Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008656.1 Hibiscus syriacus cultivar Beakdansim tig00111650_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2456495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:2245968 original size:18 final size:17
Alignment explanation
Indices: 2245888--2245980 Score: 69
Period size: 18 Copynumber: 5.1 Consensus size: 17
2245878 ATAAAATTTA
* *
2245888 TAATATAAGAATTATAAA
1 TAATATAAAAATTA-AAT
*
2245906 TAATATAAAGAATTGGAAT
1 TAATATAAA-AATT-AAAT
* *
2245925 TAACATAAAAACTAAATTT
1 TAATATAAAAATTAAA--T
*
2245944 ATAATATACAAATTATAAT
1 -TAATATAAAAATTA-AAT
2245963 TAATATAAAAATTAAAT
1 TAATATAAAAATTAAAT
2245980 T
1 T
2245981 TCAAAGAGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
17 6 0.10
18 24 0.41
19 16 0.27
20 11 0.19
21 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (17 bp):
TAATATAAAAATTAAAT
Found at i:2249649 original size:11 final size:11
Alignment explanation
Indices: 2249633--2249660 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2249623 GCCTAGGGTG
2249633 TAAACCCTCTA
1 TAAACCCTCTA
2249644 TAAACCCTCTA
1 TAAACCCTCTA
2249655 TAAACC
1 TAAACC
2249661 AATCACACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAACCCTCTA
Found at i:2254051 original size:7 final size:7
Alignment explanation
Indices: 2254039--2254063 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2254029 CTAAAGGTTT
2254039 AATTTAA
1 AATTTAA
2254046 AATTTAA
1 AATTTAA
2254053 AATTTAA
1 AATTTAA
2254060 AATT
1 AATT
2254064 CTGAAGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:2258699 original size:48 final size:48
Alignment explanation
Indices: 2258647--2258760 Score: 165
Period size: 48 Copynumber: 2.4 Consensus size: 48
2258637 GACATTATTG
** * *
2258647 TGAGCACGAGTTTGATGTATGTGTGACGGTGGTGCTATTGTATGATAT
1 TGAGCACGAGTTTGACATATGTGTGACAGTGGTGCTATTATATGATAT
* * *
2258695 TGAGCATGAGTTTGGCATCTGTGTGACAGTGGTGCTATTATATGATAT
1 TGAGCACGAGTTTGACATATGTGTGACAGTGGTGCTATTATATGATAT
2258743 TGAGCACGAGTTTGACAT
1 TGAGCACGAGTTTGACAT
2258761 TTGTATGATG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.36
Consensus pattern (48 bp):
TGAGCACGAGTTTGACATATGTGTGACAGTGGTGCTATTATATGATAT
Found at i:2258776 original size:48 final size:47
Alignment explanation
Indices: 2258647--2258779 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 47
2258637 GACATTATTG
** * *
2258647 TGAGCACGAGTTTGATGTATGTGTGACGGTGGTGCTATTGTATGATAT
1 TGAGCACGAGTTTGACATATGTGTGA-GATGGTGCTATTATATGATAT
* * * *
2258695 TGAGCATGAGTTTGGCATCTGTGTGACAGTGGTGCTATTATATGATAT
1 TGAGCACGAGTTTGACATATGTGTGAGA-TGGTGCTATTATATGATAT
* *
2258743 TGAGCACGAGTTTGACATTTGTATGATGATGGTGCTA
1 TGAGCACGAGTTTGACATATGTGTGA-GATGGTGCTA
2258780 ATGTACTAGG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 69 0.99
49 1 0.01
ACGTcount: A:0.23, C:0.10, G:0.31, T:0.37
Consensus pattern (47 bp):
TGAGCACGAGTTTGACATATGTGTGAGATGGTGCTATTATATGATAT
Found at i:2259111 original size:2 final size:2
Alignment explanation
Indices: 2259104--2259133 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2259094 TGAAAGCAAC
2259104 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
2259134 GAATTGCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2260099 original size:23 final size:22
Alignment explanation
Indices: 2260036--2260098 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
2260026 CCTTATTTTC
2260036 CTTTTCTCTCTTCTTTTTCCTAT
1 CTTTTCT-TCTTCTTTTTCCTAT
* * *
2260059 ATTTTTTTTTTCATTTTTCTCT-T
1 CTTTTCTTCTTC-TTTTTC-CTAT
2260082 CTTTTCTTCTTCTTTTT
1 CTTTTCTTCTTCTTTTT
2260099 TATCAACTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
22 9 0.28
23 21 0.66
24 2 0.06
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (22 bp):
CTTTTCTTCTTCTTTTTCCTAT
Found at i:2266561 original size:10 final size:10
Alignment explanation
Indices: 2266542--2266577 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
2266532 AGCTTCATAA
2266542 CAGC-ACATT
1 CAGCTACATT
2266551 CAGCTACATT
1 CAGCTACATT
2266561 CAGCTACATT
1 CAGCTACATT
2266571 CAGCTAC
1 CAGCTAC
2266578 TATTGATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.25
Consensus pattern (10 bp):
CAGCTACATT
Found at i:2266951 original size:20 final size:20
Alignment explanation
Indices: 2266926--2266972 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
2266916 TAAAGCCTAA
2266926 GAGCTAAAATGAATGCATAT
1 GAGCTAAAATGAATGCATAT
2266946 GAGCTAAAATGAATGCATAT
1 GAGCTAAAATGAATGCATAT
2266966 GAGCTAA
1 GAGCTAA
2266973 TAGAATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (20 bp):
GAGCTAAAATGAATGCATAT
Found at i:2270927 original size:19 final size:19
Alignment explanation
Indices: 2270905--2270941 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2270895 AAAATTTCAT
*
2270905 TTTGATTTTCAAAATCAAC
1 TTTGACTTTCAAAATCAAC
*
2270924 TTTGGCTTTCAAAATCAA
1 TTTGACTTTCAAAATCAA
2270942 ATCATTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (19 bp):
TTTGACTTTCAAAATCAAC
Found at i:2277834 original size:19 final size:21
Alignment explanation
Indices: 2277810--2277863 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
2277800 TGCAAAAATG
2277810 GTATCGATACCATAG-CG-TA
1 GTATCGATACCATAGACGATA
* * *
2277829 GTATCGGTACTATAGTATGATA
1 GTATCGATACCATAG-ACGATA
2277851 GTATCGATACCAT
1 GTATCGATACCAT
2277864 GGTATGGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.48
21 1 0.04
22 13 0.48
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (21 bp):
GTATCGATACCATAGACGATA
Found at i:2277868 original size:22 final size:22
Alignment explanation
Indices: 2277810--2277869 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
2277800 TGCAAAAATG
*
2277810 GTATCGATACCATAG--CG-TA
1 GTATCGATACCATAGTATGATA
* *
2277829 GTATCGGTACTATAGTATGATA
1 GTATCGATACCATAGTATGATA
*
2277851 GTATCGATACCATGGTATG
1 GTATCGATACCATAGTATG
2277870 GGTATCAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 13 0.41
21 1 0.03
22 18 0.56
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (22 bp):
GTATCGATACCATAGTATGATA
Found at i:2278310 original size:55 final size:54
Alignment explanation
Indices: 2278222--2278812 Score: 749
Period size: 55 Copynumber: 10.8 Consensus size: 54
2278212 TACCAAATAG
* *
2278222 GCACTATGTGTGCAAATCCAC-ATAATTCATCATGAGTTAATGAATAATCGTACA
1 GCACTATGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACA
* *
2278276 GACATTATGTGTGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCGTACA
1 G-CACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
* *
2278331 GGCACGATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA
1 -GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
* * * ** *
2278386 TGCACTATTTGTGTAAATCCACAAAATTCATCATGAGTTGATGAATAACTATATA
1 -GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
* * *
2278441 GGCATTATGTGTGCAAATCCACGGAATTCATTATGAGTTGATGAATAACCGTACAA
1 -GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTAC-A
* * *
2278497 GCACAATGTGTGCAAATCCACAAAATTCATCGTGAGTTGATGAATAACCGTACA
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
* *
2278551 TGCACTATGTGT--AAATCCACGGAATTCATCATGAGTTTATGAATAACCGTACA
1 -GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
* * * *
2278604 TGCACGATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCTTATA
1 -GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
* * *
2278659 GGCACTATGTGTGAAAATCCACGGAATTCATCATGAGTTGATGAATAACCATACA
1 -GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
* * *
2278714 TGCACTATGTGTGCAAATCCACAAAATTCATTATGAGTTGATGAATAACCGTATA
1 -GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
* * * *
2278769 TGCACGATGTGTGC-AACCCACGGAATTTATCATGAGTTGATGAA
1 -GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAA
2278813 CTATCGTATA
Statistics
Matches: 470, Mismatches: 60, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
53 48 0.10
54 27 0.06
55 392 0.83
56 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (54 bp):
GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA
Found at i:2278413 original size:110 final size:110
Alignment explanation
Indices: 2278218--2278812 Score: 865
Period size: 110 Copynumber: 5.4 Consensus size: 110
2278208 TGATTACCAA
** * * *
2278218 ATAGGCACTATGTGTGCAAATCCACATAATTCATCATGAGTTAATGAATAATCGTACA-GACATT
1 ATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-CACT
**
2278282 ATGTGTGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCGT
65 ATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGT
* *
2278328 ACAGGCACGATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTA
1 ATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTA
* * **
2278393 TTTGTGTAAATCCACAAAATTCATCATGAGTTGATGAATAACTAT
66 TGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGT
* * * *
2278438 ATAGGCATTATGTGTGCAAATCCACGGAATTCATTATGAGTTGATGAATAACCGTACAAGCACAA
1 ATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTA
*
2278503 TGTGTGCAAATCCACAAAATTCATCGTGAGTTGATGAATAACCGT
66 TGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGT
* * * *
2278548 ACATGCACTATGTGT--AAATCCACGGAATTCATCATGAGTTTATGAATAACCGTACATGCACGA
1 ATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTA
** *
2278611 TGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCTT
66 TGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGT
* *
2278656 ATAGGCACTATGTGTGAAAATCCACGGAATTCATCATGAGTTGATGAATAACCATACATGCACTA
1 ATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTA
*
2278721 TGTGTGCAAATCCACAAAATTCATTATGAGTTGATGAATAACCGT
66 TGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGT
* * * *
2278766 ATATGCACGATGTGTGC-AACCCACGGAATTTATCATGAGTTGATGAA
1 ATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA
2278813 CTATCGTATA
Statistics
Matches: 433, Mismatches: 49, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
108 98 0.23
109 28 0.06
110 306 0.71
111 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (110 bp):
ATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTA
TGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGT
Found at i:2278494 original size:165 final size:165
Alignment explanation
Indices: 2278222--2278812 Score: 846
Period size: 165 Copynumber: 3.6 Consensus size: 165
2278212 TACCAAATAG
* * * * **
2278222 GCACTATGTGTGCAAATCCACATAATTCATCATGAGTTAATGAATAATCGTACAGACATTATGTG
1 GCACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACGATGTG
* * *
2278287 TGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACGATGTGTGCAAATCCA
66 TGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACAATGTGTGCAAATCCA
2278352 CGGAATTCATCATGAGTTGATGAATAACCGTACAT
131 CGGAATTCATCATGAGTTGATGAATAACCGTACAT
* * ** * **
2278387 GCACTATTTGTGTAAATCCACAAAATTCATCATGAGTTGATGAATAACTATATAGGCATTATGTG
1 GCACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACGATGTG
* *
2278452 TGCAAATCCACGGAATTCATTATGAGTTGATGAATAACCGTACAAGCACAATGTGTGCAAATCCA
66 TGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACAATGTGTGCAAATCCA
** *
2278517 CAAAATTCATCGTGAGTTGATGAATAACCGTACAT
131 CGGAATTCATCATGAGTTGATGAATAACCGTACAT
** * *
2278552 GCACTATGTGT--AAATCCACGGAATTCATCATGAGTTTATGAATAACCGTACATGCACGATGTG
1 GCACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACGATGTG
* * * *
2278615 TGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCTTATAGGCACTATGTGTGAAAATCCA
66 TGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACAATGTGTGCAAATCCA
*
2278680 CGGAATTCATCATGAGTTGATGAATAACCATACAT
131 CGGAATTCATCATGAGTTGATGAATAACCGTACAT
* * *
2278715 GCACTATGTGTGCAAATCCACAAAATTCATTATGAGTTGATGAATAACCGTATATGCACGATGTG
1 GCACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACGATGTG
* *
2278780 TGC-AACCCACGGAATTTATCATGAGTTGATGAA
66 TGCAAATCCACGGAATTCATCATGAGTTGATGAA
2278813 CTATCGTATA
Statistics
Matches: 380, Mismatches: 44, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
163 144 0.38
164 28 0.07
165 208 0.55
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (165 bp):
GCACTATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACCGTACAGGCACGATGTG
TGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACAATGTGTGCAAATCCA
CGGAATTCATCATGAGTTGATGAATAACCGTACAT
Found at i:2279112 original size:68 final size:68
Alignment explanation
Indices: 2279002--2279199 Score: 315
Period size: 68 Copynumber: 2.9 Consensus size: 68
2278992 AATGGCCTAA
*
2279002 CTGTGCATTTGATAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGAC
1 CTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGAC
2279067 TAG
66 TAG
* * *
2279070 TTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTTTGAGGCC
1 CTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGAC
2279135 TAG
66 TAG
* * * * *
2279138 CTGCGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAGGTTAAATGCCTTTGAG
1 CTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
2279200 TAAAAGCCTA
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 119 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (68 bp):
CTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGAC
TAG
Found at i:2279289 original size:46 final size:46
Alignment explanation
Indices: 2279220--2279315 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 46
2279210 GATGTGTGAC
* *
2279220 AATGTATAATAACGTATAGAAGGGCATGAAAGAATGCCATAAATGA
1 AATGTATAATAACGTATAAAAGGGCATGAAAGAATGCCATAAATAA
** * * *
2279266 AATGTATAATCGCTTATAAAAGGGCATGAAAGGATGTCATAAATAA
1 AATGTATAATAACGTATAAAAGGGCATGAAAGAATGCCATAAATAA
2279312 AATG
1 AATG
2279316 CATATGGGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (46 bp):
AATGTATAATAACGTATAAAAGGGCATGAAAGAATGCCATAAATAA
Found at i:2279344 original size:45 final size:45
Alignment explanation
Indices: 2279288--2279410 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
2279278 CTTATAAAAG
*
2279288 GGCATGAAAGGATGTCATAAATAAAATGCATATGGGTACATTATC
1 GGCATGAAAGGATGACATAAATAAAATGCATATGGGTACATTATC
* * * ** *
2279333 GGCATGAAAGGAT-ACTATAATTGAAATGCATATGTGTGTATTATT
1 GGCATGAAAGGATGAC-ATAAATAAAATGCATATGGGTACATTATC
* * *
2279378 GGCATGAAAGAATGCCATATATAAAAATGCATA
1 GGCATGAAAGGATGACATAAAT-AAAATGCATA
2279411 ATGGTGCATT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
44 1 0.02
45 52 0.83
46 10 0.16
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (45 bp):
GGCATGAAAGGATGACATAAATAAAATGCATATGGGTACATTATC
Found at i:2283211 original size:35 final size:35
Alignment explanation
Indices: 2283163--2283246 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
2283153 TCGAAGGGAA
* *
2283163 GGTATCGACACCATTCCAAAACAGAATGCAAGAAT
1 GGTATCGATACCATTCCAAAACAGAATGCAAAAAT
*
2283198 GGTATCGATACCATTTCAAAACAGAATGCAAAAAT
1 GGTATCGATACCATTCCAAAACAGAATGCAAAAAT
2283233 GGTATCGATACCAT
1 GGTATCGATACCAT
2283247 AGCGTAGTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (35 bp):
GGTATCGATACCATTCCAAAACAGAATGCAAAAAT
Found at i:2283716 original size:55 final size:54
Alignment explanation
Indices: 2283632--2284183 Score: 741
Period size: 55 Copynumber: 10.1 Consensus size: 54
2283622 CCAAATAGGA
** * *
2283632 ACTATGTGTGCAAATCCACATAATTCATCACGAGTTGATGAATAATCGTACATGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAA-CGTACAGGC
* *
2283687 ACTATATGTGGAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTACAGGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAA-CGTACAGGC
* *
2283742 ACGATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCATACAGGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAA-CGTACAGGC
* * *
2283797 A-TGATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAAAAACGTACAGAC
1 ACT-ATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACGTACAGGC
* *
2283851 ACTATGTGTGTAAATCCACGAAATTCATCATGAGTTGATGAATAATCGTACAGGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAA-CGTACAGGC
* **
2283906 ACGATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATAC
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAA-CGTACAGGC
* * *
2283961 ACTATGTGTGCAAATCCATGGAATTCGTCATGAGTTGATGAATAACTGTACATGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAAC-GTACAGGC
* *
2284016 A-TGATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACTGTATAGGC
1 ACT-ATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAAC-GTACAGGC
* *
2284071 ACTATGTGTGAAAATCCACGAAATTCATCATGAGTTGATGAATAACTGTACAGGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAAC-GTACAGGC
* * * *
2284126 ACTATGTGTGC-AACCCACAGAATTCATCATGAGTTGATGAACTACCGTATAGGC
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACGTACAGGC
2284180 ACTA
1 ACTA
2284184 CGGGTGTATT
Statistics
Matches: 444, Mismatches: 46, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
54 86 0.19
55 357 0.80
56 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACGTACAGGC
Found at i:2284020 original size:219 final size:220
Alignment explanation
Indices: 2283632--2284174 Score: 835
Period size: 219 Copynumber: 2.5 Consensus size: 220
2283622 CCAAATAGGA
* * * *
2283632 ACTATGTGTGCAAATCCAC-ATAATTCATCACGAGTTGATGAATAATCGTACATGCACTATATGT
1 ACTATGTGTGAAAATCCACGA-AATTCATCATGAGTTGATGAATAATCGTACAGGCACTATGTGT
* * *
2283696 GGAAATCCACGGAATTCATCATGAGTTGATGAATAATCGTACAGGCACGATGTGTGCAAATCCAC
65 GCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACGATGTGTGCAAATCCAC
2283761 GGAATTCATCATGAGTTGATGAATAACCATACAGGCATGATGTGTGCAAATCCACAGAATTCATC
130 GGAATTCATCATGAGTTGATGAATAACCATACAGGCATGATGTGTGCAAATCCACAGAATTCATC
2283826 ATGAGTTGATGAAAAAC-GTACAGAC
195 ATGAGTTGATGAAAAACTGTACAGAC
* *
2283851 ACTATGTGTGTAAATCCACGAAATTCATCATGAGTTGATGAATAATCGTACAGGCACGATGTGTG
1 ACTATGTGTGAAAATCCACGAAATTCATCATGAGTTGATGAATAATCGTACAGGCACTATGTGTG
* * *
2283916 CAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATACACTATGTGTGCAAATCCATG
66 CAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACGATGTGTGCAAATCCACG
* ** *
2283981 GAATTCGTCATGAGTTGATGAATAACTGTACATGCATGATGTGTGCAAATCCACAGAATTCATCA
131 GAATTCATCATGAGTTGATGAATAACCATACAGGCATGATGTGTGCAAATCCACAGAATTCATCA
* * *
2284046 TGAGTTGATGAATAACTGTATAGGC
196 TGAGTTGATGAAAAACTGTACAGAC
2284071 ACTATGTGTGAAAATCCACGAAATTCATCATGAGTTGATGAATAA-CTGTACAGGCACTATGTGT
1 ACTATGTGTGAAAATCCACGAAATTCATCATGAGTTGATGAATAATC-GTACAGGCACTATGTGT
* *
2284135 GC-AACCCACAGAATTCATCATGAGTTGATGAACT-ACCGTA
65 GCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTA
2284175 TAGGCACTAC
Statistics
Matches: 298, Mismatches: 22, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
219 228 0.77
220 70 0.23
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (220 bp):
ACTATGTGTGAAAATCCACGAAATTCATCATGAGTTGATGAATAATCGTACAGGCACTATGTGTG
CAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGACACGATGTGTGCAAATCCACG
GAATTCATCATGAGTTGATGAATAACCATACAGGCATGATGTGTGCAAATCCACAGAATTCATCA
TGAGTTGATGAAAAACTGTACAGAC
Found at i:2284442 original size:68 final size:68
Alignment explanation
Indices: 2284350--2284553 Score: 286
Period size: 67 Copynumber: 3.0 Consensus size: 68
2284340 AAAGATTAAT
*
2284350 GGCCTAGCT-GTGCATTTGACAGAAAAGTATCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAGCTAG-GCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2284414 TTGA
65 TTGA
* * * *
2284418 GGCCTGGCTATGTATTTGACAG-AAAGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
1 GGCCTAGCTAGGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
2284482 TGA
66 TGA
* * * * * *
2284485 GGCCTAGCTGGGCATTTGACAGAAAGGTGTCAATTATGCTAGCTAGATGAAAGGTTAAATGCCTT
1 GGCCTAGCTAGGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
2284550 TGA
66 TGA
2284553 G
1 G
2284554 TAAAAAACTA
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
67 61 0.51
68 58 0.49
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (68 bp):
GGCCTAGCTAGGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:2284641 original size:46 final size:46
Alignment explanation
Indices: 2284574--2284715 Score: 203
Period size: 46 Copynumber: 3.1 Consensus size: 46
2284564 TATATGTGAC
*
2284574 AATGTATAATAACTTATAGAAGGTCATGAAAGGATGCCATAAATGA
1 AATGTATAATAACTTATAGAAGGGCATGAAAGGATGCCATAAATGA
* * *
2284620 AATGTATAATAACATATAGAAGGGAATGAAAGAATGCCATAAATGA
1 AATGTATAATAACTTATAGAAGGGCATGAAAGGATGCCATAAATGA
** * * *
2284666 AATGTATAATCGCTTATAAAAGGGCATGAAAGGATGTCATAAATAA
1 AATGTATAATAACTTATAGAAGGGCATGAAAGGATGCCATAAATGA
2284712 AATG
1 AATG
2284716 CCTATGGGTG
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.25
Consensus pattern (46 bp):
AATGTATAATAACTTATAGAAGGGCATGAAAGGATGCCATAAATGA
Found at i:2284752 original size:45 final size:44
Alignment explanation
Indices: 2284688--2284822 Score: 146
Period size: 45 Copynumber: 3.0 Consensus size: 44
2284678 CTTATAAAAG
* *
2284688 GGCATGAAAGGATGTCATAAATAAAATGCCTATGGGTGCATTATC
1 GGCATGAAA-GATGCCATAAATAAAATGCATATGGGTGCATTATC
* * * *
2284733 GGCATGAAATGATACCATAATTGAAATGCATATGGGTGCATTATT
1 GGCATGAAA-GATGCCATAAATAAAATGCATATGGGTGCATTATC
* *
2284778 GGCATGAAAGAATGCCATATATAAAAATGCAGAAT-GGTGCATTAT
1 GGCATGAAAG-ATGCCATAAAT-AAAATGCA-TATGGGTGCATTAT
2284823 AAGTATGAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 55 0.73
46 17 0.23
47 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (44 bp):
GGCATGAAAGATGCCATAAATAAAATGCATATGGGTGCATTATC
Found at i:2286683 original size:133 final size:134
