Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold65
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: 3097370
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.31
Warning! 315397 characters in sequence are not A, C, G, or T
File 1 of 17
Found at i:2618 original size:25 final size:25
Alignment explanation
Indices: 2566--2618 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
2556 ATTTATTTAT
**
2566 TTATTTGAGATAAAATAATCAATTA
1 TTATTTGAGATAAAATAATCAAAAA
*
2591 TTATTATG-GATAAAATAATGAAAAA
1 TTATT-TGAGATAAAATAATCAAAAA
2616 TTA
1 TTA
2619 ATAATAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (25 bp):
TTATTTGAGATAAAATAATCAAAAA
Found at i:2682 original size:2 final size:2
Alignment explanation
Indices: 2675--2727 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
2665 GGAAGTGAAC
*
2675 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2717 AT AT AT TT AT A
1 AT AT AT AT AT A
2728 GGTATCAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8239 original size:2 final size:2
Alignment explanation
Indices: 8232--8283 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
8222 GATCTGAATT
*
8232 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8274 GA GA GA GA GA
1 GA GA GA GA GA
8284 CAGCAATGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12498 original size:12 final size:12
Alignment explanation
Indices: 12483--12508 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12473 TAAGTTGTTA
12483 CATGAGAAAAAG
1 CATGAGAAAAAG
12495 CATGAGAAAAAG
1 CATGAGAAAAAG
12507 CA
1 CA
12509 CCATTTACGA
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:0.12, G:0.23, T:0.08
Consensus pattern (12 bp):
CATGAGAAAAAG
Found at i:13422 original size:24 final size:24
Alignment explanation
Indices: 13393--13450 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
13383 AATAAGGTAG
13393 GTTTGCAGCTATAGGCAGTACGTA
1 GTTTGCAGCTATAGGCAGTACGTA
13417 GTTTGCAGCTATAGGCAGTACGTA
1 GTTTGCAGCTATAGGCAGTACGTA
*
13441 ATTTGCAGCT
1 GTTTGCAGCT
13451 CTTCAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (24 bp):
GTTTGCAGCTATAGGCAGTACGTA
Found at i:16309 original size:22 final size:23
Alignment explanation
Indices: 16275--16319 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
16265 AAAAAAAAAA
16275 AAAAAAAAAAAAG-GGGCTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
** *
16297 AAAAAAACCAAAGTGGGTTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
16320 GATTGAGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (23 bp):
AAAAAAAAAAAAGTGGGCTTTCC
Found at i:17108 original size:2 final size:2
Alignment explanation
Indices: 17095--17129 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17085 TTATTTTATT
*
17095 TA TA TG TA 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 TA TA TA TA T
17130 TTTGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24566 original size:30 final size:31
Alignment explanation
Indices: 24526--24583 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
24516 GTACTGTGAC
*
24526 CTTTTCAAAGTCCACGACTCAGTGGCATTTT
1 CTTTTCAAAGTCCACAACTCAGTGGCATTTT
*
24557 CTTTT-AAAGTCCACAACTCCGTGGCAT
1 CTTTTCAAAGTCCACAACTCAGTGGCAT
24584 CCTTTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (31 bp):
CTTTTCAAAGTCCACAACTCAGTGGCATTTT
Found at i:24618 original size:46 final size:46
Alignment explanation
Indices: 24551--24644 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
24541 GACTCAGTGG
* * *
24551 CATTTTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTTCA
1 CATTTTCTTTGAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
24597 CATTTTCTTTGAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 CATTTTCTTTGAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
24643 CA
1 CA
24645 ACTCCGTGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (46 bp):
CATTTTCTTTGAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
Found at i:24642 original size:27 final size:27
Alignment explanation
Indices: 24609--25449 Score: 1457
Period size: 27 Copynumber: 30.9 Consensus size: 27
24599 TTTTCTTTGA
24609 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
24636 AAGTCCACAACTCCGTGGCACCCTTTC
1 AAGTCCACAACTCCGTGGCACCCTTTT
**
24663 AAGTCCACAACTCCGTGGCATTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
24690 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
24717 AAGTCCACAACTCCGTGGCATCCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
*
24745 AAGTCCACAACTCCGTGGCCCCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
24772 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
24799 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
24826 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
24853 AAGTCCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
*
24881 AAGTCCACAACTCCGTGGCCCCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
24908 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
24935 AAGTCCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
*
24963 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
24990 AAGTCCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
25018 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
25045 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
25072 AAGTCCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
*
25100 AAGTTCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
25128 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
25155 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
25182 AAGTCCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
*
25210 AAGTTCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
25237 AGGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
25264 AAGTCCACAACTCCGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
25291 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
25318 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
25346 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
25373 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
25400 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
25427 AAATCCACAACTCTGTGGCACCC
1 AAGTCCACAACTCCGTGGCACCC
25450 ATTCCAAAGC
Statistics
Matches: 775, Mismatches: 32, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
27 567 0.73
28 208 0.27
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.27
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:24790 original size:82 final size:81
Alignment explanation
Indices: 24609--25449 Score: 1457
Period size: 82 Copynumber: 10.3 Consensus size: 81
24599 TTTTCTTTGA
*
24609 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCAAGTCCACAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
**
24674 TCCGTGGCATTCTTTT
66 TCCGTGGCACCCTTTT
* *
24690 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAA
*
24755 CTCCGTGGCCCCCTTTT
65 CTCCGTGGCACCCTTTT
24772 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
*
24837 TCCGTGGCATCCTTTT
66 TCCGTGGCACCCTTTT
*
24853 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCCCCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
24918 CTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTT
*
24935 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
25000 CTCCGTGGCATCCCTTTT
65 CTCCGTGGCA-CCCTTTT
25018 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
25083 TCCGTGGCATCCCTTTT
66 TCCGTGGCA-CCCTTTT
*
25100 AAGTTCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
25165 CTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTT
* *
25182 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTTCACAACTCCGTGGCACCCTTTTAGGTCCACAA
1 AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
25247 CTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTT
* *
25264 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAA
25329 CTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTT
25346 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
*
25411 TCCGTGGCATCCTTTT
66 TCCGTGGCACCCTTTT
* *
25427 AAATCCACAACTCTGTGGCACCC
1 AAGTCCACAACTCCGTGGCACCC
25450 ATTCCAAAGC
Statistics
Matches: 727, Mismatches: 28, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
81 175 0.24
82 471 0.65
83 81 0.11
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.27
Consensus pattern (81 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
TCCGTGGCACCCTTTT
Found at i:24799 original size:109 final size:108
