Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001981.1 Hibiscus syriacus cultivar Beakdansim tig00004035_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: 1059896
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:711350 original size:41 final size:40
Alignment explanation
Indices: 711285--711958 Score: 261
Period size: 41 Copynumber: 16.8 Consensus size: 40
711275 TGTTTATAGC
* * * *
711285 GGCATTTTTAGAACAAACGTCGCTAAATACTCATAATTTAGT
1 GGCATTTTTA-TACAAACGCCGCTAAAGACT-ATACTTTAGT
711327 GGCATTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
1 GGCATTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
* * * *
711367 GGCATTTTTACACAAATGCCGCTAAAGACTGTACTTTAGC
1 GGCATTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
* * * *
711407 AGCATTTTTAGACAAAATGCCGCTAAATACTCATACTTTAGT
1 GGCATTTTTATAC-AAACGCCGCTAAAGACT-ATACTTTAGT
** * * * *
711449 GGTGTTTTTAATACAAACGTCGCTAAAGAATGTACTTTAGC
1 GGCATTTTT-ATACAAACGCCGCTAAAGACTATACTTTAGT
* * * * ** * *
711490 GG--TGTTTGTATATAC-TTG-T----ACTTTA--GT-G-
1 GGCATTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
* * * ** ** * *
711518 GCG-TTTTTATACA-AACGC-CGC-TAAAGACTC-GTACTTTAGC
1 G-GCATTTT-TATACAA-ACGC-CGCTAA-AGACTATACTTTAGT
** * * * * * *
711558 GGTGTTTTATCTAAAAACGCCGTTAAATACTTGTACTTTAGC
1 GGCATTTT-TATACAAACGCCGCTAAAGAC-TATACTTTAGT
* * * * * *
711600 GGTATTTTGTCTAAAAATGCCGCTAAATACTTGTACTTTAGT
1 GGCATTTT-TATACAAACGCCGCTAAAGAC-TATACTTTAGT
* * * * *
711642 GGCGTTTTTAATACAAATGCCGCTAAAGAATGTACTTTAGC
1 GGCATTTTT-ATACAAACGCCGCTAAAGACTATACTTTAGT
* ** * * *
711683 GG--TGTTTTATATAAACATCGCTATATACTCGTACTTTAGT
1 GGCAT-TTTTATACAAACGCCGCTAAAGACT-ATACTTTAGT
* * * * *
711723 GGCGTTTTTAATACAGACGCCGCTATAGACTCGTATTTTAGT
1 GGCATTTTT-ATACAAACGCCGCTAAAGACT-ATACTTTAGT
* *
711765 GGCGTTTTTATTCAAACGCCGCTAAAGACTCATACTTTAGT
1 GGCATTTTTATACAAACGCCGCTAAAGACT-ATACTTTAGT
* * * *
711806 AGCGTTTTTATATAAACGCCGCTAAAGACTCGTACTTTAGT
1 GGCATTTTTATACAAACGCCGCTAAAGACT-ATACTTTAGT
* * *
711847 GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
1 GGCATTTTTATACAAACGCCGCTAAAGACT-ATACTTTAGT
* * * * *
711888 GGTACTTTTATACAAACGCCGCTATAGACCCATGCTTTAGT
1 GGCATTTTTATACAAACGCCGCTAAAGA-CTATACTTTAGT
* * * *
711929 AGCGTTTTTATACAAACGTCGCTATAGACT
1 GGCATTTTTATACAAACGCCGCTAAAGACT
711959 CGTGCTTTGG
Statistics
Matches: 502, Mismatches: 99, Indels: 64
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.00
29 2 0.00
30 5 0.01
31 3 0.01
32 4 0.01
36 3 0.01
37 3 0.01
38 6 0.01
39 21 0.04
40 84 0.17
41 224 0.45
42 143 0.28
43 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (40 bp):
GGCATTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
Found at i:711965 original size:41 final size:41
Alignment explanation
Indices: 711498--711966 Score: 474
Period size: 41 Copynumber: 11.4 Consensus size: 41
711488 GCGGTGTTTG
* *
711498 TATATACTTGTACTTTAGTGGCGTTTTTATACAAACGCCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
* * * * * *
711539 TAAAGACTCGTACTTTAGCGGTGTTTTATCTAAAAACGCCGT
1 TATAGACTCGTACTTTAGTGGCGTTTT-TATACAAACGCCGC
* * * * ** * * *
711581 TAAATACTTGTACTTTAGCGGTATTTTGTCTAAAAATGCCGC
1 TATAGACTCGTACTTTAGTGGCGTTTT-TATACAAACGCCGC
* * * *
711623 TAAATACTTGTACTTTAGTGGCGTTTTTAATACAAATGCCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTT-ATACAAACGCCGC
* * * * * **
711665 TAAAGAAT-GTACTTTAGCGGTG-TTTTATATAAACATCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
* *
711704 TATATACTCGTACTTTAGTGGCGTTTTTAATACAGACGCCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTT-ATACAAACGCCGC
* *
711746 TATAGACTCGTATTTTAGTGGCGTTTTTATTCAAACGCCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
* * * *
711787 TAAAGACTCATACTTTAGTAGCGTTTTTATATAAACGCCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
*
711828 TAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
***
711869 TATAGACTCGTACTTTAGTGGTACTTTTATACAAACGCCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
* * * * *
711910 TATAGACCCATGCTTTAGTAGCGTTTTTATACAAACGTCGC
1 TATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
*
711951 TATAGACTCGTGCTTT
1 TATAGACTCGTACTTT
711967 GGAGTCGTTG
Statistics
Matches: 360, Mismatches: 63, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.04
40 16 0.04
41 207 0.57
42 123 0.34
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (41 bp):
TATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGC
Found at i:715453 original size:43 final size:43
Alignment explanation
Indices: 715406--715714 Score: 311
Period size: 43 Copynumber: 7.1 Consensus size: 43
715396 TAATTAGCGA
*
715406 CGTTTGTATCAAAAAAAGCCGCTATAGATCTGACCTTTTGTGG
1 CGTTTGTATCAAAAAAAGCCGCTATAGATCTGACCTTTTGCGG
* *
715449 CGTTTGTATCCAAAAATGCCGCTATAGATCTGACCTTTTGCGG
1 CGTTTGTATCAAAAAAAGCCGCTATAGATCTGACCTTTTGCGG
* * * * *
715492 CATTTGTATTCAAAAAACGCCGCTATAGATATGAACTTTTACGG
1 CGTTTGTA-TCAAAAAAAGCCGCTATAGATCTGACCTTTTGCGG
* * *
715536 CGTTTGTATCCAAAAACA-CTGCTATAGATATGACCTTTTGCGG
1 CGTTTGTAT-CAAAAAAAGCCGCTATAGATCTGACCTTTTGCGG
* * * * *
715579 CGTTTGTATCCAAAAACGCCGCTATATATATGATCTTTTGCGG
1 CGTTTGTATCAAAAAAAGCCGCTATAGATCTGACCTTTTGCGG
* *
715622 CGTTTGTGA--AATAAAAACGCCGCTAAAGATCTCAACCTTTTGCGG
1 CGTTTGT-ATCAA-AAAAA-GCCGCTATAGATCT-GACCTTTTGCGG
* * * * * *
715667 CGTTTTTTTC-AAAAACGCCTCTATAGAACTTGACTTTTTGCGG
1 CGTTTGTATCAAAAAAAGCCGCTATAGATC-TGACCTTTTGCGG
715710 CGTTT
1 CGTTT
715715 TTATTTCACA
Statistics
Matches: 220, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
42 6 0.03
43 137 0.62
44 60 0.27
45 17 0.08
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (43 bp):
CGTTTGTATCAAAAAAAGCCGCTATAGATCTGACCTTTTGCGG
Found at i:715560 original size:87 final size:86
Alignment explanation
Indices: 715406--715734 Score: 358
Period size: 87 Copynumber: 3.8 Consensus size: 86
715396 TAATTAGCGA
* * * * *
715406 CGTTTGTATCAAAAAAAGCCGCTATAGATCTGACCTTTTGTGGCGTTTGTATCCAAAAATGCCGC
1 CGTTTGTATCAAAAAACGCCGCTATAGATATGAACTTTTGCGGCGTTTGTATCCAAAAACGCCGC
715471 TATAGATCTGACCTTTTGCGG
66 TATAGATCTGACCTTTTGCGG
* * * *
715492 CATTTGTATTCAAAAAACGCCGCTATAGATATGAACTTTTACGGCGTTTGTATCCAAAAACACTG
1 CGTTTGTA-TCAAAAAACGCCGCTATAGATATGAACTTTTGCGGCGTTTGTATCCAAAAACGCCG
*
715557 CTATAGATATGACCTTTTGCGG
65 CTATAGATCTGACCTTTTGCGG
* * * ***
715579 CGTTTGTATCCAAAAACGCCGCTATATATATGATCTTTTGCGGCGTTTGTGAAATAAAAACGCCG
1 CGTTTGTATCAAAAAACGCCGCTATAGATATGAACTTTTGCGGCGTTTGT-ATCCAAAAACGCCG
* *
715644 CTAAAGATCTCAACCTTTTGCGG
65 CTATAGATCT-GACCTTTTGCGG
* * * * * *
715667 CGTTTTTTTC-AAAAACGCCTCTATAGA-ACTTG-ACTTTTTGCGGCGTTTTTATTTCACAAACG
1 CGTTTGTATCAAAAAACGCCGCTATAGATA--TGAAC-TTTTGCGGCGTTTGTA-TCCAAAAACG
715729 CCGCTA
62 CCGCTA
715735 ACATTAGCGA
Statistics
Matches: 203, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
86 46 0.23
87 110 0.54
88 47 0.23
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (86 bp):
CGTTTGTATCAAAAAACGCCGCTATAGATATGAACTTTTGCGGCGTTTGTATCCAAAAACGCCGC
TATAGATCTGACCTTTTGCGG
Found at i:715639 original size:130 final size:129
Alignment explanation
Indices: 715406--715734 Score: 360
Period size: 130 Copynumber: 2.5 Consensus size: 129
715396 TAATTAGCGA
* * * * *
715406 CGTTTGTATCAAAAAAAGCCGCTATAGATCTGACCTTTTGTGGCGTTTGTATCCAAAAATGCCGC
1 CGTTTGTATCAAAAACA-CTGCTATAGATATGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGC
* * * *
715471 TATAGATCTGACCTTTTGCGGCATTTGTATTCAAAAAACGCCGCTATAGATATGAA-CTTTTACG
65 TATAGATATGACCTTTTGCGGCATTTGTAAT-AAAAAACGCCGCTAAAGATATCAACCTTTTACG
715535 G
129 G
715536 CGTTTGTATCCAAAAACACTGCTATAGATATGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGC
1 CGTTTGTAT-CAAAAACACTGCTATAGATATGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGC
* * * * *
715601 TATATATATGATCTTTTGCGGCGTTTGTGAA-ATAAAAACGCCGCTAAAGATCTCAACCTTTTGC
65 TATAGATATGACCTTTTGCGGCATTTGT-AATA-AAAAACGCCGCTAAAGATATCAACCTTTTAC
715665 GG
128 GG
* * * * * * *
715667 CGTTTTTTTCAAAAACGCCT-CTATAGA-ACTTGACTTTTTGCGGCGTTTTTATTTCACAAACGC
1 CGTTTGTATCAAAAAC-ACTGCTATAGATA--TGACCTTTTGCGGCGTTTGTA-TCCAAAAACGC
715730 CGCTA
62 CGCTA
715735 ACATTAGCGA
Statistics
Matches: 170, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
129 2 0.01
130 110 0.65
131 44 0.26
132 14 0.08
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (129 bp):
CGTTTGTATCAAAAACACTGCTATAGATATGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCT
ATAGATATGACCTTTTGCGGCATTTGTAATAAAAAACGCCGCTAAAGATATCAACCTTTTACGG
Found at i:719928 original size:19 final size:19
Alignment explanation
Indices: 719888--719948 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
719878 TTACTTTTTG
*
719888 GGTCAAAGTCAAC---TCT
1 GGTCAAAGTCAACGGGTCA
719904 GGTCAAAGTCAACGGGTCA
1 GGTCAAAGTCAACGGGTCA
*
719923 GGTCAAAGTCAATGGGTCA
1 GGTCAAAGTCAACGGGTCA
719942 GGTCAAA
1 GGTCAAA
719949 CAATTTGGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.32
19 27 0.68
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (19 bp):
GGTCAAAGTCAACGGGTCA
Found at i:719957 original size:19 final size:17
Alignment explanation
Indices: 719917--719969 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
719907 CAAAGTCAAC
719917 GGGTCAGGTCAAAGTCAAT
1 GGGTCAGGTCAAA--CAAT
719936 GGGTCAGGTCAAACAATTT
1 GGGTCAGGTCAAACAA--T
*
719955 GGGTCGGGTCAAACA
1 GGGTCAGGTCAAACA
719970 CGGGTCAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
19 28 0.90
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (17 bp):
GGGTCAGGTCAAACAAT
Found at i:720713 original size:20 final size:20
Alignment explanation
Indices: 720688--720729 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
720678 GTGCCACTAC
720688 ATTATTTTATTCTCAGTGCT
1 ATTATTTTATTCTCAGTGCT
*
720708 ATTATTTTATTCTTAGTGCT
1 ATTATTTTATTCTCAGTGCT
720728 AT
1 AT
720730 AAGATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (20 bp):
ATTATTTTATTCTCAGTGCT
Found at i:724191 original size:18 final size:19
Alignment explanation
Indices: 724168--724212 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
724158 TTGACTTTTT
724168 GGGTCAAAGTCAA-CGGTC
1 GGGTCAAAGTCAATCGGTC
*
724186 GGGTCAAAGTCAATGGGTC
1 GGGTCAAAGTCAATCGGTC
*
724205 TGGTCAAA
1 GGGTCAAA
724213 CAGTTTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (19 bp):
GGGTCAAAGTCAATCGGTC
Found at i:733590 original size:39 final size:39
Alignment explanation
Indices: 733547--733710 Score: 265
Period size: 39 Copynumber: 4.2 Consensus size: 39
733537 GTATATCGAT
*
733547 TAAGCACTTCGGTACATATGGTGGGCACGACCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* * *
733586 TAAGCACTTTGGTGCATATGGTGGGCTCGACCTTATATG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
*
733625 TAAGCACTTCGGTGCATATGGTGGGCACGATCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* *
733664 TAAGCACTTCAGTGCATATGGTGGGCATGACCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
733703 TAAGCACT
1 TAAGCACT
733711 ACGATGTATA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (39 bp):
TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
Found at i:750264 original size:2 final size:2
Alignment explanation
Indices: 750259--750288 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
750249 TATATATATA
750259 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
750289 ATATGTCAGA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:750420 original size:29 final size:29
Alignment explanation
Indices: 750354--750428 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
750344 TCCTCATACA
* * *
750354 ACATGGGATTACATCCCCGTCCTGATTCT
1 ACATGGGATTATATCCCCATACTGATTCT
*
750383 ACATAGGATTATATCCCCATACTGATTCT
1 ACATGGGATTATATCCCCATACTGATTCT
