Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 4 of 163
Found at i:1239469 original size:3 final size:3
Alignment explanation
Indices: 1239461--1239487 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1239451 TTCACTTGAC
1239461 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1239488 TCAAAGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1243461 original size:18 final size:17
Alignment explanation
Indices: 1243435--1243478 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1243425 AATTAAAATA
*
1243435 AATTTAATTAATTCACTC
1 AATTAAATT-ATTCACTC
**
1243453 AATTAAATTATTTTCTC
1 AATTAAATTATTCACTC
1243470 AATTAAATT
1 AATTAAATT
1243479 TTAATTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTAAATTATTCACTC
Found at i:1255140 original size:9 final size:9
Alignment explanation
Indices: 1255126--1255199 Score: 85
Period size: 9 Copynumber: 8.1 Consensus size: 9
1255116 TTTTCAGTAG
*
1255126 CATCTGTAT
1 CATCTGCAT
1255135 CATCTGCAT
1 CATCTGCAT
1255144 CATCTGCAT
1 CATCTGCAT
*
1255153 CATCTGAAT
1 CATCTGCAT
*
1255162 CAGCTGCAT
1 CATCTGCAT
*
1255171 CATCTGTAT
1 CATCTGCAT
**
1255180 CATCTGTTT
1 CATCTGCAT
1255189 CACTCTGCAT
1 CA-TCTGCAT
1255199 C
1 C
1255200 CACGTAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
9 49 0.89
10 6 0.11
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (9 bp):
CATCTGCAT
Found at i:1255163 original size:27 final size:27
Alignment explanation
Indices: 1255126--1255199 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
1255116 TTTTCAGTAG
1255126 CATCTGTATCATCTGCATCATCTGCAT
1 CATCTGTATCATCTGCATCATCTGCAT
* * *
1255153 CATCTGAATCAGCTGCATCATCTGTAT
1 CATCTGTATCATCTGCATCATCTGCAT
*
1255180 CATCTGTTTCACTCTGCATC
1 CATCTGTATCA-TCTGCATC
1255200 CACGTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 33 0.82
28 7 0.17
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (27 bp):
CATCTGTATCATCTGCATCATCTGCAT
Found at i:1263742 original size:19 final size:18
Alignment explanation
Indices: 1263718--1263760 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
1263708 ATTATTTATA
1263718 TAATTAATTAAAATAAATT
1 TAATTAATT-AAATAAATT
* *
1263737 TAATTAATTAATTTAATT
1 TAATTAATTAAATAAATT
1263755 TAATTA
1 TAATTA
1263761 TTTTCTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTAATTAAATAAATT
Found at i:1267178 original size:9 final size:9
Alignment explanation
Indices: 1267164--1267210 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
1267154 TTTTCAGTAG
1267164 CATCTGTAT
1 CATCTGTAT
*
1267173 CATCTGCAT
1 CATCTGTAT
*
1267182 CATCTGCAT
1 CATCTGTAT
1267191 CATCTGTAT
1 CATCTGTAT
1267200 CATCTGTAT
1 CATCTGTAT
1267209 CA
1 CA
1267211 CTCTCTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (9 bp):
CATCTGTAT
Found at i:1269150 original size:438 final size:439
Alignment explanation
Indices: 1268332--1272884 Score: 6864
Period size: 438 Copynumber: 10.4 Consensus size: 439
1268322 TGAGGCAAGG
* * * * * *
1268332 AAGTTCAACCAAACTTTCACAGTCAAAACAATCAAATGATTCAAGATTGATGGTTCTTGAAAGAT
1 AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
* *
1268397 TAGGTGTCTTCCTTAAATTCTTGCAATTTGAAATGTTAATTATCCTTAAATTAACAAGGTCCTGT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* *
1268462 ACAAAAAAAAAAATAACTGCATTACTTTTAAACATCAACTACTTGCTTTAGGCAGTAAAAAATAA
131 AC--AAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAA
* *
1268527 AAAGGAAATAAGCT-ATTATAATATTAAGAAAAATAAAAATTTATATTTCATGTATTGGCTGTGA
194 AAAGAAAATAAG-TAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGA
* *
1268591 AGATTCACCAACAACTAACACATC-AA--ATGCCACTAATTTAAATAAAATAAAATATTTCATAT
258 AAATTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATAT
* * * * * * * *
1268653 ATATTTTCTAAAGACTTTAAATAAAATGTCATCATGTGATTATTTGAAACATCAAATTATAAATA
323 ATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATC
* * * *
1268718 TTTTTTTCAAAGAAAGTAC-AAAAGCACATACCATATGATTATCTTCAATCGA
388 TTTTTTTCAAAGAAAGTACGAAAA-CACATACCCTATGATCATCTTCATTCCA
* * * * * *
1268770 AAGTTCAACCAAGTTTTCACAGTTAAAGCAATCAACTGATTTAAGTTTAATTGCTCTTGAAAGAT
1 AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
* * * * * *
1268835 TAGCTATCTTTCTTAAATTCTTGCAATTTGAAACGTCAATTATCTTTAAATTAACAAGATTCTGT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* * *
1268900 ACAAAAAAAAATAACTGCATTACTTTTAAACATAAACTACTTGTTTTAGACAGTAAAAAATAAAA
131 ACAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAA
* *
1268965 AGGAAATTAGTAATTATAATATTAA-AAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAA
196 AGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAA
*
1269029 TTCACCAACAGTTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATA
261 TTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATA
*
1269094 TTTTCTAAAAACTTTAAATAAGATGTCACCATATAAATATTTGATACATAAAATTATAAATCTTT
326 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTT
* *
1269159 TTTCCGAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
391 TTTTCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
**
1269208 AAGTTCAACCAAGCTTTCACAGTTAGAA-CAATCAAGAAATTCAAGGTTGATGGCTCTTGAAAGA
1 AAGTTCAACCAAGCTTTCACAGTTA-AAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGA
* * * *
1269272 TTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACCTTAATTTTCCGTAAATTAACAAGGTCCTA
65 TTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTG
* *
1269337 TAC-AAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGGCAATAAAAAATAAA
130 TACAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAA
* *
1269401 AAGAAAATAAGTATTTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTATGAAA
195 AAGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAA
*
1269466 ATTCACCAACAATAAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATAT
260 ATTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATAT
* *
1269531 ATATTCTAAAGACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTT
325 ATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTT
* ** * *
1269596 TTTTCCGTAGAAAGTACGAAAACACATACCTTATGATCATCTCCATTCCA
390 TTTTTCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
* * * *
1269646 AAGTTCAGCCAAGCTTTCACAGTTAGAA-CAATCAAGAGATTCCAGGTTCATGGCTCTTGAAAGA
1 AAGTTCAACCAAGCTTTCACAGTTA-AAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGA
* * * *
1269710 TTAAGTATCTTCCTTAAATTCTTGCAATTTGAAACTTTAATTTTCCATAAATTAACAAGGTCCTG
65 TTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTG
* ** * *
1269775 TACAAAAAAATAATAATAATTGTGTTACTTTTAAGCATCAACTACTTGCTTTAGGCAATAAAAAA
130 TAC--AAAAA-AA-AATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAA
* * *
1269840 TAAAAAGAAAATAAGTAATTATAATATTAAGAAAAGTAAAATTTTATATTTGATGTATTGGCTAT
191 TAAAAAGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGT
*
1269905 GAAAATTCACCAACAATAAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCAT
256 GAAAATTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCAT
* * *
1269970 ATATATTTTCTAAAGACTTTAAATAAGATGTTACCATATGAATATTT-ATACATAAAATTATATA
321 ATATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAA
* *
1270034 TCTTTTTTTCAAAGAAAGTACGAAAACATATACTCTATGATCATCTTCATTCCA
386 TCTTTTTTTCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
* * *
1270088 AAGTTCAACCAAACTTTCACAGTTAGAA-CAATCAAATGATCCAAGGTTGATGGCTCTTGAAAGA
1 AAGTTCAACCAAGCTTTCACAGTTA-AAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGA
* *
1270152 TTAGGTATCTTCCTTAACTTCTTGCAATTTGAAACGTTAATTATCCTTAAATT---AATGTCCTG
65 TTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTG
* * *
1270214 TAC-AAAAAAAATAA-TCGCATTACTTTTAAGCATCAATTATTTGCTTTAGGCAGTAAAAAATAA
130 TACAAAAAAAAATAACT-GCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAA
* * *
1270277 AAATAAAATAAGTAAATATAATATTAAGAAAAATAAAAATTTATATTTGATGTAATGGCTGTGAA
194 AAAGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAA
* *
1270342 AATTCACCAAAAATTAACACATCAAATGATCCCACTAATTTAAATAAAATAAAATATTTCATATA
259 AATTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATA
*
1270407 TATTTTCTAAAAACTTTAAATAAGATGTCACCATATAAATATTTGATACATAAAATTATAAATCT
324 TATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCT
*
1270472 TTTTTTCGAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
389 TTTTTTCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
*
1270523 AAGTTCAACCAAG------C---T--A-CAATCAAGAGATTCAAGGTTGATGGCTCTTGAAAGAT
1 AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
*
1270576 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACATTAATTATCCTTAAATTAACAAGGTCCTGT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* * * *
1270641 ACAAAAAAAAAATAACTACATTACTTTTAAGCATTAACTACTTGCTTTAGGCAATAAAAAATAAA
131 AC-AAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAA
* * * *
1270706 AAGGAAATCAGTAATTATAATATTAAGAAAAGTAAAAATTTATATTTGATGTATTGGCTTTGAAA
195 AAGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAA
*
1270771 ATTCACCAACAATAAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATAT
260 ATTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATAT
* *
1270836 ATTTTCTAAAGACTTTAAATAAGATGTCACCATTTGAATATTTGATACATAAAATTATAAATCTT
325 ATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTT
* *
1270901 TTTTTCAAAGAAAGTACAAAAACACATACCCCATGATCATCTTCATTCCA
390 TTTTTCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
* * * *
1270951 AAGTTCAACCAAACTTTCAGAGTTAGAGCAATCAAGTAATTCAAGGTTGATGGCTCTTGAAAGAT
1 AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
* *
1271016 TAGATATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCTTTAAATTAACAAGGTCCTGT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
*
1271081 A-TAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAA
131 ACAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAA
*
1271145 AGGAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAA
196 AGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAA
* * *
1271210 TTCTCCAATAATTAATACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATA
261 TTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATA
1271275 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTAT-AATCTTT
326 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTT
1271339 TTTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
391 TTTT-CAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
* * *
1271389 AAGTTCAACCAAGCTTTCACAGTTAGAGCAATCAAGTGTTTCAAGCTTGATGGCTCTTGAAAGAT
1 AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
*
1271454 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGG
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* * *
1271519 ACAAAAAAAAAATAACCGCATTACTTTTAAACATCAACTACTTGCTTTAGACAGTAAATAATAAA
131 AC-AAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAA
*
1271584 AAGAAAATAAGTACTTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAA
195 AAGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAA
* *
1271649 ATTCACCAACAATTAACACATCAAATGATGCCATTAATTCAAATAAAATAAAATATTTCATATAT
260 ATTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATAT
* *
1271714 ATTTTCTAAAAACTTTAAATAAGATATCACCATATGAATATTTGATACATAAAATTACAAATC-T
325 ATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTT
* * *
1271778 TTTTTCAAAAGAAAGTATGAAAACACATACCTTATGATCATCTTTATTCCA
390 TTTTTC-AAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
* *
1271829 AAGTTCAACCAAACTTTCACAGTTAAAGCAATCAAGTGATTCAAGCTTGATGGCTCTTGAAAGAT
1 AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
1271894 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* * *
1271959 AC--AAAAAAATAACCGCATTACTTTTAAGCATCAACTACTTACTTTAGATAGTAAAAAATAAAA
131 ACAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAA
*
1272022 AGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGACTGTGAAAA
196 AGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAA
* ** *
1272087 GTCACCAACAATT-A-AC--CAAATGATGCCTGTAATTTAAATAAAATAAAATATTTCATATGTA
261 TTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATA
*
1272148 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTAATACATAAAATTATAAATCTTT
326 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTT
*
1272213 TTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
391 TTTTCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
* * * *
1272262 AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAACTGATTTAAGTTTAATGGCTCTTGAAAGAT
1 AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
* *
