Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 301 of 316
Found at i:99325687 original size:13 final size:13
Alignment explanation
Indices: 99325630--99325695 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
99325620 TTTTATGTAT
*
99325630 AAATTTCTTTA-A
1 AAATATCTTTATA
99325642 AAATATCTTTATA
1 AAATATCTTTATA
* * * *
99325655 AAAAATATCTACTT
1 AAATATCTTTA-TA
99325669 AAATATCTTTATA
1 AAATATCTTTATA
99325682 AAATATCTTTATA
1 AAATATCTTTATA
99325695 A
1 A
99325696 GAAAAGGTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
12 10 0.23
13 24 0.56
14 9 0.21
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATATCTTTATA
Found at i:99328666 original size:56 final size:56
Alignment explanation
Indices: 99328604--99328719 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
99328594 ATATTTCTGG
99328604 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
1 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
*
99328660 TTTTGTTGTATGGTGTACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
1 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
99328716 TTTT
1 TTTT
99328720 CTTATTTTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (56 bp):
TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
Found at i:99332731 original size:30 final size:30
Alignment explanation
Indices: 99332666--99332740 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
99332656 AAATTTTAAA
*
99332666 TTAATAAA-GATAAAATTGTACTTTATCTCT
1 TTAA-AAATGATAAAATTGTAATTTATCTCT
* *
99332696 CTAAAAATGATAAAATTTTAATTTAATCT-T
1 TTAAAAATGATAAAATTGTAATTT-ATCTCT
* *
99332726 TTAAAATTTATAAAA
1 TTAAAAATGATAAAA
99332741 ATATAAACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 3 0.08
30 30 0.81
31 4 0.11
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (30 bp):
TTAAAAATGATAAAATTGTAATTTATCTCT
Found at i:99336371 original size:60 final size:60
Alignment explanation
Indices: 99336261--99336411 Score: 239
Period size: 60 Copynumber: 2.5 Consensus size: 60
99336251 ATTTGACCTA
* * * *
99336261 AAAAAAGCTTAGGTACCAAATTAGAAAAAAAAATAGCAAGTTCAAGTATCAAATTGGACCC
1 AAAAAAGTTTAGGTACCAAATTAG-GAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
* *
99336322 AACAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAATTATCAAATTAGACCC
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
99336382 AAAAAAGTTTAGGTACCAAATTAGGAAAAA
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAA
99336412 TGTCAAGTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
60 61 0.73
61 22 0.27
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (60 bp):
AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
Found at i:99336422 original size:30 final size:31
Alignment explanation
Indices: 99336386--99336463 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
99336376 AGACCCAAAA
* **
99336386 AAGTTTAGGTACCAAATT-AGGAAAAATGTC
1 AAGTTTAGATACCAAATTAAAAAAAAATGTC
99336416 AAGTTTAGATACCAAATTAAAAAAAAATGTC
1 AAGTTTAGATACCAAATTAAAAAAAAATGTC
* *
99336447 AAGTTCATATACCAAAT
1 AAGTTTAGATACCAAAT
99336464 ATTATATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 17 0.40
31 25 0.60
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.27
Consensus pattern (31 bp):
AAGTTTAGATACCAAATTAAAAAAAAATGTC
Found at i:99339020 original size:12 final size:12
Alignment explanation
Indices: 99339005--99339047 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
99338995 ATATTGTTAT
* *
99339005 TATTATTCCTAA
1 TATTATTACTAC
*
99339017 TATTATTAATAC
1 TATTATTACTAC
*
99339029 TATTATTTCTAC
1 TATTATTACTAC
99339041 TATTATT
1 TATTATT
99339048 GTTATTATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATTACTAC
Found at i:99339185 original size:29 final size:29
Alignment explanation
Indices: 99339118--99339185 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
99339108 TTACTATTTT
99339118 TAGTATTATTATTATATGTAATATTAGTA
1 TAGTATTATTATTATATGTAATATTAGTA
* *
99339147 TAGGTTTTATTA-TATATGTACGTATATA-TA
1 TA-GTATTATTATTATATGTA-ATAT-TAGTA
99339177 TAGTATTAT
1 TAGTATTAT
99339186 CTTAATTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 16 0.48
30 15 0.45
31 2 0.06
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (29 bp):
TAGTATTATTATTATATGTAATATTAGTA
Found at i:99341031 original size:12 final size:13
Alignment explanation
Indices: 99341007--99341036 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
99340997 CTGGCCCACC
99341007 TATATTAATTTTT
1 TATATTAATTTTT
99341020 TATATT-ATTTTT
1 TATATTAATTTTT
99341032 TATAT
1 TATAT
99341037 ACTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTAATTTTT
Found at i:99341780 original size:13 final size:13
Alignment explanation
Indices: 99341762--99341809 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
99341752 AGTTTTTCAT
99341762 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
99341775 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
99341788 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
99341801 TGCTTTTGA
1 TGCTTTTGA
99341810 GGAGTATTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:99345065 original size:18 final size:19
Alignment explanation
Indices: 99345012--99345076 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
99345002 TACAAAATAA
99345012 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
*
99345032 TCAAAATAAATTTAAAAA-
1 TCAAAATAATTTTAAAAAT
99345050 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
99345069 TCTAAAAT
1 TC-AAAAT
99345077 TTATATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.08
18 13 0.32
19 7 0.17
20 17 0.43
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:99345078 original size:18 final size:18
Alignment explanation
Indices: 99345010--99345081 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 18
99345000 AATACAAAAT
99345010 AATCAAAATAATTT-TCAAA
1 AATCAAAAT-ATTTAT-AAA
*
99345029 AATTCAAAATAAATT-TAAA
1 AA-TCAAAAT-ATTTATAAA
99345048 AATCAAAATATTTATAAA
1 AATCAAAATATTTATAAA
*
99345066 AATTCTAAA-ATTTATA
1 AA-TCAAAATATTTATA
99345082 TTTTTAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
17 3 0.06
18 20 0.43
19 12 0.26
20 12 0.26
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AATCAAAATATTTATAAA
Found at i:99346661 original size:17 final size:16
Alignment explanation
Indices: 99346643--99346720 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 16
99346633 CTTCACACCT
99346643 TTTTGTTTTCTTTTTC
1 TTTTGTTTTCTTTTTC
* *
99346659 TTTTATTTTCATATTTC
1 TTTTGTTTTC-TTTTTC
99346676 TTTTG--TT-TTTTTC
1 TTTTGTTTTCTTTTTC
* *
99346689 TTTTATTTTCATATTTC
1 TTTTGTTTTC-TTTTTC
99346706 TTTT-TTTTACTTTTT
1 TTTTGTTTT-CTTTTT
99346721 TATTTTGTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
13 9 0.18
15 4 0.08
16 17 0.35
17 19 0.39
ACGTcount: A:0.09, C:0.10, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTGTTTTCTTTTTC
Found at i:99346689 original size:30 final size:29
Alignment explanation
Indices: 99346648--99346726 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 29
99346638 CACCTTTTTG
*
99346648 TTTTCTTTTTCTTTTATTTTCATATTTCT
1 TTTTTTTTTTCTTTTATTTTCATATTTCT
99346677 TTTGTTTTTTTCTTTTATTTTCATATTTCT
1 TTT-TTTTTTTCTTTTATTTTCATATTTCT
*
99346707 TTTTTTTACTT-TTTTATTTT
1 TTTTTTT-TTTCTTTTATTTT
99346727 GTTCCTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 16 0.35
30 30 0.65
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTTTTTTTCTTTTATTTTCATATTTCT
Found at i:99346761 original size:9 final size:9
Alignment explanation
Indices: 99346747--99346817 Score: 65
Period size: 9 Copynumber: 7.9 Consensus size: 9
99346737 AAATTTTATC
99346747 TTTTTATTT
1 TTTTTATTT
*
99346756 TTTTTACTT
1 TTTTTATTT
99346765 TTTTTA-TT
1 TTTTTATTT
*
99346773 TTTTT-CTT
1 TTTTTATTT
* *
99346781 ATTTCATTT
1 TTTTTATTT
*
99346790 TGTTTATTT
1 TTTTTATTT
99346799 TGTTTTATTT
1 T-TTTTATTT
99346809 TTTATTATT
1 TTT-TTATT
99346818 AACTTTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
8 12 0.24
9 25 0.50
10 13 0.26
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:99346790 original size:24 final size:24
Alignment explanation
Indices: 99346763--99346808 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
99346753 TTTTTTTTAC
*
99346763 TTTT-TTTATTTTTTTCTTATTTCA
1 TTTTGTTTATTTTGTT-TTATTTCA
99346787 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTTATTTTGTTTTATTT
99346809 TTTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (24 bp):
TTTTGTTTATTTTGTTTTATTTCA
Found at i:99346810 original size:34 final size:32
Alignment explanation
Indices: 99346739--99346817 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 32
99346729 TCCTTAATAA
* *
99346739 ATTTTATCTT-TTTATTTTTTTTACTTTTTTT
1 ATTTTTTCTTATTTATTTTGTTTACTTTTTTT
*
99346770 ATTTTTTTCTTATTTCATTTTGTTTATTTTGTTTT
1 A-TTTTTTCTTATTT-ATTTTGTTTACTTT-TTTT
*
99346805 ATTTTTTATTATT
1 ATTTTTTCTTATT
99346818 AACTTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 1 0.03
32 8 0.20
33 3 0.08
34 23 0.57
35 5 0.12
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (32 bp):
ATTTTTTCTTATTTATTTTGTTTACTTTTTTT
Found at i:99346933 original size:28 final size:27
Alignment explanation
Indices: 99346821--99346941 Score: 74
Period size: 28 Copynumber: 4.4 Consensus size: 27
99346811 TATTATTAAC
* *
99346821 TTTAAAATGATACAATATAA-TATATTT
1 TTTAATATGATATAATATAATTAT-TTT
*
99346848 TTTAATTATGATATAATATAATTATGTGGTG
1 TTTAA-TATGATATAATATAATTAT-T--TT
* * *
99346879 TCTAATATCAT-T--T-T-ATTTTTTT
1 TTTAATATGATATAATATAATTATTTT
99346901 ATTTAATATGATATAATATAATATATTTT
1 -TTTAATATGATATAATATAAT-TATTTT
99346930 TTTAATTATGAT
1 TTTAA-TATGAT
99346942 TGGATTTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
22 1 0.01
23 9 0.13
24 2 0.03
25 4 0.06
26 2 0.03
27 7 0.10
28 20 0.28
29 16 0.23
30 5 0.07
31 5 0.07
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (27 bp):
TTTAATATGATATAATATAATTATTTT
Found at i:99347356 original size:18 final size:18
Alignment explanation
Indices: 99347334--99347384 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
99347324 ATTTTTAAAA
*
99347334 TTTAATTTTTTATA-TAT
1 TTTAATTTTTTAAATTAT
99347351 TCTTAATTATTTTAAATTAT
1 T-TTAATT-TTTTAAATTAT
*
99347371 TTTAAATTTTTAAA
1 TTTAATTTTTTAAA
99347385 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 1 0.03
18 13 0.45
19 11 0.38
20 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAATTTTTTAAATTAT
Found at i:99347368 original size:10 final size:10
Alignment explanation
Indices: 99347355--99347388 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
99347345 ATATATTCTT
99347355 AATTATTTTA
1 AATTATTTTA
99347365 AATTATTTTA
1 AATTATTTTA
*
99347375 AATT-TTTAA
1 AATTATTTTA
99347384 AATTA
1 AATTA
99347389 ATTAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTATTTTA
Found at i:99347701 original size:28 final size:28
Alignment explanation
Indices: 99347669--99347729 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
99347659 AGATAAACCA
99347669 ATCATAATTAAAAAATATATTATATTAT
1 ATCATAATTAAAAAATATATTATATTAT
99347697 ATCATAATTAAAAAATATATTATATTAT
1 ATCATAATTAAAAAATATATTATATTAT
99347725 ATCAT
1 ATCAT
99347730 TTTAAAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (28 bp):
ATCATAATTAAAAAATATATTATATTAT
Found at i:99347793 original size:24 final size:24
Alignment explanation
Indices: 99347748--99347792 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
99347738 TAATAATAAA
99347748 AAATAAGACAAAATAAACAAAATG
1 AAATAAGACAAAATAAACAAAATG
99347772 AAATAAGA-AAAA-AAATCAAAA
1 AAATAAGACAAAATAAA-CAAAA
99347793 AAGTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 9 0.45
24 8 0.40
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.11
Consensus pattern (24 bp):
AAATAAGACAAAATAAACAAAATG
Found at i:99347809 original size:17 final size:18
Alignment explanation
Indices: 99347757--99347810 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 18
99347747 AAAATAAGAC
* *
99347757 AAAA-TAAACAAAATGAA
1 AAAAGTAAAAAAAATCAA
*
99347774 ATAAG-AAAAAAAATCAA
1 AAAAGTAAAAAAAATCAA
99347791 AAAAGTAAAAAAAAT-AA
1 AAAAGTAAAAAAAATCAA
99347808 AAA
1 AAA
99347811 GATAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAGTAAAAAAAATCAA
Found at i:99347816 original size:17 final size:19
Alignment explanation
Indices: 99347740--99347817 Score: 51
Period size: 17 Copynumber: 4.3 Consensus size: 19
99347730 TTTAAAGTTA
*
99347740 ATAATAAAAAAT-AAGACAAA
1 ATAA-AAAAAATCAA-ACAAG
* * *
99347760 ATAAACAAAATGAAATAAG
1 ATAAAAAAAATCAAACAAG
*
99347779 --AAAAAAAATCAAAAAAG
1 ATAAAAAAAATCAAACAAG
99347796 -TAAAAAAAAT-AAA-AAG
1 ATAAAAAAAATCAAACAAG
99347812 ATAAAA
1 ATAAAA
99347818 TTTATTAAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.06
17 22 0.45
18 9 0.18
19 9 0.18
20 6 0.12
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (19 bp):
ATAAAAAAAATCAAACAAG
Found at i:99347858 original size:23 final size:22
Alignment explanation
Indices: 99347832--99347907 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 22
99347822 TTAAGGAACA
99347832 AAATA-AAAAAGTAAAAATAAAAG
1 AAATATAAAAA-TAAAAA-AAAAG
*
99347855 AAATATGAAAATAAAAAAAAACAAAAG
1 AAATAT---AA-AAATAAAAA-AAAAG
*
99347882 AAATATGAAAATAAAAGAAAAAG
1 AAATATAAAAATAAAA-AAAAAG
99347905 AAA
1 AAA
99347908 ACAAAAAGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
23 20 0.47
24 2 0.05
27 18 0.42
28 3 0.07
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (22 bp):
AAATATAAAAATAAAAAAAAAG
Found at i:99347867 original size:17 final size:17
Alignment explanation
Indices: 99347845--99347901 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
99347835 TAAAAAAGTA
99347845 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
99347862 AAAAT---A-AAA-A--
1 AAAATAAAAGAAATATG
*
99347872 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
99347889 AAAATAAAAGAAA
1 AAAATAAAAGAAA
99347902 AAGAAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
10 4 0.13
12 1 0.03
13 4 0.13
14 4 0.13
15 1 0.03
17 17 0.55
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:99347880 original size:27 final size:28
Alignment explanation
Indices: 99347838--99347908 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 28
99347828 AACAAAATAA
*
99347838 AAAAGTAAAAATAAAAGAAATATGAAAAT
1 AAAAG-AAAAACAAAAGAAATATGAAAAT
99347867 AAAA-AAAAACAAAAGAAATATGAAAAT
1 AAAAGAAAAACAAAAGAAATATGAAAAT
*
99347894 AAAAGAAAAAGAAAA
1 AAAAGAAAAACAAAA
99347909 CAAAAAGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 26 0.67
28 9 0.23
29 4 0.10
ACGTcount: A:0.77, C:0.01, G:0.10, T:0.11
Consensus pattern (28 bp):
AAAAGAAAAACAAAAGAAATATGAAAAT
Found at i:99349342 original size:20 final size:18
Alignment explanation
Indices: 99349314--99349382 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 18
99349304 ATCGCAAAAT
*
99349314 AATTTAAAATCATTTTCAAA
1 AATTCAAAAT-ATTTT-AAA
*
99349334 AATTCAAAATAATTTTTAA
1 AATTCAAAAT-ATTTTAAA
* *
99349353 AAGTCAAAATATTTAGAAA
1 AATTCAAAATATTT-TAAA
99349372 AATTCCAAAAT
1 AATT-CAAAAT
99349383 TTATATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 4 0.10
19 16 0.40
20 20 0.50
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTCAAAATATTTTAAA
Found at i:99352022 original size:34 final size:33
Alignment explanation
Indices: 99351938--99352029 Score: 82
Period size: 34 Copynumber: 2.7 Consensus size: 33
99351928 ACATCATCAC
99351938 TTAATAGT-AAAAATAAATAATATTTTTAATATTT
1 TTAATA-TAAAAAATAAA-AATATTTTTAATATTT
* * *
99351972 TTAATATAATATATAAAAAT-TTATTTATTTATTT
1 TTAATATAAAAAATAAAAATATT-TTTA-ATATTT
99352006 TTAAT-TAAAAAAATAAAATATATT
1 TTAATAT-AAAAAATAAAA-ATATT
99352030 CCGATTGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
32 2 0.04
33 9 0.19
34 32 0.68
35 2 0.04
36 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (33 bp):
TTAATATAAAAAATAAAAATATTTTTAATATTT
Found at i:99361309 original size:12 final size:12
Alignment explanation
Indices: 99361294--99361320 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
99361284 ATATATACAT
99361294 ATATAGAGAGAG
1 ATATAGAGAGAG
99361306 ATATAGAGAGAG
1 ATATAGAGAGAG
99361318 ATA
1 ATA
99361321 GCATTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.19
Consensus pattern (12 bp):
ATATAGAGAGAG
Found at i:99366888 original size:9 final size:9
Alignment explanation
Indices: 99366874--99366904 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
99366864 GGCTCAATTG
99366874 TTTTATTTA
1 TTTTATTTA
99366883 TTTTATTTTA
1 TTTTA-TTTA
99366893 TTTTATTTA
1 TTTTATTTA
99366902 TTT
1 TTT
99366905 AGATAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTATTTA
Found at i:99367207 original size:6 final size:6
Alignment explanation
Indices: 99367193--99367222 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
99367183 AAGTAAGTAC
*
99367193 AATATA AATACA AATACA AATACA AATACA
