Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007911.1 Hibiscus syriacus cultivar Beakdansim tig00110307_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1972160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:739888 original size:28 final size:30
Alignment explanation
Indices: 739863--739917 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
739853 ATGTTTATAT
739863 TCTATAT-TACTACT-ATATTTTATTATTA
1 TCTATATGTACTACTAATATTTTATTATTA
**
739891 TCTATATGTACTTTTAATATTTTATTA
1 TCTATATGTACTACTAATATTTTATTA
739918 CTATATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 7 0.30
29 5 0.22
30 11 0.48
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (30 bp):
TCTATATGTACTACTAATATTTTATTATTA
Found at i:749267 original size:49 final size:52
Alignment explanation
Indices: 749195--749292 Score: 139
Period size: 49 Copynumber: 1.9 Consensus size: 52
749185 AATACTTCGC
* *
749195 TTAGGATGAAAACCCGAAGGGGCGTCCT-AAGT-AAAAAAA-TGAAAAACGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAAGTGAAAAAAATTGAAAAACGT
* *
749244 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAATTGAAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAAGTGAAAAAAATTGAAAAA
749293 AGAAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
49 25 0.60
50 3 0.07
51 7 0.17
52 7 0.17
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.16
Consensus pattern (52 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAAGTGAAAAAAATTGAAAAACGT
Found at i:750278 original size:105 final size:105
Alignment explanation
Indices: 750063--750580 Score: 488
Period size: 105 Copynumber: 5.0 Consensus size: 105
750053 TCGTGCCACT
* *
750063 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACGAACAACTTT-CCAA
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAA-TTTCCCAG
* * ** * ** *
750127 TTTCAAAGCTGATTT----TCCAC-GATAGAGGATATCATGCTACC
64 TTCCAGAGCCAATTTCAACTTCACAG-CGGAGGATAT--TG-GACC
*
750168 TAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
* * *
750233 TCAGGGCCAATTTCAACTTCACAGTGGAGGATATTGGACC
66 CCAGAGCCAATTTCAACTTCACAGCGGAGGATATTGGACC
* * * * **
750273 CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTT--C-G-
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAGT
* * * *
750334 ----GAGCCAATCTCAACTTCACAACGAAGGATATTGGACT
65 TCCAGAGCCAATTTCAACTTCACAGCGGAGGATATTGGACC
* *
750371 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAACAATTTCCCAGTT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
* * *
750436 CCAGGGCCAGTTTCAACTTCACAGCGAAGGATATTGGACC
66 CCAGAGCCAATTTCAACTTCACAGCGGAGGATATTGGACC
* * ** * * ** * *
750476 CAAGACAGCACAAGCTCAACTTCGTAGCGAAGGGGCGGCTGACTGTCAATAAACAATTTCCCGGT
1 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAACAATTTCCCAGT
* * *
750541 TCCAGAACCAATCTCAACTTCACAGCAGAGGATATTGGAC
65 TCCAGAGCCAATTTCAACTTCACAGCGGAGGATATTGGAC
750581 TCAGAACAAT
Statistics
Matches: 343, Mismatches: 54, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
97 8 0.02
98 73 0.21
99 1 0.00
100 1 0.00
103 4 0.01
104 20 0.06
105 165 0.48
106 57 0.17
108 13 0.04
109 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (105 bp):
CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTT
CCAGAGCCAATTTCAACTTCACAGCGGAGGATATTGGACC
Found at i:750404 original size:203 final size:203
Alignment explanation
Indices: 750170--750535 Score: 660
Period size: 203 Copynumber: 1.8 Consensus size: 203
750160 ATGCTACCTA
*
750170 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTTCC
* *
750235 AGGGCCAATTTCAACTTCACAGTGGAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
66 AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
750300 CGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATAT
131 CGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATAT
750365 TGGACTCG
196 TGGACTCG
*
750373 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAACAATTTCCCAGTTCC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTTCC
* **
750438 AGGGCCAGTTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCGTAG
66 AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
*
750503 CGAAGGGGCGGCTGACTGTCAATAAACAATTTC
131 CGAAGGGGCGGCTGACTGTCAACAAACAATTTC
750536 CCGGTTCCAG
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
203 155 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (203 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAGTTCC
AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
CGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAACGAAGGATAT
TGGACTCG
Found at i:752093 original size:12 final size:12
Alignment explanation
Indices: 752058--752105 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
752048 GTTTATTAGC
752058 ATTTATATTTAATT
1 ATTTAT-TTT-ATT
*
752072 ATATAGTTTTATT
1 ATTTA-TTTTATT
*
752085 ATTTATTTTCTT
1 ATTTATTTTATT
752097 ATTTATTTT
1 ATTTATTTT
752106 TTTTCTCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 15 0.50
13 7 0.23
14 7 0.23
15 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
ATTTATTTTATT
Found at i:755832 original size:22 final size:21
Alignment explanation
Indices: 755790--755829 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
755780 GAGTTTGTTT
*
755790 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
755811 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
755830 ACAGTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:757910 original size:19 final size:19
Alignment explanation
Indices: 757886--757951 Score: 100
Period size: 19 Copynumber: 3.5 Consensus size: 19
757876 ATATTCAGAG
757886 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
757905 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
757924 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
757941 TGCATTCGATG
1 TGCA-TCGATG
757952 TTTCAATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
17 7 0.16
18 6 0.14
19 31 0.70
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:757974 original size:84 final size:84
Alignment explanation
Indices: 757840--758003 Score: 208
Period size: 84 Copynumber: 1.9 Consensus size: 84
757830 GTATGGCTTG
*
757840 TGCATCGATGCATCAAATGCATTCGATGTTTTAAAAATATTCAGAGTGCATCGATGCATGGA-GA
1 TGCATCGATGCATCAAATGCATTCGATGTTTCAAAAATATTCAGAGTGCATCGATGCATGGACG-
757904 ATGCATCGATGCATGGAGAA
65 ATGCATCGATGCATGGAGAA
* ** **
757924 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTA-ATTCATCGA-TGCATCGATGCATGGAC
1 TGCATCGATGCATCAAATGCATTCGATGTTTCAAAAATATTCA--GAGTGCATCGATGCATGGAC
*
757987 TGATGCATCGGTGCATG
64 -GATGCATCGATGCATG
758004 CCTTTGAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
83 5 0.07
84 47 0.68
85 16 0.23
86 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (84 bp):
TGCATCGATGCATCAAATGCATTCGATGTTTCAAAAATATTCAGAGTGCATCGATGCATGGACGA
TGCATCGATGCATGGAGAA
Found at i:760260 original size:23 final size:23
Alignment explanation
Indices: 760203--760261 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
760193 ATGTTCACTA
*
760203 GGTATCGATTCCCTCTTTGAATG
1 GGTATCGATACCCTCTTTGAATG
760226 GGTA-CTGATACCCTCTTTGAATG
1 GGTATC-GATACCCTCTTTGAATG
*
760249 GGTATCGCTACCC
1 GGTATCGATACCC
760262 CCATAAGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 30 0.94
24 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (23 bp):
GGTATCGATACCCTCTTTGAATG
Found at i:768701 original size:13 final size:14
Alignment explanation
Indices: 768673--768707 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
768663 TAATTTTTAA
*
768673 TTTTCAAAATTGGT
1 TTTTCAAAAATGGT
768687 TTTTCAAAAAT-GT
1 TTTTCAAAAATGGT
768700 TTTTCAAA
1 TTTTCAAA
768708 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (14 bp):
TTTTCAAAAATGGT
Found at i:770589 original size:23 final size:23
Alignment explanation
Indices: 770558--770602 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
770548 CTCATGCAGT
* *
770558 TTTTTTCATTTATTTTTTTTTAC
1 TTTTATCATTTATATTTTTTTAC
770581 TTTTATCATTTATATTTTTTTA
1 TTTTATCATTTATATTTTTTTA
770603 TCTTACTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTATCATTTATATTTTTTTAC
Found at i:779627 original size:65 final size:65
Alignment explanation
Indices: 779520--779695 Score: 222
Period size: 65 Copynumber: 2.8 Consensus size: 65
779510 GCGACACAAT
* * *
779520 TTACTCGA-GATTGAATTTCAACTTCACAACGAAGGATGTCCAACTCAAAGCCAATTTGGTGAAA
1 TTACTC-ATGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGAGAAA
779584 C
65 C
* *
779585 TTACTCATGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAACCAATTTGGAGAAAC
1 TTACTCATGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGAGAAAC
* *
779650 --A---AT-ACTTGGATTTTAACTTCACAACGAAGGATATCTAACTCAAAGC
1 TTACTCATGA-TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
779696 TCAACTTCAC
Statistics
Matches: 100, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
59 1 0.01
60 39 0.39
63 1 0.01
64 1 0.01
65 58 0.58
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (65 bp):
TTACTCATGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGAGAAAC
Found at i:781606 original size:34 final size:34
Alignment explanation
Indices: 781548--781663 Score: 110
Period size: 34 Copynumber: 3.3 Consensus size: 34
781538 ACCTTTTTAG
*
781548 TATTTTATTCTATTATATATATATATATATTATCAT
1 TATTTTATT-TATTTTATATATATATATATTAT-AT
* *
781584 TATTTT-TTTATTTTATATATATATTTATTATTT
1 TATTTTATTTATTTTATATATATATATATTATAT
* *
781617 TATTTTATTAATTTTTTAT-TATTATAACTATTATTAT
1 TATTTTATTTATTTTATATATA-TAT-A-TATTA-TAT
781654 TATTATTATT
1 TATT-TTATT
781664 ATTCGTATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
33 9 0.13
34 34 0.51
35 2 0.03
36 11 0.16
37 6 0.09
38 5 0.07
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (34 bp):
TATTTTATTTATTTTATATATATATATATTATAT
Found at i:781617 original size:25 final size:27
Alignment explanation
Indices: 781569--781641 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 27
781559 ATTATATATA
*
781569 TATATATATTATCATTATTTTTTTATTT
1 TATATATATTAT-ATTATTATTTTATTT
781597 TATATATA-TAT-TTATTATTTTATTT
1 TATATATATTATATTATTATTTTATTT
* *
781622 TAT-TAATTTTTTATTATTAT
1 TATAT-ATATTATATTATTAT
781642 AACTATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 18 0.46
26 2 0.05
27 10 0.26
28 8 0.21
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (27 bp):
TATATATATTATATTATTATTTTATTT
Found at i:781640 original size:3 final size:3
Alignment explanation
Indices: 781575--781666 Score: 70
Period size: 3 Copynumber: 31.3 Consensus size: 3
781565 TATATATATA
* *
781575 TAT TAT CAT TAT T-T TTT TAT T-T TAT ATAT ATATT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TAT TAT TAT TAT
* *
781620 T-T TAT TAAT T-T T-T TAT TAT TAT AAC TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
