Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 383 of 444
Found at i:111024420 original size:19 final size:19
Alignment explanation
Indices: 111024382--111024504 Score: 71
Period size: 18 Copynumber: 6.7 Consensus size: 19
111024372 ATATTTTAAT
*
111024382 AAAAAT-TTAAATAT-TAA
1 AAAAATATTAAAAATATAA
111024399 AAAAATATTAAAAATAT-A
1 AAAAATATTAAAAATATAA
*
111024417 AAAAATAGTAAAAA-ATAA
1 AAAAATATTAAAAATATAA
* * *
111024435 AAAAA-ATTGTAAAATTTTAT
1 AAAAATA-T-TAAAAATATAA
* ** *
111024455 CAAAATCGTAAAAA-ATTA
1 AAAAATATTAAAAATATAA
* *
111024473 TAAAATATATAGAAATATAA
1 AAAAATAT-TAAAAATATAA
111024493 AAAAATA-TAAAA
1 AAAAATATTAAAA
111024505 TTTTATAAAG
Statistics
Matches: 77, Mismatches: 20, Indels: 17
0.68 0.18 0.15
Matches are distributed among these distances:
17 9 0.12
18 37 0.48
19 16 0.21
20 15 0.19
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAATATTAAAAATATAA
Found at i:111024459 original size:28 final size:27
Alignment explanation
Indices: 111024428--111024513 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
111024418 AAAATAGTAA
*
111024428 AAAATAAAAAAAATTGTAAAATTTTAT
1 AAAATAAAAAAAATTATAAAATTTTAT
** *
111024455 CAAAATCGTAAAAAATTATAAAA-TATAT
1 -AAAAT-AAAAAAAATTATAAAATTTTAT
111024483 AGAAATATAAAAAAA-TATAAAATTTTAT
1 A-AAATA-AAAAAAATTATAAAATTTTAT
111024511 AAA
1 AAA
111024514 GTTGCAATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
27 10 0.21
28 24 0.51
29 13 0.28
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (27 bp):
AAAATAAAAAAAATTATAAAATTTTAT
Found at i:111024545 original size:58 final size:58
Alignment explanation
Indices: 111024408--111024551 Score: 147
Period size: 56 Copynumber: 2.5 Consensus size: 58
111024398 AAAAAATATT
* *
111024408 AAAAA-TATAAAAAATAGTAAA-AAATA-AAAAAAATTGTAAAATTTTATCAAAATCGTA
1 AAAAATTAT-AAAAAT-GTAAAGAAATATAAAAAAATTATAAAATTTTATCAAAATCGCA
* * * *
111024465 AAAAATTAT-AAAATATATAGAAATATAAAAAAA-TATAAAATTTTAT-AAAGTTGCA
1 AAAAATTATAAAAATGTAAAGAAATATAAAAAAATTATAAAATTTTATCAAAATCGCA
*
111024520 ATGAAATTATACAAAATGTAAAGAAATATAAA
1 A-AAAATTATA-AAAATGTAAAGAAATATAAA
111024552 TTTCGTAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
55 10 0.14
56 29 0.40
57 12 0.17
58 21 0.29
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (58 bp):
AAAAATTATAAAAATGTAAAGAAATATAAAAAAATTATAAAATTTTATCAAAATCGCA
Found at i:111024751 original size:18 final size:19
Alignment explanation
Indices: 111024718--111024801 Score: 82
Period size: 19 Copynumber: 4.4 Consensus size: 19
111024708 TTTTTTTATG
**
111024718 ATTTTTATAAAATTTTACA
1 ATTTTTATAATTTTTTACA
*
111024737 ATTTTT-TTATTTTTTACA
1 ATTTTTATAATTTTTTACA
*
111024755 ATTTTTATAATTTTTTTCTA
1 ATTTTTATAATTTTTTAC-A
* *
111024775 ATTTTTAATAA-ATTTTAAA
1 ATTTTT-ATAATTTTTTACA
111024794 ATTTTTAT
1 ATTTTTAT
111024802 TAAATTTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 17 0.31
19 22 0.41
20 11 0.20
21 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTATAATTTTTTACA
Found at i:111024797 original size:57 final size:57
Alignment explanation
Indices: 111024705--111024842 Score: 158
Period size: 57 Copynumber: 2.4 Consensus size: 57
111024695 TAGGGGTCGT
* * * *
111024705 TAATTTTTTTATGATTTTT-ATAAAATTTTACAATTTTT-TT-ATTTTTTACAATTTTTA
1 TAATTTTTTTCTAATTTTTAAT-AAATTTTAAAATTTTTATTAATTTATT--AATTTTTA
**
111024762 TAATTTTTTTCTAATTTTTAATAAATTTTAAAATTTTTATTAAATTTATTGTTTTTTA
1 TAATTTTTTTCTAATTTTTAATAAATTTTAAAATTTTTATT-AATTTATTAATTTTTA
111024820 TAA-TTTTTTCTAATTTTTAATAA
1 TAATTTTTTTCTAATTTTTAATAA
111024843 GTGCATGGAC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
57 52 0.73
58 13 0.18
60 6 0.08
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (57 bp):
TAATTTTTTTCTAATTTTTAATAAATTTTAAAATTTTTATTAATTTATTAATTTTTA
Found at i:111024836 original size:19 final size:19
Alignment explanation
Indices: 111024705--111024838 Score: 75
Period size: 19 Copynumber: 7.0 Consensus size: 19
111024695 TAGGGGTCGT
111024705 TAATTTTTT-TATGATTTTTA
1 TAATTTTTTCTA--ATTTTTA
* *
111024725 TAAAATTTTAC-AATTTTT-
1 T-AATTTTTTCTAATTTTTA
*
111024743 TTATTTTTTAC-AATTTTTA
1 TAATTTTTT-CTAATTTTTA
111024762 TAATTTTTTTCTAATTTTTAA
1 TAA-TTTTTTCTAATTTTT-A
* **
111024783 TAA-ATTTTAAAATTTTTA
1 TAATTTTTTCTAATTTTTA
* *
111024801 TTAAATTTATTGT--TTTTTA
1 -T-AATTTTTTCTAATTTTTA
111024820 TAATTTTTTCTAATTTTTA
1 TAATTTTTTCTAATTTTTA
111024839 ATAAGTGCAT
Statistics
Matches: 87, Mismatches: 15, Indels: 25
0.69 0.12 0.20
Matches are distributed among these distances:
17 13 0.15
18 11 0.13
19 33 0.38
20 16 0.18
21 14 0.16
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (19 bp):
TAATTTTTTCTAATTTTTA
Found at i:111024976 original size:87 final size:89
Alignment explanation
Indices: 111024852--111025020 Score: 238
Period size: 88 Copynumber: 1.9 Consensus size: 89
111024842 AGTGCATGGA
* *
111024852 CTTAATTGCTTTTTTGAAAAATTTTGAGGGTCTTTTTTG-TACATTTTGAAAGTTCAAGTACCCA
1 CTTAATTGCTTTTTTGAAAAAGTTTGAGGGTCCTTTTTGATACATTTTGAAAGTTCAAGTACCCA
111024916 ATTGAGTG-AAAAAAAAGCAGGGG
66 ATTGAGTGCAAAAAAAAGCAGGGG
* * * *
111024939 CTTAATTGCTTCTTTT-AAAGAAGTTTGAGGG-CCTTTTTGATGCATTTTGAAAGTTTAAGTGCT
1 CTTAATTGCTT-TTTTGAAA-AAGTTTGAGGGTCCTTTTTGATACATTTTGAAAGTTCAAGTACC
111025002 CAATTGAGTGCAAAAAAAA
64 CAATTGAGTGCAAAAAAAA
111025021 AAGGGTTGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
87 21 0.29
88 43 0.60
89 8 0.11
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (89 bp):
CTTAATTGCTTTTTTGAAAAAGTTTGAGGGTCCTTTTTGATACATTTTGAAAGTTCAAGTACCCA
ATTGAGTGCAAAAAAAAGCAGGGG
Found at i:111032243 original size:19 final size:20
Alignment explanation
Indices: 111032214--111032253 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
111032204 AAAAACCCTC
* *
111032214 AAAACTTTTTATTTTCTCCT
1 AAAACTTTTTACTCTCTCCT
111032234 AAAA-TTTTTACTCTCTCCT
1 AAAACTTTTTACTCTCTCCT
111032253 A
1 A
111032254 CTTTCCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAACTTTTTACTCTCTCCT
Found at i:111033756 original size:7 final size:7
Alignment explanation
Indices: 111033746--111033795 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
111033736 AACAAATACC
111033746 AAAAAAT
1 AAAAAAT
*
111033753 AAAAAGCAA
1 AAAAA--AT
111033762 AAAAAAT
1 AAAAAAT
111033769 AAAAAAT
1 AAAAAAT
111033776 AAAAAA-
1 AAAAAAT
*
111033782 AAAACA-
1 AAAAAAT
111033788 AAAAAAT
1 AAAAAAT
111033795 A
1 A
111033796 GACGGCGTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 10 0.28
7 20 0.56
9 6 0.17
ACGTcount: A:0.86, C:0.04, G:0.02, T:0.08
Consensus pattern (7 bp):
AAAAAAT
Found at i:111033767 original size:16 final size:16
Alignment explanation
Indices: 111033746--111033783 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
111033736 AACAAATACC
*
111033746 AAAAAATAAAAAGCAA
1 AAAAAATAAAAAACAA
*
111033762 AAAAAATAAAAAATAA
1 AAAAAATAAAAAACAA
111033778 AAAAAA
1 AAAAAA
111033784 AACAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAAAATAAAAAACAA
Found at i:111033790 original size:23 final size:23
Alignment explanation
Indices: 111033746--111033791 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
111033736 AACAAATACC
*
111033746 AAAAAATAAAAAGCAAAAAAAAT
1 AAAAAATAAAAAGAAAAAAAAAT
*
111033769 AAAAAATAAAAAAAAAACAAAAA
1 AAAAAATAAAAAGAAAA-AAAAA
111033792 AATAGACGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.87, C:0.04, G:0.02, T:0.07
Consensus pattern (23 bp):
AAAAAATAAAAAGAAAAAAAAAT
Found at i:111034712 original size:26 final size:26
Alignment explanation
Indices: 111034659--111034714 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
111034649 GTCTTAATAC
* **
111034659 TATTATATATATATATATTTCTTGTA
1 TATTACATATATATATATTTAATGTA
111034685 TATTACATATATATAT-TTTAATGTTA
1 TATTACATATATATATATTTAATG-TA
111034711 TATT
1 TATT
111034715 TTTGTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
TATTACATATATATATATTTAATGTA
Found at i:111035231 original size:12 final size:12
Alignment explanation
Indices: 111035216--111035254 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
111035206 TATAGATATA
111035216 TATATTAGTACT
1 TATATTAGTACT
111035228 TATATTAGTACT
1 TATATTAGTACT
111035240 TATATTTAGTA-T
1 TATA-TTAGTACT
111035252 TAT
1 TAT
111035255 TATGTAAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (12 bp):
TATATTAGTACT
Found at i:111047653 original size:80 final size:77
Alignment explanation
Indices: 111047470--111047941 Score: 395
Period size: 92 Copynumber: 5.7 Consensus size: 77
111047460 CTTTTCAAAT
* *
111047470 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCCCGCTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAATTTATGCTT
111047535 CTGCTTTTCAAAAAAA
65 CTG---TTCAAAAAAA
* *
111047551 TCAACTCATGTTGCGAGAGGTGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
1 TCAACTCATATTGC--GA---GAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTCAATTTA
111047616 TG-TT-TG-TCAAAAAAA
60 TGCTTCTGTTCAAAAAAA
** *
111047631 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGGTTTCTGCTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGCACGCTGAGGTATTTTCAATTTATG---
