Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009594.1 Hibiscus syriacus cultivar Beakdansim tig00116973_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: 563256
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:240367 original size:14 final size:15
Alignment explanation
Indices: 240328--240371 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
240318 TTATTAGAAT
240328 TGGAAAATGAATTAC
1 TGGAAAATGAATTAC
**
240343 TGGAATTTGAATT-C
1 TGGAAAATGAATTAC
240357 TGGAAAATGAATTAC
1 TGGAAAATGAATTAC
240372 ATTTCTGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (15 bp):
TGGAAAATGAATTAC
Found at i:240623 original size:30 final size:31
Alignment explanation
Indices: 240589--240656 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
240579 AAATATTAAA
* *
240589 ATAATTTAT-TTATTATTAAATATT-ATTTTT
1 ATAATTTATATTAATA-AAAATATTAATTTTT
240619 ATAATTT-TATTAATAAAAATATTAATTTTT
1 ATAATTTATATTAATAAAAATATTAATTTTT
*
240649 ATATTTTA
1 ATAATTTA
240657 GTGAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
ATAATTTATATTAATAAAAATATTAATTTTT
Found at i:240668 original size:30 final size:30
Alignment explanation
Indices: 240606--240672 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
240596 ATTTATTATT
*
240606 AAATATT-ATTTTTATAATTTTATTAATAA
1 AAATATTAATTTTTATAATTTTATAAATAA
240635 AAATATTAATTTTTAT-ATTTTAGTGAAAT-A
1 AAATATTAATTTTTATAATTTTA-T-AAATAA
240665 AAATATTA
1 AAATATTA
240673 TAAATATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 13 0.38
30 18 0.53
31 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
AAATATTAATTTTTATAATTTTATAAATAA
Found at i:240723 original size:87 final size:86
Alignment explanation
Indices: 240577--240743 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 86
240567 ATAATTATTT
* * * * *
240577 TAAAATATTAAAATAATTTATTTATTATTAAATATTATTTTTATAATTTTATTAATAAAAATATT
1 TAAAATATTAAAATAATTAATTTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATATT
**
240642 AATTTTTATATTTTAGTGAAA
66 AATTAGTATATTTTAGTGAAA
*
240663 TAAAATATTATAAATATATTAA-TTATTTATTAAAGTAATAGTGTTAT-ATTATATT-TTAAAAA
1 TAAAATATTA-AAATA-ATTAATTTA-TTATTAAA-TAATAGTGTTATAATTATATTAATAAAAA
240725 TATTAATTAGTATATTTTA
62 TATTAATTAGTATATTTTA
240744 AATATATTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
86 10 0.14
87 31 0.45
88 19 0.28
89 9 0.13
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (86 bp):
TAAAATATTAAAATAATTAATTTATTATTAAATAATAGTGTTATAATTATATTAATAAAAATATT
AATTAGTATATTTTAGTGAAA
Found at i:240762 original size:23 final size:23
Alignment explanation
Indices: 240713--240775 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
240703 GTGTTATATT
* **
240713 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
*
240736 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTAATTAAA
240759 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
240776 AAATAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 22 0.65
24 1 0.03
25 11 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:240769 original size:12 final size:12
Alignment explanation
Indices: 240735--240775 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
240725 TATTAATTAG
240735 TATA-TTTTAAA
1 TATATTTTTAAA
240746 TATATTTATTAAA
1 TATATTT-TTAAA
240759 -ATATTATTTAAA
1 TATATT-TTTAAA
240771 TATAT
1 TATAT
240776 AAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.15
12 12 0.46
13 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATTTTTAAA
Found at i:240814 original size:27 final size:28
Alignment explanation
Indices: 240769--240904 Score: 85
Period size: 27 Copynumber: 5.0 Consensus size: 28
240759 ATATTATTTA
*
240769 AATATAT-AAATAATATTATTCAT-TATT
1 AATATATAAAAAAATATTATT-ATATATT
240796 AATATATAAAAAAAT-TTATTATATATT
1 AATATATAAAAAAATATTATTATATATT
* *
240823 AA-A-ATAAAAATATAATATCT-TATATT
1 AATATATAAAAAAATATTAT-TATATATT
* * *
240849 -AT-TATAATATAATTGATTATTTTATA-T
1 AATATATAA-AAAAAT-ATTATTATATATT
* *
240876 AATAT-TAAAAATATAATATTATATTATT
1 AATATATAAAAAAATATTATTATA-TATT
240904 A
1 A
240905 TAAATATTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
25 10 0.12
26 23 0.27
27 29 0.35
28 21 0.25
29 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
AATATATAAAAAAATATTATTATATATT
Found at i:240890 original size:31 final size:32
Alignment explanation
Indices: 240844--240931 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 32
240834 ATAATATCTT
*
240844 ATATTATTATAATATAATTGATTATTTTA-TAT-A
1 ATATTAATA-AATATAA-T-ATTATTTTATTATAA
*
240877 ATATTAA-AAATATAATATTATATTATTATAA
1 ATATTAATAAATATAATATTATTTTATTATAA
240908 ATATTAATAAATA-AATATTATTTT
1 ATATTAATAAATATAATATTATTTT
240932 GATGAAAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
29 8 0.16
30 4 0.08
31 25 0.51
32 6 0.12
33 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
ATATTAATAAATATAATATTATTTTATTATAA
Found at i:240891 original size:14 final size:15
Alignment explanation
Indices: 240872--240927 Score: 62
Period size: 14 Copynumber: 3.7 Consensus size: 15
240862 TGATTATTTT
240872 ATATAATATTAA-AA
1 ATATAATATTAATAA
*
240886 ATATAATATTATATTA
1 ATATAATATTA-ATAA
*
240902 TTATAAATATTAATAA
1 ATAT-AATATTAATAA
240918 ATA-AATATTA
1 ATATAATATTA
240928 TTTTGATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 9 0.26
17 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATAATATTAATAA
Found at i:240898 original size:22 final size:23
Alignment explanation
Indices: 240873--240916 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
240863 GATTATTTTA
240873 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
240895 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
240917 AATAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:241150 original size:42 final size:42
Alignment explanation
Indices: 241103--241222 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 42
241093 ATGAATTACA
*
241103 TTCCGAAAAATCAATTACGTAAAACAAACACGAGAAAACATT
1 TTCCGAAAAATCAATTACGTGAAACAAACACGAGAAAACATT
* *
241145 TTCCGAAAAA-CGAATTACGTGAAACAAACACGGGAAAATATT
1 TTCCGAAAAATC-AATTACGTGAAACAAACACGAGAAAACATT
* * *
241187 TTCCGAAAAATGAATTACGTGAAATAAACACAAGAA
1 TTCCGAAAAATCAATTACGTGAAACAAACACGAGAA
241223 TTCGGGAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.99
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (42 bp):
TTCCGAAAAATCAATTACGTGAAACAAACACGAGAAAACATT
Found at i:242485 original size:11 final size:11
Alignment explanation
Indices: 242416--242485 Score: 65
Period size: 10 Copynumber: 6.4 Consensus size: 11
242406 TGACTATGTT
*
242416 ATAATAATTTG
1 ATAATAATTTA
242427 ATAA-AATTTA
1 ATAATAATTTA
*
242437 ACAATAATTTCAA
1 ATAATAATTT--A
*
242450 ATAA-AATTAA
1 ATAATAATTTA
242460 ATAATTAATTT-
1 ATAA-TAATTTA
242471 ATAATAATTTA
1 ATAATAATTTA
242482 ATAA
1 ATAA
242486 ATTTAGTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
10 19 0.40
11 17 0.35
12 8 0.17
13 4 0.08
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (11 bp):
ATAATAATTTA
Found at i:247609 original size:20 final size:21
Alignment explanation
Indices: 247576--247624 Score: 82
Period size: 20 Copynumber: 2.3 Consensus size: 21
247566 ACACGTGTCA
247576 TTTAACGAAGATTTTTAACAG
1 TTTAACGAAGATTTTTAACAG
247597 TTTAACG-AGATTTTTAACAG
1 TTTAACGAAGATTTTTAACAG
247617 TGTTAACG
1 T-TTAACG
247625 TACGAACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (21 bp):
TTTAACGAAGATTTTTAACAG
Found at i:250879 original size:22 final size:22
Alignment explanation
Indices: 250831--250884 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
250821 TTCAGCTGTT
* *
250831 ATAACTCCTGAAATTATATCAT
1 ATAACTCCTGAAATTAAATCAA
* * *
250853 GTAACCCCTGGAATTAAATCAA
1 ATAACTCCTGAAATTAAATCAA
250875 ATAACTCCTG
1 ATAACTCCTG
250885 TAACTCCTGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (22 bp):
ATAACTCCTGAAATTAAATCAA
Found at i:256292 original size:22 final size:22
Alignment explanation
Indices: 256262--256303 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
256252 TCAGCTGTTA
* *
256262 TAACTCCTGAAATTATATCATG
1 TAACCCCTGAAATTAAATCATG
*
256284 TAACCCCTGGAATTAAATCA
1 TAACCCCTGAAATTAAATCA
256304 AATAACTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
TAACCCCTGAAATTAAATCATG
Found at i:256309 original size:22 final size:22
Alignment explanation
Indices: 256261--256309 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
256251 TTCAGCTGTT
* * *
256261 ATAACTCCTGAAATTATATCAT
1 ATAACCCCTGAAATTAAATCAA
* *
256283 GTAACCCCTGGAATTAAATCAA
1 ATAACCCCTGAAATTAAATCAA
256305 ATAAC
1 ATAAC
256310 TCATGTAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (22 bp):
ATAACCCCTGAAATTAAATCAA
Found at i:257722 original size:40 final size:37
Alignment explanation
Indices: 257673--257764 Score: 94
Period size: 40 Copynumber: 2.4 Consensus size: 37
257663 ACTTCGACTA
* *
257673 TCGCATTGCGATTACATATTTGCATTGCGAAAGTCCAAGT
1 TCGCGTTGCGATTACA-AATT-CATTGCGAAAGT-CAAGT
* * *
257713 TCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCAAGT
1 TCGCGTTGCGA--TTACAAATTCATTGCGAAAGTCAAGT
257752 TCGCGTTGCGATT
1 TCGCGTTGCGATT
257765 TATTCCAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
37 2 0.04
39 16 0.36
40 20 0.44
41 3 0.07
42 4 0.09
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (37 bp):
TCGCGTTGCGATTACAAATTCATTGCGAAAGTCAAGT
Found at i:257723 original size:21 final size:21
Alignment explanation
Indices: 257697--257763 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
257687 CATATTTGCA
*
257697 TTGCGAAAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
** *
257718 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
257737 TTGCGATAGT-CAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
