Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005046.1 Hibiscus syriacus cultivar Beakdansim tig00011331_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: 123525
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:2962 original size:33 final size:33
Alignment explanation
Indices: 2920--2985 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2910 TATCATACAA
*
2920 CAAATTTCTTTTTGAAATGCTTTGAATTTTTTT
1 CAAATTTCTTTTCGAAATGCTTTGAATTTTTTT
2953 CAAATTTCTTTTCGAAATGCTTTGAATTTTTTT
1 CAAATTTCTTTTCGAAATGCTTTGAATTTTTTT
2986 ATTTTGTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (33 bp):
CAAATTTCTTTTCGAAATGCTTTGAATTTTTTT
Found at i:5560 original size:13 final size:12
Alignment explanation
Indices: 5539--5572 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
5529 AAGCTTGATG
5539 AAATAAAAACAA
1 AAATAAAAACAA
*
5551 AAAGTAAAAATAA
1 AAA-TAAAAACAA
5564 AAATAAAAA
1 AAATAAAAA
5573 TATAGTGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (12 bp):
AAATAAAAACAA
Found at i:5565 original size:5 final size:6
Alignment explanation
Indices: 5539--5574 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
5529 AAGCTTGATG
*
5539 AAATAA AAACAA AAAGTAA AAATAA AAATAA AAATA
1 AAATAA AAATAA AAA-TAA AAATAA AAATAA AAATA
5575 TAGTGGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:16529 original size:20 final size:21
Alignment explanation
Indices: 16489--16530 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
16479 TGCAGAGATT
* *
16489 TCATCCCCAAATGGTTAGAAA
1 TCATCCCCAAACGGGTAGAAA
16510 TCATCCCC-AACGGGTAGAAA
1 TCATCCCCAAACGGGTAGAAA
16530 T
1 T
16531 GGCCATAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
TCATCCCCAAACGGGTAGAAA
Found at i:25673 original size:24 final size:24
Alignment explanation
Indices: 25662--25773 Score: 172
Period size: 24 Copynumber: 4.7 Consensus size: 24
25652 ATCAAAACAT
25662 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
25686 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
25710 AATCCAGGTCAAGTATTC-GATCAA
1 AATCCAGGTCAAGTA-TCAGATCAA
* * *
25734 AATCCAGATCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAA
*
25758 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
25774 TATAATAGAA
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
23 2 0.02
24 78 0.95
25 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAA
Found at i:25697 original size:12 final size:13
Alignment explanation
Indices: 25662--25768 Score: 68
Period size: 12 Copynumber: 8.8 Consensus size: 13
25652 ATCAAAACAT
25662 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
25675 TAT-CAGATCAA-
1 AATCCAGGTCAAG
25686 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* *
25699 TAT-CAGATCAA-
1 AATCCAGGTCAAG
25710 AATCCAGGTCAAG
1 AATCCAGGTCAAG
* * *
25723 TATTC-GATCAA-
1 AATCCAGGTCAAG
*
25734 AATCCAGATCAAG
1 AATCCAGGTCAAG
* *
25747 TATCC-GATC-AG
1 AATCCAGGTCAAG
25758 AATCCAGGTCA
1 AATCCAGGTCA
25769 GGTATTATAA
Statistics
Matches: 70, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
11 13 0.19
12 46 0.66
13 11 0.16
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (13 bp):
AATCCAGGTCAAG
Found at i:34925 original size:60 final size:60
Alignment explanation
Indices: 34856--35006 Score: 180
Period size: 59 Copynumber: 2.5 Consensus size: 60
34846 CATTCGTGTG
* * * *
34856 TCCCTAAATTATTATCTTCATTTTAAATTAGTTC-TTAAATTTATAAATATTTTAATTTCA
1 TCCCTAAATTATGA-CTTCATTCTAAATTAGTTCGTTAAACTTATAAATATTTCAATTTCA
* ** *
34916 TCCCTAAATTATGACTTTATTCTAAATTAG-TCGTTGGACTTCTAAATATTTCAATTTCA
1 TCCCTAAATTATGACTTCATTCTAAATTAGTTCGTTAAACTTATAAATATTTCAATTTCA
* *
34975 CCCCTAAACTATGACCTTCATTCTAAATTAGT
1 TCCCTAAATTATGA-CTTCATTCTAAATTAGT
35007 CCCCAAACTT
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
58 2 0.03
59 47 0.61
60 28 0.36
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.45
Consensus pattern (60 bp):
TCCCTAAATTATGACTTCATTCTAAATTAGTTCGTTAAACTTATAAATATTTCAATTTCA
Found at i:35507 original size:73 final size:73
Alignment explanation
Indices: 35415--35560 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
35405 AAAGTATCTT
35415 GATTTGGTCAGTTAAACAATAATAATAAAAGAAAAACATCAACTTAATTATCAAATTCGACTTCT
1 GATTTGGTCAGTTAAACAATAATAATAAAAGAAAAACATCAACTTAATTATCAAATTCGACTTCT
35480 TGAAAATG
66 TGAAAATG
*
35488 GATTTGGTTAGTTAAACAATAATAATAAAAGAAAAACATCAACTTAATTATCAAATTCGACTTCT
1 GATTTGGTCAGTTAAACAATAATAATAAAAGAAAAACATCAACTTAATTATCAAATTCGACTTCT
35553 TGAAAATG
66 TGAAAATG
35561 ACGTGTTACA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.31
Consensus pattern (73 bp):
GATTTGGTCAGTTAAACAATAATAATAAAAGAAAAACATCAACTTAATTATCAAATTCGACTTCT
TGAAAATG
Found at i:36771 original size:36 final size:37
Alignment explanation
Indices: 36730--36806 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
36720 ATTTTCGGGA
*
36730 TTTTGCTA-TTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTTGGCAAAATTCGAATAAAGACGAT
36766 TTTTGCTATTTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTTGGCAAAATTCGAATAAAGACGAT
36803 TTTT
1 TTTT
36807 TTTAGCTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 8 0.21