** *
750412 GTATGGGATCATATCCC
1 ACATGGGATTATATCCC
750429 TGCCTTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
ACATGGGATTATATCCCCATACTGATTCT
Found at i:752563 original size:19 final size:19
Alignment explanation
Indices: 752541--752584 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
752531 TAAAATGTTG
*
752541 ATTTGGGACCAAAGTTCAA
1 ATTTGGGACCAAAGTGCAA
752560 ATTTGGGACCAAAGTGCAA
1 ATTTGGGACCAAAGTGCAA
752579 ATTTGG
1 ATTTGG
752585 TGAAATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (19 bp):
ATTTGGGACCAAAGTGCAA
Found at i:758399 original size:21 final size:20
Alignment explanation
Indices: 758371--758409 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
758361 CATTGTAGGA
*
758371 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
758391 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
758410 GACTCTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:777737 original size:42 final size:42
Alignment explanation
Indices: 777674--777757 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
777664 TCAAGTTGAT
*
777674 CTCACCTAAGTCTCTCGAATATTACGCATAAAACTTAGAAAA
1 CTCACCTAAGTCTCTCAAATATTACGCATAAAACTTAGAAAA
*
777716 CTCACCTAAGTCTCTCAAATATTACGCATCAAACTTAGAAAA
1 CTCACCTAAGTCTCTCAAATATTACGCATAAAACTTAGAAAA
777758 TGGCTACCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.26
Consensus pattern (42 bp):
CTCACCTAAGTCTCTCAAATATTACGCATAAAACTTAGAAAA
Found at i:778377 original size:29 final size:29
Alignment explanation
Indices: 778333--778390 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
778323 TTGGCAGAAA
*
778333 GGATCACTTGTGAACTGGACAGTTGGTAT
1 GGATCACTTGTAAACTGGACAGTTGGTAT
*
778362 GGATCACTTGTAAACTGGACAGTTTGTAT
1 GGATCACTTGTAAACTGGACAGTTGGTAT
778391 CTTTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (29 bp):
GGATCACTTGTAAACTGGACAGTTGGTAT
Found at i:778456 original size:24 final size:24
Alignment explanation
Indices: 778429--778482 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
778419 ATGCACATCA
* *
778429 TAAGCAAAATGCAACCTTCTATAT
1 TAAGCAAAATACAACCTTCCATAT
778453 TAAGCAAAATACAACCTTCCATAT
1 TAAGCAAAATACAACCTTCCATAT
778477 TAAGCA
1 TAAGCA
778483 GTACCAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (24 bp):
TAAGCAAAATACAACCTTCCATAT
Found at i:792521 original size:23 final size:23
Alignment explanation
Indices: 792503--792561 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
792493 CTCGTATAAA
792503 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
792526 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
792548 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
792562 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:793293 original size:65 final size:67
Alignment explanation
Indices: 793170--793319 Score: 259
Period size: 65 Copynumber: 2.3 Consensus size: 67
793160 TTTTTCTCAT
* *
793170 GGGGGAATCGGTTCCCCTCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAATTCATATTCGTT
1 GGGGGTATCGGTTCCCCTCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTT
793235 GA
66 GA
*
793237 GGGGGTATCGGTTCCCC-CCTGGGGGTATCGATT-CCCTCTAGCATTCTGGAAATCATATTCGTT
1 GGGGGTATCGGTTCCCCTCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTT
793300 GA
66 GA
793302 GGGGGTATCGGTTCCCCT
1 GGGGGTATCGGTTCCCCT
793320 TGAATGGGTA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
65 47 0.59
66 16 0.20
67 16 0.20
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCTCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTT
GA
Found at i:799395 original size:23 final size:23
Alignment explanation
Indices: 799377--799435 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
799367 CTCGTATAAA
799377 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
799400 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
799422 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
799436 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:800151 original size:66 final size:67
Alignment explanation
Indices: 800042--800192 Score: 268
Period size: 66 Copynumber: 2.3 Consensus size: 67
800032 TTTTTCTCAT
* *
800042 GGGGGAATCGGTTCCCCTCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAATTCATATTCGTT
1 GGGGGTATCGGTTCCCCTCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTT
800107 GA
66 GA
*
800109 GGGGGTATCGGTTCCCC-CCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTT
1 GGGGGTATCGGTTCCCCTCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTT
800173 GA
66 GA
800175 GGGGGTATCGGTTCCCCT
1 GGGGGTATCGGTTCCCCT
800193 TGAATGGGTA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 64 0.80
67 16 0.20
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCTCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATTCGTT
GA
Found at i:801671 original size:77 final size:76
Alignment explanation
Indices: 801560--801858 Score: 316
Period size: 77 Copynumber: 3.9 Consensus size: 76
801550 TAAGAAATAC
* * * * * *
801560 GGTTGCG-CCAAGAATATCATGGTTAAGTATGAAATAGTTTGCGAAATGGAATGTTAATATTTTT
1 GGTTGCGCCCAAGAATATCATGGCTCACTAAGAAATAGGTTAC-AAATGGAATGTTAATATTTTT
801624 ATTAATAAAATG
65 ATTAATAAAATG
* * * *
801636 GGTTGCGCCCAAGAATGTCATGGCTCACTAAGAAATATGTTACAATCTGGAACGTTAATATTTTT
1 GGTTGCGCCCAAGAATATCATGGCTCACTAAGAAATAGGTTACAA-ATGGAATGTTAATATTTTT
*
801701 ATTAATAAAATA
65 ATTAATAAAATG
* * * *
801713 GGTTGTGCCTAATAATATCATGGCTCACTAAGAAATAGGTTAC-AATCAGGAATATTAATATTTT
1 GGTTGCGCCCAAGAATATCATGGCTCACTAAGAAATAGGTTACAAAT--GGAATGTTAATATTTT
801777 TATTAATAAAATG
64 TATTAATAAAATG
* * ** * ** *
801790 AGTTGCGCCCAAGAATGTCAAT-AATCACTAAGAAATAGGTTGCGATCTGAAATGTTAATATTTT
1 GGTTGCGCCCAAGAATATC-ATGGCTCACTAAGAAATAGGTTAC-AAATGGAATGTTAATATTTT
801854 TATTA
64 TATTA
801859 TGAAATATTC
Statistics
Matches: 184, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
75 1 0.01
76 10 0.05
77 170 0.92
78 2 0.01
79 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (76 bp):
GGTTGCGCCCAAGAATATCATGGCTCACTAAGAAATAGGTTACAAATGGAATGTTAATATTTTTA
TTAATAAAATG
Found at i:802192 original size:71 final size:71
Alignment explanation
Indices: 802109--802241 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 71
802099 TAAAAAATCA
* * *
802109 AAAGTATTGATACTTTTTCACAA-GTATCGATACTTTTGAA-TTTAAAAAAATATGAAAAATGAG
1 AAAGTATCGATACTTTTCCA-AATGTATCGATACTTTCGAACTTTAAAAAAA-ATGAAAAATGAG
802172 AAGGTTGT
64 AAGGTTGT
*
802180 AAAGTATCGATACTTTTCCAAATGTATTGATACTTTCGAACTTTAAAAAAAATGAAAAATGA
1 AAAGTATCGATACTTTTCCAAATGTATCGATACTTTCGAACTTTAAAAAAAATGAAAAATGA
802242 TATTTTAACT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
70 2 0.04
71 44 0.79
72 10 0.18
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.34
Consensus pattern (71 bp):
AAAGTATCGATACTTTTCCAAATGTATCGATACTTTCGAACTTTAAAAAAAATGAAAAATGAGAA
GGTTGT
Found at i:802600 original size:60 final size:60
Alignment explanation
Indices: 802483--802636 Score: 175
Period size: 60 Copynumber: 2.6 Consensus size: 60
802473 GCATCGTATG
* ** * * ** *
802483 TCCCCAAATTATGACCATAATTTCAAATTAGTCCTTAAACTTTTAAACATTTTAATTTTA
1 TCCCCAAACTATGAATATCATTCCAAATTAGTCCTTAAACTTTTAAACATTCAAATTTCA
* * *
802543 T-CCCAGAACTATTAATCTCATTCCAAATTAGTCCTTAAACTTTTGAACATTCAAATTTCA
1 TCCCCA-AACTATGAATATCATTCCAAATTAGTCCTTAAACTTTTAAACATTCAAATTTCA
**
802603 TCCCCAAACTATGAATATCATTTTAAATTAGTCC
1 TCCCCAAACTATGAATATCATTCCAAATTAGTCC
802637 CTAGAAGTTT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 4 0.05
60 69 0.90
61 4 0.05
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (60 bp):
TCCCCAAACTATGAATATCATTCCAAATTAGTCCTTAAACTTTTAAACATTCAAATTTCA
Found at i:802757 original size:41 final size:41
Alignment explanation
Indices: 802627--802757 Score: 99
Period size: 41 Copynumber: 3.1 Consensus size: 41
802617 ATATCATTTT
802627 AAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCA
1 AAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCA
* * * * * * *
802668 AAATTCGT--CTAAATATGTAATACAT-TTCAACCATAATTTA-ACCT
1 AAATTAGTCCCTAGA-A-GT-TTATATCTT---CCA-ATTTTATCCCA
*
802712 AAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCC
1 AAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCA
802753 AAATT
1 AAATT
802758 CATCTAAATA
Statistics
Matches: 65, Mismatches: 14, Indels: 22
0.64 0.14 0.22
Matches are distributed among these distances:
39 4 0.06
40 6 0.09
41 21 0.32
42 4 0.06
43 4 0.06
44 16 0.25
45 6 0.09
46 4 0.06
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (41 bp):
AAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCA
Found at i:802769 original size:85 final size:85
Alignment explanation
Indices: 802626--802801 Score: 334
Period size: 85 Copynumber: 2.1 Consensus size: 85
802616 AATATCATTT
*
802626 TAAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCAAAATTCGTCTAAATATGTAATAC
1 TAAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCAAAATTCATCTAAATATGTAATAC
802691 ATTTCAACCATAATTTAACC
66 ATTTCAACCATAATTTAACC
*
802711 TAAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCCAAATTCATCTAAATATGTAATAC
1 TAAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCAAAATTCATCTAAATATGTAATAC
802776 ATTTCAACCATAATTTAACC
66 ATTTCAACCATAATTTAACC
802796 TAAATT
1 TAAATT
802802 TAATTTGTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (85 bp):
TAAATTAGTCCCTAGAAGTTTATATCTTCCAATTTTATCCCAAAATTCATCTAAATATGTAATAC
ATTTCAACCATAATTTAACC
Found at i:803012 original size:76 final size:76
Alignment explanation
Indices: 802886--803030 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 76
802876 CAATTAACTC
** * *
802886 TTTTATTAATAAAAATATTAACATTTCATATTGCAATATATTTCTTAGTGAAACATGACATTTTT
1 TTTTATTAATAAAAATATTAACATTTCATATCACAATATATTTCTTAGTGAAACATAACATTCTT
802951 GGGTAAACCCA
66 GGGTAAACCCA
* * *
802962 TTTTATTAATAAAAATATTAACATTTCATATCATAATCTATTTCTTAGTGAACCATAACATTCTT
1 TTTTATTAATAAAAATATTAACATTTCATATCACAATATATTTCTTAGTGAAACATAACATTCTT
803027 GGGT
66 GGGT
803031 GCAACCTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (76 bp):
TTTTATTAATAAAAATATTAACATTTCATATCACAATATATTTCTTAGTGAAACATAACATTCTT
GGGTAAACCCA
Found at i:805374 original size:60 final size:60
Alignment explanation
Indices: 805299--805422 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 60
805289 ATATTTCAAC
** * *
805299 TTAGTCCTTAAACTTTTAAAAATTTTAATTTCAT-CTCAGAACTATGAATCTCATTCCAAA
1 TTAGTCCTTAAACTTTTAAAAATTCAAATTTCATCCCCA-AACTATGAATATCATTCCAAA
* **
805359 TTAGTCCTTAAACTTTTAAACATTCAAATTTCATCCCCAAACTATGAATATCATTTTAAA
1 TTAGTCCTTAAACTTTTAAAAATTCAAATTTCATCCCCAAACTATGAATATCATTCCAAA
805419 TTAG
1 TTAG
805423 CCCCTAGAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 53 0.95
61 3 0.05
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (60 bp):
TTAGTCCTTAAACTTTTAAAAATTCAAATTTCATCCCCAAACTATGAATATCATTCCAAA
Found at i:817009 original size:22 final size:23
Alignment explanation
Indices: 816974--817016 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
816964 ATTTAATAGT
*
816974 TATTTTAATTTTAAT-TTTTAAG
1 TATTTTAATATTAATATTTTAAG
*
816996 TATTTTGATATTAATATTTTA
1 TATTTTAATATTAATATTTTA
817017 TTTTAGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (23 bp):
TATTTTAATATTAATATTTTAAG
Found at i:817118 original size:19 final size:19
Alignment explanation
Indices: 817094--817130 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
817084 TAATTATTCA
817094 AATTAT-ATTCTTAAATTAT
1 AATTATCATTC-TAAATTAT
817113 AATTATCATTCTAAATTA
1 AATTATCATTCTAAATTA
817131 ATCTGTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTATCATTCTAAATTAT
Found at i:832233 original size:25 final size:27
Alignment explanation
