Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 60 of 127
Found at i:11746760 original size:11 final size:11
Alignment explanation
Indices: 11746744--11746813 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
11746734 TTTTAAAATC
11746744 TAAAAAAATTT
1 TAAAAAAATTT
*
11746755 TAAAAAAAATTC
1 T-AAAAAAATTT
* *
11746767 TCAAAAAATAT
1 TAAAAAAATTT
*
11746778 T-AAAAATTTT
1 TAAAAAAATTT
* *
11746788 TAAACAAATTC
1 TAAAAAAATTT
11746799 T--AAAAATTT
1 TAAAAAAATTT
11746808 TAAAAA
1 TAAAAA
11746814 CTTAAAAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
9 7 0.16
10 8 0.18
11 19 0.43
12 10 0.23
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAAAATTT
Found at i:11746783 original size:32 final size:31
Alignment explanation
Indices: 11746747--11746879 Score: 153
Period size: 32 Copynumber: 4.3 Consensus size: 31
11746737 TAAAATCTAA
*
11746747 AAAAATTTTAAAAAAAATTCTCAAAAAATATT
1 AAAAATTTTAAAAAAAATTCT-AAAAAATTTT
* *
11746779 AAAAATTTTTAAACAAATTCT-AAAAATTTT
1 AAAAATTTTAAAAAAAATTCTAAAAAATTTT
* * *
11746809 AAAAA-CTTAAAAAAAATTCTAAACAATTCT
1 AAAAATTTTAAAAAAAATTCTAAAAAATTTT
* *
11746839 AAAAATTTCTAAAAAAAGTTCTAAAATATTTT
1 AAAAATTT-TAAAAAAAATTCTAAAAAATTTT
*
11746871 TAAAATTTT
1 AAAAATTTT
11746880 TCAATTTTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
29 12 0.14
30 25 0.30
31 2 0.02
32 45 0.54
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (31 bp):
AAAAATTTTAAAAAAAATTCTAAAAAATTTT
Found at i:11746796 original size:21 final size:20
Alignment explanation
Indices: 11746759--11746875 Score: 78
Period size: 21 Copynumber: 5.7 Consensus size: 20
11746749 AAATTTTAAA
*
11746759 AAAAATTCTCAAAAAATAT-T
1 AAAAATTTTCAAAAAAT-TCT
*
11746779 AAAAATTTTTAAACAAATTCT
1 AAAAATTTTCAAA-AAATTCT
* *
11746800 AAAAATTTT-AAAAACTT-A
1 AAAAATTTTCAAAAAATTCT
** *
11746818 AAAAAAATTCTAAACAATTCT
1 AAAAATTTTC-AAAAAATTCT
*
11746839 AAAAATTTCTAAAAAAAGTTCT
1 AAAAATTT-TCAAAAAA-TTCT
*
11746861 AAAATATTTTTAAAA
1 AAAA-ATTTTCAAAA
11746876 TTTTTCAATT
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
18 7 0.09
19 4 0.05
20 21 0.28
21 25 0.33
22 14 0.19
23 4 0.05
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAAATTTTCAAAAAATTCT
Found at i:11746924 original size:20 final size:20
Alignment explanation
Indices: 11746901--11746945 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
11746891 AAAAAAATTT
11746901 AATTTAAAAAAAATTATAAA
1 AATTTAAAAAAAATTATAAA
* *
11746921 AATTTAAAGAAAATTGTAAA
1 AATTTAAAAAAAATTATAAA
11746941 AATTT
1 AATTT
11746946 TCAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AATTTAAAAAAAATTATAAA
Found at i:11746987 original size:8 final size:9
Alignment explanation
Indices: 11746909--11746988 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
11746899 TTAATTTAAA
*
11746909 AAAAATTAT
1 AAAAATTTT
*
11746918 AAAAATTTAA
1 AAAAATTT-T
*
11746928 AGAAAATTGT
1 A-AAAATTTT
11746938 AAAAATTTT
1 AAAAATTTT
*
11746947 CAAAAATTTC
1 -AAAAATTTT
* *
11746957 GAAATTTTT
1 AAAAATTTT
***
11746966 TTTAATTTT
1 AAAAATTTT
11746975 AAAAATTTT
1 AAAAATTTT
11746984 AAAAA
1 AAAAA
11746989 CTCAAAAAGG
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
9 36 0.69
10 10 0.19
11 6 0.12
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:11747188 original size:17 final size:17
Alignment explanation
Indices: 11747168--11747201 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11747158 TAAAAATCTA
*
11747168 AAAAATTAAAAAAAATT
1 AAAAACTAAAAAAAATT
11747185 AAAAACTAAAAAAAATT
1 AAAAACTAAAAAAAATT
11747202 CTAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAACTAAAAAAAATT
Found at i:11747464 original size:18 final size:18
Alignment explanation
Indices: 11747441--11747500 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
11747431 AATTTTAAAT
11747441 ATTAAATTTTTTAAAAAA
1 ATTAAATTTTTTAAAAAA
*** *
11747459 ATTAAATAAATTCAAAAA
1 ATTAAATTTTTTAAAAAA
* *
11747477 ATTAGATTTTATAAAAAA
1 ATTAAATTTTTTAAAAAA
*
11747495 AATAAA
1 ATTAAA
11747501 ATACTATAAA
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
ATTAAATTTTTTAAAAAA
Found at i:11747594 original size:20 final size:19
Alignment explanation
Indices: 11747561--11747632 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
11747551 TTCCATAATT
*
11747561 ATTTTTGAA-TTTTT-AAA
1 ATTTTTAAATTTTTTCAAA
*
11747578 ATTTTCTAGAATTTTTTGAAA
1 ATTTT-TA-AATTTTTTCAAA
*
11747599 GTTTTTAAATTTTTTCAAA
1 ATTTTTAAATTTTTTCAAA
11747618 AGTTTTT-AATTTTTT
1 A-TTTTTAAATTTTTT
11747633 TTATTTCTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 5 0.11
18 1 0.02
19 21 0.46
20 12 0.26
21 7 0.15
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTTTTAAATTTTTTCAAA
Found at i:11747633 original size:20 final size:20
Alignment explanation
Indices: 11747570--11747632 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
11747560 TATTTTTGAA
11747570 TTTTT-AAAA-TTTTCTAGAAT
1 TTTTTCAAAAGTTTT-TA-AAT
*
11747590 TTTTT-GAAAGTTTTTAAAT
1 TTTTTCAAAAGTTTTTAAAT
11747609 TTTTTCAAAAGTTTTT-AAT
1 TTTTTCAAAAGTTTTTAAAT
11747628 TTTTT
1 TTTTT
11747633 TTATTTCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.41
20 19 0.49
21 4 0.10
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTTTCAAAAGTTTTTAAAT
Found at i:11747856 original size:49 final size:47
Alignment explanation
Indices: 11747801--11747948 Score: 138
Period size: 49 Copynumber: 3.0 Consensus size: 47
11747791 TGTTAGAATA
* *
11747801 TTAAAAACAATTTCATAATAATTTTATATTTTTT-AAATTTTTTTAATTT
1 TTAAAAA-AATTT-ATAAT-ATTTTAAATTTTTTAAAAATTTTTTAATTT
* * *
11747850 TT-AAAAATTTTAAAAATCTTTTAGAATTTTTTAAAAATTTTTTAATTT
1 TTAAAAAAATTT-ATAATATTTTA-AATTTTTTAAAAATTTTTTAATTT
* * * *
11747898 TGTAAAAAAAATTTATAATTTTTTAGATTTTTTAAAACTTTTTAAATTT
1 T-T-AAAAAAATTTATAATATTTTAAATTTTTTAAAAATTTTTTAATTT
11747947 TT
1 TT
11747949 TAAAGCTTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
46 5 0.06
47 15 0.18
48 20 0.24
49 25 0.30
50 9 0.11
51 8 0.10
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (47 bp):
TTAAAAAAATTTATAATATTTTAAATTTTTTAAAAATTTTTTAATTT
Found at i:11747888 original size:11 final size:11
Alignment explanation
Indices: 11747847--11747894 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
11747837 ATTTTTTTAA
11747847 TTTTTAAAAA-
1 TTTTTAAAAAT
11747857 -TTTTAAAAAT
1 TTTTTAAAAAT
* *
11747867 CTTTT-AGAAT
1 TTTTTAAAAAT
11747877 TTTTTAAAAAT
1 TTTTTAAAAAT
11747888 TTTTTAA
1 TTTTTAA
11747895 TTTTGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.28
10 8 0.25
11 15 0.47
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
TTTTTAAAAAT
Found at i:11747896 original size:19 final size:21
Alignment explanation
Indices: 11747857--11747905 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
11747847 TTTTTAAAAA
11747857 TTTTAAAAATCTTTTAGAATT
1 TTTTAAAAATCTTTTAGAATT
*
11747878 TTTTAAAAAT-TTTT-TAATT
1 TTTTAAAAATCTTTTAGAATT
*
11747897 TTGTAAAAA
1 TTTTAAAAA
11747906 AAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 12 0.46
20 4 0.15
21 10 0.38
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTAAAAATCTTTTAGAATT
Found at i:11747931 original size:19 final size:19
Alignment explanation
Indices: 11747917--11748011 Score: 73
Period size: 19 Copynumber: 4.7 Consensus size: 19
11747907 AATTTATAAT
*
11747917 TTTTTAGATTTTTTAAAAC
1 TTTTTAAATTTTTTAAAAC
*
11747936 TTTTTAAATTTTTTAAAGC
1 TTTTTAAATTTTTTAAAAC
* * *
11747955 TTTTTAATAATTTTAAAATAA
1 TTTTTAA-ATTTTTTAAA-AC
* * *
11747976 TTTTTAAAATTTCTTAGAAT
1 TTTTT-AAATTTTTTAAAAC
11747996 TTTTACTAAATTTTTT
1 TTTT--TAAATTTTTT
11748012 TATACTAGCG
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
19 24 0.41
20 13 0.22
21 19 0.32
22 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTAAATTTTTTAAAAC
Found at i:11749769 original size:2 final size:2
Alignment explanation
Indices: 11749762--11749786 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11749752 AGCCATTAAC
11749762 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 T
11749787 GCTTTTAAGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11751236 original size:94 final size:94
Alignment explanation
Indices: 11751125--11751307 Score: 330
Period size: 94 Copynumber: 1.9 Consensus size: 94
11751115 CTAACACATT
* *
11751125 TTTTACAATGAAATTTTTGTTAGATTTTTACATTCTTGGTATAATGCAATTTGATTTGATTGCCT
1 TTTTACAATGAAATTTTTGTTAGATTTTTACATTCTTAGTATAATGCAATTTGATTCGATTGCCT
11751190 TTTATAATTATTAATTTCATTAATCTTTA
66 TTTATAATTATTAATTTCATTAATCTTTA
*
11751219 TTTTACAATGAATTTTTTGTTAGATTTTTACATTCTTAGTATAATGCAATTTGATTCGATTGCCT
1 TTTTACAATGAAATTTTTGTTAGATTTTTACATTCTTAGTATAATGCAATTTGATTCGATTGCCT
*
11751284 TTTATAATTATTATTTTCATTAAT
66 TTTATAATTATTAATTTCATTAAT
11751308 TTTCATTCTA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 85 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (94 bp):
TTTTACAATGAAATTTTTGTTAGATTTTTACATTCTTAGTATAATGCAATTTGATTCGATTGCCT
TTTATAATTATTAATTTCATTAATCTTTA
Found at i:11753204 original size:19 final size:19
Alignment explanation
Indices: 11753180--11753217 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11753170 CTATTTCATT
11753180 TCATTTCTT-TTCTTCTTTA
1 TCATTT-TTCTTCTTCTTTA
*
11753199 TCATTTTTCTTTTTCTTTA
1 TCATTTTTCTTCTTCTTTA
11753218 CGAACTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (19 bp):
TCATTTTTCTTCTTCTTTA
Found at i:11754958 original size:11 final size:10
Alignment explanation
Indices: 11754934--11754962 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11754924 TATAATATTA
11754934 TAAAAA-AAT
1 TAAAAATAAT
11754943 TAAAAATAAT
1 TAAAAATAAT
11754953 TAAAAATAAT
1 TAAAAATAAT
11754963 ATATGTGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:11755568 original size:16 final size:17
Alignment explanation
Indices: 11755544--11755581 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
11755534 AAGGTTTAAA
*
11755544 ATTTAGATTAATTA-TT
1 ATTTTGATTAATTATTT
*
11755560 ATTTTGATTATTTATTT
1 ATTTTGATTAATTATTT
11755577 ATTTT
1 ATTTT
11755582 ACTTTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
ATTTTGATTAATTATTT
Found at i:11755923 original size:20 final size:19
Alignment explanation