37 31 0.79
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (37 bp):
TTTTGCTATTTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:37250 original size:15 final size:15
Alignment explanation
Indices: 37230--37259 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37220 TATCACAATC
37230 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
37245 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
37260 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:41776 original size:36 final size:37
Alignment explanation
Indices: 41735--41811 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
41725 ATTTTCGGGA
*
41735 TTTTGCTA-TTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTTGGCAAAATTCGAATAAAGACGAT
41771 TTTTGCTATTTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTTGGCAAAATTCGAATAAAGACGAT
41808 TTTT
1 TTTT
41812 TTTAGCTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 8 0.21
37 31 0.79
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (37 bp):
TTTTGCTATTTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:42851 original size:39 final size:38
Alignment explanation
Indices: 42715--42872 Score: 149
Period size: 39 Copynumber: 4.0 Consensus size: 38
42705 GAAATATAAT
* **
42715 CAACCTAAAATGTTATAAGTTTGGTA-ATATTTCTGGTATG
1 CAACCTAAAATGTTATATGTTTGAAACAT-TTTC-GGT-TG
*
42755 TAACCTAAAATGTTATATGATTT-AAACATTTTCGGTTG
1 CAACCTAAAATGTTATATG-TTTGAAACATTTTCGGTTG
* *
42793 CATCAACCTACAATGTTATATGTTTGGTAACATTTTCGGTTG
1 ---CAACCTAAAATGTTATATGTTT-GAAACATTTTCGGTTG
**
42835 CAACCTAAAACATTATATGGTTTGAAACATTTTCGGTT
1 CAACCTAAAATGTTATAT-GTTTGAAACATTTTCGGTT
42873 ACACCAATCT
Statistics
Matches: 99, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.02
39 32 0.32
40 29 0.29
41 22 0.22
42 14 0.14
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (38 bp):
CAACCTAAAATGTTATATGTTTGAAACATTTTCGGTTG
Found at i:42863 original size:81 final size:82
Alignment explanation
Indices: 42713--42910 Score: 240
Period size: 81 Copynumber: 2.4 Consensus size: 82
42703 GTGAAATATA
* * * **
42713 ATCAACCTAAAATGTTATAAGTTTGGTAATA-TTTCTGGTATGTAACCTAAAATGTTATATGATT
1 ATCAACCTAAAATGTTATATGTTTGGTAACATTTTCTGGTATGCAACCTAAAACATTATATGATT
*
42777 TAAACATTTTCGGTTGC
66 TAAACATTTTCGGTTAC
* *
42794 ATCAACCTACAATGTTATATGTTTGGTAACATTTTC-GGT-TGCAACCTAAAACATTATATGGTT
1 ATCAACCTAAAATGTTATATGTTTGGTAACATTTTCTGGTATGCAACCTAAAACATTATATGATT
42857 TGAAACATTTTCGGTTAC
66 T-AAACATTTTCGGTTAC
* * * * * *
42875 ACCAATCTAGAATATTTTATGTTTGGTTACATTTTC
1 ATCAACCTAAAATGTTATATGTTTGGTAACATTTTC
42911 AGTAACTTTT
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 21 0.21
81 76 0.75
82 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (82 bp):
ATCAACCTAAAATGTTATATGTTTGGTAACATTTTCTGGTATGCAACCTAAAACATTATATGATT
TAAACATTTTCGGTTAC
Found at i:43982 original size:294 final size:293
Alignment explanation
Indices: 43570--44321 Score: 882
Period size: 293 Copynumber: 2.6 Consensus size: 293
43560 AAATTCGATA
* * ** * *
43570 CATTCCAACTCATGTTACAATTACAAAAGTTTGTTAATAATGACATGTTGTGAAAACATCATAGG
1 CATTCCAACTCATGTTACAATTATAAAGGTTTGTT-ACCA--ACATGTTGTGACAACATCATAAG
* * * * * *
43635 TCGCTATGAGTTTCAATTTTGTTTACTATTCCTGTACATTTGAGGTTTCAACCTAAAGTATAACG
63 TCGTTATGGGTTTCAATTTGGTTTACTATGCCTGAACATTCGAGGTTTCAACCTAAAGTATAACG
* * * *
43700 TTACTCAAAACCAATAGGTTTC-AAGTGATTACTTTTCCTA-TTTTCAACCTAAAATATAACCTA
128 TTACTCAAAACCAATTGG-TTCAAAGTGATTA-TTTTCC-AGTTGTCAAACTAAAATACAACCTA
* * *
43763 AACGTTTAATAATTTAGGTTGTTCCTCATAACAATTTAGGTCT-CAGTATCGAAACTCATTGACT
190 AACGTATAA-AATTTAGGTTGTTCCTCATAACAATTTAGGTCTACAGTATCAAAACTCATTAACT
* * * ** *
43827 AAGTTTTAGAACTCGTCGGGTTAAATTTTTGAACTTAGCG
254 AAGTTTTAGAACTCGTCAGGATAAATCTTCAAACTCAGCG
* *
43867 CATTCCAACTCATGTTAAAATTATAAAGGTTTGTTACCAACATGTTGTGACAGCATCATAAGTCG
1 CATTCCAACTCATGTTACAATTATAAAGGTTTGTTACCAACATGTTGTGACAACATCATAAGTCG
* ** ** *
43932 TTATGGGCTTCAATTTGGTTTACTATGCAAGCGCATTCAAGGTTTCAACCTAAAGTATAACGTTA
66 TTATGGGTTTCAATTTGGTTTACTATGCCTGAACATTCGAGGTTTCAACCTAAAGTATAACGTTA
* * * * *
43997 CTCAAAACAAATTGGTTCAAAGTGATGATTTTCCAGTTGTCAAACTAAAATGCGACTTAAACGTA
131 CTCAAAACCAATTGGTTCAAAGTGATTATTTTCCAGTTGTCAAACTAAAATACAACCTAAACGTA
** * * * *
44062 TAAAATTTAGGTTGTTCCTGGTAACAATTTAGGTTTAGAGTATCAAAACTTATTAACTATGTTTT
196 TAAAATTTAGGTTGTTCCTCATAACAATTTAGGTCTACAGTATCAAAACTCATTAACTAAGTTTT
* *
44127 AGAACTCGTCAGGATAAATCTTCAAACTCGGTG
261 AGAACTCGTCAGGATAAATCTTCAAACTCAGCG
* * * * *
44160 CATTCAAACTCATGTTACAATTAT-AAGGTTTGTTACCAACATATTGCGACAAAAATCATATGTC
1 CATTCCAACTCATGTTACAATTATAAAGGTTTGTTACCAACATGTTGTGAC-AACATCATAAGTC
* * * *
44224 GTTATAGATTTCCATTTGGTTTACTATGCCTGAACATTCGAGGTTTCAACCTAAAGTATAACATT
65 GTTATGGGTTTCAATTTGGTTTACTATGCCTGAACATTCGAGGTTTCAACCTAAAGTATAACGTT
** *
44289 AGACAAAACCAATTGGTTCAAAGCGATTATTTT
130 ACTCAAAACCAATTGGTTCAAAGTGATTATTTT
44322 TCCAATTGAA
Statistics
Matches: 384, Mismatches: 67, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
292 55 0.14
293 197 0.51
294 98 0.26
296 2 0.01
297 32 0.08
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (293 bp):
CATTCCAACTCATGTTACAATTATAAAGGTTTGTTACCAACATGTTGTGACAACATCATAAGTCG