Alignment explanation
Indices: 24609--25449 Score: 1457
Period size: 109 Copynumber: 7.7 Consensus size: 108
24599 TTTTCTTTGA
*
24609 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCAAGTCCACAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
** *
24674 TCCGTGGCATTCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
66 TCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
24717 AAGTCCACAACTCCGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCCCCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
24782 CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
24826 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAA
*
24891 CTCCGTGGCCCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
24935 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
25000 CTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
65 CTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
25045 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTTCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAA
25110 CTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
65 CTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
25155 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTTCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAA
*
25220 CTCCGTGGCACCCTTTTAGGTCCACAACTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
25264 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAA
25329 CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
25373 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
*
25438 TCTGTGGCACCC
66 TCCGTGGCACCC
25450 ATTCCAAAGC
Statistics
Matches: 702, Mismatches: 25, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
108 72 0.10
109 415 0.59
110 215 0.31
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.27
Consensus pattern (108 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
TCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:25490 original size:32 final size:32
Alignment explanation
Indices: 25432--26320 Score: 1123
Period size: 32 Copynumber: 28.8 Consensus size: 32
25422 CTTTTAAATC
* * *
25432 CACAACTCTGTGGC-ACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
25463 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
25495 CACAAGTCGGTGGCAACCCATTTC-AAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
25524 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
25554 CACAAGTTGGTGGCATATCC-TTTC-AAG--C-
1 CACAAGTCGGTGGCA-ACCCATTTCAAAGCCCA
* *
25582 CACAAGTCAGTGGC-ATCC-TTTCACAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCA-AAGCCCA
*
25611 CACAAGTCGGTGGCAATCCATTTCAAAG--C-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
25640 CACAAGTTAGTGGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGT-GGCAACCCATTTCAAAGCCCA
25671 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
25702 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
25734 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
25766 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
25798 CACAAGTCGGTGGCAACCCATTTCAAAG-CCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
25829 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
25859 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
25887 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
25915 CACAAGTCGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
25945 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
25975 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
26007 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
26039 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
26071 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
26103 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
26134 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
26166 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
26198 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
26230 CACAAGTCGGTGGCGACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
26262 CACAAGTCGGGGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
26294 TGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
26321 TCACCATTTT
Statistics
Matches: 774, Mismatches: 56, Indels: 55
0.87 0.06 0.06
Matches are distributed among these distances:
26 8 0.01
27 5 0.01
28 76 0.10
29 59 0.08
30 87 0.11
31 111 0.14
32 427 0.55
33 1 0.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:26002 original size:305 final size:306
Alignment explanation
Indices: 25432--26263 Score: 1340
Period size: 305 Copynumber: 2.7 Consensus size: 306
25422 CTTTTAAATC
* *
25432 CACAACTCTGTGGC-ACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
25496 ACAAGTCGGTGGCAACCCATTTC-AAGCC-CACAAGTCAGTGGCATCTTTTCAAAGTCCACACAA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCACACAAGTCAGTGGCATCTTTTCAAAGTCCACACAA
25559 GTTGGTGGCATATCCTTTC-AAG-CCACAAGTCAGTGGCATCCTTTCACAAGCCCACAAGTCGGT
131 GTTGGTGGCA-ATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA-AAGCCCACAAGTCGGT
25622 GGCAATCCATTTCAAAG-CCACAAGTTAGTGGGCATCATTCCAAAGCCCACACAAGTCGGTGGCA
194 GGCAATCCATTTCAAAGCCCACAAGTTAGTGGGCATCATTCCAAAGCCCACACAAGTCGGTGGCA
25686 ACCCATTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
259 ACCCATTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
25734 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
25799 ACAAGTCGGTGGCAACCCATTTCAAAGCCACACAAGTCAGTGGCATCTTTTCAAAGTCCACACAA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCACACAAGTCAGTGGCATCTTTTCAAAGTCCACACAA
25864 GTTGGTGGC-ATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGG
131 GTTGGTGGCAATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGG
25928 CAATCCATTTCAAAGCCCACAAGTTAGT-GGCATCATTCCAAAGCCCACACAAGTCGGTGGCAAC
196 CAATCCATTTCAAAGCCCACAAGTTAGTGGGCATCATTCCAAAGCCCACACAAGTCGGTGGCAAC
25992 CCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
261 CCA-TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
26039 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * * * *
26104 ACAAGTCGGTGGC-ACCCATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTTCAAAGCCCACA
66 ACAAGTCGGTGGCAACCCATTTCAAAG-CCACACAAGTCAGTGGC-A-TCTTTTCAAAGTCCACA
* * * *
26168 CAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAC
128 CAAGTTGGTGGCAATCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CAC
* * *
26233 AAGTCGGTGGCGACCCTTTTCAAAGCCCACA
186 AAGTCGGTGGCAATCCATTTCAAAGCCCACA
26264 CAAGTCGGGG
Statistics
Matches: 494, Mismatches: 18, Indels: 23
0.92 0.03 0.04
Matches are distributed among these distances:
302 12 0.02
303 79 0.16
304 93 0.19
305 214 0.43
306 1 0.00
307 25 0.05
308 3 0.01
309 8 0.02
310 2 0.00
311 13 0.03
312 3 0.01
313 8 0.02
314 2 0.00
315 31 0.06
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (306 bp):
CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
ACAAGTCGGTGGCAACCCATTTCAAAGCCACACAAGTCAGTGGCATCTTTTCAAAGTCCACACAA
GTTGGTGGCAATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGG
CAATCCATTTCAAAGCCCACAAGTTAGTGGGCATCATTCCAAAGCCCACACAAGTCGGTGGCAAC
CCATTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:26404 original size:45 final size:47
Alignment explanation
Indices: 26353--26471 Score: 127
Period size: 49 Copynumber: 2.5 Consensus size: 47
26343 GTCCGATATT
*
26353 GCTGGCCTTGAATCAGCATATTGG-CACCTTT-CTAAGCCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCCACCTTTCCTAAGCCCAATGTC
* * * *
26398 GCTGGCCTTGAGTCAGCACATTGGTCCACTTTTCCCTTAGCCCGATGTC
1 GCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CCTAAGCCCAATGTC
* *
26447 GCTGACCTTGAAAT-GGCACATTGGC
1 GCTGGCCTTG-AATCAGCACATTGGC
26472 ATTCCTCTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 22 0.36
47 6 0.10
48 1 0.02
49 30 0.49
50 2 0.03
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (47 bp):
GCTGGCCTTGAATCAGCACATTGGCCACCTTTCCTAAGCCCAATGTC
Found at i:27197 original size:1 final size:1
Alignment explanation
Indices: 27154--27180 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
27144 GGAGGGATCG
27154 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
27181 GGGGCTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27203 original size:22 final size:23
Alignment explanation
Indices: 27169--27213 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
27159 AAAAAAAAAA
27169 AAAAAAAAAAAAG-GGGCTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