Indices: 11755879--11755928 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
11755869 CCAACTAAAC
*
11755879 ACTTTCTCTTCTACCTTTTA
1 ACTTT-TCTTTTACCTTTTA
11755899 A-TTTTCTTTTACCTTTTA
1 ACTTTTCTTTTACCTTTTA
11755917 ATCTTTTCTTTT
1 A-CTTTTCTTTT
11755929 TATCATTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 14 0.52
19 3 0.11
20 10 0.37
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.64
Consensus pattern (19 bp):
ACTTTTCTTTTACCTTTTA
Found at i:11761555 original size:84 final size:83
Alignment explanation
Indices: 11761458--11761620 Score: 202
Period size: 84 Copynumber: 2.0 Consensus size: 83
11761448 AATTGACACA
* * *
11761458 TGACATATTTTGAGAAAAATATAAGTTCAAATAGAGTTAT-GTTAGATAGAAGCACATAAAATAA
1 TGACATATTTTGAGAAAAATATAAGTTCAAATAGAATTATAG-TAGATAAAAGCACACAAAATAA
11761522 TGATTTTTTTAATAAACATG
65 TGA-TTTTTTAATAAACATG
* * * * * * **
11761542 TGACATCTTTTGAGAAAATTGTAGGTTCAAATAGAATTATAGTAGTTAAAAGCATACAAAATGTT
1 TGACATATTTTGAGAAAAATATAAGTTCAAATAGAATTATAGTAGATAAAAGCACACAAAATAAT
11761607 GATTTTTTAATAAA
66 GATTTTTTAATAAA
11761621 GAATTTTATC
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
83 12 0.18
84 54 0.81
85 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.36
Consensus pattern (83 bp):
TGACATATTTTGAGAAAAATATAAGTTCAAATAGAATTATAGTAGATAAAAGCACACAAAATAAT
GATTTTTTAATAAACATG
Found at i:11763102 original size:46 final size:46
Alignment explanation
Indices: 11763047--11763147 Score: 193
Period size: 46 Copynumber: 2.2 Consensus size: 46
11763037 TCTTCTATAT
11763047 ATTCATGTTAGTTGTATATTCATATATATTTGTATTATTCATGTTG
1 ATTCATGTTAGTTGTATATTCATATATATTTGTATTATTCATGTTG
*
11763093 ATTCATGTTAGTTGTATATTCATGTATATTTGTATTATTCATGTTG
1 ATTCATGTTAGTTGTATATTCATATATATTTGTATTATTCATGTTG
11763139 ATTCATGTT
1 ATTCATGTT
11763148 GTGTTTAAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (46 bp):
ATTCATGTTAGTTGTATATTCATATATATTTGTATTATTCATGTTG
Found at i:11763118 original size:10 final size:10
Alignment explanation
Indices: 11763059--11763146 Score: 59
Period size: 10 Copynumber: 9.3 Consensus size: 10
11763049 TCATGTTAGT
11763059 TGTATATTCA
1 TGTATATTCA
*
11763069 TATATATT--
1 TGTATATTCA
11763077 TGTATTATTCA
1 TGTA-TATTCA
11763088 TGT-TGATTCA
1 TGTAT-ATTCA
*
11763098 TGT-TAGT--
1 TGTATATTCA
11763105 TGTATATTCA
1 TGTATATTCA
11763115 TGTATATT--
1 TGTATATTCA
11763123 TGTATTATTCA
1 TGTA-TATTCA
11763134 TGT-TGATTCA
1 TGTAT-ATTCA
11763144 TGT
1 TGT
11763147 TGTGTTTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 22
0.71 0.04 0.25
Matches are distributed among these distances:
7 3 0.05
8 10 0.16
9 12 0.19
10 32 0.51
11 6 0.10
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.55
Consensus pattern (10 bp):
TGTATATTCA
Found at i:11763418 original size:29 final size:30
Alignment explanation
Indices: 11763381--11763438 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
11763371 AAAAAATTAT
*
11763381 TTGTATTTAAATATTATAACT-ATTTTTAC
1 TTGTATTTAAATATTATAAATAATTTTTAC
* **
11763410 TTGTGTTTACTTATTATAAATAATTTTTA
1 TTGTATTTAAATATTATAAATAATTTTTA
11763439 ATTAAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (30 bp):
TTGTATTTAAATATTATAAATAATTTTTAC
Found at i:11763507 original size:2 final size:2
Alignment explanation
Indices: 11763500--11763536 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
11763490 TAAGTTTAAC
* *
11763500 AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11763537 ATAACTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11767178 original size:74 final size:74
Alignment explanation
Indices: 11767057--11767205 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
11767047 TGAAAACATC
11767057 TTACAAAATGAGCTCATACAAGAATCTTTAATGAGAGATGTATTGAACTACCTACCTTGATTGGG
1 TTACAAAATGAGCTCATACAAGAATCTTTAATGAGAGATGTATTGAACTACCTACCTTGATTGGG
11767122 CATTTGACT
66 CATTTGACT
*
11767131 TTACAAAATGAGCTCATACAAGACTCTTTAATGAGAGATGTATTGAACTACCTACCTTGATTGGG
1 TTACAAAATGAGCTCATACAAGAATCTTTAATGAGAGATGTATTGAACTACCTACCTTGATTGGG
*
11767196 TATTTGACT
66 CATTTGACT
11767205 T
1 T
11767206 CTCCTCGTGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (74 bp):
TTACAAAATGAGCTCATACAAGAATCTTTAATGAGAGATGTATTGAACTACCTACCTTGATTGGG
CATTTGACT
Found at i:11770248 original size:84 final size:80
Alignment explanation
Indices: 11770059--11770262 Score: 236
Period size: 82 Copynumber: 2.5 Consensus size: 80
11770049 TTAAAAAACC
* **
11770059 ATTTTCTATTT-AAAATAAATAAATATATTTTACTAATAAATGATATTATAATAAAAATTATAAT
1 ATTTTCTATTTAAAAATAAATATATAT-TTTTACTAATAAATGATAACATAATAAAAATTATAAT
**
11770123 TATAATTTTTTAAAAT
65 TATAAGATTTTAAAAT
** * *
11770139 ATTTTCTATTTAAAAAATAAA-ATATATTCTTTACTAATATGTTATAACATAGTAAAAATTA-AA
1 ATTTTCTATTT-AAAAATAAATATATATT-TTTACTAATAAATGATAACATAATAAAAATTATAA
11770202 TTTTATAAGATTTTAAAATCT
64 --TTATAAGATTTTAAAA--T
11770223 ATTTTCTATTTAAAAATAAATATATA-TTTTACTAATAAAT
1 ATTTTCTATTTAAAAATAAATATATATTTTTACTAATAAAT
11770263 CATATTGTAT
Statistics
Matches: 105, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
80 14 0.13
81 31 0.30
82 33 0.31
83 10 0.10
84 17 0.16
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (80 bp):
ATTTTCTATTTAAAAATAAATATATATTTTTACTAATAAATGATAACATAATAAAAATTATAATT
ATAAGATTTTAAAAT
Found at i:11770253 original size:19 final size:19
Alignment explanation
Indices: 11770231--11770295 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
11770221 CTATTTTCTA
*
11770231 TTTAAAAATAAATATATAT
1 TTTAAAAATAAATAAATAT
** *
11770250 TTTACTAATAAAT-CATAT
1 TTTAAAAATAAATAAATAT
*
11770268 TGTATAAAATAAA-AAATAT
1 TTTA-AAAATAAATAAATAT
*
11770287 TTTTAAAAT
1 TTTAAAAAT
11770296 TTATTTTCTA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
18 12 0.34
19 23 0.66
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (19 bp):
TTTAAAAATAAATAAATAT
Found at i:11770289 original size:84 final size:79
Alignment explanation
Indices: 11770059--11770355 Score: 224
Period size: 82 Copynumber: 3.7 Consensus size: 79
11770049 TTAAAAAACC
* * *
11770059 ATTTTCTATTT-AAAATAAATAAATATATTTTACTAATAAATGATATTAT-AATAAAAATTATAA
1 ATTTTCTATTTAAAAATAAAT--ATATATTTTACTAATAAATCATATTATAAATAAAAAATAT-T
**
11770122 TTATAATTTTTTAAAAT
63 TTATAAAATTTTAAAAT
** * ** * *
11770139 ATTTTCTATTTAAAAAATAAA-ATATATTCTTTACTAATATGTTATAACAT-AGTAAAAATTAAA
1 ATTTTCTATTT-AAAAATAAATATATA-T-TTTACTAATAAATCATATTATAAATAAAAA--ATA
*
11770202 TTTTATAAGATTTTAAAATCT
61 TTTTATAAAATTTTAAAA--T
11770223 ATTTTCTATTTAAAAATAAATATATATTTTACTAATAAATCATATTGTATAAAATAAAAAATATT
1 ATTTTCTATTTAAAAATAAATATATATTTTACTAATAAATCATA-T-TAT-AAATAAAAAATATT
11770288 TT-TAAAA--TT----T
63 TTATAAAATTTTAAAAT
* * *
11770298 ATTTTCTATTTATAAAAGAAA-ATTATATTATACTAATAAATTATATTAT-AATAAAAAA
1 ATTTTCTATTTA-AAAATAAATA-TATATTTTACTAATAAATCATATTATAAATAAAAAA
11770356 GAAATAATAT
Statistics
Matches: 180, Mismatches: 22, Indels: 38
0.75 0.09 0.16
Matches are distributed among these distances:
72 9 0.05
74 3 0.02
75 15 0.08
76 27 0.15
79 5 0.03
80 12 0.07
81 25 0.14
82 36 0.20
83 16 0.09
84 25 0.14
86 7 0.04
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (79 bp):
ATTTTCTATTTAAAAATAAATATATATTTTACTAATAAATCATATTATAAATAAAAAATATTTTA
TAAAATTTTAAAAT
Found at i:11770328 original size:18 final size:17
Alignment explanation
Indices: 11770307--11770355 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
11770297 TATTTTCTAT
11770307 TTATAAAAGAAAATTATA
1 TTATAAAA-AAAATTATA
* *
11770325 TTATACTAATAAATTATA
1 TTATA-AAAAAAATTATA
11770343 TTATAATAAAAAA
1 TTATAA-AAAAAA
11770356 GAAATAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TTATAAAAAAAATTATA
Found at i:11770344 original size:76 final size:78
Alignment explanation
Indices: 11770042--11770372 Score: 250
Period size: 76 Copynumber: 4.2 Consensus size: 78
11770032 ATTTTAATCT
* * * *
11770042 TAAT-TTTTTAAAAAACCATTTTCTATTTAAAATAAATAA-ATATATTTTACTAATAAATGATAT
1 TAATATTTTT-AAAATCTATTTTCTATTTAAAA-AAA-AATATATATTATACTAATAAATCATAT
*
11770105 TATAATAAAAATTATAATTA
63 TATAATAAAAA--AGAA--A
* ** * *
11770125 TAAT-TTTTTAAAA--TATTTTCTATTTAAAAAATAAA-ATATATTCTTTACTAATATGTTATAA
1 TAATATTTTTAAAATCTATTTTCTATTTAAAAAA-AAATATATA-T-TATACTAATAAATCATAT
* * **
11770186 CATAGTAAAAATTAAA
63 TATAATAAAAAAGAAA
* * * *
11770202 TTTTATAAGATTTTAAAATCTATTTTCTATTTAAAAATAAATATATATTTTACTAATAAATCATA
1 --TAAT-A-TTTTTAAAATCTATTTTCTATTTAAAAAAAAATATATATTATACTAATAAATCATA
* *
11770267 TTGT-ATAAAATA-AAA
62 TTATAATAAAAAAGAAA
* *
11770282 -AATATTTTTAAAATTTATTTTCTATTTATAAAAGAAAAT-TATATTATACTAATAAATTATATT
1 TAATATTTTTAAAATCTATTTTCTATTTA-AAAA-AAAATATATATTATACTAATAAATCATATT
11770345 ATAATAAAAAAGAAA
64 ATAATAAAAAAGAAA
11770360 TAATATTTTTAAA
1 TAATATTTTTAAA
11770373 TATTATAATT
Statistics
Matches: 204, Mismatches: 28, Indels: 36
0.76 0.10 0.13
Matches are distributed among these distances:
75 22 0.11
76 28 0.14
77 14 0.07
78 3 0.01
79 27 0.13
80 20 0.10
81 28 0.14
82 27 0.13
83 13 0.06
84 22 0.11
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (78 bp):
TAATATTTTTAAAATCTATTTTCTATTTAAAAAAAAATATATATTATACTAATAAATCATATTAT
AATAAAAAAGAAA
Found at i:11785483 original size:22 final size:21
Alignment explanation
Indices: 11785458--11785502 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
11785448 AAAATTTTTC
*
11785458 AAAACTAAAAAATTAATTATAA
1 AAAACTAAAAAATCAATT-TAA
*
11785480 AAAACTTAAAAATCAATTTAA
1 AAAACTAAAAAATCAATTTAA
11785501 AA
1 AA
11785503 TGTCAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAACTAAAAAATCAATTTAA
Found at i:11786624 original size:125 final size:125
Alignment explanation
Indices: 11786402--11786655 Score: 472
Period size: 125 Copynumber: 2.0 Consensus size: 125
11786392 GAGTGGGGAT
*
11786402 TAAGATCTATAAATCAATGCCTAAGTCTCATTCATGACATGCTCTTATCTAATATCTAAGTTTCA
1 TAAGATATATAAATCAATGCCTAAGTCTCATTCATGACATGCTCTTATCTAATATCTAAGTTTCA
* *
11786467 AAATTAGATCTGATAATTTAAAATACGATATAATGATACGATATGAATATTATATAAAAA
66 AAATTAGATCTAATAATTTAAAATACGATATAATGATACGATATGAATATGATATAAAAA
*
11786527 TAAGATATATAAATCAATGCCTAAGTCTCATTCATGACATGCTCTTATCTAATATTTAAGTTTCA
1 TAAGATATATAAATCAATGCCTAAGTCTCATTCATGACATGCTCTTATCTAATATCTAAGTTTCA
11786592 AAATTAGATCTAATAATTTAAAATACGATATAATGATACGATATGAATATGATATAAAAA
