Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 67 of 211
Found at i:20537086 original size:36 final size:36
Alignment explanation
Indices: 20537046--20537116 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
20537036 AGAGTTGCTA
*
20537046 CGAGGGTGCCGCTTGGGCAGGAGGAAACAACAACCT
1 CGAGGGTGCCGCTTAGGCAGGAGGAAACAACAACCT
*
20537082 CGAGGGTGCCGCTTAGGTAGGAGGAAACAACAACC
1 CGAGGGTGCCGCTTAGGCAGGAGGAAACAACAACC
20537117 CCTGGCCGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.35, T:0.11
Consensus pattern (36 bp):
CGAGGGTGCCGCTTAGGCAGGAGGAAACAACAACCT
Found at i:20547699 original size:40 final size:41
Alignment explanation
Indices: 20547642--20547771 Score: 192
Period size: 41 Copynumber: 3.2 Consensus size: 41
20547632 CATGAGTGCT
* *
20547642 ATTCAGGGGTACTGAAGTACAAA-TAGGGGACGTATGTGTA
1 ATTCAGGGGTACTGAAGTACAAACAAGGGCACGTATGTGTA
20547682 ATTCAGGGGTA-TCGAAGTACAAACAAGGGCACGTATGTGTA
1 ATTCAGGGGTACT-GAAGTACAAACAAGGGCACGTATGTGTA
* **
20547723 ATTTAAAGGTACTGAAGTACAAACAAGGGCACGTATGTGTA
1 ATTCAGGGGTACTGAAGTACAAACAAGGGCACGTATGTGTA
20547764 ATTCAGGG
1 ATTCAGGG
20547772 AATAATTAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 21 0.27
41 56 0.71
42 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (41 bp):
ATTCAGGGGTACTGAAGTACAAACAAGGGCACGTATGTGTA
Found at i:20551313 original size:17 final size:17
Alignment explanation
Indices: 20551291--20551323 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20551281 ATCAACCATT
20551291 TGTTCT-TTATATTTTAG
1 TGTTCTCTT-TATTTTAG
20551308 TGTTCTCTTTATTTTA
1 TGTTCTCTTTATTTTA
20551324 TTATCCTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (17 bp):
TGTTCTCTTTATTTTAG
Found at i:20552389 original size:94 final size:93
Alignment explanation
Indices: 20552196--20552384 Score: 297
Period size: 94 Copynumber: 2.0 Consensus size: 93
20552186 TTGATTGGTT
*
20552196 TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATATGAGTAAAAATACTTGTCATGAAC
1 TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATACGAGTAAAAATACTTGTCATGAAC
*
20552261 TTTCAGATATTCACCTTGTCTTGATTGTT
66 TTTCAGATATTCACCTTGTCTTGA-TGTA
20552290 TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATACGAGTAAAAATACTTACTTGTCAT
1 TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATACGAGT-AAAA-A--TACTTGTCAT
*
20552355 GAACTTTGAGATATTCACCTTGTCTGTGAT
62 GAACTTTCAGATATTCACCTTGTCT-TGAT
20552385 AATTTCATAT
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
94 45 0.51
95 4 0.05
96 1 0.01
98 35 0.40
99 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (93 bp):
TAATTTTGATTTTGATTAAGATATATGATTATTACAAAATACGAGTAAAAATACTTGTCATGAAC
TTTCAGATATTCACCTTGTCTTGATGTA
Found at i:20558694 original size:3 final size:3
Alignment explanation
Indices: 20558688--20558760 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
20558678 TTAATAATAA
* * *
20558688 TAT TAT TAT TAC TAT TAT TAT CGTAT TAT TAT TAG TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
20558735 TAT TAA TAT TAC TGT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
20558761 CATTTCCATT
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
3 51 0.94
5 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:20562371 original size:12 final size:12
Alignment explanation
Indices: 20562345--20562387 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
20562335 GAGTAGCAAG
*
20562345 TTTTCTTTTTCTT
1 TTTTGTTTTT-TT
*
20562358 TTGTTTTTTTTTT
1 TT-TTGTTTTTTT
20562371 TTTTGTTTTTTT
1 TTTTGTTTTTTT
20562383 TTTTG
1 TTTTG
20562388 GGGGGGGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 14 0.52
13 6 0.22
14 7 0.26
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:20562374 original size:15 final size:15
Alignment explanation
Indices: 20562344--20562386 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
20562334 AGAGTAGCAA
*
20562344 GTTTTCTTTTTCTTTT
1 GTTTT-TTTTTTTTTT
20562360 GTTTTTTTTTTTTTT
1 GTTTTTTTTTTTTTT
20562375 GTTTTTTTTTTT
1 GTTTTTTTTTTT
20562387 GGGGGGGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (15 bp):
GTTTTTTTTTTTTTT
Found at i:20562782 original size:25 final size:26
Alignment explanation
Indices: 20562748--20562797 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
20562738 AAGAGGGGCA
20562748 ATAGTTGGGTGACCAAAAA-AAAATG
1 ATAGTTGGGTGACCAAAAACAAAATG
20562773 ATAGTTGGGTGACCAAAAACAAAAT
1 ATAGTTGGGTGACCAAAAACAAAAT
20562798 ATGATAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.20
Consensus pattern (26 bp):
ATAGTTGGGTGACCAAAAACAAAATG
Found at i:20566678 original size:8 final size:8
Alignment explanation
Indices: 20566665--20566689 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20566655 TGCTATCAGG
20566665 AGTACCAA
1 AGTACCAA
20566673 AGTACCAA
1 AGTACCAA
20566681 AGTACCAA
1 AGTACCAA
20566689 A
1 A
20566690 ACTTAGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (8 bp):
AGTACCAA
Found at i:20578041 original size:30 final size:30
Alignment explanation
Indices: 20578005--20578106 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
20577995 CGAGAATAAA
* * *
20578005 TTGCTCACACAAGCTGAAAGTATATCAGGG
1 TTGCTCACACAAGCTGACATTATAACAGGG
*
20578035 TTGCTCACACAAGCTGACATTATAACAGTG
1 TTGCTCACACAAGCTGACATTATAACAGGG
* *
20578065 TTGCTCACACAAGCT-ACATTATAGCAAGG
1 TTGCTCACACAAGCTGACATTATAACAGGG
20578094 TTGCTCACACAAG
1 TTGCTCACACAAG
20578107 TTGAGATCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
29 24 0.37
30 41 0.63
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (30 bp):
TTGCTCACACAAGCTGACATTATAACAGGG
Found at i:20599574 original size:58 final size:59
Alignment explanation
Indices: 20599494--20599621 Score: 188
Period size: 58 Copynumber: 2.2 Consensus size: 59
20599484 TTCAAAAATA
* * * *
20599494 ATTATTTTAAT-ATATTTAATATTAAATTTAATTTAATACTTATCTTAATAA-TATTTT
1 ATTAATTTAATAAGATTTAATATTAAATTTAATATAATACTTATCTTAATAAGTATTAT
* *
20599551 ATTAATTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGATAAGTATTAT
1 ATTAATTTAATAAGATTTAATATTAAATTTAATATAATACTTATCTTAATAAGTATTAT
20599610 ATTAATTTAATA
1 ATTAATTTAATA
20599622 TTAAAGTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 10 0.16
58 36 0.57
59 17 0.27
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (59 bp):
ATTAATTTAATAAGATTTAATATTAAATTTAATATAATACTTATCTTAATAAGTATTAT
Found at i:20599592 original size:24 final size:20
Alignment explanation
Indices: 20599538--20599621 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 20
20599528 AATACTTATC
20599538 TTAATAATATTT-TATTAAT
1 TTAATAATATTTATATTAAT
*
20599557 TTAATAAGATTTAATATTAAAT
1 TTAATAATATTT-ATATT-AAT
*
20599579 TTAAT-ATA---ATATTTAT
1 TTAATAATATTTATATTAAT
*
20599595 CTTGATAAGTA-TTATATTAAT
1 -TTAATAA-TATTTATATTAAT
20599616 TTAATA
1 TTAATA
20599622 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 1 0.02
19 13 0.25
20 5 0.10
21 13 0.25
22 8 0.16
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (20 bp):
TTAATAATATTTATATTAAT
Found at i:20599645 original size:58 final size:57
Alignment explanation
Indices: 20599494--20599646 Score: 152
Period size: 58 Copynumber: 2.6 Consensus size: 57
20599484 TTCAAAAATA
* * * *
20599494 ATTATTTTAATATATTTAATATTAAATTTAATT-TAATACTTATCTTAATAATATTTT
1 ATTAATTTAATA-ATTAAATATTAAAGTTAATTATAATACTTATCTTAATAATATTAT
* * * *
20599551 ATTAATTTAATAAGATTTAATATTAAATTTAA-TATAATATTTATCTTGATAAGTATTAT
1 ATTAATTTAAT-A-ATTAAATATTAAAGTTAATTATAATACTTATCTTAATAA-TATTAT
20599610 ATTAATTTAAT-ATTAAAGTGATT-AAGTTAATTATAAT
1 ATTAATTTAATAATTAAA-T-ATTAAAGTTAATTATAAT
20599647 TGAACTCCCT
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.06
57 18 0.22
58 44 0.53
59 16 0.19
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (57 bp):
ATTAATTTAATAATTAAATATTAAAGTTAATTATAATACTTATCTTAATAATATTAT
Found at i:20600182 original size:23 final size:22
Alignment explanation
Indices: 20600120--20600190 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
20600110 GTATTCTAGT
* *
20600120 ACTTCGATGCAATTCATTTTTGC
1 ACTTCGGTGCAATTCA-TTCTGC
** * *
20600143 ACTTTAGTGTAACTCATTCTGAC
1 ACTTCGGTGCAATTCATTCTG-C
20600166 ACTTCGGTGCAATTCATTCTAGC
1 ACTTCGGTGCAATTCATTCT-GC
20600189 AC
1 AC
20600191 CCTATTTCAC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
22 4 0.11
23 31 0.86
24 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (22 bp):
ACTTCGGTGCAATTCATTCTGC
Found at i:20600290 original size:9 final size:9
Alignment explanation
Indices: 20600264--20600305 Score: 66
Period size: 9 Copynumber: 4.4 Consensus size: 9
20600254 TTAATATATT
20600264 TAATTTTTA
1 TAATTTTTA
20600273 TAAAATTTTTA
1 T--AATTTTTA
20600284 TAATTTTTA
1 TAATTTTTA
20600293 TAATTTTTA
1 TAATTTTTA
20600302 TAAT
1 TAAT
20600306 ATTATAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 22 0.71
11 9 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TAATTTTTA
Found at i:20600310 original size:17 final size:18
Alignment explanation
Indices: 20600276--20600316 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20600266 ATTTTTATAA
*
20600276 AATTTTTATAATTTTTAT
1 AATTTTTATAATTATTAT
20600294 AATTTTTATAA-TATTAT
1 AATTTTTATAATTATTAT
*
20600311 AGTTTT
1 AATTTT
20600317 GTACTCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
AATTTTTATAATTATTAT
Found at i:20600433 original size:22 final size:22
Alignment explanation
Indices: 20600403--20600444 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20600393 TTCTAGATGT
20600403 ATATATATTTATTATTTTTTAA
1 ATATATATTTATTATTTTTTAA
* *
20600425 ATATTTATTTTTTATTTTTT
1 ATATATATTTATTATTTTTT
20600445 GTTGATGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
ATATATATTTATTATTTTTTAA
Found at i:20605999 original size:15 final size:15
