Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold127
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: 4281254
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 1 of 26
Found at i:196 original size:17 final size:17
Alignment explanation
Indices: 174--206 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
164 CAGGGTTTAG
174 GGTTTAGATTTAAGTTA
1 GGTTTAGATTTAAGTTA
*
191 GGTTTAGGTTTAAGTT
1 GGTTTAGATTTAAGTT
207 GGGGTTTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (17 bp):
GGTTTAGATTTAAGTTA
Found at i:214 original size:12 final size:12
Alignment explanation
Indices: 197--237 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
187 GTTAGGTTTA
197 GGTTTAAGTTGG
1 GGTTTAAGTTGG
* *
209 GGTTTAGGTTAG
1 GGTTTAAGTTGG
221 GGTTTAAGTTTGG
1 GGTTTAAG-TTGG
234 GGTT
1 GGTT
238 CGAGGTTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (12 bp):
GGTTTAAGTTGG
Found at i:215 original size:24 final size:25
Alignment explanation
Indices: 188--252 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
178 TAGATTTAAG
188 TTAGGTTTA-GGTTTAAG-TTGGGGT
1 TTAGG-TTAGGGTTTAAGTTTGGGGT
212 TTAGGTTAGGGTTTAAGTTTGGGGT
1 TTAGGTTAGGGTTTAAGTTTGGGGT
*
237 TCGAGGTTCAGGGTTT
1 T-TAGGTT-AGGGTTT
253 GGGGTTTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
23 3 0.08
24 13 0.36
25 8 0.22
26 5 0.14
27 7 0.19
ACGTcount: A:0.15, C:0.03, G:0.38, T:0.43
Consensus pattern (25 bp):
TTAGGTTAGGGTTTAAGTTTGGGGT
Found at i:347 original size:26 final size:26
Alignment explanation
Indices: 295--347 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
285 AGGGTTAGAA
* *
295 GTTTGGGGTTTGGGGGTTGGGGATCG
1 GTTTAGGGTTTGGGGGTTGAGGATCG
*
321 GTTTAGGG-TTGGGGGTTCGAGGTTCG
1 GTTTAGGGTTTGGGGGTT-GAGGATCG
347 G
1 G
348 GGTCAGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.06, C:0.06, G:0.55, T:0.34
Consensus pattern (26 bp):
GTTTAGGGTTTGGGGGTTGAGGATCG
Found at i:410 original size:7 final size:7
Alignment explanation
Indices: 326--424 Score: 98
Period size: 7 Copynumber: 14.7 Consensus size: 7
316 GATCGGTTTA
*
326 GGGTTGG
1 GGGTTCG
333 GGGTTCG
1 GGGTTCG
*
340 AGGTTCG
1 GGGTTCG
347 GGG-TC-
1 GGGTTCG
* *
352 AGGTT-T
1 GGGTTCG
358 GGGTTCG
1 GGGTTCG
365 GGGTTCG
1 GGGTTCG
372 GGGTTCG
1 GGGTTCG
* *
379 AGCTTCG
1 GGGTTCG
*
386 AGGTTCG
1 GGGTTCG
393 GGGTTCG
1 GGGTTCG
*
400 GGGTTCT
1 GGGTTCG
407 GGGTT-G
1 GGGTTCG
413 GGGTTCG
1 GGGTTCG
420 GGGTT
1 GGGTT
425 TCCGGTTGGG
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
5 2 0.03
6 12 0.16
7 62 0.82
ACGTcount: A:0.04, C:0.12, G:0.53, T:0.31
Consensus pattern (7 bp):
GGGTTCG
Found at i:431 original size:27 final size:27
Alignment explanation
Indices: 297--444 Score: 83
Period size: 27 Copynumber: 5.6 Consensus size: 27
287 GGTTAGAAGT
* *
297 TTGGGGTTTGGGGGTT-GGGGATCG-GT
1 TTGGGGTTT-GGGGTTCGGGGTTCGCGG
* * *
323 TTAGGGTTGGGGGTTCGAGGTTCG-GG
1 TTGGGGTTTGGGGTTCGGGGTTCGCGG
* ** *
349 GTCAGGTTT-GGGTTCGGGGTTCGGGG
1 TTGGGGTTTGGGGTTCGGGGTTCGCGG
* * * * *
375 TTCGAGCTTCGAGGTTCGGGGTTCGGGG
1 TT-GGGGTTTGGGGTTCGGGGTTCGCGG
*
403 TTCTGGG-TTGGGGTTCGGGGTTTC-CGG
1 TT-GGGGTTTGGGGTTCGGGG-TTCGCGG
430 TTGGGGTTTGGGGTT
1 TTGGGGTTTGGGGTT
445 TAGGATTTGA
Statistics
Matches: 94, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
25 19 0.20
26 25 0.27
27 27 0.29
28 23 0.24
ACGTcount: A:0.04, C:0.10, G:0.52, T:0.34
Consensus pattern (27 bp):
TTGGGGTTTGGGGTTCGGGGTTCGCGG
Found at i:440 original size:7 final size:7
Alignment explanation
Indices: 387--753 Score: 82
Period size: 7 Copynumber: 53.6 Consensus size: 7
377 CGAGCTTCGA
*
387 GGTTCGG
1 GGTTTGG
*
394 GGTTCGG
1 GGTTTGG
401 GGTTCT-G
1 GGTT-TGG
408 GG-TTGG
1 GGTTTGG
*
414 GGTTCGG
1 GGTTTGG
**
421 GGTTTCC
1 GGTTTGG
428 GG-TTGG
1 GGTTTGG
434 GGTTTGG
1 GGTTTGG
*
441 GGTTTAG
1 GGTTTGG
* *
448 GATTTGA
1 GGTTTGG
* *
455 GGTAT-A
1 GGTTTGG
*
461 GGTTTGA
1 GGTTTGG
*
468 AGTTAT-G
1 GGTT-TGG
475 GGTTTAGG
1 GGTTT-GG
*
483 GGTTTAG
1 GGTTTGG
*
490 GG-TTCG
1 GGTTTGG
**
496 GGTGCGG
1 GGTTTGG
*
503 GGTTCGG
1 GGTTTGG
*
510 GGTTTCG
1 GGTTTGG
* *
517 GGTGTCG
1 GGTTTGG
*
524 GG-TT-C
1 GGTTTGG
*
529 GGTTTCG
1 GGTTTGG
536 GGTTTCGG
1 GGTTT-GG
*
544 GTTTTGG
1 GGTTTGG
*
551 GG-TTAG
1 GGTTTGG
*
557 GGTTTAG
1 GGTTTGG
*
564 GGTTTAG
1 GGTTTGG
* *
571 GGCTTAG
1 GGTTTGG
*
578 GG-CTGAG
1 GGTTTG-G
*
585 GGCTTAGG
1 GG-TTTGG
* *
593 GTTTTAG
1 GGTTTGG
*
600 GGTCTGG
1 GGTTTGG
* *
607 GGTCTAG
1 GGTTTGG
*
614 GGTCTGG
1 GGTTTGG
*
621 GGTCTGG
1 GGTTTGG
*
628 GGTTTAG
1 GGTTTGG
* *
635 GGTCTAG
1 GGTTTGG
*
642 GGTTCGG
1 GGTTTGG
*
649 GGTTCGG
1 GGTTTGG
*
656 GG-TTCG
1 GGTTTGG
*
662 GGTTTCG
1 GGTTTGG
669 GGTTT-G
1 GGTTTGG
675 GGTTTCGG
1 GGTTT-GG
683 GGTTTGG
1 GGTTTGG
*
690 GGTTCGG
1 GGTTTGG
*
697 GG--TCG
1 GGTTTGG
**
702 GGTTCCG
1 GGTTTGG
709 GGTTT-G
1 GGTTTGG
*
715 GGTTTCG
1 GGTTTGG
*
722 GGTTTCG
1 GGTTTGG
*
729 GGTTTCG
1 GGTTTGG
736 GGTTCT-G
1 GGTT-TGG
*
743 GGTTCGG
1 GGTTTGG
750 GGTT
1 GGTT
754 AGGGTTTCAG
Statistics
Matches: 276, Mismatches: 60, Indels: 48
0.72 0.16 0.12
Matches are distributed among these distances:
5 6 0.02
6 44 0.16
7 204 0.74
8 21 0.08
9 1 0.00
ACGTcount: A:0.05, C:0.10, G:0.49, T:0.36
Consensus pattern (7 bp):
GGTTTGG
Found at i:445 original size:20 final size:20
Alignment explanation
Indices: 387--445 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
377 CGAGCTTCGA
*
387 GGTTCGGGGTTCGGGG-TTCTG
1 GGTT-GGGGTTCGGGGTTTC-C
408 GGTTGGGGTTCGGGGTTTCC
1 GGTTGGGGTTCGGGGTTTCC
*
428 GGTTGGGGTTTGGGGTTT
1 GGTTGGGGTTCGGGGTTT
446 AGGATTTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 28 0.80
21 7 0.20
ACGTcount: A:0.00, C:0.10, G:0.53, T:0.37
Consensus pattern (20 bp):
GGTTGGGGTTCGGGGTTTCC
Found at i:528 original size:34 final size:34
Alignment explanation
Indices: 489--553 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
479 TAGGGGTTTA
489 GGGTTCGGGTGCGGGGTTCGGGGTTTCGGGTGTC
1 GGGTTCGGGTGCGGGGTTCGGGGTTTCGGGTGTC
* * * * *
523 GGGTTCGGTTTCGGGTTTCGGGTTTTGGGGT
1 GGGTTCGGGTGCGGGGTTCGGGGTTTCGGGT
554 TAGGGTTTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.52, T:0.35
Consensus pattern (34 bp):
GGGTTCGGGTGCGGGGTTCGGGGTTTCGGGTGTC
Found at i:534 original size:19 final size:20
Alignment explanation
Indices: 492--546 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
482 GGGTTTAGGG
492 TTCGGGTG-CGGGGTTCGGGGT
1 TTCGGGTGTC-GGGTTC-GGGT
513 TTCGGGTGTCGGGTTC-GGT
1 TTCGGGTGTCGGGTTCGGGT
*
532 TTCGGGTTTCGGGTT
1 TTCGGGTGTCGGGTT
547 TTGGGGTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 17 0.53
21 14 0.44
22 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.49, T:0.36
Consensus pattern (20 bp):
TTCGGGTGTCGGGTTCGGGT
Found at i:924 original size:21 final size:21
Alignment explanation
Indices: 852--923 Score: 54
Period size: 23 Copynumber: 3.1 Consensus size: 21
842 TTGCGGGTTC
*
852 GGGTTTAGGGTTTAGGGGTTA
1 GGGTTTAGGGTTTAGGGTTTA
*
873 GGGTGTTTAGGGTGTTTAGAGGGTTA
1 -GG-GTTTA-GG-GTTTAG-GGTTTA
* *
899 TGGGGTTAGGGTTTAGGGGTTA
1 -GGGTTTAGGGTTTAGGGTTTA
921 GGG
1 GGG
924 GGGATCGGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
21 3 0.07
22 8 0.18
23 11 0.25
24 4 0.09
25 10 0.23
26 8 0.18
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (21 bp):
GGGTTTAGGGTTTAGGGTTTA
Found at i:2661 original size:15 final size:16
Alignment explanation
Indices: 2601--2661 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 16
2591 TTGCGGGTTT
2601 AGGGTTTAGGGTTT-C
1 AGGGTTTAGGGTTTAC
*
2616 -GGG-TTCGGGTTT-C
1 AGGGTTTAGGGTTTAC
2629 -GGG-TTAGGGTTTAC
1 AGGGTTTAGGGTTTAC
*
2643 AGGGTTTAGGTTTTA-
1 AGGGTTTAGGGTTTAC
2658 AGGG
1 AGGG
2662 GGGTTGACGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 20 0.50
14 4 0.10
15 7 0.17
16 9 0.22
ACGTcount: A:0.13, C:0.07, G:0.43, T:0.38
Consensus pattern (16 bp):
AGGGTTTAGGGTTTAC
Found at i:2820 original size:13 final size:13
Alignment explanation
Indices: 2802--2845 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
2792 TTCGGGGTAG
2802 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
*
2815 GGTTTA-GGTTTCG
1 GGTTTAGGGTTT-A
*
2828 GGTTTAGGGTTTC
1 GGTTTAGGGTTTA
2841 GGTTT
1 GGTTT
2846 CGGAGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 17 0.63
14 5 0.19
ACGTcount: A:0.09, C:0.05, G:0.39, T:0.48
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:2927 original size:12 final size:12
Alignment explanation
Indices: 2899--3012 Score: 66
Period size: 12 Copynumber: 8.8 Consensus size: 12
2889 TTCGGGTTTC
2899 GGTTTCGGGTTTAG
1 GGTTTCGGG--TAG
*
2913 GGTTTGGGGTAG
1 GGTTTCGGGTAG
*
2925 GGTTTCGGGTTTCG
1 GGTTTCGGG--TAG
* *
2939 GGTTTAGGGTTTCG
1 GGTTTCGGG--TAG
*
2953 GGTTTCGGTTAG
1 GGTTTCGGGTAG
*
2965 GGTTTCGGGTTCG
1 GGTTTCGGG-TAG
** *
2978 GGTTGAGGTTTAG
1 GGTTTCGG-GTAG
*
2991 GGTTTCGGTTAG
1 GGTTTCGGGTAG
3003 GGTTTCGGGT
1 GGTTTCGGGT
3013 TTCAGGGTTT
Statistics
Matches: 80, Mismatches: 16, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
12 34 0.43
13 16 0.20
14 30 0.38
ACGTcount: A:0.06, C:0.08, G:0.46, T:0.40
Consensus pattern (12 bp):
GGTTTCGGGTAG
Found at i:3667 original size:7 final size:7
Alignment explanation
Indices: 482--5775 Score: 2835
Period size: 7 Copynumber: 752.0 Consensus size: 7
472 ATGGGTTTAG
*
482 GGGTTTA
1 GGGTTTC
489 GGG-TTC
1 GGGTTTC
*
495 GGG-TGC
1 GGGTTTC
*
501 GGGGTTC
1 GGGTTTC
508 GGGGTTTC
1 -GGGTTTC
*
516 GGGTGTC
1 GGGTTTC
523 GGG-TTC
1 GGGTTTC
529 -GGTTTC
1 GGGTTTC
535 GGGTTTC
1 GGGTTTC
*
542 GGGTTTT
1 GGGTTTC
* *
549 GGGGTTA
1 GGGTTTC
*
556 GGGTTTA
1 GGGTTTC
*
563 GGGTTTA
1 GGGTTTC
* *
570 GGGCTTA
1 GGGTTTC
* **
577 GGGCTGA
1 GGGTTTC
* *
584 GGGCTTA
1 GGGTTTC
*
591 GGGTTTTA
1 GGG-TTTC
* *
599 GGGTCTG
1 GGGTTTC
* *
606 GGGTCTA
1 GGGTTTC
* *
613 GGGTCTG
1 GGGTTTC
* *
620 GGGTCTG
1 GGGTTTC
*
627 GGGTTTA
1 GGGTTTC
* *
634 GGGTCTA
1 GGGTTTC
641 GGG-TTC
1 GGGTTTC
*
647 GGGGTTC
1 GGGTTTC
*
654 GGGGTTC
1 GGGTTTC
661 GGGTTTC
1 GGGTTTC
668 GGGTTT-
1 GGGTTTC
674 GGGTTTC
1 GGGTTTC
681 GGGGTTT-
1 -GGGTTTC
*
688 GGGGTTC
1 GGGTTTC
*
695 GGG-GTC
1 GGGTTTC
*
701 GGGTTCC
1 GGGTTTC
708 GGGTTT-
1 GGGTTTC
714 GGGTTTC
1 GGGTTTC
721 GGGTTTC
1 GGGTTTC
728 GGGTTTC
1 GGGTTTC
735 GGG-TTC
1 GGGTTTC
741 TGGG-TTC
1 -GGGTTTC
* *