111047696 TCCAATTTCTGCTCTTCAAAAAAAAAA
62 --C---TTCTG---TTC-AA--AAAAA
* *
111047723 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTCAATTTATGCTT
111047787 -TG-TC--AAAAA
65 CTGTTCAAAAAAA
* * *
111047796 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CAC--GCTGAGGTATTTTCAATTTATG
**
111047860 TTTTTCAATTTCTGTTCATCAAAA
62 -----C---TTCTGTTCAAAAAAA
*
111047884 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCATGCTGAGGTATTTTCAATT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAATT
111047942 AATGTTTTTT
Statistics
Matches: 328, Mismatches: 20, Indels: 81
0.76 0.05 0.19
Matches are distributed among these distances:
72 2 0.01
73 40 0.12
75 59 0.18
76 2 0.01
78 4 0.01
80 22 0.07
81 13 0.04
82 2 0.01
83 4 0.01
84 6 0.02
85 9 0.03
86 58 0.18
88 38 0.12
89 2 0.01
90 4 0.01
91 2 0.01
92 61 0.19
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (77 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAATTTATGCTTC
TGTTCAAAAAAA
Found at i:111047844 original size:167 final size:160
Alignment explanation
Indices: 111047470--111047948 Score: 587
Period size: 161 Copynumber: 2.9 Consensus size: 160
111047460 CTTTTCAAAT
* * *
111047470 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCCCGCTGAGGTATTTTCAATTTCTGC-T
1 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTT
* * *
111047534 T-C---TGCTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGGTGAGTTGAGCCTCAGGACA
66 TCCAATTTCTGTTCAAAAAAATCAACTCATATTGC--GA---GAGGTGAGTTGAGCCTCAGGACA
111047595 CGCTGAGGTAATTTCAATTTATGTTTGTCAAAAAAA
126 CGCTGAGGTAATTTCAATTTATGTTTGTC-AAAAAA
* **
111047631 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGGTTTCTGCTT
1 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTT
111047696 TCCAATTTCTGCTCTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
66 TCCAATTTCTG---TTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
111047761 ACGCTGAGGTAATTTCAATTTCTGTTTGTC-AAAAA
125 ACGCTGAGGTAATTTCAATTTATGTTTGTCAAAAAA
* *
111047796 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATTTCTG
1 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTTTCAATTTCTG
* * ** *
111047860 TTTTTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG-CAT
63 CTTTCCAATTTCTGTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACAC
* *
111047924 GCTGAGGTATTTTCAATTAATGTTT
127 GCTGAGGTAATTTCAATTTATGTTT
111047949 TTTCAATTTA
Statistics
Matches: 282, Mismatches: 21, Indels: 30
0.85 0.06 0.09
Matches are distributed among these distances:
161 121 0.43
162 5 0.02
163 1 0.00
164 5 0.02
165 40 0.14
166 3 0.01
167 82 0.29
169 3 0.01
170 2 0.01
172 20 0.07
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (160 bp):
TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTT
TCCAATTTCTGTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTAATTTCAATTTATGTTTGTCAAAAAA
Found at i:111047860 original size:75 final size:73
Alignment explanation
Indices: 111047718--111047867 Score: 221
Period size: 73 Copynumber: 2.0 Consensus size: 73
111047708 TCTTCAAAAA
*
111047718 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
111047783 TGTTTGTC
66 TGTTTGTC
* **
111047791 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAAT
*
111047855 TTCTGTTTTTC
63 TTCTGTTTGTC
111047866 AA
1 AA
111047868 TTTCTGTTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
72 2 0.03
73 37 0.54
75 30 0.43
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:111047866 original size:14 final size:14
Alignment explanation
Indices: 111047847--111047875 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
111047837 TGCTGAGGTC
111047847 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
111047861 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
111047875 T
1 T
111047876 CATCAAAATC
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:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:111047991 original size:176 final size:176
Alignment explanation
Indices: 111047773--111048091 Score: 444
Period size: 176 Copynumber: 1.8 Consensus size: 176
111047763 GCTGAGGTAA
* * *
111047773 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCC-TCGGCTCACA
1 TTTCAATTTATGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTTAGG-TCACA
* * ** * * * *
111047837 TGCTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGA
65 TGCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTTCATAAAAATCAACTAATATTGCGAGA
**
111047902 GGTGAGTTGAGCCTCGAGGCATGCTGAGGTATTTTCAATTAATGTTT
130 AATGAGTTGAGCCTCGAGGCATGCTGAGGTATTTTCAATTAATGTTT
* *
111047949 TTTCAATTTATGCTTT-TCAAAAATCAACTCATATTACGAGAGGTGAGTTGGGCCTTAGGTCACA
1 TTTCAATTTATG-TTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTTAGGTCACA
** *
111048013 TGCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTTTTTAAAAATCAACTAATATTGCGATA
65 TGCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTTCATAAAAATCAACTAATATTGCGAGA
111048078 AATGAGTTGAGCCT
130 AATGAGTTGAGCCT
111048092 TTGCTCACGT
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
176 117 0.95
177 6 0.05
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (176 bp):
TTTCAATTTATGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTTAGGTCACAT
GCCGAGGTATTTTCAAAATCTGTTTTGCAAATTCTGTTCATAAAAATCAACTAATATTGCGAGAA
ATGAGTTGAGCCTCGAGGCATGCTGAGGTATTTTCAATTAATGTTT
Found at i:111048092 original size:88 final size:88
Alignment explanation
Indices: 111047773--111048117 Score: 378
Period size: 88 Copynumber: 3.9 Consensus size: 88
111047763 GCTGAGGTAA
* *
111047773 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCC-TCGGCTCACA
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-TCACA
* **
111047837 TGCTGAGGTCTTTTCAATTTCTGTT
64 TGCTGAGGTATTTTCAAAATCTGTT
* *
111047862 TTTCAATTTCTGTTCATC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG---CA
1 TTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGGTCACA
*
111047923 TGCTGAGGTATTTTCAATTAATGT-TT
64 TGCTGAGGTATTTTCAA--AATCTGTT
* * *
111047949 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGGGCCTTAGGTCACAT
1 TTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACAT
*
111048014 GCCGAGGTATTTTCAAAATCTGTT
65 GCTGAGGTATTTTCAAAATCTGTT
* * * * * ** * * *
111048038 TTGCAAATTCTGTTTTTAAAAATCAACTAATATTGCGATAAATGAGTTGAGCCTTTGCTCACGTG
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACATG
*
111048103 CTGAGCTATTTTCAA
66 CTGAGGTATTTTCAA
111048118 TTTCTATTTT
Statistics
Matches: 215, Mismatches: 30, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
86 18 0.08
87 18 0.08
88 132 0.61
89 27 0.13
90 20 0.09
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (88 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACATG
CTGAGGTATTTTCAAAATCTGTT
Found at i:111049261 original size:9 final size:9
Alignment explanation
Indices: 111049249--111049273 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
111049239 GCAAAAAAGC
111049249 AAAAAAAAT
1 AAAAAAAAT
111049258 AAAAAAAAT
1 AAAAAAAAT
111049267 AAAAAAA
1 AAAAAAA
111049274 TAGATGGCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:111050646 original size:2 final size:2
Alignment explanation
Indices: 111050641--111050670 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
111050631 TATTTTTTAA
*
111050641 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111050671 TAGTACTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111050681 original size:12 final size:12
Alignment explanation
Indices: 111050666--111050704 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
111050656 TATATATATA
111050666 TATATTAGTACT
1 TATATTAGTACT
111050678 TATATTAGTACT
1 TATATTAGTACT
111050690 TATATTTAGTA-T
1 TATA-TTAGTACT
111050702 TAT
1 TAT
111050705 TATGTAAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (12 bp):
TATATTAGTACT
Found at i:111058596 original size:18 final size:18
Alignment explanation
Indices: 111058573--111058628 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
111058563 CCACCACCAA
111058573 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
111058591 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
111058603 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
111058621 CTCCACTA
1 CTCCACTA
111058629 CCTACTCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:111058599 original size:30 final size:30
Alignment explanation
Indices: 111058563--111058646 Score: 150
Period size: 30 Copynumber: 2.8 Consensus size: 30
111058553 CTAGCCTTTG
111058563 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
111058593 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
111058623 CCACTACCTACTCCACTAGCCACA
1 CCACCACCAACTCCACTAGCCACA
111058647 TTCCACCACC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.27, C:0.50, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:111059188 original size:24 final size:23
Alignment explanation
Indices: 111059140--111059191 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
111059130 TTTTTTTTGT
*
111059140 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