1 AATACA AATACA AATACA AATACA AATACA
99367223 TGTATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (6 bp):
AATACA
Found at i:99371768 original size:25 final size:25
Alignment explanation
Indices: 99371736--99371851 Score: 71
Period size: 24 Copynumber: 4.7 Consensus size: 25
99371726 TCTTCGTGAA
99371736 CTTCCTGATTAATGGCTCTCTAGAG
1 CTTCCTGATTAATGGCTCTCTAGAG
* * * *
99371761 CTTCCTGA-TACTGGCTCACTTGAAC
1 CTTCCTGATTAATGGCTCTCTAG-AG
* * * *
99371786 CTTTCTGA-TATTGGCTC-GTATGAT
1 CTTCCTGATTAATGGCTCTCTA-GAG
* *
99371810 CTTCCCG-TTAATGGCTTTCTAGAG
1 CTTCCTGATTAATGGCTCTCTAGAG
*
99371834 CTTTCT-ATTATATGGCTC
1 CTTCCTGATTA-ATGGCTC
99371852 GAAAGAGCTT
Statistics
Matches: 67, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
24 34 0.51
25 33 0.49
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (25 bp):
CTTCCTGATTAATGGCTCTCTAGAG
Found at i:99371858 original size:25 final size:25
Alignment explanation
Indices: 99371830--99371879 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
99371820 ATGGCTTTCT
*
99371830 AGAGCTTTCTATTATATG-GCTCGAA
1 AGAGCTTCCTATT-TATGTGCTCGAA
99371855 AGAGCTTCCTATTTATGTGCTCGAA
1 AGAGCTTCCTATTTATGTGCTCGAA
99371880 TGAGTATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (25 bp):
AGAGCTTCCTATTTATGTGCTCGAA
Found at i:99371889 original size:26 final size:25
Alignment explanation
Indices: 99371838--99371889 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
99371828 CTAGAGCTTT
*
99371838 CTATTATATGGCTCGAAAGAGCTTC
1 CTATTATATGGCTCGAAAGAGATTC
*
99371863 CTATT-TATGTGCTCGAATGAGTATTC
1 CTATTATATG-GCTCGAAAGAG-ATTC
99371889 C
1 C
99371890 CGAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 15 0.65
26 4 0.17
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (25 bp):
CTATTATATGGCTCGAAAGAGATTC
Found at i:99374252 original size:17 final size:18
Alignment explanation
Indices: 99374230--99374268 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
99374220 CAAAAAATAC
99374230 AAAACC-TTAAACCTTAA
1 AAAACCTTTAAACCTTAA
99374247 AAAACCTTTAAACCTTAA
1 AAAACCTTTAAACCTTAA
99374265 AAAA
1 AAAA
99374269 ACAAAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAACCTTTAAACCTTAA
Found at i:99374940 original size:8 final size:7
Alignment explanation
Indices: 99374927--99374959 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
99374917 TATTTAAGTA
99374927 AAAAAAG
1 AAAAAAG
*
99374934 CAAAAA-
1 AAAAAAG
99374940 AAAAAAG
1 AAAAAAG
99374947 AAAAAAG
1 AAAAAAG
99374954 AAAAAA
1 AAAAAA
99374960 AGGTCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:99375382 original size:30 final size:31
Alignment explanation
Indices: 99375323--99375386 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
99375313 ACTTAATAAG
99375323 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
* *
99375354 CAAATGCCTTTAAAATAAT-AACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
99375384 CAA
1 CAA
99375387 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.23
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAAATTAA
Found at i:99381093 original size:30 final size:30
Alignment explanation
Indices: 99381057--99381118 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
99381047 CTTATTTTAC
*
99381057 TGTTAATTTTGTTATTATTTTAAAGATATT
1 TGTTAATTTTGTTATTATTTTAAAGACATT
*
99381087 TGTTAATTTTGTTATTATTTTAGAGACATT
1 TGTTAATTTTGTTATTATTTTAAAGACATT
99381117 TG
1 TG
99381119 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACATT
Found at i:99381540 original size:73 final size:73
Alignment explanation
Indices: 99381421--99381567 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
99381411 CACCTCTAGC
99381421 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
99381486 ATAGTGAT
66 ATAGTGAT
*
99381494 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAATCGTATGTTTG
1 TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
99381559 ATAGTGAT
66 ATAGTGAT
99381567 T
1 T
99381568 CATACTCCAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (73 bp):
TGTAACGTTCTTTGGGCGTCTCTCTATTATATGATAATATCTTCCACAATTAAAACGTATGTTTG
ATAGTGAT
Found at i:99382421 original size:47 final size:47
Alignment explanation
Indices: 99382352--99382445 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
99382342 GTTAATCAGA
99382352 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
1 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
99382399 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
1 CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
99382446 ACTTGTTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (47 bp):
CCTTAACTTAATTTAAAAAAATCGAGATTTTTAAAACCAATAAACTT
Found at i:99383008 original size:31 final size:31
Alignment explanation
Indices: 99382972--99383031 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
99382962 TTTTATTTTA
* *
99382972 AAAGAGTAAATTAGTCTCTGTATGT-TAAATG
1 AAAGAGCAAATCAGTC-CTGTATGTATAAATG
*
99383003 AAAGAGCAAATCAGTCCTTTATGTATAAA
1 AAAGAGCAAATCAGTCCTGTATGTATAAA
99383032 AACTTCACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (31 bp):
AAAGAGCAAATCAGTCCTGTATGTATAAATG
Found at i:99386629 original size:46 final size:46
Alignment explanation
Indices: 99386577--99386986 Score: 543
Period size: 46 Copynumber: 8.8 Consensus size: 46
99386567 AGTGTGCTTT
*
99386577 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
99386623 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
99386669 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
99386715 CTGATATGGAATGTGTAAGACAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGT---A-AGACCATGGTTGAAAGATACCATGGCAAC
* *
99386765 GTGATATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
99386811 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
99386857 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGGAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
99386903 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
99386950 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
99386987 TATGACATTA
Statistics
Matches: 335, Mismatches: 24, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
46 249 0.74
47 42 0.13
49 1 0.00
50 43 0.13
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:99386830 original size:142 final size:138
Alignment explanation
Indices: 99386577--99386986 Score: 579
Period size: 142 Copynumber: 2.9 Consensus size: 138
99386567 AGTGTGCTTT
*
99386577 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
* *
99386642 ACCATGGTTGAAAGATACCATGGCAACGTGATATGGAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
99386707 ATGGCAAC
131 ATGGCAAC
*
99386715 CTGATATGGAATGTGTAAGACAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTG
1 CTGATATGGAATGTGT---A-AGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTG
* *
99386780 TAAGGCCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
62 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAGA
99386845 TACCATGGCAAC
127 TACCATGGCAAC
* * * * *** **
99386857 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGGAACATGACGGGAAAATGAATAA
1 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAA
* * * * *
99386922 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
65 GACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
99386986 C
129 C
99386987 TATGACATTA
Statistics
Matches: 244, Mismatches: 22, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
138 49 0.20
139 65 0.27
141 1 0.00
142 129 0.53
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (138 bp):
CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:99389672 original size:30 final size:30
Alignment explanation
Indices: 99389636--99389696 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
99389626 TCCTTAACTC
99389636 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
99389666 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
99389696 A
1 A
99389697 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:99391126 original size:4 final size:4
Alignment explanation
Indices: 99391117--99391156 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
99391107 TCTTTTTCTC
*
99391117 TTTA TTTA TTTTA TTTA TTTA TTTTA CTTA TTTA TTTA TT
1 TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TT
99391157 ATTAACTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:99391133 original size:13 final size:13
Alignment explanation
