Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009198.1 Hibiscus syriacus cultivar Beakdansim tig00112781_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 176433
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:9572 original size:31 final size:32
Alignment explanation
Indices: 9536--9606 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 32
9526 AAAAGCACAC
9536 CCCTTCTCCT-TCC-TCTCATCCTCCTAC-CCCT
1 CCCTTCTCCTCTCCTTCTC-TCCTCCT-CTCCCT
*
9567 CCCTTC-CCTCTCCTTCTCTCGTCCTCTCCCT
1 CCCTTCTCCTCTCCTTCTCTCCTCCTCTCCCT
9598 CCCTCTCTC
1 CCCT-TCTC
9607 GATAGATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
30 4 0.12
31 23 0.68
32 6 0.18
33 1 0.03
ACGTcount: A:0.03, C:0.59, G:0.01, T:0.37
Consensus pattern (32 bp):
CCCTTCTCCTCTCCTTCTCTCCTCCTCTCCCT
Found at i:13541 original size:6 final size:6
Alignment explanation
Indices: 13530--13742 Score: 178
Period size: 6 Copynumber: 35.8 Consensus size: 6
13520 AAGCTGAACC
13530 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * *
13578 AGAGAG AGAGGG AGAGAG AGAGGG AGAGTG AGAGAG AG-GGG AGGGGG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * * * * * * *
13625 AGGGGG AGGGGG AG-GGG AGGGGG AGGGAG AGGGAG AGGGAG AGGGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * * * * *
13672 AGGGAG AGGGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGGG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
13720 AGAGAG AGAGAG AGAGAG AGAGA
1 AGAGAG AGAGAG AGAGAG AGAGA
13743 TCTTAAAAAT
Statistics
Matches: 193, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
5 9 0.05
6 184 0.95
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AGAGAG
Found at i:30832 original size:4 final size:4
Alignment explanation
Indices: 30823--30946 Score: 92
Period size: 4 Copynumber: 30.8 Consensus size: 4
30813 GTAATTTTTG
*
30823 TTTA TTTA TTTA TTT- TTTGGG TTTA TTTA TTTA TTTGAA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTT--A TTTA TTTA TTTA TTT--A TTTA TTTA
* ** * *
30870 TTTA TTTA GTTA TTT- TAAA TTTA TTTA TTTG TTTA TTTG TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* ** * *
30917 GTTA TTT- TGAA TTTA TTTG TTTG TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
30947 TTTGCTTCGA
Statistics
Matches: 94, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
3 5 0.05
4 82 0.87
6 7 0.07
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:30890 original size:27 final size:26
Alignment explanation
Indices: 30844--30904 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
30834 ATTTTTTGGG
* *
30844 TTTATTTATTTATTTGAATTTATTTA
1 TTTATTTAGTTATTTAAATTTATTTA
30870 TTTATTTAGTTATTTTAAATTTATTTA
1 TTTATTTAGTTA-TTTAAATTTATTTA
*
30897 TTTGTTTA
1 TTTATTTA
30905 TTTGTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (26 bp):
TTTATTTAGTTATTTAAATTTATTTA
Found at i:30905 original size:39 final size:39
Alignment explanation
Indices: 30847--30946 Score: 155
Period size: 39 Copynumber: 2.5 Consensus size: 39
30837 TTTTGGGTTT
30847 ATTTATTTATTTGAATTTATTTATTTATTTAGTTATTTTAA
1 ATTTATTTATTTG--TTTATTTATTTATTTAGTTATTTTAA
* *
30888 ATTTATTTATTTGTTTATTTGTTTATTTAGTTATTTTGA
1 ATTTATTTATTTGTTTATTTATTTATTTAGTTATTTTAA
*
30927 ATTTATTTGTTTGTTTATTT
1 ATTTATTTATTTGTTTATTT
30947 TTTGCTTCGA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 43 0.77
41 13 0.23
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (39 bp):
ATTTATTTATTTGTTTATTTATTTATTTAGTTATTTTAA
Found at i:30938 original size:27 final size:25
Alignment explanation
Indices: 30888--30950 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 25
30878 GTTATTTTAA
30888 ATTTATTTATTTG--TTTATTTGTTT
1 ATTTATTT-TTTGAATTTATTTGTTT
30912 ATTTAGTTATTTTGAATTTATTTGTTT
1 ATTTA-TT-TTTTGAATTTATTTGTTT
*
30939 GTTTATTTTTTG
1 ATTTATTTTTTG
30951 CTTCGAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 5 0.15
25 11 0.32
26 3 0.09
27 15 0.44
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (25 bp):
ATTTATTTTTTGAATTTATTTGTTT
Found at i:30940 original size:31 final size:31
Alignment explanation
Indices: 30830--30976 Score: 111
Period size: 30 Copynumber: 4.6 Consensus size: 31
30820 TTGTTTATTT
30830 ATTTATTT-TTTGGGTTTATTTATTTA-TTTGA
1 ATTTATTTATTT--GTTTATTTATTTATTTTGA
* * **
30861 ATTTATTTATTTATTTAGTTATTTTAAATTTATTT
1 ATTTATTTATTTGTTTATTTA-TTT--ATTT-TGA
* *
30896 ATTTGTTTATTTGTTTATTTAGTTATTTTGA
1 ATTTATTTATTTGTTTATTTATTTATTTTGA
* ** *
30927 ATTTATTTGTTTGTTTATTT-TTTGCTTCGA
1 ATTTATTTATTTGTTTATTTATTTATTTTGA
* *
30957 AATTATTTATTTATTTATTT
1 ATTTATTTATTTGTTTATTT
30977 GAAGGGATAT
Statistics
Matches: 91, Mismatches: 19, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
30 30 0.33
31 30 0.33
32 7 0.08
33 1 0.01
34 4 0.04
35 19 0.21
ACGTcount: A:0.22, C:0.01, G:0.09, T:0.68
Consensus pattern (31 bp):
ATTTATTTATTTGTTTATTTATTTATTTTGA
Found at i:38235 original size:2 final size:2
Alignment explanation
Indices: 38228--38260 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
38218 ACACTAACTT
38228 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38261 GAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38397 original size:16 final size:16
Alignment explanation
Indices: 38376--38408 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38366 TTTATTTTTT
38376 TAATAAACGTGTAGGG
1 TAATAAACGTGTAGGG
38392 TAATAAACGTGTAGGG
1 TAATAAACGTGTAGGG
38408 T
1 T
38409 GTATGGGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.27
Consensus pattern (16 bp):
TAATAAACGTGTAGGG
Found at i:41131 original size:452 final size:452
Alignment explanation
Indices: 38568--41328 Score: 3664
Period size: 452 Copynumber: 6.0 Consensus size: 452
38558 TTGTGATAAC
* * *
38568 TGAAAATTCAAATAAAAATAAAATTAATATGTAACAAAAATAAAATAAAATTGAAATTGATATAA
1 TGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAATTAAATTAAATTGAAATTGATATAA
38633 TTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGT-TCTTTATGGGAGG
66 TTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGT-TTTATGGGAGG
*
38697 CAACCCATTTTATTTTACGATTTGTTTAAATTATTTCAATTTCAATTTCAATTTTATTTTATTTT
130 CAACCCATTTTATTTTCCGATTTGTTTAAATTATTTCAA--T---TTT-AATTTTATTTTATTTT
* *
38762 TTGTTACATATTAATTTTATTTTTCTTTGAATTTTCAGTTATAACAAATATTTTTAATCGAATAA
189 TTGTTACATATTAA--TTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAA
* * * * * *
38827 TTTTGTAGCAGATCTAAGACTTTTGACCGATTCCAGCCTTGCGGCACACATTAACAAAGCTCTCC
252 ATTTGTAGCAGATCTAAGACTTTTGATCGATTCCAACCGTGCGACACACATTAACAAAGCTCCCC
* *
38892 CAACCCGGCACAAGTTAACATAACCTATTTGCTCATTTTTTATTTCTTTGCCGCCCATACACCCT
317 CAACCCGGCGCAAGTTAACATAACC-ATTTGCCCATTTTTTATTTCTTTGCCGCCCATACACCCT
**
38957 ACACCTTTATTAAAAAAACCAAAAAAGTTAATATGTTTAGTAAATTGTTTGGTATATTTAGACTC
381 ACACCTTTATTAAAAAAACC-AAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTC
*
39022 GCCCTTAAAAATATTTGTGAT
445 ACCC------A-A------AT
*
39043 AACTGAAAATTCAAAGAAAAAT-AAATTAATATGTAACAAAAA--AAATTAAAGTGAAATTGATA
1 ---TGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAATTAAATTAAATTGAAATTGATA
* *
39105 TAATTTAAACAAATCGGAAAATAAAATGGGTTCCCTAACGACGTTAAACAAAGTGCTTTATGGGA
63 TAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGTTTTATGGGA
* * *
39170 GGCAACCTATTTTATTTTCCGATTTATTTAAATTATTTCAATTTCAATTTTATTTTATTTTTTGT
128 GGCAACCCATTTTATTTTCCGATTTGTTTAAATTATTTCAATTTTAATTTTATTTTATTTTTTGT
*
39235 TACATATTAA-T-TTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAAATTTAT
193 TACATATTAATTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAAATTTGT
* * * * * *
39298 AACAGATTTAAGACTTTTGATCGATTCCAACCGTGCGACTCACATTAACAAAACTCCCCCATCCT
258 AGCAGATCTAAGACTTTTGATCGATTCCAACCGTGCGACACACATTAACAAAGCTCCCCCAACCC
* * **
39363 AGCGCAAGTTAACATAACCCATTTGCCCATTTTGTATTTCTTTGTGGCCCATACACCCTACACCT
323 GGCGCAAGTTAACATAA-CCATTTGCCCATTTTTTATTTCTTTGCCGCCCATACACCCTACACCT
*
39428 TTATTAAAAAAATCAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCTTA
387 TTATTAAAAAAACCAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCC---
39493 AAAATATTTGTGATAAT
449 ------------A-AAT
*
39510 TGAAAATTCGAAGAAAAATAAAATTAATATGTAACAAAAAATTAAATTAAATTGAAATTGATATA
1 TGAAAATTCAAAGAAAAATAAAATTAATATGTAAC-AAAAATTAAATTAAATTGAAATTGATATA
* *
39575 ATTTAAACAAATCGGAAAATAAAATGGGTTGTCTAACGACGTTAAACAAAGTGCTTTATGGGAGG
65 ATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGTTTTATGGGAGG
** *
39640 CAACCCATTTTATTTTCATATTTGTTTAAATTATTTCAATTTT-ATTTT-TTTTATTAATTTTTT
130 CAACCCATTTTATTTTCCGATTTGTTTAAATTATTTCAATTTTAATTTTATTTTATT--TTTTGT
* *
39703 TACATATTTATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAATAAATTT
193 TACATA-TTA-ATTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAAATTT
* *
39768 GTAACAGATCTAAGACTTTTGATCGATTCCAACCGTGCGGCACACATTAACAAAGCT-CCCCAAC
256 GTAGCAGATCTAAGACTTTTGATCGATTCCAACCGTGCGACACACATTAACAAAGCTCCCCCAAC
* * * * * ** *
39832 CCGACACAAGTTAGCATAGCCTATTTGCCCATTTTTTATTTCTTGGTGGCCCATACACCTTACAC
321 CCGGCGCAAGTTAACATAACC-ATTTGCCCATTTTTTATTTCTTTGCCGCCCATACACCCTACAC
*
39897 CTTTATT-AAAAAACCAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAAACTCACCCT
385 CTTTATTAAAAAAACCAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCA-CC-
39961 CGAAAATATTTGTGAT
448 C----A-A------AT
* * *
39977 AACTGAAAATTTAAAGAAAAATAAAATTAATATATAA-AAAAATTAGATTAAATT-AAATTGATA
1 ---TGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAATTAAATTAAATTGAAATTGATA
*
40040 TAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACAACGTTAAACAAAGTGTTTTATGGGA
63 TAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGTTTTATGGGA
* * *
40105 GACAAACCA-TTTATTTTCCGATTTGTTTAAATTATTTCAATTTCAATTTTATTTTATTTTTTGT
128 GGCAACCCATTTTATTTTCCGATTTGTTTAAATTATTTCAATTTTAATTTTATTTTATTTTTTGT
* *
40169 TACATATTAATTTTATTTTTCTTTGAATTTTTCAGTTATCATAAATAATTTTAATCGAACAAATT
193 TACATATTAA--TTATTTTTCTTTGAA-TTTTCAGTTATCACAAATATTTTTAATCGAACAAATT
* *
40234 TGTAGCAAATCTAAGACTTTTGATCGATTCCAGCCGTGCGACACACATTAACAAAGCTCCCCCAA
255 TGTAGCAGATCTAAGACTTTTGATCGATTCCAACCGTGCGACACACATTAACAAAGCTCCCCCAA
* * * *
40299 CCCGACGCAAGTTAGCATAACCCATTTGCCCATTTTTTATTTCTTTGCCGCCCATAGACTCTACA
320 CCCGGCGCAAGTTAACATAA-CCATTTGCCCATTTTTTATTTCTTTGCCGCCCATACACCCTACA
* * *
40364 CCTTTATTAAAAAAACCAAAAAGTTGATATGTTTAGTAAATTATTTGATATATTTAGACTCACCC
384 CCTTTATTAAAAAAACCAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCC
40429 GAAA-
449 -AAAT
**** * *
40433 --AAAATATTTGTGATAACTGAAAATTCAA-A-G----AAAAATTAAATTAAATTGAAATTGATA
1 TGAAAAT-TCAAAGAAAAAT-AAAATT-AATATGTAACAAAAATTAAATTAAATTGAAATTGATA
* *
40490 TAATTTAAACAAATCGTAAAATAAAATGGGTTGCCTAACGAAGTTAAACAAAGTGTTTTATGGGA
63 TAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGTTTTATGGGA
* * *
40555 GGCAACCCATTTTATTTTTCGATTTGTTTAAATTATTTCAATTTTAATTTAATTTTAGTTTTTGT
128 GGCAACCCATTTTATTTTCCGATTTGTTTAAATTATTTCAATTTTAATTTTATTTTATTTTTTGT
*
40620 TACATATTAATT-TTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCAAACAAATTTGT
193 TACATATTAATTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAAATTTGT
* * * * *
40684 AGCAGATCTGAGACTTTTGATCGATTACAGCCGTACGACACACATTAACAAAGCTCTCCCAACCC
258 AGCAGATCTAAGACTTTTGATCGATTCCAACCGTGCGACACACATTAACAAAGCTCCCCCAACCC
* ** *
40749 GGCGCAAGTTAACATAACTCATTTGCCCATTTTGTATTTCTTTGTGGCCCATACACCCTATACCT
323 GGCGCAAGTTAACATAAC-CATTTGCCCATTTTTTATTTCTTTGCCGCCCATACACCCTACACCT
*
40814 TTATTAAAAAAATCAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCC-AA
387 TTATTAAAAAAACCAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCAAA
40878 T
452 T
40879 TGAAAATTCAAAGAAAAATAAAATTAATATGTAACACAAAATTAAATTAAATTGAAATTGATATA
1 TGAAAATTCAAAGAAAAATAAAATTAATATGTAACA-AAAATTAAATTAAATTGAAATTGATATA
* *
40944 ATTTAAACAAATTGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGTTTTATGGGAGA
65 ATTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGTTTTATGGGAGG
*
41009 CAACCCATTTTATTTTCCGATTTATTTAAATTATTTCAATTTTAATTTTATTTTATTTTTTGTTA
130 CAACCCATTTTATTTTCCGATTTGTTTAAATTATTTCAATTTTAATTTTATTTTATTTTTTGTTA
* *
41074 CATATTAATT-TTTTTCTTTGAATTTTTAGTTATCATAAATATTTTTAATCGAACAAATTTGTAG
195 CATATTAATTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAAATTTGTAG
* *
41138 CAAATCTAAGACTTTTGATCGATTCCAACCGTGCGACACACATTAACATAGCTCCCCCAACCCGG
260 CAGATCTAAGACTTTTGATCGATTCCAACCGTGCGACACACATTAACAAAGCTCCCCCAACCCGG
* * *
41203 CGCAAGTTAGCATAACTCATTTGCCCATTTTTTATTTCTTTGCCGCCTATACACCCTACTCCTTT
325 CGCAAGTTAACATAAC-CATTTGCCCATTTTTTATTTCTTTGCCGCCCATACACCCTACACCTTT
* * * * *