111059163 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
111059187 TATTA
1 TATTA
111059192 GGTGTATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:111059235 original size:25 final size:26
Alignment explanation
Indices: 111059207--111059320 Score: 96
Period size: 25 Copynumber: 4.5 Consensus size: 26
111059197 ATTCTAAATT
*
111059207 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
111059232 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
111059257 CTATATTATTTATATATATATATTACATG
1 CTATATTA--TGTATATATATATTA-ATA
* *
111059286 TTATCTTATGTATATAT-T-TTAAT-
1 CTATATTATGTATATATATATTAATA
111059309 -TATATTATGTAT
1 CTATATTATGTAT
111059321 GTACTTTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 13
0.75 0.11 0.13
Matches are distributed among these distances:
22 11 0.15
24 4 0.05
25 29 0.40
26 1 0.01
27 17 0.23
28 3 0.04
29 8 0.11
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:111059310 original size:29 final size:29
Alignment explanation
Indices: 111059236--111059310 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 29
111059226 ATTATACTAT
111059236 TTTATGTATATATCTTTAA-TACTATATTA
1 TTTATGTATATAT-TTTAATTACTATATTA
* *
111059265 TTTA--TATATA-TAT-ATTAC-ATGTTA
1 TTTATGTATATATTTTAATTACTATATTA
111059289 TCTTATGTATATATTTTAATTA
1 T-TTATGTATATATTTTAATTA
111059311 TATTATGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
24 7 0.19
25 8 0.22
27 12 0.32
28 2 0.05
29 8 0.22
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (29 bp):
TTTATGTATATATTTTAATTACTATATTA
Found at i:111059360 original size:20 final size:20
Alignment explanation
Indices: 111059335--111059393 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
111059325 TTTTTACACT
111059335 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
111059355 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
111059378 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
111059394 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:111059538 original size:16 final size:15
Alignment explanation
Indices: 111059514--111059548 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
111059504 TAATTATTAT
111059514 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
111059530 TATTTTAATATTTTA
1 TATTCTAATATTTTA
111059545 TATT
1 TATT
111059549 ATTCACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:111061252 original size:109 final size:111
Alignment explanation
Indices: 111061047--111061267 Score: 374
Period size: 109 Copynumber: 2.0 Consensus size: 111
111061037 GTCCAATTTA
111061047 AAAAAATTCTTTGAGTTGGTTTCGCTAGAATAGACCATTTCCTATTTAAAAATAATTAAAAAAAA
1 AAAAAATTCTTTGAGTTGGTTTCGCTAGAATAGACCATTTCCTATTTAAAAATAATT-AAAAAAA
111061112 CATTTTATATTTAATTTTAATTTTAGAAATTAATATTAATATAAATT
65 CATTTTATATTTAATTTTAATTTTAGAAATTAATATTAATATAAATT
* * * * *
111061159 AAAAATTTCTTTGAGTTGGTTTCGCTCGACTCGACCA-TTCCTATTTAAAAATAATT-AAAAAAT
1 AAAAAATTCTTTGAGTTGGTTTCGCTAGAATAGACCATTTCCTATTTAAAAATAATTAAAAAAAC
111061222 ATTTTATATTTAATTTTAATTTTAGAAATTAATATTAATATAAATT
66 ATTTTATATTTAATTTTAATTTTAGAAATTAATATTAATATAAATT
111061268 TTATATTTTT
Statistics
Matches: 104, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
109 52 0.50
111 19 0.18
112 33 0.32
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (111 bp):
AAAAAATTCTTTGAGTTGGTTTCGCTAGAATAGACCATTTCCTATTTAAAAATAATTAAAAAAAC
ATTTTATATTTAATTTTAATTTTAGAAATTAATATTAATATAAATT
Found at i:111066713 original size:22 final size:21
Alignment explanation
Indices: 111066687--111066737 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
111066677 CAATCTATGA
111066687 AAACATTGCTACTTCTTTTGTG
1 AAACATT-CTACTTCTTTTGTG
111066709 AAACACTTCTACTTCTTTTGTG
1 AAACA-TTCTACTTCTTTTGTG
111066731 AAGACAT
1 AA-ACAT
111066738 CCTGGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (21 bp):
AAACATTCTACTTCTTTTGTG
Found at i:111069036 original size:26 final size:26
Alignment explanation
Indices: 111069003--111069138 Score: 220
Period size: 26 Copynumber: 5.2 Consensus size: 26
111068993 TGATACAAAT
111069003 TGATAATGGGTTAGGTAAATG-TTCTA
1 TGATAATGGGTTAGGTAAATGTTTC-A
* * * *
111069029 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111069055 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111069081 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111069107 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111069133 TGATAA
1 TGATAA
111069139 GAATTACATG
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 99 0.98
27 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:111073668 original size:14 final size:16
Alignment explanation
Indices: 111073649--111073692 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
111073639 GGCAACCCAT
111073649 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
111073663 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
111073679 ATTAAGTTTAATTT
1 ATTTA-TTTAATTT
111073693 ATGTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:111083349 original size:51 final size:51
Alignment explanation
Indices: 111083268--111083384 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
111083258 ACTTCTGATC
111083268 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* * *
111083319 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
*
111083370 GGTGACAAGTGATAA
1 AGTGACAAGTGATAA
111083385 ATGTGATCCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:111085509 original size:19 final size:21
Alignment explanation
Indices: 111085487--111085531 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 21
111085477 ATAAAAATTC
*
111085487 ATTTTTATAATAATAA-A-AT
1 ATTTTTATAACAATAATATAT
111085506 A--TTTATAACAATAATATAT
1 ATTTTTATAACAATAATATAT
111085525 ATTTTTA
1 ATTTTTA
111085532 ATTAAGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 12 0.57
18 1 0.05
19 4 0.19
21 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTTATAACAATAATATAT
Found at i:111092876 original size:15 final size:15
Alignment explanation
Indices: 111092858--111092917 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
111092848 AACCATTATC
*
111092858 CTATTAGACACATCA
1 CTATCAGACACATCA
*
111092873 CTATCAGATACATCA
1 CTATCAGACACATCA
* * * *
111092888 TTAACAAACACATCG
1 CTATCAGACACATCA
111092903 CTATCAGACACATCA
1 CTATCAGACACATCA
111092918 AAATCAAACA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:111092926 original size:30 final size:30
Alignment explanation
Indices: 111092865--111092927 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
111092855 ATCCTATTAG
* *
111092865 ACACATCACTATCAGATACATCATTAACAA
1 ACACATCACTATCAGACACATCATAAACAA
*
111092895 ACACATCGCTATCAGACACATCA-AAATCAA
1 ACACATCACTATCAGACACATCATAAA-CAA
111092925 ACA
1 ACA
111092928 TTTCTTCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.48, C:0.29, G:0.05, T:0.19
Consensus pattern (30 bp):
ACACATCACTATCAGACACATCATAAACAA
Found at i:111093290 original size:6 final size:6
Alignment explanation
Indices: 111093279--111093304 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
111093269 CACACAACAT
111093279 CATGCA CATGCA CATGCA CATGCA CA
1 CATGCA CATGCA CATGCA CATGCA CA
111093305 CGACATACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (6 bp):
CATGCA
Found at i:111093345 original size:18 final size:18
Alignment explanation
Indices: 111093324--111093379 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
111093314 CAACATTAGT
111093324 TTGATACAAACAATAAAC
1 TTGATACAAACAATAAAC
* **
111093342 TTGACATACACAAC-ATCAGT
1 TTG--ATACA-AACAATAAAC
111093362 TTGATACAAACAATAAAC
1 TTGATACAAACAATAAAC
111093380 ATGACATACA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
17 3 0.11
18 11 0.39
20 11 0.39
21 3 0.11
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (18 bp):
TTGATACAAACAATAAAC
Found at i:111093350 original size:20 final size:21
Alignment explanation
Indices: 111093327--111093394 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 21
111093317 CATTAGTTTG
111093327 ATACA-AACAATAAACTTGAC
1 ATACACAACAATAAACTTGAC
* **
111093347 ATACACAAC-ATCAGTTTG--
1 ATACACAACAATAAACTTGAC
*
111093365 ATACA-AACAATAAACATGAC
1 ATACACAACAATAAACTTGAC
111093385 ATACACAACA
1 ATACACAACA
111093395 TCATGCACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
20 16 0.44
21 7 0.19
ACGTcount: A:0.53, C:0.22, G:0.06, T:0.19
Consensus pattern (21 bp):
ATACACAACAATAAACTTGAC
Found at i:111093352 original size:38 final size:38
Alignment explanation
Indices: 111093306--111093397 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
111093296 ACATGCACAC
* *
111093306 GACATACACAACATTAGTTTGATACAAACAATAAACTT
1 GACATACACAACATCAGTTTGATACAAACAATAAACAT
111093344 GACATACACAACATCAGTTTGATACAAACAATAAACAT
1 GACATACACAACATCAGTTTGATACAAACAATAAACAT
111093382 GACATACACAACATCA
1 GACATACACAACATCA
111093398 TGCACATGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.22
Consensus pattern (38 bp):
GACATACACAACATCAGTTTGATACAAACAATAAACAT
Found at i:111095117 original size:24 final size:23