66 AAATTAGATCTAATAATTTAAAATACGATATAATGATACGATATGAATATGATATAAAAA
11786652 TAAG
1 TAAG
11786656 TCATAAAAAT
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (125 bp):
TAAGATATATAAATCAATGCCTAAGTCTCATTCATGACATGCTCTTATCTAATATCTAAGTTTCA
AAATTAGATCTAATAATTTAAAATACGATATAATGATACGATATGAATATGATATAAAAA
Found at i:11791615 original size:30 final size:30
Alignment explanation
Indices: 11791581--11791647 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
11791571 ATATTAAGAG
*
11791581 TTTATTTAAATATAAATTAAAAATTAAAAT
1 TTTATTTAAATATAAATTAAAAATTAAAAA
*
11791611 TTTATTTAAGTATAAATTAAAAATTAAAAA
1 TTTATTTAAATATAAATTAAAAATTAAAAA
11791641 TTTATTT
1 TTTATTT
11791648 GGATGCCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTATTTAAATATAAATTAAAAATTAAAAA
Found at i:11792768 original size:6 final size:6
Alignment explanation
Indices: 11792757--11792803 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
11792747 TTATCATTTC
*
11792757 TTTTAT TTTTAT TTTAAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
11792804 ATTAGATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:11793224 original size:29 final size:29
Alignment explanation
Indices: 11793188--11793295 Score: 91
Period size: 29 Copynumber: 3.8 Consensus size: 29
11793178 AATTTAGTAT
*
11793188 ATATATT-ATATTAATAAAGTTATTAT-TTA
1 ATATATTAAT-TTAATAAA-ATATTATATTA
*
11793217 ATATATTAATTTAATAAAATATTATATTT
1 ATATATTAATTTAATAAAATATTATATTA
* *
11793246 ATATA-TAATTAAATATAAT-TTATATTA
1 ATATATTAATTTAATAAAATATTATATTA
* * *
11793273 AAAAATTATATTTCAT-AAATATT
1 ATATATTA-ATTTAATAAAATATT
11793296 TTGCTATTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
27 10 0.16
28 23 0.36
29 29 0.45
30 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
ATATATTAATTTAATAAAATATTATATTA
Found at i:11793256 original size:16 final size:15
Alignment explanation
Indices: 11793186--11793256 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 15
11793176 TTAATTTAGT
11793186 ATATATATTATA-TTA
1 ATATA-ATTATATTTA
11793201 ATA-AAGTTATTATTTA
1 ATATAA-TTA-TATTTA
11793217 ATAT-ATTA-ATTTA
1 ATATAATTATATTTA
*
11793230 ATAAAATATTATATTTA
1 AT-ATA-ATTATATTTA
11793247 TATATAATTA
1 -ATATAATTA
11793257 AATATAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
13 8 0.18
14 5 0.11
15 8 0.18
16 15 0.33
17 7 0.16
18 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
ATATAATTATATTTA
Found at i:11794189 original size:6 final size:6
Alignment explanation
Indices: 11794151--11794203 Score: 61
Period size: 6 Copynumber: 8.2 Consensus size: 6
11794141 GGAAAAAAGT
*
11794151 TTTATGA TTTATA TTTTATA CTTCTACA TTTATA TTTATA TTTATA TTTATA
1 TTTAT-A TTTATA -TTTATA -TT-TATA TTTATA TTTATA TTTATA TTTATA
11794203 T
1 T
11794204 CAATATTACG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
6 23 0.56
7 15 0.37
8 3 0.07
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (6 bp):
TTTATA
Found at i:11794599 original size:18 final size:17
Alignment explanation
Indices: 11794564--11794600 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
11794554 ACTTAATTTA
11794564 ATTTTATTTATAATATT
1 ATTTTATTTATAATATT
*
11794581 ATTTTATTATATCATATT
1 ATTTTATT-TATAATATT
11794599 AT
1 AT
11794601 AATCTTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATTTATAATATT
Found at i:11795062 original size:16 final size:16
Alignment explanation
Indices: 11795038--11795093 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
11795028 ATGAATTAAA
* *
11795038 AAATTATTTAAATTTG
1 AAATAATTTGAATTTG
***
11795054 AAATAATTTGAATAAA
1 AAATAATTTGAATTTG
11795070 AAATAATTTGAATTTG
1 AAATAATTTGAATTTG
*
11795086 AAACAATT
1 AAATAATT
11795094 CAATTATAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (16 bp):
AAATAATTTGAATTTG
Found at i:11795072 original size:32 final size:33
Alignment explanation
Indices: 11795029--11795109 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
11795019 AACTCATAAA
* *
11795029 TGAATTAAAAAATTATTTAAATTTGAAATAATT
1 TGAATTAAAAAATAATTTAAATTTGAAACAATT
*
11795062 TGAA-TAAAAAATAATTTGAATTTGAAACAA-T
1 TGAATTAAAAAATAATTTAAATTTGAAACAATT
* *
11795093 TCAATTATAAAATAATT
1 TGAATTAAAAAATAATT
11795110 CAAACTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.10
32 34 0.81
33 4 0.10
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (33 bp):
TGAATTAAAAAATAATTTAAATTTGAAACAATT
Found at i:11798228 original size:80 final size:80
Alignment explanation
Indices: 11798055--11798367 Score: 384
Period size: 80 Copynumber: 3.9 Consensus size: 80
11798045 TTTGAAACTC
11798055 AAACAGCCTGAGATATTTTAGAAATTTCAGTTTCAACTGATTCTC---TCTAACAAGCTTCAATC
1 AAACAGCCTGAGATATTTTAGAAATTTCAGTTTCAACTGATTCTCTGGTCTAACAAGCTTCAATC
* *
11798117 -TTATCTTTTTTCTC
66 TTTTTCTTTTTTCTT
* * * *
11798131 AAACAGCCCGAGATATTTTAGATATTTTAGTTTCAACTGATTCTCTGGTCTAACAAGCTTCCATC
1 AAACAGCCTGAGATATTTTAGAAATTTCAGTTTCAACTGATTCTCTGGTCTAACAAGCTTCAATC
11798196 TTTTTCTTTTTTCTT
66 TTTTTCTTTTTTCTT
* * *
11798211 AAACAGCCTGAGATATTTTAGAAAATTCATTTTCAACTGATTCTCTGGTCGAACAAGCTTCAATC
1 AAACAGCCTGAGATATTTTAGAAATTTCAGTTTCAACTGATTCTCTGGTCTAACAAGCTTCAATC
11798276 TTTTT-TTTTTTCTTGTTTTGT
66 TTTTTCTTTTTTC------T-T
* * * * **
11798297 CAAACAGCCTGAGATATCTTAGAAATTTTAGTTTCAATTGATTCTCTGGTCTAACAAACTTTGAT
1 -AAACAGCCTGAGATATTTTAGAAATTTCAGTTTCAACTGATTCTCTGGTCTAACAAGCTTCAAT
11798362 CTTTTT
65 CTTTTT
11798368 ATCATTTTTT
Statistics
Matches: 203, Mismatches: 22, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
76 42 0.21
79 23 0.11
80 75 0.37
85 1 0.00
86 1 0.00
87 61 0.30
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.43
Consensus pattern (80 bp):
AAACAGCCTGAGATATTTTAGAAATTTCAGTTTCAACTGATTCTCTGGTCTAACAAGCTTCAATC
TTTTTCTTTTTTCTT
Found at i:11798307 original size:87 final size:86
Alignment explanation
Indices: 11798196--11798367 Score: 220
Period size: 87 Copynumber: 2.0 Consensus size: 86
11798186 AGCTTCCATC
* * * *
11798196 TTTTTCTTTTTTCTTAAACAGCCTGAGATATTTTAGAAAATTCATTTTCAACTGATTCTCTGGTC
1 TTTTTCTTTTTT-TCAAACAGCCTGAGATATTTTAGAAATTTTAGTTTCAACTGATTCTCTGGTC
*
11798261 GAACAAGCTTCAATCTTTTT-T
65 TAACAAGCTTCAATCTTTTTCT
* *
11798282 TTTTTCTTGTTTTGTCAAACAGCCTGAGATATCTTAGAAATTTTAGTTTCAATTGATTCTCTGGT
1 TTTTTCTT-TTTT-TCAAACAGCCTGAGATATTTTAGAAATTTTAGTTTCAACTGATTCTCTGGT
* **
11798347 CTAACAAACTTTGATCTTTTT
64 CTAACAAGCTTCAATCTTTTT
11798368 ATCATTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 8 0.11
87 66 0.89
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (86 bp):
TTTTTCTTTTTTTCAAACAGCCTGAGATATTTTAGAAATTTTAGTTTCAACTGATTCTCTGGTCT
AACAAGCTTCAATCTTTTTCT
Found at i:11802467 original size:2 final size:2
Alignment explanation
Indices: 11802460--11802514 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
11802450 GAGGTGGTAG
*
11802460 CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11802502 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
11802515 CGGTTTTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:11803012 original size:21 final size:23
Alignment explanation
Indices: 11802988--11803031 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11802978 TTAATGATTT
*
11802988 TAAAT-TGAA-TATAAAAATAAA
1 TAAATATGAATTAAAAAAATAAA
*
11803009 TAAATATTAATTAAAAAAATAAA
1 TAAATATGAATTAAAAAAATAAA
11803032 AATGATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
TAAATATGAATTAAAAAAATAAA
Found at i:11807421 original size:22 final size:21
Alignment explanation
Indices: 11807394--11807436 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11807384 ATACACACGA
*
11807394 AAAAAAAAAAGGGAAACAAAAG
1 AAAAAAAAAA-GGAAAAAAAAG
*
11807416 AAAAAATAAAGGAAAAAAAAG
1 AAAAAAAAAAGGAAAAAAAAG
11807437 GGTAAGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAGGAAAAAAAAG
Found at i:11809767 original size:17 final size:18
Alignment explanation
Indices: 11809735--11809778 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11809725 ATTGAGTTTC
*
11809735 TTTATTTTTTTATTATAA
1 TTTATTTTCTTATTATAA
*
11809753 TTTATTTTCTT-TTATAT
1 TTTATTTTCTTATTATAA
11809770 TTTACTTTT
1 TTTA-TTTT
11809779 TTCAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTCTTATTATAA
Found at i:11810533 original size:18 final size:18
Alignment explanation
Indices: 11810512--11810553 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11810502 TTGGACCACT
*
11810512 TCTTTCAATAATAATTCC
1 TCTTTCAAAAATAATTCC
**
11810530 TCTTGGAAAAATAATTCC
1 TCTTTCAAAAATAATTCC
11810548 TCTTTC
1 TCTTTC
11810554 TCCCTTTTCC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (18 bp):
TCTTTCAAAAATAATTCC
Found at i:11814579 original size:17 final size:16
Alignment explanation
Indices: 11814559--11814597 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11814549 AAAATTTTTT
11814559 TAATTTTATTAAAGATA
1 TAATTTTATTAAA-ATA
*
11814576 TAATTATATTAAAATA
1 TAATTTTATTAAAATA
11814592 T-ATTTT
1 TAATTTT
11814598 TTGAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 4 0.20
16 4 0.20
17 12 0.60
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TAATTTTATTAAAATA
Found at i:11814849 original size:18 final size:20
Alignment explanation
Indices: 11814826--11814864 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
11814816 ATTAAAGTTG
11814826 TATCCGAA-AAAT-TATATT
1 TATCCGAATAAATATATATT
11814844 TATCCGAATAAATATATATT
1 TATCCGAATAAATATATATT
11814864 T
1 T
11814865 GAATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
TATCCGAATAAATATATATT
Found at i:11814931 original size:28 final size:30
Alignment explanation
Indices: 11814853--11814923 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
11814843 TTATCCGAAT
* * * *
11814853 AAATATATATTTGAATAAATATATCTATAC
1 AAATAAATATTTAAATAATTATGTCTATAC
11814883 AAATAAATATTTAAATAATTATGTCTATAC
1 AAATAAATATTTAAATAATTATGTCTATAC
11814913 -AA-AAATATTTA
1 AAATAAATATTTA
11814924 TTTTATTACA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 9 0.24
29 2 0.05
30 26 0.70
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (30 bp):
AAATAAATATTTAAATAATTATGTCTATAC
Found at i:11816197 original size:13 final size:13
Alignment explanation
Indices: 11816179--11816203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11816169 TTATCATTTT