Indices: 99391117--99391153 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
99391107 TCTTTTTCTC
99391117 TTTATTTATTTTA
1 TTTATTTATTTTA
99391130 TTTATTTATTTTA
1 TTTATTTATTTTA
*
99391143 CTTATTTATTT
1 TTTATTTATTT
99391154 ATTATTAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:99391139 original size:17 final size:18
Alignment explanation
Indices: 99391117--99391156 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
99391107 TCTTTTTCTC
*
99391117 TTTA-TTTATTTTATTTA
1 TTTATTTTATCTTATTTA
99391134 TTTATTTTA-CTTATTTA
1 TTTATTTTATCTTATTTA
99391151 TTTATT
1 TTTATT
99391157 ATTAACTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTATCTTATTTA
Found at i:99391214 original size:38 final size:33
Alignment explanation
Indices: 99391172--99391245 Score: 85
Period size: 37 Copynumber: 2.1 Consensus size: 33
99391162 CTTTAAAAAG
99391172 TTTGAAATATATATTTGAAATATTTTATTAATATATAT
1 TTTGAAAT-TATATTTGAAA-ATTTTA--AATAT-TAT
* *
99391210 TTTGAAATTATTTTTTAAAATTTTAAATATTAT
1 TTTGAAATTATATTTGAAAATTTTAAATATTAT
99391243 TTT
1 TTT
99391246 TTAATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 6 0.18
34 5 0.15
36 6 0.18
37 9 0.26
38 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (33 bp):
TTTGAAATTATATTTGAAAATTTTAAATATTAT
Found at i:99391221 original size:26 final size:23
Alignment explanation
Indices: 99391177--99391263 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 23
99391167 AAAAGTTTGA
99391177 AATATATATTTGAAATATTTTATT
1 AATATATATTTGAAATATTTT-TT
99391201 AATATATATTTTGAAATTATTTTTT
1 AATATATA-TTTGAAA-TATTTTTT
99391226 AA-A-AT-TTT-AAATATTATTTT
1 AATATATATTTGAAATATT-TTTT
*
99391246 -TTA-ATATTT-AAATATTTT
1 AATATATATTTGAAATATTTT
99391264 AAACTTTCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
19 4 0.07
20 12 0.21
21 13 0.23
23 2 0.04
24 9 0.16
25 11 0.19
26 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AATATATATTTGAAATATTTTTT
Found at i:99391227 original size:25 final size:25
Alignment explanation
Indices: 99391177--99391252 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 25
99391167 AAAAGTTTGA
99391177 AATATATA-TTTGAAA-TATTTTATT
1 AATATATATTTTGAAATTATTTT-TT
99391201 AATATATATTTTGAAATTATTTTTT
1 AATATATATTTTGAAATTATTTTTT
*
99391226 -A-A-A-ATTTTAAATATTATTTTTT
1 AATATATATTTTGAA-ATTATTTTTT
99391248 AATAT
1 AATAT
99391253 TTAAATATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.16
22 11 0.24
23 2 0.04
24 10 0.22
25 9 0.20
26 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
AATATATATTTTGAAATTATTTTTT
Found at i:99391301 original size:36 final size:38
Alignment explanation
Indices: 99391223--99391302 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 38
99391213 GAAATTATTT
* * *
99391223 TTTAAAATTTTAAATATTATTTTTTAATATTTAAATAT
1 TTTAAAATTTCAAATATTATTTATTAATATTTAAATAA
*
99391261 TTTAAACTTTCAAAT-TTA-TTATTAAT-TTTATAATAA
1 TTTAAAATTTCAAATATTATTTATTAATATTTA-AATAA
99391297 TTTAAA
1 TTTAAA
99391303 TATTATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.11
36 17 0.46
37 3 0.08
38 13 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTAAAATTTCAAATATTATTTATTAATATTTAAATAA
Found at i:99391310 original size:22 final size:21
Alignment explanation
Indices: 99391216--99391310 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 21
99391206 ATATTTTGAA
99391216 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAA-TTTAAAT
*
99391238 ATTATTTTTTAATATTTAAAT
1 ATTATTTTTTAAAATTTAAAT
* * *
99391259 ATT-TTAAACTTTCAAATTT-ATT
1 ATTATT---TTTTAAAATTTAAAT
*
99391281 ATTAATTTTATAATAATTTAAAT
1 ATT-ATTTTTTAA-AATTTAAAT
99391304 ATTATTT
1 ATTATTT
99391311 AATTTGTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
20 2 0.04
21 13 0.23
22 27 0.47
23 13 0.23
24 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTTTTTAAAATTTAAAT
Found at i:99391643 original size:22 final size:23
Alignment explanation
Indices: 99391591--99391649 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
99391581 ATATCTTTAA
99391591 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
99391613 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
99391634 AAATAATATTAAAAAT
1 AAATAATATTAAAAAT
99391650 ATTAACAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:99391775 original size:31 final size:33
Alignment explanation
Indices: 99391738--99391805 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 33
99391728 TAATGTTTAA
99391738 AAAATAAAATTCAAAATTTTAAAA-ATA-ATT-T
1 AAAATAAAATTCAAAA-TTTAAAATATATATTAT
* *
99391769 AAAATAATATTTAAAATTTAAAATATATATTAT
1 AAAATAAAATTCAAAATTTAAAATATATATTAT
99391802 AAAA
1 AAAA
99391806 CATTTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 7 0.22
31 17 0.53
32 3 0.09
33 5 0.16
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAATAAAATTCAAAATTTAAAATATATATTAT
Found at i:99391786 original size:19 final size:21
Alignment explanation
Indices: 99391764--99391805 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
99391754 TTTTAAAAAT
99391764 AATTTAAAATA-ATATT-TAA
1 AATTTAAAATATATATTATAA
99391783 AATTTAAAATATATATTATAA
1 AATTTAAAATATATATTATAA
99391804 AA
1 AA
99391806 CATTTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 5 0.24
21 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTAAAATATATATTATAA
Found at i:99391838 original size:23 final size:23
Alignment explanation
Indices: 99391765--99391827 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
99391755 TTTAAAAATA
*
99391765 ATTTAAAATA-ATATT-T-AAA-
1 ATTTAAAATATACATTATAAAAC
*
99391784 ATTTAAAATATATATTATAAAAC
1 ATTTAAAATATACATTATAAAAC
* *
99391807 ATTTCAAATATACATTTTAAA
1 ATTTAAAATATACATTATAAA
99391828 TTTTTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 10 0.27
20 5 0.14
21 1 0.03
22 3 0.08
23 18 0.49
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTAAAATATACATTATAAAAC
Found at i:99391865 original size:22 final size:21
Alignment explanation
Indices: 99391835--99391876 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99391825 AAATTTTTTA
*
99391835 AAATTAATAACAAAAAATAAAT
1 AAATAAATAA-AAAAAATAAAT
*
99391857 AAATAAATAAACAAAATAAA
1 AAATAAATAAAAAAAATAAA
99391877 ACAAGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAATAAAAAAAATAAAT
Found at i:99392128 original size:22 final size:23
Alignment explanation
Indices: 99392076--99392128 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
99392066 ATATCTTTAA
99392076 AAATAAT-TTAAAAATCATAATT
1 AAATAATATTAAAAATCATAATT
*
99392098 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTA-AAAATCATAATT
99392119 AAATAATATT
1 AAATAATATT
99392129 TACATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 9 0.35
22 13 0.50
23 4 0.15
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATAATATTAAAAATCATAATT
Found at i:99392195 original size:22 final size:22
Alignment explanation
Indices: 99392168--99392222 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
99392158 GAAAGTTTAA
99392168 AATATTT-AAATATTAAAAAAAT
1 AATATTTAAAAT-TTAAAAAAAT
*
99392190 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAAT
*
99392212 AAT-TTCAAAAT
1 AATATTTAAAAT
99392223 ATATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:99392294 original size:14 final size:15
Alignment explanation
Indices: 99392271--99392299 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
99392261 TTTTAAAATT
99392271 AATAATAATAAATAA
1 AATAATAATAAATAA
99392286 AATAA-AATAAATAA
1 AATAATAATAAATAA
99392300 TGAGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:99393401 original size:6 final size:6
Alignment explanation
Indices: 99393390--99393424 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
99393380 GTTCTCCCCA
99393390 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
99393425 CCAACATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:99397098 original size:120 final size:120
Alignment explanation
Indices: 99396960--99397252 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
99396950 AATTATTTTA
* * * *
99396960 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
99397023 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
99397080 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
99397145 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
99397200 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
99397253 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 4 0.02