Alignment explanation
Indices: 111095080--111095126 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
111095070 ATGTTATTTT
111095080 ATTTTAATATTTAATAAATTTATA
1 ATTTTAATATTTAA-AAATTTATA
*
111095104 ATTTTAAT-TATTAAAATTTTATA
1 ATTTTAATAT-TTAAAAATTTATA
111095127 TATAGTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTAATATTTAAAAATTTATA
Found at i:111095727 original size:17 final size:18
Alignment explanation
Indices: 111095695--111095730 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
111095685 TTTGTGTTAT
*
111095695 AAATTACATAATATATAA
1 AAATAACATAATATATAA
111095713 AAATAACATATATATATA
1 AAATAACATA-ATATATA
111095731 TATATATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:111103311 original size:2 final size:2
Alignment explanation
Indices: 111103268--111103292 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111103258 AAATTTTACA
111103268 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
111103293 ACGGTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111106159 original size:20 final size:22
Alignment explanation
Indices: 111106114--111106160 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
111106104 CTTAAAATAC
*
111106114 ATCTTCATATGAATACATAATT
1 ATCTTTATATGAATACATAATT
111106136 -TCTTTATATG-ATACA-AATT
1 ATCTTTATATGAATACATAATT
111106155 ATCTTT
1 ATCTTT
111106161 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 10 0.43
21 9 0.39
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (22 bp):
ATCTTTATATGAATACATAATT
Found at i:111107104 original size:14 final size:15
Alignment explanation
Indices: 111107075--111107110 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
111107065 ATATATACAT
111107075 TAAAAATATAAAATA
1 TAAAAATATAAAATA
*
111107090 TAAAAATA-AATATA
1 TAAAAATATAAAATA
111107104 TAAAAAT
1 TAAAAAT
111107111 TTCAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAATATAAAATA
Found at i:111107168 original size:18 final size:19
Alignment explanation
Indices: 111107131--111107170 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
111107121 TATATAATCT
*
111107131 AAAAAATTTATAAATTATA
1 AAAAAATTTATAAATAATA
111107150 AAAAAATTTATAAA-AATA
1 AAAAAATTTATAAATAATA
111107168 AAA
1 AAA
111107171 TTTACAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAATTTATAAATAATA
Found at i:111107439 original size:8 final size:8
Alignment explanation
Indices: 111107409--111107455 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
111107399 CTTATATATT
*
111107409 ATTTTAAA
1 ATTTTATA
111107417 ATTTTA-A
1 ATTTTATA
*
111107424 AATTTATA
1 ATTTTATA
*
111107432 ATTATAT-
1 ATTTTATA
111107439 ATTTTATA
1 ATTTTATA
111107447 ATTTTATA
1 ATTTTATA
111107455 A
1 A
111107456 CAATATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 12 0.36
8 21 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTTATA
Found at i:111107454 original size:15 final size:15
Alignment explanation
Indices: 111107408--111107454 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
111107398 TCTTATATAT
*
111107408 TATTTTAAAATTTTA
1 TATTTTATAATTTTA
* * *
111107423 AAATTTATAATTATA
1 TATTTTATAATTTTA
111107438 TATTTTATAATTTTA
1 TATTTTATAATTTTA
111107453 TA
1 TA
111107455 ACAATATTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTTATAATTTTA
Found at i:111107461 original size:23 final size:22
Alignment explanation
Indices: 111107417--111107461 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
111107407 TTATTTTAAA
**
111107417 ATTTTAAAATTTATAATTATAT
1 ATTTTAAAATTTATAACAATAT
*
111107439 ATTTTATAATTTTATAACAATAT
1 ATTTTA-AAATTTATAACAATAT
111107462 TATATGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTAAAATTTATAACAATAT
Found at i:111109587 original size:61 final size:61
Alignment explanation
Indices: 111109492--111109618 Score: 236
Period size: 61 Copynumber: 2.1 Consensus size: 61
111109482 AGTGTTTGAG
*
111109492 TTGAATTTTTAGTCTGTCCTACATTTAGGTACCAATACCTAGCTCAGGGTTATTGATACCC
1 TTGAATTTTTAGTCTGTCCTACACTTAGGTACCAATACCTAGCTCAGGGTTATTGATACCC
*
111109553 TTGAATTTTTAGTCTGTCCTGCACTTAGGTACCAATACCTAGCTCAGGGTTATTGATACCC
1 TTGAATTTTTAGTCTGTCCTACACTTAGGTACCAATACCTAGCTCAGGGTTATTGATACCC
111109614 TTGAA
1 TTGAA
111109619 GTCAATATTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (61 bp):
TTGAATTTTTAGTCTGTCCTACACTTAGGTACCAATACCTAGCTCAGGGTTATTGATACCC
Found at i:111111439 original size:6 final size:7
Alignment explanation
Indices: 111111422--111111448 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
111111412 TGTAAAACCC
111111422 AAAAAAG
1 AAAAAAG
111111429 AAAAAAG
1 AAAAAAG
111111436 AAAAAAG
1 AAAAAAG
111111443 AAAAAA
1 AAAAAA
111111449 CCTTCTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:111113508 original size:2 final size:2
Alignment explanation
Indices: 111113501--111113536 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
111113491 TCAAATTCAA
111113501 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
111113537 TTTAATAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111122126 original size:35 final size:35
Alignment explanation
Indices: 111121913--111122114 Score: 244
Period size: 35 Copynumber: 5.6 Consensus size: 35
111121903 TCCTCATTGA
* ** *
111121913 AATACCATACCTATATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
** **
111121948 AATGTCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
* *
111121988 AATACCATACCTACATTTCATAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111122023 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111122058 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
111122093 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111122115 CTTTTCCATG
Statistics
Matches: 149, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
35 119 0.80
39 3 0.02
40 27 0.18
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:111127614 original size:21 final size:22
Alignment explanation
Indices: 111127579--111127626 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
111127569 AATATATATT
*
111127579 AAAAATTTGTAAAATTGTTAAA
1 AAAAAGTTGTAAAATTGTTAAA
* *
111127601 AAAAAGTTGTAAATTTTTTAAA
1 AAAAAGTTGTAAAATTGTTAAA
111127623 AAAA
1 AAAA
111127627 TTAAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (22 bp):
AAAAAGTTGTAAAATTGTTAAA
Found at i:111127650 original size:27 final size:30
Alignment explanation
Indices: 111127601--111127689 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 30
111127591 AATTGTTAAA
**
111127601 AAAAAGTTGTAAATTTTTTAAAA-A-A-ATT
1 AAAAA-TTGTAAATTTTAAAAAATATATATT
*
111127629 AAAAATTGTGAATTTTAAAAAATATATATT
1 AAAAATTGTAAATTTTAAAAAATATATATT
111127659 AAAAATTTGTAAAGTTATTTAAAAAAT-TATA
1 AAAAA-TTGTAAA--T-TTTAAAAAATATATA
111127690 ATAATTTCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 14 0.28
28 6 0.12
29 1 0.02
30 8 0.16
31 6 0.12
33 5 0.10
34 10 0.20
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (30 bp):
AAAAATTGTAAATTTTAAAAAATATATATT
Found at i:111128882 original size:16 final size:15
Alignment explanation
Indices: 111128861--111128890 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
111128851 TCCCTTTAAA
111128861 TTCTTCTTTTCTTTTC
1 TTCTTCTTTT-TTTTC
111128877 TTCTTCTTTTTTTT
1 TTCTTCTTTTTTTT
111128891 ATCAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTTCTTTTTTTTC
Found at i:111131144 original size:45 final size:45
Alignment explanation
Indices: 111131048--111131175 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 45
111131038 CCAAATTTGT
* * * *
111131048 AGACAAGCTACCATGTAAGTTGTGGAT-AAACTACCAATACTTGT
1 AGACAAGCTACCATGTAGGTTGTGGATGAAGCCACCAATACTTGC
**
111131092 AGACAAGCTTTCATGTAGGTTGTGGATGAAGCCACCAATA-TTCGC
1 AGACAAGCTACCATGTAGGTTGTGGATGAAGCCACCAATACTT-GC
* * *
111131137 AGACAAGCTGCCATGTAGGTTGTAGACGAAGCCACCAAT
1 AGACAAGCTACCATGTAGGTTGTGGATGAAGCCACCAAT
111131176 TCTTCCTCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
44 26 0.36
45 46 0.64
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (45 bp):
AGACAAGCTACCATGTAGGTTGTGGATGAAGCCACCAATACTTGC
Found at i:111137752 original size:11 final size:11
Alignment explanation
Indices: 111137725--111137773 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
111137715 ATATCCAAAC
*
111137725 AATAACAGCAA
1 AATAATAGCAA
111137736 AATAATAGCAA
1 AATAATAGCAA
* *
111137747 CATAATAGTAA
1 AATAATAGCAA
**
111137758 AATGGTAGCAA
1 AATAATAGCAA
111137769 AATAA
1 AATAA
111137774 GGAGAAAACA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.18
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:111140548 original size:26 final size:25
Alignment explanation
Indices: 111140519--111140603 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
111140509 TAAGAATGTT
111140519 ATTAAATTATATATTATTTTTATTAA
1 ATTAAATT-TATATTATTTTTATTAA
* * * *
111140545 ATTATATTTAATAATAATTATATTAA
1 ATTAAATTT-ATATTATTTTTATTAA
*
111140571 AATATAA-TTA-ATT-TTTTTATTAA
1 ATTA-AATTTATATTATTTTTATTAA
*
111140594 ATTATATTTA
1 ATTAAATTTA
111140604 ATAATAATCC
Statistics
Matches: 45, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.02
