGCTCTTCTTTCATTTTATGATTAGGCACTATAAACACACTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* *
1217162 TCCTCATTAGGATAAATGATATTGATGATTTT-TATTTGCATGGAAATCTTTTCTTTGCCCAATT
131 TCCT-ATTAGGATAAAT-ATACTGATGATTTTCT-TTTGCATGGAAATCTTTTCTTTGCCCTATT
* * * * * * *
1217226 TGCCATAAAATCAAAATTCATTCCT-TAAATAAGACATGCATTGATTCTCGTAATAGTCT-CATT
193 TTCCTTAAAATCAAAGTTCA-TCCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATT
* * * * * * * *
1217289 CTTTCCAACATTGGGAACTAAAAACACATTCCTTTCATTAGGATACAAGACATTAAAGCTTTGGT
257 ATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGT
* * * * * * *
1217354 GTCACAAGAAAAGCTTTTATTTTCACCGTTTTTAATAGAATCAAAGTTTGTCTCTTAAATAAGAC
322 GTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGAC
* ** *
1217419 AAACATAAATAGTCATACTAATCCTTATTCTTTTCAAGATTAGGCACCATAAACATAG---TTC-
387 AAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTTCA
* *
1217480 -----T-CTC-ATA----AGC
452 TAGGATACACGATATTGGTGC
* * * * *
1217490 TTTGGTATC-CTAAGAAAGGCTTTCTTCCCACCAATTTTTATAAAGCCTAAGTTCATGCCTCAAA
1 TTTGGTTTCAC-AAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAA
* *
1217554 TGAGACAAATATGGATTCTAGTAACGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATT
65 TGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATT
* * * * *
1217619 CTCCTCATTAGGATGAATAACACTAATGATTTTCTTTTGCATTGAAATCTTTTCTTTGTCCTATT
130 CTCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATT
* * *
1217684 TTCCTTAAAATCATAGTTCATCTCT-TAAATAAGACAAGCATCAATACTCA-AAGCAGTCTCACA
193 TTCCTTAAAATCAAAGTTCATC-CTATAAATAAGACAAGCATCGATTCTCATAA-CAGTCTC-CA
* * * * *
1217747 -T-TTTT-AGGATTAGGAACCTAAAACATATTCCCTTTATTAGGATACATGACATTGATGCTTTG
255 TTATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTG
* * * ** * *
1217809 GTGTAGCAAGAAAAGCTTTT-TTT-CGCCATTTTTGATAGAATCAAAATTTATCTCTCAAAATAA
320 GTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCT-TAAATAG
* * * *
1217872 GACAAACATGAATAGTCATGCTAATCCCCATTCCTTTCAGGATTAGGCATCATAAATATAGTCTT
384 GACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT
* * * * *
1217937 CACATAAAGATATATGATATTGATGC
449 -TCAT-AGGATACACGATATTGGTGC
* * * * * *
1217963 TTTAGTTTCGCAAGAAAGGGTTTTTTCCCACCAAGTTTTGTAAAATCTAAGTTTGTGCCTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * *
1218028 GAGACAAACATTGATTCTAGTAATGATCTTCATTCATTTTGTGATTAAGCACTACAAACACATTA
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
*
1218093 TCCTCTTTAGGATAAATGATACTGATGATTTT-TTATTGCATGGAAATCTTTTCTTTGCCCTATT
131 TCCT-ATTAGGATAAAT-ATACTGATGATTTTCTT-TTGCATGGAAATCTTTTCTTTGCCCTATT
* * * * * * * *
1218157 TTCCTTAAAATAAAACTCCATCCCT-TTAATAAGACATGAATCAATTCTCGTAACAGTCTCCATT
193 TTCCTTAAAATCAAAGTTCAT-CCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATT
* * * * *
1218221 GTTTCCAAGATTGGGAACGAAAAACACATTCCCTTCCA-TAGGATGCAAGA-ATTTGATGCTTTG
257 ATTTTCAAGATTGGGAACCAAAAACACATTCCCTT-CATTAGGATACATGACA-TTGATGCTTTG
* *
1218284 GTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTAATAGAATCAAAGTTTGCATCTTAAATAGG
320 GTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGG
* * *
1218349 A-AAACATGAATAGTCATATTAATCCCCATTCTTTT-TGGAATTAGGCACCATAAACATAGTTTT
385 ACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGG-ATTAGGCACCATAAACATAGTCTT
** *
1218412 CTCATTAGGATGTACTATATTGGTGCC
449 -TCA-TAGGATACACGATATTGGTG-C
* * * * * *
1218439 ATT-GTTTCACAAGAAAAGATTTTTTCCCACTAATTTTTGTAAAGTCTAAATTCGTGCATCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
*
1218503 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTG
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* * * * * *
1218568 TCCCCAATAGGATAAA-AGA-T-ATTGATTTTTTTTTGCATGGAAATCTTTCCTTTGCCATATTT
131 T-CCTATTAGGATAAATATACTGA-TGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTT
* * * * *
1218630 TACATAAAATCAAAGTTTA-CCTATTAAATAAGACAAGCATCGATTCTCATAACAGTCTCTATTC