Alignment explanation
Indices: 20605979--20606030 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
20605969 ACTACAAAAC
20605979 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
20605994 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
20606013 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
20606028 ATT
1 ATT
20606031 AATATTGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:20606336 original size:21 final size:21
Alignment explanation
Indices: 20606283--20606336 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
20606273 AAATGAGCTC
20606283 TTTTTCGAAAA-GTGACTTACG
1 TTTTTC-AAAAGGTGACTTACG
20606304 TTTTTCAAAAGGTGACTTACG
1 TTTTTCAAAAGGTGACTTACG
20606325 TTTTTCAAAAGG
1 TTTTTCAAAAGG
20606337 ATAAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (21 bp):
TTTTTCAAAAGGTGACTTACG
Found at i:20606644 original size:6 final size:6
Alignment explanation
Indices: 20606633--20606665 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
20606623 AATTCTTTTC
20606633 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
20606666 AAAAGCACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:20606883 original size:26 final size:26
Alignment explanation
Indices: 20606847--20606899 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
20606837 TGGCATTTAA
20606847 GAGGTTCATGTGAAGGACATGGTTTC
1 GAGGTTCATGTGAAGGACATGGTTTC
20606873 GAGGTTCATGTGAAGGACATGGTTTC
1 GAGGTTCATGTGAAGGACATGGTTTC
20606899 G
1 G
20606900 CACAGATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.36, T:0.30
Consensus pattern (26 bp):
GAGGTTCATGTGAAGGACATGGTTTC
Found at i:20611764 original size:17 final size:17
Alignment explanation
Indices: 20611731--20611764 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20611721 TTTAAAGAGC
* *
20611731 TTTTATTTTTCATAATT
1 TTTTATTTTTAAAAATT
20611748 TTTTATTTTTAAAAATT
1 TTTTATTTTTAAAAATT
20611765 ATAATTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTTTTAAAAATT
Found at i:20616176 original size:46 final size:46
Alignment explanation
Indices: 20616109--20616294 Score: 309
Period size: 46 Copynumber: 4.0 Consensus size: 46
20616099 ACAATGCTAT
* *
20616109 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
20616155 AACTCAGTATGGTTTTCTTCACTAAAACACCATACCTACTTTTAAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
20616201 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
20616247 AACTCAATATGGCTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
20616293 AA
1 AA
20616295 TTTTCCATGG
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:20618835 original size:31 final size:31
Alignment explanation
Indices: 20618800--20618864 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
20618790 AACCATAAGA
*
20618800 TAAGTAGATTGCCATGTATAAACACATAATT
1 TAAGTAGATTGCCATGTAAAAACACATAATT
* * *
20618831 TAAGTAGATTTCTATGTAAAAACACATCATT
1 TAAGTAGATTGCCATGTAAAAACACATAATT
20618862 TAA
1 TAA
20618865 CTCATCAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (31 bp):
TAAGTAGATTGCCATGTAAAAACACATAATT
Found at i:20622441 original size:20 final size:20
Alignment explanation
Indices: 20622416--20622456 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
20622406 TATTTGTGAT
*
20622416 CAGAGGCATTGAAGTGCAAA
1 CAGAGGCATCGAAGTGCAAA
20622436 CAGAGGCATCGAAGTGCAAA
1 CAGAGGCATCGAAGTGCAAA
20622456 C
1 C
20622457 CCACAAGCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (20 bp):
CAGAGGCATCGAAGTGCAAA
Found at i:20626379 original size:39 final size:39
Alignment explanation
Indices: 20626303--20626384 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
20626293 ATGTTTGGGA
**
20626303 CATGGCATTGACACCGAGATAAGAGGTCCCATTTAAGAC
1 CATGGCATTGACACCGAGATAAGAGGTCCCACGTAAGAC
* * * *
20626342 CATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGAC
1 CATGGCATTGACACCGAGATAAGAGGTCCCACGTAAGAC
20626381 CATG
1 CATG
20626385 TTTGGGACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (39 bp):
CATGGCATTGACACCGAGATAAGAGGTCCCACGTAAGAC
Found at i:20626447 original size:50 final size:50
Alignment explanation
Indices: 20626342--20626454 Score: 118
Period size: 50 Copynumber: 2.3 Consensus size: 50
20626332 CATTTAAGAC
* * ** * * * *
20626342 CATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTTTGGGA
1 CATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTAGGA
* *
20626392 CATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTAGGA
1 CATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTAGGA
* *
20626442 TATGGCATTGGCA
1 CATGGCATGGGCA
20626455 GTACAAGAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
CATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTAGGA
Found at i:20630283 original size:35 final size:35
Alignment explanation
Indices: 20630244--20630436 Score: 127
Period size: 35 Copynumber: 5.4 Consensus size: 35
20630234 TCGATTCGTT
20630244 CAACTAGCGCTGGGCACAAATATCGTTGGTTTATC
1 CAACTAGCGCTGGGCACAAATATCGTTGGTTTATC
* * **
20630279 CAACTAGAGCTGGGCTCATTAATTATTCGTCAGTTTATC
1 CAACTAGCGCTGGGCACA--AA-TA-TCGTTGGTTTATC
** * * * * ** *
20630318 TGATTAGCGCTGGGCGCAACTTTCGTCAGTTTATT
1 CAACTAGCGCTGGGCACAAATATCGTTGGTTTATC
** * * * *
20630353 TGACTAGTGATGGACACACAT-TCGTTGGTTTATC
1 CAACTAGCGCTGGGCACAAATATCGTTGGTTTATC
* ** *
20630387 CGACTAGCGCTGGGTGCAAATATTGTTGGTTTATC
1 CAACTAGCGCTGGGCACAAATATCGTTGGTTTATC
*
20630422 CAACTAGAGCTGGGC
1 CAACTAGCGCTGGGC
20630437 TCACTAATTA
Statistics
Matches: 120, Mismatches: 33, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
34 24 0.20
35 66 0.55
36 1 0.01
37 3 0.03
38 2 0.02
39 24 0.20
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (35 bp):
CAACTAGCGCTGGGCACAAATATCGTTGGTTTATC
Found at i:20630332 original size:74 final size:73
Alignment explanation
Indices: 20630246--20630479 Score: 242
Period size: 74 Copynumber: 3.2 Consensus size: 73
20630236 GATTCGTTCA
* *
20630246 ACTAGCGCTGGGCACAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATTATTCGTCA
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA-TAATTATTCGTCG
20630311 GTTTATCTG
65 GTTTATCTG
* * * ** *** * * * * * *
20630320 ATTAGCGCTGGGCGCAACTTTCGTCAGTTTATTTGACTAGTGAT-GG-ACA-CA-CATTCGTTGG
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATAATTATTCGTCGG
*
20630381 TTTATCCG
66 TTTATCTG
* * *
20630389 ACTAGCGCTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA-TAATTATTCGTCG
20630454 GTTTATCTG
65 GTTTATCTG
20630463 ACTAGCGCTGGGCGCAA
1 ACTAGCGCTGGGCGCAA
20630480 TCTCCGTCAA
Statistics
Matches: 119, Mismatches: 36, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
69 46 0.39
70 3 0.03
71 2 0.02
72 2 0.02
73 3 0.03
74 63 0.53
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (73 bp):
ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATAATTATTCGTCGG
TTTATCTG
Found at i:20630399 original size:69 final size:69
Alignment explanation
Indices: 20630303--20630548 Score: 208
Period size: 69 Copynumber: 3.5 Consensus size: 69
20630293 CTCATTAATT
* * * * *
20630303 ATTCGTCAGTTTATCTGATTAGCGCTGGGCGCAACT-TTCGTCAGTTTATTTGACTAGTGATGGA
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA-TATTCGTCAGTTTATCTGACTAGTGCTGGA
20630367 CACAC
65 CACAC
* * ** ** *
20630372 ATTCGTTGGTTTATCCGACTAGCGCTGGGTGCAAATATT-GTTGGTTTATCCAACTAGAGCTGGG
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGC-AATATTCGTCAGTTTATCTGACTAGTGCT-GG
* *
20630436 CTCACTAATT
64 -ACAC--A-C
* * * * * *
20630446 ATTCATCGGTTTATCTGACTAGCGCTGGGCGCAATCTCCGTCAATTTATCTGACTAGTGCTGGGC
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAATATTCGTCAGTTTATCTGACTAGTGCTGGAC
20630511 ACAC
66 ACAC
* * *
20630515 ATTTGTCGGTATATCCGACTAGCACTGGGCGCAA
1 ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA
20630549 ACTCTTTCGC
Statistics
Matches: 136, Mismatches: 33, Indels: 16
0.74 0.18 0.09
Matches are distributed among these distances:
69 72 0.53
70 7 0.05
71 3 0.02
72 3 0.02
73 7 0.05
74 44 0.32
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (69 bp):
ATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAATATTCGTCAGTTTATCTGACTAGTGCTGGAC
ACAC
Found at i:20630502 original size:74 final size:73
Alignment explanation
Indices: 20630246--20630548 Score: 221
Period size: 74 Copynumber: 4.2 Consensus size: 73
20630236 GATTCGTTCA
* * ** ** * *
20630246 ACTAGCGCTGGGCACAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATTATTCGTCA
1 ACTAGCGCTGGGCGC-AATCTCGTCAGTTTATCTGACTAGAGCTGGGCTCACTAATTATTCGTCG
20630311 GTTTATCTG
65 GTTTATCTG
* * * * * * * *
20630320 ATTAGCGCTGGGCGCAACTTTCGTCAGTTTATTTGACTAGTGAT-GG-ACAC--A-CATTCGTTG
1 ACTAGCGCTGGGCGCAA-TCTCGTCAGTTTATCTGACTAGAGCTGGGCTCACTAATTATTCGTCG
*
20630380 GTTTATCCG
65 GTTTATCTG
* * * ** ** *
20630389 ACTAGCGCTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
1 ACTAGCGCTGGGCGC-AATCTCGTCAGTTTATCTGACTAGAGCTGGGCTCACTAATTATTCGTCG
20630454 GTTTATCTG
65 GTTTATCTG
* * *
20630463 ACTAGCGCTGGGCGCAATCTCCGTCAATTTATCTGACTAGTGCTGGGCACAC--A-T-TT-GTCG
1 ACTAGCGCTGGGCGCAATCT-CGTCAGTTTATCTGACTAGAGCTGGGCTCACTAATTATTCGTCG
* *
20630523 GTATATCCG
65 GTTTATCTG
*
20630532 ACTAGCACTGGGCGCAA
1 ACTAGCGCTGGGCGCAA
20630549 ACTCTTTCGC
Statistics
Matches: 175, Mismatches: 46, Indels: 21
0.72 0.19 0.09
Matches are distributed among these distances:
69 70 0.40
70 7 0.04
71 4 0.02
72 3 0.02
73 9 0.05
74 82 0.47
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (73 bp):
ACTAGCGCTGGGCGCAATCTCGTCAGTTTATCTGACTAGAGCTGGGCTCACTAATTATTCGTCGG
TTTATCTG
Found at i:20630504 original size:143 final size:143
Alignment explanation
Indices: 20630246--20630549 Score: 448
Period size: 143 Copynumber: 2.1 Consensus size: 143
