Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008466.1 Hibiscus syriacus cultivar Beakdansim tig00111280_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: 685270
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:3706 original size:15 final size:15
Alignment explanation
Indices: 3688--3717 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3678 CCACGGTGCT
3688 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3703 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3718 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:8491 original size:27 final size:27
Alignment explanation
Indices: 8434--8494 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
8424 TGTATCATGT
* **
8434 CATATTATATAGCTCATTAGATTGTTA
1 CATATTACATAGCTCATTAGATCATTA
* * *
8461 CATATTACATAGTTCATTAGGTCATTG
1 CATATTACATAGCTCATTAGATCATTA
8488 CATATTA
1 CATATTA
8495 AATGTTATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (27 bp):
CATATTACATAGCTCATTAGATCATTA
Found at i:9164 original size:33 final size:33
Alignment explanation
Indices: 9122--9190 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
9112 AGGATTACCA
9122 AAATAAAGATCAATGCTGCAACTTAAAATAGAG
1 AAATAAAGATCAATGCTGCAACTTAAAATAGAG
9155 AAATAAAGATCAATGCTGCAACTTAAAATAGAG
1 AAATAAAGATCAATGCTGCAACTTAAAATAGAG
9188 AAA
1 AAA
9191 ATATTTTAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.20
Consensus pattern (33 bp):
AAATAAAGATCAATGCTGCAACTTAAAATAGAG
Found at i:20586 original size:31 final size:31
Alignment explanation
Indices: 20524--20593 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
20514 GTTTCAAAAC
* * * *
20524 TAATGAATTAGTCATTAATGTTATTAGTTTA
1 TAATAAATTAATCACTAATGTTATGAGTTTA
20555 TAATAAATTAATCACTAATGTTATCGA-TTTA
1 TAATAAATTAATCACTAATGTTAT-GAGTTTA
*
20586 TAAGAAAT
1 TAATAAAT
20594 CCATCCATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (31 bp):
TAATAAATTAATCACTAATGTTATGAGTTTA
Found at i:22699 original size:53 final size:53
Alignment explanation
Indices: 22615--22831 Score: 316
Period size: 53 Copynumber: 4.2 Consensus size: 53
22605 TTTCTAGGTA
* *
22615 CTAAGATATTGAGAGATGTACATACTTACACCAGTATAAATATGTGTTAATTG
1 CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
*
22668 CTACGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
1 CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
* * * * * *
22721 CTAAGGTATTGTGAAATGTACATACTTACACCGGTGCAAGTATATGTTAATTG
1 CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
*
22774 CTAAGATATTGAGAGATGTAC--A--TACACCAGTGTAAGTATGTGATAATTG
1 CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
22823 CTAAGATAT
1 CTAAGATAT
22832 GATAGTTGTT
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 32 0.22
51 1 0.01
53 114 0.78
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (53 bp):
CTAAGATATTGAGAGATGTACATACTTACACCAGTGTAAGTATGTGTTAATTG
Found at i:24993 original size:12 final size:12
Alignment explanation
Indices: 24978--25032 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
24968 GTTATTTAAA
24978 CGGGTATTGGGC
1 CGGGTATTGGGC
*
24990 CGGGTATTGGGT
1 CGGGTATTGGGC
*
25002 TGGGTATTGGGC
1 CGGGTATTGGGC
* *
25014 CGGGAATCGGGC
1 CGGGTATTGGGC
25026 CGGGTAT
1 CGGGTAT
25033 ATATATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.11, C:0.15, G:0.49, T:0.25
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:25103 original size:2 final size:2
Alignment explanation
Indices: 25092--25130 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
25082 AAATTTATTA
25092 AT AT -T 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
25131 TATTTTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:25175 original size:13 final size:12
Alignment explanation
Indices: 25144--25180 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
25134 TTTTAATATT
*
25144 TATCGGGTCGGG
1 TATCGGGGCGGG
25156 TATCGGGGCGGG
1 TATCGGGGCGGG
25168 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
25181 GATTACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.11, C:0.16, G:0.54, T:0.19
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:27631 original size:32 final size:32
Alignment explanation
Indices: 27585--27652 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
27575 TATGTGAGTG
27585 AAGACTCTGCTTAACCTATGAACAAAAATTTA
1 AAGACTCTGCTTAACCTATGAACAAAAATTTA
* *
27617 AAGACTCTGGTTAACCTATGAACAACAATTTA
1 AAGACTCTGCTTAACCTATGAACAAAAATTTA
27649 AAGA
1 AAGA
27653 GACCATTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (32 bp):
AAGACTCTGCTTAACCTATGAACAAAAATTTA
Found at i:40810 original size:13 final size:13
Alignment explanation
Indices: 40778--40802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40768 TAAAAAAATT
40778 AACTTAAAATTTA
1 AACTTAAAATTTA
40791 AACTTAAAATTT
1 AACTTAAAATTT
40803 TCACTTAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AACTTAAAATTTA
Found at i:41217 original size:13 final size:14
Alignment explanation
Indices: 41191--41289 Score: 64
Period size: 13 Copynumber: 7.1 Consensus size: 14
41181 ATTATAAAAT
41191 AAAA-TAAATATAA
1 AAAATTAAATATAA
41204 AAAATTAAAT-TAA
1 AAAATTAAATATAA
* *
41217 AAAATCAAATAATGA
1 AAAATTAAAT-ATAA
* *
41232 AATATTAAATTTTAA
1 AAAATTAAA-TATAA
*
41247 AAAATGT-TATATAA
1 AAAAT-TAAATATAA
*
41261 AAATATTAAA-AGAA
1 AAA-ATTAAATATAA
*
41275 AAAA-TAAAAATAA
1 AAAATTAAATATAA
41288 AA
1 AA
41290 CAAAATAATA
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
12 4 0.06
13 22 0.33
14 19 0.29
15 19 0.29
16 2 0.03
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAATTAAATATAA
Found at i:41248 original size:28 final size:26
Alignment explanation
Indices: 41189--41248 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
41179 AGATTATAAA
41189 ATAAAATAAATATAAAAAATTAAATT
1 ATAAAATAAATATAAAAAATTAAATT
* * *
41215 AAAAAATCAAATAATGAAATATTAAATT
1 ATAAAAT-AAAT-ATAAAAAATTAAATT
*
41243 TTAAAA
1 ATAAAA
41249 AATGTTATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.22
27 4 0.15
28 17 0.63
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (26 bp):
ATAAAATAAATATAAAAAATTAAATT
Found at i:41305 original size:19 final size:19
Alignment explanation
Indices: 41257--41306 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
41247 AAAATGTTAT
* * *
41257 ATAAAAATATTAAAAGAAA
1 ATAATAATAATAAAACAAA
*
41276 A-AATAAAAATAAAACAAA
1 ATAATAATAATAAAACAAA
41294 ATAATAATAATAA
1 ATAATAATAATAA
41307 TAAATAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
ATAATAATAATAAAACAAA
Found at i:41310 original size:28 final size:29
Alignment explanation
Indices: 41273--41343 Score: 71
Period size: 31 Copynumber: 2.5 Consensus size: 29
41263 ATATTAAAAG
41273 AAAA-AATAAAAATAAAA-CAAA-ATAAT
1 AAAATAATAAAAATAAAAGCAAATATAAT
*
41299 --AATAATAATAAATAAAAGGGAAATATAAT
1 AAAATAATAA-AAATAAAA-GCAAATATAAT
41328 AAAATAATAAATAATA
1 AAAATAATAAA-AATA
41344 GTAGTAAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
24 2 0.06
25 5 0.14
26 8 0.22
28 3 0.08
29 5 0.14
30 1 0.03
31 12 0.33
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (29 bp):
AAAATAATAAAAATAAAAGCAAATATAAT
Found at i:41406 original size:18 final size:18
Alignment explanation
Indices: 41385--41427 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
41375 GTTGTTTTTA
*
41385 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
41403 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
41421 AAATAAA
1 AAATAAA
41428 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:42308 original size:4 final size:4
Alignment explanation
Indices: 42294--42336 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
42284 TAAAATAACA
* *
42294 AAAT GAAT AAAT AAAT GAAAAG AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAAT AAAT AAAT A
42337 GCATTATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 30 0.91
6 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:42528 original size:12 final size:12
Alignment explanation
Indices: 42511--42546 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
42501 CAAGCCATAC
42511 CATATTTTTAGT
1 CATATTTTTAGT
42523 CATATTAATTTAGT
1 CATATT--TTTAGT
42537 CATATTTTTA
1 CATATTTTTA
42547 ATTTAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.45
14 12 0.55
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (12 bp):
CATATTTTTAGT
Found at i:43034 original size:2 final size:2
Alignment explanation
Indices: 43021--43056 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
43011 ATAAATAAAT
*
43021 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43057 ATTTTAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:43360 original size:2 final size:2
Alignment explanation
Indices: 43353--43391 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
43343 TAACTAGAAT
43353 TA TA TA 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 TA TA TA T
43392 GAAATATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44682 original size:28 final size:29
Alignment explanation
Indices: 44651--44720 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
44641 AAAAAATGTT
* *
44651 AAATTATAAAAGTAATAAA-ATAAAATAA
1 AAATAATAAAAGTAAAAAACATAAAATAA
44679 AAATAATAAGAAGTAAAAAACATAAAATAA
1 AAATAATAA-AAGTAAAAAACATAAAATAA
44709 ATAATAATAAAA
1 A-AATAATAAAA
44721 AAATGCTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 8 0.22
29 9 0.24
30 12 0.32
31 8 0.22
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (29 bp):
AAATAATAAAAGTAAAAAACATAAAATAA
Found at i:44684 original size:25 final size:23
Alignment explanation
Indices: 44656--44723 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
44646 ATGTTAAATT
44656 ATAAAAGTAATAAAATAAAATAAAA
1 ATAAAAGTAATAAAA-AAAAT-AAA
*
44681 ATAATAAG-AAGTAAAAAACATAAA
1 ATAA-AAGTAA-TAAAAAAAATAAA
*
44705 ATAAATAATAATAAAAAAA
1 ATAAA-AGTAATAAAAAAA
44724 TGCTAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.03
24 15 0.42
25 12 0.33
26 8 0.22
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (23 bp):
ATAAAAGTAATAAAAAAAATAAA
Found at i:45405 original size:3 final size:3
Alignment explanation
Indices: 45387--45453 Score: 102
Period size: 3 Copynumber: 22.3 Consensus size: 3
45377 GGCTTACAAA
45387 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45432 AAT AAT AAAT AAT AAT AA- AAT A
1 AAT AAT -AAT AAT AAT AAT AAT A
45454 TTTTGTAGAC
Statistics
Matches: 60, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.07
3 50 0.83
4 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:46601 original size:123 final size:124
Alignment explanation
Indices: 46374--46682 Score: 444
Period size: 123 Copynumber: 2.5 Consensus size: 124
46364 TTTGTTGACA
* * * * * * *
46374 AATG-CCCCTTCGCTGTGAAGTTGATCTTTGAATTGGATATCATTTGTTGTGAAGTTGAAATCCA
1 AATGACCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCA
* * *
46438 ATCTAAAGATAGATGTTGCTGGTGGGCATGATGTCTTTCGTCGTGAAGTTGAAATCGTG
66 ATATAAAGATAGATGTTGCTGGTGGGCATGATATCCTTCGTCGTGAAGTTGAAATCGTG
* * *
46497 GATGA-GCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGCCGTGAAGTTGAAATCCA
1 AATGACCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCA
* *
46561 ATATAAATATTA-ATGTTGTTGGTGGGCATGATATCCTTCGTCGTGAAGTTGAAATCGTG
66 ATATAAAGA-TAGATGTTGCTGGTGGGCATGATATCCTTCGTCGTGAAGTTGAAATCGTG
*
46620 AATGACCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATC
1 AATGACCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATC
46683 GTAGATGGCC
Statistics
Matches: 164, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
123 108 0.66
124 56 0.34
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (124 bp):
AATGACCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCA
ATATAAAGATAGATGTTGCTGGTGGGCATGATATCCTTCGTCGTGAAGTTGAAATCGTG
Found at i:46676 original size:34 final size:34
Alignment explanation
Indices: 46638--46744 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
46628 CTTCGTTATA
46638 AAGTTGAGCCTTGAATTGGATATCCTTCGTCGTG
1 AAGTTGAGCCTTGAATTGGATATCCTTCGTCGTG
** * ** *
46672 AAGTTGA-AATCGTAGA-TGG--CCCCTTCGTTGTG
1 AAGTTGAGCCTTG-A-ATTGGATATCCTTCGTCGTG
*
46704 AAGTTGAGCCTTGAATTGGATATCCTTCTTCGTG
1 AAGTTGAGCCTTGAATTGGATATCCTTCGTCGTG
46738 AAGTTGA
1 AAGTTGA
46745 AATCCAATCT
Statistics
Matches: 54, Mismatches: 13, Indels: 12
0.68 0.16 0.15
Matches are distributed among these distances:
31 1 0.02
32 21 0.39
33 4 0.07
34 27 0.50
35 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (34 bp):
AAGTTGAGCCTTGAATTGGATATCCTTCGTCGTG
Found at i:46696 original size:66 final size:66
Alignment explanation
Indices: 46590--46871 Score: 266
Period size: 66 Copynumber: 4.4 Consensus size: 66
46580 TGGTGGGCAT
*
46590 GATATCCTTCGTCGTGAAGTTGAAATCGT-GAATGACCCCTTCGTTATAAAGTTGAGCCTTGAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTAG-ATGGCCCCTTCGTTATAAAGTTGAGCCTTGAAT
46654 TG
65 TG
* *
46656 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATT
46721 G
66 G
* * ** * * * * *
46722 GATATCCTTCTTCGTGAAGTTGAAATC-CA-AT-----CTAAAG--ATGAATGTTGCTG-GTGGC
1 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCT-TCGTTAT-AAAGTTG-AGCCTTGA
46777 A-T-
63 ATTG
* * * * *
46779 GATATCCTTCGTCGTGAAGTTAAAATCGTGGATTGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATT
46844 G
66 G
* *
46845 GATATCATTCGTCGTGAAGTTTAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
46872 CAATCTAAAG
Statistics
Matches: 171, Mismatches: 29, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
57 25 0.15
58 2 0.01
59 12 0.07
60 2 0.01
63 2 0.01
64 12 0.07
65 3 0.02
66 112 0.65
67 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (66 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATT
G
Found at i:46807 original size:189 final size:189
Alignment explanation
Indices: 46474--46871 Score: 622
Period size: 189 Copynumber: 2.1 Consensus size: 189
46464 CATGATGTCT
*
46474 TTCGTCGTGAAGTTGAAATCGTGGATGAGCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCC
1 TTCGTCGTGAAGTTGAAATCGTAGATGAGCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCC
* * *
46539 TTCGCCGTGAAGTTGAAATCCAATATAAATATTAATGTTGTTGGTGGGCATGATATCCTTCGTCG
66 TTCGCCGTGAAGTTGAAATCCAATATAAAGATGAATGTTGCTGGTGGGCATGATATCCTTCGTCG
* *
46604 TGAAGTTGAAATCGT-GAATGACCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATATCC
131 TGAAGTTAAAATCGTGGAATG-CCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATATCA
*
46663 TTCGTCGTGAAGTTGAAATCGTAGATG-GCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATAT
1 TTCGTCGTGAAGTTGAAATCGTAGATGAG--CCTTCGTTATGAAGTTGAGCCTTGAATTGGATAT
** *
46727 CCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GGCATGATATCCTTCGT
64 CCTTCGCCGTGAAGTTGAAATCCAATATAAAGATGAATGTTGCTGGTGGGCATGATATCCTTCGT
* * *
46791 CGTGAAGTTAAAATCGTGGATTGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCA
129 CGTGAAGTTAAAATCGTGGAATGCCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATATCA
*
46852 TTCGTCGTGAAGTTTAAATC
1 TTCGTCGTGAAGTTGAAATC
46872 CAATCTAAAG
Statistics
Matches: 192, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
188 1 0.01
189 113 0.59
190 78 0.41
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (189 bp):
TTCGTCGTGAAGTTGAAATCGTAGATGAGCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATCC
TTCGCCGTGAAGTTGAAATCCAATATAAAGATGAATGTTGCTGGTGGGCATGATATCCTTCGTCG
TGAAGTTAAAATCGTGGAATGCCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATATCA
Found at i:46957 original size:313 final size:313
Alignment explanation
Indices: 46377--46995 Score: 929
Period size: 313 Copynumber: 2.0 Consensus size: 313
46367 GTTGACAAAT
* * *
46377 GCCCCTTCGCTGTGAAGTTGATCTTTGAATTGGATATCATTTGTTGTGAAGTTGAAATCCAATCT
1 GCCCCTTCGCTGTGAAGTTGAGCCTTGAATTGGATATCATTTGTCGTGAAGTTGAAATCCAATCT
* * * *
46442 AAAGATAGATGTTGCTGGTGGGCATGATGTCTTTCGTCGTGAAGTTGAAATCGTGGATGAGCCTT
66 AAAGATAGATGTTGCTGGTGGGCATGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGACCCTT
* * *
46507 CGTTATGAAGTTGAGCCTTGAATTGGATATCCTTCGCCGTGAAGTTGAAATCCAATATAAATATT
131 CGTTATGAAGTTGAGCCTTGAATTGGATATCATTCGCCGTGAAGTTGAAATCCAATATAAAGATG
** * * *
46572 AATGTTGTTGGTGGGCATGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGACCCCTTCGTTAT
196 AATGTTACTGGTGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGAATGACCCCTTCGTTAT
* *
46637 AAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCGTAGATG
261 AAAGTTGACCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCGTAGATG
* *
46690 GCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCT-TCGTGAAGTTGAAATCCAATC
1 GCCCCTTCGCTGTGAAGTTGAGCCTTGAATTGGATATCATT-TGTCGTGAAGTTGAAATCCAATC
*
46754 TAAAGAT-GAATGTTGCTGGT-GGCATGATATCCTTCGTCGTGAAGTTAAAATCGTGGATTGCCC
65 TAAAGATAG-ATGTTGCTGGTGGGCATGATATCCTTCGTCGTGAAGTTAAAATCGTGGA-TGACC
* * * *
46817 CTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTTAAATCCAATCTAAAG
128 CTTCGTTATGAAGTTGAGCCTTGAATTGGATATCATTCGCCGTGAAGTTGAAATCCAATATAAAG
* * *
46882 ATGAATGTTACTGGTGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGGATGGCCCCTTCTT
193 ATGAATGTTACTGGTGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGAATGACCCCTTCGT
* *
46947 TATGAAGTTGACCCTTGAATTGGATATCATTCGTCGTGAATTTGAAATC
258 TATAAAGTTGACCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATC
46996 CAATCTAAAG
Statistics
Matches: 274, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
312 35 0.13
313 238 0.87
314 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (313 bp):
GCCCCTTCGCTGTGAAGTTGAGCCTTGAATTGGATATCATTTGTCGTGAAGTTGAAATCCAATCT
AAAGATAGATGTTGCTGGTGGGCATGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGACCCTT
CGTTATGAAGTTGAGCCTTGAATTGGATATCATTCGCCGTGAAGTTGAAATCCAATATAAAGATG
AATGTTACTGGTGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGAATGACCCCTTCGTTAT
AAAGTTGACCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCGTAGATG
Found at i:46973 original size:124 final size:124
Alignment explanation
Indices: 46656--47384 Score: 1131
Period size: 124 Copynumber: 5.9 Consensus size: 124
46646 CCTTGAATTG
* *
46656 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
* * *
46721 GGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GGCAT
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
* * *
46779 GATATCCTTCGTCGTGAAGTTAAAATCGTGGATTGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
* *
46844 GGATATCATTCGTCGTGAAGTTTAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
* * * *
46903 GATATCCTTCATCATGAAGTTGAAATCGTGGATGGCCCCTTCTTTATGAAGTTGACCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
* * *
46968 GGATATCATTCGTCGTGAATTTGAAATCCAATCTAAAGATGAATGTTACTTGTGGGCAC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
* * * * *
47027 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCTTTCATTGTAAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
* *
47092 GG-TATCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
* *
47150 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
* ** * *
47215 GAATATCCTTCGTTATGAAGTTAAAATCCAATCTAAATATGAATGTTACTGGTGGGCAC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
* * *
47274 GATATCCTTTGTCGTGAAGTTGAAATCGTGGATGCCCCCTTCGTTATAAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
47339 GGATATCCTTCGTCGTGAAGTTGAAAT-CAATCTAAAGATGAATGTT
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
47385 GCTTCGAGTT
Statistics
Matches: 552, Mismatches: 52, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
123 240 0.43
124 312 0.57
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (124 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
Found at i:47163 original size:371 final size:370
Alignment explanation
Indices: 46656--47384 Score: 1181
Period size: 371 Copynumber: 2.0 Consensus size: 370
46646 CCTTGAATTG
* *
46656 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCATTGTAAAGTTGAGCCTTGAATT
* * * *
46721 GGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGCATGATATCC
66 GGATATCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGCACGATATCA
* * * *
46786 TTCGTCGTGAAGTTAAAATCGTGGATTGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATC
131 TTCGTCGTGAAGTTAAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATTGAATATC
* *
46851 ATTCGTCGTGAAGTTTAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATATCCTTCATC
196 ATTCGTCATGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATATCCTTCATC
* * *
46916 ATGAAGTTGAAATCGTGGATGGCCCCTTCTTTATGAAGTTGACCCTTGAATTGGATATCATTCGT
261 ATGAAGTTGAAATCGTGGATGCCCCCTTCGTTATAAAGTTGACCCTTGAATTGGATATCATTCGT
*
46981 CGTGAATTTGAAATCCAATCTAAAGATGAATGTTACTTGTGGGCAC
326 CGTGAAGTTGAAAT-CAATCTAAAGATGAATGTTACTTGTGGGCAC
* * *
47027 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCTTTCATTGTAAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCATTGTAAAGTTGAGCCTTGAATT
47092 GG-TATCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCACGATATC
66 GGATATCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GGCACGATATC
*
47156 ATTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATTGAATAT
130 ATTCGTCGTGAAGTTAAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATTGAATAT
* * * **
47221 CCTTCGTTATGAAGTTAAAATCCAATCTAAATATGAATGTTACTGGTGGGCACGATATCCTTTGT
195 CATTCGTCATGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATATCCTTCAT
* * *
47286 CGTGAAGTTGAAATCGTGGATGCCCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATATCCTTCG
260 CATGAAGTTGAAATCGTGGATGCCCCCTTCGTTATAAAGTTGACCCTTGAATTGGATATCATTCG
47351 TCGTGAAGTTGAAATCAATCTAAAGATGAATGTT
325 TCGTGAAGTTGAAATCAATCTAAAGATGAATGTT
47385 GCTTCGAGTT
Statistics
Matches: 329, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
