Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 22 of 332
Found at i:6265065 original size:21 final size:21
Alignment explanation
Indices: 6265039--6265081 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6265029 ATGCAAATTT
*
6265039 CGAAACTTTACCAAGTAGTGC
1 CGAAACTTTACCAAATAGTGC
6265060 CGAAACTTTACCAAATAGTGC
1 CGAAACTTTACCAAATAGTGC
6265081 C
1 C
6265082 ACTGAGCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (21 bp):
CGAAACTTTACCAAATAGTGC
Found at i:6267389 original size:35 final size:35
Alignment explanation
Indices: 6267342--6267411 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
6267332 TTATATAATT
*
6267342 CATGTACGTACCTGTATCATTTAACATCAAACTCA
1 CATGTACATACCTGTATCATTTAACATCAAACTCA
6267377 CATGTACATACCTGTATCATTTAACATCAAACTCA
1 CATGTACATACCTGTATCATTTAACATCAAACTCA
6267412 TACACATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (35 bp):
CATGTACATACCTGTATCATTTAACATCAAACTCA
Found at i:6268504 original size:21 final size:21
Alignment explanation
Indices: 6268480--6268521 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6268470 GAGTACAATT
6268480 ATCATAATTAAGCGGAGTTAA
1 ATCATAATTAAGCGGAGTTAA
6268501 ATCATAATTAAGCGGAGTTAA
1 ATCATAATTAAGCGGAGTTAA
6268522 TTGCGAGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
ATCATAATTAAGCGGAGTTAA
Found at i:6269475 original size:17 final size:17
Alignment explanation
Indices: 6269453--6269487 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6269443 ATCACAAATT
*
6269453 AATGAAATTCAAAATAA
1 AATGAAATTAAAAATAA
6269470 AATGAAATTAAAAATAA
1 AATGAAATTAAAAATAA
6269487 A
1 A
6269488 CACATGCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (17 bp):
AATGAAATTAAAAATAA
Found at i:6273483 original size:30 final size:30
Alignment explanation
Indices: 6273416--6273483 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
6273406 ATCAGTTAGC
*
6273416 TATTACAACCATTCAACAAAACAAAAAAAT
1 TATTACAACAATTCAACAAAACAAAAAAAT
* * * *
6273446 TACTACAACAATTCAAGAAAACACACAAAT
1 TATTACAACAATTCAACAAAACAAAAAAAT
*
6273476 TGTTACAA
1 TATTACAA
6273484 TCAGTCAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (30 bp):
TATTACAACAATTCAACAAAACAAAAAAAT
Found at i:6273721 original size:15 final size:16
Alignment explanation
Indices: 6273690--6273722 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6273680 CCTTTCTACC
*
6273690 ATTTAAATATTATTAT
1 ATTTAAATATAATTAT
6273706 ATTTAAATA-AATTAT
1 ATTTAAATATAATTAT
6273721 AT
1 AT
6273723 GCTAATGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTAAATATAATTAT
Found at i:6274259 original size:31 final size:31
Alignment explanation
Indices: 6274221--6274279 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
6274211 AGAAATAGAT
*
6274221 ACATGTGGCAAAGAGAGTAATTTTTTAGCAA
1 ACATGTGGCAAAGAAAGTAATTTTTTAGCAA
*
6274252 ACATGTGGTAAAGAAAGTAATTTTTTAG
1 ACATGTGGCAAAGAAAGTAATTTTTTAG
6274280 TAAATATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (31 bp):
ACATGTGGCAAAGAAAGTAATTTTTTAGCAA
Found at i:6280291 original size:21 final size:21
Alignment explanation
Indices: 6280267--6280307 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6280257 ACCTTTTCTA
*
6280267 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGACAAAACTATT
6280288 AAGTTAAAAGACAAAACTAT
1 AAGTTAAAAGACAAAACTAT
6280308 GTTGTTTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (21 bp):
AAGTTAAAAGACAAAACTATT
Found at i:6280942 original size:10 final size:10
Alignment explanation
Indices: 6280922--6280967 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
6280912 TCTTAACAAA
6280922 AATTATAAAAT
1 AATT-TAAAAT
6280933 AATTTAAAAT
1 AATTTAAAAT
*
6280943 AATTTTCAAA-
1 AA-TTTAAAAT
6280953 AATTTAAAAT
1 AATTTAAAAT
6280963 AATTT
1 AATTT
6280968 TTAAAATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 6 0.19
10 15 0.48
11 10 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:6280958 original size:20 final size:19
Alignment explanation
Indices: 6280933--6280994 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
6280923 ATTATAAAAT
6280933 AATTTAAAATAATTTTCAAA
1 AATTTAAAATAATTTT-AAA
*
6280953 AATTTAAAATAATTTTTAA
1 AATTTAAAATAATTTTAAA
*
6280972 AATTCAAAAT-ATTTATAAA
1 AATTTAAAATAATTT-TAAA
6280991 AATT
1 AATT
6280995 CCAAAATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.11
19 18 0.47
20 16 0.42
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTAAAATAATTTTAAA
Found at i:6280975 original size:19 final size:19
Alignment explanation
Indices: 6280933--6280991 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
6280923 ATTATAAAAT
*
6280933 AATTTAAAATAATTTTCAAA
1 AATTTAAAATAATTTT-TAA
6280953 AATTTAAAATAATTTTTAA
1 AATTTAAAATAATTTTTAA
* *
6280972 AATTCAAAAT-ATTTATAA
1 AATTTAAAATAATTTTTAA
6280990 AA
1 AA
6280992 ATTCCAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 9 0.25
19 11 0.31
20 16 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTTAAAATAATTTTTAA
Found at i:6281008 original size:20 final size:19
Alignment explanation
Indices: 6280950--6281006 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
6280940 AATAATTTTC
*
6280950 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
6280969 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
6280988 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
6281006 A
1 A
6281007 TATTTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:6281038 original size:17 final size:18
Alignment explanation
Indices: 6281008--6281044 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6280998 AAATTTATAT
6281008 ATTTTTTTAAAAATTCTAA
1 ATTTTTTT-AAAATTCTAA
6281027 ATTTTTTT-AAATTCTAA
1 ATTTTTTTAAAATTCTAA
6281044 A
1 A
6281045 AAATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTTTAAAATTCTAA
Found at i:6282729 original size:10 final size:10
Alignment explanation
Indices: 6282714--6282759 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
6282704 AACTCACTTG
6282714 AGCTCGTTTC
1 AGCTCGTTTC
*
6282724 AGCTCGTTTG
1 AGCTCGTTTC
* *
6282734 AGCTTGATTTT
1 AGCTCG-TTTC
6282745 AGCTCGTTTC
1 AGCTCGTTTC
6282755 AGCTC
1 AGCTC
6282760 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:6282750 original size:21 final size:20
Alignment explanation
Indices: 6282711--6282759 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
6282701 ATCAACTCAC
6282711 TTGAGCTCGTTTCAGCTCGT
1 TTGAGCTCGTTTCAGCTCGT
* *
6282731 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTCG-TTTCAGCTCGT
*
6282752 TTCAGCTC
1 TTGAGCTC
6282760 ATTCCTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGAGCTCGTTTCAGCTCGT
Found at i:6284249 original size:33 final size:31
Alignment explanation
Indices: 6284201--6284264 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
6284191 GAGGTATTAA
* *
6284201 AAAAAAGTACGAAATTTCAAAGAAAAAAAGAAG
1 AAAAAAGTAC-AAAATT-AAAAAAAAAAAGAAG
*
6284234 AAAAAAGTTCAAAATTAAAAAAAAAAAGAAG
1 AAAAAAGTACAAAATTAAAAAAAAAAAGAAG
6284265 TGATCAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 14 0.50
32 5 0.18
33 9 0.32
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.12
Consensus pattern (31 bp):
AAAAAAGTACAAAATTAAAAAAAAAAAGAAG
Found at i:6287468 original size:20 final size:21
Alignment explanation
Indices: 6287445--6287492 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6287435 TCAGCTCTAG
6287445 TCAGCTCACTTGAGCTTG-TT
1 TCAGCTCACTTGAGCTTGATT
**
6287465 TCAGCTCGTTTGAGCTTGATT
1 TCAGCTCACTTGAGCTTGATT
*
6287486 TTAGCTC
1 TCAGCTC
6287493 GTTTCAGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (21 bp):
TCAGCTCACTTGAGCTTGATT
Found at i:6287493 original size:21 final size:20
Alignment explanation
Indices: 6287454--6287501 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
6287444 GTCAGCTCAC
6287454 TTGAGCTTGTTTCAGCTCGT
1 TTGAGCTTGTTTCAGCTCGT
*
6287474 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTTG-TTTCAGCTCGT
*
6287495 TTCAGCT
1 TTGAGCT
6287502 CATTCCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (20 bp):
TTGAGCTTGTTTCAGCTCGT
Found at i:6300641 original size:9 final size:9
Alignment explanation
Indices: 6300627--6300656 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6300617 AAACGAACTG
6300627 AGTTATTCA
1 AGTTATTCA
*
6300636 AGTTATTCG
1 AGTTATTCA
6300645 AGTTATTCA
1 AGTTATTCA
6300654 AGT
1 AGT
6300657 CAACTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (9 bp):
AGTTATTCA
Found at i:6300710 original size:52 final size:52
Alignment explanation
Indices: 6300632--6300738 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
6300622 AACTGAGTTA
6300632 TTCAAGTTATTCGAGTTATTCAAGTCAACTTAAATTTTTTTCAAATTTCGAG
1 TTCAAGTTATTCGAGTTATTCAAGTCAACTTAAATTTTTTTCAAATTTCGAG
* *
6300684 TTCAAGTTATTCGAGTTATTCGAGTCAACTTGAATTTTTTTCAAATTTCGAG
1 TTCAAGTTATTCGAGTTATTCAAGTCAACTTAAATTTTTTTCAAATTTCGAG
6300736 TTC
1 TTC
6300739 GGATCGAGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (52 bp):
TTCAAGTTATTCGAGTTATTCAAGTCAACTTAAATTTTTTTCAAATTTCGAG
Found at i:6301101 original size:18 final size:19