Alignment explanation
Indices: 2286524--2286790 Score: 355
Period size: 133 Copynumber: 2.0 Consensus size: 134
2286514 AAAACAGGAG
* * * *
2286524 GTTCTAAATATTAATCCAAATCATTTTTAATCTATCGT-TGACTCAAATAATTAAAATGGAATCT
1 GTTCTAAATATTAATCCAAATCA-TTTTAATCAATCATGTGACTCAAAAAATTAAAATGGAACCT
*
2286588 CGAGCAAAAGCGAAGACCAAATTAAG-TATTCCCCTAAATTAAAAGGACCAAA-TTTGAAGTTAG
65 CGAGCAAAAGCGAAGACCAAATTAAGAT-TTCCCCTAAATT-AAAGGACCAAATTTTGAAATTAG
2286651 GCCTAAA
128 GCCTAAA
* * * *
2286658 GTTCT-AATATTAA-CCTAGTCAATTTTAATCAATTATGTGATTCAAAAAATTAAAATGGAACCT
1 GTTCTAAATATTAATCCAAATC-ATTTTAATCAATCATGTGACTCAAAAAATTAAAATGGAACCT
* * *
2286721 CGAGCAAAAGCGAAGACCACATTAAGATTTCTCCTAAATTAAAGGACTAAATTTTGAAATTAGGC
65 CGAGCAAAAGCGAAGACCAAATTAAGATTTCCCCTAAATTAAAGGACCAAATTTTGAAATTAGGC
2286786 CTAAA
130 CTAAA
2286791 ATGAAGGCTC
Statistics
Matches: 117, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
132 26 0.22
133 85 0.73
134 6 0.05
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.30
Consensus pattern (134 bp):
GTTCTAAATATTAATCCAAATCATTTTAATCAATCATGTGACTCAAAAAATTAAAATGGAACCTC
GAGCAAAAGCGAAGACCAAATTAAGATTTCCCCTAAATTAAAGGACCAAATTTTGAAATTAGGCC
TAAA
Found at i:2286878 original size:139 final size:138
Alignment explanation
Indices: 2286566--2286909 Score: 326
Period size: 139 Copynumber: 2.5 Consensus size: 138
2286556 TATCGTTGAC
* * * * * ** * *
2286566 TCAAATAATTAAAATGGAATCTCGAGCAAAAGCGAAGACCAAATTAAGTATTCCCCTAAATTAAA
1 TCAAAAAATTAAAATGAAACCTCGAACAAAAACGAAGACCAAATTAAAAAAT-CCCTAAATTTAA
* * *
2286631 AGGACCAAA-TTTGAAGTTAGGCCT---A--AA-GTTCTAATATTAACCTAGTCAATTTTAATCA
65 A-GACTAAATTTTGAAATTAGGCCTAAAATGAAGGCTCTAATATTAACCTAGTCAATTTTAATCA
2286689 ATTATGTGAT
129 ATTATGTGAT
* * * * * **
2286699 TCAAAAAATTAAAATGGAACCTCGAGCAAAAGCGAAGACCACATTAAGATTTCTCCTAAA-TTAA
1 TCAAAAAATTAAAATGAAACCTCGAACAAAAACGAAGACCAAATTAAAAAATC-CCTAAATTTAA
* ** *
2286763 AGGACTAAATTTTGAAATTAGGCCTAAAATGAAGGCTCTATTATTAACCTAGTTTATTTTGATCA
65 A-GACTAAATTTTGAAATTAGGCCTAAAATGAAGGCTCTAATATTAACCTAGTCAATTTTAATCA
*
2286828 ATTATTTGAT
129 ATTATGTGAT
** * ** *
2286838 TCGGATAATTAAAATGAAACCTTTAACAAAAACGAGGACCAAATTAAAAAATCCCTAAATTTAAA
1 TCAAAAAATTAAAATGAAACCTCGAACAAAAACGAAGACCAAATTAAAAAATCCCTAAATTTAAA
2286903 GACTAAA
66 GACTAAA
2286910 ACTAAAATCT
Statistics
Matches: 175, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
132 12 0.07
133 67 0.38
136 1 0.01
138 15 0.09
139 80 0.46
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (138 bp):
TCAAAAAATTAAAATGAAACCTCGAACAAAAACGAAGACCAAATTAAAAAATCCCTAAATTTAAA
GACTAAATTTTGAAATTAGGCCTAAAATGAAGGCTCTAATATTAACCTAGTCAATTTTAATCAAT
TATGTGAT
Found at i:2288638 original size:19 final size:19
Alignment explanation
Indices: 2288605--2288663 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
2288595 TTTTATTTCA
2288605 TTTGTTTTATTTATTATTAT
1 TTTGTTTTA-TTATTATTAT
*
2288625 TTTGTTTTAATATTATTAT
1 TTTGTTTTATTATTATTAT
* * *
2288644 TATATTATATTATTATTAT
1 TTTGTTTTATTATTATTAT
2288663 T
1 T
2288664 ATTAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 25 0.74
20 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTGTTTTATTATTATTAT
Found at i:2288643 original size:22 final size:22
Alignment explanation
Indices: 2288605--2288667 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
2288595 TTTTATTTCA
2288605 TTTGTTTT-AT-TTATTATTAT
1 TTTGTTTTAATATTATTATTAT
2288625 TTTGTTTTAATATTATTATTAT
1 TTTGTTTTAATATTATTATTAT
* * * *
2288647 ATTATATTATTATTATTATTA
1 TTTGTTTTAATATTATTATTA
2288668 AATAAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.22
21 2 0.05
22 27 0.73
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTGTTTTAATATTATTATTAT
Found at i:2288653 original size:16 final size:17
Alignment explanation
Indices: 2288611--2288667 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
2288601 TTCATTTGTT
*
2288611 TTATT-TATTATTATTT
1 TTATTATATTATTATTA
*
2288627 TGTTTTAATATTATTATTA
1 T-TATT-ATATTATTATTA
2288646 -TATTATATTATTATTA
1 TTATTATATTATTATTA
2288662 TTATTA
1 TTATTA
2288668 AATAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 13 0.38
17 11 0.32
19 10 0.29
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTATTATATTATTATTA
Found at i:2288687 original size:3 final size:3
Alignment explanation
Indices: 2288615--2288667 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
2288605 TTTGTTTTAT
* *
2288615 TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2288659 TTA TTA TTA
1 TTA TTA TTA
2288668 AATAAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2290142 original size:16 final size:16
Alignment explanation
Indices: 2290121--2290153 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2290111 TTGCTTTTAA
2290121 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
2290137 ATTTATTTATAATATT
1 ATTTATTTATAATATT
2290153 A
1 A
2290154 ATTTGTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:2290347 original size:31 final size:33
Alignment explanation
Indices: 2290312--2290374 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
2290302 ATAATTAAAC
2290312 ATTATAAAAATTAT-A-ATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATTTAGTTTTATTTAA
* * *
2290343 ATTATTAAAATTTTAATATTTATTTTTATTTA
1 ATTATAAAAATTATAATATTTAGTTTTATTTA
2290375 TTAATATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (33 bp):
ATTATAAAAATTATAATATTTAGTTTTATTTAA
Found at i:2291119 original size:18 final size:16
Alignment explanation
Indices: 2291092--2291135 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
2291082 ATTCTTTCAA
*
2291092 ATTTTTTATTACTTATT
1 ATTTTTTATTA-TTAAT
2291109 ATTTTTATATTATTAAT
1 ATTTTT-TATTATTAAT
2291126 ATTTTTTATT
1 ATTTTTTATT
2291136 TATGAAGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTATTATTAAT
Found at i:2292649 original size:8 final size:7
Alignment explanation
Indices: 2292625--2292666 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
2292615 TTTTCATACA
2292625 TGCA-TT
1 TGCATTT
2292631 TGCATTT
1 TGCATTT
2292638 TGCATCTT
1 TGCAT-TT
2292646 TGCATTT
1 TGCATTT
* *
2292653 TTCATTG
1 TGCATTT
2292660 TGCATTT
1 TGCATTT
2292667 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:2292649 original size:15 final size:14
Alignment explanation
Indices: 2292625--2292666 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
2292615 TTTTCATACA
2292625 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
2292638 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
2292653 TTCATTGTGCATTT
1 TGCATTTTGCATTT
2292667 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:2292733 original size:6 final size:6
Alignment explanation
Indices: 2292724--2292775 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
2292714 ACATTCACAT
* * * * *
2292724 ATTTAC ATTTGC ATTTAC ATTTGC ATTTAC ATTTGC ATTTAC CTTTGC
1 ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC ATTTAC
2292772 ATTT
1 ATTT
2292776 TTTACGTTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (6 bp):
ATTTAC
Found at i:2292754 original size:24 final size:24
Alignment explanation
Indices: 2292724--2292802 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
2292714 ACATTCACAT
2292724 ATTTACATTTGCATTTACATTTGC
1 ATTTACATTTGCATTTACATTTGC
*
2292748 ATTTACATTTGCATTTACCTTTGC
1 ATTTACATTTGCATTTACATTTGC
* * *
2292772 ATTTTTTACGTTTGTATTTACATTTTC
1 A---TTTACATTTGCATTTACATTTGC
2292799 ATTT
1 ATTT
2292803 TTACATAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
24 27 0.57
27 20 0.43
ACGTcount: A:0.22, C:0.15, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTACATTTGCATTTACATTTGC
Found at i:2292802 original size:12 final size:12
Alignment explanation
Indices: 2292724--2292775 Score: 95
Period size: 12 Copynumber: 4.3 Consensus size: 12
2292714 ACATTCACAT
2292724 ATTTACATTTGC
1 ATTTACATTTGC
2292736 ATTTACATTTGC
1 ATTTACATTTGC
2292748 ATTTACATTTGC
1 ATTTACATTTGC
*
2292760 ATTTACCTTTGC
1 ATTTACATTTGC
2292772 ATTT
1 ATTT
2292776 TTTACGTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:2294431 original size:2 final size:2
Alignment explanation
Indices: 2294424--2294459 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2294414 TTATCCTTTA
2294424 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
2294460 CCTTTGTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2294776 original size:26 final size:27
Alignment explanation
Indices: 2294746--2294799 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
2294736 TATTATACTC
2294746 ATCCAGCAAAGAAA-GAAAAAAGAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAA
2294772 ATCCAGCAAAGAAAGGAAAAAAGAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAA
2294799 A
1 A
2294800 AAAAGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.69, C:0.11, G:0.17, T:0.04
Consensus pattern (27 bp):
ATCCAGCAAAGAAAGGAAAAAAGAAAA
Found at i:2294809 original size:27 final size:26
Alignment explanation
Indices: 2294753--2294837 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
2294743 CTCATCCAGC
*** *
2294753 AAAGAAAGAAAAAAGAAAAATCCAGC
1 AAAGAAAGAAAAAAGAAAAAAAAAGA
2294779 AAAGAAAGGAAAAAAGAAAAAAAAAGA
1 AAAGAAA-GAAAAAAGAAAAAAAAAGA
*
2294806 AAAGGGAAAGAAAAACA-AAAACAAAAACA
1 AAA--GAAAGAAAAA-AGAAAA-AAAAAGA
2294835 AAA
1 AAA
2294838 CAAAAAGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
26 7 0.14
27 18 0.37
28 10 0.20
29 14 0.29
ACGTcount: A:0.76, C:0.07, G:0.15, T:0.01
Consensus pattern (26 bp):
AAAGAAAGAAAAAAGAAAAAAAAAGA
Found at i:2294814 original size:29 final size:29
Alignment explanation
Indices: 2294782--2294837 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
2294772 ATCCAGCAAA
*
2294782 GAAAGGAAAAA-AGAAAA-AAAAAGAAAAGG
1 GAAA-GAAAAACA-AAAACAAAAACAAAAGG
2294811 GAAAGAAAAACAAAAACAAAAACAAAA
1 GAAAGAAAAACAAAAACAAAAACAAAA
2294838 CAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (29 bp):
GAAAGAAAAACAAAAACAAAAACAAAAGG
Found at i:2294825 original size:5 final size:6
Alignment explanation
Indices: 2294816--2294849 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
2294806 AAAGGGAAAG
*
2294816 AAAAAC AAAAAC AAAAAC -AAAAC AAAAAG AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
2294850 AATTGAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:2294831 original size:12 final size:12
Alignment explanation
Indices: 2294816--2294849 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
2294806 AAAGGGAAAG
2294816 AAAAACAAAAAC
1 AAAAACAAAAAC
2294828 AAAAAC-AAAAC
1 AAAAACAAAAAC
*
2294839 AAAAAGAAAAA
1 AAAAACAAAAA
2294850 AATTGAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:2294837 original size:17 final size:17