1272327 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAATGTTAATTATCCTTAAATTAACAAGGTCCTAT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* * *
1272392 ACAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTATTTGCTTTAAACAGTAAAAAATATAA
131 ACAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAA
* * * * *
1272457 AGGAAATAAGTAATTATAATATTAA-AGAAAATAAAAATTTATATTTGATGTATTTGATATTAAA
196 AGAAAATAAGTAATTATAATATTAAGA-AAAATAAAAATTTATATTTGATGTATTGGCTGTGAAA
* *
1272521 ATTCACCAACAATTAACACATCAAACGATACCACTAATTTAAATAAAATAAAATAAACTTTTTCA
260 ATTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAAT--A---TTTCA
* * * * * * * * * *
1272586 TATTTTCTTTTTTAAAAACTTAAAATAAAATGTCATCATTTGATTATTTGAAACATCAAATTATA
320 TA-TATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATA
* * *
1272651 AATCTTTTTTTCAAAAAAAGTAC-AAAAGCACATACCATATGATTATCTTCATTCCA
384 AATCTTTTTTTCAAAGAAAGTACGAAAA-CACATACCCTATGATCATCTTCATTCCA
* * * *
1272707 AAG-TCTAACCAAGCTTTCACAGTTAGAGCAATCAACTGATTCAAGTTTAATGGCTCTTGAAAGA
1 AAGTTC-AACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGA
* * *
1272771 TTAGGTATCTTCTTTAAATTCTTACAATTTGAAACGTTAATTATCCTTAAATTAACAAAGTCCTG
65 TTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTG
* *
1272836 TACAAAAAAAAATAACTGCATTACTTTTAAACATCAACTACTTACTTTA
130 TACAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTA
1272885 TAATATTAAA
Statistics
Matches: 3782, Mismatches: 280, Indels: 99
0.91 0.07 0.02
Matches are distributed among these distances:
423 85 0.02
426 12 0.00
428 295 0.08
429 2 0.00
433 267 0.07
434 216 0.06
435 264 0.07
436 90 0.02
437 225 0.06
438 1093 0.29
439 48 0.01
440 510 0.13
441 9 0.00
442 170 0.04
443 220 0.06
444 13 0.00
445 263 0.07
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (439 bp):
AAGTTCAACCAAGCTTTCACAGTTAAAGCAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
ACAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAA
AGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAA
TTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATA
TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTT
TTTTCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
Found at i:1271759 original size:878 final size:879
Alignment explanation
Indices: 1268332--1272884 Score: 6888
Period size: 878 Copynumber: 5.2 Consensus size: 879
1268322 TGAGGCAAGG
* * * * *
1268332 AAGTTCAACCAAACTTTCACAGTCAAAACAATCAAATGATTCAAGATTGATGGTTCTTGAAAGAT
1 AAGTTCAACCAAACTTTCACAGTTAGAACAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
* *
1268397 TAGGTGTCTTCCTTAAATTCTTGCAATTTGAAATGTTAATTATCCTTAAATTAACAAGGTCCTGT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
*
1268462 ACAAAAAAAAAAATAACTGCATTACTTTTAAACATCAACTACTTGCTTTAGGCAGTAAAAAATAA
131 ---AAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAA
* *
1268527 AAAGGAAATAAGCT-ATTATAATATTAAGAAAAATAAAAATTTATATTTCATGTATTGGCTGTGA
193 AAAGAAAATAAG-TAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGA
* *
1268591 AGATTCACCAACAACTAACACATC-AA--ATGCCACTAATTTAAATAAAATAAAATATTTCATAT
257 AAATTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATAT
* * * * * * * *
1268653 ATATTTTCTAAAGACTTTAAATAAAATGTCATCATGTGATTATTTGAAACATCAAATTATAAATA
322 ATATTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATC
* * * *
1268718 TTTTTTT-CAAAGAAAGTAC-AAAAGCACATACCATATGATTATCTTCAATCGAAAGTTCAACCA
387 TTTTTTTCCAAAGAAAGTACGAAAA-CACATACCCTATGATCATCTTCATTCCAAAGTTCAACCA
* * * * *
1268781 AGTTTTCACAGTTAAAGCAATCAACTGATTT-AAGTTTAATTGCTCTTGAAAGATTAGCTATCTT
451 AGCTTTCACAGTTAAAGCAATCAAGTG-TTTCAAGGTTAATGGCTCTTGAAAGATTAGGTATCTT
* * * * *
1268845 TCTTAAATTCTTGCAATTTGAAACGTCAATTATCTTTAAATTAACAAGATTCTGTAC-AAAAAAA
515 CCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGTACAAAAAAAA
* * * *
1268909 AATAACTGCATTACTTTTAAACATAAACTACTTGTTTTAGACAGTAAAAAATAAAAAGGAAATTA
580 AATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAAAGGAAATAA
*
1268974 GTAATTATAATATTAA-AAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAAC
645 GTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTATGAAAATTCACCAAC
*
1269038 AGTTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATATTTTCTAAA
710 AATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATATTTTCTAAA
* * *
1269103 AACTTTAAATAAGATGTCACCATATAAATATTTGATACATAAAATTATAAATCTTTTTTCCGAAG
775 AACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTTTTTCAAAG
1269168 AAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
840 AAAGTACGAAAACACATACCCTATGATCATCTTCATTCCA
* **
1269208 AAGTTCAACCAAGCTTTCACAGTTAGAACAATCAAGAAATTCAAGGTTGATGGCTCTTGAAAGAT
1 AAGTTCAACCAAACTTTCACAGTTAGAACAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
* * * *
1269273 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACCTTAATTTTCCGTAAATTAACAAGGTCCTAT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* *
1269338 ACAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGGCAATAAAAAATAAAAA
131 AAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAAA
* *
1269403 GAAAATAAGTATTTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTATGAAAAT
196 GAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAAT
*
1269468 TCACCAACAATAAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATAT
261 TCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATAT
* *
1269533 ATTCTAAAGACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATC-TTT
326 TTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTT
** * * *
1269597 TTTCCGTAGAAAGTACGAAAACACATACCTTATGATCATCTCCATTCCAAAGTTCAGCCAAGCTT
391 TTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAGCTT
* * * * *
1269662 TCACAGTTAGAA-CAATCAAGAGATTCCAGGTTCATGGCTCTTGAAAGATTAAGTATCTTCCTTA
456 TCACAGTTA-AAGCAATCAAGTGTTTCAAGGTTAATGGCTCTTGAAAGATTAGGTATCTTCCTTA
* * *
1269726 AATTCTTGCAATTTGAAACTTTAATTTTCCATAAATTAACAAGGTCCTGTACAAAAAAATAATAA
520 AATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGTAC-AAAAAA-AA-AA
* ** * * *
1269791 TAATTGTGTTACTTTTAAGCATCAACTACTTGCTTTAGGCAATAAAAAATAAAAAGAAAATAAGT
582 TAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAAAGGAAATAAGT
* *
1269856 AATTATAATATTAAGAAAAGTAAAATTTTATATTTGATGTATTGGCTATGAAAATTCACCAACAA
647 AATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTATGAAAATTCACCAACAA
* *
1269921 TAAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATATTTTCTAAAGA
712 TTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATATTTTCTAAAAA
* *
1269986 CTTTAAATAAGATGTTACCATATGAATATTT-ATACATAAAATTATATATCTTTTTTTCAAAGAA
777 CTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTTTTTCAAAGAA
* *
1270050 AGTACGAAAACATATACTCTATGATCATCTTCATTCCA
842 AGTACGAAAACACATACCCTATGATCATCTTCATTCCA
* *
1270088 AAGTTCAACCAAACTTTCACAGTTAGAACAATCAAATGATCCAAGGTTGATGGCTCTTGAAAGAT
1 AAGTTCAACCAAACTTTCACAGTTAGAACAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
* *
1270153 TAGGTATCTTCCTTAACTTCTTGCAATTTGAAACGTTAATTATCCTTAAATT---AATGTCCTGT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* * *
1270215 ACAAAAAAAATAA-TCGCATTACTTTTAAGCATCAATTATTTGCTTTAGGCAGTAAAAAATAAAA
131 AAAAAAAAAATAACT-GCATTACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAA
* * *
1270279 ATAAAATAAGTAAATATAATATTAAGAAAAATAAAAATTTATATTTGATGTAATGGCTGTGAAAA
195 AGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAA
* *
1270344 TTCACCAAAAATTAACACATCAAATGATCCCACTAATTTAAATAAAATAAAATATTTCATATATA
260 TTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATA
*
1270409 TTTTCTAAAAACTTTAAATAAGATGTCACCATATAAATATTTGATACATAAAATTATAAATCTTT
325 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTT
*
1270474 TTTT-CGAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAG--
390 TTTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAGCT
* * *
1270536 ----C---T--A-CAATCAAGAGATTCAAGGTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTA
455 TTCACAGTTAAAGCAATCAAGTGTTTCAAGGTTAATGGCTCTTGAAAGATTAGGTATCTTCCTTA
*
1270591 AATTCTTGCAATTTGAAACATTAATTATCCTTAAATTAACAAGGTCCTGTACAAAAAAAAAATAA
520 AATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGTACAAAAAAAAAATAA
* * * * *
1270656 CTACATTACTTTTAAGCATTAACTACTTGCTTTAGGCAATAAAAAATAAAAAGGAAATCAGTAAT
585 CTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAAAGGAAATAAGTAAT
* * *
1270721 TATAATATTAAGAAAAGTAAAAATTTATATTTGATGTATTGGCTTTGAAAATTCACCAACAATAA
650 TATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTATGAAAATTCACCAACAATTA
*
1270786 ACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATATTTTCTAAAGACTT
715 ACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATATTTTCTAAAAACTT
*
1270851 TAAATAAGATGTCACCATTTGAATATTTGATACATAAAATTATAAATCTTTTTTTCAAAGAAAGT
780 TAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTTTTTCAAAGAAAGT
* *
1270916 ACAAAAACACATACCCCATGATCATCTTCATTCCA
845 ACGAAAACACATACCCTATGATCATCTTCATTCCA
* * *
1270951 AAGTTCAACCAAACTTTCAGAGTTAGAGCAATCAAGTAATTCAAGGTTGATGGCTCTTGAAAGAT
1 AAGTTCAACCAAACTTTCACAGTTAGAACAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
* *
1271016 TAGATATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCTTTAAATTAACAAGGTCCTGT
66 TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
* *
1271081 ATAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAAA
131 AAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAAA
*
1271146 GGAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAAT
196 GAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAAT
* * *
1271211 TCTCCAATAATTAATACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATAT
261 TCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATAT
1271276 TTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTAT-AATCTTTT
326 TTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTT
1271340 TTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAGCTT
391 TTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAGCTT
* * *
1271405 TCACAGTTAGAGCAATCAAGTGTTTCAAGCTTGATGGCTCTTGAAAGATTAGGTATCTTCCTTAA
456 TCACAGTTAAAGCAATCAAGTGTTTCAAGGTTAATGGCTCTTGAAAGATTAGGTATCTTCCTTAA
*
1271470 ATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGGACAAAAAAAAAATAAC
521 ATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGTACAAAAAAAAAATAAC
* * * * *
1271535 CGCATTACTTTTAAACATCAACTACTTGCTTTAGACAGTAAATAATAAAAAGAAAATAAGTACTT
586 TGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAAAGGAAATAAGTAATT
*
1271600 ATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAATTCACCAACAATTAA
651 ATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTATGAAAATTCACCAACAATTAA
* *
1271665 CACATCAAATGATGCCATTAATTCAAATAAAATAAAATATTTCATATATATTTTCTAAAAACTTT
716 CACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATATTTTCTAAAAACTTT
* *
1271730 AAATAAGATATCACCATATGAATATTTGATACATAAAATTACAAATC-TTTTTTCAAAAGAAAGT
781 AAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTTTTTC-AAAGAAAGT
* * *
1271794 ATGAAAACACATACCTTATGATCATCTTTATTCCA
845 ACGAAAACACATACCCTATGATCATCTTCATTCCA
*
1271829 AAGTTCAACCAAACTTTCACAGTTA-AAGCAATCAAGTGATTCAAGCTTGATGGCTCTTGAAAGA
1 AAGTTCAACCAAACTTTCACAGTTAGAA-CAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGA
1271893 TTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTG
65 TTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTG
* * * **
1271958 T-ACAAAAAAATAACCGCATTACTTTTAAGCATCAACTACTTACTTTAGATAGTAAAAAATAAAA
130 TAAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAA
*
1272022 AGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGACTGTGAAAA
195 AGAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAA
* ** *
1272087 GTCACCAACAATT-A-AC--CAAATGATGCCTGTAATTTAAATAAAATAAAATATTTCATATGTA
260 TTCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATA
*
1272148 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTAATACATAAAATTATAAATC-TT
325 TTTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTT
1272212 TTTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAGCT
390 TTTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAGCT
* *
1272277 TTCACAGTTAAAGCAATCAACTGATTT-AAGTTTAATGGCTCTTGAAAGATTAGGTATCTTCCTT
455 TTCACAGTTAAAGCAATCAAGTG-TTTCAAGGTTAATGGCTCTTGAAAGATTAGGTATCTTCCTT
* *
1272341 AAATTCTTGCAATTTGAAATGTTAATTATCCTTAAATTAACAAGGTCCTATAC-AAAAAAAAATA
519 AAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGTACAAAAAAAAAATA
* * *
1272405 ACTGCATTACTTTTAAGCATCAACTATTTGCTTTAAACAGTAAAAAATATAAAGGAAATAAGTAA