Alignment explanation
Indices: 6301078--6301138 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
6301068 ACTTTCCTTA
6301078 TTTACTTTCCCTCAAAA-T
1 TTTACTTTCCCTCAAAACT
6301096 TTTAC--TCCC-CAAAACTT
1 TTTACTTTCCCTCAAAAC-T
*
6301113 TTTA-TTTCCTTCATAAACT
1 TTTACTTTCCCTCA-AAACT
6301132 TTTACTT
1 TTTACTT
6301139 CTCACCTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
15 5 0.14
16 4 0.11
17 5 0.14
18 8 0.23
19 7 0.20
20 6 0.17
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTACTTTCCCTCAAAACT
Found at i:6302701 original size:84 final size:84
Alignment explanation
Indices: 6302601--6302793 Score: 377
Period size: 84 Copynumber: 2.3 Consensus size: 84
6302591 TGTCTTCTGA
6302601 TCAACTTGCTAAGGAGCTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
1 TCAACTTGCTAAGGAGCTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
*
6302666 AAACTCCCCAATCATCTTC
66 AAACTCCCCAATCATCCTC
6302685 TCAACTTGCTAAGGAGCTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
1 TCAACTTGCTAAGGAGCTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
6302750 AAACTCCCCAATCATCCTC
66 AAACTCCCCAATCATCCTC
6302769 TCAACTTGCTAAGGAGCTGGAGGAT
1 TCAACTTGCTAAGGAGCTGGAGGAT
6302794 TCCGGTTACA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 108 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (84 bp):
TCAACTTGCTAAGGAGCTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
AAACTCCCCAATCATCCTC
Found at i:6303546 original size:29 final size:29
Alignment explanation
Indices: 6303513--6303581 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
6303503 AATTCCCAAT
*
6303513 GAACAAGTTCTTCATCGTGAACATTCAAC
1 GAACAAGTTCTTCATCGTGAACACTCAAC
*
6303542 GAACAAATTCTTCATCGTGAACACTCAAC
1 GAACAAGTTCTTCATCGTGAACACTCAAC
6303571 GAACAAGTTCT
1 GAACAAGTTCT
6303582 CCACCTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (29 bp):
GAACAAGTTCTTCATCGTGAACACTCAAC
Found at i:6305945 original size:50 final size:49
Alignment explanation
Indices: 6305890--6306031 Score: 158
Period size: 50 Copynumber: 2.8 Consensus size: 49
6305880 AATCTTATAC
* * *
6305890 ATATCGATGCCGATGTCATATTCCAGATATGGTCTTACACTGGCTCTCAT
1 ATATCGATGCCGATGCCAT-TTCCAGACATGGTCATACACTGGCTCTCAT
* * *
6305940 ATATCGAGGCCGATGCCATGTCCTAGACATGGTCATACACTAGCTCTCAT
1 ATATCGATGCCGATGCCATTTCC-AGACATGGTCATACACTGGCTCTCAT
* * * * *
6305990 CTGTTGGTGCCGATGCCATGTCCCAGACATGGTCATACACTG
1 ATATCGATGCCGATGCCAT-TTCCAGACATGGTCATACACTG
6306032 ACACATATCA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.04
50 71 0.93
51 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
ATATCGATGCCGATGCCATTTCCAGACATGGTCATACACTGGCTCTCAT
Found at i:6306066 original size:45 final size:45
Alignment explanation
Indices: 6306002--6306214 Score: 266
Period size: 45 Copynumber: 4.6 Consensus size: 45
6305992 GTTGGTGCCG
*
6306002 ATGCCATGTCCCAGACATGGTCATACACTGACACATATCAAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCA
*
6306047 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCA
* * * * ** *
6306092 ATTCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTGTCGGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACA--TATC-AAGCCA
* * *
6306141 ATGCCATGTCCCAGGCATGATCTTACACTGACACATATCAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCA
6306186 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
6306215 AGCTCACATA
Statistics
Matches: 142, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
44 10 0.07
45 92 0.65
46 6 0.04
48 6 0.04
49 19 0.13
50 9 0.06
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCA
Found at i:6306165 original size:94 final size:95
Alignment explanation
Indices: 6306047--6306219 Score: 294
Period size: 94 Copynumber: 1.8 Consensus size: 95
6306037 TATCAAGCCA
* * *
6306047 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCTAATTCCATGTCCCAGACAT-G
1 ATGCCATGTCCCAGACATGATCTTACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGG
6306111 TCTTACACTAGCTCTCATCTGTCGGTGCCG
66 TCTTACACTAGCTCTCATCTGTCGGTGCCG
* *
6306141 ATGCCATGTCCCAGGCATGATCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACATGG
1 ATGCCATGTCCCAGACATGATCTTACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGG
6306206 TCTTACACTAGCTC
66 TCTTACACTAGCTC
6306220 ACATAACAGC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
94 58 0.79
95 15 0.21
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGATCTTACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGG
TCTTACACTAGCTCTCATCTGTCGGTGCCG
Found at i:6306168 original size:139 final size:140
Alignment explanation
Indices: 6305955--6306214 Score: 450
Period size: 139 Copynumber: 1.9 Consensus size: 140
6305945 GAGGCCGATG
* *
6305955 CCATGTCCTAGACATGGTCATACACTAGCTCTCATCTGTTGGTGCCGATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCATACACTAGCTCTCATCTGTCGGTGCCGATGCCATGTCCCAGACAT
*
6306020 GGTCATACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATAT
66 GATCATACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATAT
6306085 CAAGCTAATT
131 CAAGCTAATT
* *
6306095 CCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTGTCGGTGCCGATGCCATGTCCCAGGCAT
1 CCATGTCCCAGACATGGTCATACACTAGCTCTCATCTGTCGGTGCCGATGCCATGTCCCAGACAT
* *
6306159 GATCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTACACT
66 GATCATACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGGTCTTACACT
6306215 AGCTCACATA
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
139 99 0.88
140 14 0.12
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (140 bp):
CCATGTCCCAGACATGGTCATACACTAGCTCTCATCTGTCGGTGCCGATGCCATGTCCCAGACAT
GATCATACACTGACACATATCAAGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATAT
CAAGCTAATT
Found at i:6308244 original size:18 final size:18
Alignment explanation
Indices: 6308223--6308352 Score: 71
Period size: 18 Copynumber: 6.7 Consensus size: 18
6308213 TAATAGTCAG
*
6308223 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
6308241 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
6308259 TTATTCAGTATCAATCAA
1 TTATTCAGTAACAATCAA
*
6308277 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
* * *
6308303 CTATTCAGTAAAAATAAA
1 TTATTCAGTAACAATCAA
* * *
6308321 ATATACAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
6308340 TTATTCAGTAACA
1 TTATTCAGTAACA
6308353 GTCGATCTTT
Statistics
Matches: 84, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
18 51 0.61
19 17 0.20
20 1 0.01
24 1 0.01
25 2 0.02
26 12 0.14
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:6308348 original size:19 final size:19
Alignment explanation
Indices: 6308304--6308352 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
6308294 AACAGTCAAC
6308304 TATTCAGTAA-AAATAAAA
1 TATTCAGTAACAAATAAAA
* * *
6308322 TATACAGTAACAATTAAAT
1 TATTCAGTAACAAATAAAA
6308341 TATTCAGTAACA
1 TATTCAGTAACA
6308353 GTCGATCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (19 bp):
TATTCAGTAACAAATAAAA
Found at i:6308533 original size:47 final size:47
Alignment explanation
Indices: 6308474--6308586 Score: 158
Period size: 47 Copynumber: 2.4 Consensus size: 47
6308464 CCGGAACAGT
* *
6308474 AACAATAACAGTACGGTACACAGAGTACCTCATC-GAAACAAA-TCTGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAAA-AAATTC-GA
*
6308521 AACAGTAACAGTACGGTACGCAGAGTACCTCATCGGAAAAAATTCGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAAAAAATTCGA
6308568 AACAGTAACAGTAACGGTA
1 AACAGTAACAGT-ACGGTA
6308587 ACAATAACAA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
47 48 0.80
48 12 0.20
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.17
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAAAAAATTCGA
Found at i:6308638 original size:12 final size:12
Alignment explanation
Indices: 6308621--6308645 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6308611 AGTGCCGAAT
6308621 CGGTAACAGTAA
1 CGGTAACAGTAA
6308633 CGGTAACAGTAA
1 CGGTAACAGTAA
6308645 C
1 C
6308646 AGTAGTCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:6311341 original size:20 final size:22
Alignment explanation
Indices: 6311318--6311358 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
6311308 TTGTCAATTG
*
6311318 AAAGTTTA-TGATAGA-AAATA
1 AAAGGTTATTGATAGAGAAATA
6311338 AAAGGTTATTGATAGAGAAAT
1 AAAGGTTATTGATAGAGAAAT
6311359 CACTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (22 bp):
AAAGGTTATTGATAGAGAAATA
Found at i:6322918 original size:23 final size:23
Alignment explanation
Indices: 6322831--6322958 Score: 98
Period size: 23 Copynumber: 5.3 Consensus size: 23
6322821 CGGACTCACC
6322831 TCAGCTCGTATGAGCTTACTGATATA
1 TCAGCTCGTA-GAGCTTACTG-T-TA
* * *
6322857 TCAACTCGTAATAGCTTACTGTTC
1 TCAGCTCGT-AGAGCTTACTGTTA
* *
6322881 TCATCTCGCATGAGCTTACTGTT-
1 TCAGCTCGTA-GAGCTTACTGTTA
6322904 TCAGCTCGTTAGAGCTTACTGTT-
1 TCAGCTCG-TAGAGCTTACTGTTA
* * *
6322927 TCAGCTCAATGGAGCTTACTGTCCA
1 TCAGCTC-GTAGAGCTTACTGT-TA
6322952 TCAGCTC
1 TCAGCTC
6322959 AGGAGGAGCT
Statistics
Matches: 85, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