41268 ATTAAAAAAACTAAAAAAATTGGTATATTTAATAAATTATTTGGTATATTTAGACTCACCC
389 ATTAAAAAAAC-CAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCC
41329 TTTTCAATTA
Statistics
Matches: 2047, Mismatches: 178, Indels: 141
0.87 0.08 0.06
Matches are distributed among these distances:
445 4 0.00
446 8 0.00
447 217 0.11
448 17 0.01
449 18 0.01
450 78 0.04
451 67 0.03
452 344 0.17
453 51 0.02
454 2 0.00
457 1 0.00
461 3 0.00
463 1 0.00
464 64 0.03
465 189 0.09
466 73 0.04
467 181 0.09
468 226 0.11
469 84 0.04
470 86 0.04
471 69 0.03
472 102 0.05
473 6 0.00
475 118 0.06
477 20 0.01
478 18 0.01
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (452 bp):
TGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAATTAAATTAAATTGAAATTGATATAA
TTTAAACAAATCGGAAAATAAAATGGGTTGCCTAACGACGTTAAACAAAGTGTTTTATGGGAGGC
AACCCATTTTATTTTCCGATTTGTTTAAATTATTTCAATTTTAATTTTATTTTATTTTTTGTTAC
ATATTAATTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAATCGAACAAATTTGTAGC
AGATCTAAGACTTTTGATCGATTCCAACCGTGCGACACACATTAACAAAGCTCCCCCAACCCGGC
GCAAGTTAACATAACCATTTGCCCATTTTTTATTTCTTTGCCGCCCATACACCCTACACCTTTAT
TAAAAAAACCAAAAAGTTGGTATGTTTAGTAAATTGTTTGGTATATTTAGACTCACCCAAAT
Found at i:42306 original size:468 final size:467
Alignment explanation
Indices: 41426--44625 Score: 4773
Period size: 468 Copynumber: 6.9 Consensus size: 467
41416 AGGTATAGGG
*
41426 TTTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATGGATTATGCT
1 TTTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATGGGTTATGCT
* *
41491 AACTTGCGCCGGGTT-GGGGAGCTTTGTTAATGTGTGCCGCACGGTTGAAATCGATCAAAAGTCT
66 AACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGGAATCGATCAAAAGTCT
*
41555 TAGATCTGTGATAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAG-AAAAAAT
131 TAGATCTGT-ACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAAAAT
* *
41619 TAACATGTAACAAAAAAATAAAATAAAATTGAAATTAAAATAATTTAAACAAATCGGAAAATAAA
195 TAATATGTAAC-AAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAATAAA
* * * * *
41684 ATGGGTTGCTTCCCCTAAAACACTTTGTTTAACGACGTTAGACGACCCATTTTATTTTCCGATTT
259 ATGGGTTGCCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTCCGATTT
* * *
41749 GTTTAAATTATATCAATTTCAGTTTAATTTTAGTTTTAGTTACATATTAATTTTATTTTTCTTTG
324 GTTTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTCTTTG
* *
41814 AATTTCCAATTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAAACAT
389 AATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAAACAT
41879 ACCAACTTTTTGAT
454 ACCAACTTTTTGAT
* *
41893 TTTTTAATAAAGGTGTAAGGTGTATGGGGCACAAAGAAATAAAAAATAGGCAAATGGGTTATGCT
1 TTTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATGGGTTATGCT
*
41958 AACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGAAATCGATCAAAAGTCT
66 AACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGGAATCGATCAAAAGTCT
*
42023 CAGATCTGTGACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAG-AAAAAAT
131 TAGATCTGT-ACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAAAAT
*
42087 TAATATGTAACAAAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGATAATAAA
195 TAATATGTAAC-AAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAATAAA
* *
42152 ATGGGTTACCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCGACCCATTTTATTTTCCGATTT
259 ATGGGTTGCCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTCCGATTT
*
42217 GTTTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTCTTCG
324 GTTTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTCTTTG
* *
42282 AATTTTTAGTTATCACATATATTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAAACAT
389 AATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAAACAT
42347 ACCAACTTTTTGATTT
454 ACCAACTTTTTGA--T
* * * * *
42363 TCTTTTAATAAAGGTATAGGGTGTATGGGCCACAAAGAAATACAAAATGGGCAAATGAGTTATGT
1 T-TTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATGGGTTATGC
* * * *
42428 TAACTTGCGCCGGGTTGGGAGAGCTTTGTTAATGTGTGTCGTACGGCTGTAATCGATCAAAAGTC
65 TAACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGGAATCGATCAAAAGTC
* *
42493 TCAGATCTGCTACAAATTTGTTTGATTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAAAA
130 TTAGATCTG-TACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAAAA
* * *
42558 TTAATATGTAACAAAAACTAAAATTAAATTAAAATTGAAATAATTTAAACAAATCGGAAAATAAA
194 TTAATATGTAACAAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAATAAA
* *
42623 ATGGGTTGCCTCCCATAAAACACTTTGTTTAACTTCGTTAGGCAACCCATTTTATTTTACGATTT
259 ATGGGTTGCCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTCCGATTT
*
42688 GTTTAAATTATATCAATTTC------A----A-----T-TT-C-----AATTTAATTTTTCTTTG
324 GTTTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTCTTTG
** * *
42731 AATTTTCAGTTATCACAAATATTTTTTTCGGGTGAGTCTAAATATATCAAATAATTTACTAAACA
389 AATTTTCAGTTATCACAAATA-TTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAAACA
* *
42796 TATCAACTTTTTGGT
453 TACCAACTTTTTGAT
* **
42811 TTTTTAATAAAGGTGT-AGAGTCTATGGGCGGCAAAGAAATAAAAAATGGGCAAATGGGTTATGC
1 TTTTTAATAAAGGTGTAAG-GTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATGGGTTATGC
* *
42875 TAACTTGCGTCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGCTGGAATCGATCAAAAGTC
65 TAACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGGAATCGATCAAAAGTC
* *
42940 TTAGATTTGCTACAAATTTGTTCGATTAAAAATATTTATGATAACTGAAAATTCAAAGAAAAATA
130 TTAGATCTG-TACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAG--AAA-A
43005 AAATTAATATGTAACAAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAAT
191 AAATTAATATGTAACAAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAAT
* * *
43070 -AAATGGTTTGTCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTTCGA
256 AAAATGGGTTGCCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTCCGA
*
43134 TTTGTTTAAATTATATCAATTT-AATTTAATCTTATTTTTT-TTACATATTAATTTTATTTTTCT
321 TTTGTTTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTCT
* **
43197 TTAAATTTTCAGTTATCACAAATATTTTCGAGGGTGAGTCTAAATATACCAAACAATTTACTAAA
386 TTGAATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAAA
*
43262 CATACCAACTTTTTGGT
451 CATACCAACTTTTTGAT
* *
43279 TTTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATAGGCTATGCT
1 TTTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATGGGTTATGCT
* * *
43344 AACTTGTGTCGGGTT-GGGGAGCTTTGTTAATGTGTGCCGCACGGTTGGAATCGATCAAAAGTCT
66 AACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGGAATCGATCAAAAGTCT
*
43408 TAGATCTGTTACAAATTTATTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAATAA
131 TAGATCTG-TACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAG--AAA-AA
* * * **
43473 AATAAATATGTAAAAAAATTAATAAAA-AAAA-TAAAATTGAAATAATTTAAACAAATATGAAAA
192 AATTAATATGTAACAAAA--AATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAA
* *
43536 TAAAATGGGTTGCCTCCCATAAAGCACTTTGTTTAACGTCGTTAGACAACCCATTTTATTTTCCG
255 TAAAATGGGTTGCCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTCCG
*
43601 ATTTGTTTAAATTATATCAATTT-AATTTAATTTAATTTTTTGTTACATATTAATTTTATTTTTC
320 ATTTGTTTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTC
* * *
43665 TTCGAATTTTCAATTATCACAAATATTTTTAAGGGTTAGTCTAAATATACCAAACAATTTACTAA
385 TTTGAATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAA
*
43730 ACATACCAACTTTTTTATT
450 ACATACCAACTTTTTGA-T
* * *
43749 TTTTTAATAAAGGTGTAGGGTGTATGGGCCACAAAGAAATACAAAATGGGCAAATGGGTTATGTT
1 TTTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATGGGTTATGCT
* * *
43814 AACTTGCGCCAGGTTGGGGGAGTTTTGTTAATGTGAGTCGCACGGTTGGAATCGATCAAAAGTCT
66 AACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGGAATCGATCAAAAGTCT
* *
43879 TAAATCTGTTACAAATTTGTTAGATTAAAAATATTTGTGATAACTGAAAATTCAAAG-AAAAAAT
131 TAGATCTG-TACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAAAAT
*
43943 TAATATGTAACAAAAAATAAAATAAAATTGAAATTGAAATAATTTAAATAAATCGGAAAATAAAA
195 TAATATGTAACAAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAATAAAA
* * *
44008 TGGGTTGCCTCCCATAAAGCACTTTGTTTAACCTCGTTAGGGAACCCATTTTATTTTCCGATTTG
260 TGGGTTGCCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTCCGATTTG
*
44073 TTTAAATTATATCAATTTCACTTTAA--TT-TTTTTTGTTACATATTAATTTTATTTTT-TTTGA
325 TTTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTCTTTGA
* *
44134 ATTTTCAGTTATCACAAATATTTTTAAGGGCGAGTCTAAATATGCCAAACAATTTACTAAACATA
390 ATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAAACATA
** *
44199 TTAACTTTTTGGT
455 CCAACTTTTTGAT
* ** * *
44212 TTTTTAATAAAGGTGTAGGGTGTATGGGCGGCAAAGAAATAAAAAAATGAGCAAATAGGTTATGC
1 TTTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAAT-AAAAAATGGGCAAATGGGTTATGC
* * * * *
44277 TAACTTGTGCCGGGTTGGGAGAGCTTTGTTAATGTGTGCCGCAAGGCTGGAATCGATCAAAAGTC
65 TAACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGGAATCGATCAAAAGTC
* * *
44342 TTAGATCTGCTACAAAATTATTCGATTAAAAATATTTGTTATAACTGAAAATTCAAAGAAAAATA
130 TTAGATCTG-TACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAG--AAA-A
*
44407 AAATTAATATGTAACAAAAAATAAAAT---A---AAATTGAAATAATTTAAACAAATCGTAAAAT
191 AAATTAATATGTAACAAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAAT
*
44466 AAAATGGGTTGCCTCCCATAAAGA-ACTTTGTTGAACGTCGTTAGGCAACCCATTTTATTTTCCG
256 AAAATGGGTTGCCTCCCATAAA-ACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTCCG
* *
44530 ATTTGTTTAAATTATATCAATTTCAATTTTATTTTA-TTTTTGTTACATATTAATTTTATTTTTA
320 ATTTGTTTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTC
44594 TTTGAATTTTCAGTTATCACAAATATTTTTAA
385 TTTGAATTTTCAGTTATCACAAATATTTTTAA
44626 TCGAACAAAT
Statistics
Matches: 2504, Mismatches: 177, Indels: 106
0.90 0.06 0.04
Matches are distributed among these distances:
446 1 0.00
447 168 0.07
448 2 0.00
449 119 0.05
450 114 0.05
454 2 0.00
455 2 0.00
456 1 0.00
458 1 0.00
461 1 0.00
462 117 0.05
463 42 0.02
464 232 0.09
465 69 0.03
466 5 0.00
467 364 0.15
468 627 0.25
469 141 0.06
470 75 0.03
471 402 0.16
472 19 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (467 bp):
TTTTTAATAAAGGTGTAAGGTGTATGGGCCACAAAGAAATAAAAAATGGGCAAATGGGTTATGCT
AACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGTGTGTCGCACGGTTGGAATCGATCAAAAGTCT
TAGATCTGTACAAATTTGTTCGATTAAAAATATTTGTGATAACTGAAAATTCAAAGAAAAAAATT
AATATGTAACAAAAAATAAAATAAAATTGAAATTGAAATAATTTAAACAAATCGGAAAATAAAAT
GGGTTGCCTCCCATAAAACACTTTGTTTAACGTCGTTAGGCAACCCATTTTATTTTCCGATTTGT
TTAAATTATATCAATTTCAATTTAATTTTATTTTTTGTTACATATTAATTTTATTTTTCTTTGAA
TTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCAAACAATTTACTAAACATAC
CAACTTTTTGAT
Found at i:44071 original size:467 final size:467
Alignment explanation
Indices: 42714--44625 Score: 2904
Period size: 467 Copynumber: 4.1 Consensus size: 467
42704 TTTCAATTTC
* ** *
42714 AATTTAATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTTTCGGGTGAGTCTAAATATATC
1 AATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATA-TTTTTAAGGGTGAGTCTAAATATACC
* * * * **
42779 AAATAATTTACTAAACATATCAACTTTTTGGTTTTTTAATAAAGGTGTAGAGTCTATGGGCGGCA
65 AAACAATTTACTAAACATACCAACTTTTTGGTTTTTTAATAAAGGTGTAGGGTGTATGGGCCACA
* *
42844 AAGAAATAAAAAATGGGCAAATGGGTTATGCTAACTTGCGTCGGGTTGGGGGAGCTTTGTTAATG
130 AAGAAATAAAAAATGGGCAAATAGGTTATGCTAACTTGCGCCGGGTTGGGGGAGCTTTGTTAATG
* * *
42909 TGTGTCGCACGGCTGGAATCGATCAAAAGTCTTAGATTTGCTACAAATTTGTTCGATTAAAAATA
195 TGTGCCGCACGGCTGGAATCGATCAAAAGTCTTAGATCTGCTACAAATTTATTCGATTAAAAATA
*
42974 TTTATGATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAATAAAATAAAATTG
260 TTTGTGATAACTGAAAATTCAAAG--AAATAAAATTAATATGTAACAAAAAATAAAATAAAA-TG
* * *
43039 AAATTGAAATAATTTAAACAAATCGGAAAAT-AAATGGTTTGTCTCCCATAAAACACTTTGTTTA
322 AAATTGAAATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTCCCATAAAGCACTTTGTTTA
*
43103 ACGTCGTTAGGCAACCCATTTTATTTTTCGATTTGTTTAAATTATATCAATTT-AATTTAATCTT
387 ACGTCGTTAGGCAACCCATTTTATTTTCCGATTTGTTTAAATTATATCAATTTCAATTTAAT-TT
43167 ATTTTTT-TTACATATT
451 ATTTTTTGTTACATATT
* **
43183 AATTTTATTTTTCTTTAAATTTTCAGTTATCACAAATATTTTCGAGGGTGAGTCTAAATATACCA
1 AATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCA
*
43248 AACAATTTACTAAACATACCAACTTTTTGGTTTTTTAATAAAGGTGTAAGGTGTATGGGCCACAA
66 AACAATTTACTAAACATACCAACTTTTTGGTTTTTTAATAAAGGTGTAGGGTGTATGGGCCACAA
* * *
43313 AGAAATAAAAAATGGGCAAATAGGCTATGCTAACTTGTGTCGGGTT-GGGGAGCTTTGTTAATGT
131 AGAAATAAAAAATGGGCAAATAGGTTATGCTAACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGT
* *
43377 GTGCCGCACGGTTGGAATCGATCAAAAGTCTTAGATCTGTTACAAATTTATTCGATTAAAAATAT
196 GTGCCGCACGGCTGGAATCGATCAAAAGTCTTAGATCTGCTACAAATTTATTCGATTAAAAATAT