Alignment explanation
Indices: 2294817--2294849 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2294807 AAGGGAAAGA
2294817 AAAACAAAAACAAAAAC
1 AAAACAAAAACAAAAAC
*
2294834 AAAACAAAAAGAAAAA
1 AAAACAAAAACAAAAA
2294850 AATTGAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAACAAAAACAAAAAC
Found at i:2297277 original size:115 final size:114
Alignment explanation
Indices: 2297075--2297394 Score: 523
Period size: 115 Copynumber: 2.8 Consensus size: 114
2297065 CATATTCTCG
*
2297075 TAGTAGAAATAAGAAGACCCAATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
2297140 GGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATGAATGTGCTCA
66 GGTATGAA-CCCAAAAACCAATCATTAGATTTAAAAGATGAATGTGCTCA
* *
2297190 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATTTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
2297255 GGTATGAACCCTAAAAACCAATCATTAGATTTGAAAGATGAATGTGCTCA
66 GGTATGAACCC-AAAAACCAATCATTAGATTTAAAAGATGAATGTGCTCA
* * * *
2297305 TAGTAGAAATAAGGAGACTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
2297370 GGTAGGAACCCCAAAACCAATCATT
66 GGTATGAACCCAAAAACCAATCATT
2297395 TGAATTGAAA
Statistics
Matches: 191, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
114 16 0.08
115 175 0.92
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCAAAAACCAATCATTAGATTTAAAAGATGAATGTGCTCA
Found at i:2298591 original size:76 final size:75
Alignment explanation
Indices: 2298509--2298681 Score: 220
Period size: 76 Copynumber: 2.3 Consensus size: 75
2298499 TTAACAAGAG
* *
2298509 GCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAGGAATGTTGATATATCCTGAAT
1 GCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATATATCCTGAAC
*
2298574 GTTTATATCA
66 GTTCATATCA
* * * * * * **
2298584 GCAAAATGCTGGGGCATGTTGAAAGCCTTTTTCAATCAGAATGAAGAATGTTGATGTATTTTGAA
1 GC-AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATATATCCTGAA
*
2298649 CGTTCGTATCA
65 CGTTCATATCA
*
2298660 GCAATTGTTGGGGCATGCTGAA
1 GCAAATGTTGGGGCATGCTGAA
2298682 GGCCCACATC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
75 19 0.23
76 63 0.77
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (75 bp):
GCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATATATCCTGAAC
GTTCATATCA
Found at i:2300046 original size:22 final size:22
Alignment explanation
Indices: 2300018--2300072 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2300008 ATCTAAACTC
2300018 TTCAAAGATGATAGATTATCTT
1 TTCAAAGATGATAGATTATCTT
* *
2300040 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTATCTT
2300062 TTCAAAGATGA
1 TTCAAAGATGA
2300073 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTATCTT
Found at i:2300884 original size:81 final size:76
Alignment explanation
Indices: 2300738--2300916 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 76
2300728 CTATTTCTCA
* *
2300738 CATCTGTAAGTCCTACAATACATGAAGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGAAGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
* *
2300803 AGCCTTAGGGT
66 AACCTTAGGGC
* *
2300814 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCTACAGTGCATGAAGTTTCC-----AAAAAGCCTTCGGGAACTTTTTGATGTT
*
2300879 TTCAAAACCTTCGGGC
61 TTCAAAACCTTAGGGC
* *
2300895 CAGCTGTAAGCCCTACAGTGCA
1 CATCTGTAAGTCCTACAGTGCA
2300917 AAATGTTTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
76 29 0.33
81 60 0.67
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGAAGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
AACCTTAGGGC
Found at i:2300923 original size:81 final size:81
Alignment explanation
Indices: 2300770--2300924 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
2300760 TGAAGTTTCC
* * * *
2300770 AAAAAGCCTTCGGGAACTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGC
1 AAAAAGCCTTCGGGAACTTTTTGATGTTTTCAAAACCTTAGGGCCAGCTGTAAGCCCTACAGTGC
**
2300835 ATGATGTTTCCAAAAA
66 AAAATGTTTCCAAAAA
* *
2300851 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGCCAGCTGTAAGCCCTACAGTGC
1 AAAAAGCCTTCGGGAACTTTTTGATGTTTTCAAAACCTTAGGGCCAGCTGTAAGCCCTACAGTGC
2300916 AAAATGTTT
66 AAAATGTTT
2300925 TTTCTTAAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (81 bp):
AAAAAGCCTTCGGGAACTTTTTGATGTTTTCAAAACCTTAGGGCCAGCTGTAAGCCCTACAGTGC
AAAATGTTTCCAAAAA
Found at i:2301147 original size:113 final size:113
Alignment explanation
Indices: 2300935--2301531 Score: 912
Period size: 113 Copynumber: 5.3 Consensus size: 113
2300925 TTTCTTAAAG
* *
2300935 CTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * *
2301000 GAAGAATTTGTTCAA-CTTGTTGTTTGAATTCATCACTCGATGGATCAA
66 GAAGAACTTGTTCAACCTT-TTGCTCGAATTCATCACTCGATGGATCAA
2301048 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * *
2301113 GAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGA
66 GAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCA-A
2301162 -TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * *
2301226 GAAGAGCTTGTTCAACATTTTGCTCAAATCCATCACTCGATGGATCAG
66 GAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAA
*
2301274 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * ** *
2301339 GAAGAATTTGTTCAACTTTTTGTTTGAATTCAT-TTTCGATGGATTAA
66 GAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAA
* * *
2301386 CTCTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGA
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
2301451 GAAGAACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAA
66 GAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAA
*
2301499 CTTTTCCAGAGAGAGTTCATAATGAGAAGAACT
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
2301532 TGTTCAACTT
Statistics
Matches: 443, Mismatches: 37, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
112 101 0.23
113 338 0.76
114 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAA
Found at i:2301558 original size:73 final size:73
Alignment explanation
Indices: 2301439--2301604 Score: 262
Period size: 73 Copynumber: 2.3 Consensus size: 73
2301429 AGGAAGAAAA
* * *
2301439 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAACTTTT
1 AGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATTG
2301504 CCAGAG-AG
66 CCAG-GTAG
* * *
2301512 AGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTG
1 AGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATTG
2301577 CCAGGTAG
66 CCAGGTAG
2301585 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
2301605 CATTTGAAGA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
72 1 0.01
73 85 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (73 bp):
AGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATTG
CCAGGTAG
Found at i:2301639 original size:113 final size:113
Alignment explanation
Indices: 2301512--2301735 Score: 360
Period size: 113 Copynumber: 2.0 Consensus size: 113
2301502 TTCCAGAGAG
* * *
2301512 AGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTG
1 AGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATTG
*
2301577 CCAG-GTAGAGTTCATAATGAGAAGAACTCATTTGAAGAAGAAAGAAGA
66 CCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGA
* * *
2301625 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAACTTTT
1 AGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATTG
*
2301690 CCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
66 CCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAA
2301736 CTTGTTCAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 101 0.99
114 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATTG
CCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGA
Found at i:2301642 original size:186 final size:185
Alignment explanation
Indices: 2301329--2301717 Score: 629
Period size: 186 Copynumber: 2.1 Consensus size: 185
2301319 GAAGAAGAAA
* * * * * *
2301329 TTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATTTTCGATGGATTAACTCTTCCA
1 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATATTCGATGGATCAACTCTGCCA
*
2301394 AAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
66 AAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAAAAGTTCATAATGAGAAGAACT
2301459 TGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAG
131 TGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAG
*
2301514 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCAT-TGC
1 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCAT-ATTCGATGGATCAAC-TCTGC
* * * *
2301578 C-AGGTAGAGTTCATAATGAGAAGAACTCATTTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGA
64 CAAAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAAAAGTTCATAATGAGAAGA
2301642 ACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAG
128 ACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAG
2301700 TTCATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
2301718 CATCTGAAGA
Statistics
Matches: 189, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
185 42 0.22
186 146 0.77
187 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (185 bp):
TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATATTCGATGGATCAACTCTGCCA
AAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAAAAGTTCATAATGAGAAGAACT
TGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAG
Found at i:2301952 original size:142 final size:142
Alignment explanation
Indices: 2301696--2302001 Score: 594
Period size: 142 Copynumber: 2.2 Consensus size: 142
2301686 TTTTCCAGAG
2301696 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACTTGTTCAATCTTTTGAATGATTCT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACTTGTTCAATCTTTTGAATGATTCT
*
2301761 ATCACAGAAGGAGATAGATCAGCATCAACATTTCCATATTACATCACAGAAGGAGATGAATTGTC
66 ATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGATTACATCACAGAAGGAGATGAATTGTC
2301826 ATCCCCAGTGAA
131 ATCCCCAGTGAA
*
2301838 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACTTGTTCAATCTTTTGCATGATTCT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACTTGTTCAATCTTTTGAATGATTCT
2301903 ATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGATTACATCACAGAAGGAGATGAATTGTC
66 ATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGATTACATCACAGAAGGAGATGAATTGTC
2301968 ATCCCCAGTGAA
131 ATCCCCAGTGAA
2301980 AGAGTTCATAATGAGAAGAACT
1 AGAGTTCATAATGAGAAGAACT
2302002 TGTTAACTTT
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 162 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (142 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACTTGTTCAATCTTTTGAATGATTCT
ATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGATTACATCACAGAAGGAGATGAATTGTC
ATCCCCAGTGAA