23 39 0.46
24 20 0.24
25 8 0.09
26 17 0.20
27 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (23 bp):
TCAGCTCGTAGAGCTTACTGTTA
Found at i:6328914 original size:28 final size:28
Alignment explanation
Indices: 6328859--6328914 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
6328849 ATGTATTTGA
* *
6328859 ACTAACAATTTCAGCCAAAATTACTAAT
1 ACTAACAATCTCAGCCAAAATTAATAAT
*
6328887 ACTAACCAATCTCAGCCAACA-TAATAAT
1 ACTAA-CAATCTCAGCCAAAATTAATAAT
6328915 TTTGATAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (28 bp):
ACTAACAATCTCAGCCAAAATTAATAAT
Found at i:6330875 original size:23 final size:24
Alignment explanation
Indices: 6330794--6330909 Score: 114
Period size: 23 Copynumber: 4.8 Consensus size: 24
6330784 TGGACTCACC
6330794 TCAGCTCGTATGAGCTTACTGATATA
1 TCAGCTCGTATGAGCTTACT-AT-TA
* * * *
6330820 TCAACTCGTAAGAGCTTACTGTTC
1 TCAGCTCGTATGAGCTTACTATTA
*
6330844 CCAGCTCGTATGAGCTTACTATT-
1 TCAGCTCGTATGAGCTTACTATTA
6330867 TCAGCTCGT-TAGAGCTTACTATT-
1 TCAGCTCGTAT-GAGCTTACTATTA
*
6330890 TCAGCTC-AATGGAGCTTACT
1 TCAGCTCGTAT-GAGCTTACT
6330910 GTCCATCAGC
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.01
23 37 0.48
24 20 0.26
25 1 0.01
26 18 0.23
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (24 bp):
TCAGCTCGTATGAGCTTACTATTA
Found at i:6332224 original size:3 final size:3
Alignment explanation
Indices: 6332216--6332248 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6332206 TATTATGTTA
6332216 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6332249 ATTTTATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6350889 original size:17 final size:17
Alignment explanation
Indices: 6350850--6350881 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6350840 AGAATTTATG
6350850 ATAATTATACATTTAAA
1 ATAATTATACATTTAAA
6350867 ATAATTATA-ATTTAA
1 ATAATTATACATTTAA
6350882 TAGAAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATTATACATTTAAA
Found at i:6350933 original size:17 final size:18
Alignment explanation
Indices: 6350892--6350938 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
6350882 TAGAAATTGT
*
6350892 TATAATTATATATTTAAA
1 TATATTTATATATTTAAA
*
6350910 TATATTTATATTTTTAAA
1 TATATTTATATATTTAAA
6350928 -ATATTTA-ATAT
1 TATATTTATATAT
6350939 AAATATCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 3 0.12
17 7 0.27
18 16 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTTATATATTTAAA
Found at i:6353829 original size:30 final size:29
Alignment explanation
Indices: 6353792--6353877 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 29
6353782 CAATTAATTA
6353792 ATTTTAAATTTTCAAAAAATTA-TATAAAAT
1 ATTTTAAATTTT-AAAAAATTATTA-AAAAT
6353822 -TTATTAAATTTAATAAAAAA-TATTAAAAAT
1 ATT-TTAAATTT--TAAAAAATTATTAAAAAT
*
6353852 ATTTTAATTTTTAAAAAATTAATTAA
1 ATTTTAAATTTTAAAAAATT-ATTAA
6353878 TTGTCAACAT
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
28 7 0.15
29 3 0.06
30 27 0.56
31 10 0.21
32 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTTTAAATTTTAAAAAATTATTAAAAAT
Found at i:6354761 original size:9 final size:9
Alignment explanation
Indices: 6354747--6354783 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
6354737 TTGTTATTTT
6354747 AAATTTTAA
1 AAATTTTAA
6354756 AAATTTT--
1 AAATTTTAA
6354763 AAATTTTAA
1 AAATTTTAA
*
6354772 AAATTATAA
1 AAATTTTAA
6354781 AAA
1 AAA
6354784 AAATTAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
7 7 0.28
9 18 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAATTTTAA
Found at i:6354763 original size:16 final size:16
Alignment explanation
Indices: 6354742--6354781 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
6354732 CTGTATTGTT
6354742 ATTTTAAATTTTAAAA
1 ATTTTAAATTTTAAAA
6354758 ATTTTAAATTTTAAAA
1 ATTTTAAATTTTAAAA
*
6354774 ATTATAAA
1 ATTTTAAA
6354782 AAAAATTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTTAAATTTTAAAA
Found at i:6357040 original size:17 final size:18
Alignment explanation
Indices: 6357015--6357052 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
6357005 TTTAGTTTTA
*
6357015 TTTATTTTTCA-AATAAT
1 TTTAATTTTCATAATAAT
*
6357032 TTTAATTTTCATAATACT
1 TTTAATTTTCATAATAAT
6357050 TTT
1 TTT
6357053 TAAGCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATTTTCATAATAAT
Found at i:6359607 original size:34 final size:34
Alignment explanation
Indices: 6359540--6359607 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
6359530 GCATATCTGA
* * *
6359540 TACTGAAACTGAAATGGGCTAAAGTCCTAACTGC
1 TACTGAAACTGAAATAGGCTAAAGCCCGAACTGC
* * *
6359574 TACTGAAACTGAAATAGGCTTAGGCCCGGACTGC
1 TACTGAAACTGAAATAGGCTAAAGCCCGAACTGC
6359608 ATTTGACTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (34 bp):
TACTGAAACTGAAATAGGCTAAAGCCCGAACTGC
Found at i:6366244 original size:18 final size:18
Alignment explanation
Indices: 6366219--6366261 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6366209 TTGGGCCGTA
*
6366219 TGAG-CCACACGGGCGTG
1 TGAGCCCACACGGGCATG
* *
6366236 TGGGCCCACATGGGCATG
1 TGAGCCCACACGGGCATG
6366254 TGAGCCCA
1 TGAGCCCA
6366262 GTTAACTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.19, C:0.30, G:0.37, T:0.14
Consensus pattern (18 bp):
TGAGCCCACACGGGCATG
Found at i:6366774 original size:34 final size:34
Alignment explanation
Indices: 6366736--6366803 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
6366726 GCATATCTGA
*
6366736 TACTGAAACTGAAATTGGCTAAGGCCCGAACTGC
1 TACTGAAACTGAAATGGGCTAAGGCCCGAACTGC
* *
6366770 TACTGAAACTGAAATGGGCTTAGGCCCGGACTGC
1 TACTGAAACTGAAATGGGCTAAGGCCCGAACTGC
6366804 ATTTGACTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
TACTGAAACTGAAATGGGCTAAGGCCCGAACTGC
Found at i:6371221 original size:145 final size:145
Alignment explanation
Indices: 6370958--6371252 Score: 545
Period size: 145 Copynumber: 2.0 Consensus size: 145
6370948 TTTTTCAAAG
*
6370958 ATATTGTTGAAGAAGGTGATCCTGTTTGTCATTTGCAGCCAGGGAAGCTTTATGTTGTTGCTTTC
1 ATATTGTTGAAGAAGGTGATCCTGTTTGTCATTTGCAGCCAGGGAAGCTTTATGCTGTTGCTTTC
6371023 TCTTTGGATGACTGCTGCAACTACAACCCCTCCGTGATATGATTCTAGGCTGAGATCCTGCATCA
66 TCTTTGGATGACTGCTGCAACTACAACCCCTCCGTGATATGATTCTAGGCTGAGATCCTGCATCA
6371088 GCAATAACTTATATT
131 GCAATAACTTATATT
* *
6371103 ATATTGTTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCATGGAAGCTTTATGCTGTTGCTTTC
1 ATATTGTTGAAGAAGGTGATCCTGTTTGTCATTTGCAGCCAGGGAAGCTTTATGCTGTTGCTTTC
* *
6371168 TCTTTGGATGACTGCTGCAACTACAACCCCTCTGTGATATGATTCTGGGCTGAGATCCTGCATCA
66 TCTTTGGATGACTGCTGCAACTACAACCCCTCCGTGATATGATTCTAGGCTGAGATCCTGCATCA
6371233 GCAATAACTTATATT
131 GCAATAACTTATATT
6371248 ATATT
1 ATATT
6371253 ATATATTATG
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (145 bp):
ATATTGTTGAAGAAGGTGATCCTGTTTGTCATTTGCAGCCAGGGAAGCTTTATGCTGTTGCTTTC
TCTTTGGATGACTGCTGCAACTACAACCCCTCCGTGATATGATTCTAGGCTGAGATCCTGCATCA
GCAATAACTTATATT
Found at i:6375653 original size:20 final size:20
Alignment explanation
Indices: 6375628--6375674 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
6375618 ATTCAAACAT
*
6375628 AAGTGACTAAAATTTAAAAA
1 AAGTGACTAAAATGTAAAAA
*
6375648 AAGTGACTAAAATGTAACAA
1 AAGTGACTAAAATGTAAAAA
6375668 AAGTGAC
1 AAGTGAC
6375675 AATTTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (20 bp):
AAGTGACTAAAATGTAAAAA
Found at i:6377429 original size:65 final size:65
Alignment explanation
Indices: 6377348--6377471 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 65
6377338 CCTATTATTT
* * ** * *
6377348 TAAATTGATTGTCACTTAATTAATGTTATGGTTATATTATGAATTAAAAC-AAATATTTAACATT
1 TAAATAGATTATCACTTAATTAATGTTACAGTTATA-TATAAATTAAAACTAAAGATTTAACATT
6377412 A
65 A
* *
6377413 TAAATAGATTATCACTTAATTAGTGTTACAGTTATATATAAATTCAAACTAAAGATTTA
1 TAAATAGATTATCACTTAATTAATGTTACAGTTATATATAAATTAAAACTAAAGATTTA
6377472 GTTAACCACA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
64 11 0.22
65 39 0.78
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (65 bp):
TAAATAGATTATCACTTAATTAATGTTACAGTTATATATAAATTAAAACTAAAGATTTAACATTA
Found at i:6378311 original size:29 final size:30
Alignment explanation
Indices: 6378256--6378314 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
6378246 ATCTCAAAAT
*
6378256 TATACATGAACTTTAATTTAATGTGTAATTG
1 TATACATGAACTTTAATTT-AGGTGTAATTG
6378287 TATACATGAACTTTAATTT-GGTGTAATT
1 TATACATGAACTTTAATTTAGGTGTAATT
6378315 ATTCACGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
31 19 0.70
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.46
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGGTGTAATTG
Found at i:6378909 original size:19 final size:19
Alignment explanation
Indices: 6378885--6378922 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6378875 AGTAGTTATC
6378885 TTTTTTACTATTTATAATT
1 TTTTTTACTATTTATAATT
6378904 TTTTTTACTATTTATAATT
1 TTTTTTACTATTTATAATT
6378923 AAAAATGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTACTATTTATAATT
Found at i:6387661 original size:12 final size:12
Alignment explanation