194 TCCTTAAAATCAAAGTTCATCCTA-TAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTA
* * ** *
1218694 GTTTCAAGATTGGGAACCAGAAAGGCATTCCTTTCATTATGG-TACATGACATTGATGCTTT-G-
258 TTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTA-GGATACATGACATTGATGCTTTGGT
* ** * * *
1218756 GT-----G---AGCTTTTCTTTCCACAATTTTTGATAGAATCAAAGTTTATCTCTTAAAAAAGAT
322 GTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGAC
* ** * * * * * *
1218813 GAACATGAATACACATACTAATCACCACTCTATTCAAGATTAGGCACTATAAACAAAGTCTTCTC
387 AAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-TC
*
1218878 ATTAGGATACATGATATTGGTGC
451 A-TAGGATACACGATATTGGTGC
** * * * * * *
1218901 CATGGTTTCACAAGAAAAGATGTTTTCCCACCAAATTTTGTAAAGTCTAAGTTCATGCCACAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* ** * *
1218966 GAGACAAACATAG-TT-T-CCAATGATCTTCATTCATTTTG-GCATTAGGCATTATAAACATATT
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTG-ATTAGGCACTATAAACACATT
* * *
1219027 CTCCTTATTAGGATAAATGATATTGATGATTCT-TTTTGCATGGAAATCTTTCCTTTGCCCTATT
130 CTCC-TATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATT
* * * * * * ** **
1219091 TTTCTTAAAATCAAAGTTCATCCCATAAATAACAGAAGCATGGATTCTCGTAGTAGTCTCTGTTA
193 TTCCTTAAAATCAAAGTTCATCCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTA
* * * * * * *
1219156 TTTTCATGATTGGGAACCTAAAACACATTCCCTTCATTAGGTTCCATGATATTGATACTTTAGTG
258 TTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTG
* * * * * * **
1219221 TCGCAATAAAAGCTTTACTTTCCATCGTTTTTTATAAAATCAAAGTTCACCTCTTAAATAGGACA
323 TCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGACA
* * *
1219286 AACATGAATAG-CTATACTAATCCCCATTCTATTCAGGATTAGGCACC-TAAACAAAGTGTTCTC
388 AACATGAATAGTC-ATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-TC
* * * *
1219349 ATAAGGGTAAACAATATTGATGC
451 AT-AGGATACACGATATTGGTGC
* ** * *
1219372 TTTGGTTTCGCAAGAAAGGCTTTCTTT-TTACCAATTTTTGCAATGTCTAAGTTCGTGCCTCAAA
1 TTTGGTTTCACAAGAAAGGCTTT-TTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAA
* * * * *
1219436 TGAAACAAATATGGATTCTAGTAATAATCTGCATTCATTTTTTGATTAGGCACTATAAACACATT
65 TGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATT
* * * * * *
1219501 CTCCT-TGCTAGGATTAATGATATTAATGATTTTCTTTTGTATGAAAATCTTTTCTTTCCCCTAT
130 CTCCTAT--TAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTAT
* * *** **
1219565 TTTCCATAAAATCAAAATTCATCTCT-TAAATAAGGTGA-CATCGATTCTTGTAACAGTCGT-CA
192 TTTCCTTAAAATCAAAGTTCATC-CTATAAATAAGACAAGCATCGATTCTCATAACAGTC-TCCA
* * *
1219627 TTATTTTCAAGATTGGGAACCAAAAACACAGTCCCTTCATTATGATACTTGACATTGATGCTTTG
255 TTATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTG
** * * *
1219692 GTGTCGCAAGAAAAGCTTTTCTTTCCATTATTTTTGGTAGAATCAAAGTTTGTCTCTTAAATAAG
320 GTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGG
* * * ** * * *
1219757 ATACACATGAATAGTCATACTAATCACCATTCTTTTTGGGATTAGGCTCCCTAAACATAGTATTC
385 ACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-
* *
1219822 TCATAAAGATACACGATATTGTTGC
449 TCAT-AGGATACACGATATTGGTGC
** * * ** *
1219847 TTTACTTTCACAAAAAAGGCTTTCTTCCCACCCTTTTTATTTAAAGTCTAAGTTCGTGCCTTCAA
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTT-TGTAAAGTCTAAGTTCGTGCC-TCAA
* *
1219912 A-GAGACAAATATGGATTCTAGTAATGATTTTCATTCATTTTGTGATTAAGG-ACTATAAACACA
64 ATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATT-AGGCACTATAAACACA
* * * * * *
1219975 TTTTCTTCATTAGGATAAATGATACTGACGATTTTCTTTTGCGTGAAAATCTTTTTTTTGCCCTA
128 TTCTCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA
* * * * * * *
1220040 TTGTCCTTAAAGTGAAAGTT--TCTCT-CAAATAAGACAAGCATCGATCCTCGTAACAGTCTCTA
191 TTTTCCTTAAAATCAAAGTTCATC-CTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCA
* * * *
1220102 TTTTTTTTTCAAGATTGGGAACCAAAAACACAATCCCTTCATTAGGATACAGGACATCGATGCTT
255 --TTATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTT
* *** * *
1220167 TGATGTTATAAGAATAGCTTTTCTTTCCACTC-TTTTTGATAGAATCAAAGTTTGCATCTTAAAT
318 TGGTGTCGCAAGAAAAGCTTTTCTTTCCAC-CATTTTTGATAGAATCAAAGTTTGCCTCTTAAAT
* * * * *
1220231 AGGATAAATATGAATAGTCATATTAATCCCTATTCTTTT-TGAGATTAGGCACCATAAACATAGT
382 AGGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAG-GATTAGGCACCATAAACATAGT
* *
1220295 CTTCCCATTAGGATACACGATATAGGTGC
446 CTT-TCA-TAGGATACACGATATTGGTGC
** * * * *
1220324 CATGGTTTCACAAGAAAGGATTTTTTTGCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAT
1 TTTGGTTTCACAAGAAAGG-CTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAA
* *
1220389 TGAGACAAACATAGATTCTAGTAATGATATTCATTCATTTTGTGATTAGGCACTATAAACACATT
65 TGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATT
* * * * * **
1220454 CTCCTTAGTAGGATAAATATTATTGATGAATTTCTTTTGGATGAAAATCTTTTCTTTGCCAAATT
130 CTCC-TATTAGGATAAATA-TACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATT
* * * * * * *
1220519 TTCCTTAAAGA-AAAATTTCATCCTAGAAATAAGA-TAGCCATCGATTCTCATATCTGTCACCAT
193 TTCCTTAAA-ATCAAAGTTCATCCTATAAATAAGACAAG-CATCGATTCTCATAACAGTCTCCAT
* * * *
1220582 TATTTTCAGGATTGGGGACCTAAAACACATTCCCTTCATTAGGATACATGACATTAATGCTTTGG
256 TATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGG
* *
1220647 TGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGGTAGAATCAAAGTTTGCCTCTTAAATAGGC
321 TGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGA
* * * *
1220712 CAAACACGAATAGTCATACTAATCCCCATTATTTTTAGGATTAGGCACCATAAACATAGTCTTCG
386 CAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-T
* * **
1220777 CATAAGTATGCACGATATTGGCAC
450 CAT-AGGATACACGATATTGGTGC
* *
1220801 TTTGGTTTCACAAGAAAGGCTTTATTCCCACCAATTTTTGTAAA-TCTCAGTTCGTGCCAT-AAA
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCC-TCAAA
* * * *
1220864 TGAGACAAACATGGATTGTAGTAATGATCTTTACTCATTTTGTGATTAGACACTATAAACACATT
65 TGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATT
* * * * *
1220929 CTCCTCATTGGGATAAATGATAGTGATGATTTTCTTTTGCATGAAAATCTTTTCTTCGCCCGATT
130 CTCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATT
* * *
1220994 TTCTTTAAAATCAAAGTTCATCCCATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTC
193 TTCCTTAAAATCAAAGTTCATCCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTA
* * * * *
1221059 TTTCCAGGATTGGGAACCAATAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTAGAG
258 TTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTG
* * * * * * *
1221124 TCGTAAGAAAAGCTTTTCATGCCACCATTTGTGACATAATCAAAGTTTGCCTCTTAAATTGGACA
323 TCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGACA
* * * * * *
1221189 AACATCAATAGTCATACTAATCCCCATTATTTTTAGGATTAGGCAGCATAAAAATAGTCTTCGCA
388 AACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-TCA
*
1221254 TAAGTATACACGATATTGGTGC
452 T-AGGATACACGATATTGGTGC
* * * * *
1221276 TTTGGTTTCGCAAAAAAGGCTTTTTTCCTACCAATTTTTGTAAAGTCTAA-TTTGTGTCTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
*
1221340 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACTTTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* * *
1221405 TCCTCATTAGGATAAATGATGCTAATGATTTTTTTTTTTGCATGGAAATCTTTTCTTT-CCCTAT
131 TCCT-ATTAGGATAAAT-ATACTGATGA--TTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTAT
* * * * * * * * * * *
1221469 TTTTCTTAAAGTCAAGGTTTATCTCT-TAAATAAGAGAAGAATTGATTCTCCTAACAATATCTAT
192 TTTCCTTAAAATCAAAGTTCATC-CTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCAT
** * ** * * *
1221533 TCCTTCCCTGATTGGGAACCAAAAACATATTTCCTTCATTATGATACATGACATTGATGCTTTGG
256 TATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGG
* * *** *** * * * * * * *
1221598 TGTCGTAAAAAAAGCTTTTTCACCCCACGGCTTCTAAAAAAATCGAAGTTTGCATCATAAATAGG
321 TGTCGCAAGAAAAGC-TTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGG
* * *
1221663 ACAAACATGAATAGTCATATTAATCTCCATTCTTTTCGGGATTAGGCACCATAAACATAGTCTTC
