Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 55 of 103
Found at i:20972356 original size:62 final size:62
Alignment explanation
Indices: 20972199--20972456 Score: 272
Period size: 62 Copynumber: 4.2 Consensus size: 62
20972189 CATTTTTGCT
** *
20972199 GCAGCCAAATTGATTCTTGCTGCA-A-CGAGAAACTTTCTGTCTTGGGAGTCACTGTTCTAC--C
1 GCAGCCAAATTGATT-TT-CACCATAGCGAGAAACTTTCTATCTTGGGAGTCACTGTTCT-CGTC
** * * * *
20972260 ATAGCCAAATTGATTTTCACCGTAACGAGAAACTTTTTATCTTGGGAGTCACTATTCTCGTC
1 GCAGCCAAATTGATTTTCACCATAGCGAGAAACTTTCTATCTTGGGAGTCACTGTTCTCGTC
* * * * * * * *
20972322 GTAGCCAAGTTCATTTTCACCACAGCGATAAACTTTCTTTCTTGGGAGTCACTGTTCTTGCC
1 GCAGCCAAATTGATTTTCACCATAGCGAGAAACTTTCTATCTTGGGAGTCACTGTTCTCGTC
** * *
20972384 GCAGCCAAATTGATTTTTGCCATAGCGAGAAACTTTCTACCTTGGAAGTCACTGTTCTCGTC
1 GCAGCCAAATTGATTTTCACCATAGCGAGAAACTTTCTATCTTGGGAGTCACTGTTCTCGTC
20972446 GCAGCCAAATT
1 GCAGCCAAATT
20972457 TAATTCTCGT
Statistics
Matches: 161, Mismatches: 32, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
59 2 0.01
60 4 0.02
61 43 0.27
62 112 0.70
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (62 bp):
GCAGCCAAATTGATTTTCACCATAGCGAGAAACTTTCTATCTTGGGAGTCACTGTTCTCGTC
Found at i:20972434 original size:124 final size:123
Alignment explanation
Indices: 20972228--20972453 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 123
20972218 CTGCAACGAG
* *
20972228 AAACTTTCTGTCTTGGGAGTCACTGTTCTACCATAGCCAAATTGATTTTCACCGTAACGAGAAAC
1 AAACTTTCTGTCTTGGGAGTCACTGTTCTACCACAGCCAAATTGATTTTCACCATAACGAGAAAC
* * * *
20972293 TTTTTATCTTGGGAGTCACTATTCTCGTCGTAGCCAAGTTCATTTTCACCACAGCGAT
66 TTTCTACCTTGGAAGTCACTATTCTCGTCGCAGCCAAGTTCATTTTCACCACAGCGAT
* * * ** *
20972351 AAACTTTCTTTCTTGGGAGTCACTGTTCTTGCCGCAGCCAAATTGATTTTTGCCATAGCGAGAAA
1 AAACTTTCTGTCTTGGGAGTCACTGTTC-TACCACAGCCAAATTGATTTTCACCATAACGAGAAA
*
20972416 CTTTCTACCTTGGAAGTCACTGTTCTCGTCGCAGCCAA
65 CTTTCTACCTTGGAAGTCACTATTCTCGTCGCAGCCAA
20972454 ATTTAATTCT
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
123 27 0.30
124 62 0.70
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (123 bp):
AAACTTTCTGTCTTGGGAGTCACTGTTCTACCACAGCCAAATTGATTTTCACCATAACGAGAAAC
TTTCTACCTTGGAAGTCACTATTCTCGTCGCAGCCAAGTTCATTTTCACCACAGCGAT
Found at i:20978667 original size:21 final size:21
Alignment explanation
Indices: 20978643--20978683 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20978633 CTCTTACACT
*
20978643 CTTTAGGGTTTCTCTCTCTAC
1 CTTTAGAGTTTCTCTCTCTAC
* *
20978664 CTTTATATTTTCTCTCTCTA
1 CTTTAGAGTTTCTCTCTCTA
20978684 TAAACTACCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.27, G:0.07, T:0.54
Consensus pattern (21 bp):
CTTTAGAGTTTCTCTCTCTAC
Found at i:20983728 original size:12 final size:12
Alignment explanation
Indices: 20983711--20983740 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20983701 GTGTGATATT
20983711 GAGAAAAAAAAA
1 GAGAAAAAAAAA
20983723 GAGAAAAAAAAA
1 GAGAAAAAAAAA
20983735 GA-AAAA
1 GAGAAAA
20983741 GAATGAGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
GAGAAAAAAAAA
Found at i:20983957 original size:2 final size:2
Alignment explanation
Indices: 20983950--20984001 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
20983940 CTACATTAGT
* *
20983950 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AN AG TG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20983992 -G AG AG AG AG A
1 AG AG AG AG AG A
20984002 TGAAAAGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
AG
Found at i:20984917 original size:2 final size:2
Alignment explanation
Indices: 20984912--20984950 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
20984902 TTACACATAG
20984912 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
20984951 TATGCATACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:20989384 original size:45 final size:45
Alignment explanation
Indices: 20989331--20989468 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 45
20989321 TTTTGTGTGG
* *
20989331 TGATGATGACCCAGTTATGTGCGTGTGGGAATGCACATGAGCTGA
1 TGATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTGA
*
20989376 TGATGATGACCCAGCTATGTGCAGTGTAGGAGTGCACATGAGC---
1 TGATGATGACCCAGCTATGTGC-GTGTGGGAGTGCACATGAGCTGA
* *
20989419 TGAT-ATGACCTAGCTATGTGCGAGTGGGGAGTGCACATGAGCTGA
1 TGATGATGACCCAGCTATGTGCGTGT-GGGAGTGCACATGAGCTGA
20989464 TGATG
1 TGATG
20989469 GTGGGATGGT
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
41 3 0.04
42 31 0.38
43 4 0.05
45 25 0.31
46 18 0.22
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (45 bp):
TGATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTGA
Found at i:20991508 original size:52 final size:53
Alignment explanation
Indices: 20991416--20991569 Score: 220
Period size: 52 Copynumber: 2.9 Consensus size: 53
20991406 AAAGGCATTG
* *
20991416 AAAGGTTATCATTTTATCTCATTAAAAAGCAAGAATCCCTTTGTGGATGGTGT
1 AAAGGTTATCACTTGATCTCATTAAAAAGCAAGAATCCCTTTGTGGATGGTGT
** *
20991469 AAAGGTTATCACTTGATCTTGTT-AAAAGCAAGAATCCCTTTGTGGATTGTGT
1 AAAGGTTATCACTTGATCTCATTAAAAAGCAAGAATCCCTTTGTGGATGGTGT
* * *
20991521 AAAAGTTATCACTTGATCCCATTAAAAAGCAAGAATCCTTTTAGTGGAT
1 AAAGGTTATCACTTGATCTCATTAAAAAGCAAGAATCCCTTT-GTGGAT
20991570 TGGACATTCC
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
52 47 0.53
53 36 0.40
54 6 0.07
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (53 bp):
AAAGGTTATCACTTGATCTCATTAAAAAGCAAGAATCCCTTTGTGGATGGTGT
Found at i:21002817 original size:23 final size:23
Alignment explanation
Indices: 21002764--21002817 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
21002754 TATAAATATA
*
21002764 TCTTTCTTCCAGTAGCTTCTTCT
1 TCTTTTTTCCAGTAGCTTCTTCT
* ** *
21002787 CCCATTTTCTAGTAGCTTCTTCT
1 TCTTTTTTCCAGTAGCTTCTTCT
21002810 TCTTTTTT
1 TCTTTTTT
21002818 ATTCTTCTCT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.28, G:0.07, T:0.56
Consensus pattern (23 bp):
TCTTTTTTCCAGTAGCTTCTTCT
Found at i:21020145 original size:41 final size:43
Alignment explanation
Indices: 21020100--21020191 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
21020090 ATAGCACATA
* *
21020100 CATAATATA-A-ATATAGCCATGAGTTGGGGTGAAATACCATT
1 CATAATATATATATATAGCCATGAGTTAGGGTGAAATACCACT
* * *
21020141 CATAATATATATGTATAGCTATGAGTTAGGGTGGAATACCACT
1 CATAATATATATATATAGCCATGAGTTAGGGTGAAATACCACT
*
21020184 CACAATAT
1 CATAATAT
21020192 GTCTAAGATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 9 0.21
42 1 0.02
43 33 0.77
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (43 bp):
CATAATATATATATATAGCCATGAGTTAGGGTGAAATACCACT
Found at i:21020815 original size:15 final size:16
Alignment explanation
Indices: 21020795--21020824 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21020785 CATTATGGTC
21020795 ATGA-TTATGCAAATT
1 ATGATTTATGCAAATT
21020810 ATGATTTATGCAAAT
1 ATGATTTATGCAAAT
21020825 GCTCTTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (16 bp):
ATGATTTATGCAAATT
Found at i:21021347 original size:54 final size:55
Alignment explanation
Indices: 21021279--21021387 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 55
21021269 ATAATACTGC
* * *
21021279 ACTTGAAA-CTTAAAAATTTATATAATATTTATACAAGGATATGTTTCCCATGGT
1 ACTTGAAACCTAAAAAATTTATATAATATATATACAAGGAGATGTTTCCCATGGT
*
21021333 ACTTGAAACCTAAAAAATTTATATAATATATATACATGGAGATGTTTCCCATGGT
1 ACTTGAAACCTAAAAAATTTATATAATATATATACAAGGAGATGTTTCCCATGGT
21021388 TTTATAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 8 0.16
55 42 0.84
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (55 bp):
ACTTGAAACCTAAAAAATTTATATAATATATATACAAGGAGATGTTTCCCATGGT
Found at i:21022993 original size:36 final size:35
Alignment explanation
Indices: 21022917--21023057 Score: 106
Period size: 36 Copynumber: 3.9 Consensus size: 35
21022907 CATTTGTGAG
* * *
21022917 GGTTATCGCTTGATCT--TAAGAAAGAGCCATTATAA
1 GGTTATCGCTTGATCTCGTTA-AAA-AGCCGTTGTAA
*
21022952 GGGTTATCGTTTGATCTCGTTAAAAAGCCGTTGTAAA
1 -GGTTATCGCTTGATCTCGTTAAAAAGCCGTTGT-AA
** * ***
21022989 GGTTATTACTTGATCTTGTTAAAAAGCCAAAGTAA
1 GGTTATCGCTTGATCTCGTTAAAAAGCCGTTGTAA
* * *
21023024 GGATTTTCGCTTGATCTCGTGAAAAAGTCGTTGT
1 GG-TTATCGCTTGATCTCGTTAAAAAGCCGTTGT
21023058 GAGGGTTTTG
Statistics
Matches: 81, Mismatches: 20, Indels: 8
0.74 0.18 0.07
Matches are distributed among these distances:
35 4 0.05
36 70 0.86
37 5 0.06
38 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (35 bp):
GGTTATCGCTTGATCTCGTTAAAAAGCCGTTGTAA
Found at i:21029015 original size:16 final size:17
Alignment explanation
Indices: 21028987--21029023 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
21028977 GATTTGTTCA
21028987 TTTCTTGGTATCCATAT
1 TTTCTTGGTATCCATAT
*
21029004 TTTCTTGG-ATCCATTT
1 TTTCTTGGTATCCATAT
21029020 TTTC
1 TTTC
21029024 AATAGTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.14, C:0.19, G:0.11, T:0.57
Consensus pattern (17 bp):
TTTCTTGGTATCCATAT
Found at i:21029954 original size:3 final size:3
Alignment explanation
Indices: 21029948--21029977 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
21029938 CTTCATCATT