Indices: 6387646--6387671 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6387636 TTCATCCATA
6387646 TCCTCATCTTCT
1 TCCTCATCTTCT
6387658 TCCTCATCTTCT
1 TCCTCATCTTCT
6387670 TC
1 TC
6387672 AATACCGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.42, G:0.00, T:0.50
Consensus pattern (12 bp):
TCCTCATCTTCT
Found at i:6387866 original size:19 final size:19
Alignment explanation
Indices: 6387842--6387880 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6387832 CCAAATAAAG
6387842 TAAGAAAAATGAAAAAACA
1 TAAGAAAAATGAAAAAACA
6387861 TAAGAAAAATGAAAAAACA
1 TAAGAAAAATGAAAAAACA
6387880 T
1 T
6387881 CTGAGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.13
Consensus pattern (19 bp):
TAAGAAAAATGAAAAAACA
Found at i:6398829 original size:21 final size:21
Alignment explanation
Indices: 6398813--6398853 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6398803 TGTGAATATG
*
6398813 TATG-GAAATTCTATGAAATA
1 TATGTGAAATGCTATGAAATA
6398833 TATGTGAAATGCTATTGAAAT
1 TATGTGAAATGCTA-TGAAAT
6398854 GGATTGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (21 bp):
TATGTGAAATGCTATGAAATA
Found at i:6399046 original size:38 final size:38
Alignment explanation
Indices: 6398992--6399071 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
6398982 AGTATGGGAT
6398992 TATGTGCTTATACGCCAGTATGCA-TTTCGTGTGCCAGG
1 TATGTGCTTATACGCCAGTATGCACTTT-GTGTGCCAGG
*
6399030 TATGTGCTTATGCGCCAGTATGCACTTTGTGTGCCAGG
1 TATGTGCTTATACGCCAGTATGCACTTTGTGTGCCAGG
6399068 TATG
1 TATG
6399072 CGTTTTATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 37 0.93
39 3 0.08
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (38 bp):
TATGTGCTTATACGCCAGTATGCACTTTGTGTGCCAGG
Found at i:6399065 original size:19 final size:20
Alignment explanation
Indices: 6399005--6399072 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
6398995 GTGCTTATAC
6399005 GCCA-GTATGCA-TTTCGTGT
1 GCCAGGTATGCACTTT-GTGT
** * *
6399024 GCCAGGTATGTGC-TTATGC
1 GCCAGGTATGCACTTTGTGT
6399043 GCCA-GTATGCACTTTGTGT
1 GCCAGGTATGCACTTTGTGT
6399062 GCCAGGTATGC
1 GCCAGGTATGC
6399073 GTTTTATATG
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
18 6 0.16
19 18 0.49
20 13 0.35
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.32
Consensus pattern (20 bp):
GCCAGGTATGCACTTTGTGT
Found at i:6403594 original size:57 final size:57
Alignment explanation
Indices: 6403498--6403620 Score: 142
Period size: 57 Copynumber: 2.1 Consensus size: 57
6403488 CCAAATGATT
* * * *
6403498 TATTTCCATTTTCATTTTGGAGAAAACTACATTCGTTTCCAACTAATT-CCATTTCTC
1 TATTTTCATTTTCATTTTGGAGAAAAC-ACATACATTTCCAAATAATTCCCATTTCTC
**
6403555 TATTTTCATTTTCATTTTGGAGAAAAC-CATAACAATTTCCAAATGTTTCCCATTTCTC
1 TATTTTCATTTTCATTTTGGAGAAAACACAT-AC-ATTTCCAAATAATTCCCATTTCTC
*
6403613 CATTTTCA
1 TATTTTCA
6403621 CCATTTCTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
55 3 0.05
56 1 0.02
57 36 0.64
58 16 0.29
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.44
Consensus pattern (57 bp):
TATTTTCATTTTCATTTTGGAGAAAACACATACATTTCCAAATAATTCCCATTTCTC
Found at i:6412204 original size:216 final size:216
Alignment explanation
Indices: 6411830--6412376 Score: 846
Period size: 216 Copynumber: 2.5 Consensus size: 216
6411820 CAATGGCACA
* * * * * * **
6411830 AAGCCATCGATAACTGCATTATGTTAGGCACATAGCCATCAACTA-GAGTAACATAACCGGCACA
1 AAGCCATCGGTAGCTGTATCATGTTAGGCACATAGCCATCAACGACG-GTAATATAGTCGGCACA
* * *
6411894 CAGCC-CTAGGTAAATGTGATCGACACAGAGTCGTCAATAACCATATATTGGCACATAGCCTTAG
65 CAGCCTC-AGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTGGCACATAGCCTTAG
* * * *
6411958 GCAAATACGTTTGGCACACAGCTATAATCAGGTTGGCACAGAGCTATATGTAGGTTGGCGTAAAG
129 GCAAATACGTTTGGCACACAGCCATAATCAGGTTGCCACAGAGCCATATGTAGGTTGGCGCAAAG
6412023 CCATAATCAGAATAATTGGCTTT
194 CCATAATCAGAATAATTGGCTTT
* * *
6412046 AAGCCATCGGTAGCTGTATCATGTTACGCATATAGCCATCAACGACGGTAATATAGTCGGAACAC
1 AAGCCATCGGTAGCTGTATCATGTTAGGCACATAGCCATCAACGACGGTAATATAGTCGGCACAC
6412111 AGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTGGCACATAGCCTTAGGC
66 AGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTGGCACATAGCCTTAGGC
*
6412176 AAATACGTTTGGCACACAGCCATAATCAGGTTGCCACAGAGCCATATGTAGGTTGGCGCAAAGTC
131 AAATACGTTTGGCACACAGCCATAATCAGGTTGCCACAGAGCCATATGTAGGTTGGCGCAAAGCC
6412241 ATAATCAGAATAATTGGCTTT
196 ATAATCAGAATAATTGGCTTT
* * * *
6412262 AAGCCATTGGTAGTTGTATCATGTTAGGCACATAGCCATCAGCGACGGTAATATAGTCGGCACAT
1 AAGCCATCGGTAGCTGTATCATGTTAGGCACATAGCCATCAACGACGGTAATATAGTCGGCACAC
*
6412327 AGCCTCGGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTGG
66 AGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTGG
6412377 GCTTAAAAGC
Statistics
Matches: 302, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
216 300 0.99
217 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (216 bp):
AAGCCATCGGTAGCTGTATCATGTTAGGCACATAGCCATCAACGACGGTAATATAGTCGGCACAC
AGCCTCAGGTAAATATGATCGACACAGAGTCATCAATAATCATATATTGGCACATAGCCTTAGGC
AAATACGTTTGGCACACAGCCATAATCAGGTTGCCACAGAGCCATATGTAGGTTGGCGCAAAGCC
ATAATCAGAATAATTGGCTTT
Found at i:6412453 original size:41 final size:41
Alignment explanation
Indices: 6412391--6412512 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
6412381 AAAAGCCACT
*
6412391 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATC
*
6412432 GGTGGATCCACGGTC-TCCAAGCAACCATACGATCCTCAATC
1 GGTGGATCCACGGTCGT-CAAGCAACCATGCGATCCTCAATC
*
6412473 GGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
6412513 TTCTTCTTCC
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.01
41 73 0.97
42 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.21
Consensus pattern (41 bp):
GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATC
Found at i:6412803 original size:27 final size:27
Alignment explanation
Indices: 6412751--6413033 Score: 185
Period size: 27 Copynumber: 10.4 Consensus size: 27
6412741 TTTCACCCTA
* * * * *
6412751 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
6412778 CAAGGGTATTTCGGTAATTTTGCAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
* **
6412804 CTAATGGTATTTCTATAATTTTTTA-AAAGT
1 C-AAGGGTATTTCGGTAA--TTTTACAAA-T
* ** ***
6412834 CAAGAGTATTTTTGTAATTTCGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
6412861 TAAGGGTATTTCTGTAATTTTCCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
6412888 CAAGGGTATTTCGATAATTTT-CTAAAT
1 CAAGGGTATTTCGGTAATTTTAC-AAAT
* * * *
6412915 TAGGGGTATTTTGGTACTTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * *
6412942 TAGGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
6412969 CAAGGGTATTTCAGTAATGTCACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * * *
6412996 CAGGGGTATTTTGGTAGTTTTATAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
6413023 CAAGGGTATTT
1 CAAGGGTATTT
6413034 TAGTAATTCT
Statistics
Matches: 199, Mismatches: 49, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.01
27 173 0.87
28 7 0.04
29 16 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:6412960 original size:81 final size:79
Alignment explanation
Indices: 6412754--6413033 Score: 231
Period size: 81 Copynumber: 3.4 Consensus size: 79
6412744 CACCCTACAA
* * * ** * *
6412754 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGGTAATTTTGCAAA-CTAATGGTATTTCT
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTC-GTAATTTTACAAATC-AAGGGTATTTC-
* *
6412818 ATAATTTTTTAAAAGTCAA
63 ATAATTTTCT-AAA-TCAG
* * *** *
6412837 GAGTATTTTTGTAATTTCGTAAATTAAGGGTATTTCTGTAATTTTCCAAATCAAGGGTATTTCGA
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTC-GTAATTTTACAAATCAAGGGTATTTC-A
*
6412902 TAATTTTCTAAATTAG
64 TAATTTTCTAAATCAG
* * *
6412918 GGGTATTTTGGTACTTTTACAAATTAGGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCG-TAATTTTACAAATCAAGGGTATTTCA-
* *
6412983 TAA-TGTCACAAATCAG
64 TAATTTTC-TAAATCAG
* * **
6412999 GGGTATTTTGGTAGTTTTATAAACCAAGGGTATTT
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTT
6413034 TAGTAATTCT
Statistics
Matches: 159, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
80 5 0.03
81 93 0.58
82 3 0.02
83 57 0.36
84 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (79 bp):
GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGTAATTTTACAAATCAAGGGTATTTCATA
ATTTTCTAAATCAG
Found at i:6415670 original size:42 final size:42
Alignment explanation
Indices: 6415606--6415688 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
6415596 GCTATTAAAG
* **
6415606 TGGAACCACTATAAATAGAATTGTCAAAACTTTTCTTTTCTC
1 TGGAACCACTATAAATAAAATTGTCAAAACTTCCCTTTTCTC
6415648 TGGAACCACTATAAATAAAATTGTCAAAACTTCCCTTTTCT
1 TGGAACCACTATAAATAAAATTGTCAAAACTTCCCTTTTCT
6415689 TTAGTTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.36
Consensus pattern (42 bp):
TGGAACCACTATAAATAAAATTGTCAAAACTTCCCTTTTCTC
Found at i:6416577 original size:18 final size:19
Alignment explanation
Indices: 6416533--6416579 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
6416523 TTAATTTTAT
* *
6416533 AATATTAGTTTTTGTTAGA
1 AATATTAATTTTTGTTAAA
* *
6416552 ATTTTTAATTTTT-TTAAA
1 AATATTAATTTTTGTTAAA