Found at i:2302270 original size:19 final size:19
Alignment explanation
Indices: 2302237--2302295 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
2302227 TTTTATTTCA
2302237 TTTGTTTTATTTATTATTAT
1 TTTGTTTTA-TTATTATTAT
*
2302257 TTTGTTTTAATATTATTAT
1 TTTGTTTTATTATTATTAT
* * *
2302276 TATATTATATTATTATTAT
1 TTTGTTTTATTATTATTAT
2302295 T
1 T
2302296 ATTAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 25 0.74
20 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTGTTTTATTATTATTAT
Found at i:2302275 original size:22 final size:22
Alignment explanation
Indices: 2302237--2302299 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
2302227 TTTTATTTCA
2302237 TTTGTTTT-AT-TTATTATTAT
1 TTTGTTTTAATATTATTATTAT
2302257 TTTGTTTTAATATTATTATTAT
1 TTTGTTTTAATATTATTATTAT
* * * *
2302279 ATTATATTATTATTATTATTA
1 TTTGTTTTAATATTATTATTA
2302300 AATAAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.22
21 2 0.05
22 27 0.73
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTGTTTTAATATTATTATTAT
Found at i:2302285 original size:16 final size:17
Alignment explanation
Indices: 2302243--2302299 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
2302233 TTCATTTGTT
*
2302243 TTATT-TATTATTATTT
1 TTATTATATTATTATTA
*
2302259 TGTTTTAATATTATTATTA
1 T-TATT-ATATTATTATTA
2302278 -TATTATATTATTATTA
1 TTATTATATTATTATTA
2302294 TTATTA
1 TTATTA
2302300 AATAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 13 0.38
17 11 0.32
19 10 0.29
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTATTATATTATTATTA
Found at i:2302319 original size:3 final size:3
Alignment explanation
Indices: 2302247--2302299 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
2302237 TTTGTTTTAT
* *
2302247 TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2302291 TTA TTA TTA
1 TTA TTA TTA
2302300 AATAAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2303776 original size:16 final size:16
Alignment explanation
Indices: 2303755--2303787 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2303745 TTGCTTTTAA
2303755 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
2303771 ATTTATTTATAATATT
1 ATTTATTTATAATATT
2303787 A
1 A
2303788 ATTTGTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:2304231 original size:23 final size:26
Alignment explanation
Indices: 2304199--2304248 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
2304189 CCTTTTCTGA
*
2304199 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
2304222 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
2304248 T
1 T
2304249 TTTCTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:2308488 original size:54 final size:54
Alignment explanation
Indices: 2308419--2308723 Score: 175
Period size: 54 Copynumber: 5.6 Consensus size: 54
2308409 AGGTGCTTGA
*
2308419 TTTTAGATTGTAGCACAGAGGTGCTCAATCAT-TCCGATGCACAGAGGTGCCA-
1 TTTTAGATTGAAGCACAGAGGTGCTCAATCATATCCGATGCACAGAGGTGCCAG
* ** * *
2308471 TAATTTAGATTGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAG
1 T--TTTAGATTGAAGCACAGAGGTGCTCAATCATA-TCCGATGCACAGAGGTGCCAG
** * * ** * * *
2308528 TCCTCGATTGAAGCACAGAGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAG
1 TTTTAGATTGAAGCACAGAGGTGCTCAATCATATCCGATGCACAGAGGTGCCAG
* *** ** * * *** *
2308582 CTCCCGGCTGAAGCACAGAGGTGCTCAGTCATTTTTTTTAACTGCACAGAGGTGTCAG
1 TTTTAGATTGAAGCACAGAGGTGCTCAATCA---TATCCGA-TGCACAGAGGTGCCAG
* * * ** * * *
2308640 TTCTCGATT-AAGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTCAG
1 TTTTAGATTGAAGCACAGAGGTGCTCAATCA-TATCCGATGCACAGAGGTGCCAG
* * *
2308694 CTCTCGATTGAAGCACAGAGGTGCTCAATC
1 TTTTAGATTGAAGCACAGAGGTGCTCAATC
2308724 GTTAATTCTA
Statistics
Matches: 208, Mismatches: 35, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.00
54 96 0.46
55 51 0.25
56 16 0.08
57 24 0.12
58 20 0.10
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (54 bp):
TTTTAGATTGAAGCACAGAGGTGCTCAATCATATCCGATGCACAGAGGTGCCAG
Found at i:2308680 original size:112 final size:109
Alignment explanation
Indices: 2308481--2308720 Score: 347
Period size: 112 Copynumber: 2.2 Consensus size: 109
2308471 TAATTTAGAT
**
2308481 TGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAG
1 TGAAGCACAGAGGTGCTCAGTCATAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAG
*
2308546 AGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTCCCGGC
66 AGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTCCCGAC
** *
2308590 TGAAGCACAGAGGTGCTCAGTCATTTTTTTTAACTGCACAGAGGTGTCAGTTCTCGATT-AAGCA
1 TGAAGCACAGAGGTGCTCAGTCA---TAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGAAGCA
* * * *
2308654 CAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTCAGCTCTCGAT
63 CAGAGGTGCTCAATCA-TCTTAGCTACACAGAGGTGTCAGCTCCCGAC
2308702 TGAAGCACAGAGGTGCTCA
1 TGAAGCACAGAGGTGCTCA
2308721 ATCGTTAATT
Statistics
Matches: 117, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
109 23 0.20
111 21 0.18
112 73 0.62
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (109 bp):
TGAAGCACAGAGGTGCTCAGTCATAGTTAACTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAG
AGGTGCTCAATCATCTTAGCTACACAGAGGTGTCAGCTCCCGAC
Found at i:2308974 original size:81 final size:81
Alignment explanation
Indices: 2308839--2308991 Score: 270
Period size: 81 Copynumber: 1.9 Consensus size: 81
2308829 GCGAGTTACA
*
2308839 AAGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGTTA
1 AAGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTA
*
2308904 CTGAGCCGGTTACACC
66 CCGAGCCGGTTACACC
* *
2308920 AAGAATGGTTCGCACACGAAATGGCGGATCGACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTA
1 AAGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTA
2308985 CCGAGCC
66 CCGAGCC
2308992 AGTTGTGCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.32, C:0.23, G:0.30, T:0.15
Consensus pattern (81 bp):
AAGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAGAGGTGTAGAGCAGGAAGCTA
CCGAGCCGGTTACACC
Found at i:2316203 original size:3 final size:3
Alignment explanation
Indices: 2316197--2316229 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
2316187 TAATATCTAA
2316197 TAT TAT TAT TAT TAT TAT TAT TAAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
2316230 CATTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2317453 original size:30 final size:30
Alignment explanation
Indices: 2317419--2317486 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
2317409 TTTGTTTCTG
2317419 ATTTGGTCCTATTATTTTACGCGTGTTACA
1 ATTTGGTCCTATTATTTTACGCGTGTTACA
*
2317449 ATTTGGTCCTATTTTTTTACGCGTGTTACA
1 ATTTGGTCCTATTATTTTACGCGTGTTACA
2317479 ATTTGGTC
1 ATTTGGTC
2317487 ACCTTGAGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (30 bp):
ATTTGGTCCTATTATTTTACGCGTGTTACA
Found at i:2319320 original size:19 final size:19
Alignment explanation
Indices: 2319296--2319332 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2319286 CGACCTGACC
2319296 CAAAATAATATATTTATTA
1 CAAAATAATATATTTATTA
* *
2319315 CAAAATATTATTTTTATT
1 CAAAATAATATATTTATT
2319333 TAATTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
CAAAATAATATATTTATTA
Found at i:2336214 original size:2 final size:2
Alignment explanation
Indices: 2336207--2336264 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
2336197 AGTAGATCTA
2336207 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
2336249 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
2336265 TTTCTTTGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2337174 original size:37 final size:38
Alignment explanation
Indices: 2337080--2337190 Score: 154
Period size: 39 Copynumber: 2.9 Consensus size: 38
2337070 AACATAATGT
2337080 TAGAGTTTTATTAGGATTTAAACT-TCTAAAAATAGGATA
1 TAGAGTTTTATTAGGATTTAAACTCT-TAAAAATAGGA-A
2337119 TAGAGTTTTATTAGGATTTAAACTCTTAAAAATAGG-A
1 TAGAGTTTTATTAGGATTTAAACTCTTAAAAATAGGAA
* * * *
2337156 TAGAGTTCTACTATGATTTAAACTCCTAAAAATAG
1 TAGAGTTTTATTAGGATTTAAACTCTTAAAAATAG
2337191 AATCCACAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
37 32 0.48
39 34 0.51
40 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (38 bp):
TAGAGTTTTATTAGGATTTAAACTCTTAAAAATAGGAA
Found at i:2337712 original size:25 final size:25
Alignment explanation
Indices: 2337684--2337742 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
2337674 TTTTATGCAT
* *
2337684 TTTTTTATTTTA-GTATATATTTTTA
1 TTTTTTATTTTACATATATA-TGTTA
**
2337709 TTTTTTAGATTACATATATATGTTA
1 TTTTTTATTTTACATATATATGTTA
2337734 TTTTTTATT
1 TTTTTTATT
2337743 ATCTGTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (25 bp):
TTTTTTATTTTACATATATATGTTA
Found at i:2337796 original size:4 final size:4
Alignment explanation
Indices: 2337749--2337900 Score: 61
Period size: 4 Copynumber: 38.8 Consensus size: 4
2337739 TATTATCTGT
* * * *
2337749 TTTA TTAA TTTA TATA TATA TTTA -CTA TTT- TTTA TGTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
* * * * *
2337795 TTATA TATA TATA TATA TATA TATTA CTTTA -TTA -TTA -TTA -TTA TTTGT
1 TT-TA TTTA TTTA TTTA TTTA T-TTA -TTTA TTTA TTTA TTTA TTTA TTT-A
* * * * *
2337843 TTTA TTTA TATA TTT- TTTC TTCTT TTTC TTTA TTT- TTTA TATA TTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA
2337890 TTTA TTTA TTT
1 TTTA TTTA TTT
2337901 TACTTACTAT
Statistics
Matches: 119, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
3 25 0.21
4 77 0.65
5 16 0.13
6 1 0.01
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:2337839 original size:47 final size:45
Alignment explanation
Indices: 2337759--2337855 Score: 106
Period size: 47 Copynumber: 2.1 Consensus size: 45
2337749 TTTATTAATT
* *
2337759 TATATATATATTTACTATTTTTTATGTTTTTATTTATTATATATA
1 TATATATATATATACTATTTATTATGTTTTTATTTATTATATATA
* * * *
2337804 TATATATATATATATTACTTTATTAT-TATTATTATTTGTTTTATTTA
1 TATATATATATATACTA-TTTATTATGT-TT-TTATTTATTATATATA
2337851 TATAT
1 TATAT
2337856 TTTTTCTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
45 16 0.37
46 9 0.21
47 18 0.42
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (45 bp):
TATATATATATATACTATTTATTATGTTTTTATTTATTATATATA
Found at i:2337853 original size:49 final size:47
Alignment explanation
Indices: 2337722--2337855 Score: 125
Period size: 45 Copynumber: 2.9 Consensus size: 47
2337712 TTTAGATTAC
* * *
2337722 ATATA-TATGTTATT-TTTTATTATCTGTTTTATTAATTTATATATAT
1 ATATACTAT-TTATTATTTTATTATTTGTTTTATTTATATATATATAT
* * * *
2337768 ATTTACTATTTTTTATGTTT-TTA-TT-TATTATATATATATATATAT
1 ATATACTATTTATTAT-TTTATTATTTGTTTTATTTATATATATATAT
*
2337813 ATATATTACTTTATTATTATTATTATTTGTTTTATTTATATAT
1 ATATACTA-TTTATTATT-TTATTATTTGTTTTATTTATATAT