584 ACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAAAGGAAATAAGTAA
* * *
1272470 TTATAATATTAA-AGAAAATAAAAATTTATATTTGATGTATTTGATATTAAAATTCACCAACAAT
649 TTATAATATTAAGA-AAAATAAAAATTTATATTTGATGTATTGGCTATGAAAATTCACCAACAAT
* * * * *
1272534 TAACACATCAAACGATACCACTAATTTAAATAAAATAAAATAAACTTTTTCATATTTTCTTTTTT
713 TAACACATCAAATGATGCCACTAATTTAAATAAAATAAAAT--A---TTTCATA-TATATTTTCT
* * * * * * *
1272599 AAAAACTTAAAATAAAATGTCATCATTTGATTATTTGAAACATCAAATTATAAATCTTTTTTTCA
772 AAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTTTTTCA
* * *
1272664 AAAAAAGTAC-AAAAGCACATACCATATGATTATCTTCATTCCA
837 AAGAAAGTACGAAAA-CACATACCCTATGATCATCTTCATTCCA
* * * * *
1272707 AAG-TCTAACCAAGCTTTCACAGTTAGAGCAATCAACTGATTCAAGTTTAATGGCTCTTGAAAGA
1 AAGTTC-AACCAAACTTTCACAGTTAGAACAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGA
* * *
1272771 TTAGGTATCTTCTTTAAATTCTTACAATTTGAAACGTTAATTATCCTTAAATTAACAAAGTCCTG
65 TTAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTG
* *
1272836 TACAAAAAAAAATAACTGCATTACTTTTAAACATCAACTACTTACTTTA
130 TA-AAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTA
1272885 TAATATTAAA
Statistics
Matches: 3372, Mismatches: 255, Indels: 96
0.91 0.07 0.03
Matches are distributed among these distances:
862 217 0.06
863 177 0.05
864 6 0.00
865 110 0.03
866 302 0.09
867 1 0.00
868 1 0.00
871 2 0.00
872 165 0.05
873 409 0.12
874 10 0.00
875 11 0.00
876 351 0.10
877 461 0.14
878 713 0.21
879 10 0.00
880 288 0.09
881 138 0.04
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (879 bp):
AAGTTCAACCAAACTTTCACAGTTAGAACAATCAAGTGATTCAAGGTTGATGGCTCTTGAAAGAT
TAGGTATCTTCCTTAAATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGT
AAAAAAAAAATAACTGCATTACTTTTAAGCATCAACTACTTGCTTTAGGCAGTAAAAAATAAAAA
GAAAATAAGTAATTATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTGTGAAAAT
TCACCAACAATTAACACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATAT
TTTCTAAAAACTTTAAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTT
TTTCCAAAGAAAGTACGAAAACACATACCCTATGATCATCTTCATTCCAAAGTTCAACCAAGCTT
TCACAGTTAAAGCAATCAAGTGTTTCAAGGTTAATGGCTCTTGAAAGATTAGGTATCTTCCTTAA
ATTCTTGCAATTTGAAACGTTAATTATCCTTAAATTAACAAGGTCCTGTACAAAAAAAAAATAAC
TGCATTACTTTTAAGCATCAACTACTTGCTTTAGACAGTAAAAAATAAAAAGGAAATAAGTAATT
ATAATATTAAGAAAAATAAAAATTTATATTTGATGTATTGGCTATGAAAATTCACCAACAATTAA
CACATCAAATGATGCCACTAATTTAAATAAAATAAAATATTTCATATATATTTTCTAAAAACTTT
AAATAAGATGTCACCATATGAATATTTGATACATAAAATTATAAATCTTTTTTTCAAAGAAAGTA
CGAAAACACATACCCTATGATCATCTTCATTCCA
Found at i:1272495 original size:24 final size:24
Alignment explanation
Indices: 1272450--1272495 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
1272440 AACAGTAAAA
* *
1272450 AATATAAAGGAAATAAGTAATTAT
1 AATATAAAGAAAATAAGAAATTAT
1272474 AATATTAAAGAAAATAA-AAATT
1 AATA-TAAAGAAAATAAGAAATT
1272496 TATATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (24 bp):
AATATAAAGAAAATAAGAAATTAT
Found at i:1275223 original size:21 final size:23
Alignment explanation
Indices: 1275178--1275224 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1275168 TCCGGACTTG
* *
1275178 ATATTCGACAACTTTTTTATAAC
1 ATATTCAACAACTATTTTATAAC
1275201 ATATTCAACAAC-ATTTT-TAAC
1 ATATTCAACAACTATTTTATAAC
1275222 ATA
1 ATA
1275225 CTCTGTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 4 0.18
23 11 0.50
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (23 bp):
ATATTCAACAACTATTTTATAAC
Found at i:1286598 original size:50 final size:50
Alignment explanation
Indices: 1286539--1286745 Score: 243
Period size: 50 Copynumber: 4.1 Consensus size: 50
1286529 TGCAGAGCAC
* ** *
1286539 AAACGCATATATAAGCTGACGAGCGTAAACATGTATAAGTTGGCAAGCGT
1 AAACGCATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGT
* *** *
1286589 AAACGCATATATATAAGCTGACGAGCGTAAACGTGTGCAAATTGGTGAGCAT
1 AAACGC--ATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGT
* * * * * *
1286641 AAACGCATAAATAAGCTAATGAGCATAAATGTGTGCAAGTTGACGAGCGT
1 AAACGCATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGT
*
1286691 AAACGCATATATATAGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGCGT
1 AAACGCATATATA-AGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGT
1286742 AAAC
1 AAAC
1286746 ATATGAAAGC
Statistics
Matches: 131, Mismatches: 23, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
50 53 0.40
51 35 0.27
52 43 0.33
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (50 bp):
AAACGCATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGT
Found at i:1286615 original size:28 final size:26
Alignment explanation
Indices: 1286539--1286722 Score: 110
Period size: 24 Copynumber: 7.2 Consensus size: 26
1286529 TGCAGAGCAC
1286539 AAACGCATATATAAGCTGACGAGCGT
1 AAACGCATATATAAGCTGACGAGCGT
* * * *
1286565 AAA--CATGTATAAGTTGGCAAGCGT
1 AAACGCATATATAAGCTGACGAGCGT
1286589 AAACGCATATATATAAGCTGACGAGCGT
1 AAACGC--ATATATAAGCTGACGAGCGT
* ** ** ** *
1286617 AAACG--TGTGCAAATTGGTGAGCAT
1 AAACGCATATATAAGCTGACGAGCGT
* * * *
1286641 AAACGCATAAATAAGCTAATGAGCAT
1 AAACGCATATATAAGCTGACGAGCGT
* * ** *
1286667 AAATG--TGTGCAAGTTGACGAGCGT
1 AAACGCATATATAAGCTGACGAGCGT
1286691 AAACGCATATATATAGCTGACGAGCGT
1 AAACGCATATATA-AGCTGACGAGCGT
1286718 AAACG
1 AAACG
1286723 TGTGCAAGCT
Statistics
Matches: 111, Mismatches: 38, Indels: 17
0.67 0.23 0.10
Matches are distributed among these distances:
24 51 0.46
26 22 0.20
27 17 0.15
28 21 0.19
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (26 bp):
AAACGCATATATAAGCTGACGAGCGT
Found at i:1286615 original size:52 final size:52
Alignment explanation
Indices: 1286545--1286745 Score: 246
Period size: 52 Copynumber: 3.9 Consensus size: 52
1286535 GCACAAACGC
* ** *
1286545 ATATATAAGCTGACGAGCGTAAACATGTATAAGTTGGCAAGCGTAAACGCAT
1 ATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGTAAACGCAT
* *** *
1286597 ATATATAAGCTGACGAGCGTAAACGTGTGCAAATTGGTGAGCATAAACGCAT
1 ATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGTAAACGCAT
* * * * *
1286649 A-A-ATAAGCTAATGAGCATAAATGTGTGCAAGTTGACGAGCGTAAACGCAT
1 ATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGTAAACGCAT
*
1286699 ATATAT-AGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGCGTAAAC
1 ATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGTAAAC
1286746 ATATGAAAGC
Statistics
Matches: 126, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
50 41 0.33
51 37 0.29
52 48 0.38
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (52 bp):
ATATATAAGCTGACGAGCGTAAACGTGTGCAAGTTGACAAGCGTAAACGCAT
Found at i:1286682 original size:102 final size:101
Alignment explanation
Indices: 1286533--1286729 Score: 286
Period size: 102 Copynumber: 1.9 Consensus size: 101
1286523 GCAAGCTGCA
* * * * *
1286533 GAGCACAAACGCATATATAAGCTGACGAGCGTAAACATGTATAAGTTGGCAAGCGTAAACGCATA
1 GAGCACAAACGCATAAATAAGCTAACGAGCATAAACATGTACAAGTTGACAAGCGTAAACGCATA
1286598 TATATAAGCTGACGAGCGTAAACGTGTGCAAATTGGT
66 TATAT-AGCTGACGAGCGTAAACGTGTGCAAATTGGT
* * ** * *
1286635 GAGCATAAACGCATAAATAAGCTAATGAGCATAAATGTGTGCAAGTTGACGAGCGTAAACGCATA
1 GAGCACAAACGCATAAATAAGCTAACGAGCATAAACATGTACAAGTTGACAAGCGTAAACGCATA
1286700 TATATAGCTGACGAGCGTAAACGTGTGCAA
66 TATATAGCTGACGAGCGTAAACGTGTGCAA
1286730 GCTGACAAGC
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 25 0.30
102 59 0.70
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (101 bp):
GAGCACAAACGCATAAATAAGCTAACGAGCATAAACATGTACAAGTTGACAAGCGTAAACGCATA
TATATAGCTGACGAGCGTAAACGTGTGCAAATTGGT
Found at i:1286693 original size:24 final size:24
Alignment explanation
Indices: 1286661--1286745 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
1286651 ATAAGCTAAT
* * *
1286661 GAGCATAAATGTGTGCAAGTTGAC
1 GAGCGTAAACGTGTGCAAGCTGAC
* **
1286685 GAGCGTAAACGCATATATATAGCTGAC
1 GAGCGTAAACG--TGTGCA-AGCTGAC
1286712 GAGCGTAAACGTGTGCAAGCTGAC
1 GAGCGTAAACGTGTGCAAGCTGAC
*
1286736 AAGCGTAAAC
1 GAGCGTAAAC
1286746 ATATGAAAGC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
24 25 0.52
25 3 0.06
26 3 0.06
27 17 0.35
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (24 bp):
GAGCGTAAACGTGTGCAAGCTGAC
Found at i:1286755 original size:24 final size:24
Alignment explanation
Indices: 1286705--1286757 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1286695 GCATATATAT
* * * *
1286705 AGCTGACGAGCGTAAACGTGTGCA
1 AGCTGACAAGCGTAAACATATGAA
1286729 AGCTGACAAGCGTAAACATATGAA
1 AGCTGACAAGCGTAAACATATGAA
1286753 AGCTG
1 AGCTG
1286758 GTGAGTGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (24 bp):
AGCTGACAAGCGTAAACATATGAA
Found at i:1290054 original size:3 final size:3
Alignment explanation
Indices: 1290046--1290079 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1290036 AAATTGCTCC
1290046 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1290080 GGTGTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:1290350 original size:29 final size:29
Alignment explanation
Indices: 1290317--1290373 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1290307 AAAATATAAT
*
1290317 TTTTAA-AGGATTAAATTAAAATTTTATTA
1 TTTTAAGA-GATTAAAATAAAATTTTATTA
*
1290346 TTTTAAGAGATTAAAATATAATTTTATT
1 TTTTAAGAGATTAAAATAAAATTTTATT
1290374 TTTACTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (29 bp):
TTTTAAGAGATTAAAATAAAATTTTATTA
Found at i:1290400 original size:17 final size:18
Alignment explanation
Indices: 1290380--1290418 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1290370 TATTTTTACT
*
1290380 AATTTAAAATTTTAAA-A
1 AATTTAAAAATTTAAATA
1290397 AA-TTAAAAATTTAAATA
1 AATTTAAAAATTTAAATA
1290414 AATTT
1 AATTT
1290419 TTTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 12 0.63
17 5 0.26
18 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAAAATTTAAATA
Found at i:1290962 original size:27 final size:26
Alignment explanation
Indices: 1290931--1290994 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
1290921 AAATATAACT
*
1290931 AAAAAATTATTATATATTAATATTAA
1 AAAAAAATATTATATATTAATATTAA
* * *
1290957 ATAAAAGTAAT-TATATTAATATTAA
1 AAAAAAATATTATATATTAATATTAA
1290982 AAAAAAATATTAT
1 AAAAAAATATTAT
1290995 TTTTTATCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 22 0.71
26 9 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAAAAATATTATATATTAATATTAA
Found at i:1293198 original size:15 final size:15
Alignment explanation
Indices: 1293178--1293214 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1293168 TCAACTCAAC
1293178 TCAATTTCATTTTAA
1 TCAATTTCATTTTAA
1293193 TCAATTTCATTTTAA
1 TCAATTTCATTTTAA
*
1293208 TAAATTT
1 TCAATTT
1293215 AACCGCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (15 bp):
TCAATTTCATTTTAA
Found at i:1297495 original size:17 final size:17
Alignment explanation
Indices: 1297468--1297508 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1297458 TTATAGTTCA
*
1297468 TTATTTT-TTTTTAATT
1 TTATTTTATTTTTAATC
1297484 TTATTTTATTTTTAATC
1 TTATTTTATTTTTAATC
1297501 TTATTTTA
1 TTATTTTA
1297509 AAAAGTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTATTTTTAATC
Found at i:1299170 original size:20 final size:20
Alignment explanation
Indices: 1299145--1299231 Score: 93
Period size: 20 Copynumber: 4.3 Consensus size: 20
1299135 TCTTAGTAAA
*
1299145 ATTGGTAAATCCACAGAAAT
1 ATTGGTAAATCCTCAGAAAT
* **
1299165 ATTGGTAAATCCTTAGATGT
1 ATTGGTAAATCCTCAGAAAT
* *
1299185 TTTGATAAATCCTCAGAAAT
1 ATTGGTAAATCCTCAGAAAT
* *
1299205 ATTGGTAAATACTCAGATAT
1 ATTGGTAAATCCTCAGAAAT
*
1299225 TTTGGTA
1 ATTGGTA
1299232 GAAGGCTAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGGTAAATCCTCAGAAAT
Found at i:1299194 original size:40 final size:40
Alignment explanation
Indices: 1299150--1299228 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
1299140 GTAAAATTGG
* * *
1299150 TAAATCCACAGAAATATTGGTAAATCCTTAGATGTTTTGA
1 TAAATCCACAGAAATATTGGTAAATACTCAGATATTTTGA
*
1299190 TAAATCCTCAGAAATATTGGTAAATACTCAGATATTTTG
1 TAAATCCACAGAAATATTGGTAAATACTCAGATATTTTG
1299229 GTAGAAGGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (40 bp):
TAAATCCACAGAAATATTGGTAAATACTCAGATATTTTGA
Found at i:1308550 original size:25 final size:25
Alignment explanation
Indices: 1308516--1308569 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1308506 ATTGTAATAA
1308516 GAATATTTAGCTATTTGGATTAGTT
1 GAATATTTAGCTATTTGGATTAGTT
*
1308541 GAATATTTAGTTATTTGGATTAGTT
1 GAATATTTAGCTATTTGGATTAGTT
1308566 -AATA
1 GAATA