Indices: 832175--832233 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
832165 ATGTAAACTC
*
832175 ATAAAAT-GATTTATCAGTATTCAGAA
1 ATAAAATAGATTTATCAGTACTCAGAA
* *
832201 ATAAAATAGATTT-TCAG-ACTCATAT
1 ATAAAATAGATTTATCAGTACTCAGAA
832226 ATAAAATA
1 ATAAAATA
832234 AAATACAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 13 0.45
26 11 0.38
27 5 0.17
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (27 bp):
ATAAAATAGATTTATCAGTACTCAGAA
Found at i:832834 original size:24 final size:24
Alignment explanation
Indices: 832807--832912 Score: 115
Period size: 24 Copynumber: 4.5 Consensus size: 24
832797 AAACGAAGAT
* *
832807 ATCATAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * * *
832831 ATCATATATCAGAATAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
832855 ATCAGAAATCAGAATA-AATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
832878 ATAAGAAATCAGAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAG
*
832902 ATCGGAAATCA
1 ATCAGAAATCA
832913 CATAAAACAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
23 20 0.29
24 49 0.71
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:836442 original size:17 final size:17
Alignment explanation
Indices: 836386--836442 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
836376 CTGAAATTTA
836386 TTTTATG-TTATTGTAATT
1 TTTTATGATTATT-T-ATT
* *
836404 TTTTTTGATAATTT-TT
1 TTTTATGATTATTTATT
836420 TATTTATGATTATTTATT
1 T-TTTATGATTATTTATT
836438 TTTTA
1 TTTTA
836443 ATAATTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 3 0.09
17 15 0.47
18 10 0.31
19 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (17 bp):
TTTTATGATTATTTATT
Found at i:841203 original size:259 final size:257
Alignment explanation
Indices: 840452--841447 Score: 1281
Period size: 259 Copynumber: 3.9 Consensus size: 257
840442 GAAAGATTTA
* * * * * *
840452 CGAAGGACTTATCATCTTGCTTGAAATACTTACAGATGACCCGAAAGATTTACTCATCATGCTCG
1 CGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCCGAAGGATTTAATCATCATGCTCG
* * * * * * * *
840517 AAAGACTTATTGTTGGCCCAAAGGACTTACCAATTTTGAAAATAGTTTACTGGGTTAGAAACATT
66 AAAGACTTACTGATGGCCCAAAAGACTTACTAATTTTGGAAATAATTTACTGGGTAAGAAACTTT
* *
840582 GGAAATC-TCTTTCTTACTTCTCAAAAATTTCATTTTCTGAAAAGATTTAAATGAGAAACTTTGG
131 GGAAATCGT-TTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAGATTTAAATGAGAAACTTTGG
* * * *
840646 AAATTGCTTTCTCATTTTTCGAAAATCACGTGG-AAACATCCTGGCCAGAGATCTTATAGATGGC
195 AAATCGCTTTCTCATTTTTTGAAAATCATG-GGAAAACATCCT-GCCA-AGGTCTTATAGATGGC
840710 C
257 C
* * * *
840711 CAAAGGACTTATCATCTTGCTCGAAAGAC-TAGCAGATTACCCGAAGGATTTAATCATCATGCTT
1 CGAATGACTTATCATCTTGCTCGAAAGACTTA-CAGATAACCCGAAGGATTTAATCATCATGCTC
* * * *
840775 GAAAAACTTACTGATGGTCCGAAAGAGTTACTAATTTTGGAAATAATTTACT-GGTAAGAAACTT
65 GAAAGACTTACTGATGGCCCAAAAGACTTACTAATTTTGGAAATAATTTACTGGGTAAGAAACTT
* * *
840839 TGGAAATCGTTTTCTTACTTTTCAAAATTTTGATTTTCAGAAAAGTTTTAAAT-AGGAAACTTTG
130 TGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAGATTTAAATGA-GAAACTTTG
* * * **
840903 GAAATCACTTTCTCATTTTTTGAAAATCATGTGAAAACATCCTACTCGAAGGTCTTACGGATGGC
194 GAAATCGCTTTCTCATTTTTTGAAAATCATGGGAAAACATCCTGC-C-AAGGTCTTATAGATGGC
840968 C
257 C
* * *
840969 TGAATGACTTATCATCTTGCTCGAAAGACTTACAAATAACCCTCAA-GATTTAATCATCATGCTC
1 CGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCC-GAAGGATTTAATCATCATGCTC
* * *
841033 GAAAGACTTACTGATGGCCTAAAAGACTTA-TCAATTTGGGAAATAGTTTACTGGGTAA-AAAGC
65 GAAAGACTTACTGATGGCCCAAAAGACTTACT-AATTTTGGAAATAATTTACTGGGTAAGAAA-C
* *
841096 TTTGGAAATCATTTT-TTCACTTTTCAAAAATTTCATTTTTAGAAAAGATTTAAATGAGAAACTT
128 TTTGGAAATCGTTTTCTT-ACTTTTCAAAAATTTCATTTTCAGAAAAGATTTAAATGAGAAACTT
*
841160 TGGAAATCGCTTTCTTATTTTTTGAAAATCATGGGAAAACATCCTGCCCAAAGGTCTTATAGATG
192 TGGAAATCGCTTTCTCATTTTTTGAAAATCATGGGAAAACATCCTG-CC-AAGGTCTTATAGATG
*
841225 ACC
255 GCC
* * * * * *
841228 CGAATGACTTATCTTATTTCTCGAAAGACTTACAGATAACCCGAAGGATTTAAACATCGTGCTCA
1 CGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCCGAAGGATTTAATCATCATGCTCG
* *
841293 AAAGACTTACTTATGGCCCGAAAGACTTACTAATTTTGGAAATAATTTACTGGGTAAGAAACTTT
66 AAAGACTTACTGATGGCCCAAAAGACTTACTAATTTTGGAAATAATTTACTGGGTAAGAAACTTT
* * *
841358 GGAAATCGTTTTCTTACTTTTCAAAATTTTGATTTTCAGAAAAGATTTAAATGAAAAACTTTGGA
131 GGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAGATTTAAATGAGAAACTTTGGA
*
841423 AATCGCTTTCTCATTTTTTCAAAAT
196 AATCGCTTTCTCATTTTTTGAAAAT
841448 AACTTAATGG
Statistics
Matches: 638, Mismatches: 81, Indels: 36
0.85 0.11 0.05
Matches are distributed among these distances:
257 4 0.01
258 219 0.34
259 407 0.64
260 8 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (257 bp):
CGAATGACTTATCATCTTGCTCGAAAGACTTACAGATAACCCGAAGGATTTAATCATCATGCTCG
AAAGACTTACTGATGGCCCAAAAGACTTACTAATTTTGGAAATAATTTACTGGGTAAGAAACTTT
GGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAGATTTAAATGAGAAACTTTGGA
AATCGCTTTCTCATTTTTTGAAAATCATGGGAAAACATCCTGCCAAGGTCTTATAGATGGCC
Found at i:848961 original size:2 final size:2
Alignment explanation
Indices: 848954--849018 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
848944 AAACCTTTTA
848954 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
848996 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
849019 AGGGATGTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:853434 original size:17 final size:17
Alignment explanation
Indices: 853393--853434 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
853383 CTCGTATAAT
* *
853393 AATTATGAAAAAATATA
1 AATTATAAAAAAAGATA
*
853410 AATT-TAAAAAAAGGTA
1 AATTATAAAAAAAGATA
853426 AATTATAAA
1 AATTATAAA
853435 TATAGTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
AATTATAAAAAAAGATA
Found at i:857260 original size:83 final size:82
Alignment explanation
Indices: 857054--857386 Score: 427
Period size: 81 Copynumber: 4.1 Consensus size: 82
857044 TTCAGGGGAG
* * * * *
857054 ACTTGATCTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAAACGGGTATGCACCACTCTT
1 ACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTACTCCACTCTT
*
857119 CTTTCAG-GGAGATAAA
66 CTTTCAGTGGAGATCAA
* ** * * * *
857135 ATTTGATAAGTTCCTCCTTTTCGGGTAGTCAGATCTATTTTGGAAGACGGGTTTGCTCCACTCTT
1 ACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTACTCCACTCTT
* *
857200 CTTTTAGTGGAGATCAT
66 CTTTCAGTGGAGATCAA
* * * *
857217 ACTTGATTTGTTCCTTATTTTTGGGGTAGTCAGATCAATTTTGGAAGACGTGTCTACTCCACTAT
1 ACTTGATTTGTTCC-TCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTACTCCACTCT
* * *
857282 TCTATCAGGGGAGATTAA
65 TCTTTCAGTGGAGATCAA
* *
857300 ACTTGATTTGTTCATCTTTTTC-AGTAGTCAGATCAATTTTGGAAGACGGGTCTACTCCACTCTT
1 ACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTACTCCACTCTT
857364 CTTTCAGTGGAGATCAA
66 CTTTCAGTGGAGATCAA
857381 ACTTGA
1 ACTTGA
857387 GATTGATTTG
Statistics
Matches: 214, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
81 122 0.57
82 24 0.11
83 68 0.32
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (82 bp):
ACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTACTCCACTCTT
CTTTCAGTGGAGATCAA
Found at i:857329 original size:164 final size:163
Alignment explanation
Indices: 857054--857386 Score: 443
Period size: 164 Copynumber: 2.0 Consensus size: 163
857044 TTCAGGGGAG
* * *
857054 ACTTGATCTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAAACGGGTATGCACCACTCTT
1 ACTTGATCTGTTCCTATTTTTCGGGTAGTCAGATCAATTTTGGAAAACGGGTATACACCACTATT
* * * * *
857119 CTTTCAGGGAGATAAAATTTGATAAGTTCCTCCTTTTCGGGTAGTCAGATCTATTTTGGAAGACG
66 CTATCAGGGAGATAAAACTTGATAAGTTCATCCTTTTCGAGTAGTCAGATCAATTTTGGAAGACG
* * * *
857184 GGTTTGCTCCACTCTTCTTTTAGTGGAGATCAT
131 GGTCTACTCCACTCTTCTTTCAGTGGAGATCAA
* * * * * *
857217 ACTTGATTTGTTCCTTATTTTTGGGGTAGTCAGATCAATTTTGGAAGACGTGTCTACTCCACTAT
1 ACTTGATCTGTTCC-TATTTTTCGGGTAGTCAGATCAATTTTGGAAAACGGGTATACACCACTAT
* ** *
857282 TCTATCAGGGGAGATTAAACTTGATTTGTTCATCTTTTTC-AGTAGTCAGATCAATTTTGGAAGA
65 TCTATCA-GGGAGATAAAACTTGATAAGTTCATCCTTTTCGAGTAGTCAGATCAATTTTGGAAGA
857346 CGGGTCTACTCCACTCTTCTTTCAGTGGAGATCAA
129 CGGGTCTACTCCACTCTTCTTTCAGTGGAGATCAA
857381 ACTTGA
1 ACTTGA
857387 GATTGATTTG
Statistics
Matches: 146, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
163 13 0.09
164 107 0.73
165 26 0.18
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (163 bp):
ACTTGATCTGTTCCTATTTTTCGGGTAGTCAGATCAATTTTGGAAAACGGGTATACACCACTATT
CTATCAGGGAGATAAAACTTGATAAGTTCATCCTTTTCGAGTAGTCAGATCAATTTTGGAAGACG
GGTCTACTCCACTCTTCTTTCAGTGGAGATCAA
Found at i:857571 original size:89 final size:89
Alignment explanation
Indices: 857354--858055 Score: 671
Period size: 89 Copynumber: 7.9 Consensus size: 89
857344 GACGGGTCTA
* * * * **
857354 CTCCACT-CTTCTTTCAGTGGAGATCAAACTTGAGATTGATTTGCTTTTCTACTTTTTTCAGGAA
1 CTCCACTAC-TCTTCCAG-GGAGATCAGACTCGAGATTGATTTGATTCGCTAC-TTTTTCAGGAA
* *
857418 GACCAAATCTGACATAAGAAGAATCAG
63 GACCAAATCTGAGATAAGAAGAATCTG
* *
857445 ----ACTACTCTTCTAGGGAGATCATACTCGAGATTGATTTGATTCGCTACTTTTTCAGGAAGAC
1 CTCCACTACTCTTCCAGGGAGATCAGACTCGAGATTGATTTGATTCGCTACTTTTTCAGGAAGAC
* * *
857506 CAAATATGACATAAGAAGAATCTA
66 CAAATCTGAGATAAGAAGAATCTG
* * * *
857530 CTCCACTACTCTTCCAGGGAGATCAGACTCGAAATTGATTTGCTTCGCTACTCTTTT-GGGAAAA
1 CTCCACTACTCTTCCAGGGAGATCAGACTCGAGATTGATTTGATTCGCTACT-TTTTCAGGAAGA
*
857594 CCAAATCTGAAATAAGAA-AACTCTG
65 CCAAATCTGAGATAAGAAGAA-TCTG
* * * * * * *
857619 CTCCTCTACTCTTCCAGGGAGATCAGACTCGAGATTGATTTGCTTCTCTACTATGTCGGGAATAC
1 CTCCACTACTCTTCCAGGGAGATCAGACTCGAGATTGATTTGATTCGCTACTTTTTCAGGAAGAC
* *
857684 TAAATCT-AGGATAAGAAGAATATG
66 CAAATCTGA-GATAAGAAGAATCTG
* * * * * **
857708 GTCCTA-TACTTTTCCATGGAGATCAGACCCGAGATTGATTTTG-TTCGTTACGCTTTC-GGCAA
1 CTCC-ACTACTCTTCCAGGGAGATCAGACTCGAGATTGA-TTTGATTCGCTACTTTTTCAGG-AA
* *
857770 GACCAAATCTGGGATATGAAGAATCTG
63 GACCAAATCTGAGATAAGAAGAATCTG
* * * *
857797 CTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGTTTCGTTA-TTCTTT-AGGGAAG
1 CTCCACTACTCTTCCAGGGAGATCAGACTCGAGATTGATTTGATTCGCTACTT-TTTCA-GGAAG
* *
857860 ACCAAATTTGTGATAAGAAGAATCTG
64 ACCAAATCTGAGATAAGAAGAATCTG
* * * * * *
857886 CTCCACTACCCTT-AAGGGGAGATTAGACTCAAGATTTATTTGATTCGCTGCTTTTTCAGGAAGA
1 CTCCACTACTCTTCCA-GGGAGATCAGACTCGAGATTGATTTGATTCGCTACTTTTTCAGGAAGA
*
857950 CCAAA-CTTGACATAAGAAGAATCTG
65 CCAAATC-TGAGATAAGAAGAATCTG
* * * * * *
857975 CTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTAATTT-ACTTCTCTACTCTTTCAGGAATA
1 CTCCACTACTCTTCCAGGGAGATCAGACTCGAGATTGATTTGA-TTCGCTACTTTTTCAGGAAGA
858039 CCAAATCTGAGATAAGA
65 CCAAATCTGAGATAAGA
858056 TTGAATTATC
Statistics
Matches: 507, Mismatches: 78, Indels: 54
0.79 0.12 0.08
Matches are distributed among these distances:
85 35 0.07
86 29 0.06
87 9 0.02
88 13 0.03
89 405 0.80
90 16 0.03
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (89 bp):
CTCCACTACTCTTCCAGGGAGATCAGACTCGAGATTGATTTGATTCGCTACTTTTTCAGGAAGAC
CAAATCTGAGATAAGAAGAATCTG
Found at i:859330 original size:40 final size:41
Alignment explanation
Indices: 859222--859367 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 41
859212 ATGGGACTTC
* *
859222 AAAAA-TGTCCCAACATTTATTCTTTTGGATGATACGGACCTT
1 AAAAAGTGCCCCAACATTTATT-TCTT-GATGATACGGACCTT
* * * *
859264 AAAAAGTG-CCCACCATTCATCATTTCTTGCTCATACGGTCCTT
1 AAAAAGTGCCCCAACATT--T-ATTTCTTGATGATACGGACCTT
* * **
859307 CAAAA-TGCCCCAACATTTATTTCTTGTTGATAAAGACCTT
1 AAAAAGTGCCCCAACATTTATTTCTTGATGATACGGACCTT
859347 AAAAAGTGCCCC-ACATTTATT
1 AAAAAGTGCCCCAACATTTATT
859368 ACTTCTGGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
40 30 0.35
41 7 0.08
42 15 0.18
43 26 0.31
44 4 0.05
45 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (41 bp):
AAAAAGTGCCCCAACATTTATTTCTTGATGATACGGACCTT