TTATGGGTTTCAATTTGGTTTACTATGCCTGAACATTCGAGGTTTCAACCTAAAGTATAACGTTA
CTCAAAACCAATTGGTTCAAAGTGATTATTTTCCAGTTGTCAAACTAAAATACAACCTAAACGTA
TAAAATTTAGGTTGTTCCTCATAACAATTTAGGTCTACAGTATCAAAACTCATTAACTAAGTTTT
AGAACTCGTCAGGATAAATCTTCAAACTCAGCG
Found at i:76330 original size:21 final size:21
Alignment explanation
Indices: 76288--76331 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
76278 CGTGTACCGC
*
76288 CACAATAGTATTGTGAACTGT
1 CACAATAGTATTGTAAACTGT
* * *
76309 CACATTAGTATTTTAAATTGT
1 CACAATAGTATTGTAAACTGT
76330 CA
1 CA
76332 TGTAAGTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (21 bp):
CACAATAGTATTGTAAACTGT
Found at i:76934 original size:52 final size:53
Alignment explanation
Indices: 76856--76960 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
76846 ATACTTTCAA
76856 GAAATTGAAAAATATTTTTTGTAAATAAAAAG-AAAAAATAGAAAATATTATT
1 GAAATTGAAAAATATTTTTTGTAAATAAAAAGAAAAAAATAGAAAATATTATT
76908 GAAATT-AAAAATTATTATTTT-TAAATAAAAAGAAAAAAATAGAAAATATTATT
1 GAAATTGAAAAA-TATT-TTTTGTAAATAAAAAGAAAAAAATAGAAAATATTATT
76961 TATAACAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
51 5 0.10
52 21 0.42
53 24 0.48
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (53 bp):
GAAATTGAAAAATATTTTTTGTAAATAAAAAGAAAAAAATAGAAAATATTATT
Found at i:77977 original size:21 final size:20
Alignment explanation
Indices: 77891--78048 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
77881 AAATGACCAA
**
77891 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
77910 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
77930 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
77950 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
77971 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
77992 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
78012 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
78033 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
78049 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:78077 original size:20 final size:20
Alignment explanation
Indices: 78015--78264 Score: 229
Period size: 20 Copynumber: 12.5 Consensus size: 20
78005 CGATTTTCCA
* ** *
78015 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
78035 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
78055 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78075 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
* **
78095 AAATCGTAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
78115 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78135 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78155 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
78175 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
* *
78195 AAATCGCAACG-ATAATCCAT
1 AAATCGCAACGCGT-ATCCGT
*
78215 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
78235 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
78255 AAATCACAAC
1 AAATCGCAAC
78265 ACTGAAATTT
Statistics
Matches: 192, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
19 2 0.01
20 188 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:78986 original size:24 final size:24
Alignment explanation
Indices: 78947--78993 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
78937 AAATTTGGTC
78947 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
78971 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
78994 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:79185 original size:12 final size:12
Alignment explanation
Indices: 79168--79192 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79158 ATATAATCCT
79168 GAAGAAGAAAAA
1 GAAGAAGAAAAA
79180 GAAGAAGAAAAA
1 GAAGAAGAAAAA
79192 G
1 G
79193 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:81545 original size:33 final size:34
Alignment explanation
Indices: 81494--81704 Score: 224
Period size: 33 Copynumber: 6.2 Consensus size: 34
81484 CGGAAATTAC
*
81494 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* *
81527 AATCCCAAC-ATGAAAATCGCAATGCGGAAATAAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
81561 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
81594 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
81627 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
81665 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
81698 AATCGCA
1 AATCGCA
81705 TTGCGATTCT
Statistics
Matches: 155, Mismatches: 10, Indels: 26
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 93 0.60
34 30 0.19
35 5 0.03
36 4 0.03
37 2 0.01
38 20 0.13
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:81599 original size:19 final size:19
Alignment explanation
Indices: 81508--81710 Score: 203
Period size: 19 Copynumber: 11.7 Consensus size: 19
81498 GCAACGAGAG
81508 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
81527 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
81541 AATCGCAATGCGGAAATAAA
1 AATCGCAATGC-GAAATGAA
*
81561 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
81575 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
