Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold238
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: 1453955
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 3 of 9
Found at i:344366 original size:32 final size:32
Alignment explanation
Indices: 344325--344387 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
344315 TAGCTAATTA
*
344325 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
344357 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
344388 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:349889 original size:13 final size:13
Alignment explanation
Indices: 349871--349899 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
349861 ACAACATTCC
349871 TTGTATCGATACA
1 TTGTATCGATACA
349884 TTGTATCGATACA
1 TTGTATCGATACA
349897 TTG
1 TTG
349900 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:351633 original size:21 final size:21
Alignment explanation
Indices: 351609--351657 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
351599 GTACTTTGAA
351609 TTTATGAAATGCAATGTTTGT
1 TTTATGAAATGCAATGTTTGT
*
351630 TTTATGAAATGTAATGTTTGT
1 TTTATGAAATGCAATGTTTGT
351651 TTTATGA
1 TTTATGA
351658 TTATGTTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (21 bp):
TTTATGAAATGCAATGTTTGT
Found at i:352429 original size:13 final size:13
Alignment explanation
Indices: 352411--352437 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
352401 ACATTATGCT
352411 TTGTATCGATACA
1 TTGTATCGATACA
352424 TTGTATCGATACA
1 TTGTATCGATACA
352437 T
1 T
352438 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:352446 original size:19 final size:19
Alignment explanation
Indices: 352422--352478 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
352412 TGTATCGATA
352422 CATTGTATCGATACATG-C
1 CATTGTATCGATACATGAC
352440 TCATTGTATCGATACATAGAC
1 -CATTGTATCGATACAT-GAC
*
352461 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
352479 GATTGGAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 18 0.51
20 16 0.46
21 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAC
Found at i:352545 original size:13 final size:13
Alignment explanation
Indices: 352527--352575 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
352517 CATGGGACAA
352527 TGTATCGATACAT
1 TGTATCGATACAT
352540 TGTATCGATACA-
1 TGTATCGATACAT
352552 TG-AT-GA-A-AT
1 TGTATCGATACAT
352561 TGTATCGATACAT
1 TGTATCGATACAT
352574 TG
1 TG
352576 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:352548 original size:33 final size:34
Alignment explanation
Indices: 352506--352575 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
352496 CTACCACTGT
352506 TTGTATCGATACATG-GGACAA-TGTATCGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
*
352539 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
352573 TTG
1 TTG
352576 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:353386 original size:52 final size:52
Alignment explanation
Indices: 353327--353445 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 52
353317 TATTTTCGAG
* *
353327 GGGATACTCCAACCCTAGTTTTTATTC-CTAAAAGACCAATTTTTTACAATCA
1 GGGATACTCCAACCCTAGGTTTTATTCTC-AAAAGACCAATTTTTCACAATCA
* * * * * *
353379 GGGATACTCC-AGCCTCGGTTTTATTTTCAAAATATCAATTTTTCACAATCG
1 GGGATACTCCAACCCTAGGTTTTATTCTCAAAAGACCAATTTTTCACAATCA
*
353430 GGGATACTCTAACCCT
1 GGGATACTCCAACCCT
353446 GTTATTTCTG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 40 0.73
52 15 0.27
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (52 bp):
GGGATACTCCAACCCTAGGTTTTATTCTCAAAAGACCAATTTTTCACAATCA
Found at i:353483 original size:79 final size:78
Alignment explanation
Indices: 353399--353707 Score: 376
Period size: 77 Copynumber: 4.0 Consensus size: 78
353389 AGCCTCGGTT
* * *
353399 TTATTTTCAAAATATCAATTTTTCACAATCGGGGATACTCTAACCCTGTTA-TTTCTGAGGTGAT
1 TTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTC-GAGG-GAT
*
353463 ACTCTAACCCTGATC
64 ACTCTAACCCCGATC
* * * * *
353478 TTATTTTCAAAACACCAATTTTTCATAATCAGAGATACTCTAATCCC-GTTGTTTTCGAGGGGAT
1 TTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAA-CCCTGTTATTTTCGA-GGGAT
* *
353542 ACTCCAACCCCGGT-
64 ACTCTAACCCCGATC
*
353556 TTATTTTCAAAATACCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGATAC
1 TTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGATAC
353621 TCTAACCCCGATC
66 TCTAACCCCGATC
* * * * *
353634 TTA-TTCCCATACACCAATTTTTCACAATCGAGGATAC-CCAACCCCGTTATTTTCGAAGGGATA
1 TTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCG-AGGGATA
*
353697 CTCCAACCCCG
65 CTCTAACCCCG
353708 TTATTTCCGA
Statistics
Matches: 200, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
76 17 0.09
77 66 0.33
78 51 0.25
79 57 0.28
80 9 0.05
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (78 bp):
TTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGATAC
TCTAACCCCGATC
Found at i:353593 original size:78 final size:79
Alignment explanation
Indices: 353379--353707 Score: 382
Period size: 79 Copynumber: 4.2 Consensus size: 79
353369 TTTACAATCA
* * * * * * *
353379 GGGATACTCCAGCCTCGGTTTTATTTTCAAAATATCAATTTTTCACAATCGGGGATACTCTAACC
1 GGGATACTCCAACCCCGATCTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
353444 CTGTTA-TTTCTGAG
66 CTGTTATTTTC-GAG
* * * * * * *
353458 GTGATACTCTAACCCTGATCTTATTTTCAAAACACCAATTTTTCATAATCAGAGATACTCTAATC
1 GGGATACTCCAACCCCGATCTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAA-C
*
353523 CC-GTTGTTTTCGAG
65 CCTGTTATTTTCGAG
* *
353537 GGGATACTCCAACCCCGGT-TTATTTTCAAAATACCAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATCTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
353601 CTGTTATTTTCGA-
66 CTGTTATTTTCGAG
* * * * *
353614 GGGATACTCTAACCCCGATCTTA-TTCCCATACACCAATTTTTCACAATCGAGGATAC-CCAACC
1 GGGATACTCCAACCCCGATCTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
* *
353677 CCGTTATTTTCGAA
66 CTGTTATTTTCGAG
353691 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
353708 TTATTTCCGA
Statistics
Matches: 213, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
76 18 0.08
77 65 0.31
78 51 0.24
79 72 0.34
80 7 0.03
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATCTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
CTGTTATTTTCGAG
Found at i:353725 original size:28 final size:28
Alignment explanation
Indices: 353667--353727 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
353657 ACAATCGAGG
* *
353667 ATAC-CCAACCCCGTTATTTTCGAAGGG
1 ATACTCCAACCCCGTTATTTCCGAAGGA
353694 ATACTCCAACCCCGTTATTTCCG-AGAGA
1 ATACTCCAACCCCGTTATTTCCGAAG-GA
353722 ATACTC
1 ATACTC
353728 TAACTCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
ATACTCCAACCCCGTTATTTCCGAAGGA
Found at i:355888 original size:4 final size:4
Alignment explanation
Indices: 355871--355909 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
355861 TTTTAAGGTG
* * *
355871 TTTA TTTT TTTA TTTA TTCA TTTA TCTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
355910 TGTTTTGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:366220 original size:1 final size:1
Alignment explanation
Indices: 366216--366277 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
366206 TTTTCTAAAC
* * * ** * * *
366216 AAAAAAAACAACAAAAACAAAAAAAAAACCAAAAAAATAATAAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
366278 GAGAAAAGAA
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.87, C:0.08, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:366242 original size:11 final size:11
Alignment explanation
Indices: 366216--366277 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
366206 TTTTCTAAAC
366216 AAAAAAAAC--
1 AAAAAAAACAA
*
366225 AACAAAAACAA
1 AAAAAAAACAA
366236 AAAAAAAACCAA
1 AAAAAAAA-CAA
* *
366248 AAAAATAATAA
1 AAAAAAAACAA
*
366259 AAAAAAAAGAA
1 AAAAAAAACAA
366270 AAAAAAAA
1 AAAAAAAA
366278 GAGAAAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
9 8 0.18
11 26 0.59
12 10 0.23
ACGTcount: A:0.87, C:0.08, G:0.02, T:0.03
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:366249 original size:29 final size:30
Alignment explanation
Indices: 366212--366277 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
366202 TTCTTTTTCT
*
366212 AAACAAAAAAAACAACAAAAACAAAA-AAA
1 AAACAAAAAAAACAACAAAAAAAAAAGAAA
* * *
366241 AAACCAAAAAAATAATAAAAAAAAAAGAAA
1 AAACAAAAAAAACAACAAAAAAAAAAGAAA
366271 AAA-AAAA
1 AAACAAAA
366278 GAGAAAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.03
Consensus pattern (30 bp):
AAACAAAAAAAACAACAAAAAAAAAAGAAA
Found at i:366282 original size:13 final size:12
Alignment explanation
Indices: 366234--366289 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
366224 CAACAAAAAC
**
366234 AAAAAAAAAACC
1 AAAAAAAAAAGA
* *
366246 AAAAAAATAA-T
1 AAAAAAAAAAGA
366257 AAAAAAAAAAGA
1 AAAAAAAAAAGA
366269 AAAAAAAAAGAGA
1 AAAAAAAAA-AGA
366282 AAAGAAAA
1 AAA-AAAA
366290 GAACCTGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 9 0.24
12 18 0.49
13 6 0.16
14 4 0.11
ACGTcount: A:0.86, C:0.04, G:0.07, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:366284 original size:12 final size:11
Alignment explanation
Indices: 366228--366292 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 11
366218 AAAAAACAAC
*
366228 AAAAACAAAAA
1 AAAAAGAAAAA
*
366239 AAAAACCAAAAA
1 AAAAA-GAAAAA
* *
366251 AATAATAAAAA
1 AAAAAGAAAAA
366262 AAAAAGAAAAA
1 AAAAAGAAAAA
366273 AAAAAGAGAAAA
1 AAAAAGA-AAAA
*
366285 GAAAAGAA
1 AAAAAGAA
366293 CCTGCTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
11 27 0.57
12 20 0.43
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:366284 original size:23 final size:22
Alignment explanation
Indices: 366228--366292 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
366218 AAAAAACAAC
* *
366228 AAAAACAAAAAAAAAACCAAAAA
1 AAAAAGAAAAAAAAAA-GAAAAA
* *
366251 AATAATAAAAAAAAAAGAAAAA
1 AAAAAGAAAAAAAAAAGAAAAA
*
366273 AAAAAGAGAAAAGAAAAGAA
1 AAAAAGA-AAAAAAAAAGAA
366293 CCTGCTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.03
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAAAA
Found at i:367380 original size:61 final size:61
Alignment explanation
Indices: 367267--367838 Score: 787
Period size: 61 Copynumber: 9.4 Consensus size: 61
367257 TTATCTTTTT
* * *
367267 AGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTCGAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
367329 AGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
367390 AGTTCTCAAAGAGTAGGACGCCTTTTCCTTTTGAAGCCCACACAAGTTGGTGGCACCTGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
367451 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
367512 AATCCTCAAAGAGCAGGACG--TTTTCCTTTCAAAGCCCACACAAGTTGGTAGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* ** *
367571 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCATGCAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
367632 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
367693 AGTCCTCAAAAAGCAGGATGCCTTTTCCTTTCAAAGCCAACACAAGTTGGTGGCACC-TTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
367753 TAGTCCTCAAAGAGCAAGATG--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
367812 TAGTCCTTAAAGAGTAGGACGCGCTTT
1 -AGTCCTCAAAGAGCAGGACGC-CTTT
367839 AATTTCCTTC
Statistics
Matches: 452, Mismatches: 52, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
59 109 0.24
60 2 0.00
61 310 0.69
62 31 0.07
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:367738 original size:242 final size:242