385 ACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-
* * *
1221728 TCATTATGATGCATGATATTGGTGC
449 TCA-TAGGATACACGATATTGGTGC
** * *
1221753 CATGGTTTCACAAGAAAAGATTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* *
1221818 GAGACAAACATGGATTCTAGTAATGATATTCATTCATTTTGTGGTTAGGCACTATAAACACATTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* ** *
1221883 TCCCTAGTAGGATAAATATTTTTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCAATTT
131 T-CCTATTAGGATAAATA-TACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTT
* * * * *
1221948 TCCTTAAAGTCAAAGTTCATCCTATAAATAAAACAAGCATCGATTCTCGTCACGGTCTCCATTAT
194 TCCTTAAAATCAAAGTTCATCCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTAT
* * *
1222013 TTTCAGGATTGGGAACCAAAAACACATTCCCTTCATTAGGCTACATGACATTGATGTTTTGGTGT
259 TTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGT
* * * * * *
1222078 CACAAAAAAAGATTTTCTTTCCACCGTTTTTTATAGAATCAAAGTTTACCTCTTAAATAGGACAA
324 CGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGACAA
* * * * *
1222143 ACATGAATAGTCATACTAATCCCCATTATTTTCAAGATTAGGCACCAAAAACGTAATCTTTGCAT
389 ACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTT-CAT
* **
1222208 AGGTCTACACGATATTGGTAT
453 AGG-ATACACGATATTGGTGC
* * *
1222229 TTTGGTTTCGCAAGAAAGGCTTTTTTCCTACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* *
1222294 GAGACAAACATGGTTTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCA-TAATAAACACTTT
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACT-ATAAACACATT
* * * *
1222358 CTCCTCTTTAGGATAAATGATGCTGAAGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATT
130 CTCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATT
* * * * * * *
1222423 TTCCTTAAAATCAAAGTTCATCTCT-TAAATATGAGAAGAATCGACTGTCATAATAATCT-C--T
193 TTCCTTAAAATCAAAGTTCATC-CTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATT
* * * *
1222484 A---T-----TTGGGAACCAAAAACACATTCCCTTTATTATGTTACATTG-CATTGATGCGTTGG
257 ATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACA-TGACATTGATGCTTTGG
** ** ** * * * *
1222540 TGTTACAAGAAAAGCTTTTCACTCCACTGTTTCTAAAAAAATCAAAGTTT-CCATCTTAAATAGG
321 TGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCC-TCTTAAATAGG
* * * * * *
1222604 ATAAACATGAATAATCATATTAATCTCCATTCTTTTCGGGATTAGGCACTATAAACATAGTCTTC
385 ACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-
1222669 TCATTAGGATACACGATATTGGTGC
449 TCA-TAGGATACACGATATTGGTGC
** * * * *
1222694 CATGGTTTCACGAGAAAAGATTTTTTCCCACCAATTTTTCTAAAGTCTAAGTTCGTGCCTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * * *
1222759 GAGACAAACATGGTTTCTAGTAATGATATCCATTCATTTTGTGGTTAGGCACTATAAACATATTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* * ** * *
1222824 TCCTTAGTAAGATAAATATTTTTGATGATTTTTTTTTGCATGGAAATCTTTTCTTTGCCCAATTT
131 TCC-TATTAGGATAAATA-TACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTT
* * *
1222889 TCCTTAAAGTCAAAGTTCATCCTATAAATAAGATAAGCATCGATTCTCATAACTGTCTCCATTAT
194 TCCTTAAAATCAAAGTTCATCCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTAT
* * *
1222954 TTTCAAGATTGGGAACCTAAAACACATTCCCTTCATTAGGATACATGACATTGATCCTTTGGTGC
259 TTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGT
* * *
1223019 CGTAAGAAAAGCTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGCCTTTTAAATAGGATGC
324 CGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGA--C
* * * *
1223084 -ACCA-GAATAGTCATACTAATCCTCATTCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTT
387 AAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-TC
*
1223147 ATAAGGATACGA-GATATTAGTGC
451 AT-AGGATAC-ACGATATTGGTGC
* * * * * * ***
1223170 TTTAGTTTCACAAGAAAGGCTTTTTTCTCTCTAATTTTTGTAAAGTTTATGTTCGTGAAACAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
*