6416570 AATATTAATT
1 AATATTAATT
6416580 AATTGAATAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
AATATTAATTTTTGTTAAA
Found at i:6423101 original size:105 final size:109
Alignment explanation
Indices: 6422862--6423128 Score: 319
Period size: 115 Copynumber: 2.4 Consensus size: 109
6422852 AACTAAGAAT
* * *
6422862 TAATTTATAATAGTTACTAACAAAATAACTTTCAAATAAATTAAAAAATATTAAAAGATTACATT
1 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAATTACATT
* * *
6422927 CATAATCTAACAAATCATAGTAAACCCTAAACCCTAAACAAACAG
66 CATAATCTAACAAATCACAATAAACACTAAA-CCTAAACAAACAG
* * * * *
6422972 TTAACCTAATCACAAAATTTACTAACAAAATAACTTTAAAATAAATTAAAAATTAATAAAAAATT
1 -TAA--T--TTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAATT
*
6423037 ACATTCATAA-CTTAACAAATCACAATAAACATTAAA-CTAAAC-AA-A-
61 ACATTCATAATC-TAACAAATCACAATAAACACTAAACCTAAACAAACAG
*
6423082 TAATTTATAATAGTAACTAACAAAATAACTTTAAAATAAATTAAAAA
1 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA
6423129 CAATGTAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
105 38 0.28
107 1 0.01
109 3 0.02
111 4 0.03
112 2 0.01
113 7 0.05
114 1 0.01
115 78 0.58
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.28
Consensus pattern (109 bp):
TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAATTACATT
CATAATCTAACAAATCACAATAAACACTAAACCTAAACAAACAG
Found at i:6423107 original size:25 final size:26
Alignment explanation
Indices: 6423071--6423119 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
6423061 ATAAACATTA
*
6423071 AACTAAACAAATAA-TTTATAATAGT
1 AACTAAACAAATAACTTTAAAATAGT
6423096 AACT-AACAAAATAACTTTAAAATA
1 AACTAAAC-AAATAACTTTAAAATA
6423120 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 10 0.48
26 8 0.38
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (26 bp):
AACTAAACAAATAACTTTAAAATAGT
Found at i:6423254 original size:4 final size:4
Alignment explanation
Indices: 6423230--6423267 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
6423220 TACTTTATCC
6423230 TTCT TT-T TTCT TCTCCT TTCT TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT T-T-CT TTCT TTCT TTCT TTCT TTCT T
6423268 CTCCCTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.10
4 23 0.74
5 2 0.06
6 3 0.10
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:6423283 original size:29 final size:26
Alignment explanation
Indices: 6423229--6423288 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 26
6423219 ATACTTTATC
*
6423229 CTTCTTTTTTCTTCTCCTTTCTTTCT
1 CTTCTTTTTTCTTCTCCTTTCCTTCT
6423255 -TTCTTTCTTTCTTCTCCCTCCTTCCTTCT
1 CTTCTTT-TTTCTTCT-CCT--TTCCTTCT
6423284 CTTCT
1 CTTCT
6423289 GCTATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 6 0.21
26 8 0.29
27 3 0.11
29 7 0.25
30 4 0.14
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (26 bp):
CTTCTTTTTTCTTCTCCTTTCCTTCT
Found at i:6423388 original size:26 final size:27
Alignment explanation
Indices: 6423352--6423402 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
6423342 CAAAATTGCT
*
6423352 TCACTGGTGCC-CCTATCAGATAGGGG
1 TCACTGGTGCCACCTATCAAATAGGGG
*
6423378 TCACTGGTGCCACTTATCAAATAGG
1 TCACTGGTGCCACCTATCAAATAGG
6423403 CACCACCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (27 bp):
TCACTGGTGCCACCTATCAAATAGGGG
Found at i:6424241 original size:16 final size:16
Alignment explanation
Indices: 6424200--6424249 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
6424190 AAAAAGAAAA
*
6424200 TTTTAATAATTTTGA-
1 TTTTGATAATTTTGAG
* *
6424215 TTTGGTTTAATTTTGAG
1 TTTTG-ATAATTTTGAG
6424232 TTTTGATAA-TTTGAG
1 TTTTGATAATTTTGAG
6424247 TTT
1 TTT
6424250 GAAGTTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 12 0.43
16 12 0.43
17 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (16 bp):
TTTTGATAATTTTGAG
Found at i:6424322 original size:16 final size:17
Alignment explanation
Indices: 6424290--6424322 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6424280 AGAATTTTAA
6424290 TATTTTGAGTTTGAGGT
1 TATTTTGAGTTTGAGGT
*
6424307 TATTTTG-GTTTTAGGT
1 TATTTTGAGTTTGAGGT
6424323 CAATTTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (17 bp):
TATTTTGAGTTTGAGGT
Found at i:6428289 original size:21 final size:20
Alignment explanation
Indices: 6428265--6428309 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
6428255 AAACTATGTT
*
6428265 AAAAGAAATGGAGAAGGGAGG
1 AAAAGAAAGGGAGAA-GGAGG
* *
6428286 AAAATAGAGGGAGAAGGAGG
1 AAAAGAAAGGGAGAAGGAGG
6428306 AAAA
1 AAAA
6428310 TGGAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.40, T:0.04
Consensus pattern (20 bp):
AAAAGAAAGGGAGAAGGAGG
Found at i:6429388 original size:9 final size:9
Alignment explanation
Indices: 6429374--6429400 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6429364 GGTTTTCGTC
6429374 ATTGACCAT
1 ATTGACCAT
6429383 ATTGACCAT
1 ATTGACCAT
6429392 ATTGACCAT
1 ATTGACCAT
6429401 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
ATTGACCAT
Found at i:6429506 original size:16 final size:16
Alignment explanation
Indices: 6429481--6429511 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6429471 CAAAATATTA
6429481 AAAATCATAAAAAAAG
1 AAAATCATAAAAAAAG
*
6429497 AAAATTATAAAAAAA
1 AAAATCATAAAAAAA
6429512 TATTTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAATCATAAAAAAAG
Found at i:6429625 original size:19 final size:19
Alignment explanation
Indices: 6429594--6429717 Score: 69
Period size: 20 Copynumber: 6.3 Consensus size: 19
6429584 ACAAATTCTC
*
6429594 AAAAAAATA-TAAAATTA-
1 AAAAACATATTAAAATTAT
*
6429611 ATAAACATATTTAAAATTTAT
1 AAAAACATA-TTAAAA-TTAT
6429632 AAAAACATATTAAAATTCTAT
1 AAAAACATATTAAAA-T-TAT
* *
6429653 AAAAA-ATCATAAAAAAGTAT
1 AAAAACAT-AT-TAAAATTAT
6429673 AAAAA-AGTATTAAAATTGAT
1 AAAAACA-TATTAAAATT-AT
* * *
6429693 ATAAAA-AAATAAAAATCAT
1 A-AAAACATATTAAAATTAT
6429712 AAAAAC
1 AAAAAC
6429718 TTGAACTAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
17 7 0.08
18 4 0.05
19 13 0.15
20 34 0.40
21 24 0.28
22 4 0.05
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAACATATTAAAATTAT
Found at i:6429646 original size:20 final size:20
Alignment explanation
Indices: 6429595--6429700 Score: 89
Period size: 20 Copynumber: 5.3 Consensus size: 20
6429585 CAAATTCTCA
6429595 AAAAAATA-TAAAATTA-AT
1 AAAAAATATTAAAATTATAT
*
6429613 -AAACATATTTAAAATT-TAT
1 AAAAAATA-TTAAAATTATAT
*
6429632 AAAAACATATTAAAATTCTAT
1 AAAAA-ATATTAAAATTATAT
*
6429653 AAAAAATCA-TAAAA-AAGTAT
1 AAAAAAT-ATTAAAATTA-TAT
6429673 AAAAAAGTATTAAAATTGATAT
1 AAAAAA-TATTAAAATT-ATAT
6429695 AAAAAA
1 AAAAAA
6429701 ATAAAAATCA
Statistics
Matches: 71, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
17 6 0.08
19 9 0.13
20 28 0.39
21 18 0.25
22 9 0.13
23 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAAATATTAAAATTATAT
Found at i:6429684 original size:41 final size:40
Alignment explanation
Indices: 6429629--6429707 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 40
6429619 ATTTAAAATT
*
6429629 TATAAAAACATATTAAAATT-CTATAAAAAATCATAAAAAAG
1 TATAAAAACATATTAAAATTGATATAAAAAA--ATAAAAAAG
6429670 TATAAAAA-AGTATTAAAATTGATATAAAAAAATAAAAA
1 TATAAAAACA-TATTAAAATTGATATAAAAAAATAAAAA
6429708 TCATAAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
40 8 0.23
41 18 0.51
42 9 0.26
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (40 bp):
TATAAAAACATATTAAAATTGATATAAAAAAATAAAAAAG
Found at i:6430151 original size:6 final size:6
Alignment explanation
Indices: 6430106--6430155 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
6430096 GGGCTAAAAT
* *
6430106 AAACCA AAA-C- AAACCC AAACCA ACAACCA AAATACA AAACCA AAACCA
1 AAACCA AAACCA AAACCA AAACCA A-AACCA AAA-CCA AAACCA AAACCA
6430154 AA
1 AA
6430156 CCAGACCCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
4 3 0.08
5 2 0.05
6 21 0.57
7 11 0.30
ACGTcount: A:0.66, C:0.32, G:0.00, T:0.02
Consensus pattern (6 bp):
AAACCA
Found at i:6431306 original size:3 final size:3
Alignment explanation
Indices: 6431298--6431435 Score: 143
Period size: 3 Copynumber: 45.3 Consensus size: 3
6431288 ATTAATTAAT
** * *
6431298 TTA TTA TTA TTA TTA TTA ACA -TA TTA TTA ATC TTA TTAA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
* * *
6431344 TTA TTA CTA TTTA TTA TTA TTA TTA TCA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
6431390 TTA TTA TTA TTA TTA TTA TCA TTA TTA CTA TTA CTC TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6431436 ATTTTCTTTT
Statistics
Matches: 110, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.01
3 102 0.93
4 6 0.05
5 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:6431638 original size:15 final size:16
Alignment explanation
Indices: 6431618--6431656 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6431608 TTTACCTAAT
6431618 TTTTTTATA-CATTTA
1 TTTTTTATATCATTTA
*
6431633 TTTTTTATATCGTTTA
1 TTTTTTATATCATTTA
*
6431649 TTATTTAT
1 TTTTTTAT
6431657 TTATTTCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTTTATATCATTTA
Found at i:6446633 original size:88 final size:88