* * *
43442 TTGTGATAACTGAAAATTCAAAGAAAAATAAAATAAATATGTAAAAAAATTAATAAAA-AAAATA
261 TTGTGATAACTGAAAATTCAAAG--AAATAAAATTAATATGTAACAAAA--AATAAAATAAAATG
**
43506 AAATTGAAATAATTTAAACAAATATGAAAATAAAATGGGTTGCCTCCCATAAAGCACTTTGTTTA
322 AAATTGAAATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTCCCATAAAGCACTTTGTTTA
*
43571 ACGTCGTTAGACAACCCATTTTATTTTCCGATTTGTTTAAATTATATCAATTT-AATTTAATTTA
387 ACGTCGTTAGGCAACCCATTTTATTTTCCGATTTGTTTAAATTATATCAATTTCAATTTAATTT-
43635 ATTTTTTGTTACATATT
451 ATTTTTTGTTACATATT
* * *
43652 AATTTTATTTTTCTTCGAATTTTCAATTATCACAAATATTTTTAAGGGTTAGTCTAAATATACCA
1 AATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCA
**
43717 AACAATTTACTAAACATACCAACTTTTTTATTTTTTTAATAAAGGTGTAGGGTGTATGGGCCACA
66 AACAATTTACTAAACATACCAAC-TTTTTGGTTTTTTAATAAAGGTGTAGGGTGTATGGGCCACA
* * * * *
43782 AAGAAATACAAAATGGGCAAATGGGTTATGTTAACTTGCGCCAGGTTGGGGGAGTTTTGTTAATG
130 AAGAAATAAAAAATGGGCAAATAGGTTATGCTAACTTGCGCCGGGTTGGGGGAGCTTTGTTAATG
* * * * * * *
43847 TGAGTCGCACGGTTGGAATCGATCAAAAGTCTTAAATCTGTTACAAATTTGTTAGATTAAAAATA
195 TGTGCCGCACGGCTGGAATCGATCAAAAGTCTTAGATCTGCTACAAATTTATTCGATTAAAAATA
43912 TTTGTGATAACTGAAAATTCAAAG-AA-AAAATTAATATGTAACAAAAAATAAAATAAAATTGAA
260 TTTGTGATAACTGAAAATTCAAAGAAATAAAATTAATATGTAACAAAAAATAAAATAAAA-TGAA
*
43975 ATTGAAATAATTTAAATAAATCGGAAAATAAAATGGGTTGCCTCCCATAAAGCACTTTGTTTAAC
324 ATTGAAATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTCCCATAAAGCACTTTGTTTAAC
* * *
44040 CTCGTTAGGGAACCCATTTTATTTTCCGATTTGTTTAAATTATATCAATTTCACTTTAA-TT-TT
389 GTCGTTAGGCAACCCATTTTATTTTCCGATTTGTTTAAATTATATCAATTTCAATTTAATTTATT
44103 TTTTGTTACATATT
454 TTTTGTTACATATT
* *
44117 AATTTTATTTTT-TTTGAATTTTCAGTTATCACAAATATTTTTAAGGGCGAGTCTAAATATGCCA
1 AATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCA
** **
44181 AACAATTTACTAAACATATTAACTTTTTGGTTTTTTAATAAAGGTGTAGGGTGTATGGGCGGCAA
66 AACAATTTACTAAACATACCAACTTTTTGGTTTTTTAATAAAGGTGTAGGGTGTATGGGCCACAA
* * *
44246 AGAAATAAAAAAATGAGCAAATAGGTTATGCTAACTTGTGCCGGGTTGGGAGAGCTTTGTTAATG
131 AGAAAT-AAAAAATGGGCAAATAGGTTATGCTAACTTGCGCCGGGTTGGGGGAGCTTTGTTAATG
* *
44311 TGTGCCGCAAGGCTGGAATCGATCAAAAGTCTTAGATCTGCTACAAAATTATTCGATTAAAAATA
195 TGTGCCGCACGGCTGGAATCGATCAAAAGTCTTAGATCTGCTACAAATTTATTCGATTAAAAATA
*
44376 TTTGTTATAACTGAAAATTCAAAGAAAAATAAAATTAATATGTAACAAAAAATAAAAT---A--A
260 TTTGTGATAACTGAAAATTCAAAG--AAATAAAATTAATATGTAACAAAAAATAAAATAAAATGA
* * *
44436 AATTGAAATAATTTAAACAAATCGTAAAATAAAATGGGTTGCCTCCCATAAAGAACTTTGTTGAA
323 AATTGAAATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTCCCATAAAGCACTTTGTTTAA
*
44501 CGTCGTTAGGCAACCCATTTTATTTTCCGATTTGTTTAAATTATATCAATTTCAATTTTATTT-T
388 CGTCGTTAGGCAACCCATTTTATTTTCCGATTTGTTTAAATTATATCAATTTCAATTTAATTTAT
44565 ATTTTTGTTACATATT
453 -TTTTTGTTACATATT
*
44581 AATTTTATTTTTATTTGAATTTTCAGTTATCACAAATATTTTTAA
1 AATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAA
44626 TCGAACAAAT
Statistics
Matches: 1324, Mismatches: 101, Indels: 40
0.90 0.07 0.03
Matches are distributed among these distances:
462 118 0.09
463 47 0.04
464 224 0.17
465 68 0.05
466 4 0.00
467 291 0.22
468 260 0.20
469 134 0.10
470 78 0.06
471 100 0.08
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (467 bp):
AATTTTATTTTTCTTTGAATTTTCAGTTATCACAAATATTTTTAAGGGTGAGTCTAAATATACCA
AACAATTTACTAAACATACCAACTTTTTGGTTTTTTAATAAAGGTGTAGGGTGTATGGGCCACAA
AGAAATAAAAAATGGGCAAATAGGTTATGCTAACTTGCGCCGGGTTGGGGGAGCTTTGTTAATGT
GTGCCGCACGGCTGGAATCGATCAAAAGTCTTAGATCTGCTACAAATTTATTCGATTAAAAATAT
TTGTGATAACTGAAAATTCAAAGAAATAAAATTAATATGTAACAAAAAATAAAATAAAATGAAAT
TGAAATAATTTAAACAAATCGGAAAATAAAATGGGTTGCCTCCCATAAAGCACTTTGTTTAACGT
CGTTAGGCAACCCATTTTATTTTCCGATTTGTTTAAATTATATCAATTTCAATTTAATTTATTTT
TTGTTACATATT
Found at i:44783 original size:16 final size:16
Alignment explanation
Indices: 44762--44794 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44752 CCGCCCATAC
*
44762 ACCCTACACGTTTATT
1 ACCCTACACCTTTATT
44778 ACCCTACACCTTTATT
1 ACCCTACACCTTTATT
44794 A
1 A
44795 AAAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ACCCTACACCTTTATT
Found at i:44915 original size:10 final size:10
Alignment explanation
Indices: 44900--44925 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
44890 AACTAGATCT
44900 GTTAAACAAA
1 GTTAAACAAA
44910 GTTAAACAAA
1 GTTAAACAAA
44920 GTTAAA
1 GTTAAA
44926 TTAAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.23
Consensus pattern (10 bp):
GTTAAACAAA
Found at i:45342 original size:3 final size:3
Alignment explanation
Indices: 45334--45404 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
45324 AGACTCACCC
45334 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
45382 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
45405 GCAACGATTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:49041 original size:42 final size:44
Alignment explanation
Indices: 48995--49140 Score: 114
Period size: 45 Copynumber: 3.4 Consensus size: 44
48985 TTAGTATCAT
48995 TTTTAATAA-A-AATA-TTAATTATTA-AATTATATTTATTGATAA
1 TTTTAATAATATAATATTTAATTATTATAATTATA-TTATT-ATAA
* *
49037 TTTTAATAATATAATATTTTATTGTTATAATTATATTATTATAA
1 TTTTAATAATATAATATTTAATTATTATAATTATATTATTATAA
* * *
49081 TATGTAATATTATAA-ATTT-ATT-TTAATAA-TATA-TAATA-AA
1 T-TTTAATAATATAATATTTAATTATT-ATAATTATATTATTATAA
*
49121 TTATTAATAAAATTAATATT
1 TT-TTAATAATA-TAATATT
49141 ATTTTTTAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
39 1 0.01
40 9 0.10
41 7 0.08
42 18 0.21
43 8 0.09
44 13 0.15
45 24 0.28
46 7 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (44 bp):
TTTTAATAATATAATATTTAATTATTATAATTATATTATTATAA
Found at i:49067 original size:30 final size:28
Alignment explanation
Indices: 49026--49083 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
49016 TTAAATTATA
*
49026 TTTATTGATAATTTTAATAATATAATAT
1 TTTATTGATAATTATAATAATATAATAT
* *
49054 TTTATTGTTATAATTATATTATTATAATAT
1 TTTATTG--ATAATTATAATAATATAATAT
49084 GTAATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
30 18 0.72
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTATTGATAATTATAATAATATAATAT
Found at i:49102 original size:29 final size:29
Alignment explanation
Indices: 49061--49118 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
49051 TATTTTATTG
*
49061 TTATAATTATATTATT-ATAATATGTAATA
1 TTATAATTATATT-TTAATAATATATAATA
49090 TTATAAATT-TATTTTAATAATATATAATA
1 TTAT-AATTATATTTTAATAATATATAATA
49119 AATTATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 20 0.77
30 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TTATAATTATATTTTAATAATATATAATA
Found at i:49242 original size:15 final size:15
Alignment explanation
Indices: 49222--49251 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49212 TGATATCTTA
49222 TTTTAATATTATAAT
1 TTTTAATATTATAAT
*
49237 TTTTAATATTTTAAT
1 TTTTAATATTATAAT
49252 AATAATAATA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAATATTATAAT
Found at i:49347 original size:31 final size:30
Alignment explanation
Indices: 49312--49385 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 30
49302 ATAAATAATC
*
49312 AATATAAT-TTATAATAATTTTATTTTAATAA
1 AATATAATATCATAATAATTTTA-TTT-ATAA
*
49343 AATATAATAATCATAATATTTTTATTTATAA
1 AATATAAT-ATCATAATAATTTTATTTATAA
49374 AATTATAGATAT
1 AA-TATA-ATAT
49386 AATTTTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
31 14 0.38
32 9 0.24
33 14 0.38
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
AATATAATATCATAATAATTTTATTTATAA
Found at i:49425 original size:14 final size:13
Alignment explanation
Indices: 49408--49437 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
49398 TAATATTTAC
49408 ATAAATTATATTGA
1 ATAAATTATATT-A
49422 ATAAATTATATTA
1 ATAAATTATATTA
49435 ATA
1 ATA
49438 TTTTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
ATAAATTATATTA
Found at i:49486 original size:22 final size:23
Alignment explanation
Indices: 49436--49486 Score: 54
Period size: 25 Copynumber: 2.3 Consensus size: 23
49426 ATTATATTAA
49436 TATT-TTAAAAATATTATTATCCT
1 TATTATTAAAAATATTATTAT-CT
*
49459 TTTTATTAAATAATATTATT-T-T
1 TATTATTAAA-AATATTATTATCT
49481 TATTAT
1 TATTAT
49487 ATTTGATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 6 0.25
23 3 0.12
24 6 0.25
25 9 0.38
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTATTAAAAATATTATTATCT
Found at i:50564 original size:11 final size:11
Alignment explanation
Indices: 50550--50599 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
50540 AATTTGATAC
50550 TAATGATTTAA
1 TAATGATTTAA
50561 TAATGATTAATAA
1 TAATGATT--TAA
*
50574 TAATTATTTAA
1 TAATGATTTAA
* *
50585 TAATAATTAAA
1 TAATGATTTAA
50596 TAAT
1 TAAT
50600 TTAATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 24 0.71
13 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:50582 original size:24 final size:25
Alignment explanation
Indices: 50550--50599 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
50540 AATTTGATAC
*
50550 TAATGATTTAATAATGATT-AATAA
1 TAATGATTTAATAATAATTAAATAA
*
50574 TAATTATTTAATAATAATTAAATAA
1 TAATGATTTAATAATAATTAAATAA
50599 T
1 T
50600 TTAATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
TAATGATTTAATAATAATTAAATAA
Found at i:50586 original size:14 final size:13
Alignment explanation
Indices: 50558--50593 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
50548 ACTAATGATT
*
50558 TAATAATGATTAA
1 TAATAATTATTAA
50571 TAATAATTATTTAA
1 TAATAATTA-TTAA
50585 TAATAATTA
1 TAATAATTA
50594 AATAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
TAATAATTATTAA
Found at i:52023 original size:33 final size:33
Alignment explanation
Indices: 51959--52023 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
51949 TATTTTGTTC
* *
51959 AATATTTTTAATCAAAATAAATAATTTATATTT
1 AATATTTTTAATCAAAATAAAGAATTCATATTT
* *
51992 AATA-TTTTATATTAAAATAGAGAATTCATATT
1 AATATTTTTA-ATCAAAATAAAGAATTCATATT
52024 ACCTTCCGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (33 bp):
AATATTTTTAATCAAAATAAAGAATTCATATTT
Found at i:53400 original size:29 final size:29
Alignment explanation
Indices: 53355--53430 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 29
53345 ATTATGCTCG
*
53355 TTACCTTT-TTCCTTTCTTCTTCCTTTCCT
1 TTACCTTTCTTTC-TTCTTCTTCCTTTCCT
53384 TTACCTTTC--T-TTCTTCTTCCTTTCCT
1 TTACCTTTCTTTCTTCTTCTTCCTTTCCT
*
53410 TCACCTTTCTTTCTTCTTCTT
1 TTACCTTTCTTTCTTCTTCTT
53431 ACAGCAGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 24 0.59
28 1 0.02
29 16 0.39
ACGTcount: A:0.04, C:0.34, G:0.00, T:0.62
Consensus pattern (29 bp):
TTACCTTTCTTTCTTCTTCTTCCTTTCCT
Found at i:53402 original size:26 final size:26
Alignment explanation
Indices: 53366--53428 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
53356 TACCTTTTTC
*
53366 CTTTCTTCTTCCTTTCCTTTACCTTT
1 CTTTCTTCTTCCTTTCCTTCACCTTT
53392 CTTTCTTCTTCCTTTCCTTCACCTTT
1 CTTTCTTCTTCCTTTCCTTCACCTTT
53418 CTTTCTTCTTC
1 CTTTCTTCTTC
53429 TTACAGCAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (26 bp):
CTTTCTTCTTCCTTTCCTTCACCTTT
Found at i:53405 original size:15 final size:15
Alignment explanation
Indices: 53366--53428 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 15
53356 TACCTTTTTC
53366 CTTTCTTCTTCCTTT
1 CTTTCTTCTTCCTTT
*
53381 C---CTT-TACCTTT
1 CTTTCTTCTTCCTTT
53392 CTTTCTTCTTCCTTT
1 CTTTCTTCTTCCTTT
*
53407 C---CTTC-ACCTTT
1 CTTTCTTCTTCCTTT
53418 CTTTCTTCTTC
1 CTTTCTTCTTC
53429 TTACAGCAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
11 13 0.36
12 7 0.19
14 7 0.19
15 9 0.25
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (15 bp):
CTTTCTTCTTCCTTT
Found at i:53960 original size:2 final size:2
Alignment explanation
Indices: 53953--53987 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53943 TATTTGAACA
53953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53988 AGCAAACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57791 original size:24 final size:24
Alignment explanation
Indices: 57764--57815 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
57754 CGTTCATTTA
* *
57764 CGTTCGTGAACGTTCGGTTATGTT
1 CGTTCATGAACGTTCGATTATGTT
* **
57788 CGTTTATGTTCGTTCGATTATGTT
1 CGTTCATGAACGTTCGATTATGTT
57812 CGTT
1 CGTT
57816 TATGTTCGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (24 bp):
CGTTCATGAACGTTCGATTATGTT
Found at i:57802 original size:14 final size:14
Alignment explanation