781663 TAT T
1 TAT T
781667 CGTATTTGTT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
2 12 0.16
3 50 0.68
4 11 0.15
5 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:781710 original size:19 final size:18
Alignment explanation
Indices: 781680--781738 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
781670 ATTTGTTTTG
*
781680 TTTTTTTGTTTA-TTCTT
1 TTTTTTTATTTATTTCTT
781697 ATTTGTTTTATTTATTTCTT
1 -TTT-TTTTATTTATTTCTT
* *
781717 TTTTTTTAGTT-TTTATT
1 TTTTTTTATTTATTTCTT
781734 TTTTT
1 TTTTT
781739 ATTTTCTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 10 0.28
18 10 0.28
19 11 0.31
20 5 0.14
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.81
Consensus pattern (18 bp):
TTTTTTTATTTATTTCTT
Found at i:781784 original size:9 final size:9
Alignment explanation
Indices: 781772--781802 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
781762 ATTATAGATT
*
781772 TTTTATTCA
1 TTTTATTTA
781781 TTTTATTTA
1 TTTTATTTA
781790 TTTTATTTA
1 TTTTATTTA
781799 TTTT
1 TTTT
781803 TTATCTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTATTTA
Found at i:787200 original size:25 final size:25
Alignment explanation
Indices: 787171--787221 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
787161 TAAAGATAAT
787171 CAAATGCCCATACAAAATATAGAAC
1 CAAATGCCCATACAAAATATAGAAC
787196 CAAATGCCCATACAAAATATAGAAC
1 CAAATGCCCATACAAAATATAGAAC
787221 C
1 C
787222 TAAAGGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.25, G:0.08, T:0.16
Consensus pattern (25 bp):
CAAATGCCCATACAAAATATAGAAC
Found at i:792662 original size:11 final size:11
Alignment explanation
Indices: 792646--792691 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
792636 CAGATTGTAA
*
792646 TTAGTTAGTTG
1 TTAGTTAGCTG
792657 TTAGTTAGTCT-
1 TTAGTTAG-CTG
*
792668 ATAGTTAGCTG
1 TTAGTTAGCTG
792679 TTAGTTAGCTG
1 TTAGTTAGCTG
792690 TT
1 TT
792692 TTAATATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 2 0.07
11 27 0.90
12 1 0.03
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.50
Consensus pattern (11 bp):
TTAGTTAGCTG
Found at i:798793 original size:18 final size:18
Alignment explanation
Indices: 798770--798810 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
798760 AAATATTCAA
798770 AAAAATTACTA-AAAAATT
1 AAAAA-TACTATAAAAATT
798788 AAAAATACTATTAAAAATT
1 AAAAATACTA-TAAAAATT
798807 AAAA
1 AAAA
798811 TAAATGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 5 0.24
19 11 0.52
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATACTATAAAAATT
Found at i:799001 original size:3 final size:3
Alignment explanation
Indices: 798993--799035 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
798983 AATGTAATTA
798993 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
799036 GGTTTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:799240 original size:21 final size:22
Alignment explanation
Indices: 799202--799243 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
799192 TTAAAAATAT
*
799202 TTTTATTTTTTAATAACTTATA
1 TTTTATTATTTAATAACTTATA
799224 TTTTATTATTT-ATAACTTAT
1 TTTTATTATTTAATAACTTAT
799244 GATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATTATTTAATAACTTATA
Found at i:799256 original size:24 final size:23
Alignment explanation
Indices: 799205--799258 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
799195 AAAATATTTT
*
799205 TATTT-TTTAATAACTTATATTT
1 TATTTATTTAATAACTTATATTA
799227 TA-TTATTT-ATAACTTATGATATA
1 TATTTATTTAATAACTTAT-AT-TA
799250 TATTTATTT
1 TATTTATTT
799259 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 11 0.41
22 7 0.26
23 3 0.11
24 6 0.22
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTATTTAATAACTTATATTA
Found at i:799331 original size:15 final size:15
Alignment explanation
Indices: 799313--799370 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
799303 TAGTAATTTG
*
799313 ATTTTTATTTTTAAC
1 ATTTTTATATTTAAC
799328 ATTTTTATATTTAA-
1 ATTTTTATATTTAAC
*
799342 GTTTTTGAATATTTAA-
1 ATTTTT--ATATTTAAC
799358 A-TTTTATATTTAA
1 ATTTTTATATTTAA
799371 AAATTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
13 8 0.21
14 5 0.13
15 17 0.45
16 8 0.21
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTTTATATTTAAC
Found at i:800853 original size:15 final size:17
Alignment explanation
Indices: 800833--800867 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
800823 CTCCTAAATT
800833 AAAGGA-CTAAAT-TAA
1 AAAGGATCTAAATCTAA
800848 AAAGGATCTAAATCTAA
1 AAAGGATCTAAATCTAA
800865 AAA
1 AAA
800868 AAGTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (17 bp):
AAAGGATCTAAATCTAA
Found at i:811677 original size:17 final size:17
Alignment explanation
Indices: 811652--811689 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
811642 AAAATATAAA
*
811652 ATATAAAATTAATTTTT
1 ATATAAAATTAAATTTT
*
811669 ATATCAAATTAAATTTT
1 ATATAAAATTAAATTTT
811686 ATAT
1 ATAT
811690 TCGTATTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATAAAATTAAATTTT
Found at i:818715 original size:63 final size:63
Alignment explanation
Indices: 818611--818757 Score: 240
Period size: 63 Copynumber: 2.3 Consensus size: 63
818601 CTGGGATGTT
* * *
818611 CGTAAACTGTTATGGTGTTTTGATACAATGATTTGATTTCTGAGACTTTAAGATGAGATCTTC
1 CGTAAACTGTTATGGTGTTTCGATACAAGGATTTGACTTCTGAGACTTTAAGATGAGATCTTC
* *
818674 CGTAAACTATTATGGTGTTTCGATACAAGGATTTGACTTCTGAGACTTTAAGATGAGATCTTT
1 CGTAAACTGTTATGGTGTTTCGATACAAGGATTTGACTTCTGAGACTTTAAGATGAGATCTTC
*
818737 CGTAAACTGTTATGGTTTTTC
1 CGTAAACTGTTATGGTGTTTC
818758 TTAGGAGACA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 77 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (63 bp):
CGTAAACTGTTATGGTGTTTCGATACAAGGATTTGACTTCTGAGACTTTAAGATGAGATCTTC
Found at i:819062 original size:23 final size:23
Alignment explanation
Indices: 819017--819062 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
819007 CTACAGTCTT
* *
819017 CACCATCTTCTCCATATAGTTTC
1 CACCATCTTCCCCATATACTTTC
* *
819040 CACCATCTTCCCCTTATTCTTTC
1 CACCATCTTCCCCATATACTTTC
819063 AACTCTCTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.39, G:0.02, T:0.41
Consensus pattern (23 bp):
CACCATCTTCCCCATATACTTTC
Found at i:823523 original size:22 final size:23
Alignment explanation
Indices: 823498--823542 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
823488 ATCAAAAGGA
823498 AGAGG-AAATGT-TCCATAAAGAC
1 AGAGGAAAATGTGT-CATAAAGAC
823520 AGAGGAAAATGTGTCATAAAGAC
1 AGAGGAAAATGTGTCATAAAGAC
823543 GTAGTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 15 0.71
24 1 0.05
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAGGAAAATGTGTCATAAAGAC
Found at i:828627 original size:2 final size:2
Alignment explanation
Indices: 828622--828652 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
828612 TATATATATA
828622 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
828653 ACTCTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:829613 original size:16 final size:16
Alignment explanation
Indices: 829578--829611 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
829568 ATTTCCGTTA
829578 TTTAAATTTATGCACT
1 TTTAAATTTATGCACT
829594 TTTAAATTTATGC-CT
1 TTTAAATTTATGCACT
829609 TTT
1 TTT
829612 TATTTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:831144 original size:20 final size:18
Alignment explanation
Indices: 831125--831222 Score: 74
Period size: 19 Copynumber: 5.2 Consensus size: 18
831115 TATTTCTTCT
831125 TTTTTCTCTATTTTTTTTC
1 TTTTTCTCT-TTTTTTTTC
**
831144 TCATTCTTCTATTTTTTTTC
1 TTTTTC-TCT-TTTTTTTTC
*
831164 TATTTT-T-TCTTTTTTTC
1 T-TTTTCTCTTTTTTTTTC
* *
831181 TTTCTCACTTTTTTTTTTC
1 TTTTTCTC-TTTTTTTTTC
*
831200 ATTTTCTCTTTTTTCTTTC
1 TTTTTCTCTTTTTT-TTTC
831219 TTTT
1 TTTT
831223 CTATATTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
16 3 0.05
17 9 0.15
18 7 0.11
19 26 0.43
20 14 0.23
21 2 0.03
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTCTCTTTTTTTTTC
Found at i:831151 original size:40 final size:41
Alignment explanation
Indices: 831111--831187 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
831101 TCGGTTTTCT
831111 TTCT-TATTTCTTCT-TTTTTCTCTATTTTT-TTTCTCATTC
1 TTCTATATTTCTTCTATTTTT-TCTATTTTTCTTTCTCATTC
* * *
831150 TTCTATTTTTTTTCTATTTTTTCTTTTTTTCTTTCTCA
1 TTCTATATTTCTTCTATTTTTTCTATTTTTCTTTCTCA
831188 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.12
40 16 0.50
41 12 0.38
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (41 bp):
TTCTATATTTCTTCTATTTTTTCTATTTTTCTTTCTCATTC
Found at i:831158 original size:19 final size:18
Alignment explanation
Indices: 831131--831235 Score: 58
Period size: 18 Copynumber: 5.7 Consensus size: 18
831121 TTCTTTTTTC
831131 TCTATTTTTTTTCTCATTCT
1 TCTA-TTTTTTTCTCATT-T
831151 TCTATTTTTTT-TCTATTT
1 TCTATTTTTTTCTC-ATTT
* * *
831169 TTTCTTTTTTTCT--TTC
1 TCTATTTTTTTCTCATTT
*
831185 TC-ACTTTTTTTTTTCATTT
1 TCTA--TTTTTTTCTCATTT
* *
831204 TCTCTTTTTTCTTTC-TTT
1 TCTATTTTTT-TCTCATTT
831222 TCTATATTTTTTCT
1 TCTAT-TTTTTTCT
831236 ATAACTTTTC
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.05
17 8 0.12
18 27 0.41
19 24 0.36
20 4 0.06
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTATTTTTTTCTCATTT
Found at i:831169 original size:9 final size:8
Alignment explanation
Indices: 831156--831224 Score: 59
Period size: 9 Copynumber: 8.1 Consensus size: 8
831146 ATTCTTCTAT
831156 TTTTTTTC
1 TTTTTTTC
831164 TATTTTTTC
1 T-TTTTTTC
831173 TTTTTTTC
1 TTTTTTTC
* **
831181 TTTCTCAC
1 TTTTTTTC
831189 TTTTTTT-
1 TTTTTTTC
831196 TTTCATTTTC
1 TTT--TTTTC
831206 TCTTTTTTC
1 T-TTTTTTC
831215 TTTCTTTTC
1 TTT-TTTTC
831224 T
1 T
831225 ATATTTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
7 3 0.06
8 19 0.39
9 24 0.49
10 1 0.02
11 2 0.04
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:831232 original size:35 final size:36
Alignment explanation
Indices: 831121--831237 Score: 112
Period size: 35 Copynumber: 3.2 Consensus size: 36
831111 TTCTTATTTC
* *
831121 TTCTTTTTTCTCTATTTTTTTTCTCATTCTTCTATTTTTT
1 TTCTATTTTCTCT-TTTTTCTT-TC-TT-TTCTATTTTTT
* ** *
831161 TTCTATTTTTTCTTTTTTTCTTTC-TCACTTTTTTTT
1 TTCTATTTTCTC-TTTTTTCTTTCTTTTCTATTTTTT
*
831197 TTC-ATTTTCTCTTTTTTCTTTCTTTTCTATATTTT
1 TTCTATTTTCTCTTTTTTCTTTCTTTTCTATTTTTT
831232 TTCTAT
1 TTCTAT
831238 AACTTTTCTT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
34 11 0.17
35 18 0.29
36 13 0.21
37 1 0.02
39 2 0.03
40 17 0.27
41 1 0.02
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (36 bp):
TTCTATTTTCTCTTTTTTCTTTCTTTTCTATTTTTT
Found at i:831232 original size:54 final size:54
Alignment explanation
Indices: 831127--831235 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 54
831117 TTTCTTCTTT
* *
831127 TTTCTCTATTTTTTTTCTCATTCTTCTATTTTTTTTCTATTTTTTCTTTTTTTC