Alignment explanation
Indices: 367269--367833 Score: 880
Period size: 242 Copynumber: 2.3 Consensus size: 242
367259 ATCTTTTTAG
** *
367269 TCCTCAAAGAGCAGGATGCCCTTTCCTTTTCGAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
1 TCCTCAAAGAGCAGGA--CGTTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * * *
367334 TCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTTAGTTCTCAA
63 TCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTTAGTCCTCAA
* * * *
367399 AGAGTAGGACGCCTTTTCCTTTTGAAGCCCACACAAGTTGGTGGCACCTGTCAGTCCTCAAAGAG
128 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTGTCAGTCCTCAAAAAG
* *
367464 CAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAA
193 CAGGATGCCTTTTCCTTTCAAAGCCAACACAAGTTGGTGGCACCTTCCAA
*
367514 TCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCA
1 TCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
** *
367579 AAGAGCAGGACGCCTTCTCCTTTTAAAGCCCATGCAAGTTGGTGGCACCTTTTAGTCCTCAAAGA
66 AAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTTAGTCCTCAAAGA
367644 GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTGTCAGTCCTCAAAAAGCAG
131 GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTGTCAGTCCTCAAAAAGCAG
* *
367709 GATGCCTTTTCCTTTCAAAGCCAACACAAGTTGGTGGCACCTTCTAG
196 GATGCCTTTTCCTTTCAAAGCCAACACAAGTTGGTGGCACCTTCCAA
* * *
367756 TCCTCAAAGAGCAAGATGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTT
1 TCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTC
*
367820 AAAGAGTAGGACGC
65 AAAGAGCAGGACGC
367834 GCTTTAATTT
Statistics
Matches: 295, Mismatches: 24, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
241 3 0.01
242 270 0.92
243 6 0.02
245 16 0.05
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (242 bp):
TCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTTAGTCCTCAAAGA
GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTGTCAGTCCTCAAAAAGCAG
GATGCCTTTTCCTTTCAAAGCCAACACAAGTTGGTGGCACCTTCCAA
Found at i:367833 original size:181 final size:178
Alignment explanation
Indices: 367266--367838 Score: 772
Period size: 181 Copynumber: 3.1 Consensus size: 178
367256 TTTATCTTTT
* * *
367266 TAGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTCGAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAG
* * * *
367331 TCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTTAGTTCT
64 TCCTCAAAGAGC-AG-GACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTTAGTCCT
* *
367396 CAAAGAGTAGGACGCCTTTTCCTTTTGAAGCCCACACAAGTTGGTGGCACCTGTC
126 CAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TC
* *
367451 -AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAAT
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
* *
367515 CCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTAGCACCTTTCAGTCCTCAA
65 CCTCAAAGAGCAGGACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAA
* ** *
367580 AGAGCAGGACGCCTTCTCCTTTTAAAGCCCATGCAAGTTGGTGGCACCTTT
129 AGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
367631 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTGTCAGT
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TCAGT
* *
367696 CCTCAAAAAGCAGGATGCCTTTTCCTTTCAAAGCCAACACAAGTTGGTGGCACCTTCTAGTCCTC
65 CCTCAAAGAGCAGGA--CCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTC
* * *
367761 AAAGAGCAAGATG-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
127 AAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
367812 TAGTCCTTAAAGAGTAGGACGCGCTTT
1 TAGTCCTCAAAGAGCAGGACGC-CTTT
367839 AATTTCCTTC
Statistics
Matches: 349, Mismatches: 31, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
180 4 0.01
181 212 0.61
182 9 0.03
183 92 0.26
184 32 0.09
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (178 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
CTCAAAGAGCAGGACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAG
AGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:367911 original size:42 final size:42
Alignment explanation
Indices: 367821--367958 Score: 195
Period size: 42 Copynumber: 3.2 Consensus size: 42
367811 CTAGTCCTTA
* * * * * *
367821 AAGAGTAGGACGCGCTTTAATTTCCTTCTTTTCCTTTGTCCTCA
1 AAGAGCAGGACGC-ATTTTATTTCCTT-TTTTCTTTTATCCTCG
367865 AAGAGCAGGACGCATTTTATTTCCTTTTTTCTTTTATCCTCG
1 AAGAGCAGGACGCATTTTATTTCCTTTTTTCTTTTATCCTCG
*
367907 AAGAGCAGGATGCATTTTATTTCCTTTTTTCTTTTATCCTCG
1 AAGAGCAGGACGCATTTTATTTCCTTTTTTCTTTTATCCTCG
367949 AAGAGCAGGA
1 AAGAGCAGGA
367959 TGTACTCCTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 64 0.74
43 11 0.13
44 12 0.14
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (42 bp):
AAGAGCAGGACGCATTTTATTTCCTTTTTTCTTTTATCCTCG
Found at i:367968 original size:36 final size:38
Alignment explanation
Indices: 367881--367976 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 38
367871 AGGACGCATT
*
367881 TTATTTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATG
1 TTATCTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATG
*
367919 CATTTTATTTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATG
1 ----TTATCTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATG
*
367961 -TA-CTCCTTTTTCCTTT
1 TTATCTCCTTTTTTCTTT
367977 GTCCTCAAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 12 0.23
37 2 0.04
42 38 0.73
ACGTcount: A:0.17, C:0.21, G:0.12, T:0.50
Consensus pattern (38 bp):
TTATCTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATG
Found at i:367976 original size:43 final size:42
Alignment explanation
Indices: 367840--367960 Score: 197
Period size: 42 Copynumber: 2.9 Consensus size: 42
367830 ACGCGCTTTA
* * * *
367840 ATTTCCTTCTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTT
1 ATTTCCTT-TTTTCTTTTATCCTCGAAGAGCAGGATGCATTTT
367883 ATTTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATGCATTTT
1 ATTTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATGCATTTT
367925 ATTTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATG
1 ATTTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATG
367961 TACTCCTTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
42 66 0.89
43 8 0.11
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (42 bp):
ATTTCCTTTTTTCTTTTATCCTCGAAGAGCAGGATGCATTTT
Found at i:368567 original size:13 final size:13
Alignment explanation
Indices: 368551--368580 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
368541 ATACATTGTT
*
368551 CATTGTATTGATA
1 CATTGTATCGATA
368564 CATTGTATCGATA
1 CATTGTATCGATA
368577 CATT
1 CATT
368581 CTGAGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:371083 original size:79 final size:79
Alignment explanation
Indices: 370962--371527 Score: 617
Period size: 79 Copynumber: 7.2 Consensus size: 79
370952 ATTTCCGAGG
**
370962 GGATACTCCAACCCCGATTTTTATTCCCAAAACACTAATTTTTCACAATCAGGGATACTCCAACC
1 GGATACTCCAACCCCGA-TTTTATTTTCAAAACACTAATTTTTCACAATCAGGGATACTCCAACC
371027 CCGTTATTTTGGAGA
65 CCGTTATTTTGGAGA
* * **
371042 GGACACTCTAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATTGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATCAGGGATACTCCAACCC
* *
371107 CGTTATTTCGGAGG
66 CGTTATTTTGGAGA
* * *
371121 GGATACTCCAACCTCGGTTTTTATTCTT-AAAACACCAATTTTTCACAATC-GAGGATACTCCAA
1 GGATACTCCAACC-CCGATTTTATT-TTCAAAACACTAATTTTTCACAATCAG-GGATACTCCAA
* * *
371184 CCCCATTATTTTAGAGG
63 CCCCGTTATTTTGGAGA
* ** * * *
371201 GGATACTCCATCCTTGGTTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATCAGGGATACTCCAACCC
* *
371266 TGTTATTTTCGA-A
66 CGTTATTTTGGAGA
* * * * * *
371279 GGGATACTCCAACCTCGGTCTTATTTCCAAAACACTAATTTTTCACAATTAGGGATACTCTAACC
1 -GGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATCAGGGATACTCCAACC
* *
371344 CCGTTATTTTTGAGG
65 CCGTTATTTTGGAGA
* * *
371359 GGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTTTACAATTAGGGATACTCCGAA-C
1 GGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATCAGGGATACTCC-AACC
* *
371423 CTGTTATTTCTGAAGA
65 CCGTTATTT-TGGAGA
* * * ** * *
371439 -GATACTCCAACCCC-AGTCTTA-TTCCCATGCACCAATTTTTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCCCGA-TTTTATTTTCAAAACACTAATTTTTCACAATCAGGGATACTCCAACC
*
371501 CCGTTATTTTCGA-A
65 CCGTTATTTTGGAGA
371515 GGATACTCCAACC
1 GGATACTCCAACC
371528 TCGTTATTTT
Statistics
Matches: 416, Mismatches: 58, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
76 1 0.00
77 16 0.04
78 40 0.10
79 270 0.65
80 87 0.21
81 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATCAGGGATACTCCAACCC
CGTTATTTTGGAGA
Found at i:371385 original size:158 final size:158
Alignment explanation
Indices: 370950--371527 Score: 718
Period size: 159 Copynumber: 3.7 Consensus size: 158
370940 ATTTATATTT
* * * * * *
370950 TTATTTCCGAGGGGATACTCCAACCCCGATTTTTATTCCCAAAACACTAATTTTTCACAATCAGG
1 TTATTTCGGAAGGGATACTCCAACCCCG-GTCTTATTTCCAAAACACCAATTTTTCACAATCAGG
* * * *
371015 GATACTCCAACCCCGTTATTTTGGAGAGGACACTCTAACCCCGATTTTATTTTCAAAACACTAAT
65 GATACTCCAACCCCGTTATTTTAGAGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAAT
*
371080 TTTTCACAATTGGGGATACTCCAACCCCG
130 TTTTCACAATTGGGGATACTCCAACCCTG
* * * *
371109 TTATTTCGGAGGGGATACTCCAACCTCGGT-TTTTATTCTTAAAACACCAATTTTTCACAATC-G
1 TTATTTCGGAAGGGATACTCCAACCCCGGTCTTAT-TTC-CAAAACACCAATTTTTCACAATCAG
* * * ** *
371172 AGGATACTCCAACCCCATTATTTTAGAGGGGATACTCCATCCTTGGTTTTATTTTCAAAACACCA
64 -GGATACTCCAACCCCGTTATTTTAGAGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACTA
*
371237 ATTTTTCACAATCGGGGATACTCCAACCCTG
128 ATTTTTCACAATTGGGGATACTCCAACCCTG
* * *
371268 TTATTTTC-GAAGGGATACTCCAACCTCGGTCTTATTTCCAAAACACTAATTTTTCACAATTAGG
1 TTA-TTTCGGAAGGGATACTCCAACCCCGGTCTTATTTCCAAAACACCAATTTTTCACAATCAGG
* * *
371332 GATACTCTAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAAT
65 GATACTCCAACCCCGTTATTTTAGAGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAAT
* *
371397 TTTTTACAATTAGGGATACTCCGAA-CCTG
130 TTTTCACAATTGGGGATACTCC-AACCCTG
* * * * ** *
371426 TTATTTCTGAAGAGATACTCCAACCCCAGTCTTA-TTCCCATGCACCAATTTTTCACAATCGGGG
1 TTATTTCGGAAGGGATACTCCAACCCCGGTCTTATTTCCAAAACACCAATTTTTCACAATCAGGG
*
371490 ATACTCCAACCCCGTTATTTTCGA-AGGATACTCCAACC
66 ATACTCCAACCCCGTTATTTTAGAGAGGATACTCCAACC
371528 TCGTTATTTT
Statistics
Matches: 365, Mismatches: 46, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
156 13 0.04
157 53 0.15
158 132 0.36
159 160 0.44
160 7 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (158 bp):
TTATTTCGGAAGGGATACTCCAACCCCGGTCTTATTTCCAAAACACCAATTTTTCACAATCAGGG
ATACTCCAACCCCGTTATTTTAGAGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATT
TTTCACAATTGGGGATACTCCAACCCTG
Found at i:371518 original size:27 final size:28
Alignment explanation
Indices: 371488--371558 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 28
371478 TCACAATCGG
371488 GGATACTCCAACCCCGTTATTTTCGA-A
1 GGATACTCCAACCCCGTTATTTTCGAGA
* *
371515 GGATACTCCAACCTCGTTATTTTCGAGG
1 GGATACTCCAACCCCGTTATTTTCGAGA
*
371543 GGATACTCCAATCCCG
1 GGATACTCCAACCCCG
371559 ATTTTATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 25 0.64
28 14 0.36
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTTCGAGA
Found at i:371534 original size:105 final size:106
Alignment explanation
Indices: 371410--371615 Score: 240
Period size: 106 Copynumber: 2.0 Consensus size: 106
371400 TTACAATTAG
* **
371410 GGATACTCCGAACCTGTTA-TTTCTGAAGAGATACTCCAACCCC-AGTCTTA-TTCCCATGCACC
1 GGATACTCCGAACCTGTTATTTTC-GAAGAGATACTCCAACCCCGA-TCTTATTTCCAAAACACC
* *
371472 AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAA
64 AATTTTTCACAATCGGAGATACTCCAACCCCATTATTTTCGAA
* * * * * *
371515 GGATACTCC-AACCTCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTATTTCTAAAACATCA
1 GGATACTCCGAACCT-GTTATTTTCGAAGAGATACTCCAACCCCGATCTTATTTCCAAAACACCA
* *
371579 ATTTTTCACCATCGGAGATACTCCAACCTCATTATTT
65 ATTTTTCACAATCGGAGATACTCCAACCCCATTATTT
371616 CTGACGGGGT
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
104 5 0.06
105 33 0.39
106 46 0.55
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (106 bp):
GGATACTCCGAACCTGTTATTTTCGAAGAGATACTCCAACCCCGATCTTATTTCCAAAACACCAA
TTTTTCACAATCGGAGATACTCCAACCCCATTATTTTCGAA
Found at i:371643 original size:79 final size:80
Alignment explanation
Indices: 371516--371666 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 80
371506 ATTTTCGAAG
* * *
371516 GATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTATTTCTAAAACA-TCAA
1 GATACTCCAACCTCATTATTTTCGAGGGGATACTCCAATCCCGATTTTATCTCTAAAACATTAAA
371580 TTTTTCACCATCGGA
66 TTTTTCACCATCGGA
** * *
371595 GATACTCCAACCTCATTA-TTTCTGACGGGG-TACTCTGAT-CCTATTTTTATCTCTAAAATATT
1 GATACTCCAACCTCATTATTTTC-GA-GGGGATACTCCAATCCCGA-TTTTATCTCTAAAACATT
371657 AAATTTTTCA
63 AAATTTTTCA
371667 TCGGGAGATG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
78 7 0.11
79 40 0.66
80 14 0.23
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (80 bp):
GATACTCCAACCTCATTATTTTCGAGGGGATACTCCAATCCCGATTTTATCTCTAAAACATTAAA
TTTTTCACCATCGGA
Found at i:373012 original size:17 final size:17
Alignment explanation
Indices: 372990--373022 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
372980 GTAATTCACA
372990 GAAGTAATGGTTTAACG
1 GAAGTAATGGTTTAACG
373007 GAAGTAATGGTTTAAC
1 GAAGTAATGGTTTAAC
373023 AGAATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (17 bp):
GAAGTAATGGTTTAACG
Found at i:374309 original size:150 final size:148
Alignment explanation
Indices: 374006--374319 Score: 357
Period size: 150 Copynumber: 2.1 Consensus size: 148
373996 TGTCAACAAG
** * * * *
374006 GACCTTTTAGCATTTTTTTCTGAAACTTAGCCATATGAAACTATCAGGTCGCTTTTATGCCGATG
1 GACCTTTTAGCATTTTTTTCCAAAACCTAGCCATATGAAACTACCAGGTCGCTTCTATGCCGAGG
** * *
374071 GTACATATTAGGTGTGGCTTGCTTTTACTTTTTCAAGTCTTCTAAGATCACTGAGCACTTCTAAG
66 GTACATATTAGGCATGGCTTGCATTTACTTTTTCAAGTCTTCTAAGATCACTGAGAACTTCTAAG
* *
374136 TCGATGGTAGACCTTAAA
131 TCCATGGTAAACCTTAAA
* *
374154 GACCTTTCAGCATTTTTTTCCCAAAACCTAGCCCTATGAAACTACC-GAGTCGCTTCTATGCCGA
1 GACCTTTTAGCATTTTTTT-CCAAAACCTAGCCATATGAAACTACCAG-GTCGCTTCTATGCCGA
** ** *
374218 GGGTATGTATTAGGCATAGG-TTCGCATTTACTTTTTCAAGTCCTT-TGGGATCATTGAGAACTT
64 GGGTACATATTAGGCAT-GGCTT-GCATTTACTTTTTCAAGT-CTTCTAAGATCACTGAGAACTT
**
374281 CTAAGTCCATGGTAAACCTT-TG
126 CTAAGTCCATGGTAAACCTTAAA
374303 GAACCTTTTAGCATTTT
1 G-ACCTTTTAGCATTTT
374320 GGTGGGTGTC
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
148 19 0.14
149 51 0.37
150 65 0.47
151 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (148 bp):
GACCTTTTAGCATTTTTTTCCAAAACCTAGCCATATGAAACTACCAGGTCGCTTCTATGCCGAGG
GTACATATTAGGCATGGCTTGCATTTACTTTTTCAAGTCTTCTAAGATCACTGAGAACTTCTAAG
TCCATGGTAAACCTTAAA
Found at i:376147 original size:21 final size:21
Alignment explanation
Indices: 376122--376202 Score: 75
Period size: 21 Copynumber: 4.0 Consensus size: 21
376112 TAAAAAAATT
376122 TCTATTTTTTTCTTTTCTTTC
1 TCTATTTTTTTCTTTTCTTTC
*
376143 TCTATTTTTTT-TCATT-TTT-
1 TCTATTTTTTTCT-TTTCTTTC
376162 TC-A-TTTTTTCATTTTTCTTTC
1 TCTATTTTTTTC--TTTTCTTTC
376183 TTCT-TTTTTTTCTTTTCTTT
1 -TCTATTTTTTTCTTTTCTTT
376203 TTTTTCTCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
17 6 0.12
18 1 0.02
19 4 0.08
20 8 0.16
21 21 0.43
22 2 0.04
23 7 0.14
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (21 bp):
TCTATTTTTTTCTTTTCTTTC
Found at i:376192 original size:16 final size:15
Alignment explanation
Indices: 376120--376209 Score: 64
Period size: 15 Copynumber: 5.9 Consensus size: 15
376110 AATAAAAAAA
376120 TTTCTATTTTTTTC-T
1 TTTCT-TTTTTTTCTT
376135 TTTCTTTCTCTATTT-TT
1 TTTCTTT-T-T-TTTCTT
*
376152 TTTC-ATTTTTTCATT
1 TTTCTTTTTTTTC-TT
**
376167 TTT-TCATTTTTCTT
1 TTTCTTTTTTTTCTT
376181 TCTTCTTTTTTTTC-T
1 T-TTCTTTTTTTTCTT
376196 TTTCTTTTTTTTCT
1 TTTCTTTTTTTTCT
376210 CATAGAATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
13 3 0.05
14 18 0.30
15 22 0.37
16 9 0.15
17 8 0.13
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTTTTCTT
Found at i:376195 original size:9 final size:9
Alignment explanation
Indices: 376120--376209 Score: 60
Period size: 9 Copynumber: 9.6 Consensus size: 9
376110 AATAAAAAAA
376120 TTTCTATTTT
1 TTTCT-TTTT
376130 TTTCTTTTCT
1 TTTCTTTT-T
376140 TTCTCTATTTT
1 TT-TCT-TTTT
*
376151 TTT-TCATTT
1 TTTCT-TTTT
*
376160 TTTC-ATTT
1 TTTCTTTTT
376168 TTTCATTTTT
1 TTTC-TTTTT
*
376178 CTTTCTTCTT
1 -TTTCTTTTT
*
376188 TTT-TTTCT
1 TTTCTTTTT
376196 TTTCTTTTT
1 TTTCTTTTT
376205 TTTCT
1 TTTCT
376210 CATAGAATCA
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
8 14 0.22
9 22 0.34
10 16 0.25
11 10 0.15
12 3 0.05
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:376453 original size:21 final size:21
Alignment explanation
Indices: 376413--376453 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
376403 ATAAGTATAA
*
376413 ATATTTTTCAAGCTATAAATC
1 ATATTTTTCAAGCTAAAAATC
376434 ATATATTTTCAAGC-AAAAAT
1 ATAT-TTTTCAAGCTAAAAAT
376454 AATCCAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (21 bp):
ATATTTTTCAAGCTAAAAATC
Found at i:376720 original size:20 final size:18
Alignment explanation
Indices: 376675--376711 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
376665 GTATCGATAC
376675 AATGTATCGATATATGAA
1 AATGTATCGATATATGAA
376693 ATATTGTATCGATATATGA
1 A-A-TGTATCGATATATGA
376712 TGAAATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 1 0.06
20 15 0.88
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (18 bp):
AATGTATCGATATATGAA
Found at i:377006 original size:21 final size:21
Alignment explanation
Indices: 376982--377058 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
376972 AATTTATCCA
376982 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
377003 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
377024 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
377045 AATGTATCGATACA
1 AATGTATCGATACA
377059 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:377118 original size:19 final size:19
Alignment explanation
Indices: 377094--377161 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
377084 AATTCAACAA
377094 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
377113 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
377128 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
377145 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
377162 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:377133 original size:13 final size:13
Alignment explanation
Indices: 377115--377139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
377105 ACATAAGTTT
377115 TGTATCGATACAA
1 TGTATCGATACAA
377128 TGTATCGATACA
1 TGTATCGATACA
377140 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:377137 original size:32 final size:32
Alignment explanation
Indices: 377096--377158 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
377086 TTCAACAATT
*
377096 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
377128 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
377159 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:377219 original size:13 final size:13
Alignment explanation
Indices: 377201--377226 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
377191 CATTTTTCTG
377201 TGTATCGATACAT
1 TGTATCGATACAT
377214 TGTATCGATACAT
1 TGTATCGATACAT
377227 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:377223 original size:33 final size:33
Alignment explanation
Indices: 377181--377247 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
377171 GCCAAGGAAA
***
377181 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
377214 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
377247 T
1 T
377248 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:379770 original size:109 final size:109
Alignment explanation
Indices: 379641--379889 Score: 367
Period size: 108 Copynumber: 2.3 Consensus size: 109
379631 TTCTATAATC
*
379641 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTCCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATT-CTTCACAATCGAGGATACTCC
* *
379706 AACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTTCGA
65 AACCCCGTTATATCATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *
379750 GGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTTTTCACAGTCGAGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTCTTCACAATCGAGGATACTCCA
* *
379814 ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 ACCCCGTTATATCATCGGGGATACTCCAACCCCGTTACTTCCGA
* ** *
379858 GGGGATACTCCAACCCCGGCTTTATTCCCAAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAA
379890 GTATTGATTT
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
107 27 0.21
108 68 0.54
109 31 0.25
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (109 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTCTTCACAATCGAGGATACTCCA
ACCCCGTTATATCATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:379836 original size:28 final size:28
Alignment explanation
Indices: 379804--379875 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
379794 TCACAGTCGA
* * **
379804 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
379832 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
379860 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
379876 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:379978 original size:79 final size:79
Alignment explanation
Indices: 379829--380033 Score: 232
Period size: 79 Copynumber: 2.6 Consensus size: 79
379819 GTTATTTCAT
* * *
379829 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAGTAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAGTAT
* * *
379894 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
379908 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTCTAA-TCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAGT-A
379972 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * *
379987 CAGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
380034 TTATTATCTC
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 104 0.99
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAGTAT
CGATTTCTCACAAC
Found at i:380060 original size:79 final size:79
Alignment explanation
Indices: 379910--380061 Score: 171
Period size: 79 Copynumber: 1.9 Consensus size: 79
379900 CTCATAATTG
* * * * * * * * * *
379910 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTCTAATCATCG
1 GGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAACCCCGATTTTATCTCCAAAACATCA
*
379975 ATTTCTCACAACCA
66 AATTCTCACAACCA
* *
379989 GGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG-TTATTATCTCCAAAACATT
1 GGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAACCCCGATT-TTATCTCCAAAACATC
380053 AAATTCTCA
65 AAATTCTCA
380062 TCGGGAAATA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
78 2 0.03
79 57 0.97
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAACCCCGATTTTATCTCCAAAACATCA
AATTCTCACAACCA
Found at i:392451 original size:10 final size:10
Alignment explanation
Indices: 392436--392496 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