*
21029948 TTC TTC TTA TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
21029978 AAGTTTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:21032688 original size:21 final size:20
Alignment explanation
Indices: 21032664--21032711 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
21032654 TCTTACCTTT
* *
21032664 TTTTTCGCTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
21032685 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
21032706 TTTTTC
1 TTTTTC
21032712 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.12, C:0.23, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:21034134 original size:37 final size:38
Alignment explanation
Indices: 21034063--21034146 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 38
21034053 TTCAAGTAAC
*
21034063 CTAT-ACAATCACTACCTTTTTAAGGGTCAAGCATAAT
1 CTATCACAATCACTACCTTTTCAAGGGTCAAGCATAAT
21034100 CTATCACAATCACTACC-TTTCAAGGGTCAAGCATAAT
1 CTATCACAATCACTACCTTTTCAAGGGTCAAGCATAAT
21034137 CTATCACAAT
1 CTATCACAAT
21034147 TACTGTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 33 0.73
38 12 0.27
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (38 bp):
CTATCACAATCACTACCTTTTCAAGGGTCAAGCATAAT
Found at i:21037689 original size:35 final size:35
Alignment explanation
Indices: 21037645--21037717 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
21037635 GTAGTGCGTG
*
21037645 TGATGATATTGAAATGTGTGTGTAGGGAATGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAATGCACA
*** *
21037680 TGATGATATTGCCTTGTGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAATGCACA
21037715 TGA
1 TGA
21037718 GTTGAGTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.10, G:0.33, T:0.32
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGTAGGGAATGCACA
Found at i:21040013 original size:42 final size:42
Alignment explanation
Indices: 21039954--21040095 Score: 212
Period size: 42 Copynumber: 3.4 Consensus size: 42
21039944 TGTTGATTTG
* *
21039954 GACCCGGCTTTGTGCGAGTAGGAGTGCACATAAGCCGTTACT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * *
21039996 GACCCAGCTATGTGCGAGTAAGAGTGCACATAAGCCATTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
21040038 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
21040080 GACCCGGCTATATGCG
1 GACCCGGCTATGTGCG
21040096 CATAAGCCGT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.23
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:21044167 original size:33 final size:33
Alignment explanation
Indices: 21044120--21044186 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
21044110 ATTGGACTTT
*
21044120 TAGAATGAGAGTTATATTTAAAATACTGAAACA
1 TAGAATGAGAGTTATACTTAAAATACTGAAACA
*
21044153 TAGATTGAGAGTTATACTTAAAATACTGAAACA
1 TAGAATGAGAGTTATACTTAAAATACTGAAACA
21044186 T
1 T
21044187 TTACAAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.31
Consensus pattern (33 bp):
TAGAATGAGAGTTATACTTAAAATACTGAAACA
Found at i:21045568 original size:19 final size:19
Alignment explanation
Indices: 21045544--21045580 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21045534 AAATTATCAA
*
21045544 CTGGCCGAGGGTTTCTCAG
1 CTGGCCAAGGGTTTCTCAG
21045563 CTGGCCAAGGGTTTCTCA
1 CTGGCCAAGGGTTTCTCA
21045581 CTAAAACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.27, G:0.32, T:0.27
Consensus pattern (19 bp):
CTGGCCAAGGGTTTCTCAG
Found at i:21045993 original size:2 final size:2
Alignment explanation
Indices: 21045986--21046026 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21045976 TATTGCATAA
21045986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21046027 CATACATAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21047049 original size:23 final size:21
Alignment explanation
Indices: 21047009--21047063 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
21046999 TACCTTGGAA
*
21047009 ATCATCATTATTTCTATTTTC
1 ATCATCATTTTTTCTATTTTC
*
21047030 TTCATCATTTTATTCATATTTTC
1 ATCATCATTTT-TTC-TATTTTC
21047053 ATCATTCATTT
1 ATCA-TCATTT
21047064 ATGCCTTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.32
22 3 0.11
23 10 0.36
24 6 0.21
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (21 bp):
ATCATCATTTTTTCTATTTTC
Found at i:21048652 original size:20 final size:20
Alignment explanation
Indices: 21048622--21048670 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
21048612 GAAAAATCAA
* * *
21048622 TTTCCTTTCATTTTCTTTTC
1 TTTCTTTTCATTTCCTTTCC
*
21048642 TTTGTTTTCATTTCCTTTCC
1 TTTCTTTTCATTTCCTTTCC
21048662 TTTCTTTTC
1 TTTCTTTTC
21048671 TTACTTCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTCTTTTCATTTCCTTTCC
Found at i:21048682 original size:16 final size:17
Alignment explanation
Indices: 21048661--21048696 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
21048651 ATTTCCTTTC
*
21048661 CTTTCTTTTCTT-ACTT
1 CTTTCTTCTCTTAACTT
21048677 CTTTCTTCTCTTAACTT
1 CTTTCTTCTCTTAACTT
21048694 CTT
1 CTT
21048697 AGGCATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (17 bp):
CTTTCTTCTCTTAACTT
Found at i:21049579 original size:55 final size:55
Alignment explanation
Indices: 21049496--21049657 Score: 227
Period size: 55 Copynumber: 2.9 Consensus size: 55
21049486 TGACGACGAG
* * * * * *
21049496 TGATTCCAGCTATGTGGGGTGTGAGAGTGCACATGAGCTGATGATCAGTGGGTGA
1 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGACCAGTGGATGA
*
21049551 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGACCGGTGGATGA
1 TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGACCAGTGGATGA
*
21049606 TGATT-TCAGCTATGTGCGATGTGGGAGTGCACATGAGCTAATGAGCCAGTGG
1 TGATTCT-AGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGA-CCAGTGG
21049658 TTGTATACAT
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 1 0.01
55 89 0.93
56 6 0.06
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.27
Consensus pattern (55 bp):
TGATTCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTAATGACCAGTGGATGA
Found at i:21049589 original size:28 final size:28
Alignment explanation
Indices: 21049558--21049645 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
21049548 TGATGATTCT
21049558 AGCTATGTGCGGTGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
** * ** *
21049586 AGCTAATGACCGGTG-GATGA-TG-ATTTC
1 AGCT-ATGTGCGGTGTG-GGAGTGCACATG
*
21049613 AGCTATGTGCGATGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
21049641 AGCTA
1 AGCTA
21049646 ATGAGCCAGT
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
26 9 0.21
27 9 0.21
28 14 0.33
29 10 0.24
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (28 bp):
AGCTATGTGCGGTGTGGGAGTGCACATG
Found at i:21049657 original size:28 final size:28
Alignment explanation
Indices: 21049571--21049657 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
21049561 TATGTGCGGT
*
21049571 GTGGGAGTGCACATGAGCTAATGA-CCG
1 GTGGGAGTGCACATGAGCTAATGAGCCA
** * * *
21049598 GT-GGATGATG-ATTTCAGCT-ATGTGCGA
1 GTGGGA-G-TGCACATGAGCTAATGAGCCA
21049625 TGTGGGAGTGCACATGAGCTAATGAGCCA
1 -GTGGGAGTGCACATGAGCTAATGAGCCA
21049654 GTGG
1 GTGG
21049658 TTGTATACAT
Statistics
Matches: 42, Mismatches: 11, Indels: 13
0.64 0.17 0.20
Matches are distributed among these distances:
26 6 0.14
27 12 0.29
28 15 0.36
29 9 0.21
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (28 bp):
GTGGGAGTGCACATGAGCTAATGAGCCA
Found at i:21050248 original size:39 final size:39
Alignment explanation
Indices: 21050194--21050272 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
21050184 AATTATGAGA
21050194 TTGTTGCACACTCTGTACATTTGATTTGATTAACCATGT
1 TTGTTGCACACTCTGTACATTTGATTTGATTAACCATGT
21050233 TTGTTGCACACTCTGTACATTTGATTTGATTAACCATGT
1 TTGTTGCACACTCTGTACATTTGATTTGATTAACCATGT
21050272 T
1 T
21050273 GTTTAGGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (39 bp):
TTGTTGCACACTCTGTACATTTGATTTGATTAACCATGT
Found at i:21053270 original size:36 final size:36
Alignment explanation
Indices: 21053238--21053336 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 36
21053228 TGAGGGTTGC
*
21053238 CACTTGATCCCATGACAAAGCTATTATAAGGGTTAT
1 CACTTGATCCCATGAAAAAGCTATTATAAGGGTTAT
*** * *
21053274 CACTTGATCTTGTTAAAAAG-TCATTGTAAGGGTTAT
1 CACTTGATCCCATGAAAAAGCT-ATTATAAGGGTTAT
*
21053310 CACTTGATCCCATGAAAAAGCCATTAT
1 CACTTGATCCCATGAAAAAGCTATTAT
21053337 GACAAATTTG
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (36 bp):
CACTTGATCCCATGAAAAAGCTATTATAAGGGTTAT
Found at i:21055092 original size:52 final size:52
Alignment explanation
Indices: 21055005--21055111 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 52
21054995 CGAACATATA
* * * *
21055005 TGTCTTTTCATGTAAACAGTCCTTTTTTTTCATAAGATGACTATTCAAAAGT
1 TGTCTTTCCATATAAACAGTCCTTTCTTTTAATAAGATGACTATTCAAAAGT
* *
21055057 TGTCTTTCCATATAAAGAGTCGTTTCTTTTAATAAGATGACTATTCAAAAGT
1 TGTCTTTCCATATAAACAGTCCTTTCTTTTAATAAGATGACTATTCAAAAGT
21055109 TGT
1 TGT
21055112 TTCCTTTCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (52 bp):
TGTCTTTCCATATAAACAGTCCTTTCTTTTAATAAGATGACTATTCAAAAGT
Found at i:21055320 original size:2 final size:2