748 GGGGTTA
1 GGGTTTC
755 GGGTTTC
1 GGGTTTC
*
762 AGGTTTC
1 GGGTTTC
*
769 GGG-GT-
1 GGGTTTC
774 -GGTTTC
1 GGGTTTC
780 GGGTGTTC
1 GGGT-TTC
*
788 -GGATTC
1 GGGTTTC
*
794 -GGATTC
1 GGGTTTC
*
800 -GGATTC
1 GGGTTTC
*
806 GGGTCT-
1 GGGTTTC
*
812 GGG-GTC
1 GGGTTTC
818 GGG-TTC
1 GGGTTTC
*
824 GGGGTTC
1 GGGTTTC
*
831 GGGGTTC
1 GGGTTTC
*
838 GGGGTTGC
1 -GGGTTTC
846 GGG-TTC
1 GGGTTTC
*
852 GGGTTTA
1 GGGTTTC
*
859 GGGTTTAG
1 GGGTTT-C
**
867 GGGTTAG
1 GGGTTTC
*
874 GGTGTTTAG
1 GG-GTTT-C
*
883 GGTGTTTAGA
1 GG-GTTT--C
893 GGGTTAT-
1 GGGTT-TC
* *
900 GGGGTTA
1 GGGTTTC
*
907 GGGTTTAG
1 GGGTTT-C
**
915 GGGTTAGG
1 GGGTT-TC
**
923 GGGGATC
1 GGGTTTC
*
930 GGGGTTC
1 GGGTTTC
*
937 AGGGGTTC
1 -GGGTTTC
945 GGGTTTC
1 GGGTTTC
*
952 GGGGTTGC
1 -GGGTTTC
*
960 GGG-GTC
1 GGGTTTC
966 GGGGTTTC
1 -GGGTTTC
*
974 GGGGTTTA
1 -GGGTTTC
*
982 AGG--TC
1 GGGTTTC
987 -GGTTGT-
1 GGGTT-TC
* *
993 GGTAGTGTA
1 GG--GTTTC
*
1002 GGGTTTA
1 GGGTTTC
*
1009 GGGTTTA
1 GGGTTTC
*
1016 GGG-TTA
1 GGGTTTC
*
1022 GGGTTTA
1 GGGTTTC
*
1029 GGGTTGTA
1 GGGTT-TC
*
1037 GGG-TTA
1 GGGTTTC
*
1043 GGGTTTA
1 GGGTTTC
*
1050 GGGTTTA
1 GGGTTTC
* *
1057 GGGTGTA
1 GGGTTTC
*
1064 GGG-TTA
1 GGGTTTC
*
1070 GGGTTTTA
1 GGG-TTTC
*
1078 GGGTTTA
1 GGGTTTC
*
1085 GGGTTATA
1 GGGTT-TC
*
1093 GGGTGTTA
1 GGGT-TTC
*
1101 GGGTTTA
1 GGGTTTC
*
1108 GGGTTTA
1 GGGTTTC
*
1115 GGGTTTAT
1 GGGTTT-C
*
1123 GGGTTTAG
1 GGGTTT-C
*
1131 GGTGTTTA
1 GG-GTTTC
1139 GGGTTT-
1 GGGTTTC
*
1145 --GTTTA
1 GGGTTTC
* *
1150 AGGTTTA
1 GGGTTTC
*
1157 GGGTTTA
1 GGGTTTC
*
1164 GGGTTTA
1 GGGTTTC
*
1171 GGGTTTTA
1 GGG-TTTC
*
1179 GGGTTAATTT
1 GGG-T--TTC
* * *
1189 AGG-ATG
1 GGGTTTC
1195 GGGTTT-
1 GGGTTTC
* *
1201 AGGTTTA
1 GGGTTTC
*
1208 GGGTTTA
1 GGGTTTC
*
1215 GGGTTTA
1 GGGTTTC
*
1222 GGGTTTA
1 GGGTTTC
1229 GGTAGTTT-
1 GG--GTTTC
*
1237 AGGTTTC
1 GGGTTTC
*
1244 AGGGTTTA
1 -GGGTTTC
1252 GGGTTTAC
1 GGGTTT-C
*
1260 GGGTTTA
1 GGGTTTC
*
1267 GGGTTTA
1 GGGTTTC
*
1274 GGGTTTA
1 GGGTTTC
1281 GGGTTT-
1 GGGTTTC
*
1287 GGGTTTA
1 GGGTTTC
* *
1294 GGTTTTA
1 GGGTTTC
*
1301 GGGTTTAA
1 GGGTTT-C
* *
1309 AGGTTTT
1 GGGTTTC
*
1316 GGGTTTA
1 GGGTTTC
*
1323 GGGTTTAG
1 GGGTTT-C
*
1331 GGGTTTA
1 GGGTTTC
*
1338 GGGTTTA
1 GGGTTTC
*
1345 GGGTTTTA
1 GGG-TTTC
1353 GGGTTAT-
1 GGGTT-TC
*
1360 GGGTTTA
1 GGGTTTC
1367 GGGTTAGGTAC
1 GGGTT---T-C
*
1378 GGGTTATAA
1 GGGTT-T-C
*
1387 GGGTTTA
1 GGGTTTC
1394 GGGTTTC
1 GGGTTTC
*
1401 GGGTTTA
1 GGGTTTC
*
1408 GGGTTTA
1 GGGTTTC
*
1415 GGGTTGTTA
1 GGG-T-TTC
* *
1424 GGGTGGTA
1 GGGT-TTC
*
1432 GGGTTTAG
1 GGGTTT-C
1440 GGGTTGTC
1 GGGTT-TC
1448 GGG-TTC
1 GGGTTTC
1454 -GGTATTC
1 GGGT-TTC
1461 -GGTTT-
1 GGGTTTC
1466 GGGTTTC
1 GGGTTTC
1473 GGG-TTC
1 GGGTTTC
*
1479 -GG-AT-
1 GGGTTTC
*
1483 GGGTATC
1 GGGTTTC
*
1490 -GG-TTA
1 GGGTTTC
*
1495 GGGTGTAC
1 GGGT-TTC
1503 GGGGTTTAC
1 -GGGTTT-C
1512 GGGTTTC
1 GGGTTTC
*
1519 GGGTTTA
1 GGGTTTC
1526 GGGTTTC
1 GGGTTTC
**
1533 GTATTT-
1 GGGTTTC
*
1539 GGGTTTA
1 GGGTTTC
*
1546 GGGTTTA
1 GGGTTTC
1553 GGG-TT-
1 GGGTTTC
*
1558 GAGGTTTA
1 G-GGTTTC
*
1566 GGGTTTA
1 GGGTTTC
*
1573 GGGTTTAG
1 GGGTTT-C
*
1581 GGGTTTA
1 GGGTTTC
*
1588 GCGG-TTA
1 G-GGTTTC
*
1595 GGGTTTA
1 GGGTTTC
*
1602 GGGTTTA
1 GGGTTTC
*
1609 GGGTTTAG
1 GGGTTT-C
**
1617 GGGTTAG
1 GGGTTTC
1624 GGGTTT-
1 GGGTTTC
* *
1630 AGGTTTA
1 GGGTTTC
* *
1637 GGTTTTA
1 GGGTTTC
*
1644 GGGTTTA
1 GGGTTTC
*
1651 GGGTTTA
1 GGGTTTC
*
1658 GGGTTTA
1 GGGTTTC
1665 GGGTTT-
1 GGGTTTC
* * *
1671 AGGTGTA
1 GGGTTTC
*
1678 GGG-TTA
1 GGGTTTC
*
1684 GGGTTTTA
1 GGG-TTTC
*
1692 GGGTTTA
1 GGGTTTC
*
1699 GGGTTTTA
1 GGG-TTTC
*
1707 GGGTTTA
1 GGGTTTC
*
1714 GGGTTTAG
1 GGGTTT-C
*
1722 GGGTTTA
1 GGGTTTC
*
1729 GGG-TTA
1 GGGTTTC
1735 GGG-TT-
1 GGGTTTC
*
1740 GAGGTTTA
1 G-GGTTTC
*
1748 GGGTTTA
1 GGGTTTC
*
1755 GGGTTTA
1 GGGTTTC
*
1762 GGGTTTA
1 GGGTTTC
*
1769 GGGTTTA
1 GGGTTTC
**
1776 GGGTTGAG
1 GGGTT-TC
* **
1784 GGGGTGA
1 GGGTTTC
*
1791 GGGTTTA
1 GGGTTTC
*
1798 GGG-TTA
1 GGGTTTC
*
1804 GGGTTTA
1 GGGTTTC
*
1811 GGGTTTAG
1 GGGTTT-C
1819 GGGTTT-
1 GGGTTTC
*
1825 GAGG--TA
1 G-GGTTTC
*
1831 GGGTTTA
1 GGGTTTC
*
1838 GGGTTTA
1 GGGTTTC
*
1845 GGGTTTA
1 GGGTTTC
*
1852 GGGTTTA
1 GGGTTTC
1859 GGGTTT-
1 GGGTTTC
* *
1865 AGGTTTA
1 GGGTTTC
*
1872 GGGTTTT
1 GGGTTTC
* *
1879 AGG-TTA
1 GGGTTTC
*
1885 GGGTTTA
1 GGGTTTC
*
1892 GGG-TTA
1 GGGTTTC
1898 GGGTTT-
1 GGGTTTC
*
1904 -GGTTTA
1 GGGTTTC
**
1910 GGGTTGA
1 GGGTTTC
**
1917 GGGTTGA
1 GGGTTTC
*
1924 GGGTTTA
1 GGGTTTC
* *
1931 GGGTATA
1 GGGTTTC
*
1938 GGGTTTA
1 GGGTTTC
*
1945 GGGTTTTA
1 GGG-TTTC
**
1953 GGG-TGA
1 GGGTTTC
**
1959 GAGGTTGA
1 G-GGTTTC
*
1967 GGGTTTA
1 GGGTTTC
* *
1974 GGTTTTA
1 GGGTTTC
1981 GGG-TT-
1 GGGTTTC
* *
1986 AGGTTTA
1 GGGTTTC
*
1993 GGGTTTTA
1 GGG-TTTC
*
2001 GGGTTTA
1 GGGTTTC
*
2008 GGGTTTA
1 GGGTTTC
*
2015 GGGTTTA
1 GGGTTTC
*
2022 GGGTTTG
1 GGGTTTC
*
2029 GGGTTTG
1 GGGTTTC
2036 GGGTTT-
1 GGGTTTC
*
2042 GGGTTTG
1 GGGTTTC
*
2049 GGGTTTG
1 GGGTTTC
2056 GGGTTT-
1 GGGTTTC
*
2062 GGGTTTG
1 GGGTTTC
2069 GGGTTT-
1 GGGTTTC
*
2075 GGGTTTG
1 GGGTTTC
*
2082 GGGTTTG
1 GGGTTTC
*
2089 GGGTTTT
1 GGGTTTC
*
2096 GGGTTTG
1 GGGTTTC
*
2103 GGGTTTG
1 GGGTTTC
* *
2110 GGGTGTG
1 GGGTTTC
2117 GGGTTT-
1 GGGTTTC
2123 GGGTTT-
1 GGGTTTC
2129 --GTTT-
1 GGGTTTC
2133 GGGTTT-
1 GGGTTTC
*
2139 GGGGTT-
1 GGGTTTC
2145 GGGTTT-
1 GGGTTTC
*
2151 GGGTTTG
1 GGGTTTC
*
2158 GGGTTTA
1 GGGTTTC
*
2165 GGGTTTAG
1 GGGTTT-C
*
2173 GGGTTTA
1 GGGTTTC
*
2180 GGGTTTA
1 GGGTTTC
*
2187 GGGTTTA
1 GGGTTTC
* *
2194 TGGTTTA
1 GGGTTTC
2201 GGGTTT-
1 GGGTTTC
* *
2207 AGGTTTA
1 GGGTTTC
*
2214 GGG-GT-
1 GGGTTTC
* **
2219 AGGTTGA
1 GGGTTTC
* *
2226 GGTTTTA
1 GGGTTTC
*
2233 GGGTTTA
1 GGGTTTC
*
2240 GGGTTTA
1 GGGTTTC
*
2247 GGG-TTA
1 GGGTTTC
**
2253 GGGTTGA
1 GGGTTTC
*
2260 GGGTTTA
1 GGGTTTC
*
2267 GGGTTTA
1 GGGTTTC
* *
2274 GGGTGTA
1 GGGTTTC
* *
2281 GGTTTTA
1 GGGTTTC
*
2288 GGGTTTA
1 GGGTTTC
*
2295 GGGTTTTA
1 GGG-TTTC
2303 GGGTTAAT-
1 GGGTT--TC
*
2311 GGGTTTT
1 GGGTTTC
* *
2318 AGGTTTA
1 GGGTTTC
*
2325 GGGTTTA
1 GGGTTTC
*
2332 GGGTTTA
1 GGGTTTC
*
2339 GGG-TTA
1 GGGTTTC
*
2345 GGGTTTTA
1 GGG-TTTC
2353 GGGTTT-
1 GGGTTTC
* *
2359 AGGTTTA
1 GGGTTTC
*
2366 GGG-TTA
1 GGGTTTC
* *
2372 GGATTTA
1 GGGTTTC
2379 GGGTTT-
1 GGGTTTC
* *
2385 AGGTTTA
1 GGGTTTC
*
2392 GGGTTTA
1 GGGTTTC
*
2399 GGGTTTA
1 GGGTTTC
2406 GGGTTT-
1 GGGTTTC
* **
2412 AGGTTGA
1 GGGTTTC
*
2419 GGGTTTTA
1 GGG-TTTC
*
2427 GGGTTTA
1 GGGTTTC
*
2434 GGGTTTA
1 GGGTTTC
*
2441 GGGTTTA
1 GGGTTTC
*
2448 GGGTTTA
1 GGGTTTC
**
2455 GGGTTGA
1 GGGTTTC
* *
2462 GGGGTTA
1 GGGTTTC
*
2469 GGGTTTA
1 GGGTTTC
2476 GGG-TT-
1 GGGTTTC
* *
2481 AGGTTTA
1 GGGTTTC
*
2488 GGGTTTTA
1 GGG-TTTC
*
2496 GGGTTTA
1 GGGTTTC
*
2503 GGGTTTA
1 GGGTTTC
*
2510 GGGTTTA
1 GGGTTTC
* *
2517 GTGTTTA
1 GGGTTTC
*
2524 GGGTTTA
1 GGGTTTC
*
2531 GGGTTTA
1 GGGTTTC
2538 GGGTTT-
1 GGGTTTC
** *
2544 ATG-TTA
1 GGGTTTC
*
2550 GGGTTATTA
1 GGG-T-TTC
*
2559 GGGATTTA
1 GGG-TTTC
2567 GGGTTTC
1 GGGTTTC
***
2574 GTGG-GGG
1 G-GGTTTC
*
2581 GGGGTTC
1 GGGTTTC
*
2588 GGGTTGC
1 GGGTTTC
*
2595 GGGTTTA
1 GGGTTTC
*
2602 GGGTTTA
1 GGGTTTC
2609 GGGTTTC
1 GGGTTTC
2616 GGG-TTC
1 GGGTTTC
2622 GGGTTTC
1 GGGTTTC
*
2629 GGG-TTA
1 GGGTTTC
2635 GGGTTTAC
1 GGGTTT-C
*
2643 AGGGTTTA
1 -GGGTTTC
* *
2651 GGTTTTAAGGG
1 GGGTTT----C
*
2662 GGGTTGAC
1 GGGTT-TC
2670 GAGGGTTTC
1 --GGGTTTC
2679 GGGTTTC
1 GGGTTTC
2686 GGGTTTC
1 GGGTTTC
2693 GGGTTTC
1 GGGTTTC
2700 GGGGTTTC
1 -GGGTTTC
*
2708 GGTTTTC
1 GGGTTTC
*
2715 GGTTTTGAC
1 GGGTTT--C
2724 GGGTTTTC
1 GGG-TTTC
2732 GGGTTTC
1 GGGTTTC
*
2739 GGGTTTA
1 GGGTTTC
*
2746 GGATTTC
1 GGGTTTC
*
2753 GGGTGTC
1 GGGTTTC
*
2760 GGGTTTA
1 GGGTTTC
2767 GGGTTTTC
1 GGG-TTTC
2775 GGGTTTC
1 GGGTTTC
*
2782 GGG-TTA
1 GGGTTTC
*
2788 GGTTTTC
1 GGGTTTC
* *
2795 GGG-GTA
1 GGGTTTC
*
2801 GGGTTTA
1 GGGTTTC
2808 GGGTTT-
1 GGGTTTC
*
2814 AGGTTT-
1 GGGTTTC
*
2820 AGGTTTC
1 GGGTTTC
*
2827 GGGTTTA
1 GGGTTTC
2834 GGGTTTC
1 GGGTTTC
2841 -GGTTTC
1 GGGTTTC
2847 GGAGTTTTTTC
1 GG-G---TTTC
2858 GGGTTTC
1 GGGTTTC
*
2865 GGG---G
1 GGGTTTC
*
2869 GGGTATC
1 GGGTTTC
2876 AGAGGTTTC
1 -G-GGTTTC
*
2885 GGGGTTC
1 GGGTTTC
2892 GGGTTTC
1 GGGTTTC
2899 -GGTTTC
1 GGGTTTC
*
2905 GGGTTTA
1 GGGTTTC
2912 GGGTTT-
1 GGGTTTC
* *
2918 GGG-GTA
1 GGGTTTC
2924 GGGTTTC
1 GGGTTTC
2931 GGGTTTC
1 GGGTTTC
*
2938 GGGTTTA
1 GGGTTTC
2945 GGGTTTC
1 GGGTTTC
2952 GGGTTTC
1 GGGTTTC
*
2959 -GG-TTA
1 GGGTTTC
2964 GGGTTTC
1 GGGTTTC
2971 GGG-TTC
1 GGGTTTC
2977 GGG-TT-
1 GGGTTTC
*
2982 GAGGTTTA
1 G-GGTTTC
2990 GGGTTTC
1 GGGTTTC
*
2997 -GG-TTA
1 GGGTTTC
3002 GGGTTTC
1 GGGTTTC
3009 GGGTTTC
1 GGGTTTC
*
3016 AGGGTTTTA
1 -GGG-TTTC
*
3025 GGGTTGAC
1 GGGTT-TC
3033 -GGTTTC
1 GGGTTTC
3039 GGGGTTT-
1 -GGGTTTC
*
3046 AGG--TC
1 GGGTTTC
3051 GGGTTTC
1 GGGTTTC
3058 GGGTTTTC
1 GGG-TTTC
3066 GGAGTTTC
1 GG-GTTTC
3074 GGGTTTTC
1 GGG-TTTC
3082 GGGTTTTC
1 GGG-TTTC
3090 GGG-TTC
1 GGGTTTC
*
3096 AGGTTTC
1 GGGTTTC
3103 GGGTTTC
1 GGGTTTC
*
3110 -GGTTTA
1 GGGTTTC
*
3116 GGGCTTTA
1 GGG-TTTC
3124 GGG-TTC
1 GGGTTTC
3130 GGGTATTCC
1 GGGT-TT-C
3139 AGGGGTTTC
1 --GGGTTTC
3148 AGGGTTTC
1 -GGGTTTC
*
3156 AGGTTTC
1 GGGTTTC
*
3163 GGGGTTC
1 GGGTTTC
3170 GGGTTTC
1 GGGTTTC
*
3177 GGGTTTA
1 GGGTTTC
3184 GGGTTTC
1 GGGTTTC
3191 GGGTTTC
1 GGGTTTC
3198 GGGTTTC
1 GGGTTTC
3205 GGGTTTC
1 GGGTTTC
3212 GGGTTTC
1 GGGTTTC
**
3219 GGGTTGA
1 GGGTTTC
3226 GGGTTTC
1 GGGTTTC
3233 GGG-TTC
1 GGGTTTC
3239 GGGTTTC
1 GGGTTTC
3246 -GGTTTC
1 GGGTTTC
*
3252 GAGGTTAC
1 G-GGTTTC
3260 GGGTTTC
1 GGGTTTC
3267 GGGTTTC
1 GGGTTTC
3274 GGGTTTTC
1 GGG-TTTC
3282 GGGTTTGC
1 GGGTTT-C
3290 GGGTTTC
1 GGGTTTC
*
3297 GGGTTTA
1 GGGTTTC
*
3304 GGG-TGC
1 GGGTTTC
3310 GGGTTTC
1 GGGTTTC
3317 GGAGTTTC
1 GG-GTTTC
3325 GGGTTATC
1 GGGTT-TC
*
3333 GGGTTGC
1 GGGTTTC
3340 -GG-TTC
1 GGGTTTC
*
3345 GCGGTTGC
1 G-GGTTTC
3353 -GG-TTC
1 GGGTTTC
**
3358 AGGGTTGA
1 -GGGTTTC
3366 GGGTATTTC
1 GGG--TTTC
3375 -GGTTTC
1 GGGTTTC
3381 GGGTTTGC
1 GGGTTT-C
3389 GGGTTTC
1 GGGTTTC
3396 GGGTTTC
1 GGGTTTC
3403 AGGGTTTC
1 -GGGTTTC
3411 GGGTTT-
1 GGGTTTC
*
3417 GGGGTTC
1 GGGTTTC
*
3424 -GGTTTA
1 GGGTTTC
*
3430 GGGTTGGC
1 GGGTT-TC
3438 GGGTTTC
1 GGGTTTC
3445 GGGTGTTC
1 GGGT-TTC
3453 GGGTTTC
1 GGGTTTC
3460 GGGTTTCC
1 GGGTTT-C
3468 GGGTTTC
1 GGGTTTC
3475 GGGTTTC
1 GGGTTTC
3482 GGGTTTC
1 GGGTTTC