257757 TTGCGAT
1 TTGCGAT
257764 TTATTCCAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 5 0.14
19 10 0.27
20 9 0.24
21 13 0.35
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:257760 original size:39 final size:41
Alignment explanation
Indices: 257697--257779 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
257687 CATATTTGCA
257697 TTGCGAAAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGAAAGTCCAAGTTCGCGTTGCGATTTATTCC-AATTCG
*
257737 TTGCGATAGT-CAAGTTCGCGTTGCGATTTATTCCAATTCG
1 TTGCGAAAGTCCAAGTTCGCGTTGCGATTTATTCCAATTCG
257777 TTG
1 TTG
257780 TACCCACTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 16 0.40
40 20 0.50
41 4 0.10
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
TTGCGAAAGTCCAAGTTCGCGTTGCGATTTATTCCAATTCG
Found at i:259971 original size:26 final size:26
Alignment explanation
Indices: 259935--259984 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
259925 GATGGTGGAC
259935 TCTTAAAGTCTGGCAAACCCACTTTG
1 TCTTAAAGTCTGGCAAACCCACTTTG
259961 TCTTAAAGTCTGGCAAACCCACTT
1 TCTTAAAGTCTGGCAAACCCACTT
259985 GGCCAGACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (26 bp):
TCTTAAAGTCTGGCAAACCCACTTTG
Found at i:260844 original size:34 final size:32
Alignment explanation
Indices: 260782--260852 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 32
260772 CCTTACAAAC
* *
260782 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
260814 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
*
260848 CCCCT
1 TCCCT
260853 TTACAAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:261108 original size:21 final size:21
Alignment explanation
Indices: 261082--261123 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
261072 CCAGAATGGG
*
261082 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
261103 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
261124 ATATTCAAAT
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:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:261315 original size:30 final size:31
Alignment explanation
Indices: 261268--261358 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
261258 AAATTTTGAA
261268 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
261297 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
261328 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
261359 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:263744 original size:18 final size:18
Alignment explanation
Indices: 263718--263762 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
263708 GACACATATT
*
263718 ACCATGAGCACAAGCACG
1 ACCACGAGCACAAGCACG
**
263736 ACCACGAGCATGAGCACG
1 ACCACGAGCACAAGCACG
263754 ACCACGAGC
1 ACCACGAGC
263763 CGAGCCATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.36, G:0.24, T:0.04
Consensus pattern (18 bp):
ACCACGAGCACAAGCACG
Found at i:267252 original size:23 final size:23
Alignment explanation
Indices: 267191--267239 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
267181 TCTACAAAAG
267191 TTATGTAGTAGTGTTTTCCTCCT
1 TTATGTAGTAGTGTTTTCCTCCT
267214 TTATGTAGTAGTGTTTTCCTCCT
1 TTATGTAGTAGTGTTTTCCTCCT
267237 TTA
1 TTA
267240 CTTTTTAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.53
Consensus pattern (23 bp):
TTATGTAGTAGTGTTTTCCTCCT
Found at i:268889 original size:22 final size:22
Alignment explanation
Indices: 268859--268900 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
268849 TCAGCTGTTA
* *
268859 TAACTCCTGAAATTATATCATG
1 TAACCCCTGAAATTAAATCATG
*
268881 TAACCCCTGGAATTAAATCA
1 TAACCCCTGAAATTAAATCA
268901 AATAATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
TAACCCCTGAAATTAAATCATG
Found at i:270349 original size:21 final size:21
Alignment explanation
Indices: 270319--270560 Score: 126
Period size: 21 Copynumber: 11.6 Consensus size: 21
270309 GATTTACATA
* *
270319 TTCGCATTGCGAAAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
270340 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
270361 TT--CGTTGTGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
270380 TTCGCGTTGCGATTTATTCTAAA
1 TTCGCGTTGCGA--TAGTCCAAG
270403 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
270422 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
270445 TT--CGTTGCGATAGTCAAAG
1 TTCGCGTTGCGATAGTCCAAG
* * * *
270464 TTCGCGTTGTGATTTATTCTAAA
1 TTCGCGTTGCGA--TAGTCCAAG
**
270487 TT--CGTTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
270506 TTCACGTTACGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
* *
270529 TT--CATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
270548 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
270561 TTATTCCAAA
Statistics
Matches: 166, Mismatches: 37, Indels: 36
0.69 0.15 0.15
Matches are distributed among these distances:
19 47 0.28
21 85 0.51
23 34 0.20
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:270405 original size:42 final size:42
Alignment explanation
Indices: 270325--270585 Score: 364
Period size: 42 Copynumber: 6.3 Consensus size: 42
270315 CATATTCGCA
* *
270325 TTGCGAAAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
270365 TTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCTAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
270407 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * *
270449 TTGCGATAGTCAAAGTTCGCGTTGTGATTTATTCTAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * * * *
270491 TTGCGATAGTTGAAGTTCACGTTACGATTTATTCCAAGTTCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
270533 TTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
270575 TTGCGATAGTC
1 TTGCGATAGTC
270586 CAAAATCGCA
Statistics
Matches: 194, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 24 0.12
41 2 0.01
42 168 0.87
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:270576 original size:21 final size:21
Alignment explanation
Indices: 270386--270581 Score: 86
Period size: 21 Copynumber: 9.3 Consensus size: 21
270376 GAAGTTCGCG
* * *
270386 TTGCGATTTATTCTAAATTCG
1 TTGCGATTTATTCCAAGTTCA
* *
270407 TTGCGA--TAGTCCAAGTTCGCG
1 TTGCGATTTATTCCAAGTT--CA
*
270428 TTGCGATTTATTCCAAGTTCG
1 TTGCGATTTATTCCAAGTTCA
* * *
270449 TTGCGA--TAGTCAAAGTTCGCG
1 TTGCGATTTATTCCAAGTT--CA
* * * *
270470 TTGTGATTTATTCTAAATTCG
1 TTGCGATTTATTCCAAGTTCA
*
270491 TTGCGA--TAGTT-GAAGTTCA
1 TTGCGATTTA-TTCCAAGTTCA
*
270510 CGTTACGATTTATTCCAAGTTCA
1 --TTGCGATTTATTCCAAGTTCA
* *
270533 TTGCGA--TAGTCGAAGTTCGCA
1 TTGCGATTTATTCCAAGTT--CA
*
270554 TTGCGATTTATTCCAAATTCA
1 TTGCGATTTATTCCAAGTTCA
270575 TTGCGAT
1 TTGCGAT
270582 AGTCCAAAAT
Statistics
Matches: 135, Mismatches: 22, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
19 33 0.24
20 2 0.01
21 63 0.47
22 2 0.01
23 35 0.26
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (21 bp):
TTGCGATTTATTCCAAGTTCA
Found at i:270589 original size:19 final size:19
Alignment explanation
Indices: 270523--270589 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
270513 TACGATTTAT
*
270523 TCCAAGTTCATTGCGATAG
1 TCCAAATTCATTGCGATAG
* * *
270542 TCGAAGTTCGCATTGCGATTTAT
1 TCCAAATT--CATTGCGA--TAG
270565 TCCAAATTCATTGCGATAG
1 TCCAAATTCATTGCGATAG
270584 TCCAAA
1 TCCAAA
270590 ATCGCAACGA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 15 0.38
21 16 0.41
23 8 0.21
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (19 bp):
TCCAAATTCATTGCGATAG
Found at i:271334 original size:21 final size:21
Alignment explanation
Indices: 271310--271383 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
271300 TTTGGAATAA
271310 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
271331 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
271350 ATCACAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
271371 ATCGCAATGCGAA
1 ATCGCAACGCGAA
271384 TATGTAAATC
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 14 0.35
21 26 0.65
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:271384 original size:42 final size:42
Alignment explanation
Indices: 271294--271377 Score: 145
Period size: 40 Copynumber: 2.0 Consensus size: 42
271284 ACCTGTCGTT
*
271294 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
1 AACGAATTTGGAATAAATCACAACGCGAACTTCGACTATCGC
271336 AACGAATTTGG-A-AAATCACAACGCGAACTTCGACTATCGC
1 AACGAATTTGGAATAAATCACAACGCGAACTTCGACTATCGC
271376 AA
1 AA
271378 TGCGAATATG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 29 0.71
41 1 0.02
42 11 0.27
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
AACGAATTTGGAATAAATCACAACGCGAACTTCGACTATCGC
Found at i:275514 original size:30 final size:30
Alignment explanation
Indices: 275480--275538 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
275470 AACTTGATGA
*
275480 TAATAATCGATAAATTGAA-TGACTTTATTT
1 TAATAATCAATAAATT-AAGTGACTTTATTT
* *
275510 TAATAATTAATATATTAAGTGACTTTATT
1 TAATAATCAATAAATTAAGTGACTTTATT
275539 GTTGCAACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (30 bp):
TAATAATCAATAAATTAAGTGACTTTATTT
Found at i:278433 original size:408 final size:408
Alignment explanation
Indices: 277690--278485 Score: 1511
Period size: 408 Copynumber: 2.0 Consensus size: 408
277680 CGTGAACCAG
* * *
277690 GTGCTTAGACTGGACTATTCATTCACCCAGAATCACCGCAATTCAACTCCGATGATGATGATGAT
1 GTGCTGAGACTAGACTATTCATTCACCCAGAATCACCGCAATTCAACTCCAATGATGATGATGAT
*
277755 GTAGATGAAGTTCCCTCAAATGTGGCACAAACTGACCCTCCAGCACACATGTATGAAGCTGATTA
66 GTAGATGAAGTTCCCTCAAATGTGGCACAAACTGACCATCCAGCACACATGTATGAAGCTGATTA
277820 TGGTACAATGTACGGGCCAGAATTTACGGATATGCCTCATCTCGGTGACTATAGATATTACTCAT
131 TGGTACAATGTACGGGCCAGAATTTACGGATATGCCTCATCTCGGTGACTATAGATATTACTCAT
277885 CAATAAATAATGATGAGTTATCTTTAGGCATGGAGTTTTCAAGCAAAGAAGAAGCGATCATGGTT