370 67 0.20
371 262 0.80
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (370 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCATTGTAAAGTTGAGCCTTGAATT
GGATATCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGCACGATATCA
TTCGTCGTGAAGTTAAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATTGAATATC
ATTCGTCATGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATATCCTTCATC
ATGAAGTTGAAATCGTGGATGCCCCCTTCGTTATAAAGTTGACCCTTGAATTGGATATCATTCGT
CGTGAAGTTGAAATCAATCTAAAGATGAATGTTACTTGTGGGCAC
Found at i:47385 original size:247 final size:247
Alignment explanation
Indices: 46656--47387 Score: 1139
Period size: 247 Copynumber: 3.0 Consensus size: 247
46646 CCTTGAATTG
* *
46656 GATATCCTTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
* *
46721 GGATATCCTTC-TTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GGCATGATAT
66 GGATATCCTTCGTT-GTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATAT
* *
46784 CCTTCGTCGTGAAGTTAAAATCGTGGATTGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
130 CCTTCGTCGTGAAGTTGAAATCGTGGA-TGCCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATA
* * *
46849 TCATTCGTCGTGAAGTTTAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
194 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
* * * *
46903 GATATCCTTCATCATGAAGTTGAAATCGTGGATGGCCCCTTCTTTATGAAGTTGACCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
* * * *
46968 GGATATCATTCGTCGTGAATTTGAAATCCAATCTAAAGATGAATGTTACTTGTGGGCACGATATC
66 GGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATATC
* * *
47033 CTTCGTCGTGAAGTTGAAATCGTGGATGGCTCTTTCATTGTAAAGTTGAGCCTTGAATTGG-TAT
131 CTTCGTCGTGAAGTTGAAATCGTGGAT-GCCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATAT
*
47097 CCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
195 CCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
* *
47150 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
* * * *
47215 GAATATCCTTCGTTATGAAGTTAAAATCCAATCTAAATATGAATGTTACTGGTGGGCACGATATC
66 GGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATATC
* *
47280 CTTTGTCGTGAAGTTGAAATCGTGGATGCCCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATAT
131 CTTCGTCGTGAAGTTGAAATCGTGGATG-CCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATAT
47345 CCTTCGTCGTGAAGTTGAAAT-CAATCTAAAGATGAATGTTGCT
195 CCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCT
47388 TCGAGTTTAA
Statistics
Matches: 439, Mismatches: 41, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
246 1 0.00
247 350 0.80
248 88 0.20
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (247 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
GGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATATC
CTTCGTCGTGAAGTTGAAATCGTGGATGCCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATC
CTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
Found at i:51341 original size:15 final size:15
Alignment explanation
Indices: 51321--51371 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
51311 GATAAGAAAT
51321 AATAAATAAATATTA
1 AATAAATAAATATTA
51336 AATAAATCAAATATATA
1 AATAAAT-AAATAT-TA
* *
51353 TATATATATAATATTA
1 AATAAATA-AATATTA
51369 AAT
1 AAT
51372 GAATCAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 7 0.23
16 11 0.37
17 12 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAAATAAATATTA
Found at i:51427 original size:15 final size:14
Alignment explanation
Indices: 51408--51467 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 14
51398 TGTTAAATTC
*
51408 TAAAAGTAATAAAA
1 TAAAAATAATAAAA
51422 TAAAAATAATAAGAA
1 TAAAAATAATAA-AA
*
51437 GTAAAAAAACATAAAA
1 -TAAAAATA-ATAAAA
51453 TAAATAATAATAAAA
1 TAAA-AATAATAAAA
51468 AATGCTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 11 0.28
15 12 0.31
16 12 0.31
17 4 0.10
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (14 bp):
TAAAAATAATAAAA
Found at i:51458 original size:26 final size:24
Alignment explanation
Indices: 51411--51469 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
51401 TAAATTCTAA
* *
51411 AAGTAATAAAATAAAAATAATAAG
1 AAGTAAAAAAACAAAAATAATAAG
*
51435 AAGTAAAAAAACATAAAATAAATAAT
1 AAGTAAAAAAACA-AAAAT-AATAAG
51461 AA-TAAAAAA
1 AAGTAAAAAA
51470 TGCTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.37
25 12 0.40
26 7 0.23
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (24 bp):
AAGTAAAAAAACAAAAATAATAAG
Found at i:52151 original size:3 final size:3
Alignment explanation
Indices: 52138--52189 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
52128 GGCCTGGAAA
52138 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT
52184 AA- AAT A
1 AAT AAT A
52190 TTTTTGTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 35 0.76
4 7 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:53058 original size:2 final size:2
Alignment explanation
Indices: 53053--53082 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
53043 TTTAATAACA
53053 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
53083 TCATATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56894 original size:23 final size:22
Alignment explanation
Indices: 56823--56904 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
56813 ACACTTAACA
56823 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCA-CCC-TTGAAT
* * *
56847 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCACCCTTGAAT
*
56868 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCAC-CCTTGAAT
56891 GTGCATCGATGCAC
1 GTGCATCGATGCAC
56905 AAGGCCATGC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:59561 original size:20 final size:20
Alignment explanation
Indices: 59536--59574 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59526 TTTTCAAAGG
59536 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
*
59556 CATGCATCGATGCACCAAT
1 CATGCACCGATGCACCAAT
59575 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.36, G:0.15, T:0.18
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:59764 original size:64 final size:65
Alignment explanation
Indices: 59587--59747 Score: 234
Period size: 65 Copynumber: 2.5 Consensus size: 65
59577 ATAAATTGAG
* * * *
59587 CATCGAATGCATTTTATGCATCAATGCACTCTCCATGCATCGATTCACTCAGGATTTTATGAAAA
1 CATCGAATGCATTTTATGCATCGATGCACACTCCATGCATCGATGCACTCAGGATTTTATCAAAA
* ** * *
59652 CATCGAATGCATTTTATGCATTGATGCACAGACCATGCATCGATGCACTCATGCTTTT-TCAAAA
1 CATCGAATGCATTTTATGCATCGATGCACACTCCATGCATCGATGCACTCAGGATTTTATCAAAA
59716 CATCGAATGCATTTTATGCATCGATGCACACT
1 CATCGAATGCATTTTATGCATCGATGCACACT
59748 TGGTGCACTG
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 34 0.40
65 50 0.60
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (65 bp):
CATCGAATGCATTTTATGCATCGATGCACACTCCATGCATCGATGCACTCAGGATTTTATCAAAA
Found at i:66434 original size:23 final size:23
Alignment explanation
Indices: 66408--66476 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
66398 AAGGATACAT
66408 ATGTCCCGAAGGACCGAGTAGAA
1 ATGTCCCGAAGGACCGAGTAGAA
* **
66431 ATGTCCCAAAATACC-ACGTAGAA
1 ATGTCCCGAAGGACCGA-GTAGAA
* *
66454 TTGTCCCGAAGGACCGCGTAGAA
1 ATGTCCCGAAGGACCGAGTAGAA
66477 CCCTCGACTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.16
Consensus pattern (23 bp):
ATGTCCCGAAGGACCGAGTAGAA
Found at i:68024 original size:23 final size:23
Alignment explanation
Indices: 67984--68072 Score: 115
Period size: 23 Copynumber: 3.9 Consensus size: 23
67974 TTTAGGGTTT
* * * *
67984 TACGCAGTCATTCAGGACAATTC
1 TACGCGGTCCTTCGGGACATTTC
*
68007 TACGTGGTCCTTCGGGACATTTC
1 TACGCGGTCCTTCGGGACATTTC
*
68030 TACGCGATCCTTCGGGACATTTC
1 TACGCGGTCCTTCGGGACATTTC
*
68053 TATGCGGTCCTTCGGGACAT
1 TACGCGGTCCTTCGGGACAT
68073 ATATGTGGTC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (23 bp):
TACGCGGTCCTTCGGGACATTTC
Found at i:74209 original size:2 final size:2
Alignment explanation
Indices: 74197--74238 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
74187 TAATACGATA
74197 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74239 CCTACAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74771 original size:2 final size:2
Alignment explanation
Indices: 74760--74788 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
74750 ATTAATCAAT
74760 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74789 ATTTCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:76518 original size:26 final size:26
Alignment explanation
Indices: 76435--76522 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
76425 ACAATAAACC
*
76435 AACACAAGATGTGCAAAATAAAAATAT
1 AACACAAGATGTTCAAAAT-AAAATAT
* * ** *
76462 TACATAAGA-GTATCAAGTCTCAAAT-T
1 AACACAAGATGT-TCAA-AATAAAATAT
76488 AACACAAGATGTTCAAAATAAAATAT
1 AACACAAGATGTTCAAAATAAAATAT
*
76514 CACACAAGA
1 AACACAAGA
76523 GTATCAAGTC
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
25 5 0.11
26 23 0.51
27 16 0.36
28 1 0.02
ACGTcount: A:0.53, C:0.15, G:0.10, T:0.22
Consensus pattern (26 bp):
AACACAAGATGTTCAAAATAAAATAT
Found at i:78893 original size:32 final size:32
Alignment explanation
Indices: 78847--78914 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
78837 TATGTGAGTG
78847 AAGACTCTGCTTAACCTATGAACAAAAATTTA
1 AAGACTCTGCTTAACCTATGAACAAAAATTTA
* *
78879 AAGACTCTGGTTAACCTATGAACAACAATTTA
1 AAGACTCTGCTTAACCTATGAACAAAAATTTA
78911 AAGA
1 AAGA
78915 GACCATTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (32 bp):
AAGACTCTGCTTAACCTATGAACAAAAATTTA
Found at i:80629 original size:37 final size:37
Alignment explanation
Indices: 80575--80648 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
80565 ATTCCCACCA
*
80575 TGGGAAAGCATGGTGCTGAATATTATGCATTATCCAT
1 TGGGAAAGCATAGTGCTGAATATTATGCATTATCCAT
*
80612 TGGGAAAGCATATTGCTGAATATTATGCATTATCCAT
1 TGGGAAAGCATAGTGCTGAATATTATGCATTATCCAT
80649 AGTGTTGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (37 bp):
TGGGAAAGCATAGTGCTGAATATTATGCATTATCCAT
Found at i:83198 original size:45 final size:45
Alignment explanation
Indices: 83134--83237 Score: 183
Period size: 45 Copynumber: 2.3 Consensus size: 45
83124 TTTGGGGGGA
*
83134 AATCTTCAATCTCTGGTTGTTAGTCCTGATGACTCTTGATTATGG
1 AATCTTCAATCTCTGGTTGTCAGTCCTGATGACTCTTGATTATGG
83179 AATCTTCAATCTCTGGTTGTCAGTCCTGATGACTCTTGATTATGG
1 AATCTTCAATCTCTGGTTGTCAGTCCTGATGACTCTTGATTATGG
*
83224 AATCTTGAAT-TCTG
1 AATCTTCAATCTCTG
83238 ATCTTGATCT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
44 4 0.07
45 53 0.93
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (45 bp):
AATCTTCAATCTCTGGTTGTCAGTCCTGATGACTCTTGATTATGG
Found at i:83860 original size:44 final size:44
Alignment explanation
Indices: 83794--83878 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
83784 GGACCCACCT
* * * *
83794 TTTTTTTTAATTTAAGGCGCCCTTTCGGGTTTTCAACCTAAATG