1 TTTCTCTATTTTTTTTCTCATTCTTCTATTTTTTTTCTATTTTCTATTTTTTTC
* * *
831181 TTTCTC-ACTTTTTTTTTTCATT-TTCTCTTTTTTCTT-TCTTTTCTATATTTTTTC
1 TTTCTCTA-TTTTTTTTCTCATTCTTCTATTTTTT-TTCTATTTTCTAT-TTTTTTC
831235 T
1 T
831236 ATAACTTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
53 18 0.38
54 29 0.62
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (54 bp):
TTTCTCTATTTTTTTTCTCATTCTTCTATTTTTTTTCTATTTTCTATTTTTTTC
Found at i:841807 original size:33 final size:34
Alignment explanation
Indices: 841757--841823 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
841747 ACAAAATGTA
841757 AAGGAAAATATAAATTATTTTCACATTTTTAAAT
1 AAGGAAAATATAAATTATTTTCACATTTTTAAAT
*
841791 AAGG-AAATATATATTATTTTCACATTTTTAAAT
1 AAGGAAAATATAAATTATTTTCACATTTTTAAAT
841824 GTTGGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (34 bp):
AAGGAAAATATAAATTATTTTCACATTTTTAAAT
Found at i:845065 original size:26 final size:26
Alignment explanation
Indices: 845029--845086 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
845019 AAAGGTAGTG
845029 CAAATTGTCAGGATATGAAATTATGC
1 CAAATTGTCAGGATATGAAATTATGC
845055 CAAATTGTCAGGATATGAAATTATGC
1 CAAATTGTCAGGATATGAAATTATGC
845081 CAAATT
1 CAAATT
845087 TTAGGAGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (26 bp):
CAAATTGTCAGGATATGAAATTATGC
Found at i:847208 original size:38 final size:39
Alignment explanation
Indices: 847120--847211 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
847110 GTTGAACAAG
* *
847120 TTCTTATTATGAACTTTTTCTCTCTCGTCGTATGAGTTT
1 TTCTCATTATGAACTTTTTCTCACTCGTCGTATGAGTTT
847159 TTCTCATTATGAACTTTTTCTCACTCGTCAG-ATGAG-TT
1 TTCTCATTATGAACTTTTTCTCACTCGTC-GTATGAGTTT
847197 TTCTCATTATGAACT
1 TTCTCATTATGAACT
847212 CTCCTATTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
38 17 0.34
39 32 0.64
40 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (39 bp):
TTCTCATTATGAACTTTTTCTCACTCGTCGTATGAGTTT
Found at i:847418 original size:89 final size:88
Alignment explanation
Indices: 847154--847847 Score: 759
Period size: 89 Copynumber: 7.8 Consensus size: 88
847144 TCGTCGTATG
* * * *
847154 AGTTTTTCTCATTATGAACTTTTTCTCACTCGTCAGATGAGTTTTCTCATTATGAACTCTCCTAT
1 AGTTCTTCTCATTATGAACTTCTTC-C-CTCGTCGGATGAGTTTTCTCATTATGAACTCTCC-AC
* * *
847219 TAGAAATATTGAGTCAAGGTTGAACA
63 TGGAAATGTTGAGCCAAGGTTGAACA
** * * *
847245 AGTTCTTCTCATTATGAACTTCTTCTCCCTTTTCGGATGA---TT-TC-TTATGATCTCT-TATT
1 AGTTCTTCTCATTATGAACTTC-T-TCCCTCGTCGGATGAGTTTTCTCATTATGAACTCTCCACT
* *
847304 GGAAATGTTGAGTCAAGATTGAACA
64 GGAAATGTTGAGCCAAGGTTGAACA
* *
847329 AGTTATTCTCATTATGAACTTCTTCCCTCGTCAGATGAGTTCTTCTCATTATGAACTCTCCACTG
1 AGTTCTTCTCATTATGAACTTCTTCCCTCGTCGGATGAGTT-TTCTCATTATGAACTCTCCACTG
847394 GAAATGTTGA-CCGAAGGTTGAACA
65 GAAATGTTGAGCC-AAGGTTGAACA
*
847418 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCAC
1 AGTTCTTCTCATTATGAACTTC-T-TCCCTCGTCGGATGAGTT-TTCTCATTATGAACTCTCCAC
* * **
847483 TGGAATTATTGAGCCAAGGCCGAACA
63 TGGAAATGTTGAGCCAAGGTTGAACA
* * *
847509 AGTTCTTCTCATTATGAACTTTTTCCTTCGTCGGATAAG-TTTCTCATTATGAACTCTCCACTGG
1 AGTTCTTCTCATTATGAACTTCTTCCCTCGTCGGATGAGTTTTCTCATTATGAACTCTCCACTGG
* *
847573 AACTGTTGAGCCAAGGTTGAATA
66 AAATGTTGAGCCAAGGTTGAACA
* *
847596 AGTTCTTCTCATTATGAACTTCTTCTCCTCCTTGGATGAGTTTTCTCATTATGAACTC-CTCACT
1 AGTTCTTCTCATTATGAACTTCTTC-CCTCGTCGGATGAGTTTTCTCATTATGAACTCTC-CACT
*
847660 GGAAATGTTGATCCAAGGTTGAACA
64 GGAAATGTTGAGCCAAGGTTGAACA
* * * *
847685 AGTTCTTCTCATTATGAACTTCTTATCCTCATTGGATGAGTTCTTCTCATTATGAACTC-CCTGC
1 AGTTCTTCTCATTATGAACTTCTT-CCCTCGTCGGATGAGTT-TTCTCATTATGAACTCTCC-AC
* *
847749 TGGAAACGTTGATG-CAAGGTTCAACA
63 TGGAAATGTTGA-GCCAAGGTTGAACA
* * * * *
847775 AGTTCTTTTCATTTTAAACTTCTTCCCCTCGTCGAATGAG--TTCTCATTATGAACTC-CCTGCT
1 AGTTCTTCTCATTATGAACTTCTT-CCCTCGTCGGATGAGTTTTCTCATTATGAACTCTCC-ACT
*
847837 GTAAATGTTGA
64 GGAAATGTTGA
847848 CTGGTTTATA
Statistics
Matches: 524, Mismatches: 59, Indels: 44
0.84 0.09 0.07
Matches are distributed among these distances:
82 12 0.02
83 1 0.00
84 46 0.09
86 12 0.02
87 101 0.19
88 25 0.05
89 140 0.27
90 74 0.14
91 107 0.20
92 4 0.01
93 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.38
Consensus pattern (88 bp):
AGTTCTTCTCATTATGAACTTCTTCCCTCGTCGGATGAGTTTTCTCATTATGAACTCTCCACTGG
AAATGTTGAGCCAAGGTTGAACA
Found at i:847669 original size:267 final size:265
Alignment explanation
Indices: 847154--847830 Score: 840
Period size: 267 Copynumber: 2.6 Consensus size: 265
847144 TCGTCGTATG
* * * **
847154 AGTTTTTCTCATTATGAACTTTTTCTCACTCGTCAGATGAGTT-TTCTCATTATGAACTCTCCTA
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCTA
* * * *
847218 TTAGAAATATTGAGTCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-TTCGGA
66 CTGGAAATATTGAG-CAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTT-T-CCTTCGTCGGA
* * * *
847282 T-GATT-TC-TTATGATCTCTTATTGGAAATGTTGAGTCAAGATTGAACAAGTTATTCTCATTAT
128 TAG-TTCTCATTATGAACTCTCACTGGAAATGTTGAGCCAAGATTGAACAAGTTATTCTCATTAT
*
847344 GAACTTCTTCCCTCGTCAGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGA-CCGA
192 GAACTTCTTCCCTCCTCAGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCC-A
847408 AGGTTGAACA
256 AGGTTGAACA
847418 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCC-A
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCTA
* *
847482 CTGGAATTATTGAGCCAAGGCCGAACAAGTTCTTCTCATTATGAACTT-TTTCCTTCGTCGGATA
66 CTGGAAATATTGAG-CAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTTCCTTCGTCGGAT-
* * * *
847546 AGTTTCTCATTATGAACTCTCCACTGGAACTGTTGAGCCAAGGTTGAATAAGTTCTTCTCATTAT
129 AG-TTCTCATTATGAACTCT-CACTGGAAATGTTGAGCCAAGATTGAACAAGTTATTCTCATTAT
**
847611 GAACTTCTTCTCCTCCTTGGATGAGTT-TTCTCATTATGAACTC-CTCACTGGAAATGTTGATCC
192 GAACTTCTTC-CCTCCTCAGATGAGTTCTTCTCATTATGAACTCTC-CACTGGAAATGTTGATCC
847674 AAGGTTGAACA
255 AAGGTTGAACA
* * *
847685 AGTTCTTCTCATTATGAACTTCTTAT-CCTCATTGGATGAGTTCTTCTCATTATGAACTC-CCTG
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCTA
** * * * * * *
847748 CTGGAAACGTTGATGCAAGGTTC-AACAAGTTCTTTTCATTTTAAACTTCTTCCCCTCGTCGAAT
66 CTGGAAATATTGA-GCAAGG-TCGAACAAGTTCTTCTCATTATGAACTTCTTTCCTTCGTCGGAT
847812 GAGTTCTCATTATGAACTC
129 -AGTTCTCATTATGAACTC
847831 CCTGCTGTAA
Statistics
Matches: 361, Mismatches: 38, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
261 4 0.01
262 7 0.02
263 2 0.01
264 84 0.23
265 23 0.06
266 96 0.27
267 130 0.36
268 15 0.04
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (265 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCTA
CTGGAAATATTGAGCAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTTCCTTCGTCGGATAG
TTCTCATTATGAACTCTCACTGGAAATGTTGAGCCAAGATTGAACAAGTTATTCTCATTATGAAC
TTCTTCCCTCCTCAGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCAAGGTT
GAACA
Found at i:857149 original size:20 final size:22
Alignment explanation
Indices: 857124--857163 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
857114 TGTTGTATAT
857124 AGCCA-TTGGGGATG-TTTTGG
1 AGCCATTTGGGGATGATTTTGG
857144 AGCCATTTGGGGATGATTTT
1 AGCCATTTGGGGATGATTTT
857164 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.17, C:0.10, G:0.35, T:0.38
Consensus pattern (22 bp):
AGCCATTTGGGGATGATTTTGG
Found at i:857287 original size:8 final size:8
Alignment explanation
Indices: 857274--857298 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
857264 TTGCAGCCTT
857274 GATGCATG
1 GATGCATG
857282 GATGCATG
1 GATGCATG
857290 GATGCATG
1 GATGCATG
857298 G
1 G
857299 CAGGATGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (8 bp):
GATGCATG
Found at i:857389 original size:22 final size:21
Alignment explanation
Indices: 857337--857391 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
857327 CGATGTTTTA
857337 GTGCATGGATGC-ATTGCATG
1 GTGCATGGATGCAATTGCATG
* *
857357 ATGCATCGATGCAATAGTGCA-G
1 GTGCATGGATGCAAT--TGCATG
857379 GTGCATGGATGCA
1 GTGCATGGATGCA
857392 CTACAGGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.36
21 2 0.07
22 12 0.43
23 4 0.14
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (21 bp):
GTGCATGGATGCAATTGCATG
Found at i:857541 original size:30 final size:29
Alignment explanation
Indices: 857496--857552 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
857486 ACTTTGAATG
*
857496 AATTCAATTAAGTCCAAAAATATTTTGTA
1 AATTCAATTAAGTCCAAAAACATTTTGTA
857525 AATTCAATTCAAGTCCAAAAACATTTTG
1 AATTCAATT-AAGTCCAAAAACATTTTG
857553 CCTTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (29 bp):
AATTCAATTAAGTCCAAAAACATTTTGTA
Found at i:860095 original size:21 final size:21
Alignment explanation
Indices: 860069--860124 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
860059 TTAGTGCAGG
860069 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
**
860090 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCACTACAGGGA
860111 TGCATGGATGCACT
1 TGCATGGATGCACT
860125 TTGACACCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (21 bp):
TGCATGGATGCACTACAGGGA
Found at i:860225 original size:29 final size:29
Alignment explanation
Indices: 860193--860255 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
860183 GAAACCTTTT
860193 AAAACTTTGAATAAATTCAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
*
860223 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
860253 AAA
1 AAA
860256 CATTTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.37
30 14 0.47
31 5 0.17
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:860251 original size:30 final size:29
Alignment explanation
Indices: 860204--860262 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
860194 AAACTTTGAA
*
860204 TAAATTCAATTAAGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
860233 TAAATTCAATTCAAGTCCAAAAACATTTTG
1 TAAATTCAATT-AAGTCCAAAAACATTTTG
860263 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:861551 original size:19 final size:20
Alignment explanation
Indices: 861508--861555 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
861498 TCTAAATTCT
*
861508 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
861528 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
861547 TTTTCAAAA
1 TTTTCAAAA
861556 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:862724 original size:20 final size:22
Alignment explanation
Indices: 862699--862738 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
862689 TGCTGTACAT
862699 AGCCG-TTGGGGATG-TTTTAG
1 AGCCGTTTGGGGATGATTTTAG
862719 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
862739 TCTAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTAG
Found at i:863093 original size:29 final size:30
Alignment explanation
Indices: 863061--863119 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
863051 AAACTTGGAA
* * *