11816179 ATTTATTTTTTAA
1 ATTTATTTTTTAA
11816192 ATTTATTTTTTA
1 ATTTATTTTTTA
11816204 TGTATGTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTATTTTTTAA
Found at i:11816896 original size:14 final size:14
Alignment explanation
Indices: 11816877--11816903 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11816867 GAAAATTTTA
11816877 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
11816891 ATAAAAATAAAAA
1 ATAAAAATAAAAA
11816904 ACCAAAATTT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:11818875 original size:34 final size:34
Alignment explanation
Indices: 11818793--11818900 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 34
11818783 AAGAGTTGTG
* * * **
11818793 TTTGAAAAATTATGTCTATACAAATAAATATACA
1 TTTGAACAACTATGTCTATACAAGTAAATATTTA
* * *
11818827 TTTAAACAATTATGTCTATACAAGTATATATTTA
1 TTTGAACAACTATGTCTATACAAGTAAATATTTA
* * *
11818861 TTTGGACAACTATGTTTATACAAAG-AGATATTTA
1 TTTGAACAACTATGTCTATAC-AAGTAAATATTTA
11818895 TTTGAA
1 TTTGAA
11818901 TATAAATCCA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 58 0.95
35 3 0.05
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (34 bp):
TTTGAACAACTATGTCTATACAAGTAAATATTTA
Found at i:11820260 original size:10 final size:10
Alignment explanation
Indices: 11820233--11820266 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11820223 TATTATTATT
11820233 AAATACAATAA
1 AAATACAA-AA
*
11820244 TAATACAAAA
1 AAATACAAAA
11820254 AAATACAAAA
1 AAATACAAAA
11820264 AAA
1 AAA
11820267 AAAGCTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (10 bp):
AAATACAAAA
Found at i:11821342 original size:12 final size:12
Alignment explanation
Indices: 11821325--11821349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11821315 GGTTCAGGAG
11821325 AATTTTTTTTAA
1 AATTTTTTTTAA
11821337 AATTTTTTTTAA
1 AATTTTTTTTAA
11821349 A
1 A
11821350 TATTATTTTG
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTTTTTTTAA
Found at i:11821947 original size:13 final size:13
Alignment explanation
Indices: 11821929--11821955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11821919 TTAAAATGAA
11821929 AATAATAAAAATT
1 AATAATAAAAATT
11821942 AATAATAAAAATT
1 AATAATAAAAATT
11821955 A
1 A
11821956 GTAAAATTTT
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAATAAAAATT
Found at i:11822702 original size:17 final size:17
Alignment explanation
Indices: 11822680--11822714 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11822670 ACAGCCCTAA
*
11822680 TTATTTTTTTTTAATTT
1 TTATTTTTATTTAATTT
*
11822697 TTATTTTTATTTACTTT
1 TTATTTTTATTTAATTT
11822714 T
1 T
11822715 GATAAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (17 bp):
TTATTTTTATTTAATTT
Found at i:11826117 original size:11 final size:10
Alignment explanation
Indices: 11826094--11826130 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
11826084 TGTGAGTTAT
*
11826094 AAAAACAAGA
1 AAAAAAAAGA
11826104 AAAAAAAAGTA
1 AAAAAAAAG-A
11826115 AAAAAAAAGA
1 AAAAAAAAGA
11826125 AAAAAA
1 AAAAAA
11826131 TATTGATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:11827812 original size:35 final size:35
Alignment explanation
Indices: 11827766--11827883 Score: 125
Period size: 35 Copynumber: 3.4 Consensus size: 35
11827756 TATTTTTTTA
* *
11827766 AAAAGATATTTGCATTTCATATGCATCATTATAAG
1 AAAAGACATTTGCATTTCATATGCATCATTTTAAG
* * *
11827801 AAAAGACATTTGTATTTCATGTGCATCATTTTAGG
1 AAAAGACATTTGCATTTCATATGCATCATTTTAAG
* * *
11827836 AAAAGATATTTGTATTTGC--AT-CCTCATTTTAAG
1 AAAAGACATTTGCATTT-CATATGCATCATTTTAAG
*
11827869 AGAAGACATTTGCAT
1 AAAAGACATTTGCAT
11827884 CATAATGTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 22 0.31
34 1 0.01
35 46 0.66
36 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (35 bp):
AAAAGACATTTGCATTTCATATGCATCATTTTAAG
Found at i:11828438 original size:41 final size:42
Alignment explanation
Indices: 11828267--11828504 Score: 209
Period size: 42 Copynumber: 5.5 Consensus size: 42
11828257 AAAAAGTTAT
*
11828267 TTGCATTTTCTCGATGGTGATATTCGAGTATTAAGATTTGAA
1 TTGCATTTTCTCGATGGTGATATCCGAGTATTAAGATTTGAA
* * * *
11828309 TTACATCTTT-TCGGTGGTGATATTCGAGCATTAAGATTTGAA
1 TTGCAT-TTTCTCGATGGTGATATCCGAGTATTAAGATTTGAA
* * *
11828351 TTGCATCTTCTC-AGTGGTGATATCCGAGTGTCAAGATTTGAA
1 TTGCATTTTCTCGA-TGGTGATATCCGAGTATTAAGATTTGAA
*
11828393 TTGCATTTTCT-GATGGTAATATCCGAGT-TTAA-ATTTTGAA
1 TTGCATTTTCTCGATGGTGATATCCGAGTATTAAGA-TTTGAA
* * *
11828433 TTTGCATTTACATTTTCTCGGTGGTGATATCTGAGTATTAA-AGCTTGAA
1 -TTG------CATTTTCTCGATGGTGATATCCGAGTATTAAGA-TTTGAA
* *
11828482 TTGCATTTTTTTGATGGTGATAT
1 TTGCATTTTCTCGATGGTGATAT
11828505 TTGAGTTTAA
Statistics
Matches: 161, Mismatches: 21, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
39 1 0.01
40 9 0.06
41 19 0.12
42 94 0.58
43 3 0.02
47 8 0.05
48 17 0.11
49 10 0.06
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (42 bp):
TTGCATTTTCTCGATGGTGATATCCGAGTATTAAGATTTGAA
Found at i:11828463 original size:89 final size:90
Alignment explanation
Indices: 11828358--11828552 Score: 232
Period size: 90 Copynumber: 2.2 Consensus size: 90
11828348 GAATTGCATC
* * *
11828358 TTCTCAGTGGTGATATCCGAGTGTC-AAGATTTGAATTGCA-TTTTCTGATGGTAATATCCGAGT
1 TTCTCGGTGGTGATATCCGAGTATCAAAG-CTTGAATTGCATTTTTCTGATGGTAATATCCGAGT
*
11828421 TTAAATTTTGAATTTGCATTTACATT
65 TTAAAGTTTGAATTTGCATTTACATT
* * * * **
11828447 TTCTCGGTGGTGATATCTGAGTATTAAAGCTTGAATTGCATTTTTTTGATGGTGATATTTGAGTT
1 TTCTCGGTGGTGATATCCGAGTATCAAAGCTTGAATTGCATTTTTCTGATGGTAATATCCGAGTT
* *
11828512 TAAAGTTTGAATTTGTATTTGCATT
66 TAAAGTTTGAATTTGCATTTACATT
* * *
11828537 CTCTTGATGGTGATAT
1 TTCTCGGTGGTGATAT
11828553 TTGAGTTTTC
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 31 0.35
90 58 0.65
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (90 bp):
TTCTCGGTGGTGATATCCGAGTATCAAAGCTTGAATTGCATTTTTCTGATGGTAATATCCGAGTT
TAAAGTTTGAATTTGCATTTACATT
Found at i:11828488 original size:48 final size:48
Alignment explanation
Indices: 11828396--11828678 Score: 183
Period size: 48 Copynumber: 5.8 Consensus size: 48
11828386 ATTTGAATTG
* * *
11828396 CATTTTCT-GATGGTAATATCCGAGTTTAAATTTTGAATTTGCATTTA
1 CATTTTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTA
* *
11828443 CATTTTCTCGGTGGTGATATCTGAGTATTAAAGCTTGAA-TTGCA-TT-
1 CATTTTCTCGATGGTGATATCTGAGT-TTAAAGTTTGAATTTGCATTTA
* * *
11828489 --TTTT-T-GATGGTGATATTTGAGTTTAAAGTTTGAATTTGTATTTG
1 CATTTTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTA
* * * ** *
11828533 CATTCTCTTGATGGTGATATTTGAGTTT--TCTTCGATGACGATATCCGAAGTCATTTA
1 CATTTTCTCGATGGTGATATCTGAGTTTAAAGTT---TGA--AT-T----TG-CATTTA
* *
11828590 CATTTTCTCGGTGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTG
1 CATTTTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTA
* * * *
11828638 TATTCTCTCGATGGTAATAT-TCGAGTATTAAAGCTTGAATT
1 CATTTTCTCGATGGTGATATCT-GAGT-TTAAAGTTTGAATT
11828679 ACATTTTTTC
Statistics
Matches: 184, Mismatches: 28, Indels: 46
0.71 0.11 0.18
Matches are distributed among these distances:
41 11 0.06
42 19 0.10
43 3 0.02
44 4 0.02
46 5 0.03
47 12 0.07
48 63 0.34
49 27 0.15
51 2 0.01
52 1 0.01
53 1 0.01
54 2 0.01
56 4 0.02
57 28 0.15
59 2 0.01
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (48 bp):
CATTTTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTA
Found at i:11828548 original size:90 final size:89
Alignment explanation
Indices: 11828388--11828706 Score: 264
Period size: 90 Copynumber: 3.4 Consensus size: 89
11828378 GTGTCAAGAT
* * * * *
11828388 TTGAATTGCA-TTTTCTGATGGTAATATCCGAGTTTAAATTTTGAATTTGCATTTACATTTTCTC
1 TTGAATTGCATTTTTTTGATGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTC
*
11828452 GGTGGTGATATCTGAGTATTAAAGC
66 GATGGTGATAT-TGAGTATTAAAGC
** * *
11828477 TTGAATTGCATTTTTTTGATGGTGATATTTGAGTTTAAAGTTTGAATTTGTATTTGCATTCTCTT
1 TTGAATTGCATTTTTTTGATGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTC
* * *
11828542 GATGGTGATATTTGAGTTTTCTTCGATGACGA
66 GATGGTGATA-TTGAG---TATT--A--AAGC
* * *
11828574 TATCCGAAGT-CATTTACATTTTCTCGGTGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTG
1 T-T--GAATTGCA-TT---TTTT-T-GATGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTG
* *
11828638 TATTCTCTCGATGGTAATATTCGAGTATTAAAGC
57 CATTCTCTCGATGGTGATATT-GAGTATTAAAGC
* * *
11828672 TTGAATTACATTTTTTCGATGGTGATATTCGAGTT
1 TTGAATTGCATTTTTTTGATGGTGATATCCGAGTT
11828707 CCCTTTAGTG
Statistics
Matches: 182, Mismatches: 28, Indels: 39
0.73 0.11 0.16
Matches are distributed among these distances:
89 10 0.05
90 73 0.40
91 1 0.01
92 4 0.02
93 3 0.02
95 7 0.04
96 2 0.01
97 4 0.02
98 4 0.02
99 2 0.01
100 7 0.04
102 3 0.02
103 4 0.02
104 3 0.02
105 55 0.30
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.45
Consensus pattern (89 bp):
TTGAATTGCATTTTTTTGATGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTC
GATGGTGATATTGAGTATTAAAGC
Found at i:11828633 original size:147 final size:145
Alignment explanation
Indices: 11828437--11828846 Score: 417
Period size: 147 Copynumber: 2.8 Consensus size: 145
11828427 TTTGAATTTG
*
11828437 CATTTACATTTTCTCGGTGGTGATATCTGAGTATTAAAGCTTGAA-TTGCATTT-TT-T-T-GAT
1 CATTTACATTTTCTCGGTGGTGATATCTGAGT-TTAAAGTTTGAATTTGCATTTATTCTCTCGAT
* * * ** * *
11828497 GGTGATATTTGAGT-TTAAAGTTTGAATTTGTATTTGCATTCTCTTGATGGTGATATTTGAGTTT
65 GGTAATATTCGAGTATTAAAGCTTGAA-TTACATTT---TT-TC--GATGGTGATATTCGAGTTC
* *
11828561 TCTTCGA-TGACGATATCCGAAGT
123 CCTT-GAGTGACGATATCCGAAGA
11828584 CATTTACATTTTCTCGGTGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTGTATTCTCTCGA
1 CATTTACATTTTCTCGGTGGTGATATCTGAGTTTAAAGTTTGAATTTGCA-TT-TATTCTCTCGA
*
11828649 TGGTAATATTCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGATATTCGAGTTCCCTTTA
64 TGGTAATATTCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGATATTCGAGTTCCCTTGA
*
11828714 GTGGCGATATCCGAAGA
129 GTGACGATATCCGAAGA
* * * * ** *
11828731 CATTTGCATCTTCTTGGTGGTGGTATCCAAGTTTAAAGTTTGAATTTACATTTGCATT-TCCTC-
1 CATTTACATTTTCTCGGTGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTT--ATTCT-CTCG
* * *
11828794 AGTGGTGATATT-GAGTATTAAAGCTTAAATTAAATTTTTTCGATGGTGATATT
63 A-TGGTAATATTCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGATATT
11828847 TAAGTTTCCT
Statistics
Matches: 228, Mismatches: 22, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
145 1 0.00
146 55 0.24
147 129 0.57
148 2 0.01
149 3 0.01
150 4 0.02
151 1 0.00
152 1 0.00
153 21 0.09
154 11 0.05
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (145 bp):
CATTTACATTTTCTCGGTGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTATTCTCTCGATG
GTAATATTCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGATATTCGAGTTCCCTTGAGT
GACGATATCCGAAGA
Found at i:11828881 original size:146 final size:147
Alignment explanation
Indices: 11828542--11828901 Score: 449
Period size: 147 Copynumber: 2.5 Consensus size: 147
11828532 GCATTCTCTT
* * * * * *
11828542 GATGGTGATATTTGAGTTTTCTTCGATGACGATATCCGAAGTCATTTACATTTTCTCGGTGGTGA
1 GATGGTGATATTTGAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATCTTCTTGGTGGTGA
** * *
11828607 TATCTGAGTTTAAAGTTTGAATTTGCATTTGTATTCTCTCGATGGTAATATTCGAGTATTAAAGC
66 TATCCAAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCGATGGTAATATTCGAGTATTAAAGC
* *
11828672 TTGAATTACATTTTTTC
131 TTAAATTAAATTTTTTC
* * ** * *
11828689 GATGGTGATATTCGAGTTCCCTTTAGTGGCGATATCCGAAGACATTTGCATCTTCTTGGTGGTGG
1 GATGGTGATATTTGAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATCTTCTTGGTGGTGA
*
11828754 TATCCAAGTTTAAAGTTTGAATTTACATTTGCATT-TCCTC-AGTGGTGATATT-GAGTATTAAA
66 TATCCAAGTTTAAAGTTTGAATTTACATTTGCATTCT-CTCGA-TGGTAATATTCGAGTATTAAA
11828816 GCTTAAATTAAATTTTTTC
129 GCTTAAATTAAATTTTTTC
* * ** *
11828835 GATGGTGATATTTAAGTTTCCTTCGGTGGCAATATTTGATGTCATTTGCATCTT-TTCGGTGGTG
1 GATGGTGATATTTGAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATCTTCTT-GGTGGTG
11828899 ATA
65 ATA
11828902 ATCGAGATTA
Statistics
Matches: 180, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
145 2 0.01
146 82 0.46
147 96 0.53
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (147 bp):
GATGGTGATATTTGAGTTTCCTTCGGTGGCGATATCCGAAGTCATTTGCATCTTCTTGGTGGTGA
TATCCAAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCGATGGTAATATTCGAGTATTAAAGC
TTAAATTAAATTTTTTC
Found at i:11829014 original size:49 final size:47
Alignment explanation
Indices: 11828957--11829167 Score: 155
Period size: 49 Copynumber: 4.4 Consensus size: 47
11828947 TTAATGGTTT
* *
11828957 AATTTAAAGTTATTGAGCCTCTGCTGAAAGGAACTTTTTTCAAGATGAG
1 AATTTAAAGTTGTTGAGCCTCTGCTGAAA-G-ACTTTTTTCAAGATAAG
*
11829006 AATTTAAAGTTGTTGAGTCTCTGCT----G-CTTTTTTCAAGATAAG
1 AATTTAAAGTTGTTGAGCCTCTGCTGAAAGACTTTTTTCAAGATAAG
* * * * * *
11829048 ATTTTAAAATTATTGAGCATCTGTTGAGAAGAGCCTTTTTTCATATGAGAA-
1 AATTTAAAGTTGTTGAGCCTCTGCTGA-AAGA--CTTTTTTCA-A-GATAAG
* * * * * *
11829099 TATTTAAAGTTGTTGAGCTTTTGCTGAGAGGAGCTTTTTTTAAGGTAAG
1 AATTTAAAGTTGTTGAGCCTCTGCTGA-AAGA-CTTTTTTCAAGATAAG
*
11829148 ATTTTAAAGTTGTTGAGCCT
1 AATTTAAAGTTGTTGAGCCT
11829168 TTATTGAGAA
Statistics
Matches: 126, Mismatches: 25, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
42 34 0.27
44 1 0.01
47 1 0.01
48 3 0.02
49 41 0.33
50 17 0.13
51 25 0.20
52 4 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (47 bp):
AATTTAAAGTTGTTGAGCCTCTGCTGAAAGACTTTTTTCAAGATAAG
Found at i:11829165 original size:100 final size:100
Alignment explanation
Indices: 11829031--11829210 Score: 243
Period size: 100 Copynumber: 1.8 Consensus size: 100
11829021 AGTCTCTGCT
* * *
11829031 GCTTTTTTCAAGATAAGATTTTAAAATTATTGAGCATCTGTTGAGAAGAGCCTTTTTTCATATGA
1 GCTTTTTTCAAGATAAGATTTTAAAATTATTGAGCATCTATTGAGAAGAGCCATTTTTCAAATGA
*
11829096 GAATATTTAAAGTTGTTGAGCTTTTGCTGAGAGGA
66 AAATATTTAAAGTTGTTGAGCTTTTGCTGAGAGGA
* * * * * * * *
11829131 GCTTTTTTTAAGGTAAGATTTTAAAGTTGTTGAGCCTTTATTGAGAAGTGTCATTTTTCAAATGA
1 GCTTTTTTCAAGATAAGATTTTAAAATTATTGAGCATCTATTGAGAAGAGCCATTTTTCAAATGA
*
11829196 AAATTTTTAAAGTTG
66 AAATATTTAAAGTTG
11829211 ATAAAATTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
100 67 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (100 bp):
GCTTTTTTCAAGATAAGATTTTAAAATTATTGAGCATCTATTGAGAAGAGCCATTTTTCAAATGA
AAATATTTAAAGTTGTTGAGCTTTTGCTGAGAGGA
Found at i:11829257 original size:68 final size:68
Alignment explanation
Indices: 11829148--11829278 Score: 199
Period size: 68 Copynumber: 1.9 Consensus size: 68
11829138 TTAAGGTAAG
* * * * *
11829148 ATTTTAAAGTTGTTGAGCCTTTATTGAGAAGTGTCATTTTTCAAATGAAAATTTTTAAAGTTGAT
1 ATTTTAAAGTTATTGAGCCTCTACTGAGAAGAGCCATTTTTCAAATGAAAATTTTTAAAGTTGAT
11829213 AAA
66 AAA
* *
11829216 ATTTTAAAGTTATTGAGCCTCTACTGAGAAGAGCCATTTTTCAGATGAGAATTTTTAAAGTTG
1 ATTTTAAAGTTATTGAGCCTCTACTGAGAAGAGCCATTTTTCAAATGAAAATTTTTAAAGTTG
11829279 TTGAGCCTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (68 bp):
ATTTTAAAGTTATTGAGCCTCTACTGAGAAGAGCCATTTTTCAAATGAAAATTTTTAAAGTTGAT
AAA
Found at i:11829276 original size:51 final size:50
Alignment explanation
Indices: 11829217--11829358 Score: 160
Period size: 51 Copynumber: 2.8 Consensus size: 50
11829207 GTTGATAAAA
*
11829217 TTTTAAAGTTATTGAGCCTCTACTGAGAAGAGCCATTTTTCAGA-TGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG-CATTTTTCAGATTGA-AAT
* * * *
11829268 TTTTAAAGTTGTTGAGCCTCTGCTGTGAGGAGCATTTTTCAGATTTTAAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCATTTTTCAGA-TTGAAAT
* * * *
11829319 TTTTAAAAGTTGTTGAGCCTCGAGTAAGAATAGCATTTTT
1 TTTT-AAAGTTGTTGAGCCTCTACTGAGAAGAGCATTTTT
11829359 TATTTGATAA
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
50 11 0.14
51 35 0.46
52 30 0.39
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (50 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCATTTTTCAGATTGAAAT
Found at i:11829607 original size:23 final size:23
Alignment explanation
Indices: 11829564--11829606 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11829554 ACAAAAAATA
11829564 TAAAAAAAAAACAAAACAAAAGC
1 TAAAAAAAAAACAAAACAAAAGC
* *
11829587 TAAAAAACAAA-AAAAGAAAA
1 TAAAAAAAAAACAAAACAAAA
11829607 AACGAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.81, C:0.09, G:0.05, T:0.05
Consensus pattern (23 bp):
TAAAAAAAAAACAAAACAAAAGC
Found at i:11830836 original size:19 final size:17
Alignment explanation
Indices: 11830812--11830847 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
11830802 ATGAAATATA
11830812 TTGTTAAATTTTTATAATT
1 TTGTT-AATTTTTA-AATT
11830831 TTGTTAATTTTTAAATT
1 TTGTTAATTTTTAAATT
11830848 GACCTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTGTTAATTTTTAAATT
Found at i:11837769 original size:18 final size:18
Alignment explanation
Indices: 11837746--11837787 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11837736 TTCAAAATAT
*
11837746 CATGATAATTTGATGAAA
1 CATGATAATTCGATGAAA
* *
11837764 CATGATAGTTCGATTAAA
1 CATGATAATTCGATGAAA
11837782 CATGAT
1 CATGAT
11837788 TTACCAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (18 bp):
CATGATAATTCGATGAAA
Found at i:11841462 original size:1 final size:1
Alignment explanation
Indices: 11841403--11841445 Score: 86
Period size: 1 Copynumber: 43.0 Consensus size: 1
11841393 GCCTTGCTAG
11841403 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11841446 CCCAACTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11842587 original size:14 final size:14
Alignment explanation
Indices: 11842568--11842597 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11842558 TTTAAATTTT
11842568 AAAAAATTAAAATA
1 AAAAAATTAAAATA
*
11842582 AAAAAATTAAATTA
1 AAAAAATTAAAATA
11842596 AA
1 AA
11842598 TTAAAAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAATTAAAATA
Found at i:11845640 original size:15 final size:15
Alignment explanation
Indices: 11845620--11845650 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11845610 AAAGAATGAT
*
11845620 AAATATGAAATAAAA
1 AAATATAAAATAAAA
11845635 AAATATAAAATAAAA
1 AAATATAAAATAAAA
11845650 A
1 A
11845651 TGAATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAATATAAAATAAAA
Found at i:11845646 original size:22 final size:23
Alignment explanation
Indices: 11845594--11845643 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
11845584 NNNNNNNNNN
*
11845594 ATAAATCATAAAATAAAAAGAATG
1 ATAAAT-ATGAAATAAAAAGAATG
11845618 ATAAATATGAAATAAAAA-AAT-
1 ATAAATATGAAATAAAAAGAATG
11845639 ATAAA
1 ATAAA
11845644 ATAAAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 5 0.20
22 3 0.12
23 11 0.44
24 6 0.24
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (23 bp):
ATAAATATGAAATAAAAAGAATG
Found at i:11845963 original size:9 final size:9
Alignment explanation
Indices: 11845951--11845983 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
11845941 TTTTTGTCCA
11845951 TTTTTTTGC
1 TTTTTTTGC
*
11845960 -TTTTTTAC
1 TTTTTTTGC
11845968 TTTTTTTGC
1 TTTTTTTGC
11845977 TTTTTTT
1 TTTTTTT
11845984 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:11846027 original size:135 final size:123
Alignment explanation
Indices: 11845838--11846161 Score: 349
Period size: 117 Copynumber: 2.6 Consensus size: 123
11845828 CTTGGCCTGC
* * *
11845838 CTTTTTTTTTGTTTTAAATTTTGATCAAAGC-CCTTCTAAGCAAAGGGCTAAATGATTTTGAGGA
1 CTTTTTTTTTTTTTTAAA---TGATCAAAGCTCC-TCTAAGCAGA-GGCTCAATGATTTTGA-GA
11845902 AACATAAATCAAAGCTCCTCTTAAATAGAGGCAACTTTTTTTTTGTCCATTTTTTTGCTTTTTTA
60 AACATAAATCAAAGCTCCTC-TAAATAGAGGCAAC-TTTTTTTTG----TTTTTTTG--TTTTT-
11845967 CTTTTTTTG
116 -TTTTTTTG
*
11845976 CTTTTTTTTTTTTTTAAATGATCAAAGCTCCTCTAAGCAGATGGCTCAATGACTTTGAGAAACAT
1 CTTTTTTTTTTTTTTAAATGATCAAAGCTCCTCTAAGCAGA-GGCTCAATGATTTTGAGAAACAT
*
11846041 AAA-CAAAGCTCCTCTAAATAGAGGTAACTTTTTTTTGTTTTTTTGTTTTTTTTTTTTG
65 AAATCAAAGCTCCTCTAAATAGAGGCAACTTTTTTTTGTTTTTTTGTTTTTTTTTTTTG
* * * *
11846099 --TTTTTTTGTTTTT---T-ACCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAGAAACAT
1 CTTTTTTTTTTTTTTAAATGATCAAAGCTCCTCTAAGCAGAGGCTCAATGA-TTTTGAGAAACAT
11846158 AAAT
65 AAAT
11846162 TGCTCCTCTA
Statistics
Matches: 172, Mismatches: 11, Indels: 26
0.82 0.05 0.12
Matches are distributed among these distances:
116 9 0.05
117 34 0.20
118 1 0.01
121 12 0.07
123 8 0.05
125 5 0.03
127 8 0.05
131 9 0.05
132 13 0.08
133 11 0.06
134 10 0.06
135 33 0.19
136 2 0.01
138 17 0.10
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (123 bp):
CTTTTTTTTTTTTTTAAATGATCAAAGCTCCTCTAAGCAGAGGCTCAATGATTTTGAGAAACATA