Alignment explanation
Indices: 6446536--6446751 Score: 274
Period size: 88 Copynumber: 2.5 Consensus size: 88
6446526 ATGGAACAGA
* * *
6446536 TTGAAGTTACAAATCTTATCTCTCT-AAGTTGCAGTGGAGTAGATCA-AAGATAGAAAACCTTAT
1 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCACAA-ACA-AAAACCTTAT
* * *
6446599 CCCCCTGAAGTTGCAGTGGGGTAGG
64 CCCCCTGAAGTTGCAGTAGAGCAGG
* * ** *
6446624 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTACAACCACTAACCTTATCT
1 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCACAAACAAAAACCTTATCC
* *
6446689 CTCTGAAGTTGTAGTAGAGCAGG
66 CCCTGAAGTTGCAGTAGAGCAGG
*
6446712 TTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
6446752 CAGACTGAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
88 89 0.79
89 21 0.19
90 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (88 bp):
TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCACAAACAAAAACCTTATCC
CCCTGAAGTTGCAGTAGAGCAGG
Found at i:6446650 original size:44 final size:44
Alignment explanation
Indices: 6446533--6446793 Score: 222
Period size: 44 Copynumber: 6.0 Consensus size: 44
6446523 GTAATGGAAC
*
6446533 AGATTGAAGTTACAAATCTTATCTCTCT-AAGTTGCAGTGGAGT
1 AGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGT
** * * * * *
6446576 AGATCAAAGATAGAAAACCTTATCCCCCTGAAGTTGCAGTGGGGT
1 AGATTGAAGTTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGT
* *
6446621 AGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
1 AGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGT
*** * * * * * *
6446665 AGATT-ACAACCACTAACCTTATCTCTCTGAAGTTGTAGTAGAGC
1 AGATTGA-AGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGT
* * * *
6446709 AGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGT
* * * * * *
6446753 AGACTGAAATTACAAATCCTATC-CCCCGAAATTGTAGTGGA
1 AGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGA
6446794 TCAGATTAAA
Statistics
Matches: 170, Mismatches: 44, Indels: 8
0.77 0.20 0.04
Matches are distributed among these distances:
43 25 0.15
44 122 0.72
45 23 0.14
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGT
Found at i:6447132 original size:225 final size:224
Alignment explanation
Indices: 6446726--6447134 Score: 500
Period size: 225 Copynumber: 1.8 Consensus size: 224
6446716 AATTACAAGT
* * *
6446726 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATTACAAATCCTATCCCCCGAAATTGTAGT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAATTACAAATCCTATCCCCCGAAATTGCAAT
* ** *
6446791 GGATCAGATTAAAGCGACAAGTCCTATACCTTTGAAGTTGCAGTAGGCCGGATCAAATCTACCAT
66 GGATCAGATTAAAGCGACAAGTCCTATACCTCTGAAGTTGCAGTAGGCCGGATCAAATCTAAAAC
** ** * *
6446856 GGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACAAGTCTTCTCCCTAAAAT
131 CACAAATCTTATCTCCCTGAAGTTGCAGCAGAGCAAATTAAAACCACAAGTCTTCTCCCTAAAAT
6446921 TGCAACGGGGTAGACTGAAGATAGCTAAC
196 TGCAACGGGGTAGACTGAAGATAGCTAAC
* * ** * ** *
6446950 CTTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAATTACAAGTCCTATCTCCTTGAAGTTGCAA
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAATTACAAATCCTATC-CCCCGAAATTGCAA
* * *
6447015 TGGA-GAGGATTAAAGCGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAA-CTTAA
65 TGGATCA-GATTAAAGCGACAAGTCCTATACCTCTGAAGTTGCAGTAGGCCGGATCAAATC-TAA
* * * * *
6447078 AACCACAAATCTTA-CATCCCTGAATTTGTAGCAGAGTAGATTAAAACTACAAGTCTT
128 AACCACAAATCTTATC-TCCCTGAAGTTGCAGCAGAGCAAATTAAAACCACAAGTCTT
6447135 ATTTCTCTGA
Statistics
Matches: 152, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
224 47 0.31
225 105 0.69
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (224 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAATTACAAATCCTATCCCCCGAAATTGCAAT
GGATCAGATTAAAGCGACAAGTCCTATACCTCTGAAGTTGCAGTAGGCCGGATCAAATCTAAAAC
CACAAATCTTATCTCCCTGAAGTTGCAGCAGAGCAAATTAAAACCACAAGTCTTCTCCCTAAAAT
TGCAACGGGGTAGACTGAAGATAGCTAAC
Found at i:6447356 original size:11 final size:11
Alignment explanation
Indices: 6447340--6447397 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
6447330 GGCCCCGGCT
6447340 AAAACAAACCC
1 AAAACAAACCC
*
6447351 AAAACAAACCT
1 AAAACAAACCC
*
6447362 AAACCAACACCC
1 AAAACAA-ACCC
*
6447374 AAAATACAAAACC
1 -AAA-ACAAACCC
6447387 AAAACCAAACC
1 AAAA-CAAACC
6447398 AATAACCCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
11 17 0.46
12 11 0.30
13 6 0.16
14 3 0.08
ACGTcount: A:0.62, C:0.34, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAACAAACCC
Found at i:6447424 original size:20 final size:19
Alignment explanation
Indices: 6447401--6447443 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
6447391 CCAAACCAAT
*
6447401 AACCCAAAGCCCAATTACAA
1 AACCCAAAGCCCAACTA-AA
6447421 AACCCAAAGCCCAACTAAA
1 AACCCAAAGCCCAACTAAA
6447440 AACC
1 AACC
6447444 AATTAGCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.51, C:0.37, G:0.05, T:0.07
Consensus pattern (19 bp):
AACCCAAAGCCCAACTAAA
Found at i:6448629 original size:24 final size:24
Alignment explanation
Indices: 6448562--6448728 Score: 154
Period size: 24 Copynumber: 6.9 Consensus size: 24
6448552 ATTATTAATG
* *
6448562 TATTATTATTACTATTTATTATTGT
1 TATTTTTATTACTA-TTATTATTTT
*** * *
6448587 TACCATTATTATTACTATTATTTT
1 TATTTTTATTACTATTATTATTTT
* **
6448611 TATTTTTTTTACTATTATTATTAC
1 TATTTTTATTACTATTATTATTTT
* * *
6448635 TAATTTTATTATTGTTATTATTTT
1 TATTTTTATTACTATTATTATTTT
**
6448659 TATTTTTATTACTATTATTATTAC
1 TATTTTTATTACTATTATTATTTT
* * *
6448683 TAATTTTATTATTGTTATTATTTT
1 TATTTTTATTACTATTATTATTTT
*
6448707 TATTTTTATAACTATTATTATT
1 TATTTTTATTACTATTATTATT
6448729 ACCACTATTA
Statistics
Matches: 109, Mismatches: 33, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
24 98 0.90
25 11 0.10
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (24 bp):
TATTTTTATTACTATTATTATTTT
Found at i:6448740 original size:3 final size:3
Alignment explanation
Indices: 6448529--6448729 Score: 129
Period size: 3 Copynumber: 66.3 Consensus size: 3
6448519 AAATTAATTA
** * *
6448529 ATT ATT ATT ATT AAC A-T ATC ATT ATT ATT AATGT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT ATT ATT ATT
* ** * * * *
6448575 ATTT ATT ATT GTT ACC ATT ATT ATT ACT ATT ATT TTT ATT TTT TTT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
6448621 ACT ATT ATT ATT ACTA ATT -TT ATT ATT GTT ATT ATT TTT ATT TTT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
6448666 ATT ACT ATT ATT ATT ACTA ATT -TT ATT ATT GTT ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
6448711 TTT ATA ACT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
6448730 CCACTATTAT
Statistics
Matches: 147, Mismatches: 43, Indels: 16
0.71 0.21 0.08
Matches are distributed among these distances:
2 5 0.03
3 131 0.89
4 10 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:6448753 original size:48 final size:48
Alignment explanation
Indices: 6448592--6448730 Score: 242
Period size: 48 Copynumber: 2.9 Consensus size: 48
6448582 ATTGTTACCA
** *
6448592 TTATTATTACTATTATTTTTATTTTTTTTACTATTATTATTACTAATT
1 TTATTATTGTTATTATTTTTATTTTTATTACTATTATTATTACTAATT
6448640 TTATTATTGTTATTATTTTTATTTTTATTACTATTATTATTACTAATT
1 TTATTATTGTTATTATTTTTATTTTTATTACTATTATTATTACTAATT
*
6448688 TTATTATTGTTATTATTTTTATTTTTATAACTATTATTATTAC
1 TTATTATTGTTATTATTTTTATTTTTATTACTATTATTATTAC
6448731 CACTATTATT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (48 bp):
TTATTATTGTTATTATTTTTATTTTTATTACTATTATTATTACTAATT
Found at i:6449987 original size:20 final size:20
Alignment explanation
Indices: 6449963--6450021 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
6449953 TTAAGAATTC
6449963 TAATATATTTTTTTAATTTTA
1 TAATAT-TTTTTTTAATTTTA
*
6449984 -AATATGTTTTATTAATTTTA
1 TAATAT-TTTTTTTAATTTTA
6450004 TAA-ATTTTTTTGTAATTT
1 TAATATTTTTTT-TAATTT
6450022 ATTTCAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 5 0.15
20 26 0.79
21 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TAATATTTTTTTTAATTTTA
Found at i:6450126 original size:19 final size:18
Alignment explanation
Indices: 6450087--6450132 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6450077 TATTGCAATA
* *
6450087 TTAATATTTGTAATACTT
1 TTAATTTTTATAATACTT
*
6450105 TTAGTTTTTATAATATCTT
1 TTAATTTTTATAATA-CTT
6450124 TTAATTTTT
1 TTAATTTTT
6450133 CCTGATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (18 bp):
TTAATTTTTATAATACTT
Found at i:6450418 original size:20 final size:20
Alignment explanation
Indices: 6450393--6450434 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6450383 TAAAAAAAAT
6450393 ATATTTTCTTCTCATCAAGA
1 ATATTTTCTTCTCATCAAGA
6450413 ATATTTTCTTCTCATCAAGA
1 ATATTTTCTTCTCATCAAGA
6450433 AT
1 AT
6450435 TAACGTGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATTTTCTTCTCATCAAGA
Found at i:6450539 original size:21 final size:21
Alignment explanation
Indices: 6450502--6450551 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
6450492 TTCATTCTAG
*
6450502 ATGTATTTTTAGTAAAT-TTA
1 ATGTTTTTTTAGTAAATGTTA
6450522 TATGTTTTTTTA-TAAAATGTTA
1 -ATGTTTTTTTAGT-AAATGTTA
6450544 AT-TTTTTT
1 ATGTTTTTT