1308570 ATATTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (25 bp):
GAATATTTAGCTATTTGGATTAGTT
Found at i:1309482 original size:10 final size:10
Alignment explanation
Indices: 1309467--1309491 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1309457 AGTGATTTTG
1309467 AATTTTGTTT
1 AATTTTGTTT
1309477 AATTTTGTTT
1 AATTTTGTTT
1309487 AATTT
1 AATTT
1309492 CAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
AATTTTGTTT
Found at i:1310395 original size:5 final size:5
Alignment explanation
Indices: 1310387--1310440 Score: 90
Period size: 5 Copynumber: 10.8 Consensus size: 5
1310377 CCTTTTTCTT
* *
1310387 CTTTT CTTTT CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC
1310437 CTTT
1 CTTT
1310441 TCTTACTACC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
CTTTC
Found at i:1312707 original size:91 final size:91
Alignment explanation
Indices: 1312552--1312733 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
1312542 TTTATCTAAA
*
1312552 TGATTTAGGGAAATTGTCTTTAGTAGGTGATATGCTCATTAAGATATTAAATTAAATAATCTAAT
1 TGATTTAGGGAAATTGTCTTTAGTAGGTGATATGCTAATTAAGATATTAAATTAAATAATCTAAT
1312617 TATAAATTATCATAACATATATATAT
66 TATAAATTATCATAACATATATATAT
1312643 TGATTTAGGGAAATTGTCTTTAGTAGGTGATATGCTAATTAAGATATTAAATTAAATAATCTAAT
1 TGATTTAGGGAAATTGTCTTTAGTAGGTGATATGCTAATTAAGATATTAAATTAAATAATCTAAT
1312708 TATAAATTATCATAACATATATATAT
66 TATAAATTATCATAACATATATATAT
1312734 ATATATTGAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (91 bp):
TGATTTAGGGAAATTGTCTTTAGTAGGTGATATGCTAATTAAGATATTAAATTAAATAATCTAAT
TATAAATTATCATAACATATATATAT
Found at i:1314186 original size:61 final size:59
Alignment explanation
Indices: 1314075--1314356 Score: 387
Period size: 61 Copynumber: 4.7 Consensus size: 59
1314065 GTAGTCTTAA
* *
1314075 TTTTGTTGCAATTTTGTTTTTTGAACTATATGTTTACCCTGCCATTCTTTATTATTAAGT-AA
1 TTTTGTTGCAATTTTG-TTTTTGAACTGTATGTTTACCCTGCCATTCTTTATTA-T--GTCAG
**
1314137 TTTTGTTGCAATTTTGTTTTCAAACTGTATGTTTACCCTGCCATTCTTTATTATGTCCAG
1 TTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTTTATTATGT-CAG
1314197 TTTTGTTGCAA-----TTTTTGAACTGTATGTTTACCCTGCCATTCTTTATTATGTCCAG
1 TTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTTTATTATGT-CAG
*
1314252 TTTTGTTGCAATTTTGTTTTTGAACTTGTATGTCTACCCTGCCATTCTTTATTATGTCCAG
1 TTTTGTTGCAATTTTGTTTTTGAAC-TGTATGTTTACCCTGCCATTCTTTATTATGT-CAG
*
1314313 TTTTGTTGCAATTTTGTTTTTGAACTTGTATGTCTACCCTGCCA
1 TTTTGTTGCAATTTTGTTTTTGAAC-TGTATGTTTACCCTGCCA
1314357 CTCATTTTCT
Statistics
Matches: 205, Mismatches: 7, Indels: 17
0.90 0.03 0.07
Matches are distributed among these distances:
55 53 0.26
58 2 0.01
60 22 0.11
61 112 0.55
62 16 0.08
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.51
Consensus pattern (59 bp):
TTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTTTATTATGTCAG
Found at i:1314296 original size:116 final size:115
Alignment explanation
Indices: 1314092--1314327 Score: 377
Period size: 116 Copynumber: 2.0 Consensus size: 115
1314082 GCAATTTTGT
1314092 TTTTTGAACTATATGTTTACCCTGCCATTCTTTATTATTAAGTAATTTTGTTGCAATTTTGTTTT
1 TTTTTGAACTATATGTTTACCCTGCCATTCTTTATTATT-AGTAATTTTGTTGCAATTTTGTTTT
*
1314157 CAAACTGTATGTTTACCCTGCCATTCTTTATTATGTCCAGTTTTGTTGCAA
65 CAAACTGTATGTCTACCCTGCCATTCTTTATTATGTCCAGTTTTGTTGCAA
* *
1314208 TTTTTGAACTGTATGTTTACCCTGCCATTCTTTATTA-T-GTCCAGTTTTGTTGCAATTTTGTTT
1 TTTTTGAACTATATGTTTACCCTGCCATTCTTTATTATTAGT--AATTTTGTTGCAATTTTGTTT
**
1314271 TTGAACTTGTATGTCTACCCTGCCATTCTTTATTATGTCCAGTTTTGTTGCAA
64 TCAAAC-TGTATGTCTACCCTGCCATTCTTTATTATGTCCAGTTTTGTTGCAA
1314324 TTTT
1 TTTT
1314328 GTTTTTGAAC
Statistics
Matches: 112, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
113 2 0.02
115 25 0.22
116 85 0.76
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (115 bp):
TTTTTGAACTATATGTTTACCCTGCCATTCTTTATTATTAGTAATTTTGTTGCAATTTTGTTTTC
AAACTGTATGTCTACCCTGCCATTCTTTATTATGTCCAGTTTTGTTGCAA
Found at i:1321250 original size:21 final size:23
Alignment explanation
Indices: 1321200--1321256 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
1321190 ATTTTTTATT
*
1321200 ATATTATTAATTTAATTTTAATA
1 ATATTATTAACTTAATTTTAATA
1321223 ATAATTATT-ACTTAA-TTT-ATAA
1 AT-ATTATTAACTTAATTTTAAT-A
1321245 ATATTAGTTAAC
1 ATATTA-TTAAC
1321257 ATATTTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 6 0.21
22 8 0.28
23 9 0.31
24 6 0.21
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTATTAACTTAATTTTAATA
Found at i:1323165 original size:9 final size:9
Alignment explanation
Indices: 1323151--1323175 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1323141 AATTTAATAA
1323151 AATAATTTT
1 AATAATTTT
1323160 AATAATTTT
1 AATAATTTT
1323169 AATAATT
1 AATAATT
1323176 AAATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AATAATTTT
Found at i:1323312 original size:2 final size:2
Alignment explanation
Indices: 1323305--1323337 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1323295 CAAAAATGAA
1323305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1323338 AAAGCTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1324092 original size:62 final size:62
Alignment explanation
Indices: 1323997--1324183 Score: 247
Period size: 62 Copynumber: 3.0 Consensus size: 62
1323987 GAAAAAAAAA
* *
1323997 TTTGGTGTTGGTCATTGCATGGCTGACACCACCTTTTTATCTGATAAAAAAATTTAAAATTTT
1 TTTGGTGTTGGCCATTGCATGGCCGACACCACCTTTTTATCTGATAAAAAAATTT-AAATTTT
* * *
1324060 TTT-GTGTTGGCCATTGCATGACCGACATCACCTTTTTATCTAATAAAAAAATTTAAATTTT
1 TTTGGTGTTGGCCATTGCATGGCCGACACCACCTTTTTATCTGATAAAAAAATTTAAATTTT
* * * *
1324121 TTTGGTGTTGGCTA-TGCATTGGTCGACACCACCTATTTATCTGAT-AAAAAA-TCAAATTTT
1 TTTGGTGTTGGCCATTGCA-TGGCCGACACCACCTTTTTATCTGATAAAAAAATTTAAATTTT
1324181 TTT
1 TTT
1324184 CTGACGACGT
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
60 11 0.10
61 20 0.18
62 76 0.69
63 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (62 bp):
TTTGGTGTTGGCCATTGCATGGCCGACACCACCTTTTTATCTGATAAAAAAATTTAAATTTT
Found at i:1324304 original size:33 final size:33
Alignment explanation
Indices: 1324256--1324321 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1324246 GGCCAATACC
* *
1324256 AAAAAAATTTGAATTTTTTTATCAGATAAAAAG
1 AAAAAAAATTAAATTTTTTTATCAGATAAAAAG
1324289 AAAAAAAATTAAATTTTTTTATCAGATAAAAAG
1 AAAAAAAATTAAATTTTTTTATCAGATAAAAAG
1324322 GTGGTGTCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (33 bp):
AAAAAAAATTAAATTTTTTTATCAGATAAAAAG
Found at i:1327825 original size:34 final size:34
Alignment explanation
Indices: 1327779--1327853 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
1327769 AAAAATCAGG
1327779 AGGATAAATCTGATATGTCATTCCCATATTAGAAA
1 AGGAT-AATCTGATATGTCATTCCCATATTAGAAA
* * * *
1327814 ATGATAATCTGATGTGTCATTCTCATATTGGAAA
1 AGGATAATCTGATATGTCATTCCCATATTAGAAA
1327848 AGGATA
1 AGGATA
1327854 GGAATGACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 31 0.89
35 4 0.11
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (34 bp):
AGGATAATCTGATATGTCATTCCCATATTAGAAA
Found at i:1335054 original size:21 final size:21
Alignment explanation
Indices: 1335028--1335067 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1335018 AAGTTTAGGG
1335028 TTTGAAATTTG-GAATTTGAAT
1 TTTGAAATTTGTG-ATTTGAAT
*
1335049 TTTGAAGTTTGTGATTTGA
1 TTTGAAATTTGTGATTTGA
1335068 GTTTCGGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.50
Consensus pattern (21 bp):
TTTGAAATTTGTGATTTGAAT
Found at i:1337504 original size:15 final size:15
Alignment explanation
Indices: 1337481--1337527 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
1337471 TATTCCCTCT
*
1337481 TTTACTTAAATATTA
1 TTTATTTAAATATTA
*
1337496 TTTATTTAAATAATA
1 TTTATTTAAATATTA
*
1337511 ATTATTTAAAT-TTA
1 TTTATTTAAATATTA
1337525 TTT
1 TTT
1337528 TCCAAAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATTTAAATATTA
Found at i:1349022 original size:21 final size:21
Alignment explanation
Indices: 1348998--1349039 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1348988 AAACTTGAAC
1348998 TGCTTAATGGATTTCTAACTT
1 TGCTTAATGGATTTCTAACTT
1349019 TGCTTAATGGATTTCTAACTT
1 TGCTTAATGGATTTCTAACTT
1349040 ATACATACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (21 bp):
TGCTTAATGGATTTCTAACTT
Found at i:1352370 original size:20 final size:20
Alignment explanation
Indices: 1352345--1352384 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1352335 GCGAGGATTT
1352345 TTTTATTTCAAAATGTTATA
1 TTTTATTTCAAAATGTTATA
*
1352365 TTTTATTTCAAATTGTTATA
1 TTTTATTTCAAAATGTTATA
1352385 CCAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTATTTCAAAATGTTATA
Found at i:1353138 original size:22 final size:20
Alignment explanation
Indices: 1353113--1353152 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1353103 ACAGTAAGTG
1353113 TTATTTCGATTACAATTTAACC
1 TTATTT-GATT-CAATTTAACC
*
1353135 TTATTTGATTCATTTTAA
1 TTATTTGATTCAATTTAA
1353153 TGGTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (20 bp):
TTATTTGATTCAATTTAACC
Found at i:1356322 original size:159 final size:160
Alignment explanation
Indices: 1355928--1356362 Score: 665
Period size: 160 Copynumber: 2.7 Consensus size: 160
1355918 CCATTGTTAG
* *
1355928 TACAAGTTTACTTGCAAAACAAGAAACCTAATTAGAGTAACCCTAAGTTAAAATTTCATCAATCA
1 TACAAGTTTACTTGCAAAACAAGAAACCTGATTAAAGTAACCCTAAGTTAAAATTTCATCAATCA
* * *
1355993 GACAATCACCAACATGAAAAATAAGAAAAACCCATAATTATAAACTAAATTCATCAAAGCAACCA
66 GACAATCACCAACATGAAAAATAAGAAAAACCCACAATTTTAAACAAAATTCATCAAAGCAACCA
1356058 TTGTTAGACATTGAAGAAAAAAAATTTACC
131 TTGTTAGACATTGAAGAAAAAAAATTTACC
* *
1356088 TACAAGTTTACTTGCAAGACAAGAAACCTGATTAAAGTAACCCTAAGTTAAAAGTTCATCAATCA
1 TACAAGTTTACTTGCAAAACAAGAAACCTGATTAAAGTAACCCTAAGTTAAAATTTCATCAATCA
* * *
1356153 GACAACCACCAACATGAAAAATAAGAAAACCCCACAATTTTAAAGAAAATTCATCAAAGCAACCA
66 GACAATCACCAACATGAAAAATAAGAAAAACCCACAATTTTAAACAAAATTCATCAAAGCAACCA
* *****
1356218 TTGTTAGGCATTGAAGAAATTTTTTTTACC
131 TTGTTAGACATTGAAGAAAAAAAATTTACC
* * * *
1356248 TA-AAGTTTACTTGCAACACAATAAACCTGATTAAAGTAATCCTAAGCTAAAATTTCATCAATCA
1 TACAAGTTTACTTGCAAAACAAGAAACCTGATTAAAGTAACCCTAAGTTAAAATTTCATCAATCA
* *
1356312 GACAATCACCAACATGAAAAATAAGAAAAACCCAGAATTTTAAACTAAATT
66 GACAATCACCAACATGAAAAATAAGAAAAACCCACAATTTTAAACAAAATT
1356363 TTGAACTAAA
Statistics
Matches: 249, Mismatches: 26, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
159 103 0.41
160 146 0.59
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (160 bp):
TACAAGTTTACTTGCAAAACAAGAAACCTGATTAAAGTAACCCTAAGTTAAAATTTCATCAATCA
GACAATCACCAACATGAAAAATAAGAAAAACCCACAATTTTAAACAAAATTCATCAAAGCAACCA
TTGTTAGACATTGAAGAAAAAAAATTTACC
Found at i:1359735 original size:122 final size:124
Alignment explanation
Indices: 1359512--1359841 Score: 376
Period size: 122 Copynumber: 2.6 Consensus size: 124
1359502 GAGAGAGAGA
* ** *
1359512 GTACAATTCACACATCCTTGATAGAAACAAATCGTTGCCACCACACATCATGACTCAAATCTACG
1 GTACAATTCACACATCTTTGATAGAAACAAATCACTGTCA-CACACATCATGACTCAAATCTACG
* * * *
1359577 ACGTGGATTATGAGGGTAACACTTATGACCAATAGGCTAAACGTT-CG-ATATATATATG
65 ACATGAATTATGAGGATAACACTTATGACCAATAGGCTAAACATTGCGTATATATATATG
* * * * *
1359635 GTACAATTCACATATTTTTGATAGAAACAAATCACTGTCACACGCATCATGACTCGAATCTATGA
1 GTACAATTCACACATCTTTGATAGAAACAAATCACTGTCACACACATCATGACTCAAATCTACGA
* * * *
1359700 CATGAATTATGAGGATAGCACTTATGATCAGTAGGCTAAACATTGGGTATATATATATATG
66 CATGAATTATGAGGATAACACTTATGACCAATAGGCTAAACATTGCG--TATATATATATG
* * * * *
1359761 GTGCAATTCACACACCTTTGATAGAAACAAATCACTGTCACACACCCGTCATAACTCGAATCTAC
1 GTACAATTCACACATCTTTGATAGAAACAAATCACTGTCACACA--CATCATGACTCAAATCTAC
** *
1359826 GATGTGGATTATGAGG
64 GACATGAATTATGAGG
1359842 GCATCACCTA
Statistics
Matches: 173, Mismatches: 28, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
122 59 0.34
123 35 0.20
126 50 0.29
128 29 0.17
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (124 bp):
GTACAATTCACACATCTTTGATAGAAACAAATCACTGTCACACACATCATGACTCAAATCTACGA
CATGAATTATGAGGATAACACTTATGACCAATAGGCTAAACATTGCGTATATATATATG
Found at i:1360041 original size:17 final size:17
Alignment explanation
Indices: 1360018--1360061 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1360008 CGGGGCCTCT
1360018 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
1360036 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
1360052 TTTAAATTTA
1 TTTAAATTTA
1360062 AATTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:1360055 original size:23 final size:25
Alignment explanation