Indices: 57785--57815 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57775 GTTCGGTTAT
*
57785 GTTCGTTTATGTTC
1 GTTCGATTATGTTC
57799 GTTCGATTATGTTC
1 GTTCGATTATGTTC
57813 GTT
1 GTT
57816 TATGTTCGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.23, T:0.55
Consensus pattern (14 bp):
GTTCGATTATGTTC
Found at i:57816 original size:24 final size:24
Alignment explanation
Indices: 57774--57823 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
57764 CGTTCGTGAA
*
57774 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGATTATGTTCGTTTATGTT
57798 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGATTATGTTCGTTTATGTT
57822 CG
1 CG
57824 CTCATTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.10, C:0.14, G:0.24, T:0.52
Consensus pattern (24 bp):
CGTTCGATTATGTTCGTTTATGTT
Found at i:57832 original size:24 final size:24
Alignment explanation
Indices: 57781--57835 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
57771 GAACGTTCGG
*
57781 TTATGTTCGTTTATGTTCGTTCGA
1 TTATGTTCGTTTATGTTCGCTCGA
57805 TTATGTTCGTTTATGTTCGCTC-A
1 TTATGTTCGTTTATGTTCGCTCGA
57828 TTTATGTT
1 -TTATGTT
57836 TAACCCAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (24 bp):
TTATGTTCGTTTATGTTCGCTCGA
Found at i:59395 original size:16 final size:16
Alignment explanation
Indices: 59372--59432 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
59362 GGGTCTCCAA
*
59372 CGTTTATGTTCTTGTT
1 CGTTTATGTTCGTGTT
*
59388 CATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
59404 CGTTTATTTTCGTGTT
1 CGTTTATGTTCGTGTT
59420 CGTTTATGTTCGT
1 CGTTTATGTTCGT
59433 TTATTTATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.08, C:0.13, G:0.20, T:0.59
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:59526 original size:16 final size:16
Alignment explanation
Indices: 59502--59542 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
59492 AAAAAAAAAT
59502 TGTTAGTTTATGTTCG
1 TGTTAGTTTATGTTCG
*
59518 TGTTCGTTTATGTTCG
1 TGTTAGTTTATGTTCG
59534 T-TTA-TTTAT
1 TGTTAGTTTAT
59543 TAAATGAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 5 0.22
15 2 0.09
16 16 0.70
ACGTcount: A:0.12, C:0.07, G:0.20, T:0.61
Consensus pattern (16 bp):
TGTTAGTTTATGTTCG
Found at i:62684 original size:6 final size:6
Alignment explanation
Indices: 62673--62734 Score: 90
Period size: 6 Copynumber: 10.2 Consensus size: 6
62663 ATTAACACCT
*
62673 TTTGCA TTTGCA TTTAGCA TTTGAA TTTGCA TTTGCA TTTAGCA TTTGCA
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTT-GCA TTTGCA
62723 TTTGCA -TTGCA T
1 TTTGCA TTTGCA T
62735 GTATTTGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
5 5 0.10
6 34 0.67
7 12 0.24
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (6 bp):
TTTGCA
Found at i:62700 original size:19 final size:18
Alignment explanation
Indices: 62673--62734 Score: 90
Period size: 19 Copynumber: 3.4 Consensus size: 18
62663 ATTAACACCT
62673 TTTGCATTTGCATTTAGCA
1 TTTGCATTTGCATTT-GCA
*
62692 TTTGAATTTGCATTTGCA
1 TTTGCATTTGCATTTGCA
62710 TTTAGCATTTGCATTTGCA
1 TTT-GCATTTGCATTTGCA
62729 -TTGCAT
1 TTTGCAT
62735 GTATTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.10
18 8 0.20
19 28 0.70
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (18 bp):
TTTGCATTTGCATTTGCA
Found at i:62701 original size:25 final size:25
Alignment explanation
Indices: 62673--62734 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
62663 ATTAACACCT
62673 TTTGCATTTGCATTTAGCATTTGAA
1 TTTGCATTTGCATTTAGCATTTGAA
*
62698 TTTGCATTTGCATTTAGCATTTGCA
1 TTTGCATTTGCATTTAGCATTTGAA
62723 TTTGCA-TTGCAT
1 TTTGCATTTGCAT
62735 GTATTTGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (25 bp):
TTTGCATTTGCATTTAGCATTTGAA
Found at i:64834 original size:2 final size:2
Alignment explanation
Indices: 64827--64859 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
64817 ATACCCAACA
64827 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64860 GTGATTACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67018 original size:41 final size:41
Alignment explanation
Indices: 66922--67033 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
66912 TCACGATTTG
* * * * *
66922 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATAC
1 TAAGTCCTTCGGGTCATCCGTAAGCCTTTAGAGCAGGATAC
* *
66963 TTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAGTAGGATGA-
1 -TAAGTCCTTCGGGTCATCCGTAAGCCTTTAGAGCAGGAT-AC
*
67005 TAAGTCCTTCGGGTCATCCATAAGACCTT
1 TAAGTCCTTCGGGTCATCCGTAAG-CCTT
67034 CGGGTAGGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 22 0.37
42 36 0.61
43 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (41 bp):
TAAGTCCTTCGGGTCATCCGTAAGCCTTTAGAGCAGGATAC
Found at i:67881 original size:41 final size:42
Alignment explanation
Indices: 67779--67886 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
67769 TTCACAATTT
* * * *
67779 ATAAGTCCTCCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATGC
* * *
67821 TTAAATCCTTCGGGTCATCTGTAAG-CTTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCTGTAAGTC-TTTAGAGCAAGATGC
*
67862 ATAAGTCCTTCGGGCCATCTATAAG
1 ATAAGTCCTTCGGGCCATCTGTAAG
67887 ACCTTCGGGT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 22 0.41
42 32 0.59
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCTGTAAGTCTTTAGAGCAAGATGC
Found at i:68103 original size:215 final size:214
Alignment explanation
Indices: 66874--68338 Score: 2408
Period size: 214 Copynumber: 6.8 Consensus size: 214
66864 AAAATGATGT
66874 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCGGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCGGGCCAT
* * * *
66939 CAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAGTAGGATG
66 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
*
67004 ATAAGTCCTTCGGGTCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTAAAAATGAA
131 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTAAAAATGAA
67069 AAATGATGTTTTAAGAAGA
196 AAATGATGTTTTAAGAAGA
* *
67088 TGGAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTCCGGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCGGGCCAT
*
67153 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
66 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* *
67218 ATAAGTCCTTCGAGCCATCCATAAGACCTTCGGGTAGGATGCTTTCAAATGAATTTAAAAATGAA
131 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTAAAAATGAA
67283 AAATGATGTTTTAAGAAGA
196 AAATGATGTTTTAAGAAGA
* *
67302 TGGAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTCCGGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCGGGCCAT
* * *
67367 CAATAAGTCTTTCGAGCATGATGCTTAAATCCTTTGGGTCATCTGTAAGTCTTTAGAGCAAGATG
66 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* * *
67432 ATAAGTCCTTCGGCCCATCCATAAAACCCTCGGGTAGGATGTTTTCAAATGAATTTAAAAATGAA
131 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTAAAAATGAA
*
67497 AAATGATGTTTTAAGAATA
196 AAATGATGTTTTAAGAAGA
* *
67516 TGGAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCATTCGGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCGGGCCAT
* *
67581 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCTTCTGTAAGTCTTTAGAGCAAGATG
66 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
*
67646 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAA
131 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTAAAAATG-A
67711 AAAATGATGTTTTAAGAAGA
195 AAAATGATGTTTTAAGAAGA
* * *
67731 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTTCACAATTTATAAGTCCTCCGGGCCA
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAA-TTTCACGATTTGTAAGTCCTTCGGGCCA
*
67796 TCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCTTTTAGAGCAAGAT
65 TCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGAT
* *
67861 GATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGA
130 GATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTAAAAATGA
*
67926 AAAAGTGATGTTTTAAGAATA
195 AAAA-TGATGTTTTAAGAAGA
* * * *
67947 TGAAATTTTTGAAAACGAAGAATGCGATTTTTAAAATTTCACAATTTATAAGTCCTTCGGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCGGGCCAT
*
68012 CAGTAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
66 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* * *
68077 ATAAGTTCTTCGGGCAATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAA
131 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTAAAAATG--
*
68142 AAAAAATGATGTTTTAAGAATA
194 -AAAAATGATGTTTTAAGAAGA
* * *
68164 TGGAATTTTTGAAAACGAAGAATGCGATATTCAAAATTTCACGGTTTGTAAGTCATTCGGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCGGGCCAT
* * * **
68229 CAGTAAGTCTTTCGAGCTTGATGCTTAAATCTTTCGGGTCATCCGTAAGCCTTTAGAGCTGGATG
66 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* ** *
68294 ATAAGTCCTTCGGGTCATCCATAAGATTTTCGGGCAGGATGTTTT
131 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTT
68339 TCACCAGGAT
Statistics
Matches: 1181, Mismatches: 64, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
214 594 0.50
215 211 0.18
216 198 0.17
217 173 0.15
218 5 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (214 bp):
TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCGGGCCAT
CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTAAAAATGAA
AAATGATGTTTTAAGAAGA
Found at i:68311 original size:41 final size:42
Alignment explanation
Indices: 68212--68318 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 42
68202 TCACGGTTTG
* * * * * *
68212 TAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCTTGATGCT
1 TAAGTCATTCGGGTCATCCGTAAGCCTTTAGAGCTGGATGCA
* *
68254 TAAATCTTTCGGGTCATCCGTAAGCCTTTAGAGCTGGATG-A
1 TAAGTCATTCGGGTCATCCGTAAGCCTTTAGAGCTGGATGCA
* *
68295 TAAGTCCTTCGGGTCATCCATAAG
1 TAAGTCATTCGGGTCATCCGTAAG
68319 ATTTTCGGGC
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 21 0.39
42 33 0.61
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGTCATTCGGGTCATCCGTAAGCCTTTAGAGCTGGATGCA
Found at i:71482 original size:22 final size:22
Alignment explanation
Indices: 71457--71505 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
71447 AGTGTGTATG
*
71457 CACTTTTGTATCAGTGCAAAGA
1 CACTTTAGTATCAGTGCAAAGA
* * *
71479 CACTTTAGTATTAGTGCTAAGG
1 CACTTTAGTATCAGTGCAAAGA
71501 CACTT
1 CACTT
71506 CCGTGATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (22 bp):
CACTTTAGTATCAGTGCAAAGA
Found at i:72163 original size:36 final size:36
Alignment explanation
Indices: 72123--72202 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 36
72113 GTCATTAACG
*
72123 ATAACAATAGCAAAATTAATGGCAATGGCAATGACA
1 ATAACAATAGCAAAATTAATGGCAATGACAATGACA
*
72159 ATAACAATAGCAATATTAATGGCAATGACAATGACA
1 ATAACAATAGCAAAATTAATGGCAATGACAATGACA
*
72195 ATATCAAT
1 ATAACAAT
72203 GCCTATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (36 bp):
ATAACAATAGCAAAATTAATGGCAATGACAATGACA
Found at i:72179 original size:24 final size:25
Alignment explanation
Indices: 72151--72215 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 25
72141 ATGGCAATGG
72151 CAATGACAATAACAATAG-CAATAT
1 CAATGACAATAACAATAGACAATAT
* * *
72175 TAATGGCAATGACAAT-GACAATAT
1 CAATGACAATAACAATAGACAATAT
* *
72199 CAATGCCTATAACAATA
1 CAATGACAATAACAATA
72216 AAACCAATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (25 bp):
CAATGACAATAACAATAGACAATAT
Found at i:72180 original size:30 final size:30
Alignment explanation
Indices: 72146--72202 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
72136 AATTAATGGC
72146 AATGGCAATGACAATAACAATAGCAATATT
1 AATGGCAATGACAATAACAATAGCAATATT
* *
72176 AATGGCAATGACAATGACAATATCAAT
1 AATGGCAATGACAATAACAATAGCAAT
72203 GCCTATAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (30 bp):
AATGGCAATGACAATAACAATAGCAATATT
Found at i:73090 original size:187 final size:186
Alignment explanation
Indices: 72695--73102 Score: 504
Period size: 187 Copynumber: 2.2 Consensus size: 186
72685 AATTCATAGT
* *
72695 CCTTTTG-ACTATTGCAAATGAAAAGATAATT-TTTAATTTAAATATTAGTAGAATAATTACTCT
1 CCTTTTGAAC-ATTGCAAATTAAAATAT-ATTGTTTAATTTAAATATTAGT--AATAATTACTCT
* * *
72758 TTTAATAAGTCAATTTAAAAAGGTATTTGGTACTTTTTAATTTTGATTATTAAAAATAATTATAT
62 TTGAATAAGTCAATTTAAAAAGATATTTGGTACTTTTTAACTTTGATTATTAAAAATAATTATAT
* * * * *
72823 ATTTTTTTATATTTCAATTTAAAATAATATTTGTTTATTTTAAATAGTAAAATGAGTTTA
127 ATTTTTTTATATTTCAAATTAAAAGAATATATATTTAGTTTAAATAGTAAAATGAGTTTA
* * *
72883 CCTTTTGACCATTGCAAATT-AAATATATTGTTTAATTTGAATATTAGT-ATGATTACTCTTTGA
1 CCTTTTGAACATTGCAAATTAAAATATATTGTTTAATTTAAATATTAGTAATAATTACTCTTTGA