** *
27191 AAAAAAACCAAAGTGGGTTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
27214 GATTGAGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (23 bp):
AAAAAAAAAAAAGTGGGCTTTCC
Found at i:28001 original size:2 final size:2
Alignment explanation
Indices: 27988--28018 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27978 TTATTTTATT
*
27988 TA TA TG 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 TA TA T
28019 TTTGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30578 original size:3 final size:3
Alignment explanation
Indices: 30570--30596 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
30560 TACCTGCAAA
30570 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
30597 TTTAAGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33671 original size:16 final size:16
Alignment explanation
Indices: 33638--33671 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33628 TTATAAAATC
* *
33638 AACTATATATATTTAT
1 AACTATATACATTAAT
33654 AACTATATACATTAAT
1 AACTATATACATTAAT
33670 AA
1 AA
33672 GATGATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
AACTATATACATTAAT
Found at i:33828 original size:2 final size:2
Alignment explanation
Indices: 33810--33842 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
33800 CAAGACAACA
*
33810 AT AT A- AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33843 TCTTCTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:35406 original size:212 final size:204
Alignment explanation
Indices: 35047--35461 Score: 609
Period size: 212 Copynumber: 2.0 Consensus size: 204
35037 AATGAGTCAG
*
35047 CTCAGTGACTCAGTTCACTAGTTTTTTTTTCCCTGGAACAGAAGCATTTACAGATATCTTGGGGG
1 CTCAGTGACTCAGTTCACGAGTTTTTTTTTCCCTGGAACAGAAGCATTTACAGATATCTTGGGGG
35112 GGGGGGGGGGGCTGAGGAATATGGAATCGGGGCGCAATTTTAATTGCTTAAATCCCGCAATTTGA
66 GGGGGGGGGGGCTGAGGAATATGGAATCGGGGCGCAATTTTAATTGCTTAAATCCCGCAATTTGA
35177 GCCCTTTTTTTTGTTATAATTTGTTCATTAATTTAATCAAATCACTACTGATAAACATACTATAG
131 GCCCTTTTTTTTGTTATAATTTGTTCATTAATTTAATCAAATCACTACTGATAAACATACTATAG
35242 ACTATGTGA
196 ACTATGTGA
* * ** * *
35251 CTCAGTGACTCAGTTCACGAGTTTATTTTTTCCGTGGAATAGGGGCATTTACGGATGTCTAGTTT
1 CTCAGTGACTCAGTTCACGAGTTT-TTTTTTCCCTGGAACAGAAGCATTTACAGATATC----TT
** * * *
35316 GAAAGGGGGGGGGGGTTGGCTTG-GGAATATGGAATTGGGGCGCCATTTTAATTGCTT-AATCCG
61 G---GGGGGGGGGGGGGGGC-TGAGGAATATGGAATCGGGGCGCAATTTTAATTGCTTAAATCCC
*
35379 GCAATTTGAGCCTTTTTTTTTTGTTATAATTTGTTCATTAATTTAATCAAATCACTACTGATAAA
122 GCAATTTGAGCC-CTTTTTTTTGTTATAATTTGTTCATTAATTTAATCAAATCACTACTGATAAA
35444 CATACTATAGACTATGTG
186 CATACTATAGACTATGTG
35462 TATTGGTTTG
Statistics
Matches: 188, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
204 23 0.12
205 28 0.15
209 3 0.02
211 17 0.09
212 115 0.61
213 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (204 bp):
CTCAGTGACTCAGTTCACGAGTTTTTTTTTCCCTGGAACAGAAGCATTTACAGATATCTTGGGGG
GGGGGGGGGGGCTGAGGAATATGGAATCGGGGCGCAATTTTAATTGCTTAAATCCCGCAATTTGA
GCCCTTTTTTTTGTTATAATTTGTTCATTAATTTAATCAAATCACTACTGATAAACATACTATAG
ACTATGTGA
Found at i:36263 original size:12 final size:12
Alignment explanation
Indices: 36238--36302 Score: 62
Period size: 13 Copynumber: 5.3 Consensus size: 12
36228 GGTAAATATA
36238 AAATAAATAAATT
1 AAATAAA-AAATT
36251 AAATAAAAAATT
1 AAATAAAAAATT
*
36263 AATATGAAAAA-T
1 AA-ATAAAAAATT
*
36275 -ATTAAAAAATT
1 AAATAAAAAATT
*
36286 AAATTAAAAATTT
1 AAA-TAAAAAATT
36299 AAAT
1 AAAT
36303 TTAATAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 10 0.23
13 25 0.58
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:36284 original size:23 final size:21
Alignment explanation
Indices: 36254--36301 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
36244 ATAAATTAAA
36254 TAAAAAATTAATATGAAAAATAT
1 TAAAAAATTAA-ATGAAAAAT-T
*
36277 TAAAAAATTAAATTAAAAATT
1 TAAAAAATTAAATGAAAAATT
36298 TAAA
1 TAAA
36302 TTTAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAAAATTAAATGAAAAATT
Found at i:36303 original size:13 final size:13
Alignment explanation
Indices: 36231--36303 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
36221 ATTTTTTGGT
*
36231 AAATATAAAATAAA
1 AAAT-TAAATTAAA
36245 TAAATTAAA-TAAA
1 -AAATTAAATTAAA
*
36258 AAATT-AATATGAA
1 AAATTAAAT-TAAA
36271 AAA-T--ATTAAA
1 AAATTAAATTAAA
36281 AAATTAAATTAAA
1 AAATTAAATTAAA
*
36294 AATTTAAATT
1 AAATTAAATT
36304 TAATAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
10 6 0.12
11 5 0.10
12 6 0.12
13 25 0.50
14 4 0.08
15 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (13 bp):
AAATTAAATTAAA
Found at i:36463 original size:22 final size:22
Alignment explanation
Indices: 36437--36484 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
36427 TTCAATTATT
36437 TTAATTTTAA-ATTTAAAATTAA
1 TTAATTTTAATA-TTAAAATTAA
36459 TTAATTTTAATATTAAAATTAA
1 TTAATTTTAATATTAAAATTAA
36481 TTAA
1 TTAA
36485 ATTAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTTTAATATTAAAATTAA
Found at i:36496 original size:22 final size:22
Alignment explanation
Indices: 36437--36493 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
36427 TTCAATTATT
* *
36437 TTAATTTTAAATTTAAAATTAA
1 TTAATATTAATTTTAAAATTAA
* *
36459 TTAATTTTAATATTAAAATTAA
1 TTAATATTAATTTTAAAATTAA
36481 TTAA-ATTAATTTT
1 TTAATATTAATTTT
36494 TAATTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATATTAATTTTAAAATTAA
Found at i:43018 original size:18 final size:18
Alignment explanation
Indices: 42992--43036 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
42982 ATTTAATTTT
*
42992 TATTTTTAAAATATATAAA
1 TATTTTAAAAATAT-TAAA
43011 TATTTTAAAAATATTAAA
1 TATTTTAAAAATATTAAA
43029 TATATTTA
1 TAT-TTTA
43037 TCTTGTATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTTAAAAATATTAAA
Found at i:44158 original size:22 final size:23
Alignment explanation
Indices: 44133--44175 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
44123 AATTTATGTC
44133 AAAAATATATAT-AAAAAAATTA
1 AAAAATATATATCAAAAAAATTA
* *
44155 AAAAATTTATATCAAATAAAT
1 AAAAATATATATCAAAAAAAT
44176 ACTCATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAAATATATATCAAAAAAATTA
Found at i:44704 original size:25 final size:25
Alignment explanation
Indices: 44676--44724 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
44666 TTTGATATTA
* *
44676 TAAATTAAATAATAATTTAATTAAG
1 TAAATTAAATAAAAATTAAATTAAG
*
44701 TAAATTATATAAAAATTAAATTAA
1 TAAATTAAATAAAAATTAAATTAA
44725 AGTTACAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
TAAATTAAATAAAAATTAAATTAAG
Found at i:45108 original size:2 final size:2
Alignment explanation
Indices: 45103--45142 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
45093 ACATTTTTTA
* *
45103 CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
45143 GTGTTTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
CT
Found at i:55050 original size:17 final size:17
Alignment explanation
Indices: 55028--55132 Score: 51
Period size: 17 Copynumber: 6.2 Consensus size: 17
55018 TATTATAATA
55028 ATATTTAAAATAATTTT
1 ATATTTAAAATAATTTT
*
55045 ATATTT-ATATAAATTTT
1 ATATTTAAAAT-AATTTT
55062 AATATATT--AATAA-TTT
1 -ATAT-TTAAAATAATTTT
*
55078 ATA-TTATAAA-AATTTAA
1 ATATTTA-AAATAATTT-T
* * *
55095 AAATATTAATATAATATT
1 ATAT-TTAAAATAATTTT
* *
55113 ATATTTTAATTAATTTT
1 ATATTTAAAATAATTTT
55130 ATA
1 ATA
55133 ATATATTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 22
0.66 0.12 0.22
Matches are distributed among these distances:
13 2 0.03
15 5 0.08
16 10 0.15
17 28 0.43
18 11 0.17
19 9 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTAAAATAATTTT
Found at i:55052 original size:29 final size:27
Alignment explanation
Indices: 54978--55065 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 27
54968 TTGGTAACGT
*
54978 AATAATTTTTATATTTATATTATATTTA
1 AATAA-TTTTATATTTATATAATATTTA
**
55006 TGT-ATTTTAATATATTATAATAATATTTAA
1 AATAATTTT-ATAT-TTAT-ATAATATTT-A
*
55036 AATAATTTTATATTTATATAA-ATTTT
1 AATAATTTTATATTTATATAATATTTA
55062 AATA
1 AATA
55066 TATTAATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
26 8 0.16
27 9 0.18
28 9 0.18
29 12 0.24
30 6 0.12
31 5 0.10
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
AATAATTTTATATTTATATAATATTTA
Found at i:55091 original size:32 final size:34
Alignment explanation
Indices: 55036--55105 Score: 99
Period size: 32 Copynumber: 2.1 Consensus size: 34
55026 TAATATTTAA
* * *
55036 AATAATTTTATATTTATATAAATTTTAATATATT
1 AATAATTTTATATTTATAAAAATTTAAAAATATT
55070 AATAA-TTTATA-TTATAAAAATTTAAAAATATT