3489 GGGTTTC
1 GGGTTTC
*
3496 GGGGTTC
1 GGGTTTC
3503 GGAGTTTC
1 GG-GTTTC
**
3511 GGGTTGGA
1 GGGTT-TC
3519 GGGTTTC
1 GGGTTTC
3526 GGGTTTTC
1 GGG-TTTC
3534 GGG-TTC
1 GGGTTTC
3540 GGGTTTC
1 GGGTTTC
3547 GGGTTATC
1 GGGTT-TC
3555 GGGTTTC
1 GGGTTTC
3562 -GGTTTC
1 GGGTTTC
3568 GGGTTTC
1 GGGTTTC
3575 GGGTTTC
1 GGGTTTC
3582 GGGTTTC
1 GGGTTTC
3589 GGGTTTC
1 GGGTTTC
3596 GGGTTTC
1 GGGTTTC
3603 GGGTTTC
1 GGGTTTC
3610 GGGTGTTCC
1 GGGT-TT-C
3619 GGAGTATTC
1 GG-GT-TTC
3628 GGGTTGTC
1 GGGTT-TC
3636 GGGTTTC
1 GGGTTTC
*
3643 GGTTTTTC
1 GG-GTTTC
3651 GGGTTTTC
1 GGG-TTTC
3659 GGGTTTC
1 GGGTTTC
*
3666 GGTTTTCTC
1 GG-GTT-TC
3675 GGGTTTTC
1 GGG-TTTC
3683 -GGTTTC
1 GGGTTTC
3689 GGGTTTTC
1 GGG-TTTC
3697 GGGTTTC
1 GGGTTTC
3704 GGG-TTC
1 GGGTTTC
3710 GGGTTTC
1 GGGTTTC
3717 GGGTTTCC
1 GGGTTT-C
3725 GGGTTTC
1 GGGTTTC
3732 GGGTTTC
1 GGGTTTC
3739 GGGTTTCC
1 GGGTTT-C
*
3747 GGTTTTC
1 GGGTTTC
3754 GGGTTTC
1 GGGTTTC
*
3761 GGTTTTC
1 GGGTTTC
3768 TGGGTTTC
1 -GGGTTTC
3776 GGGTTTTTC
1 GGG--TTTC
3785 -GGTTTC
1 GGGTTTC
3791 GGGTTTC
1 GGGTTTC
3798 GGGGTTTC
1 -GGGTTTC
3806 GGG-TTC
1 GGGTTTC
3812 AGGG-TTC
1 -GGGTTTC
3819 GGGTTAT-
1 GGGTT-TC
3826 GGGTTTC
1 GGGTTTC
*
3833 GTTGTTTC
1 G-GGTTTC
3841 GGGTTTC
1 GGGTTTC
*
3848 GGGGATTC
1 -GGGTTTC
3856 GGGTTTC
1 GGGTTTC
3863 GGG-TTC
1 GGGTTTC
*
3869 GGGTTGC
1 GGGTTTC
3876 GGGTTTC
1 GGGTTTC
3883 GGGTTTC
1 GGGTTTC
3890 -GGTTTC
1 GGGTTTC
3896 -GGTTTC
1 GGGTTTC
3902 GGGTTTC
1 GGGTTTC
*
3909 AGGGTATC
1 -GGGTTTC
3917 GGGTTTC
1 GGGTTTC
*
3924 GTGTTTC
1 GGGTTTC
3931 GGG-TTC
1 GGGTTTC
3937 GGGTTTC
1 GGGTTTC
3944 GGG-TTC
1 GGGTTTC
3950 GGG-TTC
1 GGGTTTC
3956 GAGGTTT-
1 G-GGTTTC
3963 GGGTTTC
1 GGGTTTC
*
3970 GGGGTTC
1 GGGTTTC
*
3977 GGGTTTA
1 GGGTTTC
3984 GGGTTTC
1 GGGTTTC
3991 GGGTTTC
1 GGGTTTC
3998 GGGTTTC
1 GGGTTTC
4005 GGGTTTC
1 GGGTTTC
4012 GGGTTTC
1 GGGTTTC
4019 GGG-TTC
1 GGGTTTC
*
4025 -GGTGTC
1 GGGTTTC
4031 GGGTTTC
1 GGGTTTC
4038 GGG-TTC
1 GGGTTTC
4044 GGGGTTTC
1 -GGGTTTC
*
4052 GGGTGTC
1 GGGTTTC
4059 -GG--TC
1 GGGTTTC
*
4063 GGGTTTA
1 GGGTTTC
4070 GGGTTTC
1 GGGTTTC
4077 -GGTTTC
1 GGGTTTC
4083 GGGTTTC
1 GGGTTTC
4090 GGGTTTC
1 GGGTTTC
4097 GGGTTTC
1 GGGTTTC
4104 GGGTTTC
1 GGGTTTC
4111 GGGTTTC
1 GGGTTTC
4118 -GGTTTC
1 GGGTTTC
4124 GGGTTTC
1 GGGTTTC
4131 GGGTTTC
1 GGGTTTC
4138 GGG-TTC
1 GGGTTTC
4144 GGG-TTC
1 GGGTTTC
4150 GAAGG-TTC
1 G--GGTTTC
4158 GGGTTTTC
1 GGG-TTTC
4166 GGGTTTC
1 GGGTTTC
4173 GGGTTTC
1 GGGTTTC
4180 -GG-TTC
1 GGGTTTC
4185 GGGTTTC
1 GGGTTTC
4192 GGGTTTC
1 GGGTTTC
*
4199 GGGTTGCC
1 GGGTT-TC
4207 GGGTTTC
1 GGGTTTC
*
4214 GGGGGATGTC
1 --GGG-TTTC
*
4224 AGGGTTCC
1 -GGGTTTC
*******
4232 AACCCAA
1 GGGTTTC
*****
4239 GAAAAAC
1 GGGTTTC
4246 GGAGTGTTTC
1 -G-G-GTTTC
4256 GGGTTTC
1 GGGTTTC
4263 GGGTTTC
1 GGGTTTC
4270 GGGTATTC
1 GGGT-TTC
4278 GGGTTTTC
1 GGG-TTTC
*
4286 GGGGTTC
1 GGGTTTC
4293 GGGTTTC
1 GGGTTTC
4300 GGGTTTC
1 GGGTTTC
4307 GGGTTTC
1 GGGTTTC
4314 GGGTTTC
1 GGGTTTC
4321 GGGTTTC
1 GGGTTTC
*
4328 GGGGTTC
1 GGGTTTC
4335 GGGTTTC
1 GGGTTTC
4342 GGGTTTC
1 GGGTTTC
4349 -GGTTTC
1 GGGTTTC
*
4355 GGGTTATG
1 GGGTT-TC
*
4363 GGGTTTG
1 GGGTTTC
4370 GGGTTT-
1 GGGTTTC
4376 GGGTTT-
1 GGGTTTC
4382 GGGTTT-
1 GGGTTTC
* *
4388 GGGTGTG
1 GGGTTTC
*
4395 GGGTTTTG
1 GGG-TTTC
*
4403 GGGTTTG
1 GGGTTTC
*
4410 GGGTTTG
1 GGGTTTC
*
4417 GGGTTTTG
1 GGG-TTTC
4425 GGGTATTC
1 GGGT-TTC
*
4433 AGGGTGTC
1 -GGGTTTC
4441 GGG-TT-
1 GGGTTTC
*
4446 GGGGTT-
1 GGGTTTC
* *
4452 GGGGTTG
1 GGGTTTC
* *
4459 GGGGTTG
1 GGGTTTC
4466 GGGTTT-
1 GGGTTTC
4472 GGTGTTTC
1 GG-GTTTC
4480 -GGTTTC
1 GGGTTTC
*
4486 TGGTGTTC
1 GGGT-TTC
4494 GGGTTTC
1 GGGTTTC
4501 GGGTTTC
1 GGGTTTC
4508 GGGTTT-
1 GGGTTTC
*
4514 AGGTTTC
1 GGGTTTC
4521 GGGTTTC
1 GGGTTTC
4528 GGGTTTC
1 GGGTTTC
4535 GGGTTTC
1 GGGTTTC
*
4542 TGGTTTC
1 GGGTTTC
*
4549 GGTTTTTC
1 GG-GTTTC
4557 GGGTTTC
1 GGGTTTC
*
4564 GGGGTTC
1 GGGTTTC
4571 GGGTTTC
1 GGGTTTC
*
4578 GGG-TTG
1 GGGTTTC
**
4584 GGGTTGG
1 GGGTTTC
*
4591 GGGTATTG
1 GGGT-TTC
*
4599 GGGTTTA
1 GGGTTTC
*
4606 GGTTTTC
1 GGGTTTC
4613 GGGTTTC
1 GGGTTTC
4620 GGGTTTC
1 GGGTTTC
4627 GGGTTTTC
1 GGG-TTTC
4635 GGGTTTTC
1 GGG-TTTC
4643 GGGTTTC
1 GGGTTTC
*
4650 GGTTTTC
1 GGGTTTC
4657 GGGTTTC
1 GGGTTTC
4664 GGGTTTC
1 GGGTTTC
4671 GGGTTTC
1 GGGTTTC
4678 GGGTTTC
1 GGGTTTC
*
4685 -GGTTGC
1 GGGTTTC
4691 GGGATTT-
1 GGG-TTTC
4698 GCGGTTTC
1 G-GGTTTC
4706 GGG-TTC
1 GGGTTTC
4712 GGG-TTC
1 GGGTTTC
* *
4718 GGGGTGC
1 GGGTTTC
4725 GGGTTTTC
1 GGG-TTTC
*
4733 GGGGTTC
1 GGGTTTC
4740 GGGTTTC
1 GGGTTTC
4747 GGGTTTC
1 GGGTTTC
4754 GGG-TTC
1 GGGTTTC
4760 GGGTTTC
1 GGGTTTC
4767 GGGTTTC
1 GGGTTTC
4774 GGAGTTTC
1 GG-GTTTC
4782 GGGTTTC
1 GGGTTTC
4789 GGGTTTTC
1 GGG-TTTC
4797 GGGTTTC
1 GGGTTTC
4804 GGGTTTC
1 GGGTTTC
4811 GGGTTTC
1 GGGTTTC
4818 GGGTATTC
1 GGGT-TTC
4826 GGG-TTC
1 GGGTTTC
*
4832 GAGTTTC
1 GGGTTTC
4839 TGGGTTTC
1 -GGGTTTC
4847 GGGTTTC
1 GGGTTTC
*
4854 GGGGTTC
1 GGGTTTC
4861 GGGTTTTC
1 GGG-TTTC
4869 GGAGATTTC
1 GG-G-TTTC
4878 GGGTTTC
1 GGGTTTC
4885 GGGTTTC
1 GGGTTTC
*
4892 GGGTTTT
1 GGGTTTC
**
4899 TTGTTT-
1 GGGTTTC
***
4905 TTTTTTC
1 GGGTTTC
4912 GGGTTTC
1 GGGTTTC
4919 GGGTTTC
1 GGGTTTC
4926 -GGTTT-
1 GGGTTTC
* *
4931 GGG-GTG
1 GGGTTTC
* *
4937 GGGGTTG
1 GGGTTTC
* *
4944 GGGTGTG
1 GGGTTTC
*
4951 GGGTTTG
1 GGGTTTC
*
4958 GGGTTTAGG
1 GGGTTT--C
4967 GGGTTT-
1 GGGTTTC
*
4973 -GG-TTG
1 GGGTTTC
*
4978 GGGTTTG
1 GGGTTTC
4985 GGGTTAT-
1 GGGTT-TC
* *
4992 GGGGTTG
1 GGGTTTC
4999 GGGTTT-
1 GGGTTTC
*
5005 GGG-TTG
1 GGGTTTC
*
5011 GGGTTTG
1 GGGTTTC
5018 GGGTTTC
1 GGGTTTC
5025 GGGATTTC
1 GGG-TTTC
5033 GGGTTTC
1 GGGTTTC
5040 GGGTTTC
1 GGGTTTC
5047 GGGTTTC
1 GGGTTTC
5054 GAGGTTTC
1 G-GGTTTC
5062 GGGTTTC
1 GGGTTTC
5069 GGGTTTC
1 GGGTTTC
5076 GGGTTT-
1 GGGTTTC
*
5082 GTGTTTC
1 GGGTTTC
*
5089 -GGTGTC
1 GGGTTTC
5095 AGGGTTTTC
1 -GGG-TTTC
5104 GGGTTTC
1 GGGTTTC
5111 GGGTTTC
1 GGGTTTC
5118 GGGTTTC
1 GGGTTTC
*
5125 AGGTTTC
1 GGGTTTC
* *
5132 GGGGTGC
1 GGGTTTC
5139 GGGTATATC
1 GGGT-T-TC
5148 GGGTTTC
1 GGGTTTC
5155 GGGTTTTC
1 GGG-TTTC
5163 GGGTTTC
1 GGGTTTC
5170 GGGTTTC
1 GGGTTTC
5177 GGGTATTC
1 GGGT-TTC
5185 GGGTTTC
1 GGGTTTC
*
5192 GGGTTGC
1 GGGTTTC
5199 GGG-TTC
1 GGGTTTC
5205 GGGTTTAC
1 GGGTTT-C
5213 GGGTTTC
1 GGGTTTC
* *
5220 AGGTTTA
1 GGGTTTC
5227 GGGATTTTC
1 GGG--TTTC
5236 GGGTTTC
1 GGGTTTC
5243 GGGTTTC
1 GGGTTTC
5250 GGG-TTC
1 GGGTTTC
*
5256 -GGTTTA
1 GGGTTTC
5262 GGGTTTC
1 GGGTTTC
5269 GGGTTTC
1 GGGTTTC
*
5276 -GGTTTA
1 GGGTTTC
5282 GGGTTTC
1 GGGTTTC
*
5289 GGGTGATC
1 GGGT-TTC
5297 GGGTTTC
1 GGGTTTC
5304 GAGGTTTC
1 G-GGTTTC
5312 GGGTTTC
1 GGGTTTC
5319 GAGGTTCTC
1 G-GGTT-TC
5328 GGG-TTC
1 GGGTTTC
5334 GGGTATATTAAC
1 GGG--T-TT--C
5346 GGGTTTC
1 GGGTTTC
5353 GGGATTT-
1 GGG-TTTC
5360 GGGTTTC
1 GGGTTTC
5367 GGGTTTC
1 GGGTTTC
5374 GAGG-TTC
1 G-GGTTTC
5381 GGAGTTTC
1 GG-GTTTC
5389 GGGTTTTC
1 GGG-TTTC
5397 GGGTTTC
1 GGGTTTC
5404 GGGTTTC
1 GGGTTTC
5411 GGGTTTTC
1 GGG-TTTC
5419 GGGTTTC
1 GGGTTTC
5426 GGGTTTC
1 GGGTTTC
5433 GGGTTTC
1 GGGTTTC
5440 GGGTTTAC
1 GGGTTT-C
5448 GGGTTTC
1 GGGTTTC
5455 GGGTTTC
1 GGGTTTC
5462 GGGTTTC
1 GGGTTTC
5469 GGGTTTCC
1 GGGTTT-C
5477 GGG-TTC
1 GGGTTTC
5483 GGGTTTC
1 GGGTTTC
5490 GGG-TTC
1 GGGTTTC
5496 GGGTTTC
1 GGGTTTC
5503 GGGTTTC
1 GGGTTTC
5510 GGGTTTC
1 GGGTTTC
***
5517 GGG-AGG
1 GGGTTTC
***
5523 GGGGGGC
1 GGGTTTC
5530 -GGTTATC
1 GGGTT-TC
*
5537 GTGTTTC
1 GGGTTTC
5544 GGGTTTC
1 GGGTTTC
5551 GGGTTTC
1 GGGTTTC
5558 GGGTTTC
1 GGGTTTC
5565 GGG-TTC
1 GGGTTTC
5571 GGAGTTTC
1 GG-GTTTC
5579 GGGTTTC
1 GGGTTTC
5586 GGGTTTC
1 GGGTTTC
5593 GGGTTTC
1 GGGTTTC
5600 AGGGTTTTC
1 -GGG-TTTC
5609 GGGTTTTC
1 GGG-TTTC
* *
5617 TGGATTC
1 GGGTTTC
5624 GAGGTTTC
1 G-GGTTTC
5632 GGGTTTC
1 GGGTTTC
5639 GGGTTTGC
1 GGGTTT-C
5647 GGGTTTTC
1 GGG-TTTC
5655 GGGTTTC
1 GGGTTTC
5662 GGG-TTC
1 GGGTTTC
5668 GGGATTTC
1 GGG-TTTC
5676 GGGGTTTTC
1 -GGG-TTTC
*
5685 GGGTGTC
1 GGGTTTC
5692 GGGTGTTC
1 GGGT-TTC
5700 GGGTTTC
1 GGGTTTC
5707 GGGTTTC
1 GGGTTTC
5714 GGGTTTC
1 GGGTTTC
*
5721 GAGTTTC
1 GGGTTTC
*
5728 GGTTTTC
1 GGGTTTC
5735 -GGTATTC
1 GGGT-TTC
5742 GGGTTTC
1 GGGTTTC
**
5749 -GGTCGC
1 GGGTTTC
*
5755 GGGTTAC
1 GGGTTTC
5762 GGGTTTC
1 GGGTTTC
5769 GGGTTTC
1 GGGTTTC
5776 CTCTACTCTC
Statistics
Matches: 4418, Mismatches: 470, Indels: 798
0.78 0.08 0.14
Matches are distributed among these distances:
4 20 0.00
5 60 0.01
6 681 0.15
7 2643 0.60
8 812 0.18
9 149 0.03
10 30 0.01
11 19 0.00
12 4 0.00
ACGTcount: A:0.07, C:0.09, G:0.44, T:0.40
Consensus pattern (7 bp):
GGGTTTC
Found at i:5968 original size:100 final size:99
Alignment explanation
Indices: 5858--6055 Score: 258
Period size: 100 Copynumber: 2.0 Consensus size: 99
5848 ACCACACTCA
* * * * *
5858 CCCCCTCCCACCCTCCCGCCCTCCCCCCT-CCCCCCTCCCCCCTACCCCCTACC-CCCT-CCCCC
1 CCCCCGCCCACCCTCCC-CCCTCCCCCCTACCCACCTCCCCCCCACCCCC-ACCACCCTAACACC
*
5920 CTCCCCCCCTAACCCCCTCCCCCCTCCCCCTACCCCCT
64 CTCCCCCCAT-ACCCCCTCCCCCCTCCCCCT-CCCCCT
* *
5958 CCCCCGCCCACCCTCCCCCCTCCCCCCTACCCACCTCCCCCCCGCCCCCGCCACCCTAACACCCT
1 CCCCCGCCCACCCTCCCCCCTCCCCCCTACCCACCTCCCCCCCACCCCCACCACCCTAACACCCT
*
6023 CCCCCCATCCCCCCTCCCCCCTCCCCCTCCCCC
66 CCCCCCATACCCCCTCCCCCCTCCCCCTCCCCC
6056 GGCCACCACT
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
99 18 0.21
100 56 0.65
101 12 0.14
ACGTcount: A:0.07, C:0.79, G:0.02, T:0.12
Consensus pattern (99 bp):
CCCCCGCCCACCCTCCCCCCTCCCCCCTACCCACCTCCCCCCCACCCCCACCACCCTAACACCCT
CCCCCCATACCCCCTCCCCCCTCCCCCTCCCCCT
Found at i:6048 original size:5 final size:6
Alignment explanation
Indices: 6032--6229 Score: 53
Period size: 6 Copynumber: 29.8 Consensus size: 6
6022 TCCCCCCATC
* *
6032 CCCCCT CCCCCCT CCCCCT CCCCCGG CCACCACT ACCCCT ACCCCGCT
1 CCCCCT -CCCCCT CCCCCT CCCCC-T CC-CC-CT CCCCCT -CCCC-CT
* * * *
6080 CACCC- ACCCCT CACCCT CCCCCT AACCCCCT CACCCCT CCCCCCT CACCCT
1 CCCCCT CCCCCT CCCCCT CCCCCT --CCCCCT C-CCCCT -CCCCCT CCCCCT
* * **
6131 CACCAC- ACCCGA CCCCCT ACCCCCCT AACCCCCT CCACCCCT AACCCCC-
1 C-CCCCT CCCCCT CCCCCT --CCCCCT --CCCCCT -C-CCCCT --CCCCCT
* *
6180 CCCCACT CCCCCCT CCCCCT CCCCCC CCCTACCC CCCCCT -CCCCT CCCCC
1 CCCC-CT -CCCCCT CCCCCT CCCCCT CCC--CCT CCCCCT CCCCCT CCCCC
6230 CGCACCCCTC
Statistics
Matches: 145, Mismatches: 24, Indels: 45
0.68 0.11 0.21
Matches are distributed among these distances:
5 14 0.10
6 54 0.37
7 31 0.21
8 44 0.30
9 2 0.01
ACGTcount: A:0.12, C:0.75, G:0.02, T:0.12
Consensus pattern (6 bp):
CCCCCT
Found at i:6049 original size:8 final size:7
Alignment explanation
Indices: 5858--6295 Score: 232
Period size: 7 Copynumber: 60.0 Consensus size: 7
5848 ACCACACTCA
5858 CCCCCTC
1 CCCCCTC
5865 CCACCCTC
1 CC-CCCTC
5873 CCGCCCTC
1 CC-CCCTC
5881 CCCCCTC
1 CCCCCTC
5888 CCCCCTC
1 CCCCCTC
*
5895 CCCCCTA
1 CCCCCTC
*
5902 CCCCCTA
1 CCCCCTC
5909 CCCCCTC
1 CCCCCTC
5916 CCCCCTCC
1 CCCCCT-C
*
5924 CCCCCTAA
1 CCCCCT-C
5932 CCCCCTC
1 CCCCCTC
5939 CCCCCT-
1 CCCCCTC
*
5945 CCCCCTA
1 CCCCCTC
5952 CCCCCTC
1 CCCCCTC
5959 CCCCGC-C
1 CCCC-CTC
*
5966 CACCCTC
1 CCCCCTC
5973 CCCCCTC
1 CCCCCTC
5980 CCCCCTAC
1 CCCCCT-C
*
5988 CCACCTC
1 CCCCCTC
5995 CCCCC-C
1 CCCCCTC
*
6001 GCCCCCGC
1 -CCCCCTC
* *
6009 CACCCTAA
1 CCCCCT-C
*
6017 CACCCTC
1 CCCCCTC
6024 CCCCCATC
1 CCCCC-TC
6032 CCCCCTC
1 CCCCCTC
6039 CCCCCT-
1 CCCCCTC
6045 CCCCCTC
1 CCCCCTC
**
6052 CCCCGGC
1 CCCCCTC
*
6059 CACCACT-
1 C-CCCCTC
*
6066 ACCCCTAC
1 CCCCCT-C
*
6074 CCCGCTC
1 CCCCCTC
6081 ACCCACC-C
1 -CCC-CCTC
6089 CTCACCCT-
1 C-C-CCCTC
*
6097 CCCCCTAA
1 CCCCCT-C
6105 CCCCCTC
1 CCCCCTC
*
6112 ACCCCTC
1 CCCCCTC
6119 CCCCCTC
1 CCCCCTC
* *
6126 ACCCTCAC
1 -CCCCCTC
**
6134 CACACCCGA
1 C-C-CCCTC
6143 CCCCCTAC
1 CCCCCT-C
*
6151 CCCCCTAA
1 CCCCCT-C
6159 CCCCCTC
1 CCCCCTC
*
6166 CACCCCTAA
1 C-CCCCT-C
6175 CCCCC-C
1 CCCCCTC
*
6181 CCCACTC
1 CCCCCTC
6188 CCCCCTCC
1 CCCCCT-C
*
6196 CCCTCCCC
1 CCC-CCTC
6204 CCCCCTAC
1 CCCCCT-C
6212 CCCCC-C
1 CCCCCTC
6218 CTCCCCTC
1 C-CCCCTC
*
6226 CCCCCGC
1 CCCCCTC
*
6233 ACCCCTC
1 CCCCCTC
6240 CACCCCTC
1 C-CCCCTC
**
6248 AACCCTC
1 CCCCCTC
6255 CCCCC-C
1 CCCCCTC
**
6261 TAACCCTC
1 -CCCCCTC
*
6269 ACCCCT-
1 CCCCCTC
*
6275 CCCCCGC
1 CCCCCTC
6282 CCCCCTC
1 CCCCCTC
*
6289 CCACCTC
1 CCCCCTC
6296 ACCATAATGC
Statistics
Matches: 335, Mismatches: 59, Indels: 74
0.72 0.13 0.16
Matches are distributed among these distances:
6 33 0.10
7 174 0.52
8 120 0.36
9 8 0.02
ACGTcount: A:0.10, C:0.76, G:0.02, T:0.12
Consensus pattern (7 bp):
CCCCCTC
Found at i:6116 original size:46 final size:46
Alignment explanation
Indices: 6066--6177 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 46
6056 GGCCACCACT
* * * * *
6066 ACCCCTACCCCGCTCACCCACCCCTCACCC-TCCCCCTAACCCCCTC
1 ACCCCT-CCCCCCTCACCCACACCACACCCGACCCCCTAACCCCCTA
* *
6112 ACCCCTCCCCCCTCACCCTCACCACACCCGACCCCCTACCCCCCTA
1 ACCCCTCCCCCCTCACCCACACCACACCCGACCCCCTAACCCCCTA
*
6158 ACCCCCTCCACCCCTAACCC
1 A-CCCCTCC-CCCCTCACCC
6178 CCCCCCACTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
45 19 0.35
46 20 0.36
47 7 0.13
48 9 0.16
ACGTcount: A:0.17, C:0.70, G:0.02, T:0.12
Consensus pattern (46 bp):
ACCCCTCCCCCCTCACCCACACCACACCCGACCCCCTAACCCCCTA
Found at i:6161 original size:9 final size:8
Alignment explanation
Indices: 6143--6216 Score: 50
Period size: 8 Copynumber: 9.6 Consensus size: 8
6133 CCACACCCGA
6143 CCCCCTAC
1 CCCCCTAC
*
6151 CCCCCTAA
1 CCCCCTAC
6159 CCCCCT-C
1 CCCCCTAC
*
6166 CACCCCTAA
1 C-CCCCTAC
6175 CCCCC--C
1 CCCCCTAC
*
6181 CCCACT-C
1 CCCCCTAC
6188 CCCCCT-C
1 CCCCCTAC
**
6195 CCCCTCCCC
1 CCCC-CTAC
6204 CCCCCTAC
1 CCCCCTAC
6212 CCCCC
1 CCCCC
6217 CCTCCCCTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
6 4 0.08
7 12 0.23
8 30 0.58
9 6 0.12
ACGTcount: A:0.11, C:0.78, G:0.00, T:0.11
Consensus pattern (8 bp):
CCCCCTAC
Found at i:6161 original size:16 final size:16
Alignment explanation
Indices: 6142--6179 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6132 ACCACACCCG
6142 ACCCCCTACC-CCCCTA
1 ACCCCCT-CCACCCCTA
6158 ACCCCCTCCACCCCTA
1 ACCCCCTCCACCCCTA
6174 ACCCCC
1 ACCCCC
6180 CCCCACTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.18, C:0.71, G:0.00, T:0.11
Consensus pattern (16 bp):
ACCCCCTCCACCCCTA
Found at i:6229 original size:26 final size:26
Alignment explanation
Indices: 6150--6230 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
6140 CGACCCCCTA
* * *
6150 CCCCCCTAACCCCCTCCACCCCTAACCC
1 CCCCCCTACCCCCC-CCTCCCCT-CCCC
*
6178 CCCCCC-ACTCCCCCCTCCCC-CTCCC
1 CCCCCCTACCCCCCCCTCCCCTC-CCC
6203 CCCCCCTACCCCCCCCTCCCCTCCCC
1 CCCCCCTACCCCCCCCTCCCCTCCCC
6229 CC
1 CC
6231 GCACCCCTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
25 9 0.20
26 24 0.53
27 6 0.13
28 6 0.13
ACGTcount: A:0.09, C:0.80, G:0.00, T:0.11
Consensus pattern (26 bp):
CCCCCCTACCCCCCCCTCCCCTCCCC
Found at i:6237 original size:75 final size:77
Alignment explanation
Indices: 6144--6284 Score: 184
Period size: 75 Copynumber: 1.9 Consensus size: 77
6134 CACACCCGAC
* **
6144 CCCCTACCCCCCTAACCCCCTCCACCCCT-AACCC-CCCCCCACTCCCCCCTC-CCCCTCCCCC-
1 CCCCTACCCCCCGAA-CCCCTCCACCCCTCAACCCTCCCCCC-CT-AACCCTCACCCCTCCCCCG
6205 CCCCTACCCCCCCCT
63 CCCCTACCCCCCCCT
*
6220 CCCCT-CCCCCCGCACCCCTCCACCCCTCAACCCTCCCCCCCTAACCCTCACCCCTCCCCCGCCC
1 CCCCTACCCCCCGAACCCCTCCACCCCTCAACCCTCCCCCCCTAACCCTCACCCCTCCCCCGCCC
6284 C
66 C
6285 CCTCCCACCT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
74 18 0.32
75 24 0.42
76 15 0.26
ACGTcount: A:0.11, C:0.77, G:0.01, T:0.11
Consensus pattern (77 bp):
CCCCTACCCCCCGAACCCCTCCACCCCTCAACCCTCCCCCCCTAACCCTCACCCCTCCCCCGCCC
CTACCCCCCCCT
Found at i:18997 original size:25 final size:23
Alignment explanation
Indices: 18938--18997 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 23
18928 TAATATTTTT
*
18938 TATTTAAAT-TTAATTTTAAAAA
1 TATTTAAATATTAATTTAAAAAA
*
18960 TATATAAATATTAATGTTAAAATAA
1 TATTTAAATATTAAT-TTAAAA-AA
*
18985 TTTTTAAATATTA
1 TATTTAAATATTA
18998 TAAATTGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 8 0.26
23 5 0.16
24 5 0.16
25 13 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTTAAATATTAATTTAAAAAA
Found at i:19092 original size:34 final size:34
Alignment explanation
Indices: 19032--19104 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
19022 AAATTGAATC
*
19032 AATTTGATTTAAATTTAAAATTTAAATTTTTTTA
1 AATTTGATTTAAATTTAAAATTTAAATATTTTTA
*
19066 AATTATGATTT-AATTT-AATTTATAAATATTTTT-
1 AATT-TGATTTAAATTTAAAATT-TAAATATTTTTA
19099 AATTTG
1 AATTTG
19105 TAATTAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 2 0.06
33 8 0.23
34 19 0.54
35 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (34 bp):
AATTTGATTTAAATTTAAAATTTAAATATTTTTA
Found at i:19117 original size:2 final size:2
Alignment explanation
Indices: 19110--19147 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
19100 ATTTGTAATT
19110 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19148 GGGCAATGCC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19936 original size:15 final size:18
Alignment explanation
Indices: 19900--19936 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
19890 TTTTAGGTAA
19900 ATTTTGTTATAATATGTT
1 ATTTTGTTATAATATGTT
19918 ATTTT-TTAT-ATAT-TT
1 ATTTTGTTATAATATGTT
19933 ATTT
1 ATTT
19937 ATTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 4 0.21
17 4 0.21
18 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
ATTTTGTTATAATATGTT
Found at i:20905 original size:22 final size:22
Alignment explanation
Indices: 20880--20922 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
20870 AAAGCTCCTA
20880 ATATAATTTACTTTTTT-ATAAG
1 ATATAATTTA-TTTTTTGATAAG
20902 ATATAATTTATTTTTTGATAA
1 ATATAATTTATTTTTTGATAA
20923 ATTACTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
ATATAATTTATTTTTTGATAAG
Found at i:21657 original size:2 final size:2
Alignment explanation
Indices: 21566--21640 Score: 61
Period size: 2 Copynumber: 39.0 Consensus size: 2
21556 TATTTACTAG
* *
21566 AT AT AT AT AT AT AT AT AT AT -T A- AT AT -T AT AT AT AC AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
21605 ACT -T TT AGT GT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21641 TAAAAATTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
1 5 0.08
2 53 0.90
3 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27961 original size:12 final size:12
Alignment explanation
Indices: 27944--27977 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
27934 TTTATTATAA
27944 TATATTTTTATT
1 TATATTTTTATT
*
27956 TATATTTATATT
1 TATATTTTTATT
*
27968 TATATATTTA
1 TATATTTTTA
27978 AATTAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTTTTATT
Found at i:28418 original size:23 final size:23
Alignment explanation
Indices: 28392--28455 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 23
28382 TTAATTTTAA
*
28392 CAATTAAATAACATTATCAAAAT
1 CAATTAAATAACATTATAAAAAT
* *
28415 CAATAATCAAATAATATTGTAAAAAT
1 CAAT--T-AAATAACATTATAAAAAT
*
28441 TAATTAAATAACATT
1 CAATTAAATAACATT
28456 CATATTACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
23 13 0.39
24 1 0.03
25 1 0.03
26 18 0.55
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (23 bp):
CAATTAAATAACATTATAAAAAT
Found at i:29887 original size:6 final size:6
Alignment explanation
Indices: 29876--29901 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
29866 TATAATCCAC
29876 AAATAT AAATAT AAATAT AAATAT AA
1 AAATAT AAATAT AAATAT AAATAT AA
29902 TTGTACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:30447 original size:22 final size:22
Alignment explanation
Indices: 30419--30460 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
30409 ATTTATTTTT
30419 ATTTACATTAAATTACTTTAAG
1 ATTTACATTAAATTACTTTAAG
30441 ATTTACATTAAATTACTTTA
1 ATTTACATTAAATTACTTTA
30461 TTCTTAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTACATTAAATTACTTTAAG
Found at i:32364 original size:15 final size:15
Alignment explanation
Indices: 32323--32371 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
32313 AATGACTAAC
32323 TATATTAATTAAAAAA
1 TATA-TAATTAAAAAA
*
32339 TA-ATATTTTAAAAAA
1 TATATA-ATTAAAAAA
*
32354 TATATAATTAAATAA
1 TATATAATTAAAAAA
32369 TAT
1 TAT
32372 TTTAAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.07
15 21 0.75
16 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATAATTAAAAAA
Found at i:34700 original size:17 final size:17
Alignment explanation
Indices: 34678--34714 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34668 AAAAAAATTG
* *
34678 TATTATATATATATATA
1 TATTATATAGATATAAA
34695 TATTATATAGATATAAA