6450552 ATATTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 16 0.62
22 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (21 bp):
ATGTTTTTTTAGTAAATGTTA
Found at i:6450588 original size:24 final size:25
Alignment explanation
Indices: 6450560--6450608 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6450550 TTATATTATT
*
6450560 ATTTTGAAAT-AAAAAATATATAAA
1 ATTTTAAAATCAAAAAATATATAAA
* *
6450584 ATTTTAAAATCATAAGATATATAAA
1 ATTTTAAAATCAAAAAATATATAAA
6450609 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTTTAAAATCAAAAAATATATAAA
Found at i:6450616 original size:25 final size:25
Alignment explanation
Indices: 6450575--6450623 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6450565 GAAATAAAAA
* *
6450575 ATATATAAAATTTTAAAATCATAAG
1 ATATATAAAATTATAAAAACATAAG
6450600 ATATAT-AAATTAATAAAAACATAA
1 ATATATAAAATT-ATAAAAACATAA
6450624 AGTTTTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATATAAAATTATAAAAACATAAG
Found at i:6450762 original size:17 final size:17
Alignment explanation
Indices: 6450742--6450774 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6450732 TGTTTATGTA
6450742 TTTTTATAAATTTATAG
1 TTTTTATAAATTTATAG
*
6450759 TTTTTATTAATTTATA
1 TTTTTATAAATTTATA
6450775 TATTATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTTATAAATTTATAG
Found at i:6453517 original size:59 final size:59
Alignment explanation
Indices: 6453425--6453543 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
6453415 GAAATTTTTG
6453425 CTTTTATATAACACATGAAACGGCGCTGTTTTAATGTGTAGGTTCAGAGGCCAAAACGA
1 CTTTTATATAACACATGAAACGGCGCTGTTTTAATGTGTAGGTTCAGAGGCCAAAACGA
6453484 CTTTTATATAACACATGAAACGGCGCTGTTTTAATGTGTAGGTTCAGAGGCCAAAACGA
1 CTTTTATATAACACATGAAACGGCGCTGTTTTAATGTGTAGGTTCAGAGGCCAAAACGA
6453543 C
1 C
6453544 GTCGTTTTGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (59 bp):
CTTTTATATAACACATGAAACGGCGCTGTTTTAATGTGTAGGTTCAGAGGCCAAAACGA
Found at i:6454000 original size:24 final size:22
Alignment explanation
Indices: 6453950--6454000 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
6453940 GTTTGTTTAT
6453950 CTTTTATTATTTATATTGAACC
1 CTTTTATTATTTATATTGAACC
*
6453972 ATTTTATTA-TTAGTCATTTGAACC
1 CTTTTATTATTTA-T-A-TTGAACC
6453996 CTTTT
1 CTTTT
6454001 TTGTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 3 0.12
22 9 0.38
23 1 0.04
24 11 0.46
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.55
Consensus pattern (22 bp):
CTTTTATTATTTATATTGAACC
Found at i:6454137 original size:27 final size:25
Alignment explanation
Indices: 6454064--6454137 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
6454054 TATTTTACTT
*
6454064 ATATTATTTATTTT-AACTACTATAC
1 ATATTATTTATTTTAAACTA-TTTAC
* *
6454089 ATATTATTTATTCTGAAA-TATTTCC
1 ATATTATTTATT-TTAAACTATTTAC
6454114 ATACGTTATTTATTTTAAACTATT
1 ATA--TTATTTATTTTAAACTATT
6454138 ATTTATGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
25 18 0.45
26 7 0.17
27 15 0.38
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (25 bp):
ATATTATTTATTTTAAACTATTTAC
Found at i:6463145 original size:13 final size:13
Alignment explanation
Indices: 6463127--6463153 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6463117 AATGTATCTG
6463127 TTGAAAAACTGGA
1 TTGAAAAACTGGA
6463140 TTGAAAAACTGGA
1 TTGAAAAACTGGA
6463153 T
1 T
6463154 AGATGGGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TTGAAAAACTGGA
Found at i:6469128 original size:162 final size:158
Alignment explanation
Indices: 6468944--6469478 Score: 548
Period size: 162 Copynumber: 3.3 Consensus size: 158
6468934 GAGGTATTTT
*
6468944 CAATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 CAATTTCTGCTCTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
6469009 TGAGGTAATTTCAATTTATGTTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 TGAGGTAATTTCAATTTATGTTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
6469074 CAGGCACACTGAGGTATTTTCGATTTCTGCTTTC
130 C-GGCACAC--AGGTATTTTCGA-ATCTG-TTTC
6469108 CAATTT-TGCTCTTCAAAAAAAATCAACTCATATTG-GAGAGGTGAGTTGAGCCTCAGGACACGC
1 CAATTTCTGCTCTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
6469171 TGAGGTAATTTCAATTTCTGTTTGT--CAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCT
65 TGAGGTAATTTCAATTTATGTTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
6469234 CGGCTCAC----ATGTT-GAGTCT-TTT-
130 CGGCACACAGGTATTTTCGAATCTGTTTC
* *
6469256 CAATTTCTGTTCGTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCT
1 CAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * *
6469317 GAGGT-ATTTCAATTAATGTTTTTTCAATTTATGTTTTTCAAAAATCAACTCATATTACGAGAGG
66 GAGGTAATTTCAATTTATG-TTTGT-AA---A--------AAAAATCAACTCATATTGCGAGAGG
* *
6469381 TGAGTTGAGCCTCGGGTCACATCCAAGGTATTTCCAAATCTGTTT-
118 TGAGTTGAGCCTC-GG-CACA--C-AGGTATTTTCGAATCTGTTTC
* * * *
6469426 CAAATTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 CAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
6469479 TGCTCACGGC
Statistics
Matches: 317, Mismatches: 24, Indels: 52
0.81 0.06 0.13
Matches are distributed among these distances:
144 11 0.03
145 32 0.10
146 22 0.07
148 6 0.02
149 9 0.03
151 3 0.01
152 2 0.01
153 4 0.01
159 42 0.13
160 39 0.12
161 3 0.01
162 52 0.16
163 29 0.09
164 6 0.02
168 3 0.01
169 4 0.01
170 15 0.05
172 35 0.11
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (158 bp):
CAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAATTTCAATTTATGTTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
GGCACACAGGTATTTTCGAATCTGTTTC
Found at i:6469226 original size:73 final size:72
Alignment explanation
Indices: 6469125--6469330 Score: 287
Period size: 73 Copynumber: 2.9 Consensus size: 72
6469115 GCTCTTCAAA
6469125 AAAAATCAACTCATATTG-GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTC
*
6469189 TGTTTGTC
65 TGTTCGTC
* * * *
6469197 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGTTGA-GTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGT-ATTTCAAT
6469260 TTCTGTTCGTC
62 TTCTGTTCGTC
6469271 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATT
6469331 AATGTTTTTT
Statistics
Matches: 118, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
70 14 0.12
71 2 0.02
72 19 0.16
73 55 0.47
74 21 0.18
75 7 0.06
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCT
GTTCGTC
Found at i:6469357 original size:14 final size:15
Alignment explanation
Indices: 6469323--6469354 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6469313 CGCTGAGGTA
6469323 TTTCAATTAATGTTT
1 TTTCAATTAATGTTT
*
6469338 TTTCAATTTATGTTT
1 TTTCAATTAATGTTT
6469353 TT
1 TT
6469355 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (15 bp):
TTTCAATTAATGTTT
Found at i:6469446 original size:86 final size:85
Alignment explanation
Indices: 6469271--6469478 Score: 267
Period size: 86 Copynumber: 2.4 Consensus size: 85
6469261 TCTGTTCGTC
** *
6469271 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTCAATTAATGT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCCAAGGTATTTCAA-TAATGC
* *
6469336 TTTTTCAATTTATGTTTTTCA
65 TGTTTCAAATTATGTTTTTCA
* * * *
6469357 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATCCAAGGTATTTCCA-AAT-
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CAC-GCCAAGGTATTTCAATAATG
*
6469420 CTGTTTCAAATTCTGTTTTTCAA
64 CTGTTTCAAATTATGTTTTTC-A
*
6469443 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
6469479 TGCTCACGGC
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
85 17 0.16
86 76 0.71
87 3 0.03
88 11 0.10
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (85 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCCAAGGTATTTCAATAATGCT
GTTTCAAATTATGTTTTTCA
Found at i:6469509 original size:86 final size:84
Alignment explanation
Indices: 6469348--6469564 Score: 201
Period size: 86 Copynumber: 2.6 Consensus size: 84
6469338 TTTCAATTTA
* * * * **
6469348 TGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATCCAAGGTATT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGTCAC-GCTGAGGTATT
* *
6469413 TCCAA-ATCTGTTTCAAATTC
64 TTCAATTTCTGTTTCAAATTC
* *
6469433 TGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGCTCACGGCTGAGCTAT
1 TGTTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG-TCAC-GCTGAGGTAT
**
6469497 TTTCAATTTCTGTTTTTAATGTC
63 TTTCAATTTCTGTTTCAAAT-TC
* * * *
6469520 TATTTTT-AAAAGTCAATTCATATT-CGAGAAATGAGTTGAG-CTCAG
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
6469565 GATCAACACC
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
83 2 0.02
84 17 0.15
85 38 0.35
86 45 0.41
87 8 0.07
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (84 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTCACGCTGAGGTATTTT
CAATTTCTGTTTCAAATTC
Found at i:6595767 original size:30 final size:30
Alignment explanation
Indices: 6595722--6595781 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6595712 ATTTAATACG
*
6595722 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
* *
6595752 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