196 CAATAAATAATGATGAGTTATCTTTAGGCATGGAGTTTTCAAGCAAAGAAGAAGCGATCATGGTT
*
277950 ATAAAAAATTACAATATCCGTAATTCTGTTCAATCCAGAGTCGATCGCTCCACGACAGAAAAATA
261 ATAAAAAATTACAATATCCGTAATTCTGTTCAATCCAGAGTCGACCGCTCCACGACAGAAAAATA
278015 TGTATATCACTATGCCCGACGCGAAAACGGAAGGAATTAGATGATTCGTGTATCGAATAGGAATT
326 TGTATATCACTATGCCCGACGCGAAAACGGAAGGAATTAGATGATTCGTGTATCGAATAGGAATT
278080 AGATGGTTCGTGAGCAAA
391 AGATGGTTCGTGAGCAAA
278098 GTGCTGAGACTAGACTATTCATTCACCCAGAATCACCGCAATTCAACTCCAATGATGATGATGAT
1 GTGCTGAGACTAGACTATTCATTCACCCAGAATCACCGCAATTCAACTCCAATGATGATGATGAT
*
278163 GTAGATGAAGTTCCCTCAAATGTGGCACAAACTGACCATCCAGCACACATGTATGAAGTTGATTA
66 GTAGATGAAGTTCCCTCAAATGTGGCACAAACTGACCATCCAGCACACATGTATGAAGCTGATTA
278228 TGGTACAATGTACGGGCCAGAATTTACGGATATGCCTCATCTCGGTGACTATAGATATTACTCAT
131 TGGTACAATGTACGGGCCAGAATTTACGGATATGCCTCATCTCGGTGACTATAGATATTACTCAT
*
278293 CAATAAATAATGGTGAGTTATCTTTAGGCATGGAGTTTTCAAGCAAAGAAGAAGCGATCATGGTT
196 CAATAAATAATGATGAGTTATCTTTAGGCATGGAGTTTTCAAGCAAAGAAGAAGCGATCATGGTT
* *
278358 ATAAAAAATTGCAATATCCGTAATTCTGTTCAATCTAGAGTCGACCGCTCCACGACAGAAAAATA
261 ATAAAAAATTACAATATCCGTAATTCTGTTCAATCCAGAGTCGACCGCTCCACGACAGAAAAATA
278423 TGTATATCACTATGCCCGACGCGAAAACGGAAGGAATTAGATGATTCGTGTATCGAATAGGAA
326 TGTATATCACTATGCCCGACGCGAAAACGGAAGGAATTAGATGATTCGTGTATCGAATAGGAA
278486 AAACAATAGA
Statistics
Matches: 379, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
408 379 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (408 bp):
GTGCTGAGACTAGACTATTCATTCACCCAGAATCACCGCAATTCAACTCCAATGATGATGATGAT
GTAGATGAAGTTCCCTCAAATGTGGCACAAACTGACCATCCAGCACACATGTATGAAGCTGATTA
TGGTACAATGTACGGGCCAGAATTTACGGATATGCCTCATCTCGGTGACTATAGATATTACTCAT
CAATAAATAATGATGAGTTATCTTTAGGCATGGAGTTTTCAAGCAAAGAAGAAGCGATCATGGTT
ATAAAAAATTACAATATCCGTAATTCTGTTCAATCCAGAGTCGACCGCTCCACGACAGAAAAATA
TGTATATCACTATGCCCGACGCGAAAACGGAAGGAATTAGATGATTCGTGTATCGAATAGGAATT
AGATGGTTCGTGAGCAAA
Found at i:286567 original size:6 final size:7
Alignment explanation
Indices: 286558--286603 Score: 51
Period size: 8 Copynumber: 6.4 Consensus size: 7
286548 AAAAATTGAA
286558 ATAAT-T
1 ATAATAT
286564 ATAATAT
1 ATAATAT
286571 AT-ATAT
1 ATAATAT
286577 ATATATAT
1 ATA-ATAT
286585 ATATATAT
1 ATA-ATAT
286593 ATATATAT
1 ATA-ATAT
286601 ATA
1 ATA
286604 TGACGAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 11 0.30
7 3 0.08
8 23 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATAATAT
Found at i:286574 original size:2 final size:2
Alignment explanation
Indices: 286563--286604 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
286553 TTGAAATAAT
286563 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
286604 T
1 T
286605 GACGAATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:286626 original size:20 final size:20
Alignment explanation
Indices: 286592--286642 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
286582 TATATATATA
286592 TATATATATATATGACGAATG
1 TATATATA-ATATGACGAATG
*
286613 T-TATGATAATATGACGCATG
1 TATAT-ATAATATGACGAATG
286633 TATATATAAT
1 TATATATAAT
286643 GTACATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (20 bp):
TATATATAATATGACGAATG
Found at i:286703 original size:2 final size:2
Alignment explanation
Indices: 286696--286777 Score: 57
Period size: 2 Copynumber: 40.5 Consensus size: 2
286686 TTATTATTAT
*
286696 TA TA TA TA TA TA -A T- TA TA TA TA -A GTA TA TGA T- TA TA TA CTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA TA -TA
*
286737 TA TA CT- TA TA CTA TA TA CTT TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T
286778 TTACATGCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
1 5 0.08
2 52 0.80
3 8 0.12
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:286733 original size:10 final size:9
Alignment explanation
Indices: 286676--286775 Score: 52
Period size: 9 Copynumber: 10.8 Consensus size: 9
286666 TATAAATAAG
286676 TATATACTTA
1 TATATA-TTA
286686 T-TATTATTA
1 TATA-TATTA
286695 T-TATA-TA
1 TATATATTA
286702 TATATAATTA
1 TATAT-ATTA
286712 TATATA--A
1 TATATATTA
286719 GTATATGATTA
1 -TATAT-ATTA
286730 TATACT-TTA
1 TATA-TATTA
*
286739 TACTTATACTA
1 TA--TATATTA
286750 TATACT-TTA
1 TATA-TATTA
286759 TATATATATA
1 TATATAT-TA
286769 TATATAT
1 TATATAT
286776 ATTTACATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 30
0.70 0.02 0.29
Matches are distributed among these distances:
7 4 0.05
8 11 0.15
9 25 0.34
10 25 0.34
11 8 0.11
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (9 bp):
TATATATTA
Found at i:286751 original size:20 final size:19
Alignment explanation
Indices: 286728--286772 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
286718 AGTATATGAT
286728 TATATACTTTATACT-TATA
1 TATATACTTTATA-TATATA
286747 CTATATACTTTATATATATA
1 -TATATACTTTATATATATA
286767 TATATA
1 TATATA
286773 TATATTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATACTTTATATATATA
Found at i:286835 original size:4 final size:4
Alignment explanation
Indices: 286828--286866 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
286818 TTATCATATG
* *
286828 TACA TACA TACA TGCA TACA T-TA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
286867 CTTTATGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 28 0.93
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:288411 original size:20 final size:20
Alignment explanation
Indices: 288386--288423 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
288376 CACATGTTAA
288386 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
*
288406 AGAATGTATCGATGCACT
1 AGAATGCATCGATGCACT
288424 TTAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:290050 original size:23 final size:23
Alignment explanation
Indices: 289984--290050 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
289974 ACCTTATATG
* *
289984 GCACTTTGGTGCATTTCTACACA
1 GCACTTCGGTGCATTTCTACGCA
* * *
290007 GCACTACGGTGCAATTCTACGTA
1 GCACTTCGGTGCATTTCTACGCA
*
290030 GCACTTCGGTGCATTTATACG
1 GCACTTCGGTGCATTTCTACG
290051 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACGCA
Found at i:291823 original size:20 final size:20
Alignment explanation
Indices: 291798--291850 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
291788 CTTGCAAGAA
291798 TGGTACTGATACCTCCTTAT
1 TGGTACTGATACCTCCTTAT
291818 TGGTACTGATACCTCCTTAT
1 TGGTACTGATACCTCCTTAT
*
291838 TGGTACCGATACC
1 TGGTACTGATACC
291851 CCTGGTAGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (20 bp):
TGGTACTGATACCTCCTTAT
Found at i:292710 original size:14 final size:13
Alignment explanation
Indices: 292691--292723 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
292681 TTACACTTTA
292691 CATACATATCAATT
1 CATACATATC-ATT
292705 CATACATATCATT
1 CATACATATCATT
292718 -ATACAT
1 CATACAT
292724 TATACATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 3 0.16
14 10 0.53
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (13 bp):
CATACATATCATT
Found at i:293718 original size:22 final size:22
Alignment explanation
Indices: 293693--293736 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
293683 TTTAGAATTT
293693 TCTTAACATGTTAATAAAACAC
1 TCTTAACATGTTAATAAAACAC
293715 TCTTAACATGTTAATAAAACAC
1 TCTTAACATGTTAATAAAACAC
293737 ACACCTTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (22 bp):
TCTTAACATGTTAATAAAACAC
Found at i:293884 original size:2 final size:2
Alignment explanation
Indices: 293877--293901 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
293867 TTAGTTTTAG
293877 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 T
293902 TAAAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:294335 original size:16 final size:16
Alignment explanation
Indices: 294314--294348 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
294304 TCAATTACAT
294314 GTCAGGTTCATAACAG
1 GTCAGGTTCATAACAG
*
294330 GTCAGGTTGATAACAG
1 GTCAGGTTCATAACAG
294346 GTC
1 GTC
294349 GGGTAATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (16 bp):
GTCAGGTTCATAACAG
Found at i:294697 original size:32 final size:31
Alignment explanation
Indices: 294635--294697 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
294625 TACGACCCTA
* *
294635 GTTAAAGTTTGATAAATTTAAAGATTATTTT
1 GTTAAAGTTTAATAAATTTAAAGATCATTTT
*
294666 GTTACAGTTTAATAAAATTTAATA-ATCATTTT
1 GTTAAAGTTTAAT-AAATTTAA-AGATCATTTT
294698 ATAATCGAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 11 0.41
32 15 0.56
33 1 0.04
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.48
Consensus pattern (31 bp):
GTTAAAGTTTAATAAATTTAAAGATCATTTT
Found at i:299630 original size:12 final size:12
Alignment explanation
Indices: 299613--299638 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
299603 TTTTCCATAG
299613 GAAAGGGAAAGA
1 GAAAGGGAAAGA
299625 GAAAGGGAAAGA
1 GAAAGGGAAAGA
299637 GA
1 GA
299639 TTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAAAGGGAAAGA
Found at i:309820 original size:32 final size:32
Alignment explanation
Indices: 309774--309865 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 32
309764 ATTAACTTTT
* * *
309774 CAAA-TATTATAAAATACTCATTAAATGT-TAT
1 CAAATTATTACAAAATAATCATTAAAT-TCTAC
*
309805 CACATTATTACAAAATAATCATTAAATTCTAC
1 CAAATTATTACAAAATAATCATTAAATTCTAC
*
309837 CAAATTATTACAAAATAGTCATTATAATT
1 CAAATTATTACAAAATAATCATTA-AATT
309866 ATTAAGCTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.08
32 44 0.85
33 4 0.08
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (32 bp):
CAAATTATTACAAAATAATCATTAAATTCTAC
Found at i:325889 original size:40 final size:39
Alignment explanation
Indices: 325843--325928 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
325833 CGCATCGATC