23 14 0.31
24 2 0.04
25 2 0.04
26 25 0.56
27 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTAAATTTATATTATTTTTATTAA
Found at i:111140552 original size:16 final size:17
Alignment explanation
Indices: 111140523--111140611 Score: 57
Period size: 16 Copynumber: 5.5 Consensus size: 17
111140513 AATGTTATTA
111140523 AATTATATATTAT-TTTT
1 AATTATA-ATTATATTTT
111140540 -ATTA-AATTATA-TTT
1 AATTATAATTATATTTT
* *
111140554 AATAATAATTATA-TTA
1 AATTATAATTATATTTT
* *
111140570 AAATATAATTAATTTTTT
1 AATTATAATT-ATATTTT
*
111140588 TATTA-AATTATA-TTT
1 AATTATAATTATATTTT
*
111140603 AATAATAAT
1 AATTATAAT
111140612 CCTATTATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
14 8 0.15
15 10 0.18
16 26 0.47
17 6 0.11
18 5 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTATAATTATATTTT
Found at i:111140618 original size:26 final size:26
Alignment explanation
Indices: 111140539--111140611 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 26
111140529 ATATTATTTT
111140539 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAATAATTA
* * * *
111140565 TATTAAAATATAATTAAT--T-TTTT
1 TATTAAATTATATTTAATAATAATTA
111140588 TATTAAATTATATTTAATAATAAT
1 TATTAAATTATATTTAATAATAAT
111140612 CCTATTATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
23 18 0.49
24 1 0.03
25 1 0.03
26 17 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTAAATTATATTTAATAATAATTA
Found at i:111140826 original size:16 final size:16
Alignment explanation
Indices: 111140781--111140832 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
111140771 TGAATTCTTG
* *
111140781 ATTACAATTCTATTAC
1 ATTACAACTCTATTCC
*
111140797 ATTACAACTTTATTCC
1 ATTACAACTCTATTCC
* *
111140813 ATTACAGCTCTATTCT
1 ATTACAACTCTATTCC
111140829 ATTA
1 ATTA
111140833 TAGGCCTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:111145134 original size:5 final size:5
Alignment explanation
Indices: 111145126--111145194 Score: 70
Period size: 5 Copynumber: 13.6 Consensus size: 5
111145116 AACCTAAATT
*
111145126 AATAA AATAA AATAA AATAA AATAA TAA-AT AATAAA AATAAA AATAA
1 AATAA AATAA AATAA AATAA AATAA -AATAA AAT-AA AAT-AA AATAA
* *
111145173 AATAA AA-CA AACAA AATAA AAT
1 AATAA AATAA AATAA AATAA AAT
111145195 CTTTCTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
4 5 0.09
5 38 0.69
6 12 0.22
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:111145157 original size:7 final size:6
Alignment explanation
Indices: 111145129--111145193 Score: 55
Period size: 7 Copynumber: 10.5 Consensus size: 6
111145119 CTAAATTAAT
111145129 AAAAT- AAAAT- AAAATAA AATAATA AATAATA AAAATA AAAAT- AAAATA
1 AAAATA AAAATA AAAAT-A AA-AATA AA-AATA AAAATA AAAATA AAAATA
*
111145177 AAACAAA CAAAATA AAA
1 AAA-ATA -AAAATA AAA
111145194 TCTTTCTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
5 15 0.29
6 15 0.29
7 16 0.31
8 6 0.12
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:111150247 original size:5 final size:5
Alignment explanation
Indices: 111150237--111150290 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
111150227 AACCTAAATT
* *
111150237 AATAA AATAA AATAA TA-AA AATAAA AATAAA AATAA AATAA AACAA AATAA
1 AATAA AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA
111150288 AAT
1 AAT
111150291 CTTTCTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 3 0.07
5 29 0.67
6 11 0.26
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:111150247 original size:13 final size:13
Alignment explanation
Indices: 111150231--111150288 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
111150221 TAGCATAACC
111150231 TAAATTAAT-AAAA
1 TAAA-TAATAAAAA
111150244 TAAAATAATAAAAA
1 T-AAATAATAAAAA
111150258 TAAA-AATAAAAA
1 TAAATAATAAAAA
*
111150270 TAAAATAAAACAAAA
1 T-AAATAATA-AAAA
111150285 TAAA
1 TAAA
111150289 ATCTTTCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
12 9 0.23
13 11 0.28
14 14 0.36
15 5 0.13
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:111150261 original size:6 final size:6
Alignment explanation
Indices: 111150240--111150279 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
111150230 CTAAATTAAT
111150240 AAAATAA AATAATA AAAATA AAAATA AAAAT- AAAATA AAA
1 AAAAT-A AA-AATA AAAATA AAAATA AAAATA AAAATA AAA
111150280 CAAAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.16
6 18 0.58
7 5 0.16
8 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:111150267 original size:12 final size:12
Alignment explanation
Indices: 111150240--111150279 Score: 55
Period size: 11 Copynumber: 3.2 Consensus size: 12
111150230 CTAAATTAAT
111150240 AAAATAAAATAATA
1 AAAAT-AAA-AATA
111150254 AAAATAAAAATA
1 AAAATAAAAATA
111150266 AAAAT-AAAATA
1 AAAATAAAAATA
111150277 AAA
1 AAA
111150280 CAAAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.35
12 9 0.35
13 3 0.12
14 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:111154677 original size:93 final size:94
Alignment explanation
Indices: 111154545--111154720 Score: 234
Period size: 93 Copynumber: 1.9 Consensus size: 94
111154535 TAATCATCTC
* * * * * *
111154545 TTTAATTAATAACTCTTTTCTTTATATAAACAATATAATAAATATGTAA-T-TAT-ATAAAAACA
1 TTTAATTAATAAATCCTTTATTTATATAAAAAATATAAT-AAT-TATAATTATATAATAAAAAAA
111154607 TATTTTTTATATATATCATTATAAAAATATT
64 TATTTTTTATATATATCATTATAAAAATATT
111154638 TTTAATTAATAAATCCTTTATTTATATAAATAAAT-TAATAATTATAATTATATAATAAAAAAAT
1 TTTAATTAATAAATCCTTTATTTATATAAA-AAATATAATAATTATAATTATATAATAAAAAAAT
*
111154702 ATTTTTTATATTTATCATT
65 ATTTTTTATATATATCATT
111154721 GTGTTAAATA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
91 4 0.06
92 4 0.06
93 34 0.47
94 30 0.42
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.48
Consensus pattern (94 bp):
TTTAATTAATAAATCCTTTATTTATATAAAAAATATAATAATTATAATTATATAATAAAAAAATA
TTTTTTATATATATCATTATAAAAATATT
Found at i:111154856 original size:106 final size:106
Alignment explanation
Indices: 111154746--111154964 Score: 246
Period size: 105 Copynumber: 2.1 Consensus size: 106
111154736 TAATTTTCAA
**
111154746 AAATATCAACTA-T-TTTTTATATATATTTATATGTCAAATATTTAATTTCTCCACCTACATGGT
1 AAATATCAACTATTATTTTTATATATA-AAATATGTCAAATA-TTAATTTCTCCACCTACATGGT
* * *
111154809 GAGTATGATGATTTCTAATATTATAAAATCAAATAATTATTTC
64 GAGTATGATAAATTCTAATATTATAAAATCAAATAATTATGTC
* * * * * * * * * *
111154852 AAATATC-ATTGTTATTTTTATATGTAAAATATTTCAAATATTATTTTTTTCATCTACATTGTGG
1 AAATATCAACTATTATTTTTATATATAAAATATGTCAAATATTAATTTCTCCACCTACATGGTGA
* *
111154916 GTATGATAAATTCTAATATTATAAAATTAATTAATTATGTC
66 GTATGATAAATTCTAATATTATAAAATCAAATAATTATGTC
111154957 AAATATCA
1 AAATATCA
111154965 TTAATTTTAG
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
105 63 0.68
106 19 0.20
107 11 0.12
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (106 bp):
AAATATCAACTATTATTTTTATATATAAAATATGTCAAATATTAATTTCTCCACCTACATGGTGA
GTATGATAAATTCTAATATTATAAAATCAAATAATTATGTC
Found at i:111155162 original size:45 final size:45
Alignment explanation
Indices: 111155064--111155163 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
111155054 TTGTATGTGT
* * * **
111155064 ATTTGAAACAATTATTTGAAATATTTAACATATAAACATAATGGT
1 ATTTGAAATAATTAATTGAAATATTTAACATATAAAAATAATGAC
* *
111155109 ATTTGAAATAATTAATTGAAATATTTCATATATAAAAATAATGAC
1 ATTTGAAATAATTAATTGAAATATTTAACATATAAAAATAATGAC
111155154 ATTTGAAATA
1 ATTTGAAATA
111155164 TTTTACATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (45 bp):
ATTTGAAATAATTAATTGAAATATTTAACATATAAAAATAATGAC
Found at i:111155194 original size:35 final size:32
Alignment explanation
Indices: 111155124--111155198 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 32
111155114 AAATAATTAA
*
111155124 TTGAAATATTTCATATATAAAAATAATGACAT
1 TTGAAATATTTCATATAAAAAAATAATGACAT
**
111155156 TTGAAATATTTTACATATAAAAATAATAATGATGT
1 TTGAAATA-TTT-CATATAAAAA-AATAATGACAT
111155191 TTGAAATA
1 TTGAAATA
111155199 ATTATTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.22
33 3 0.08
34 9 0.24
35 17 0.46
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (32 bp):
TTGAAATATTTCATATAAAAAAATAATGACAT
Found at i:111160466 original size:2 final size:2
Alignment explanation
Indices: 111160461--111160493 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
111160451 ATATACATGT
111160461 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
111160494 AGAACCTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:111163980 original size:15 final size:16
Alignment explanation
Indices: 111163960--111163992 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
111163950 AGTTATGCAT
*
111163960 TTAAATGGTAA-ATGC
1 TTAAATGGAAATATGC
111163975 TTAAATGGAAATATGC
1 TTAAATGGAAATATGC
111163991 TT
1 TT
111163993 GTGATCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (16 bp):
TTAAATGGAAATATGC
Found at i:111164698 original size:18 final size:19
Alignment explanation
Indices: 111164672--111164707 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
111164662 TTCTTAGACA
*
111164672 TTCTCCTCTTCTTCTTTTT
1 TTCTCCTCTGCTTCTTTTT
111164691 TTCT-CTCTGCTTCTTTT