1 AATAATTTTATATTTATAAAAATTTAAAAATATT
55102 AATA
1 AATA
55106 TAATATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 22 0.67
33 6 0.18
34 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
AATAATTTTATATTTATAAAAATTTAAAAATATT
Found at i:55894 original size:32 final size:32
Alignment explanation
Indices: 55841--55965 Score: 92
Period size: 32 Copynumber: 3.7 Consensus size: 32
55831 CATTCATTAA
* *
55841 TTTAATATAATATATTAATTTTATTAATTAATT
1 TTTAA-ATTATATTTTAATTTTATTAATTAATT
*
55874 TTTAAATTATATTTTAATTTT-TTAATAAAATT
1 TTTAAATTATATTTTAATTTTATTAAT-TAATT
* * *
55906 ATTAAATTTAATATAATATATTAATTTCATTCATTACA-T
1 TTTAAA--T--TAT-AT-T-TTAATTTTATTAATTA-ATT
55945 TTTAAATTATATTTTAATTTT
1 TTTAAATTATATTTTAATTTT
55966 TAATAAAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
31 5 0.07
32 30 0.41
33 6 0.08
34 3 0.04
35 3 0.04
36 3 0.04
37 3 0.04
38 1 0.01
39 14 0.19
40 5 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTAAATTATATTTTAATTTTATTAATTAATT
Found at i:55929 original size:19 final size:18
Alignment explanation
Indices: 55894--55929 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
55884 ATTTTAATTT
55894 TTTAATAAAATTATTAAA
1 TTTAATAAAATTATTAAA
*
55912 TTTAATATAATATATTAA
1 TTTAATAAAAT-TATTAA
55930 TTTCATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAATAAAATTATTAAA
Found at i:55931 original size:71 final size:70
Alignment explanation
Indices: 55839--55975 Score: 231
Period size: 71 Copynumber: 1.9 Consensus size: 70
55829 TTCATTCATT
*
55839 AATTTAATATAATATATTAATTTTATTAATTA-ATTTTTAAATTATATTTTAATTTTTTAATAAA
1 AATTTAATATAATATATTAATTTCATTAATTACA-TTTTAAATTATATTTTAA-TTTTTAATAAA
55903 ATTATTA
64 ATTATTA
*
55910 AATTTAATATAATATATTAATTTCATTCATTACATTTTAAATTATATTTTAATTTTTAATAAAAT
1 AATTTAATATAATATATTAATTTCATTAATTACATTTTAAATTATATTTTAATTTTTAATAAAAT
55975 T
66 T
55976 TAAACGATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
70 14 0.22
71 48 0.76
72 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (70 bp):
AATTTAATATAATATATTAATTTCATTAATTACATTTTAAATTATATTTTAATTTTTAATAAAAT
TATTA
Found at i:56093 original size:30 final size:31
Alignment explanation
Indices: 56036--56093 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
56026 TATTTTTTAT
* *
56036 TTAATATATATAAATTTTAATAAATTAAAAA
1 TTAATATATATAAATATTAACAAATTAAAAA
* *
56067 TTAAT-TATATATATATTAACATATTAA
1 TTAATATATATAAATATTAACAAATTAA
56094 CTATGCATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (31 bp):
TTAATATATATAAATATTAACAAATTAAAAA
Found at i:56759 original size:2 final size:2
Alignment explanation
Indices: 56754--56801 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
56744 ATATGTGTGT
56754 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
56796 GA GA GA
1 GA GA GA
56802 AAGGAAGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:57012 original size:2 final size:2
Alignment explanation
Indices: 57005--57055 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
56995 GTCATCGCAG
* *
57005 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
57047 TA TT TA TA T
1 TA TA TA TA T
57056 TTCATATGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:57922 original size:34 final size:34
Alignment explanation
Indices: 57876--58060 Score: 257
Period size: 34 Copynumber: 5.5 Consensus size: 34
57866 ATAAAAACCA
*
57876 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
57910 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
*
57944 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
57978 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * * *
58012 TCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
58045 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
58061 TCTCCCACTT
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
33 17 0.13
34 114 0.84
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:62153 original size:19 final size:19
Alignment explanation
Indices: 62126--62188 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
62116 TCACGTGTAC
* *
62126 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
62145 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
** *
62164 AGTACCTATATGCGTGAAT
1 AGTACCCGTATACGTGAAT
62183 AGTACC
1 AGTACC
62189 TCGACAACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:62539 original size:34 final size:34
Alignment explanation
Indices: 62493--62675 Score: 235
Period size: 34 Copynumber: 5.4 Consensus size: 34
62483 GTAAAAACCA
*
62493 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
62527 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
62561 TCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
62595 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * * * *
62629 TCATTTAGTCAATAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
62662 CCATTTAATCAACA
1 CCATTTAATCAACA
62676 CACATCCACC
Statistics
Matches: 129, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
33 14 0.11
34 111 0.86
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.27
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:62636 original size:102 final size:101
Alignment explanation
Indices: 62493--62675 Score: 303
Period size: 102 Copynumber: 1.8 Consensus size: 101
62483 GTAAAAACCA
62493 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
62558 CACTCATTTAATCAACAATGGTAAGCTACCAAATCTC
66 CAC-CATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * * * *
62595 CCATTTAATCAACAATGGTAAGCTACCAAATTTCTCATTTAGTCAATAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
62660 CACCATTTAATCAACA
66 CACCATTTAATCAACA
62676 CACATCCACC
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
101 13 0.17
102 62 0.83
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.27
Consensus pattern (101 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:63286 original size:13 final size:13
Alignment explanation
Indices: 63244--63286 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
63234 TTTTTTAATT
*
63244 AAAATTATATTAA
1 AAAAATATATTAA
*
63257 AAATAATAGATTAA
1 AAA-AATATATTAA
63271 AAAAATATATTGAA
1 AAAAATATATT-AA
63285 AA
1 AA
63287 GGAGCTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (13 bp):
AAAAATATATTAA
Found at i:63286 original size:14 final size:13
Alignment explanation
Indices: 63244--63286 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
63234 TTTTTTAATT
*
63244 AAAATTATATTAA
1 AAAAATATATTAA
*
63257 AAATAATAGATTAA
1 AAA-AATATATTAA
*
63271 AAAAATATATTGA
1 AAAAATATATTAA
63284 AAA
1 AAA
63287 GGAGCTTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (13 bp):
AAAAATATATTAA
Found at i:63786 original size:21 final size:22
Alignment explanation
Indices: 63762--63812 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
63752 ATTAATCATA
*
63762 TAAATATAAATATAATATA-AT
1 TAAATATAAATATAATAAATAT
*
63783 TAAATTTAAATATAATAAATAT
1 TAAATATAAATATAATAAATAT
63805 TAAATATA
1 TAAATATA
63813 TTATGTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATATAAATATAATAAATAT
Found at i:63796 original size:16 final size:16
Alignment explanation
Indices: 63767--63812 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
63757 TCATATAAAT
63767 ATAAATA-T-AATATA
1 ATAAATATTAAATATA
63781 ATTAAAT-TTAAATATA
1 A-TAAATATTAAATATA
63797 ATAAATATTAAATATA
1 ATAAATATTAAATATA
63813 TTATGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 11 0.39
16 16 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAAATATTAAATATA
Found at i:63969 original size:2 final size:2
Alignment explanation
Indices: 63962--63991 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
63952 TTAGCTGCAC
63962 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
63992 CGCTTTTTTT
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:64573 original size:17 final size:17
Alignment explanation
Indices: 64516--64573 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 17
64506 CATTAAATAT
64516 ATAATATCATTTTAAATATA
1 ATAATAT-A-TTTAAAT-TA
64536 ATAA-ATATTT-AA-TA
1 ATAATATATTTAAATTA
64550 A-AATATATTTAAATTA
1 ATAATATATTTAAATTA
64566 ATAATATA
1 ATAATATA
64574 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 9 0.26
15 2 0.06
16 5 0.15
17 9 0.26
18 1 0.03
19 2 0.06
20 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATATATTTAAATTA
Found at i:64715 original size:19 final size:21
Alignment explanation
Indices: 64682--64720 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
64672 AATGTTTTTT