AATCAAAGCTCCTCTAAATAGAGGCAACTTTTTTTTGTTTTTTTGTTTTTTTTTTTTG
Found at i:11846075 original size:1 final size:1
Alignment explanation
Indices: 11846069--11846112 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
11846059 TAGAGGTAAC
* * * *
11846069 TTTTTTTTGTTTTTTTGTTTTTTTTTTTTGTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11846113 ACCAAAGCTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:11846083 original size:8 final size:8
Alignment explanation
Indices: 11846070--11846112 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
11846060 AGAGGTAACT
11846070 TTTTTTTG
1 TTTTTTTG
11846078 TTTTTTTG
1 TTTTTTTG
11846086 --TTTTT-
1 TTTTTTTG
11846091 TTTTTTTG
1 TTTTTTTG
11846099 TTTTTTTG
1 TTTTTTTG
11846107 TTTTTT
1 TTTTTT
11846113 ACCAAAGCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 5 0.16
7 5 0.16
8 22 0.69
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (8 bp):
TTTTTTTG
Found at i:11846095 original size:21 final size:21
Alignment explanation
Indices: 11846069--11846112 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11846059 TAGAGGTAAC
11846069 TTTTTTTTGTTTTTTTGTTTT
1 TTTTTTTTGTTTTTTTGTTTT
11846090 TTTTTTTTGTTTTTTTGTTTT
1 TTTTTTTTGTTTTTTTGTTTT
11846111 TT
1 TT
11846113 ACCAAAGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (21 bp):
TTTTTTTTGTTTTTTTGTTTT
Found at i:11846212 original size:40 final size:41
Alignment explanation
Indices: 11846119--11846530 Score: 572
Period size: 40 Copynumber: 10.0 Consensus size: 41
11846109 TTTTACCAAA
* * *
11846119 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGA-AAA-GTAAATT
*
11846163 GCTCCTCTAAACAGAGGTA-CACGACTTTGAAAAGTAAA-T
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
11846202 GCTCTCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTC-CTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11846245 GCTCCTCTAAACAGAGGCA--ACGAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-AC-TTTGAAAAGTAAATT
11846286 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGT-AAATT
11846329 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGT-AATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11846369 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAAGTAAA-T
1 GCTCCTCTAAACAGAGGCACCACGACTTT-G-AAAAGTAAATT
*
11846411 GCTTCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
11846451 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
11846492 GCTCCTCTAAACAGAGGCAACA-AACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
11846531 ACTCCTAGAC
Statistics
Matches: 340, Mismatches: 11, Indels: 38
0.87 0.03 0.10
Matches are distributed among these distances:
39 14 0.04
40 93 0.27
41 92 0.27
42 74 0.22
43 50 0.15
44 17 0.05
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:11846272 original size:82 final size:81
Alignment explanation
Indices: 11846119--11846536 Score: 612
Period size: 83 Copynumber: 5.1 Consensus size: 81
11846109 TTTTACCAAA
* * *
11846119 GCTCCTCTAAACAGAGGCTCAACGACTTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGTAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTG-GAAA-AGTAAATTGCTCCTCTAAACAGAGGCA-
11846183 ACG-ACTTTGAAAAGTAAAT
62 ACGAACTTTGAAAAGTAAAT
*
11846202 GCTCTCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTC-CTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
11846267 AACTTTTGAAAAGTAAATT
65 AAC-TTTGAAAAGTAAA-T
*
11846286 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGT-AAATTGCTCCTCTAAACAGAGGCA--A
*
11846351 CG-ACTTTGAAAAGTAATT
63 CGAACTTTGAAAAGTAAAT
*
11846369 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAAGTAAA-TGCTTCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
11846433 AACTTTGAAAAGTAAATT
65 AACTTTGAAAAGTAAA-T
*
11846451 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
11846515 ACTTTGAAAAGTAAAT
66 ACTTTGAAAAGTAAAT
*
11846531 ACTCCT
1 GCTCCT
11846537 AGACAATCAT
Statistics
Matches: 310, Mismatches: 13, Indels: 27
0.89 0.04 0.08
Matches are distributed among these distances:
80 17 0.05
81 55 0.18
82 81 0.26
83 86 0.28
84 66 0.21
85 2 0.01
86 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
ACTTTGAAAAGTAAAT
Found at i:11847076 original size:12 final size:12
Alignment explanation
Indices: 11847059--11847091 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
11847049 TCAGCACTAG
11847059 CAAATTTCAAAA
1 CAAATTTCAAAA
11847071 CAAATTTCAAAA
1 CAAATTTCAAAA
11847083 CAAATTTCA
1 CAAATTTCA
11847092 TCCACCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (12 bp):
CAAATTTCAAAA
Found at i:11847774 original size:8 final size:8
Alignment explanation
Indices: 11847761--11847820 Score: 70
Period size: 8 Copynumber: 7.8 Consensus size: 8
11847751 TTTGGATCTC
11847761 TTTTTTCA
1 TTTTTTCA
*
11847769 TTTTTTTA
1 TTTTTTCA
*
11847777 TTTTTTTA
1 TTTTTTCA
11847785 TTTTTTCA
1 TTTTTTCA
*
11847793 TTTTTTTA
1 TTTTTTCA
11847801 TTTTTTC-
1 TTTTTTCA
*
11847808 TTCTTTC-
1 TTTTTTCA
11847815 TTTTTT
1 TTTTTT
11847821 TTCTCTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
7 11 0.24
8 35 0.76
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTCA
Found at i:11847819 original size:15 final size:14
Alignment explanation
Indices: 11847769--11847848 Score: 61
Period size: 16 Copynumber: 5.2 Consensus size: 14
11847759 TCTTTTTTCA
* *
11847769 TTTTTTTATTTTTT
1 TTTTTTTCTCTTTT
*
11847783 TATTTTTTCATTTTTT
1 T-TTTTTTC-TCTTTT
11847799 TATTTTTTCTTCTTTCT
1 T-TTTTTTC-TCTTT-T
11847816 TTTTTTTCTCTTTT
1 TTTTTTTCTCTTTT
*
11847830 TTTTTCATCATCTTTT
1 TTTTT-TTC-TCTTTT
11847846 TTT
1 TTT
11847849 CCTCATTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
14 7 0.12
15 13 0.23
16 35 0.61
17 2 0.04
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTCTTTT
Found at i:11847820 original size:16 final size:14
Alignment explanation
Indices: 11847759--11847834 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 14
11847749 AATTTGGATC
11847759 TCTTTTTTCATTTTTT
1 TCTTTTTT--TTTTTT
*
11847775 TATTTTTTTATTTTT
1 TCTTTTTTT-TTTTT
11847790 TCATTTTTTTATTTTT
1 TC-TTTTTTT-TTTTT
11847806 TCTTCTTTCTTTTTTT
1 TCTT-TTT-TTTTTTT
11847822 TCTCTTTTTTTTT
1 TCT-TTTTTTTTT
11847835 CATCATCTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.02
15 13 0.25
16 36 0.68
17 3 0.06
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.83
Consensus pattern (14 bp):
TCTTTTTTTTTTTT
Found at i:11847820 original size:24 final size:23
Alignment explanation
Indices: 11847764--11847822 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
11847754 GGATCTCTTT
*
11847764 TTTCATTTTTTTATTTTTTTATTT
1 TTTCATTTTTTTA-TTTTTTATTC
*
11847788 TTTCATTTTTTTATTTTTTCTTC
1 TTTCATTTTTTTATTTTTTATTC
*
11847811 TTTCTTTTTTTT
1 TTTCATTTTTTT
11847823 CTCTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 19 0.59
24 13 0.41
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTCATTTTTTTATTTTTTATTC
Found at i:11847829 original size:24 final size:23
Alignment explanation
Indices: 11847759--11847837 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
11847749 AATTTGGATC
11847759 TCTTTTTTCATTTTTTTATTTTTT
1 TCTTTTTTCATTTTTTTA-TTTTT
*
11847783 TATTTTTTCATTTTTTTATTTTT
1 TCTTTTTTCATTTTTTTATTTTT
* *
11847806 TCTTCTTTC-TTTTTTT-TCTCTT
1 TCTTTTTTCATTTTTTTAT-TTTT
11847828 T-TTTTTTCAT
1 TCTTTTTTCAT
11847838 CATCTTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
21 7 0.15
22 12 0.25
23 12 0.25
24 17 0.35
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (23 bp):
TCTTTTTTCATTTTTTTATTTTT
Found at i:11847845 original size:14 final size:12
Alignment explanation
Indices: 11847815--11847858 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 12
11847805 TTCTTCTTTC
*
11847815 TTTTTTTTCTCT
1 TTTTTTTTCTCA
11847827 TTTTTTTTCATCA
1 TTTTTTTTC-TCA
11847840 TCTTTTTTTCCTCA
1 T-TTTTTTT-CTCA
11847854 TTTTT
1 TTTTT
11847859 CATCTATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 9 0.32
13 7 0.25
14 11 0.39
15 1 0.04
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTTTCTCA
Found at i:11850799 original size:22 final size:22
Alignment explanation
Indices: 11850771--11850820 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
11850761 TTAGGGTATA
11850771 TCTATCATTGGGTAGAAAGAGC
1 TCTATCATTGGGTAGAAAGAGC
11850793 TCTATCATTGGGTAGAAAGAGC
1 TCTATCATTGGGTAGAAAGAGC
11850815 TCTATC
1 TCTATC
11850821 CTAGGTGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (22 bp):
TCTATCATTGGGTAGAAAGAGC
Found at i:11851827 original size:59 final size:59
Alignment explanation
Indices: 11851715--11851883 Score: 288
Period size: 59 Copynumber: 2.9 Consensus size: 59
11851705 TTTTTTGTAG
*
11851715 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTTTAA
11851773 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTTTAA
*
11851832 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTCTTTTTGAAAATTT
1 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTT-TTTTTGGAAATTT
11851884 TTATTTTTTT
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
58 40 0.38
59 54 0.51
60 12 0.11
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTTTAA
Found at i:11851924 original size:15 final size:15
Alignment explanation
Indices: 11851898--11851931 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11851888 TTTTTTGCAA
11851898 AAAATAAAAATAAAAT
1 AAAATAAAAAT-AAAT
11851914 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
11851928 AAAA
1 AAAA
11851932 ATAATACTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAAATAAAT
Found at i:11851929 original size:4 final size:5
Alignment explanation
Indices: 11851898--11851931 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
11851888 TTTTTTGCAA
11851898 AAAAT AAAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
11851932 ATAATACTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11853993 original size:24 final size:22
Alignment explanation
Indices: 11853959--11854023 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 22
11853949 CAAAAGAAAG
11853959 AAAAAAA-ATAAATCATAAAATA
1 AAAAAAATATAAAT-ATAAAATA
*
11853981 AAAAAAATGATAAATATGAAATA
1 AAAAAAAT-ATAAATATAAAATA