** *
72946 ATATTTCAATTTAAAAAGATATTTGTTATCTTTTTAACTTTGAATT-TTAAAAATAATTATATAT
66 ATAAGTCAATTTAAAAAGATATTTGGTA-CTTTTTAACTTTG-ATTATTAAAAATAATTATATAT
* *
73010 TTTTTGTATATTTCAAATTAAAAGAATATATATTTAAGTTTGAATGGTAAAA-GAGTTTTA
129 TTTTT-TATATTTCAAATTAAAAGAATATATATTT-AGTTTAAATAGTAAAATGAG-TTTA
* * *
73070 TCTTTTGAATATTTCAAATTAAAATATATTGTT
1 CCTTTTGAACATTGCAAATTAAAATATATTGTT
73103 ATCTGTTTAA
Statistics
Matches: 190, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
184 37 0.19
185 35 0.18
186 34 0.18
187 55 0.29
188 28 0.15
189 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (186 bp):
CCTTTTGAACATTGCAAATTAAAATATATTGTTTAATTTAAATATTAGTAATAATTACTCTTTGA
ATAAGTCAATTTAAAAAGATATTTGGTACTTTTTAACTTTGATTATTAAAAATAATTATATATTT
TTTTATATTTCAAATTAAAAGAATATATATTTAGTTTAAATAGTAAAATGAGTTTA
Found at i:74422 original size:18 final size:17
Alignment explanation
Indices: 74387--74427 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
74377 TGATTGAAAC
74387 AATAAATATGAATAAAT
1 AATAAATATGAATAAAT
74404 AAATAAATATGAA-ATAAT
1 -AATAAATATGAATA-AAT
74422 AATAAA
1 AATAAA
74428 AAATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (17 bp):
AATAAATATGAATAAAT
Found at i:76098 original size:37 final size:36
Alignment explanation
Indices: 76042--76264 Score: 176
Period size: 36 Copynumber: 6.3 Consensus size: 36
76032 ATTTTTTTTG
* *
76042 TGTTTCAAGAGAAATTGTCTCAAGAGATACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
76079 TGTTTCAAGGGAAACTGTCTAAAGGGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * * * *
76116 AGATCCAAAAAAAACTGTCTCAAGGGAAACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
76152 TTTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* *
76181 TGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
76217 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
76253 TGTTTCAAGAGA
1 TGTTTCAAGAGA
76265 GACAAAATTT
Statistics
Matches: 145, Mismatches: 30, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
28 2 0.01
29 16 0.11
30 2 0.01
31 1 0.01
32 2 0.01
33 1 0.01
35 1 0.01
36 61 0.42
37 59 0.41
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:76225 original size:21 final size:21
Alignment explanation
Indices: 76200--76279 Score: 100
Period size: 21 Copynumber: 4.0 Consensus size: 21
76190 GGAAAATGTC
76200 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
76221 TC-A-AGAG---AAA-TTGTC
1 TCAAGAGAGACAAAATTTGTT
76236 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
76257 TCAAGAGAGACAAAATTTTGTT
1 TCAAGAGAGACAAAA-TTTGTT
76279 T
1 T
76280 TGAGTAAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
15 6 0.12
16 4 0.08
17 4 0.08
19 4 0.08
20 4 0.08
21 21 0.42
22 7 0.14
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:76587 original size:120 final size:120
Alignment explanation
Indices: 76372--76601 Score: 334
Period size: 120 Copynumber: 1.9 Consensus size: 120
76362 AATATGAATG
* * * * * *
76372 TTGCTGGTGGGTACGATTCACTTCGTCGTTAAGTTGAAACCGCGGATGGCCCTTTCGTTGTGAAG
1 TTGCTGGTGAGCACGATTCACTCCGTCGTGAAGTTAAAACCGCGGATGGCCCCTTCGTTGTGAAG
* *
76437 TTGAGCCTTGACTTGAATATTCTTCATCGTGAAGTTGAAATCCAAGCTTGCATTA
66 TTGAGCCTTGAATTGAATATCCTTCATCGTGAAGTTGAAATCCAAGCTTGCATTA
* ** *
76492 TTGCTGGTGAGCACGATTCCCTCCGTCGTGAAGTTAAAATGGTGGATGGCCCCTTCGTTGTGAAG
1 TTGCTGGTGAGCACGATTCACTCCGTCGTGAAGTTAAAACCGCGGATGGCCCCTTCGTTGTGAAG
* *
76557 TTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
66 TTGAGCCTTGAATTGAATATCCTTCATCGTGAAGTTGAAATCCAA
76602 TGTAAGTTGT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (120 bp):
TTGCTGGTGAGCACGATTCACTCCGTCGTGAAGTTAAAACCGCGGATGGCCCCTTCGTTGTGAAG
TTGAGCCTTGAATTGAATATCCTTCATCGTGAAGTTGAAATCCAAGCTTGCATTA
Found at i:90587 original size:18 final size:17
Alignment explanation
Indices: 90564--90611 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
90554 TGATTGAAAC
90564 AATAAAAATG-AATAAAT
1 AATAAAAATGAAAT-AAT
*
90581 AAATAAATATGAAATAAT
1 -AATAAAAATGAAATAAT
*
90599 AATAAAAAAGAAA
1 AATAAAAATGAAA
90612 AAGTCCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 11 0.42
18 12 0.46
19 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AATAAAAATGAAATAAT
Found at i:92651 original size:106 final size:106
Alignment explanation
Indices: 92521--92744 Score: 269
Period size: 106 Copynumber: 2.1 Consensus size: 106
92511 AATATAAATT
* *
92521 ATTTTTATTTTATTATATGGATTCTCTAAACAATTTTAATATAA-TTTA-TAT-AT-TATTGTCT
1 ATTTTTATTTTATGATATGAATTCTCTAAACAATTTTAATATAATTTTATTATAATATATT-T-T
*
92582 AAAAATTA-ATTCTAGAAAATAATTTAAATAAAAAATATTAAACTC
64 AAAAATTATATT-T-GAAAATAATTTAAAT-AAAAATAGTAAACTC
* * * * *
92627 ATTTTTATTTTGTGATTTGAATTCTCTAAATAATTTTAATATAATTTTATTTTAATATATTTTAT
1 ATTTTTATTTTATGATATGAATTCTCTAAACAATTTTAATATAATTTTATTATAATATATTTTAA
* *
92692 ATATTATTATTTTAAAATAATTTAAATAAAAATAGTAAACTC
66 AAATTA-TATTTGAAAATAATTTAAATAAAAATAGTAAACTC
92734 ATTTTTATTTT
1 ATTTTTATTTT
92745 TAAGTCTTAC
Statistics
Matches: 102, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
106 39 0.38
107 29 0.28
108 23 0.23
109 4 0.04
110 7 0.07
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (106 bp):
ATTTTTATTTTATGATATGAATTCTCTAAACAATTTTAATATAATTTTATTATAATATATTTTAA
AAATTATATTTGAAAATAATTTAAATAAAAATAGTAAACTC
Found at i:92680 original size:16 final size:15
Alignment explanation
Indices: 92659--92691 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
92649 TCTCTAAATA
92659 ATTTTAATATAATTTT
1 ATTTTAATAT-ATTTT
92675 ATTTTAATATATTTT
1 ATTTTAATATATTTT
92690 AT
1 AT
92692 ATATTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTAATATATTTT
Found at i:92693 original size:25 final size:26
Alignment explanation
Indices: 92655--92720 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
92645 GAATTCTCTA
92655 AATA-ATTTTAATATAATT-TTATTTT
1 AATATATTTT-ATATAATTATTATTTT
92680 AATATATTTTATAT-ATTATTATTTT
1 AATATATTTTATATAATTATTATTTT
* * *
92705 AAAATAATTTAAATAA
1 AATATATTTTATATAA
92721 AAATAGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 26 0.74
26 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATATATTTTATATAATTATTATTTT
Found at i:92777 original size:2 final size:2
Alignment explanation
Indices: 92770--92797 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92760 CTATAATTAG
92770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92798 GTATGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93771 original size:16 final size:16
Alignment explanation
Indices: 93750--93782 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
93740 TTTGAACGAA
93750 TTCATTGAAAACAACC
1 TTCATTGAAAACAACC
93766 TTCATTGAAAACAACC
1 TTCATTGAAAACAACC
93782 T
1 T
93783 CTTAGGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (16 bp):
TTCATTGAAAACAACC
Found at i:94313 original size:10 final size:10
Alignment explanation
Indices: 94246--94313 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 10
94236 ATATTTGTGT
94246 TGTTCGTTTA
1 TGTTCGTTTA
*
94256 TGTTCATTTATTA
1 TGTTC--GT-TTA
94269 TGTTCGTTCGTA
1 TGTTCGTT--TA
94281 GGTGTTCGTTTA
1 --TGTTCGTTTA
*
94293 CGTTCGTTTA
1 TGTTCGTTTA
94303 TGTTCGTTTA
1 TGTTCGTTTA
94313 T
1 T
94314 CATTTAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
10 25 0.53
11 1 0.02
12 5 0.11
13 8 0.17
14 8 0.17
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:98525 original size:49 final size:49
Alignment explanation
Indices: 98472--98639 Score: 153
Period size: 49 Copynumber: 3.4 Consensus size: 49
98462 TTACTCTTCA
* *
98472 ATTATTAAAAATTATAAAAT-AGTCAGGGTATTGTTTTGTTGAGTCATTG
1 ATTATTAAAAGTTATAAAATGA-TCAGGGTATTGCTTTGTTGAGTCATTG
** * * * * * *
98521 ATTATTAAAAGTTACGAAATGATCAAGATATTACTTTGTTAAGTCGTCG
1 ATTATTAAAAGTTATAAAATGATCAGGGTATTGCTTTGTTGAGTCATTG
* * *
98570 ATTATTAAAAGTTATGAAATGATCCGTGTATTGCTTTGTTGAGTACCCA-T-
1 ATTATTAAAAGTTATAAAATGATCAGGGTATTGCTTTGTTGAGT---CATTG
*
98620 ACTATTAAAAGTTATAAAAT
1 ATTATTAAAAGTTATAAAAT
98640 AGTCACTTGA
Statistics
Matches: 94, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 74 0.79
50 19 0.20
52 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (49 bp):
ATTATTAAAAGTTATAAAATGATCAGGGTATTGCTTTGTTGAGTCATTG
Found at i:99993 original size:28 final size:29
Alignment explanation
Indices: 99953--100007 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
99943 ATGTATCTAA
* * *
99953 ACCTTTAA-TTTTTGTTTGTTTTGATTTT
1 ACCTTCAAGTTTTAGTTTATTTTGATTTT
99981 ACCTTCAAGTTTTAGTTTATTTTGATT
1 ACCTTCAAGTTTTAGTTTATTTTGATT
100008 ATGTCCCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.18, C:0.09, G:0.11, T:0.62
Consensus pattern (29 bp):
ACCTTCAAGTTTTAGTTTATTTTGATTTT
Found at i:106251 original size:25 final size:25
Alignment explanation
Indices: 106220--106269 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
106210 TGACATAAAT
106220 TTTAATTAATAATATTTAATT-GAAA
1 TTTAATTAATAATA-TTAATTAGAAA
*
106245 TTTAATTAATTATATTAATTAGAAA
1 TTTAATTAATAATATTAATTAGAAA
106270 CATTATAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTAATTAATAATATTAATTAGAAA
Found at i:112459 original size:39 final size:39
Alignment explanation
Indices: 112416--112492 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
112406 GTAAGGAACC
112416 CCCAAAATATATAGACATCAATGGGGGTATTATCAGTTT
1 CCCAAAATATATAGACATCAATGGGGGTATTATCAGTTT
112455 CCCAAAATATATAGACATCAATGGGGGTATTATCAGTT
1 CCCAAAATATATAGACATCAATGGGGGTATTATCAGTT
112493 GGAGGGTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (39 bp):
CCCAAAATATATAGACATCAATGGGGGTATTATCAGTTT
Found at i:119004 original size:104 final size:100
Alignment explanation
Indices: 118842--119041 Score: 276
Period size: 104 Copynumber: 2.0 Consensus size: 100
118832 GCTTCTAGAG
* *
118842 CTTTCTTTATATCTTAAAAGTTTAAGAGTTTTGTAGGTTGGCCGTGTCCCACTCTAATTTTTTTT
1 CTTTCTTTATATCTTAAAAGTTTAAGAGTTTTGTAGGTGGGCCATGTCCCACTCTAA--TTTTTT
118907 ATTTCTTTATATAATTTTTAAAATATAATTTTAAAGGAA
64 ATTTC-TT-TATAATTTTTAAAATATAATTTTAAAGGAA
* * * * *
118946 CTTTC-TTATTTCTTAAAAGTTTAAAGAGTTTTGTGGGTGGGTCATGTCTCACTTTAATTTTTTA
1 CTTTCTTTATATCTTAAAAGTTT-AAGAGTTTTGTAGGTGGGCCATGTCCCACTCTAATTTTTTA
*
119010 TTTCTTTATAATTTTTTAAATATAATTTTAAA
65 TTTCTTTATAATTTTTAAAATATAATTTTAAA
119042 AAGAGAAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
100 25 0.29
101 2 0.02
102 11 0.13
103 16 0.18
104 33 0.38
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.51
Consensus pattern (100 bp):
CTTTCTTTATATCTTAAAAGTTTAAGAGTTTTGTAGGTGGGCCATGTCCCACTCTAATTTTTTAT
TTCTTTATAATTTTTAAAATATAATTTTAAAGGAA
Found at i:119733 original size:13 final size:13
Alignment explanation
Indices: 119700--119733 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
119690 GAAAATACTT
*
119700 TTTAAAAGTGTAT
1 TTTAAAAGTGTAA
119713 TTTCAAAAGTGTAA
1 TTT-AAAAGTGTAA
119727 TTTAAAA
1 TTTAAAA
119734 CTTAACTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (13 bp):
TTTAAAAGTGTAA
Found at i:122610 original size:2 final size:2
Alignment explanation
Indices: 122603--122640 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
122593 AAGCTAAATA
122603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122641 AATTTCGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123318 original size:10 final size:10
Alignment explanation
Indices: 123286--123329 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
123276 TAATATGTTC
123286 GTTCATTTAT
1 GTTCATTTAT
* *
123296 GTTCGTTTTT
1 GTTCATTTAT
123306 GTTCATTTAT
1 GTTCATTTAT
*
123316 GTTTATTTAT
1 GTTCATTTAT
123326 GTTC
1 GTTC
123330 GCGTACTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.64
Consensus pattern (10 bp):
GTTCATTTAT
Found at i:123429 original size:22 final size:24
Alignment explanation
Indices: 123394--123441 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
123384 ACACATTTAA
123394 AATATTAAGACCCAATAA-ATTTT
1 AATATTAAGACCCAATAATATTTT
* *
123417 AATA-TAATACCCATTAATATTTT
1 AATATTAAGACCCAATAATATTTT
123440 AA
1 AA
123442 AATTCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (24 bp):
AATATTAAGACCCAATAATATTTT
Found at i:123610 original size:23 final size:23
Alignment explanation
Indices: 123576--123621 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
123566 GTTTGTTCGT
123576 TTGTGTTCGTTTACGTCCGTTTA
1 TTGTGTTCGTTTACGTCCGTTTA
* * *
123599 TTGTGTTTGTTTATGTTCGTTTA
1 TTGTGTTCGTTTACGTCCGTTTA
123622 CATCCGTTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.11, G:0.22, T:0.59