64682 TATATAATTTATTAAATTAAA
1 TATATAATTTATTAAATTAAA
*
64703 TATAT-ATTT-TTAATTTAA
1 TATATAATTTATTAAATTAA
64721 TCAATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATAATTTATTAAATTAAA
Found at i:70441 original size:2 final size:2
Alignment explanation
Indices: 70434--70469 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
70424 TTGACGTTTG
70434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70470 TGTTAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73361 original size:2 final size:2
Alignment explanation
Indices: 73354--73400 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
73344 GCTTCCTCAT
*
73354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG 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
73396 TA TA T
1 TA TA T
73401 CTTAATGTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:74153 original size:12 final size:12
Alignment explanation
Indices: 74136--74160 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74126 ATGGAAGTGG
74136 TCTTTTTTTTTT
1 TCTTTTTTTTTT
74148 TCTTTTTTTTTT
1 TCTTTTTTTTTT
74160 T
1 T
74161 TTCGCAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:81534 original size:9 final size:9
Alignment explanation
Indices: 81503--81542 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
81493 ATCATCGTCG
81503 TTCTTGTCA
1 TTCTTGTCA
*
81512 TTCCTGTCA
1 TTCTTGTCA
81521 TTCTTGTCA
1 TTCTTGTCA
* *
81530 ATCTTATCA
1 TTCTTGTCA
81539 TTCT
1 TTCT
81543 AATCTCTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.15, C:0.25, G:0.07, T:0.53
Consensus pattern (9 bp):
TTCTTGTCA
Found at i:83060 original size:2 final size:2
Alignment explanation
Indices: 83053--83105 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
83043 TACAACCACC
83053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83095 AT AT AT AT AT A
1 AT AT AT AT AT A
83106 AGGCCCTATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:91151 original size:17 final size:19
Alignment explanation
Indices: 91125--91166 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
91115 TTTTATGATA
*
91125 TATATTTTAATA-TAT-TT
1 TATATATTAATATTATATT
91142 TATATATTAATATTATATT
1 TATATATTAATATTATATT
91161 TATATA
1 TATATA
91167 ATTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATATTAATATTATATT
Found at i:91157 original size:55 final size:53
Alignment explanation
Indices: 91083--91186 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 53
91073 TTTACAAGTA
**
91083 ATTTTATATATTATAATTATAATTAAAATAATTTTTATGATATATATTTTAATAT
1 ATTTTATATATTATAATTAT-ATTAAAATAATTTTTAAAAT-TATATTTTAATAT
* *
91138 ATTTTATATATTA-ATATTATATTTATATAATTTTTAAAATTATATTTTA
1 ATTTTATATATTATA-ATTATATTAAAATAATTTTTAAAATTATATTTTA
91187 TTTTAATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
53 9 0.20
54 17 0.39
55 18 0.41
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (53 bp):
ATTTTATATATTATAATTATATTAAAATAATTTTTAAAATTATATTTTAATAT
Found at i:91182 original size:28 final size:30
Alignment explanation
Indices: 91151--91225 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
91141 TTATATATTA
91151 ATATTATATTTAT-A-TAATTTTTAAAATT
1 ATATTATATTTATAATTAATTTTTAAAATT
* * *
91179 ATATTTTATTT-TAATTATTTTTTATAATT
1 ATATTATATTTATAATTAATTTTTAAAATT
* *
91208 TTATTATATTTAAAATTA
1 ATATTATATTTATAATTA
91226 TTAAATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 1 0.03
28 11 0.29
29 21 0.55
30 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
ATATTATATTTATAATTAATTTTTAAAATT
Found at i:91604 original size:30 final size:29
Alignment explanation
Indices: 91568--91625 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
91558 GAGTACTTTA
91568 AAGATTTAATTAGACA-AAAAAAATATTTTC
1 AAGATTTAATTA-A-ATAAAAAAATATTTTC
* *
91598 AAGATTTGATTAAATAAAATAATATTTT
1 AAGATTTAATTAAATAAAAAAATATTTT
91626 AAAAACTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 13 0.52
30 11 0.44
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (29 bp):
AAGATTTAATTAAATAAAAAAATATTTTC
Found at i:92293 original size:26 final size:25
Alignment explanation
Indices: 92263--92319 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
92253 TTATAAATAC
92263 TTTTAACACATAATAAATAC-ATTAAA
1 TTTTAACA-ATAATAAA-ACAATTAAA
* *
92289 TTTTAATAATGATAAAACAAATTAAA
1 TTTTAACAATAATAAAAC-AATTAAA
92315 TTTTA
1 TTTTA
92320 TGTCAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.07
25 7 0.26
26 18 0.67
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.39
Consensus pattern (25 bp):
TTTTAACAATAATAAAACAATTAAA
Found at i:96855 original size:2 final size:2
Alignment explanation
Indices: 96848--96880 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
96838 ATATGACATT
96848 TA TA TA 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 TA TA TA T
96881 CAAAAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97627 original size:16 final size:17
Alignment explanation
Indices: 97606--97638 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
97596 ACTATAATAT
97606 TTATATAAAAAA-ATTA
1 TTATATAAAAAATATTA
97622 TTATATAAAAAATATTA
1 TTATATAAAAAATATTA
97639 ATTTTTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTATATAAAAAATATTA
Found at i:97657 original size:19 final size:20
Alignment explanation
Indices: 97633--97672 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
97623 TATATAAAAA
97633 ATATTAATTTT-TATTCATT
1 ATATTAATTTTATATTCATT
*
97652 ATATTAATTTTATATTTATT
1 ATATTAATTTTATATTCATT
97672 A
1 A
97673 AATGTGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTAATTTTATATTCATT
Found at i:99150 original size:10 final size:11
Alignment explanation
Indices: 99124--99159 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
99114 TGCTTATATT
99124 ATTTATTTTTA
1 ATTTATTTTTA
99135 ATTTATTTTTA
1 ATTTATTTTTA
99146 ATTATTATTTTTA
1 A-T-TTATTTTTA
99159 A
1 A
99160 AAAAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 1 0.04
13 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:102043 original size:2 final size:2
Alignment explanation
Indices: 102036--102073 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
102026 CATCTACCTA
102036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102074 TACGTGAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118145 original size:2 final size:2
Alignment explanation
Indices: 118140--118171 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
118130 TATTCTCCTT
118140 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
118172 ATCCAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:128022 original size:15 final size:16
Alignment explanation
Indices: 127986--128023 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
127976 CAAATATCTC
127986 ACCAAAAACCAATAAA
1 ACCAAAAACCAATAAA
*
128002 A-AAAAAACCAA-AAA
1 ACCAAAAACCAATAAA
128016 ACCAAAAA
1 ACCAAAAA
128024 TATTGGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 4 0.21
15 14 0.74
16 1 0.05
ACGTcount: A:0.76, C:0.21, G:0.00, T:0.03
Consensus pattern (16 bp):
ACCAAAAACCAATAAA
Found at i:129321 original size:93 final size:95
Alignment explanation
Indices: 129224--129402 Score: 231
Period size: 97 Copynumber: 1.9 Consensus size: 95
129214 AATCAATGAT
*
129224 TAAATATC-CAATACAA-AATTTTTACTTTTAAATTATTA-CTC-CAATCTAATCAATTAAATTA
1 TAAAT-TCTCAATACAATAATATTTA-TTTTAAATTATTATCTCACAATCTAATCAATTAAATTA
*
129285 ATTTTATTTAAAAAATTAAATGTTAAATATAA
64 ACTTTATTTAAAAAATTAAATGTTAAATATAA
* * * * *
129317 TAAATTCTTAATACAATAATATTTATTTTAAATTATTATTTCAATTAATTTAATCAATTATATTA
1 TAAATTCTCAATACAATAATATTTATTTTAAATTATTATCTC-A-CAATCTAATCAATTAAATTA
129382 ACTTTATTTAAAAAATTAAAT
64 ACTTTATTTAAAAAATTAAAT
129403 ATATTAATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
92 2 0.03
93 25 0.34
94 9 0.12
97 37 0.51
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (95 bp):
TAAATTCTCAATACAATAATATTTATTTTAAATTATTATCTCACAATCTAATCAATTAAATTAAC
TTTATTTAAAAAATTAAATGTTAAATATAA
Found at i:129558 original size:20 final size:20
Alignment explanation
Indices: 129516--129564 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
129506 TTAAATTTCT
* *
129516 TTTTTTATAAATTCAACTGA
1 TTTTTTAAAAATTCAACTAA
129536 TTTTTTAAAAATTCAA-TCAA
1 TTTTTTAAAAATTCAACT-AA
*
129556 TTTTCTAAA
1 TTTTTTAAA
129565 CTTTCAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTTTTAAAAATTCAACTAA
Found at i:129643 original size:19 final size:19
Alignment explanation
Indices: 129619--129661 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