81594 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
81613 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
81627 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
81646 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
81665 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
81679 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
81698 AATCGCATTGCGA
1 AATCGCAATGCGA
81711 TTCTATCGTT
Statistics
Matches: 152, Mismatches: 11, Indels: 42
0.74 0.05 0.20
Matches are distributed among these distances:
14 41 0.27
15 3 0.02
16 7 0.05
17 6 0.04
18 4 0.03
19 79 0.52
20 12 0.08
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:81622 original size:52 final size:52
Alignment explanation
Indices: 81536--81710 Score: 323
Period size: 52 Copynumber: 3.3 Consensus size: 52
81526 AAATCCCAAC
*
81536 ATGAAAATCGCAATGCGGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
81589 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
81641 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
81693 ATGAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
81711 TTCTATCGTT
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
52 104 0.87
53 16 0.13
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:81810 original size:52 final size:53
Alignment explanation
Indices: 81700--81816 Score: 218
Period size: 52 Copynumber: 2.2 Consensus size: 53
81690 GAAATGAAAA
81700 TCGCATTGCGATTCTATCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTATCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
*
81753 TCGCATTGCGATTCTCTCGTTGCGATTTTCA-TTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTATCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
81805 TCGCATTGCGAT
1 TCGCATTGCGAT
81817 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 33 0.52
53 30 0.48
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTCTATCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
Found at i:81824 original size:19 final size:19
Alignment explanation
Indices: 81719--81816 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
81709 GATTCTATCG
81719 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
81739 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
81758 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
81772 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81791 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81810 TTGCGAT
1 TTGCGAT
81817 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 39 0.55
20 12 0.17
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:81942 original size:14 final size:14
Alignment explanation
Indices: 81923--81959 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
81913 CATCAATTAC
81923 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
81937 ACAAATCATCTTTT
1 ACAAATCAACTTTT
81951 ACAAATCAA
1 ACAAATCAA
81960 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:83918 original size:19 final size:19
Alignment explanation
Indices: 83878--84012 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
83868 TAGTTTACTT
* *
83878 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
83898 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
83917 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
83936 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
83950 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
83969 TCGCAA--CG-AA--AGAA
1 TCGCAACGCGAAACCAAAA
**
83983 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
84002 TCGCAATGCGA
1 TCGCAACGCGA
84013 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.19
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 50 0.53
20 13 0.14
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:83953 original size:14 final size:14
Alignment explanation
Indices: 83934--83990 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
83924 GCGAAATGAA
83934 AATCGCAACGACAG
1 AATCGCAACGACAG
*
83948 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
83967 AATCGCAACGAAAG
1 AATCGCAACGACAG
83981 AATCGCAACG
1 AATCGCAACG
83991 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.28, G:0.19, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:83957 original size:33 final size:33
Alignment explanation
Indices: 83915--84007 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
83905 GCGAAACCAA
*
83915 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
83948 AATCGCAACGCGAAACCAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
83981 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
84008 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:84004 original size:52 final size:54
Alignment explanation
Indices: 83878--84012 Score: 149
Period size: 52 Copynumber: 2.5 Consensus size: 54
83868 TAGTTTACTT
*
83878 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
*
83936 TCGCAA-CGACA-G--AATCGCAACGCGAAACCAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
83983 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
84013 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.07
50 6 0.09
52 39 0.57