1 TATTATATAGATATAAA
34712 TAT
1 TAT
34715 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TATTATATAGATATAAA
Found at i:35837 original size:6 final size:6
Alignment explanation
Indices: 35823--35862 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
35813 AAATCACTAC
* *
35823 ATTTGT ATTTAT ATTTAT CTTTAT ATTTAT ATTTAT ATTT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTT
35863 GTACTTTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (6 bp):
ATTTAT
Found at i:36006 original size:2 final size:2
Alignment explanation
Indices: 35999--36026 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35989 TCAATTTTGC
35999 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
36027 GGGGCCTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:36572 original size:19 final size:17
Alignment explanation
Indices: 36550--36589 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
36540 TTATCTTAAA
36550 TTCTTCCTCTTTCCTCTTC
1 TTCTTCCTCTTT--TCTTC
*
36569 TTCTTCTTCTTTTCTTC
1 TTCTTCCTCTTTTCTTC
36586 TTCT
1 TTCT
36590 ACTAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTTCCTCTTTTCTTC
Found at i:36782 original size:2 final size:2
Alignment explanation
Indices: 36775--36808 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
36765 TAATTTTAAT
36775 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
36809 CCGAATTTCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:45526 original size:17 final size:17
Alignment explanation
Indices: 45501--45535 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45491 TGAAAAGCAC
45501 TGTCAACTTGCTCCTCT
1 TGTCAACTTGCTCCTCT
* *
45518 TGTCTACTTGCTCTTCT
1 TGTCAACTTGCTCCTCT
45535 T
1 T
45536 TGCTCTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.31, G:0.11, T:0.49
Consensus pattern (17 bp):
TGTCAACTTGCTCCTCT
Found at i:48839 original size:10 final size:10
Alignment explanation
Indices: 48824--48871 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
48814 GATGGGAGTT
48824 GGGGGGCGGG
1 GGGGGGCGGG
*
48834 GGGGGGGGGG
1 GGGGGGCGGG
48844 GGGGGGCGCGG
1 GGGGGGCG-GG
*
48855 GGAGGGGAGGG
1 GG-GGGGCGGG
48866 GAGGGG
1 G-GGGG
48872 TAATTTAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 16 0.50
11 10 0.31
12 6 0.19
ACGTcount: A:0.06, C:0.06, G:0.88, T:0.00
Consensus pattern (10 bp):
GGGGGGCGGG
Found at i:54208 original size:3 final size:3
Alignment explanation
Indices: 54202--54231 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
54192 TATTACTACT
54202 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
54232 ACCAAACTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:57307 original size:13 final size:13
Alignment explanation
Indices: 57285--57317 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
57275 CTGCCACCGC
57285 CATC-AAAGCCTT
1 CATCTAAAGCCTT
57297 CATCTAAAGCCTT
1 CATCTAAAGCCTT
57310 CATCTAAA
1 CATCTAAA
57318 TAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.27
Consensus pattern (13 bp):
CATCTAAAGCCTT
Found at i:57919 original size:27 final size:26
Alignment explanation
Indices: 57863--57919 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
57853 AATAATTAAA
* *
57863 ATAATTTTAAAATTAATTAAATTTTC
1 ATAATTTTAAAATTAATAAAATATTC
** *
57889 ATAATTTTTTAATTAATAAAAATATTG
1 ATAATTTTAAAATTAAT-AAAATATTC
57916 ATAA
1 ATAA
57920 AAAATTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
ATAATTTTAAAATTAATAAAATATTC
Found at i:58065 original size:16 final size:17
Alignment explanation
Indices: 58044--58083 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
58034 TCATAATTAT
58044 AAAAAAAATA-ATTCTA
1 AAAAAAAATACATTCTA
* *
58060 AAAAAAATTACATTCTT
1 AAAAAAAATACATTCTA
58077 AAAAAAA
1 AAAAAAA
58084 TATATACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAAAAATACATTCTA
Found at i:58074 original size:17 final size:16
Alignment explanation
Indices: 58037--58084 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
58027 CACATTCTCA
*
58037 TAATTATAAAAAAAA-
1 TAATTCTAAAAAAAAT
58052 TAATTCTAAAAAAAAT
1 TAATTCTAAAAAAAAT
*
58068 TACATTCTTAAAAAAAT
1 TA-ATTCTAAAAAAAAT
58085 ATATACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 14 0.48
16 2 0.07
17 13 0.45
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTCTAAAAAAAAT
Found at i:58621 original size:2 final size:2
Alignment explanation
Indices: 58614--58647 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
58604 CCTGAGATAG
58614 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
58648 TAAACCCTAC
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:59440 original size:3 final size:3
Alignment explanation
Indices: 59428--59461 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
59418 CGCAATGTAC
59428 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
59462 AAGTTAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:62347 original size:28 final size:28
Alignment explanation
Indices: 62284--62339 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
62274 ACAAATGTCA
62284 TCCTTTGTATTTATCAAATATGGTGATT
1 TCCTTTGTATTTATCAAATATGGTGATT
*
62312 TCCTTTGTATTTGTCAAATATGGTGATT
1 TCCTTTGTATTTATCAAATATGGTGATT
62340 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (28 bp):
TCCTTTGTATTTATCAAATATGGTGATT
Found at i:62373 original size:24 final size:24
Alignment explanation
Indices: 62341--62389 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
62331 ATGGTGATTA
62341 TTTTTGTTTGTAAAAATTGGTGGC
1 TTTTTGTTTGTAAAAATTGGTGGC
* *
62365 TTTTTGTTTGTCAAAATTTGTGGC
1 TTTTTGTTTGTAAAAATTGGTGGC
62389 T
1 T
62390 AATTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.18, C:0.06, G:0.22, T:0.53
Consensus pattern (24 bp):
TTTTTGTTTGTAAAAATTGGTGGC
Found at i:65141 original size:11 final size:11
Alignment explanation
Indices: 65103--65143 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
65093 AAATTTAGGT
65103 AAAAAAGAAAG
1 AAAAAAGAAAG
*
65114 AAAGAAGATGAAG
1 AAAAAAGA--AAG
65127 AAAAAAGAAAG
1 AAAAAAGAAAG
65138 AAAAAA
1 AAAAAA
65144 AATATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:65535 original size:2 final size:2
Alignment explanation
Indices: 65522--65554 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
65512 TTATTTTATT
*
65522 TA TA TG 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
65555 TTTGAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72968 original size:30 final size:31
Alignment explanation
Indices: 72928--72985 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
72918 GTACTGTGAC
*
72928 CTTTTCAAAGTCCACGACTCAGTGGCATTTT
1 CTTTTCAAAGTCCACAACTCAGTGGCATTTT
*
72959 CTTTT-AAAGTCCACAACTCCGTGGCAT
1 CTTTTCAAAGTCCACAACTCAGTGGCAT
72986 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:73020 original size:46 final size:46
Alignment explanation
Indices: 72953--73098 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
72943 GACTCAGTGG
* *
72953 CATTTTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTTCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
72999 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
** *
73045 CAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 C-A-T---T---TTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
73099 TAACTCCGTG
Statistics
Matches: 87, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
46 45 0.52
47 1 0.01
48 1 0.01
51 1 0.01
54 39 0.45
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (46 bp):
CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
Found at i:73044 original size:27 final size:27
Alignment explanation
Indices: 73005--73224 Score: 350
Period size: 27 Copynumber: 8.0 Consensus size: 27
72995 TTCACATTTT
73005 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
73033 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
73060 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
73087 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
73115 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
73142 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
73170 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
73197 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
73224 C
1 C
73225 ATTTCAAAGC
Statistics
Matches: 179, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
27 124 0.69
28 55 0.31
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:73197 original size:110 final size:110
Alignment explanation
Indices: 73004--73221 Score: 368
Period size: 110 Copynumber: 2.0 Consensus size: 110
72994 GTTCACATTT
73004 TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGT
1 TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGT
*
73069 CCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATC
66 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATC
*
73114 TCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTT-A
1 TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTTAA
* *
73177 GTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCA
64 GTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
73222 CCCATTTCAA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
109 26 0.25
110 69 0.68
111 7 0.07
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (110 bp):
TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGT
CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATC
Found at i:73265 original size:32 final size:32
Alignment explanation
Indices: 73207--73714 Score: 840
Period size: 32 Copynumber: 15.8 Consensus size: 32
73197 CTTTTAAGTC
* *
73207 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
73238 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
73270 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
73302 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
73334 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
73366 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
73398 CACAAGTCGGTGGCAACCCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
*
73431 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
73463 CACAAGTCGATGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