129609 ACTTCAACCA
129619 ATCAAACCCACTCAATTTT
1 ATCAAACCCACTCAATTTT
*
129638 ATCAAACCGACTCAATTTT
1 ATCAAACCCACTCAATTTT
*
129657 TTCAA
1 ATCAA
129662 CCGTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (19 bp):
ATCAAACCCACTCAATTTT
Found at i:134286 original size:2 final size:2
Alignment explanation
Indices: 134281--134310 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
134271 AGAAAAAAAT
*
134281 AG AG AG AG AG AG AG AG AG AC AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
134311 GAAAACCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:135213 original size:22 final size:22
Alignment explanation
Indices: 135185--135233 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
135175 AGAGAGTCAC
135185 TCTACACACTGTGAAGGCGACT
1 TCTACACACTGTGAAGGCGACT
*
135207 TCTACACACTGTGAAGGTGACT
1 TCTACACACTGTGAAGGCGACT
135229 TCTAC
1 TCTAC
135234 CTCTCAACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (22 bp):
TCTACACACTGTGAAGGCGACT
Found at i:136594 original size:28 final size:26
Alignment explanation
Indices: 136532--136594 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
136522 GATTTTGTGC
* *
136532 ATTAGTATATATTTTTTAAATTTTAA
1 ATTAGTTTATATTTTTTAAATATTAA
*
136558 A-TATTTTTATATTTTTCTAAATATTAA
1 ATTA-GTTTATATTTTT-TAAATATTAA
136585 AGTTAGTTTA
1 A-TTAGTTTA
136595 GTTTCATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
25 2 0.07
26 11 0.38
27 10 0.34
28 4 0.14
29 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTAGTTTATATTTTTTAAATATTAA
Found at i:137270 original size:31 final size:31
Alignment explanation
Indices: 137223--137345 Score: 133
Period size: 31 Copynumber: 4.0 Consensus size: 31
137213 GGTTTCAAAT
* *
137223 CATGCCACGGGTTAAGAATAGT-GATTTTTGC
1 CATGCCACCGGATAAGAATAGTAG-TTTTTGC
* *
137254 CGTGCCACCGGATAAGAATAGTAGTTTTTGT
1 CATGCCACCGGATAAGAATAGTAGTTTTTGC
* * * *
137285 CATGTCACCGAATAAAAATAGTAGTTTTTAC
1 CATGCCACCGGATAAGAATAGTAGTTTTTGC
*
137316 CATGCCACCAGATTAA-AATAGTAGTTTTTG
1 CATGCCACCGGA-TAAGAATAGTAGTTTTTG
137346 TTATAATCTA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
31 72 0.95
32 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (31 bp):
CATGCCACCGGATAAGAATAGTAGTTTTTGC
Found at i:146430 original size:3 final size:3
Alignment explanation
Indices: 146422--146462 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
146412 AGCAAAAAAC
146422 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
146463 TTAATCCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:151294 original size:3 final size:3
Alignment explanation
Indices: 151286--151310 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
151276 TCGAACTAGG
151286 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
151311 CTACTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:153066 original size:31 final size:32
Alignment explanation
Indices: 152977--153086 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 32
152967 TTTAATCTTT
*
152977 TAATTATATTTAAAAATT-ATATCA-TTAA-ATCA
1 TAATT-TATTTTAAAATTAATAT-ATTTAATAT-A
*
153009 -AATTTATATTTATTAATTAATATATTTAATAT-
1 TAATTTAT-TTTA-AAATTAATATATTTAATATA
*
153041 TTATTTAATTTTAAAATT-ATATATTTAATATA
1 TAATTT-ATTTTAAAATTAATATATTTAATATA
153073 TAATTTATTTTAAA
1 TAATTTATTTTAAA
153087 TTTTAATAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
30 3 0.05
31 28 0.43
32 14 0.22
33 16 0.25
34 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
TAATTTATTTTAAAATTAATATATTTAATATA
Found at i:153095 original size:20 final size:19
Alignment explanation
Indices: 153033--153096 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 19
153023 AATTAATATA
153033 TTTAAT-ATTTA-TTTAAT
1 TTTAATAATTTATTTTAAT
153050 TTTAA-AATTATATATTTAA-
1 TTTAATAATT-TAT-TTTAAT
*
153069 TAT-ATAATTTATTTTAAAT
1 TTTAATAATTTATTTT-AAT
153088 TTTAATAAT
1 TTTAATAAT
153097 CTAATTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
17 11 0.30
18 8 0.22
19 8 0.22
20 10 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTAATAATTTATTTTAAT
Found at i:153960 original size:12 final size:13
Alignment explanation
Indices: 153933--153961 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
153923 TCTAACTGAT
153933 AATTACATATTGA
1 AATTACATATTGA
153946 AATTACATA-TGA
1 AATTACATATTGA
153958 AATT
1 AATT
153962 CATCTACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (13 bp):
AATTACATATTGA
Found at i:155381 original size:20 final size:19
Alignment explanation
Indices: 155356--155405 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
155346 CTTAATTTTA
155356 TAATTAATTTGTATATATTT
1 TAATTAATTTGTATA-ATTT
* *
155376 TAATTAATTTTTTTAATTT
1 TAATTAATTTGTATAATTT
155395 TAATATAATTT
1 TAAT-TAATTT
155406 TATTATATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TAATTAATTTGTATAATTT
Found at i:157558 original size:20 final size:21
Alignment explanation
Indices: 157522--157567 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
157512 TTAATAATTT
*
157522 TTATATGTTATCTTATTATAA
1 TTATATGTTATCATATTATAA
*
157543 TTATAT-TTATCATATTTTAA
1 TTATATGTTATCATATTATAA
157563 TTATA
1 TTATA
157568 ATATATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATATGTTATCATATTATAA
Found at i:157582 original size:23 final size:26
Alignment explanation
Indices: 157535--157590 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 26
157525 TATGTTATCT
*
157535 TATTATAATTATATTTATCATATTT-
1 TATTATAATTATATTAATCATATTTA
157560 TAATTATAA-TATATTAAT-A-ATTTA
1 T-ATTATAATTATATTAATCATATTTA
157584 TATTATA
1 TATTATA
157591 TAAAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 10 0.36
24 2 0.07
25 9 0.32
26 7 0.25
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTATAATTATATTAATCATATTTA
Found at i:157590 original size:18 final size:18
Alignment explanation
Indices: 157563--157626 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
157553 CATATTTTAA
*
157563 TTATAATATATTAATAAT
1 TTATATTATATTAATAAT
157581 TTATATTATA-TAA-AAT
1 TTATATTATATTAATAAT
*
157597 TTAAAATATATATTAAT-A-
1 TT-ATAT-TATATTAATAAT
157615 TTATATTATATT
1 TTATATTATATT
157627 TTATTTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 11 0.28
17 9 0.23
18 15 0.38
19 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATATTATATTAATAAT
Found at i:157608 original size:23 final size:25
Alignment explanation
Indices: 157564--157611 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
157554 ATATTTTAAT
* *
157564 TATAATATATTAATAATTTATATTA
1 TATAAAATATTAATAATATATATTA
157589 TATAAAAT-TTAA-AATATATATTA
1 TATAAAATATTAATAATATATATTA
157612 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 4 0.19
25 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAAAATATTAATAATATATATTA
Found at i:157634 original size:5 final size:5
Alignment explanation
Indices: 157535--157631 Score: 51
Period size: 5 Copynumber: 19.8 Consensus size: 5
157525 TATGTTATCT
* * * *
157535 TATTA TAATTA TATT- TATCA TATTT TAATTA TAATA TATTA -ATAA T-TTA
1 TATTA T-ATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA
* * ** *
157584 TATTA TATAA AATT- TAAAA TA-TA TATTAA TATTA TATTA TATTT TATT
1 TATTA TATTA TATTA TATTA TATTA TATT-A TATTA TATTA TATTA TATT
157632 TTAATTATCT
Statistics
Matches: 68, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
4 13 0.19
5 41 0.60
6 14 0.21
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:158073 original size:13 final size:13
Alignment explanation
Indices: 158050--158084 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
158040 ATAAATAAAT
158050 AAAGC-ATGCTCA
1 AAAGCTATGCTCA
158062 AAAGCTATGCTCA
1 AAAGCTATGCTCA
158075 AAAGCTATGC
1 AAAGCTATGC
158085 AAAATACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (13 bp):
AAAGCTATGCTCA
Found at i:159582 original size:18 final size:18
Alignment explanation
Indices: 159538--159582 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
159528 ATTCATACAT
159538 TTATATTT-TATATTATA
1 TTATATTTATATATTATA
* * *
159555 TTTTAATTATTTATTATA
1 TTATATTTATATATTATA
159573 TTATATTTAT
1 TTATATTTAT
159583 GATGTGTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATATTTATATATTATA
Found at i:165661 original size:2 final size:2
Alignment explanation
Indices: 165654--165678 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
165644 AACTTTCCTT
165654 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
165679 TTCTGGTTGC
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:166114 original size:13 final size:13