863061 TAAATTTAATT-AAGTCCAAAAATATTTTG
1 TAAATTCAATTCAAGTACAAAAACATTTTG
863090 TAAATTCAATTCAAGTACAAAAACATTTTG
1 TAAATTCAATTCAAGTACAAAAACATTTTG
863120 CCTTAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (30 bp):
TAAATTCAATTCAAGTACAAAAACATTTTG
Found at i:869968 original size:134 final size:134
Alignment explanation
Indices: 869812--870353 Score: 616
Period size: 134 Copynumber: 4.0 Consensus size: 134
869802 TTTTTAACTT
* *
869812 CTAACTTTTATTTTATTGCACTTTAATCATTGTGATTTATTTATTTATTTATTGTTTCTATTATT
1 CTAACTTTTATTTTATTGCACTTTAATCATTGTGATTTATTTATTTATTTATTGTTTATAATATT
* * * *
869877 TGATTCGGCCTTGTGGTGACCTGATCCGGGTTATGATCCACATTATTATGGTTCGAACTCTGCTA
66 TGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCCGCATTATTATGGTTCGGACTCTGCTA
869942 ATTA
131 ATTA
* *
869946 CTAACTTTTATTTTATTGCACTTTAATCATTTTTATTTATTTATTTATTTATTGTTTATAATATT
1 CTAACTTTTATTTTATTGCACTTTAATCATTGTGATTTATTTATTTATTTATTGTTTATAATATT
* *
870011 CGATTCGGCCTTGTGGTGACCCGATTCGGGGTATGATCCGCATTATTATGGTTCGTG-CTCTGCT
66 TGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCCGCATTATTATGGTTCG-GACTCTGCT
870075 AATTA
130 AATTA
*
870080 CTAACTTTTATTTTATTGCACTTTAATCATTGTTTTTTATTTATTTATTTATTTATTTATTTATT
1 CTAACTTTTATTTTATTGCACTTTAATCATTG----------------TGATTTATTTATTTATT
* * * * *
870145 TATTGTTTCTAATATTTGATTTGGCCTTGTAGTGACCCAATTCGGGGTATGATCCGCATTATTAT
50 TATTGTTTATAATATTTGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCCGCATTATTAT
* * **
870210 GGTTTGGACTCTACTAGCTA
115 GGTTCGGACTCTGCTAATTA
* * * *
870230 CTGATTTTTATTTTATTGCA-TTCTAACCA-T-TG-TTTGTTTATTTA-TTA---TTTATAATAT
1 CTAACTTTTATTTTATTGCACTT-TAATCATTGTGATTTATTTATTTATTTATTGTTTATAATAT
* * *
870287 TTGATTCGACCTTGTGGTGACCCGATCTGGGGTATGATCCGCATTATTATGGTTCGGACTTTGCT
65 TTGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCCGCATTATTATGGTTCGGACTCTGCT
870352 AA
130 AA
870354 CCGCTAACTT
Statistics
Matches: 353, Mismatches: 36, Indels: 45
0.81 0.08 0.10
Matches are distributed among these distances:
127 66 0.19
130 3 0.01
131 11 0.03
132 1 0.00
134 154 0.44
149 4 0.01
150 114 0.32
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.49
Consensus pattern (134 bp):
CTAACTTTTATTTTATTGCACTTTAATCATTGTGATTTATTTATTTATTTATTGTTTATAATATT
TGATTCGGCCTTGTGGTGACCCGATCCGGGGTATGATCCGCATTATTATGGTTCGGACTCTGCTA
ATTA
Found at i:870124 original size:4 final size:4
Alignment explanation
Indices: 870115--870148 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
870105 ATCATTGTTT
870115 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
870149 GTTTCTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:870150 original size:150 final size:150
Alignment explanation
Indices: 869977--870281 Score: 454
Period size: 150 Copynumber: 2.0 Consensus size: 150
869967 TTTAATCATT
* *
869977 TTTATTTATTTATTTATTTATTGTTTATAATATTCGATTCGGCCTTGTGGTGACCCGATTCGGGG
1 TTTATTTATTTATTTATTTATTGTTTATAATATTCGATTCGGCCTTGTAGTGACCCAATTCGGGG
* *
870042 TATGATCCGCATTATTATGGTTCGTG-CTCTGCTAATTACTAACTTTTATTTTATTGCACTT-TA
66 TATGATCCGCATTATTATGGTTCG-GACTCTACTAACTACTAACTTTTATTTTATTGCA-TTCTA
*
870105 ATCATTGTTT-TTTATTTATTTA
129 ACCATTGTTTGTTTATTTA-TTA
* * *
870127 TTTATTTATTTATTTATTTATTGTTTCTAATATTTGATTTGGCCTTGTAGTGACCCAATTCGGGG
1 TTTATTTATTTATTTATTTATTGTTTATAATATTCGATTCGGCCTTGTAGTGACCCAATTCGGGG
* * * *
870192 TATGATCCGCATTATTATGGTTTGGACTCTACTAGCTACTGATTTTTATTTTATTGCATTCTAAC
66 TATGATCCGCATTATTATGGTTCGGACTCTACTAACTACTAACTTTTATTTTATTGCATTCTAAC
870257 CATTGTTTGTTTATTTATTA
131 CATTGTTTGTTTATTTATTA
870277 TTTAT
1 TTTAT
870282 AATATTTGAT
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
149 3 0.02
150 129 0.92
151 8 0.06
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.52
Consensus pattern (150 bp):
TTTATTTATTTATTTATTTATTGTTTATAATATTCGATTCGGCCTTGTAGTGACCCAATTCGGGG
TATGATCCGCATTATTATGGTTCGGACTCTACTAACTACTAACTTTTATTTTATTGCATTCTAAC
CATTGTTTGTTTATTTATTA
Found at i:870369 original size:16 final size:16
Alignment explanation
Indices: 870344--870392 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
870334 TATGGTTCGG
* *
870344 ACTTTGCTAACCGCTA
1 ACTTTTCTAACCACTA
*
870360 ACTTTTCTAACAACTA
1 ACTTTTCTAACCACTA
*
870376 ACCTTTCTAACCACTA
1 ACTTTTCTAACCACTA
870392 A
1 A
870393 TTACTAATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.33
Consensus pattern (16 bp):
ACTTTTCTAACCACTA
Found at i:870599 original size:15 final size:16
Alignment explanation
Indices: 870560--870593 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
870550 ATTTCCGCTA
*
870560 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
870576 TTTAAATTTATGC-CT
1 TTTAAATTTATGCACT
870591 TTT
1 TTT
870594 TTATTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:872394 original size:20 final size:22
Alignment explanation
Indices: 872346--872400 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
872336 TCAATGAGTA
872346 GGTATCGATACCATAGTATAGT
1 GGTATCGATACCATAGTATAGT
*
872368 AGTATCGATACCAT-GT-TAAG-
1 GGTATCGATACCATAGTAT-AGT
872388 GGTATCGATACCA
1 GGTATCGATACCA
872401 GACAACAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.43
21 4 0.13
22 13 0.43
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (22 bp):
GGTATCGATACCATAGTATAGT
Found at i:872693 original size:331 final size:331
Alignment explanation
Indices: 872091--872755 Score: 1141
Period size: 331 Copynumber: 2.0 Consensus size: 331
872081 AATATAAGAA
872091 GGTTTGAGCAAGTATATTTGAGTTTGATGAAGTAAAAGAAGTAATAGAGTGGAAATTTAATAAGT
1 GGTTTGAGCAAGTATATTTGAGTTTGATGAAGTAAAAGAAGTAATAGAGTGGAAATTTAATAAGT
* * *
872156 TATGGAAAATTTTCGAGTGAAACAAGTAAATTCTAGGCAAGAGTTATCGGTATTGTTCATTCAAT
66 TATGGAAAATTTTCAAGTGAAACAAGTAAATTATAGGCAAGAGGTATCGGTATTGTTCATTCAAT
* * * *
872221 ATCGATATTTCAAAGAGAAAAGAAGTAGTAATTGGGGTATGGCTATCGATACTGGTTGAATGAGT
131 ACCGATACTTCAAAGAGAAAAGAAGTAATAATTGGGGTATGGCTATCGATACTGGTTGAATAAGT
872286 ATCAATACCCTAAGGCAAAAATTCATATAATTGTTCATAGAGTATCGATATCAATGAGTAGGTAT
196 ATCAATACCCTAAGGCAAAAATTCATATAATTGTTCATAGAGTATCGATATCAATGAGTAGGTAT
*
872351 CGATACCATAGTATAGTAGTATCGATACCATGTTAAGGGTATCGATACCAGACAACAACAAATCT
261 CGATACCATAGTATAGTAGTATCGATACCATGTTAAGGGTATCGATACCAAACAACAACAAATCT
872416 AATATT
326 AATATT
* *
872422 GGTTTGAGTAAGTATATTTGAGTTTGATGAAGTAAAAGAAGTAATAGAGTGGAAATTTAGTAAGT
1 GGTTTGAGCAAGTATATTTGAGTTTGATGAAGTAAAAGAAGTAATAGAGTGGAAATTTAATAAGT
* * * *
872487 TATGGAAAATTTTCAAGTGAAACAAGTAAATTATGGGTAAGGGGTATCGGTATTGTTCATTCAGT
66 TATGGAAAATTTTCAAGTGAAACAAGTAAATTATAGGCAAGAGGTATCGGTATTGTTCATTCAAT
* * *
872552 ACCGATACTTGAAAGAGAAAAGAAGTAATAATTGGGGTATGGGTATCTATACTGGTTGAATAAGT
131 ACCGATACTTCAAAGAGAAAAGAAGTAATAATTGGGGTATGGCTATCGATACTGGTTGAATAAGT
*
872617 ATCGATACCCTAAGGCAAAAATTCATATAATTGTTCATAGAGTATCGATATCAATGAGTAGGTAT
196 ATCAATACCCTAAGGCAAAAATTCATATAATTGTTCATAGAGTATCGATATCAATGAGTAGGTAT
* * *
872682 CGGTACCATAGTATAGTAGTATCGATACCATGTTAAGGGTATCGATACCAAACAACATCGAATCT
261 CGATACCATAGTATAGTAGTATCGATACCATGTTAAGGGTATCGATACCAAACAACAACAAATCT
872747 AATATT
326 AATATT
872753 GGT
1 GGT
872756 ATCGATACAG
Statistics
Matches: 313, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
331 313 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (331 bp):
GGTTTGAGCAAGTATATTTGAGTTTGATGAAGTAAAAGAAGTAATAGAGTGGAAATTTAATAAGT
TATGGAAAATTTTCAAGTGAAACAAGTAAATTATAGGCAAGAGGTATCGGTATTGTTCATTCAAT
ACCGATACTTCAAAGAGAAAAGAAGTAATAATTGGGGTATGGCTATCGATACTGGTTGAATAAGT
ATCAATACCCTAAGGCAAAAATTCATATAATTGTTCATAGAGTATCGATATCAATGAGTAGGTAT
CGATACCATAGTATAGTAGTATCGATACCATGTTAAGGGTATCGATACCAAACAACAACAAATCT
AATATT
Found at i:873704 original size:6 final size:6
Alignment explanation
Indices: 873693--873723 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
873683 TTAAAGGGAT
*
873693 TAATGA TAATGA TAATGA TAATGA CAATGA T
1 TAATGA TAATGA TAATGA TAATGA TAATGA T
873724 GGGATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.32
Consensus pattern (6 bp):
TAATGA
Found at i:878424 original size:6 final size:6
Alignment explanation
Indices: 878413--878443 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
878403 TTAAATGGAT
*
878413 TAATGA TAATGA TAATGA TAATGA CAATGA T
1 TAATGA TAATGA TAATGA TAATGA TAATGA T
878444 GAGATTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.32
Consensus pattern (6 bp):
TAATGA
Found at i:880548 original size:30 final size:30
Alignment explanation
Indices: 880492--880551 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
880482 TCGTAGATGG
**
880492 GTTAAATTGGTTTTTTTGATCGAGTTCAAGA
1 GTTAAATTGGTTTTTTT-ATAAAGTTCAAGA
880523 GTTAAATTGAGTTTTTTT-TAAAGTTCAAG
1 GTTAAATTG-GTTTTTTTATAAAGTTCAAG
880552 GACTTATTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 9 0.35
32 8 0.31
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (30 bp):
GTTAAATTGGTTTTTTTATAAAGTTCAAGA
Found at i:880752 original size:15 final size:16
Alignment explanation
Indices: 880725--880757 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
880715 CTTATAAAAA
880725 ATAAAATTTAAAAGTT
1 ATAAAATTTAAAAGTT
*
880741 ATAAAA-TTAAAATTT
1 ATAAAATTTAAAAGTT
880756 AT
1 AT
880758 GTATAAATTA
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:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATAAAATTTAAAAGTT
Found at i:881194 original size:15 final size:14
Alignment explanation
Indices: 881174--881223 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
881164 TATATTTAAT
881174 ATTTTTAGTAATTTA
1 ATTTTTAGT-ATTTA
*
881189 ATTTTTA-TTTTTA
1 ATTTTTAGTATTTA
881202 GCATTTTT-GTATTTA
1 --ATTTTTAGTATTTA
881217 ATTTTTA
1 ATTTTTA
881224 TTAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 10 0.34
14 1 0.03
15 18 0.62
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (14 bp):
ATTTTTAGTATTTA
Found at i:881197 original size:28 final size:26
Alignment explanation
Indices: 881166--881230 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
881156 TTAATATATA
881166 TATTTAATATTTTTAGTAATTTAATTTT
1 TATTTAATATTTTT-GT-ATTTAATTTT
**
881194 TATTTTTAGCATTTTTGTATTTAATTTT
1 TA--TTTAATATTTTTGTATTTAATTTT
881222 TA-TTAATAT
1 TATTTAATAT
881231 ATACTTTGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
25 5 0.16
28 14 0.45
29 2 0.06
30 10 0.32
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (26 bp):
TATTTAATATTTTTGTATTTAATTTT
Found at i:882020 original size:27 final size:27
Alignment explanation
Indices: 881987--882184 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 27
881977 CATACACCGC
*
881987 CGGCGCTCCGACTCCGCCTCATCCGTA
1 CGGCGCTCCGACTCCGCCTCAGCCGTA
* *
882014 CGACGCTTCGACTCCGCCTCAGCCGTA
1 CGGCGCTCCGACTCCGCCTCAGCCGTA
*
882041 CGGCTCTCCGACTCCGCCTCAGCCGTA
1 CGGCGCTCCGACTCCGCCTCAGCCGTA
* *
882068 CGGCTCTCCGACTCCACCTCAGCCGTA
1 CGGCGCTCCGACTCCGCCTCAGCCGTA
*
882095 CGGCTCTCCGACTCCGCCTCAGCCGTA