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.26, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:84030 original size:19 final size:19
Alignment explanation
Indices: 84008--84136 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
83998 AAAATCGCAA
84008 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
84027 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
*
84041 TGCGATTTTGGTTTCGCTT
1 TGCGATTTTGGTTTCGCGT
*
84060 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
84074 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
84093 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
84112 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
84132 TGCGA
1 TGCGA
84137 AACTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 21 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 47 0.53
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:84050 original size:33 final size:33
Alignment explanation
Indices: 84008--84099 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
83998 AAAATCGCAA
84008 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
*
84041 TGCGATTTTGGTTTCGCTTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
84074 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
84100 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:84300 original size:93 final size:93
Alignment explanation
Indices: 84184--84652 Score: 922
Period size: 93 Copynumber: 5.1 Consensus size: 93
84174 ATGGATTGCA
84184 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
84248 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
84276 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
84341 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
84369 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
84434 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
84462 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
84527 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
84555 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
84620 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
84648 TTACT
1 TTACT
84653 AAGCAATCTA
Statistics
Matches: 375, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 371 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:86382 original size:33 final size:33
Alignment explanation
Indices: 86345--86459 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
86335 TCTTTGGGTT
86345 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* * *
86378 GAAATGACAATTGCAACGAGAGAATCGCAACCC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
86411 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
86444 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
86460 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:86424 original size:19 final size:18
Alignment explanation
Indices: 86345--86459 Score: 74
Period size: 14 Copynumber: 6.9 Consensus size: 18
86335 TCTTTGGGTT
86345 GAAATGAAAATCGCAA-C
1 GAAATGAAAATCGCAACC
*
86362 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAAC-C
* *
86378 GAAATGACAATTGCAA-C
1 GAAATGAAAATCGCAACC
*
86395 G--A-GAGAATCGCAACCC
1 GAAATGAAAATCGCAA-CC
86411 GAAATGAAAATCGCAA-C
1 GAAATGAAAATCGCAACC
*
86428 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAAC-C
86444 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
86460 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
14 29 0.39
15 3 0.04
16 6 0.08
17 5 0.07
18 3 0.04
19 29 0.39
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (18 bp):
GAAATGAAAATCGCAACC
Found at i:86464 original size:19 final size:19
Alignment explanation
Indices: 86367--86464 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
86357 GCAACGAGAG
*
86367 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
* *
86386 AATTGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
86400 AATCGCAACCCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
86419 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
86433 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
86452 AATCGCAATGCGA
1 AATCGCAACGCGA
86465 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:86495 original size:14 final size:14
Alignment explanation
Indices: 86476--86532 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
86466 TTTGGTTTCG
86476 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
86490 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
86509 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
86523 CGTTGCGATT
1 CGTTGCGATT
86533 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:86508 original size:33 final size:33
Alignment explanation
Indices: 86460--86540 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
86450 AAAATCGCAA
**
86460 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
86493 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
86526 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
86541 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:86543 original size:21 final size:21
Alignment explanation