Alignment explanation
Indices: 21055302--21055337 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
21055292 CTCCTATAAA
* *
21055302 AT AT AT GT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21055338 TATTAGTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21060209 original size:52 final size:52
Alignment explanation
Indices: 21060124--21060223 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
21060114 AACGTTTATG
* * * *
21060124 TCTTTTCACGTAAACAATCCTTTCCTTTCATAAGATGACTATTTAAAATTTA
1 TCTTTCCACGTAAACAATCCTTTCCTTTAATAAGATAACTATTCAAAATTTA
* * * *
21060176 TCTTTCCATGTAAACAGTCGTTTCTTTTAATAAGATAACTATTCAAAA
1 TCTTTCCACGTAAACAATCCTTTCCTTTAATAAGATAACTATTCAAAA
21060224 GAGTTTTCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (52 bp):
TCTTTCCACGTAAACAATCCTTTCCTTTAATAAGATAACTATTCAAAATTTA
Found at i:21074549 original size:46 final size:46
Alignment explanation
Indices: 21074499--21074589 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
21074489 AGGGGTTCCC
* *
21074499 TAAGGGAGCATCGATGGT-CTTCAAGGGGAGCTCGATC-GAGGCTCCT
1 TAAGGGAGCACCGATGGTCCTT-AAGGGGAGCCCGATCAGA-GCTCCT
*
21074545 TAAGGGAGCACCGGTGGTCCTTAAGGGGAGCCCGATCAGAGCTCC
1 TAAGGGAGCACCGATGGTCCTTAAGGGGAGCCCGATCAGAGCTCC
21074590 CAAAGGAGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
46 35 0.88
47 5 0.12
ACGTcount: A:0.22, C:0.24, G:0.35, T:0.19
Consensus pattern (46 bp):
TAAGGGAGCACCGATGGTCCTTAAGGGGAGCCCGATCAGAGCTCCT
Found at i:21074629 original size:21 final size:21
Alignment explanation
Indices: 21074605--21074647 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
21074595 GAGCACTTGG
*
21074605 TGCTCCCTTTGGGGAG-CTCGA
1 TGCTCCC-TTAGGGAGCCTCGA
*
21074626 TGCTCTCTTAGGGAGCCTCGA
1 TGCTCCCTTAGGGAGCCTCGA
21074647 T
1 T
21074648 CGGTGCTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.12, C:0.28, G:0.30, T:0.30
Consensus pattern (21 bp):
TGCTCCCTTAGGGAGCCTCGA
Found at i:21075721 original size:27 final size:28
Alignment explanation
Indices: 21075649--21075721 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 28
21075639 ATTAAATTAC
* *
21075649 ATTTATTAAAATATATTTTTAATTTTTATA
1 ATTT-TTAAAAAATA-TTTGAATTTTTATA
*
21075679 ATTTTTAATAAA-ATTTGAATTATTTAT-
1 ATTTTTAAAAAATATTTGAATT-TTTATA
21075706 A-TTTTAAAAAATATTT
1 ATTTTTAAAAAATATTT
21075722 ATATTTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 9 0.24
27 12 0.32
28 6 0.16
29 6 0.16
30 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (28 bp):
ATTTTTAAAAAATATTTGAATTTTTATA
Found at i:21075874 original size:51 final size:51
Alignment explanation
Indices: 21075806--21075908 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
21075796 ATTTTTTTAT
* * * *
21075806 AAAAAATAATTTTAAATTACATAATATTATAAATAAAAATAATAATAGTAA
1 AAAAAATAATTTTAAATTAAAAAATACTATAAATAAAAATAATAATAATAA
* *
21075857 AAAAGAATAA-TTTAAATTAAAAAATACTATAAATAATAATAGTAATAATAA
1 AAAA-AATAATTTTAAATTAAAAAATACTATAAATAAAAATAATAATAATAA
21075908 A
1 A
21075909 TTAAAGGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 40 0.89
52 5 0.11
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (51 bp):
AAAAAATAATTTTAAATTAAAAAATACTATAAATAAAAATAATAATAATAA
Found at i:21077750 original size:39 final size:39
Alignment explanation
Indices: 21077691--21077784 Score: 179
Period size: 39 Copynumber: 2.4 Consensus size: 39
21077681 TGGGTTTCCG
21077691 TAAGCTTCATGGGTTTTGGAATCAATGAAGCTCAGTTCA
1 TAAGCTTCATGGGTTTTGGAATCAATGAAGCTCAGTTCA
*
21077730 TAAGTTTCATGGGTTTTGGAATCAATGAAGCTCAGTTCA
1 TAAGCTTCATGGGTTTTGGAATCAATGAAGCTCAGTTCA
21077769 TAAGCTTCATGGGTTT
1 TAAGCTTCATGGGTTT
21077785 GTTTTTTCCT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (39 bp):
TAAGCTTCATGGGTTTTGGAATCAATGAAGCTCAGTTCA
Found at i:21081948 original size:123 final size:123
Alignment explanation
Indices: 21081798--21082045 Score: 487
Period size: 123 Copynumber: 2.0 Consensus size: 123
21081788 ACAATTGAGA
21081798 TTCTATAAATCTGTACATATGCATGCAACTTCTTTTAATTAATAGAAAAGAGGTTGATGAGAAGT
1 TTCTATAAATCTGTACATATGCATGCAACTTCTTTTAATTAATAGAAAAGAGGTTGATGAGAAGT
21081863 AGCTGTTGCTATTATGTGAAGCAATCTGTGAAGCCTCTCTACTCTTTATTTTAATCTG
66 AGCTGTTGCTATTATGTGAAGCAATCTGTGAAGCCTCTCTACTCTTTATTTTAATCTG
21081921 TTCTATAAATCTGTACATATGCATGCAACTTCTTTTAATTAATAGAAAAGAGGTTGATGAGAAGT
1 TTCTATAAATCTGTACATATGCATGCAACTTCTTTTAATTAATAGAAAAGAGGTTGATGAGAAGT
*
21081986 AGCTGTTGCTATTGTGTGAAGCAATCTGTGAAGCCTCTCTACTCTTTATTTTAATCTG
66 AGCTGTTGCTATTATGTGAAGCAATCTGTGAAGCCTCTCTACTCTTTATTTTAATCTG
21082044 TT
1 TT
21082046 TCAGGTTAAT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (123 bp):
TTCTATAAATCTGTACATATGCATGCAACTTCTTTTAATTAATAGAAAAGAGGTTGATGAGAAGT
AGCTGTTGCTATTATGTGAAGCAATCTGTGAAGCCTCTCTACTCTTTATTTTAATCTG
Found at i:21084919 original size:15 final size:17
Alignment explanation
Indices: 21084889--21084921 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
21084879 TATTTTGTGT
21084889 TAACATTATAAAAATTA
1 TAACATTATAAAAATTA
21084906 TAAC-TTAT-AAAATTA
1 TAACATTATAAAAATTA
21084921 T
1 T
21084922 TAATTGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
TAACATTATAAAAATTA
Found at i:21101280 original size:16 final size:16
Alignment explanation
Indices: 21101259--21101300 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
21101249 GAAGAAATTC
21101259 AACATGTTGAATTGCA
1 AACATGTTGAATTGCA
21101275 AACATGTTGAATTGCA
1 AACATGTTGAATTGCA
*
21101291 AACTTGTTGA
1 AACATGTTGA
21101301 TTGTCTAATG
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:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (16 bp):
AACATGTTGAATTGCA
Found at i:21106365 original size:60 final size:60
Alignment explanation
Indices: 21106129--21106365 Score: 239
Period size: 60 Copynumber: 4.0 Consensus size: 60
21106119 TATTTGATTA
* * * * * *
21106129 TAAAAGGGAACTTGAAGCCCCAATTTATATTTGTTGGCATGGGCAATTCCCACAAGTGGG
1 TAAAAGGGGACCTGAAGCCTCAATTTATATTTGGTGGCGTGGGCAATTCCCACAAGTAGG
* * * *
21106189 TAAAGGGGGACCTGAAG-CTCGATTTATATTTGGTGG-GTGGGCTATTCCCACGAGT-GTG
1 TAAAAGGGGACCTGAAGCCTCAATTTATATTTGGTGGCGTGGGCAATTCCCACAAGTAG-G
* * * * * * * *
21106247 T-AAAGGGAGACCTAAAACATCGATTTATATTTAGTGGCGTGGGTAGTTCCCACGAGTAGG
1 TAAAAGGG-GACCTGAAGCCTCAATTTATATTTGGTGGCGTGGGCAATTCCCACAAGTAGG
* * *
21106307 TAAAAGGGGACTTGAAGCCTCAATTTATATTTGGTGGCGTGGGCAATTTCCATAAGTAG
1 TAAAAGGGGACCTGAAGCCTCAATTTATATTTGGTGGCGTGGGCAATTCCCACAAGTAG
21106366 ATGATGATGT
Statistics
Matches: 143, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
57 6 0.04
58 25 0.17
59 33 0.23
60 72 0.50
61 7 0.05
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (60 bp):
TAAAAGGGGACCTGAAGCCTCAATTTATATTTGGTGGCGTGGGCAATTCCCACAAGTAGG
Found at i:21115257 original size:37 final size:37
Alignment explanation
Indices: 21115199--21115280 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
21115189 AATGCAATAT
21115199 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
* * *
21115236 CTTCATTATGTGTGCATTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
21115273 CATCATCA
1 CATCATCA
21115281 CACAACATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.24, C:0.35, G:0.10, T:0.30
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:21115907 original size:2 final size:2
Alignment explanation
Indices: 21115900--21115928 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21115890 TCATGGAAAG
21115900 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21115929 AAAATGTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21116151 original size:20 final size:20
Alignment explanation
Indices: 21116126--21116164 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21116116 AGAAGAACAA
*
21116126 GAAGCTGCTGGAAAAATGAG
1 GAAGCTACTGGAAAAATGAG
*
21116146 GAAGCTACTGGAGAAATGA
1 GAAGCTACTGGAAAAATGA
21116165 AATATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.33, T:0.15
Consensus pattern (20 bp):
GAAGCTACTGGAAAAATGAG
Found at i:21120426 original size:242 final size:240
Alignment explanation
Indices: 21119990--21120471 Score: 919
Period size: 242 Copynumber: 2.0 Consensus size: 240
21119980 ATGATTTACT
*
21119990 TAACTGTTGCATTTCGCCCTTGCGGCTATAAAAATAAAAATTTCTTAAACTTAGGATGTAGAAAC
1 TAACTGTTGCACTTCGCCCTTGCGGCTATAAAAATAAAAATTTCTTAAACTTAGGATGTAGAAAC
21120055 TCCCTCTTAGAACTTATCCAAAAATTGATATTTCTAAATCCTTTACCTCTGTGAAGATCGCATTC
66 TCCCTCTTAGAACTTATCCAAAAATTGATATTTCTAAATCCTTTACCTCTGTGAAGATCGCATTC
21120120 GAAACTGATCATATTTATCATAGATTGCATACTGAACCCAATAGACTTTTAAATTGATCGTTAAG
131 GAAACTGATCATATTTATCATAGATTGCATACTGAACCCAATAGACTTTTAAATTGATCGTTAAG
21120185 CAATTCGTATATCAAACTCAAATATAAAACTCCATATGGCATTTA
196 CAATTCGTATATCAAACTCAAATATAAAACTCCATATGGCATTTA
21120230 NTAACTGTTGCACTTCGCCCTTGCGGCTATAAAAATAAAAATTTCTTAAACTTAGGATGTAGAAA
1 -TAACTGTTGCACTTCGCCCTTGCGGCTATAAAAATAAAAATTTCTTAAACTTAGGATGTAGAAA
*
21120295 CTCCCTCTTAGAATTTATCCAAAAATTGATATTTCCTAAATCCTTTACCTCTGTGAAGATCGCAT
65 CTCCCTCTTAGAACTTATCCAAAAATTGATATTT-CTAAATCCTTTACCTCTGTGAAGATCGCAT
21120360 TCGAAACTGATCATATTTATCATAGATTGCATACTGAACCCAATAGACTTTTAAATTGATCGTTA