Consensus pattern (23 bp):
TTGTGTTCGTTTACGTCCGTTTA
Found at i:128898 original size:19 final size:20
Alignment explanation
Indices: 128874--128914 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
128864 TATGTTATAG
*
128874 ATAATTTTTA-TAGTATTTT
1 ATAATTTATATTAGTATTTT
*
128893 ATAATTTATATTATTATTTT
1 ATAATTTATATTAGTATTTT
128913 AT
1 AT
128915 TCTTATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
ATAATTTATATTAGTATTTT
Found at i:129053 original size:23 final size:23
Alignment explanation
Indices: 128998--129055 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
128988 TTAATTGATG
*
128998 TTATAATTAATTTTAAGATTCGTTC
1 TTATAATTAA-TTTAAGATTC-TTA
129023 TTAT-ATTAATTTAAGATT-TATA
1 TTATAATTAATTTAAGATTCT-TA
129045 TTATAATTAAT
1 TTATAATTAAT
129056 ATACTTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.03
22 5 0.17
23 15 0.50
24 5 0.17
25 4 0.13
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (23 bp):
TTATAATTAATTTAAGATTCTTA
Found at i:129656 original size:112 final size:112
Alignment explanation
Indices: 129454--130027 Score: 981
Period size: 112 Copynumber: 5.1 Consensus size: 112
129444 TTGTCGGTTT
* * * *
129454 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACATGTAAAAAAATAACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
129519 GATCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
129566 GTGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
129631 GGTATATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
129678 GTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
129743 GGTATATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
**
129790 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAATAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
129855 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
129902 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
129966 GGTCTATAAATGACAAAACAAGTAAAGCGCTACCGGATATGTTGATAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGA-AA
130014 -TGTCGATACTTTAT
1 GTGTCGATACTTTAT
130028 TATAAGTATC
Statistics
Matches: 441, Mismatches: 20, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
111 73 0.17
112 368 0.83
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:130257 original size:183 final size:182
Alignment explanation
Indices: 129899--130353 Score: 732
Period size: 183 Copynumber: 2.5 Consensus size: 182
129889 GGATATATTG
129899 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA-ATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
** ** ** * *
129963 ACCGGTCTATAAATGACAAAACAAGTAAAGCGCTACCGGATATGTTGATAATGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAACTACCGAATATGTTGAAAATGTCGATACTTTAT
* * *
130028 TATAAGTATCGACACTTTTTGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
130080 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
130145 ACCGATCTCGAAATGACAAAACCGGTAAAGAACTATCGAATATGTTGAAAAGTGTCGATACTTTA
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAACTACCGAATATGTTGAAAA-TGTCGATACTTTA
*
130210 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAATAAGTTATAGCGCCAAT
130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
* *
130263 AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
130328 ATCGGTCTCGAAATGACAAAATCGGT
66 ACCGGTCTCGAAATGACAAAACCGGT
130354 GGTAAAAAAG
Statistics
Matches: 253, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
181 56 0.22
182 49 0.19
183 148 0.58
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACCGGTCTCGAAATGACAAAACCGGTAAAGAACTACCGAATATGTTGAAAATGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:130878 original size:23 final size:23
Alignment explanation
Indices: 130795--130866 Score: 126
Period size: 23 Copynumber: 3.1 Consensus size: 23
130785 ATATAAACAT
*
130795 TACCTATTACCTTATATAAGCGC
1 TACCTATTACATTATATAAGCGC
*
130818 TACCTATTACATTATATAAGCGT
1 TACCTATTACATTATATAAGCGC
130841 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAGCGC
130864 TAC
1 TAC
130867 ATAATATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGC
Found at i:130878 original size:46 final size:46
Alignment explanation
Indices: 130785--130878 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
130775 AAATAGGTTA
* * *
130785 ATATAAACATTACCTATTACCTTATATAAGCGCTACCTATTACATT
1 ATATAAACATTACCTATTACATTATATAAGCGCTACATAATACATT
* * *
130831 ATATAAGCGTTACCTATTACATTATATAAGCGCTACATAATATATT
1 ATATAAACATTACCTATTACATTATATAAGCGCTACATAATACATT
130877 AT
1 AT
130879 TATACTTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.37
Consensus pattern (46 bp):
ATATAAACATTACCTATTACATTATATAAGCGCTACATAATACATT
Found at i:134734 original size:42 final size:44
Alignment explanation
Indices: 134640--134735 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 44
134630 TTCCCCGAAA
** * *
134640 TCAC-GTGTTTGTTTCATGTAATTTGTTTTTCGAAAAAATGTTT
1 TCACAGTGTTTGTTTCACATAATTCGTTTTCCGAAAAAATGTTT
* *
134683 TCCCA-TGTTTGTTTCACATAATTCGTTTTCCG-GAAAATGTTT
1 TCACAGTGTTTGTTTCACATAATTCGTTTTCCGAAAAAATGTTT
134725 T-ACAGTGTTTG
1 TCACAGTGTTTG
134736 GTTGGAGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.05
42 16 0.36
43 26 0.59
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.48
Consensus pattern (44 bp):
TCACAGTGTTTGTTTCACATAATTCGTTTTCCGAAAAAATGTTT
Found at i:135002 original size:21 final size:22
Alignment explanation
Indices: 134949--135008 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
134939 TAATTATTAA
* *
134949 AATATTTAAAAT-ATATTTATT
1 AATATTTATAATAATATATATT
134970 AATATTTATAATAATATATATT
1 AATATTTATAATAATATATATT
* *
134992 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
135009 ATAAAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 26 0.76
22 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATTTATAATAATATATATT
Found at i:135026 original size:18 final size:18
Alignment explanation
Indices: 135003--135037 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
134993 TATTTTTAAT
135003 ATTATAATAAAATAATAA
1 ATTATAATAAAATAATAA
* *
135021 ATTATATTATAATAATA
1 ATTATAATAAAATAATA
135038 TAATATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTATAATAAAATAATAA
Found at i:135029 original size:23 final size:23
Alignment explanation
Indices: 135001--135051 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
134991 TATATTTTTA
135001 ATATTATAATAAAATAATAAATT
1 ATATTATAATAAAATAATAAATT
* *
135024 ATATTATAATAATATAATATATT
1 ATATTATAATAAAATAATAAATT
135047 ATATT
1 ATATT
135052 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTATAATAAAATAATAAATT
Found at i:135029 original size:82 final size:83
Alignment explanation
Indices: 134943--135103 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 83
134933 AAATATTAAT
* *
134943 TATTAAAATATTTAAAATATATT-TATTAATATTTATAA-TAATATAT-ATTATATTTTTA-ATA
1 TATTAAAATA-ATAAAATATATTATATTAATATTT-TAATTAATATATAATAAT-TTTTTATATA
135004 TTATAATAA-AATAATAAATTA
63 TT-TAATAAGAATAATAAATTA
* * **
135025 TATTATAATAATATAATATATTATATTTTTATTTTAATTAATATATAATAATTTTTTATATATTT
1 TATTAAAATAATAAAATATATTATATTAATATTTTAATTAATATATAATAATTTTTTATATATTT
135090 AATAATGAATAATA
66 AATAA-GAATAATA
135104 TTATTTATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
81 13 0.19
82 38 0.57
83 9 0.13
84 7 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (83 bp):
TATTAAAATAATAAAATATATTATATTAATATTTTAATTAATATATAATAATTTTTTATATATTT
AATAAGAATAATAAATTA
Found at i:135056 original size:26 final size:26
Alignment explanation
Indices: 134958--135080 Score: 78
Period size: 23 Copynumber: 4.8 Consensus size: 26
134948 AAATATTTAA
* *
134958 AATAT-ATTTATTA-ATATTTATAAT
1 AATATAATATATTATATTTTTATAAT
* * *
134982 AATATATATTATATTTTTAATATTATAAT
1 AATATA-A-TATA-TTATATTTTTATAAT
* *
135011 AAAATAATAAATTATA---TTATAAT
1 AATATAATATATTATATTTTTATAAT
**
135034 AATATAATATATTATATTTTTATTTT
1 AATATAATATATTATATTTTTATAAT
*
135060 AAT-TAATATATAATAATTTTT
1 AATATAATATATTAT-ATTTTT
135081 TATATATTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
23 21 0.27
24 5 0.06
25 10 0.13
26 19 0.25
27 6 0.08
28 3 0.04
29 13 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATATAATATATTATATTTTTATAAT
Found at i:135080 original size:27 final size:26
Alignment explanation
Indices: 134972--135138 Score: 76
Period size: 29 Copynumber: 6.0 Consensus size: 26
134962 TATTTATTAA
*
134972 TATTTATAATA-ATATATATTATATTTT
1 TATTT-TAATATA-ATATATAATATTTT
*
134999 TAATATTATAATAAAATA-ATAA-ATTATAT
1 T-AT-TT-TAATATAATATATAATATT-T-T
** *
135028 TATAATAATATAATATATTATATTTT
1 TATTTTAATATAATATATAATATTTT
135054 TATTTTAAT-TAATATATAATAATTTTT
1 TATTTTAATATAATATATAAT-A-TTTT
*
135081 TATATATTTA-ATAATGA-ATAATATTATT
1 TAT-T-TTAATATAAT-ATATAATATT-TT
135109 TATATATTAAATATTAATATAATAATATTT
1 TAT-T-TT-AATA-TAATAT-ATAATATTT
135139 AATAATAAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
25 10 0.09
26 18 0.16
27 17 0.15
28 23 0.21
29 26 0.23
30 4 0.04
31 5 0.05
32 8 0.07
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
TATTTTAATATAATATATAATATTTT
Found at i:135091 original size:26 final size:28
Alignment explanation
Indices: 134981--135181 Score: 104
Period size: 26 Copynumber: 7.6 Consensus size: 28
134971 ATATTTATAA
*
134981 TAATATAT-ATTATATT-TTTA-ATATT
1 TAATATATAATAATATTATTTATATATT
* *
135006 ATAATAAAATAATAA-ATTATATTATAATAATA
1 -TAAT-ATATAATAATATTAT-TTAT-AT-ATT
* * *
135038 TAATATATTATATTTTTATTT-TA-A-T
1 TAATATATAATAATATTATTTATATATT
135063 TAATATATAATAAT-TT-TTTATATATT
1 TAATATATAATAATATTATTTATATATT
135089 TAATA-ATGAATAATATTATTTATATA-T
1 TAATATAT-AATAATATTATTTATATATT
*
135116 TAA-ATAT--TAATA-TA-ATA-ATATT
1 TAATATATAATAATATTATTTATATATT
135138 TAATA-ATAAATAA-ATTATTT-TAATATTT
1 TAATATAT-AATAATATTATTTAT-ATA-TT
135166 TAA-A-ATAATAATATTA
1 TAATATATAATAATATTA
135182 AGTTTTATGA
Statistics
Matches: 137, Mismatches: 12, Indels: 51
0.69 0.06 0.25
Matches are distributed among these distances:
21 3 0.02
22 8 0.06
23 6 0.04
24 10 0.07
25 20 0.15
26 24 0.18
27 24 0.18
28 18 0.13
29 4 0.03
30 8 0.06
31 10 0.07
32 2 0.01
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
TAATATATAATAATATTATTTATATATT
Found at i:135128 original size:15 final size:14
Alignment explanation
Indices: 135098--135182 Score: 57
Period size: 15 Copynumber: 5.9 Consensus size: 14
135088 TTAATAATGA
* *
135098 ATAATATTATTTAT
1 ATAATAATATTAAT
*
135112 ATATTAAATATTAAT
1 ATAAT-AATATTAAT
135127 ATAATAATATTTAAT
1 ATAATAATA-TTAAT
*
135142 AATAAATAA-ATTATT
1 -AT-AATAATATTAAT
* * *
135157 TTAAT-ATTTTAAA
1 ATAATAATATTAAT
135170 ATAATAATATTAA
1 ATAATAATATTAA
135183 GTTTTATGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
12 1 0.02
13 10 0.19
14 15 0.28
15 20 0.37
16 3 0.06
17 5 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATAATATTAAT
Found at i:135130 original size:29 final size:29
Alignment explanation
Indices: 134979--135150 Score: 118
Period size: 28 Copynumber: 6.2 Consensus size: 29
134969 TAATATTTAT
*
134979 AATAATATATATTATATT-TTTA-ATATTA
1 AATAATA-ATATAATATTATTTATATATTA
135007 TAATAA-AATAATAA-ATTATATTATA-A-TA
1 -AATAATAAT-ATAATATTAT-TTATATATTA
*
135035 ATATAAT-ATATTATATT-TTTAT-T-TTA
1 A-ATAATAATATAATATTATTTATATATTA
* * *
135061 ATTAAT-ATATAATAATTTTTTATATATTT
1 AATAATAATATAAT-ATTATTTATATATTA
*
135090 AATAATGA-ATAATATTATTTATATATTA
1 AATAATAATATAATATTATTTATATATTA
* * *
135118 AATATTAATATAATAATATTTA-ATAATA
1 AATAATAATATAATATTATTTATATATTA
135146 AATAA
1 AATAA
135151 ATTATTTTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 31
0.72 0.08 0.19
Matches are distributed among these distances:
25 10 0.09
26 10 0.09
27 15 0.13
28 45 0.39
29 33 0.29
30 2 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
AATAATAATATAATATTATTTATATATTA
Found at i:135150 original size:49 final size:50
Alignment explanation
Indices: 135084--135240 Score: 155
Period size: 49 Copynumber: 3.2 Consensus size: 50
135074 AATTTTTTAT
*
135084 ATATTTAATAATGAATAATATTATTTATATATTAAATATTAAT-ATAATA
1 ATATTTAATAATAAATAATATTATTTATATATTAAATATTAATAATAATA
* *
135133 ATATTTAATAATAAATAA-ATTATTTTAATATTTTAAA-A-TAATAATATTA
1 ATATTTAATAATAAATAATATTA-TTT-ATATATTAAATATTAATAATAATA
* * **
135182 AGT-TTT-ATGATAAATAATATTATTTATTATATTTAATATTTGTAATAAATA
1 A-TATTTAATAATAAATAATATTATTTA-TATATTAAATATTAATAAT-AATA
*
135233 ATTTTTAA
1 ATATTTAA
135241 AAAACTCATC
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