20630236 GATTCGTTCA
* * *
20630246 ACTAGCGCTGGGCACAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATTATTCGTCA
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCA
* * * *
20630311 GTTTATCTGATTAGCGCTGGGCGCAACTTTCGTCAGTTTATTTGACTAGTGATGGACACACATTC
66 GTTTATCTGACTAGCGCTGGGCGCAACTTCCGTCAATTTATCTGACTAGTGATGGACACACATTC
* *
20630376 GTTGGTTTATCCG
131 GTCGGTATATCCG
* * *
20630389 ACTAGCGCTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCG
1 ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCA
* *
20630454 GTTTATCTGACTAGCGCTGGGCGCAA-TCTCCGTCAATTTATCTGACTAGTGCTGGGCACACATT
66 GTTTATCTGACTAGCGCTGGGCGCAACT-TCCGTCAATTTATCTGACTAGTGATGGACACACATT
*
20630518 TGTCGGTATATCCG
130 CGTCGGTATATCCG
*
20630532 ACTAGCACTGGGCGCAAA
1 ACTAGCGCTGGGCGCAAA
20630550 CTCTTTCGCG
Statistics
Matches: 143, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
142 1 0.01
143 142 0.99
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (143 bp):
ACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTCATCA
GTTTATCTGACTAGCGCTGGGCGCAACTTCCGTCAATTTATCTGACTAGTGATGGACACACATTC
GTCGGTATATCCG
Found at i:20643420 original size:20 final size:22
Alignment explanation
Indices: 20643395--20643434 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20643385 TTGCTTGAAT
20643395 ACATTTT-GTT-GCATTTTAGG
1 ACATTTTAGTTAGCATTTTAGG
20643415 ACATTTTAGTTAGCATTTTA
1 ACATTTTAGTTAGCATTTTA
20643435 AATATTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (22 bp):
ACATTTTAGTTAGCATTTTAGG
Found at i:20653219 original size:20 final size:20
Alignment explanation
Indices: 20653182--20653220 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20653172 CCTGTAGTTA
* * *
20653182 AAATTTTCCAACTTTTTCCT
1 AAATGTTCCAAATGTTTCCT
20653202 AAATGTTCCAAATGTTTCC
1 AAATGTTCCAAATGTTTCC
20653221 AATTTAGTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
AAATGTTCCAAATGTTTCCT
Found at i:20655323 original size:45 final size:45
Alignment explanation
Indices: 20655259--20655348 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
20655249 TTGAACAAGG
*
20655259 ATTTTTATTGAAGGATGAACCTCACATGGGGTACGATGAATCAAT
1 ATTTTTATTGAAGAATGAACCTCACATGGGGTACGATGAATCAAT
20655304 ATTTTTATTGAAGAATGAACCTCACATGGGGTACGATGAATCAAT
1 ATTTTTATTGAAGAATGAACCTCACATGGGGTACGATGAATCAAT
20655349 CTCCTCGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (45 bp):
ATTTTTATTGAAGAATGAACCTCACATGGGGTACGATGAATCAAT
Found at i:20666720 original size:10 final size:10
Alignment explanation
Indices: 20666705--20666740 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
20666695 CTTATTTCTC
*
20666705 TTTTCTTATT
1 TTTTCTTTTT
20666715 TTTTCTTTTTT
1 TTTTC-TTTTT
20666726 TTTTCTTTTT
1 TTTTCTTTTT
20666736 TTTTC
1 TTTTC
20666741 AAGAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:20666729 original size:11 final size:11
Alignment explanation
Indices: 20666713--20666739 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
20666703 TCTTTTCTTA
20666713 TTTTTTCTTTT
1 TTTTTTCTTTT
20666724 TTTTTTCTTTT
1 TTTTTTCTTTT
20666735 TTTTT
1 TTTTT
20666740 CAAGAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:20670034 original size:90 final size:90
Alignment explanation
Indices: 20669902--20670135 Score: 258
Period size: 90 Copynumber: 2.6 Consensus size: 90
20669892 ACCATCAACA
* * * *
20669902 ATGAAAAGGGAT-GGTGACGACCATCAAATAATGTAAAA-GGATGGTGACGACCATCAAATAATG
1 ATGAAAAGGGATAGCT-TCGACTATCAAATTATG-AAAAGGGATGGTGACGACCATCAAATAATG
* *** *
20669965 AAAAGTGATAGCTTTGGCTATTGAATT
64 AAAAGGGATAGCTTCACCTATCGAATT
*
20669992 ATGGAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCAAATAATGAA
1 ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCAAATAATGAA
*
20670057 AAGGGATAGCTTCACCTATCGAGTT
66 AAGGGATAGCTTCACCTATCGAATT
* * * * ** * *
20670082 GTGAAAAGGGATAGCTTTGGCTATCGAGCTATGAAAAGGGTTGG-GACAACCATC
1 ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATC
20670136 TTGATTTTAC
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
89 13 0.11
90 107 0.88
91 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (90 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCAAATAATGAA
AAGGGATAGCTTCACCTATCGAATT
Found at i:20670060 original size:60 final size:60
Alignment explanation
Indices: 20669902--20670093 Score: 167
Period size: 60 Copynumber: 3.2 Consensus size: 60
20669892 ACCATCAACA
* * * *
20669902 ATGAAAAGGGATGGTGACGACCATCAAATAATGTAAAA-GGAT-GGTGACGACCATCAAATA
1 ATGAAAAGGGATGGTGACGACCATCAAATAATG-AAAAGGGATAGCT-TCGACTATCAAATT
* * ** * * ** * *
20669962 ATGAAAAGTGATAGCT-TTGGCTATTGAATTATGGAAAGGGATAGCTTCGACTATCAAATT
1 ATGAAAAGGGAT-GGTGACGACCATCAAATAATGAAAAGGGATAGCTTCGACTATCAAATT
* *
20670022 ATGAAAAGGGATGGTGACGACCATCAAATAATGAAAAGGGATAGCTTC-ACCTATCGAGTT
1 ATGAAAAGGGATGGTGACGACCATCAAATAATGAAAAGGGATAGCTTCGA-CTATCAAATT
*
20670082 GTGAAAAGGGAT
1 ATGAAAAGGGAT
20670094 AGCTTTGGCT
Statistics
Matches: 100, Mismatches: 27, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
59 6 0.06
60 90 0.90
61 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGACGACCATCAAATAATGAAAAGGGATAGCTTCGACTATCAAATT
Found at i:20670061 original size:30 final size:30
Alignment explanation
Indices: 20669865--20670063 Score: 163
Period size: 30 Copynumber: 6.7 Consensus size: 30
20669855 CGTATCGGCT
* * * * *
20669865 ATCAAATTATAAAAAGGGATGATAATGACC
1 ATCAAATAATGAAAAGGGATGGTGACGACC
*
20669895 ATC-AACAATGAAAAGGGATGGTGACGACC
1 ATCAAATAATGAAAAGGGATGGTGACGACC
20669924 ATCAAATAATGTAAAA-GGATGGTGACGACC
1 ATCAAATAATG-AAAAGGGATGGTGACGACC
* * ** * *
20669954 ATCAAATAATGAAAAGTGATAGCT-TTGGCT
1 ATCAAATAATGAAAAGGGAT-GGTGACGACC
** * * * * *
20669984 ATTGAATTATGGAAAGGGATAGCT-TCGACT
1 ATCAAATAATGAAAAGGGAT-GGTGACGACC
*
20670014 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAATAATGAAAAGGGATGGTGACGACC
20670044 ATCAAATAATGAAAAGGGAT
1 ATCAAATAATGAAAAGGGAT
20670064 AGCTTCACCT
Statistics
Matches: 137, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
29 29 0.21
30 102 0.74
31 6 0.04
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.23
Consensus pattern (30 bp):
ATCAAATAATGAAAAGGGATGGTGACGACC
Found at i:20670087 original size:30 final size:30
Alignment explanation
Indices: 20670052--20670121 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
20670042 CCATCAAATA
*
20670052 ATGAAAAGGGATAGCTTCACCTATCGAGTT
1 ATGAAAAGGGATAGCTTCACCTATCGAGCT
* ***
20670082 GTGAAAAGGGATAGCTTTGGCTATCGAGCT
1 ATGAAAAGGGATAGCTTCACCTATCGAGCT
20670112 ATGAAAAGGG
1 ATGAAAAGGG
20670122 TTGGGACAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCACCTATCGAGCT
Found at i:20673145 original size:24 final size:23
Alignment explanation
Indices: 20673110--20673160 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
20673100 TTTCAATTAG
20673110 GAAA-TAAATAAGGACTTAAATT
1 GAAATTAAATAAGGACTTAAATT
*
20673132 GAAATTAAATTAAGGTCTTAAATT
1 GAAATTAAA-TAAGGACTTAAATT
*
20673156 AAAAT
1 GAAAT
20673161 AAGACCATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 4 0.16
24 17 0.68
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (23 bp):
GAAATTAAATAAGGACTTAAATT
Found at i:20676701 original size:21 final size:22
Alignment explanation
Indices: 20676676--20676722 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
20676666 TGTGTTTTGA
*
20676676 TTGTTTCT-TTTGTTCTCGTTC
1 TTGTTTCTGGTTGTTCTCGTTC
*
20676697 TTG-TTCTGGTTGTTCTTGTTC
1 TTGTTTCTGGTTGTTCTCGTTC
20676718 TTGTT
1 TTGTT
20676723 GTTGTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 17 0.77
22 1 0.05
ACGTcount: A:0.00, C:0.15, G:0.19, T:0.66
Consensus pattern (22 bp):
TTGTTTCTGGTTGTTCTCGTTC
Found at i:20676713 original size:15 final size:15
Alignment explanation
Indices: 20676693--20676725 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
20676683 TTTTGTTCTC
20676693 GTTCTTGTTCTGGTT
1 GTTCTTGTTCTGGTT
*
20676708 GTTCTTGTTCTTGTT
1 GTTCTTGTTCTGGTT
20676723 GTT
1 GTT
20676726 GTGTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.64
Consensus pattern (15 bp):
GTTCTTGTTCTGGTT
Found at i:20676733 original size:6 final size:6
Alignment explanation
Indices: 20676724--20676769 Score: 65
Period size: 6 Copynumber: 7.2 Consensus size: 6
20676714 GTTCTTGTTG
20676724 TTGTGT TTGTTTGT TTGTGT TTGTGT TTGTGT TTGTGT TTGATGT T
1 TTGTGT TTG--TGT TTGTGT TTGTGT TTGTGT TTGTGT TTG-TGT T
20676770 GGAATCTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 27 0.73
7 4 0.11
8 6 0.16
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.67
Consensus pattern (6 bp):
TTGTGT
Found at i:20676733 original size:12 final size:13
Alignment explanation
Indices: 20676718--20676769 Score: 65
Period size: 12 Copynumber: 4.1 Consensus size: 13
20676708 GTTCTTGTTC
20676718 TTGTTG-TTGTGT
1 TTGTTGTTTGTGT
20676730 TTGTTTGTTTGTGT
1 TTG-TTGTTTGTGT
20676744 TTG-TGTTTGTGT
1 TTGTTGTTTGTGT
20676756 TTG-TGTTTGATGT
1 TTGTTGTTTG-TGT
20676769 T
1 T
20676770 GGAATCTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 21 0.57
13 7 0.19
14 9 0.24
ACGTcount: A:0.02, C:0.00, G:0.31, T:0.67
Consensus pattern (13 bp):
TTGTTGTTTGTGT
Found at i:20678147 original size:5 final size:5
Alignment explanation
Indices: 20678137--20678163 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
20678127 CAAAAACACA
20678137 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
20678164 TAGGGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:20678251 original size:19 final size:19
Alignment explanation
Indices: 20678196--20678252 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
20678186 AATTTCAAGT
20678196 TTTTTATAGTATTATA-TA
1 TTTTTATAGTATTATATTA
** *
20678214 TTATAAAGTAGATAATATATTA