129 TCGAAACTGATCATATTTATCATAGATTGCATACTGAACCCAATAGACTTTTAAATTGATCGTTA
*
21120425 AGCAATTCGTATATCAAACTCAAATATAGAACTCCATATGGCATTTA
194 AGCAATTCGTATATCAAACTCAAATATAAAACTCCATATGGCATTTA
21120472 CACTAGATTC
Statistics
Matches: 237, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
241 96 0.41
242 141 0.59
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (240 bp):
TAACTGTTGCACTTCGCCCTTGCGGCTATAAAAATAAAAATTTCTTAAACTTAGGATGTAGAAAC
TCCCTCTTAGAACTTATCCAAAAATTGATATTTCTAAATCCTTTACCTCTGTGAAGATCGCATTC
GAAACTGATCATATTTATCATAGATTGCATACTGAACCCAATAGACTTTTAAATTGATCGTTAAG
CAATTCGTATATCAAACTCAAATATAAAACTCCATATGGCATTTA
Found at i:21122432 original size:2 final size:2
Alignment explanation
Indices: 21122425--21122451 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21122415 ACTTTCTATA
21122425 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
21122452 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21122456 original size:2 final size:2
Alignment explanation
Indices: 21122451--21122489 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
21122441 ACACACACAC
21122451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21122490 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21123465 original size:2 final size:2
Alignment explanation
Indices: 21123458--21123487 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21123448 NNNNNNNNNN
21123458 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21123488 TTATGGAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21125289 original size:60 final size:60
Alignment explanation
Indices: 21125093--21125285 Score: 217
Period size: 60 Copynumber: 3.2 Consensus size: 60
21125083 AATTTGATTA
* * * ** *
21125093 TAAAGGGGGACCTAAAGCCTCAATTTATATTTGGTGATGTGGGCAATTCCCATAAGTAGG
1 TAAAGAGGGACCTAAAGCCCCAATTTATATTTAGTGGCGTGGGCAATTCCCATGAGTAGG
* * * * *
21125153 TAAAAGAGGG-CCTAAAGCCCTAATTTATATTTAGTTGCGCGGGCAATTCCCACGAGTAAG
1 T-AAAGAGGGACCTAAAGCCCCAATTTATATTTAGTGGCGTGGGCAATTCCCATGAGTAGG
* * * * * *
21125213 TAAAGGGGGACTTGAAGCCCCATTTTATATTTAGTGGCATGGGCAATTCCTATGAGTAGG
1 TAAAGAGGGACCTAAAGCCCCAATTTATATTTAGTGGCGTGGGCAATTCCCATGAGTAGG
21125273 TAAAGAGGGACCT
1 TAAAGAGGGACCT
21125286 GAAGTGTGAG
Statistics
Matches: 107, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
59 7 0.07
60 93 0.87
61 7 0.07
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (60 bp):
TAAAGAGGGACCTAAAGCCCCAATTTATATTTAGTGGCGTGGGCAATTCCCATGAGTAGG
Found at i:21138844 original size:10 final size:10
Alignment explanation
Indices: 21138829--21138860 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
21138819 TTCTTTTTCC
21138829 TTTTCTCTTT
1 TTTTCTCTTT
21138839 TTTTCT-TTT
1 TTTTCTCTTT
21138848 TTTT-TCTTT
1 TTTTCTCTTT
21138857 TTTT
1 TTTT
21138861 TTTTACTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 14 0.67
10 6 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:21138855 original size:18 final size:17
Alignment explanation
Indices: 21138829--21138864 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
21138819 TTCTTTTTCC
21138829 TTTTCTCTTTTTTTCTTT
1 TTTTCTCTTTTTTT-TTT
*
21138847 TTTTTTCTTTTTTTTTT
1 TTTTCTCTTTTTTTTTT
21138864 T
1 T
21138865 ACTTATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTCTCTTTTTTTTTT
Found at i:21138861 original size:10 final size:10
Alignment explanation
Indices: 21138816--21138862 Score: 67
Period size: 10 Copynumber: 4.5 Consensus size: 10
21138806 TGGAACTATG
21138816 TTTTTCTTTT
1 TTTTTCTTTT
*
21138826 TCCTTTTCTCTT
1 T--TTTTCTTTT
21138838 TTTTTCTTTT
1 TTTTTCTTTT
21138848 TTTTTCTTTT
1 TTTTTCTTTT
21138858 TTTTT
1 TTTTT
21138863 TTACTTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 24 0.73
12 9 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:21142274 original size:35 final size:35
Alignment explanation
Indices: 21142230--21142358 Score: 129
Period size: 35 Copynumber: 3.8 Consensus size: 35
21142220 TTAGTTGTTG
* * *
21142230 GGTTTTGGTTGATCCCATAAAAAACCATTGTTATA
1 GGTTGTGGTTGAGCCCATGAAAAACCATTGTTATA
** * *
21142265 GGTTGTGGTTGAGCCTTTGAAAAACCA--CTT-TG
1 GGTTGTGGTTGAGCCCATGAAAAACCATTGTTATA
* * *
21142297 GGTTTTGGTTGAGCCCATGAAAAACCATTGTGAAA
1 GGTTGTGGTTGAGCCCATGAAAAACCATTGTTATA
**
21142332 GGTTGTGGTTGAGCCTTTGAAAAACCA
1 GGTTGTGGTTGAGCCCATGAAAAACCA
21142359 CTTTGGGTTA
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
32 25 0.34
33 2 0.03
34 1 0.01
35 46 0.62
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (35 bp):
GGTTGTGGTTGAGCCCATGAAAAACCATTGTTATA
Found at i:21142299 original size:67 final size:67
Alignment explanation
Indices: 21142227--21142415 Score: 252
Period size: 67 Copynumber: 2.8 Consensus size: 67
21142217 ATGTTAGTTG
* * *
21142227 TTGGGTTTTGGTTGATCCCATAAAAAACCATTGTTATAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGAGCCCATAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
21142292 CT
66 CT
*
21142294 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGAGCCCATAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
21142359 CT
66 CT
* * * ** * * * * *
21142361 TTGGGTTATAGTTAAGCCCAGGAAAAACTAGTGTAAAAGGTTTTGGCTGAGCCTT
1 TTGGGTTTTGGTTGAGCCCATAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
21142416 GTAAAAGCCA
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 109 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (67 bp):
TTGGGTTTTGGTTGAGCCCATAAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
CT
Found at i:21142311 original size:32 final size:32
Alignment explanation
Indices: 21142265--21142367 Score: 136
Period size: 32 Copynumber: 3.1 Consensus size: 32
21142255 CATTGTTATA
21142265 GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
* **
21142297 GGTTTTGGTTGAGCCCATGAAAAACCA-TTGTG
1 GGTTGTGGTTGAGCCTTTGAAAAACCACTT-TG
21142329 AAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 ---GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
21142364 GGTT
1 GGTT
21142368 ATAGTTAAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
31 2 0.03
32 30 0.50
35 26 0.43
36 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (32 bp):
GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
Found at i:21147650 original size:94 final size:94
Alignment explanation
Indices: 21147489--21147672 Score: 289
Period size: 94 Copynumber: 2.0 Consensus size: 94
21147479 GGGCATGCAT
*
21147489 TTCATAACCTCATAAATCACTTACATGCTTAGCCTATAATGTATATGACTATCTCAACACATGCA
1 TTCATAACCTCATAAATCACTTACATGCTTAGCCTATAATGTATATGACTATCTCAACACATACA
21147554 TCTCATGACATACATTTCATAACCTTATA
66 TCTCATGACATACATTTCATAACCTTATA
* * *
21147583 TTCATAACCTCATAAATCACTTACATGCTTAGCTTATAGTGTAT-TAGATTATCTCAACACATAC
1 TTCATAACCTCATAAATCACTTACATGCTTAGCCTATAATGTATAT-GACTATCTCAACACATAC
** *
21147647 ATCTTGTGGCATACATTTCATAACCT
65 ATCTCATGACATACATTTCATAACCT
21147673 CATAAATCAC
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 1 0.01
94 81 0.99
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (94 bp):
TTCATAACCTCATAAATCACTTACATGCTTAGCCTATAATGTATATGACTATCTCAACACATACA
TCTCATGACATACATTTCATAACCTTATA
Found at i:21147723 original size:80 final size:80
Alignment explanation
Indices: 21147583--21147742 Score: 225
Period size: 80 Copynumber: 2.0 Consensus size: 80
21147573 TAACCTTATA
** *
21147583 TTCATAACCTCATAAATCACTTACATGCTTAGCTTATAGTGTATTAGATTATCTCAACACATACA
1 TTCATAACCTCATAAATCACTTACATGCTTAGCCCATAGTGTAATAGATTATCTCAACACATACA
**
21147648 TCTTGTGGCATACAT
66 TCTCATGGCATACAT
**
21147663 TTCATAACCTCATAAATCACTTACATGCTTAGCCCATAGTGTACAT-GA-TATGCTTGACACATA
1 TTCATAACCTCATAAATCACTTACATGCTTAGCCCATAGTGTA-ATAGATTAT-CTCAACACATA
21147726 CATCTCATGGCATACAT
64 CATCTCATGGCATACAT
21147743 GTTACAATCT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
79 3 0.04
80 67 0.94
81 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.34
Consensus pattern (80 bp):
TTCATAACCTCATAAATCACTTACATGCTTAGCCCATAGTGTAATAGATTATCTCAACACATACA
TCTCATGGCATACAT
Found at i:21151218 original size:16 final size:17
Alignment explanation
Indices: 21151197--21151235 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
21151187 ATCAAACTTA
*
21151197 ATATTTTATATATAT-T
1 ATATTTTATATAAATAT
21151213 ATA-TTTATATAAATAT
1 ATATTTTATATAAATAT
21151229 ATATTTT
1 ATATTTT
21151236 CCTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 10 0.50
16 7 0.35
17 3 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTTTATATAAATAT
Found at i:21154410 original size:25 final size:25
Alignment explanation
Indices: 21154382--21154429 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
21154372 TCCATCAAAT
21154382 TTTTGAGTATCTTAAGTATAAAAAG
1 TTTTGAGTATCTTAAGTATAAAAAG
21154407 TTTTGAGTATCTTAAGTATAAAA
1 TTTTGAGTATCTTAAGTATAAAA
21154430 GGCAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTTGAGTATCTTAAGTATAAAAAG
Found at i:21154748 original size:18 final size:18
Alignment explanation
Indices: 21154711--21154748 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21154701 ATTGTAACTT
*