1 TTCTCCTCTGCTTCTTTT
111164708 CCTTATGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (19 bp):
TTCTCCTCTGCTTCTTTTT
Found at i:111167061 original size:40 final size:34
Alignment explanation
Indices: 111166985--111167053 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
111166975 AACTGTGATA
111166985 CTAGAAATGTAGATTTTTGTATTTATTTTGTGTT
1 CTAGAAATGTAGATTTTTGTATTTATTTTGTGTT
111167019 CTAGAAATGTAGATTTTTGTATTTATTTTGTGTT
1 CTAGAAATGTAGATTTTTGTATTTATTTTGTGTT
111167053 C
1 C
111167054 GTTTTCTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.04, G:0.17, T:0.55
Consensus pattern (34 bp):
CTAGAAATGTAGATTTTTGTATTTATTTTGTGTT
Found at i:111169096 original size:35 final size:35
Alignment explanation
Indices: 111169029--111169196 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
111169019 TCCTCATTGA
*** *
111169029 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
111169065 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
111169105 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111169140 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
111169175 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111169197 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:111169155 original size:75 final size:73
Alignment explanation
Indices: 111169024--111169196 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
111169014 GGTTTTCCTC
*** * * **
111169024 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
111169089 TCAGTATGG
65 TCAGTATGG
*
111169098 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
111169162 ACTCAGTATGG
63 ACTCAGTATGG
111169173 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
111169197 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:111171494 original size:21 final size:20
Alignment explanation
Indices: 111171432--111171498 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
111171422 GAGTTACACA
*
111171432 GCCTGTTCACACGGCCGTGT
1 GCCTCTTCACACGGCCGTGT
* * *
111171452 CCCTAGTTCACACGGGCGTGT
1 GCCT-CTTCACACGGCCGTGT
111171473 GCCTCTTCTACACGGCCGTGT
1 GCCTCTTC-ACACGGCCGTGT
111171494 GCCTC
1 GCCTC
111171499 CCTCCACATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 6 0.15
21 34 0.85
ACGTcount: A:0.10, C:0.37, G:0.27, T:0.25
Consensus pattern (20 bp):
GCCTCTTCACACGGCCGTGT
Found at i:111175707 original size:23 final size:23
Alignment explanation
Indices: 111175677--111175722 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
111175667 TTCATATAAC
111175677 ATAGAATATAGCTTACTCTTTAG
1 ATAGAATATAGCTTACTCTTTAG
111175700 ATAGAATATAGCTTACTCTTTAG
1 ATAGAATATAGCTTACTCTTTAG
111175723 GCAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (23 bp):
ATAGAATATAGCTTACTCTTTAG
Found at i:111176107 original size:24 final size:24
Alignment explanation
Indices: 111176050--111176155 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 24
111176040 TCATGTACAT
* * * *
111176050 GTATGCTCACACGAGTTGTAAATCA
1 GTATGCTCTCACGAGCTAT-AATCG
* *
111176075 GTATGCTCTCACAAGCTATAATTG
1 GTATGCTCTCACGAGCTATAATCG
*
111176099 GTATACTCTCACGAGCTATAATCG
1 GTATGCTCTCACGAGCTATAATCG
* *
111176123 ATATGCTCTCACGAGCTGTAATCG
1 GTATGCTCTCACGAGCTATAATCG
111176147 GTATGCTCT
1 GTATGCTCT
111176156 TAAGAGCTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
24 53 0.78
25 15 0.22
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (24 bp):
GTATGCTCTCACGAGCTATAATCG
Found at i:111180607 original size:55 final size:54
Alignment explanation
Indices: 111180520--111180774 Score: 253
Period size: 55 Copynumber: 4.8 Consensus size: 54
111180510 ATTAGGGTTT
*
111180520 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * *
111180575 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* *
111180630 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAA--TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGT-AAGTTTC-TAAGGC
* * * *
111180683 AAAGATACCACGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * **
111180732 AAGGATACCACGTAAGACCATGACAAGTTATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
111180775 GTACATGTGT
Statistics
Matches: 171, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
49 38 0.22
52 8 0.05
53 37 0.22
54 12 0.07
55 70 0.41
56 6 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:111180726 original size:108 final size:108
Alignment explanation
Indices: 111180527--111180727 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 108
111180517 TTTAAGGATA
* *
111180527 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAA-G-TTCTAAGGCAAAGATACCACGTAAGA
*
111180592 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
64 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
111180637 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAA-TTCATAAGGCAAAGATACCACGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGT-AAGTTC-TAAGGCAAAGATACCACGTAAGA
* *
111180700 CCATGTCGAGACATGGCAATGGTAAGTT
64 CCATGTCAAGACATGGCAATGATAAGTT
111180728 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 3 0.04
108 46 0.55
109 6 0.07
110 29 0.35
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (108 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGTTCTAAGGCAAAGATACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:111180987 original size:16 final size:16
Alignment explanation
Indices: 111180966--111180996 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111180956 ATAAATTTGA
111180966 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
111180982 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
111180997 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:111199575 original size:15 final size:15
Alignment explanation
Indices: 111199544--111199598 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
111199534 ATTTTTGTTC
111199544 ATAT-TATT-TTTTAA
1 ATATATATTATTTT-A
111199558 ATATATATTATTTTA
1 ATATATATTATTTTA
* * *
111199573 ATATTTAATAGTTTA
1 ATATATATTATTTTA
111199588 ATATAT-TTATT
1 ATATATATTATT
111199599 ATTTATTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 7 0.21
15 22 0.67
16 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
ATATATATTATTTTA
Found at i:111200045 original size:2 final size:2
Alignment explanation
Indices: 111200038--111200088 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
111200028 AGTAGATAAG
111200038 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
111200080 AT AT AT AT A
1 AT AT AT AT A
111200089 CTCACTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111200983 original size:19 final size:21
Alignment explanation
Indices: 111200946--111200988 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
111200936 AGAGATTATT
*
111200946 ATTAGTTTTGTTTATTTTTTA
1 ATTAGTTTTGTTTAATTTTTA
111200967 ATTA-TTTT-TTTAATTTTTA
1 ATTAGTTTTGTTTAATTTTTA
111200986 ATT
1 ATT
111200989 CCACAATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 4 0.19
21 4 0.19
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
ATTAGTTTTGTTTAATTTTTA
Found at i:111203450 original size:13 final size:15
Alignment explanation
Indices: 111203421--111203453 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
111203411 GGTGGAGAAA
111203421 ATAAATATTTGATAT
1 ATAAATATTTGATAT
111203436 ATAAATA-TT-ATAT
1 ATAAATATTTGATAT
111203449 ATAAA
1 ATAAA
111203454 GAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATATTTGATAT
Found at i:111203609 original size:49 final size:49
Alignment explanation
Indices: 111203507--111203611 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 49
111203497 ATAAAAGATT
* ** * *
111203507 TATTAATTAAAAATAAAAAAATTGAAAACAATATATTTACTAATAATGAA
1 TATTAATTAAAAATAAAAAAATTGAAAACAACATAAATAC-AAAAATAAA
*
111203557 TATTAATTAAAAATAAAAAATTTTG-AAACAACATGAAATA-AAAAATAAA
1 TATTAATTAAAAATAAAAAA-ATTGAAAACAACAT-AAATACAAAAATAAA
111203606 TATTAA
1 TATTAA
111203612 AATACTTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
49 13 0.28
50 28 0.60
51 6 0.13
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (49 bp):
TATTAATTAAAAATAAAAAAATTGAAAACAACATAAATACAAAAATAAA
Found at i:111204621 original size:16 final size:16
Alignment explanation
Indices: 111204595--111204632 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
111204585 GTTTTTTATT
111204595 TTTTGGATTTAGGGTTA
1 TTTT-GATTTAGGGTTA
*
111204612 TTTTGATTTAGTGTTA
1 TTTTGATTTAGGGTTA
111204628 TTTTG
1 TTTTG
111204633 GGTTATTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.61
Consensus pattern (16 bp):
TTTTGATTTAGGGTTA
Found at i:111204657 original size:12 final size:12
Alignment explanation
Indices: 111204637--111204717 Score: 90
Period size: 12 Copynumber: 6.8 Consensus size: 12
111204627 ATTTTGGGTT
*
111204637 ATTTCGATTTCA
1 ATTTTGATTTCA
111204649 ATTTTGATTTCA
1 ATTTTGATTTCA
**
111204661 ATTTTGATTTTG
1 ATTTTGATTTCA
**
111204673 ATTTTGATTTTG
1 ATTTTGATTTCA
*
111204685 ATTTTGGTTTCA
1 ATTTTGATTTCA
*
111204697 ATTTTGATTTCT
1 ATTTTGATTTCA
*
111204709 ATTCTGATT
1 ATTTTGATT