1 TT-TTTA-TAG-TATTATATTA
20678236 TTTTTATAGTATTATAT
1 TTTTTATAGTATTATAT
20678253 ATTATGATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
18 2 0.07
19 9 0.31
20 6 0.21
21 8 0.28
22 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
TTTTTATAGTATTATATTA
Found at i:20678266 original size:21 final size:20
Alignment explanation
Indices: 20678202--20678267 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
20678192 AAGTTTTTTA
***
20678202 TAGTATTATATATTATAAAG
1 TAGTATTATATATTATATTT
* *
20678222 TAG-ATAATATATTATTTTT
1 TAGTATTATATATTATATTT
20678241 ATAGTATTATATATTATGATTT
1 -TAGTATTATATATTAT-ATTT
20678263 TAGTA
1 TAGTA
20678268 AATTTATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 11 0.31
20 6 0.17
21 16 0.44
22 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (20 bp):
TAGTATTATATATTATATTT
Found at i:20678327 original size:56 final size:56
Alignment explanation
Indices: 20678260--20678377 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 56
20678250 TATATTATGA
* * * *
20678260 TTTTAGTAAATT-TATATAAGAATAATTATATTAAGAATTTTATTAAATTATATATT
1 TTTTATTAAATTATATATAAGAATAATTATATTAA-AATATGATTAAAGTATATATT
* * * *
20678316 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAAGTATTTATT
1 TTTTATTAAATTATATATAAGAATAATTATATTAAAATATGATTAAAGTATATATT
*
20678372 ATTTAT
1 TTTTAT
20678378 ATTGATAATC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 33 0.63
57 19 0.37
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (56 bp):
TTTTATTAAATTATATATAAGAATAATTATATTAAAATATGATTAAAGTATATATT
Found at i:20678584 original size:16 final size:16
Alignment explanation
Indices: 20678554--20678608 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
20678544 TTGAATTACT
* *
20678554 ATTACAGTTCCATTCA
1 ATTACAGCTCTATTCA
*
20678570 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
20678586 ATTACAGCTTTATTTC-
1 ATTACAGCTCTA-TTCA
20678602 ATTACAG
1 ATTACAG
20678609 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 30 0.91
17 3 0.09
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:20687872 original size:23 final size:24
Alignment explanation
Indices: 20687844--20687890 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
20687834 CAAACTAAAC
20687844 AAAAAACAAAATAAAAAT-AGAAA
1 AAAAAACAAAATAAAAATAAGAAA
*
20687867 AAAAAACAAACTAAAAATAAGAAA
1 AAAAAACAAAATAAAAATAAGAAA
20687891 TAAACATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.81, C:0.06, G:0.04, T:0.09
Consensus pattern (24 bp):
AAAAAACAAAATAAAAATAAGAAA
Found at i:20692452 original size:32 final size:29
Alignment explanation
Indices: 20692345--20692468 Score: 142
Period size: 29 Copynumber: 4.2 Consensus size: 29
20692335 GTGTGCTAAA
*
20692345 CGATGGTCGAAACCATCC-TTTTCAAATT
1 CGATGGTCGAAACCATCCATTTTCATATT
* * ** *
20692373 TGATTGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCATTTTCATATT
20692402 CGATGGTCGAAACCATCCATTTTCATATT
1 CGATGGTCGAAACCATCCATTTTCATATT
* *
20692431 CGATAGGTGTCGATACTATCCATTTTCATATT
1 CGAT--G-GTCGAAACCATCCATTTTCATATT
20692463 CGATGG
1 CGATGG
20692469 GCATCGATAC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
28 14 0.17
29 38 0.47
30 1 0.01
31 1 0.01
32 26 0.32
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCATTTTCATATT
Found at i:20692465 original size:61 final size:57
Alignment explanation
Indices: 20692345--20692468 Score: 160
Period size: 61 Copynumber: 2.1 Consensus size: 57
20692335 GTGTGCTAAA
* *
20692345 CGATGGTCGAAACCATCCTTTTCAAATTTGATTGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCTTTTCAAATTCGATTGTCGTCACCATCCATTTTCATATT
* *
20692402 CGATGGTCGAAACCATCCATTTTCATATTCGATAGGTGTCGAT-ACTATCCATTTTCATATT
1 CGATGGTCGAAACCATCC-TTTTCAAATTCGAT---TGTCG-TCACCATCCATTTTCATATT
20692463 CGATGG
1 CGATGG
20692469 GCATCGATAC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
57 18 0.31
58 12 0.21
61 27 0.47
62 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (57 bp):
CGATGGTCGAAACCATCCTTTTCAAATTCGATTGTCGTCACCATCCATTTTCATATT
Found at i:20693948 original size:68 final size:68
Alignment explanation
Indices: 20693793--20693959 Score: 167
Period size: 68 Copynumber: 2.5 Consensus size: 68
20693783 ACGGATTCCT
* * * *
20693793 TTTGCTGCCATAGTCGAGCTATGGTCTTACATAGTAAGAACCCATGTTTAACGCTCTAACAGGCT
1 TTTGTTGCCATAATCGAGCTATGGTCTTACACAGTAAGAACCCATGTTTAACACTCTAACAGGCT
20693858 CCC
66 CCC
* * ** * * * ***
20693861 TTTGTTGCTA-AAGTTGAGCTATGGTCTTGTACAGTAGGAACCCATTTTTAACATTCT-GGTGGA
1 TTTGTTGCCATAA-TCGAGCTATGGTCTTACACAGTAAGAACCCATGTTTAACACTCTAACAGG-
20693924 CTCCC
64 CTCCC
*
20693929 TTTGTTGCCATAATCGAGCTATAGTCTTACA
1 TTTGTTGCCATAATCGAGCTATGGTCTTACA
20693960 TGTTAAACCT
Statistics
Matches: 77, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
67 3 0.04
68 72 0.94
69 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (68 bp):
TTTGTTGCCATAATCGAGCTATGGTCTTACACAGTAAGAACCCATGTTTAACACTCTAACAGGCT
CCC
Found at i:20711096 original size:35 final size:35
Alignment explanation
Indices: 20711050--20711140 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
20711040 ACTGATACTT
* * *
20711050 TGATTTGCATGTTAAGCATGTTATTATTTTGATTA
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
* *
20711085 TGATTCGCATGTTGAGCATGCTATTATTCTGATTC
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
* * *
20711120 TGAATCACATTTTAAGCATGC
1 TGATTCGCATGTTAAGCATGC
20711141 CACTGTGTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (35 bp):
TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
Found at i:20712302 original size:20 final size:21
Alignment explanation
Indices: 20712266--20712307 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
20712256 AAATAAATCT
20712266 AAAAACTAAAAAGAAAT-AAA
1 AAAAACTAAAAAGAAATCAAA
* *
20712286 AAAAACTAAATATAAATCAAA
1 AAAAACTAAAAAGAAATCAAA
20712307 A
1 A
20712308 GTGGAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAAACTAAAAAGAAATCAAA
Found at i:20714674 original size:140 final size:139
Alignment explanation
Indices: 20714404--20714829 Score: 516
Period size: 139 Copynumber: 3.1 Consensus size: 139
20714394 GGTTTATGAT
* * * * * * *
20714404 GACACTTTAGGGTTGACACTTTCTTAACTGTCGGGATAGACTTGCCAACGTACTCTTTGGCCAAC
1 GACACTTTTGGG-TGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACACTTTGGCCAAC
* * * * * * *
20714469 TCTTT-AATAAGAGTCGGGATATGCATTCCTAAGGCAGCCCTTAAATAAGGGTCGGCTTTGTCCA
65 TCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCA
*
20714533 ACACCATGCC
130 ACACTATGCC
* *
20714543 GACACTTTTGGGTCGACACTTTCCTAAGTATTGGGATAGACTTGCTGACATACACTTTGGCCAAC
1 GACACTTTTGGGT-GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACACTTTGGCCAAC
* *
20714608 TCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTCCA
65 TCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCA
* *
20714673 ACAGTATGCT
130 ACACTATGCC
** * * * *
20714683 GACACTTTTGGGTTTCACTTTCCTAAGTGTTGAGATAGACTTACCGACATGCGCTTTGGCCAACT
1 GACACTTTTGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACACTTTGGCCAACT
* * * * * *
20714748 CTTTGTATAAGGGTTGGGATATGCATGCCAAAGACAACATTTAACTAAGAGTCGGCCTTATCCAA
66 CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAA
20714813 CACTATGCC
131 CACTATGCC
20714822 -A-ACTTTTG
1 GACACTTTTG
20714830 TTATACCTTT
Statistics
Matches: 247, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
137 7 0.03
138 2 0.01
139 167 0.68
140 71 0.29
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (139 bp):
GACACTTTTGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACACTTTGGCCAACT
CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAA
CACTATGCC
Found at i:20716893 original size:16 final size:16
Alignment explanation
Indices: 20716872--20716903 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20716862 GTTTTGTTGC
*
20716872 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
20716888 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
20716904 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:20717103 original size:47 final size:43
Alignment explanation
Indices: 20717027--20717126 Score: 112
Period size: 47 Copynumber: 2.2 Consensus size: 43
20717017 AATAATAACA
*
20717027 GATACACGGTGGATTCAGCACACAACAACCATCCTTTTGTAATTAAT
1 GATAC-CGGTGGATTCAGCACACAACAACCA-CC--TTATAATTAAT
* *
20717074 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAACAACCACCTTATAATTAAT
20717118 GATACCGGT
1 GATACCGGT
20717127 TCACATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 5 0.10
44 14 0.29
46 2 0.04
47 23 0.48
48 4 0.08
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAACAACCACCTTATAATTAAT
Found at i:20717158 original size:26 final size:26
Alignment explanation
Indices: 20717128--20717208 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
20717118 GATACCGGTT
20717128 CACATAGTAGCCTGCACATAATACTA
1 CACATAGTAGCCTGCACATAATACTA
*
20717154 CACAT-GT-GACCAT-CAC-T-ATCCGATA
1 CACATAGTAG-CC-TGCACATAATAC--TA
* *
20717179 CACGTAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAATACTA
20717205 CACA
1 CACA
20717209 CGTGATCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
23 3 0.07
24 2 0.05
25 14 0.34
26 18 0.44
27 2 0.05
28 2 0.05
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (26 bp):
CACATAGTAGCCTGCACATAATACTA
Found at i:20717190 original size:51 final size:51
Alignment explanation
Indices: 20717122--20717322 Score: 246
Period size: 51 Copynumber: 4.0 Consensus size: 51
20717112 ATTAATGATA
* * * *
20717122 CCGGTTCACATAGTAGCCTGCACATAATACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * *
20717173 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTAT
* * * *
20717224 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* *