1223235 GAGACAAACATGGATTCTAGTAATGATCTTCACTCATTTTGTGATTAGGCACTATAAACACATTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* * *
1223300 TCCTCAATAGGATAAATAATACTGGTGATTTTCTTTTGCATAGAAATCTTTTCTTTGCCCTATTT
131 TCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTT
* * * *
1223365 TTCTTAAAATCAAAGTTCAT-CTCATAAATAAGACAAGCATCGATTCTCATAACAGTTTTCATTC
194 TCCTTAAAATCAAAGTTCATCCT-ATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTA
* ** * * * * * *
1223429 TTTCCTCGATTGGGAGCCAAAAACACATTCGCTTCGTTAGGATACATGACACTGACGCTTTGGTA
258 TTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTG
* * * *** * * ** * *
1223494 CCGCAAGAAATGTTTTTCTTTCCATTGTTGTTCATAGAATCAAAGTTTTTCTCTTGAATAAGACA
323 TCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGACA
* * * * *
1223559 AACATGAATAGTCACACTAATCACCATTCTTTTTC-GGATTAGGAACCCTAAACATAGTATTCTC
388 AACATGAATAGTCATACTAATCCCCATTC-TTTTCAGGATTAGGCACCATAAACATAGTCTT-TC
* *
1223623 ATAAGGATACATGATATTGATGC
451 AT-AGGATACACGATATTGGTGC
* ** * * * *
1223646 TTTGTTTTTTGCAAAAAAGGCTTTCTTCCCCCCATTTTTTAGTAAAGTCTAAG-TCTGTGCCTCA
1 TTTG-GTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTT-GTAAAGTCTAAGTTC-GTGCCTCA
* * * * * *
1223710 AACGAGGCAAATATGGATTCTATTAATGATCTTCATTCATTTTGTGATTAGGGACGATAAACACA
63 AATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * * * * *
1223775 TTCTCCTCTTTAGGATAAATGGTACTGACGATTTCCTTTGGCATGGAAATCTTTTCTTTGCCTTA
128 TTCTCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTA
* * * * * *
1223840 TTTTCCTTAAAATCACAGTTTATCTCT-CAAATAAAATACA-CATCAATTCTCATAACAGTCTCC
191 TTTTCCTTAAAATCAAAGTTCATC-CTATAAATAAGACA-AGCATCGATTCTCATAACAGTCTCC
* * * * * *
1223903 ATTCTTTTCAAGATTGGGAACCAAAAACGCATTCCCTTCATTAGCATACAAGACATTCATGCCTT
254 ATTATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTT
* * * * * *
1223968 GGTGCCGCAAGAATAGCTTTTAC-TTCCACCGTTTTTGATAGATTCAAAGTTTTCATCTTAAATA
319 GGTGTCGCAAGAAAAGCTTTT-CTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATA
* * * * * ***
1224032 AGAAAAACATGTATAGTCATATTAAGCCCCATTCCAATC-GAGATTAGGCACCATAAACATAGTC
383 GGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAG-GATTAGGCACCATAAACATAGTC
1224096 TTCTCATTAGGATACACGATATTGGTGC
447 TT-TCA-TAGGATACACGATATTGGTGC
** * * *
1224124 CATGGTTTCACAAGAAATGATTTTTTCCTACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* *
1224189 TAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGTTTAGGCACTATAAACACATTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* * * *
1224254 TCCTCAATAGGATAAATATTATTGATAATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCAATTT
131 TCCT-ATTAGGATAAATA-TACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTT
* * * * * * *
1224319 TCCTTAAAGTCAAAGTTTATCCCATAAATAAGACAAGCATCGATTCTCTTAGCTGTCTCCAGTAT
194 TCCTTAAAATCAAAGTTCATCCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTAT
* * * * * *
1224384 TTTCAGGATTGGAAACCTAAAACATATTCCCTTTATTAGGATACATGACATTGATGCTTTGGAGT
259 TTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGT
* * * * *
1224449 TGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATGGAATTAAAGTTTGCCTCTGAAATAGGATAA
324 CGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGACAA
* * * * * *
1224514 ACATAAATAGTCATATTAATCCGCATTATTTTTAGGATTAGGCACCATAAACATAGTCTTCGCAT
389 ACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-TCAT
* *
1224579 AAGTATACACAATATTGGTGC
453 -AGGATACACGATATTGGTGC
* * ** * ** *
1224600 TTTGGTTTCGCAAGAAAGGCTTTATTCCCATAAATTTTTCTAAAGTCTAAGTTTTTGCCACAAAT
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * * * *
1224665 GAGATAAATATGGATTTTAGTAATGATCTTCACTCAATTTGTGATTAGGAACTATAAACACATTC
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* * * * *
1224730 TCCTCATTAGGACAAATGATACTAATGATTTTCTTTTGGATGGAAATCTTTTCTTT-ACTTGATT
131 TCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT-ATT
* * *
1224794 TTTCTTAAAATCAAAGTTCATCCCATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTC
193 TTCCTTAAAATCAAAGTTCATCCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTA
* * * * * * *
1224859 TTTCCAAGATTGGGAACTAATAACACGTTCCCTTTATTAGGATACATGAAATTGATGCTTTAGTG
258 TTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTG
** * ** * * * * * *
1224924 TCATAAAAAAAGCTTTTCACTCCACCATTTGTGACATAATAAAAGTTTCCCTTTTAAATAGGACA
323 TCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGACA
* ** * * *
1224989 AACATGAATAGTAATACTAATCCCCATTCTTTTTGGGATTGGGCACCGTAAACATAGTCTTCACA
388 AACATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTT-TCA
*
1225054 TAAGGATACACGATATTGATGC
452 T-AGGATACACGATATTGGTGC
* ** * * * * *
1225076 TTTAGTTTGGCAAGAAAGGGTTTCTTCCCACCAATTTTGGTAAAATCTAAGTTCGTGCCTCAAAC
1 TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
* * * * * * *
1225141 GAGGCAAATATAGATTCTAGTAATGATCTTCATTCATTTTATGGA-TAGGGAATATAAACACTTT
66 GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGT-GATTAGGCACTATAAACACATT
* * * * * *
1225205 CTCCTCATTAGGATAAATGGTACTAACGATTTTCCTTTACATGGAAATCTTTTCGTTGCCCTATT
130 CTCCT-ATTAGGATAAAT-ATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATT
* * * * *
1225270 TTTCTTAAAATTAAAGTTTAT-CTTTCAAATATGACAAGCATCGATTCTCATAACAGTCT-CATT
193 TTCCTTAAAATCAAAGTTCATCCTAT-AAATAAGACAAGCATCGATTCTCATAACAGTCTCCATT
* * * *
1225333 CTTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACAAGACACTAATGCTTTGGT
257 ATTTTCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGT
* * * *
1225398 GTCGCAAGAATAGTTTTTCTTTCCACCCTTTTTGATAGAATCAAAGTTTGCATCTTAAATAGGAC
322 GTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGAC
* * * *
1225463 AAACATGAATACTCACA-TCAATCCCTATTCTTTTAAGGATTAGGCACC
387 AAACATGAATAGTCATACT-AATCCCCATTCTTTTCAGGATTAGGCACC
1225511 GTCATATTAA
Statistics
Matches: 7916, Mismatches: 1319, Indels: 401
0.82 0.14 0.04
Matches are distributed among these distances:
455 27 0.00
456 62 0.01
457 69 0.01
458 214 0.03
459 6 0.00
460 53 0.01
461 3 0.00
462 182 0.02
463 147 0.02
464 10 0.00
465 379 0.05
466 10 0.00
467 1 0.00
468 2 0.00
469 3 0.00
470 7 0.00
471 97 0.01
472 220 0.03
473 226 0.03
474 260 0.03
475 1233 0.16
476 2401 0.30
477 959 0.12
478 1305 0.16
479 36 0.00
480 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (472 bp):
TTTGGTTTCACAAGAAAGGCTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAAT
GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
TCCTATTAGGATAAATATACTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTC
CTTAAAATCAAAGTTCATCCTATAAATAAGACAAGCATCGATTCTCATAACAGTCTCCATTATTT
TCAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCG
CAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGCCTCTTAAATAGGACAAAC
ATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTTCATAGG
ATACACGATATTGGTGC
Found at i:1226058 original size:34 final size:35
Alignment explanation
Indices: 1226020--1226086 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1226010 CCTTACAACA
1226020 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1226054 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1226087 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1226562 original size:13 final size:13
Alignment explanation
Indices: 1226544--1226569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1226534 CAATTTTTTG
1226544 TGTATCGATACAT
1 TGTATCGATACAT
1226557 TGTATCGATACAT
1 TGTATCGATACAT
1226570 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1226584 original size:32 final size:33
Alignment explanation
Indices: 1226524--1226587 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1226514 TATAAGCCAA
** *
1226524 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1226557 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1226588 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1228642 original size:84 final size:84