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:99397120 original size:15 final size:15
Alignment explanation
Indices: 99397085--99397126 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99397075 TTAAGAATTT
*
99397085 TATTAAATTAT-ATA
1 TATTTAATTATAATA
99397099 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
99397113 TATTTAATAATAAT
1 TATTTAATTATAAT
99397127 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:99397235 original size:16 final size:16
Alignment explanation
Indices: 99397214--99397255 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
99397204 TTATTAAATT
*
99397214 ATATATTTTAATTATA
1 ATATATTTTAATAATA
99397230 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
99397245 AT-TATGTTTAA
1 ATATAT-TTTAA
99397256 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:99397240 original size:15 final size:15
Alignment explanation
Indices: 99397205--99397246 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99397195 TTAAGAATTT
*
99397205 TATTAAATTAT-ATA
1 TATTTAATTATAATA
99397219 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
99397233 TATTTAATAATAAT
1 TATTTAATTATAAT
99397247 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:99397396 original size:156 final size:157
Alignment explanation
Indices: 99397189--99397493 Score: 542
Period size: 156 Copynumber: 1.9 Consensus size: 157
99397179 ATAAGAATAT
*
99397189 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
99397254 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
99397319 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
99397346 TAATTA-TAAGAA-TTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
99397409 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
*
99397474 ATAATCATTTACCAAAACAA
130 ATAATAATTTACCAAAACAA
99397494 TTTTATGTTA
Statistics
Matches: 142, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
155 18 0.13
156 118 0.83
157 6 0.04
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:99397620 original size:44 final size:45
Alignment explanation
Indices: 99397555--99397645 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
99397545 ACCTCTATTC
* * *
99397555 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
99397599 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
99397644 CA
1 CA
99397646 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:99397647 original size:16 final size:16
Alignment explanation
Indices: 99397626--99397694 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
99397616 GATTAGCTAT
99397626 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
99397642 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
99397659 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
99397675 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
99397691 TACA
1 TACA
99397695 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:99397668 original size:33 final size:32
Alignment explanation
Indices: 99397626--99397694 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
99397616 GATTAGCTAT
99397626 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
99397659 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
99397691 TACA
1 TACA
99397695 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:99400895 original size:16 final size:16
Alignment explanation
Indices: 99400874--99400941 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
99400864 TTTGGTTCGC
99400874 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
99400890 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
99400905 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
99400922 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
99400938 TGTA
1 TGTA
99400942 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:99400913 original size:32 final size:32
Alignment explanation
Indices: 99400874--99400941 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
99400864 TTTGGTTCGC
99400874 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
99400906 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
99400938 TGTA
1 TGTA
99400942 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:99401278 original size:157 final size:157
Alignment explanation
Indices: 99401071--99401380 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
99401061 CCCTTAGCAT
*
99401071 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
99401136 TAATGAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
99401201 TTTAATAAAATTCTTAATAATTACCAA
131 TTTAATAAAATTCTTAATAATTACCAA
* * * *
99401228 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
99401293 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
99401358 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
99401381 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAA
Found at i:99404889 original size:16 final size:16
Alignment explanation
Indices: 99404868--99404936 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
99404858 TTTGGTTCGC
99404868 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99404884 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99404900 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
99404917 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99404933 TGTA
1 TGTA
99404937 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:99404914 original size:33 final size:32
Alignment explanation
Indices: 99404868--99404936 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
99404858 TTTGGTTCGC
99404868 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
99404900 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
99404933 TGTA
1 TGTA
99404937 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:99405001 original size:44 final size:45
Alignment explanation
Indices: 99404917--99405007 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
99404907 GGATTAGAGG
* * *
99404917 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
99404962 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
99405006 TG
1 TG
99405008 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:99405259 original size:157 final size:157
Alignment explanation
Indices: 99405059--99405375 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
99405049 TAGAATACCC
*
99405059 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
99405124 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
99405189 ATATATAATTTAATAAAATTCTT-ATAA
130 ATATATAATTTAATAAAATTCTTAATAA
* *
99405216 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
99405281 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
99405346 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
99405373 TTA
1 TTA
99405376 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:99405346 original size:16 final size:16
Alignment explanation
Indices: 99405309--99405350 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
99405299 TTAATCATAT
*
99405309 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
99405325 TT-AAATATATTATAA
1 TTAAAATATATTATAA
99405340 TTAAAATATAT
1 TTAAAATATAT
99405351 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:99405357 original size:14 final size:15
Alignment explanation
Indices: 99405318--99405359 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99405308 TTTAAACATA
*
99405318 ATTATTATTAAATAT
1 ATTATAATTAAATAT
99405333 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
99405347 A-TATAATTTAATA
1 ATTATAATTAAATA
99405360 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:99405446 original size:120 final size:121
Alignment explanation
Indices: 99405312--99405604 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 121
99405302 ATCATATTTA
99405312 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
99405377 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-GT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATGTG
99405432 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
99405497 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
* * *
99405553 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
99405605 TAAAATAATT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 3 0.02
120 160 0.97
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
Found at i:99405477 original size:14 final size:15
Alignment explanation