Indices: 1360036--1360082 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1360026 TATTTTAAGA
1360036 TTAAATTT-GTTTT-AAATTTAAAT
1 TTAAATTTAGTTTTCAAATTTAAAT
*
1360059 TTAAATTTATTTTTCAAATTTAAA
1 TTAAATTTAGTTTTCAAATTTAAA
1360083 ACTATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 4 0.19
25 9 0.43
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAAATTTAGTTTTCAAATTTAAAT
Found at i:1360894 original size:19 final size:19
Alignment explanation
Indices: 1360859--1360901 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1360849 GAATAATAAC
*
1360859 AATAATAATAAATATTATT
1 AATAATAATAAATATTAAT
1360878 AATAATAATTAAA-ATTAAT
1 AATAATAA-TAAATATTAAT
1360897 AATAA
1 AATAA
1360902 CAAAAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAATAATAAATATTAAT
Found at i:1362016 original size:30 final size:28
Alignment explanation
Indices: 1361935--1362190 Score: 89
Period size: 29 Copynumber: 8.9 Consensus size: 28
1361925 CAAAAATCAT
1361935 ATTTTACCCTCGAACTTCCCAAAATATA--
1 ATTTTA-CCTCGAACTTCCCAAAA-ATACC
** *
1361963 ATTTTTAACCTCGATTTTTCCAAAAACTACC
1 A-TTTT-ACCTCGAACTTCCCAAAAA-TACC
1361994 ATTTTACCTTCGAACTTCCC-AAAATACC
1 ATTTTACC-TCGAACTTCCCAAAAATACC
* * * *
1362022 ATTTTTAACC-CTAATTTTTCCAAAATTACC
1 A-TTTT-ACCTCGAA-CTTCCCAAAAATACC
** * *
1362052 ATTTTACCCTTAAAC-TCCCAAGAATTCC
1 ATTTTA-CCTCGAACTTCCCAAAAATACC
* * * * *
1362080 ATTTTGACC-CTAATTTTTCTAAAAATTATC
1 ATTTT-ACCTCGAA-CTTCCCAAAAA-TACC
* *
1362110 ATTTTACCCCCGAACTT-CCAAAAATTCC
1 ATTTTA-CCTCGAACTTCCCAAAAATACC
* * * *
1362138 ATTTTGACC-CTAATTTTCCAAAATTACC
1 ATTTT-ACCTCGAACTTCCCAAAAATACC
* *
1362166 ATTTTACCCCCAAACTT-CCAAAAAT
1 ATTTTA-CCTCGAACTTCCCAAAAAT
1362191 TTCATTTTTG
Statistics
Matches: 169, Mismatches: 37, Indels: 44
0.68 0.15 0.18
Matches are distributed among these distances:
27 8 0.05
28 59 0.35
29 61 0.36
30 37 0.22
31 4 0.02
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.36
Consensus pattern (28 bp):
ATTTTACCTCGAACTTCCCAAAAATACC
Found at i:1362072 original size:28 final size:27
Alignment explanation
Indices: 1361985--1362290 Score: 100
Period size: 29 Copynumber: 10.7 Consensus size: 27
1361975 GATTTTTCCA
* * *
1361985 AAAACTACCATTTTACCTTCGAACTTCCC
1 AAAATTACCATTTTACCCT-AAAC-TCCC
** *
1362014 AAAA-TACCATTTTTAACCCTAATTTTTCC
1 AAAATTACCA-TTTT-ACCCTAA-ACTCCC
1362043 AAAATTACCATTTTACCCTTAAACTCCC
1 AAAATTACCATTTTACCC-TAAACTCCC
** **
1362071 AAGAATT-CCATTTTGACCCTAATTTTTCTA
1 AA-AATTACCATTTT-ACCCTAA--ACTCCC
* ** *
1362101 AAAATTATCATTTTACCCCCGAACTTCCA
1 AAAATTACCATTTTA-CCCTAAAC-TCCC
** *
1362130 AAAATT-CCATTTTGACCCTAATTTTCC
1 AAAATTACCATTTT-ACCCTAAACTCCC
* *
1362157 AAAATTACCATTTTACCCCCAAACTTCCA
1 AAAATTACCATTTTA-CCCTAAAC-TCCC
* * ** *
1362186 AAAATT-TCATTTTTGACACTAATTTTTCC
1 AAAATTACCA-TTTT-ACCCTAA-ACTCCC
* *
1362215 AAAATTACCATTTTACCCCTAAACTTTCA
1 AAAATTACCATTTTA-CCCTAAAC-TCCC
* * *
1362244 AAAATT-CTATTTTGACCCTAATTTCTCCA
1 AAAATTACCATTTT-ACCCTAA--ACTCCC
*
1362273 AAAATTACTATTTTACCC
1 AAAATTACCATTTTACCC
1362291 CCAAACTTGC
Statistics
Matches: 206, Mismatches: 45, Indels: 52
0.68 0.15 0.17
Matches are distributed among these distances:
27 9 0.04
28 61 0.30
29 102 0.50
30 34 0.17
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAATTACCATTTTACCCTAAACTCCC
Found at i:1362083 original size:58 final size:58
Alignment explanation
Indices: 1361976--1362350 Score: 427
Period size: 58 Copynumber: 6.4 Consensus size: 58
1361966 TTTAACCTCG
* ** * * * *
1361976 ATTTTTCCAAAAACTACCATTTTACCTTCGAACTTCCCAAAATACCATTTTTAACCCTA
1 ATTTTTCC-AAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCTA
** * *
1362035 ATTTTTCCAAAATTACCATTTTACCCTTAAACTCCCAAGAATTCCA-TTTTGACCCTA
1 ATTTTTCCAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCTA
* * *
1362092 ATTTTTCTAAAAATTATCATTTTACCCCCGAACTTCCAAAAATTCCA-TTTTGACCCTA
1 ATTTTTC-CAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCTA
* *
1362150 A-TTTTCCAAAATTACCATTTTACCCCCAAACTTCCAAAAATTTCATTTTTGACACTA
1 ATTTTTCCAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCTA
* * *
1362207 ATTTTTCCAAAATTACCATTTTACCCCTAAACTTTCAAAAATTCTA-TTTTGACCCTA
1 ATTTTTCCAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCTA
* * * * ** *
1362264 ATTTCTCCAAAAATTACTATTTTACCCCCAAACTTGCAAAGATTTTATTTTTTG-CCCTG
1 ATTTTTCC-AAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCA-TTTTTGACCCTA
1362323 ATTTTTGCCAAAAATTACCATTTTACCC
1 ATTTTT-CC-AAAATTACCATTTTACCC
1362351 TGAGTGTCCA
Statistics
Matches: 274, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
56 35 0.13
57 50 0.18
58 147 0.54
59 17 0.06
60 25 0.09
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (58 bp):
ATTTTTCCAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCTA
Found at i:1362224 original size:172 final size:173
Alignment explanation
Indices: 1361923--1362350 Score: 506
Period size: 172 Copynumber: 2.5 Consensus size: 173
1361913 CTCTAAACTG
* * * * *
1361923 TCCAAAAATCAT-ATTTTACCCTCGAACTTCCCAAAATATAATTTTTAACCTCGATTTTTCCAAA
1 TCCAAAAATTATCATTTTACCCCCGAACTTCCAAAAAT-TAATTTTTGACC-CTATTTTTCCAAA
* ** * * *
1361987 AACTACCATTTTACCTTCGAACTTCCCAAAATACCATTTTTAACCCTAATTTTTCCAAAATTACC
64 AATTACCATTTTACCCCCAAACTTCCAAAAATACCATTTTTAACACTAATTTTTCCAAAATTACC
* * *
1362052 ATTTTACCCTTAAACTCCCAAGAATTCCATTTTGACCCTAATTTT
129 ATTTTACCCCTAAACTCCCAAAAATTCCATTTTGACCCTAATTTC
* * *
1362097 TCTAAAAATTATCATTTTACCCCCGAACTTCCAAAAATTCCA-TTTTGACCCTAATTTTCC-AAA
1 TCCAAAAATTATCATTTTACCCCCGAACTTCCAAAAATT-AATTTTTGACCCTATTTTTCCAAAA
** *
1362160 ATTACCATTTTACCCCCAAACTTCCAAAAATTTCATTTTTGACACTAATTTTTCCAAAATTACCA
65 ATTACCATTTTACCCCCAAACTTCCAAAAATACCATTTTTAACACTAATTTTTCCAAAATTACCA
** *
1362225 TTTTACCCCTAAACTTTCAAAAATTCTATTTTGACCCTAATTTC
130 TTTTACCCCTAAACTCCCAAAAATTCCATTTTGACCCTAATTTC
* * * *
1362269 TCCAAAAATTA-CTATTTTACCCCCAAACTTGCAAAGATTTTATTTTTTG-CCCTGATTTTTGCC
1 TCCAAAAATTATC-ATTTTACCCCCGAACTTCCAAA-A-ATTAATTTTTGACCCT-ATTTTT-CC
1362332 AAAAATTACCATTTTACCC
61 AAAAATTACCATTTTACCC
1362351 TGAGTGTCCA
Statistics
Matches: 215, Mismatches: 30, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
171 1 0.00
172 127 0.59
173 13 0.06
174 30 0.14
175 26 0.12
176 18 0.08
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (173 bp):
TCCAAAAATTATCATTTTACCCCCGAACTTCCAAAAATTAATTTTTGACCCTATTTTTCCAAAAA
TTACCATTTTACCCCCAAACTTCCAAAAATACCATTTTTAACACTAATTTTTCCAAAATTACCAT
TTTACCCCTAAACTCCCAAAAATTCCATTTTGACCCTAATTTC
Found at i:1362388 original size:27 final size:27
Alignment explanation
Indices: 1362328--1362390 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
1362318 CCCTGATTTT
* *
1362328 TGCCAAAAATTACCATTTTACCCTGAG
1 TGCCCAAAATTACCATTTTACCCCGAG
* *
1362355 TGTCCAAAATTACCATTTTGCCCCCGA-
1 TGCCCAAAATTACCATTTT-ACCCCGAG
1362382 TGCCCAAAA
1 TGCCCAAAA
1362391 ATCTCGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (27 bp):
TGCCCAAAATTACCATTTTACCCCGAG
Found at i:1362780 original size:97 final size:99
Alignment explanation
Indices: 1362603--1362788 Score: 252
Period size: 97 Copynumber: 1.9 Consensus size: 99
1362593 AAATCGAGGT
* * *
1362603 AATGTTTTTTTTATCTCTGATCCTAAAAATTTGTGCATTAACTTACTAGGCGCGATTTTTTCTTC
1 AATGTTTTCTTTATCTCCGATCCTAAAAATTTGTGCATTAACTTACTAGGCGCGAATTTTTCTTC
*
1362668 AAATCCGATAATCGAATA-CCTTTAAATTAAGGC
66 AAATCAGATAATCGAATATCCTTTAAATTAAGGC
* * * *
1362701 AATG-TTTCTTTATCTCCGATCCTGAAAATTTGTGCCTTAACTTATTAGGCG-TAATTTTTCTTC
1 AATGTTTTCTTTATCTCCGATCCTAAAAATTTGTGCATTAACTTACTAGGCGCGAATTTTTCTTC
**
1362764 AAATCGAGATGCTCGAATATCCTTT
66 AAATC-AGATAATCGAATATCCTTT
1362789 TCAAATGTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
96 15 0.20
97 52 0.68
98 9 0.12
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (99 bp):
AATGTTTTCTTTATCTCCGATCCTAAAAATTTGTGCATTAACTTACTAGGCGCGAATTTTTCTTC
AAATCAGATAATCGAATATCCTTTAAATTAAGGC
Found at i:1362984 original size:19 final size:20
Alignment explanation
Indices: 1362957--1362995 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1362947 GCATTTAGGC
*
1362957 ATCGTATTTT-AAAACTTTA
1 ATCGAATTTTCAAAACTTTA
*
1362976 ATCGAATTTTCAAAATTTTA
1 ATCGAATTTTCAAAACTTTA
1362996 CAAACAAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (20 bp):
ATCGAATTTTCAAAACTTTA
Found at i:1363822 original size:15 final size:15
Alignment explanation
Indices: 1363798--1363827 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1363788 TTGGAGATTA
*
1363798 AAAAGCAAAAAGAAG
1 AAAAGAAAAAAGAAG
1363813 AAAAGAAAAAAGAAG
1 AAAAGAAAAAAGAAG
1363828 CTGAACAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAGAAG
Found at i:1368634 original size:23 final size:23
Alignment explanation
Indices: 1368574--1368649 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
1368564 TTTACCTAAG
1368574 CTTTTTTCTTTCT-TTCGTGCTTT
1 CTTTTTTC-TTCTGTTCGTGCTTT
* *
1368597 CTCTTTTGCTT-TGTTTGTTGC-TT
1 CT-TTTTTCTTCTGTTCG-TGCTTT
*
1368620 CTTTTTTCTTCTGTTC-AGC-TT
1 CTTTTTTCTTCTGTTCGTGCTTT
1368641 CTTTTTTCT
1 CTTTTTTCT
1368650 CAGCTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 13 0.30
22 8 0.18
23 15 0.34
24 8 0.18
ACGTcount: A:0.01, C:0.21, G:0.11, T:0.67
Consensus pattern (23 bp):
CTTTTTTCTTCTGTTCGTGCTTT
Found at i:1374759 original size:26 final size:26
Alignment explanation
Indices: 1374723--1374774 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
1374713 ACATTTTGGT
1374723 AACCTTCTGCCTTGCTCAATCATCTC
1 AACCTTCTGCCTTGCTCAATCATCTC
* *
1374749 AACCTTCTGCCTTGTTCCATCATCTC
1 AACCTTCTGCCTTGCTCAATCATCTC
1374775 CAAACAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.17, C:0.38, G:0.08, T:0.37
Consensus pattern (26 bp):
AACCTTCTGCCTTGCTCAATCATCTC
Found at i:1381107 original size:21 final size:21
Alignment explanation
Indices: 1381084--1381122 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1381074 ATTAGGACAA
1381084 AAAAAC-TCAAATATCAAATT
1 AAAAACTTCAAATATCAAATT
*
1381104 AAAAACTTCAGATATCAAA
1 AAAAACTTCAAATATCAAA
1381123 ATAACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAAACTTCAAATATCAAATT
Found at i:1387489 original size:4 final size:4
Alignment explanation
Indices: 1387482--1387522 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
1387472 CAAACCATAC
1387482 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1387523 CCTTAGAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:1388266 original size:18 final size:18
Alignment explanation
Indices: 1388226--1388283 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
1388216 AACCGATTTT
*
1388226 ATAATT-TTA-TAATTTA
1 ATAATTATTATTAAATTA
*
1388242 TTAATTATTATTAAATTA
1 ATAATTATTATTAAATTA
*
1388260 ATAATTA-AATTAAAATTA
1 ATAATTATTATT-AAATTA
1388278 ATAATT
1 ATAATT
1388284 TAACTGGTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
16 5 0.14
17 6 0.17
18 24 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATTATTATTAAATTA
Found at i:1389209 original size:25 final size:25
Alignment explanation
Indices: 1389164--1389211 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1389154 TTTTAAAATT
* *
1389164 TAAAAAAATAAAGTGATTAAATTCA
1 TAAAAAAATAAAGTAACTAAATTCA
1389189 TAAAAAAATACAA-TAACTAAATT
1 TAAAAAAATA-AAGTAACTAAATT
1389212 TCAAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAAAAATAAAGTAACTAAATTCA
Found at i:1389821 original size:15 final size:15
Alignment explanation
Indices: 1389803--1389832 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1389793 CCCAAATTTA
*
1389803 AAATTAACTAAACTT
1 AAATTAACCAAACTT
1389818 AAATTAACCAAACTT
1 AAATTAACCAAACTT
1389833 TTTATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTAACCAAACTT
Found at i:1395100 original size:12 final size:12
Alignment explanation
Indices: 1395083--1395107 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1395073 ATTCAAGCAT
1395083 ATCATCATCATA
1 ATCATCATCATA
1395095 ATCATCATCATA
1 ATCATCATCATA
1395107 A
1 A
1395108 GATGATGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCATCATCATA
Found at i:1399520 original size:141 final size:143
Alignment explanation
Indices: 1399262--1399543 Score: 365
Period size: 141 Copynumber: 2.0 Consensus size: 143
1399252 GATACATCCG
* * *
1399262 GTTTGGTGTATGTAATGAAGTTTTCGGGTTAGTTAAGTAGCTTTTGGTTAGACTGTATTATCAAA
1 GTTTGGTGTATGTAATGAAGTTTTCGGGTTAGTTAAGTAGC--TTGCTTAGACTATATAATCAAA
* * * * * * *
1399327 TGTTTCTTTAACTCGAACATGATCAGTCTAGGTTCTTTGAACAAGAGTTGTTCGCATAATAGATT
64 TGTTGCTTTAACCCAAACACGATCAGTCTAGGCTCTGTGAACAAGAGTTGTTCACATAATAGATT