20717274 CTGGTACACGTAGTAGCCTGCACATAGTACTACAAACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
20717323 TTCACTTTCA
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
49 4 0.03
50 40 0.32
51 80 0.63
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:20717313 original size:101 final size:102
Alignment explanation
Indices: 20717130--20717314 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
20717120 TACCGGTTCA
*
20717130 CATAGTAGCCTGCACATAATACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAATACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
*
20717195 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
66 CATAGTACTACAAACGTGATCAAAGCTATCCGGTACG
* * *
20717232 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAATACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
20717295 ACATAGTACTACAAACGTGA
65 ACATAGTACTACAAACGTGA
20717315 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 39 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAATACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACAAACGTGATCAAAGCTATCCGGTACG
Found at i:20721616 original size:73 final size:69
Alignment explanation
Indices: 20721496--20721813 Score: 291
Period size: 73 Copynumber: 4.4 Consensus size: 69
20721486 TCTTAGACCT
* * * *
20721496 GTCTATCCCAACATTTTTAAGGTTGCTTTAAGCA-AGTCTATCCTAACCTTTTTTAAAGGTTGCT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTT-AG-ATGGTCTATCCCAACC-TTTTT-AAGGTTGCT
20721560 TTAGACAAG
62 TTAGAC-AG
* ** *
20721569 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGATGTGTCTATCTTAACCTTTTTAAGGATGCTTTA
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGATG-GTCTATCCCAACCTTTTTAAGGTTGCTTTA
20721634 GACAAG
65 GAC-AG
* * * *
20721640 GTCTACCCCAACTTTTTTTAAAGGTTGCTTTAGATAAGGTCTATCCCAACCTTTCTAAGGTTGCT
1 GTCTATCCCAAC-CTTTTT-AAGGTTGCCTTAGAT--GGTCTATCCCAACCTTTTTAAGGTTGCT
* *
20721705 TTAGGCGG
62 TTAGACAG
** * * *
20721713 GTCTATCCCAATTGTTTTTAAAGGTTGCCTTAGACAAGGTCTATTCCAA-CTTTAATAAGGTTG-
1 GTCTATCCCAA-CCTTTTT-AAGGTTGCCTTAG--ATGGTCTATCCCAACCTTT-TTAAGGTTGC
20721776 TCTTAGACAG
61 T-TTAGACAG
20721786 GTCTATCCCAACCTTTTTAAGGTTGCCT
1 GTCTATCCCAACCTTTTTAAGGTTGCCT
20721814 CAAACGGGTT
Statistics
Matches: 207, Mismatches: 27, Indels: 24
0.80 0.10 0.09
Matches are distributed among these distances:
71 38 0.18
72 22 0.11
73 117 0.57
74 28 0.14
75 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (69 bp):
GTCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGTCTATCCCAACCTTTTTAAGGTTGCTTTAG
ACAG
Found at i:20721690 original size:109 final size:107
Alignment explanation
Indices: 20721487--20721813 Score: 374
Period size: 109 Copynumber: 3.0 Consensus size: 107
20721477 AAAAAAATTT
* *
20721487 CTTAGACCTGTCTATCCCAACATTTTTAAGGTTGCTTTA-AGCAA-GTCTATCCTAACCTTTTTT
1 CTTAGACGTGTCTATCCCAACATTTTTAAGGTTGCTTTAGA-CAAGGTCTATCCCAA-CTTTTTT
*
20721550 AAAGGTTGCTTTAGACAAGGTCTATCTCAACCTTTTTAAGGTTGC
64 AAAGGTTGCTTTAGA-AAGGTCTATCCCAACCTTTTTAAGGTTGC
* ** * * *
20721595 CTTAGATGTGTCTATCTTAACCTTTTTAAGGATGCTTTAGACAAGGTCTACCCCAACTTTTTTTA
1 CTTAGACGTGTCTATCCCAACATTTTTAAGGTTGCTTTAGACAAGGTCTATCCCAAC-TTTTTTA
*
20721660 AAGGTTGCTTTAGATAAGGTCTATCCCAACCTTTCTAAGGTTGC
65 AAGGTTGCTTTAGA-AAGGTCTATCCCAACCTTTTTAAGGTTGC
* * * ** * * **
20721704 TTTAGGCGGGTCTATCCCAATTGTTTTTAAAGGTTGCCTTAGACAAGGTCTATTCCAACTTTAAT
1 CTTAGACGTGTCTATCCCAA-CATTTTT-AAGGTTGCTTTAGACAAGGTCTATCCCAACTTTTTT
*
20721769 -AAGGTTG-TCTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGC
64 AAAGGTTGCT-TTAGAAAGGTCTATCCCAACCTTTTTAAGGTTGC
20721812 CT
1 CT
20721814 CAAACGGGTT
Statistics
Matches: 185, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
108 66 0.36
109 84 0.45
110 9 0.05
111 26 0.14
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (107 bp):
CTTAGACGTGTCTATCCCAACATTTTTAAGGTTGCTTTAGACAAGGTCTATCCCAACTTTTTTAA
AGGTTGCTTTAGAAAGGTCTATCCCAACCTTTTTAAGGTTGC
Found at i:20721828 original size:35 final size:35
Alignment explanation
Indices: 20721487--20721838 Score: 287
Period size: 35 Copynumber: 9.8 Consensus size: 35
20721477 AAAAAAATTT
** *
20721487 CTTAGACCTGTCTATCCCAACATTTTTAAGGTTGC
1 CTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGC
* * *
20721522 TTTA-AGCAAGTCTATCCTAACCTTTTTTAAAGGTTGC
1 CTTAGA-CAGGTCTATCCCAACC-TTTTT-AAGGTTGC
* *
20721559 TTTAGACAAGGTCTATCTCAACCTTTTTAAGGTTGC
1 CTTAGAC-AGGTCTATCCCAACCTTTTTAAGGTTGC
* ** *
20721595 CTTAGA-TGTGTCTATCTTAACCTTTTTAAGGATGC
1 CTTAGACAG-GTCTATCCCAACCTTTTTAAGGTTGC
* * *
20721630 TTTAGACAAGGTCTACCCCAACTTTTTTTAAAGGTTGC
1 CTTAGAC-AGGTCTATCCCAAC-CTTTTT-AAGGTTGC
* * *
20721668 TTTAGATAAGGTCTATCCCAACCTTTCTAAGGTTGC
1 CTTAGA-CAGGTCTATCCCAACCTTTTTAAGGTTGC
* * * **
20721704 TTTAGGCGGGTCTATCCCAATTGTTTTTAAAGGTTGC
1 CTTAGACAGGTCTATCCCAA-CCTTTTT-AAGGTTGC
* * *
20721741 CTTAGACAAGGTCTATTCCAA-CTTTAATAAGGTTGT
1 CTTAGAC-AGGTCTATCCCAACCTTT-TTAAGGTTGC
20721777 CTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGC
1 CTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGC
* * * * *
20721812 CTCAAACGGGTTTATCCAAACCTTTTT
1 CTTAGACAGGTCTATCCCAACCTTTTT
20721839 TAAATGTTGG
Statistics
Matches: 257, Mismatches: 44, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
34 2 0.01
35 98 0.38
36 65 0.25
37 42 0.16
38 50 0.19
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (35 bp):
CTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGC
Found at i:20721839 original size:182 final size:181
Alignment explanation
Indices: 20721496--20721847 Score: 417
Period size: 182 Copynumber: 1.9 Consensus size: 181
20721486 TCTTAGACCT
* * *
20721496 GTCTATCCCAACATTTTTAAGGTTGCTTTAAGCAAGTCTATCCTAACCTTTTTTAAAGGTTGCTT
1 GTCTATCCCAACATTTCTAAGGTTGCTTTAAGCAAGTCTATCCCAACCTTTTTTAAAGGTTGCCT
* * **
20721561 TAGACAAGGTCTATCTCAACCTTTTTAAGGTTGCCTTAGATGTGTCTATCTTAACCTTTTTAAGG
66 TAGACAAGGTCTATCTCAACCTTTATAAGGTTGCCTTAGAAGTGTCTATCCCAACCTTTTTAAGG
* * * *
20721626 ATGCTTTAGACAAGGTCTACCCCAACTTTTTTTAAAGGTTGCTTTAGATAAG
131 ATGCCTCAAACAAGGTCTACCCAAAC-TTTTTTAAAGGTTGCTTTAGATAAG
* * ** *
20721678 GTCTATCCCAACCTTTCTAAGGTTGCTTTAGGCGGGTCTATCCCAA-TTGTTTTTAAAGGTTGCC
1 GTCTATCCCAACATTTCTAAGGTTGCTTTAAGCAAGTCTATCCCAACCT-TTTTTAAAGGTTGCC
*
20721742 TTAGACAAGGTCTAT-TCCAA-CTTTAATAAGGTTGTCTTAGACAG-GTCTATCCCAACCTTTTT
65 TTAGACAAGGTCTATCT-CAACCTTT-ATAAGGTTGCCTTAGA-AGTGTCTATCCCAACCTTTTT
* * * * *
20721804 AAGGTTGCCTCAAAC-GGGTTTATCCAAACCTTTTTTAAATGTTG
127 AAGGATGCCTCAAACAAGGTCTACCCAAA-CTTTTTTAAAGGTTG
20721848 GCCTTGATGA
Statistics
Matches: 143, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
181 28 0.20
182 114 0.80
183 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (181 bp):
GTCTATCCCAACATTTCTAAGGTTGCTTTAAGCAAGTCTATCCCAACCTTTTTTAAAGGTTGCCT
TAGACAAGGTCTATCTCAACCTTTATAAGGTTGCCTTAGAAGTGTCTATCCCAACCTTTTTAAGG
ATGCCTCAAACAAGGTCTACCCAAACTTTTTTAAAGGTTGCTTTAGATAAG
Found at i:20723782 original size:29 final size:29
Alignment explanation
Indices: 20723750--20723957 Score: 168
Period size: 29 Copynumber: 7.1 Consensus size: 29
20723740 AGCTTCAGCT
20723750 ATCAATTATGAAAAGGGATGGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* * * *
20723779 ATCAACTATGAAAATGTATAGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
** * * * *
20723808 ATCAAAAATGAAGAGGGATAGCT-TCGACT
1 ATCAATTATGAAAAGGGAT-GGTGACGACC
* *
20723837 ATCAATTATGAAAAGGGATGGTAACAACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* *
20723866 ATCAACTATGAAATGGGATGGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* * ** **
20723895 ACCGATTAATGAAAAGGGATATTTTCGACC
1 ATCAATT-ATGAAAAGGGATGGTGACGACC
* * *
20723925 ATCGAA-TATGAAAAGGGACGGTTATGACC
1 ATC-AATTATGAAAAGGGATGGTGACGACC
20723954 ATCA
1 ATCA
20723958 TTTAACACAC
Statistics
Matches: 136, Mismatches: 39, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
28 3 0.02
29 111 0.82
30 21 0.15
31 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (29 bp):
ATCAATTATGAAAAGGGATGGTGACGACC
Found at i:20723874 original size:87 final size:88
Alignment explanation
Indices: 20723728--20723942 Score: 276
Period size: 87 Copynumber: 2.5 Consensus size: 88
20723718 ATCATCGATT
* *
20723728 ATGAAAAGGGATAGCTTC-AGCTATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAA
1 ATGAAAAGGGATAGCTTCGA-CTATCAATTATGAAAAGGGATGGTAACAACCATCAACTATG-AA
* *
20723792 AT-GTATAGTGACGACCATC-AAAA
64 ATGGGATAGTGACGACCACCGAAAA
*
20723815 ATGAAGAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTAACAACCATCAACTATGAAAT
1 ATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTAACAACCATCAACTATGAAAT
* **
20723880 GGGATGGTGACGACCACCGATTA
66 GGGATAGTGACGACCACCGAAAA
** *
20723903 ATGAAAAGGGATATTTTCGACCATCGAA-TATGAAAAGGGA
1 ATGAAAAGGGATAGCTTCGACTATC-AATTATGAAAAGGGA
20723943 CGGTTATGAC
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
86 4 0.04
87 70 0.62
88 36 0.32
89 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (88 bp):
ATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTAACAACCATCAACTATGAAAT
GGGATAGTGACGACCACCGAAAA
Found at i:20728259 original size:29 final size:29
Alignment explanation
Indices: 20728204--20728270 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
20728194 ATCGAAAATA
** **
20728204 AAAAGGGATAGCTTCGGTTATGGATTACG
1 AAAAGGGATAGCTTCGGCCATCAATTACG
* *
20728233 AAAAGGGATAGGTTCGGCCATCAATTATG
1 AAAAGGGATAGCTTCGGCCATCAATTACG
20728262 AAAAGGGAT
1 AAAAGGGAT
20728271 GGTGGTAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGGCCATCAATTACG
Found at i:20728282 original size:29 final size:29
Alignment explanation
Indices: 20728250--20728308 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
20728240 ATAGGTTCGG
* * *