73495 CACAAGTCGGTGGCAACCCATTTCAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
73528 CACAGGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
73560 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
73592 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
73624 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
73656 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
73688 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
73715 TCACCATTTT
Statistics
Matches: 451, Mismatches: 22, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
31 12 0.03
32 378 0.84
33 61 0.14
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:74988 original size:11 final size:11
Alignment explanation
Indices: 74950--74990 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
74940 AAATTTAGGT
74950 AAAAAAGAAAG
1 AAAAAAGAAAG
*
74961 AAAGAAGATGAAG
1 AAAAAAGA--AAG
74974 AAAAAAGAAAG
1 AAAAAAGAAAG
74985 AAAAAA
1 AAAAAA
74991 AATATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:75381 original size:2 final size:2
Alignment explanation
Indices: 75368--75402 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
75358 TTATTTTATT
*
75368 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
75403 TGAAAATCTC
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:80353 original size:28 final size:28
Alignment explanation
Indices: 80263--80345 Score: 157
Period size: 28 Copynumber: 3.0 Consensus size: 28
80253 CAAATACCAC
80263 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
80291 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
*
80319 CCTTTGTATTCGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
80346 ATTTTTGTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.18, C:0.12, G:0.22, T:0.48
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:80379 original size:24 final size:24
Alignment explanation
Indices: 80350--80395 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
80340 GTGGTTATTT
80350 TTGTTTGTAAAAATTGGTGGCTTG
1 TTGTTTGTAAAAATTGGTGGCTTG
* *
80374 TTGTTTGTCAAAATTTGTGGCT
1 TTGTTTGTAAAAATTGGTGGCT
80396 AATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.26, T:0.48
Consensus pattern (24 bp):
TTGTTTGTAAAAATTGGTGGCTTG
Found at i:80381 original size:56 final size:55
Alignment explanation
Indices: 80263--80369 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 55
80253 CAAATACCAC
* *
80263 CCTTTGTATTTGTCAAATATGGTGGTTTCCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTCGTCAAATATGGTGGTTT-CTTTGTATTTGTAAAATATGGTGGTTT
*
80319 CCTTTGTATTCGTCAAATATGGTGGTTAT-TTT-TGTTTGTAAAA-ATTGGTGG
1 CCTTTGTATTCGTCAAATATGGTGGTT-TCTTTGTATTTGTAAAATA-TGGTGG
80370 CTTGTTGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
53 1 0.02
54 15 0.33
55 3 0.07
56 26 0.57
57 1 0.02
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.49
Consensus pattern (55 bp):
CCTTTGTATTCGTCAAATATGGTGGTTTCTTTGTATTTGTAAAATATGGTGGTTT
Found at i:81011 original size:21 final size:21
Alignment explanation
Indices: 80965--81013 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
80955 AAAATCTCAA
* *
80965 TATTGAAGTTGAATCATTTTC
1 TATTTAAGTTAAATCATTTTC
80986 TATTTAAGTTAAACTCATTTT-
1 TATTTAAGTTAAA-TCATTTTC
81007 TATTTAA
1 TATTTAA
81014 AATAAGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (21 bp):
TATTTAAGTTAAATCATTTTC
Found at i:88822 original size:22 final size:23
Alignment explanation
Indices: 88797--88839 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
88787 GCAGTAAGTC
88797 TGTTT-TATAAAGACAGTTATGT
1 TGTTTCTATAAAGACAGTTATGT
88819 TGTTTCTATAAAGACAGTTAT
1 TGTTTCTATAAAGACAGTTAT
88840 ATATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTTTCTATAAAGACAGTTATGT
Found at i:88844 original size:2 final size:2
Alignment explanation
Indices: 88837--88880 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
88827 TAAAGACAGT
88837 TA TA TA TA TA TA TA TA TA TA TA TA TA -A 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
88878 TA T
1 TA T
88881 GAAATTGTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89915 original size:11 final size:11
Alignment explanation
Indices: 89893--89923 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
89883 TCTCTTTTCC
89893 ATACTA-TAAT
1 ATACTAGTAAT
89903 ATACTAGTAAT
1 ATACTAGTAAT
89914 ATACTAGTAA
1 ATACTAGTAA
89924 GCTTGTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (11 bp):
ATACTAGTAAT
Found at i:90276 original size:2 final size:2
Alignment explanation
Indices: 90269--90300 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
90259 CAATAAATTT
*
90269 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90301 GCAGCTGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92518 original size:3 final size:3
Alignment explanation
Indices: 92512--92552 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
92502 TTATATATTA
92512 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
92553 ATTATTATTA
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:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:96756 original size:3 final size:3
Alignment explanation
Indices: 96748--96794 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
96738 CAATTTTGGC
* * * *
96748 AGA AGA AGA AGA AGA AGA AGA TGA AGA AGC AGA AGC AGA AGC AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
96795 CAGAGGAGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.57, C:0.06, G:0.34, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:96795 original size:6 final size:6
Alignment explanation
Indices: 96746--96798 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
96736 TTCAATTTTG
* * * * *
96746 GCAGAA GAAGAA GAAGAA GAAGAT GAAGAA GCAGAA GCAGAA GCAGAA
1 GCAGAA GCAGAA GCAGAA GCAGAA GCAGAA GCAGAA GCAGAA GCAGAA
96794 GCAGA
1 GCAGA
96799 GGAGGAAGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.55, C:0.09, G:0.34, T:0.02
Consensus pattern (6 bp):
GCAGAA
Found at i:97155 original size:3 final size:3
Alignment explanation
Indices: 97147--97189 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
97137 CAAAGGAGGG
*
97147 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
97190 TGGGGAGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:108288 original size:2 final size:2
Alignment explanation
Indices: 108281--108329 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
108271 TGGACTGGCA
108281 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
108323 AT AT AT A
1 AT AT AT A
108330 AGATCAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111584 original size:69 final size:69
Alignment explanation
Indices: 111469--111842 Score: 442
Period size: 69 Copynumber: 5.4 Consensus size: 69
111459 ATAATGATAA
* * * * ** *
111469 GCAGGGGTGCTTGGAAAAGAATCGGCAAAAACAGACGAGCTCTTCCCTTTGAACATGTTATCTGC
1 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAGCTCTTCCCCTTGAACATGTTATCTGC
111534 ATAG
66 ATAG
* *
111538 GCAGGAGTGCTTGGAACAGAATCAGCAAATATGGACGAGCTATTCCCCTTGAACATGTTATCTGC
1 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAGCTCTTCCCCTTGAACATGTTATCTGC
111603 ATAG
66 ATAG
* * * **
111607 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGATGAACTGTTCCCCTTGAATGTGTTATCTGC
1 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAGCTCTTCCCCTTGAACATGTTATCTGC
111672 ATAG
66 ATAG
** * *
111676 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAATTCTTCCCCTTGAACATGTTATCCGT
1 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAGCTCTTCCCCTTGAACATGTTATCTGC
*
111741 ATAA
66 ATAG
* * * * * * * * * * *
111745 GCAGGGGTGCTTGGAACGGATTCTGCAAAAATGGATGAGCTCTTCCCATGGAACATATCAGCTGT
1 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAGCTCTTCCCCTTGAACATGTTATCTGC
*
111810 GTAG
66 ATAG
* * *
111814 GCAGGGGTGCTCGGAACAGAATCTACAAA
1 GCAGGAGTGCTTGGAACAGAATCTGCAAA
111843 GGTAAACGGG
Statistics
Matches: 264, Mismatches: 41, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 264 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (69 bp):
GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAGCTCTTCCCCTTGAACATGTTATCTGC
ATAG
Found at i:111835 original size:207 final size:207
Alignment explanation
Indices: 111469--111842 Score: 487
Period size: 207 Copynumber: 1.8 Consensus size: 207
111459 ATAATGATAA
* * * *
111469 GCAGGGGTGCTTGGAAAAGAATCGGCAAAAACAGACGAGCTCTTCCCTTTGAACATGTTATCTGC
1 GCAGGAGTGCTTGGAAAAGAATCGGCAAAAACAGACGAACTCTTCCCCTTGAACATGTTATCCGC
* * * * * * *
111534 ATAGGCAGGAGTGCTTGGAACAGAATCAGCAAATATGGACGAGCTATTCCCCTTGAACATGTTAT
66 ATAAGCAGGAGTGCTTGGAACAGAATCAGCAAAAATGGACGAGCTATTCCCATGGAACATATCAG
* *
111599 CTGCATAGGCAGGAGTGCTTGGAACAGAATCTGCAAATATGGATGAACTGTTCCCCTTGAATGTG
131 CTGCATAGGCAGGAGTGCTCGGAACAGAATCTACAAATATGGATGAACTGTTCCCCTTGAATGTG
111664 TTATCTGCATAG
196 TTATCTGCATAG
* * * ** * *
111676 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAATTCTTCCCCTTGAACATGTTATCCGT
1 GCAGGAGTGCTTGGAAAAGAATCGGCAAAAACAGACGAACTCTTCCCCTTGAACATGTTATCCGC
* * * * * *
111741 ATAAGCAGGGGTGCTTGGAACGGATTCTGCAAAAATGGATGAGCTCTTCCCATGGAACATATCAG
66 ATAAGCAGGAGTGCTTGGAACAGAATCAGCAAAAATGGACGAGCTATTCCCATGGAACATATCAG
** *
111806 CTGTGTAGGCAGGGGTGCTCGGAACAGAATCTACAAA
131 CTGCATAGGCAGGAGTGCTCGGAACAGAATCTACAAA
111843 GGTAAACGGG
Statistics
Matches: 138, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
207 138 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (207 bp):
GCAGGAGTGCTTGGAAAAGAATCGGCAAAAACAGACGAACTCTTCCCCTTGAACATGTTATCCGC
ATAAGCAGGAGTGCTTGGAACAGAATCAGCAAAAATGGACGAGCTATTCCCATGGAACATATCAG
CTGCATAGGCAGGAGTGCTCGGAACAGAATCTACAAATATGGATGAACTGTTCCCCTTGAATGTG
TTATCTGCATAG
Found at i:120559 original size:5 final size:5
Alignment explanation
Indices: 120542--120589 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
120532 TATCAAAGCC
* *
120542 TCCTT TCCCT TCCTT TCCTC TCAAGCTT TCCTT TCCTT TCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TC---CTT TCCTT TCCTT TCCTT TCCTT
120590 CCAATTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 32 0.89
8 4 0.11
ACGTcount: A:0.04, C:0.42, G:0.02, T:0.52
Consensus pattern (5 bp):
TCCTT
Found at i:123123 original size:6 final size:6
Alignment explanation