1399392 TGGTTGATGAACTCT
129 TGGTTGATGAACTCT
* *
1399407 GTTTGGTGTATGTAATGAAGTTTTCGGGTTTGTTCAA-TAGC-T-CTTAGACTATGTAATCAAAT
1 GTTTGGTGTATGTAATGAAGTTTTCGGGTTAGTT-AAGTAGCTTGCTTAGACTATATAATCAAAT
* * *
1399469 GTTGCTTTAACCCAAACACGAT-TGTTCTAGGCTCTGTGAACACGAGTTGTTCACATGATAGATT
65 GTTGCTTTAACCCAAACACGATCAG-TCTAGGCTCTGTGAACAAGAGTTGTTCACATAATAGATT
1399533 TGGTTGATGAA
129 TGGTTGATGAA
1399544 GTTTTTCGGG
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
140 1 0.01
141 79 0.66
142 1 0.01
145 37 0.31
146 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (143 bp):
GTTTGGTGTATGTAATGAAGTTTTCGGGTTAGTTAAGTAGCTTGCTTAGACTATATAATCAAATG
TTGCTTTAACCCAAACACGATCAGTCTAGGCTCTGTGAACAAGAGTTGTTCACATAATAGATTTG
GTTGATGAACTCT
Found at i:1401180 original size:148 final size:149
Alignment explanation
Indices: 1400911--1401206 Score: 490
Period size: 148 Copynumber: 2.0 Consensus size: 149
1400901 GATGGATGGA
1400911 TATGCATTCTCCAAATTAGAATTTGTAAAACAACCCTTGCTTTGTTTGAATGATACTACATGTTG
1 TATGCATTCTCCAAATTAGAATTTGTAAAACAACCCTTGCTTTGTTTGAATGATACTACATGTTG
* *
1400976 ATGTGCTTTTGATGTTTGCCTTGCTTTAAAGTTCCTCTCATCTTCATTTTCATGTATATGTATGT
66 ATGTACTTTTGATGTTTGCCTTGCTTTAAAGTTCCTCTAATCTTCATTTTCATGTATATGTATG-
1401041 G-TCTATGTATGCATGTATG
130 GATCTATGTATGCATGTATG
* * * *
1401060 TATGCGTTCTCCTAATTAGAATTTGTAAAACATCCCTTGC-TTGTTTGCATGATAC-ATCATGTT
1 TATGCATTCTCCAAATTAGAATTTGTAAAACAACCCTTGCTTTGTTTGAATGATACTA-CATGTT
1401123 GATGTACTTTTGATGTTTGCCTTGCTTTAAAGTTCCTCTAATCTTCATTTTCATGTATATGTATG
65 GATGTACTTTTGATGTTTGCCTTGCTTTAAAGTTCCTCTAATCTTCATTTTCATGTATATGTATG
*
1401188 GATCTATGTATGTATGTAT
130 GATCTATGTATGCATGTAT
1401207 CATGCATGCA
Statistics
Matches: 138, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
147 2 0.01
148 99 0.72
149 37 0.27
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (149 bp):
TATGCATTCTCCAAATTAGAATTTGTAAAACAACCCTTGCTTTGTTTGAATGATACTACATGTTG
ATGTACTTTTGATGTTTGCCTTGCTTTAAAGTTCCTCTAATCTTCATTTTCATGTATATGTATGG
ATCTATGTATGCATGTATG
Found at i:1409317 original size:29 final size:29
Alignment explanation
Indices: 1409275--1409346 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
1409265 ATTGGGACTG
*
1409275 GATCAAATTAGTCCCTCTACTATTAAAGA
1 GATCAAATTAGTCCCTATACTATTAAAGA
* *
1409304 GATCCAATTAGTCCCTATACTATTAAAAA
1 GATCAAATTAGTCCCTATACTATTAAAGA
*
1409333 GAATCAAATAAGTC
1 G-ATCAAATTAGTC
1409347 TAGATTGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 27 0.73
30 10 0.27
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (29 bp):
GATCAAATTAGTCCCTATACTATTAAAGA
Found at i:1422267 original size:38 final size:38
Alignment explanation
Indices: 1422221--1422294 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
1422211 TTATTGAGAA
* *
1422221 ATATTTATTTTAACATTTTCATGTGTATTTGATGTGTT
1 ATATTTATTTTAACATTTTCAAGTATATTTGATGTGTT
**
1422259 ATATTTATTTTAATGTTTTCAAGTATATTTGATGTG
1 ATATTTATTTTAACATTTTCAAGTATATTTGATGTG
1422295 CATGCGTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.57
Consensus pattern (38 bp):
ATATTTATTTTAACATTTTCAAGTATATTTGATGTGTT
Found at i:1425233 original size:34 final size:34
Alignment explanation
Indices: 1425173--1425241 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 34
1425163 TCTATCTAAG
1425173 GGATTATTTGCAGCAGCAAACAAAGC-ATAATAAA
1 GGATTATTTGCAGCAGCAAACAAAGCAATAA-AAA
1425207 GGATTATTTGCAGCAGCAAA-ACAAGCAATAAAAA
1 GGATTATTTGCAGCAGCAAACA-AAGCAATAAAAA
1425241 G
1 G
1425242 ACCATCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 1 0.03
34 28 0.85
35 4 0.12
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (34 bp):
GGATTATTTGCAGCAGCAAACAAAGCAATAAAAA
Found at i:1430318 original size:15 final size:15
Alignment explanation
Indices: 1430298--1430326 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1430288 GTTTCTCCTT
1430298 TTCCTTCATTTTCCG
1 TTCCTTCATTTTCCG
1430313 TTCCTTCATTTTCC
1 TTCCTTCATTTTCC
1430327 ATTATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.34, G:0.03, T:0.55
Consensus pattern (15 bp):
TTCCTTCATTTTCCG
Found at i:1435300 original size:34 final size:34
Alignment explanation
Indices: 1435252--1435319 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
1435242 GATCTAAGGG
1435252 ATTACTTGCAGCAGC-AAACAAAGC-ATAATAAAGA
1 ATTACTTGCAGCAGCAAAAC-AAGCAATAA-AAAGA
*
1435286 ATTATTTGCAGCAGCAAAACAAGCAATAAAAAGA
1 ATTACTTGCAGCAGCAAAACAAGCAATAAAAAGA
1435320 CCATCAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 23 0.74
35 8 0.26
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.18
Consensus pattern (34 bp):
ATTACTTGCAGCAGCAAAACAAGCAATAAAAAGA
Found at i:1437358 original size:10 final size:11
Alignment explanation
Indices: 1437330--1437357 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1437320 ATTGAAGACA
1437330 TTAAAAATCTT
1 TTAAAAATCTT
1437341 TTAAAAATCTT
1 TTAAAAATCTT
1437352 TTAAAA
1 TTAAAA
1437358 TAGTAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAAAATCTT
Found at i:1443394 original size:22 final size:23
Alignment explanation
Indices: 1443363--1443423 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
1443353 TTTCATCATT
1443363 TAATT-TTAAAGTATTAT-AAAA
1 TAATTATTAAAGTATTATAAAAA
*
1443384 TAATTATTAAATTATT-TAAAAA
1 TAATTATTAAAGTATTATAAAAA
* *
1443406 TATTTATTTAAGTTATTA
1 TAATTATTAAAG-TATTA
1443424 AGCTGTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 6 0.19
22 22 0.69
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TAATTATTAAAGTATTATAAAAA
Found at i:1443806 original size:32 final size:32
Alignment explanation
Indices: 1443754--1443822 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
1443744 AACCTTTTAA
*
1443754 AATTAAATAATTAAAATATAAA-TTTATAAAT
1 AATTTAATAATTAAAATATAAAGTTTATAAAT
* * *
1443785 AATTTAATAACTTTAAATATAAAGTTTTTTAAT
1 AATTTAATAA-TTAAAATATAAAGTTTATAAAT
1443818 AATTT
1 AATTT
1443823 CTGTAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 9 0.28
32 11 0.34
33 12 0.38
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (32 bp):
AATTTAATAATTAAAATATAAAGTTTATAAAT
Found at i:1448675 original size:25 final size:25
Alignment explanation
Indices: 1448642--1448724 Score: 130
Period size: 25 Copynumber: 3.3 Consensus size: 25
1448632 CGCTTCTGTT
1448642 CAGCACTGTGTGTGCTTCTGTTACC
1 CAGCACTGTGTGTGCTTCTGTTACC
*
1448667 CAGCACTGTGTGTGCTTTTGTTACC
1 CAGCACTGTGTGTGCTTCTGTTACC
* *
1448692 CAGCACTGTGAGTGCTTCTGTTTCCC
1 CAGCACTGTGTGTGCTTCTG-TTACC
1448718 CAGCACT
1 CAGCACT
1448725 TATGTACCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 42 0.79
26 11 0.21
ACGTcount: A:0.13, C:0.29, G:0.23, T:0.35
Consensus pattern (25 bp):
CAGCACTGTGTGTGCTTCTGTTACC
Found at i:1451949 original size:23 final size:23
Alignment explanation
Indices: 1451919--1452044 Score: 180
Period size: 23 Copynumber: 5.4 Consensus size: 23
1451909 GTACGTCTCC
1451919 TGCTCTCTGTTATTAGCACTGTGTG
1 TGCTCTCTG--ATTAGCACTGTGTG
*
1451944 TGCTCTCTGATTAGCACTTTGTG
1 TGCTCTCTGATTAGCACTGTGTG
*
1451967 TGCTCTCTGAATAGCACTGTGTG
1 TGCTCTCTGATTAGCACTGTGTG
* *
1451990 TGCTCTCTGATTAGTACTTTGTG
1 TGCTCTCTGATTAGCACTGTGTG
* *
1452013 TACTCTCTGTTTAGCACTGTGTG
1 TGCTCTCTGATTAGCACTGTGTG
1452036 TGCTCTCTG
1 TGCTCTCTG
1452045 TTGCCCAGCA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
23 81 0.90
25 9 0.10
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (23 bp):
TGCTCTCTGATTAGCACTGTGTG
Found at i:1452027 original size:69 final size:68
Alignment explanation
Indices: 1451919--1452094 Score: 203
Period size: 69 Copynumber: 2.5 Consensus size: 68
1451909 GTACGTCTCC
* * * * *
1451919 TGCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGAAT-AGCA
1 TGCTCTCTG--ATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTG-ATCAGCA
* *
1451983 CTGTGTG
63 CT-TATA
*
1451990 TGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTGCCCAGCA
1 TGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGAT---CAGCA
1452055 CTTATA
63 CTTATA
1452061 TGCTCTCTGATTAGTACTTTG-GTACTCTCTGTTT
1 TGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTT
1452095 GTTTCGTATA
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
68 1 0.01
69 41 0.44
70 13 0.14
71 32 0.34
72 6 0.06
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.43
Consensus pattern (68 bp):
TGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGATCAGCACTT
ATA
Found at i:1452045 original size:23 final size:23
Alignment explanation
Indices: 1451897--1452046 Score: 167
Period size: 23 Copynumber: 6.4 Consensus size: 23
1451887 ACACTAGCGC
* * *
1451897 GCTCTCTGTTTAGTAC-GTCTCCT
1 GCTCTCTGTTTAGCACTGTGT-GT
1451920 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* *
1451945 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
**
1451968 GCTCTCTGAATAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* * *
1451991 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
1452014 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
1452037 GCTCTCTGTT
1 GCTCTCTGTT
1452047 GCCCAGCACT
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
23 90 0.83
24 1 0.01
25 15 0.14
26 3 0.03
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:1453685 original size:23 final size:23
Alignment explanation
Indices: 1453648--1453695 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1453638 GCGCGCTAAT
* * *
1453648 TGTTTCGCACTTCGTGTGCTTAC
1 TGTTTCACACCTCGTGTGCCTAC
1453671 TGTTTCACACCTCGTGTGCCTAC
1 TGTTTCACACCTCGTGTGCCTAC
1453694 TG
1 TG
1453696 ATTTGCGCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.29, G:0.21, T:0.40
Consensus pattern (23 bp):
TGTTTCACACCTCGTGTGCCTAC
Found at i:1453710 original size:23 final size:22
Alignment explanation
Indices: 1453684--1453763 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
1453674 TTCACACCTC
*
1453684 GTGTGCCTACTGATTTGCGCTAT
1 GTGTGCCTACTGA-TTGCACTAT
*
1453707 GTGTGCCTATTGATTGCACTAT
1 GTGTGCCTACTGATTGCACTAT
* * *
1453729 ATGAGCCTACTGGATTGCACTGT
1 GTGTGCCTACT-GATTGCACTAT
*
1453752 GTGTGCTTACTG
1 GTGTGCCTACTG
1453764 TTCCCCCAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 17 0.36
23 30 0.64
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (22 bp):
GTGTGCCTACTGATTGCACTAT
Found at i:1464292 original size:22 final size:23
Alignment explanation
Indices: 1464241--1464299 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
1464231 GCTGGGGAAA
* *
1464241 CAGTAAGCACACACTGTGCAATC
1 CAGTAGGCACACACTGTACAATC
*
1464264 CAGTAGGCATACACTGTACAAT-
1 CAGTAGGCACACACTGTACAATC
*
1464286 CAGTAGGCGCACAC
1 CAGTAGGCACACAC
1464300 AGCGCAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (23 bp):
CAGTAGGCACACACTGTACAATC
Found at i:1464350 original size:23 final size:23
Alignment explanation
Indices: 1464315--1464385 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
1464305 AAATCAGCAG
*
1464315 GCACACGAGGTGCGAAACAATAA
1 GCACACGAAGTGCGAAACAATAA
* * *
1464338 GTACACGAAGTGCGAAATAGTAA
1 GCACACGAAGTGCGAAACAATAA
*
1464361 GCACACGAAGTGTGAAACAATAA
1 GCACACGAAGTGCGAAACAATAA
1464384 GC
1 GC
1464386 GCGCTAGCGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (23 bp):
GCACACGAAGTGCGAAACAATAA
Found at i:1467395 original size:31 final size:30
Alignment explanation
Indices: 1467357--1467493 Score: 102
Period size: 31 Copynumber: 4.6 Consensus size: 30
1467347 TAAATATAAC
* *
1467357 ATTTGGTACTTGAACTTGATACTTTTTACTA
1 ATTTGGTACTTAAACTTGACACTTTTT-CTA
* * *
1467388 ATTTGGTACATAAACTT----TTTTTGTCCA
1 ATTTGGTACTTAAACTTGACACTTTT-TCTA
* *
1467415 ATTTGATACTCAAACTTGACACTTTTTCCTA
1 ATTTGGTACTTAAACTTGACACTTTTT-CTA
** *
1467446 ATTTGGTACCCAAACTTGACACTTTTTTTTA
1 ATTTGGTACTTAAACTTGACAC-TTTTTCTA
* *
1467477 AGTTGGTACTTCAACTT
1 ATTTGGTACTTAAACTT
1467494 TTTGGAGTCC
Statistics
Matches: 83, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
27 20 0.24
28 1 0.01
30 1 0.01
31 56 0.67
32 5 0.06
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (30 bp):
ATTTGGTACTTAAACTTGACACTTTTTCTA
Found at i:1469205 original size:201 final size:203
Alignment explanation
Indices: 1468853--1469321 Score: 730
Period size: 201 Copynumber: 2.3 Consensus size: 203
1468843 AAAGAGTTAA
* *
1468853 ATTGCATTGCAGGCTATACATACAAAACATATGCACAACAACAAAATATATCGCCTTTCTCGTAC
1 ATTGCATTGCAGGCTATACATACAAAACAAATGCACAACAACAAAATACATCGCCTTTCTCGTAC
* * * *
1468918 CTGAAATCTTCGGGACTTGCTTAACACTCAACCGGGAATACTGTGTGCTTACCAACTAGAATTGC
66 CTGAAATCTTCAGGACTTGCTCAACACTCAACCGGGAACACTGTGTGCCTACCAACTAGAATTGC