1 TTTTTTTCAACTTAAGGAGCCCTTTCAGGTTTTCAACCTAAATG
* *
83838 TTTTTTTCAACTTAGGGAGCCCTTTCAGGTTTTCACCCTAA
1 TTTTTTTCAACTTAAGGAGCCCTTTCAGGTTTTCAACCTAA
83879 GCGAAATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (44 bp):
TTTTTTTCAACTTAAGGAGCCCTTTCAGGTTTTCAACCTAAATG
Found at i:94089 original size:31 final size:31
Alignment explanation
Indices: 94038--94096 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
94028 CTAAAAAGGT
* * *
94038 TAAAACATTAGATTATAAAATAAAATAAATA
1 TAAAAAATTAAATTAAAAAATAAAATAAATA
*
94069 TAAAAAATTAAATTAAAAAATATAATAA
1 TAAAAAATTAAATTAAAAAATAAAATAA
94097 TGAAATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (31 bp):
TAAAAAATTAAATTAAAAAATAAAATAAATA
Found at i:94107 original size:28 final size:26
Alignment explanation
Indices: 94059--94110 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
94049 ATTATAAAAT
94059 AAAATAAATATAAAAAATTAAATTAA
1 AAAATAAATATAAAAAATTAAATTAA
* *
94085 AAAATATAATAATGAAATATTAAATT
1 AAAATA-AAT-ATAAAAAATTAAATT
94111 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 3 0.14
28 13 0.59
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAATAAATATAAAAAATTAAATTAA
Found at i:94245 original size:31 final size:31
Alignment explanation
Indices: 94187--94245 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
94177 TAAATTTCAG
*
94187 AAAAGAAAAATAATAAAATATAAAAAATGTT
1 AAAAGAAAAATAATAAAATAAAAAAAATGTT
94218 AAAAG-AAAA-AATAAAAATAAAACAAAAT
1 AAAAGAAAAATAAT-AAAATAAAA-AAAAT
94246 AAAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 12 0.48
31 10 0.40
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (31 bp):
AAAAGAAAAATAATAAAATAAAAAAAATGTT
Found at i:94355 original size:18 final size:18
Alignment explanation
Indices: 94334--94376 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
94324 GTTGTTTTTA
* *
94334 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAAGT
*
94352 AAATAAAAGAAAATAAGT
1 AAATAAAAGAAAAGAAGT
94370 AAATAAA
1 AAATAAA
94377 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (18 bp):
AAATAAAAGAAAAGAAGT
Found at i:95297 original size:20 final size:21
Alignment explanation
Indices: 95267--95305 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
95257 TGAAAAGAAA
95267 TAAATAAATAGAATTATATTT
1 TAAATAAATAGAATTATATTT
*
95288 TAAA-AAATAGCATTATAT
1 TAAATAAATAGAATTATAT
95306 ATATATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
TAAATAAATAGAATTATATTT
Found at i:95372 original size:33 final size:34
Alignment explanation
Indices: 95301--95378 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
95291 AAAATAGCAT
*
95301 TATATATATATATTCGAAAAATGCTTTCAAAACTA
1 TATATATATATATTC-AAAAATGCTTTCAAAACAA
* *
95336 TATATTATATATTTTC-AAAATGTTTTCAAAA-AA
1 TATA-TATATATATTCAAAAATGCTTTCAAAACAA
95369 TATACTATAT
1 TATA-TATAT
95379 TGATACATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 10 0.26
34 14 0.37
35 4 0.11
36 10 0.26
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (34 bp):
TATATATATATATTCAAAAATGCTTTCAAAACAA
Found at i:95470 original size:12 final size:12
Alignment explanation
Indices: 95453--95488 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
95443 CAAGCCATAC
95453 CATATTTTTAGT
1 CATATTTTTAGT
95465 CATATTAATTTAGT
1 CATATT--TTTAGT
95479 CATATTTTTA
1 CATATTTTTA
95489 ATTTAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.45
14 12 0.55
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (12 bp):
CATATTTTTAGT
Found at i:95971 original size:2 final size:2
Alignment explanation
Indices: 95964--96016 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
95954 ATTATATTTC
95964 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
96006 AT AT AT AT AT A
1 AT AT AT AT AT A
96017 ATTTTAGATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:97574 original size:25 final size:24
Alignment explanation
Indices: 97538--97588 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
97528 AATAAGAAAT
97538 AATAAATAAATATTAAATAAATCA
1 AATAAATAAATATTAAATAAATCA
* *
97562 AATATATATAATATTAAATGAATCA
1 AATAAATA-AATATTAAATAAATCA
97587 AA
1 AA
97589 GGGAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (24 bp):
AATAAATAAATATTAAATAAATCA
Found at i:97642 original size:28 final size:29
Alignment explanation
Indices: 97611--97680 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
97601 AAAAAATGTT
* *
97611 AAATTATAAAAGTAATAAA-ATAAAATAA
1 AAATAATAAAAGTAAAAAACATAAAATAA
97639 AAATAATAAGAAGTAAAAAACATAAAATAA
1 AAATAATAA-AAGTAAAAAACATAAAATAA
97669 ATAATAATAAAA
1 A-AATAATAAAA
97681 AATGCTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 8 0.22
29 9 0.24
30 12 0.32
31 8 0.22
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (29 bp):
AAATAATAAAAGTAAAAAACATAAAATAA
Found at i:97644 original size:25 final size:23
Alignment explanation
Indices: 97616--97682 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 23
97606 ATGTTAAATT
97616 ATAAAAGTAATAAAATAAAATAAAA
1 ATAAAAGTAATAAAA-AAAAT-AAA
*
97641 ATAATAAG-AAGTAAAAAACATAAA
1 ATAA-AAGTAA-TAAAAAAAATAAA
*
97665 ATAAATAATAATAAAAAA
1 ATAAA-AGTAATAAAAAA
97683 TGCTAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 1 0.03
24 15 0.42
25 12 0.33
26 8 0.22
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (23 bp):
ATAAAAGTAATAAAAAAAATAAA
Found at i:97690 original size:34 final size:30
Alignment explanation
Indices: 97618--97681 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
97608 GTTAAATTAT
*
97618 AAAAGTAATAAA-ATAAAATAAAAATAATA
1 AAAAGTAAAAAACATAAAATAAAAATAATA
*
97647 AGAAGTAAAAAACATAAAATAAATAATAATA
1 AAAAGTAAAAAACATAAAATAAA-AATAATA
97678 AAAA
1 AAAA
97682 ATGCTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 10 0.33
30 10 0.33
31 10 0.33
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (30 bp):
AAAAGTAAAAAACATAAAATAAAAATAATA
Found at i:98365 original size:9 final size:10
Alignment explanation
Indices: 98350--98393 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
98340 GGCTTACAAA
98350 AATAAT-AA-
1 AATAATAAAT
98358 AATAAATAAAT
1 AAT-AATAAAT
98369 AATAAT-AAT
1 AATAATAAAT
98378 AATAATAAAT
1 AATAATAAAT
98388 AA-AATA
1 AATAATA
98394 TTTTGTAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 3 0.09
9 16 0.50
10 10 0.31
11 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AATAATAAAT
Found at i:98370 original size:16 final size:16
Alignment explanation
Indices: 98349--98393 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
98339 GGGCTTACAA
98349 AAATAATAAAATAAAT
1 AAATAATAAAATAAAT
98365 AAATAATAATAAT-AAT
1 AAATAATAA-AATAAAT
98381 -AATAAATAAAATA
1 AAAT-AATAAAATA
98394 TTTTGTAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.23
16 17 0.65
17 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAATAAAATAAAT
Found at i:98374 original size:19 final size:19
Alignment explanation
Indices: 98350--98393 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
98340 GGCTTACAAA
98350 AATAATAA-AATAAATAAAT
1 AATAATAATAAT-AATAAAT
98369 AATAATAATAATAATAAAT
1 AATAATAATAATAATAAAT
98388 AA-AATA
1 AATAATA
98394 TTTTGTAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAATAATAATAATAAAT
Found at i:99540 original size:123 final size:124
Alignment explanation
Indices: 99318--99621 Score: 439
Period size: 123 Copynumber: 2.5 Consensus size: 124
99308 TGACAAATGC
* * * ** * *
99318 CCCTTCGCTGTGAAGTTGAGCTTTGAATTGGATATCATTTGTTGTGAAGTTAAAATCCAATCTAA
1 CCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCATGAAGTTGAAATCCAATATAA
* * * *
99383 AGATGGATGTTGCTGGTGGGCACGATGTCTTTCGTCGTGAAGTTGAAATCGTGGATGA-
66 AGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGAT
* * * *
99441 CCCTTCGTTATGAAGTTGAACCTTGAATTGGATATCCTTCGCCATGAAGTTGAAATCCAATATAA
1 CCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCATGAAGTTGAAATCCAATATAA
* *
99506 ATATTAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGAT
66 AGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGAT
*
99565 CCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCATTCGTCATGAAGTTGAAATC
1 CCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCATGAAGTTGAAATC
99622 GTAGATGGAC
Statistics
Matches: 158, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
123 106 0.67
124 52 0.33
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (124 bp):
CCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCATGAAGTTGAAATCCAATATAA
AGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGAT
Found at i:99635 original size:66 final size:66
Alignment explanation
Indices: 99529--99687 Score: 250
Period size: 66 Copynumber: 2.4 Consensus size: 66
99519 TGGTGGGCAC
99529 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGATCCCTTCGTTGTAAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGATCCCTTCGTTGTAAAGTTGAGCCTTGAATT
99594 G
66 G
* * *
99595 GATATCATTCGTCATGAAGTTGAAATCGT-AGATGGA-CCCTTCGTTGTGAAGTTGAGCCTTGAA
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGA-AT-GATCCCTTCGTTGTAAAGTTGAGCCTTGAA
99658 TTG
64 TTG
*
99661 GATATCCTTCTTCGTGAAGTTGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
99688 CAATCTAAAG
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
65 1 0.01
66 82 0.96
67 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (66 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGATCCCTTCGTTGTAAAGTTGAGCCTTGAATT
G
Found at i:99772 original size:189 final size:189
Alignment explanation
Indices: 99413--99804 Score: 606
Period size: 189 Copynumber: 2.1 Consensus size: 189
99403 CACGATGTCT
*
99413 TTCGTCGTGAAGTTGAAATCGTGGATGACCCTTCGTTATGAAGTTGAACCTTGAATTGGATATCC
1 TTCGTCGTGAAGTTGAAATCGTAGATGACCCTTCGTTATGAAGTTGAACCTTGAATTGGATATCC
* * *
99478 TTCGCCATGAAGTTGAAATCCAATATAAATATTAATGTTGCTGGTGGGCACGATATCCTTCGTCG
66 TTCGCCATGAAGTTGAAATCCAATATAAAGATGAATGTTGCTGGTGGGCACAATATCCTTCGTCG
* * *
99543 TGAAGTTGAAATCGTGAATGATCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCA
131 TAAAGTTAAAATCGTGAATGACCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCA
* * *
99602 TTCGTCATGAAGTTGAAATCGTAGATGGACCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATC
1 TTCGTCGTGAAGTTGAAATCGTAGAT-GACCCTTCGTTATGAAGTTGAACCTTGAATTGGATATC
** * * *
99667 CTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GGCATAATATCCTTCGTC
65 CTTCGCCATGAAGTTGAAATCCAATATAAAGATGAATGTTGCTGGTGGGCACAATATCCTTCGTC
* * *
99731 GTAAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCA
130 GTAAAGTTAAAATCGTGAATGACCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCA
99791 TTCGTCGTGAAGTT
1 TTCGTCGTGAAGTT
99805 TCAATCCAAT
Statistics
Matches: 183, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
189 107 0.58
190 76 0.42
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (189 bp):
TTCGTCGTGAAGTTGAAATCGTAGATGACCCTTCGTTATGAAGTTGAACCTTGAATTGGATATCC