11854004 AACAAAAATATAAA-ATAAAA
1 AA-AAAAATATAAATATAAAA
11854024 ATGAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.32
23 14 0.37
24 12 0.32
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (22 bp):
AAAAAAATATAAATATAAAATA
Found at i:11858985 original size:184 final size:185
Alignment explanation
Indices: 11858525--11859142 Score: 750
Period size: 184 Copynumber: 3.3 Consensus size: 185
11858515 ATTATTCCAT
* * * * *
11858525 AACTCAAATTTTGAGATGGTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCAGTCATTTCCTT
1 AACTCAAATTTTAAGACGGTTAGTGAAGGC-TTTATTCTAGAAAAATACCTTCACT-AATTCCTT
* *
11858590 CTAATTTACGTGCATAATTATTGAAGGTATTTTTTGAGAACAAATGCCTTCAAATAATTTTATCT
64 CTAATTTACGTGCATAATTATTGAAGGTGTTTTTTGAGAACAAATGCCTT-AAATAATTTTCTCT
* * * * *
11858655 TAAAATTTTTACG-ATTATTAAAGGTGTTTTCCAATAAAAAAATGCCTTCAATATTTCAC
128 TAAAATTTTTA-GAATTATTAAAGGCGTCTTCTAGT-GAAAAATGCCTTCAATATTTCAC
* * * *
11858714 AACTCAAATTTTGAGACGATT-GATGAAAGTG-TTTATTCTAGAAAAACACATTCACTAATTCCT
1 AACTCAAATTTTAAGACGGTTAG-TG-AAG-GCTTTATTCTAGAAAAATACCTTCACTAATTCCT
* *
11858777 TCTAATTTACATGCATAATTATTGAAGGTGTTTTTTGAGAACAAATGCCTTTAATAATTTTCTCT
63 TCTAATTTACGTGCATAATTATTGAAGGTGTTTTTTGAGAACAAATGCCTTAAATAATTTTCTCT
* *
11858842 CAAAATTTTTAGAATTATTAAAGGCATCTTCTAGTGAAAAATGCCTT-AATATTTCAC
128 TAAAATTTTTAGAATTATTAAAGGCGTCTTCTAGTGAAAAATGCCTTCAATATTTCAC
*
11858899 AACTCAAATTTTAAGACGGTTAGTGAAGGCTTTATT-TGAGAAAAATACCTTTACTAATTCCTTC
1 AACTCAAATTTTAAGACGGTTAGTGAAGGCTTTATTCT-AGAAAAATACCTTCACTAATTCCTTC
* * * * * *
11858963 TAATTTACGTACATAATTATTGAAGGCAG-TTCTTAAGAACAAATGCATTCAATAATTTTCTCTT
65 TAATTTACGTGCATAATTATTGAAGG-TGTTTTTTGAGAACAAATGCCTTAAATAATTTTCTC-T
*
11859027 TAAAATTTTTA-AGATTATTAAAGGCGTCTT-TCAGTGAAAAATACCTTCAATATTTCAC
128 TAAAATTTTTAGA-ATTATTAAAGGCGTCTTCT-AGTGAAAAATGCCTTCAATATTTCAC
* * * *
11859085 AACTCAAATTTTGAA-ACAGTTAGTGAAGGCGTTTGTTCTAGAGAAACACCTTCACTAA
1 AACTCAAATTTT-AAGACGGTTAGTGAAGGC-TTTATTCTAGAAAAATACCTTCACTAA
11859143 CTTTTTTTAA
Statistics
Matches: 376, Mismatches: 38, Indels: 32
0.84 0.09 0.07
Matches are distributed among these distances:
183 2 0.01
184 87 0.23
185 73 0.19
186 49 0.13
187 62 0.16
188 57 0.15
189 42 0.11
190 3 0.01
191 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (185 bp):
AACTCAAATTTTAAGACGGTTAGTGAAGGCTTTATTCTAGAAAAATACCTTCACTAATTCCTTCT
AATTTACGTGCATAATTATTGAAGGTGTTTTTTGAGAACAAATGCCTTAAATAATTTTCTCTTAA
AATTTTTAGAATTATTAAAGGCGTCTTCTAGTGAAAAATGCCTTCAATATTTCAC
Found at i:11859200 original size:371 final size:374
Alignment explanation
Indices: 11858525--11859208 Score: 870
Period size: 371 Copynumber: 1.8 Consensus size: 374
11858515 ATTATTCCAT
* * * * *
11858525 AACTCAAATTTTGAGATGGTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCAGTCATTTCCTT
1 AACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCACTCAATTCCTT
* * * * * *
11858590 CTAATTTACGTGCATAATTATTGAAGGTATTTTTTGAGAACAAATGCCTTCAAATAATTTTATCT
66 CTAATTTACGTACATAATTATTGAAGGCAGTTCTTAAGAACAAATGCATTCAAATAATTTTATCT
* * *
11858655 TAAAATTTTTACGATTATTAAAGGTGTTTTCCAATAAAAAAATGCCTTCAATATTTCACAACTCA
131 TAAAATTTTTAAGATTATTAAAGGCGTTTTCCAATAAAAAAATACCTTCAATATTTCACAACTCA
* *
11858720 AATTTTGAGACGATTGATGAAAGTGTTTATTCTAGAAAAACACATTCACTAATTCCTTCTAATTT
196 AATTTTGAAACGATTGATGAAAGCGTTTATTCTAGAAAAACACATTCACTAATTCCTTCTAATTT
* * *** * * *
11858785 ACATGCATAATTATTGAAGGTGTTTTTTGAGAACAAATGCCTTTAATAATTTTCTCTCAAAATTT
261 ACATACATAAATATTGAAGCAATTGTCTGAGAACAAACGCCTTTAATAATTTTCTCTCAAAATTT
11858850 TTAGAATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTAATATTTCAC
326 TTAGAATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTAATATTTCAC
*
11858899 AACTCAAATTTTAAGACGGTTAGTGAAGGC-TTTATT-TGAGAAAAATACCTTTACT-AATTCCT
1 AACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCT-AGAAAAATACCTTCACTCAATTCCT
*
11858961 TCTAATTTACGTACATAATTATTGAAGGCAGTTCTTAAGAACAAATGCATTC-AATAATTTTCTC
65 TCTAATTTACGTACATAATTATTGAAGGCAGTTCTTAAGAACAAATGCATTCAAATAATTTTATC
* *
11859025 TTTAAAATTTTTAAGATTATTAAAGGCGTCTTT-CAGT-GAAAAATACCTTCAATATTTCACAAC
130 -TTAAAATTTTTAAGATTATTAAAGGCGT-TTTCCAATAAAAAAATACCTTCAATATTTCACAAC
* * * * * *
11859088 TCAAATTTTGAAAC-AGTT-AGTGAAGGCGTTTGTTCTAGAGAAACACCTTCACTAACTT-TTTT
193 TCAAATTTTGAAACGA-TTGA-TGAAAGCGTTTATTCTAGAAAAACACATTCACTAA-TTCCTTC
***
11859150 TAATTTTTGTACATAAATATTGAAAGCAATTGTCT-ACTG-A-AAACGCCTTTAATAATTTT
255 TAATTTACATACATAAATATTG-AAGCAATTGTCTGA--GAACAAACGCCTTTAATAATTTT
11859209 TTTAGAATTA
Statistics
Matches: 264, Mismatches: 37, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
370 2 0.01
371 118 0.45
372 92 0.35
373 24 0.09
374 28 0.11
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (374 bp):
AACTCAAATTTTAAGACGGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCACTCAATTCCTT
CTAATTTACGTACATAATTATTGAAGGCAGTTCTTAAGAACAAATGCATTCAAATAATTTTATCT
TAAAATTTTTAAGATTATTAAAGGCGTTTTCCAATAAAAAAATACCTTCAATATTTCACAACTCA
AATTTTGAAACGATTGATGAAAGCGTTTATTCTAGAAAAACACATTCACTAATTCCTTCTAATTT
ACATACATAAATATTGAAGCAATTGTCTGAGAACAAACGCCTTTAATAATTTTCTCTCAAAATTT
TTAGAATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTAATATTTCAC
Found at i:11859602 original size:185 final size:186
Alignment explanation
Indices: 11859285--11859681 Score: 481
Period size: 185 Copynumber: 2.1 Consensus size: 186
11859275 TTTAGATTAC
* * * * * * ** * **
11859285 TAATTTACGTGCATAATTATTGAATGTATTTTTTTAGAACAAATGCCTTCAATAATTTTTTCTTA
1 TAATTTATGTACATAATTATTGAAGGTAGTTCTTGAGAACAAACACCTTCAATAAGTTCCTCTTA
* * * *
11859350 AAATTTTTGGGATTATTAAAGGCATATTCCAATGAAAAATGCCTTCAATATTTCAGAACTCAAAT
66 AAACTTTTAGGATTATTAAAGGCATATTCCAATGAAAAACGCCTTCAATATTTCACAACTCAAAT
* ** * ** * * ** *
11859415 TTTGAGATGGTTAGCGAATGTGTTTATTTTAGAAAAATGCCTTCACTAATTTTTTT
131 TTTGAAACAGTTAGCGAAGGCATTCATTCTAGAAAAACACCTTCACTAATTCTTTT
11859471 TAATTTATGTACATAATTATTGAAGGT-GTTCTTGAGAACAAACACCTTCAATAAGTTCCTCTTA
1 TAATTTATGTACATAATTATTGAAGGTAGTTCTTGAGAACAAACACCTTCAATAAGTTCCTCTTA
** * * *
11859535 AAACTTTTAGGATTATTAAAGGTGTTTTCCAATGAAAAACGCTTTCAATATTTCACAACTTAAAT
66 AAACTTTTAGGATTATTAAAGGCATATTCCAATGAAAAACGCCTTCAATATTTCACAACTCAAAT
* *
11859600 TTTGAAACAGTTAGTGAAGGCATTCATTCTAGAGAAACACCTTCACTAATTCTTTT
131 TTTGAAACAGTTAGCGAAGGCATTCATTCTAGAAAAACACCTTCACTAATTCTTTT
*
11859656 TAATTTTTGTACATAATTATTGAAGG
1 TAATTTATGTACATAATTATTGAAGG
11859682 CGATTTGTTT
Statistics
Matches: 177, Mismatches: 34, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
185 153 0.86
186 24 0.14
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (186 bp):
TAATTTATGTACATAATTATTGAAGGTAGTTCTTGAGAACAAACACCTTCAATAAGTTCCTCTTA
AAACTTTTAGGATTATTAAAGGCATATTCCAATGAAAAACGCCTTCAATATTTCACAACTCAAAT
TTTGAAACAGTTAGCGAAGGCATTCATTCTAGAAAAACACCTTCACTAATTCTTTT
Found at i:11859602 original size:506 final size:509
Alignment explanation
Indices: 11858778--11859729 Score: 1380
Period size: 506 Copynumber: 1.9 Consensus size: 509
11858768 CTAATTCCTT
* *
11858778 CTAATTTACATGCATAATTATTGAAGGTGTTTTTTGAGAACAAATGCCTTTAATAATTTTCTCTC
1 CTAATTTACATGCATAATTATTGAAGGTATTTTTTGAGAACAAATGCCTTCAATAATTTTCTCTC
* * *
11858843 AAAATTTTTAGAATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTAATATTTCACAACTCAAAT
66 AAAATTTTTAGAATTATTAAAGGCATATTCCAATGAAAAATGCCTTAATATTTCACAACTCAAAT
* *
11858908 TTTAAGACGGTTAGTGAAGGCTTTATTTGAGAAAAATACCTTTACTAATTCCTTCTAATTTACGT
131 TTTAAGACGGTTAGCGAAGGCTTTATTTGAGAAAAATACCTTCACTAATTCCTTCTAATTTACGT
** * * *
11858973 ACATAATTATTGAAGGCAGTTCTTAAGAACAAATGCATTCAATAATTTTCTCTTTAAAATTTTTA
196 ACATAATTATTGAAGGCAGTTCTTAAGAACAAACACATTCAATAAGTTCCTCTTTAAAACTTTTA
* *
11859038 AGATTATTAAAGGCGTCTTTCAGTGAAAAATACCTTCAATATTTCACAACTCAAATTTTGAAACA
261 AGATTATTAAAGGCGTCTTTCAATGAAAAACACCTTCAATATTTCACAACTCAAATTTTGAAACA
* **
11859103 GTTAGTGAAGGCGTTTGTTCTAGAGAAACACCTTCACTAACTT-TTTTTAATTTTTGTACATAAA
326 GTTAGTGAAGGCATTCATTCTAGAGAAACACCTTCACTAA-TTCTTTTTAATTTTTGTACATAAA
*
11859167 TATTGAAAGC-AATTGTCTACTGAAAACGCCTTTAATAATTTT-TTT-AGAATTATTAAAGGTAT
390 TATTGAAAGCGAATTGTCTACTGAAAACGCCTTTAATAATTTTCTTTAAAAATTATTAAAGGTAT
11859229 TTTTTGAGGTAAAACGCCTTTAATAATTTTTTTTTGAAAATTATTTTTTAGATTA
455 TTTTTGAGGTAAAACGCCTTTAATAATTTTTTTTTGAAAATTATTTTTTAGATTA
* * * * *
11859284 CTAATTTACGTGCATAATTATTGAATGTATTTTTTTAGAACAAATGCCTTCAATAATTTTTTCTT
1 CTAATTTACATGCATAATTATTGAAGGTATTTTTTGAGAACAAATGCCTTCAATAATTTTCTCTC
* * *
11859349 AAAATTTTTGGGATTATTAAAGGCATATTCCAATGAAAAATGCCTTCAATATTTCAGAACTCAAA
66 AAAATTTTTAGAATTATTAAAGGCATATTCCAATGAAAAATGCCTT-AATATTTCACAACTCAAA
* * * * ** *
11859414 TTTTGAGATGGTTAGCGAATGTG-TTTATTTTAGAAAAATGCCTTCACTAATTTTTTTTAATTTA
130 TTTTAAGACGGTTAGCGAA-G-GCTTTATTTGAGAAAAATACCTTCACTAATTCCTTCTAATTTA
* * * *
11859478 TGTACATAATTATTGAAGG-TGTTCTTGAGAACAAACACCTTCAATAAGTTCCTC-TTAAAACTT
193 CGTACATAATTATTGAAGGCAGTTCTTAAGAACAAACACATTCAATAAGTTCCTCTTTAAAACTT
* * * * *
11859541 TTAGGATTATTAAAGGTGT-TTTCCAATGAAAAACGCTTTCAATATTTCACAACTTAAATTTTGA
258 TTAAGATTATTAAAGGCGTCTTT-CAATGAAAAACACCTTCAATATTTCACAACTCAAATTTTGA
11859605 AACAGTTAGTGAAGGCATTCATTCTAGAGAAACACCTTCACTAATTCTTTTTAATTTTTGTACAT
322 AACAGTTAGTGAAGGCATTCATTCTAGAGAAACACCTTCACTAATTCTTTTTAATTTTTGTACAT
* * * * *
11859670 AATTATTGAAGGCGATTTGTTTACTGAAAATGCCTTTAATAATTTTCTTTAAAAATTATT
387 AAATATTGAAAGCGAATTGTCTACTGAAAACGCCTTTAATAATTTTCTTTAAAAATTATT
11859730 TTTTAGATTA
Statistics
Matches: 391, Mismatches: 47, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
505 5 0.01
506 230 0.59
507 90 0.23
508 57 0.15
509 9 0.02
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (509 bp):
CTAATTTACATGCATAATTATTGAAGGTATTTTTTGAGAACAAATGCCTTCAATAATTTTCTCTC
AAAATTTTTAGAATTATTAAAGGCATATTCCAATGAAAAATGCCTTAATATTTCACAACTCAAAT
TTTAAGACGGTTAGCGAAGGCTTTATTTGAGAAAAATACCTTCACTAATTCCTTCTAATTTACGT
ACATAATTATTGAAGGCAGTTCTTAAGAACAAACACATTCAATAAGTTCCTCTTTAAAACTTTTA
AGATTATTAAAGGCGTCTTTCAATGAAAAACACCTTCAATATTTCACAACTCAAATTTTGAAACA
GTTAGTGAAGGCATTCATTCTAGAGAAACACCTTCACTAATTCTTTTTAATTTTTGTACATAAAT
ATTGAAAGCGAATTGTCTACTGAAAACGCCTTTAATAATTTTCTTTAAAAATTATTAAAGGTATT
TTTTGAGGTAAAACGCCTTTAATAATTTTTTTTTGAAAATTATTTTTTAGATTA
Found at i:11860196 original size:28 final size:28
Alignment explanation
Indices: 11860165--11860229 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