* * *
325843 GTAAATACATATACCGCACTTAGCAATAACTTTGACTAGT
1 GTAAATACATAAACCACACTCAGCAATAACTTT-ACTAGT
*
325883 GTAAATACATAAACCACACTCGGCAATAACTTTACTAGT
1 GTAAATACATAAACCACACTCAGCAATAACTTTACTAGT
325922 GTAAATA
1 GTAAATA
325929 TTCAAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.31
40 29 0.69
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (39 bp):
GTAAATACATAAACCACACTCAGCAATAACTTTACTAGT
Found at i:326252 original size:60 final size:60
Alignment explanation
Indices: 326157--326289 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 60
326147 ATAGTCGGAC
*
326157 GACCATTTTGTAACTTTTAATAGTCAAATGACTCAATAAAATAACACTC-TATAGTCAATG-
1 GACCATTTTGTAACTTGTAATAGTCAAATGACTCAATAAAATAACA-TCATATAGTC-ATGA
* * * * *
326217 GACCATTTTGTAACTTGTAATTGTTATAA-GCCTCAATAAAATAGCATCATGTAGTCATGA
1 GACCATTTTGTAACTTGTAATAGTCA-AATGACTCAATAAAATAACATCATATAGTCATGA
326277 GACCATTTGTGTA
1 GACCATTT-TGTA
326290 TTTTATCCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 5 0.08
60 52 0.83
61 6 0.10
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (60 bp):
GACCATTTTGTAACTTGTAATAGTCAAATGACTCAATAAAATAACATCATATAGTCATGA
Found at i:328176 original size:3 final size:3
Alignment explanation
Indices: 328161--328196 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
328151 TATATGTCAA
328161 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
328197 AATTTAAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:341915 original size:18 final size:17
Alignment explanation
Indices: 341876--341927 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
341866 AACATGTGTC
* *
341876 TATTATGTAATAATGATC
1 TATTATATAATAAT-ATA
341894 TATTATATAATAATATAA
1 TATTATATAATAATAT-A
*
341912 TATTGTATAAATAATA
1 TATTATAT-AATAATA
341928 ATTAATGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 20 0.69
19 7 0.24
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (17 bp):
TATTATATAATAATATA
Found at i:341938 original size:21 final size:22
Alignment explanation
Indices: 341900--341940 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
341890 GATCTATTAT
341900 ATAATAATATAATATTGTATAA
1 ATAATAATATAATATTGTATAA
*
341922 ATAATAAT-TAATGTTGTAT
1 ATAATAATATAATATTGTAT
341941 CACATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
ATAATAATATAATATTGTATAA
Found at i:347542 original size:35 final size:35
Alignment explanation
Indices: 347495--347564 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
347485 AAAGTAATCC
* *
347495 TCAATTTCATTCTTAACCCCACATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
347530 TCAATTAT-ATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATT-TCATTCTAAACCCCAAATTCCAAAATAAT
347565 CAAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:348153 original size:35 final size:35
Alignment explanation
Indices: 348081--348154 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
348071 CAATATTATT
**
348081 TTGAAGTATTTTAGAATTTGAGGTTTAGAATGTAA
1 TTGAAGTATTTTAGAATTTGAGGTTTAGAATAAAA
* * * *
348116 TTGAATTATTTTGGAATTTGGGGTTTATAATAAAA
1 TTGAAGTATTTTAGAATTTGAGGTTTAGAATAAAA
348151 TTGA
1 TTGA
348155 GGGACCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.45
Consensus pattern (35 bp):
TTGAAGTATTTTAGAATTTGAGGTTTAGAATAAAA
Found at i:351818 original size:28 final size:28
Alignment explanation
Indices: 351787--351845 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
351777 CAAAAAAAAG
*
351787 GATATAACTA-AATTTTTTAAAATTTTGA
1 GATATAA-TACAATTTATTAAAATTTTGA
351815 GATATAATACGAATTTATTAAAATTTTGA
1 GATATAATAC-AATTTATTAAAATTTTGA
351844 GA
1 GA
351846 AGAAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 2 0.07
28 7 0.25
29 19 0.68
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (28 bp):
GATATAATACAATTTATTAAAATTTTGA
Found at i:352180 original size:18 final size:19
Alignment explanation
Indices: 352145--352195 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
352135 TTAACTCTTC
352145 TAAAATGAAATATATATTA
1 TAAAATGAAATATATATTA
* *
352164 TAAAAT-AAATTTGTATTA
1 TAAAATGAAATATATATTA
* *
352182 TTAGATGAAA-ATAT
1 TAAAATGAAATATAT
352196 GAATTGCCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (19 bp):
TAAAATGAAATATATATTA
Found at i:352429 original size:4 final size:4
Alignment explanation
Indices: 352416--352445 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
352406 CTCTCAAGAG
352416 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
352446 AAGAGGGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:358841 original size:5 final size:5
Alignment explanation
Indices: 358831--358861 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
358821 AATAGACTTT
*
358831 ATAAA ATAAA ATAAA ATAAA ATAAA ACAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
358862 AGCTCCCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:365978 original size:15 final size:15
Alignment explanation
Indices: 365958--365989 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
365948 AAAATCTTTC
*
365958 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
365973 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
365988 TT
1 TT
365990 CGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:371115 original size:30 final size:30
Alignment explanation
Indices: 371049--371115 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
371039 GATTGTTGCA
*
371049 GTGACCACCATAGGTCTCCAGGAGCACACG
1 GTGACCTCCATAGGTCTCCAGGAGCACACG
**
371079 ACGACCTCCATAGGTCTCCAGGAGCACACG
1 GTGACCTCCATAGGTCTCCAGGAGCACACG
371109 GTGACCT
1 GTGACCT
371116 ATGAATCACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.15
Consensus pattern (30 bp):
GTGACCTCCATAGGTCTCCAGGAGCACACG
Found at i:379914 original size:13 final size:13
Alignment explanation
Indices: 379896--379920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
379886 GGTCAAAGGA
379896 GGTCAACGGTCAC
1 GGTCAACGGTCAC
379909 GGTCAACGGTCA
1 GGTCAACGGTCA
379921 GGACGGGTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTCAACGGTCAC
Found at i:387134 original size:19 final size:19
Alignment explanation
Indices: 387112--387154 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
387102 GGGCGGGTCA
*
387112 GGTCGGACAGGTTCAGACC
1 GGTCAGACAGGTTCAGACC
* **
387131 GGTCAGACCGGTTTGGACC
1 GGTCAGACAGGTTCAGACC
387150 GGTCA
1 GGTCA
387155 AATCGGTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.37, T:0.19
Consensus pattern (19 bp):
GGTCAGACAGGTTCAGACC
Found at i:397032 original size:14 final size:14
Alignment explanation
Indices: 397013--397064 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
397003 GTGAATGTTC
397013 GGTTATGTTCGTTT
1 GGTTATGTTCGTTT
397027 GGTTATGTTCG--T
1 GGTTATGTTCGTTT
*
397039 --TTATGTTCGTTC
1 GGTTATGTTCGTTT
*
397051 GATTATGTTCGTTT
1 GGTTATGTTCGTTT
397065 ATGTTCATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.28
12 1 0.03
14 22 0.69
ACGTcount: A:0.10, C:0.10, G:0.25, T:0.56
Consensus pattern (14 bp):
GGTTATGTTCGTTT
Found at i:397034 original size:24 final size:24
Alignment explanation
Indices: 397007--397083 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
396997 AGGTTCGTGA
* * *
397007 ATGTTCGGTTATGTTCGTTTGGTT
1 ATGTTCGTTTATGTTCGTTCGATT
397031 ATGTTCGTTTATGTTCGTTCGATT
1 ATGTTCGTTTATGTTCGTTCGATT
*
397055 ATGTTCGTTTATGTTCATTC-ATTT
1 ATGTTCGTTTATGTTCGTTCGA-TT
397079 ATGTT
1 ATGTT
397084 TAACCCAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 1 0.02
24 47 0.98
ACGTcount: A:0.13, C:0.10, G:0.21, T:0.56
Consensus pattern (24 bp):
ATGTTCGTTTATGTTCGTTCGATT
Found at i:397826 original size:16 final size:16
Alignment explanation
Indices: 397805--397871 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
397795 GTCTCCAACG
397805 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
397821 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
397837 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
397853 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
397867 TTTAT
1 TTTAT
397872 TAAATGAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 42 0.86
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:397844 original size:32 final size:32
Alignment explanation
Indices: 397803--397863 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
397793 GGGTCTCCAA
397803 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
*
397835 CGTTTATGTTCGTGTTCGTTTATGTTCGT
1 CGTTTATGTTCGTGTTCATTTATGTTCGT
397864 TTATTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
Found at i:397956 original size:16 final size:16
Alignment explanation
Indices: 397935--397965 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
397925 AATTTTTTTA
397935 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
397951 TTCGTTTATGTTCGT
1 TTCGTTTATGTTCGT
397966 TTATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTG
Found at i:398228 original size:23 final size:23
Alignment explanation
Indices: 398202--398248 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
398192 ATAAATTGAG
398202 TAAATTTTAAACTCATTGGACGA
1 TAAATTTTAAACTCATTGGACGA
* *
398225 TAAATTTTAAATTTATTGGACGA
1 TAAATTTTAAACTCATTGGACGA
398248 T
1 T
398249 TTTAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
TAAATTTTAAACTCATTGGACGA
Found at i:399072 original size:16 final size:16
Alignment explanation
Indices: 399041--399083 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
399031 TGCAGACTGC
*
399041 TAAATGAACT-AAATA
1 TAAATAAACTGAAATA
399056 TAAATAAACTGAAATA
1 TAAATAAACTGAAATA
399072 TAAATAAACTGA
1 TAAATAAACTGA
399084 TTTTTTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (16 bp):
TAAATAAACTGAAATA
Found at i:399204 original size:22 final size:22