1 CGGCGCTCCGACTCCGCCTCAGCCGTA
** * *
882122 CGGCGCTCATACTACGCCTCAGCAGTA
1 CGGCGCTCCGACTCCGCCTCAGCCGTA
** *
882149 CGGCGCTCATACTACGCCTCAGCCGTA
1 CGGCGCTCCGACTCCGCCTCAGCCGTA
882176 CGGCGCTCC
1 CGGCGCTCC
882185 ATACGGCGCT
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.14, C:0.45, G:0.22, T:0.18
Consensus pattern (27 bp):
CGGCGCTCCGACTCCGCCTCAGCCGTA
Found at i:883057 original size:58 final size:58
Alignment explanation
Indices: 882944--883130 Score: 191
Period size: 58 Copynumber: 3.2 Consensus size: 58
882934 GGATCGTATG
* * * *
882944 TCCCCAAATTATAATCCTCATTTTAAATTAGT-TTTAAACTTTTGAATATTCTAATTTCA
1 TCCCTAAATTATGACCCT-ATTTTAAATTAGTCCTTAAACTTTTGAATATT-TAATTTCA
* * * *
883003 TCCCTAAATTATGA-CTTATTTTAAATTAGTCCTTAAAATTTTTAATATTATAATTTTA
1 TCCCTAAATTATGACCCTATTTTAAATTAGTCCTTAAACTTTTGAATATT-TAATTTCA
* * * *
883061 TCTCTAAACTATGACCCTCTTTCTAAATTAGTCCTCAAACTTTTGAATATTTCAATTTCA
1 TCCCTAAATTATGACCCTATTT-TAAATTAGTCCTTAAACTTTTGAATATTT-AATTTCA
883121 TTCCC-AAATT
1 -TCCCTAAATT
883131 CATCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
57 13 0.12
58 36 0.34
59 18 0.17
60 35 0.33
61 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (58 bp):
TCCCTAAATTATGACCCTATTTTAAATTAGTCCTTAAACTTTTGAATATTTAATTTCA
Found at i:883383 original size:60 final size:60
Alignment explanation
Indices: 883252--883423 Score: 185
Period size: 60 Copynumber: 2.9 Consensus size: 60
883242 TATACGTATG
* * * ** *
883252 GTTTA-GGATGAAATTGGAATGCTCAAAAAGTTTGAAGACCAATTTAGAATGAAGGTCATA
1 GTTTAGGGATGAAATTGAAATGTTC-AAAAGTTTGAGGATTAATTTAAAATGAAGGTCATA
* *
883312 GTTT-GGGATGAAATTGAAATGTTCAAGAGTTTGAGGATTAATTTATAATGATA-GTCATA
1 GTTTAGGGATGAAATTGAAATGTTCAAAAGTTTGAGGATTAATTTAAAATGA-AGGTCATA
883371 GTTTAGGGATGAAATTAGAACAT-TT-AAAAGTTT-AGGGATTAATTTAAAATGAA
1 GTTTAGGGATGAAATT-GAA-ATGTTCAAAAGTTTGA-GGATTAATTTAAAATGAA
883424 ATACATAATT
Statistics
Matches: 97, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
59 34 0.35
60 56 0.58
61 5 0.05
62 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (60 bp):
GTTTAGGGATGAAATTGAAATGTTCAAAAGTTTGAGGATTAATTTAAAATGAAGGTCATA
Found at i:885915 original size:3 final size:3
Alignment explanation
Indices: 885907--885939 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
885897 GAATAAATTC
885907 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
885940 TAATAATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:886583 original size:32 final size:32
Alignment explanation
Indices: 886547--886637 Score: 121
Period size: 32 Copynumber: 2.8 Consensus size: 32
886537 TTGAGACTGT
*
886547 TCAATCTGATATTGGTCCGACCCGAAAATTGA
1 TCAATCTGATATTGGACCGACCCGAAAATTGA
* * * *
886579 TCAATCCGATATTGAACCAACCCAAAAATTGA
1 TCAATCTGATATTGGACCGACCCGAAAATTGA
886611 TCAATCTGATATT-GACCTGACCCGAAA
1 TCAATCTGATATTGGACC-GACCCGAAA
886638 TCAACCGATC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 3 0.06
32 46 0.94
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (32 bp):
TCAATCTGATATTGGACCGACCCGAAAATTGA
Found at i:890256 original size:20 final size:21
Alignment explanation
Indices: 890206--890268 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 21
890196 GATTCCCCTG
890206 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
*
890230 AGGGGGGATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
890250 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
890269 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 7 0.19
24 6 0.17
ACGTcount: A:0.14, C:0.25, G:0.37, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:897182 original size:60 final size:59
Alignment explanation
Indices: 897104--897243 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 59
897094 TAAAATATTC
* *
897104 CAATTTAATCCTTAAACTATTA-TTACCATTCTAAATTAGTCCTCC-AAC-TTCTGAACATTA
1 CAATTTCATCC-TAAACTATGACTT--CATTCTAAATTAGTCC-CCAAACTTTCTGAACATTA
* * *
897164 CAATTTCATTCCTAAACTATGACCTTCATTCTAAATTGGTCCCCAAACTTTTTGAACATTT
1 CAATTTCA-TCCTAAACTATGA-CTTCATTCTAAATTAGTCCCCAAACTTTCTGAACATTA
897225 CAATTTCATCCTAAACTAT
1 CAATTTCATCCTAAACTAT
897244 ATGTATATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
59 2 0.03
60 45 0.64
61 21 0.30
62 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (59 bp):
CAATTTCATCCTAAACTATGACTTCATTCTAAATTAGTCCCCAAACTTTCTGAACATTA
Found at i:899954 original size:21 final size:21
Alignment explanation
Indices: 899928--899977 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
899918 ATCCCGATTG
*
899928 TCAGACTGGTGAGTCTTTTTC
1 TCAGACTGATGAGTCTTTTTC
899949 TCAGACTGATGAGTCTTTTTC
1 TCAGACTGATGAGTCTTTTTC
*
899970 TCCGACTG
1 TCAGACTG
899978 CTTTTCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (21 bp):
TCAGACTGATGAGTCTTTTTC
Found at i:920680 original size:36 final size:36
Alignment explanation
Indices: 920625--920763 Score: 233
Period size: 36 Copynumber: 3.9 Consensus size: 36
920615 AGTTGAGTAT
*
920625 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
920661 TATCAGCTTTGGTATATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
920697 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* * *
920733 GATCAGCTTTGGTACATTCGTATATTAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
920764 CCAGCACCGT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 97 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:928746 original size:36 final size:36
Alignment explanation
Indices: 928706--928809 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
928696 AGTTGAGTAT
* *
928706 TATCAGCTTTGATACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
928742 TATCATCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
928778 TATCAGCTTTGGTACATTCGTGTATCAATGTT
1 TATCAGCTTTGGTACATTCGTGTATCAATGTT
928810 CAGCACCGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:933214 original size:2 final size:2
Alignment explanation
Indices: 933207--933233 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
933197 TAGTCATTTA
933207 AT 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 AT A
933234 AGTAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:933875 original size:60 final size:59
Alignment explanation
Indices: 933750--933891 Score: 162
Period size: 60 Copynumber: 2.4 Consensus size: 59
933740 AACATACTAA
* * *
933750 ATAGTCG-AGTGATCATTTTGTAACTTTTAATAGTCGGTGACTCAACAAAGCAACATCCT
1 ATAGTCGAAG-GATTATTTTGTAACTTTTAATAGTCGGAGACTCAACAAAGCAACACCCT
* **
933809 ATAGTCGAAGGATTATTTTGTAACTTTTAATAGTTGAGAGACTCAACAAAAG-ATTACCCT
1 ATAGTCGAAGGATTATTTTGTAACTTTTAATAGTCG-GAGACTCAAC-AAAGCAACACCCT
* *
933869 ATAGTCGAGGGACTATTTGTGTA
1 ATAGTCGAAGGATTATTT-TGTA
933892 CTCTACCTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
59 31 0.44
60 32 0.45
61 8 0.11
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (59 bp):
ATAGTCGAAGGATTATTTTGTAACTTTTAATAGTCGGAGACTCAACAAAGCAACACCCT
Found at i:935685 original size:18 final size:17
Alignment explanation
Indices: 935659--935692 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
935649 TTGAATTGCA
*
935659 TTTATTTTCCATTTTTAC
1 TTTAATTTCC-TTTTTAC
935677 TTTAATTTCCTTTTTA
1 TTTAATTTCCTTTTTA
935693 TTGTTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTAATTTCCTTTTTAC
Found at i:939635 original size:1 final size:1
Alignment explanation
Indices: 939624--939681 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
939614 AAAGAGAGAG
* * * * * * *
939624 AAAAGAAAAAAAGAAAAAAAAAGAAAGAAAAAAAAAAGAAAAAAAGAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
939682 CAAATACTTC
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:939635 original size:8 final size:8
Alignment explanation
Indices: 939624--939681 Score: 82
Period size: 8 Copynumber: 7.1 Consensus size: 8
939614 AAAGAGAGAG
939624 AAAAGAAA
1 AAAAGAAA
939632 AAAAGAAA
1 AAAAGAAA
939640 AAAA-AAGA
1 AAAAGAA-A
*
939648 AAGAAAAAA
1 AA-AAGAAA
939657 AAAAGAAA
1 AAAAGAAA
939665 AAAAGAAA
1 AAAAGAAA
939673 AAAAGAAA
1 AAAAGAAA
939681 A
1 A
939682 CAAATACTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
7 2 0.04
8 37 0.80
9 5 0.11
10 2 0.04
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:939635 original size:27 final size:26
Alignment explanation
Indices: 939587--939668 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
939577 AAGATATAGC
* *
939587 AAAAAG-AAGAAAAAACATAAAAGAGAG
1 AAAAAGAAAGAAAAAA-A-AAAAGAAAA
* *
939614 AAAGAGAGAGAAAAGAAAAAAAGAAAA
1 AAAAAGAAAGAAAA-AAAAAAAGAAAA
939641 AAAAAGAAAG-AAAAAAAAAAGAAAA
1 AAAAAGAAAGAAAAAAAAAAAGAAAA
939666 AAA
1 AAA
939669 GAAAAAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 15 0.32
26 3 0.06
27 20 0.43
28 7 0.15
29 2 0.04
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (26 bp):
AAAAAGAAAGAAAAAAAAAAAGAAAA
Found at i:940453 original size:28 final size:28
Alignment explanation
Indices: 940409--940490 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
940399 CACAAGAAGC
* *
940409 CAACCTGAAAAATATTACCTTCCCAAAT
1 CAACCTGAAACACATTACCTTCCCAAAT
940437 CAACCTGAAACACATTACC-TCCTCAAAT
1 CAACCTGAAACACATTACCTTCC-CAAAT
* * *
940465 TAATCTGAAACAC-TCTACTTTCCCAA
1 CAACCTGAAACACAT-TACCTTCCCAA
940491 GGTAGCCTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 4 0.09
28 39 0.85
29 3 0.07
ACGTcount: A:0.39, C:0.32, G:0.04, T:0.26
Consensus pattern (28 bp):
CAACCTGAAACACATTACCTTCCCAAAT
Found at i:941720 original size:55 final size:55
Alignment explanation
Indices: 941659--942130 Score: 432
Period size: 55 Copynumber: 8.8 Consensus size: 55
941649 GTGTTTTTTT
* *
941659 AGAAACTAAGTTTGATTTTCAGAAGTTTCTTGATGATTTTTAAGTGAGCTTTCAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
* * * *
941714 AGAAACTAAGTCTGATTTTCAGAAGTTTCCTGATTA-TTTTAAATGAGTTTTTAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
* * * *
941768 AGAAACTAAGTCTGATTTTCGGAAGTTTCTTGATCATTTTTAAATGATCTTTTAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
* * * * * *
941823 AGAAACTAAGTTTGATTTTCAGAGGTTTCCTGATG-GTTTTAAATGAGTTTTTAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
* * * *
941877 AGAAACTAAGTCCGATTTT-TGAAAGTTTATTGATTATTTTTAAATGAGCTTTCAA
1 AGAAACTAAGTCTGATTTTCAG-AAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
* * * * * *
941932 AGAAACGAAGTTTGTTTTTTAGAAGTTTCCTGATGATTTTAAAATGAGCTTTCAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
* * * * * *
941987 AGAAATTAAGTCTGATTTTTAGAGGTTTC-T--TGA--CTT-AATGA-ATTTGAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
* * ** * * *
942035 AGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATG-TTTTCAAATGA-ATTTGAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
* * * * * *
942088 AGAAGCTAAGCCTAATTTTTAG-GGTTTCTTGATG-TTTTCAAAT
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAAT
942131 TAATTTGAAA
Statistics