Indices: 86517--86592 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
86507 CGCGTTGCGA
86517 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
86538 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
*
86558 TTCTCTCGTTACGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
86579 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
86593 CTATTCTGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:86573 original size:41 final size:41
Alignment explanation
Indices: 86516--86593 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
86506 TCGCGTTGCG
* *
86516 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTACGATTTTCATTTATCTCGTTGCGACAGTC
86557 ATTCTCTCGTTACGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTACGATTTTCATTTATCTCGTTGCGAC
86594 TATTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTACGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:86578 original size:20 final size:20
Alignment explanation
Indices: 86483--86592 Score: 99
Period size: 21 Copynumber: 5.8 Consensus size: 20
86473 TCGCGTTGCG
86483 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
86503 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
86516 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
86536 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
*
86557 ATTCTCTCGTTACGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
86577 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
86593 CTATTCTGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 17
0.71 0.11 0.17
Matches are distributed among these distances:
13 3 0.04
14 9 0.13
19 9 0.13
20 20 0.29
21 29 0.41
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:86943 original size:22 final size:22
Alignment explanation
Indices: 86891--86945 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
86881 TGGTTGTGAG
**
86891 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
* **
86913 AGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
86935 GGATTTCTTCG
1 GGATTTCTTCG
86946 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:87116 original size:20 final size:20
Alignment explanation
Indices: 87091--87284 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
87081 CTTTAAATAT
87091 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
87111 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
87133 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
87152 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* * **
87172 CGCATTGCGATTTCCCCATA
1 CGCGTTGCGATTTACGGATA
87192 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
87212 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
87232 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
87252 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
87272 CGCGTTGCGATTT
1 CGCGTTGCGATTT
87285 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:87278 original size:60 final size:60
Alignment explanation
Indices: 87091--87284 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
87081 CTTTAAATAT
**
87091 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * **** *
87152 CGCGTTGCGATATACGGATACGCATTGCGATTTCCCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
87212 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
87272 CGCGTTGCGATTT
1 CGCGTTGCGATTT
87285 TGGAAAATCG
Statistics
Matches: 110, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 82 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:87301 original size:21 final size:21
Alignment explanation
Indices: 87271--87353 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
87261 ATTTTCATAT
*
87271 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
87292 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
87313 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
87334 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
87354 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:87344 original size:42 final size:43
Alignment explanation
Indices: 87251--87349 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
87241 ATTTATGTGT
* *
87251 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
87292 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
87334 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
87350 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:88274 original size:169 final size:169
Alignment explanation
Indices: 88016--88320 Score: 393
Period size: 169 Copynumber: 1.8 Consensus size: 169
88006 TAGAAAAATA
** * *
88016 TTTTGTTTAAAATTGAAATAATTACTGTAAACGCTCATTTTCGTCGAGTTCATTTTAAATTTCTT
1 TTTTGTTTAAAATTGAAATAATTACCATAAACGATCATTTTCGTCGAGTTCATTTTAAATTTATT
* *
88081 TTTATTTAATTAAATTTGTATAGGTTTCTGTTACTATTATATACATATACTATTAATATTACTAT
66 TTTATTTAATTAAATTTATATAGGTTTCTGTTACTATTATATACATATACTAATAATATTACTAT
88146 TATAAAAATGAGATTTTTTATGTTTTCAATCGATTTTTT
131 TATAAAAATGAGATTTTTTATGTTTTCAATCGATTTTTT
* *
88185 TTTTGTTTAAAATTGAAAT-ATATACCATATAC-ATTATTTTCGTCTGAG-TCTATTTT-AATTA
1 TTTTGTTTAAAATTGAAATAAT-TACCATAAACGATCATTTTCGTC-GAGTTC-ATTTTAAATT-
* * * * * ** *