Alignment explanation
Indices: 399178--399220 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
399168 TAATAAATTA
399178 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
399200 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
399221 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:399229 original size:22 final size:22
Alignment explanation
Indices: 399180--399228 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
399170 ATAAATTATT
**
399180 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
399202 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
399225 TAAA
1 TAAA
399229 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:399270 original size:26 final size:24
Alignment explanation
Indices: 399234--399621 Score: 124
Period size: 22 Copynumber: 16.2 Consensus size: 24
399224 ATAAATTATT
399234 TAAAATAAATCAATCCATACAACTA
1 TAAAATAAATCAATCCATACAA-TA
* * *
399259 TAATAATAAATCAAT-C-TATATTT
1 TAA-AATAAATCAATCCATACAATA
399282 TAAAATAAATCAATCCATACTAATAAATTA
1 TAAAATAAATCAATCCATAC-----AA-TA
399312 TTTAAAATAAATCAATCCATACAACTA
1 --TAAAATAAATCAATCCATACAA-TA
* *
399339 CAATAATAAATCAATCCAT---ATT
1 TAA-AATAAATCAATCCATACAATA
399361 TAAAATAAATCAATCCATACAA-A
1 TAAAATAAATCAATCCATACAATA
* ** * ** *
399384 TAAATTATTTAAAATAAAT-CAATC
1 TAAAATAAAT-CAATCCATACAATA
* * * *
399408 TATACT-AAT-AA---AT--TATT
1 TAAAATAAATCAATCCATACAATA
* *
399425 TAAAATAAATCAATCCAT--ATTT
1 TAAAATAAATCAATCCATACAATA
* * *
399447 TAAAATAAATCAATTCAT--ATTT
1 TAAAATAAATCAATCCATACAATA
399469 TAAAATAAATCAATCCATACTAATA
1 TAAAATAAATCAATCCATAC-AATA
* * *
399494 -AATTATAAATCAATCCAT--ATTT
1 TAA-AATAAATCAATCCATACAATA
*
399516 TAAAATAAATCAATCCATATTAATAAA
1 TAAAATAAATCAATCCATA-CAAT--A
399543 TTATTTAAA-ATAATCAATCCATACAACTA
1 -TA---AAATA-AATCAATCCATACAA-TA
* * *
399572 CAATAATAAATCAATCCAT--ATTT
1 TAA-AATAAATCAATCCATACAATA
399595 TAAAATAAATCAATCCATACAA-A
1 TAAAATAAATCAATCCATACAATA
399618 TAAA
1 TAAA
399622 TTATTTAAAA
Statistics
Matches: 276, Mismatches: 45, Indels: 86
0.68 0.11 0.21
Matches are distributed among these distances:
17 6 0.02
18 5 0.02
19 2 0.01
21 17 0.06
22 87 0.32
23 26 0.09
24 19 0.07
25 25 0.09
26 39 0.14
27 5 0.02
28 3 0.01
29 2 0.01
30 4 0.01
31 16 0.06
32 20 0.07
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAATAAATCAATCCATACAATA
Found at i:399367 original size:21 final size:21
Alignment explanation
Indices: 399310--399379 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
399300 ACTAATAAAT
399310 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
**
399331 TACAACTACAATAATAAATCAATCCA
1 T---A-TTTAA-AATAAATCAATCCA
399357 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
399378 TA
1 TA
399380 CAAATAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 17 0.43
22 3 0.08
23 1 0.03
24 1 0.03
25 3 0.08
26 15 0.38
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:399379 original size:47 final size:46
Alignment explanation
Indices: 399310--399917 Score: 190
Period size: 47 Copynumber: 12.7 Consensus size: 46
399300 ACTAATAAAT
*
399310 TATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCATACAAATA-AATAATAAATCAATCCA
* *
399357 TATTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAAT-CA
1 TATTTAAAATAAATCAATCCATACAAATAAA-TA-AT-AAATCAATCCA
* * * * * *
399405 -ATCTATACT-AAT-AA---AT--TATTTAA-AATAAATCAATCCA
1 TATTTAAAATAAATCAATCCATACAAATAAATAATAAATCAATCCA
* ** *
399442 TATTTTAAAATAAATCAATTCAT--ATTTTAA-AATAAATCAATCCA
1 TA-TTTAAAATAAATCAATCCATACAAATAAATAATAAATCAATCCA
* * * * **
399486 TACTAATAAATTATAAATCAATCCATATTTTAAAATAAATCAATCCATATTAATAAA
1 TA-T-TTAAA--ATAAATCAATCCATA----CAAATAAAT-AAT--AAATCAATCCA
*
399543 TTATTTAAAAT-AATCAATCCATACAACTACAATAATAAATCAATCCA
1 -TATTTAAAATAAATCAATCCATACAAATA-AATAATAAATCAATCCA
399590 TATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCA
1 TA-TTTAAAATAAATCAATCCATACAAAT-AA--A--T--AATAAATCAATCCA
* * * * *
399644 TA-CT--AATAAAT-TAT--TTA-AAAT--A-AATCAATCCAT--A
1 TATTTAAAATAAATCAATCCATACAAATAAATAATAAATCAATCCA
* *
399678 T-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCATACAAAT-AA--A--T--AATAAATCAATCCA
* * ** **
399730 TATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAA
1 TA-TTTAAAATAAATCAATCCATA----CAAATAAAT-AATAAAT-C-AATCCA
* * ** **
399784 TTATTTAAAATAAATCAATCCATATTTTAAAAAAATCAATCCATACTAATAAA
1 -TATTTAAAATAAATCAATCCATA---CAAATAAAT-AATAAAT-C-AATCCA
* *
399837 TTATTTAAAATAAATCAATCCACACAACTACAATAATAAATCAATCCA
1 -TATTTAAAATAAATCAATCCATACAAATA-AATAATAAATCAATCCA
* *
399885 TTTTTAAAATAAATCAATCCATACTAATAAATA
1 TATTTAAAATAAATCAATCCATACAAATAAATA
399918 TTTAAAATAA
Statistics
Matches: 428, Mismatches: 69, Indels: 129
0.68 0.11 0.21
Matches are distributed among these distances:
34 3 0.01
36 23 0.05
37 5 0.01
38 2 0.00
39 7 0.02
40 10 0.02
41 3 0.01
42 2 0.00
44 24 0.06
45 7 0.02
46 15 0.04
47 91 0.21
48 24 0.06
49 18 0.04
50 28 0.07
51 3 0.01
52 9 0.02
53 68 0.16
54 61 0.14
55 6 0.01
56 4 0.01
57 10 0.02
58 5 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (46 bp):
TATTTAAAATAAATCAATCCATACAAATAAATAATAAATCAATCCA
Found at i:399398 original size:14 final size:14
Alignment explanation
Indices: 399381--399434 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
399371 CAATCCATAC
399381 AAATAAATTATTTA
1 AAATAAATTATTTA
*
399395 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
399412 CTAATAAATTATTTA
1 -AAATAAATTATTTA
399427 AAATAAAT
1 AAATAAAT
399435 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:399398 original size:32 final size:32
Alignment explanation
Indices: 399357--399731 Score: 202
Period size: 32 Copynumber: 12.7 Consensus size: 32
399347 AATCAATCCA
399357 TATTTAAAATAAATCAATCCATACAAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
* *
399389 TATTTAAAATAAATCAATCTATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
*
399421 TATTTAAAATAAATCAATCCATATTTTAAAATAAAT
1 TATTTAAAATAAATCAATCCATA----CAAATAAAT
* *** * * * *
399457 CAATTCATATTTTAAAATAAATCAATCCATACT-AAT
1 -TATT--TAAAAT-AAATCAATCCATACA-AATAAAT
* *
399493 AAATT---ATAAATCAATCCAT----AT----
1 TATTTAAAATAAATCAATCCATACAAATAAAT
**
399514 --TTTAAAATAAATCAATCCATATTAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
* *
399544 TATTTAAAAT-AATCAATCCATACAACTACA-
1 TATTTAAAATAAATCAATCCATACAAATAAAT
399574 -A--T--AATAAATCAATCCAT----AT----
1 TATTTAAAATAAATCAATCCATACAAATAAAT
399593 --TTTAAAATAAATCAATCCATACAAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
*
399623 TATTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
399655 TATTTAAAATAAATCAAT-C---C--AT--A-
1 TATTTAAAATAAATCAATCCATACAAATAAAT
* *
399678 T-TTTAAAATAAATCAATCTATACTAATAAAT
1 TATTTAAAATAAATCAATCCATACAAATAAAT
399709 TATTTAAAATAAATCAATCCATA
1 TATTTAAAATAAATCAATCCATA
399732 TTTTAAAATA
Statistics
Matches: 268, Mismatches: 28, Indels: 94
0.69 0.07 0.24
Matches are distributed among these distances:
19 2 0.01
20 1 0.00
22 46 0.17
23 1 0.00
24 2 0.01
25 3 0.01
26 18 0.07
27 1 0.00
28 3 0.01
29 11 0.04
30 2 0.01
31 18 0.07
32 127 0.47
33 1 0.00
35 3 0.01
36 11 0.04
37 5 0.02
39 3 0.01
40 10 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (32 bp):
TATTTAAAATAAATCAATCCATACAAATAAAT
Found at i:399540 original size:18 final size:20
Alignment explanation
Indices: 399421--399828 Score: 142
Period size: 22 Copynumber: 21.1 Consensus size: 20
399411 ACTAATAAAT
399421 TATTTAAAATAAATCAATCCA
1 TATTT-AAATAAATCAATCCA
*
399442 TATTTTAAAATAAATCAATTCA
1 TA-TTT-AAATAAATCAATCCA
399464 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
399486 TACTAATAAATTATAAATCAATCCA
1 TA-T--TTAA--ATAAATCAATCCA
399511 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
399533 TA-TT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
399546 T-TTAAAAT-AATCAATCCA
1 TATTTAAATAAATCAATCCA
**
399564 TACAACTACAATAATAAATCAATCCA
1 T---A-T-TTA-AATAAATCAATCCA
399590 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
399612 TA--CAAATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
399625 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
399644 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
399657 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
399676 TATTTTAAAATAAATCAATCTA
1 TA-TTT-AAATAAATCAATCCA
*
399698 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
399711 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
399730 TATTTTAAAATAAATCAATTCA
1 TA-TTT-AAATAAATCAATCCA
399752 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
399774 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
399787 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
399806 TATTTTAAAAAAATCAATCCA
1 TA-TTTAAATAAATCAATCCA
399827 TA
1 TA
399829 CTAATAAATT
Statistics
Matches: 298, Mismatches: 30, Indels: 118
0.67 0.07 0.26
Matches are distributed among these distances:
13 14 0.05
14 32 0.11
15 5 0.02
16 1 0.00
17 4 0.01
18 38 0.13
19 8 0.03
20 4 0.01
21 24 0.08
22 126 0.42
23 7 0.02
24 5 0.02
25 19 0.06
26 11 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (20 bp):
TATTTAAATAAATCAATCCA
Found at i:399543 original size:22 final size:22
Alignment explanation
Indices: 399423--399536 Score: 174
Period size: 22 Copynumber: 5.0 Consensus size: 22
399413 TAATAAATTA
399423 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
399445 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
399467 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
**
399490 AATAAATTATAAATCAATCCATAT
1 TTTAAA--ATAAATCAATCCATAT
399514 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
399536 T
1 T
399537 AATAAATTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