392426 CCTTCTCTTC
392436 AAAAAAAGAA
1 AAAAAAAGAA
392446 AAAAAAA-ACA
1 AAAAAAAGA-A
392456 AAAAAAA-ACA
1 AAAAAAAGA-A
*
392466 AAACAAAGAA
1 AAAAAAAGAA
* *
392476 AAAGAGAGAA
1 AAAAAAAGAA
392486 AAGAAAAAGAA
1 AA-AAAAAGAA
392497 CCTACTTAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
9 1 0.02
10 35 0.81
11 7 0.16
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:392468 original size:15 final size:16
Alignment explanation
Indices: 392435--392478 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
392425 ACCTTCTCTT
392435 CAAAA-AAAGAAAAAA
1 CAAAACAAAGAAAAAA
392450 -AAAACAAA-AAAAAA
1 CAAAACAAAGAAAAAA
392464 CAAAACAAAGAAAAA
1 CAAAACAAAGAAAAA
392479 GAGAGAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.38
15 11 0.42
16 5 0.19
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (16 bp):
CAAAACAAAGAAAAAA
Found at i:393727 original size:55 final size:55
Alignment explanation
Indices: 393490--394814 Score: 1929
Period size: 55 Copynumber: 23.9 Consensus size: 55
393480 ATACCTTTTT
* *
393490 CTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
393545 CTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
1 C--TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
** *
393606 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGTAGGACAC
1 C-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
393665 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAGAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
393720 CTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
393775 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
393830 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
393885 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
393940 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
393995 CTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
394050 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
394105 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCC-CAAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTC-AAAGAGCAGGACAC
*
394160 CTTTCAAAGCCCACCCAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
394215 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCC-CAAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC-AAAGAGCAGGACAC
394270 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
394325 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCC-CTAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC-AAAGAGCAGGACAC
*
394380 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
394435 CTTTCAAAGCCCACACAAGTTGGTAGCATTTTCCCGTCCTCAAAGAGTAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
394490 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCC-CAAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTC-AAAGAGCAGGACAC
* *
394545 CTTTCAAAGCTCAC-CTAAGTTGGTGGCATTTTCCAGTCCTCAGAGAGCAGGACAC
1 CTTTCAAAGCCCACAC-AAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
394600 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
*
394655 CTTTCAAAGCCCACGCAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
394710 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
* **
394765 CTTTCAAAGCCCACACGAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAG
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
394815 AATGCACTTT
Statistics
Matches: 1166, Mismatches: 55, Indels: 98
0.88 0.04 0.07
Matches are distributed among these distances:
53 8 0.01
54 59 0.05
55 950 0.81
56 34 0.03
57 11 0.01
58 4 0.00
59 20 0.02
60 33 0.03
61 47 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (55 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
Found at i:395636 original size:19 final size:19
Alignment explanation
Indices: 395612--395679 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
395602 AATTCAACAA
395612 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
395631 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
395646 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
395663 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
395680 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:395651 original size:13 final size:13
Alignment explanation
Indices: 395633--395657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
395623 ACATAAGTTT
395633 TGTATCGATACAA
1 TGTATCGATACAA
395646 TGTATCGATACA
1 TGTATCGATACA
395658 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:395651 original size:32 final size:32
Alignment explanation
Indices: 395614--395676 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
395604 TTCAACAATT
*
395614 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
395646 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
395677 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:398228 original size:28 final size:27
Alignment explanation
Indices: 398161--398229 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
398151 CTTCACAATC
**
398161 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
398188 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
*
398216 GGGGGTACTCCAAC
1 GGGGATACTCCAAC
398230 TCCGATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.58
28 15 0.42
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:398239 original size:109 final size:109
Alignment explanation
Indices: 398107--398355 Score: 367
Period size: 108 Copynumber: 2.3 Consensus size: 109
398097 TTCTATAATC
*
398107 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTT-TTCACAATCGAGGATACTCC
*
398172 AACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTCCGA
65 AACCCCGTTATATCATCGGGGATACTCCAACCCCGTTACTTCCGA
* * * *
398216 GGGGGTACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTTTTCACAGTTGAGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCA
* *
398280 ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 ACCCCGTTATATCATCGGGGATACTCCAACCCCGTTACTTCCGA
* ** *
398324 GGGGATACTCCAACCCCGGCTTTATTCCCAAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAA
398356 GTATTGATTT
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
107 26 0.21
108 69 0.55
109 30 0.24
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (109 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCA
ACCCCGTTATATCATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:398302 original size:28 final size:28
Alignment explanation
Indices: 398270--398341 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
398260 TCACAGTTGA
* * **
398270 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
398298 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
398326 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
398342 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:398306 original size:108 final size:108
Alignment explanation
Indices: 398107--398420 Score: 393
Period size: 107 Copynumber: 2.9 Consensus size: 108
398097 TTCTATAATC
* *
398107 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATTGGGGATACTCC
* *
398172 AACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTCCGA
64 AACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *
398216 GGGGGTACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTTGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATTGGGGATACTCCAA
*
398281 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
* ** * * *** * *
398324 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAGTATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATTGGGGATACTCCAA
*
398388 CCCCGTTATTT--TCGAGGGGATACTCCAATCCCG
66 CCCCGTTATTTCATC--GGGGATACTCCAACCCCG
398421 ATTTTTTTTC
Statistics
Matches: 179, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
105 2 0.01
107 84 0.47
108 65 0.36
109 28 0.16
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (108 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATTGGGGATACTCCAA
CCCCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:398474 original size:78 final size:78
Alignment explanation
Indices: 398295--398498 Score: 239
Period size: 78 Copynumber: 2.6 Consensus size: 78
398285 GTTATTTCAT
* * *
398295 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAGTAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAGTAT
* * *
398360 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * ** *
398374 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTCTAA-TCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAGT-AT
398438 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* * * *
398452 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
398499 TTATTATCTC
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
77 1 0.01
78 63 0.59
79 42 0.40
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAGTATC
GATTTCTCACAAC
Found at i:408081 original size:13 final size:13
Alignment explanation
Indices: 408063--408089 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
408053 ACTTATTGCT
408063 TTGTATCGATACA
1 TTGTATCGATACA
408076 TTGTATCGATACA
1 TTGTATCGATACA
408089 T
1 T
408090 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:408086 original size:33 final size:32
Alignment explanation
Indices: 408044--408107 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
408034 CATACCGAGA
* *
408044 TGTATCGATACTTATTGCTTTGTATCGATACAT
1 TGTATCGATACATATT-CATTGTATCGATACAT
*
408077 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATATTCATTGTATCGATACA
408108 CATTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATATTCATTGTATCGATACAT
Found at i:409424 original size:79 final size:78
Alignment explanation
Indices: 409334--409615 Score: 332
Period size: 79 Copynumber: 3.6 Consensus size: 78
409324 ATAATAACGA
* * * *
409334 GGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGATTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGATTT
* *
409399 GGAAATAAAATCG
66 AGAAATAAAACCG
* * * * *
409412 GGATTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTAATCCCCGACTATAAAAAAATTGATGT
1 GG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGT-ATCCCCGATTAT-GAAAAATTGATGA
409477 TTTAGAAATAAAACCG
63 TTTAGAAATAAAACCG
* * * * * *
409493 AGGTTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCTGATTATGAGAAATTAAT-ATT
1 -GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA-T
*
409557 TTAGAAATAAAGCCGG
64 TTAGAAATAAAACC-G
*
409573 GGTTGGGGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
409616 TCAAAAATAA
Statistics
Matches: 170, Mismatches: 28, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
78 2 0.01
79 92 0.54
80 20 0.12
81 54 0.32
82 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (78 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGATTT
AGAAATAAAACCG
Found at i:409604 original size:28 final size:28
Alignment explanation
Indices: 409570--409641 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
409560 GAAATAAAGC
* *
409570 CGGGGTTGGGGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTATCCCCTCAAAAATAA
409598 CGGGGTTGGAGTATCCCCTCAAAAATAA
1 CGGGGTTGGAGTATCCCCTCAAAAATAA
*
409626 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
409642 TCGATGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAAAAATAA
Found at i:409692 original size:104 final size:105
Alignment explanation
Indices: 409494--409719 Score: 312
Period size: 104 Copynumber: 2.1 Consensus size: 105
409484 ATAAAACCGA
* * * *