21154711 TTATAAATATTTAGGATA
1 TTATAAATATCTAGGATA
21154729 TTATAGAATATCTAGG-TA
1 TTATA-AATATCTAGGATA
21154747 TT
1 TT
21154749 TTATATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (18 bp):
TTATAAATATCTAGGATA
Found at i:21156346 original size:17 final size:16
Alignment explanation
Indices: 21156324--21156372 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
21156314 TCTGCCTAAT
21156324 TTGAACTCAAAAATGAC
1 TTGAACTC-AAAATGAC
* *
21156341 TTGAACCCAAAACGAC
1 TTGAACTCAAAATGAC
*
21156357 CTGAACTCAAAATGAC
1 TTGAACTCAAAATGAC
21156373 CCAAACCTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (16 bp):
TTGAACTCAAAATGAC
Found at i:21161909 original size:71 final size:72
Alignment explanation
Indices: 21161776--21161939 Score: 215
Period size: 71 Copynumber: 2.3 Consensus size: 72
21161766 TATAGAGAGA
* * *
21161776 CCAAGGTTGACTATGTCTTTGAAATGTCCCATTTTTCACGCATCAAGCTCATTAGGGTCGACTAC
1 CCAAGGTTGACTATGTCTTTGAAATATCCCATTTTTCACGCATCAAGCTCATCAAGGTCGACTAC
*
21161841 GCATGTG
66 ACATGTG
* * * * *
21161848 CCAGGGTCT-ACTATGTCTTTGCAATATCCCA-TTTTCATGTATCTAGCTCATCAAGGTCGACTA
1 CCAAGGT-TGACTATGTCTTTGAAATATCCCATTTTTCACGCATCAAGCTCATCAAGGTCGACTA
21161911 CACATGTG
65 CACATGTG
*
21161919 CCAAGGTTGACTATGACTTTG
1 CCAAGGTTGACTATGTCTTTG
21161940 TATTCTTCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.01
71 51 0.65
72 26 0.33
73 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (72 bp):
CCAAGGTTGACTATGTCTTTGAAATATCCCATTTTTCACGCATCAAGCTCATCAAGGTCGACTAC
ACATGTG
Found at i:21167625 original size:18 final size:18
Alignment explanation
Indices: 21167602--21167661 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
21167592 TTAAATTATT
21167602 TAATTAAATCATTGGGCC
1 TAATTAAATCATTGGGCC
* * * **
21167620 TAATTAATTAATT-TGTT
1 TAATTAAATCATTGGGCC
*
21167637 TAATTAAGTCATTGGGCC
1 TAATTAAATCATTGGGCC
21167655 TAATTAA
1 TAATTAA
21167662 TTAATTTGTT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (18 bp):
TAATTAAATCATTGGGCC
Found at i:21167628 original size:35 final size:35
Alignment explanation
Indices: 21167562--21167810 Score: 315
Period size: 35 Copynumber: 7.1 Consensus size: 35
21167552 CACTTGATTA
*
21167562 AAATTGTTTAATTAAG---TTGTGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* *
21167594 AAATTATTTAATTAAATCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
21167629 AATTTGTTTAATTAAGTCATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * *
21167664 AATTTGTTTAATTAAGTCATTGAGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
*
21167699 AAATTTGTTTAATTAAGTCATTGGGCCTAATTGATT
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * * *
21167735 AAAATTATTTAATTAAATTATTGGGCATAATTAATT
1 -AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * **
21167771 AAATTGTTTAATTAAGTTATTGAGCCTAATCGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
21167806 AAATT
1 AAATT
21167811 AAACAATTAA
Statistics
Matches: 191, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.07
35 116 0.61
36 58 0.30
37 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:21167736 original size:71 final size:71
Alignment explanation
Indices: 21167558--21167811 Score: 338
Period size: 71 Copynumber: 3.6 Consensus size: 71
21167548 CAAGCACTTG
* *
21167558 ATTAAAATTGTTTAATTAAG---TTGTGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCC
1 ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCC
21167620 TAATTA
66 TAATTA
* * * *
21167626 ATT-AATTTGTTTAATTAAGTCATTGGGCCTAATTAATTAATTTGTTTAATTAAGTCATTGAGCC
1 ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCC
*
21167690 TAATTG
66 TAATTA
* *
21167696 ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTATTTAATTAAATTATTGGGC
1 ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTAATT-AAATTATTTAATTAAATCATTGGGC
*
21167761 ATAATTA
65 CTAATTA
* * **
21167768 ATTAAA-TTGTTTAATTAAGTTATTGAGCCTAATCGATTAAATTA
1 ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTA
21167812 AACAATTAAG
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
67 15 0.09
68 3 0.02
70 51 0.31
71 63 0.39
72 31 0.19
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (71 bp):
ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCC
TAATTA
Found at i:21167807 original size:142 final size:138
Alignment explanation
Indices: 21167555--21167807 Score: 380
Period size: 142 Copynumber: 1.8 Consensus size: 138
21167545 TCTCAAGCAC
* *
21167555 TTGATTAAAATTGTTTAATTAAGTTGTGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCC
1 TTGATTAAAATTGTTTAATTAAGTTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCA
* * *
21167620 TAATTAATTAATTTGTTTAATTAAGTCATTGGGCCTAATTAATTAATTTGTTTAATTAAGTCATT
66 TAATTAATTAAATTGTTTAATTAAGTCATTGAGCCTAATCAATTAATTTGTTTAATTAAGTCATT
21167685 GAGCCTAA
131 GAGCCTAA
* * *
21167693 TTGATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTATTTAATTAAATTATTG
1 TTGATTAAAATTGTTTAATTAAG---TTGGGCCTAATTAATT-AAATTATTTAATTAAATCATTG
* *
21167758 GGCATAATTAATTAAATTGTTTAATTAAGTTATTGAGCCTAATCGATTAA
62 GGCATAATTAATTAAATTGTTTAATTAAGTCATTGAGCCTAATCAATTAA
21167808 ATTAAACAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
138 22 0.22
141 14 0.14
142 65 0.64
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.45
Consensus pattern (138 bp):
TTGATTAAAATTGTTTAATTAAGTTGGGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCA
TAATTAATTAAATTGTTTAATTAAGTCATTGAGCCTAATCAATTAATTTGTTTAATTAAGTCATT
GAGCCTAA
Found at i:21170332 original size:43 final size:43
Alignment explanation
Indices: 21170273--21170402 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 43
21170263 TTGTGTGATA
* *
21170273 ATGATGACCTGGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCGGTGTGAGAGTGCACATGAGCTG
*
21170316 ATGATGACCTAGCTATGTGCGGTGTGAGAGTGCACATGAGTTG
1 ATGATGACCTAGCTATGTGCGGTGTGAGAGTGCACATGAGCTG
* * *
21170359 ATGATGACC-CGACTATGTGCAAGT-AGAGAGTGCACATGAGCTG
1 ATGATGACCTAG-CTATGTGC-GGTGTGAGAGTGCACATGAGCTG
21170402 A
1 A
21170403 GTGTGGCGGG
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.01
43 75 0.96
44 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.25
Consensus pattern (43 bp):
ATGATGACCTAGCTATGTGCGGTGTGAGAGTGCACATGAGCTG
Found at i:21170444 original size:2 final size:2
Alignment explanation
Indices: 21170437--21170490 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
21170427 GATGTATTTA
21170437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
21170479 NT AT AT AT AT AT
1 AT AT AT AT AT AT
21170491 GTTATAGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21172062 original size:73 final size:73
Alignment explanation
Indices: 21171977--21172180 Score: 286
Period size: 73 Copynumber: 2.8 Consensus size: 73
21171967 TGAAGATGGC
* * *
21171977 AGGTTCAAAGACAGAGACTACTTAATCGACTAAGAAGCATAGTTAGTCAACCAATAGCTTATTGT
1 AGGTTCAAAGACAGAGACTACTCAATCGACTAAGAAGCATAGTTAGTCAACCAAGAGCTTATTGC
* *
21172042 CAGAAATT
66 CAAAAACT
* *
21172050 AGGTTCAGAGACAGAGA-TGACTCAATCGACTAAGAAGCATAGTTAGTCAACTAAGAGCTTATTG
1 AGGTTCAAAGACAGAGACT-ACTCAATCGACTAAGAAGCATAGTTAGTCAACCAAGAGCTTATTG
21172114 CCAAAAACT
65 CCAAAAACT
* * *
21172123 -GAGTTCAAAGACAGAGACAACTCAATCGACTAAGAAGCATAGTTAGTCGACTAAGAGC
1 AG-GTTCAAAGACAGAGACTACTCAATCGACTAAGAAGCATAGTTAGTCAACCAAGAGC
21172181 ATTTGTCTGA
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
72 2 0.02
73 116 0.98
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (73 bp):
AGGTTCAAAGACAGAGACTACTCAATCGACTAAGAAGCATAGTTAGTCAACCAAGAGCTTATTGC
CAAAAACT
Found at i:21173696 original size:21 final size:21
Alignment explanation
Indices: 21173664--21173704 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21173654 AGCTGAATGA
21173664 AGAAGAAGAAGAAAACAAGAG
1 AGAAGAAGAAGAAAACAAGAG
*
21173685 AGAAGCAA-AAGAAAAGAAGA
1 AGAAG-AAGAAGAAAACAAGA
21173705 AAAACATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.68, C:0.05, G:0.27, T:0.00
Consensus pattern (21 bp):
AGAAGAAGAAGAAAACAAGAG
Found at i:21176392 original size:60 final size:60
Alignment explanation
Indices: 21176319--21176619 Score: 374
Period size: 60 Copynumber: 5.0 Consensus size: 60
21176309 CGACATCATC
* *
21176319 ACCTACTCGTGGGAATTACCCACGCCACCA-A-ATGAATCGGGGCTTCAGGTCTCCCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGGGCTTCAGGTC-CCC-TTTT
* *
21176379 ACCTACTCGTGGGAACT-CTCCACACCACCATACATAAATCGGGGCTTTAGGTCCCCCTTTT
1 ACCTACTCGTGGGAACTAC-CCACGCCACCATACATAAATCGGGGCTTCAGGT-CCCCTTTT
* * ** ** *
21176440 ATCTACTTGTGGGAACTATTCACAACACCATACATAAATCAGGGCTTCAGGTCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGGGCTTCAGGTCCCCTTTT
* * * *
21176500 ACCTACTCGTGGGAACTACCTATGCCACCATACATAAATCGGCGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGGGCTTCAGGTCCCCTTTT
* * * *
21176560 ACCTACTCGTGGGAACTACCCACGTCACCATATATAAATCGAGGCTTCAAGTCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGGGCTTCAGGTCCCCTTTT
21176620 TTAAATCAAA
Statistics
Matches: 206, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.00
60 135 0.66
61 49 0.24
62 20 0.10