Alignment explanation
Indices: 166096--166140 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
166086 ATATTTTTAT
166096 ATTTAAAAAATTA
1 ATTTAAAAAATTA
** *
166109 ATTTAATTATTTA
1 ATTTAAAAAATTA
166122 ATTTAAAAAATTA
1 ATTTAAAAAATTA
*
166135 AATTAA
1 ATTTAA
166141 TGATAAATGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTAAAAAATTA
Found at i:166126 original size:26 final size:27
Alignment explanation
Indices: 166091--166141 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
166081 TGTAGATATT
*
166091 TTTATATTTAAAAAATTAATTTAATTA
1 TTTATATTTAAAAAATTAAATTAATTA
166118 TTTA-ATTTAAAAAATTAAATTAAT
1 TTTATATTTAAAAAATTAAATTAAT
166142 GATAAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTATATTTAAAAAATTAAATTAATTA
Found at i:167065 original size:27 final size:27
Alignment explanation
Indices: 167037--167090 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
167027 TTAAATAAAA
*
167037 TTATTAAAAATAATTTATTTTAATTAAT
1 TTATTAAAAA-AATTTATGTTAATTAAT
* *
167065 TTATTTAAAAAATTTATGTTAGTTAA
1 TTATTAAAAAAATTTATGTTAATTAA
167091 GTGATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
TTATTAAAAAAATTTATGTTAATTAAT
Found at i:169184 original size:12 final size:13
Alignment explanation
Indices: 169148--169195 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
169138 ATATTATTTT
*
169148 TTAAATAATTAAA
1 TTAAATTATTAAA
169161 -TAAATTAATTAAA
1 TTAAATT-ATTAAA
169174 TTAAATT-TTAAA
1 TTAAATTATTAAA
*
169186 TTCAATTATT
1 TTAAATTATT
169196 GTTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 16 0.53
13 8 0.27
14 6 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAATTATTAAA
Found at i:169912 original size:15 final size:15
Alignment explanation
Indices: 169892--169920 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
169882 TTAGGCTAAA
169892 ATTTGTCTTTTGTAT
1 ATTTGTCTTTTGTAT
169907 ATTTGTCTTTTGTA
1 ATTTGTCTTTTGTA
169921 AGGTCAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.66
Consensus pattern (15 bp):
ATTTGTCTTTTGTAT
Found at i:170814 original size:14 final size:13
Alignment explanation
Indices: 170785--170880 Score: 76
Period size: 12 Copynumber: 7.3 Consensus size: 13
170775 TTGTTTCATT
*
170785 TATAATTTTA-AA
1 TATAATTATATAA
170797 TATAATTATATGAA
1 TATAATTATAT-AA
*
170811 TATAA-TATAAAA
1 TATAATTATATAA
170823 TAT-ATTATATAA
1 TATAATTATATAA
*
170835 TATGAATATATATAT
1 TAT-AAT-TATATAA
170850 TA-ACATTTATATAA
1 TATA-A-TTATATAA
170864 TATAAATTAT-TAA
1 TAT-AATTATATAA
170877 TATA
1 TATA
170881 TTAAAATTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
11 1 0.01
12 24 0.35
13 11 0.16
14 22 0.32
15 10 0.14
16 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (13 bp):
TATAATTATATAA
Found at i:170819 original size:19 final size:19
Alignment explanation
Indices: 170810--170952 Score: 65
Period size: 20 Copynumber: 6.9 Consensus size: 19
170800 AATTATATGA
* *
170810 ATATAATATAAAATATATT
1 ATATAATATAATATAAATT
170829 ATATAATATGAATATATATATT
1 ATATAATAT-AATATA-A-ATT
* *
170851 AACATTTATATAATATAAATT
1 -ATA-TAATATAATATAAATT
*
170872 AT-TAATATATTA-AAATTT
1 ATATAATATAATATAAA-TT
* **
170890 ATATAAATATAAAATATTTT
1 ATAT-AATATAATATAAATT
*
170910 AAATATAATTATGATATACTAAAAT
1 --ATATAA-TAT-A-ATA-TAAATT
*
170935 ATGTAATATAATATAAAT
1 ATATAATATAATATAAAT
170953 ATACAAATTA
Statistics
Matches: 92, Mismatches: 17, Indels: 30
0.66 0.12 0.22
Matches are distributed among these distances:
17 3 0.03
18 12 0.13
19 14 0.15
20 18 0.20
21 7 0.08
22 14 0.15
23 14 0.15
24 7 0.08
25 3 0.03
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (19 bp):
ATATAATATAATATAAATT
Found at i:170890 original size:32 final size:30
Alignment explanation
Indices: 170827--170907 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 30
170817 ATAAAATATA
* *
170827 TTATATAATATGAATA-TATATATTAACAT
1 TTATATAATATAAATATTATATATTAAAAT
170856 TTATATAATATAAATTATTAATATATTAAAAT
1 TTATATAATATAAA-TATT-ATATATTAAAAT
170888 TTATATAAATATAAAATATT
1 TTATAT-AATAT-AAATATT
170908 TTAAATATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 13 0.29
30 2 0.04
31 1 0.02
32 17 0.38
33 9 0.20
34 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
TTATATAATATAAATATTATATATTAAAAT
Found at i:170967 original size:81 final size:80
Alignment explanation
Indices: 170810--170971 Score: 183
Period size: 81 Copynumber: 2.0 Consensus size: 80
170800 AATTATATGA
* * **
170810 ATATAATATAAAATATATTATATAATATGAATATATATATTAACATTTATATAATATAAATTATT
1 ATATAATATAAAATATATTATATAATATGAATATATATACTAAAATTTATATAATATAAATTACA
170875 AATATATTAAAATTT
66 AATATATTAAAATTT
170890 ATATAAATATAAAATAT-TT-TA-AATAT-AATTATGATATACTAAAATATGTAATATAATATAA
1 ATAT-AATATAAAATATATTATATAATATGAA-TAT-ATATACTAAAAT-T-T-ATATAATATAA
170951 ATATACAAAT-TA-TAAAATTT
60 AT-TACAAATATATTAAAATTT
170971 A
1 A
170972 CTTTTACACC
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
77 2 0.03
78 8 0.11
79 12 0.17
80 7 0.10
81 22 0.31
82 15 0.21
83 5 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (80 bp):
ATATAATATAAAATATATTATATAATATGAATATATATACTAAAATTTATATAATATAAATTACA
AATATATTAAAATTT
Found at i:174109 original size:2 final size:2
Alignment explanation
Indices: 174102--174135 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
174092 CAATTTGCTG
174102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
174136 TTCAGTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:175004 original size:17 final size:16
Alignment explanation
Indices: 174982--175016 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
174972 ATTTTTTATG
*
174982 ATATTTATATATAATAT
1 ATATTTAAATATAA-AT
174999 ATATTTAAATATAAAT
1 ATATTTAAATATAAAT
175015 AT
1 AT
175017 TAAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTTAAATATAAAT
Found at i:175022 original size:14 final size:14
Alignment explanation
Indices: 174999--175042 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
174989 TATATAATAT
*
174999 ATATTTAAATATAA
1 ATATTAAAATATAA
175013 ATATTAAAATATAA
1 ATATTAAAATATAA
* *
175027 TTTTTAAAATTATAA
1 ATATTAAAA-TATAA
175042 A
1 A
175043 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATTAAAATATAA
Found at i:175812 original size:56 final size:57
Alignment explanation
Indices: 175722--175831 Score: 177
Period size: 56 Copynumber: 1.9 Consensus size: 57
175712 TTAGGAATCC
** *
175722 ATCATAATTGAGTGATTGATTAAAATTGTCTGAAAAGTTTA-TAATATCGTGTACCT
1 ATCATAATTGAGTGAGAGATTAAAATTGTCTGAAAAGTTTATTAATATCATGTACCT
*
175778 ATCATAATTGAGTGAGAGATTAAAATTGTTTGAAAAGTTTATTAATATCATGTA
1 ATCATAATTGAGTGAGAGATTAAAATTGTCTGAAAAGTTTATTAATATCATGTA
175832 TTAATTCGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 38 0.78
57 11 0.22
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.39
Consensus pattern (57 bp):
ATCATAATTGAGTGAGAGATTAAAATTGTCTGAAAAGTTTATTAATATCATGTACCT
Found at i:175888 original size:24 final size:24
Alignment explanation
Indices: 175859--175906 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
175849 ATAATATTAT
* *
175859 TAAAAAATTTAAATTTTATAAAATA
1 TAAAATATTTAAA-TATATAAAATA
*
175884 TAAAATTTTTAAATATATAAAAT
1 TAAAATATTTAAATATATAAAAT
175907 TTTTTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAAATATTTAAATATATAAAATA
Found at i:175915 original size:18 final size:18
Alignment explanation
Indices: 175869--175916 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
175859 TAAAAAATTT
*
175869 AAATTTTATAAA-ATATA
1 AAATTTTTTAAATATATA
175886 AAA-TTTTTAAATATATA
1 AAATTTTTTAAATATATA
175903 AAATTTTTTAAATA
1 AAATTTTTTAAATA
175917 AAGTAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 7 0.25
17 11 0.39
18 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTTTTTAAATATATA
Found at i:175952 original size:28 final size:28
Alignment explanation
Indices: 175893--175978 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
175883 ATAAAATTTT
* *
175893 TAAATATATAAAATTTTTTAAATAAAGT-AA
1 TAAA-ATA-AAAATATTTTAAA-AAATTAAA
175923 TAAAAATAAAAA-ATTTTAAAAAATTAAA
1 T-AAAATAAAAATATTTTAAAAAATTAAA
*
175951 TATAATAAAAATATATTTAAAAAATTAA
1 TAAAATAAAAATAT-TTTAAAAAATTAA
175979 TCCTCTTCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 13 0.27
28 12 0.24
29 17 0.35
30 4 0.08
31 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (28 bp):
TAAAATAAAAATATTTTAAAAAATTAAA
Found at i:178767 original size:26 final size:22
Alignment explanation
Indices: 178718--178770 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 22