20728250 CCATCAATTATGAAAAGGGATGGTGGTAA
1 CCATCAACTATGAAAAAGGATGGTGATAA
20728279 CCATCAACTATGAAAAAGGATGGTGATAA
1 CCATCAACTATGAAAAAGGATGGTGATAA
20728308 C
1 C
20728309 TGTCGATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (29 bp):
CCATCAACTATGAAAAAGGATGGTGATAA
Found at i:20740553 original size:23 final size:23
Alignment explanation
Indices: 20740453--20740555 Score: 109
Period size: 23 Copynumber: 4.5 Consensus size: 23
20740443 GGGCTAGTAC
* *
20740453 TCTGCGATGTCTTTGTGGCATAT
1 TCTGTGATGCCTTTGTGGCATAT
* **
20740476 TCTGTGATGCC-TTATGGTGTAT
1 TCTGTGATGCCTTTGTGGCATAT
* *
20740498 TCTATGATGTCTTTGTGGCATAT
1 TCTGTGATGCCTTTGTGGCATAT
* *
20740521 TTTGTGATGCCTTTGTGGCGTAT
1 TCTGTGATGCCTTTGTGGCATAT
*
20740544 TATGTGATGCCT
1 TCTGTGATGCCT
20740556 AAGTGGCTAG
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
22 17 0.27
23 47 0.73
ACGTcount: A:0.14, C:0.15, G:0.26, T:0.46
Consensus pattern (23 bp):
TCTGTGATGCCTTTGTGGCATAT
Found at i:20759211 original size:20 final size:19
Alignment explanation
Indices: 20759173--20759229 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
20759163 TTGAGTGTGC
*
20759173 TGATTGTAGTTCTCCTTTTGT
1 TGATTGTAATTC-CCTTTT-T
20759194 TGATTGTAATTCCCTTTTT
1 TGATTGTAATTCCCTTTTT
* *
20759213 TGAATTATAATTGCCTT
1 TG-ATTGTAATTCCCTT
20759230 GAGTAGATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.09
20 18 0.56
21 11 0.34
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.54
Consensus pattern (19 bp):
TGATTGTAATTCCCTTTTT
Found at i:20761022 original size:22 final size:22
Alignment explanation
Indices: 20760994--20761035 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20760984 CTATCACTGC
*
20760994 ACCTTCCAGTGTCAGTGACCGT
1 ACCTTCCAATGTCAGTGACCGT
20761016 ACCTTCCAATGTCAGTGACC
1 ACCTTCCAATGTCAGTGACC
20761036 ACAATAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.26
Consensus pattern (22 bp):
ACCTTCCAATGTCAGTGACCGT
Found at i:20763190 original size:25 final size:25
Alignment explanation
Indices: 20763157--20763226 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
20763147 GCTGTAAATG
20763157 GGAAGCTCATGTGAGCTAAATAACA
1 GGAAGCTCATGTGAGCTAAATAACA
* *
20763182 GGAAGCTCATGTGACCTAAATAACG
1 GGAAGCTCATGTGAGCTAAATAACA
**
20763207 GGAAGCTCATAAGAGCTAAA
1 GGAAGCTCATGTGAGCTAAA
20763227 ATCGGTGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATGTGAGCTAAATAACA
Found at i:20765764 original size:21 final size:21
Alignment explanation
Indices: 20765740--20765783 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20765730 CTCTTCAATT
20765740 GACACTCACAGCAGACTCAAA
1 GACACTCACAGCAGACTCAAA
*
20765761 GACACTCACAGTAGACTCAAA
1 GACACTCACAGCAGACTCAAA
20765782 GA
1 GA
20765784 AGCTCTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.30, G:0.16, T:0.11
Consensus pattern (21 bp):
GACACTCACAGCAGACTCAAA
Found at i:20772815 original size:21 final size:23
Alignment explanation
Indices: 20772773--20772815 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20772763 TTATCATTGT
**
20772773 TATAAAAAATATTTAATTATAAC
1 TATAAAAAATATTTAAAAATAAC
20772796 TATAAAAAA-A-TTAAAAATAA
1 TATAAAAAATATTTAAAAATAA
20772816 TTTTCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAAAAATATTTAAAAATAAC
Found at i:20777774 original size:50 final size:50
Alignment explanation
Indices: 20777667--20777903 Score: 262
Period size: 50 Copynumber: 4.6 Consensus size: 50
20777657 GGTAAAGATA
* * * *
20777667 TCCCATGTAAGACCATGTATAGGACATGGCATTGGCATCCTTGATATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--G--A-GATGAGAGG
*
20777723 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
20777773 TCCCATGTAAGACCATGTCTGGGACAT-G-ATGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATG--GGCACCGAGATGAGAGG
** * * * **
20777823 TCCCCCGTAAGACCATGTTTGGGACATGGCATCGGCACCGACATGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAG-AGG
*
20777874 TCCCATGTAAGACCATTTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
20777904 TTTAGCATGT
Statistics
Matches: 159, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
48 3 0.02
49 1 0.01
50 88 0.55
51 29 0.18
52 2 0.01
53 1 0.01
55 2 0.01
56 33 0.21
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGG
Found at i:20777847 original size:100 final size:101
Alignment explanation
Indices: 20777715--20777901 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 101
20777705 CCTTGATATC
* * * **
20777715 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAG-AGGTCCCAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATCGGCACCGACATGAGAACATCCCAT
20777779 GTAAGACCATGTCTGGGACATGATGTTGGCACCGAG
66 GTAAGACCATGTCTGGGACATGATGTTGGCACCGAG
*
20777815 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATCGGCACCGACATGAGAACATCCCAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATCGGCACCGACATGAGAACATCCCAT
*
20777880 GTAAGACCATTTCTGGGACATG
66 GTAAGACCATGTCTGGGACATG
20777902 GCTTTAGCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 51 0.65
101 28 0.35
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (101 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATCGGCACCGACATGAGAACATCCCAT
GTAAGACCATGTCTGGGACATGATGTTGGCACCGAG
Found at i:20780217 original size:24 final size:25
Alignment explanation
Indices: 20780205--20780253 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
20780195 GCTCTGTGAG
20780205 CTAAATAACGGGAAGCTCACGCGAA
1 CTAAATAACGGGAAGCTCACGCGAA
* *
20780230 CTGAATAACGGGAAGCTCATGCGA
1 CTAAATAACGGGAAGCTCACGCGA
20780254 GCAAAGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (25 bp):
CTAAATAACGGGAAGCTCACGCGAA
Found at i:20786388 original size:21 final size:21
Alignment explanation
Indices: 20786364--20786432 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
20786354 CAAAACAAAT
20786364 AAATATGTGGACA-AGCCACCA
1 AAATATGTGGACATA-CCACCA
* * *
20786385 AAAT-TGTAGATATACTACCA
1 AAATATGTGGACATACCACCA
* *
20786405 AAATATGTGGATATACCACTA
1 AAATATGTGGACATACCACCA
*
20786426 GAATATG
1 AAATATG
20786433 CAAATCTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 15 0.38
21 24 0.62
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (21 bp):
AAATATGTGGACATACCACCA
Found at i:20786406 original size:20 final size:21
Alignment explanation
Indices: 20786381--20786420 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20786371 TGGACAAGCC
20786381 ACCAAAAT-TGTAGATATACT
1 ACCAAAATATGTAGATATACT
*
20786401 ACCAAAATATGTGGATATAC
1 ACCAAAATATGTAGATATAC
20786421 CACTAGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (21 bp):
ACCAAAATATGTAGATATACT
Found at i:20793186 original size:14 final size:15
Alignment explanation
Indices: 20793167--20793205 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
20793157 TGCCTTAAAT
20793167 CCCATATTT-TGATA
1 CCCATATTTCTGATA
20793181 CCCATATCTTTCTGATA
1 CCCATA--TTTCTGATA
20793198 CCCATATT
1 CCCATATT
20793206 ATTTGACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 2 0.09
16 3 0.14
17 11 0.50
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (15 bp):
CCCATATTTCTGATA
Found at i:20796756 original size:17 final size:17
Alignment explanation
Indices: 20796734--20796766 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20796724 TCTCATATTT
20796734 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
20796751 TGATACCCATATCTTT
1 TGATACCCATATCTTT
20796767 GACTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:20801349 original size:53 final size:53
Alignment explanation
Indices: 20801205--20801356 Score: 191
Period size: 53 Copynumber: 2.9 Consensus size: 53
20801195 CCATGGGATT
* * *
20801205 GAAGACCATATCGTGTAAAACCATAACTGGTGGGTTATGGCAT-ATATAGTAA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATAGGAA
* * * * *
20801257 GAAGACCATATCGTGTAAGACCGTAATTAGT-GATATATGGAATCATATGGGAA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGT-TATGGCATCATATAGGAA
* *
20801310 GAAGATCATATAGTGTAAGACCGTAACTGGTGGGTTATGGCATCATA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATA
20801357 CGAAAATTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
51 2 0.02
52 34 0.41
53 45 0.54
54 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (53 bp):
GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATAGGAA
Found at i:20801580 original size:28 final size:28
Alignment explanation
Indices: 20801503--20801630 Score: 68
Period size: 28 Copynumber: 4.6 Consensus size: 28
20801493 AAAATTCTGG
* ** * *
20801503 AAGGATAAACCTTTGTGGCAAACCTATTA
1 AAGGATAAGCCTTTGTGATAAAACT-CTA
* **
20801532 AAAGAT-AGCCTTTGTCCTAAAACTCTA
1 AAGGATAAGCCTTTGTGATAAAACTCTA
* *
20801559 AAGGATAAGCCTTTGTGATAAACCTATA
1 AAGGATAAGCCTTTGTGATAAAACTCTA
* *
20801587 ACTGGAT--GCCTTTGTGGA-AAAATTCTAA
1 A-AGGATAAGCCTTTGT-GATAAAACTCT-A
*
20801615 AAGGA-AAGACTTTGTG
1 AAGGATAAGCCTTTGTG
20801631 GTGAGTACTT
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
27 24 0.32
28 42 0.56
29 9 0.12
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (28 bp):
AAGGATAAGCCTTTGTGATAAAACTCTA
Found at i:20801618 original size:56 final size:56
Alignment explanation
Indices: 20801483--20801630 Score: 149
Period size: 56 Copynumber: 2.6 Consensus size: 56
20801473 AAAAGAACAA
* * *
20801483 CCTTTGTGGAAAAATTCTGGAAGGATAAACCTTTGTGGCAAACCTATTAAAAGATAG
1 CCTTTGTGGAAAAATTCT-AAAGGATAAGCCTTTGTGACAAACCTATTAAAAGATAG
*** * * **
20801540 CCTTTGTCCTAAAACTCTAAAGGATAAGCCTTTGTGATAAACCTA-TAACTGGAT-G
1 CCTTTGTGGAAAAATTCTAAAGGATAAGCCTTTGTGACAAACCTATTAA-AAGATAG
*
20801595 CCTTTGTGGAAAAATTCTAAAAGGA-AAGACTTTGTG
1 CCTTTGTGGAAAAATTCT-AAAGGATAAGCCTTTGTG
20801631 GTGAGTACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
55 28 0.38