2337856 TTTTTCTTCT
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
45 23 0.34
46 18 0.26
47 10 0.15
48 5 0.07
49 12 0.18
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (47 bp):
ATATACTATTTATTATTTTATTATTTGTTTTATTTATATATATATAT
Found at i:2339868 original size:218 final size:218
Alignment explanation
Indices: 2339489--2339925 Score: 759
Period size: 218 Copynumber: 2.0 Consensus size: 218
2339479 TTGATGGAGG
*
2339489 ATTTCAATGGTGTTTCCGTTATAGAACAGGTTCAACAAAAGATAAAAGCTAGAGATGTAGTCATT
1 ATTTCAATGGTGTTTCCGTTATAGAACAGGTTCAACAAAAGATAAAAGCTAGAGATGCAGTCATT
*
2339554 CGATACTTCTGGAAACATGTACAAAAAACAACTCGTCACTTGCACGGTTTGGCCAGATAAGCCAG
66 CGATACTTCTGGAAACATGTACAAAAAACAACTCGTCACTTGCACGGTTTGGCCAGAGAAGCCAG
* *
2339619 AGCGGTTCGGCAGGGTATTCGACCGGTGACAGATGAAGGGATAAGACTAGTCAACTTGTTTCTGG
131 AGCAGTTCGGCAGGGTATTCGACCAGTGACAGATGAAGGGATAAGACTAGTCAACTTGTTTCTGG
* *
2339684 TTTAAAAGATTTAGTTCGGATGT
196 TTTAAAAGATTTAGTCCGAATGT
* *
2339707 ATTTCAATGGTGTTTCCGTTATAGAATAGGTTCAGA-AAATGATAAAAGCTAGAGATGCAGTCAT
1 ATTTCAATGGTGTTTCCGTTATAGAACAGGTTCA-ACAAAAGATAAAAGCTAGAGATGCAGTCAT
* * *
2339771 TCGATACTTCTGGAAACATGTACAAAAAATAGCTCGTCACTTGCACGGTTTGGCCAGAGAAGCCG
65 TCGATACTTCTGGAAACATGTACAAAAAACAACTCGTCACTTGCACGGTTTGGCCAGAGAAGCCA
2339836 GAGCAGTTCGGCAGGGTATTCGACCAGTGACAGATGAAGGGATAAGACTAGTCAACTTGTTTCTG
130 GAGCAGTTCGGCAGGGTATTCGACCAGTGACAGATGAAGGGATAAGACTAGTCAACTTGTTTCTG
2339901 GTTTAAAAGATTTAGTCCGAATGT
195 GTTTAAAAGATTTAGTCCGAATGT
2339925 A
1 A
2339926 CCTTTAAATA
Statistics
Matches: 207, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
218 206 1.00
219 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (218 bp):
ATTTCAATGGTGTTTCCGTTATAGAACAGGTTCAACAAAAGATAAAAGCTAGAGATGCAGTCATT
CGATACTTCTGGAAACATGTACAAAAAACAACTCGTCACTTGCACGGTTTGGCCAGAGAAGCCAG
AGCAGTTCGGCAGGGTATTCGACCAGTGACAGATGAAGGGATAAGACTAGTCAACTTGTTTCTGG
TTTAAAAGATTTAGTCCGAATGT
Found at i:2343072 original size:73 final size:73
Alignment explanation
Indices: 2343020--2343208 Score: 353
Period size: 73 Copynumber: 2.6 Consensus size: 73
2343010 AATTTACTTA
2343020 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
1 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
2343085 TTCCCTTG
66 TTCCCTTG
*
2343093 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
1 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
2343158 TTCCCTTG
66 TTCCCTTG
*
2343166 AAACAAA-TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA
1 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAA
2343209 ATCTTTGAAT
Statistics
Matches: 113, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
72 34 0.30
73 79 0.70
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (73 bp):
AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
TTCCCTTG
Found at i:2343075 original size:36 final size:36
Alignment explanation
Indices: 2343020--2343208 Score: 324
Period size: 36 Copynumber: 5.2 Consensus size: 36
2343010 AATTTACTTA
* *
2343020 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
2343057 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
2343093 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
2343130 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
2343166 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
2343202 AAACAAA
1 AAACAAA
2343209 ATCTTTGAAT
Statistics
Matches: 146, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
36 104 0.71
37 42 0.29
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:2343274 original size:36 final size:36
Alignment explanation
Indices: 2343226--2343309 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
2343216 AATCTATTTT
** * *
2343226 CCTTGAAACAAATTTCATCTCCCTTAAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
* *
2343262 TCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
2343298 CCTTGAAACAAA
1 CCTTGAAACAAA
2343310 ATCTTTGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.36
Consensus pattern (36 bp):
CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
Found at i:2343301 original size:101 final size:101
Alignment explanation
Indices: 2343121--2343390 Score: 423
Period size: 101 Copynumber: 2.7 Consensus size: 101
2343111 CTTGAGACAG
* * *
2343121 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
1 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTT
2343186 GAGATAGTTTCCCTTGAAACAAAATCTTTGAATCTAT
65 GAGATAGTTTCCCTTGAAACAAAATCTTTGAATCTAT
* *
2343223 TTTCCTTGAAACAAATTTCATCTCCCTTAAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTG
1 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTG
* *
2343288 AGATAGTTTCCCTTGAAACAAAATCTTTGAATTTGT
66 AGATAGTTTCCCTTGAAACAAAATCTTTGAATCTAT
* * * *
2343324 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTTTCTCTT
1 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTT
2343389 GA
65 GA
2343391 AACAAATTTT
Statistics
Matches: 154, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
101 134 0.87
102 20 0.13
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (101 bp):
TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTG
AGATAGTTTCCCTTGAAACAAAATCTTTGAATCTAT
Found at i:2343398 original size:123 final size:124
Alignment explanation
Indices: 2343257--2343487 Score: 412
Period size: 123 Copynumber: 1.9 Consensus size: 124
2343247 CCTTAAGACA
*
2343257 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-TAGTTTCCCTTGAAACAAAATCTTTGAATT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACT-GTTTCCCTTGAAACAAAATCTTTGAATC
2343321 TGTTTTCCTTGAAACAAA-TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
65 TGTTTTCCTTGAAACAAAGTTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
2343380 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACAAAATCTTTGAATCT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACAAAATCTTTGAATCT
* *
2343445 GTTTTCTTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCT
66 GTTTTCCTTGAAACAAAGTTTCGTCTCCCTTGAGACAGTTTCT
2343488 CTTGAAACAC
Statistics
Matches: 103, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
123 78 0.76
124 25 0.24
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.43
Consensus pattern (124 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACAAAATCTTTGAATCT
GTTTTCCTTGAAACAAAGTTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
Found at i:2343402 original size:21 final size:22
Alignment explanation
Indices: 2343358--2343411 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
2343348 CCTTGAGACA
* * *
2343358 GTTTCTTTTGGAACTAAGTTTT
1 GTTTCTCTTGAAACTAAATTTT
2343380 GTTTCTCTTGAAAC-AAATTTT
1 GTTTCTCTTGAAACTAAATTTT
*
2343401 GTCTCTCTTGA
1 GTTTCTCTTGA
2343412 GACTGTTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (22 bp):
GTTTCTCTTGAAACTAAATTTT
Found at i:2343419 original size:36 final size:36
Alignment explanation
Indices: 2343379--2343496 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 36
2343369 AACTAAGTTT
2343379 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAC
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAC
* *
2343415 TGTTTCCCTTGAAACAAA------ATCT-TTGA-ATC
1 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-C
*
2343444 TGTTT-TCTTTGAAACAAAGTTTTGTCTCCCTTGAGAC
1 TGTTTCTC-TTGAAACAAA-TTTTGTCTCTCTTGAGAC
*
2343481 AGTTTCTCTTGAAACA
1 TGTTTCTCTTGAAACA
2343497 CAAATCTTCG
Statistics
Matches: 64, Mismatches: 6, Indels: 23
0.69 0.06 0.25
Matches are distributed among these distances:
28 2 0.03
29 20 0.31
30 3 0.05
36 19 0.30
37 17 0.27
38 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAC
Found at i:2343486 original size:66 final size:66
Alignment explanation
Indices: 2343379--2343534 Score: 226
Period size: 66 Copynumber: 2.3 Consensus size: 66
2343369 AACTAAGTTT
* * *
2343379 TGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACA-AAATCTTTGAAT
1 TGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACACAAATCTTCGAAT
*
2343443 C
66 A
*
2343444 TGTTT-TCTTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTCGA
1 TGTTTCTC-TTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACACAAATCTTCGA
2343508 ATA
64 ATA
2343511 TGTTTCTCTTGAAACAAAATTTTG
1 TGTTTCTCTTGAAAC-AAATTTTG
2343535 CCACCTTTGA
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
64 2 0.02
65 15 0.19
66 31 0.38
67 28 0.35
68 5 0.06
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (66 bp):
TGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACACAAATCTTCGAAT
A
Found at i:2343554 original size:67 final size:66
Alignment explanation
Indices: 2343379--2343567 Score: 222
Period size: 67 Copynumber: 2.8 Consensus size: 66
2343369 AACTAAGTTT
* * *
2343379 TGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACA-AAATCTTTGAA
1 TGTTTCTCTTGAAACAAAATTTTGTCCCT-TTGAGACTGTTTCTCTTGAAACACAAATCTTCGAA
*
2343442 TC
65 TA
* * *
2343444 TGTTT-TCTTTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTCGA
1 TGTTTCTC-TTGAAACAAAATTTTGTC-CCTTTGAGACTGTTTCTCTTGAAACACAAATCTTCGA
2343508 ATA
64 ATA
* * * *
2343511 TGTTTCTCTTGAAACAAAATTTTGCCACCTTTGAAATTTTTTCTCTTGAAACACAAA
1 TGTTTCTCTTGAAACAAAATTTTGTC-CCTTTGAGACTGTTTCTCTTGAAACACAAA
2343568 AAAAACCTTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
64 2 0.02
65 12 0.12
66 30 0.29
67 58 0.56
68 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.40
Consensus pattern (66 bp):
TGTTTCTCTTGAAACAAAATTTTGTCCCTTTGAGACTGTTTCTCTTGAAACACAAATCTTCGAAT
A
Found at i:2343735 original size:83 final size:83
Alignment explanation
Indices: 2343631--2343793 Score: 256
Period size: 83 Copynumber: 2.0 Consensus size: 83
2343621 GCTTCGAGGG
*
2343631 CACATCATTTGCATCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAGACATTCGAGTTCGA
1 CACATCATTTGCATCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACATTCGAGTTCGA
*
2343696 CTACATTCAGCTCAAAGA
66 CTACATTCAACTCAAAGA
* * *
2343714 CACATCATTTGCAGT-ATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAATACCTTCGAGTTCG
1 CACATCATTTGCA-TCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACATTCGAGTTCG
*
2343778 ATTACATTCAACTCAA
65 ACTACATTCAACTCAA
2343794 CTCAGAGGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
83 72 0.99
84 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (83 bp):
CACATCATTTGCATCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACATTCGAGTTCGA
CTACATTCAACTCAAAGA
Found at i:2344403 original size:37 final size:37
Alignment explanation
Indices: 2344362--2344473 Score: 206
Period size: 37 Copynumber: 3.0 Consensus size: 37
2344352 AACATAATGT