63 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGGGCTTCAGGTCCCCTTTT
Found at i:21176535 original size:121 final size:119
Alignment explanation
Indices: 21176319--21176619 Score: 365
Period size: 121 Copynumber: 2.5 Consensus size: 119
21176309 CGACATCATC
* ** *
21176319 ACCTACTCGTGGGAATTACCCACGCCACCA-A-ATGAATCGGGGCTTCAGGTCTCCCTTTTTACC
1 ACCTACTCGTGGGAACTACCCACAACACCATACATAAATC-GGGCTTCAGGTC-CCC-TTTTACC
* *
21176382 TACTCGTGGGAACTCTCCACACCACCATACATAAATCGGGGCTTTAGGTCCCCCTTTT
63 TACTCGTGGGAACTCTCCACACCACCATACATAAATCGGCGCTTCAGGTCCCCC-TTT
* * **
21176440 ATCTACTTGTGGGAACTATTCACAACACCATACATAAATCAGGGCTTCAGGTCCCCTTTTACCTA
1 ACCTACTCGTGGGAACTACCCACAACACCATACATAAATC-GGGCTTCAGGTCCCCTTTTACCTA
* **
21176505 CTCGTGGGAACTAC-CTATGCCACCATACATAAATCGGCGCTTCAGGTCCCCCTTT
65 CTCGTGGGAACT-CTCCACACCACCATACATAAATCGGCGCTTCAGGTCCCCCTTT
** * *
21176560 ACCTACTCGTGGGAACTACCCACGTCACCATATATAAATCGAGGCTTCAAGTCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACAACACCATACATAAATCG-GGCTTCAGGTCCCCTTTT
21176620 TTAAATCAAA
Statistics
Matches: 154, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
119 1 0.01
120 53 0.34
121 77 0.50
122 5 0.03
123 18 0.12
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (119 bp):
ACCTACTCGTGGGAACTACCCACAACACCATACATAAATCGGGCTTCAGGTCCCCTTTTACCTAC
TCGTGGGAACTCTCCACACCACCATACATAAATCGGCGCTTCAGGTCCCCCTTT
Found at i:21177214 original size:27 final size:27
Alignment explanation
Indices: 21177184--21177237 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21177174 TTCTCTGCCG
* * *
21177184 TTCTTCCTTCTTTCCTTTTTTTTTTCT
1 TTCTTCCTTCTTCCCTTTCTTTCTTCT
*
21177211 TTCTTCTTTCTTCCCTTTCTTTCTTCT
1 TTCTTCCTTCTTCCCTTTCTTTCTTCT
21177238 CCTCTGTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (27 bp):
TTCTTCCTTCTTCCCTTTCTTTCTTCT
Found at i:21177237 original size:63 final size:66
Alignment explanation
Indices: 21177140--21177312 Score: 189
Period size: 63 Copynumber: 2.7 Consensus size: 66
21177130 TATCTAGCTA
* * *
21177140 TTCTTTTT-TTT-TTCTTTCTTCCC-TCCATTTCTTCTTCTCTGCCGTT-CTTCCTTCTTTCC-T
1 TTCTTTTTCTTTCTTCTTTCTTCCCTTTC-TTTCTTCTCCTCTGCCGTTGC-TCCTTCTCTCCTT
21177200 -TT
64 CTT
** *
21177202 TT-TTTTTCTTTCTTCTTTCTTCCCTTTCTTTCTTCTCCTCTGTAGTTGCTCTTTCTCTCCTTCT
1 TTCTTTTTCTTTCTTCTTTCTTCCCTTTCTTTCTTCTCCTCTGCCGTTGCTCCTTCTCTCCTTCT
21177266 T
66 T
* * *
21177267 TTGCTTTTTCTTTCTTCTTTCTTCTCTCTCCTTCTTCTCCTCTGCC
1 TT-CTTTTTCTTTCTTCTTTCTTCCCTTTCTTTCTTCTCCTCTGCC
21177313 ACTACTCCTT
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
61 5 0.05
62 5 0.05
63 37 0.40
64 4 0.04
65 4 0.04
67 37 0.40
ACGTcount: A:0.01, C:0.33, G:0.04, T:0.62
Consensus pattern (66 bp):
TTCTTTTTCTTTCTTCTTTCTTCCCTTTCTTTCTTCTCCTCTGCCGTTGCTCCTTCTCTCCTTCT
T
Found at i:21177270 original size:20 final size:19
Alignment explanation
Indices: 21177247--21177302 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
21177237 TCCTCTGTAG
21177247 TTGCTCTTTCTCTCCTTCTT
1 TTGCT-TTTCTCTCCTTCTT
21177267 TTGCTTTT-TCT--TTCTT
1 TTGCTTTTCTCTCCTTCTT
* *
21177283 CTTTCTTCTCTCTCCTTCTT
1 -TTGCTTTTCTCTCCTTCTT
21177303 CTCCTCTGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.17
17 6 0.20
18 6 0.20
19 3 0.10
20 10 0.33
ACGTcount: A:0.00, C:0.32, G:0.04, T:0.64
Consensus pattern (19 bp):
TTGCTTTTCTCTCCTTCTT
Found at i:21177539 original size:17 final size:16
Alignment explanation
Indices: 21177519--21177555 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
21177509 GCAACTTGAC
*
21177519 TTTTCTTCTTCTCTCTT
1 TTTTCTTCTT-TATCTT
21177536 TTTTCTTCTTTATCTT
1 TTTTCTTCTTTATCTT
21177552 TTTT
1 TTTT
21177556 TTTTAACAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCTTCTTTATCTT
Found at i:21180558 original size:22 final size:22
Alignment explanation
Indices: 21180507--21180559 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
21180497 AGAGAAAATT
*
21180507 AGGAAGAAACAGAGAAAAAAAGA
1 AGGAA-AAACAGAAAAAAAAAGA
*
21180530 A-CAAAAATCAGAAAAAAAAAGA
1 AGGAAAAA-CAGAAAAAAAAAGA
21180552 AGGAAAAA
1 AGGAAAAA
21180560 AAATCCCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 16 0.64
23 6 0.24
ACGTcount: A:0.74, C:0.06, G:0.19, T:0.02
Consensus pattern (22 bp):
AGGAAAAACAGAAAAAAAAAGA
Found at i:21190860 original size:43 final size:43
Alignment explanation
Indices: 21190769--21190874 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
21190759 ATTGACTCGG
* * *
21190769 CATGTGCGAGTAGGGAGTACGCATAAGCCGATGATCACCAGGT
1 CATGTGCGAGTAGGGAGTGCGCATAAACCGATGATCACCAGGC
* * * *
21190812 TATGTGTGAGTAGGGAGTGCGCATAAACCGGTGATGACCCA-GC
1 CATGTGCGAGTAGGGAGTGCGCATAAACCGATGATCA-CCAGGC
* *
21190855 CATGTGCAAGTAAGGAGTGC
1 CATGTGCGAGTAGGGAGTGC
21190875 ACATGAGCTG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 48 0.94
44 3 0.06
ACGTcount: A:0.27, C:0.19, G:0.34, T:0.20
Consensus pattern (43 bp):
CATGTGCGAGTAGGGAGTGCGCATAAACCGATGATCACCAGGC
Found at i:21191203 original size:21 final size:19
Alignment explanation
Indices: 21191173--21191220 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
21191163 TTGGTAGTAG
21191173 AAAA-CTCGCTGCAGCGAAA
1 AAAATCTCGCTGCAGC-AAA
21191192 ATAAATCTCGCTGCAGCAAA
1 A-AAATCTCGCTGCAGCAAA
*
21191212 AAACTCTCG
1 AAAATCTCG
21191221 AGTTCTGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 7 0.27
21 11 0.42
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (19 bp):
AAAATCTCGCTGCAGCAAA
Found at i:21195112 original size:39 final size:40
Alignment explanation
Indices: 21195036--21195114 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
21195026 GATTGCTGAT
* *
21195036 ATGTTTATGATATTTAACTGCTGTAAACTAAAGTCTGCTG
1 ATGTTTATGATATTTAACTGCTATAAACTAAAATCTGCTG
21195076 ATGTTT-TGATATTTTAACTG-TCATAAAC-AAAATCTGCTG
1 ATGTTTATGATA-TTTAACTGCT-ATAAACTAAAATCTGCTG
21195115 CTAATATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 16 0.46
40 19 0.54
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.41
Consensus pattern (40 bp):
ATGTTTATGATATTTAACTGCTATAAACTAAAATCTGCTG
Found at i:21198825 original size:73 final size:73
Alignment explanation
Indices: 21198735--21198919 Score: 219
Period size: 73 Copynumber: 2.5 Consensus size: 73
21198725 GTCAAAGACA
* * * *
21198735 ACTTGATCAACTAAGAAGCATAGTTAGTTGACTAAGAGCTTAATACTAGAAA-TCGAGTTCGGAG
1 ACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGCTTAATACCAGAAACT-GAGTTCAGAG
*
21198799 ACAGAAATG
65 ACAGAAACG
* * * * * *
21198808 ACTTAATCAACTAAGAAGCATAGTTAGTCAATTAAGAGCTTACTGCCAGAAACTGGGTTTAGAGA
1 ACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGCTTAATACCAGAAACTGAGTTCAGAGA
*
21198873 CAGAGACG
66 CAGAAACG
* * *
21198881 ACTTAATCAACTAATAAGTATAGTTAGCCGACTAAGAGC
1 ACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGC
21198920 ATTCTGTCTG
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
73 93 0.99
74 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (73 bp):
ACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGCTTAATACCAGAAACTGAGTTCAGAGA
CAGAAACG
Found at i:21210571 original size:30 final size:30
Alignment explanation
Indices: 21210505--21210571 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
21210495 TCAATCAAGT
* *
21210505 CCTTGTATATTTACTTTGAGCCAAATAAGC
1 CCTTATATATTTACTTTGAGCCAAATAAAC
** * * *
21210535 GTTTATATTTTTATTTTGAGTCAAATAAAC
1 CCTTATATATTTACTTTGAGCCAAATAAAC
21210565 CCTTATA
1 CCTTATA
21210572 ATTAATGATT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (30 bp):
CCTTATATATTTACTTTGAGCCAAATAAAC
Found at i:21211913 original size:6 final size:7
Alignment explanation
Indices: 21211897--21211928 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
21211887 CCTTATTATA
*
21211897 TTTTACT
1 TTTTCCT
21211904 TTTTCCT
1 TTTTCCT
21211911 TTTTCCT
1 TTTTCCT
21211918 TTTTCCT
1 TTTTCCT
21211925 TTTT
1 TTTT
21211929 TATCTTGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTCCT
Found at i:21212892 original size:13 final size:14
Alignment explanation
Indices: 21212873--21212902 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
21212863 GTTTGGTAAA
21212873 TTTTTTTTGATAAG
1 TTTTTTTTGATAAG
21212887 TTTTTTTTGATAAG
1 TTTTTTTTGATAAG
21212901 TT
1 TT
21212903 ATAATGTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (14 bp):
TTTTTTTTGATAAG
Found at i:21213081 original size:14 final size:15
Alignment explanation
Indices: 21213064--21213092 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21213054 CTTGAAGCAC
21213064 TTTT-TTTTAAAAAA
1 TTTTATTTTAAAAAA
21213078 TTTTATTTTAAAAAA
1 TTTTATTTTAAAAAA
21213093 AAAATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTATTTTAAAAAA
Found at i:21213148 original size:146 final size:141
Alignment explanation
Indices: 21212978--21213245 Score: 414
Period size: 146 Copynumber: 1.9 Consensus size: 141
21212968 ATAGATGAGA
*
21212978 ATATTTTTAGAATAAAAATAAAAA-TTTCTTGTATTTTTAAAAAAAAGAGAAAAAAAAACTCTTC
1 ATATTTTTAGAATAAAAATAAAAATTTTCTTGTA-TTTTAAAAAAAAGAGAAAAAAAAACTCCTC
21213042 ACAAGAGCTTTTCTTGAAGCACTTTTTTTTAAAAAATTTTATTTTAAAAAAAAAATTATTTTAAG