Indices: 123111--123146 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
123101 AAGGAGTAGC
* *
123111 AGGTGA GGGTGA GGGTGA AGGTGA AGGTGA AGGTGA
1 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA
123147 CGGAGGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.56, T:0.17
Consensus pattern (6 bp):
AGGTGA
Found at i:123679 original size:3 final size:3
Alignment explanation
Indices: 123665--123694 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
123655 AGTCAAGAAA
*
123665 ATG ATA ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
123695 GTGCAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:128366 original size:52 final size:52
Alignment explanation
Indices: 128218--128346 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
128208 CGAAATATGA
128218 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
128270 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTTGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
128322 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
128347 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:128469 original size:13 final size:13
Alignment explanation
Indices: 128451--128475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128441 ACAAAACTCA
128451 TGTATCGATACAT
1 TGTATCGATACAT
128464 TGTATCGATACA
1 TGTATCGATACA
128476 AATCGTTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:133794 original size:2 final size:2
Alignment explanation
Indices: 133787--133818 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
133777 TAATTATAGC
133787 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
133819 ATCTATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:133827 original size:2 final size:2
Alignment explanation
Indices: 133822--133846 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
133812 TCTCTCTATC
133822 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
133847 GTAGAGTAGA
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:144980 original size:11 final size:11
Alignment explanation
Indices: 144964--144998 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
144954 CAAATATGAT
*
144964 ATTAAAAATTA
1 ATTAAAAAATA
144975 ATTAAAAAATA
1 ATTAAAAAATA
144986 ATATAAAAAATA
1 AT-TAAAAAATA
144998 A
1 A
144999 ATATAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATTAAAAAATA
Found at i:144994 original size:13 final size:13
Alignment explanation
Indices: 144962--145004 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
144952 CACAAATATG
* *
144962 ATATTAAAAATTA
1 ATATAAAAAATAA
144975 AT-TAAAAAAT-A
1 ATATAAAAAATAA
144986 ATATAAAAAATAA
1 ATATAAAAAATAA
144999 ATATAA
1 ATATAA
145005 CATAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 3 0.11
12 15 0.56
13 9 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATAAAAAATAA
Found at i:145038 original size:19 final size:19
Alignment explanation
Indices: 144995--145055 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
144985 AATATAAAAA
144995 ATAAATATAACATAAATAT
1 ATAAATATAACATAAATAT
*
145014 ACAAATATAA-A-AAATATTT
1 ATAAATATAACATAAATA--T
* * *
145033 ATAAATATTATATAAATTT
1 ATAAATATAACATAAATAT
145052 ATAA
1 ATAA
145056 TATTTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.15
18 1 0.03
19 23 0.68
20 1 0.03
21 4 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAATATAACATAAATAT
Found at i:145217 original size:19 final size:18
Alignment explanation
Indices: 145193--145251 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
145183 ACACTATAAA
145193 AAATATAACATAAATATAT
1 AAATATAA-ATAAATATAT
145212 AAATATAAA-AAATATTTAT
1 AAATATAAATAAATA--TAT
* *
145231 AAATATTATATAAATTTAT
1 AAATA-TAAATAAATATAT
145250 AA
1 AA
145252 TATTTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.15
18 1 0.03
19 21 0.62
20 3 0.09
21 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATATAAATAAATATAT
Found at i:145222 original size:196 final size:197
Alignment explanation
Indices: 144934--145289 Score: 565
Period size: 196 Copynumber: 1.8 Consensus size: 197
144924 TTTTTAATAC
* * *
144934 TTAAAATATACAAAAAAACACAAATATGATATTAAAAATTAATTAAAAAATAATATAAAAAATAA
1 TTAAAATATACAAAAAAACACAAATATAACATTAAAAATTAATTAAAAAACAATAT--AAAATAA
144999 ATATAACATAAATATACAAATATAAAAAATATTTATAAATATTATATAAATTTATAATATTTTAA
64 ATATAACATAAATATACAAATATAAAAAATATTTATAAATATTATATAAATTTATAATATTTTAA
* *
145064 ATAATAAAAAATATAAATAAAAATTATAAACAGTTAAATTTTTCTTTTTCTCTTTTTCTATCTTT
129 ATAATAAAAAATACAAATAAAAATCATAAACAGTTAAATTTTTCTTTTTCTCTTTTTCTATCTTT
145129 TACT
194 TACT
* * *
145133 TTAAATATATA-AAAAATAACATAAATATAACATTAAAAATTAATTAAAATACACTAT-AAA-AA
1 TTAAA-ATATACAAAAA-AACACAAATATAACATTAAAAATTAATTAAAAAACAATATAAAATAA
*
145195 ATATAACATAAATATATAAATATAAAAAATATTTATAAATATTATATAAATTTATAATATTTTAA
64 ATATAACATAAATATACAAATATAAAAAATATTTATAAATATTATATAAATTTATAATATTTTAA
*
145260 ATAATAAAAAATACATATAAAAATCATAAA
129 ATAATAAAAAATACAAATAAAAATCATAAA
145290 TACCAAAAAT
Statistics
Matches: 145, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
196 93 0.64
197 3 0.02
199 10 0.07
200 39 0.27
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (197 bp):
TTAAAATATACAAAAAAACACAAATATAACATTAAAAATTAATTAAAAAACAATATAAAATAAAT
ATAACATAAATATACAAATATAAAAAATATTTATAAATATTATATAAATTTATAATATTTTAAAT
AATAAAAAATACAAATAAAAATCATAAACAGTTAAATTTTTCTTTTTCTCTTTTTCTATCTTTTA
CT
Found at i:145240 original size:28 final size:28
Alignment explanation
Indices: 145134--145226 Score: 85
Period size: 24 Copynumber: 3.6 Consensus size: 28
145124 TCTTTTACTT
145134 TAAATATATAAAAA-ATAACATAAATATA
1 TAAATATA-AAAAATATAACATAAATATA
* *
145162 -ACAT-T-AAAAAT-TAA-TTAAA-ATA
1 TAAATATAAAAAATATAACATAAATATA
* *
145184 -CACTATAAAAAATATAACATAAATATA
1 TAAATATAAAAAATATAACATAAATATA
145211 TAAATATAAAAAATAT
1 TAAATATAAAAAATAT
145227 TTATAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
22 4 0.08
23 5 0.10
24 14 0.28
25 3 0.06
26 5 0.10
27 6 0.12
28 13 0.26
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (28 bp):
TAAATATAAAAAATATAACATAAATATA
Found at i:148264 original size:32 final size:32
Alignment explanation
Indices: 148209--148312 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
148199 TTCAACGATT
148209 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
* *
148242 TATATCGATACATAAGTGTTGTATCGATAAAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
148274 TGTATCGATACATAAGCT-TTGTATCGATACAA
1 TGTATCGATACATAAG-TGTTGTATCGATACAA
148306 TGTATCG
1 TGTATCG
148313 CTACGAAGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:148268 original size:19 final size:18
Alignment explanation
Indices: 148207--148304 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
148197 ATTTCAACGA
148207 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
148226 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
148242 --TATATCGATACATAAG
1 TTTGTATCGATACATAAG
148258 TGTTGTATCGATA-A-AA-
1 T-TTGTATCGATACATAAG
148274 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
148290 CTTTGTATCGATACA
1 -TTTGTATCGATACA
148305 ATGTATCGCT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 20 0.31
14 1 0.02
15 4 0.06
17 4 0.06
18 1 0.02
19 22 0.34
20 12 0.19
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:148518 original size:52 final size:52
Alignment explanation
Indices: 148390--148518 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
148380 CACTGATCTT
* *
148390 TGTATCGATACATGTAGGCAAATTCGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
148442 TGTATCGATACATACAGGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
148494 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
148519 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:149396 original size:20 final size:20
Alignment explanation
Indices: 149371--149420 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
149361 ATAACCTTGA
149371 TCATGCATTTTTACTATGTT
1 TCATGCATTTTTACTATGTT
149391 TCATGCATTTTTACTATGTT
1 TCATGCATTTTTACTATGTT
149411 TCATGCATTT
1 TCATGCATTT
149421 ACAACATGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.54
Consensus pattern (20 bp):
TCATGCATTTTTACTATGTT
Found at i:149429 original size:20 final size:20
Alignment explanation
Indices: 149371--149429 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
149361 ATAACCTTGA
**
149371 TCATGCATTTTTACTATGTT
1 TCATGCATTTCAACTATGTT
**
149391 TCATGCATTTTTACTATGTT
1 TCATGCATTTCAACTATGTT
149411 TCATGCATTTACAAC-ATGT
1 TCATGCATTT-CAACTATGT
149430 CCAGCACCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 34 0.94
21 2 0.06
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (20 bp):
TCATGCATTTCAACTATGTT
Found at i:159937 original size:23 final size:23
Alignment explanation
Indices: 159911--159957 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
159901 AAGAATGTTT
159911 TGTTGGTTGCTACAAAGGATTCA
1 TGTTGGTTGCTACAAAGGATTCA
159934 TGTTGGTTGCTACAAAGGATTCA
1 TGTTGGTTGCTACAAAGGATTCA
159957 T
1 T
159958 CAGTTATGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (23 bp):
TGTTGGTTGCTACAAAGGATTCA
Found at i:163498 original size:2 final size:2
Alignment explanation
Indices: 163491--163532 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
163481 AGAAGTAAGA
163491 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
163533 ATATATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:163537 original size:2 final size:2
Alignment explanation
Indices: 163532--163591 Score: 66
Period size: 2 Copynumber: 29.5 Consensus size: 2
163522 TCTCTCTCTC
* * *
163532 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA GTA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
163575 TA TG TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
163592 TGAAACCTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (2 bp):
TA
Found at i:168832 original size:11 final size:12
Alignment explanation
Indices: 168816--168883 Score: 79
Period size: 11 Copynumber: 5.7 Consensus size: 12
168806 TCATCAATGA
168816 AAATAATAT-TT
1 AAATAATATATT
168827 AAATAATATAATT
1 AAATAATAT-ATT
168840 ATAATAATATATT
1 A-AATAATATATT
*
168853 -AATAA-ATAAT
1 AAATAATATATT
168863 ATAATAATATATT
1 A-AATAATATATT
168876 AAATAATA