Found at i:866943 original size:3 final size:3
Alignment explanation
Indices: 866932--866988 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
866922 AATTATTATT
* * * * * *
866932 TAA TGA TAA TAA TAA TAA TAA TAG TAG TAG TAG TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
866980 TAA TAA TAA
1 TAA TAA TAA
866989 AGGATACCCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:867570 original size:18 final size:18
Alignment explanation
Indices: 867549--867587 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
867539 TGGCGATGAC
*
867549 GATGATGATGGTGGTTGT
1 GATGATGATGGTGGTGGT
*
867567 GATGATGGTGGTGGTGGT
1 GATGATGATGGTGGTGGT
867585 GAT
1 GAT
867588 ACTGATGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.49, T:0.36
Consensus pattern (18 bp):
GATGATGATGGTGGTGGT
Found at i:867587 original size:15 final size:15
Alignment explanation
Indices: 867551--867587 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
867541 GCGATGACGA
*
867551 TGATGATGGTGGTTG
1 TGATGATGGTGGTGG
867566 TGATGATGGTGGTGG
1 TGATGATGGTGGTGG
*
867581 TGGTGAT
1 TGATGAT
867588 ACTGATGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.38
Consensus pattern (15 bp):
TGATGATGGTGGTGG
Found at i:867808 original size:26 final size:26
Alignment explanation
Indices: 867758--867808 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
867748 CGTTAGTTTT
***
867758 ATATTTAATTAATCGAACTTGTAAAA
1 ATATTTAATTAATCGAACCAATAAAA
*
867784 ATATTTAGTTAATCGAACCAATAAA
1 ATATTTAATTAATCGAACCAATAAA
867809 TACAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (26 bp):
ATATTTAATTAATCGAACCAATAAAA
Found at i:869220 original size:200 final size:201
Alignment explanation
Indices: 868800--869279 Score: 498
Period size: 200 Copynumber: 2.4 Consensus size: 201
868790 TACTTAGAAT
* * * * * *
868800 GTCTCCTATGTGTCGATACTAGTCTCAATTGAAACATAAG-TACCAATACTATACCTGTAATTTT
1 GTCTCCTATGTGTCGATATTACTCTCAATTGAAAGATAAGTTA-CAATACTACACCTCTAATCTT
** * *
868864 ATAAATTACGAAAATTTTTATATGAACTTCCCGAAAATACTCCCCAAACATGCCTATCAAGCCAT
65 ATAAATTACGAAAATTTACATATGAACTACCCGAAAATACTCCCCAAACATGCCTATCAAACCAT
* *
868929 TTTAGCTTCTTTTTCATGCACAAAACCAAACTTTGGAACCATTTTGAATGCAAAATTTACCCTGC
130 TTTAGCTTCTTTTTCATGAACAAAACCAAACTTTGGAACCATTTTCAATGCAAAATTTACCCTGC
868994 TTACAAA
195 TTACAAA
* * * *
869001 GTCTCTTATGTGCCGATATTACTCTCAATTAAAAGATAAGTTACAACACTACACCTCTAATCTTA
1 GTCTCCTATGTGTCGATATTACTCTCAATTGAAAGATAAGTTACAATACTACACCTCTAATCTTA
* * *
869066 TAAATTACAAAAATTTCACAT-TG-ACTACCCGAGAAA-AC-CCCTCAAATATGCTTATCAAACC
66 TAAATTACGAAAATTT-ACATATGAACTACCCGA-AAATACTCCC-CAAACATGCCTATCAAACC
* * * **
869127 ATTTTAGCTT-TTTCTTCATGAACAAAA-CAAGCTTTGGAACCTTTTTTCAATGCGATTTTTAAC
128 ATTTTAGCTTCTTT-TTCATGAACAAAACCAAACTTTGGAACC-ATTTTCAATGCAAAATTT-AC
* *
869190 CC-GTTTGCAATA
190 CCTGCTTACAA-A
* * * * *
869202 -TCTCGTATGTGTCGATATTTGC-CTCAACTGAAAGATAAATTCCAATA-T-CAAGCCTCTAATC
1 GTCTCCTATGTGTCGATA-TTACTCTCAATTGAAAGATAAGTTACAATACTAC-A-CCTCTAATC
869263 TTATAAATTACGAAAAT
63 TTATAAATTACGAAAAT
869280 GTTTAGACTA
Statistics
Matches: 233, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
198 1 0.00
199 21 0.09
200 127 0.55
201 80 0.34
202 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (201 bp):
GTCTCCTATGTGTCGATATTACTCTCAATTGAAAGATAAGTTACAATACTACACCTCTAATCTTA
TAAATTACGAAAATTTACATATGAACTACCCGAAAATACTCCCCAAACATGCCTATCAAACCATT
TTAGCTTCTTTTTCATGAACAAAACCAAACTTTGGAACCATTTTCAATGCAAAATTTACCCTGCT
TACAAA
Found at i:873194 original size:23 final size:23
Alignment explanation
Indices: 873168--873236 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
873158 CACCACAGCT
*
873168 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
873191 CGTAGAATTGCACCGGAGTGTCG
1 CGTAGAATTGCACCGAAGTGCCA
*
873214 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
873237 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:879995 original size:23 final size:23
Alignment explanation
Indices: 879969--880032 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
879959 CAGCTCGTAT
879969 AATTGCACCGAAGTGCCACGCAG
1 AATTGCACCGAAGTGCCACGCAG
* * *
879992 AATTGTACC-AGAGTGCCGCGTAG
1 AATTGCACCGA-AGTGCCACGCAG
*
880015 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
880033 TATAATAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGCAG
Found at i:880728 original size:21 final size:21
Alignment explanation
Indices: 880704--880755 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
880694 GAGGGAGGAT
880704 CGATTCCCCTTGAATGGGTAC
1 CGATTCCCCTTGAATGGGTAC
880725 CGATTCCCCTTGAATGGGTAC
1 CGATTCCCCTTGAATGGGTAC
880746 CGATTCCCCT
1 CGATTCCCCT
880756 AGCCCAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.33, G:0.21, T:0.29
Consensus pattern (21 bp):
CGATTCCCCTTGAATGGGTAC
Found at i:885339 original size:19 final size:20
Alignment explanation
Indices: 885292--885342 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
885282 GAAACCCCTT
**
885292 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
885312 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
885331 TGAAGATACATG
1 TGAAAATACATG
885343 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:888969 original size:39 final size:39
Alignment explanation
Indices: 888926--889027 Score: 129
Period size: 39 Copynumber: 2.6 Consensus size: 39
888916 AGGTTGAACA
** *
888926 AGTTCTTCTCATTATGAACTTCTTCT-TTTTCTTCGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTT-TTCAGATG
888965 AGTTCTTCTCATTATGAACTT-TATCTCCCTTTTCAGATG
1 AGTTCTTCTCATTATGAACTTCT-TCTCCCTTTTCAGATG
*
889004 AGTTCTTCTCATTTTGAAC-TCTTC
1 AGTTCTTCTCATTATGAACTTCTTC
889028 ACTGGAAATG
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
38 4 0.07
39 50 0.89
40 2 0.04
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.49
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTTTTCAGATG
Found at i:889180 original size:139 final size:138
Alignment explanation
Indices: 888965--889618 Score: 734
Period size: 139 Copynumber: 4.8 Consensus size: 138
888955 TCTTCGGATG
** * * *
888965 AGTTCTTCTCATTATGAACTT-TATCTCCCTTTTCAGATGAGTTCTTCTCATTTTGAACTCTTCA
1 AGTTCTTCTCATTATGAACTTCT-TCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCA
* * *
889029 CTGGAAATGTTGATCCCTCGAGCGAGGGGTTGCTTATTCAACTCCATATGTGATGAATTGAGCTA
65 CTGGAAATGTTGATCCCTCGAGTGAGGGGTTGCTGATTCAACTCCATATGT-ATGAATCGAGCTA
889094 AGGTTGAACA
129 AGGTTGAACA
* * * * *
889104 AGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGGGTTTTTCCCATTATGAACTCTCCAT
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
* * * * * *
889169 TGGAAATGTTGA----T---GTTA---ATT--T-ATCTC-A-TTC-TGTG-ATAGATTCGAGCAA
66 TGGAAATGTTGATCCCTCGAGTGAGGGGTTGCTGAT-TCAACTCCATATGTAT-GAATCGAGC-T
889217 AAGGTTGAACA
128 AAGGTTGAACA
* *
889228 AGTTCTTCTCATTATAAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
* *
889293 TGGAAATGTTGATCCCTCGAGTGAGAGGTTGCTGATTCAACTCTATATGCTATGAATCGAGCTAA
66 TGGAAATGTTGATCCCTCGAGTGAGGGGTTGCTGATTCAACTCCATATG-TATGAATCGAGCTAA
889358 GGTTGAACA
130 GGTTGAACA
* * * ** * **
889367 AGTTATTCTCATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCATCTCATTATGAACT-TCTTC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
** * *
889431 TGGAAATGTTGATCCCTCGAGAAAGGGGTCGCTGATTCAACTCCATATGCGATGAATCGAGCTAA
66 TGGAAATGTTGATCCCTCGAGTGAGGGGTTGCTGATTCAACTCCATATG-TATGAATCGAGCTAA
889496 GGTTGAACA
130 GGTTGAACA
*
889505 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTTTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
* * * * **
889570 TGTAAATGTTAATACCTCGAGTGATGGGTCACTGATTCAACTCCATATG
66 TGGAAATGTTGATCCCTCGAGTGAGGGGTTGCTGATTCAACTCCATATG
889619 CAATGAATTT
Statistics
Matches: 432, Mismatches: 60, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
122 2 0.00
123 7 0.02
124 84 0.19
125 2 0.00
126 3 0.01
127 3 0.01
128 1 0.00
129 2 0.00
131 3 0.01
132 2 0.00
134 2 0.00
135 1 0.00
136 3 0.01
137 3 0.01
138 125 0.29
139 178 0.41
140 9 0.02
141 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (138 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
TGGAAATGTTGATCCCTCGAGTGAGGGGTTGCTGATTCAACTCCATATGTATGAATCGAGCTAAG
GTTGAACA
Found at i:889544 original size:138 final size:138
Alignment explanation
Indices: 889217--889626 Score: 613
Period size: 138 Copynumber: 3.0 Consensus size: 138
889207 ATTCGAGCAA
*
889217 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
* * * *
889282 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGAGGTTGCTGATTCAACTCTATATGCTATG
66 GAACT-TCCACTGGAAATGTTGATCCCTCGAGTGAGGGGTCGCTGATTCAACTCCATATGCAATG
889347 AATCGAGCT
130 AATCGAGCT
* * ** *
889356 AAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCATCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
** ** *
889421 GAACTTCTTCTGGAAATGTTGATCCCTCGAGAAAGGGGTCGCTGATTCAACTCCATATGCGATGA
66 GAACTTCCACTGGAAATGTTGATCCCTCGAGTGAGGGGTCGCTGATTCAACTCCATATGCAATGA
889486 ATCGAGCT
131 ATCGAGCT
*
889494 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
* * * * *
889559 GAACTTTCCACTGTAAATGTTAATACCTCGAGTGATGGGTCACTGATTCAACTCCATATGCAATG
66 GAAC-TTCCACTGGAAATGTTGATCCCTCGAGTGAGGGGTCGCTGATTCAACTCCATATGCAATG
889624 AAT
130 AAT
889627 TTGAGAGAAA
Statistics
Matches: 240, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
138 123 0.51
139 117 0.49
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (138 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
GAACTTCCACTGGAAATGTTGATCCCTCGAGTGAGGGGTCGCTGATTCAACTCCATATGCAATGA
ATCGAGCT
Found at i:889679 original size:36 final size:36
Alignment explanation
Indices: 889639--889823 Score: 160
Period size: 37 Copynumber: 5.1 Consensus size: 36
889629 GAGAGAAATG
889639 AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
1 AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
** * * * * *
889675 AAATTTTGTTTCGAGTGAAAACTGTCTTAAGCGAGACA
1 AAA-TTTGTTTTAAG-AAAAACTATCTCAAGTGAGATA
* *
889713 AAGTTTGTTTTAAGAAAAACTATCTCGAGTGAGAT-
1 AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
* ** *
889748 AAATTTCTATTTCAAGTGAAAC-AGTCTCAAGCGAGA-A
1 AAATTTGT-TTT-AAGAAAAACTA-TCTCAAGTGAGATA
* *
889785 AAAGTTTGTTTTAAGAAAAACTATCTCGAGTGACATA
1 AAA-TTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
889822 AA
1 AA
889824 TTTCTATTTC
Statistics
Matches: 112, Mismatches: 28, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
35 6 0.05
36 38 0.34
37 45 0.40
38 23 0.21
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (36 bp):
AAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATA
Found at i:889795 original size:73 final size:74
Alignment explanation
Indices: 889642--889836 Score: 304
Period size: 73 Copynumber: 2.6 Consensus size: 74
889632 AGAAATGAAA
* * * * *
889642 TTTGTTTTAAGAAAAACTATCTCAAGTGAGATAAAATTT-TGTTTCGAGTGAAAACTGTCTTAAG
1 TTTGTTTTAAGAAAAACTATCTCGAGTGAGAT-AAATTTCTATTTCAAGTGAAAACAGTCTCAAG
*
889706 CGAGACAAAG
65 CGAGAAAAAG
889716 TTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTATTTCAAGTG-AAACAGTCTCAAGC
1 TTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTATTTCAAGTGAAAACAGTCTCAAGC
889780 GAGAAAAAG
66 GAGAAAAAG
*
889789 TTTGTTTTAAGAAAAACTATCTCGAGTGACATAAATTTCTATTTCAAG
1 TTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTATTTCAAG
889837 CGAGATAAAT
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
73 73 0.65
74 40 0.35
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (74 bp):
TTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTATTTCAAGTGAAAACAGTCTCAAGC
GAGAAAAAG
Found at i:891263 original size:11 final size:11
Alignment explanation
Indices: 891239--891350 Score: 70
Period size: 11 Copynumber: 10.3 Consensus size: 11