Indices: 99405438--99405479 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99405428 AAGTAACATA
*
99405438 ATTATTATTAAATAT
1 ATTATAATTAAATAT
99405453 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
99405467 A-TATAATTTAATA
1 ATTATAATTAAATA
99405480 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:99409150 original size:6 final size:6
Alignment explanation
Indices: 99409141--99409169 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
99409131 TTGATGTTGG
99409141 GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
99409170 TGGGGAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:99412894 original size:22 final size:22
Alignment explanation
Indices: 99412867--99412910 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
99412857 AATATTAAAA
99412867 TATATATTTT-TAATTAATATTT
1 TATATATTTTATAATTAA-ATTT
99412889 TATATATTTTATAATTAAATTT
1 TATATATTTTATAATTAAATTT
99412911 AATTAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATATATTTTATAATTAAATTT
Found at i:99415225 original size:30 final size:31
Alignment explanation
Indices: 99415152--99415215 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
99415142 TTATAGAATT
* * *
99415152 GTCATTGAACTATTTAAAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTCAA
99415183 GTCACTGAACTATTCAAAAGTTTT-ATTCAA
1 GTCACTGAACTATTCAAAAGTTTTCATTCAA
99415213 GTC
1 GTC
99415216 CTTAGACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTCAA
Found at i:99423515 original size:60 final size:60
Alignment explanation
Indices: 99423384--99423539 Score: 179
Period size: 60 Copynumber: 2.5 Consensus size: 60
99423374 TTTGAGTTAT
* * * * *
99423384 TGTCTTTTGTTATTACCCTATGTGCTAGGTTTATTATGTGATTGCTTTTGATTTATTGCCATC
1 TGTCTTTTGTTACT--CC-ATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* *
99423447 CG-CTTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTGTTGCAATA
1 TGTC-TTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
* * *
99423507 TGTCTTTTGTTACACTATGTGCTAGATTTATCA
1 TGTCTTTTGTTACTCCATGTGCTAGGTTTATCA
99423540 GTATGTTTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
60 66 0.82
61 3 0.04
62 1 0.01
63 10 0.12
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (60 bp):
TGTCTTTTGTTACTCCATGTGCTAGGTTTATCATGTGATTGCTTTTGATGTATTGCAATA
Found at i:99433562 original size:85 final size:85
Alignment explanation
Indices: 99433392--99433562 Score: 200
Period size: 85 Copynumber: 2.0 Consensus size: 85
99433382 GACGCTCCAT
* * * * * *
99433392 ATACTTGTGTTGTTGTAGGTGCGTTATAAGATTATCCAAAATTGGATTTTGACCTGATCTCTGAC
1 ATACTTGTGTTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
* ***
99433457 ATTGGCTTACATATTTTGAA
66 ATTAGCTTACATACAGTGAA
* **
99433477 ATACTTGTGTTGTTGCAGGTATGTTACAAGATAATCCAATTTTGGATTATGACATGATCTCTGAC
1 ATACTTGTGTTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
*
99433542 ATTATCTTATC-TACAGTGAA
66 ATTAGCTTA-CATACAGTGAA
99433562 A
1 A
99433563 GTGAGTCTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 70 0.99
86 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (85 bp):
ATACTTGTGTTGTTGCAGGTACGTTACAAGATAATCCAAAATTGGATTATGACATGATCTCTGAC
ATTAGCTTACATACAGTGAA
Found at i:99435930 original size:21 final size:20
Alignment explanation
Indices: 99435906--99435951 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
99435896 GAGTTCAACG
99435906 TATAATAGAGTAATATACCAT
1 TATAATA-AGTAATATACCAT
*
99435927 TATAA-ATGTAATATACCAT
1 TATAATAAGTAATATACCAT
99435946 T-TAATA
1 TATAATA
99435952 TATTACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 1 0.04
21 5 0.22
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (20 bp):
TATAATAAGTAATATACCAT
Found at i:99438690 original size:63 final size:63
Alignment explanation
Indices: 99438504--99438691 Score: 243
Period size: 64 Copynumber: 3.0 Consensus size: 63
99438494 TTTATTCATT
* * *
99438504 TTTTTCGTAAATTGTAAATATGTATATTATTGATGTAAAAATACAATACAAACAATTTTTGCA
1 TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
* * * * * *
99438567 ATTTTCTTAAATTGTAAAAAAAGTATATTATTGATATAAAAATACAATAAAAATATTTTTTTCA
1 TTTTTCGTAAATTGT-AAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
* * *
99438631 TTTTTCGTAAATTATAAATAAGTATATTATTGATGTAAAAAAATAA-ACAAACACTTTTTTT
1 TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACA-TTTTTTT
99438692 ATAAAATGTG
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
62 5 0.05
63 47 0.45
64 53 0.50
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (63 bp):
TTTTTCGTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAAACATTTTTTTCA
Found at i:99440796 original size:16 final size:17
Alignment explanation
Indices: 99440771--99440808 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
99440761 ATATAAACAT
*
99440771 ATAATTTTAAAAA-TTA
1 ATAATATTAAAAACTTA
99440787 ATAATATTAAAAACTTA
1 ATAATATTAAAAACTTA
99440804 ATAAT
1 ATAAT
99440809 TATCTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATATTAAAAACTTA
Found at i:99441256 original size:35 final size:37
Alignment explanation
Indices: 99441186--99441265 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 37
99441176 AATATAATTA
* *
99441186 TAATTATAATTTAAAATTATTAATTCACATATAAAAT
1 TAATTATAATATAAAATTATTAATTCACATATAAAAC
* *
99441223 TAATTATAATAT-ACATTA-TAATTGCA-ATTTAAAAC
1 TAATTATAATATAAAATTATTAATT-CACATATAAAAC
99441258 TAATTATA
1 TAATTATA
99441266 GAATATGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 20 0.53
36 7 0.18
37 11 0.29
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.42
Consensus pattern (37 bp):
TAATTATAATATAAAATTATTAATTCACATATAAAAC
Found at i:99448116 original size:19 final size:19
Alignment explanation
Indices: 99448073--99448117 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
99448063 CAAATATATA
* *
99448073 ATTATATTTTTTTAAAAGT
1 ATTATATTATCTTAAAAGT
* *
99448092 AATATATTATCTTAAAATT
1 ATTATATTATCTTAAAAGT
99448111 ATTATAT
1 ATTATAT
99448118 AATTATATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTATATTATCTTAAAAGT
Found at i:99448141 original size:18 final size:19
Alignment explanation
Indices: 99448118--99448163 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
99448108 ATTATTATAT
99448118 AATTATATTT-TAAAAATA
1 AATTATATTTCTAAAAATA
*
99448136 AATTATATTTCTAAAATTA
1 AATTATATTTCTAAAAATA
*
99448155 AAATATATT
1 AATTATATT
99448164 ATTATTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTATATTTCTAAAAATA
Found at i:99448151 original size:43 final size:44
Alignment explanation
Indices: 99448065--99448180 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 44
99448055 TCTAATAACA
*
99448065 AATATATAATTATATTTTTTTAAAAGT-AATATATTATCTTAAAATT
1 AATATATAATTATA---TTTTAAAAATAAATATATTATCTTAAAATT
*
99448111 ATTATATAATTATATTTTAAAAATAAATTATATT-TC-TAAAATT
1 AATATATAATTATATTTTAAAAATAAA-TATATTATCTTAAAATT
*
99448154 AAAATAT-ATTATTATTGTATAAAAATA
1 AATATATAATTA-TATT-T-TAAAAATA
99448181 GCTTTTGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
42 4 0.07
43 25 0.41
44 5 0.08
45 14 0.23
46 13 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (44 bp):
AATATATAATTATATTTTAAAAATAAATATATTATCTTAAAATT
Found at i:99449292 original size:22 final size:22
Alignment explanation
Indices: 99449267--99449310 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
99449257 TAGTCTTATA
99449267 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
99449289 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
99449311 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:99449346 original size:13 final size:14
Alignment explanation
Indices: 99449330--99449371 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
99449320 TTTTAATTTT
99449330 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
99449343 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
99449358 ATTTTAAATAATAT
1 ATTTT-AATAATAT
99449372 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:99449356 original size:16 final size:16
Alignment explanation
Indices: 99449334--99449370 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
99449324 AATTTTATTT
99449334 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
99449351 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
99449366 TAATA
1 TAATA
99449371 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:99451972 original size:26 final size:26
Alignment explanation
Indices: 99451935--99451992 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