1 AAATAATA
168884 ATAAATGGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
10 4 0.08
11 14 0.29
12 12 0.24
13 11 0.22
14 8 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAATATATT
Found at i:168850 original size:8 final size:8
Alignment explanation
Indices: 168828--168886 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 8
168818 ATAATATTTA
168828 AATAATAT
1 AATAATAT
168836 AAT--TAT
1 AATAATAT
168842 AATAATAT
1 AATAATAT
*
168850 ATTAATA-
1 AATAATAT
168857 AATAATAT
1 AATAATAT
168865 AATAATAT
1 AATAATAT
*
168873 ATTAA-AT
1 AATAATAT
168880 AATAATA
1 AATAATA
168887 AATGGGTGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 6 0.14
7 12 0.28
8 25 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AATAATAT
Found at i:168862 original size:15 final size:15
Alignment explanation
Indices: 168826--168889 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 15
168816 AAATAATATT
*
168826 TAAATAATATAATTA
1 TAAATAATATAATAA
*
168841 T-AATAATATATTAA
1 TAAATAATATAATAA
168855 TAAATAATATAATAA
1 TAAATAATATAATAA
*
168870 TATATTAA-ATAATAA
1 TA-AATAATATAATAA
168885 TAAAT
1 TAAAT
168890 GGGTGCAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
14 14 0.33
15 24 0.57
16 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATAATATAATAA
Found at i:168866 original size:20 final size:20
Alignment explanation
Indices: 168816--168883 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
168806 TCATCAATGA
*
168816 AAATAATAT-TTAA-ATAAT
1 AAATAATATAATAATATAAT
*
168834 ATAATTATAATAAT-ATATTAAT
1 A-AATAAT-ATAATAATA-TAAT
*
168856 AAATAATATAATAATATATT
1 AAATAATATAATAATATAAT
168876 AAATAATA
1 AAATAATA
168884 ATAAATGGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 1 0.03
19 5 0.12
20 19 0.47
21 10 0.25
22 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATAATATAATAATATAAT
Found at i:168869 original size:23 final size:23
Alignment explanation
Indices: 168817--168886 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 23
168807 CATCAATGAA
168817 AATAATAT-TTAAATAATATAATTAT
1 AATAATATATT-AATAA-ATAA-TAT
168842 AATAATATATTAATAAATAATAT
1 AATAATATATTAATAAATAATAT
168865 AATAATATATTAA-ATAATAATA
1 AATAATATATTAATA-AATAATA
168887 AATGGGTGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
22 1 0.02
23 23 0.53
24 4 0.09
25 13 0.30
26 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AATAATATATTAATAAATAATAT
Found at i:169416 original size:19 final size:20
Alignment explanation
Indices: 169394--169434 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
169384 ATTTTTATAC
169394 TATTATT-ATAAATATTT-TT
1 TATTATTAAT-AATATTTATT
169413 TATTATTAATAATATTTATT
1 TATTATTAATAATATTTATT
169433 TA
1 TA
169435 ATTTATAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATTAATAATATTTATT
Found at i:175548 original size:6 final size:6
Alignment explanation
Indices: 175539--175616 Score: 60
Period size: 6 Copynumber: 13.5 Consensus size: 6
175529 GATGTCGATG
* *
175539 TTTATA TTTATA -TT-TA TTTAAA TTTAT- TATAT- TCTTATCAA TTTA-A
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA T-TTAT--A TTTATA
*
175585 TTTA-A TTTATA TTTATT TTTATA TTTATA TTT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTT
175617 TCACTTCTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
4 2 0.03
5 19 0.32
6 34 0.58
8 3 0.05
9 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTATA
Found at i:175777 original size:28 final size:29
Alignment explanation
Indices: 175723--175777 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
175713 TTTTTTTAAT
* *
175723 TTAAATATTTTAGATTAATGATAATAAAA
1 TTAAATATTTTAGAATAATAATAATAAAA
*
175752 TTAATTATTTTA-AATAATAATAATAA
1 TTAAATATTTTAGAATAATAATAATAA
175778 TAAGATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (29 bp):
TTAAATATTTTAGAATAATAATAATAAAA
Found at i:187440 original size:7 final size:7
Alignment explanation
Indices: 187428--187462 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
187418 GATATTTGGT
187428 TGGCTAA
1 TGGCTAA
187435 TGGCTAA
1 TGGCTAA
187442 TGGCTAA
1 TGGCTAA
187449 TGGCTAA
1 TGGCTAA
187456 TGGCTAA
1 TGGCTAA
187463 CAGAGGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (7 bp):
TGGCTAA
Found at i:187865 original size:2 final size:2
Alignment explanation
Indices: 187858--187891 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
187848 GCGCAGAAAC
187858 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
187892 TTAAATTTAA
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:190651 original size:48 final size:49
Alignment explanation
Indices: 190596--190692 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 49
190586 AATTTTATGC
190596 GTTTTATAACCTGAAATAATATCTACCCTCTGA-TCTTCTGTTTGGTTA
1 GTTTTATAACCTGAAATAATATCTACCCTCTGACTCTTCTGTTTGGTTA
* *
190644 GTTTTATAACCTGAACTAATATTTACCCTCTGACTCTTCTGTTTGGTTA
1 GTTTTATAACCTGAAATAATATCTACCCTCTGACTCTTCTGTTTGGTTA
190693 CATTGACTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 31 0.67
49 15 0.33
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (49 bp):
GTTTTATAACCTGAAATAATATCTACCCTCTGACTCTTCTGTTTGGTTA
Found at i:197027 original size:4 final size:4
Alignment explanation
Indices: 197018--197042 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
197008 TCTCTCTTTT
197018 TATC TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC T
197043 GTCATTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:197558 original size:5 final size:5
Alignment explanation
Indices: 197550--197574 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
197540 CTTTTCTCTT
197550 TGCTC TGCTC TGCTC TGCTC TGCTC
1 TGCTC TGCTC TGCTC TGCTC TGCTC
197575 CTTCTATGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
TGCTC
Found at i:202771 original size:3 final size:3
Alignment explanation
Indices: 202763--202787 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
202753 TCAAAATTAA
202763 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
202788 CAAATTTTCA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:205756 original size:24 final size:24
Alignment explanation
Indices: 205684--205772 Score: 60
Period size: 24 Copynumber: 3.7 Consensus size: 24
205674 AAAATTTAAA
* *
205684 TAAAAATTTAAATTTA-TACTTAT
1 TAAAATTTTAAATTAATTACTTAT
* * *
205707 TAAAATTTTTTAAA-AAATAAAATTAT
1 TAAAA--TTTTAAATTAAT-TACTTAT
205733 TAAAATTTTAAATTAATTACTTAT
1 TAAAATTTTAAATTAATTACTTAT
205757 CATAAAA--TTAAATTAA
1 --TAAAATTTTAAATTAA
205773 AATAAAATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
23 5 0.10
24 22 0.43
25 9 0.18
26 15 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAAATTTTAAATTAATTACTTAT
Found at i:205779 original size:16 final size:16
Alignment explanation
Indices: 205758--205788 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
205748 ATTACTTATC
205758 ATAAAATTAAATTAAA
1 ATAAAATTAAATTAAA
205774 ATAAAATTAAATTAA
1 ATAAAATTAAATTAA
205789 GAGAATAATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAATTAAATTAAA
Found at i:208655 original size:21 final size:20
Alignment explanation
Indices: 208610--208651 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
208600 GATATCATAT
*
208610 AAAT-TTTATTTTTTAATTA
1 AAATATTTAATTTTTAATTA
208629 AAATATTTAATTTTTAATTA
1 AAATATTTAATTTTTAATTA
208649 AAA
1 AAA
208652 ATATGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATTTAATTTTTAATTA
Found at i:208771 original size:10 final size:10
Alignment explanation
Indices: 208756--208787 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
208746 TTATATATTG
208756 ATAAAAAAAT
1 ATAAAAAAAT
208766 ATAAAAAAAAT
1 AT-AAAAAAAT
208777 ATAAAAAAAT
1 ATAAAAAAAT
208787 A
1 A
208788 ATATATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
ATAAAAAAAT
Found at i:208774 original size:11 final size:11
Alignment explanation
Indices: 208758--208785 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
208748 ATATATTGAT
208758 AAAAAAATATA
1 AAAAAAATATA
208769 AAAAAAATATA
1 AAAAAAATATA
208780 AAAAAA
1 AAAAAA
208786 TAATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAATATA
Found at i:208784 original size:13 final size:12
Alignment explanation
Indices: 208758--208792 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
208748 ATATATTGAT
208758 AAAAAAATAT-A
1 AAAAAAATATAA
208769 AAAAAAATATAA
1 AAAAAAATATAA
208781 AAAAATAATATA
1 AAAAA-AATATA
208793 TATCAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.45
12 6 0.27
13 6 0.27
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAAAAATATAA
Found at i:210085 original size:4 final size:4
Alignment explanation
Indices: 210076--210105 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
210066 ATATTTACTC
*
210076 ATAA ATAA ATAA ATAA ATAA ATAA ACAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
210106 TCCAGCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:210234 original size:14 final size:13
Alignment explanation
Indices: 210207--210238 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
210197 TTATAATTTT
210207 ATATAAATATATA
1 ATATAAATATATA
210220 ATATAAATGATATA
1 ATATAAAT-ATATA
210234 ATATA
1 ATATA
210239 TTATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATAAATATATA
Found at i:211102 original size:3 final size:3
Alignment explanation
Indices: 211089--211118 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
211079 AGCAACATCG
211089 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CT
211119 CGCTTCACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:220690 original size:2 final size:2
Alignment explanation
Indices: 220683--220707 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
220673 TAATATTCAA
220683 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
220708 ACAGTATCCT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:234827 original size:3 final size:3
Alignment explanation
Indices: 234812--234859 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
234802 GAGACAGCTA
* * *
234812 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT CAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
234860 GAAAATGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Done.