65 ACAAGAGCTTTTCTTGAAGCACTTTTTTTT-AAAAA-TTT-TTTT-AAAAAAAAATTATTTTAAG
21213107 AAAGTTATTAAAAAAT
126 AAAGTTATTAAAAAAT
* * * *
21213123 NATATTTTTTGAATTAAAAAT-AAAATTTTCTTGTATTTTAAAAAGAAGAGAAGAAAAAGCTCCT
1 -ATATTTTTAGAA-TAAAAATAAAAATTTTCTTGTATTTTAAAAAAAAGAGAAAAAAAAACTCCT
21213187 CACAAGAGCTTTTCTTGAAGCACTTTTTTTTAAAAATTTTTTTAAAAAAAAATTATTTT
64 CACAAGAGCTTTTCTTGAAGCACTTTTTTTTAAAAATTTTTTTAAAAAAAAATTATTTT
21213246 TTTAAGAGTT
Statistics
Matches: 115, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
142 16 0.14
143 4 0.03
144 3 0.03
145 5 0.04
146 71 0.62
147 16 0.14
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (141 bp):
ATATTTTTAGAATAAAAATAAAAATTTTCTTGTATTTTAAAAAAAAGAGAAAAAAAAACTCCTCA
CAAGAGCTTTTCTTGAAGCACTTTTTTTTAAAAATTTTTTTAAAAAAAAATTATTTTAAGAAAGT
TATTAAAAAAT
Found at i:21216046 original size:4 final size:4
Alignment explanation
Indices: 21216039--21216065 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
21216029 ATTATATATA
21216039 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
21216066 TTGTTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:21223513 original size:32 final size:32
Alignment explanation
Indices: 21223471--21223581 Score: 80
Period size: 32 Copynumber: 3.3 Consensus size: 32
21223461 AACCTTTAAT
*
21223471 AATGATTTTTCACGGGATCAACCAAAACCCAA
1 AATGACTTTTCACGGGATCAACCAAAACCCAA
** * * *
21223503 AATGACTTTTCAAAGGCTCAACCACAACCTTTAA
1 AATGACTTTTCACGGGATCAACCAAAACC--CAA
* * *
21223537 CAAT-AGTTTTTAACGGGATTAACCAAAACCCAA
1 -AATGA-CTTTTCACGGGATCAACCAAAACCCAA
*
21223570 AACTAACTTTTC
1 AA-TGACTTTTC
21223582 TAAGGCTAAG
Statistics
Matches: 57, Mismatches: 16, Indels: 11
0.68 0.19 0.13
Matches are distributed among these distances:
32 26 0.46
33 7 0.12
34 4 0.07
35 20 0.35
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (32 bp):
AATGACTTTTCACGGGATCAACCAAAACCCAA
Found at i:21223553 original size:67 final size:68
Alignment explanation
Indices: 21223457--21223588 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 68
21223447 ATAGTTTCAG
* * *
21223457 CCACAACCTTTAATAATGATTTTTCACGGGATCAACCAAAACCCAAAA-TGACTTTTCAAAGGCT
1 CCACAACCTTTAACAATGATTTTTAACGGGATCAACCAAAACCCAAAACTAACTTTTCAAAGGCT
21223521 CAA
66 CAA
* *
21223524 CCACAACCTTTAACAAT-AGTTTTTAACGGGATTAACCAAAACCCAAAACTAACTTTTCTAAGGC
1 CCACAACCTTTAACAATGA-TTTTTAACGGGATCAACCAAAACCCAAAACTAACTTTTCAAAGGC
21223588 T
65 T
21223589 AAGTTAGAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
66 1 0.02
67 43 0.74
68 14 0.24
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.27
Consensus pattern (68 bp):
CCACAACCTTTAACAATGATTTTTAACGGGATCAACCAAAACCCAAAACTAACTTTTCAAAGGCT
CAA
Found at i:21224740 original size:37 final size:37
Alignment explanation
Indices: 21224690--21224765 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
21224680 CATTAGCATC
* *
21224690 CAAATCCTAACCATCAGCAATTATCACAGTAGAATGT
1 CAAATCCTAACCATCAACAATTATCACAGCAGAATGT
21224727 CAAATCCTAACCATCAACAATTATCACAGCAGAATGT
1 CAAATCCTAACCATCAACAATTATCACAGCAGAATGT
21224764 CA
1 CA
21224766 TAAGTAACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.22
Consensus pattern (37 bp):
CAAATCCTAACCATCAACAATTATCACAGCAGAATGT
Found at i:21225961 original size:71 final size:70
Alignment explanation
Indices: 21225881--21226029 Score: 226
Period size: 71 Copynumber: 2.1 Consensus size: 70
21225871 ATTGTTTATC
* * * *
21225881 TTAATCAATTAGGCCTAATAACTTAATTAAACAGTTTAATCAATTAAGCCCAATAACTTAATTAA
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATAAATTAAGCCCAACAACTT-ATTAA
21225946 ACAATT
65 ACAATT
* * *
21225952 TTAATCAATTAGGCCCAATGACTTAATTAAAGAATTTAATAAATTAAGTCCAACAACTTATTAAA
1 TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATAAATTAAGCCCAACAACTTATTAAA
21226017 CAATT
66 CAATT
21226022 TTAATCAA
1 TTAATCAA
21226030 CTATCTGAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 19 0.27
71 52 0.73
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.34
Consensus pattern (70 bp):
TTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATAAATTAAGCCCAACAACTTATTAAA
CAATT
Found at i:21225962 original size:36 final size:36
Alignment explanation
Indices: 21225881--21226029 Score: 196
Period size: 35 Copynumber: 4.2 Consensus size: 36
21225871 ATTGTTTATC
* * *
21225881 TTAATCAATTAGGCCTAATAACTTAATTAAAC-AGT
1 TTAATCAATTAAGCCCAATAACTTAATTAAACAATT
21225916 TTAATCAATTAAGCCCAATAACTTAATTAAACAATT
1 TTAATCAATTAAGCCCAATAACTTAATTAAACAATT
* * *
21225952 TTAATCAATTAGGCCCAATGACTTAATTAAAGAA-T
1 TTAATCAATTAAGCCCAATAACTTAATTAAACAATT
* * *
21225987 TTAATAAATTAAGTCCAACAACTT-ATTAAACAATT
1 TTAATCAATTAAGCCCAATAACTTAATTAAACAATT
21226022 TTAATCAA
1 TTAATCAA
21226030 CTATCTGAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
34 8 0.08
35 58 0.59
36 33 0.33
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.34
Consensus pattern (36 bp):
TTAATCAATTAAGCCCAATAACTTAATTAAACAATT
Found at i:21240961 original size:24 final size:24
Alignment explanation
Indices: 21240914--21240961 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
21240904 GATTTTTCCT
* *
21240914 TTTCTCTTTTGCTTCTTTCTTTTC
1 TTTCTCTTTTGCTTCTTCCATTTC
21240938 TTTCTCTTCTT-CTTCTTCCATTTC
1 TTTCTCTT-TTGCTTCTTCCATTTC
21240962 AAATTCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTCTCTTTTGCTTCTTCCATTTC
Found at i:21244481 original size:15 final size:15
Alignment explanation
Indices: 21244461--21244498 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
21244451 TAATCCATAA
21244461 ATTAAATAATAAAAT
1 ATTAAATAATAAAAT
*
21244476 ATTAAATGATAAAAT
1 ATTAAATAATAAAAT
*
21244491 AGTAAATA
1 ATTAAATA
21244499 CTTGAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
ATTAAATAATAAAAT
Found at i:21245223 original size:22 final size:22
Alignment explanation
Indices: 21245195--21245238 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21245185 TAGTTTGGAC
*
21245195 TTTCATTATTGGGTTGAATATA
1 TTTCATTATTGGGCTGAATATA
21245217 TTTCATTATTGGGCTGAATATA
1 TTTCATTATTGGGCTGAATATA
21245239 AATAGGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (22 bp):
TTTCATTATTGGGCTGAATATA
Found at i:21250828 original size:30 final size:28
Alignment explanation
Indices: 21250776--21250899 Score: 135
Period size: 28 Copynumber: 4.3 Consensus size: 28
21250766 AACATGTTTC
*
21250776 TCTTAATTTAGACAA-TAAAATATGTTTG
1 TCTTAATTTAGACAAGAAAAATAT-TTTG
21250804 TCTTAATTTAAGACAAGAAAAATATTTTTTG
1 TCTTAATTT-AGACAAGAAAAATA--TTTTG
* * *
21250835 TCTTAATCTAGATAAGAAAGCATA-TTTG
1 TCTTAATTTAGACAAGAAA-AATATTTTG
*
21250863 TCTCAATTTAGACAAGATAAAATATTTTG
1 TCTTAATTTAGACAAGA-AAAATATTTTG
21250892 TCTTAATT
1 TCTTAATT
21250900 AAATACAAGA
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
28 30 0.38
29 19 0.24
30 15 0.19
31 15 0.19
32 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (28 bp):
TCTTAATTTAGACAAGAAAAATATTTTG
Found at i:21252370 original size:19 final size:20
Alignment explanation
Indices: 21252332--21252372 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21252322 AAAGCTTAAA
*
21252332 AAGACAAAGAGAAGCAGAAG
1 AAGACAAAGAGAAACAGAAG
*
21252352 AAGAGAAAG-GAAACAGAAG
1 AAGACAAAGAGAAACAGAAG
21252371 AA
1 AA
21252373 TTCTCTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.63, C:0.07, G:0.29, T:0.00
Consensus pattern (20 bp):
AAGACAAAGAGAAACAGAAG
Found at i:21255146 original size:17 final size:17
Alignment explanation
Indices: 21255124--21255166 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
21255114 GGCAAGTTTT
21255124 AGAAACTCTTCTTAGAG
1 AGAAACTCTTCTTAGAG
21255141 AGAAACTCTTCTTAGAG
1 AGAAACTCTTCTTAGAG
21255158 AGAAACTCT
1 AGAAACTCT
21255167 ATATAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (17 bp):
AGAAACTCTTCTTAGAG
Found at i:21255570 original size:27 final size:27
Alignment explanation
Indices: 21255532--21255585 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
21255522 CTCCTTTGTA
21255532 CTTTTTATTTCGTAATTAATAAAATTT
1 CTTTTTATTTCGTAATTAATAAAATTT
21255559 CTTTTTATTTCGTAATTAATAAAATTT
1 CTTTTTATTTCGTAATTAATAAAATTT
21255586 AACAGGCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
CTTTTTATTTCGTAATTAATAAAATTT
Found at i:21261277 original size:2 final size:2
Alignment explanation
Indices: 21261270--21261302 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21261260 ACTGGGTAGT
21261270 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
21261303 AAGCCAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21277914 original size:2 final size:2
Alignment explanation
Indices: 21277901--21277934 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
21277891 ATACAATAAC
* *
21277901 AT AT AC AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21277935 TAATGATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:21288232 original size:21 final size:23
Alignment explanation
Indices: 21288192--21288233 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21288182 TCCACCCATG
21288192 AAGGAAAAATAAAGAGAAAAGAA
1 AAGGAAAAATAAAGAGAAAAGAA
*
21288215 AAGGAAATA-AAAGA-AAAAG