22 58 0.70
23 5 0.06
24 5 0.06
25 15 0.18
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:399611 original size:126 final size:123
Alignment explanation
Indices: 399391--399985 Score: 462
Period size: 126 Copynumber: 4.8 Consensus size: 123
399381 AAATAAATTA
* * **
399391 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTACAAAATAAA
* *
399456 TCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATAAATCAATCCATAT
66 TCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATAAATCAATCCATAT
*
399514 TTTAAAATAAATCAATCCATATTAATAAATTATTTAAAAT-AATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ACTACAA-AA
*
399578 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAAT-CA-AT
62 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTA--T-AAATCAATCCATAT
** * * ** * * *
399641 CCATACTAATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-C-TA-TAC-
1 -TTTA-AAATAAATCAATCCATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATACTACA
* *** *
399701 ---T-AATAAAT---TA-TTTAAAATAAATCAATCCATA-TTTTAAA--ATAAATCAATTCATAT
59 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATAAATCAATCCATAT
* **
399755 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA-AAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTACAAAATAAA
* * *
399819 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCACACAACTACAATAATAAATCAATCC
66 TCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACAAATA-AATTATAAATCAATCC
399884 AT-T
120 ATAT
*
399887 TTTAAAATAAATCAATCCATACTAATAAA-TATTTAAAATAAATCAATTCATACTA-ATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTACA-AAA-TA
** * **
399950 TTTAAAATAAATTATTTTAAAATAAATCAATCCATA
64 AAT-CAATCCA-TATTTTAAAATAAATCAATCCATA
399986 TTTTATAATT
Statistics
Matches: 375, Mismatches: 48, Indels: 96
0.72 0.09 0.18
Matches are distributed among these distances:
108 16 0.04
109 3 0.01
110 2 0.01
111 1 0.00
112 20 0.05
113 10 0.03
114 2 0.01
115 7 0.02
117 4 0.01
118 21 0.06
119 2 0.01
122 17 0.05
123 39 0.10
124 1 0.00
125 24 0.06
126 49 0.13
127 3 0.01
128 14 0.04
129 42 0.11
130 3 0.01
131 28 0.07
132 33 0.09
133 24 0.06
134 10 0.03
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (123 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTACAAAATAAA
TCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATAAATCAATCCATAT
Found at i:399794 original size:32 final size:32
Alignment explanation
Indices: 399755--399858 Score: 131
Period size: 32 Copynumber: 3.6 Consensus size: 32
399745 CAATTCATAT
399755 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
399787 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
399809 TTTAAAA-AAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
399840 TTTAAAATAAATCAATCCA
1 TTTAAAATAAATCAATCCA
399859 CACAACTACA
Statistics
Matches: 61, Mismatches: 0, Indels: 22
0.73 0.00 0.27
Matches are distributed among these distances:
21 8 0.13
22 8 0.13
23 1 0.02
24 1 0.02
25 1 0.02
26 2 0.03
27 2 0.03
28 1 0.02
29 1 0.02
30 1 0.02
31 8 0.13
32 27 0.44
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:399819 original size:21 final size:22
Alignment explanation
Indices: 399787--399828 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
399777 TAATAAATTA
399787 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
399809 TTTAAAA-AAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
399829 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:399843 original size:53 final size:54
Alignment explanation
Indices: 399576--399858 Score: 256
Period size: 54 Copynumber: 5.3 Consensus size: 54
399566 CAACTACAAT
*
399576 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * ** * ** **
399630 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
* ** * ** * ** **
399684 AATAAATCAATCTATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
*
399738 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
399792 AATAAATCAATCCATATTTTAAAA-AAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
399845 AATAAATCAATCCA
1 AATAAATCAATCCA
399859 CACAACTACA
Statistics
Matches: 199, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
52 5 0.03
53 54 0.27
54 124 0.62
55 11 0.06
56 5 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:399925 original size:31 final size:32
Alignment explanation
Indices: 399887--399961 Score: 134
Period size: 31 Copynumber: 2.4 Consensus size: 32
399877 TCAATCCATT
399887 TTTAAAATAAATCAATCCATACTAATAAA-TA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
399918 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
399950 TTTAAAATAAAT
1 TTTAAAATAAAT
399962 TATTTTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 28 0.67
32 14 0.33
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:399946 original size:18 final size:18
Alignment explanation
Indices: 399892--399947 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
399882 CCATTTTTAA
*
399892 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
*
399910 AATAAAT--ATT--TA-A
1 AATAAATCAATTCATACT
399923 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
399941 AATAAAT
1 AATAAAT
399948 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
13 7 0.23
14 2 0.07
15 3 0.10
16 2 0.07
17 2 0.07
18 14 0.47
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:399968 original size:78 final size:79
Alignment explanation
Indices: 399679--399985 Score: 311
Period size: 76 Copynumber: 3.9 Consensus size: 79
399669 CAATCCATAT
*
399679 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT--A--AAT-C-TATTTTAAAATAAA
399744 TCAAT---T-C--AT--AT-
60 TCAATCCATACTAATAAATA
399755 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA-AAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT--A--AAT-C-TATTTTAAAATAAA
399819 TCAATCCATACTAATAAATTA
60 TCAATCCATACTAATAAA-TA
* * * *
399840 TTTAAAATAAATCAATCCACAC-AACTACAA-TA-AT-AAATCAATCCATTTTTAAAATAAATCA
1 TTTAAAATAAATCAATCCATACTAA-TA-AATTATTTAAAATAAATCTA-TTTTAAAATAAATCA
399901 ATCCATACTAATAAATA
63 ATCCATACTAATAAATA
*
399918 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT-TATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCTATTTTAAAATAAATCAATC
399982 CATA
66 CATA
399986 TTTTATAATT
Statistics
Matches: 203, Mismatches: 10, Indels: 34
0.82 0.04 0.14
Matches are distributed among these distances:
75 8 0.04
76 60 0.30
77 3 0.01
78 58 0.29
79 29 0.14
80 7 0.03
81 2 0.01
83 5 0.02
84 4 0.02
85 25 0.12
86 2 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (79 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCTATTTTAAAATAAATCAATC
CATACTAATAAATA
Found at i:400022 original size:29 final size:29
Alignment explanation
Indices: 399990--400068 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
399980 TCCATATTTT
* *
399990 ATAATTTATTTTAAAGTAAATTA-TTTATA
1 ATAAATTATTTTAAA-TAAATTATTTTAAA
400019 ATAAATTATTTTATAAT-AATTATTTTAAA
1 ATAAATTATTTTA-AATAAATTATTTTAAA
400048 ATAAATTATTTTAAAATAAAT
1 ATAAATTATTTT-AAATAAAT
400069 ACCTTATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 5 0.11
29 33 0.75
30 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
ATAAATTATTTTAAATAAATTATTTTAAA
Found at i:400049 original size:77 final size:77
Alignment explanation
Indices: 399679--400053 Score: 273
Period size: 78 Copynumber: 4.8 Consensus size: 77
399669 CAATCCATAT
399679 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAAT-TATACTAATAAATTATTTAAAAT--A--AAT---TATTTTAAAATAAA
399744 TCAAT---T-C--AT--AT-
58 TCAATCCATACTAATAAATA
*
399755 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA-AAA
1 TTTAAAATAAATCAAT-TATACTAATAAATTATTTAAAAT--A--AAT---TATTTTAAAATAAA
399819 TCAATCCATACTAATAAATTA
58 TCAATCCATACTAATAAA-TA
* * * * *
399840 TTTAAAATAAATCAATCCACAC-AACTACAA-TA-AT-AAATCAATCCATTTTTAAAATAAATCA
1 TTTAAAATAAATCAAT-TATACTAA-TA-AATTATTTAAAATAAAT-TA-TTTTAAAATAAATCA
399901 ATCCATACTAATAAATA
61 ATCCATACTAATAAATA
399918 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTATTTTAAAATAAATCAATCC
1 TTTAAAATAAATCAATT-ATACTAATAAATTATTTAAAATAAATTATTTTAAAATAAATCAATCC
* * *
399983 ATATTTTATAATTTA
65 ATA-CTAATAA-ATA
* * *
399998 TTTTAAAGTAAAT-TATT-TA-TAATAAATTATTTTATAAT-AATTATTTTAAAATAAAT
1 -TTTAAAATAAATCAATTATACTAATAAATTA-TTTAAAATAAATTATTTTAAAATAAAT
400054 TATTTTAAAA
Statistics
Matches: 259, Mismatches: 17, Indels: 45
0.81 0.05 0.14
Matches are distributed among these distances:
75 8 0.03
76 60 0.23
77 31 0.12
78 65 0.25
79 34 0.13
80 12 0.05
81 13 0.05
83 5 0.02
84 4 0.02
85 25 0.10
86 2 0.01
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (77 bp):
TTTAAAATAAATCAATTATACTAATAAATTATTTAAAATAAATTATTTTAAAATAAATCAATCCA
TACTAATAAATA
Found at i:400053 original size:43 final size:43
Alignment explanation
Indices: 399983--400089 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
399973 AAATCAATCC
* *
399983 ATATTTTATAAT--TTATTTTAAAGTAAATTA-TTTATAATAA
1 ATATTTTATAATAATTATTTTAAAATAAATTATTTTAAAATAA
400023 ATTATTTTATAATAATTATTTTAAAATAAATTATTTTAAAATAA
1 A-TATTTTATAATAATTATTTTAAAATAAATTATTTTAAAATAA
** *
400067 ATACCTTATTA-AATTATTTTAAA
1 ATATTTTATAATAATTATTTTAAA
400090 TTATTTTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.02
41 11 0.19
42 12 0.21
43 24 0.41
44 10 0.17
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (43 bp):
ATATTTTATAATAATTATTTTAAAATAAATTATTTTAAAATAA
Found at i:400076 original size:19 final size:15
Alignment explanation
Indices: 399941--400068 Score: 122
Period size: 15 Copynumber: 8.5 Consensus size: 15
399931 AATTCATACT
399941 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
399955 AATAAATTATTTTAA
1 AATAAATTATTTTAA
399970 AATAAATCAATCCATATTT--