409494 GGTTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCTGATTATGAGAAATTAATATTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTG--TATGAAAAATTAATATTTT
* *
409559 AGAAATAAAGCCGGGGTTGGGGTATCCCCTCGAAAATAACGG
64 AGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
* *
409601 GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTAT-CCTCG-ATGAAAAATTGATGTTTTA
1 GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCT-GTATGAAAAATTAATATTTTA
* * *
409664 GAAATAAAACCGGGGTTGGAGTGTCCCCTCGGAAATAATGG
65 GAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
409705 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
409720 GATTGTGAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
104 67 0.63
106 3 0.03
107 37 0.35
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (105 bp):
GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGTATGAAAAATTAATATTTTAG
AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
Found at i:409762 original size:79 final size:76
Alignment explanation
Indices: 409602--409770 Score: 178
Period size: 76 Copynumber: 2.2 Consensus size: 76
409592 AAATAACGGG
* * *
409602 GTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCTCGATGAAAAATTGATGTTTTAGAA
1 GTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGAAAAAGTCATGTTTTAGAA
**
409667 ATAAAACCGGG
66 ATAAAACCGAA
* ** * * *
409678 GTTGGAGTGTCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAGTCAGTGTTTT-
1 GTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGA-TG-AAAAAGTCA-TGTTTTA
*
409742 GAAAATAAAATCGAA
63 G-AAATAAAACCGAA
*
409757 GTTGGAATATCCCC
1 GTTGGAGTATCCCC
409771 GATTGCGGAG
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
76 38 0.51
77 2 0.03
78 7 0.09
79 28 0.37
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (76 bp):
GTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGAAAAAGTCATGTTTTAGAA
ATAAAACCGAA
Found at i:409770 original size:183 final size:186
Alignment explanation
Indices: 409410--409770 Score: 428
Period size: 183 Copynumber: 1.9 Consensus size: 186
409400 GAAATAAAAT
*
409410 CGGGATTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTAATCCCCGACTATAAAAAAATTGAT
1 CGGGATTGGAGTATCCCCTCAAAAATAACGGGATTGAAGTAATCCCCGA--ATAAAAAAATTGAT
* *
409475 GTTTTAGAAATAAAACCGAGGTTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCTGAT
64 GTTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAT
* * ** **
409540 TATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGGGTATCCCCTCGAAAATAA
129 TATGAGAAATCAATATTTTAGAAATAAAACCGAAGTTGGAATATCCCCTCGAAAATAA
* * * *
409598 CGGGGTTGGAGTATCCCCTCAAAAATAACGAGG-TTGGAGT-ATCCTCG-AT-GAAAAATTGATG
1 CGGGATTGGAGTATCCCCTCAAAAATAACG-GGATTGAAGTAATCCCCGAATAAAAAAATTGATG
* * * ** *
409659 TTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATT
65 TTTTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATT
* * * *
409724 GTGA-AAAGTCAGTGTTTT-GAAAATAAAATCGAAGTTGGAATATCCCC
130 ATGAGAAA-TCAATATTTTAG-AAATAAAACCGAAGTTGGAATATCCCC
409771 GATTGCGGAG
Statistics
Matches: 147, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
182 4 0.03
183 99 0.67
184 2 0.01
187 6 0.04
188 34 0.23
189 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (186 bp):
CGGGATTGGAGTATCCCCTCAAAAATAACGGGATTGAAGTAATCCCCGAATAAAAAAATTGATGT
TTTAGAAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTA
TGAGAAATCAATATTTTAGAAATAAAACCGAAGTTGGAATATCCCCTCGAAAATAA
Found at i:412288 original size:13 final size:13
Alignment explanation
Indices: 412272--412299 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
412262 TACAAAAGAT
412272 CAATGTATCGATA
1 CAATGTATCGATA
412285 CAATGTATCGATA
1 CAATGTATCGATA
412298 CA
1 CA
412300 TTTCCTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:412312 original size:21 final size:21
Alignment explanation
Indices: 412286--412327 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
412276 GTATCGATAC
412286 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
*
412307 AATGTATTGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
412328 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:412376 original size:19 final size:19
Alignment explanation
Indices: 412352--412437 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
412342 AGCGATACAT
412352 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
412371 TGTATCTATAC---A--T-
1 TGTATCGATACAAAACTTA
*
412384 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
412403 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACT-TA
412424 TGTATCGATACAAA
1 TGTATCGATACAAA
412438 TTATTGAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
16 2 0.04
18 1 0.02
19 22 0.42
20 3 0.06
21 13 0.25
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:412387 original size:32 final size:32
Alignment explanation
Indices: 412344--412416 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
412334 AGCTTCGTAG
412344 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
412376 CTATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
412408 CGATACATT
1 CGATACATT
412417 TACTGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:413270 original size:55 final size:52
Alignment explanation
Indices: 413171--413508 Score: 229
Period size: 49 Copynumber: 6.9 Consensus size: 52
413161 GAAAAGTGAT
* ** * * * **
413171 AAAGATGCCAATATGTTGATTCGCGGCCAACGATATTGGGCTTAAAGATGAGAAA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G--A
* *
413226 AAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
413278 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
413325 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
413370 CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A--G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
413417 ---G-TGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGA---A
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
413462 GAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAG
413509 GTGCCAATGT
Statistics
Matches: 240, Mismatches: 28, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
43 70 0.29
44 6 0.03
45 2 0.01
47 1 0.00
48 5 0.02
49 73 0.30
50 1 0.00
51 2 0.01
52 39 0.16
54 1 0.00
55 40 0.17
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:413339 original size:43 final size:43
Alignment explanation
Indices: 413278--413553 Score: 345
Period size: 43 Copynumber: 6.1 Consensus size: 43
413268 TAAAGATGGA
*
413278 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
413321 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
413364 AAAGATCAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
413413 AAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
413456 AAAGAAGAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
413505 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
413548 AGAAGG
1 A-AAGG
413554 GTTGCCACCG
Statistics
Matches: 203, Mismatches: 17, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
43 118 0.58
44 5 0.02
45 1 0.00
47 1 0.00
48 1 0.00
49 77 0.38
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:413411 original size:92 final size:92
Alignment explanation
Indices: 413234--413548 Score: 533
Period size: 92 Copynumber: 3.4 Consensus size: 92
413224 AAAAAGATGT
*
413234 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
413299 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGC
*
413329 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATCAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
413394 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* *
413421 CAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGA-AGAAGGTGCCAATATACTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATGCTGATTCA
413485 AGGCCAGCTATATTGGACTTAAAGGTGC
65 AGGCCAGCTATATTGGACTTAAAGGTGC
*
413513 CAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
413549 GAAGGGTTGC
Statistics
Matches: 210, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
92 170 0.81
95 40 0.19
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGC
Found at i:413615 original size:36 final size:36
Alignment explanation
Indices: 413569--413674 Score: 146
Period size: 36 Copynumber: 3.0 Consensus size: 36
413559 CACCGACTTG
**
413569 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
413605 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
413641 TATGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
413675 CATGGACTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
34 12 0.18
35 18 0.28
36 35 0.54
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:413799 original size:36 final size:33
Alignment explanation
Indices: 413589--414444 Score: 312
Period size: 31 Copynumber: 26.8 Consensus size: 33
413579 AGAAAGGGTG
* * *
413589 AAAGATGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAA--GAA
* ** *
413624 AAAGAGTGCCACGGAGTTATGGGCTTTAAAAAGAA
1 AAAGA-TGCCACTGAGTCGTGGGCTTT-GAAAGAA
* * * * *
413659 AAAGGTGCCACGGAGTCATGGACTTTG--AGAC
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
* *
413690 AAA-ATGCCACTAAGTCGTGGACTTTG-AAGAA
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
* * * *
413721 AAGGATGCCACTAAGTCGTAGACTTTG--AG-A
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
*
413751 AGAGATTGCCACTGAGTCGTGGGCTTTGAAAGGGAA
1 AAAGA-TGCCACTGAGTCGTGGGCTTTGAAA--GAA
*
413787 AAAGAGTGCCACTGAGTTGTGGGCTTTG-AA-AA
1 AAAGA-TGCCACTGAGTCGTGGGCTTTGAAAGAA
* * * * * * *
413819 GAAGGTGTCACGGAGTTGTGGACTTTGAAAGGGA
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAA-GAA
* * * * * *
413853 CAGGGTGCCACAG-GATTGTGGACTTT-------
1 AAAGATGCCACTGAG-TCGTGGGCTTTGAAAGAA
* * *
413879 ---GATGCCATTGAGTCGTGGACTTTGAAA-AG
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
* *
413908 AAA-ATGCCACTGAGTCGTGGACTTTAAAAAGAA
1 AAAGATGCCACTGAGTCGTGGGCTTT-GAAAGAA
* * *
413941 AAAGAGTGCCACGGAGTCGTGGAC-TTAAAAGGAA
1 AAAGA-TGCCACTGAGTCGTGGGCTTTGAAA-GAA
* * *
413975 CAAAGTGTGCCAC-GAAGTTGTGGGCTTTAAAAGGGAA
1 -AAAG-ATGCCACTG-AGTCGTGGGCTTTGAAA--GAA
*
414012 AAAGAGTGCCACTGAGTTGTGGGCTTTG-AA-AA
1 AAAGA-TGCCACTGAGTCGTGGGCTTTGAAAGAA
* * * *
414044 AAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAA-GAA
* * * * * * *
414078 CAGGGTGCCACGGGGTTGTGGACTTT-------
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
* * * * *
414104 ---GATGCCACTGAATTGTGGACTTT-TAGGACA
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGA-A
*
414134 AAA-T-GCCACTGAGTCGTGGGCTTTGAGAAGAA
1 AAAGATGCCACTGAGTCGTGGGCTTTGA-AAGAA
** * * * * * *
414166 AAAGGGGCCACGGATTCGT-GGATTT-TAGGAT
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
*
414197 AAA-ATGCCACTGAATCGTGGGCTTTGAGAAGAA
1 AAAGATGCCACTGAGTCGTGGGCTTTGA-AAGAA
* * * * * *
414230 AAAGGTGCCACGGAGTCATGGACTTT--AGGAC
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
*
414261 AAA-ATGCCACTGATTCGTGGGCTTTG--AG-A
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
* *
414290 AAAGATTGCCACTAAGTCGTGGACTTT-AAAGAA
1 AAAGA-TGCCACTGAGTCGTGGGCTTTGAAAGAA
* *
414323 AAGGATGCCACTGAGTCGTGGACTTTG--AG-A
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
*
414353 AAAGATTGCCACTGAGTCGTGGACTTT-AAAGAA
1 AAAGA-TGCCACTGAGTCGTGGGCTTTGAAAGAA
*
414386 AAAGATGCCACTGAGTCGTGGACTTTG--AG-A
1 AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
* *
414416 AGAGATTGCCACTGAGTCGTGGACTTTGA
1 AAAGA-TGCCACTGAGTCGTGGGCTTTGA
414445 GAAGGTATTT
Statistics
Matches: 654, Mismatches: 96, Indels: 145
0.73 0.11 0.16
Matches are distributed among these distances:
23 36 0.06
24 1 0.00
29 3 0.00
30 63 0.10