111204718 CTGATTCTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.20, C:0.07, G:0.12, T:0.60
Consensus pattern (12 bp):
ATTTTGATTTCA
Found at i:111204664 original size:18 final size:18
Alignment explanation
Indices: 111204649--111204706 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
111204639 TTCGATTTCA
111204649 ATTTTGATTTCAATTTTG
1 ATTTTGATTTCAATTTTG
**
111204667 ATTTTGATTTTGATTTTG
1 ATTTTGATTTCAATTTTG
*
111204685 ATTTTGGTTTCAATTTTG
1 ATTTTGATTTCAATTTTG
111204703 ATTT
1 ATTT
111204707 CTATTCTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.64
Consensus pattern (18 bp):
ATTTTGATTTCAATTTTG
Found at i:111204670 original size:6 final size:6
Alignment explanation
Indices: 111204649--111204742 Score: 75
Period size: 6 Copynumber: 15.7 Consensus size: 6
111204639 TTCGATTTCA
** * **
111204649 ATTTTG ATTTCA ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG GTTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * * *
111204697 ATTTTG ATTTCT- ATTCTG ATTCTG ATTCTT- ATTTAG ATTTAG ATTT
1 ATTTTG ATTT-TG ATTTTG ATTTTG ATT-TTG ATTTTG ATTTTG ATTT
111204743 AGGGTTATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
5 2 0.03
6 67 0.94
7 2 0.03
ACGTcount: A:0.20, C:0.06, G:0.13, T:0.61
Consensus pattern (6 bp):
ATTTTG
Found at i:111205126 original size:62 final size:60
Alignment explanation
Indices: 111205029--111205165 Score: 202
Period size: 62 Copynumber: 2.2 Consensus size: 60
111205019 GTTAAAATGT
*
111205029 TTGGTTATTTCCTGCCATGTGCATGACAAAAATGGTTGTGTTTGTATTAAATTATTTTTGTA
1 TTGGTTATTT-CTGCCATGTGCATAACAAAAATGGTTGTGTTTGTATTAAATTA-TTTTGTA
* *
111205091 TTGGTTATTGTCTGTCATGTGCATAACAGAAATGGTTGTGTTTGTATTAAATTATTTTGTA
1 TTGGTTATT-TCTGCCATGTGCATAACAAAAATGGTTGTGTTTGTATTAAATTATTTTGTA
*
111205152 TCGGTTATTATCTG
1 TTGGTTATT-TCTG
111205166 AAAAAAATGC
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
61 19 0.28
62 49 0.71
63 1 0.01
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.47
Consensus pattern (60 bp):
TTGGTTATTTCTGCCATGTGCATAACAAAAATGGTTGTGTTTGTATTAAATTATTTTGTA
Found at i:111205288 original size:15 final size:15
Alignment explanation
Indices: 111205268--111205297 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
111205258 GAAGAAGAAA
111205268 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
111205283 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
111205298 CAGCTGAAAG
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:0.07, G:0.40, T:0.40
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:111210309 original size:28 final size:25
Alignment explanation
Indices: 111210225--111210310 Score: 93
Period size: 26 Copynumber: 3.3 Consensus size: 25
111210215 ATTGTTGGTG
111210225 TGTA-TGACTATTTTTTAATATACA
1 TGTAGTGACTATTTTTTAATATACA
* *
111210249 TGTTGTTGACTATTTTTTAATATGCA
1 TGTAG-TGACTATTTTTTAATATACA
* *
111210275 TGCAGTGAGTATTTTTTAATAATATACA
1 TGTAGTGACTA-TTTTT--TAATATACA
111210303 TGTAGTGA
1 TGTAGTGA
111210311 TTGTTGGTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 3 0.06
25 5 0.10
26 27 0.54
28 15 0.30
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (25 bp):
TGTAGTGACTATTTTTTAATATACA
Found at i:111210374 original size:97 final size:95
Alignment explanation
Indices: 111210207--111210504 Score: 452
Period size: 97 Copynumber: 3.1 Consensus size: 95
111210197 GTTTTTTAAT
*
111210207 ATGTATTGATTGTTGGTGTGTATGACTATTTTTTAATATACATGTTGTTGACTATTTTTTAATAT
1 ATGTAGTGATTGTTGGTGTGTATGACTATTTTTTAATATACATGTTGTTGACTATTTTTTAATAT
*
111210272 GCATGCAGTGAGTATTTTTTAATAATATAC
66 GCATGCAGTGAGTATTTTTTAATAATATGC
* * *
111210302 ATGTAGTGATTGTTGGTGTGTATGACTTTTTTTGTTAATATACATGCTATTGACTATTTTTTAAT
1 ATGTAGTGATTGTTGGTGTGTATGAC-TATTTT-TTAATATACATGTTGTTGACTATTTTTTAAT
*
111210367 ATACATGCAGTGAGTATTTTTTAATAATATGC
64 ATGCATGCAGTGAGTATTTTTTAATAATATGC
* * ** *
111210399 ATGCAATGATTGTCAGTGTGTATGACTGTTTTTTAATATACATGTTGTTGACTATTTTTTAATAT
1 ATGTAGTGATTGTTGGTGTGTATGACTATTTTTTAATATACATGTTGTTGACTATTTTTTAATAT
*
111210464 GCATGCAGTAAGTATTTTTTTTAATAATATGC
66 GCATGCAGTGAGTA--TTTTTTAATAATATGC
111210496 ATGTAGTGA
1 ATGTAGTGA
111210505 CTGCTTTTTA
Statistics
Matches: 182, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
95 68 0.37
96 10 0.05
97 104 0.57
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (95 bp):
ATGTAGTGATTGTTGGTGTGTATGACTATTTTTTAATATACATGTTGTTGACTATTTTTTAATAT
GCATGCAGTGAGTATTTTTTAATAATATGC
Found at i:111210390 original size:25 final size:26
Alignment explanation
Indices: 111210331--111210392 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
111210321 GTATGACTTT
*
111210331 TTTTGTTAATATACATGCTATTGACTA
1 TTTT-TTAATATACATGCTAGTGACTA
*
111210358 TTTTTTAATATACATGC-AGTGAGTA
1 TTTTTTAATATACATGCTAGTGACTA
111210383 TTTTTTAATA
1 TTTTTTAATA
111210393 ATATGCATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 16 0.48
26 13 0.39
27 4 0.12
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (26 bp):
TTTTTTAATATACATGCTAGTGACTA
Found at i:111210403 original size:28 final size:27
Alignment explanation
Indices: 111210324--111210403 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 27
111210314 TTGGTGTGTA
** *
111210324 TGACT-TTTTTTGTTAATATACATGCTAT
1 TGACTATTTTTTAATAATAT-CATGC-AG
111210352 TGACTATTTTTTAAT-ATA-CATGCAG
1 TGACTATTTTTTAATAATATCATGCAG
*
111210377 TGAGTATTTTTTAATAATATGCATGCA
1 TGACTATTTTTTAATAATAT-CATGCA
111210404 ATGATTGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 15 0.34
26 8 0.18
28 14 0.32
29 7 0.16
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (27 bp):
TGACTATTTTTTAATAATATCATGCAG
Found at i:111212030 original size:36 final size:36
Alignment explanation
Indices: 111211983--111212058 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
111211973 GCCATGTATG
*
111211983 CCAGTAGCCATGTATAACAACATAAGCAATAATATA
1 CCAGTAGCCATGTATAACAACATAAGCAACAATATA
111212019 CCAGTAGCCATGTATAACAACATAAGCAACAATATA
1 CCAGTAGCCATGTATAACAACATAAGCAACAATATA
111212055 CCAG
1 CCAG
111212059 CAACAATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (36 bp):
CCAGTAGCCATGTATAACAACATAAGCAACAATATA
Found at i:111212456 original size:15 final size:15
Alignment explanation
Indices: 111212412--111212470 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
111212402 CTTCAGGCAT
*
111212412 CTCCATTTTTCCTTTC
1 CTCC-TTTTTCTTTTC
111212428 CTCCTTTTTCTTTTC
1 CTCCTTTTTCTTTTC
111212443 CTCCTATTTT-TTTT-
1 CTCCT-TTTTCTTTTC
* *
111212457 TTCTTTTTTCTTTT
1 CTCCTTTTTCTTTT
111212471 TCTATAACCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
13 4 0.11
14 7 0.18
15 19 0.50
16 8 0.21
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.69
Consensus pattern (15 bp):
CTCCTTTTTCTTTTC
Found at i:111212942 original size:6 final size:6
Alignment explanation
Indices: 111212931--111212958 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
111212921 TGCTTCATTT
111212931 CCACCG CCACCG CCACCG CCACCG CCAC
1 CCACCG CCACCG CCACCG CCACCG CCAC
111212959 TGCCGAGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.68, G:0.14, T:0.00
Consensus pattern (6 bp):
CCACCG
Found at i:111218403 original size:170 final size:170
Alignment explanation
Indices: 111218097--111218403 Score: 452
Period size: 170 Copynumber: 1.8 Consensus size: 170
111218087 ATCTAACCAA
* * *
111218097 AACAGAAAGTTCAACCATAGTCAAAGTAAAATAAAGACTAAATTATCCAACTAAAACATTTTAAA
1 AACAAAAAGATCAACCATAGTCAAAGTAAAATAAAGACTAAATTATCCAACTAAAACATGTTAAA
* * * *
111218162 TCATAATTAGACAAAAATGAAGCTTCAAATTTTGGCCAAAGCTTCCAAATTGCTCAGATTTTAAT
66 TCATAATTACACAAAAATGAAGCTTCAAATTTTGACCAAAGCTTCCAAATTGCTCAGATTATAAC
111218227 AATAAAGGCAAATAATACTAAAATATATGATAAAAGTTCC
131 AATAAAGGCAAATAATACTAAAATATATGATAAAAGTTCC
* ** * * *
111218267 AACAAAAAGATCAATCATAGTTGAAGTAAAATAAAGACTGAATTATTCAACTAAAACATGTTCAA
1 AACAAAAAGATCAACCATAGTCAAAGTAAAATAAAGACTAAATTATCCAACTAAAACATGTTAAA
* * * * *
111218332 TCATAATTACACAAAAATGAAGGTTCAAATTTTGACCAAAGCTTCTAAGTTGCTTATATTATAAC
66 TCATAATTACACAAAAATGAAGCTTCAAATTTTGACCAAAGCTTCCAAATTGCTCAGATTATAAC
111218397 AATAAAG
131 AATAAAG
111218404 ACAACTGATA
Statistics
Matches: 119, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
170 119 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (170 bp):
AACAAAAAGATCAACCATAGTCAAAGTAAAATAAAGACTAAATTATCCAACTAAAACATGTTAAA
TCATAATTACACAAAAATGAAGCTTCAAATTTTGACCAAAGCTTCCAAATTGCTCAGATTATAAC
AATAAAGGCAAATAATACTAAAATATATGATAAAAGTTCC
Found at i:111226563 original size:25 final size:25
Alignment explanation
Indices: 111226535--111226593 Score: 59
Period size: 25 Copynumber: 2.3 Consensus size: 25
111226525 AAATAAATTT
111226535 AAAATATAAAAATAG-AAATTTACAA
1 AAAATATAAAAA-AGAAAATTTACAA
* *
111226560 AAAA-ATCAAAAAGGAAAATTTATAA
1 AAAATAT-AAAAAAGAAAATTTACAA
111226585 AAATATATA
1 AAA-ATATA
111226594 TTTTTTCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
25 21 0.75
26 2 0.07
27 2 0.07
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (25 bp):
AAAATATAAAAAAGAAAATTTACAA
Found at i:111226973 original size:12 final size:12
Alignment explanation