178708 TTTAAAATTA
*
178718 AATAAAAAATAATTTCATTTTT
1 AATAAAAAATAATTTAATTTTT
178740 AATAAAATAATATTATTTAATTTATT
1 AATAAAA-AATA--ATTTAATTT-TT
178766 AATAA
1 AATAA
178771 TTTGATAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
23 4 0.15
25 8 0.31
26 7 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAAAAAATAATTTAATTTTT
Found at i:178803 original size:11 final size:12
Alignment explanation
Indices: 178787--178815 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
178777 AAGTTAAGTA
178787 AATATATTAT-T
1 AATATATTATAT
178798 AATATATTATAT
1 AATATATTATAT
178810 AATATA
1 AATATA
178816 ATTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATATTATAT
Found at i:178898 original size:13 final size:13
Alignment explanation
Indices: 178864--178910 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
178854 TAAATATATC
* *
178864 AAATATAAATAAA
1 AAATATAATTATA
178877 AAATA-AATTATA
1 AAATATAATTATA
178889 AAATATAATT-TA
1 AAATATAATTATA
178901 ATAATATAAT
1 A-AATATAAT
178911 AATATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 13 0.43
13 17 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATATAATTATA
Found at i:178906 original size:25 final size:26
Alignment explanation
Indices: 178844--178916 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
178834 ATTATACATA
*
178844 AATTT-ATATATAAATATATCAAATAT
1 AATTTAATA-ATAAATATATAAAATAT
* * *
178870 AAATAAAAAATAAAT-TATAAAATAT
1 AATTTAATAATAAATATATAAAATAT
178895 AATTTAATAATATAATAATATA
1 AATTTAATAATA-AAT-ATATA
178917 TTATGAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
25 18 0.50
26 12 0.33
27 2 0.06
28 4 0.11
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (26 bp):
AATTTAATAATAAATATATAAAATAT
Found at i:179343 original size:17 final size:17
Alignment explanation
Indices: 179330--179463 Score: 62
Period size: 17 Copynumber: 7.2 Consensus size: 17
179320 AATTAAACAC
179330 TAAATAATTATAAAATA
1 TAAATAATTATAAAATA
179347 TAAATAATTA-AATAATA
1 TAAATAATTATAA-AATA
* *
179364 TAATTAAACTA-AAAATA
1 TAAAT-AATTATAAAATA
179381 -AAATAAATATAACTTAAATATA
1 TAAAT-AAT-T-A--TAAA-ATA
179403 TAAATATATT-TAAATTTATA
1 TAAATA-ATTATAAA---ATA
179423 TAAATAAATTATTAAAATA
1 TAAAT-AATTA-TAAAATA
*
179442 TTAAA-ATTTATATAAATA
1 -TAAATAATTATA-AAATA
179460 TAAA
1 TAAA
179464 ATAAAATAAA
Statistics
Matches: 95, Mismatches: 5, Indels: 34
0.71 0.04 0.25
Matches are distributed among these distances:
16 8 0.08
17 29 0.31
18 20 0.21
19 3 0.03
20 16 0.17
21 4 0.04
22 9 0.09
23 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATAATTATAAAATA
Found at i:179417 original size:18 final size:20
Alignment explanation
Indices: 179383--179428 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
179373 TAAAAATAAA
179383 ATAAATATAACTTAAA-TAT
1 ATAAATATAACTTAAATTAT
*
179402 ATAAATAT-ATTTAAATTTAT
1 ATAAATATAACTTAAA-TTAT
179422 ATAAATA
1 ATAAATA
179429 AATTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 8 0.33
20 10 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAATATAACTTAAATTAT
Found at i:179463 original size:33 final size:34
Alignment explanation
Indices: 179387--179471 Score: 101
Period size: 31 Copynumber: 2.7 Consensus size: 34
179377 AATAAAATAA
* *
179387 ATATAACT-TAAATATATAAATATATTTAAATTT
1 ATATAAATATAAATATATAAATATATTAAAATTT
*
179420 ATATAAATA-AATTAT-TAAA-ATATTAAAATTT
1 ATATAAATATAAATATATAAATATATTAAAATTT
179451 ATATAAATATAAA-ATA-AAATA
1 ATATAAATATAAATATATAAATA
179472 AATTTTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
31 25 0.57
32 7 0.16
33 12 0.27
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (34 bp):
ATATAAATATAAATATATAAATATATTAAAATTT
Found at i:179490 original size:26 final size:27
Alignment explanation
Indices: 179443--179498 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
179433 ATTAAAATAT
179443 TAAAATTTATATAAATATAAAATAAAA
1 TAAAATTTATATAAATATAAAATAAAA
* *
179470 TAAATTTTAT-TATAATA-AAAATAACA
1 TAAAATTTATATA-AATATAAAATAAAA
179496 TAA
1 TAA
179499 CAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAAATTTATATAAATATAAAATAAAA
Found at i:180604 original size:13 final size:13
Alignment explanation
Indices: 180586--180632 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 13
180576 TTTAATGATT
180586 AAATAAATTATTA
1 AAATAAATTATTA
180599 AAATAATATTAATTTA
1 AAATAA-ATT-A-TTA
180615 AAATAAATTATTA
1 AAATAAATTATTA
180628 AAATA
1 AAATA
180633 TTATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 14 0.45
14 4 0.13
15 4 0.13
16 9 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAAATTATTA
Found at i:180683 original size:3 final size:3
Alignment explanation
Indices: 180669--180786 Score: 56
Period size: 3 Copynumber: 41.3 Consensus size: 3
180659 TGTTAATAGT
* * * *
180669 TTA TTG TTA TTA TTA -TA ATA TTA TTA TTA TT- TTA ATA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
180715 -TA TGTA TTA TTA -CA TTAA TAA TTT TTA -AA TATA TTA TTA -TA TTA
1 TTA T-TA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* *
180759 ATA TT- TT- TTA -AA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
180787 AAATATAATA
Statistics
Matches: 87, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
2 15 0.17
3 65 0.75
4 7 0.08
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:180695 original size:17 final size:17
Alignment explanation
Indices: 180670--180783 Score: 71
Period size: 17 Copynumber: 6.9 Consensus size: 17
180660 GTTAATAGTT
*
180670 TATTGTTATTATTATAA
1 TATTATTATTATTATAA
*
180687 TATTATTATTATTTTAA
1 TATTATTATTATTATAA
* *
180704 TAATATTATTA-TAT-G
1 TATTATTATTATTATAA
*
180719 TATTATTA-CATTAATAA
1 TATTATTATTATT-ATAA
*
180736 T-TT-TTAAATATATTATTA
1 TATTATT--AT-TATTATAA
* *
180754 TATTAATATT-TTTTAA
1 TATTATTATTATTATAA
180770 -ATTATTATTATTAT
1 TATTATTATTATTAT
180784 TATAAATATA
Statistics
Matches: 72, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 1 0.01
15 18 0.25
16 13 0.18
17 28 0.39
18 6 0.08
19 5 0.07
20 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTATTATTATTATAA
Found at i:180758 original size:27 final size:27
Alignment explanation
Indices: 180685--180785 Score: 114
Period size: 27 Copynumber: 3.6 Consensus size: 27
180675 TTATTATTAT
*
180685 AATATTATTATTATTTTAATAATATTATTA
1 AATA-TATTATTATATTAATAAT-TT-TTA
* * *
180715 TATGTATTATTACATTAATAATTTTTA
1 AATATATTATTATATTAATAATTTTTA
*
180742 AATATATTATTATATTAATATTTTTTA
1 AATATATTATTATATTAATAATTTTTA
180769 AAT-TATTATTATTATTA
1 AATATATTATTA-TATTA
180786 TAAATATAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
26 8 0.13
27 34 0.55
28 2 0.03
29 16 0.26
30 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
AATATATTATTATATTAATAATTTTTA
Found at i:180812 original size:62 final size:64
Alignment explanation
Indices: 180675--180812 Score: 140
Period size: 65 Copynumber: 2.1 Consensus size: 64
180665 TAGTTTATTG
* * * *
180675 TTATTATTATAATATTATTATTATTTTAATAATATTATTATATGTATTATTACATTAATAATTT
1 TTATTATTATAATATTAATATTATTTTAATAATATTATTATATGTATAAATACAATAATAATTT
* * *
180739 TTAAATATATTATTATATTAATATT-TTTTAA-ATTATTATTATTAT-TATAAATATAATAATAG
1 TT--AT-TATTATAATATTAATATTATTTTAATAATATTATTA-TATGTATAAATACAATAATA-
180801 A-TT
61 ATTT
180804 TTATTATTA
1 TTATTATTA
180813 AAAAATTATC
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
62 5 0.08
63 2 0.03
64 2 0.03
65 25 0.40
66 12 0.19
67 16 0.26
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (64 bp):
TTATTATTATAATATTAATATTATTTTAATAATATTATTATATGTATAAATACAATAATAATTT
Found at i:181158 original size:19 final size:20
Alignment explanation
Indices: 181117--181159 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
181107 TACATACTTG
* *
181117 ATTTGAAAATTTAAATTAAT
1 ATTTGAAAAATTAAAATAAT
*
181137 ATTT-AAAAATTAAAATATT
1 ATTTGAAAAATTAAAATAAT
181156 ATTT
1 ATTT
181160 TTATAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTTGAAAAATTAAAATAAT
Found at i:189127 original size:21 final size:19
Alignment explanation
Indices: 189103--189167 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
189093 TATTTTTATT
189103 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAATA-A
189124 TAAATATTAATAT-AAA-AA
1 TAAAT-TTAATATAAAATAA
*
189142 TAATTTTAATATATAAATAA
1 TAAATTTAATATA-AAATAA
189162 TAAATT
1 TAAATT
189168 AAAATCATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 7 0.18
18 5 0.13
19 4 0.11
20 10 0.26
21 8 0.21
22 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTAATATAAAATAA
Done.