99451925 TGATACAAAT
99451935 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
99451961 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
99451987 TGATAA
1 TGATAA
99451993 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:99456463 original size:50 final size:50
Alignment explanation
Indices: 99456388--99456564 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
99456378 CCATGGAAAC
99456388 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
99456438 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
99456488 AAGTGATGAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * *
99456538 CAACTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
99456565 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
50 88 0.79
51 24 0.21
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:99456580 original size:31 final size:31
Alignment explanation
Indices: 99456542--99456781 Score: 354
Period size: 31 Copynumber: 7.7 Consensus size: 31
99456532 AAATGACAAC
99456542 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
99456573 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
99456604 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
99456635 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
99456666 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
99456697 TGAAAAGTAGTAGCTCCGGCTACTTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* ** *
99456728 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
99456759 TGAATAGTGGTACCTTTGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
99456782 AAGTGACAAG
Statistics
Matches: 189, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 189 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:99456792 original size:7 final size:7
Alignment explanation
Indices: 99456780--99456812 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
99456770 ACCTTTGGCT
99456780 ACAAGTG
1 ACAAGTG
99456787 ACAAGTG
1 ACAAGTG
99456794 ACAAGTG
1 ACAAGTG
99456801 ACAAGTG
1 ACAAGTG
99456808 ACAAG
1 ACAAG
99456813 CGATTTCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.27, T:0.12
Consensus pattern (7 bp):
ACAAGTG
Found at i:99460516 original size:18 final size:20
Alignment explanation
Indices: 99460491--99460534 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
99460481 CTATTTAAAC
99460491 ATATTTTT-TCACACTT-CAT
1 ATATTTTTAT-ACACTTACAT
99460510 A-ATTTTTATACACTTACAT
1 ATATTTTTATACACTTACAT
99460529 ATATTT
1 ATATTT
99460535 ATGCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTTTATACACTTACAT
Found at i:99477567 original size:44 final size:45
Alignment explanation
Indices: 99477503--99477992 Score: 469
Period size: 44 Copynumber: 11.1 Consensus size: 45
99477493 TCATTAAAGT
* * * * * *
99477503 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAAATATC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
99477547 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * *
99477590 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
99477635 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
99477679 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
99477722 AGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * *
99477767 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
99477811 AGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * *
99477854 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * *
99477899 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAT-GC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
* * * * * * * *
99477943 CGATCTTGTCTTCCCATACTGGTGGTGAAGAAGACCGAAGAAAGC
1 AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
99477988 AGATC
1 AGATC
99477993 GACGATGGCG
Statistics
Matches: 373, Mismatches: 63, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
43 67 0.18
44 213 0.57
45 93 0.25
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
AGATCTTATCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGC
Found at i:99477740 original size:132 final size:132
Alignment explanation
Indices: 99477498--99477940 Score: 778
Period size: 132 Copynumber: 3.3 Consensus size: 132
99477488 TGAAGTCATT
* * *
99477498 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAAATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
99477563 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
99477628 AG
131 AG
99477630 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
*
99477695 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
99477760 AG
131 AG
* *
99477762 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
99477827 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
99477892 AG
131 AG
*** * *
99477894 AAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAT
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
99477941 GCCGATCTTG
Statistics
Matches: 298, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
132 281 0.94
133 17 0.06
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:99480204 original size:18 final size:20
Alignment explanation
Indices: 99480179--99480222 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
99480169 CTATTTAAAC
99480179 ATATTTTT-TCACACTT-CAT
1 ATATTTTTAT-ACACTTACAT
99480198 A-ATTTTTATACACTTACAT
1 ATATTTTTATACACTTACAT
99480217 ATATTT
1 ATATTT
99480223 ATGCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTTTATACACTTACAT
Found at i:99489893 original size:29 final size:30
Alignment explanation
Indices: 99489835--99489893 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
99489825 GAATTTGATT
99489835 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* *
99489865 AAATCAAAATTT-ATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTACACA
99489894 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:99495755 original size:35 final size:35
Alignment explanation
Indices: 99495711--99495877 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
99495701 TCCTCATTGA
** *
99495711 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
99495746 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
99495786 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
99495821 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
99495856 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
99495878 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:99495797 original size:75 final size:73
Alignment explanation
Indices: 99495706--99495877 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
99495696 GGTTTTCCTC
** * * **
99495706 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
99495770 TCAGTATGG
65 TCAGTATGG
*
99495779 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
99495844 CTCAGTATGG
64 CTCAGTATGG
99495854 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
99495878 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:99499407 original size:19 final size:19
Alignment explanation
Indices: 99499383--99499435 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
99499373 TCGACCTTCT
99499383 TTTTGTTTAAAAAAATAAA
1 TTTTGTTTAAAAAAATAAA
99499402 TTTTGTTT-AAAAAATAAA
1 TTTTGTTTAAAAAAATAAA
*
99499420 TTTTCTTTTAAAAAAA
1 TTTT-GTTTAAAAAAA
99499436 AGGATTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 14 0.45
19 11 0.35
20 6 0.19
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (19 bp):
TTTTGTTTAAAAAAATAAA
Found at i:99499415 original size:18 final size:18
Alignment explanation
Indices: 99499383--99499434 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
99499373 TCGACCTTCT
99499383 TTTTGTTTAAAAAAATAAA
1 TTTTGTTT-AAAAAATAAA
99499402 TTTTGTTTAAAAAATAAA
1 TTTTGTTTAAAAAATAAA
*
99499420 TTTTCTTTTAAAAAA
1 TTTT-GTTTAAAAAA
99499435 AAGGATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
TTTTGTTTAAAAAATAAA
Found at i:99502618 original size:22 final size:22
Alignment explanation
Indices: 99502590--99502644 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
99502580 ATCCATGACT
*
99502590 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
*
99502612 AACATTCATTTGTCATTCATTC
1 AACATTCATTCGTCATTCATTC
*
99502634 ATTCATTCATT
1 A-ACATTCATT
99502645 GCATATACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:99510987 original size:75 final size:75
Alignment explanation
Indices: 99510880--99511268 Score: 387