891229 TCTTGTCCTC
*
891239 TTTTTCTTT-A
1 TTTTTCTTTGT
891249 TTTTTCTTTGT
1 TTTTTCTTTGT
891260 TTTTTCTTTGT
1 TTTTTCTTTGT
* *
891271 TTTTCCTTT-A
1 TTTTTCTTTGT
*
891281 TTTTTCTTTTTT
1 TTTTTC-TTTGT
*
891293 TCTTTTCTCT-T
1 T-TTTTCTTTGT
*
891304 TTTTTCATTGT
1 TTTTTCTTTGT
** * *
891315 TCATT-GTTCT
1 TTTTTCTTTGT
*
891325 TTGTTCTTTGT
1 TTTTTCTTTGT
891336 TTTTTCTTTGCT
1 TTTTTCTTTG-T
891348 TTT
1 TTT
891351 ATACTCACCT
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
10 26 0.33
11 40 0.51
12 7 0.09
13 5 0.06
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (11 bp):
TTTTTCTTTGT
Found at i:891264 original size:21 final size:19
Alignment explanation
Indices: 891239--891297 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
891229 TCTTGTCCTC
*
891239 TTTTTCTTTATTTTTCTTTGT
1 TTTTTCTTT-TTTTTCTTT-A
891260 TTTTTCTTTGTTTTTCCTTTA
1 TTTTTCTTT-TTTTT-CTTTA
891281 TTTTTC-TTTTTTTCTTT
1 TTTTTCTTTTTTTTCTTT
891298 TCTCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 2 0.06
21 20 0.57
22 4 0.11
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTTCTTTTTTTTCTTTA
Found at i:891305 original size:15 final size:14
Alignment explanation
Indices: 891237--891309 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 14
891227 CTTCTTGTCC
891237 TCTTTTTCTTTATTT
1 TCTTTTTCTTT-TTT
* *
891252 T-TCTTT-GTTTTT
1 TCTTTTTCTTTTTT
*
891264 TCTTTGTT-TTTCCTT
1 TCTTT-TTCTTT-TTT
*
891279 TATTTTTCTTTTTT
1 TCTTTTTCTTTTTT
891293 TCTTTTCTCTTTTTT
1 TCTTTT-TCTTTTTT
891308 TC
1 TC
891310 ATTGTTCATT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
12 4 0.09
13 4 0.09
14 17 0.38
15 20 0.44
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:891306 original size:32 final size:32
Alignment explanation
Indices: 891236--891306 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 32
891226 GCTTCTTGTC
891236 CTCTTTTTCTTTATTTTTCTTTGTTTTTTCTT
1 CTCTTTTTCTTTATTTTTCTTTGTTTTTTCTT
*
891268 -TGTTTTTCCTTTATTTTTCTTT-TTTTCTT-TT
1 CTCTTTTT-CTTTATTTTTCTTTGTTTT-TTCTT
891299 CTCTTTTT
1 CTCTTTTT
891307 TTCATTGTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 12 0.35
32 22 0.65
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (32 bp):
CTCTTTTTCTTTATTTTTCTTTGTTTTTTCTT
Found at i:892373 original size:20 final size:19
Alignment explanation
Indices: 892357--892403 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
892347 TGTATATGTT
892357 AATGCAAATATGCATATGCA
1 AATGCAAA-ATGCATATGCA
*
892377 AATGCAAAATGCGAGATGCA
1 AATGCAAAATGC-ATATGCA
892397 AATGCAA
1 AATGCAA
892404 CAAGGAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (19 bp):
AATGCAAAATGCATATGCA
Found at i:892824 original size:149 final size:149
Alignment explanation
Indices: 892549--892828 Score: 352
Period size: 149 Copynumber: 1.9 Consensus size: 149
892539 TTCAAAGCAT
* * * * **
892549 CTACCTCATCTCCTACTTTCATAAGTCTTTCAAGCTGGTTCGTGTTCTTCAACTGCTGGCTTTGG
1 CTACCTCATCTCCTACTTCCATAAATCTTTCAAGCTGGTTCGTGATCTTCAACTACTGGCTTCAG
* *
892614 CATCGAATCGTCTCGAGTCCAACTTGTTACCTCAGCAGACAAATGTCTGGATCATCTCCTTGGTA
66 CATCAAATCGTCTCGAGTCCAACTTGTTACCTCAGCAGACAAACGTCTGGATCATCTCCTTGGTA
892679 GATATACTCCTTATAGCTC
131 GATATACTCCTTATAGCTC
* *
892698 CTACTTCATCTCCTA-TTGCCATAAATCTTTCAA-CATGGTTCGTGATCTTCAACTATTGGCTTC
1 CTACCTCATCTCCTACTT-CCATAAATCTTTCAAGC-TGGTTCGTGATCTTCAACTACTGGCTTC
* * * * **
892761 AGCGTCAAATCGTCTCGAGTCTAACCTT-TTACCTCAGCA-AGCATACGTCTGGCTGGTCTCCTT
64 AGCATCAAATCGTCTCGAGTCCAA-CTTGTTACCTCAGCAGA-CAAACGTCTGGATCATCTCCTT
892824 GGTAG
127 GGTAG
892829 GTAGGCTCCC
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
148 4 0.04
149 104 0.94
150 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (149 bp):
CTACCTCATCTCCTACTTCCATAAATCTTTCAAGCTGGTTCGTGATCTTCAACTACTGGCTTCAG
CATCAAATCGTCTCGAGTCCAACTTGTTACCTCAGCAGACAAACGTCTGGATCATCTCCTTGGTA
GATATACTCCTTATAGCTC
Found at i:896171 original size:44 final size:44
Alignment explanation
Indices: 896122--896220 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
896112 ATAAGTGATA
* *
896122 TGATTACATGAGTACAAGATATAAAGCATGTGAAAAGAGATATG
1 TGATTACATGAGTACAAGATATAAAGCATGTGAAAAAAGAAATG
896166 TGATTACATGAGTACAAGATATAAAGCATGTGAAAAAAGAAATG
1 TGATTACATGAGTACAAGATATAAAGCATGTGAAAAAAGAAATG
896210 TGATTACATGA
1 TGATTACATGA
896221 AAGTATGATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (44 bp):
TGATTACATGAGTACAAGATATAAAGCATGTGAAAAAAGAAATG
Found at i:896371 original size:21 final size:21
Alignment explanation
Indices: 896347--896396 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
896337 TTCTACGTGG
896347 TCCTTC-GAGACATATATGTAA
1 TCCTTCGGA-ACATATATGTAA
* *
896368 TCCTTTGGAACATATATGTAG
1 TCCTTCGGAACATATATGTAA
*
896389 TACTTCGG
1 TCCTTCGG
896397 TACACTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:897756 original size:39 final size:39
Alignment explanation
Indices: 897711--897803 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
897701 GTTGAACAAG
* *
897711 TTCTCATTATGAACTT-T-TTCTTTTTCTTCGGATGAGTTC
1 TTCTCATTATGAACTTCTATTC-TCTT-TTCAGATGAGTTC
*
897750 TTCTCATTATAAACTTCTATTCTCTTTTCAGATGAGTTC
1 TTCTCATTATGAACTTCTATTCTCTTTTCAGATGAGTTC
897789 TTCTCATTATGAACT
1 TTCTCATTATGAACT
897804 CTCCACTGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 41 0.85
40 4 0.08
41 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.51
Consensus pattern (39 bp):
TTCTCATTATGAACTTCTATTCTCTTTTCAGATGAGTTC
Found at i:898287 original size:137 final size:138
Alignment explanation
Indices: 898000--898404 Score: 555
Period size: 137 Copynumber: 2.9 Consensus size: 138
897990 CAAGAAAAAT
* *
898000 GTTGAACATGTTCTTCTCATTATGAAATTCTTCTTCCTCATCGGATGAGTTT-TTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGGATGA-TTTCTTCTCATTATGA
* * * * * *
898064 ACCCTCCACCGGAAATGTTGATCCCTCGAGTGAAGGGTTGCTGATTCAGCTCCATATGCGATGAA
65 A-CTTCCACCGGAAATGTTGATCCCACAAGTGAGGGGTCGATGATTCAGCTCCATATGCGATGAA
898129 TCGAGCTAAG
129 TCGAGCTAAG
* *
898139 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGATTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGGATGATTTCTTCTCATTATGAA
** * * *
898204 CTTCTTCTGGAAATGTTGATCCC-CAAGTGAGGGGTCGATTATTCAGCTCCATATGTGATGAATC
66 CTTCCACCGGAAATGTTGATCCCACAAGTGAGGGGTCGATGATTCAGCTCCATATGCGATGAATC
898268 GAGCTAAG
131 GAGCTAAG
* *
898276 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGGATGATTTCTTCTCATTATGAA
* * * * *
898341 CTCTCCACCAGAAATATTTATCCCACTAGTGAGGGGTC-ACTGATTCAACTCCATATGCGATGAA
66 CT-TCCACCGGAAATGTTGATCCCACAAGTGAGGGGTCGA-TGATTCAGCTCCATATGCGATGAA
898405 CTTGAGCAAA
Statistics
Matches: 234, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
137 106 0.45
138 38 0.16
139 90 0.38
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (138 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGGATGATTTCTTCTCATTATGAA
CTTCCACCGGAAATGTTGATCCCACAAGTGAGGGGTCGATGATTCAGCTCCATATGCGATGAATC
GAGCTAAG
Found at i:898474 original size:37 final size:36
Alignment explanation
Indices: 898433--898614 Score: 150
Period size: 37 Copynumber: 5.0 Consensus size: 36
898423 TGTTTTAAGA
* *
898433 AAAACTATCTCAAGAGAGATAAATTTTATTTCGAGTG
1 AAAACTATCTCAAGCGAGATAAATTTTATTTCAAG-G
* * * * * *
898470 AAAACTGTCTCAAGCGAGACAAAGTTTGTTTTAAGA
1 AAAACTATCTCAAGCGAGATAAATTTTATTTCAAGG
* * *
898506 AAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAGTG
1 AAAACTATCTCAAGCGAGATAAATTT-TATTTCAAG-G
* * * *
898544 -AAACTATCTTAAGCGAGACAAAGTTTATTTTAAGG
1 AAAACTATCTCAAGCGAGATAAATTTTATTTCAAGG
** * *
898579 AAAACTATCTTGAGTGAGATAAATTTCTGTTTCAAG
1 AAAACTATCTCAAGCGAGATAAATTT-TATTTCAAG
898615 CGAGATAAAT
Statistics
Matches: 113, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
35 1 0.01
36 49 0.43
37 63 0.56
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (36 bp):
AAAACTATCTCAAGCGAGATAAATTTTATTTCAAGG
Found at i:898548 original size:73 final size:74
Alignment explanation
Indices: 898422--898614 Score: 291
Period size: 73 Copynumber: 2.6 Consensus size: 74
898412 AAAATGAAAA
* * * * *
898422 TTGTTTTAAGAAAAACTATCTCAAGAGAGATAAATTT-TATTTCGAGTGAAAACTGTCTCAAGCG
1 TTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAGTGAAAACTATCTCAAGCG
898486 AGACAAAGT
66 AGACAAAGT
*
898495 TTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAGTG-AAACTATCTTAAGCG
1 TTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAGTGAAAACTATCTCAAGCG
898559 AGACAAAGT
66 AGACAAAGT
* * *
898568 TTATTTTAAGGAAAACTATCTTGAGTGAGATAAATTTCTGTTTCAAG
1 TTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAG
898615 CGAGATAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
73 101 0.92
74 9 0.08
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (74 bp):
TTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAGTGAAAACTATCTCAAGCG
AGACAAAGT
Found at i:898588 original size:36 final size:36
Alignment explanation
Indices: 898425--898588 Score: 152
Period size: 37 Copynumber: 4.5 Consensus size: 36
898415 ATGAAAATTG
* * * *
898425 TTTTAAGAAAAACTATCTCAAGAGAGATAAATTTTA
1 TTTTAAGGAAAACTATCTCAAGCGAGACAAAGTTTA
** * *
898461 TTTCGAGTGAAAACTGTCTCAAGCGAGACAAAGTTTG
1 TTTTAAG-GAAAACTATCTCAAGCGAGACAAAGTTTA
* * * * *
898498 TTTTAAGAAAAACTATCTCGAGTGAGATAAA-TTTC
1 TTTTAAGGAAAACTATCTCAAGCGAGACAAAGTTTA
*
898533 TGTTTCAAGTG-AAACTATCTTAAGCGAGACAAAGTTTA
1 T-TTT-AAG-GAAAACTATCTCAAGCGAGACAAAGTTTA
898571 TTTTAAGGAAAACTATCT
1 TTTTAAGGAAAACTATCT
898589 TGAGTGAGAT
Statistics
Matches: 100, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
35 5 0.05
36 39 0.39
37 52 0.52
38 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (36 bp):
TTTTAAGGAAAACTATCTCAAGCGAGACAAAGTTTA
Found at i:900084 original size:17 final size:17
Alignment explanation
Indices: 900057--900122 Score: 77
Period size: 16 Copynumber: 4.0 Consensus size: 17
900047 CTTCTTGTCA
900057 TCTTTTTCTTTG-TTTT
1 TCTTTTTCTTTGCTTTT
900073 TCTTTCTTCTTTGCTTTT
1 TCTTT-TTCTTTGCTTTT
900091 TCTTTTT-TTT-CTCTTT
1 TCTTTTTCTTTGCT-TTT
*
900107 T-TTTTTCTTTTCTTTT
1 TCTTTTTCTTTGCTTTT
900123 ATCCCCACCT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.16
16 18 0.40
17 11 0.24
18 9 0.20
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (17 bp):
TCTTTTTCTTTGCTTTT
Found at i:900095 original size:11 final size:10
Alignment explanation
Indices: 900057--900122 Score: 57
Period size: 11 Copynumber: 6.6 Consensus size: 10
900047 CTTCTTGTCA
900057 TCTTTTTCTT
1 TCTTTTTCTT
*
900067 TGTTTTTCTT
1 TCTTTTTCTT
900077 TC---TTCTT
1 TCTTTTTCTT
900084 TGCTTTTTCTT
1 T-CTTTTTCTT
*
900095 TTTTTTCTCTT
1 TCTTTT-TCTT
*
900106 TTTTTTTCTTT
1 TCTTTTTC-TT
900117 TCTTTT
1 TCTTTT
900123 ATCCCCACCT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 6 0.13
8 1 0.02
10 16 0.35
11 23 0.50
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:901705 original size:149 final size:149
Alignment explanation
Indices: 901426--901705 Score: 364
Period size: 149 Copynumber: 1.9 Consensus size: 149
901416 TTCAAAGCAT
* * * * * ***
901426 CTACCTCATCTCCTACTTTCAGAAGTCTTTCGAGCTATTTCATGATCTTTAATTGTTGTCTTTGG
1 CTACCTCACCTCCTACTTTCAGAAATCTTTCAAGCTAGTTCATGATCTTTAATTGTTGGCTTCAA
* *
901491 CATCGAATCGTCTCGAGTCCAACTTGTTACGTCAGCAGGCAAATGTCTGGATCGTCTCATTGGTA
66 CATCAAATCGTCTCGAGTCCAACTTGTTACCTCAGCAGGCAAATGTCTGGATCGTCTCATTGGTA
901556 GATATACTCCCTCTATCTC
131 GATATACTCCCTCTATCTC
* * *
901575 CTACTTCACCTCCTA-TTTCTAGAAATCTTTCAAGCTGGTTCGTGATCTTTAATTGTTGGCTTCA
1 CTACCTCACCTCCTACTTTC-AGAAATCTTTCAAGCTAGTTCATGATCTTTAATTGTTGGCTTCA
* * * * * * *
901639 ACTTCAAATCGTCTCGAGTCCAACTTGTTACCTTAGCAGGTAGATGTCTGGCTGGTCTCCTTGGT
65 ACATCAAATCGTCTCGAGTCCAACTTGTTACCTCAGCAGGCAAATGTCTGGATCGTCTCATTGGT