88246 TATTTTTATTTGATTAGATTTATATAGGTTTTTGTTAGTATTTTATGTATATATTAATAATATTA
62 TATTTTTATTTAATTAAATTTATATAGGTTTCTGTTACTATTATATACATATACTAATAATATTA
*
88311 TTATTATAAA
127 CTATTATAAA
88321 TATATTAATA
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
168 18 0.16
169 97 0.84
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (169 bp):
TTTTGTTTAAAATTGAAATAATTACCATAAACGATCATTTTCGTCGAGTTCATTTTAAATTTATT
TTTATTTAATTAAATTTATATAGGTTTCTGTTACTATTATATACATATACTAATAATATTACTAT
TATAAAAATGAGATTTTTTATGTTTTCAATCGATTTTTT
Found at i:88344 original size:26 final size:26
Alignment explanation
Indices: 88294--88351 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
88284 TATTTTATGT
*
88294 ATATATTAATAATATTATTATTATAA
1 ATATATTAATAATATTAATATTATAA
*
88320 ATATATTAATACAT-TTACATA-TATAT
1 ATATATTAATA-ATATTA-ATATTATAA
88346 ATATAT
1 ATATAT
88352 GTATGTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATATTAATAATATTAATATTATAA
Found at i:89562 original size:110 final size:110
Alignment explanation
Indices: 89323--89857 Score: 759
Period size: 110 Copynumber: 4.9 Consensus size: 110
89313 TACACCGAAG
* * * * * * *
89323 TGTCGAAATGGTCATTAACCTTTTATGAATACCATGAGTGGCGCCTTTTATGCCGATAATACAGC
1 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACC
* *
89388 GTTATGCATTAAACAAAATCGATCAATAACTTTCATACACGAGGTA
66 GTTATGCATT-AACAATATCGATCGATAACTTTCATACACGAGGTA
* * ** * *
89434 TGCCTAAATGGCCATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGTCGAAAATGCATC
1 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACC
* * *
89499 GTTATGTATTAACAATATCGATTGATAACTTTCATGCACGAGGTA
66 GTTATGCATTAACAATATCGATCGATAACTTTCATACACGAGGTA
* * *
89544 TGTCGAAATGGTAATTCACCTTTTATGAATACCATTGGTGTCACCTTTTATGCTGAAAATGCACC
1 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACC
* *
89609 GTTGTGCATTAA-AA-ATCGATCGATAACTTTAATACACGAGGTA
66 GTTATGCATTAACAATATCGATCGATAACTTTCATACACGAGGTA
* *
89652 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTAATGCCAAAAATGCACC
1 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACC
* * * *
89717 GTTATACATTAACAATATTGATCGATAACTTTCGTACATGAGGTA
66 GTTATGCATTAACAATATCGATCGATAACTTTCATACACGAGGTA
* *
89762 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATCCACT
1 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACC
*
89827 GTTATGTATTAACAATATCGATCGATAACTT
66 GTTATGCATTAACAATATCGATCGATAACTT
89858 CCATTAATGA
Statistics
Matches: 375, Mismatches: 47, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
108 96 0.26
109 4 0.01
110 211 0.56
111 64 0.17
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (110 bp):
TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACC
GTTATGCATTAACAATATCGATCGATAACTTTCATACACGAGGTA
Found at i:89713 original size:218 final size:218
Alignment explanation
Indices: 89323--89857 Score: 739
Period size: 218 Copynumber: 2.4 Consensus size: 218
89313 TACACCGAAG
* * * * *
89323 TGTCGAAATGGTCATTAACCTTTTATGAATACCA-TGAGTGGCGCCTTTTATGCCGATAATACAG
1 TGTCGAAATGGTAATTCACCTTTTATGAATACCATTG-GTGGCACCTTTTATGCCGAAAATACAC
* * * *
89387 CGTTATGCATTAAACAAAATCGATCAATAACTTTCATACACGAGGTATGCCTAAATGGCCATTCA
65 CGTTATGCATT--A-AAAATCGATCGATAACTTTAATACACGAGGTATGCCGAAATGGCAATTCA
* * * * **
89452 CCTTTTATGAATACCATGGGTGGCACCTTTTATGTCGAAAATGCATCGTTATGTATTAACAATAT
127 CCTTTTATGAATACCATGGGTGGCACCTTTAATGCCAAAAATGCACCGTTATACATTAACAATAT
* *
89517 CGATTGATAACTTTCATGCACGAGGTA
192 CGATCGATAACTTTCATACACGAGGTA
* * *
89544 TGTCGAAATGGTAATTCACCTTTTATGAATACCATTGGTGTCACCTTTTATGCTGAAAATGCACC
1 TGTCGAAATGGTAATTCACCTTTTATGAATACCATTGGTGGCACCTTTTATGCCGAAAATACACC
* * *
89609 GTTGTGCATTAAAAATCGATCGATAACTTTAATACACGAGGTATGTCGAAATGGTAATTCACCTT
66 GTTATGCATTAAAAATCGATCGATAACTTTAATACACGAGGTATGCCGAAATGGCAATTCACCTT
*
89674 TTATGAATACCATGGGTGGCACCTTTAATGCCAAAAATGCACCGTTATACATTAACAATATTGAT
131 TTATGAATACCATGGGTGGCACCTTTAATGCCAAAAATGCACCGTTATACATTAACAATATCGAT
* *
89739 CGATAACTTTCGTACATGAGGTA
196 CGATAACTTTCATACACGAGGTA
* * *
89762 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATCCACT
1 TGTCGAAATGGTAATTCACCTTTTATGAATACCATTGGTGGCACCTTTTATGCCGAAAATACACC
*
89827 GTTATGTATTAACAATATCGATCGATAACTT
66 GTTATGCATTAA-AA-ATCGATCGATAACTT
89858 CCATTAATGA
Statistics
Matches: 278, Mismatches: 33, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
218 195 0.70
219 3 0.01
220 15 0.05
221 63 0.23
222 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (218 bp):
TGTCGAAATGGTAATTCACCTTTTATGAATACCATTGGTGGCACCTTTTATGCCGAAAATACACC
GTTATGCATTAAAAATCGATCGATAACTTTAATACACGAGGTATGCCGAAATGGCAATTCACCTT
TTATGAATACCATGGGTGGCACCTTTAATGCCAAAAATGCACCGTTATACATTAACAATATCGAT
CGATAACTTTCATACACGAGGTA
Found at i:93915 original size:2 final size:2
Alignment explanation
Indices: 93908--93954 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
93898 CCAGAAAAGC
* *
93908 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93950 TA TA T
1 TA TA T
93955 CTTTCTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:96090 original size:110 final size:110
Alignment explanation
Indices: 95890--96317 Score: 556
Period size: 110 Copynumber: 3.9 Consensus size: 110
95880 CCGAAGTGCT
* * * *