Alignment explanation
Indices: 1228554--1228718 Score: 215
Period size: 84 Copynumber: 2.0 Consensus size: 84
1228544 CATTTTCCAC
* * * * *
1228554 TTGCAACTCATTTC-TTTTCTCCTCTAATTCATTTAATTTCTTTTTAAAAAAATTATTTTCTAAA
1 TTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAA
1228618 CTCATTGATTTACTTTCATT
65 CTCATTGATTTACTTTCATT
* * * *
1228638 TTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAATATCATTCTCTACAC
1 TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAAC
* *
1228703 TTATTGATTTATTTTC
66 TCATTGATTTACTTTC
1228719 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
83 4 0.06
84 65 0.94
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.52
Consensus pattern (84 bp):
TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:1229131 original size:21 final size:21
Alignment explanation
Indices: 1229107--1229148 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1229097 ATCCATTTCT
* *
1229107 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
1229128 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
1229149 ACGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:1230897 original size:33 final size:33
Alignment explanation
Indices: 1230841--1230905 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
1230831 CATTTTATGG
* *
1230841 TGTATCGATACAAAACAAAATGTATTGATACAA
1 TGTATCAATACAAAACAAAATGTATCGATACAA
* * *
1230874 TGTATCAATACCAAGCAATATGTATCGATACA
1 TGTATCAATACAAAACAAAATGTATCGATACA
1230906 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCAATACAAAACAAAATGTATCGATACAA
Found at i:1232407 original size:471 final size:472
Alignment explanation
Indices: 1231221--1232903 Score: 1863
Period size: 471 Copynumber: 3.6 Consensus size: 472
1231211 ATTGGCGATG
* *
1231221 TGGTTTCACAAGAAAGG-ATTTTT-TCACCTTAATTTTTGTAAAGTCTAAGTTCGTA-CCTCAAA
1 TGGTTTCACAAGAAAGGCATTTTTCTCACC--AATTTTTGTAAAGTATAAGTTC-AAGCCTCAAA
* * * * * * * *
1231283 TGAGATAAACATGGATTCTAGTAATGATCTTCTTTTATTTTTTCATTAGGCACTATAAATACATT
63 TGAGACAAACATGGATTCAAGTAATGATCTTCTTTCATTTTGTGACTAGGCACCATAAACACATT
* * * * **
1231348 CTCCTCATTAGAATAAATGATATTAATGATTTTCTTTTGTAAGGAAATCTTTTTTTCGCCCTATT
128 CTCCTCAATAG-ATAAATAATATTAATGATTTTCTTTTGCATGGAAATCTTTCCTT-GCCCTATT
* * *
1231413 TTCCTT-AAATC-AAGTTCATCCCTTAAATAAGACAAGCATCGATGCTCATAGTAGTCTCCATTA
191 TTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTACATTA
* * * * *
1231476 TTTTCAGGATTAG-GAACCTAAAACACATTCCCTTCATTATAATACATGACATTAATGCTTTGGT
256 TTTTCAAGATT-GTAAACCTAAAACACCTTCCCTTCATTATGATACATGACATTGATGCTTT-GT
* * *
1231540 GTTGTAA-CAAAGCTTT-TCTTCTCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGA
319 GTCGCAAGAAAAGCTTTCT-TTC-CACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGA
* * *
1231603 CAAACAAGAATAGTCATACTAA-TCACATTCTTTTTAGGATTAGGCACCGTAAAACATATTCTTC
382 CAAACAAGAATACTCATACTAATTCCCATTCTTTTTAGGATTAGGCACCGT-AAACATAGTCTTC
*
1231667 TCTTTAGGATACGCGACATTGAT-TTT
446 TCTTTAGGATACGAGACATTGATGTTT
* * * * *
1231693 TGGTTTCGCAAG-AAGGCATTTTTCTGACCAATTTTTGTATAGTATAAGTGCATGCCGT--AATG
1 TGGTTTCACAAGAAAGGCATTTTTCTCACCAATTTTTGTAAAGTATAAGTTCAAGCC-TCAAATG
* *
1231755 AGGCAAACATGGA-TAAAGTAATGATCTGTCTTTCA-TTTGTGACTAGGCACCATAAACACATTC
65 AGACAAACATGGATTCAAGTAATGATCT-TCTTTCATTTTGTGACTAGGCACCATAAACACATTC
* * *
1231818 TCCTTATTAGAT-AATGAATTATTAATGATTTTCTTTTGCATGGGAATCTTTTCCTTG-CCTATT
129 TCCTCAATAGATAAAT-AA-TATTAATGATTTTCTTTTGCATGGAAATC-TTTCCTTGCCCTATT
* * **
1231881 TTCCTTAAAATCAAAGTTTCAT-CCTTAAATAAGACAAGCATCAATTCTTATAATAGTCTATGTT
191 TTCCTTAAAATCAAAG-TTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTACATT
** * * * *
1231945 CCTTTCAAGACTGTAAACCAAAAACACCTTCCCTTCAATAGGATACATG-CATTGATGCTTTAGT
255 ATTTTCAAGATTGTAAACCTAAAACACCTTCCCTTCATTATGATACATGACATTGATGCTTT-GT
* *