31 191 0.29
32 89 0.14
33 35 0.05
34 100 0.15
35 52 0.08
36 75 0.11
37 9 0.01
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (33 bp):
AAAGATGCCACTGAGTCGTGGGCTTTGAAAGAA
Found at i:414024 original size:225 final size:224
Alignment explanation
Indices: 413769--414187 Score: 667
Period size: 225 Copynumber: 1.9 Consensus size: 224
413759 CCACTGAGTC
* * *
413769 GTGGGCTTTGAAAGGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTGAAAAGAAGGTGTCACGGAG
1 GTGGGCTTTAAAAGGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTGAAAAAAAGGTGCCACGGAG
* * *
413834 TTGTGGACTTTGAAAGGGACAGGGTGCCACAGGATTGTGGACTTTGATGCCATTGAGTCGTGGAC
66 TTGTGGACTTTGAAAGGAACAGGGTGCCACAGGATTGTGGACTTTGATGCCACTGAATCGTGGAC
* *
413899 TTTGAAAAGAAAATGCCACTGAGTCGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTCGTGGA
131 TTTGAAAACAAAATGCCACTGAGTCGTGGACTTTAAAAAGAAAAAG-GGGCCACGGAGTCGTGGA
413964 CTTAAAAGGAACAAAGTGTGCCACGAAGTT
195 CTTAAAAGGAACAAAGTGTGCCACGAAGTT
413994 GTGGGCTTTAAAAGGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTGAAAAAAAGGTGCCACGGAG
1 GTGGGCTTTAAAAGGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTGAAAAAAAGGTGCCACGGAG
* * *
414059 TTGTGGACTTTGAAAGGAACAGGGTGCCACGGGGTTGTGGACTTTGATGCCACTGAATTGTGGAC
66 TTGTGGACTTTGAAAGGAACAGGGTGCCACAGGATTGTGGACTTTGATGCCACTGAATCGTGGAC
* ** * * * *
414124 TTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGGGGCCACGGATTCGTGGA
131 TTTGAAAACAAAATGCCACTGAGTCGTGGACTTTAAAAAGAAAAAGGGGCCACGGAGTCGTGGA
414188 TTTTAGGATA
Statistics
Matches: 176, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
224 16 0.09
225 160 0.91
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (224 bp):
GTGGGCTTTAAAAGGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTGAAAAAAAGGTGCCACGGAG
TTGTGGACTTTGAAAGGAACAGGGTGCCACAGGATTGTGGACTTTGATGCCACTGAATCGTGGAC
TTTGAAAACAAAATGCCACTGAGTCGTGGACTTTAAAAAGAAAAAGGGGCCACGGAGTCGTGGAC
TTAAAAGGAACAAAGTGTGCCACGAAGTT
Found at i:414349 original size:63 final size:63
Alignment explanation
Indices: 414106--414442 Score: 342
Period size: 63 Copynumber: 5.3 Consensus size: 63
414096 TGGACTTTGA
* * * * * * *
414106 TGCCACTGAATTGTGGACTTTTAGGACAAA-ATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAG
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG-A-AAAGA-
*
414170 G
63 T
* * * * * * * * *
414171 GGCCACGGATTCGTGGA-TTTTAGGATAAA-ATGCCACTGAATCGTGGGCTTTGAGAAGAAAAAG
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG-A-AAAGA-
*
414234 G
63 T
* * * * * *
414235 TGCCACGGAGTCATGGACTTT-AGGACAAA-ATGCCACTGATTCGTGGGCTTTGAGAAAAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAT
* *
414296 TGCCACTAAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAAAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAT
*
414359 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAT
414422 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
414443 GAGAAGGTAT
Statistics
Matches: 245, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
61 18 0.07
62 9 0.04
63 112 0.46
64 90 0.37
65 16 0.07
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAT
Found at i:415457 original size:25 final size:27
Alignment explanation
Indices: 415406--415468 Score: 94
Period size: 25 Copynumber: 2.4 Consensus size: 27
415396 CTTCTTCTTC
*
415406 TTCTTTTGTTTTTTTTTTGTTTGTTTGT
1 TTCTTTT-TTTTTCTTTTGTTTGTTTGT
415434 TTCTTTTTTTTTCTTTT-TTT-TTTGT
1 TTCTTTTTTTTTCTTTTGTTTGTTTGT
415459 TTCTTTTTTT
1 TTCTTTTTTT
415469 GGAAAAGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 15 0.44
26 3 0.09
27 9 0.26
28 7 0.21
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (27 bp):
TTCTTTTTTTTTCTTTTGTTTGTTTGT
Found at i:415751 original size:22 final size:21
Alignment explanation
Indices: 415723--415767 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
415713 TGTTCTATTC
* *
415723 TTTTTTTGTGTTTTG-TTTTG
1 TTTTTTTTTTTTTTGATTTTG
415743 TTTTTTTTTTTTTTGACTTTTG
1 TTTTTTTTTTTTTTGA-TTTTG
415765 TTT
1 TTT
415768 GTGTGTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
22 8 0.38
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTTTTTTGATTTTG
Found at i:422783 original size:13 final size:13
Alignment explanation
Indices: 422765--422792 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
422755 ATACAAAGAT
422765 CAATGTATCGATA
1 CAATGTATCGATA
422778 CAATGTATCGATA
1 CAATGTATCGATA
422791 CA
1 CA
422793 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:423612 original size:28 final size:28
Alignment explanation
Indices: 423581--423669 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
423571 TTGAAGACTA
423581 AAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAAGTGCCACCAACTCGTGTGGGCTTT
* * * * *
423609 AAAAGGTG--TCCTACTC-TTTGAGGATTG
1 AAAA-GTGCCACCAACTCGTGTG-GGCTTT
*
423636 AAAGGTGCCACCAACTCGTGTGGGCTTT
1 AAAAGTGCCACCAACTCGTGTGGGCTTT
423664 GAAAAG
1 -AAAAG
423670 AAAAGGCATC
Statistics
Matches: 43, Mismatches: 12, Indels: 11
0.65 0.18 0.17
Matches are distributed among these distances:
26 6 0.14
27 13 0.30
28 14 0.33
29 10 0.23
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (28 bp):
AAAAGTGCCACCAACTCGTGTGGGCTTT
Found at i:423651 original size:55 final size:55
Alignment explanation
Indices: 423562--424690 Score: 1406
Period size: 55 Copynumber: 20.0 Consensus size: 55
423552 ATAAAGTGCA
* * * *
423562 TCCTGCTCTTTGAAGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * * * *
423617 TCCTACTCTTTGAGGA-TTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
* *
423678 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAG-----GCG
* * * * *
423739 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTATGTAGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
423794 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * ** *
423849 TCCTGCTATTTGAGGACTGGAAAATACCACCAACTTGTGTGGTATTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
423904 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
423959 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAAAG-----GCG
* * *
424020 TCCTGCTCTTTGAGGACTGGAAAATTCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
424075 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* ** *
424130 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGTATTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
424185 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
424240 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAAAG-----GCG
* * *
424301 TCCTGCTCTTTGAGGACTGGAAAATTCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
424356 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
424411 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
*
424466 TCCTGCTCTTTGAGGACGGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT-----TAAAAGGCG
* **
424527 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
424583 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGCGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * * *
424638 TCTTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
424691 AAAAGGCATC
Statistics
Matches: 959, Mismatches: 78, Indels: 74
0.86 0.07 0.07
Matches are distributed among these distances:
54 9 0.01
55 656 0.68
56 46 0.05
60 12 0.01
61 203 0.21
62 33 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
Found at i:423924 original size:26 final size:26
Alignment explanation
Indices: 423895--423984 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 26
423885 GTGTGGTATT
*
423895 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
423921 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
423948 TTTGAAAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
423976 TGAAAGGTG
1 TGAAAGGTG
423985 CCACCAACTT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
25 3 0.06
26 20 0.42
27 5 0.10
28 5 0.10
29 12 0.25
30 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:424038 original size:226 final size:219
Alignment explanation
Indices: 423554--424721 Score: 1455
Period size: 226 Copynumber: 5.1 Consensus size: 219
423544 AGAGGAAAAT
* * * *
423554 AAAGTGCATCCTGCTCTTTGAAGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGTGTC
1 AAAG-GCATCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTC
* * * * *
423619 CTACTCTTTGAGGA-TTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCCTG
64 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTG
* *
423683 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCT
122 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCCTGCTCT
* * * *
423748 TTGAGGATTGGAAAATGCCACCAACTTATGTAGGCTTTG
181 TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG
423787 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
1 AAAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* * **
423852 TGCTATTTGAGGACTGGAAAATACCACCAACTTGTGTGGTATTTGAAAGGCGTCCTGCTCTTTGA
65 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
* *
423917 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAA
130 GGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAA
423980 AGGTGCCACCAACTTGTGTGGGCTTTG
194 A-GTGCCACCAACTTGTGTGGGCTTTG
* *
424007 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATTCCACCAACTTGTGTGGGCTTTGAAAG
1 -AAAG-----GCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* *
424072 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
59 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* **
424137 TTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGTATTTGAAAGGCGTCCTGCTCTTTGAGGAC
124 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
424202 T-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
189 TGGAAA-GTGCCACCAACTTGTGTGGGCTTTG
** *
424233 AAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
1 AAAGGCATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAAAG-----
* * *
424298 GCATCCTGCTCTTTGAGGACTGGAAAATTCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
59 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* *
424363 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGAC
124 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
*
424428 TGGAAAATGCCACCAACTTGTGTGGGCTTTG
189 TGGAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
424459 AAAGGCGTCCTGCTCTTTGAGGACGGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGTAAAAG
1 AAAGGCATCCTGCTCTTTGAGGAC-TGAAAATGCCACCAACTTGTGTGGGC-TT-----TAAAAG
* *
424524 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAGGCGTCCTGC
59 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
* * *
424589 TCTTTGAGGACTGGAAAATGCCACCAACTTGCGTGGGCTTT-AAGAGGCGTCTTGCTCTTTAAGG
123 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGG
*
424653 ACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
187 ACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----G
*
424691 AAAAGGCATCATGCTCTTTGAGGACTGAAAA
1 -AAAGGCATCCTGCTCTTTGAGGACTGAAAA
424722 GTGGAAGGAG
Statistics
Matches: 837, Mismatches: 64, Indels: 69
0.86 0.07 0.07
Matches are distributed among these distances:
219 8 0.01
220 81 0.10
221 8 0.01
225 12 0.01
226 463 0.55
227 136 0.16
231 5 0.01
232 89 0.11
233 35 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (219 bp):
AAAGGCATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCT
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAG
TGCCACCAACTTGTGTGGGCTTTG
Found at i:424071 original size:281 final size:283
Alignment explanation
Indices: 423562--424690 Score: 1730