47 1 0.01
48 28 0.32
49 35 0.40
50 16 0.18
51 7 0.08
52 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (50 bp):
ATATTTAATAATAAATAATATTATTTATATATTAAATATTAATAATAATA
Found at i:135378 original size:14 final size:14
Alignment explanation
Indices: 135361--135405 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
135351 CAAAAAATGT
*
135361 AATTCATTTTCTAG
1 AATTCATTTTCCAG
**
135375 AATTCAAATTCCAG
1 AATTCATTTTCCAG
135389 TAATTCATTTTCCAG
1 -AATTCATTTTCCAG
135404 AA
1 AA
135406 AATTTATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (14 bp):
AATTCATTTTCCAG
Found at i:135401 original size:15 final size:15
Alignment explanation
Indices: 135359--135403 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
135349 TTCAAAAAAT
*
135359 GTAATTCATTTTCTA
1 GTAATTCATTTTCCA
**
135374 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
135388 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
135403 G
1 G
135404 AAAATTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:138779 original size:23 final size:23
Alignment explanation
Indices: 138735--138779 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
138725 AACATATTAG
**
138735 GTAGCGCTTATATAATGTAATAA
1 GTAGCGCTTATATAATAAAATAA
138758 GTAGCGCTTATATAATAAAATA
1 GTAGCGCTTATATAATAAAATA
138780 GGTATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAA
Found at i:138842 original size:87 final size:87
Alignment explanation
Indices: 138696--138944 Score: 426
Period size: 87 Copynumber: 2.9 Consensus size: 87
138686 ATGTTATAAC
*
138696 ATTTAATTGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTA
1 ATTTAATCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTA
*
138761 GCGCTTATATAATAAAATAGGT
66 GCGCTTATATAATAAAATAAGT
* *
138783 ATTTAATCGGAAATATTATCAAATACAATAACATATTAGGTAGCGCTTATATAATGTAATATGTA
1 ATTTAATCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTA
*
138848 TCGCTTATATAATAAAATAAGT
66 GCGCTTATATAATAAAATAAGT
* * *
138870 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTATCGCTTATATAATGTAATAGGTA
1 ATTTAATCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTA
138935 GCGCTTATAT
66 GCGCTTATAT
138945 TGACCTATTT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 152 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.35
Consensus pattern (87 bp):
ATTTAATCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTA
GCGCTTATATAATAAAATAAGT
Found at i:138866 original size:23 final size:23
Alignment explanation
Indices: 138826--138871 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
138816 TATTAGGTAG
** *
138826 CGCTTATATAATGTAATATGTAT
1 CGCTTATATAATAAAATAAGTAT
138849 CGCTTATATAATAAAATAAGTAT
1 CGCTTATATAATAAAATAAGTAT
138872 TTAACCGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (23 bp):
CGCTTATATAATAAAATAAGTAT
Found at i:139551 original size:30 final size:31
Alignment explanation
Indices: 139517--139601 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 31
139507 TTATAATAAA
*
139517 TAAT-AAATATAATTTATAATAA-TTTTATTT
1 TAATAAAATATAA-TAATAATAATTTTTATTT
*
139547 TAATAAAATATAATAATCATAATTTTTA-TT
1 TAATAAAATATAATAATAATAATTTTTATTT
139577 T-ATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
139602 AATAATAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 11 0.23
30 22 0.46
31 15 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAAAATATAATAATAATAATTTTTATTT
Found at i:139609 original size:14 final size:14
Alignment explanation
Indices: 139528--139613 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
139518 AATAAATATA
**
139528 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
139543 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
139556 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * *
139570 -TTTTATTTATAAA
1 ATTTTAATAATAAT
*
139583 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
139597 ATTTTAATAATAAT
1 ATTTTAATAATAAT
139611 ATT
1 ATT
139614 GACATAAATA
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
13 18 0.34
14 30 0.57
15 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:140317 original size:16 final size:16
Alignment explanation
Indices: 140296--140342 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
140286 ATTATTTTTA
140296 TTATAATAAATATAAT
1 TTATAATAAATATAAT
* *
140312 TTATAAT-AATTTTAT
1 TTATAATAAATATAAT
140327 TT-TAATAAAATATAAT
1 TTATAAT-AAATATAAT
140343 AATCATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.16
15 8 0.32
16 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATAATAAATATAAT
Found at i:140327 original size:30 final size:30
Alignment explanation
Indices: 140291--140394 Score: 90
Period size: 30 Copynumber: 3.4 Consensus size: 30
140281 GATATATTAT
*
140291 TTTTATTATAAT-AAATATAATTTATAATAA
1 TTTTATTATAATAAAATATAA-TAATAATAA
* *
140321 TTTTATTTTAATAAAATATAATAATCATAA
1 TTTTATTATAATAAAATATAATAATAATAA
*
140351 TTTT-TTATTTATAAAAGTATAGAT-ATAAT-A
1 TTTTATTA-TAATAAAA-TATA-ATAATAATAA
*
140381 TTTTAATAATAATA
1 TTTT-ATTATAATA
140395 TTGACATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.03
30 34 0.57
31 20 0.33
32 4 0.07
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTTATTATAATAAAATATAATAATAATAA
Found at i:141164 original size:28 final size:31
Alignment explanation
Indices: 141093--141165 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 31
141083 ATTTATAATT
141093 TATAATAATTTTATTTTAATAAAATATAATAA
1 TATAAT-ATTTTATTTTAATAAAATATAATAA
*
141125 TCATAATTTTTTA-TTTAA-AAAAT-T-ATACA
1 T-ATAATATTTTATTTTAATAAAATATAATA-A
141154 TATAATATTTTA
1 TATAATATTTTA
141166 ATAATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 13 0.35
29 3 0.08
30 5 0.14
31 5 0.14
32 6 0.16
33 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
TATAATATTTTATTTTAATAAAATATAATAA
Found at i:141203 original size:27 final size:26
Alignment explanation
Indices: 141138--141203 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
141128 TAATTTTTTA
141138 TTTAAA-AAATTA-TACATATAATAT
1 TTTAAATAAATTATTACATATAATAT
*
141162 TTT-AATAATAATATTGACATA-AATAT
1 TTTAAATAA-ATTATT-ACATATAATAT
141188 TATTAAATAAATTATT
1 T-TTAAATAAATTATT
141204 CTAATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
23 2 0.06
24 5 0.15
25 3 0.09
26 7 0.21
27 12 0.35
28 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (26 bp):
TTTAAATAAATTATTACATATAATAT
Found at i:141282 original size:780 final size:771
Alignment explanation
Indices: 139362--142311 Score: 4288
Period size: 786 Copynumber: 3.8 Consensus size: 771
139352 CTGGTATATT
* * * * *
139362 TATACCGGTTACATTGCAAATTTATCTATTATATTATAATTATCGGTTTCGATGTAAAATATGTG
1 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
139427 TCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
66 TCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
139492 GATATATTATTCTTATTATAATA-AATAATAAATATAATTTATAATAATTTTATTTTAATAAAAT
131 GATATATTATT-TTATTATAATATAATAATAAATATAATTTATAATAATTTTATTTTAATAAAAT
139556 ATAATAATCATAA-TTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATA
195 ATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATA
* * * *
139620 AATAATATTAAATAATTTATTATAATATTTAACAAAATAATATTATTATTTTGTTAATAAATAAT
260 AATAATATTAAATAAATTATTCTAATATTTTA-AAAATAATATTATTATTTTATTAATAAATAAT
* * * *
139685 ATTCTTTTATTATATTTGATTTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATT
324 ATTATTTTATTATATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATT
139750 ATGATTATTTTTTAAAATTATATTGTAATTATATATA--ATTTTTTTATTTTATTATTAGAAAGC
389 ATGATTATTTTTTAAAATTATATTGTAATTATATATATTATTTTTTTATTTTATTATTAGAAAGC
* * *
139813 TAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGTAACTTACAAACTA
454 TAATATCGAAATAGAAATACCGTATACTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTA
* * * *
139878 AAAAATTAAAATTAATTTGTATCATTTGTATTTACTAATTTTATCATTAAAAAGTATATTTTTAC
519 AAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAATCTATTTTTAC
* * * *
139943 TGATTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTAACTAAAACATTATCATTTCTACC
584 TGGTTTTGTTATTGTTGGGCATAACAAAACCGATAAAAATTACCTAAAACATTATTATTTCTACC
* * *
140008 TAAAACATCAATGTTTTTTAACATTTCCAGTAAAATTCCCAACAATAACAAAACCAGTAAAAAAA
649 TAAAACATCAATGTTTTTTAACATTTTC-G-----GT---AA-AAT-AC----CC-----AACAA
* *
140073 TAACAAAACCGGTAGTGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGG
694 TAACAAAACCGGTCGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGG
140138 TTTTGTTATTGTTG
759 -TTTGTTATTGTTG
140152 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
1 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
*
140217 TCGATACTTTTAGAAAATGTATCGACACATATG-TTAACTATTCTCTCATTATAATATAATTAAC
66 TCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
140281 GATATATTA--TT-TT-T-AT-T-ATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
131 GATATATTATTTTATTATAATATAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
*
140339 TAATAATCATAATTTTTTATTTATAAAAGTATAGATATAATATTTTAATAATAATATTGACATAA
196 TAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAA
* *
140404 ATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTGTTATTTTATTAATAGATAATAT
261 ATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTATTAATAAATAATAT
* *
140469 TATTTTATTGTATTTAATGTTTATAGATATATTGTAATTATGATTATTTTTCATCACTTCATTAT
326 TATTTTATTATATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTAT
*
140534 GATTATTTTTTAAAATTATATTGTAATTATATATAGTTTTTTATTTTTTATTTTATTATTAGAAA
391 GATTATTTTTTAAAATTATATTGTAATTATATATA---TTAT-TTTTTTATTTTATTATTAGAAA
*
140599 GCTAATATCGAAATAAAAATACCGTATAC-TTTTTTCATTAGTTATATTGTGGCAACTTACAAAC
452 GCTAATATCGAAATAGAAATACCGTATACTTTTTTTCATTAGTTATATTGTGGCAACTTACAAAC
140663 TAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAATCTATTTTT
517 TAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAATCTATTTTT
* * * *
140728 ACCGGTTTTGTTTTTGTTGGGCATAACAAAACCGATAAAAATTACCAAAAACATTATTATTTATA
582 ACTGGTTTTGTTATTGTTGGGCATAACAAAACCGATAAAAATTACCTAAAACATTATTATTTCTA
*
140793 CCTAAAACATCAATGTTTTTTAACATTTTCGGT-AAATGCCCAACAATAACAAAACCGGTCGCGC
647 CCTAAAACATCAATGTTTTTTAACATTTTCGGTAAAATACCCAACAATAACAAAACCGGTCGCGC
140857 TTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGTTTGTTATTGTTG
712 TTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGTTTGTTATTGTTG
* * * * *
140917 TATAGCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCAATATAACATATGTG
1 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
* * *
140982 TCGATACTTTTAGAAAATTTATCGACGCATATGTTTAAATATTCTCTCATTATAATATAATTAAT
66 TCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
141047 GATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATTTATAATAATTTTATTTTAA
131 GATATATTATT-TTATTATAAT--ATAAT-AATA-AA--TATAATTTATAATAATTTTATTTTAA
* *
141112 TAAAATATAATAATCATAATTTTTTATTTAAAAAATTATACATATAATATTTTAATAATAATATT
189 TAAAATATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATT
* * *
141177 GACATAAATATTATTAAATAAATTATTCTAATATTTTAAAATTATTATTATTATTTTATTAATAA
254 GACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTATTAATAA
*
141242 ATAATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACT
319 ATAATATTATTTTATTATATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACT
* * * *
141307 TCATTATAATTCTTTTTTAAAATTATATTGAAATTATATATTATTTTTTTTATTTTTTTTGTTTT
384 TCATTATGATTATTTTTTAAAATTATATTGTAATTATATA-TA------TTA-TTTTTTTATTTT
* * * * *
141372 ATTATTAAAAAGCTAATATGGAAATAGAAATATCATATACTTTTTTTTCATTAGTTATATTGTGA
441 ATTATTAGAAAGCTAATATCGAAATAGAAATACCGTATAC-TTTTTTTCATTAGTTATATTGTGG
* * *
141437 TAACTTATAAACTAAAAAATTAAAATTAATTTGTATAATGTGTGTTTACTAATTTTATCATTAAA
505 CAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAA
* *
141502 AAATCTATTTTTATTGGTTTTGTTATTGTTGGGCATAACAAAACCGATAAAATTTACCTAAAACA
570 AAATCTATTTTTACTGGTTTTGTTATTGTTGGGCATAACAAAACCGATAAAAATTACCTAAAACA
* * *
141567 TTATTATTTCTACCTAAAACATTAATG-TCTTTAACATTTTTGGTAAAATACCCAACAATAACAA
635 TTATTATTTCTACCTAAAACATCAATGTTTTTTAACATTTTCGGTAAAATACCCAACAATAACAA
* *
141631 AACCGGTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTATTAAAATAATGATGTTTTCA
700 AACCGG----------------TC----GCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCG
*
141696 GTAATTTTTACTGGTTTGTTATTGTTG
745 GTAATTTTTACCGGTTTGTTATTGTTG
141723 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
1 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