1232009 GTCGCAAGAAAAGCTTTCTTTCCACCATTTTTTATAGAATCAAAGTTTGTATCTT-AATAAGACA
319 GTCGCAAGAAAAGCTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACA
*
1232073 AACAAGAATACTAATACTAATTCCCATT-TTTTTCAGGATTAGGCACCGT-AACATAGTCTTCT-
384 AACAAGAATACTCATACTAATTCCCATTCTTTTT-AGGATTAGGCACCGTAAACATAGTCTTCTC
* * *
1232135 TATAAGGATACGAGATATT-AGTGCTT
448 T-TTAGGATACGAGACATTGA-TGTTT
* * * * * *
1232161 TAGTTTCACAAGAAAGGCTTTTTTCTCTCTAATTTTTGTAAAGTCTAAGTTCAAGCCTCAAATTA
1 TGGTTTCACAAGAAAGGCATTTTTCTCACCAATTTTTGTAAAGTATAAGTTCAAGCCTCAAATGA
** * * * * * *
1232226 GACAAACATGGATTCTGGAAATGATCCTCTTTCATTTTATGATTAGGCACTATAAACACATTCCC
66 GACAAACATGGATTCAAGTAATGATCTTCTTTCATTTTGTGACTAGGCACCATAAACACATTCTC
* * *
1232291 CTCAATAGGATAAATAATATTGATAATTTTCTTTTGCATGGAAATCATTTCTTTGCCCTA-TTTC
131 CTCAATA-GATAAATAATATTAATGATTTTCTTTTGCATGGAAATC-TTTCCTTGCCCTATTTTC
* *
1232355 CTTAAAATCAAAGTTCATCCCTTAAATAAGACAACCATCGATTCTCATAATAGTCTCCATTATTT
194 CTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTACATTATTT
* *
1232420 TCAAGATTGGT-AACCTAAAACA-CATCCCTTCATTATGATACATGATATTGATGCTTTG-GTAC
259 TCAAGATT-GTAAACCTAAAACACCTTCCCTTCATTATGATACATGACATTGATGCTTTGTGT-C
* *** * * *
1232482 -CACAGAAAATCTTTTCTTTCCATTGTTGTTGATACAATCAATGTTTGTCTCTTAAATAAGACAA
322 GCA-AGAAAAGC-TTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAA
* * * *
1232546 ACATG-ATACTCATACTAATCCCCATTCTTTTTAGGATTAGGCATCGTAAACATAGTATTCTCTT
385 ACAAGAATACTCATACTAATTCCCATTCTTTTTAGGATTAGGCACCGTAAACATAGTCTTCTCTT
* * *
1232610 TCGGACATGCA-ACATTGATGTTT
450 TAGGATACG-AGACATTGATGTTT
** * * ** *
1232633 TGGTTTTGCAAGAAAGGCATTTTTCCCACCAATTTTTGTATAGTATAAGTTCGTG-CTGTAAATG
1 TGGTTTCACAAGAAAGGCATTTTTCTCACCAATTTTTGTAAAGTATAAGTTCAAGCCT-CAAATG
*
1232697 AGGA-AAACATGGATT-AAGTAATGATCTTCTTT-ATTTTGTGACTAGGCACCATAAACACATTT
65 A-GACAAACATGGATTCAAGTAATGATCTTCTTTCATTTTGTGACTAGGCACCATAAACACATTC
* * * * *
1232759 TCCTTAATTAGATAAATGATATTGACGATTTTCTTTTGCATGGGGAATCTTTCCTTGCCCTATTT
129 TCCTCAA-TAGATAAATAATATTAATGATTTTCTTTTGCAT-GGAAATCTTTCCTTGCCCTATTT
* * *
1232824 TCCTTAAAATCAAAGTTCATCCCTTAAAT-AGACAAGCATCGATTCTTATAACAGTCTACATTCT
192 TCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTACATTAT
1232888 TTTCAAGATTGTAAAC
257 TTTCAAGATTGTAAAC
1232904 TGTTAGGATC
Statistics
Matches: 1015, Mismatches: 151, Indels: 92
0.81 0.12 0.07
Matches are distributed among these distances:
466 2 0.00
467 30 0.03
468 60 0.06
469 189 0.19
470 281 0.28
471 307 0.30
472 134 0.13
473 12 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (472 bp):
TGGTTTCACAAGAAAGGCATTTTTCTCACCAATTTTTGTAAAGTATAAGTTCAAGCCTCAAATGA
GACAAACATGGATTCAAGTAATGATCTTCTTTCATTTTGTGACTAGGCACCATAAACACATTCTC
CTCAATAGATAAATAATATTAATGATTTTCTTTTGCATGGAAATCTTTCCTTGCCCTATTTTCCT
TAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCATAATAGTCTACATTATTTTC
AAGATTGTAAACCTAAAACACCTTCCCTTCATTATGATACATGACATTGATGCTTTGTGTCGCAA
GAAAAGCTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAAGA
ATACTCATACTAATTCCCATTCTTTTTAGGATTAGGCACCGTAAACATAGTCTTCTCTTTAGGAT
ACGAGACATTGATGTTT
Found at i:1233230 original size:13 final size:13
Alignment explanation
Indices: 1233212--1233236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1233202 AGATTGCACA
1233212 GTATCGATACATT
1 GTATCGATACATT
1233225 GTATCGATACAT
1 GTATCGATACAT
1233237 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1233249 original size:20 final size:21
Alignment explanation
Indices: 1233224--1233275 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
1233214 ATCGATACAT
*
1233224 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
1233244 TGTATC-ATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
1233264 TGTATCGATACA
1 TGTATCGATACA
1233276 GGTCATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 7 0.27
20 15 0.58
21 4 0.15
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Done.