Period size: 281 Copynumber: 4.0 Consensus size: 283
423552 ATAAAGTGCA
* * * * * * * *
423562 TCCTGCTCTTTGAAGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGTGTCCTACTCT
1 TCCTGCTTTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGATTTGAAAGGCGTCCTGCTCT
* *
423626 TTGAGGATTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAG-GCATCCTGCTCTTTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG----GTG--TCCTGCTCTTTG
*
423690 AGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGG
124 AGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGG
* * *
423754 ATTGGAAAATGCCACCAACTTATGTAGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAAT
189 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAAT
423819 GCCACCAACTTGTGTGGGCTTTAAAAGGCG
254 GCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
423849 TCCTGCTATTTGAGGACTGGAAAATACCACCAACTTGTGTGGTATTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTGAAAGGCGTCCTGCTCTT
423914 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGTGTCCTGCTCTTTGAGGACT-
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGTGTCCTGCTCTTTGAGGACTA
423977 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAA
131 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAA
*
424042 AATTCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCA
196 AATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCA
424107 ACTTGTGTGGGCTTTAAAAGGCG
261 ACTTGTGTGGGCTTTAAAAGGCG
*
424130 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGTATTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTGAAAGGCGTCCTGCTCTT
424195 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGTGTCCTGCTCTTTGAGGACT-
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGTGTCCTGCTCTTTGAGGACTA
424258 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAA
131 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAA
*
424323 AATTCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCA
196 AATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCA
424388 ACTTGTGTGGGCTTTAAAAGGCG
261 ACTTGTGTGGGCTTTAAAAGGCG
*
424411 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTGAAAGGCGTCCTGCTCTT
* * *
424476 TGAGGACGGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGTAAAAGGCGTCCTGCTCTTTGA
66 TGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAAGGTGTCCTGCTCTTTGA
* * *
424540 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG-CAAG-----GCGTCCTGCTCTTTGAGGA
125 GGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGA
* * * * * *
424599 CTGGAAAATGCCACCAACTTGCGTGGGCTTT-AAGAGGCGTCTTGCTCTTTAAGGACTGGGAAGT
190 CTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCATCCTGCTCTTTGAGGACTGGAAAAT
424663 GCCACCAACTTGTGTGGGCTTTAAAAGG
254 GCCACCAACTTGTGTGGGCTTTAAAAGG
424691 AAAAGGCATC
Statistics
Matches: 796, Mismatches: 34, Indels: 29
0.93 0.04 0.03
Matches are distributed among these distances:
280 4 0.01
281 535 0.67
282 105 0.13
283 1 0.00
285 1 0.00
286 4 0.01
287 113 0.14
288 33 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (283 bp):
TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTGAAAGGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGTGTCCTGCTCTTTGAGGACTA
GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAA
AATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCA
ACTTGTGTGGGCTTTAAAAGGCG
Found at i:424205 original size:26 final size:26
Alignment explanation
Indices: 424176--424265 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 26
424166 GTGTGGTATT
*
424176 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
424202 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
424229 TTTGAAAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
424257 TGAAAGGTG
1 TGAAAGGTG
424266 CCACCAACTT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
25 3 0.06
26 20 0.42
27 5 0.10
28 5 0.10
29 12 0.25
30 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:425699 original size:12 final size:12
Alignment explanation
Indices: 425684--425743 Score: 97
Period size: 12 Copynumber: 5.2 Consensus size: 12
425674 TCTTTTTTCG
425684 TTGTTTTGTTTT
1 TTGTTTTGTTTT
425696 TTGTTTTGTTTT
1 TTGTTTTGTTTT
425708 TTGTTTTGTTTT
1 TTGTTTTGTTTT
*
425720 TGGTTTT-TTTT
1 TTGTTTTGTTTT
425731 TTGTTTT-TTTT
1 TTGTTTTGTTTT
425742 TT
1 TT
425744 AGAAAAGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
11 16 0.35
12 30 0.65
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTGTTTTGTTTT
Found at i:425739 original size:30 final size:29
Alignment explanation
Indices: 425687--425743 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
425677 TTTTTCGTTG
425687 TTTTGTTTTTTGTTTTGTTTTTTGTTTTGT
1 TTTTGTTTTTTGTTTTGTTTTTT-TTTTGT
425717 TTTTGGTTTTTT-TTTTGTTTTTTTTTT
1 TTTT-GTTTTTTGTTTTGTTTTTTTTTT
425744 AGAAAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 4 0.15
30 15 0.58
31 7 0.27
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (29 bp):
TTTTGTTTTTTGTTTTGTTTTTTTTTTGT
Found at i:438357 original size:79 final size:79
Alignment explanation
Indices: 438226--438374 Score: 226
Period size: 79 Copynumber: 1.9 Consensus size: 79
438216 GACTATAAAA
* * * * * *
438226 AAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTTGAGTA
1 AAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTA
438291 TCCCCAATTATGAG
66 TCCCCAATTATGAG
* *
438305 AAATTAATATTTTAGAAATAAAGCCGGAGTTGGGGTATCCCCTCAAAAATAACGAGGTTGGAGTA
1 AAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTA
438370 TCCCC
66 TCCCC
438375 TCGAAAATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 62 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (79 bp):
AAATTAATATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTA
TCCCCAATTATGAG
Found at i:438370 original size:28 final size:28
Alignment explanation
Indices: 438333--438402 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
438323 TAAAGCCGGA
*
438333 GTTGGGGTATCCCCTCAAAAATAACGAG
1 GTTGGAGTATCCCCTCAAAAATAACGAG
* *
438361 GTTGGAGTATCCCCTCGAAAATAACGGG
1 GTTGGAGTATCCCCTCAAAAATAACGAG
438389 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
438403 GATGAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (28 bp):
GTTGGAGTATCCCCTCAAAAATAACGAG
Found at i:438450 original size:76 final size:77
Alignment explanation
Indices: 438360--438529 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 77
438350 AAAATAACGA
* * *
438360 GGTTGGAGTATCCCCTC-GAAAATAACGGGGTTGGAGTATCCCCG-ATGAAAAATTGATGTTTTA
1 GGTTGGAGTATCCCCTCAG-AAATAACGGGATTGGAATATCCCCGTATGAAAAATCGATGTTTTA
438423 GAAATAAAACCGT
65 GAAATAAAACCGT
* *
438436 GGTTGGAGTGTCCCCTCAGAAATAACGGGATTGGAATATCCCCGATTATGAAAAGTCGATGTTTT
1 GGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAATATCCCCG--TATGAAAAATCGATGTTTT
*
438501 AGAAATAAAATCG-
64 AGAAATAAAACCGT
*
438514 GAGTTGGAATATCCCC
1 G-GTTGGAGTATCCCC
438530 GATTGCGGAG
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
76 39 0.48
77 1 0.01
78 1 0.01
79 40 0.49
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (77 bp):
GGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAATATCCCCGTATGAAAAATCGATGTTTTAG
AAATAAAACCGT
Found at i:438470 original size:104 final size:104
Alignment explanation
Indices: 438252--438478 Score: 296
Period size: 104 Copynumber: 2.2 Consensus size: 104
438242 AATAAAACCG
* * * *
438252 GGGTTGGAGTATCCTCTCGAAAATAACGGGGTTTGAGTATCCCCAATTATGAGAAATTAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC-A-GATGAAAAATTAATATTT
* *
438317 TAGAAATAAAGCCGGAGTTGGGGTATCCCCTCAAAAATAAC
64 TAGAAATAAAACCGGAGTTGGAGTATCCCCTCAAAAATAAC
* *
438358 GAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC-GATGAAAAATTGATGTTTT
1 G-GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAGATGAAAAATTAATATTTT
* *
438422 AGAAATAAAACCGTG-GTTGGAGTGTCCCCTCAGAAATAAC
65 AGAAATAAAACCG-GAGTTGGAGTATCCCCTCAAAAATAAC
*
438462 GGGATTGGAATATCCCC
1 GGG-TTGGAGTATCCCC
438479 GATTATGAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
103 2 0.02
104 62 0.58
105 1 0.01
106 1 0.01
107 41 0.38
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (104 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAGATGAAAAATTAATATTTTA
GAAATAAAACCGGAGTTGGAGTATCCCCTCAAAAATAAC
Found at i:438651 original size:130 final size:130
Alignment explanation
Indices: 438410--438644 Score: 371
Period size: 130 Copynumber: 1.8 Consensus size: 130
438400 CCCGATGAAA
* * * *
438410 AATTGATGTTTTAGAAATAAAACCGTGGTTGGAGTGTCCCCTCAGAAATAACGGGATTGGAATAT
1 AATTGATGTTTCAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAATAT
* *
438475 CCCCGATTATGAAAAGTCGATGTTTTAGAAATAAAATCGGAGTTGGAATATCCCCGATTGCGGAG
66 CCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGAGTTGGAATATCCCCGATTGCGGAG
* * *
438540 AATTGGTGTTTCAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTCAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAATAT
* *
438605 CCCCGATTATGAAAAATTGATGTTTTAGAAATGAAACCGG
66 CCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCGG
438645 GATTGGAGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 94 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (130 bp):
AATTGATGTTTCAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAATAT
CCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGAGTTGGAATATCCCCGATTGCGGAG
Found at i:441050 original size:13 final size:13
Alignment explanation
Indices: 441032--441093 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
441022 TACAAAAGAT
441032 CAATGTATCGATA
1 CAATGTATCGATA
441045 CAATGTATCGATA
1 CAATGTATCGATA
*
441058 C-AT-T-TC-CT-
1 CAATGTATCGATA
*
441066 TAATGTATCGATA
1 CAATGTATCGATA
441079 CAATGTATCGATA
1 CAATGTATCGATA
441092 CA
1 CA
441094 TTTCCTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
9 3 0.08
10 3 0.08
11 3 0.08
12 3 0.08
13 28 0.70
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:441055 original size:34 final size:34
Alignment explanation
Indices: 441012--441240 Score: 122
Period size: 32 Copynumber: 7.0 Consensus size: 34
441002 AAAATTTTCA
*
441012 AATGTATCGATACAAAAGATCAATGTATCGATAC
1 AATGTATCGATACAAAACATCAATGTATCGATAC
*** * *
441046 AATGTATCGATACATTTCCTTAATGTATCGATAC
1 AATGTATCGATACAAAACATCAATGTATCGATAC
*** * *
441080 AATGTATCGATACATTTCCTTAATGTATCGATAC
1 AATGTATCGATACAAAACATCAATGTATCGATAC
** * * * * *
441114 -AT-T-TCCTTGGCAGTAGCTTC---GTAGCGATAC
1 AATGTATCGAT-ACA-AAACATCAATGTATCGATAC
* * *
441144 ATTGTACCGATACAAAAC-T-TATGTATCGATAC
1 AATGTATCGATACAAAACATCAATGTATCGATAC
* *
441176 ATTGTATCGATACAAAAC-T-TATGTATCGATAC
1 AATGTATCGATACAAAACATCAATGTATCGATAC
* * *
441208 ATTGTATCGATACAACAC-T-TATGTATCGATAC
1 AATGTATCGATACAAAACATCAATGTATCGATAC
441240 A
1 A
441241 TTTACTGTTT
Statistics
Matches: 163, Mismatches: 24, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
30 10 0.06
31 6 0.04
32 78 0.48
33 7 0.04
34 62 0.38
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (34 bp):
AATGTATCGATACAAAACATCAATGTATCGATAC
Found at i:441106 original size:21 final size:21
Alignment explanation
Indices: 441080--441121 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
441070 GTATCGATAC
441080 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
441101 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
441122 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:441173 original size:19 final size:19
Alignment explanation
Indices: 441146--441263 Score: 89
Period size: 19 Copynumber: 6.7 Consensus size: 19
441136 AGCGATACAT