1 AATAAAT---T--AT-TTTAA
* *
399989 TATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
400004 AGTAAATTA-TTTAT
1 AATAAATTATTTTAA
*
400018 AATAAATTATTTTAT
1 AATAAATTATTTTAA
400033 AAT-AATTATTTTAA
1 AATAAATTATTTTAA
400047 AATAAATTATTTTAA
1 AATAAATTATTTTAA
400062 AATAAAT
1 AATAAAT
400069 ACCTTATTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.03
14 36 0.38
15 44 0.46
16 1 0.01
18 1 0.01
19 5 0.05
20 2 0.02
21 3 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:400634 original size:2 final size:2
Alignment explanation
Indices: 400627--400651 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
400617 ACATACATAC
400627 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
400652 CTTACTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:401156 original size:11 final size:11
Alignment explanation
Indices: 401142--401197 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
401132 AATATATAGT
401142 TTTTGAAAATA
1 TTTTGAAAATA
401153 TTTTGAAAATA
1 TTTTGAAAATA
*
401164 TATAT-AATATATA
1 T-TTTGAA-A-ATA
401177 GTTTTTGAAAATA
1 --TTTTGAAAATA
401190 TTTTGAAA
1 TTTTGAAA
401198 GTATATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
11 22 0.59
12 3 0.08
13 6 0.16
14 3 0.08
15 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:401163 original size:28 final size:27
Alignment explanation
Indices: 401100--401168 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
401090 GGGTGCTATT
*
401100 TATAATATATATATTTTTGAAAACATA
1 TATAAAATATATATTTTTGAAAACATA
* *
401127 TATATAATATATAGTTTTTGAAAATAT-
1 TATAAAATATATA-TTTTTGAAAACATA
*
401154 TTTGAAAATATATAT
1 TAT-AAAATATATAT
401169 AATATATAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (27 bp):
TATAAAATATATATTTTTGAAAACATA
Found at i:401174 original size:37 final size:37
Alignment explanation
Indices: 401114--401391 Score: 255
Period size: 37 Copynumber: 8.1 Consensus size: 37
401104 ATATATATAT
401114 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAATA
401153 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
* *** *
401190 TTTTG-AAA-GTATAT-ATATATAGTTTTTGATTTTT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
401224 TTTTGAAAATATATATAATATATAATTTTTG--AA-A
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
401258 -----AAAATATATA-AA-ATATAGTTTTTG-AAA--
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
401285 ------ACATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
* *
401316 TTTTGAATATATATAT-ATAATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAAT-ATATAGTTTTTGAAAATA
*
401353 TTTTTGAAAATATATAT--TATATAGTTTTTAAAAATA
1 -TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
401389 TTT
1 TTT
401392 ATATATTATA
Statistics
Matches: 205, Mismatches: 17, Indels: 38
0.79 0.07 0.15
Matches are distributed among these distances:
26 8 0.04
27 13 0.06
28 16 0.08
29 13 0.06
34 21 0.10
35 11 0.05
36 26 0.13
37 74 0.36
38 18 0.09
39 5 0.02
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
Found at i:401298 original size:126 final size:125
Alignment explanation
Indices: 401153--401386 Score: 341
Period size: 126 Copynumber: 1.9 Consensus size: 125
401143 TTTGAAAATA
*
401153 TTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAA-A-GTATATAT-ATATAGTTT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAATATATATATATAATATAGTTT
****
401215 TTG-ATTTTTTTTTGAAAATATATATAATATATAATTTTTGAAAAAAATATATAAAATATAGT
66 TTGAAAACATTTTTGAAAATATATAT--TATATAATTTTT-AAAAAAATATATAAAATATAGT
401277 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATATTTTGAATATATATATATAATATAGT
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAATATTTTGAATATATATATATAATATAGT
*
401342 TTTTGAAAACATTTTTGAAAATATATATTATATAGTTTTTAAAAA
64 TTTTGAAAACATTTTTGAAAATATATATTATATAATTTTTAAAAA
401387 TATTTATATA
Statistics
Matches: 98, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
124 5 0.05
125 3 0.03
126 36 0.37
127 6 0.06
128 18 0.18
129 12 0.12
130 18 0.18
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (125 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAATATATATATATAATATAGTTT
TTGAAAACATTTTTGAAAATATATATTATATAATTTTTAAAAAAATATATAAAATATAGT
Found at i:401328 original size:26 final size:27
Alignment explanation
Indices: 401223--401313 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
401213 TTTTGATTTT
*
401223 TTTTTG-AAAATATATATAATATATAA
1 TTTTTGAAAAATATATATAATATATAG
* *
401249 TTTTTGAAAAAAATATATAAAATATAG
1 TTTTTGAAAAATATATATAATATATAG
401276 TTTTTGAAAACATATATATAATATATAG
1 TTTTTGAAAA-ATATATATAATATATAG
401304 TTTTTGAAAA
1 TTTTTGAAAA
401314 TATTTTGAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 6 0.10
27 27 0.47
28 25 0.43
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (27 bp):
TTTTTGAAAAATATATATAATATATAG
Found at i:401375 original size:36 final size:38
Alignment explanation
Indices: 401287--401391 Score: 153
Period size: 36 Copynumber: 2.8 Consensus size: 38
401277 TTTTGAAAAC
*
401287 ATATATATAATATATAGTTTTTGAAAATA-TTTTGAAT
1 ATATATATATTATATAGTTTTTGAAAATATTTTTGAAT
* *
401324 ATATATATATAATATAGTTTTTGAAAACATTTTTGAA-
1 ATATATATATTATATAGTTTTTGAAAATATTTTTGAAT
*
401361 A-ATATATATTATATAGTTTTTAAAAATATTT
1 ATATATATATTATATAGTTTTTGAAAATATTT
401392 ATATATTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
36 27 0.44
37 27 0.44
38 7 0.11
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.49
Consensus pattern (38 bp):
ATATATATATTATATAGTTTTTGAAAATATTTTTGAAT
Found at i:401385 original size:23 final size:22
Alignment explanation
Indices: 401353--401396 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
401343 TTTGAAAACA
401353 TTTTTGAAAATATATATTATATAG
1 TTTTTGAAAA-ATAT-TTATATAG
401377 TTTTT-AAAAATATTTATATA
1 TTTTTGAAAAATATTTATATA
401397 TTATAGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 4 0.20
24 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTTGAAAAATATTTATATAG
Found at i:401386 original size:24 final size:26
Alignment explanation
Indices: 401353--401403 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
401343 TTTGAAAACA
*
401353 TTTTTGAAAATATATAT-TA-TATAG
1 TTTTTAAAAATATATATATATTATAG
*
401377 TTTTTAAAAATATTTATATATTATAG
1 TTTTTAAAAATATATATATATTATAG
401403 T
1 T
401404 ATTATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
25 2 0.09
26 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
TTTTTAAAAATATATATATATTATAG
Found at i:401407 original size:36 final size:35
Alignment explanation
Indices: 401290--401410 Score: 136
Period size: 36 Copynumber: 3.3 Consensus size: 35
401280 TGAAAACATA
*
401290 TATATAATATATAGTTTTTGAAAATATTTTGAATAT
1 TATATATTATATAGTTTTTGAAAATATTTTG-ATAT
* * * *
401326 ATATATATAATATAGTTTTTGAAAACATTTTTGAAAA
1 -TATATATTATATAGTTTTTGAAAATA-TTTTGATAT
*
401363 TATATATTATATAGTTTTTAAAAATATTTAT-ATAT
1 TATATATTATATAGTTTTTGAAAATATTT-TGATAT
401398 TATAGTATTATAT
1 TATA-TATTATAT
401411 TTATTATATT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
35 9 0.13
36 32 0.45
37 25 0.35
38 5 0.07
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.50
Consensus pattern (35 bp):
TATATATTATATAGTTTTTGAAAATATTTTGATAT
Found at i:401417 original size:17 final size:18
Alignment explanation
Indices: 401395--401435 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
401385 AATATTTATA
401395 TATTATAGTATTAT-ATT
1 TATTATAGTATTATAATT
* *
401412 TATTATATTATTGTAATT
1 TATTATAGTATTATAATT
401430 TATTAT
1 TATTAT
401436 TTATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TATTATAGTATTATAATT
Found at i:401421 original size:22 final size:24
Alignment explanation
Indices: 401386--401442 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
401376 GTTTTTAAAA
401386 ATATTTA-TATATTATAGT-A-TT
1 ATATTTATTATATTATAGTAATTT
*
401407 ATATTTATTATATTATTGTAATTT
1 ATATTTATTATATTATAGTAATTT
401431 ATTATTTATTAT
1 A-TATTTATTAT
401443 TTTTTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 7 0.23
22 10 0.32
23 1 0.03
24 3 0.10
25 10 0.32
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATATTTATTATATTATAGTAATTT
Found at i:401423 original size:25 final size:24
Alignment explanation
Indices: 401390--401442 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
401380 TTAAAAATAT
*
401390 TTATATATTATAGTATTA-TATTTA
1 TTATATATTATAAT-TTATTATTTA
*
401414 TTATATTATTGTAATTTATTATTTA
1 TTATA-TATTATAATTTATTATTTA
401439 TTAT
1 TTAT
401443 TTTTTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTATATATTATAATTTATTATTTA
Found at i:402691 original size:16 final size:17
Alignment explanation
Indices: 402660--402692 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
402650 GTCCTTTCTT
402660 TATTTAATTCATGTTTA
1 TATTTAATTCATGTTTA
402677 TATTTAATT-ATGTTTA
1 TATTTAATTCATGTTTA
402693 AAGAGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TATTTAATTCATGTTTA
Found at i:402766 original size:21 final size:21
Alignment explanation
Indices: 402727--402768 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
402717 TTGATTCTAC
** *
402727 ATTTTTATTTATTTTATTTTT
1 ATTTTTATTTAACTGATTTTT
402748 ATTTTTATTTAACTGATTTTT
1 ATTTTTATTTAACTGATTTTT
402769 TCTGTCTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
ATTTTTATTTAACTGATTTTT
Found at i:404415 original size:64 final size:64
Alignment explanation
Indices: 404347--404503 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 64
404337 TTGAAGGTGT
* ** * *
404347 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGTG
404410 C
64 C
** *
404411 ATCGATGCATAAATAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
*
404475 ATCGATGCATAAGGCA-TGCATCGATGCAT
1 ATCGATGCAT-AGGTAGTGCATCGATGCAT
404504 AAGGCATGCA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