11860155 AACCTTACTG
*
11860165 TGTGATATTATTTTGTTGAATGGTATTA
1 TGTGATATTATTTTGTTGAATGATATTA
*
11860193 TGTGATATTGTTTTGTTGAATGATATTA
1 TGTGATATTATTTTGTTGAATGATATTA
*
11860221 TATGATATT
1 TGTGATATT
11860230 GGTATGCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (28 bp):
TGTGATATTATTTTGTTGAATGATATTA
Found at i:11860246 original size:28 final size:28
Alignment explanation
Indices: 11860188--11860246 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
11860178 TGTTGAATGG
* * * * * *
11860188 TATTATGTGATATTGTTTTGTTGAATGA
1 TATTATATGATATTGGTATGCTAAATCA
11860216 TATTATATGATATTGGTATGCTAAATCA
1 TATTATATGATATTGGTATGCTAAATCA
11860244 TAT
1 TAT
11860247 GCTAAATAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (28 bp):
TATTATATGATATTGGTATGCTAAATCA
Found at i:11861950 original size:23 final size:23
Alignment explanation
Indices: 11861924--11861988 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
11861914 GAAGTATGAT
*
11861924 TTTGTTTATAATTTTAATATTAA
1 TTTGTTTATAATATTAATATTAA
*
11861947 TTTGTTTATTATATT--TATTAA
1 TTTGTTTATAATATTAATATTAA
*
11861968 TTTGGTTT-TAATACTAATATT
1 TTT-GTTTATAATATTAATATT
11861989 TCATTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 14 0.40
22 4 0.11
23 17 0.49
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTGTTTATAATATTAATATTAA
Found at i:11863538 original size:35 final size:35
Alignment explanation
Indices: 11863474--11863542 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
11863464 TATATAAACC
** *
11863474 AAATGTTTTCTAGGCATAATTATATAACTGACTTT
1 AAATGTTTTCTAGGCATAAACATACAACTGACTTT
* *
11863509 AAATGTTTTCTGGGCATAAACCTACAACTGACTT
1 AAATGTTTTCTAGGCATAAACATACAACTGACTT
11863543 GACATATACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (35 bp):
AAATGTTTTCTAGGCATAAACATACAACTGACTTT
Found at i:11866759 original size:15 final size:15
Alignment explanation
Indices: 11866741--11866778 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11866731 AAATTTTATT
11866741 ATTAAAAATA-ATTAA
1 ATTAAAAATAGA-TAA
*
11866756 ATTAAAATTAGATAA
1 ATTAAAAATAGATAA
11866771 ATTAAAAA
1 ATTAAAAA
11866779 ATATCGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
ATTAAAAATAGATAA
Found at i:11866872 original size:15 final size:14
Alignment explanation
Indices: 11866830--11866885 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 14
11866820 ATTTAATAAA
*
11866830 TTTT-GATATATAT
1 TTTTAGATAAATAT
11866843 TTTTAGATAAATAT
1 TTTTAGATAAATAT
11866857 TTTTA-ATAAA-AT
1 TTTTAGATAAATAT
*
11866869 TATT-GATAAA-AT
1 TTTTAGATAAATAT
11866881 TTTTA
1 TTTTA
11866886 TTATTATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 15 0.41
13 9 0.24
14 13 0.35
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
TTTTAGATAAATAT
Found at i:11866878 original size:25 final size:22
Alignment explanation
Indices: 11866848--11866901 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
11866838 TATATTTTTA
11866848 GATAAATATTTTTAATAAAATTATT
1 GATAAATATTTTT-AT--AATTATT
*
11866873 GATAAA-ATTTTTATTATTATT
1 GATAAATATTTTTATAATTATT
11866894 GATAAATA
1 GATAAATA
11866902 CTTAATCAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 12 0.44
22 1 0.04
23 2 0.07
24 6 0.22
25 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
GATAAATATTTTTATAATTATT
Found at i:11868768 original size:29 final size:28
Alignment explanation
Indices: 11868731--11868786 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
11868721 TTTATCATTT
*
11868731 TATTTAAATAAAT-ATTTATATTTTTATTA
1 TATTCAAATAAATCA-TTA-ATTTTTATTA
11868760 TATTCAAATAAATCATTAATTTTTATT
1 TATTCAAATAAATCATTAATTTTTATT
11868787 TTGTATTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 15 0.60
30 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (28 bp):
TATTCAAATAAATCATTAATTTTTATTA
Found at i:11869029 original size:13 final size:13
Alignment explanation
Indices: 11868993--11869044 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
11868983 ATATATGTTT
**
11868993 TATATTAATAAAA
1 TATATTAATTTAA
11869006 T-TATT-ATTTAA
1 TATATTAATTTAA
*
11869017 TATTTTAATTTAA
1 TATATTAATTTAA
*
11869030 GATATTAATTTAA
1 TATATTAATTTAA
11869043 TA
1 TA
11869045 AAAATATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 5 0.16
12 7 0.23
13 19 0.61
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
TATATTAATTTAA
Found at i:11869068 original size:42 final size:39
Alignment explanation
Indices: 11868997--11869098 Score: 91
Period size: 42 Copynumber: 2.5 Consensus size: 39
11868987 ATGTTTTATA
* *
11868997 TTAATAAAATTATTATTTAATATTTTAATTTAAGATAT-TAAT
1 TTAATAAAAATATTATTT-ATATTATAA-TTAA-A-ATGTAAT
11869039 TTAATAAAAATATTATATT-TATGTATAATTAAAATGTAAT
1 TTAATAAAAATATTAT-TTATAT-TATAATTAAAATGTAAT
*
11869079 TTATATTAAAAATAATATTT
1 TTA-A-TAAAAATATTATTT
11869099 CATAAATATT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
39 2 0.04
40 8 0.15
41 10 0.19
42 30 0.58
43 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (39 bp):
TTAATAAAAATATTATTTATATTATAATTAAAATGTAAT
Found at i:11869345 original size:33 final size:30
Alignment explanation
Indices: 11869270--11869355 Score: 111
Period size: 29 Copynumber: 2.8 Consensus size: 30
11869260 TTATTCTTAT
*
11869270 TTTACATCTAAATAAAATTTTAAATTTTAA
1 TTTATATCTAAATAAAATTTTAAATTTTAA
11869300 TTTATATCTAAAT-AAATTTTAAATTTTAA
1 TTTATATCTAAATAAAATTTTAAATTTTAA
*
11869329 TTATTTTATACATAAATAAAATTTTAA
1 -T-TTATAT-C-TAAATAAAATTTTAA
11869356 TATAAATTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
29 16 0.33
30 13 0.27
31 5 0.10
32 1 0.02
33 5 0.10
34 9 0.18
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTATATCTAAATAAAATTTTAAATTTTAA
Found at i:11869364 original size:33 final size:32
Alignment explanation
Indices: 11869266--11869369 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 32
11869256 GTTGTTATTC
* *
11869266 TTATTTTACATCTAAATAAAATTTTAA-AT-T
1 TTATTTTATATCTAAATAAAATTTTAATATAA
* *
11869296 TTAATTTATATCTAAAT-AAATTTTAAATTTTAA
1 TTATTTTATATCTAAATAAAATTTT-AA-TATAA
11869329 TTATTTTATA-CATAAATAAAATTTTAATATAAA
1 TTATTTTATATC-TAAATAAAATTTTAATAT-AA
11869362 TTAGTTTT
1 TTA-TTTT
11869370 TTGTTTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
29 7 0.12
30 17 0.28
32 4 0.07
33 21 0.35
34 11 0.18
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (32 bp):
TTATTTTATATCTAAATAAAATTTTAATATAA
Found at i:11875012 original size:18 final size:19
Alignment explanation
Indices: 11874989--11875027 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11874979 TCAAATGGTT
*
11874989 ATGACCTTT-TGTATAATA
1 ATGACCTTTATGAATAATA
11875007 ATGACCTTTATGAATAATA
1 ATGACCTTTATGAATAATA
11875026 AT
1 AT
11875028 TTAGTTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ATGACCTTTATGAATAATA
Found at i:11883642 original size:22 final size:22
Alignment explanation
Indices: 11883617--11883658 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11883607 TTGTCTATCC
* *
11883617 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
11883639 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
11883659 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:11893329 original size:17 final size:17
Alignment explanation
Indices: 11893309--11893343 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11893299 GAAAAGGCCA
11893309 AAAAAAAAAAAAAGAGG
1 AAAAAAAAAAAAAGAGG
* *
11893326 AAAATAACAAAAAGAGG
1 AAAAAAAAAAAAAGAGG
11893343 A
1 A
11893344 GAGAAAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAGG
Found at i:11897721 original size:19 final size:19
Alignment explanation
Indices: 11897681--11897723 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11897671 TTTTTTTATA
*
11897681 TAAAAAAAAGTCATAATTT
1 TAAAAAAAAGTCATAATGT
*
11897700 TAAAAAAAA-TTATAAATGT
1 TAAAAAAAAGTCAT-AATGT
11897719 TAAAA
1 TAAAA
11897724 TTTAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (19 bp):
TAAAAAAAAGTCATAATGT
Found at i:11898703 original size:14 final size:14
Alignment explanation
Indices: 11898684--11898737 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
11898674 TTTAAAAGCC
11898684 TTATAAATAAATAA
1 TTATAAATAAATAA
*
11898698 TTATAAA-ATTATAA
1 TTATAAATA-AATAA
*
11898712 TT-TAAAGAAATTAA
1 TTATAAATAAA-TAA
11898726 TTA-AAATAAATA
1 TTATAAATAAATA
11898738 TGAAATTACC
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 8 0.24
14 25 0.76
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TTATAAATAAATAA
Found at i:11899559 original size:2 final size:2
Alignment explanation
Indices: 11899552--11899583 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11899542 TGCAGCAATC
11899552 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11899584 TTATCAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11899574 original size:15 final size:15
Alignment explanation
Indices: 11899554--11899584 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11899544 CAGCAATCTA
11899554 TATATATATATATAT
1 TATATATATATATAT
11899569 TATATATATATATAT
1 TATATATATATATAT
11899584 T
1 T
11899585 TATCAACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:11909183 original size:12 final size:11
Alignment explanation
Indices: 11909160--11909207 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
11909150 AATCATAAAA
11909160 AAAAAAG-A-G
1 AAAAAAGTATG
11909169 AAAAAAGTATGG
1 AAAAAAGTAT-G
*
11909181 AAATAAGTATG
1 AAAAAAGTATG
11909192 AAAATAAGTATG
1 AAAA-AAGTATG
11909204 AAAA
1 AAAA
11909208 TGCATGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 7 0.21
10 1 0.03
11 4 0.12
12 21 0.64
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.17
Consensus pattern (11 bp):
AAAAAAGTATG
Found at i:11909208 original size:12 final size:12
Alignment explanation
Indices: 11909168--11909208 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
11909158 AAAAAAAAGA
11909168 GAAAA-AAGTAT
1 GAAAATAAGTAT
*
11909179 GGAAATAAGTAT
1 GAAAATAAGTAT
11909191 GAAAATAAGTAT
1 GAAAATAAGTAT
11909203 GAAAAT
1 GAAAAT
11909209 GCATGAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 4 0.15
12 23 0.85
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (12 bp):
GAAAATAAGTAT
Done.