56 32 0.43
57 14 0.19
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (56 bp):
CCTTTGTGGAAAAATTCTAAAGGATAAGCCTTTGTGACAAACCTATTAAAAGATAG
Found at i:20812808 original size:21 final size:21
Alignment explanation
Indices: 20812784--20812831 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
20812774 ATTTTATAAA
20812784 ACCACTTGACTTTAAAGTCTT
1 ACCACTTGACTTTAAAGTCTT
20812805 ACCACTTGACTTTAAAGTCTT
1 ACCACTTGACTTTAAAGTCTT
20812826 ACCACT
1 ACCACT
20812832 AGAACTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (21 bp):
ACCACTTGACTTTAAAGTCTT
Found at i:20817289 original size:19 final size:21
Alignment explanation
Indices: 20817267--20817311 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
20817257 AAAAGTATTA
20817267 ATACCCAT-AAAAAT-TATCG
1 ATACCCATAAAAAATATATCG
*
20817286 ATACCTATAAAAAATATATCG
1 ATACCCATAAAAAATATATCG
20817307 ATACC
1 ATACC
20817312 TTTTATCAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 6 0.26
21 10 0.43
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (21 bp):
ATACCCATAAAAAATATATCG
Found at i:20823433 original size:12 final size:12
Alignment explanation
Indices: 20823408--20823446 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20823398 ACTCGCTTCT
* *
20823408 TTACTTACTCAC
1 TTACTTGCTTAC
*
20823420 TTACTTGTTTAC
1 TTACTTGCTTAC
20823432 TTACTTGCTTAC
1 TTACTTGCTTAC
20823444 TTA
1 TTA
20823447 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:20823788 original size:50 final size:51
Alignment explanation
Indices: 20823716--20823935 Score: 216
Period size: 50 Copynumber: 4.3 Consensus size: 51
20823706 CATCCCAGAT
** * *
20823716 ATGGTCTTACATGG-GAGTTCTCATATCGGTGCCCATGCCATGTCCTAGAC
1 ATGGTCTTACATGGAGACCTCTCATATCGGTGCCAACGCCATGTCCTAGAC
* *
20823766 ATGGTCTTAC-GGGAGACCTCTCATCTCGGTGCCAACGCCATGT-CTCAGAC
1 ATGGTCTTACATGGAGACCTCTCATATCGGTGCCAACGCCATGTCCT-AGAC
** * *
20823816 ATTATCTTACATGGA-ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGAGACCTCTCATATCGGTGCCAACGCCATGTCCTAGAC
* * * *
20823866 ATGGTCTTACATGG-GACCTCTCATAATCTCAATGATGCCAATGTCATGTCCCAGAC
1 ATGGTCTTACATGGAGACCTCTCAT-A--TC---GGTGCCAACGCCATGTCCTAGAC
20823922 ATGGTCTTACATGG
1 ATGGTCTTACATGG
20823936 GATCTCATTC
Statistics
Matches: 143, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
49 4 0.03
50 99 0.69
51 4 0.03
53 2 0.01
56 34 0.24
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (51 bp):
ATGGTCTTACATGGAGACCTCTCATATCGGTGCCAACGCCATGTCCTAGAC
Found at i:20831369 original size:50 final size:50
Alignment explanation
Indices: 20831298--20831492 Score: 284
Period size: 50 Copynumber: 3.9 Consensus size: 50
20831288 TTTTCTGTAC
* * ** *
20831298 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
20831348 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
20831398 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
20831448 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGATCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
20831493 AATCTCAATG
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
49 1 0.01
50 130 0.98
51 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:20834845 original size:60 final size:62
Alignment explanation
Indices: 20834752--20834877 Score: 220
Period size: 60 Copynumber: 2.1 Consensus size: 62
20834742 ATCAATTGGA
*
20834752 TTTACCTCTATAATTATAGATGGTTCAATTTGAAA-TTT-GTGTCCAACTCTACTCGAGTTT
1 TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTATCCAACTCTACTCGAGTTT
*
20834812 TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTATCTAACTCTACTCGAGTTT
1 TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTATCCAACTCTACTCGAGTTT
20834874 TTTA
1 TTTA
20834878 TTAATCAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 35 0.56
61 3 0.05
62 24 0.39
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (62 bp):
TTTACCTCTATAATTATAGATGGTTCAATTTGAAATTTTAGTATCCAACTCTACTCGAGTTT
Found at i:20838108 original size:3 final size:3
Alignment explanation
Indices: 20838100--20838133 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
20838090 CATAGAAAAC
*
20838100 AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
20838134 AAGGAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20840641 original size:37 final size:36
Alignment explanation
Indices: 20840600--20840672 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
20840590 ATCAAAATGT
*
20840600 ATTAAAA-ATAAAAATAGATTTATAAACTCTAAAAATA
1 ATTAAAATATAAAAATA-ATTTATAAAAT-TAAAAATA
* *
20840637 ATTAAAATTTAAAGATAATTTATAAAATTAAAAATA
1 ATTAAAATATAAAAATAATTTATAAAATTAAAAATA
20840673 TAATTAGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 8 0.25
37 17 0.53
38 7 0.22
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (36 bp):
ATTAAAATATAAAAATAATTTATAAAATTAAAAATA
Found at i:20841074 original size:38 final size:39
Alignment explanation
Indices: 20841008--20841088 Score: 105
Period size: 38 Copynumber: 2.1 Consensus size: 39
20840998 AACATATTAG
*
20841008 AAAAAATTAAATTTTAAATTTAAAAAAAT-TTCTCATAGT
1 AAAAAATTAAATTTTAAATTTAAAAAAATATTCTAATA-T
*
20841047 AAAAAA-TAAATTTTAAATCTT-TAAAAATATTCTAATAT
1 AAAAAATTAAATTTTAAAT-TTAAAAAAATATTCTAATAT
20841085 AAAA
1 AAAA
20841089 CTTGAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
38 23 0.61
39 15 0.39
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (39 bp):
AAAAAATTAAATTTTAAATTTAAAAAAATATTCTAATAT
Found at i:20841256 original size:13 final size:13
Alignment explanation
Indices: 20841206--20841257 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
20841196 AACTTTCTAA
*
20841206 AATTTTTAATTAT
1 AATTTTTATTTAT
20841219 -ATTTTTATTTTAT
1 AATTTTTA-TTTAT
*
20841232 AAATTATT-TTTAT
1 -AATTTTTATTTAT
20841245 AATTTTTATTTAT
1 AATTTTTATTTAT
20841258 TCTCTTGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 13 0.41
13 14 0.44
15 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTTATTTAT
Found at i:20842126 original size:40 final size:39
Alignment explanation
Indices: 20842063--20842148 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
20842053 AAATATGTTT
** *
20842063 TTTTTATAAAATTTTATGGTTTTTA-ATTAATTTCTTATAA
1 TTTTTATAAAATTCAATGATTTTTATA-TAATTTC-TATAA
* *
20842103 TTTTTATAAAATTCAATGATTTTTTTATAATTTCTATAT
1 TTTTTATAAAATTCAATGATTTTTATATAATTTCTATAA
20842142 TTTTTAT
1 TTTTTAT
20842149 TTTTTTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 11 0.28
40 28 0.70
41 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (39 bp):
TTTTTATAAAATTCAATGATTTTTATATAATTTCTATAA
Found at i:20842158 original size:18 final size:18
Alignment explanation
Indices: 20842090--20842148 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 18
20842080 GGTTTTTAAT
*
20842090 TAATTTCTTATAATTTTTA
1 TAATTTC-TATATTTTTTA
* *
20842109 TAAAATTCAATGATTTTTTTA
1 T-AATTTCTAT-A-TTTTTTA
20842130 TAATTTCTATATTTTTTA
1 TAATTTCTATATTTTTTA
20842148 T
1 T
20842149 TTTTTTTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 8 0.25
19 4 0.12
20 13 0.41
21 7 0.22
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
TAATTTCTATATTTTTTA
Found at i:20845634 original size:89 final size:93
Alignment explanation
Indices: 20845522--20845701 Score: 224
Period size: 89 Copynumber: 2.0 Consensus size: 93
20845512 TAAAATTAGC
* * * * *
20845522 ATAATAGATAATTTAATCATCAACATTTATTAATTGTGTCAATTTAGT-CTTGATTCTAATAAA-
1 ATAATAGACAATTTAAACATCAACAGTTATTAATTATGTCAATTTAGTCCTTGATTCTAAAAAAC
* *
20845585 A-TTAATCTTCAACATTTACATATTGGA
66 ATTTAACCCTCAACATTTACATATTGGA
* * **
20845612 ATAATAG-CAATTTAAACCTCAACAGTTATTCATTATGTCAATTTTTTCCTTGATTCTAAAAAAC
1 ATAATAGACAATTTAAACATCAACAGTTATTAATTATGTCAATTTAGTCCTTGATTCTAAAAAAC
*
20845676 ATTTAACCCTCGACATTTACATATTG
66 ATTTAACCCTCAACATTTACATATTG
20845702 TGTAATTTGG
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
89 32 0.43
90 21 0.28
91 1 0.01
92 21 0.28
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (93 bp):
ATAATAGACAATTTAAACATCAACAGTTATTAATTATGTCAATTTAGTCCTTGATTCTAAAAAAC
ATTTAACCCTCAACATTTACATATTGGA
Found at i:20848813 original size:19 final size:18
Alignment explanation
Indices: 20848779--20848816 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
20848769 AAGGAAAATC
20848779 AAAAATGGAATAAAAGGG
1 AAAAATGGAATAAAAGGG
20848797 AAAAATGAGAA-ACAAAGGG
1 AAAAATG-GAATA-AAAGGG
20848816 A
1 A
20848817 GGTTTGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.63, C:0.03, G:0.26, T:0.08
Consensus pattern (18 bp):
AAAAATGGAATAAAAGGG
Found at i:20848873 original size:16 final size:16
Alignment explanation
Indices: 20848848--20848888 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
20848838 GTGAAAGGGA
*
20848848 GAAAGATGTGTAGAAT
1 GAAAGGTGTGTAGAAT
*
20848864 GAAAGGTGTGTTGAAT
1 GAAAGGTGTGTAGAAT
20848880 GAATAGGTG
1 GAA-AGGTG
20848889 AAGGGGGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (16 bp):
GAAAGGTGTGTAGAAT
Found at i:20853216 original size:35 final size:35
Alignment explanation
Indices: 20853165--20853322 Score: 230
Period size: 35 Copynumber: 4.5 Consensus size: 35
20853155 TACTCTCTGT
* *
20853165 TTGGCATGTTACGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
20853200 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
20853235 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
* * *
20853270 TTGG-GTGTT-TCAGTTGGATTAGCTATTATAAGCA
1 TTGGCGTGTTAT-GGTTGGATTAGCTCTTATGAGCA
* *
20853304 TCGGCATGTTATGGTTGGA
1 TTGGCGTGTTATGGTTGGA
20853323 CTGACGATGT
Statistics
Matches: 112, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
33 1 0.01
34 28 0.25
35 82 0.73
36 1 0.01
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.39
Consensus pattern (35 bp):
TTGGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
Found at i:20853315 original size:69 final size:70
Alignment explanation
Indices: 20853167--20853322 Score: 235
Period size: 69 Copynumber: 2.2 Consensus size: 70
20853157 CTCTCTGTTT
* * * *
20853167 GGCATGTTACGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTATGGTTGGATTAGCTCTTATGA
1 GGCATGTTATGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTATAGTTGGATTAGCTATTATAA
*
20853232 GCATT
66 GCATC
*
20853237 GGCGTGTTATGGTTGGATTAGCTCTTATGAGCATTGG-GTGTT-TCAGTTGGATTAGCTATTATA
1 GGCATGTTATGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTAT-AGTTGGATTAGCTATTATA
20853300 AGCATC
65 AGCATC
20853306 GGCATGTTATGGTTGGA
1 GGCATGTTATGGTTGGA
20853323 CTGACGATGT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
68 1 0.01
69 42 0.54
70 35 0.45
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (70 bp):
GGCATGTTATGGTTGGATTAGCTCTTATGAGCATTGGCGTGTTATAGTTGGATTAGCTATTATAA
GCATC
Found at i:20859378 original size:19 final size:21
Alignment explanation
Indices: 20859346--20859384 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
20859336 ATTAATTAAA
20859346 AGTAAATATGTTAATAATTTG
1 AGTAAATATGTTAATAATTTG
*
20859367 AGTAAA-AT-TTAATTATTT
1 AGTAAATATGTTAATAATTT
20859385 TATAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (21 bp):
AGTAAATATGTTAATAATTTG
Found at i:20864265 original size:24 final size:23
Alignment explanation
Indices: 20864237--20864301 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
20864227 AAAGTCGAGA
20864237 GAAAATGAACAAGAGAAA-AAGAAT
1 GAAAATGAACAAGA-AAAGAA-AAT
*
20864261 GAAAAAGAACAAGAAAAGGAAAAT
1 GAAAATGAACAAGAAAA-GAAAAT
*
20864285 GAAAATGAA-AAAAAAAG
1 GAAAATGAACAAGAAAAG
20864302 TGAAAGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 1 0.03
23 9 0.25
24 24 0.67
25 2 0.06
ACGTcount: A:0.71, C:0.03, G:0.20, T:0.06
Consensus pattern (23 bp):
GAAAATGAACAAGAAAAGAAAAT
Found at i:20864311 original size:11 final size:12
Alignment explanation
Indices: 20864271--20864328 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 12
20864261 GAAAAAGAAC
20864271 AAGAAAAG-GAA
1 AAGAAAAGTGAA
20864282 AATGAAAA-TGAA
1 AA-GAAAAGTGAA
*
20864294 AAAAAAAGTG-A
1 AAGAAAAGTGAA
*
20864305 AAGAAAAGAGAA
1 AAGAAAAGTGAA
20864317 AGAGAAAGAGTG
1 A-AGAAA-AGTG
20864329 CAAGTAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
11 15 0.41
12 14 0.38
13 5 0.14
14 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (12 bp):
AAGAAAAGTGAA
Found at i:20866763 original size:43 final size:43
Alignment explanation
Indices: 20866700--20866821 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 43
20866690 TACAATCCCT
20866700 ACGTCCCAGACGAGGTCTTACATGTAATCAAATATCGATGCC-
1 ACGTCCCAGACGAGGTCTTACATGTAATCAAATATCGATGCCA
* *
20866742 ACTGTCCCAGAC-AGGGTCTTACACGTAAATCTCAAT-TCGATGCCA
1 AC-GTCCCAGACGA-GGTCTTACATGT-AATC-AAATATCGATGCCA
* * *
20866787 ACGTCTCAGACGTA-GTCTTACATGAAATCACATAT
1 ACGTCCCAGACG-AGGTCTTACATGTAATCAAATAT
20866822 TGGAATCCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
42 5 0.08
43 25 0.38
44 29 0.45
45 5 0.08
46 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ACGTCCCAGACGAGGTCTTACATGTAATCAAATATCGATGCCA
Found at i:20868981 original size:70 final size:72
Alignment explanation
Indices: 20868867--20869017 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
20868857 GGGGAATCAT
* *
20868867 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
20868931 GATATCG
66 GATATCG
***
20868938 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
20869002 GATATCG
66 GATATCG
20869009 CACTTAGCA
1 CACTTAGCA
20869018 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:20869121 original size:104 final size:103
Alignment explanation
Indices: 20868937--20869159 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
20868927 AATGGATATC
20868937 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
20869002 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
20869040 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
20869105 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
20869144 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
20869160 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:20869521 original size:29 final size:29
Alignment explanation
Indices: 20869488--20869551 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
20869478 TAATCCACCA
20869488 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
20869517 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
20869547 CCCAA
1 CCCAA
20869552 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:20869525 original size:30 final size:30
Alignment explanation
Indices: 20869495--20869551 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20869485 CCACCCAACT
20869495 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
20869524 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
20869552 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:20876614 original size:104 final size:104
Alignment explanation
Indices: 20876492--20876715 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
20876482 AATGGATATC
20876492 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
20876557 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
20876596 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
20876661 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
20876700 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
20876716 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:20877077 original size:29 final size:29
Alignment explanation
Indices: 20877044--20877107 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
20877034 TAATCCACCA
20877044 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
20877073 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
20877103 CCCAA
1 CCCAA
20877108 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:20877081 original size:30 final size:30
Alignment explanation
Indices: 20877051--20877107 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20877041 CCACCCAACT
20877051 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
20877080 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
20877108 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:20882175 original size:84 final size:85
Alignment explanation
Indices: 20882067--20882247 Score: 242
Period size: 84 Copynumber: 2.1 Consensus size: 85
20882057 ACTGGCACAC
* * *
20882067 ACTGGCACACGAAGTGCATCATCAGATATA-CCAAAGCAACTATACTAGTACACGCAGTGCATCA
1 ACTGGCACAC-AAGTGCATCATCAGATA-AGCCAAAGCAACTATACTAGCACACACAGTGCACCA
* *
20882131 -TAGGATAAACTGAACCATCTAT
64 TTA-GATAAACCGAACAATCTAT
* *
20882153 ATTGGCACACAA-TGCATCATCAGATAAGCCAAAGCAACTATACTAGCACACACATTGCACCATT
1 ACTGGCACACAAGTGCATCATCAGATAAGCCAAAGCAACTATACTAGCACACACAGTGCACCATT
*
20882217 AGATAAACCGAAGAATCTAT
66 AGATAAACCGAACAATCTAT
20882237 ACTGGCACACA
1 ACTGGCACACA
20882248 CAATATATCT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
83 1 0.01
84 70 0.83
85 4 0.05
86 9 0.11
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (85 bp):
ACTGGCACACAAGTGCATCATCAGATAAGCCAAAGCAACTATACTAGCACACACAGTGCACCATT
AGATAAACCGAACAATCTAT
Found at i:20882179 original size:41 final size:42
Alignment explanation
Indices: 20882067--20882249 Score: 147
Period size: 43 Copynumber: 4.3 Consensus size: 42
20882057 ACTGGCACAC
* * * *
20882067 ACTGGCACACGA-AGTGCATCATCAGATATACCAAAGCAACTAT
1 ACTGGCACAC-ACATTGCATCAT-AGATAAACCGAAGCATCTAT
* * * * * *
20882110 ACTAGTACACGCAGTGCATCATAGGATAAACTGAACCATCTAT
1 ACTGGCACACACATTGCATCATA-GATAAACCGAAGCATCTAT
* * * *
20882153 ATTGGCACACA-A-TGCATCATCAGATAAGCCAAAGCAACTAT
1 ACTGGCACACACATTGCATCAT-AGATAAACCGAAGCATCTAT
* * *
20882194 ACTAGCACACACATTGCACCATTAGATAAACCGAAGAATCTAT
1 ACTGGCACACACATTGCATCA-TAGATAAACCGAAGCATCTAT
20882237 ACTGGCACACACA
1 ACTGGCACACACA
20882250 ATATATCTTC
Statistics
Matches: 109, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
41 31 0.28
42 4 0.04
43 73 0.67
44 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.20
Consensus pattern (42 bp):
ACTGGCACACACATTGCATCATAGATAAACCGAAGCATCTAT
Found at i:20885533 original size:20 final size:20
Alignment explanation
Indices: 20885491--20885543 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
20885481 TTTTTAGGTC
*
20885491 TATT-CGATTTA-TCTAACT
1 TATTACGATTTAGTCCAACT
*
20885509 TATTACGATTTAGTCCAATT
1 TATTACGATTTAGTCCAACT
*
20885529 TATTATGATTTAGTC
1 TATTACGATTTAGTC
20885544 ATTTGTACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 4 0.13
19 7 0.23
20 19 0.63
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.49
Consensus pattern (20 bp):
TATTACGATTTAGTCCAACT
Found at i:20889748 original size:35 final size:35
Alignment explanation
Indices: 20889659--20889748 Score: 99
Period size: 35 Copynumber: 2.6 Consensus size: 35
20889649 CTATAGGCTT
* * * *
20889659 TACGGAGCGACACCATGGAAATGGTCTATAGGGGC
1 TACGGAGCGACACCATGAAAATGGTCTACAAGCGC
* * *
20889694 TACGGAGTGACACAATGAAAATGGTCTACAAGCTC
1 TACGGAGCGACACCATGAAAATGGTCTACAAGCGC
* *
20889729 TATGGAGCGACACCTTGAAA
1 TACGGAGCGACACCATGAAA
20889749 GAGGTTTACT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (35 bp):
TACGGAGCGACACCATGAAAATGGTCTACAAGCGC
Found at i:20895348 original size:5 final size:5
Alignment explanation
Indices: 20895338--20895371 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
20895328 ATATCAAAAT
*
20895338 TATAA TATAA TATAA TATAA TATAA -ATAT TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA
20895372 ACAATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Done.