2344362 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
2344399 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* *
2344436 TAGAGTTCTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
2344473 T
1 T
2344474 CCACAAGCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:2345041 original size:19 final size:19
Alignment explanation
Indices: 2345008--2345202 Score: 83
Period size: 19 Copynumber: 9.6 Consensus size: 19
2344998 TTTAGATTAC
*
2345008 ATATATATATGTTATTTTTT
1 ATATATAT-TTTTATTTTTT
*
2345028 AT-TATATGTTTTATTAATTT
1 ATATATAT-TTTTATT-TTTT
*
2345048 ATATATA-TTTTACTATTTT
1 ATATATATTTTTA-TTTTTT
* * *
2345067 -T-TATGTTTTTATTATAT
1 ATATATATTTTTATTTTTT
* * * *
2345084 ATATATATATGTATATATAT
1 ATATATATTTTTAT-TTTTT
2345104 ATATATTATTTTTACTTTTTT
1 ATATA-TATTTTTA-TTTTTT
*
2345125 ATTATTATTTTATTTATTTGTTT
1 A-TA-TATATT-TTTATTT-TTT
*
2345148 ATTTATATATTTTTTCTTCTTTT
1 A--TATATA-TTTTTATT-TTTT
* * *
2345171 CTTTATTTTCTTTATTTTTT
1 ATATATATT-TTTATTTTTT
2345191 ATATATATTTTT
1 ATATATATTTTT
2345203 CTTTATTTTA
Statistics
Matches: 132, Mismatches: 26, Indels: 35
0.68 0.13 0.18
Matches are distributed among these distances:
17 6 0.05
18 7 0.05
19 30 0.23
20 30 0.23
21 23 0.17
22 9 0.07
23 21 0.16
24 6 0.05
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
ATATATATTTTTATTTTTT
Found at i:2345072 original size:36 final size:40
Alignment explanation
Indices: 2345008--2345095 Score: 112
Period size: 38 Copynumber: 2.3 Consensus size: 40
2344998 TTTAGATTAC
* *
2345008 ATATATATATGTTATTTTTTATTATATG-TTTTATTA-AT
1 ATATATATATGTTACTATTTATTATATGTTTTTATTATAT
* *
2345046 TTATATATATTTTACTATTT-TT-TATGTTTTTATTATAT
1 ATATATATATGTTACTATTTATTATATGTTTTTATTATAT
2345084 ATATATATATGT
1 ATATATATATGT
2345096 ATATATATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
36 4 0.10
37 10 0.24
38 28 0.67
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.64
Consensus pattern (40 bp):
ATATATATATGTTACTATTTATTATATGTTTTTATTATAT
Found at i:2345084 original size:2 final size:2
Alignment explanation
Indices: 2345079--2345109 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2345069 ATGTTTTTAT
*
2345079 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2345110 TATTTTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2345204 original size:23 final size:21
Alignment explanation
Indices: 2345119--2345211 Score: 80
Period size: 23 Copynumber: 4.2 Consensus size: 21
2345109 TTATTTTTAC
*
2345119 TTTTTTATTATTATTTTATTTA
1 TTTTTTATTA-TATTTTTTTTA
* *
2345141 TTTGTTTATTTATATATTTTTTC
1 TTT-TTTA-TTATATTTTTTTTA
* *
2345164 TTCTTTTCTT-TATTTTCTTTA
1 TT-TTTTATTATATTTTTTTTA
2345185 TTTTTTATATATATTTTTCTTTA
1 TTTTTTAT-TATATTTTT-TTTA
2345208 TTTT
1 TTTT
2345212 ACTTACTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.09
21 11 0.20
22 11 0.20
23 25 0.45
24 4 0.07
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.76
Consensus pattern (21 bp):
TTTTTTATTATATTTTTTTTA
Found at i:2345778 original size:37 final size:37
Alignment explanation
Indices: 2345737--2345848 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
2345727 AACATAATGT
2345737 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
*
2345774 TAGAGTTTTACTAGAATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* * *
2345811 TGGAGTTCTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
2345848 T
1 T
2345849 CCACAAGCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:2346436 original size:40 final size:40
Alignment explanation
Indices: 2346389--2346466 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
2346379 TTTAGATTAC
*
2346389 ATATATA-TGTTA-TTTTTTATTATCTGTTTTATTAATTTAT
1 ATATATATTGTTACTTTTTT-TTAT-TATTTTATTAATTTAT
* *
2346429 ATATATATTTTTACTTTTTTTTATTATTTTATTTATTT
1 ATATATATTGTTACTTTTTTTTATTATTTTATTAATTT
2346467 GTTTTATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 19 0.58
41 8 0.24
42 6 0.18
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (40 bp):
ATATATATTGTTACTTTTTTTTATTATTTTATTAATTTAT
Found at i:2346452 original size:24 final size:23
Alignment explanation
Indices: 2346424--2346498 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
2346414 GTTTTATTAA
2346424 TTTATATATATATTTTTACTTTTT
1 TTTAT-TATATATTTTTACTTTTT
*
2346448 TTTATTAT-T-TTATTTA-TTTGT
1 TTTATTATATATT-TTTACTTTTT
2346469 TTTATTTATATATTTTT-CTTTTT
1 TTTA-TTATATATTTTTACTTTTT
2346492 CTTTATT
1 -TTTATT
2346499 TTTTTATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
21 10 0.23
22 9 0.21
23 13 0.30
24 11 0.26
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (23 bp):
TTTATTATATATTTTTACTTTTT
Found at i:2346463 original size:4 final size:4
Alignment explanation
Indices: 2346456--2346533 Score: 50
Period size: 4 Copynumber: 18.8 Consensus size: 4
2346446 TTTTTATTAT
* * * * *
2346456 TTTA TTTA TTTGT TTTA TTTA TATA TTT- TTCTT TTTC TTTA TTTT TTTA
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA
**
2346505 TATTA TTTA CATA TTTTA TTTA TTTA TTT
1 T-TTA TTTA TTTA -TTTA TTTA TTTA TTT
2346534 TACTTACTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
3 2 0.04
4 44 0.77
5 11 0.19
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:2346464 original size:44 final size:43
Alignment explanation
Indices: 2346401--2346511 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 43
2346391 ATATATGTTA
*
2346401 TTTTTTATTATCTGT-TTTATTAATTTATATATATATTTTTACTT
1 TTTTTTATTAT-TTTATTTATTAATTTATATATATATTTTT-CTT
** *
2346445 TTTTTTATTATTTTATTTATTTGTTTTATTTATATATTTTTCTT
1 TTTTTTATTATTTTATTTA-TTAATTTATATATATATTTTTCTT
*
2346489 TTTCTTTATTTTTTTATATTATT
1 TTT-TTTATTATTTTAT-TTATT
2346512 TACATATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.03
44 21 0.36
45 32 0.55
46 3 0.05
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (43 bp):
TTTTTTATTATTTTATTTATTAATTTATATATATATTTTTCTT
Found at i:2346479 original size:45 final size:46
Alignment explanation
Indices: 2346424--2346512 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
2346414 GTTTTATTAA
2346424 TTTATATATATATTTTTACTTTTT-TTTATTATTTTAT-TTATTTGT
1 TTTATATATATATTTTT-CTTTTTCTTTATTATTTTATATTATTTGT
* *
2346469 TTTATTTATATATTTTTCTTTTTCTTTATTTTTTTATATTATTT
1 TTTATATATATATTTTTCTTTTTCTTTATTATTTTATATTATTT
2346513 ACATATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 6 0.15
45 28 0.70
46 6 0.15
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.75
Consensus pattern (46 bp):
TTTATATATATATTTTTCTTTTTCTTTATTATTTTATATTATTTGT
Found at i:2346482 original size:21 final size:21
Alignment explanation
Indices: 2346432--2346483 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
2346422 AATTTATATA
* *
2346432 TATATTTTTACTTTTTTTTAT
1 TATATATTTACTTTGTTTTAT
*
2346453 TATTTTATTTA-TTTGTTTTATT
1 TA-TATATTTACTTTGTTTTA-T
2346475 TATATATTT
1 TATATATTT
2346484 TTCTTTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (21 bp):
TATATATTTACTTTGTTTTAT
Found at i:2346484 original size:13 final size:12
Alignment explanation
Indices: 2346434--2346548 Score: 67
Period size: 13 Copynumber: 9.2 Consensus size: 12
2346424 TTTATATATA
2346434 TATTT-TTACTTT
1 TATTTATTA-TTT
*
2346446 TTTTTATTATTT
1 TATTTATTATTT
*
2346458 TATTTATTTGTTT
1 TATTTA-TTATTT
2346471 TATTTATATATTT
1 TATTTAT-TATTT
2346484 T-TCTT-TT-TCTT
1 TAT-TTATTAT-TT
* *
2346495 TATTTTTTTATAT
1 TA-TTTATTATTT
*
2346508 TATTTACATATTT
1 TATTTA-TTATTT
2346521 TATTTATTTATTT
1 TATTTA-TTATTT
* *
2346534 TACTTACTATTT
1 TATTTATTATTT
2346546 TAT
1 TAT
2346549 CTTTGCTTTC
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
10 1 0.01
11 4 0.05
12 27 0.34
13 47 0.59
14 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (12 bp):
TATTTATTATTT
Found at i:2346499 original size:24 final size:23
Alignment explanation
Indices: 2346424--2346499 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
2346414 GTTTTATTAA
*
2346424 TTTATATATATATTTTTACTTTTT
1 TTTATTTATATATTTTT-CTTTTT
* *
2346448 TTTA-TTAT-T-TTATTTATTTGT
1 TTTATTTATATATT-TTTCTTTTT
2346469 TTTATTTATATATTTTTCTTTTT
1 TTTATTTATATATTTTTCTTTTT
2346492 CTTTATTT
1 -TTTATTT
2346500 TTTTATATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
21 10 0.24
22 8 0.19
23 11 0.26
24 13 0.31
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (23 bp):
TTTATTTATATATTTTTCTTTTT
Found at i:2346520 original size:45 final size:46
Alignment explanation
Indices: 2346430--2346529 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 46
2346420 TTAATTTATA
***
2346430 TATATATTTTTACTTTTTTTTATTATTTTATTTATTTGTTTTA-TT
1 TATATATTTTTACTTTTTTTTATTATTTTATTTATTTGACATATTT
*
2346475 TATATATTTTT-CTTTTTCTTTATTTTTTTATATTATTT-ACATATTT
1 TATATATTTTTACTTTTT-TTTATTATTTTAT-TTATTTGACATATTT
*
2346521 TATTTATTT
1 TATATATTT
2346530 ATTTTACTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 6 0.13
45 25 0.53
46 16 0.34
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (46 bp):
TATATATTTTTACTTTTTTTTATTATTTTATTTATTTGACATATTT
Found at i:2346522 original size:26 final size:25
Alignment explanation
Indices: 2346493--2346548 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
2346483 TTTCTTTTTC
* *
2346493 TTTATTTTTTTATATTATTTACATAT
1 TTTATTTATTTATATTACTTAC-TAT
*
2346519 TTTATTTATTTATTTTACTTACTAT
1 TTTATTTATTTATATTACTTACTAT
2346544 TTTAT
1 TTTAT
2346549 CTTTGCTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTATTTATTTATATTACTTACTAT
Found at i:2346533 original size:50 final size:51
Alignment explanation
Indices: 2346436--2346534 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
2346426 TATATATATA
* ** *
2346436 TTTTTACTTTTTTTTATTATTTTATTTATTTGTTTTATTTATATATTTTTC
1 TTTTTACTTTTTTTTATTATATTATTTACATATTTTATTTATATATTTTTC
*
2346487 TTTTT-CTTTATTTTT-TTATATTATTTACATATTTTATTTATTTATTTT
1 TTTTTACTTT-TTTTTATTATATTATTTACATATTTTATTTATATATTTT
2346535 ACTTACTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 32 0.76
51 10 0.24
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (51 bp):
TTTTTACTTTTTTTTATTATATTATTTACATATTTTATTTATATATTTTTC
Found at i:2347636 original size:25 final size:24
Alignment explanation
Indices: 2347594--2347654 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 24
2347584 TTCTCTCTCC
2347594 CTTT-TCCCCCAAAAACTTTTCTT
1 CTTTCTCCCCCAAAAACTTTTCTT
2347617 CTTTCTCCCCTCAAAAACTTTTCTT
1 CTTTCTCCCC-CAAAAACTTTTCTT
2347642 CTTTCTCCCCCAA
1 CTTTCTCCCCCAA
2347655 CAATTACAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.11
24 8 0.22
25 24 0.67
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (24 bp):
CTTTCTCCCCCAAAAACTTTTCTT
Found at i:2348179 original size:6 final size:6
Alignment explanation