6595782 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:6603476 original size:25 final size:26
Alignment explanation
Indices: 6603448--6603518 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
6603438 CACACCATAT
*
6603448 CTCTCATGAGCTTCCCGATATT-TGG
1 CTCTCATGAGCTTCCCGATATTATGA
*
6603473 CTCTCATGAGCTTCTC-A-ATTAGTGA
1 CTCTCATGAGCTTCCCGATATTA-TGA
*
6603498 CTCTCTTGAGCTTCCCGATAT
1 CTCTCATGAGCTTCCCGATAT
6603519 ACAGCTCGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 3 0.08
24 1 0.03
25 31 0.82
26 1 0.03
27 2 0.05
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (26 bp):
CTCTCATGAGCTTCCCGATATTATGA
Found at i:6603544 original size:25 final size:25
Alignment explanation
Indices: 6603508--6603567 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
6603498 CTCTCTTGAG
* * *
6603508 CTTCCCGATATACAGCTCGGAAGAG
1 CTTCCCGTTATACAGCTCGAAAGAA
* **
6603533 TTTCCCGTTATATGGCTCGAAAGAA
1 CTTCCCGTTATACAGCTCGAAAGAA
6603558 CTTCCCGTTA
1 CTTCCCGTTA
6603568 ATATGCTTGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (25 bp):
CTTCCCGTTATACAGCTCGAAAGAA
Found at i:6605345 original size:20 final size:18
Alignment explanation
Indices: 6605320--6605357 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 18
6605310 GCAGGGGAAG
6605320 GAAAGAAAGAAAGGAGAAAA
1 GAAAG-AAGAAAGG-GAAAA
6605340 GAAAGAAGAAAGGGAAAA
1 GAAAGAAGAAAGGGAAAA
6605358 TTGAGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
GAAAGAAGAAAGGGAAAA
Found at i:6613411 original size:16 final size:16
Alignment explanation
Indices: 6613390--6613431 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
6613380 CAAGGGAAGG
*
6613390 AAAGAAAGAAAGTAGA
1 AAAGAAAGAAAGGAGA
6613406 AAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGGAGA
6613422 AAAGAAAGAA
1 AAAGAAAGAA
6613432 GAAAGGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (16 bp):
AAAGAAAGAAAGGAGA
Found at i:6613649 original size:29 final size:29
Alignment explanation
Indices: 6613614--6613672 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
6613604 GGGTAATGCA
6613614 TTGAAAGGTGAAAATTGATTGTTAATTAT
1 TTGAAAGGTGAAAATTGATTGTTAATTAT
6613643 TTGAAAGGTGAAAATTGATTGTTAATTAT
1 TTGAAAGGTGAAAATTGATTGTTAATTAT
6613672 T
1 T
6613673 GTATTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.42
Consensus pattern (29 bp):
TTGAAAGGTGAAAATTGATTGTTAATTAT
Found at i:6614212 original size:18 final size:18
Alignment explanation
Indices: 6614162--6614214 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
6614152 TAAGTAAAGG
*
6614162 TACTGGATAATTGACTGT
1 TACTGAATAATTGACTGT
*
6614180 TACTGAA-AGACTGACTGT
1 TACTGAATA-ATTGACTGT
*
6614198 TATTGAATAATTGACTG
1 TACTGAATAATTGACTG
6614215 ATATAAAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:6614470 original size:35 final size:35
Alignment explanation
Indices: 6614431--6614502 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
6614421 AATGAATGAT
*
6614431 TGAATATTTATGATCGCTATATGGTTTTAAATGTA
1 TGAATATTTATGATCACTATATGGTTTTAAATGTA
*
6614466 TGAATATTTATGATCACTATATGGTTTTAAGTGTA
1 TGAATATTTATGATCACTATATGGTTTTAAATGTA
6614501 TG
1 TG
6614503 TTATGTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.46
Consensus pattern (35 bp):
TGAATATTTATGATCACTATATGGTTTTAAATGTA
Found at i:6616006 original size:13 final size:13
Alignment explanation
Indices: 6615972--6616008 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6615962 ATTATTCTAA
6615972 TATTTGA-TTTAT
1 TATTTGATTTTAT
6615984 TATTTGATTTTAGT
1 TATTTGATTTTA-T
6615998 TATTT-ATTTTA
1 TATTTGATTTTA
6616009 ATAATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TATTTGATTTTAT
Found at i:6619386 original size:54 final size:54
Alignment explanation
Indices: 6619299--6619432 Score: 250
Period size: 54 Copynumber: 2.5 Consensus size: 54
6619289 GTCGTTACAA
*
6619299 GGGATTTAGCCTGGATTGGTAATCCCGATATCACTCCATGAGTTTATATTACGG
1 GGGATTTAGCCTGGATTGGTAATCCCGACATCACTCCATGAGTTTATATTACGG
6619353 GGGATTTAGCCTGGATTGGTAATCCCGACATCACTCCATGAGTTTATATTACGG
1 GGGATTTAGCCTGGATTGGTAATCCCGACATCACTCCATGAGTTTATATTACGG
*
6619407 GGGATTTAGCCTGGACTGGTAATCCC
1 GGGATTTAGCCTGGATTGGTAATCCC
6619433 ACCATAAGAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (54 bp):
GGGATTTAGCCTGGATTGGTAATCCCGACATCACTCCATGAGTTTATATTACGG
Found at i:6620757 original size:13 final size:13
Alignment explanation
Indices: 6620739--6620815 Score: 95
Period size: 13 Copynumber: 5.9 Consensus size: 13
6620729 AGTTTGGCAA
6620739 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
6620752 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
6620765 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
6620778 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
6620791 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
6620804 TGCTTTTGAAAA
1 TGCTTTTGAAAA
6620816 ATTTAAGTGT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
12 3 0.05
13 52 0.90
14 3 0.05
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:6623108 original size:72 final size:72
Alignment explanation
Indices: 6622845--6623082 Score: 365
Period size: 72 Copynumber: 3.3 Consensus size: 72
6622835 AAAATCATAT
**
6622845 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAA-TCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
6622907 TACCAAAC
65 AACCAAAC
* *
6622915 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACACAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
6622980 ACCAAAC
66 ACCAAAC
* *
6622987 ATAAACAACCATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
6623052 ACCAAAC
66 ACCAAAC
* *
6623059 ATAAATAACTATTGACAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
6623083 TTTAGCATTT
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
70 25 0.16
71 20 0.13
72 107 0.70
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.23
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:6623479 original size:18 final size:18
Alignment explanation
Indices: 6623458--6623505 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
6623448 TCCATCAATT
*
6623458 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
6623476 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
6623494 TGAACATCATTT
1 TGAACATCATTT
6623506 CTCACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:6624463 original size:21 final size:21
Alignment explanation
Indices: 6624437--6624506 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
6624427 AGATAATATA
6624437 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
*
6624458 TATAAAAATAT-TGCAGTCAATA-
1 TATAAATATATATG--GTC-ATAG
6624480 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
*
6624501 TCTAAA
1 TATAAA
6624507 CCAATGGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 5 0.12
21 18 0.44
22 13 0.32
23 5 0.12
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (21 bp):
TATAAATATATATGGTCATAG
Found at i:6629035 original size:21 final size:21
Alignment explanation
Indices: 6629006--6629047 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6628996 TTTTCCTAAG
*
6629006 ATGTAAATTGGATTGAATTGA
1 ATGTAAATTGGATTAAATTGA
* *
6629027 ATGTGAATTGTATTAAATTGA
1 ATGTAAATTGGATTAAATTGA
6629048 GTCAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTGA
Found at i:6629305 original size:27 final size:26
Alignment explanation
Indices: 6629257--6629308 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
6629247 TCACACATCC
6629257 GATAATGTCTAAAAGTATTAAGCCCT
1 GATAATGTCTAAAAGTATTAAGCCCT
*
6629283 GATAATGTCTGACAAGTATTAAGCCC
1 GATAATGTCT-AAAAGTATTAAGCCC
6629309 CGTATGGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (26 bp):
GATAATGTCTAAAAGTATTAAGCCCT
Found at i:6629561 original size:25 final size:25
Alignment explanation
Indices: 6629515--6629625 Score: 90
Period size: 25 Copynumber: 4.5 Consensus size: 25
6629505 ACACACCGAA
* * *
6629515 GCTCTTTTGAGCGTCTCGATATATG
1 GCTCTTTGGAGCTTCCCGATATATG
6629540 GCTCTTTGGAGCTTCCC-A-ATATG
1 GCTCTTTGGAGCTTCCCGATATATG
*
6629563 GCT-TGCTT-GAACTTCCCGATATATG
1 GCTCT--TTGGAGCTTCCCGATATATG
* *
6629588 GCTATCTTGG-GCTTCCTGAT-TAATG
1 GCTCT-TTGGAGCTTCCCGATAT-ATG
6629613 GCTCTTTGGAGCT
1 GCTCTTTGGAGCT
6629626 ACCGCATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.01
23 16 0.23
24 9 0.13
25 43 0.61
26 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (25 bp):
GCTCTTTGGAGCTTCCCGATATATG
Found at i:6632380 original size:41 final size:37
Alignment explanation
Indices: 6632285--6632380 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 37
6632275 AATTCGAAGT
* ** *
6632285 AGTAAATTGACACCTAGTGTCTTATCGATTAAACAGA
1 AGTAAATTGACACCCAGTACCTTATCGAATAAACAGA
* *
6632322 AGTAAATTGGCACCCAGTACCTTATCGAATAAATCCGA
1 AGTAAATTGACACCCAGTACCTTATCGAATAAA-CAGA
6632360 AGTGATAGATTGACACCCAGT
1 AGT-A-A-ATTGACACCCAGT
6632381 GTCTCATCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 28 0.58
38 6 0.12
39 1 0.02
40 1 0.02
41 12 0.25
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTACCTTATCGAATAAACAGA
Done.