Indices: 111226958--111226982 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111226948 ATTAACTAAA
111226958 TAATAATTATAT
1 TAATAATTATAT
111226970 TAATAATTATAT
1 TAATAATTATAT
111226982 T
1 T
111226983 TTAACATGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAATTATAT
Found at i:111227702 original size:9 final size:8
Alignment explanation
Indices: 111227681--111227763 Score: 55
Period size: 8 Copynumber: 10.0 Consensus size: 8
111227671 TTGAAAAATG
111227681 TATTTTTA
1 TATTTTTA
111227689 TATTTTTA
1 TATTTTTA
*
111227697 TAATTTATA
1 T-ATTTTTA
*
111227706 TAATTTTAA
1 T-ATTTTTA
111227715 TATTTCTTA
1 TATTT-TTA
*
111227724 TTAAGTTTTCA
1 -T-A-TTTTTA
111227735 T-TTTTT-
1 TATTTTTA
111227741 TATTTTTA
1 TATTTTTA
111227749 T-TTTTTA
1 TATTTTTA
*
111227756 AATTTTTA
1 TATTTTTA
111227764 ATAAATTTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
6 1 0.02
7 15 0.25
8 20 0.33
9 16 0.27
10 2 0.03
11 3 0.05
12 3 0.05
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (8 bp):
TATTTTTA
Found at i:111228830 original size:32 final size:32
Alignment explanation
Indices: 111228794--111228860 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
111228784 AAGGAAGAGA
111228794 AAGAGAAGGAAGAAGACAGAAGGGGTGTAGAT
1 AAGAGAAGGAAGAAGACAGAAGGGGTGTAGAT
*
111228826 AAGAGAAGGAAGAAGATAGAAGGGGTGTAGAT
1 AAGAGAAGGAAGAAGACAGAAGGGGTGTAGAT
111228858 AAG
1 AAG
111228861 GGAAAATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.48, C:0.01, G:0.40, T:0.10
Consensus pattern (32 bp):
AAGAGAAGGAAGAAGACAGAAGGGGTGTAGAT
Found at i:111229337 original size:22 final size:22
Alignment explanation
Indices: 111229240--111229344 Score: 77
Period size: 23 Copynumber: 4.6 Consensus size: 22
111229230 ATATCTTAGC
* *
111229240 GTGCTCGTGAATTTAGCACTTCG
1 GTGCTCCT-AATTTAGCACTTTG
* ** *
111229263 GTGTTCCTGAAACTAACACTTTG
1 GTGCTCCT-AATTTAGCACTTTG
*
111229286 GTGCTCCAGAATTTAGCACTTTG
1 GTGCTCC-TAATTTAGCACTTTG
* *
111229309 GTTCTCCTAATTTAGCA-TTTAT
1 GTGCTCCTAATTTAGCACTTT-G
111229331 GTGCTCCTATATTT
1 GTGCTCCTA-ATTT
111229345 GTGAATTCAT
Statistics
Matches: 64, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
21 3 0.05
22 17 0.27
23 44 0.69
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (22 bp):
GTGCTCCTAATTTAGCACTTTG
Found at i:111234097 original size:21 final size:21
Alignment explanation
Indices: 111234056--111234098 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
111234046 AATGGAAGAA
111234056 TTATGGTTTGAAAGGTAAATT
1 TTATGGTTTGAAAGGTAAATT
111234077 TTATGGTTTGAAAGGTAAATT
1 TTATGGTTTGAAAGGTAAATT
111234098 T
1 T
111234099 AAGCATGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (21 bp):
TTATGGTTTGAAAGGTAAATT
Found at i:111234575 original size:27 final size:26
Alignment explanation
Indices: 111234543--111234657 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 26
111234533 ATATCTTGGT
111234543 TATATGAATAGATTATATGGAAATAGA
1 TATATGAATAGATTATAT-GAAATAGA
* * **
111234570 CATATGAA-ATGGTTATATG-AATCATT
1 TATATGAATA-GATTATATGAAAT-AGA
* *
111234596 TATATGGAAATAGA-TATATGAAATGGT
1 TATAT-G-AATAGATTATATGAAATAGA
*
111234623 TATATGAATCGATTATATGGAAATAGA
1 TATATGAATAGATTATAT-GAAATAGA
*
111234650 TACATGAA
1 TATATGAA
111234658 ATGGAATATT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
25 8 0.12
26 13 0.19
27 40 0.59
28 6 0.09
29 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.34
Consensus pattern (26 bp):
TATATGAATAGATTATATGAAATAGA
Found at i:111234585 original size:40 final size:40
Alignment explanation
Indices: 111234539--111234661 Score: 194
Period size: 40 Copynumber: 3.1 Consensus size: 40
111234529 GAATATATCT
*
111234539 TGGTTATATGAATAGATTATATGGAAATAGACATATGAAA
1 TGGTTATATGAATAGATTATATGGAAATAGATATATGAAA
*
111234579 TGGTTATATGAATCA-TTTATATGGAAATAGATATATGAAA
1 TGGTTATATGAAT-AGATTATATGGAAATAGATATATGAAA
* *
111234619 TGGTTATATGAATCGATTATATGGAAATAGATACATGAAA
1 TGGTTATATGAATAGATTATATGGAAATAGATATATGAAA
111234659 TGG
1 TGG
111234662 AATATTGGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
40 75 0.99
41 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.34
Consensus pattern (40 bp):
TGGTTATATGAATAGATTATATGGAAATAGATATATGAAA
Found at i:111234658 original size:13 final size:13
Alignment explanation
Indices: 111234543--111234687 Score: 82
Period size: 13 Copynumber: 10.8 Consensus size: 13
111234533 ATATCTTGGT
111234543 TATATG-AATAGA
1 TATATGAAATAGA
111234555 TTATATGGAAATAGA
1 -TATAT-GAAATAGA
* * *
111234570 CATATGAAATGGT
1 TATATGAAATAGA
**
111234583 TATATG-AATCATT
1 TATATGAAAT-AGA
111234596 TATATGGAAATAGA
1 TATAT-GAAATAGA
* *
111234610 TATATGAAATGGT
1 TATATGAAATAGA
*
111234623 TATATG-AATCGA
1 TATATGAAATAGA
111234635 TTATATGGAAATAGA
1 -TATAT-GAAATAGA
* *
111234650 TACATGAAATGGA
1 TATATGAAATAGA
*
111234663 -ATATTGGATATAGA
1 TATA-T-GAAATAGA
*
111234677 TATTTGAAATA
1 TATATGAAATA
111234688 AATTGTGAGC
Statistics
Matches: 101, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
12 9 0.09
13 52 0.51
14 24 0.24
15 16 0.16
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (13 bp):
TATATGAAATAGA
Found at i:111234663 original size:19 final size:19
Alignment explanation
Indices: 111234599--111234663 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
111234589 AATCATTTAT
*
111234599 ATGGAAATAGATATATGAA
1 ATGGAAATAGATACATGAA
** * *
111234618 ATGGTTATATGA-ATCGATTAT
1 ATGGAAATA-GATA-C-ATGAA
111234639 ATGGAAATAGATACATGAA
1 ATGGAAATAGATACATGAA
111234658 ATGGAA
1 ATGGAA
111234664 TATTGGATAT
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 17 0.52
20 5 0.15
21 11 0.33
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.29
Consensus pattern (19 bp):
ATGGAAATAGATACATGAA
Found at i:111235092 original size:24 final size:24
Alignment explanation
Indices: 111235060--111235110 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
111235050 TTTGGCTCAG
111235060 TTATAAGTGGCATGTAGATAAGGT
1 TTATAAGTGGCATGTAGATAAGGT
111235084 TTATAAGTGGCATGTAGATAAGGT
1 TTATAAGTGGCATGTAGATAAGGT
111235108 TTA
1 TTA
111235111 GTAATGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.35
Consensus pattern (24 bp):
TTATAAGTGGCATGTAGATAAGGT
Found at i:111235983 original size:24 final size:24
Alignment explanation
Indices: 111235942--111236032 Score: 128
Period size: 24 Copynumber: 3.8 Consensus size: 24
111235932 GGGATAGAAG
*
111235942 TGCTCACACGAGATGTGAATATAA
1 TGCTCACATGAGATGTGAATATAA
**
111235966 TGCTCACATGAGCCGTGAATATAA
1 TGCTCACATGAGATGTGAATATAA
*
111235990 TGCTCACATGAGTTGTGAATATAA
1 TGCTCACATGAGATGTGAATATAA
* *
111236014 TGCTCACACGAGTTGTGAA
1 TGCTCACATGAGATGTGAA
111236033 AATGGGCTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (24 bp):
TGCTCACATGAGATGTGAATATAA
Found at i:111237723 original size:42 final size:42
Alignment explanation
Indices: 111237663--111237817 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 42
111237653 TGATTTTATG
* * *
111237663 TAAGACTATATCTAGGACATGACATCGATAAGAGATCCCGTA
1 TAAGACCATATCTGGGACATGGCATCGATAAGAGATCCCGTA
* * *
111237705 TAAGACCATGTCTGGGACATGGCATCGCCACCAATATGAGA-CTTCGTA
1 TAAGACCATATCTGGGACATGGCATCG------ATAAGAGATC-CCGTA
* * * * * *
111237753 TAAGACCATATCTGGGATATGGCATCGATACGTGGTCCCATG
1 TAAGACCATATCTGGGACATGGCATCGATAAGAGATCCCGTA
*
111237795 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATATCTGGGACATGGC
111237818 TTTGGCACTC
Statistics
Matches: 89, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
42 51 0.57
43 1 0.01
47 1 0.01
48 36 0.40
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (42 bp):
TAAGACCATATCTGGGACATGGCATCGATAAGAGATCCCGTA
Found at i:111246653 original size:93 final size:93
Alignment explanation
Indices: 111246541--111246713 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
111246531 CGCCCATAAG
* *
111246541 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
111246606 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
111246634 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
111246699 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
111246714 CAAATATCCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:111246709 original size:46 final size:46
Alignment explanation
Indices: 111246534--111246709 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
111246524 TGTAACCCGC
* * *
111246534 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
111246580 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
111246630 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
111246673 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
111246710 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:111249274 original size:8 final size:8
Alignment explanation
Indices: 111249261--111249291 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
111249251 CTGCCCTCTT
111249261 CCTTCAAC
1 CCTTCAAC
111249269 CCTTCAAC
1 CCTTCAAC
111249277 CCTTCAAC
1 CCTTCAAC
111249285 CCTTCAA
1 CCTTCAA
111249292 ACTCCTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.26, C:0.48, G:0.00, T:0.26
Consensus pattern (8 bp):
CCTTCAAC
Done.