TTCGCCATGAAGTTGAAATCCAATATAAAGATGAATGTTGCTGGTGGGCACAATATCCTTCGTCG
TAAAGTTAAAATCGTGAATGACCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATATCA
Found at i:99896 original size:313 final size:313
Alignment explanation
Indices: 99318--99934 Score: 898
Period size: 313 Copynumber: 2.0 Consensus size: 313
99308 TGACAAATGC
* *
99318 CCCTTCGCTGTGAAGTTGAGCTTTGAATTGGATATCATTTGTTGTGAAGTTAAAATCCAATCTAA
1 CCCTTCGCTGTGAAGTTGAGCCTTGAATTGGATATCATTTGTCGTGAAGTTAAAATCCAATCTAA
* * * * * *
99383 AGATGGATGTTGCTGGTGGGCACGATGTCTTTCGTCGTGAAGTTGAAATCGTGGATGACCCTTCG
66 AGATGAATGTTGCTGGTGGGCACAATATCCTTCGTCGTAAAGTTAAAATCGTGGATGACCCTTCG
* * *
99448 TTATGAAGTTGAACCTTGAATTGGATATCCTTCGCCATGAAGTTGAAATCCAATATAAATATTAA
131 TTATGAAGTTGAACCTTGAATTGGATATCATTCGCCATGAAGTTGAAATCCAATATAAAGATGAA
* * *
99513 TGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGATCCCTTCGTTGTAA
196 TGTTGCAGGTGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGAATGATCCCTTCGTTGTAA
*
99578 AGTTGAGCCTTGAATTGGATATCATTCGTCATGAAGTTGAAATCGTAGATGGA
261 AGTTGAGCCTTGAATTAGATATCATTCGTCATGAAGTTGAAATCGTAGATGGA
* * *
99631 CCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCT-TCGTGAAGTTGAAATCCAATCTA
1 CCCTTCGCTGTGAAGTTGAGCCTTGAATTGGATATCATT-TGTCGTGAAGTTAAAATCCAATCTA
* *
99695 AAGATGAATGTTGCTGGT-GGCATAATATCCTTCGTCGTAAAGTTAAAATCGTGGATGGCCCCTT
65 AAGATGAATGTTGCTGGTGGGCACAATATCCTTCGTCGTAAAGTTAAAATCGTGGAT-GACCCTT
* * * * ** *
99759 CGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTTCAATCCAATCTAAAGATG
129 CGTTATGAAGTTGAACCTTGAATTGGATATCATTCGCCATGAAGTTGAAATCCAATATAAAGATG
* *
99824 AATGTTGCAGGTGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGGATG-TCCCCTTCTTTG
194 AATGTTGCAGGTGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGAATGAT-CCCTTCGTTG
* * *
99888 TGAAGTTGAGCCTTGAATTAGATATCCTTCGTCGTGAAGTTGAAATC
258 TAAAGTTGAGCCTTGAATTAGATATCATTCGTCATGAAGTTGAAATC
99935 CAATCTAAAG
Statistics
Matches: 269, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
312 33 0.12
313 235 0.87
314 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (313 bp):
CCCTTCGCTGTGAAGTTGAGCCTTGAATTGGATATCATTTGTCGTGAAGTTAAAATCCAATCTAA
AGATGAATGTTGCTGGTGGGCACAATATCCTTCGTCGTAAAGTTAAAATCGTGGATGACCCTTCG
TTATGAAGTTGAACCTTGAATTGGATATCATTCGCCATGAAGTTGAAATCCAATATAAAGATGAA
TGTTGCAGGTGGGCACGATATCCTTCATCATGAAGTTGAAATCGTGAATGATCCCTTCGTTGTAA
AGTTGAGCCTTGAATTAGATATCATTCGTCATGAAGTTGAAATCGTAGATGGA
Found at i:99902 original size:247 final size:248
Alignment explanation
Indices: 99595--100326 Score: 1141
Period size: 247 Copynumber: 3.0 Consensus size: 248
99585 CCTTGAATTG
* *
99595 GATATCATTCGTCATGAAGTTGAAATCGTAGATGGACCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCATTCGTCATGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
**
99660 GGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GGCATAATATC
66 GGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCACGATATC
* * *
99724 CTTCGTCGTAAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATAT
131 CTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATAT
* **
99789 CATTCGTCGTGAAGTTTCAATCCAATCTAAAGATGAATGTTGC-AGGTGGGCAC
196 CCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTA-GTGGGCAC
* * * *
99842 GATATCCTTCATCATGAAGTTGAAATCGTGGATGTCCCCTTCTTTGTGAAGTTGAGCCTTGAATT
1 GATATCATTCGTCATGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
* * *
99907 AGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCACGATATC
66 GGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCACGATATC
* * *
99972 CTTCGTCGTGAAGTTGAAATTGTGGATGGCCCTTTCATTGTAAAGTTGAGCCTTGAATTGG-TAT
131 CTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATAT
100036 CCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTAGTGGGCAC
196 CCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTAGTGGGCAC
* * *
100089 GATATCATTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
1 GATATCATTCGTCATGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
* * *
100154 GAATATCCATCGTT-GTGAAGTTGAAATCCAATCTAAATATGAATGTTGCTGGTGGGCACGATAT
66 GGATATCCTTC-TTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCACGATAT
* * * *
100218 CCTTTGCCGCGAAGTTGAAATCGTGGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATA
130 CCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATA
100283 TCCTTCGTCGTGAAGTTGAAAT-CAATCTAAAGATGAATGTTGCT
195 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCT
100327 TCGAGTTCAA
Statistics
Matches: 441, Mismatches: 40, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
247 351 0.80
248 90 0.20
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (248 bp):
GATATCATTCGTCATGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
GGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCACGATATC
CTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTAAAGTTGAGCCTTGAATTGGATAT
CCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTAGTGGGCAC
Found at i:99912 original size:124 final size:124
Alignment explanation
Indices: 99595--100360 Score: 1119
Period size: 124 Copynumber: 6.2 Consensus size: 124
99585 CCTTGAATTG
* * * *
99595 GATATCATTCGTCATGAAGTTGAAATCGTAGATGGACCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
* *
99660 GGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GGCAT
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
* * *
99718 AATATCCTTCGTCGTAAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
* ** *
99783 GGATATCATTCGTCGTGAAGTTTCAATCCAATCTAAAGATGAATGTTGCAGGTGGGCAC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
* * * *
99842 GATATCCTTCATCATGAAGTTGAAATCGTGGATGTCCCCTTCTTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
* *
99907 AGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGGGCAC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
* * * *
99966 GATATCCTTCGTCGTGAAGTTGAAATTGTGGATGGCCCTTTCATTGTAAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
*
100031 GG-TATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTAGTGGGCAC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
* * *
100089 GATATCATTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
* * * *
100154 GAATATCCATCGTTGTGAAGTTGAAATCCAATCTAAATATGAATGTTGCTGGTGGGCAC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
* * * * *
100213 GATATCCTTTGCCGCGAAGTTGAAATCGTGGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
* **
100278 GGATATCCTTCGTCGTGAAGTTGAAAT-CAATCTAAAGATGAATGTTGCT--TCGAGTTC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GGGCAC
* *
100335 AATATCCTTCGTTGTGAAGTTGAAAT
1 GATATCCTTCGTCGTGAAGTTGAAAT
100361 TGACTCTGAG
Statistics
Matches: 576, Mismatches: 64, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
121 1 0.00
122 24 0.04
123 242 0.42
124 309 0.54
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (124 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGGCAC
Found at i:100102 original size:371 final size:369
Alignment explanation
Indices: 99595--100362 Score: 1121
Period size: 371 Copynumber: 2.1 Consensus size: 369
99585 CCTTGAATTG
* * * * *
99595 GATATCATTCGTCATGAAGTTGAAATCGTAGATGGACCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATTGTAGATGGACCCTTCATTGTAAAGTTGAGCCTTGAATT
* * * *
99660 GGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGGCATAATATCC
66 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTAGTGGCACAATATCA
* *
99725 TTCGTCGTAAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATAT-
131 TTCGTCGTAAAGTTAAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATTGAATATC
** *
99789 CATTCGTCGTGAAGTTTCAATCCAATCTAAAGATGAATGTTGCAGGTGGGCACGATATCCTTCAT
196 CA-TCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCAGGTGGGCACGATATCCTTCAC
* * * * *
99854 CATGAAGTTGAAATCGTGGATGTCCCCTTCTTTGTGAAGTTGAGCCTTGAATTAGATATCCTTCG
260 CACGAAGTTGAAATCGTGGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATTAGATATCCTTCG
*
99919 TCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGT-GGGCAC
325 TCGTGAAGTTGAAAT-CAATCTAAAGATGAATGTTACT--TCGAGCAC
*
99966 GATATCCTTCGTCGTGAAGTTGAAATTGTGGATGG-CCCTTTCATTGTAAAGTTGAGCCTTGAAT
1 GATATCCTTCGTCGTGAAGTTGAAATTGTAGATGGACCC-TTCATTGTAAAGTTGAGCCTTGAAT
*
100030 TGG-TATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTAGTGGGCACGATAT
65 TGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTAGT-GGCACAATAT
* * *
100094 CATTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATTGAATA
129 CATTCGTCGTAAAGTTAAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATTGAATA
* * * **
100159 TCCATCGTTGTGAAGTTGAAATCCAATCTAAATATGAATGTTGCTGGTGGGCACGATATCCTTTG
194 TCCATCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCAGGTGGGCACGATATCCTTCA
* *
100224 CCGCGAAGTTGAAATCGTGGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATTGGATATCCTTC
259 CCACGAAGTTGAAATCGTGGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATTAGATATCCTTC
* **
100289 GTCGTGAAGTTGAAATCAATCTAAAGATGAATGTTGCTTCGAGTTC
324 GTCGTGAAGTTGAAATCAATCTAAAGATGAATGTTACTTCGAGCAC
* *
100335 AATATCCTTCGTTGTGAAGTTGAAATTG
1 GATATCCTTCGTCGTGAAGTTGAAATTG
100363 ACTCTGAGTG
Statistics
Matches: 356, Mismatches: 37, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
368 1 0.00
369 29 0.08
370 72 0.20
371 252 0.71
372 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (369 bp):
GATATCCTTCGTCGTGAAGTTGAAATTGTAGATGGACCCTTCATTGTAAAGTTGAGCCTTGAATT
GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTAGTGGCACAATATCA
TTCGTCGTAAAGTTAAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATTGAATATC
CATCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCAGGTGGGCACGATATCCTTCACC
ACGAAGTTGAAATCGTGGATGGCCCCTTCGTTATAAAGTTGAGCCTTGAATTAGATATCCTTCGT
CGTGAAGTTGAAATCAATCTAAAGATGAATGTTACTTCGAGCAC
Found at i:104344 original size:11 final size:11
Alignment explanation
Indices: 104328--104353 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
104318 GTTAGATAAG
104328 AAATAATAAAT
1 AAATAATAAAT
104339 AAATAATAAAT
1 AAATAATAAAT
104350 AAAT
1 AAAT
104354 CAAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:104377 original size:29 final size:27
Alignment explanation
Indices: 104328--104386 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 27
104318 GTTAGATAAG
104328 AAATAATAAATAAATAATAAATAAATC
1 AAATAATAAATAAATAATAAATAAATC
* *
104355 AAATATATATATATAATATTAAATAAATC
1 AAATA-ATAAATA-AATAATAAATAAATC
104384 AAA
1 AAA
104387 GGGAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.18
28 6 0.21
29 17 0.61
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (27 bp):
AAATAATAAATAAATAATAAATAAATC
Found at i:104445 original size:14 final size:14
Alignment explanation
Indices: 104422--104478 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
104412 TGTTAAATTC
*
104422 TAAAAGTAATAAAA