1 AAGGAAAAATAAAGAGAAAAG
21288234 GTGAGTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 5 0.28
23 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (23 bp):
AAGGAAAAATAAAGAGAAAAGAA
Found at i:21289497 original size:2 final size:2
Alignment explanation
Indices: 21289490--21289561 Score: 83
Period size: 2 Copynumber: 36.0 Consensus size: 2
21289480 AATTTCCATA
* ** * *
21289490 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GN NT TT ACT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
21289532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21289562 GTGTGATGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.95
3 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21300604 original size:34 final size:33
Alignment explanation
Indices: 21300556--21300677 Score: 154
Period size: 34 Copynumber: 3.6 Consensus size: 33
21300546 GGAAAGTACT
* * * *
21300556 TTTTCAAGGCTTAAGCATAACCTTTACAATGCC
1 TTTTCAAAGATTAAGCACAACCTTTACAATACC
21300589 TTTTCAAATGATTAAGCACAACCTTTACAATACC
1 TTTTCAAA-GATTAAGCACAACCTTTACAATACC
* **
21300623 TTTTCATAAGATCAAGCACAACCTACACAATACC
1 TTTTCA-AAGATTAAGCACAACCTTTACAATACC
21300657 TTTTCAAAGGATTAAGCACAA
1 TTTTCAAA-GATTAAGCACAA
21300678 TCACTTAACT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
33 9 0.12
34 67 0.86
35 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.30
Consensus pattern (33 bp):
TTTTCAAAGATTAAGCACAACCTTTACAATACC
Found at i:21301820 original size:20 final size:20
Alignment explanation
Indices: 21301795--21301851 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
21301785 AGTTCTCAAT
21301795 TAAGTTCAAGGATTACTTAA
1 TAAGTTCAAGGATTACTTAA
21301815 TAAGTTCAAGGATTACTTAA
1 TAAGTTCAAGGATTACTTAA
21301835 TAAGTTCAAGGATTACT
1 TAAGTTCAAGGATTACT
21301852 AAAGCAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (20 bp):
TAAGTTCAAGGATTACTTAA
Found at i:21303269 original size:7 final size:7
Alignment explanation
Indices: 21303257--21303282 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21303247 GTGATCTTTA
21303257 TATAAAG
1 TATAAAG
21303264 TATAAAG
1 TATAAAG
21303271 TATAAAG
1 TATAAAG
21303278 TATAA
1 TATAA
21303283 TTGATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.31
Consensus pattern (7 bp):
TATAAAG
Found at i:21304804 original size:33 final size:33
Alignment explanation
Indices: 21304767--21304848 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 33
21304757 TCATGTCAAA
** * *
21304767 TTAGTATATCGTATCATTATTAATTATGATACG
1 TTAGTATATCACATCATAATCAATTATGATACG
* **
21304800 TTAGTATGTCACATCATAATCAATTATGATATT
1 TTAGTATATCACATCATAATCAATTATGATACG
* *
21304833 TTAGCATACCACATCA
1 TTAGTATATCACATCA
21304849 ACGTCATGCG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (33 bp):
TTAGTATATCACATCATAATCAATTATGATACG
Found at i:21304937 original size:30 final size:30
Alignment explanation
Indices: 21304903--21304979 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
21304893 ATAATTAGTA
* *
21304903 ATAAGAGTTTATTTGATTCAGAATAAAAGT
1 ATAAGAGCTTATTTGATTCAAAATAAAAGT
* * *
21304933 ATAAGGGCTTATTTGGTTCAAAATAAAAAT
1 ATAAGAGCTTATTTGATTCAAAATAAAAGT
* *
21304963 AAAAAAGCTTGATTTGA
1 ATAAGAGCTT-ATTTGA
21304980 CGTAATAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 32 0.86
31 5 0.14
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (30 bp):
ATAAGAGCTTATTTGATTCAAAATAAAAGT
Found at i:21318369 original size:1 final size:1
Alignment explanation
Indices: 21318363--21318391 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
21318353 TCTAGTCTAG
21318363 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21318392 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21325621 original size:2 final size:2
Alignment explanation
Indices: 21325614--21325638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21325604 GTTTAATGAA
21325614 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21325639 CTGTGATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21325885 original size:30 final size:29
Alignment explanation
Indices: 21325847--21325905 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
21325837 TACATTGATT
*
21325847 ATATTTCTTAATTCACAAAGTTCAGTGTA
1 ATATTTCTTAATTAACAAAGTTCAGTGTA
*
21325876 ATATCTTCTTAATTAACAAAGTTCATTGTA
1 ATAT-TTCTTAATTAACAAAGTTCAGTGTA
21325906 TTGCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (29 bp):
ATATTTCTTAATTAACAAAGTTCAGTGTA
Found at i:21329283 original size:2 final size:2
Alignment explanation
Indices: 21329278--21329306 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21329268 GAATATTCAT
21329278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21329307 TGTATTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21350057 original size:142 final size:142
Alignment explanation
Indices: 21349799--21350081 Score: 320
Period size: 142 Copynumber: 2.0 Consensus size: 142
21349789 AGGAAAACAC
* * * * *
21349799 TTTTAGGAGAACACATTTTGTATGGAAGAACGTGCTTGTTATGGGAAAAACATATCCACTATATG
1 TTTTAAGAGAACACATTTTGTATGGAACAACGTGATTGTTATAGGAAAAACACATCCACTATATG
* * * * * * * * * * *
21349864 GAGAACATCTTATGGGAATAGCACCTTGAAGAACGACTTATTGGCCATTATGAGAAGAGCATGTA
66 GAGAAAATCTTATAGGAAAAGCAACTTAAAGAACAACCTATTAGACATTATGAGAAGAACAAGTA
21349929 ATTGGATAGTGT
131 ATTGGATAGTGT
* * * *
21349941 TTTTAAGAGAACACATTTTGTATGGAACAATGTGATTGTTATAGGAAGAGCACATTCA-T-TATG
1 TTTTAAGAGAACACATTTTGTATGGAACAACGTGATTGTTATAGGAAAAACACATCCACTATATG
* *
21350004 G-GAAGAATGGCTTATAGGAAAAGCAACTTAAAGAACAACCTATTAGATATTATGGGAAGAACAA
66 GAGAA-AAT--CTTATAGGAAAAGCAACTTAAAGAACAACCTATTAGACATTATGAGAAGAACAA
21350068 GTAATTGGATAGTG
128 GTAATTGGATAGTG
21350082 CTTGTGTTAA
Statistics
Matches: 116, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
139 3 0.03
140 7 0.06
141 1 0.01
142 105 0.91
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (142 bp):
TTTTAAGAGAACACATTTTGTATGGAACAACGTGATTGTTATAGGAAAAACACATCCACTATATG
GAGAAAATCTTATAGGAAAAGCAACTTAAAGAACAACCTATTAGACATTATGAGAAGAACAAGTA
ATTGGATAGTGT
Found at i:21352904 original size:14 final size:14
Alignment explanation
Indices: 21352885--21352911 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21352875 TCAAATTTAT
21352885 TAATTAACTAAAAC
1 TAATTAACTAAAAC
21352899 TAATTAACTAAAA
1 TAATTAACTAAAA
21352912 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:21366343 original size:36 final size:36
Alignment explanation
Indices: 21366301--21366379 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
21366291 TCCAACAATC
21366301 AATGCAGTTGGAGATCCAGCGGGCGATGCAGATGCA
1 AATGCAGTTGGAGATCCAGCGGGCGATGCAGATGCA
* * *
21366337 GATGCAGTTGGTGATCCAGTGGGCGATGCAGATGCA
1 AATGCAGTTGGAGATCCAGCGGGCGATGCAGATGCA
21366373 AATGCAG
1 AATGCAG
21366380 ACACTACATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.37, T:0.19
Consensus pattern (36 bp):
AATGCAGTTGGAGATCCAGCGGGCGATGCAGATGCA
Found at i:21370901 original size:26 final size:26
Alignment explanation
Indices: 21370872--21370921 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
21370862 CATTATTCTA
*
21370872 TATCATTTCCATATTATTCTTTGTTG
1 TATCATTTACATATTATTCTTTGTTG
21370898 TATCATTTACATATTATTCTTTGT
1 TATCATTTACATATTATTCTTTGT
21370922 ATTCATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (26 bp):
TATCATTTACATATTATTCTTTGTTG
Found at i:21373191 original size:70 final size:70
Alignment explanation
Indices: 21373117--21373271 Score: 265
Period size: 70 Copynumber: 2.2 Consensus size: 70
21373107 GAATCGTGTA
* *
21373117 AGTAGTAAATATGGATCGCGTGAACCGTTAAGATTGGGAATCGCGTGAGTATTAGATATTGACTC
1 AGTAGTAAATATGGATCGCGTGAACCGTTAAGATTGAGAATCGCGTGAATATTAGATATTGACTC
21373182 CCGTT
66 CCGTT
*
21373187 AGTAGTAAATATGGATCGCGTGAACCGTTAAGATTTAGAATCGCGTGAATATTAGATATTGACTC
1 AGTAGTAAATATGGATCGCGTGAACCGTTAAGATTGAGAATCGCGTGAATATTAGATATTGACTC
*
21373252 TCGTT
66 CCGTT
*
21373257 AGTAGTAACTATGGA
1 AGTAGTAAATATGGA
21373272 GTGGCGTTAC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 80 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (70 bp):
AGTAGTAAATATGGATCGCGTGAACCGTTAAGATTGAGAATCGCGTGAATATTAGATATTGACTC
CCGTT
Found at i:21375911 original size:21 final size:21
Alignment explanation
Indices: 21375885--21375938 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
21375875 TTTGATAAGG
21375885 CATTGCGTGACTTACTTTGGA
1 CATTGCGTGACTTACTTTGGA
*
21375906 CATTGCGTGACGTACTTTGGA
1 CATTGCGTGACTTACTTTGGA
21375927 CATTGCGTGACT
1 CATTGCGTGACT
21375939 AGTTTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (21 bp):
CATTGCGTGACTTACTTTGGA
Found at i:21375982 original size:26 final size:26
Alignment explanation
Indices: 21375927--21375994 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
21375917 GTACTTTGGA
* **
21375927 CATTGCGTGACTAGTTTTTAATAATT
1 CATTGCGTGACTAGTTTCTAATAAGG
**
21375953 CATTGCGTGACTAGTTTCTGTTAAGG
1 CATTGCGTGACTAGTTTCTAATAAGG
*
21375979 CATTGCGTGAGTAGTT
1 CATTGCGTGACTAGTT
21375995 GGTAGGCATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (26 bp):
CATTGCGTGACTAGTTTCTAATAAGG
Done.