901704 AG
130 AG
901706 GTAGGCTCCC
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
148 4 0.04
149 106 0.96
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (149 bp):
CTACCTCACCTCCTACTTTCAGAAATCTTTCAAGCTAGTTCATGATCTTTAATTGTTGGCTTCAA
CATCAAATCGTCTCGAGTCCAACTTGTTACCTCAGCAGGCAAATGTCTGGATCGTCTCATTGGTA
GATATACTCCCTCTATCTC
Found at i:903361 original size:15 final size:15
Alignment explanation
Indices: 903336--903370 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
903326 TGACTAAAAT
903336 GAAAT-AAATAAAGA
1 GAAATAAAATAAAGA
903350 GAAATAAAATAAAGA
1 GAAATAAAATAAAGA
903365 GAAATA
1 GAAATA
903371 TTTAAAGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
GAAATAAAATAAAGA
Found at i:905263 original size:138 final size:139
Alignment explanation
Indices: 904989--905399 Score: 499
Period size: 138 Copynumber: 3.0 Consensus size: 139
904979 ATTCGAGCAA
* * *
904989 AAGGTTGAATAAGTTATTCTTGTTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
* *
905054 -AAGCTCTCTACTAGAAATGTGGATCCATCGAGTGAGGGGTCGCTGATTCAACTCCATATGTGAT
66 GAA-CTCTATACTAGAAATGTGGATCCATCGAGTGAGGGGTCGCTGATTCAACTCCATATGCGAT
905118 GAATCGAGCT
130 GAATCGAGCT
* * * *
905128 AAGGTTGAACACGTTCTTCTTATTATTAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
* * * * *
905193 GAACT-TATTC-AGGAAATGTTGATCCCTCGA-TAGAGGGGTCGTTGATTCAGCTCCATATGCGA
66 GAACTCTATACTA-GAAATGTGGATCCATCGAGT-GAGGGGTCGCTGATTCAACTCCATATGCGA
905255 TGAATCGAGCT
129 TGAATCGAGCT
* ** *
905266 AAGGTTGAACATGTTCTTCTCCTTATGAACTTCTTCTGCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
** * ** ** * *
905331 GAACTCTCCACTGGAAATGTTAATCTC-TCGAGTGAGGGGGTCAATTATTCAACTCCATATACGA
66 GAACTCTATACTAGAAATGTGGATC-CATCGAGTGA-GGGGTCGCTGATTCAACTCCATATGCGA
905395 TGAAT
129 TGAAT
905400 TTGAGCGAAA
Statistics
Matches: 233, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
137 2 0.01
138 120 0.52
139 79 0.34
140 32 0.14
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (139 bp):
AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCATCGGATGAGTTCTTCTCATTAT
GAACTCTATACTAGAAATGTGGATCCATCGAGTGAGGGGTCGCTGATTCAACTCCATATGCGATG
AATCGAGCT
Found at i:905543 original size:37 final size:36
Alignment explanation
Indices: 905411--905609 Score: 175
Period size: 37 Copynumber: 5.4 Consensus size: 36
905401 TGAGCGAAAT
* *
905411 TAAA-TTTGTTTTAAGAAAAACTATCTCATGTGAGA
1 TAAATTTTGTTTCAAGAAAAACTATCTCAAGTGAGA
* * * * * *
905446 TAGAATTTTGTTTCGAGTGAAAACTGTTTCAAGCGATA
1 TA-AATTTTGTTTCAAG-AAAAACTATCTCAAGTGAGA
* * * *
905484 CAAAGTTTGTTTTAAGAAAAACTATCTCGAGTGAGA
1 TAAATTTTGTTTCAAGAAAAACTATCTCAAGTGAGA
** * *
905520 TAAATTTCTGTTTCAAGTGAAACTGTCGCAAGTGAGA
1 TAAATTT-TGTTTCAAGAAAAACTATCTCAAGTGAGA
* * * *
905557 CAAATTTTGTTTTAAGAAAAACTATCTCGAGTGACA
1 TAAATTTTGTTTCAAGAAAAACTATCTCAAGTGAGA
905593 TAAATTTCTGTTTCAAG
1 TAAATTT-TGTTTCAAG
905610 CGAGATAAAT
Statistics
Matches: 123, Mismatches: 36, Indels: 8
0.74 0.22 0.05
Matches are distributed among these distances:
35 2 0.02
36 49 0.40
37 57 0.46
38 15 0.12
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (36 bp):
TAAATTTTGTTTCAAGAAAAACTATCTCAAGTGAGA
Found at i:905569 original size:73 final size:74
Alignment explanation
Indices: 905415--905609 Score: 288
Period size: 73 Copynumber: 2.6 Consensus size: 74
905405 CGAAATTAAA
* **
905415 TTTGTTTTAAGAAAAACTATCTC-ATGTGAGATAGAATTT-TGTTTCGAGTGAAAACTGTTTCAA
1 TTTGTTTTAAGAAAAACTATCTCGA-GTGAGATA-AATTTCTGTTTCAAGTGAAAACTGTCGCAA
*
905478 GCGATACAAAG
64 GCGAGACAAAG
*
905489 TTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAGTG-AAACTGTCGCAAGT
1 TTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAGTGAAAACTGTCGCAAGC
*
905553 GAGACAAAT
66 GAGACAAAG
*
905562 TTTGTTTTAAGAAAAACTATCTCGAGTGACATAAATTTCTGTTTCAAG
1 TTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAG
905610 CGAGATAAAT
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
73 70 0.62
74 41 0.37
75 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (74 bp):
TTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCAAGTGAAAACTGTCGCAAGC
GAGACAAAG
Found at i:907160 original size:10 final size:10
Alignment explanation
Indices: 907130--907180 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
907120 CTTCTTGTCC
907130 TCTTT-TTTT
1 TCTTTCTTTT
907139 TCTTTTCTTTT
1 TC-TTTCTTTT
*
907150 CTTTTTCTTTCT
1 -TCTTTCTTT-T
907162 TCTTTGCTTTT
1 TCTTT-CTTTT
907173 TCTTTCTT
1 TCTTTCTT
907181 CTTTGTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 2 0.06
10 6 0.17
11 21 0.60
12 6 0.17
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:907164 original size:18 final size:18
Alignment explanation
Indices: 907135--907190 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
907125 TGTCCTCTTT
*
907135 TTTTTC-TT-TTCTTTTC
1 TTTTTCTTTCTTCTTTGC
907151 TTTTTCTTTCTTCTTTGC
1 TTTTTCTTTCTTCTTTGC
907169 TTTTTCTTTCTTCTTTG-
1 TTTTTCTTTCTTCTTTGC
907186 TTTTT
1 TTTTT
907191 TTATTTTGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
16 6 0.16
17 7 0.19
18 24 0.65
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTCTTCTTTGC
Found at i:907166 original size:7 final size:6
Alignment explanation
Indices: 907135--907209 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
907125 TGTCCTCTTT
*
907135 TTTTTC -TTTTC -TTTTC TTTTTC TTTCTTC -TTTGC TTTTTC TTTCTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTT-TTC TTTTTC TTTTTC TTT-TTC
* *
907182 TTTGTT- TTTTTA TTTTGTC TTTTCC TTT
1 TTT-TTC TTTTTC TTTT-TC TTTTTC TTT
907210 ATCCTCGCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
5 14 0.24
6 28 0.48
7 16 0.28
ACGTcount: A:0.01, C:0.17, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:908892 original size:149 final size:149
Alignment explanation
Indices: 908622--908895 Score: 325
Period size: 149 Copynumber: 1.8 Consensus size: 149
908612 CTCTTACTTT
* * * * * * ** *
908622 CAGAAGTCTTTCGAGCTGGTTCATGATCTTCAACTGTTGGTTTTGGCATTGAATTGTCTCGAGTC
1 CAGAAATCTTTCAAGCTAGTTCATGATCTTCAACTGCTGGCTTTAGCATCAAATCGTCTCGAGTC
* * *
908687 CAACTTGTTACCTCAGCATGAAATTGTATGGATCGTCTCTTTTATAGATAGACTCCCTCTAGCTC
66 CAACTTGTTACCTCAGCAGGAAATTGTATGGATCGTCTCCTTGATAGATAGACTCCCTCTAGCTC
908752 CTACTTCATCTCCTATTTC
131 CTACTTCATCTCCTATTTC
**
908771 CAGAAATCTTTCAAGCTAGTTCATGATCTTCAACTGCTGGCTTTAGTGTCAAATCGTCTCGAGTC
1 CAGAAATCTTTCAAGCTAGTTCATGATCTTCAACTGCTGGCTTTAGCATCAAATCGTCTCGAGTC
* * * * * * * * *
908836 CAACTTTTTACCTCAGTAGGCAGA-TGTCTGGTTGGTCTCCTTGGTAGGTAGGCTCCCTCT
66 CAACTTGTTACCTCAGCAGG-AAATTGTATGGATCGTCTCCTTGATAGATAGACTCCCTCT
908896 TGAGGCTACT
Statistics
Matches: 101, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
149 99 0.98
150 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.36
Consensus pattern (149 bp):
CAGAAATCTTTCAAGCTAGTTCATGATCTTCAACTGCTGGCTTTAGCATCAAATCGTCTCGAGTC
CAACTTGTTACCTCAGCAGGAAATTGTATGGATCGTCTCCTTGATAGATAGACTCCCTCTAGCTC
CTACTTCATCTCCTATTTC
Found at i:911656 original size:12 final size:12
Alignment explanation
Indices: 911639--911675 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
911629 TACATTAAAG
*
911639 ATAATTAACCTA
1 ATAATTAGCCTA
911651 ATAATTAGCCTA
1 ATAATTAGCCTA
*
911663 ACAATTAGCCTA
1 ATAATTAGCCTA
911675 A
1 A
911676 GAAACTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATTAGCCTA
Found at i:915347 original size:22 final size:22
Alignment explanation
Indices: 915319--915369 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
915309 GTTAAGAAAA
915319 ATATATAGAAACAAAAGTATAT
1 ATATATAGAAACAAAAGTATAT
* *
915341 ATATATATAAACAAACGTATAT
1 ATATATAGAAACAAAAGTATAT
*
915363 ATGTATA
1 ATATATA
915370 CAGATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (22 bp):
ATATATAGAAACAAAAGTATAT
Found at i:921773 original size:15 final size:15
Alignment explanation
Indices: 921755--921785 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
921745 TTCCATTTCC
921755 TTCTTTTCTTGATCT
1 TTCTTTTCTTGATCT
921770 TTCTTTTCTTGATCT
1 TTCTTTTCTTGATCT
921785 T
1 T
921786 CTTCTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.06, T:0.68
Consensus pattern (15 bp):
TTCTTTTCTTGATCT
Found at i:925861 original size:48 final size:48
Alignment explanation
Indices: 925797--925897 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
925787 AAAATGCACC
* * *
925797 GTTAGGCATCTAACTTGCATTAATGGCACCTTTCTGCCAAAAAACACA
1 GTTAGACATCTAACTTGCATTAATGGAACCTTTATGCCAAAAAACACA
*
925845 GTTAGACATCTAACTTGCATTAATGGAACCTTTATGCCAAAAAGCACA
1 GTTAGACATCTAACTTGCATTAATGGAACCTTTATGCCAAAAAACACA
925893 GTTAG
1 GTTAG
925898 GCATTTATTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (48 bp):
GTTAGACATCTAACTTGCATTAATGGAACCTTTATGCCAAAAAACACA
Found at i:926549 original size:56 final size:55
Alignment explanation
Indices: 926144--926751 Score: 839
Period size: 55 Copynumber: 11.0 Consensus size: 55
926134 AATGTCAATG
* * * *
926144 CAGAAATTCATAAACTTATTATAAATTTCTTAG-GTTGCACACACACTGCCAATA
1 CAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
*
926198 CAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTTCCCATA
1 CAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
* * * *
926253 C-GAAAGTTCATAAACTTATTATGAGTTTCTTAGTTTTGCATACACAATGCCCGTA
1 CAGAAA-TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
* * *
926308 CGGAAATTCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATA
1 CAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
* *
926363 CGGAAATAT-ATAAACTTATTATGAATTTCTTAGTTTTGCACACACCGTGCCCATA
1 CAGAAAT-TCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
* * * *
926418 CAGAAATTCATAAACTTATTATGAATTTATTAGTTTCGCACACACAATGCACATA
1 CAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
* * * *
926473 CAGAAATTCAGAAACTTATTATTAATTTCTTAGTTTTTGCAGACATAGTGCCCATA
1 CAGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATA
* *
926529 CATAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCATACACAGTGCCCATA
1 CAGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATA
*
926585 CAGAAATTCATAAACTTATTATAAATTTCTTAGTTTTTGCACACACAGTGCCCATA
1 CAGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATA
*
926641 C-GAAAATTCATAAACTTATTACGAATTTCTTAGTTTTGCACACACAGTGCCCA-A
1 CAG-AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
** * * *
926695 TGGGAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAATCCCCATA
1 CAGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATA
926751 C
1 C
926752 GGTAATAACT
Statistics
Matches: 495, Mismatches: 49, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
54 66 0.13
55 273 0.55
56 156 0.32
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (55 bp):
CAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATA
Found at i:935647 original size:30 final size:30
Alignment explanation
Indices: 935590--935657 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
935580 ATGCATAAGT
* **
935590 AAATTCATCATTTATAATGCATCACCAATA
1 AAATGCATCATTTATAACACATCACCAATA
* *
935620 AAATGCATCATTTATAGCACATTACCAATA
1 AAATGCATCATTTATAACACATCACCAATA
*
935650 ATATGCAT
1 AAATGCAT
935658 TCGAATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (30 bp):
AAATGCATCATTTATAACACATCACCAATA
Found at i:943824 original size:39 final size:38
Alignment explanation
Indices: 943756--943830 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
943746 CATCAGCTGG
* *
943756 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCGA
1 CCAGAACTCCTCATCACGTAGGAGCCGTGTCA-CCCCGA
* * *
943795 CCAGATCTCCTCATCGCGTAGGAGTCGTGTCACCCC
1 CCAGAACTCCTCATCACGTAGGAGCCGTGTCACCCC
943831 AGATAACCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 4 0.13
39 27 0.87