Period size: 73 Copynumber: 5.1 Consensus size: 75
99510870 TGATGTTTTT
* * * *
99510880 ATTTCTGTTTTC-AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACATGTTGA
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
99510943 GGTATTTTCA
66 GGTATTTTCA
*
99510953 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG-ACACGCTG
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTG
*
99511017 AGGTAATGTT-A
65 AGGT-ATTTTCA
* * * *
99511028 ATTTCTGTTCTTCAGTTTGTGTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGTCTTAG
1 ATTTCTGTT-TTCA----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
** *
99511093 GTCACACATTGAGGTGTTTTCA
55 G-CACACGCTGAGGTATTTTCA
* *
99511115 ATTTATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTG
*
99511177 AGGTATTTTTA
65 AGGTATTTTCA
* * *
99511188 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTCACACACT
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCT
* *
99511253 TAAGTATTTTCA
64 GAGGTATTTTCA
99511265 ATTT
1 ATTT
99511269 TTACCTTTTC
Statistics
Matches: 263, Mismatches: 32, Indels: 38
0.79 0.10 0.11
Matches are distributed among these distances:
73 68 0.26
74 5 0.02
75 66 0.25
76 4 0.02
77 59 0.22
85 40 0.15
86 4 0.02
87 17 0.06
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (75 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
GGTATTTTCA
Found at i:99512914 original size:3 final size:3
Alignment explanation
Indices: 99512903--99512955 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
99512893 TTTTATTTAT
*
99512903 TTA TT- TTA TTA TTA TTA TT- TATA CTA TTA -TA TT- TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA
99512946 TTA TTA TTA T
1 TTA TTA TTA T
99512956 ATCCATTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 7 0.17
3 32 0.76
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:99512921 original size:22 final size:21
Alignment explanation
Indices: 99512890--99512955 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
99512880 TACTTTTCCT
*
99512890 TTTTTTTATTTATTTATTTTA
1 TTTTATTATTTATTTATTTTA
* *
99512911 TTATTATTATTTATACTATTATA
1 TT-TTATTATTTAT-TTATTTTA
99512934 TTTTATTATTTA-TTATTATTA
1 TTTTATTATTTATTTATT-TTA
99512955 T
1 T
99512956 ATCCATTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 4 0.11
21 5 0.14
22 20 0.54
23 8 0.22
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATTATTTATTTATTTTA
Found at i:99512922 original size:18 final size:18
Alignment explanation
Indices: 99512899--99512955 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
99512889 TTTTTTTTAT
99512899 TTATTTATTTTATTATTA
1 TTATTTATTTTATTATTA
**
99512917 TTATTTATACTATTA-TA
1 TTATTTATTTTATTATTA
*
99512934 TTTTATTA-TTTATTATTA
1 TTAT-TTATTTTATTATTA
99512952 TTAT
1 TTAT
99512956 ATCCATTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTATTTTATTATTA
Found at i:99513113 original size:23 final size:23
Alignment explanation
Indices: 99513086--99513696 Score: 147
Period size: 23 Copynumber: 26.3 Consensus size: 23
99513076 ATCATTTCTA
*
99513086 ATATATATATATCGTATATGTTTTT
1 ATATATAT-TAT-GTATATATTTTT
99513111 ATATATATTATGTATATATTTTT
1 ATATATATTATGTATATATTTTT
99513134 A-ATATTATTA-GTTATATATCTTTT
1 ATATA-TATTATG-TATATAT-TTTT
99513158 ATACTAT-TTCATGTATATATTTTT
1 ATA-TATATT-ATGTATATATTTTT
** *
99513182 ATAT-TATCCT-TAT-TATTATT
1 ATATATATTATGTATATATTTTT
*
99513202 AT-TA-A-TAT-TAGTATATGTTT
1 ATATATATTATGTA-TATATTTTT
*
99513222 -TAT-TA-TATGTATATATCTTT
1 ATATATATTATGTATATATTTTT
*
99513242 A-ATATATATATGTATATATTTAT
1 ATATATAT-TATGTATATATTTTT
*
99513265 GTA-ATATTAT-TA-ATAGTTGTTT
1 ATATATATTATGTATATA-TT-TTT
* *
99513287 -TTTAACATTAT-TAT-TATTTCTAAT
1 ATAT-ATATTATGTATATATTT-T--T
* * **
99513311 ATGCATATACTATGTAAATATTTCA
1 AT--ATATATTATGTATATATTTTT
*
99513336 ATACTATATTATGTATACATTTTTT
1 ATA-TATATTATGTATATA-TTTTT
*
99513361 ATATATATTACGTATATATATCTTT
1 ATATATATTATGTATATAT-T-TTT
* *
99513386 TTA-ATA-T-TGTAT-T-TTTAT
1 ATATATATTATGTATATATTTTT
* * *
99513404 ATATGTCATGTA--TATAT-TTCTA
1 ATATAT-AT-TATGTATATATTTTT
*
99513426 ATACTATATTA--CAT-T-TTTTT
1 ATA-TATATTATGTATATATTTTT
*
99513446 ACATATTATCTTATGTATATATATTTTTT
1 --ATA-TATATTATG--TATATA-TTTTT
* *
99513475 AAAACTATATTATGTATGTATTTTT
1 -ATA-TATATTATGTATATATTTTT
* * * *
99513500 AGCACTATATTACGTACATACTTTTA
1 A-TA-TATATTATGTATATA-TTTTT
99513526 ATATCATTATTATGTATATATTTTT
1 ATAT-A-TATTATGTATATATTTTT
*
99513551 A-ATATATATATGTCTATA--TTT
1 ATATATAT-TATGTATATATTTTT
*
99513572 ATGTAGTATTAT-TA-ATAGTTGTTT
1 ATATA-TATTATGTATATA-TT-TTT
* *
99513596 TTA-ATATTAT-TAT-TATTTCTA
1 ATATATATTATGTATATATTT-TT
*
99513617 ATATGTATATAT-TATATATATTTT
1 ATATATAT-TATGTATATAT-TTTT
* *
99513641 -CA-ATACTATGTATATACTTTTT
1 ATATATATTATGTATATA-TTTTT
* *
99513663 AATACTATTATTATGTTTATATTTTA
1 -ATA-TA-TATTATGTATATATTTTT
99513689 ATATATAT
1 ATATATAT
99513697 ACGTATTTAT
Statistics
Matches: 437, Mismatches: 73, Indels: 154
0.66 0.11 0.23
Matches are distributed among these distances:
18 7 0.02
19 6 0.01
20 41 0.09
21 34 0.08
22 69 0.16
23 83 0.19
24 63 0.14
25 63 0.14
26 36 0.08
27 15 0.03
28 15 0.03
29 5 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (23 bp):
ATATATATTATGTATATATTTTT
Found at i:99513183 original size:71 final size:63
Alignment explanation
Indices: 99513093--99513276 Score: 160
Period size: 65 Copynumber: 2.8 Consensus size: 63
99513083 CTAATATATA
*
99513093 TATATCGTATATGTTTTTATATATATTATGTATATATTTTTAATATTATTAGTTATATATCTTTT
1 TATAT-GTATATATTTTTATATATATTATGTATATATTTTTAATATTATTAG---TATATCTTTT
99513158 AT
62 AT
** * * * *
99513160 ACTATTTCATGTATATATTTTTATAT-TATCCT-TAT-TATTATTATTAATATTAGTATATGTTT
1 --TA--T-ATGTATATATTTTTATATATATTATGTATATATTTTTAATATTATTAGTATATCTTT
99513222 TAT
61 TAT
*
99513225 TATATGTATATATCTTTA-ATATATATATGTATATATTTATGTAATATTATTA
1 TATATGTATATATTTTTATATATAT-TATGTATATATTT-T-TAATATTATTA
99513277 ATAGTTGTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
59 2 0.02
60 17 0.18
61 2 0.02
62 3 0.03
63 6 0.06
64 1 0.01
65 20 0.22
68 15 0.16
69 5 0.05
70 4 0.04
71 16 0.17
72 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (63 bp):
TATATGTATATATTTTTATATATATTATGTATATATTTTTAATATTATTAGTATATCTTTTAT
Found at i:99513524 original size:25 final size:25
Alignment explanation
Indices: 99513478--99513525 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
99513468 ATTTTTTAAA
* ** *
99513478 ACTATATTATGTATGTATTTTTAGC
1 ACTATATTACGTACATACTTTTAGC
99513503 ACTATATTACGTACATACTTTTA
1 ACTATATTACGTACATACTTTTA
99513526 ATATCATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48
Consensus pattern (25 bp):
ACTATATTACGTACATACTTTTAGC
Found at i:99513656 original size:20 final size:21
Alignment explanation
Indices: 99513631--99513670 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99513621 GTATATATTA
99513631 TATATA-TTTTCAATACTATG
1 TATATACTTTTCAATACTATG
*
99513651 TATATACTTTTTAATACTAT
1 TATATACTTTTCAATACTAT
99513671 TATTATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TATATACTTTTCAATACTATG
Found at i:99519027 original size:21 final size:20
Alignment explanation
Indices: 99518997--99519045 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
99518987 ACATAAATAT
* * *
99518997 ATATACACATATATATTAAA
1 ATATATACATACATAATAAA
99519017 GATATATACATACATAATAAA
1 -ATATATACATACATAATAAA
*
99519038 ACATATAC
1 ATATATAC
99519046 CCATATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (20 bp):
ATATATACATACATAATAAA
Found at i:99519154 original size:24 final size:24
Alignment explanation
Indices: 99519097--99519162 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
99519087 CGGGACATAG
* *
99519097 TATATAAAAAAAATACATAACTAA
1 TATATATAAAAAATATATAACTAA
*
99519121 TA-ATACTAAAAAATATAT-ACATGA
1 TATATA-TAAAAAATATATAAC-TAA
99519145 TATATATAAAAACATATA
1 TATATATAAAAA-ATATA
99519163 CGATAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 5 0.14
24 22 0.63
25 8 0.23
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (24 bp):
TATATATAAAAAATATATAACTAA
Found at i:99519172 original size:21 final size:22
Alignment explanation
Indices: 99519129--99519173 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
99519119 AATAATACTA
* *
99519129 AAAAATATATACATGATATATAT
1 AAAAACATATACA-GATAAATAT
99519152 AAAAACATATAC-GATAAATAT
1 AAAAACATATACAGATAAATAT
99519173 A
1 A
99519174 TATATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAAACATATACAGATAAATAT
Done.