Matches: 351, Mismatches: 56, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
48 29 0.08
49 6 0.02
50 1 0.00
51 2 0.01
52 25 0.07
53 33 0.09
54 91 0.26
55 163 0.46
56 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (55 bp):
AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTCAA
Found at i:941842 original size:109 final size:109
Alignment explanation
Indices: 941659--942019 Score: 499
Period size: 109 Copynumber: 3.3 Consensus size: 109
941649 GTGTTTTTTT
* * *
941659 AGAAACTAAGTTTGATTTTCAGAAGTTTCTTGATGATTTTTAAGTGAGCTTTCAAAGAAACTAAG
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATCATTTTTAAATGAGCTTTCAAAGAAACTAAG
* *
941724 TCTGATTTTCAGAAGTTTCCTGATTATTTTAAATGAGTTTTTAA
66 TTTGATTTTCAGAAGTTTCCTGATGATTTTAAATGAGTTTTTAA
* * *
941768 AGAAACTAAGTCTGATTTTCGGAAGTTTCTTGATCATTTTTAAATGATCTTTTAAAGAAACTAAG
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATCATTTTTAAATGAGCTTTCAAAGAAACTAAG
* *
941833 TTTGATTTTCAGAGGTTTCCTGATGGTTTTAAATGAGTTTTTAA
66 TTTGATTTTCAGAAGTTTCCTGATGATTTTAAATGAGTTTTTAA
* * * * *
941877 AGAAACTAAGTCCGATTTT-TGAAAGTTTATTGATTATTTTTAAATGAGCTTTCAAAGAAACGAA
1 AGAAACTAAGTCTGATTTTCAG-AAGTTTCTTGATCATTTTTAAATGAGCTTTCAAAGAAACTAA
* * * *
941941 GTTTGTTTTTTAGAAGTTTCCTGATGATTTTAAAATGAGCTTTCAA
65 GTTTGATTTTCAGAAGTTTCCTGATGATTTT-AAATGAGTTTTTAA
* * *
941987 AGAAATTAAGTCTGATTTTTAGAGGTTTCTTGA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGA
942020 CTTAATGAAT
Statistics
Matches: 221, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
108 1 0.00
109 181 0.82
110 38 0.17
111 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (109 bp):
AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATCATTTTTAAATGAGCTTTCAAAGAAACTAAG
TTTGATTTTCAGAAGTTTCCTGATGATTTTAAATGAGTTTTTAA
Found at i:941936 original size:164 final size:164
Alignment explanation
Indices: 941659--942015 Score: 457
Period size: 164 Copynumber: 2.2 Consensus size: 164
941649 GTGTTTTTTT
* * * *
941659 AGAAACTAAGTTTGATTTTCAGAAGTTTCTTGATGATTTTTAAGTGAGCTTTCAAAGAAACTAAG
1 AGAAACTAAGTTTGATTTTCAGAGGTTTCCTGATGAGTTTTAAATGAGCTTTCAAAGAAACTAAG
* * * * * *
941724 TCTGATTTTCAGAAGTTTCCTGATTATTTTAAATGAGTTTTTAAAGAAACTAAGTCTGATTTTCG
66 TCCGATTTTCAGAAGTTTACTGATTATTTTAAATGAGCTTTCAAAGAAACGAAGTCTGATTTTCA
* * * *
941789 GAAGTTTCTTGATCATTTTTAAATGATCTTTTAA
131 GAAGTTTCCTGATCATTTTAAAATGAGCTTTCAA
* *
941823 AGAAACTAAGTTTGATTTTCAGAGGTTTCCTGATG-GTTTTAAATGAGTTTTTAAAGAAACTAAG
1 AGAAACTAAGTTTGATTTTCAGAGGTTTCCTGATGAGTTTTAAATGAGCTTTCAAAGAAACTAAG
* * * *
941887 TCCGATTTT-TGAAAGTTTATTGATTATTTTTAAATGAGCTTTCAAAGAAACGAAGTTTGTTTTT
66 TCCGATTTTCAG-AAGTTTACTGATTA-TTTTAAATGAGCTTTCAAAGAAACGAAGTCTGATTTT
* *
941951 TAGAAGTTTCCTGATGATTTTAAAATGAGCTTTCAA
129 CAGAAGTTTCCTGATCATTTTAAAATGAGCTTTCAA
* * *
941987 AGAAATTAAGTCTGATTTTTAGAGGTTTC
1 AGAAACTAAGTTTGATTTTCAGAGGTTTC
942016 TTGACTTAAT
Statistics
Matches: 166, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
162 1 0.01
163 45 0.27
164 120 0.72
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (164 bp):
AGAAACTAAGTTTGATTTTCAGAGGTTTCCTGATGAGTTTTAAATGAGCTTTCAAAGAAACTAAG
TCCGATTTTCAGAAGTTTACTGATTATTTTAAATGAGCTTTCAAAGAAACGAAGTCTGATTTTCA
GAAGTTTCCTGATCATTTTAAAATGAGCTTTCAA
Found at i:942093 original size:53 final size:53
Alignment explanation
Indices: 941659--942390 Score: 423
Period size: 55 Copynumber: 13.7 Consensus size: 53
941649 GTGTTTTTTT
** ** * * * *
941659 AGAAACTAAGTTTGATTTTCAGAAGTTTCTTGATGATTTTTAAGTGAGCTTTCAA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATG-TTTTCAAATGA-ATTTGAA
* ** * * * *
941714 AGAAACTAAGTCTGATTTTCAGAAGTTTCCTGAT-TATTTTAAATGAGTTTTTAA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGT-TTTCAAATGA-ATTTGAA
* * * * * *
941768 AGAAACTAAGTCTGATTTTC-GGAAGTTTCTTGATCATTTTTAAATGATCTTTTAA
1 AGAAACTAAGCCTGATTTTCAGG-GGTTTCTTGAT-GTTTTCAAATGA-ATTTGAA
** * * * *
941823 AGAAACTAAGTTTGATTTTCAGAGGTTTCCTGATGGTTTT-AAATGAGTTTTTAA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGAT-GTTTTCAAATGA-ATTTGAA
* ** * * * * *
941877 AGAAACTAAGTCC-GATTTT-TGAAAGTTTATTGATTATTTTTAAATGAGCTTTCAA
1 AGAAACTAAG-CCTGATTTTCAG-GGGTTTCTTGA-TGTTTTCAAATGA-ATTTGAA
* ** * * ** * * * *
941932 AGAAACGAAGTTTGTTTTTTAGAAGTTTCCTGATGATTTTAAAATGAGCTTTCAA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATG-TTTTCAAATGA-ATTTGAA
* * * * *
941987 AGAAATTAAGTCTGATTTTTAGAGGTTTCTTGA---CTT--AATGAATTTGAA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
*
942035 AGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
* * * *
942088 AGAAGCTAAGCCTAATTTTTA-GGGTTTCTTGATGTTTTCAAATTAATTTGAA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
* * * *
942140 AGAAGCTAAGCCTAATAGTT-AAGGGTTTCTTGATGTTTTCAAATGAATTTGAA
1 AGAAACTAAGCCTGAT-TTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
* * *
942193 AGAAGCTAAGCCTAATAGTT-AGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
1 AGAAACTAAGCCTGAT-TTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
** *** * * * *
942246 AGAAGTTAAATTTGATTTTCAAGGGTTTCTTGATATTTTCAAATGAAATTTTAT
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATG-AATTTGAA
* * * * * * *
942300 AGAAGCTAAGCCTAATTTTTAGGGGTTTTCTATGATAATTGT-AAACGAAAGTTT-TA
1 AGAAACTAAGCCTGATTTTCAGGGG-TTTCT-TGAT-GTTTTCAAATG-AA-TTTGAA
* *
942356 AGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATG
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATG
942391 AGTAAGTTCT
Statistics
Matches: 569, Mismatches: 83, Indels: 52
0.81 0.12 0.07
Matches are distributed among these distances:
48 33 0.06
49 5 0.01
51 4 0.01
52 49 0.09
53 152 0.27
54 114 0.20
55 171 0.30
56 34 0.06
57 7 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (53 bp):
AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
Found at i:942145 original size:105 final size:105
Alignment explanation
Indices: 942023--942390 Score: 463
Period size: 105 Copynumber: 3.4 Consensus size: 105
942013 TTCTTGACTT
*
942023 AATGAATTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
1 AATGAATTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATGTTTTCAAATGAATTTGAA
942088 AGAAGCTAAGCCTAATTTTTAGGGTTTCTTGATGTTTTCA
66 AGAAGCTAAGCCTAATTTTTAGGGTTTCTTGATGTTTTCA
* * *
942128 AATTAATTTGAAAGAAGCTAAGCCTAATAGTT-AAGGGTTTCTTGATGTTTTCAAATGAATTTGA
1 AATGAATTTGAAAGAAGCTAAGCCTGAT-TTTCAAGGGTTTCTTGATGTTTTCAAATGAATTTGA
**
942192 AAGAAGCTAAGCCTAATAGTTAGGGGTTTCTTGATGTTTTCA
65 AAGAAGCTAAGCCTAATTTTTA-GGGTTTCTTGATGTTTTCA
* *** * *
942234 AATGAATTTGAAAGAAGTTAAATTTGATTTTCAAGGGTTTCTTGATATTTTCAAATGAAATTTTA
1 AATGAATTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATGTTTTCAAATG-AATTTGA
* * *
942299 TAGAAGCTAAGCCTAATTTTTAGGGGTTTTCTATGATAATTGT-A
65 AAGAAGCTAAGCCTAATTTTTA-GGG-TTTCT-TGAT-GTTTTCA
* * * *
942343 AACGAAAGTTT-TAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATG
1 AATG-AA-TTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATG
942391 AGTAAGTTCT
Statistics
Matches: 227, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
105 79 0.35
106 67 0.30
107 29 0.13
108 5 0.02
109 8 0.04
110 36 0.16
111 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (105 bp):
AATGAATTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATGTTTTCAAATGAATTTGAA
AGAAGCTAAGCCTAATTTTTAGGGTTTCTTGATGTTTTCA
Found at i:942185 original size:158 final size:162
Alignment explanation
Indices: 942023--942390 Score: 453
Period size: 158 Copynumber: 2.3 Consensus size: 162
942013 TTCTTGACTT
942023 AATGAATTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
1 AATGAATTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
* * * *
942088 AGAAGCTAAGCCTAATTTT-TAGGGTTTCTTGATGTTTTCAAAT-TAATTTGAAAGAAGCTAAGC
66 AGAAGCTAAACCTAATTTTCAAGGGTTTCTTGATATTTTCAAATGAAATTTGAAAGAAGCTAAGC
* *
942151 CTAATAGTTAAGGG-TTTCT-TGAT-GTTTTCA
131 CTAATAGTTAAGGGTTTTCTATGATAATTGT-A
* *
942181 AATGAATTTGAAAGAAGCTAAGCCTAATAGTT-AGGGGTTTCTTGATGTTTTCAAATGAATTTGA
1 AATGAATTTGAAAGAAGCTAAGCCTGAT-TTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGA
* ** * * *
942245 AAGAAGTTAAATTTGATTTTCAAGGGTTTCTTGATATTTTCAAATGAAATTTTATAGAAGCTAAG
65 AAGAAGCTAAACCTAATTTTCAAGGGTTTCTTGATATTTTCAAATGAAATTTGAAAGAAGCTAAG
** *
942310 CCTAATTTTTAGGGGTTTTCTATGATAATTGTA
130 CCTAATAGTTAAGGGTTTTCTATGATAATTGTA
* * * * *
942343 AACGAAAGTTT-TAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATG
1 AATG-AA-TTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATG
942391 AGTAAGTTCT
Statistics
Matches: 177, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
158 74 0.42
159 24 0.14
160 28 0.16
161 5 0.03
162 10 0.06
163 33 0.19
164 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (162 bp):
AATGAATTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGTTTTCAAATGAATTTGAA
AGAAGCTAAACCTAATTTTCAAGGGTTTCTTGATATTTTCAAATGAAATTTGAAAGAAGCTAAGC
CTAATAGTTAAGGGTTTTCTATGATAATTGTA
Found at i:942374 original size:56 final size:55
Alignment explanation
Indices: 942257--942389 Score: 148
Period size: 56 Copynumber: 2.4 Consensus size: 55
942247 GAAGTTAAAT
* * *
942257 TTGATTTTCAAGGG-TTTCTTGATATTTTCAAATGAAATTTTATAGAAGCTAAGC
1 TTGATTTTCAAGGGTTTTCTTGATATTGTCAAACGAAATTTTATAGAAACTAAGC
* * * *
942311 CTAATTTTTAGGGGTTTTCTATGATAATTGT-AAACGAAAGTTTTA-AGAAACTAAGC
1 TTGATTTTCAAGGGTTTTCT-TGAT-ATTGTCAAACGAAA-TTTTATAGAAACTAAGC
942367 TTGATTTTCAAGGG-TTTCTTGAT
1 TTGATTTTCAAGGGTTTTCTTGAT
942390 GAGTAAGTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
54 14 0.22
55 10 0.16
56 31 0.48
57 9 0.14
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (55 bp):
TTGATTTTCAAGGGTTTTCTTGATATTGTCAAACGAAATTTTATAGAAACTAAGC
Found at i:942467 original size:20 final size:22
Alignment explanation
Indices: 942413--942467 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
942403 GAGCCATCAA
942413 TAAGTCTTTCGAGTGCGATGCT
1 TAAGTCTTTCGAGTGCGATGCT
* *
942435 TAAATCCTTCGAGT-C-AT-CT
1 TAAGTCTTTCGAGTGCGATGCT
942454 GTAAGTCTTTCGAG
1 -TAAGTCTTTCGAG
942468 CAAGATGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.46
21 1 0.04
22 12 0.43
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (22 bp):
TAAGTCTTTCGAGTGCGATGCT
Found at i:942906 original size:240 final size:241
Alignment explanation
Indices: 942406--942950 Score: 719
Period size: 240 Copynumber: 2.3 Consensus size: 241
942396 GTTCTTCGAG
* *** *
942406 CCATCAATAAGTCTTTCGAGTGCGATGCTTAAATCCTTC-GAGTCATCTGTAAGTCTTTCGAGCA
1 CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAG-GTCATCTATAAGTCTTTCGAGCA
* *
942470 AGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCATATGATTTTCAAA
65 AGATGATAAGTCCTTCGGGCCATCCATAAGACCTACGGGCAGGATGTTTTCACATGATTTTCAAA
* * * *
942535 ATAATGAGAAATCATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAGTTGATTTTTCTTGAAA
130 ATAATGAGAAAGCATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATTAATTTGTCTTGAAA
*
942600 AGTAAGAAAAATATTTCAAAAGTTTCTTAATTGATAAGTCCTTCGGA
195 AGTAAGAAAAATATTTCAAAAGTTTCTTAATTGATAAGTCCCTCGGA
**
942647 CCATCAGTAAGGATTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTC-TTCGAGCAA
1 CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAA
*
942711 GATGATAAGTCCTTTGGGCCATCCATAAGACCTACGGGCAGGATGTTTTCACATGATTTTCAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAGACCTACGGGCAGGATGTTTTCACATGATTTTCAAAA
*
942776 -AATGAGAAAGCAATTTTCAAAGTTTCTCATTTAAATCTTTTCTGAAAATTAATTTCGT-TTGAA
131 TAATGAGAAAGC-ATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATTAATTT-GTCTTGAA
* * *
942839 AAGTAAG-AAAATGA-TTCACAAAGTTTCTTACTT-AGTACGTCCCTCGGG
194 AAGTAAGAAAAAT-ATTTCA-AAAGTTTCTTAATTGA-TAAGTCCCTCGGA
* * * * * * * * *
942887 TCA-CTAGTAAGTCTTTCGAGCATGGTGATTAAGTCTTTCAGGCCATCCATAAGACTTTCAAGCA
1 CCATC-AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCA
942951 TGGTGCATTT
Statistics
Matches: 266, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
239 21 0.08
240 190 0.71
241 54 0.20
242 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (241 bp):
CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAA
GATGATAAGTCCTTCGGGCCATCCATAAGACCTACGGGCAGGATGTTTTCACATGATTTTCAAAA
TAATGAGAAAGCATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATTAATTTGTCTTGAAAA
GTAAGAAAAATATTTCAAAAGTTTCTTAATTGATAAGTCCCTCGGA
Found at i:943528 original size:139 final size:139
Alignment explanation
Indices: 943259--943624 Score: 601
Period size: 139 Copynumber: 2.6 Consensus size: 139
943249 GATAAACCAG
*
943259 TCAACATTTCCAGTGGAGA-TTCATAATAAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * ** *
943323 ATGAGAAGAACTTGTTCAACCTTAGCTTGAATCATGGCATATGGAGTTGAATCAGCAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAACTCGAATCATCACATATAGAGTTGAATCAGCAACACCTCA
943388 CTCGAGGGA
131 CTCGAGGGA
* *
943397 TCAACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* *
943462 ATGAGAAGAACTTGTTCAACCTTAACTCGATTTATCACATATAGAGTTGAATCAGCAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAACTCGAATCATCACATATAGAGTTGAATCAGCAACACCTCA
943527 CTCGAGGGA
131 CTCGAGGGA
* *
943536 TCAACATGTT-CAGGGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
1 TCAACAT-TTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
943600 AATGAGAAGAACTTGTTCAACCTTA
65 AATGAGAAGAACTTGTTCAACCTTA
943625 GCTTGTTTCC
Statistics
Matches: 212, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
138 19 0.09
139 191 0.90
140 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (139 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAACTCGAATCATCACATATAGAGTTGAATCAGCAACACCTCA
CTCGAGGGA
Found at i:943617 original size:20 final size:19
Alignment explanation
Indices: 943555--943618 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
943545 TCAGGGGAGA
943555 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* * *
943574 CATCCGATAAGGGAGAAGAA--
1 -GTTC-ATAA-TGAGAAGAACT
943594 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
943614 GTTCA
1 GTTCA
943619 ACCTTAGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 8 0.24
18 4 0.12
19 2 0.06
20 7 0.21
21 4 0.12
22 8 0.24
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:945552 original size:18 final size:18
Alignment explanation
Indices: 945524--945560 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
945514 TAGCATTGAG
945524 TTGCATTTAATTTCCATTT
1 TTGCATTTAATTTCC-TTT
945543 TTGC-TTTAATTTCCTTT
1 TTGCATTTAATTTCCTTT
945560 T
1 T
945561 ATTTGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.16, C:0.16, G:0.05, T:0.62
Consensus pattern (18 bp):
TTGCATTTAATTTCCTTT
Found at i:954141 original size:53 final size:53
Alignment explanation
Indices: 954061--954169 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
954051 CTTGGTAAAT
954061 TCATAAAGTAAACATTAATGTTAACTTTGAATGAAATCTGACATGTGCGATGA
1 TCATAAAGTAAACATTAATGTTAACTTTGAATGAAATCTGACATGTGCGATGA
954114 TCATAAAGTAAACATTAATGTTAACTTTGAATGAAATCTGACATGTGCGATGA
1 TCATAAAGTAAACATTAATGTTAACTTTGAATGAAATCTGACATGTGCGATGA
954167 TCA
1 TCA
954170 AATGAATGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (53 bp):
TCATAAAGTAAACATTAATGTTAACTTTGAATGAAATCTGACATGTGCGATGA
Found at i:959138 original size:21 final size:20
Alignment explanation
Indices: 959100--959138 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
959090 TAATGGATGA
*
959100 TTGTTTTTATATGGTGTTAT
1 TTGTTTTTATATGATGTTAT
*
959120 TTGTTTTATTTATGATGTT
1 TTGTTTT-TATATGATGTT
959139 TAATGCCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.67
Consensus pattern (20 bp):
TTGTTTTTATATGATGTTAT
Found at i:980252 original size:2 final size:2
Alignment explanation
Indices: 980245--980274 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
980235 CCCACATGTA
980245 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
980275 GAAATTGCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:982388 original size:15 final size:16
Alignment explanation
Indices: 982368--982399 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
982358 CATTTACATT
982368 TTACACCAT-ATTCCA
1 TTACACCATCATTCCA
982383 TTACACCATCATTCCA
1 TTACACCATCATTCCA
982399 T
1 T
982400 CCCCACCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (16 bp):
TTACACCATCATTCCA
Found at i:984017 original size:2 final size:2
Alignment explanation
Indices: 984010--984036 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
984000 TTATATGGCG
984010 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
984037 TATGACATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:985582 original size:20 final size:20
Alignment explanation
Indices: 985553--985598 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
985543 TAATTTTAAT
985553 TTAT-TATTTACTA-TTAGTA
1 TTATATATTTACTACTTA-TA
*
985572 TTATATATTTATTACTTATA
1 TTATATATTTACTACTTATA
985592 TTATATA
1 TTATATA
985599 GTGTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 17 0.71
21 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATATATTTACTACTTATA
Found at i:985606 original size:26 final size:24
Alignment explanation
Indices: 985580--985766 Score: 113
Period size: 26 Copynumber: 7.7 Consensus size: 24
985570 TATTATATAT
985580 TTATTACTTATATTATATAGTGTTA
1 TTATTA-TTATATTATATAGTGTTA
985605 TTATTATTATATCTTATATAGTGTTA
1 TTATTATTATA--TTATATAGTGTTA
**
985631 TTATTATTATTATCGTATAGTGTTTA
1 TTATTATTA-TATTATATAGTG-TTA
* *
985657 TTATTA-TATATTAT-TA-TTTTG
1 TTATTATTATATTATATAGTGTTA
* *
985678 CTATTAATACTATTAT-TAGTAG-TA
1 TTATTATTA-TATTATATAGT-GTTA
* * *
985702 GTATTA-TATATCTGTATTA-T-TTC
1 TTATTATTATAT-TATA-TAGTGTTA
*
985725 TTATTATTATATGTAT-TAGTATTA
1 TTATTATTATAT-TATATAGTGTTA
985749 TTATATATTATTATTATA
1 TTAT-TATTA-TATTATA
985767 CTATTTGTCG
Statistics
Matches: 128, Mismatches: 16, Indels: 35
0.72 0.09 0.20
Matches are distributed among these distances:
21 7 0.05
22 8 0.06
23 21 0.16
24 30 0.23
25 26 0.20
26 34 0.27
27 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (24 bp):
TTATTATTATATTATATAGTGTTA
Found at i:985610 original size:3 final size:3
Alignment explanation
Indices: 985553--985765 Score: 78
Period size: 3 Copynumber: 67.3 Consensus size: 3
985543 TAATTTTAAT
* *
985553 TTA TTA TTTA CTA TTA GTA TTA TATA TTTA TTA CTTA -TA TTA TATA
1 TTA TTA -TTA TTA TTA TTA TTA T-TA -TTA TTA -TTA TTA TTA T-TA
* * * * *
985599 GTG TTA TTA TTA TTA TATC TTA TATA GTG TTA TTA TTA TTA TTA TCGTA
1 TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA T--TA
* * * *
985648 -TA GTGT- TTA TTA TTA TATA TTA TTA TT- TTG CTA TTA ATA CTA TTA
1 TTA -T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
985693 TTA GTA GTA GTA TTA TATA TCT- GTA TTA TTTC TTA TTA TTA -TA TGTA
1 TTA TTA TTA TTA TTA T-TA T-TA TTA TTA -TTA TTA TTA TTA TTA T-TA
*
985740 TTA GTA TTA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA T-TA TTA TTA TTA T
985766 ACTATTTGTC
Statistics
Matches: 159, Mismatches: 29, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
2 10 0.06
3 114 0.72
4 31 0.19
5 4 0.03
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:989534 original size:19 final size:18
Alignment explanation
Indices: 989506--989541 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
989496 AACTCTATAA
*
989506 TTTTATCTTATTTTTTAC
1 TTTTATCTTAATTTTTAC
989524 TTTTAATCTTAATTTTTA
1 TTTT-ATCTTAATTTTTA
989542 GGACAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATCTTAATTTTTAC
Found at i:991014 original size:31 final size:31
Alignment explanation
Indices: 990916--991006 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
990906 CAATTTAAGG
990916 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
990947 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
*
990978 CAAAAT-GTTTTTAGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
991007 TTCAAAATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 11 0.19
30 11 0.19
31 37 0.63
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:991185 original size:21 final size:21
Alignment explanation
Indices: 991159--991200 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
991149 ATTTGAATAT
*
991159 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
991180 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
991201 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:991262 original size:21 final size:21
Alignment explanation
Indices: 991229--991268 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
991219 TTTTAGTAGA
*
991229 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
991251 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
991269 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:991526 original size:34 final size:32
Alignment explanation
Indices: 991483--991552 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
991473 TTTTGTAAAG
*
991483 GGGAAAGGTTCTAGCTTAGCCCGTATAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGGA-AAAA-CTA
*
991517 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
991549 GGGA
1 GGGA
991553 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 23 0.68
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:993283 original size:63 final size:61
Alignment explanation
Indices: 993196--993318 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 61
993186 TAAAATTTTT
* * * *
993196 AAAATTTCAAAGTTGAAAATAATATGAAAACTT-TAGAATTTTTTAACAAATTTGAAAGAAAAA
1 AAAATTTCAAAGTTAAAAAAAATATGAAAA-TTATAGAAATTTTCAA-AAATTTGAAA-AAAAA
* *
993259 AAAATTTCGAAGTTAAAAAAAATATGAATATTATAGAAATTTTCAAAAATTTGAAAAAAA
1 AAAATTTCAAAGTTAAAAAAAATATGAAAATTATAGAAATTTTCAAAAATTTGAAAAAAA
993319 TTATATCGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 4 0.08