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (38 bp):
CCAGAACTCCTCATCACGTAGGAGCCGTGTCACCCCGA
Found at i:943894 original size:47 final size:45
Alignment explanation
Indices: 943824--943919 Score: 149
Period size: 47 Copynumber: 2.1 Consensus size: 45
943814 AGGAGTCGTG
943824 TCACCCCAGATAACCAGTCGTCCTCATCACGTAGGAACCATGTTA
1 TCACCCCAGATAACCAGTCGTCCTCATCACGTAGGAACCATGTTA
*
943869 TCACCCCATAGATAACCAG-CTGTCCTCATCACGTAGGAACCGTGTTA
1 TCACCCC--AGATAACCAGTC-GTCCTCATCACGTAGGAACCATGTTA
943916 TCAC
1 TCAC
943920 ATCTCCTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
45 7 0.15
46 1 0.02
47 39 0.83
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (45 bp):
TCACCCCAGATAACCAGTCGTCCTCATCACGTAGGAACCATGTTA
Found at i:944049 original size:43 final size:40
Alignment explanation
Indices: 943938--944054 Score: 103
Period size: 43 Copynumber: 2.9 Consensus size: 40
943928 AAGATGGCCA
*
943938 AGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACC
1 AGAACTCTTCATCACGTATGAGCAGTGTCATCCCACGACC
* * * * *
943978 AGATA-TCCTCATCATGTAGGATCCGTGTCA-CCCTTAGACGACC
1 AGA-ACTCTTCATCACGTATGAGCAGTGTCATCCC----ACGACC
* *
944021 CGAACTCTTCATCACGTATGAGCAGTGTCGTCCC
1 AGAACTCTTCATCACGTATGAGCAGTGTCATCCC
944055 CCAACAACCA
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
39 3 0.05
40 23 0.40
41 1 0.02
42 1 0.02
43 26 0.46
44 3 0.05
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (40 bp):
AGAACTCTTCATCACGTATGAGCAGTGTCATCCCACGACC
Found at i:949079 original size:2 final size:2
Alignment explanation
Indices: 949072--949108 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
949062 CCATAAAAAC
949072 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
949109 CTTTCTGACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:950911 original size:45 final size:46
Alignment explanation
Indices: 950845--950932 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
950835 TTATTCGTTC
* * * *
950845 TTTTCATTTATGGCATCCTTTCATGCTGATAATGCACCGTTATGCA
1 TTTTCATTTATGACATCCTTTCATACCGATAATACACCGTTATGCA
*
950891 TTTT-ATTTATGACATCCTTTCATACCGGTAATACACCGTTAT
1 TTTTCATTTATGACATCCTTTCATACCGATAATACACCGTTAT
950933 TCATCTAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 33 0.89
46 4 0.11
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (46 bp):
TTTTCATTTATGACATCCTTTCATACCGATAATACACCGTTATGCA
Found at i:950990 original size:49 final size:49
Alignment explanation
Indices: 950934--951081 Score: 203
Period size: 48 Copynumber: 3.1 Consensus size: 49
950924 CACCGTTATT
* *
950934 CATCTAACTTACATTAGTGGCACCTTTCTGCCAAAAATGCACTGTTAGG
1 CATCTAACTTGCATTAATGGCACCTTTCTGCCAAAAATGCACTGTTAGG
* * *
950983 CATCTAACTTGCATTAATGTCACCTTTCTACCAAAAA-GCACAGTTAGG
1 CATCTAACTTGCATTAATGGCACCTTTCTGCCAAAAATGCACTGTTAGG
* *
951031 CACCTAACTTGTATTAATGGCACCTTTCTGCC-AAAATGCA-TGGTTAGG
1 CATCTAACTTGCATTAATGGCACCTTTCTGCCAAAAATGCACT-GTTAGG
951079 CAT
1 CAT
951082 TTATTCTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
47 4 0.05
48 49 0.57
49 33 0.38
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (49 bp):
CATCTAACTTGCATTAATGGCACCTTTCTGCCAAAAATGCACTGTTAGG
Found at i:951511 original size:55 final size:55
Alignment explanation
Indices: 951327--951822 Score: 728
Period size: 56 Copynumber: 9.0 Consensus size: 55
951317 GTCAATACAG
* * * * * *
951327 AAATTCATAAACTCATTATCAATTCCTTAG-GTTGCACACACATTGCCAATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGA
* * *
951381 AAATTCATAATCCTATTATGAATTTCTTAGTTTTGCACACGCAGTG-CCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGA
* *
951435 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAGAGTGCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGA
951490 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGA
951545 AAATTCATAAACTTATTATGAATTTCTTAGTTTATGCACACACAGTGCCCATATCG-
1 AAATTCATAAACTTATTATGAATTTCTTAGTTT-TGCACACACAGTGCCCATA-CGA
*
951601 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAGTGCCTATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATACGA
* *
951657 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAGTGCCCATGCAA
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATACGA
* * * *
951713 AAATTCATAAACATATTATGAATTTCTTAGTTTTGCACACATAGTGTCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGA
* * * *
951768 AAATCCATAAACTTATTATGAATTTCTTAGTTTTTGGACACACAATACCCATACG
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATACG
951823 GTAATCACCA
Statistics
Matches: 402, Mismatches: 33, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
54 74 0.18
55 155 0.39
56 168 0.42
57 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (55 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGA
Found at i:951752 original size:167 final size:164
Alignment explanation
Indices: 951327--951822 Score: 735
Period size: 167 Copynumber: 3.0 Consensus size: 164
951317 GTCAATACAG
* * * * * *
951327 AAATTCATAAACTCATTATCAATTCCTTAG-GTTGCACACACATTGCCAATACGAAAATTCATAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGAAAATTCATAA
* * *
951391 TCCTATTATGAATTTCTTAGTTTTGCACACGCAGTGCCATACGAAAATTCATAAACTTATTATGA
66 ACATATTATGAATTTCTTAGTTTTGCACACACAGTGCCATACG-AAATTCATAAACTTATTATGA
* *
951456 ATTTCTTAG-TTTTGCACACAGAGTGCCCATACGG
130 ATTTCTTAGTTTTTGCACACACAGTGCCCATACGA
951490 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGAAAATTCATAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGAAAATTCATAA
*
951555 ACTTATTATGAATTTCTTAGTTTATGCACACACAGTGCCCATATCGAAATTCATAAACTTATTAT
66 ACATATTATGAATTTCTTAGTTT-TGCACACACAGTG-CCATA-CGAAATTCATAAACTTATTAT
*
951620 GAATTTCTTAGTTTTTGCACACACAGTGCCTATACGA
128 GAATTTCTTAGTTTTTGCACACACAGTGCCCATACGA
* *
951657 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAGTGCCCATGCAAAAATTCATA
1 AAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACACAGTGCCCATACGAAAATTCATA
* *
951722 AACATATTATGAATTTCTTAGTTTTGCACACATAGTGTCCATACGGAAATCCATAAACTTATTAT
65 AACATATTATGAATTTCTTAGTTTTGCACACACAGTG-CCATAC-GAAATTCATAAACTTATTAT
* * *
951787 GAATTTCTTAGTTTTTGGACACACAATACCCATACG
128 GAATTTCTTAGTTTTTGCACACACAGTGCCCATACG
951823 GTAATCACCA
Statistics
Matches: 304, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
163 27 0.09
164 52 0.17
165 12 0.04
166 36 0.12
167 122 0.40
168 55 0.18
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (164 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGAAAATTCATAA
ACATATTATGAATTTCTTAGTTTTGCACACACAGTGCCATACGAAATTCATAAACTTATTATGAA
TTTCTTAGTTTTTGCACACACAGTGCCCATACGA
Found at i:953488 original size:20 final size:19
Alignment explanation
Indices: 953465--953514 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
953455 TCAACCAGGG
*
953465 GGTATCTATACCAACAGGTA
1 GGTATCGATACCAA-AGGTA
953485 GGTATCGATACCAAAGGTTA
1 GGTATCGATACCAAAGG-TA
*
953505 AGTATCGATA
1 GGTATCGATA
953515 TTGAAAGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (19 bp):
GGTATCGATACCAAAGGTA
Found at i:961058 original size:141 final size:143
Alignment explanation
Indices: 960768--961058 Score: 516
Period size: 141 Copynumber: 2.0 Consensus size: 143
960758 GCACTACTGA
*
960768 TTACATTTCTAAACCAATAAAGGAATAAGACCAATGCGCTATCCAAATACTTCTGAAGTAAGACA
1 TTACAATTCTAAACCAATAAAGGAATAAGACCAATGCGCTATCCAAATACTTCTGAAGTAAGACA
*
960833 ATATACATATATATAACAAATTAGCTATGGACTGTAGTCAAGCATGTTAACCTTGTTCCAGAGAT
66 ATATACATATATATAACAAATTAGCTATGGACTGTAGTCAAACATGTTAACCTTGTTCCAGAGAT
960898 TGCCTTTTCTACC
131 TGCCTTTTCTACC
960911 TTACAATTCTAAACCAATAAAGGAATAAGACCAATGCGCTATCCAAATACTTCTGAAGTAAGACA
1 TTACAATTCTAAACCAATAAAGGAATAAGACCAATGCGCTATCCAAATACTTCTGAAGTAAGACA
*
960976 ATA-A-ATATATATAACGAAA-TAGCTATGGACTGTAGTCAAACGTGTTAACCTTGTTCCAGAGA
66 ATATACATATATATAAC-AAATTAGCTATGGACTGTAGTCAAACATGTTAACCTTGTTCCAGAGA
*
961038 TTGTCTTTTCTACC
130 TTGCCTTTTCTACC
961052 TTACAAT
1 TTACAAT
961059 ACTGCAGATA
Statistics
Matches: 143, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
141 72 0.50
142 4 0.03
143 67 0.47
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (143 bp):
TTACAATTCTAAACCAATAAAGGAATAAGACCAATGCGCTATCCAAATACTTCTGAAGTAAGACA
ATATACATATATATAACAAATTAGCTATGGACTGTAGTCAAACATGTTAACCTTGTTCCAGAGAT
TGCCTTTTCTACC
Found at i:964895 original size:18 final size:18
Alignment explanation
Indices: 964853--964889 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
964843 AAATATTTAC
964853 ATGTCTGCATTCGCTGAT
1 ATGTCTGCATTCGCTGAT
964871 ATGTCTGCATTCGCTGAT
1 ATGTCTGCATTCGCTGAT
964889 A
1 A
964890 ATTCTGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (18 bp):
ATGTCTGCATTCGCTGAT
Found at i:967691 original size:21 final size:21
Alignment explanation
Indices: 967649--967693 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
967639 TTATGAGTTA
*
967649 ATATTTTAGAATTTAAGGGTT
1 ATATTTTAGAATTTAAAGGTT
* *
967670 ATATTTTAGAGTTTAAATGTT
1 ATATTTTAGAATTTAAAGGTT
967691 ATA
1 ATA
967694 GATTGGAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (21 bp):
ATATTTTAGAATTTAAAGGTT
Found at i:968735 original size:50 final size:50
Alignment explanation
Indices: 968556--968737 Score: 213
Period size: 50 Copynumber: 3.6 Consensus size: 50
968546 TTCATACTAC
* * * *
968556 AAAAAGTGTAACACTTAACACATACTTACTCCGATGTAGAGAATAAAATA
1 AAAAAGTATAATACTTAACACATACTTACACCGATGTAGTGAATAAAATA
* * * *
968606 AAAAAGTATAACACTTAACACTTACTTATATCGATGTAGTGAATAAAATA
1 AAAAAGTATAATACTTAACACATACTTACACCGATGTAGTGAATAAAATA
* * * * *
968656 AAAAAGTGTAGTACTTAACACATTCTTACACCGGTATAAGTGAATAAAATA
1 AAAAAGTATAATACTTAACACATACTTACACCGATGT-AGTGAATAAAATA
* *
968707 AAAAA-TATAATAGTTAACACGTACTTACACC
1 AAAAAGTATAATACTTAACACATACTTACACC
968738 AGTGTAAATG
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 93 0.84
51 18 0.16
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (50 bp):
AAAAAGTATAATACTTAACACATACTTACACCGATGTAGTGAATAAAATA
Found at i:968754 original size:58 final size:59
Alignment explanation
Indices: 968692--968811 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 59
968682 TACACCGGTA
* * * *
968692 TAAGTGAATAAAAT-AAAAAATATAATAGTTAACACGTACTTACACCAGTGTAAATGTG
1 TAAGTGAATAAAATAAAAAAATATAACACTTAACACATACTTACACCAGTGTAAATATG
* * *
968750 TAAGTGAATAAAATAAAAAAAATGTAACACTTAATACATACTTACACCGGTGTAAATATG
1 TAAGTGAATAAAAT-AAAAAAATATAACACTTAACACATACTTACACCAGTGTAAATATG
968810 TA
1 TA
968812 CATCTCACAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
58 14 0.26
60 39 0.74
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (59 bp):
TAAGTGAATAAAATAAAAAAATATAACACTTAACACATACTTACACCAGTGTAAATATG
Found at i:969334 original size:15 final size:14
Alignment explanation
Indices: 969314--969356 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
969304 TTTAAAATTC
969314 TTTTATATTTTAAT
1 TTTTATATTTTAAT
*
969328 ATTTTATATATTAAT
1 -TTTTATATTTTAAT
969343 TATTTATAATTTTA
1 T-TTTAT-ATTTTA
969357 TGAGGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTATATTTTAAT
Found at i:969503 original size:21 final size:21
Alignment explanation
Indices: 969460--969503 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
969450 TGTCCACTCG
*
969460 ATATTATAATATTATTTCTTA
1 ATATTATAATATTATTTATTA
*
969481 ATATTATATTATT-TTTATATA
1 ATATTATAATATTATTTAT-TA
969502 AT
1 AT
969504 TATGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTATAATATTATTTATTA
Found at i:971955 original size:14 final size:14
Alignment explanation
Indices: 971936--971964 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
971926 TATTAGCTTG
971936 TTATTAGTTTGTTA
1 TTATTAGTTTGTTA
971950 TTATTAGTTTGTTA
1 TTATTAGTTTGTTA
971964 T
1 T
971965 GGTTTGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.66