1 TAAAAATAATAAAA
104436 TAAAAATAATAAGAA
1 TAAAAATAATAA-AA
104451 GTAAAAA-ACATAAAA
1 -TAAAAATA-ATAAAA
104466 TAAATAATAATAA
1 TAAA-AATAATAA
104479 TAAATGCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
14 15 0.41
15 11 0.30
16 11 0.30
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (14 bp):
TAAAAATAATAAAA
Found at i:104452 original size:24 final size:26
Alignment explanation
Indices: 104425--104482 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 26
104415 TAAATTCTAA
*
104425 AAGTAATAAAATA-AAAAT-AATAAG
1 AAGTAATAAAACATAAAATAAATAAG
*
104449 AAGTAA-AAAACATAAAATAAATAAT
1 AAGTAATAAAACATAAAATAAATAAG
104474 AA-TAATAAA
1 AAGTAATAAA
104483 TGCTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 5 0.17
24 14 0.48
25 10 0.34
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (26 bp):
AAGTAATAAAACATAAAATAAATAAG
Found at i:105160 original size:3 final size:3
Alignment explanation
Indices: 105154--105195 Score: 50
Period size: 3 Copynumber: 13.3 Consensus size: 3
105144 CTGGAAAAAA
105154 AAT AAT AAT AAT AAT AAAT AAAT AAAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT -AAT -AAT -AAT AAT AAT AAT AAT AAT A
105196 TTTTTGTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 24 0.65
4 11 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:105183 original size:21 final size:20
Alignment explanation
Indices: 105153--105192 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
105143 CCTGGAAAAA
105153 AAATAATAATAATAATAAAT
1 AAATAATAATAATAATAAAT
105173 AAATAAATAATAATAATAAA
1 AAAT-AATAATAATAATAAA
105193 ATATTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAATAATAATAATAAAT
Found at i:106180 original size:20 final size:20
Alignment explanation
Indices: 106133--106170 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
106123 GACACATAAC
106133 TTGAAAATCAATCAACTACA
1 TTGAAAATCAATCAACTACA
106153 TTGAAAATCAATCAACTA
1 TTGAAAATCAATCAACTA
106171 ATTATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.26
Consensus pattern (20 bp):
TTGAAAATCAATCAACTACA
Found at i:108863 original size:24 final size:24
Alignment explanation
Indices: 108835--108904 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
108825 AAGTGAAAAA
*
108835 AACACTTTCTATTAAGCTTGAAAG
1 AACACTTTCTATTGAGCTTGAAAG
* *
108859 AACACTTTCTATCGAGCTTGAGAG
1 AACACTTTCTATTGAGCTTGAAAG
108883 AACACTTTCTATTGAGCTTGAA
1 AACACTTTCTATTGAGCTTGAA
108905 GGACACCTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (24 bp):
AACACTTTCTATTGAGCTTGAAAG
Found at i:109669 original size:24 final size:24
Alignment explanation
Indices: 109642--109695 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
109632 CACTGTTGGT
109642 TGGTTTGATGAATTTATTTTGTTA
1 TGGTTTGATGAATTTATTTTGTTA
109666 TGGTTTGATGAATTTATTTTGTTA
1 TGGTTTGATGAATTTATTTTGTTA
*
109690 TTGTTT
1 TGGTTT
109696 TCCTAGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.20, T:0.61
Consensus pattern (24 bp):
TGGTTTGATGAATTTATTTTGTTA
Found at i:114724 original size:16 final size:16
Alignment explanation
Indices: 114688--114732 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
114678 AGTCATAATT
*
114688 AATTTTTAAAA-TTTA
1 AATTTTTAAAACATTA
114703 ATATTTTTAAAACATTA
1 A-ATTTTTAAAACATTA
*
114720 AATTTTAAAAACA
1 AATTTTTAAAACA
114733 ATTATGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.04
16 21 0.81
17 4 0.15
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTTTAAAACATTA
Found at i:120351 original size:20 final size:20
Alignment explanation
Indices: 120326--120363 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
120316 TTTTCAAAGG
120326 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
120346 CATGCATCGATTCACCAA
1 CATGCACCGATGCACCAA
120364 CGAATAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.37, G:0.13, T:0.18
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:120419 original size:64 final size:64
Alignment explanation
Indices: 120344--120533 Score: 188
Period size: 64 Copynumber: 3.0 Consensus size: 64
120334 GATGCACCAA
*
120344 TCCATGCATCGATTCAC-CAACGAATAAATTG-AACATCGAATGCATTTTATGCATCGATGCATT
1 TCCATGCATCGATGCACTC-ACGAATAAA-TGAAACATCGAATGCATTTTATGCATCGATGCATT
120407 C
64 C
* * ** ***
120408 TCCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAG
1 TCCATGCATCGATGCACTCACGAATAAATG-AAACATCGAATGCATTTTATGCATCGATGCATTC
* ** *** *
120473 ACCATGCATCGATGCACTCA-GGCTTTTTCAAAACATCGAATGCATTTTATGCATCGATGCA
1 TCCATGCATCGATGCACTCACGAATAAAT-GAAACATCGAATGCATTTTATGCATCGATGCA
120534 CACTTGGTGC
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.02
64 57 0.52
65 50 0.46
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (64 bp):
TCCATGCATCGATGCACTCACGAATAAATGAAACATCGAATGCATTTTATGCATCGATGCATTC
Found at i:120554 original size:64 final size:65
Alignment explanation
Indices: 120375--120537 Score: 265
Period size: 65 Copynumber: 2.5 Consensus size: 65
120365 GAATAAATTG
** *
120375 AACATCGAATGCATTTTATGCATCGATGCATTCTCCATGCATCGATGCACTCAGGATTTTATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACTCCATGCATCGATGCACTCAGGATTTTATCAA
** *
120440 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTTT-TCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACTCCATGCATCGATGCACTCAGGATTTTATCAA
120504 AACATCGAATGCATTTTATGCATCGATGCACACT
1 AACATCGAATGCATTTTATGCATCGATGCACACT
120538 TGGTGCACCG
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
64 35 0.39
65 55 0.61
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACACTCCATGCATCGATGCACTCAGGATTTTATCAA
Found at i:126289 original size:23 final size:23
Alignment explanation
Indices: 126218--126300 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
126208 ACACTTAACA
*
126218 GTGCATCCATGCATC-CCTTTGAAT
1 GTGCATCGATGCA-CACC-TTGAAT
* *
126242 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
126263 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
126286 GTGCATCGATGCACA
1 GTGCATCGATGCACA
126301 AGGCCATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
21 14 0.30
22 3 0.06
23 21 0.45
24 9 0.19
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:128953 original size:20 final size:20
Alignment explanation
Indices: 128928--128966 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
128918 TTTTCAAAGG
128928 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
128948 CATGCATCGATGTACCAAT
1 CATGCACCGATGCACCAAT
128967 GAATAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:135996 original size:21 final size:22
Alignment explanation
Indices: 135949--136047 Score: 69
Period size: 23 Copynumber: 4.5 Consensus size: 22
135939 GAAATTTGAA
135949 CCGAAGTG-CCACATAGAATGTC
1 CCGAAG-GACCACATAGAATGTC
*
135971 CCGAAGGACCACATA-TATGTC
1 CCGAAGGACCACATAGAATGTC
* *
135992 TCGAAGGACCGA-GTAGAAATGTC
1 CCGAAGGACC-ACATAG-AATGTC
* ** * *
136015 CCAAAATACCACGTAGAATTATC
1 CCGAAGGACCACATAGAA-TGTC
136038 CCGAAGGACC
1 CCGAAGGACC
136048 GCGTAGAACC
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
21 17 0.29
22 17 0.29
23 25 0.42
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.17
Consensus pattern (22 bp):
CCGAAGGACCACATAGAATGTC
Found at i:136052 original size:23 final size:23
Alignment explanation
Indices: 135993--136055 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
135983 ATATATGTCT
* *
135993 CGAAGGACCGAGTAGAAATGTCC
1 CGAAGGACCGCGTAGAAATATCC
* ** * *
136016 CAAAATACCACGTAGAATTATCC
1 CGAAGGACCGCGTAGAAATATCC
136039 CGAAGGACCGCGTAGAA
1 CGAAGGACCGCGTAGAA
136056 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (23 bp):
CGAAGGACCGCGTAGAAATATCC
Found at i:137606 original size:22 final size:23
Alignment explanation
Indices: 137540--137624 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
137530 AGGGTTTTAC
* *
137540 GCGGTCCTTCGGGACAATTCTAC
1 GCGGTCCTTCGGGACATTTCTAT
* *
137563 GTGGTCATTCGGGACATTTCTAT
1 GCGGTCCTTCGGGACATTTCTAT
137586 GCGGTCCTTCGGGA-ATTTCTAT
1 GCGGTCCTTCGGGACATTTCTAT
* *
137608 GCGTTACTTCGGGACAT
1 GCGGTCCTTCGGGACAT
137625 ATATGTGGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 20 0.38
23 33 0.62
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (23 bp):
GCGGTCCTTCGGGACATTTCTAT
Found at i:137654 original size:22 final size:22
Alignment explanation
Indices: 137542--137654 Score: 106
Period size: 23 Copynumber: 5.1 Consensus size: 22
137532 GGTTTTACGC
*
137542 GGTCCTTCGGGACAATTCTACGT
1 GGTCCTTCGGGAC-ATTCTATGT
* *
137565 GGTCATTCGGGACATTTCTATGC
1 GGTCCTTCGGGACA-TTCTATGT
*
137588 GGTCCTTCGGGA-ATTTCTATGC
1 GGTCCTTCGGGACA-TTCTATGT
* * *
137610 GTTACTTCGGGACA-TATATGT
1 GGTCCTTCGGGACATTCTATGT
137631 GGTCC-TCTGGGACATTCTATGT
1 GGTCCTTC-GGGACATTCTATGT
137653 GG
1 GG
137655 CACATCAGTG
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.03
21 14 0.19
22 29 0.39
23 30 0.40
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTATGT
Found at i:146680 original size:60 final size:60
Alignment explanation
Indices: 146557--146669 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
146547 CACCTATGTT
* * * * * * *
146557 CTATAGGGAGTTTCTTTGTTGAGTCCCTCGACTATTAAAAGTCATAAAATGGTAGCCCGA
1 CTATAGGGAGTTGCTTTGTTAAGTCCCTCAAATATTAAAAGTCACAAAATGATAGCCCAA
*
146617 CTATAGGGAGTTGCTTTGTTAAGTCCCTCAAATATTAAAAGTTACAAAATGAT
1 CTATAGGGAGTTGCTTTGTTAAGTCCCTCAAATATTAAAAGTCACAAAATGAT
146670 CACTCAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (60 bp):
CTATAGGGAGTTGCTTTGTTAAGTCCCTCAAATATTAAAAGTCACAAAATGATAGCCCAA
Found at i:150466 original size:32 final size:32
Alignment explanation
Indices: 150420--150487 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
150410 TATGTGAGTG
150420 AAGACTCTGCTTAACCTATGAACAAAAATTTA
1 AAGACTCTGCTTAACCTATGAACAAAAATTTA
* *
150452 AAGACTCTGGTTAACCTATGAACAACAATTTA
1 AAGACTCTGCTTAACCTATGAACAAAAATTTA
150484 AAGA
1 AAGA
150488 GACAATTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (32 bp):
AAGACTCTGCTTAACCTATGAACAAAAATTTA
Found at i:152199 original size:37 final size:37
Alignment explanation
Indices: 152146--152219 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
152136 ATTCCCACCA
*
152146 TGGGAAAGCATGGTGCTGAATATTATGCATTATCCAT
1 TGGGAAAGCATAGTGCTGAATATTATGCATTATCCAT
152183 TGGGAAAGCATAGTGCTGAATATTATGCATTATCCAT
1 TGGGAAAGCATAGTGCTGAATATTATGCATTATCCAT
152220 GGTGGTGGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (37 bp):
TGGGAAAGCATAGTGCTGAATATTATGCATTATCCAT
Found at i:165834 original size:18 final size:18
Alignment explanation
Indices: 165813--165855 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
165803 GTTATTTTTA
*
165813 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
165831 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
165849 AAATAAA
1 AAATAAA
165856 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:166961 original size:12 final size:12