62 12 0.23
63 37 0.70
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (61 bp):
AAAATTTCAAAGTTAAAAAAAATATGAAAATTATAGAAATTTTCAAAAATTTGAAAAAAAA
Found at i:996326 original size:26 final size:26
Alignment explanation
Indices: 996297--996348 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
996287 CTTTTCTTCT
* *
996297 TTTAATGTTTATTTTAGT-TTTTATTA
1 TTTAATCTTTAATTTA-TATTTTATTA
996323 TTTAATCTTTAATTTATATTTTATTA
1 TTTAATCTTTAATTTATATTTTATTA
996349 ACATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTAATCTTTAATTTATATTTTATTA
Found at i:1001162 original size:14 final size:14
Alignment explanation
Indices: 1001128--1001164 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1001118 TAAGATTTAC
*
1001128 TTTGAAAACT-ATT
1 TTTGAAAATTAATT
1001141 TTTG-AAATTAATT
1 TTTGAAAATTAATT
1001154 TTTGAAAATTA
1 TTTGAAAATTA
1001165 CTCCCCCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 4 0.19
13 11 0.52
14 6 0.29
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (14 bp):
TTTGAAAATTAATT
Found at i:1003433 original size:43 final size:44
Alignment explanation
Indices: 1003362--1003469 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 44
1003352 CGATGAGTGT
* * *
1003362 ATCGATACACA-TCAGAGTGTATCTATGCACATTCAAAGAATGC
1 ATCGGTACACATTCATAGTGTATCGATGCACATTCAAAGAATGC
* * *
1003405 ATCGGT-CACATTCATAGTGTATCGATGCATATTCAAGGGATGC
1 ATCGGTACACATTCATAGTGTATCGATGCACATTCAAAGAATGC
*
1003448 ATCGGTACACTTTCATAGTGTA
1 ATCGGTACACATTCATAGTGTA
1003470 AAGTGTATCG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
42 4 0.07
43 38 0.68
44 14 0.25
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCGGTACACATTCATAGTGTATCGATGCACATTCAAAGAATGC
Found at i:1009287 original size:65 final size:64
Alignment explanation
Indices: 1009196--1009348 Score: 191
Period size: 65 Copynumber: 2.4 Consensus size: 64
1009186 ACACTTGGGG
* * * * * *
1009196 TGCATCGATACACTAATTACATTCGATGTTTCAA-AAAAGCCAGGAGTGCATTGATGCATGGTTT
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAATAAAA-CCAGGAGTGCATCGAAGCATGG-TT
1009260 A
64 A
* * * *
1009261 TGCATCGGTACATAAAATGCATTCGATGTTTCAATAAAATCATGAGTGCATCGAAGCATGGTTG
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAATAAAACCAGGAGTGCATCGAAGCATGGTTA
1009325 TGCATCGGTACACAAAATGCATTC
1 TGCATCGGTACACAAAATGCATTC
1009349 AAAATAAGGT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
64 25 0.33
65 47 0.62
66 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (64 bp):
TGCATCGGTACACAAAATGCATTCGATGTTTCAATAAAACCAGGAGTGCATCGAAGCATGGTTA
Found at i:1011765 original size:135 final size:134
Alignment explanation
Indices: 1011322--1011923 Score: 422
Period size: 135 Copynumber: 4.5 Consensus size: 134
1011312 ATTCAACCTT
* *
1011322 GACTTAACTCGCAATGAAGGAGGCATCCACAACATAGCTTAACTCAACAACGAGGAGCTATTTTC
1 GACTTAACTCGCAATGAAGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTTC
* * * * * * *
1011387 CAACCAAAATGTTCAAGTCAAATTTAAACTTGACGATGAAGGATATTGGACTAGAAGAAGAGCTA
66 CAACC-AAATTTTCAAGTCAAATTTCAACTTCACAATGAAGAATATTGGACTAGAAGAAGACCCA
1011452 AAATC
130 AAATC
* * ** * *** ** * * *
1011457 GACTTAACTTGTAATGGTGGAGTCGTATGCAATTTAGGTTAACTCAACAATAATGAGCTATTTTC
1 GACTTAACTCGCAATGAAGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTTC
* * * * * ** ** *
1011522 CAACCCAAATTTT-GAGTCATATTTCAACTTTACAACGAA-AGATATCAGTCCT-G-AG-TCATC
66 CAA-CCAAATTTTCAAGTCAAATTTCAACTTCACAATGAAGA-ATAT-TGGACTAGAAGAAGACC
* *
1011582 CAAGATT
128 CAAAATC
* * * * * * *
1011589 AACTTAACTCGTAATGGAGGAGTCATCCACACCATACCTTAACTCAACAATGAGGATCTATTTTT
1 GACTTAACTCGCAATGAAGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTTC
* *
1011654 GAACCAAGGTTTTCAAGTCAAATTTCAACTTCACAATGAAGAATATTGGACTAGAAGAAGACCCA
66 CAACCAA-ATTTTCAAGTCAAATTTCAACTTCACAATGAAGAATATTGGACTAGAAGAAGACCCA
1011719 AAATC
130 AAATC
* ** * **
1011724 GACTTAACTCGCAATGAAAGAGTCA-CCTACAATTTAGCTTAACTCAACAACGAAAAGCTATTTT
1 GACTTAACTCGCAATGAAGGAGTCATCC-ACAACATAGCTTAACTCAACAATGAGGAGCTATTTT
* * * * * * **
1011788 -CAATCCCAGATTTT-GAGTCAGATTTCAACTTCATGAA-GAAGGATATTAGG-CTCG-AG-TCA
65 CCAA--CCAAATTTTCAAGTCAAATTTCAACTTCA-CAATGAAGAATATT-GGACTAGAAGAAGA
* * * *
1011847 TCTAAGATT
126 CCCAAAATC
* * * *
1011856 TACTTAACTCACAAT-AGAGGAGTCATCTACAACATAGCTTAACTCAA-AATGATGAGCTATTTT
1 GACTTAACTCGCAATGA-AGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTT
1011919 CCAAC
65 CCAAC
1011924 TTAACCCACA
Statistics
Matches: 353, Mismatches: 97, Indels: 39
0.72 0.20 0.08
Matches are distributed among these distances:
130 1 0.00
131 18 0.05
132 110 0.31
133 32 0.09
134 61 0.17
135 126 0.36
136 5 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (134 bp):
GACTTAACTCGCAATGAAGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTTC
CAACCAAATTTTCAAGTCAAATTTCAACTTCACAATGAAGAATATTGGACTAGAAGAAGACCCAA
AATC
Found at i:1011803 original size:267 final size:267
Alignment explanation
Indices: 1011323--1011923 Score: 744
Period size: 267 Copynumber: 2.3 Consensus size: 267
1011313 TTCAACCTTG
* * *
1011323 ACTTAACTCGCAATGAAGGAGGCATCCACAACATAGCTTAACTCAACAACGAGGAGCTATTTTCC
1 ACTTAACTCGCAATGGAGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTTCC
* * * * *
1011388 AACCAAAATGTTCAAGTCAAATTTAAACTTGACGATGAAGGATATTGGACTAGAAGAAGAGCTAA
66 AACCAAAATGTTCAAGTCAAATTTAAACTTCACAATGAAGAATATTGGACTAGAAGAAGACCCAA
* * *** ** * * * *
1011453 AATCGACTTAACTTGTAATGGTGGAGTCGTATGCAATTTAGGTTAACTCAACAATAATGAGCTAT
131 AATCGACTTAACTCGCAATGAAAGAGTCACATACAATTTAGCTTAACTCAACAAGAATAAGCTAT
* *
1011518 TTTCCAACCCAAATTTTGAGTCATATTTCAACTTTA-CAACGAAAGATATCAGTCCT-GAGTCAT
196 TTTCCAACCCAAATTTTGAGTCAGATTTCAACTTCATCAA-GAAAGATATCAG-CCTCGAGTCAT
1011581 CCAAGATTA
259 CCAAGATTA
* * * * **
1011590 ACTTAACTCGTAATGGAGGAGTCATCCACACCATACCTTAACTCAACAATGAGGATCTATTTTTG
1 ACTTAACTCGCAATGGAGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTTCC
** * *
1011655 AACCAAGGTTTTCAAGTCAAATTTCAACTTCACAATGAAGAATATTGGACTAGAAGAAGACCCAA
66 AACCAAAATGTTCAAGTCAAATTTAAACTTCACAATGAAGAATATTGGACTAGAAGAAGACCCAA
*
1011720 AATCGACTTAACTCGCAATGAAAGAGTCACCTACAATTTAGCTTAACTCAACAACGAA-AAGCTA
131 AATCGACTTAACTCGCAATGAAAGAGTCACATACAATTTAGCTTAACTCAACAA-GAATAAGCTA
* * * * *
1011784 TTTT-CAATCCCAGATTTTGAGTCAGATTTCAACTTCATGAAGAAGGATATTAGGCTCGAGTCAT
195 TTTTCCAA-CCCAAATTTTGAGTCAGATTTCAACTTCATCAAGAAAGATATCAGCCTCGAGTCAT
* *
1011848 CTAAGATTT
259 CCAAGATTA
* * * *
1011857 ACTTAACTCACAATAGAGGAGTCATCTACAACATAGCTTAACTCAA-AATGATGAGCTATTTTCC
1 ACTTAACTCGCAATGGAGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTTCC
1011921 AAC
66 AAC
1011924 TTAACCCACA
Statistics
Matches: 281, Mismatches: 49, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
266 22 0.08
267 255 0.91
268 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (267 bp):
ACTTAACTCGCAATGGAGGAGTCATCCACAACATAGCTTAACTCAACAATGAGGAGCTATTTTCC
AACCAAAATGTTCAAGTCAAATTTAAACTTCACAATGAAGAATATTGGACTAGAAGAAGACCCAA
AATCGACTTAACTCGCAATGAAAGAGTCACATACAATTTAGCTTAACTCAACAAGAATAAGCTAT
TTTCCAACCCAAATTTTGAGTCAGATTTCAACTTCATCAAGAAAGATATCAGCCTCGAGTCATCC
AAGATTA
Found at i:1012224 original size:3 final size:3
Alignment explanation
Indices: 1012216--1012347 Score: 77
Period size: 3 Copynumber: 42.3 Consensus size: 3
1012206 GGGGAGTCCT
* * * *
1012216 TTA TTA TTA TATA TTA TTA TT- TTG CTA TTA ATA CTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
1012261 TTA GTA GTA GTA TTTA TTA TTA GTA TTA TATA TCA TTA TTA TTTC TTC
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA TTA
* * *
1012309 TTA TTA TTA TATA TTA TTA TAAA TTA GTA CTA TTA TTA T
1 TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA T
1012348 AATATTTATC
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
2 2 0.02
3 86 0.83
4 15 0.15
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:1012298 original size:19 final size:19
Alignment explanation
Indices: 1012253--1012301 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1012243 TTAATACTAT
1012253 TATT-ATTATTAGTAGTAG
1 TATTCATTATTAGTAGTAG
* *
1012271 TATTTATTATTAGTATTA-
1 TATTCATTATTAGTAGTAG
1012289 TATATCATTATTA
1 TAT-TCATTATTA
1012302 TTTCTTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (19 bp):
TATTCATTATTAGTAGTAG
Found at i:1015792 original size:20 final size:20
Alignment explanation
Indices: 1015767--1015804 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1015757 TGATTCAATC
1015767 AGTATCGATACCGAAGGGGG
1 AGTATCGATACCGAAGGGGG
1015787 AGTATCGATACCGAAGGG
1 AGTATCGATACCGAAGGG
1015805 AAGGCATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.37, T:0.16
Consensus pattern (20 bp):
AGTATCGATACCGAAGGGGG
Found at i:1015813 original size:20 final size:20
Alignment explanation
Indices: 1015770--1015818 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1015760 TTCAATCAGT
* *
1015770 ATCGATACCGAAGGGGGAGT
1 ATCGATACCGAAGGGAGAGC
1015790 ATCGATACCGAAGGGA-AGGC
1 ATCGATACCGAAGGGAGA-GC
1015810 ATCGATACC
1 ATCGATACC
1015819 ATTTTGAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.14
Consensus pattern (20 bp):
ATCGATACCGAAGGGAGAGC
Found at i:1015967 original size:95 final size:94
Alignment explanation
Indices: 1015836--1016007 Score: 247
Period size: 95 Copynumber: 1.8 Consensus size: 94
1015826 AACAGAATGC
** * * * *
1015836 AAAAATGGTATCGATACCTTATGAGGGTATCGGTAGCATAGTATGGTAGTATCGATACCATGGTA
1 AAAAATGGTATCGATACCGGAAGAGGGTATCAGTAGCATAATATAGTAGTATCGATACCATGGT-
1015901 AGGGTATCAATACCAGGTAACATCAAATCT
65 AGGGTATCAATACCAGGTAACATCAAATCT
*
1015931 AAAATTGGTATCGATACCGGAAG-GGGCTATCAGTAGCATAATATAGTAGTATCGATACCATGGT
1 AAAAATGGTATCGATACCGGAAGAGGG-TATCAGTAGCATAATATAGTAGTATCGATACCATGGT
*
1015995 AGGGTATCGATAC
65 AGGGTATCAATAC
1016008 TAAAGAACCA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
94 15 0.22
95 53 0.78
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (94 bp):
AAAAATGGTATCGATACCGGAAGAGGGTATCAGTAGCATAATATAGTAGTATCGATACCATGGTA
GGGTATCAATACCAGGTAACATCAAATCT
Found at i:1016406 original size:59 final size:59
Alignment explanation
Indices: 1016341--1016566 Score: 339
Period size: 59 Copynumber: 3.8 Consensus size: 59
1016331 ATGTCACTAA
*
1016341 GTGTGCTAAAATGTTAAGAGATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
* *
1016400 GTGTGCTAAAATGTTAAGAAATTTATACTAAGTGTATGAA-TTTCTGTATTGGGCACTGT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTC-GTATTGGGCACTTT
* * * *
1016459 GTGTGCTGAAATCTTAAGAAATTTATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
* *
1016518 GTGTGC-AAACATGTAAAGAAATTCATACTAGGTGTATGAATTTTCGTAT
1 GTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
1016567 GGGAAATATA
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
58 6 0.04
59 142 0.94
60 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
Done.