* *
1468983 CCCATATAAACAGTATCACAAACACAAACAAGGCTCTGCATA-ATT-TCTTC-AGTCC-AGAGAA
131 CCCACATAAACAGCATCACAAACACAAACAAGGCTCTGCATAGATTATCTTCGA-TCCGA-AGAA
1469044 CCATATAAAG
194 CCATATAAAG
* * *
1469054 ATTGCATTGCAGGCTATACATAGAAAACAAATGCACAACAACAAAATACATTGCCTTTTTCGTAC
1 ATTGCATTGCAGGCTATACATACAAAACAAATGCACAACAACAAAATACATCGCCTTTCTCGTAC
* * * *
1469119 CTGAAATCTTCAGGACTTGCTCGACACTCAACCGTGAACACTGTGTGCCTACTAAGTAGAATTGC
66 CTGAAATCTTCAGGACTTGCTCAACACTCAACCGGGAACACTGTGTGCCTACCAACTAGAATTGC
* *
1469184 CCTACATAAACAGCGTCACAAACACAAACAAGGCTCTGCATAGATTATCTTCGATCCGAAGAACC
131 CCCACATAAACAGCATCACAAACACAAACAAGGCTCTGCATAGATTATCTTCGATCCGAAGAACC
1469249 ATATAAAG
196 ATATAAAG
*
1469257 ATTGCATTGCAGGCTATACATACAAAACAAATGCACAACAACAAAATACATCGCCTTTCTTGTAC
1 ATTGCATTGCAGGCTATACATACAAAACAAATGCACAACAACAAAATACATCGCCTTTCTCGTAC
1469322 ATTCGACCGG
Statistics
Matches: 243, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
201 155 0.64
202 3 0.01
203 83 0.34
204 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (203 bp):
ATTGCATTGCAGGCTATACATACAAAACAAATGCACAACAACAAAATACATCGCCTTTCTCGTAC
CTGAAATCTTCAGGACTTGCTCAACACTCAACCGGGAACACTGTGTGCCTACCAACTAGAATTGC
CCCACATAAACAGCATCACAAACACAAACAAGGCTCTGCATAGATTATCTTCGATCCGAAGAACC
ATATAAAG
Found at i:1471990 original size:17 final size:18
Alignment explanation
Indices: 1471968--1472005 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1471958 CAAACAAACA
1471968 AAATTTCAA-TTTTTTTT
1 AAATTTCAAGTTTTTTTT
*
1471985 AAATTTTAAGTTTTTTTT
1 AAATTTCAAGTTTTTTTT
1472003 AAA
1 AAA
1472006 AGTTTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
AAATTTCAAGTTTTTTTT
Found at i:1477775 original size:12 final size:12
Alignment explanation
Indices: 1477758--1477789 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
1477748 TCAAACTATG
1477758 TATGTGTATGTA
1 TATGTGTATGTA
1477770 TATGTG--TGTA
1 TATGTGTATGTA
1477780 TATGTGTATG
1 TATGTGTATG
1477790 AAAGATGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (12 bp):
TATGTGTATGTA
Found at i:1483371 original size:16 final size:18
Alignment explanation
Indices: 1483350--1483382 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
1483340 GTCATCACTT
1483350 AAATTT-TTT-TAATTTA
1 AAATTTCTTTATAATTTA
1483366 AAATTTCTTTATAATTT
1 AAATTTCTTTATAATTT
1483383 TTAATTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
AAATTTCTTTATAATTTA
Found at i:1486727 original size:83 final size:84
Alignment explanation
Indices: 1486553--1486727 Score: 232
Period size: 82 Copynumber: 2.1 Consensus size: 84
1486543 AAATCTTGGC
* * * * *
1486553 CCTT-TAAAAATAAAAAATTATATATTTAGTCCCTTCATAAATAATAAAATTATAAATTAATATA
1 CCTTATAAAAATAAAAAAATATATATTTAATCCCTTCAAAAATAATAAAATTATAAATCAATACA
*
1486617 TGATAAAATTACACATTAA
66 CGATAAAATTACACATTAA
* *
1486636 CC-TATAAAAATAAATAAAAT-TATATTTAATCCTTTCAAAAAT-ATTAAATTATAAATCAATAC
1 CCTTATAAAAATAAA-AAAATATATATTTAATCCCTTCAAAAATAATAAAATTATAAATCAATAC
*
1486698 ACGATAAAATTACACTTTAA
65 ACGATAAAATTACACATTAA
1486718 CCTTATAAAA
1 CCTTATAAAA
1486728 TTTCATAACT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
82 38 0.47
83 38 0.47
84 4 0.05
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (84 bp):
CCTTATAAAAATAAAAAAATATATATTTAATCCCTTCAAAAATAATAAAATTATAAATCAATACA
CGATAAAATTACACATTAA
Found at i:1488064 original size:31 final size:31
Alignment explanation
Indices: 1488026--1488087 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
1488016 CTTAACAATC
1488026 CAATAACTTAAATAAAAACTTCT-GAATAGTT
1 CAATAACTTAAATAAAAACTT-TAGAATAGTT
*
1488057 CAATAACTTAAATTAAAACTTTAGAATAGTT
1 CAATAACTTAAATAAAAACTTTAGAATAGTT
1488088 TAAGGTCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.34
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTTAGAATAGTT
Found at i:1489883 original size:15 final size:15
Alignment explanation
Indices: 1489863--1489894 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1489853 AAAAACCATT
1489863 TTTTCTTCATTTATG
1 TTTTCTTCATTTATG
1489878 TTTTCTTCATTTATG
1 TTTTCTTCATTTATG
1489893 TT
1 TT
1489895 CAAAGGACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTCTTCATTTATG
Found at i:1490702 original size:21 final size:22
Alignment explanation
Indices: 1490678--1490721 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
1490668 GGAATTTTGC
*
1490678 TTCTTTT-TTTTTTTTTTTTAT
1 TTCTTTTGGTTTTTTTTTTTAT
1490699 TTCTTTTGGGTTTTTTTTTTTAT
1 TTCTTTT-GGTTTTTTTTTTTAT
1490722 GTTTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
23 13 0.65
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (22 bp):
TTCTTTTGGTTTTTTTTTTTAT
Found at i:1496178 original size:15 final size:15
Alignment explanation
Indices: 1496158--1496187 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1496148 TTGGTACATG
1496158 GATTTTTTTAAATTT
1 GATTTTTTTAAATTT
1496173 GATTTTTTTAAATTT
1 GATTTTTTTAAATTT
1496188 TAATTTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
GATTTTTTTAAATTT
Found at i:1496193 original size:16 final size:15
Alignment explanation
Indices: 1496159--1496195 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1496149 TGGTACATGG
*
1496159 ATTTTTTTAAATTTG
1 ATTTTTTTAAATTTA
1496174 ATTTTTTTAAATTTTA
1 ATTTTTTTAAA-TTTA
1496190 ATTTTT
1 ATTTTT
1496196 GCAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
ATTTTTTTAAATTTA
Found at i:1496776 original size:15 final size:17
Alignment explanation
Indices: 1496752--1496789 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
1496742 TTCATGTGTT
1496752 ATTATAAAAAT-ATAA-
1 ATTATAAAAATGATAAC
*
1496767 ATTATTAAAATGATAAC
1 ATTATAAAAATGATAAC
1496784 ATTATA
1 ATTATA
1496790 TTTTTACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 10 0.53
16 4 0.21
17 5 0.26
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTATAAAAATGATAAC
Found at i:1499165 original size:16 final size:17
Alignment explanation
Indices: 1499144--1499176 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1499134 TATTTAATAA
1499144 TTTAATTTAATC-AATT
1 TTTAATTTAATCTAATT
1499160 TTTAATTTAATCTAATT
1 TTTAATTTAATCTAATT
1499177 AATTTATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAATTTAATCTAATT
Found at i:1499167 original size:21 final size:21
Alignment explanation
Indices: 1499141--1499181 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1499131 AAATATTTAA
*
1499141 TAATTTAATTTAATCAATTTT
1 TAATTTAATCTAATCAATTTT
*
1499162 TAATTTAATCTAATTAATTT
1 TAATTTAATCTAATCAATTT
1499182 ATACCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATTTAATCTAATCAATTTT
Found at i:1499178 original size:14 final size:13
Alignment explanation
Indices: 1499135--1499210 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 13
1499125 AAATAAAAAT
1499135 ATTTAAT-AATTTA
1 ATTTAATCAA-TTA
1499148 ATTTAATCAATTTTTA
1 ATTTAATCAA---TTA
1499164 ATTTAATCTAATTA
1 ATTTAATC-AATTA
*
1499178 ATTTATACCAATT-
1 ATTTA-ATCAATTA
1499191 -TTTAAATCAATTA
1 ATTT-AATCAATTA
1499204 ATTTAAT
1 ATTTAAT
1499211 ATATTTCTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
12 9 0.17
13 11 0.21
14 17 0.32
15 2 0.04
16 12 0.23
17 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:1499210 original size:31 final size:31
Alignment explanation
Indices: 1499141--1499210 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
1499131 AAATATTTAA
* * *
1499141 TAATTTAATTTAATCAATTTTTAATTTAATC
1 TAATTTAATTTAACCAATTTTTAAATCAATC
1499172 TAA-TTAATTTATACCAATTTTTAAATCAAT-
1 TAATTTAATTTA-ACCAATTTTTAAATCAATC
1499202 TAATTTAAT
1 TAATTTAAT
1499211 ATATTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (31 bp):
TAATTTAATTTAACCAATTTTTAAATCAATC
Found at i:1507530 original size:74 final size:74
Alignment explanation
Indices: 1507444--1507598 Score: 256
Period size: 74 Copynumber: 2.1 Consensus size: 74
1507434 CTATTTATGG
* **
1507444 AATTAAAATATTTTACTGAAAGTGCATCTATTAATAATTTCTAAGTTAATCTAAAGTTGATTTGA
1 AATTAAAATATTTTACTGAAAGTGCATCTAATAATAATTTCTAACCTAATCTAAAGTTGATTTGA
1507509 ATTGAGTCT
66 ATTGAGTCT
* *
1507518 AATTAAGATATTTTACTGGAAGTGCATCTAATAATAATTTCTAACCTAATCTAAAGTTGATTTGA
1 AATTAAAATATTTTACTGAAAGTGCATCTAATAATAATTTCTAACCTAATCTAAAGTTGATTTGA
*
1507583 GTTGAGTCT
66 ATTGAGTCT
1507592 AATTAAA
1 AATTAAA
1507599 GGTGACAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (74 bp):
AATTAAAATATTTTACTGAAAGTGCATCTAATAATAATTTCTAACCTAATCTAAAGTTGATTTGA
ATTGAGTCT
Found at i:1508004 original size:11 final size:11
Alignment explanation
Indices: 1507990--1508048 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
1507980 ATATTCAAAC
1507990 AATAATAACAA
1 AATAATAACAA
*
1508001 AATAGTAACAA
1 AATAATAACAA
** *
1508012 TGTAATAGCAA
1 AATAATAACAA
*
1508023 AATGATAACAA
1 AATAATAACAA
*
1508034 AATAATGA-AA
1 AATAATAACAA
1508044 AATAA
1 AATAA
1508049 CATCAATTTT
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
10 7 0.19
11 30 0.81
ACGTcount: A:0.64, C:0.07, G:0.08, T:0.20
Consensus pattern (11 bp):
AATAATAACAA
Found at i:1511739 original size:5 final size:5
Alignment explanation
Indices: 1511729--1511753 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1511719 TAAAGGCCTA
1511729 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
1511754 TTTTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1512717 original size:16 final size:16
Alignment explanation
Indices: 1512696--1512729 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1512686 TTTAATTTGT
* *
1512696 TATAAATTATATAATA
1 TATAAATAACATAATA
1512712 TATAAATAACATAATA
1 TATAAATAACATAATA
1512728 TA
1 TA
1512730 AATTATTATA
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:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATAACATAATA
Found at i:1516084 original size:17 final size:17
Alignment explanation
Indices: 1516029--1516079 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
1516019 AGATTTTTCA
*
1516029 AATTTTTATAATTTTTT
1 AATTTTTATAAATTTTT
***
1516046 AA-AAATATAAATTTTT
1 AATTTTTATAAATTTTT
1516062 AATTTTTATAAATATTTT
1 AATTTTTATAAAT-TTTT
1516080 TTTTTGTAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
16 12 0.48
17 9 0.36
18 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTTATAAATTTTT
Found at i:1524930 original size:6 final size:6
Alignment explanation
Indices: 1524908--1524988 Score: 78
Period size: 6 Copynumber: 13.5 Consensus size: 6
1524898 GTTTAAATTG
* * *
1524908 ATTTAA ATTTAT TTTTAA ATTTAA ATTTAA GA--TAA ATTTAA ATTTATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA -ATTTAA ATTTAA ATTTA--A
*
1524957 ATTTAA ATTTAA ATTT-A ATTAAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
1524989 GATTTAAAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
4 1 0.02
5 7 0.11
6 47 0.77
7 1 0.02
8 5 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:1524971 original size:37 final size:37
Alignment explanation
Indices: 1524908--1524994 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
1524898 GTTTAAATTG
1524908 ATTTAAATTTA-TT-TTTAAATTTAAATTTAAGAT-AA
1 ATTTAAATTTATTTATTTAAATTTAAATTTAA-ATAAA
*
1524943 ATTTAAATTTATTTATTTAAATTTAAATTTAATTAAA
1 ATTTAAATTTATTTATTTAAATTTAAATTTAAATAAA
*
1524980 ATTTAAATTGATTTA
1 ATTTAAATTTATTTA
1524995 AAACTTAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
35 11 0.23
36 3 0.06
37 33 0.70
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (37 bp):
ATTTAAATTTATTTATTTAAATTTAAATTTAAATAAA
Found at i:1524982 original size:31 final size:31
Alignment explanation
Indices: 1524926--1524984 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1524916 TTATTTTTAA
*
1524926 ATTTAAATTTAAGATAAATTTAAATTTATTT
1 ATTTAAATTTAAGATAAATTAAAATTTATTT
*
1524957 ATTTAAATTTAA-ATTTAATTAAAATTTA
1 ATTTAAATTTAAGA-TAAATTAAAATTTA
1524985 AATTGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (31 bp):
ATTTAAATTTAAGATAAATTAAAATTTATTT
Found at i:1524983 original size:17 final size:17
Alignment explanation
Indices: 1524908--1525002 Score: 75
Period size: 17 Copynumber: 5.4 Consensus size: 17
1524898 GTTTAAATTG
* *
1524908 ATTTAAATTTATTTTTAA
1 ATTTAAATTTA-ATTAAA
*
1524926 ATTTAAATTTAA-GATAA
1 ATTTAAATTTAATTA-AA
*
1524943 ATTTAAATTTATTTATTTAA
1 ATTTAAATTTA---ATTAAA
1524963 ATTTAAATTTAATTAAA
1 ATTTAAATTTAATTAAA
* *
1524980 ATTTAAATTGATTTAAA
1 ATTTAAATTTAATTAAA
*
1524997 ACTTAA
1 ATTTAA
1525003 TATTAAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
17 38 0.60
18 11 0.17
20 14 0.22