Consensus pattern (14 bp):
TTATTAGTTTGTTA
Found at i:971964 original size:11 final size:11
Alignment explanation
Indices: 971891--971952 Score: 90
Period size: 11 Copynumber: 5.7 Consensus size: 11
971881 AATGTTAGAG
*
971891 TGTTACTAGTT
1 TGTTATTAGTT
971902 TGTTATTAGTT
1 TGTTATTAGTT
*
971913 TGTTA-TGGTT
1 TGTTATTAGTT
*
971923 TGTTATTAGCT
1 TGTTATTAGTT
971934 TGTTATTAGTT
1 TGTTATTAGTT
971945 TGTTATTA
1 TGTTATTA
971953 TTAGTTTGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
10 9 0.20
11 36 0.80
ACGTcount: A:0.18, C:0.03, G:0.19, T:0.60
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:972188 original size:23 final size:21
Alignment explanation
Indices: 972160--972206 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
972150 TTCATTTTAG
972160 ATATTATGTTATAAATTGAAAAT
1 ATATTAT-TTA-AAATTGAAAAT
**
972183 ATATTATTTAAGGTTGAAAAT
1 ATATTATTTAAAATTGAAAAT
972204 ATA
1 ATA
972207 ATTTCACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 3 0.14
23 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (21 bp):
ATATTATTTAAAATTGAAAAT
Found at i:983526 original size:89 final size:87
Alignment explanation
Indices: 983410--983606 Score: 288
Period size: 89 Copynumber: 2.2 Consensus size: 87
983400 ATTCTGTAAT
** *
983410 AATATTAATAAATAAATATGTCGGTAATGCATGTGAAAATCGGTTCAAATGTTAATAACGCTCAA
1 AATATTAA-AAATAAATATGTCGGTAATGCATGCAAAAATCGATTCAAAT-TTAATAACGCTCAA
* *
983475 TGTCGCAAATACAAGCAATAAAAAT
64 TGTCGCAAACACAAGCAAT-AAAAG
*
983500 AAT-TCTAAAAATAAATATGTCGGTAATGCATGCAAAAATCGATTCAAATTTAATAACGTTCAAT
1 AATAT-TAAAAATAAATATGTCGGTAATGCATGCAAAAATCGATTCAAATTTAATAACGCTCAAT
983564 GTCGCAAACACAAGCAATAAAAG
65 GTCGCAAACACAAGCAATAAAAG
*
983587 AATATTAAAAATAAACATGT
1 AATATTAAAAATAAATATGT
983607 GTCTTACGAA
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
87 21 0.21
88 32 0.33
89 39 0.40
90 6 0.06
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.27
Consensus pattern (87 bp):
AATATTAAAAATAAATATGTCGGTAATGCATGCAAAAATCGATTCAAATTTAATAACGCTCAATG
TCGCAAACACAAGCAATAAAAG
Found at i:988226 original size:10 final size:10
Alignment explanation
Indices: 988211--988251 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
988201 TTCATCACAC
988211 CAAATTCTCT
1 CAAATTCTCT
*
988221 CAAATTTTCT
1 CAAATTCTCT
*
988231 CAATTTCTCT
1 CAAATTCTCT
*
988241 CAAATACTCT
1 CAAATTCTCT
988251 C
1 C
988252 TCTGTTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:988330 original size:17 final size:18
Alignment explanation
Indices: 988293--988333 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
988283 ATATTATGTA
*
988293 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
988311 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
988328 TTTACT
1 TTTACT
988334 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:990038 original size:18 final size:18
Alignment explanation
Indices: 990011--990046 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
990001 ACAGACGCCA
*
990011 CCGCAACCATTTATGATG
1 CCGCAACCATATATGATG
*
990029 CCGCATCCATATATGATG
1 CCGCAACCATATATGATG
990047 TCGTCATCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
CCGCAACCATATATGATG
Found at i:990608 original size:26 final size:24
Alignment explanation
Indices: 990537--990608 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
990527 ATATATTTTT
990537 ATTTACTTTATTTTGTTAAATTATA
1 ATTTACTTTATTTTGTTAAATT-TA
*
990562 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
990584 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
990609 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:995364 original size:18 final size:15
Alignment explanation
Indices: 995335--995439 Score: 56
Period size: 15 Copynumber: 6.9 Consensus size: 15
995325 CAAAGAAAAG
*
995335 AATAATAATAAATTA
1 AATAAAAATAAATTA
995350 ACGATAACAAATAAATTA
1 A--ATAA-AAATAAATTA
*
995368 AATAAAAATAAA-GA
1 AATAAAAATAAATTA
* **
995382 AACGAAAAGA-AAAGAA
1 AA-TAAAA-ATAAATTA
*
995398 AAGAAAAATAAA-TA
1 AATAAAAATAAATTA
*
995412 AAT-AAAATAAAATA
1 AATAAAAATAAATTA
*
995426 CATAAAAAATAAAT
1 AAT-AAAAATAAAT
995440 AAAGTTCATA
Statistics
Matches: 72, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
13 8 0.11
14 11 0.15
15 23 0.32
16 16 0.22
17 4 0.06
18 10 0.14
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.18
Consensus pattern (15 bp):
AATAAAAATAAATTA
Found at i:996079 original size:37 final size:37
Alignment explanation
Indices: 996029--996133 Score: 176
Period size: 37 Copynumber: 2.8 Consensus size: 37
996019 CTGGATCTTA
*
996029 TTTTAGGAGTTTGAATCATAGTAGAAA-TCTATCCTAT
1 TTTTAGGAGTTTGAATCCTAGTA-AAACTCTATCCTAT
*
996066 TTTTAGGAATTTGAATCCTAGTAAAACTCTATCCTAT
1 TTTTAGGAGTTTGAATCCTAGTAAAACTCTATCCTAT
996103 TTTTAGGAGTTTGAATCCTAGTAAAACTCTA
1 TTTTAGGAGTTTGAATCCTAGTAAAACTCTA
996134 ACGCTATGTT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 3 0.05
37 61 0.95
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTTAGGAGTTTGAATCCTAGTAAAACTCTATCCTAT
Found at i:996816 original size:83 final size:84
Alignment explanation
Indices: 996707--996889 Score: 244
Period size: 83 Copynumber: 2.2 Consensus size: 84
996697 AATGTAATTG
* * * * *
996707 AACTCGAAGGTCTTTGATGACTGATAACCCTTCTTGTCTCGAGTTATGCTGCAAATGATGTG-CC
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTATAGCCTCGAGTTATGCTGCAAATGATGTGCCC
* * * *
996771 TTGGAGCTGAGCGTAGTCA
66 TCGAAACTGAGCGTAATCA
*
996790 AACTCGAAGGTCTTTGTTGACAGATAACCCTTATAGCCTTGAGTTATGCTGCAAATGATGTGCCC
1 AACTCGAAGGTCTTTGTTGACAGATAACCCTTATAGCCTCGAGTTATGCTGCAAATGATGTGCCC
*
996855 TCGAAACTGAGTGTAATCA
66 TCGAAACTGAGCGTAATCA
*
996874 AACTCTAAGG-CTTTGT
1 AACTCGAAGGTCTTTGT
996890 GTTTCAAGAA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 62 0.71
84 25 0.29
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (84 bp):
AACTCGAAGGTCTTTGTTGACAGATAACCCTTATAGCCTCGAGTTATGCTGCAAATGATGTGCCC
TCGAAACTGAGCGTAATCA
Found at i:996998 original size:36 final size:36
Alignment explanation
Indices: 996949--997193 Score: 222
Period size: 36 Copynumber: 6.9 Consensus size: 36
996939 GTTTTTTTTG
* *
996949 TGTTTCAAGAGAAACTGTCTCAAGAGGGATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
996985 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
997022 AG-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
997058 TGTTTCAAG-GAAA-AGATATTC-A-A-AG----ATTT
1 TGTTTCAAGAGAAACTG-T-CTCAAGAGAGACAAAATT
* * *
997087 TGTTTCAAGGGAAACTATCCCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
997123 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATT
*
997160 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
997194 ATTGGAAACT
Statistics
Matches: 172, Mismatches: 22, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
29 13 0.08
30 6 0.03
31 1 0.01
32 2 0.01
33 2 0.01
34 1 0.01
35 6 0.03
36 75 0.44
37 66 0.38
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:997111 original size:102 final size:102
Alignment explanation
Indices: 996983--997169 Score: 245
Period size: 102 Copynumber: 1.8 Consensus size: 102
996973 AGGGATAAAA
* * *
996983 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAG-TTCTAAAAGAAAATGTCTCAAGG
1 TTTGTTTCAAAAGAAACTATCCCAAGAGAGACAAAA-TTAGTTTC-AAAAGAAAATGTCTCAAGA
997047 GAGACGAA-A-TTTGTTTCAAGGAAAAGATATTCAAAGAT
64 GAGAC-AAGATTTTGTTTCAAGGAAAAGATATTCAAAGAT
** * ** *
997085 TTTGTTTCAAGGGAAACTATCCCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAAAGAAACTATCCCAAGAGAGACAAAATTAGTTTCAAAAGAAAATGTCTCAAGAGA
997150 GACAAGATTTTGTTTCAAGG
66 GACAAGATTTTGTTTCAAGG
997170 GAAACTGTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 2 0.03
101 24 0.33
102 47 0.64
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTATCCCAAGAGAGACAAAATTAGTTTCAAAAGAAAATGTCTCAAGAGA
GACAAGATTTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:998120 original size:33 final size:32
Alignment explanation
Indices: 998026--998120 Score: 136
Period size: 32 Copynumber: 2.9 Consensus size: 32
998016 ATTCCCAACG
* *
998026 ATGCCCCAATATTCGATGCTGAATCTCAAAAA
1 ATGCCCCAATATTTGATGTTGAATCTCAAAAA
*
998058 ATGCCCCAATATTTGATGTTAAATCTCAAAAA
1 ATGCCCCAATATTTGATGTTGAATCTCAAAAA
* *
998090 ATTCCCCAGTATTTGATGTTGAATCTTCAAA
1 ATGCCCCAATATTTGATGTTGAATC-TCAAA
998121 GATGCCCTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
32 51 0.91
33 5 0.09
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.32
Consensus pattern (32 bp):
ATGCCCCAATATTTGATGTTGAATCTCAAAAA
Found at i:999214 original size:33 final size:33
Alignment explanation
Indices: 999172--999250 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
999162 CATATGCATC
*
999172 TTGTCTTCTTTTTTCTTCACT-TTTTCCTTTGTTT
1 TTGT-TTCTTTTTTATTCACTCTTTT-CTTTGTTT
**
999206 TTGTTTCTTTTTTATTTTCTCTTTTCTTTGTTT
1 TTGTTTCTTTTTTATTCACTCTTTTCTTTGTTT
999239 TT-TTTCTTTTTT
1 TTGTTTCTTTTTT
999251 TTGTTCTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 10 0.24
33 23 0.56
34 8 0.20
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (33 bp):
TTGTTTCTTTTTTATTCACTCTTTTCTTTGTTT
Found at i:999246 original size:18 final size:20
Alignment explanation
Indices: 999209--999255 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
999199 TTTGTTTTTG
999209 TTTCTTT-TTTATTTTCTCT
1 TTTCTTTGTTTATTTTCTCT
999228 TTTCTTTGTTT-TTTT-TCT
1 TTTCTTTGTTTATTTTCTCT
*
999246 TTTTTTTGTT
1 TTTCTTTGTT
999256 CTTAATTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 12 0.46
19 11 0.42
20 3 0.12
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (20 bp):
TTTCTTTGTTTATTTTCTCT
Found at i:999250 original size:27 final size:27
Alignment explanation
Indices: 999192--999251 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
999182 TTTTCTTCAC
*
999192 TTTTTCCTTTGTTTTTGTTTCTTTTTT
1 TTTTTCCTTTGTCTTTGTTTCTTTTTT
* *
999219 ATTTTCTCTTT-TCTTTGTTTTTTTTCTT
1 TTTTTC-CTTTGTCTTTGTTTCTTTT-TT
999247 TTTTT
1 TTTTT
999252 TGTTCTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.82
Consensus pattern (27 bp):
TTTTTCCTTTGTCTTTGTTTCTTTTTT
Found at i:1002358 original size:19 final size:18
Alignment explanation
Indices: 1002288--1002360 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 18
1002278 AAAAGAAAAG
1002288 AAAAAT-AAATAAATAAA
1 AAAAATGAAATAAATAAA
* * *
1002305 ATAAAATAAAAGACAT-AA
1 A-AAAATGAAATAAATAAA
* **
1002323 AAAAATGAAGTCCATAAA
1 AAAAATGAAATAAATAAA
1002341 AACAAATGAAATAAATAAA
1 AA-AAATGAAATAAATAAA
1002360 A
1 A
1002361 TACTAGAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
17 11 0.26
18 12 0.28
19 20 0.47
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAATGAAATAAATAAA
Found at i:1002565 original size:39 final size:38
Alignment explanation
Indices: 1002484--1002570 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 38
1002474 TGATAATATG
1002484 TATATATATAAAATAAATAAAAACATAAAAAATAGTAAA
1 TATATATATAAAATAAATAAAAACATAAAAAATA-TAAA
*
1002523 TATATATAT-AAATTAATAAACAA-ATAATGAAAAT-TAACA
1 TATATATATAAAATAAATAAA-AACATAA--AAAATATAA-A
1002562 TATATATAT
1 TATATATAT
1002571 GTATGTAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
38 17 0.40
39 21 0.49
40 5 0.12
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (38 bp):
TATATATATAAAATAAATAAAAACATAAAAAATATAAA
Found at i:1002629 original size:23 final size:23
Alignment explanation
Indices: 1002603--1002647 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1002593 ATATACTAAA
1002603 GTAAAAAAGAA-AATACATAAAAT
1 GTAAAAAA-AATAATACATAAAAT
*
1002626 GTAAAAAAAATATTACATAAAA
1 GTAAAAAAAATAATACATAAAA
1002648 AAAGAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (23 bp):
GTAAAAAAAATAATACATAAAAT
Done.