Alignment explanation
Indices: 166944--166979 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
166934 CAAGCCATAC
166944 CATATTTTTAGT
1 CATATTTTTAGT
166956 CATATTTATTTAGT
1 CATA-TT-TTTAGT
166970 CATATTTTTA
1 CATATTTTTA
166980 ATTTAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 4 0.18
14 10 0.45
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (12 bp):
CATATTTTTAGT
Found at i:167348 original size:2 final size:2
Alignment explanation
Indices: 167341--167378 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
167331 AATTAATTTC
167341 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
167379 TAAATTTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:168935 original size:25 final size:24
Alignment explanation
Indices: 168902--168962 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
168892 AAAAAGTTGC
*
168902 AAATGTTAAATAAGA-AATAATAAAT
1 AAATATTAAATAA-ATAAT-ATAAAT
*
168927 AAATATTAAATAAATAATATATAT
1 AAATATTAAATAAATAATATAAAT
168951 ATAATATTAAAT
1 A-AATATTAAAT
168963 GAATCAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (24 bp):
AAATATTAAATAAATAATATAAAT
Found at i:168956 original size:18 final size:16
Alignment explanation
Indices: 168918--168956 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
168908 TAAATAAGAA
168918 ATAATAAATAAATATT
1 ATAATAAATAAATATT
168934 A-AATAAATAATATATAT
1 ATAATAAATAA-ATAT-T
168951 ATAATA
1 ATAATA
168957 TTAAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.45
16 5 0.25
17 2 0.10
18 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAAATAAATATT
Found at i:169037 original size:35 final size:35
Alignment explanation
Indices: 168993--169091 Score: 91
Period size: 35 Copynumber: 2.8 Consensus size: 35
168983 AAAAAATGTT
168993 AAAT-CTAAAAGTAATAAAATAAAATAAAAATAATAA
1 AAATGCTAAAA-TAATAAAATAAAATAAAAATAA-AA
* * *
169029 GAA-G-TAAAAAACATAAAAT-AAATAATAATAAAA
1 AAATGCTAAAATA-ATAAAATAAAATAAAAATAAAA
169062 AAATGCTAAAATTAA-ATAAATAAAATAAAA
1 AAATGCTAAAA-TAATA-AAATAAAATAAAA
169092 CCAACTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
33 4 0.08
34 14 0.28
35 22 0.44
36 10 0.20
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (35 bp):
AAATGCTAAAATAATAAAATAAAATAAAAATAAAA
Found at i:169044 original size:25 final size:24
Alignment explanation
Indices: 169005--169064 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
168995 ATCTAAAAGT
169005 AATAAAATAAAATAAAA-ATAATAAG
1 AATAAAA-AAAATAAAATA-AATAAG
* *
169030 AAGTAAAAAACATAAAATAAATAAT
1 AA-TAAAAAAAATAAAATAAATAAG
169055 AATAAAAAAA
1 AATAAAAAAA
169065 TGCTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 7 0.23
25 17 0.57
26 6 0.20
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (24 bp):
AATAAAAAAAATAAAATAAATAAG
Found at i:169650 original size:22 final size:22
Alignment explanation
Indices: 169622--169666 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
169612 ATCCCACTTG
169622 GACTCAAATGCCTTAGTTTTTA
1 GACTCAAATGCCTTAGTTTTTA
169644 GACTCAAATGCCTTAGTTTTTA
1 GACTCAAATGCCTTAGTTTTTA
169666 G
1 G
169667 TGTTTCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (22 bp):
GACTCAAATGCCTTAGTTTTTA
Found at i:169778 original size:3 final size:3
Alignment explanation
Indices: 169760--169798 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
169750 GGCTTACAAA
169760 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A
169799 GTTTTGTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:170958 original size:124 final size:124
Alignment explanation
Indices: 170725--171277 Score: 779
Period size: 124 Copynumber: 4.5 Consensus size: 124
170715 TTTGTAAAAA
* * * * *
170725 GATG-CCCCTTCGCTGTGAAGTTGATCTTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCA
1 GATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCA
* * * * *
170789 ATTTAAAGATGGATGTTGCTGGTGGGCACGATGTCATTCGTCGTGAAGTTGAAATCGTG
66 ATCTAAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTAAAATCGTG
* *
170848 GATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCA
1 GATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCA
* * * * *
170913 ATCTAAAGATGAATGTTGTTGGTGGGCATGATATTCTTCATCGTGAAGTTAAAATCATG
66 ATCTAAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTAAAATCGTG
* * * *
170972 GATGACCTC-TTCGTTGTGAAGTTGAACCTTAAATTGGATAACCTTCGTCGTGAAGTTGAAATCC
1 GATGACC-CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCC
* * * *
171036 AATCTAAAGATGAATGTTGCTGGTGGACACGATATCCGTCGTCATGAAGTTGAAATCGTG
65 AATCTAAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTAAAATCGTG
171096 GATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCA
1 GATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCA
* * * *
171161 ATCTAAAGATAAATGTTGTTGGT-GGTACGATATCCTTTGTCGTGAAGTTAAAATCGTG
66 ATCTAAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTAAAATCGTG
* * * *
171219 GATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCTTTCATCGTGAAGTTGA
1 GATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGA
171278 GCCTTGAATT
Statistics
Matches: 381, Mismatches: 46, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
123 89 0.23
124 291 0.76
125 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (124 bp):
GATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCA
ATCTAAAGATGAATGTTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTAAAATCGTG
Found at i:171273 original size:34 final size:34
Alignment explanation
Indices: 171234--171311 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
171224 CCCCTTCGTT
171234 GTGAAGTTGAGCCTTGAATTGGATAT-CTTTCATC
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTT-ATC
*
171268 GTGAAGTTGAGCCTTGAATTGGATATCCTTTGTC
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTTATC
171302 GTGAAGTTGA
1 GTGAAGTTGA
171312 AATCCAATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 38 0.90
35 4 0.10
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (34 bp):
GTGAAGTTGAGCCTTGAATTGGATATCCTTTATC
Found at i:171326 original size:281 final size:282
Alignment explanation
Indices: 170987--171560 Score: 970
Period size: 281 Copynumber: 2.0 Consensus size: 282
170977 CCTCTTCGTT
170987 GTGAAGTTGAACCTTAAATTGGATAACCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
1 GTGAAGTTGAACCTTAAATTGGATAACCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
171052 TTGCTGGTGGACACGATATCCGTCGTCATGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAG
66 TTGCTGGTGGACACGATATCCGTCGTCATGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAG
*
171117 TTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAAGATAAATGTTGTTG
131 TTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAAACTAAAGATAAATGTTGTTG
* ** *
171182 GT-GGTACGATATCCTTTGTCGTGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGC
196 GTGGGCACGATATCCTTCATCATGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGC
*
171246 CTTGAATTGGATATCTTTCATC
261 CTTGAATTGGATATCCTTCATC
* * * *
171268 GTGAAGTTGAGCCTTGAATTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
1 GTGAAGTTGAACCTTAAATTGGATAACCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
* * ****
171333 TTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGTGTATTCGTTGTGAAG
66 TTGCTGGTGGACACGATATCCGTCGTCATGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAG
* *
171398 TTGAGCCTTGAATTGTATATCATTCGTCGTGAAGTTGAAATCCAAACTAAAGATGAATGTTGTTG
131 TTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAAACTAAAGATAAATGTTGTTG
*
171463 GTGGGCACGATATCCTTCATCATGAAGTTAAAATCGTTGATGGCCCCTTCGTTGTGAAGTTGAGC
196 GTGGGCACGATATCCTTCATCATGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGC
171528 CTTGAATTGGATATCCTTCATC
261 CTTGAATTGGATATCCTTCATC
171550 GTGAAGTTGAA
1 GTGAAGTTGAA
171561 ATCCAATCTA
Statistics
Matches: 272, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
281 184 0.68
282 88 0.32
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (282 bp):
GTGAAGTTGAACCTTAAATTGGATAACCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
TTGCTGGTGGACACGATATCCGTCGTCATGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAG
TTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAAACTAAAGATAAATGTTGTTG
GTGGGCACGATATCCTTCATCATGAAGTTAAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGC
CTTGAATTGGATATCCTTCATC
Found at i:171429 original size:158 final size:157
Alignment explanation
Indices: 171103--171435 Score: 513
Period size: 158 Copynumber: 2.1 Consensus size: 157
171093 GTGGATGACC
*
171103 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAA
1 CATTCGTCGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAA
* * * * *
171168 GATAAATGTTGTTGGTGGTACGATATCCTTTGTCGTGAAGTTAAAATCGTGGATGGCCCCTTCGT
66 GATAAATGTTGCTGGTGGCACGATATCCTTCGTCATGAAGTTAAAATCGTGGATGGCCCATTCGT
171233 TGTGAAGTTGAGCCTTGAATTGGATAT
131 TGTGAAGTTGAGCCTTGAATTGGATAT
* * * *
171260 CTTTCATCGTGAAGTTGAGCCTTGAATTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTAAA
1 CATTCGTCGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAA
* * ***
171325 GATGAATGTTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGTGTATTCG
66 GATAAATGTTGCTGGT-GGCACGATATCCTTCGTCATGAAGTTAAAATCGTGGATGGCCCATTCG
*
171390 TTGTGAAGTTGAGCCTTGAATTGTATAT
130 TTGTGAAGTTGAGCCTTGAATTGGATAT
171418 CATTCGTCGTGAAGTTGA
1 CATTCGTCGTGAAGTTGA
171436 AATCCAAACT
Statistics
Matches: 157, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
157 74 0.47
158 83 0.53
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (157 bp):
CATTCGTCGTGAAGTTGAGCCTTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAA
GATAAATGTTGCTGGTGGCACGATATCCTTCGTCATGAAGTTAAAATCGTGGATGGCCCATTCGT
TGTGAAGTTGAGCCTTGAATTGGATAT
Found at i:171488 original size:124 final size:124
Alignment explanation
Indices: 171268--171832 Score: 853
Period size: 124 Copynumber: 4.6 Consensus size: 124
171258 ATCTTTCATC
*
171268 GTGAAGTTGAGCCTTGAATTGGATATCCTTTGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
* ****
171333 TTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGTGTATTCGTT
66 TTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTAAAATCGTGGATGACCCATTCGTT
* * *
171392 GTGAAGTTGAGCCTTGAATTGTATATCATTCGTCGTGAAGTTGAAATCCAAACTAAAGATGAATG
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
* * * * *
171457 TTGTTGGTGGGCACGATATCCTTCATCATGAAGTTAAAATCGTTGATGGCCCCTTCGTT
66 TTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTAAAATCGTGGATGACCCATTCGTT
* *
171516 GTGAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATA
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
* * * *
171581 TTGCTGGTGGGCACGATATCCTTCGTCGTGAAGTTAAAATCGTCGATGACCCCTTCATT
66 TTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTAAAATCGTGGATGACCCATTCGTT
* *