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTAAATTTAATTAAA
Found at i:1525846 original size:16 final size:17
Alignment explanation
Indices: 1525818--1525873 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
1525808 TAATAATTTT
*
1525818 AATAA-ATATTAATAAA
1 AATAATATAATAATAAA
*
1525834 AA-AATTTAATAATAATA
1 AATAATATAATAATAA-A
*
1525851 AATAATATAATAA-ATA
1 AATAATATAATAATAAA
1525867 AATAATA
1 AATAATA
1525874 GAAAATGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 2 0.06
16 18 0.55
17 4 0.12
18 9 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAATATAATAATAAA
Found at i:1526947 original size:29 final size:29
Alignment explanation
Indices: 1526915--1527078 Score: 109
Period size: 29 Copynumber: 5.6 Consensus size: 29
1526905 ACACTATCCA
*
1526915 AAAATTTTATTTT-ATCCC-CAAACTTCTCC
1 AAAATTATATTTTGA-CCCTCAAACTT-TCC
1526944 AAAATTATATTTTGACCCTCAAACTTTCC
1 AAAATTATATTTTGACCCTCAAACTTTCC
* * * *
1526973 AAAAATACATTTTTACCCTTAAACTTTCC
1 AAAATTATATTTTGACCCTCAAACTTTCC
** * * ** **
1527002 AAAATTCCATTTTTAACCTTGATTTTTCC
1 AAAATTATATTTTGACCCTCAAACTTTCC
* * *
1527031 AAAATTTATGTTTTTACCCTCGAAC-TTCC
1 AAAA-TTATATTTTGACCCTCAAACTTTCC
**
1527060 TAAAATTCCATTTTGACCC
1 -AAAATTATATTTTGACCC
1527079 CAATTTCTCC
Statistics
Matches: 109, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
29 84 0.77
30 25 0.23
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAATTATATTTTGACCCTCAAACTTTCC
Found at i:1527014 original size:58 final size:57
Alignment explanation
Indices: 1526924--1527131 Score: 172
Period size: 58 Copynumber: 3.6 Consensus size: 57
1526914 AAAAATTTTA
* ** * *
1526924 TTTTATCCC-CAAACTTCTCCAAAATTATATTTTGACCCTCAAACTTTCCAAAAATACAT
1 TTTTA-CCCTCAAACTTC-CAAAAATTCCATTTTGACCCTC-AATTTTCCAAAATTACAT
* * * * * **
1526983 TTTTACCCTTAAACTTTCC-AAAATTCCATTTTTAACCTTGATTTTTCCAAAATTTATGT
1 TTTTACCCTCAAAC-TTCCAAAAATTCCA-TTTTGACCCTCAATTTTCCAAAA-TTACAT
* * *
1527042 TTTTACCCTCGAACTTCCTAAAATTCCATTTTGACCC-CAATTTCTCCTAAAATTACCT
1 TTTTACCCTCAAACTTCCAAAAATTCCATTTTGACCCTCAATTT-TCC-AAAATTACAT
1527100 TTTTATCCC-CAAACTTCCAAAAATTCCATTTT
1 TTTTA-CCCTCAAACTTCCAAAAATTCCATTTT
1527132 TGATCCCTAT
Statistics
Matches: 120, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
57 4 0.03
58 64 0.53
59 49 0.41
60 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.40
Consensus pattern (57 bp):
TTTTACCCTCAAACTTCCAAAAATTCCATTTTGACCCTCAATTTTCCAAAATTACAT
Found at i:1527138 original size:30 final size:30
Alignment explanation
Indices: 1527053--1527138 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 30
1527043 TTTACCCTCG
1527053 AACTTCCTAAAATTCCA-TTTTGA-CCCCA
1 AACTTCCTAAAATTCCATTTTTGATCCCCA
**
1527081 ATTTCTCCTAAAATTACC-TTTTT-ATCCCCA
1 AACT-TCCTAAAATT-CCATTTTTGATCCCCA
*
1527111 AACTTCCAAAAATTCCATTTTTGATCCC
1 AACTTCCTAAAATTCCATTTTTGATCCC
1527139 TATTTTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
28 4 0.09
29 25 0.53
30 18 0.38
ACGTcount: A:0.30, C:0.30, G:0.02, T:0.37
Consensus pattern (30 bp):
AACTTCCTAAAATTCCATTTTTGATCCCCA
Found at i:1547305 original size:12 final size:12
Alignment explanation
Indices: 1547288--1547320 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1547278 CACGAACAAG
1547288 CTCGTTTATTAA
1 CTCGTTTATTAA
*
1547300 CTCGTTTA-TAG
1 CTCGTTTATTAA
1547311 CTCGTTTATT
1 CTCGTTTATT
1547321 TATTAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (12 bp):
CTCGTTTATTAA
Found at i:1547466 original size:23 final size:24
Alignment explanation
Indices: 1547410--1547469 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
1547400 TTATTAACAT
*
1547410 TGTTCGTGAACGTGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* **
1547434 TGTTCATGAACATGTTCGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
1547457 TGTTCGTGAACAT
1 TGTTCGTGAACAT
1547470 TCAACAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:1550871 original size:12 final size:12
Alignment explanation
Indices: 1550854--1550886 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1550844 CACGAACAAG
1550854 CTCGTTTATTAA
1 CTCGTTTATTAA
*
1550866 CTCGTTTA-TAG
1 CTCGTTTATTAA
1550877 CTCGTTTATT
1 CTCGTTTATT
1550887 TATTAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (12 bp):
CTCGTTTATTAA
Found at i:1551032 original size:23 final size:24
Alignment explanation
Indices: 1550976--1551035 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
1550966 TTATTAACAT
*
1550976 TGTTCGTGAACGTGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* **
1551000 TGTTCATGAACATGTTCGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
1551023 TGTTCGTGAACAT
1 TGTTCGTGAACAT
1551036 TCAACAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:1566312 original size:12 final size:12
Alignment explanation
Indices: 1566295--1566327 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1566285 CACGAACAAG
1566295 CTCGTTTATTAA
1 CTCGTTTATTAA
*
1566307 CTCGTTTA-TAG
1 CTCGTTTATTAA
1566318 CTCGTTTATT
1 CTCGTTTATT
1566328 TATTAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (12 bp):
CTCGTTTATTAA
Found at i:1566473 original size:23 final size:24
Alignment explanation
Indices: 1566417--1566476 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
1566407 TTATTAACAT
*
1566417 TGTTCGTGAACGTGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* **
1566441 TGTTCATGAACATGTTCGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
1566464 TGTTCGTGAACAT
1 TGTTCGTGAACAT
1566477 TCAACAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:1569102 original size:69 final size:69
Alignment explanation
Indices: 1568858--1569429 Score: 787
Period size: 69 Copynumber: 8.5 Consensus size: 69
1568848 TAAGATTATG
* * *
1568858 AAGACATGTTATCCAACTCTACTTCAATTTCAA-ACGGATGACGTTG-TGTTATTTCAATTTCAG
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGA-GGATGACGTTGCTCTTACTTCAATTTCAG
1568921 AGATA
65 AGATA
* * ** * * *
1568926 AAGAC-T-TTATCCATCT-TACTTC-ATTTCAAAAAAATGA--ATG-TCTTAATTCAATTTCAAA
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
*
1568984 GAAA
66 GATA
** * *
1568988 AAGACGT-TTATCC-ACTCTA-TTCAATTTCAAGACAATAATGTTGCTCTTACTTCAATTTCAGA
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
1569050 GATA
66 GATA
*
1569054 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGA
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
*
1569119 GATG
66 GATA
*
1569123 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGA
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
*
1569188 GATG
66 GATA
*
1569192 AAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGA
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
*
1569256 GATG
66 GATA
*
1569260 AAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATGATGTTGCTCTTACTTCAATTTCAGA
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
*
1569324 GATG
66 GATA
*
1569328 AAGACGCGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
1569393 GATA
66 GATA
* * *
1569397 AAGACATATTATCC-ACTCTACTTCATTTTCAAG
1 AAGACGTGTTATCCAACTCTACTTCAATTTCAAG
1569430 CGGACAGAAA
Statistics
Matches: 461, Mismatches: 32, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
62 30 0.07
63 21 0.05
64 11 0.02
65 9 0.02
66 35 0.08
67 7 0.02
68 162 0.35
69 186 0.40
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (69 bp):
AAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
GATA
Found at i:1569347 original size:205 final size:205
Alignment explanation
Indices: 1568855--1569433 Score: 822
Period size: 205 Copynumber: 2.9 Consensus size: 205
1568845 GGTTAAGATT
* * *
1568855 ATGAAGACATGTTATCCAACTCTACTTCAATTTCAA-ACGGATGACGTTG-TGTTATTTCAATTT
1 ATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGA-GGATGACGTTGCTCTTACTTCAATTT
* * * * ** * *
1568918 CAGAGATAAAGA--CTTTATCCATCT-TACTTC-ATTTCAAAAAAATGA--ATG-TCTTAATTCA
65 CAGAGATGAAGACGCGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCA
* * * *
1568976 ATTTCAAAGAAAAAGACGTTTATCCACTCTA-TTCAATTTCAAGAC-AATAATGTTGCTCTTACT
130 ATTTCAGAGATAAAGACGTTTATCCACTCTACTTCAATTTCAAG-CGGATAACGTTGCTCTTACT
1569039 TCAATTTCAGAG
194 TCAATTTCAGAG
* *
1569051 ATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTC
1 ATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTC
* *
1569116 AGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAA
66 AGAGATGAAGACGCGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
* *
1569181 TTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATGACGTTGCTCTTACTT
131 TTTCAGAGATAAAGACGT-TTATCCACTCTACTTCAATTTCAAGCGGATAACGTTGCTCTTACTT
1569246 CAATTTCAGAG
195 CAATTTCAGAG
*
1569257 ATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATGATGTTGCTCTTACTTCAATTTC
1 ATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTC
1569321 AGAGATGAAGACGCGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
66 AGAGATGAAGACGCGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
* *
1569386 TTTCAGAGATAAAGACATATTATCCACTCTACTTCATTTTCAAGCGGA
131 TTTCAGAGATAAAGACGT-TTATCCACTCTACTTCAATTTCAAGCGGA
1569434 CAGAAAAAAT
Statistics
Matches: 341, Mismatches: 30, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
196 45 0.13
197 23 0.07
199 9 0.03
200 6 0.02
201 11 0.03
203 2 0.01
204 25 0.07
205 165 0.48
206 55 0.16
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (205 bp):
ATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTC
AGAGATGAAGACGCGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
TTTCAGAGATAAAGACGTTTATCCACTCTACTTCAATTTCAAGCGGATAACGTTGCTCTTACTTC
AATTTCAGAG
Found at i:1581081 original size:57 final size:57
Alignment explanation
Indices: 1580953--1581087 Score: 182
Period size: 58 Copynumber: 2.4 Consensus size: 57
1580943 TTGGATACCC
* * * *
1580953 GAGGGCAAAATGGTAAAATTTGGTAAAATCGGGGTTAAAATGGGATTTAGGGAAGTTT
1 GAGGGGAAAATGGT-AATTTTAGTAAAATCGGGGTTAAAATGGGATTTAAGGAAGTTT
* *
1581011 GAGGGTAAAATGGTAATTTTAGTGAAATCGGGGTTTAAAATGGGATTTAAGGAAGTTT
1 GAGGGGAAAATGGTAATTTTAGTAAAATCGGGG-TTAAAATGGGATTTAAGGAAGTTT
*
1581069 G-GGGGGAAATGGTAATTTT
1 GAGGGGAAAATGGTAATTTT
1581088 TGAAAATTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
57 32 0.46
58 37 0.54
ACGTcount: A:0.34, C:0.02, G:0.33, T:0.30
Consensus pattern (57 bp):
GAGGGGAAAATGGTAATTTTAGTAAAATCGGGGTTAAAATGGGATTTAAGGAAGTTT
Found at i:1581109 original size:30 final size:30
Alignment explanation
Indices: 1581075--1581416 Score: 415
Period size: 30 Copynumber: 11.4 Consensus size: 30
1581065 GTTTGGGGGG
* * *
1581075 AAATGGTAATTTTTGAAAA-TTTTAGGGTAA
1 AAAT-GTAATTTTGGAAAAGTTTTGGGGTCA
**
1581105 AAATGTAATTTTTTAGAAA-TTTTGGGGTCA
1 AAATGTAATTTTGGA-AAAGTTTTGGGGTCA
* *
1581135 AAATATGATTTTGGAAAAGTTTTGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
*
1581165 AAATGTAATTTTGGAAAAGTTTTAGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
*
1581195 AAATGTAATTTCTAG-AAAGTTTTGGGGTCA
1 AAATGTAATTT-TGGAAAAGTTTTGGGGTCA
* *
1581225 AAATATAATTTTGGAAAAGTTTTAGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
* **
1581255 AAATATAATTTTTAAAAAGTTTTGGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
* * *
1581285 AAATGTAATTTCTAG-AAAGTTGTGGGGTCG
1 AAATGTAATTT-TGGAAAAGTTTTGGGGTCA
*
1581315 AAATGTAATTTTGGAAAAGTTTTAGGGTCA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
*
1581345 AAATGTAATTTTGGAAAAGTTTTGGGGTTA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCA
* *
1581375 AAATGTAATTTCTAG-AAAGTTTTAGGGTCA
1 AAATGTAATTT-TGGAAAAGTTTTGGGGTCA
1581405 AAATGTAATTTT
1 AAATGTAATTTT
1581417 TGGATAGTTT
Statistics
Matches: 273, Mismatches: 32, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.07
30 250 0.92
31 5 0.02
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
AAATGTAATTTTGGAAAAGTTTTGGGGTCA
Found at i:1581109 original size:57 final size:56
Alignment explanation
Indices: 1580978--1581092 Score: 153
Period size: 57 Copynumber: 2.1 Consensus size: 56
1580968 AAATTTGGTA
* * *
1580978 AAATCGGGGTTAAAATGGGATTTAGGGAAGTTTGAGGGTAAAATGGTAATTTTAGTG
1 AAATCAGGGTTAAAATGGGATTTAAGGAAGTTTGAGGGGAAAATGGTAATTTTA-TG
* *
1581035 AAATCGGGGTTTAAAATGGGATTTAAGGAAGTTTG-GGGGGAAATGGTAATTTT-TG
1 AAATCAGGG-TTAAAATGGGATTTAAGGAAGTTTGAGGGGAAAATGGTAATTTTATG
1581090 AAA
1 AAA
1581093 ATTTTAGGGT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
55 5 0.09
57 25 0.46
58 24 0.44
ACGTcount: A:0.34, C:0.02, G:0.33, T:0.31
Consensus pattern (56 bp):
AAATCAGGGTTAAAATGGGATTTAAGGAAGTTTGAGGGGAAAATGGTAATTTTATG
Done.