** *
141788 TCGATACTTTTAGAAAATGTATCGACGGATATGTTTAACTATTTTCTCATTATAATATAATTAAT
66 TCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
*
141853 GATATATTATTTTATTATAATA-AATAATAAATATAATTTATAATATTTTTATTTTAATAAAATA
131 GATATATTATTTTATTATAATATAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
* * *
141917 TAATAATCTTAATTTTTTATTTATAAAATTATAAAAATAATATTTTAATAATAATATTGACATAA
196 TAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAA
* * *
141982 ATAATATTAAATAAATTATTCTAATATTTTTAAAATATTATTATTATTTTGTTAATAAATAATAT
261 ATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTATTAATAAATAATAT
* *
142047 TATTTTATTGTATTTAATGTTTATAGTTATATTGTTATTATGATTATTTTTCATCACTTCATTAT
326 TATTTTATTATATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTAT
* *
142112 GATTATTTTTTAAAATTATATTGTAA--ATATATATAATTTTTTTATTTTTTTATTAGAAAGCTA
391 GATTATTTTTTAAAATTATATTGTAATTATATATATTATTTTTTTATTTTATTATTAGAAAGCTA
* * *
142175 ATATCGAAATAGAAATA--TTATGTCATTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAA
456 ATATCGAAATAGAAATACCGTAT-ACTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAA
* * * * *
142238 AAAATTAAAATTACTTTGTATAA-TT-TGTTTAGTAGTTTTATCATTAAAAATTCTATTTTTATT
520 AAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAATCTATTTTTACT
142301 GGTTTTGTTAT
585 GGTTTTGTTAT
142312 GTCTAAAACA
Statistics
Matches: 1978, Mismatches: 130, Indels: 110
0.89 0.06 0.05
Matches are distributed among these distances:
765 104 0.05
766 105 0.05
769 2 0.00
770 2 0.00
771 3 0.00
772 2 0.00
775 2 0.00
776 5 0.00
777 5 0.00
778 2 0.00
780 247 0.12
781 3 0.00
782 178 0.09
783 81 0.04
784 96 0.05
785 19 0.01
786 256 0.13
787 183 0.09
788 88 0.04
789 41 0.02
790 93 0.05
795 2 0.00
796 5 0.00
798 239 0.12
800 2 0.00
801 4 0.00
802 5 0.00
803 1 0.00
805 10 0.01
806 193 0.10
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (771 bp):
TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
TCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
GATATATTATTTTATTATAATATAATAATAAATATAATTTATAATAATTTTATTTTAATAAAATA
TAATAATCATAATTTTTTATTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAA
ATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTATTAATAAATAATAT
TATTTTATTATATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTAT
GATTATTTTTTAAAATTATATTGTAATTATATATATTATTTTTTTATTTTATTATTAGAAAGCTA
ATATCGAAATAGAAATACCGTATACTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAA
AAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAATCTATTTTTACTG
GTTTTGTTATTGTTGGGCATAACAAAACCGATAAAAATTACCTAAAACATTATTATTTCTACCTA
AAACATCAATGTTTTTTAACATTTTCGGTAAAATACCCAACAATAACAAAACCGGTCGCGCTTTA
CCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGTTTGTTATTGTTG
Found at i:141881 original size:37 final size:37
Alignment explanation
Indices: 141839--141921 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
141829 TTTTCTCATT
*
141839 ATAATATAAT-TAATGATATATTA-TTTTATTATAATAA
1 ATAATATAATATAAT-ATATAATATTTTTATTATAAT-A
* *
141876 ATAATA-AATATAATTTATAATATTTTTATTTTAATA
1 ATAATATAATATAATATATAATATTTTTATTATAATA
141912 A-AATATAATA
1 ATAATATAATA
141922 ATCTTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
35 4 0.10
36 15 0.38
37 21 0.52
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (37 bp):
ATAATATAATATAATATATAATATTTTTATTATAATA
Found at i:141962 original size:30 final size:31
Alignment explanation
Indices: 141892--141962 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
141882 AATATAATTT
*
141892 ATAATA-TTTTTATTTTAATAAAATATAATA
1 ATAATATTTTTTATTTTAATAAAATATAAAA
**
141922 ATCTTAATTTTTTA-TTT-ATAAAATTATAAAA
1 ATAAT-ATTTTTTATTTTAATAAAA-TATAAAA
141953 ATAATATTTT
1 ATAATATTTT
141963 AATAATAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
30 14 0.42
31 13 0.39
32 6 0.18
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (31 bp):
ATAATATTTTTTATTTTAATAAAATATAAAA
Found at i:141995 original size:14 final size:14
Alignment explanation
Indices: 141951--141997 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
141941 AAAATTATAA
*
141951 AAATAATATTTTAAT
1 AAATAATA-TTAAAT
*
141966 -AATAATATTGACAT
1 AAATAATATT-AAAT
141980 AAATAATATTAAAT
1 AAATAATATTAAAT
141994 AAAT
1 AAAT
141998 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.07
14 16 0.59
15 9 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
AAATAATATTAAAT
Found at i:142090 original size:798 final size:789
Alignment explanation
Indices: 140837--142311 Score: 2388
Period size: 798 Copynumber: 1.9 Consensus size: 789
140827 AATGCCCAAC
* * *
140837 AATAACAAAACCGGTCGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACC
1 AATAACAAAACCGGTAGCGCTTTACCGGTTTTATTAAAATAATGATGTTTTCAGTAATTTTTACC
* * *
140902 GGTTTGTTATTGTTGTATAGCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTC
66 GGTTTGTTATTGTTGTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
*
140967 AATATAACATATGTGTCGATACTTTTAGAAAATTTATCGACGCATATGTTTAAATATTCTCTCAT
131 AATATAACATATGTGTCGATACTTTTAGAAAATGTATCGACGCATATGTTTAAATATTCTCTCAT
141032 TATAATATAATTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATTTATA
196 TATAATATAATTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAA--TATA
* *
141097 ATAATTTTATTTTAATAAAATATAATAATCATAATTTTTTATTTAAAAAATTATACATATAATAT
259 AT-ATTTTATTTTAATAAAATATAATAATCATAATTTTTTATTTAAAAAATTATAAAAATAATAT
*
141162 TTTAATAATAATATTGACATAAATATTATTAAATAAATTATTCTAATATTTTAAAATTATTATTA
323 TTTAATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAATTATTATTA
*
141227 TTATTTTATTAATAAATAATATTATTTTATTATATTTGATGTTTATAGTTATATTGTAATTATGA
388 TTATTTTATTAATAAATAATATTATTTTATTATATTTAATGTTTATAGTTATATTGTAATTATGA
* *
141292 TTATTTTTCATCACTTCATTATAATTCTTTTTTAAAATTATATTG-AAATTATATATTATTTTTT
453 TTATTTTTCATCACTTCATTATAATTATTTTTTAAAATTATATTGTAAA-TATATA-TAATTTTT
* *
141356 TTATTTTTTTTGTTTTATTATTAAAAAGCTAATATGGAAATAGAAATATCATATACTTTTTTTTC
516 TTA-------T-TTTT-TTATTAAAAAGCTAATATCGAAATAGAAATATCATAT-C-ATTTTTTC
* *
141421 ATTAGTTATATTGTGATAACTTATAAACTAAAAAATTAAAATTAATTTGTATAATGTGTGTTTAC
570 ATTAGTTATATTGTGACAACTTACAAACTAAAAAATTAAAATTAATTTGTATAAT-T-TGTTTAC
141486 TAATTTTATCATTAAAAAATCTATTTTTATTGGTTTTGTTATTGTTGGGCATAACAAAACCGATA
633 TAATTTTATCATTAAAAAATCTATTTTTATTGGTTTTGTTATTGTTGGGCATAACAAAACCGATA
141551 AAATTTACCTAAAACATTATTATTTCTACCTAAAACATTAATGTCTTTAACATTTTTGGTAAAAT
698 AAATTTACCTAAAACATTATTATTTCTACCTAAAACATTAATGTCTTTAACATTTTTGGTAAAAT
141616 ACCCAACAATAACAAAACCGGTAAAAA
763 ACCCAACAATAACAAAACCGGTAAAAA
* *
141643 AATAACAAAATCGGTAGCGCTTTACCGGTTTTATTAAAATAATGATGTTTTCAGTAATTTTTACT
1 AATAACAAAACCGGTAGCGCTTTACCGGTTTTATTAAAATAATGATGTTTTCAGTAATTTTTACC
141708 GGTTTGTTATTGTTGTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
66 GGTTTGTTATTGTTGTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* * * * *
141773 GATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACGGATATGTTTAACTATTTTCTCAT
131 AATATAACATATGTGTCGATACTTTTAGAAAATGTATCGACGCATATGTTTAAATATTCTCTCAT
141838 TATAATATAATTAATGATATATTATT-TTATTATAATAAATAATAAATATAATTTAT-A-AT-AT
196 TATAATATAATTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATATAAT
* *
141899 -TTTTATTTTAATAAAATATAATAATCTTAATTTTTTATTTATAAAATTATAAAAATAATATTTT
261 ATTTTATTTTAATAAAATATAATAATCATAATTTTTTATTTAAAAAATTATAAAAATAATATTTT
141963 AATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTTAAAA-TATTATTATT
326 AATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATA-TTTTAAAATTATTATTATT
* * *
142027 ATTTTGTTAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTTATTATGATT
390 ATTTTATTAATAAATAATATTATTTTATTATATTTAATGTTTATAGTTATATTGTAATTATGATT
*
142092 ATTTTTCATCACTTCATTATGATTATTTTTTAAAATTATATTGTAAATATATATAATTTTTTTAT
455 ATTTTTCATCACTTCATTATAATTATTTTTTAAAATTATATTGTAAATATATATAATTTTTTTAT
* * *
142157 TTTTTTATTAGAAAGCTAATATCGAAATAGAAATATTATGTCATTTTTTCATTAGTTATATTGTG
520 TTTTTTATTAAAAAGCTAATATCGAAATAGAAATATCATATCATTTTTTCATTAGTTATATTGTG
* * * *
142222 GCAACTTACAAACTAAAAAATTAAAATTACTTTGTATAATTTGTTTAGTAGTTTTATCATTAAAA
585 ACAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTTTACTAATTTTATCATTAAAA
*
142287 ATTCTATTTTTATTGGTTTTGTTAT
650 AATCTATTTTTATTGGTTTTGTTAT
142312 GTCTAAAACA
Statistics
Matches: 629, Mismatches: 38, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
784 46 0.07
785 1 0.00
786 58 0.09
787 1 0.00
788 33 0.05
789 4 0.01
790 1 0.00
797 10 0.02
798 222 0.35
799 11 0.02
800 2 0.00
801 2 0.00
804 1 0.00
805 30 0.05
806 207 0.33
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (789 bp):
AATAACAAAACCGGTAGCGCTTTACCGGTTTTATTAAAATAATGATGTTTTCAGTAATTTTTACC
GGTTTGTTATTGTTGTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
AATATAACATATGTGTCGATACTTTTAGAAAATGTATCGACGCATATGTTTAAATATTCTCTCAT
TATAATATAATTAATGATATATTATTCTTATTATAATAAATAATAAATATAATTTATAATATAAT
ATTTTATTTTAATAAAATATAATAATCATAATTTTTTATTTAAAAAATTATAAAAATAATATTTT
AATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAATTATTATTATTA
TTTTATTAATAAATAATATTATTTTATTATATTTAATGTTTATAGTTATATTGTAATTATGATTA
TTTTTCATCACTTCATTATAATTATTTTTTAAAATTATATTGTAAATATATATAATTTTTTTATT
TTTTTATTAAAAAGCTAATATCGAAATAGAAATATCATATCATTTTTTCATTAGTTATATTGTGA
CAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTTTACTAATTTTATCATTAAAAA
ATCTATTTTTATTGGTTTTGTTATTGTTGGGCATAACAAAACCGATAAAATTTACCTAAAACATT
ATTATTTCTACCTAAAACATTAATGTCTTTAACATTTTTGGTAAAATACCCAACAATAACAAAAC
CGGTAAAAA
Found at i:142404 original size:20 final size:21
Alignment explanation
Indices: 142379--142432 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
142369 AATGTCAAAC
142379 AATAACAAAACCGGT-AAAAA
1 AATAACAAAACCGGTAAAAAA
142399 AATAACAAAACCGGTAAAAAA
1 AATAACAAAACCGGTAAAAAA
142420 AATAACAAAACCG
1 AATAACAAAACCG
142433 ATAGCGCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.65, C:0.17, G:0.09, T:0.09
Consensus pattern (21 bp):
AATAACAAAACCGGTAAAAAA
Found at i:143735 original size:2 final size:2
Alignment explanation
Indices: 143728--143761 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
143718 ACACCTCACA
143728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
143762 TAGTTTCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:145514 original size:15 final size:16
Alignment explanation
Indices: 145494--145527 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
145484 TATAAAAAAT
145494 AATTTAAAA-AATGAA
1 AATTTAAAATAATGAA
*
145509 AATTTAAAATAATTAA
1 AATTTAAAATAATGAA
145525 AAT
1 AAT
145528 AATAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AATTTAAAATAATGAA
Found at i:145539 original size:12 final size:12
Alignment explanation
Indices: 145516--145540 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
145506 GAAAATTTAA
145516 AATAATTAAAAT
1 AATAATTAAAAT
145528 AATAATTAAAAT
1 AATAATTAAAAT
145540 A
1 A
145541 TTTTTTGATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATTAAAAT
Found at i:155504 original size:2 final size:2
Alignment explanation
Indices: 155497--155559 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
155487 CTTTGCATCA
155497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
155539 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
155560 AATTTTCTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:167208 original size:2 final size:2
Alignment explanation
Indices: 167166--167192 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
167156 CGATACATAC
167166 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 A
167193 CACACATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:167417 original size:31 final size:31
Alignment explanation
Indices: 167382--167465 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
167372 TAATGTTATC
*
167382 GATTTGTAACAAAATGGTCACTAATATAATA
1 GATTTCTAACAAAATGGTCACTAATATAATA
*
167413 GATTTCTAACAAAATGGTCACTAATATTATA
1 GATTTCTAACAAAATGGTCACTAATATAATA
*
167444 GATTTCTAACAAAATGGCCACT
1 GATTTCTAACAAAATGGTCACT
167466 CCATCATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (31 bp):
GATTTCTAACAAAATGGTCACTAATATAATA
Found at i:171851 original size:17 final size:17
Alignment explanation
Indices: 171831--171870 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
171821 TTTAAACATC
171831 AAAGCTTTTGGCAGTTT
1 AAAGCTTTTGGCAGTTT
171848 AAAGCTTTTGGCAGTTT
1 AAAGCTTTTGGCAGTTT
*
171865 GAAGCT
1 AAAGCT
171871 GGGAACTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (17 bp):
AAAGCTTTTGGCAGTTT
Done.