Indices: 2348121--2348180 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
2348111 CTTTTGTATA
* * * * *
2348121 TTATTA TTATTA TTA-TT TTATTT TTA-TT TTATTT TGATCTT TCATTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT
2348168 TTATTT TTATTT T
1 TTATTT TTATTT T
2348181 ACAGACCTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 9 0.20
6 31 0.69
7 5 0.11
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (6 bp):
TTATTT
Found at i:2349537 original size:2 final size:2
Alignment explanation
Indices: 2349530--2349567 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2349520 CTTTAATAAT
2349530 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2349568 ATTATGCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2350846 original size:20 final size:19
Alignment explanation
Indices: 2350821--2350874 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2350811 GCGAAATAAA
2350821 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
2350841 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
2350861 AATCGCAACGCGAT
1 AATCGCAACGCGAT
2350875 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:2350953 original size:20 final size:20
Alignment explanation
Indices: 2350924--2351092 Score: 173
Period size: 20 Copynumber: 8.4 Consensus size: 20
2350914 GATTTTCCAG
* * *
2350924 AATCGTAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* *
2350944 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
2350964 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
*
2350984 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
2351004 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * *
2351024 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2351044 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
*
2351065 AATCGCAACGC-ATATCCGTA
1 AATCGCAACGCGA-ATACGTA
2351085 AATCGCAA
1 AATCGCAA
2351093 TACGATTTTT
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 1 0.01
20 105 0.85
21 18 0.15
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:2350979 original size:40 final size:40
Alignment explanation
Indices: 2350924--2351092 Score: 248
Period size: 40 Copynumber: 4.2 Consensus size: 40
2350914 GATTTTCCAG
* * *
2350924 AATCGTAACGCGAATATGAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGAGAATACGAAAATCGCAACGCGTATCCGTA
* *
2350964 AATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTA
1 AATCGCAACGAGAATACGAAAATCGCAACGCGTATCCGTA
* *
2351004 AATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGAGAATACGAAAATCGCAACGCGTATCCGTA
* *
2351044 AATCGCAACGACAATACGTAAAATCGCAACGCATATCCGTA
1 AATCGCAACGAGAATACG-AAAATCGCAACGCGTATCCGTA
2351085 AATCGCAA
1 AATCGCAA
2351093 TACGATTTTT
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
40 90 0.77
41 27 0.23
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (40 bp):
AATCGCAACGAGAATACGAAAATCGCAACGCGTATCCGTA
Found at i:2351680 original size:20 final size:20
Alignment explanation
Indices: 2351655--2351705 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2351645 TTCTAAACTT
*
2351655 AAAATCGCAACATAAAAATG
1 AAAATCGCAACACAAAAATG
2351675 AAAATCGCAACACAAAAATG
1 AAAATCGCAACACAAAAATG
**
2351695 ACTATCGCAAC
1 AAAATCGCAAC
2351706 GAGAGAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.55, C:0.22, G:0.10, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACAAAAATG
Found at i:2351717 original size:14 final size:14
Alignment explanation
Indices: 2351698--2351758 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
2351688 AAAAATGACT
*
2351698 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
2351712 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
2351731 ATCGCAACGAGATA
1 ATCGCAACGAGAAA
*
2351745 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
2351759 CCAAAATCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:2351735 original size:33 final size:33
Alignment explanation
Indices: 2351698--2351769 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
2351688 AAAAATGACT
**
2351698 ATCGCAACGAGAGAATCGCAACGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAACGCGAAACCAAA
*
2351731 ATCGCAACGAGATAATCGCAACGCGAAACCAAA
1 ATCGCAACGAGAGAATCGCAACGCGAAACCAAA
2351764 ATCGCA
1 ATCGCA
2351770 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.10
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAACGCGAAACCAAA
Found at i:2351787 original size:19 final size:19
Alignment explanation
Indices: 2351765--2351829 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
2351755 GAAACCAAAA
2351765 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2351784 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
2351800 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2351817 TCGCGTTGCGATT
1 TCGCATTGCGATT
2351830 CTCTCGTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 6 0.15
16 7 0.18
17 7 0.18
19 19 0.49
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2351812 original size:33 final size:33
Alignment explanation
Indices: 2351770--2351895 Score: 171
Period size: 33 Copynumber: 3.8 Consensus size: 33
2351760 CAAAATCGCA
*
2351770 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2351803 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* * * *
2351836 TTGCAATTTTCATTTCGTGTTGCGATTCTATTG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
2351869 TTGCGATAGTCATTTCCACGTTGCGAT
1 TTGCGATTTTCATTT-CGCGTTGCGAT
2351896 AGTCATTATC
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 73 0.89
34 9 0.11
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2354017 original size:94 final size:94
Alignment explanation
Indices: 2353615--2353994 Score: 674
Period size: 94 Copynumber: 4.1 Consensus size: 94
2353605 TAGATTACTT
* *
2353615 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2353680 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
2353709 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2353774 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2353803 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2353868 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
2353897 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2353962 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2353990 AGTAA
1 AGTAA
2353995 TGTAATCCAT
Statistics
Matches: 278, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
93 26 0.09
94 252 0.91
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2354098 original size:19 final size:19
Alignment explanation
Indices: 2354042--2354183 Score: 118
Period size: 19 Copynumber: 7.7 Consensus size: 19
2354032 TAGTTTACTT
* *
2354042 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
2354062 TCGCAACGTGAAAAATGACTA
1 TCGCAACGCG--AAATGAAAA
2354083 TCGCAACGCGAAATG--AA
1 TCGCAACGCGAAATGAAAA
*
2354100 TCGCAACGAGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2354119 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2354138 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
* **
2354152 TCACAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2354171 TCGCAACGCGAAA
1 TCGCAACGCGAAA
2354184 CTATAATCGC
Statistics
Matches: 101, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.09
15 1 0.01
16 2 0.02
17 17 0.17
18 1 0.01
19 48 0.48
20 8 0.08
21 12 0.12
22 3 0.03
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2354140 original size:38 final size:38
Alignment explanation
Indices: 2354042--2354152 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 38
2354032 TAGTTTACTT
* * **
2354042 TCGCAACACGAAACTTAAAATCGCAACGTGAAAAATGACTA
1 TCGCAACGCGAAA-TGAAAATCGCAAC--GAAAAATGAAAA
*
2354083 TCGCAACGCGAAATG--AATCGCAACGAGAAATGAAAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAAATGAAAA
2354119 TCGCAACGCGAAATGAAAATCGCAACGACAAAAT
1 TCGCAACGCGAAATGAAAATCGCAACGA-AAAAT
2354153 CACAACGCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
36 24 0.39
38 20 0.33
39 4 0.07
40 1 0.02
41 12 0.20
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.14
Consensus pattern (38 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAAATGAAAA
Found at i:2354159 original size:33 final size:33
Alignment explanation
Indices: 2354115--2354178 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
2354105 ACGAGAAATG
* **
2354115 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCACAACGCGAAACCAAAATCGCAACGAC
2354148 AAAATCACAACGCGAAACCAAAATCGCAACG
1 AAAATCACAACGCGAAACCAAAATCGCAACG
2354179 CGAAACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.50, C:0.27, G:0.16, T:0.08
Consensus pattern (33 bp):
AAAATCACAACGCGAAACCAAAATCGCAACGAC
Found at i:2354271 original size:20 final size:20
Alignment explanation
Indices: 2354223--2354274 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2354213 ATTGCGATTA
2354223 TCTCGTTGCGATAGTCAAAT
1 TCTCGTTGCGATAGTCAAAT
* * **
2354243 TCGCATTGCGATAGTCATTT
1 TCTCGTTGCGATAGTCAAAT
2354263 TCTCGTTGCGAT
1 TCTCGTTGCGAT
2354275 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCTCGTTGCGATAGTCAAAT
Found at i:2354848 original size:21 final size:21
Alignment explanation
Indices: 2354757--2354855 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
2354747 GACTCACCAA
*
2354757 TCATCGTTCAAGAGGCCTC-C
1 TCATCGTTCAAGAGGCCACTC
* * *
2354777 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCACTC
** *
2354799 TCATCCCTCAAGAGTCCACTC
1 TCATCGTTCAAGAGGCCACTC
* * *
2354820 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
*
2354841 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
2354856 TCCCTCCCAA
Statistics
Matches: 59, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 1 0.02
21 57 0.97
22 1 0.02
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:2354854 original size:42 final size:42
Alignment explanation
Indices: 2354782--2354864 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
2354772 CCTCCCCTAT
*
2354782 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCACTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCC-CTCCCAC
* ** *
2354824 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
2354865 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:2356237 original size:14 final size:14
Alignment explanation
Indices: 2356218--2356253 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2356208 ATTGTTTAAT
2356218 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2356232 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2356246 TGATTTGT
1 TGATTTGT
2356254 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Done.