64 72 0.91
65 7 0.09
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
Found at i:404496 original size:19 final size:19
Alignment explanation
Indices: 404472--404522 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
404462 ATGCAATTAG
404472 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
404491 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
404510 TGCATCGATGCAT
1 TGCATCGATGCAT
404523 CCTAGTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (19 bp):
TGCATCGATGCATAAGGCA
Found at i:404499 original size:83 final size:83
Alignment explanation
Indices: 404407--404587 Score: 208
Period size: 83 Copynumber: 2.2 Consensus size: 83
404397 AATGCAATTT
* * *
404407 GTGCATCGATGCATAA-ATAGTGCATCGATGCATCCCATTAATAAGGA-AACATCGAATGCA-AT
1 GTGCATCGATGCATAAGACA-TGCATCGATGCATCCCAGTAATAA-GACAACATCGAATACATAT
*
404469 TAGTGCATCGATGCATAAGGCA
64 TA-TGCACCGATGCATAA-GCA
* * * *
404491 -TGCATCGATGCATAAGGCATGCATCGATGCATCCTAGTAATAATACAACATCGAATACATTTTA
1 GTGCATCGATGCATAAGACATGCATCGATGCATCCCAGTAATAAGACAACATCGAATACATATTA
* *
404555 TGCACCGATGCATCAGTA
66 TGCACCGATGCATAAGCA
404573 GTGCATCGATGCATA
1 GTGCATCGATGCATA
404588 CCTTCATTAA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
82 3 0.04
83 76 0.92
84 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (83 bp):
GTGCATCGATGCATAAGACATGCATCGATGCATCCCAGTAATAAGACAACATCGAATACATATTA
TGCACCGATGCATAAGCA
Found at i:405516 original size:104 final size:103
Alignment explanation
Indices: 405337--405658 Score: 626
Period size: 103 Copynumber: 3.1 Consensus size: 103
405327 GTCGAGGGTC
405337 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
405402 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
405440 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCGGGATATATATGTATTCTTT-GGAACATGTGTGAAGTCTGGTGAGACACATA
405505 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
65 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
405544 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
405609 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
405647 TATGTGGTCCTT
1 TATGTGGTCCTT
405659 ATGGACATTA
Statistics
Matches: 217, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
103 114 0.53
104 103 0.47
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:405710 original size:23 final size:23
Alignment explanation
Indices: 405684--405737 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
405674 TGGCACTACA
405684 GTGCAATTCTACGCGACACTCCG
1 GTGCAATTCTACGCGACACTCCG
* * *
405707 GTGCAATTCTACGTGGCACTTCG
1 GTGCAATTCTACGCGACACTCCG
405730 GTGCAATT
1 GTGCAATT
405738 ATATGAGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (23 bp):
GTGCAATTCTACGCGACACTCCG
Found at i:409428 original size:64 final size:64
Alignment explanation
Indices: 409360--409580 Score: 250
Period size: 64 Copynumber: 3.5 Consensus size: 64
409350 TTGAAGGTGT
** **
409360 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTTGTG
409423 C
64 C
** * *
409424 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTAC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
* * * * * *
409488 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
* *
409552 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
409581 ACCTTCATTA
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
63 2 0.02
64 123 0.93
65 7 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTTGTGC
Found at i:410511 original size:104 final size:103
Alignment explanation
Indices: 410332--410653 Score: 617
Period size: 103 Copynumber: 3.1 Consensus size: 103
410322 GTCGAGGGTC
410332 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
410397 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
*
410435 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGGAATATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCGGGATATATATGTATTCTTT-GGAACATGTGTGAAGTCTGGTGAGACACATA
410500 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
65 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
410539 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
410604 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
410642 TATGTGGTCCTT
1 TATGTGGTCCTT
410654 ATGGACATTA
Statistics
Matches: 215, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
103 113 0.53
104 102 0.47
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:410703 original size:23 final size:23
Alignment explanation
Indices: 410670--410732 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
410660 ATTATTATAT
410670 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
410693 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
**
410716 GGCACTTTGGTGCAATT
1 GGCACTACGGTGCAATT
410733 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:412786 original size:24 final size:24
Alignment explanation
Indices: 412754--412826 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
412744 AGTCTTCCTG
*
412754 ATGATATATAAAACATCTATGTAC
1 ATGACATATAAAACATCTATGTAC
*
412778 ATGACATATAAAACATCTATGTAA
1 ATGACATATAAAACATCTATGTAC
* *
412802 ATGACGTATAAAACATATATGTAC
1 ATGACATATAAAACATCTATGTAC
412826 A
1 A
412827 ATGTCATGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (24 bp):
ATGACATATAAAACATCTATGTAC
Found at i:424840 original size:9 final size:9
Alignment explanation
Indices: 424826--424854 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
424816 GAACTTGAGG
424826 ATTTGAATT
1 ATTTGAATT
424835 ATTTGAATT
1 ATTTGAATT
424844 ATTTGAATT
1 ATTTGAATT
424853 AT
1 AT
424855 GGAGAGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (9 bp):
ATTTGAATT
Found at i:425282 original size:501 final size:501
Alignment explanation
Indices: 424340--425332 Score: 1968
Period size: 501 Copynumber: 2.0 Consensus size: 501
424330 AAACTATGAC
424340 ATTATTTGAATTATGGAGAGGAGTCGGATACTCTCCACTTTTGGCATTTCGACAGTATGGGGCAC
1 ATTATTTGAATTATGGAGAGGAGTCGGATACTCTCCACTTTTGGCATTTCGACAGTATGGGGCAC
424405 ACCAGTTTATCCCAACAACACACGGAATATCTGGATCATAATTCACATATCATGGGGACAACTAC
66 ACCAGTTTATCCCAACAACACACGGAATATCTGGATCATAATTCACATATCATGGGGACAACTAC
424470 AAGAAAATGGTCAAAGAAGTAGCTGAGTCATGGAAGAAAATGTTATGTATGGATTTCATGGCCGC
131 AAGAAAATGGTCAAAGAAGTAGCTGAGTCATGGAAGAAAATGTTATGTATGGATTTCATGGCCGC
424535 TAGGGACATGCTTACTCTAGACTATTTAGAATGGTGGAGGTTAAGGAAAAATGACACAATCCCCG
196 TAGGGACATGCTTACTCTAGACTATTTAGAATGGTGGAGGTTAAGGAAAAATGACACAATCCCCG
424600 TGCCAGATTATGAAAACACTCGAACCATGAAAGAACATCTTAAGCATGTTCCCTCCGAACTAGAG
261 TGCCAGATTATGAAAACACTCGAACCATGAAAGAACATCTTAAGCATGTTCCCTCCGAACTAGAG
424665 ATAGCAAGGAATTAATTTGAAGCTGAAAAAATAGGAGCTGAAACAAAGTCTAAGGGAACTCGAGG
326 ATAGCAAGGAATTAATTTGAAGCTGAAAAAATAGGAGCTGAAACAAAGTCTAAGGGAACTCGAGG
424730 CTGAAAGATTCCAGTGGAAGTTGGATGTTGATACCCAAAAGGATCGGACAGACAAGTTAGAGAGA
391 CTGAAAGATTCCAGTGGAAGTTGGATGTTGATACCCAAAAGGATCGGACAGACAAGTTAGAGAGA
424795 GAACAAAAGAAAATTTGTTTTGAACTTGAGGATTTGAATTATTTGA
456 GAACAAAAGAAAATTTGTTTTGAACTTGAGGATTTGAATTATTTGA
424841 ATTATTTGAATTATGGAGAGGAGTCGGATACTCTCCACTTTTGGCATTTCGACAGTATGGGGCAC
1 ATTATTTGAATTATGGAGAGGAGTCGGATACTCTCCACTTTTGGCATTTCGACAGTATGGGGCAC
424906 ACCAGTTTATCCCAACAACACACGGAATATCTGGATCATAATTCACATATCATGGGGACAACTAC
66 ACCAGTTTATCCCAACAACACACGGAATATCTGGATCATAATTCACATATCATGGGGACAACTAC
424971 AAGAAAATGGTCAAAGAAGTAGCTGAGTCATGGAAGAAAATGTTATGTATGGATTTCATGGCCGC
131 AAGAAAATGGTCAAAGAAGTAGCTGAGTCATGGAAGAAAATGTTATGTATGGATTTCATGGCCGC
425036 TAGGGACATGCTTACTCTAGACTATTTAGAATGGTGGAGGTTAAGGAAAAATGACACAATCCCCG
196 TAGGGACATGCTTACTCTAGACTATTTAGAATGGTGGAGGTTAAGGAAAAATGACACAATCCCCG
*
425101 TGCCAGATTATGAAAACACTCGAACCATGGAAGAACATCTTAAGCATGTTCCCTCCGAACTAGAG
261 TGCCAGATTATGAAAACACTCGAACCATGAAAGAACATCTTAAGCATGTTCCCTCCGAACTAGAG
*
425166 ATAGCAAGGAATTAATTTGAAGCTGAAAAAATAGGAGCTGAAACAAAGTCTAAGGGAACTTGAGG
326 ATAGCAAGGAATTAATTTGAAGCTGAAAAAATAGGAGCTGAAACAAAGTCTAAGGGAACTCGAGG
425231 CTGAAAGATTCCAGTGGAAGTTGGATGTTGATACCCAAAAGGATCGGACAGACAAGTTAGAGAGA
391 CTGAAAGATTCCAGTGGAAGTTGGATGTTGATACCCAAAAGGATCGGACAGACAAGTTAGAGAGA
425296 GAACAAAAGAAAATTTGTTTTGAACTTGAGGATTTGA
456 GAACAAAAGAAAATTTGTTTTGAACTTGAGGATTTGA
425333 TAAAAGGATA
Statistics
Matches: 490, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
501 490 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (501 bp):
ATTATTTGAATTATGGAGAGGAGTCGGATACTCTCCACTTTTGGCATTTCGACAGTATGGGGCAC
ACCAGTTTATCCCAACAACACACGGAATATCTGGATCATAATTCACATATCATGGGGACAACTAC
AAGAAAATGGTCAAAGAAGTAGCTGAGTCATGGAAGAAAATGTTATGTATGGATTTCATGGCCGC
TAGGGACATGCTTACTCTAGACTATTTAGAATGGTGGAGGTTAAGGAAAAATGACACAATCCCCG
TGCCAGATTATGAAAACACTCGAACCATGAAAGAACATCTTAAGCATGTTCCCTCCGAACTAGAG
ATAGCAAGGAATTAATTTGAAGCTGAAAAAATAGGAGCTGAAACAAAGTCTAAGGGAACTCGAGG
CTGAAAGATTCCAGTGGAAGTTGGATGTTGATACCCAAAAGGATCGGACAGACAAGTTAGAGAGA
GAACAAAAGAAAATTTGTTTTGAACTTGAGGATTTGAATTATTTGA
Found at i:435180 original size:83 final size:83
Alignment explanation
Indices: 435041--435194 Score: 211
Period size: 83 Copynumber: 1.9 Consensus size: 83
435031 ACAATGAAGG
*
435041 ACATCCAATTCAAATCTCAACTTCACAGCGAATGAGCCATCCACAATTTCAACTTCAC-AATGAA
1 ACATCCAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACAATTTCAACTTCACGAA-GAA
435105 AGATATTAAACTCGAAGCA
65 AGATATTAAACTCGAAGCA
* * ** ** * *
435124 ACATCCAATTCTAAGCTCAACTTCACATCGAATGAGTTATCCATGATTTTAACTTCACGAAGAAT
1 ACATCCAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACAATTTCAACTTCACGAAGAAA
435189 GATATT
66 GATATT
435195 GTATGGATTG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 59 0.97
84 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.27
Consensus pattern (83 bp):
ACATCCAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACAATTTCAACTTCACGAAGAAA
GATATTAAACTCGAAGCA
Done.