171640 GTGAAGTTGAGCCTTGAATTGAATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAATATGAATG
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
* * * * * *
171705 TTGTTGGTGGGCACGATATCCTTCGCCGTGAATTTGAAATCATGGATGACCCATTCGTT
66 TTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTAAAATCGTGGATGACCCATTCGTT
* *
171764 GTAAAGTTGAGCCTAGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT-AAGATGAATG
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
171828 TTGCT
66 TTGCT
171833 TCAAGTTCAA
Statistics
Matches: 401, Mismatches: 40, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
123 13 0.03
124 388 0.97
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (124 bp):
GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATG
TTGCTGGTGGGCACGATATCCTTCGTCATGAAGTTAAAATCGTGGATGACCCATTCGTT
Found at i:173213 original size:95 final size:95
Alignment explanation
Indices: 173045--173243 Score: 346
Period size: 95 Copynumber: 2.1 Consensus size: 95
173035 GGACAACTTA
* *
173045 ATATTATAATCACCTTTATCAGGCTAGCTAAATATTATCCATAAAGTCGGGGCGTTTAACCAATT
1 ATATTATAATCACATTTATCAGGCTAGCTAAATATTATCCATAAAGTCAGGGCGTTTAACCAATT
173110 GCTCTAGAGGGACAACTCAAGCTTTATTGT
66 GCTCTAGAGGGACAACTCAAGCTTTATTGT
* *
173140 ATATTATAATCACATTTATCAGGCTAGCTGAATCTTATCCATAAAGTCAGGGCGTTTAACCAATT
1 ATATTATAATCACATTTATCAGGCTAGCTAAATATTATCCATAAAGTCAGGGCGTTTAACCAATT
*
173205 GCTTTAGAGGGACAACTCAAGCTTTATTGT
66 GCTCTAGAGGGACAACTCAAGCTTTATTGT
173235 ATA-TATAAT
1 ATATTATAAT
173244 ATTATAATAA
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 6 0.06
95 93 0.94
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (95 bp):
ATATTATAATCACATTTATCAGGCTAGCTAAATATTATCCATAAAGTCAGGGCGTTTAACCAATT
GCTCTAGAGGGACAACTCAAGCTTTATTGT
Found at i:175916 original size:14 final size:15
Alignment explanation
Indices: 175899--175944 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
175889 GATAAGAAAT
175899 AATAATA-AATATTA
1 AATAATATAATATTA
*
175913 AATAATATAATAATA
1 AATAATATAATATTA
*
175928 TAT-ATATAATATTA
1 AATAATATAATATTA
175942 AAT
1 AAT
175945 GAATCAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAATATAATATTA
Found at i:175924 original size:19 final size:19
Alignment explanation
Indices: 175900--175939 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
175890 ATAAGAAATA
175900 ATAATAA-ATATTAAATAAT
1 ATAATAATATA-TAAATAAT
*
175919 ATAATAATATATATATAAT
1 ATAATAATATATAAATAAT
175938 AT
1 AT
175940 TAAATGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATAATATATAAATAAT
Found at i:176029 original size:25 final size:24
Alignment explanation
Indices: 175982--176038 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
175972 TAAATTCTAA
* * *
175982 AAGTAATAAAATTAAATTAATAAG
1 AAGTAAAAAAATAAAATAAATAAG
*
176006 AAGTAAAAAACATAAAATAAATAAT
1 AAGTAAAAAA-ATAAAATAAATAAG
176031 AA-TAAAAA
1 AAGTAAAAA
176039 TGCTAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (24 bp):
AAGTAAAAAAATAAAATAAATAAG
Found at i:177033 original size:11 final size:11
Alignment explanation
Indices: 177017--177044 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
177007 GGGGCCTACA
177017 AAAATAATAAT
1 AAAATAATAAT
177028 AAAATAATAAT
1 AAAATAATAAT
177039 AAAATA
1 AAAATA
177045 TTTTTGTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:181691 original size:24 final size:24
Alignment explanation
Indices: 181663--181732 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
181653 AAGTGAAAAA
* *
181663 AACACTTTCTATTAATCTTGAAAG
1 AACACTTTCTATTGAGCTTGAAAG
* *
181687 AACACTTTCTATCGAGCTTGAGAG
1 AACACTTTCTATTGAGCTTGAAAG
181711 AACACTTTCTATTGAGCTTGAA
1 AACACTTTCTATTGAGCTTGAA
181733 GGACACCTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (24 bp):
AACACTTTCTATTGAGCTTGAAAG
Found at i:186740 original size:38 final size:38
Alignment explanation
Indices: 186698--186774 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
186688 TATTAAATAT
*
186698 AGATGTATAGAAAATATAATGATTCAATTTATATTTAA
1 AGATGTATAGAAAATAAAATGATTCAATTTATATTTAA
186736 AGATGTATAGAAAATAAAATGATTCAATTTATATTTAA
1 AGATGTATAGAAAATAAAATGATTCAATTTATATTTAA
186774 A
1 A
186775 TGTATGAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (38 bp):
AGATGTATAGAAAATAAAATGATTCAATTTATATTTAA
Found at i:187495 original size:21 final size:22
Alignment explanation
Indices: 187450--187495 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
187440 GTGTCACCAA
*
187450 TAACACATATCATGATCATGTT
1 TAACACATATCATGATCATGAT
* *
187472 TAACACATGTCA-GATCCTGAT
1 TAACACATATCATGATCATGAT
187493 TAA
1 TAA
187496 ATGATTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (22 bp):
TAACACATATCATGATCATGAT
Found at i:187669 original size:125 final size:122
Alignment explanation
Indices: 187423--187676 Score: 375
Period size: 125 Copynumber: 2.0 Consensus size: 122
187413 ATTTTTCTTC
* *
187423 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTTTAACACATGTCAGATC
1 TAATTAGGTGGTGACATGTGTAACCAATAACACATATCATGATCATGTCTAACACATGTCAGATC
* *
187488 CTGATTAAATGATTAATTATTAAATTTTTTTTTTAGGACCAAATTGATAGCATATATAAA
66 CTAATTAAATGATTAATTATTAAATTTTTTATTTAGGACCAAATTGAT---ATATATAAA
* * *
187548 TAATTAGGTGGTGACATGTGTAACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTAACCAATAACACATATCATGATCATGT-CTAACACATGTCAGAT
187613 CCTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGAT-TATATAAA
65 CCTAATTAAATGATTAA-TTATTAAATTT-TTT-ATTTAGGACCAAATTGATATATATAAA
187673 TAAT
1 TAAT
187677 AAAGACAGAA
Statistics
Matches: 118, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
125 56 0.47
126 31 0.26
127 11 0.09
128 3 0.03
129 17 0.14
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (122 bp):
TAATTAGGTGGTGACATGTGTAACCAATAACACATATCATGATCATGTCTAACACATGTCAGATC
CTAATTAAATGATTAATTATTAAATTTTTTATTTAGGACCAAATTGATATATATAAA
Found at i:188099 original size:32 final size:35
Alignment explanation
Indices: 188058--188130 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
188048 TAATTGAATT
188058 AATTGAATTA-TTTGG-AATTAGGG-TTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
188090 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
188125 AATTGA
1 AATTGA
188131 GGATTGTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
32 10 0.27
33 5 0.14
34 7 0.19
35 15 0.41
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:196796 original size:2 final size:2
Alignment explanation
Indices: 196789--196858 Score: 112
Period size: 2 Copynumber: 37.0 Consensus size: 2
196779 TAAAGAAATC
196789 TA TA TA TA -A TA TA TA TA TA TA TA -A TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
196828 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
196859 AGTATGTCAT
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
1 4 0.06
2 60 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:196809 original size:15 final size:15
Alignment explanation
Indices: 196789--196859 Score: 115
Period size: 15 Copynumber: 4.6 Consensus size: 15
196779 TAAAGAAATC
196789 TATATATAATATATA
1 TATATATAATATATA
196804 TATATATAATATATA
1 TATATATAATATATA
196819 TATATTATATATATATA
1 TATA-TATA-ATATATA
*
196836 TATATATATTATATA
1 TATATATAATATATA
196851 TATATATAA
1 TATATATAA
196860 GTATGTCATA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
15 33 0.63
16 8 0.15
17 11 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATATATAATATATA
Found at i:196870 original size:21 final size:19
Alignment explanation
Indices: 196789--196858 Score: 105
Period size: 17 Copynumber: 3.9 Consensus size: 19
196779 TAAAGAAATC
196789 TATATATA-ATATATATA-
1 TATATATATATATATATAT
196806 TATATA-ATATATATATAT
1 TATATATATATATATATAT
196824 TATATATATATATATATA-
1 TATATATATATATATATAT
196842 TAT-TATATATATATATA
1 TATATATATATATATATA
196859 AGTATGTCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.02
17 29 0.58
18 9 0.18
19 11 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATATATATATATAT
Found at i:197155 original size:45 final size:45
Alignment explanation
Indices: 197063--197464 Score: 522
Period size: 45 Copynumber: 8.9 Consensus size: 45
197053 CATACTTATT
* ** *
197063 ATGCA-CCATTATGCATTTTCATTTATGGCATTATTTCATGCCAATA
1 ATGCACCCA-TATGCA-TTTCAATTATGGCATCCTTTCATGCCGATA
* * *
197109 ATGCACCCATATGCATTTCAATCATGGAATCCTTTCATTCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
** * *
197154 ATGCACCCATATGCATTTCAATTATTACATCATTTCATGCTGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* *
197199 ATGTACCCATATGCATTTCAATTATGACATCAC-TTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATC-CTTTCATGCCGATA
* * *
197244 ATGCACCCATATGGATTTCAATTATGGCATCATTTCATGCTGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
*
197289 ATGCACCCATATGCATTTCAATTATGGCATCATTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* * *
197334 ATGTACCCATATGCATTTCAATTATGGCATTCTTTTATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
*
197379 ATACACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
1 ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
* * * *
197424 ATACA-CTATTATACATTTCATTTATGGCATCCTTTCATGCC
1 ATGCACCCA-TATGCATTTCAATTATGGCATCCTTTCATGCC
197465 TTTTATACAA
Statistics
Matches: 316, Mismatches: 36, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
44 2 0.01
45 300 0.95
46 11 0.03
47 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (45 bp):
ATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCGATA
Found at i:197748 original size:67 final size:67
Alignment explanation
Indices: 197587--197988 Score: 552
Period size: 67 Copynumber: 6.0 Consensus size: 67
197577 TAATCTTTTA
* * * * * *
197587 CTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCAGAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AATGCACAGTTA
*
197652 GGT
65 GGC
* * **
197655 CTCAAAGGCAGTTATCCTTTCATCTAACTGGCATAATTGACATATTTCTGTCAATGCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
197720 GC
66 GC
* * *
197722 CTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTATGTCAATTCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
197787 GC
66 GC
* ** *
197789 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGATATTTTTCTGTCAATGCATAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
197854 GC
66 GC
* * * * *
197856 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAGTTGATACCTTTCTGACAATGCACGGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
197921 GC
66 GC
* * * *
197923 ATCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAATACATAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
197988 G
66 G
197989 ACTTAAATAT
Statistics
Matches: 295, Mismatches: 39, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
67 249 0.84
68 46 0.16
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (67 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
GC
Done.