95890 GAAATGGTCATTCACCTTTTTATGAATACCATGAGTGGAACCTTTTATGCAAAAAATGCACCGTT
1 GAAATGGTAATTCACC-TTTTATGAATACCATGAGTGGCACCTTTTATGCCAAAAATGCATCGTT
**
95955 ATGCATTAACAATATCGATTAATAACTTTCATACACGAGGTATGTC
65 ATGCATTAACAATATCGATCGATAACTTTCATACACGAGGTATGTC
* * * * *
96001 GAAATGGTAATTCACCTATTATGAATACCATGGGTGGCGCCTTTTATGCCGAAAATGCATCGGTA
1 GAAATGGTAATTCACCTTTTATGAATACCATGAGTGGCACCTTTTATGCCAAAAATGCATCGTTA
* * * *
96066 TACGTTAACAATATTGATCGATAACTTTCATGCACGAGGTATGTC
66 TGCATTAACAATATCGATCGATAACTTTCATACACGAGGTATGTC
* *
96111 GAAATGGTTATTCACCTTTTATGAATACCATTGA-TGGCACCTTTTATGCTAAAAATGC-TCTGT
1 GAAATGGTAATTCACCTTTTATGAATACCA-TGAGTGGCACCTTTTATGCCAAAAATGCATC-GT
96174 TATGCATTAACAATATCGATCGATAACTTTCATACACGAGGTATGTC
64 TATGCATTAACAATATCGATCGATAACTTTCATACACGAGGTATGTC
* * ** * ** *
96221 GAAACGGTAATTCACCTTATATGAATAAAATGAGTGGCACCTTTTTTTTTCGAAAATGCAAT-GT
1 GAAATGGTAATTCACCTTTTATGAATACCATGAGTGGCACC-TTTTATGCCAAAAATGC-ATCGT
*
96285 TATGCATTAACAATATCAATCGATAACTTTCAT
64 TATGCATTAACAATATCGATCGATAACTTTCAT
96318 TAATGGCACA
Statistics
Matches: 274, Mismatches: 37, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
109 5 0.02
110 205 0.75
111 63 0.23
113 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (110 bp):
GAAATGGTAATTCACCTTTTATGAATACCATGAGTGGCACCTTTTATGCCAAAAATGCATCGTTA
TGCATTAACAATATCGATCGATAACTTTCATACACGAGGTATGTC
Found at i:102901 original size:27 final size:26
Alignment explanation
Indices: 102871--102925 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
102861 TCATCCTACA
*
102871 ATATAAGGGTATTTTCATAATTTTACC
1 ATATAAGAGTATTTTCATAATTTT-CC
*
102898 ATATCAGAGTATTTTCATAATTTTCC
1 ATATAAGAGTATTTTCATAATTTTCC
102924 AT
1 AT
102926 CCAAGTACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (26 bp):
ATATAAGAGTATTTTCATAATTTTCC
Found at i:107501 original size:110 final size:109
Alignment explanation
Indices: 107263--107687 Score: 523
Period size: 110 Copynumber: 3.9 Consensus size: 109
107253 CGAAGTGCGA
* * * *
107263 AAATGGTCATTCACCTTTTATGAATACCATGAGTGGA-ACCTTTTATGTTGAAAATGCA-TCATT
1 AAATGGTAATTCACCTTTTATGAATACCATGGGT-GACACCTTTTATG-CGAAAATGCACT-GTT
* * * *
107326 ATGCATTAAACAAAATCGATCGGTAACTTTAATACATGAGGTATGCCG
63 ATGCATT-AACAATATCGATCGATAACTTTCATACATGAGGTATGTCG
* * * *
107374 AAATGGTAATTCACCTTTTATGAAAACCATGGGTGACACATTTTATGCATAAAATGCTCTGTTAT
1 AAATGGTAATTCACCTTTTATGAATACCATGGGTGACACCTTTTATGC-GAAAATGCACTGTTAT
107439 GCATTAACAATATCGATCGATAACTTTCATACATGAGGTATGTC-
65 GCATTAACAATATCGATCGATAACTTTCATACATGAGGTATGTCG
* * * * * *
107483 AAGTTTGTAATTCACCTTTTATGAATAGCATGGGTGGCACCTTTTATACCGAAAATGCACCGTTA
1 AA-ATGGTAATTCACCTTTTATGAATACCATGGGTGACACCTTTTAT-GCGAAAATGCACTGTTA
* * *
107548 TGCATTACCAATGTCGATTGATAACTTTCATACATGAGGTATGTCG
64 TGCATTAACAATATCGATCGATAACTTTCATACATGAGGTATGTCG
* * * * *
107594 AAATGGTAATTCACGTTTTATGCATACAATGGGTGGCACCTTTTATTCGAAAATGCACTGTTATG
1 AAATGGTAATTCACCTTTTATGAATACCATGGGTGACACCTTTTATGCGAAAATGCACTGTTATG
*
107659 CATTAACAACATCGATCGATAACTTTCAT
66 CATTAACAATATCGATCGATAACTTTCAT
107688 TAATGGCACC
Statistics
Matches: 271, Mismatches: 37, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
109 44 0.16
110 167 0.62
111 59 0.22
112 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (109 bp):
AAATGGTAATTCACCTTTTATGAATACCATGGGTGACACCTTTTATGCGAAAATGCACTGTTATG
CATTAACAATATCGATCGATAACTTTCATACATGAGGTATGTCG
Found at i:111836 original size:13 final size:12
Alignment explanation
Indices: 111799--111846 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
111789 TATAGGTTAG
*
111799 TTGAGGCACAATC
1 TTGAGACACAA-C
111812 TT-AGACACAAC
1 TTGAGACACAAC
*
111823 TTTGAGAGACAAC
1 -TTGAGACACAAC
111836 TTGAGACACAA
1 TTGAGACACAA
111847 TTCACAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 1 0.03
12 19 0.63
13 10 0.33
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (12 bp):
TTGAGACACAAC
Found at i:114826 original size:7 final size:7
Alignment explanation
Indices: 114814--114839 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
114804 TATCATGGGA
114814 GACCAAC
1 GACCAAC
114821 GACCAAC
1 GACCAAC
114828 GACCAAC
1 GACCAAC
114835 GACCA
1 GACCA
114840 GCATTACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.42, G:0.15, T:0.00
Consensus pattern (7 bp):
GACCAAC
Found at i:116403 original size:3 final size:3
Alignment explanation
Indices: 116397--116434 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
116387 AGATACAAAG
116397 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
116435 TTGATGAGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:121283 original size:24 final size:25
Alignment explanation
Indices: 121234--121307 Score: 141
Period size: 24 Copynumber: 3.0 Consensus size: 25
121224 AAGTCCTTGA
121234 GAATCCATCTCAATCCAAACAATAT
1 GAATCCATCTCAATCCAAACAATAT
121259 GAATCCATCTCAATCC-AACAATAT
1 GAATCCATCTCAATCCAAACAATAT
121283 GAATCCATCTCAATCCAAACAATAT
1 GAATCCATCTCAATCCAAACAATAT
121308 TTTCATTATA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
24 24 0.50
25 24 0.50
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.24
Consensus pattern (25 bp):
GAATCCATCTCAATCCAAACAATAT
Done.