*
441146 TGTACCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
441165 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
441178 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
441197 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
441210 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
441229 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACT-TA
441250 TGTATCGATACAAA
1 TGTATCGATACAAA
441264 TTGTTTGAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 27
0.71 0.05 0.24
Matches are distributed among these distances:
13 22 0.28
14 2 0.03
16 4 0.05
18 2 0.03
19 33 0.42
20 3 0.04
21 13 0.16
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:441179 original size:32 final size:32
Alignment explanation
Indices: 441138--441242 Score: 192
Period size: 32 Copynumber: 3.3 Consensus size: 32
441128 AGCTTCGTAG
*
441138 CGATACATTGTACCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
441170 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
441202 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
441234 CGATACATT
1 CGATACATT
441243 TACTGTTTGT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:441183 original size:13 final size:13
Alignment explanation
Indices: 441165--441221 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
441155 ACAAAACTTA
441165 TGTATCGATACAT
1 TGTATCGATACAT
441178 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
441196 ATGTATCGATACAT
1 -TGTATCGATACAT
441210 TGTATCGATACA
1 TGTATCGATACA
441222 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:441270 original size:19 final size:19
Alignment explanation
Indices: 441209--441270 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
441199 TATCGATACA
441209 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* *
441228 ATGTATCGATACATTTACTGT
1 TTGTATCGATACA--AACTGT
*
441249 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAACTGT
441268 TTG
1 TTG
441271 AAATTCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 19 0.54
20 3 0.09
21 13 0.37
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:444881 original size:21 final size:21
Alignment explanation
Indices: 444848--444892 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
444838 TTGCAAGTTG
*
444848 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
444870 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
444890 AAA
1 AAA
444893 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:448819 original size:20 final size:20
Alignment explanation
Indices: 448740--448819 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
448730 AATGTCCAAA
*
448740 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
448760 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
448785 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
448805 TTGTATCGATACATT
1 ATGTATCGATACATT
448820 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:448823 original size:13 final size:13
Alignment explanation
Indices: 448805--448843 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
448795 ACATTTTTCT
448805 TTGTATCGATACA
1 TTGTATCGATACA
448818 TTGTATCGATACA
1 TTGTATCGATACA
*
448831 CTGTATCGATACA
1 TTGTATCGATACA
448844 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:451392 original size:13 final size:13
Alignment explanation
Indices: 451374--451399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
451364 TACAGCAAGT
451374 ATGTATCGATACA
1 ATGTATCGATACA
451387 ATGTATCGATACA
1 ATGTATCGATACA
451400 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:456170 original size:52 final size:52
Alignment explanation
Indices: 455970--456150 Score: 308
Period size: 52 Copynumber: 3.5 Consensus size: 52
455960 CGAAATATGA
* *
455970 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGCGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
* *
456022 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
*
456074 AAATTTGCCTACATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
*
456126 AAATTTGCCTTCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
456151 AAGATCAGTG
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 122 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
Found at i:456250 original size:19 final size:19
Alignment explanation
Indices: 456226--456335 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 19
456216 TAGCTTAAAT
456226 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
456245 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
**
456264 TGTATCGATACATTGTA-TT-
1 TGTATCGATACA--AAACTTA
**
456283 TGTATCGATACATTGTA-TT-
1 TGTATCGATACA--AAACTTA
*
456302 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
456322 TGTATCGATACAAA
1 TGTATCGATACAAA
456336 TCGTTGAAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
17 1 0.01
19 63 0.79
20 15 0.19
21 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:456294 original size:57 final size:57
Alignment explanation
Indices: 456225--456333 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
456215 GTAGCTTAAA
456225 TTGTATCGATACA-AAACTTATGTATCGATACAACAC-TTATGTATCGATACATTGTAT
1 TTGTATCGATACATAAA-TT-TGTATCGATACAACACTTTATGTATCGATACATTGTAT
**
456282 TTGTATCGATACATTGTATTTGTATCGATACAACACTTTATGTATCGATACA
1 TTGTATCGATACA-TAAATTTGTATCGATACAACACTTTATGTATCGATACA
456334 AATCGTTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
57 29 0.62
58 17 0.36
59 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (57 bp):
TTGTATCGATACATAAATTTGTATCGATACAACACTTTATGTATCGATACATTGTAT
Found at i:462767 original size:107 final size:105
Alignment explanation
Indices: 462523--462844 Score: 511
Period size: 107 Copynumber: 3.0 Consensus size: 105
462513 GCAAACAGAC
* * * *
462523 AAGGATCCTTCTATAATTAGGAGCCATGAGAATGGGGGGGAATGTCAAGGAAATTTTA-TTTTCA
1 AAGGAT-CTTCTGTAATTCGGAGCCATGAGAAT-GGGGGAAATATCAAGG-AATTTTAGTTTTCA
*
462587 AAGCAAGACTTCAGTACTGCTTCTGCAAGAGAAAGTGAGGAAGA
63 AAGTAAGA-TTCAGTACTGCTTCTGCAAGAGAAAGTGAGGAAGA
462631 AAGGATCTTCTGTAATTCGGAGCCATGAGAATGGGGGAAATATCAAGGAATTTTAGTTTTCAAAG
1 AAGGATCTTCTGTAATTCGGAGCCATGAGAATGGGGGAAATATCAAGGAATTTTAGTTTTCAAAG
*
462696 TAAGATTACAGTGCTGCTTCTGCAAGAGAAAGTGAGGAAGA
66 TAAGATT-CAGTACTGCTTCTGCAAGAGAAAGTGAGGAAGA
462737 AAGGATCTTTCTGTAATTCGGAGCCATGAGAATGGGGGAAATATCAAGGAATTTTAGTTTTCAAA
1 AAGGATC-TTCTGTAATTCGGAGCCATGAGAATGGGGGAAATATCAAGGAATTTTAGTTTTCAAA
*
462802 GTAAGATTTCAGTACTGCTTCTGCAAGAGAAAGTAAGGAAGA
65 GTAAGA-TTCAGTACTGCTTCTGCAAGAGAAAGTGAGGAAGA
462844 A
1 A
462845 TGACCTAGTT
Statistics
Matches: 202, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
105 9 0.04
106 66 0.33
107 119 0.59
108 8 0.04
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (105 bp):
AAGGATCTTCTGTAATTCGGAGCCATGAGAATGGGGGAAATATCAAGGAATTTTAGTTTTCAAAG
TAAGATTCAGTACTGCTTCTGCAAGAGAAAGTGAGGAAGA
Found at i:463992 original size:17 final size:17
Alignment explanation
Indices: 463970--464003 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
463960 GTAAAGAGAT
463970 AGAAAATAGAA-AAAGAA
1 AGAAAA-AGAAGAAAGAA
463987 AGAAAAAGAAGAAAGAA
1 AGAAAAAGAAGAAAGAA
464004 GGGTAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AGAAAAAGAAGAAAGAA
Found at i:466272 original size:18 final size:18
Alignment explanation
Indices: 466202--466274 Score: 65
Period size: 18 Copynumber: 4.0 Consensus size: 18
466192 TATTTAATAA
* *
466202 CAATAGATAAAACAATTA
1 CAATAGATAAAAGAATTG
466220 CAATAGATAAAAGAATTG
1 CAATAGATAAAAGAATTG
* ** **
466238 AAAATATCTAATTGAATTG
1 -CAATAGATAAAAGAATTG
*
466257 CAATAGATAAGAGAATTG
1 CAATAGATAAAAGAATTG
466275 TTGCTTATTT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
18 29 0.69
19 13 0.31
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (18 bp):
CAATAGATAAAAGAATTG
Found at i:468079 original size:20 final size:20
Alignment explanation
Indices: 468047--468121 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
468037 TTTTACTCAG
*
468047 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
468067 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
468087 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
468107 ATGTATCGATACATT
1 ATGTATCGATACATT
468122 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:468091 original size:40 final size:39
Alignment explanation
Indices: 468047--468124 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
468037 TTTTACTCAG
* *
468047 ATGTATTGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
468087 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
468125 TCTTTTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:469064 original size:23 final size:23
Alignment explanation
Indices: 469028--469079 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
469018 AGCCTTTGAC
469028 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
469050 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
469073 CATGCAT
1 CATGCAT
469080 CTTTAACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:474358 original size:487 final size:487
Alignment explanation
Indices: 473445--474909 Score: 2831
Period size: 487 Copynumber: 3.0 Consensus size: 487
473435 GGGGACACTA
473445 CTTGCGTGCCACTCCTTGGACTATGGGGAAGCACTAGTTTTGCGCCATTGTTGACATTACGTCGG
1 CTTGCGTGCCACTCCTTGGACTATGGGGAAGCACTAGTTTTGCGCCATTGTTGACATTACGTCGG
*
473510 TTTCAATGTCAACAATTTATCCCGTTCTTTGAAGATCTTGCAAATTGGGACTTTGAATATGGAGA
66 TTTCAATGTCAACAATTTATCCCGTTCTTCGAAGATCTTGCAAATTGGGACTTTGAATATGGAGA
*
473575 ATCAGGTTATAAAGAAAAAGTTCAAGCGGCTTTTCATTCATGGAAGAAAGTGCATTGCATGGAAC
131 ATCAGGTTATAAAGAAAAAGTTCAAACGGCTTTTCATTCATGGAAGAAAGTGCATTGCATGGAAC
*
473640 GGTATTGGAGAGGCAGCCCTACGACCCCGGGATACGAAGAATAGAAGATTCGTCGTGTCAATGAT
196 GGTATTGGAGAGGCAGCCCTACGACCCCGGGATACGAAGAATAGAAGATTCGTCATGTCAATGAT
*
473705 GCCATACTATCACCCAATTTGGGTATGTTACAAATCCCTGTGGAAGAATCCCCTTCTGAAGCTGA
261 GCCATACTATCACCCAATTTGGGTATGTTACAAATCCTTGTGGAAGAATCCCCTTCTGAAGCTGA
473770 TTTGCTGAAACGAGAGTTGGAACAAGTTAGAGTATCTTTCACTTCAGAGATTGCACGGTTAAAAG
326 TTTGCTGAAACGAGAGTTGGAACAAGTTAGAGTATCTTTCACTTCAGAGATTGCACGGTTAAAAG
*
473835 AAGAGAAAGGCCACTTAGAAATGGATCTCTACCTTCGGAATGGGGAAGTGGACTGTATGACCAAG
391 AAGAGAAAGGCCACTTAGAAATGGATCTCTACCTTCGGAATGGGGAAGTGGACCGTATGACCAAG
473900 GAACGAGATAGCCTCAGGGAAGATCTTCAAAG
456 GAACGAGATAGCCTCAGGGAAGATCTTCAAAG
**
473932 CTTGCGTGCCACTCAATGGACTATGGGGAAGCACTAGTTTTGCGCCATTGTTGACATTACGTCGG
1 CTTGCGTGCCACTCCTTGGACTATGGGGAAGCACTAGTTTTGCGCCATTGTTGACATTACGTCGG
*
473997 TTTCAATGTCAACAATTTATCCCGTTCTTCGAAGATCTTGCAGATTGGGACTTTGAATATGGAGA
66 TTTCAATGTCAACAATTTATCCCGTTCTTCGAAGATCTTGCAAATTGGGACTTTGAATATGGAGA
474062 ATCAGGTTATAAAGAAAAAGTTCAAACGGCTTTTCATTCATGGAAGAAAGTGCATTGCATGGAAC
131 ATCAGGTTATAAAGAAAAAGTTCAAACGGCTTTTCATTCATGGAAGAAAGTGCATTGCATGGAAC
*
474127 GGTATTGGAGAGGTAGCCCTACGACCCCGGGATACGAAGAATAGAAGATTCGTCATGTCAATGAT
196 GGTATTGGAGAGGCAGCCCTACGACCCCGGGATACGAAGAATAGAAGATTCGTCATGTCAATGAT
*
474192 GCCATACTATCACCCAATTTAGGTATGTTACAAATCCTTGTGGAAGAATCCCCTTCTGAAGCTGA
261 GCCATACTATCACCCAATTTGGGTATGTTACAAATCCTTGTGGAAGAATCCCCTTCTGAAGCTGA
474257 TTTGCTGAAACGAGAGTTGGAACAAGTTAGAGTATCTTTCACTTCAGAGATTGCACGGTTAAAAG
326 TTTGCTGAAACGAGAGTTGGAACAAGTTAGAGTATCTTTCACTTCAGAGATTGCACGGTTAAAAG
474322 AAGAGAAAGGCCACTTAGAAATGGATCTCTACCTTCGGAATGGGGAAGTGGACCGTATGACCAAG
391 AAGAGAAAGGCCACTTAGAAATGGATCTCTACCTTCGGAATGGGGAAGTGGACCGTATGACCAAG
474387 GAACGAGATAGCCTCAGGGAAGATCTTCAAAG
456 GAACGAGATAGCCTCAGGGAAGATCTTCAAAG
474419 CTTGCGTGCCACTCCTTGGACTATGGGGAAGCACTAGTTTTGCGCCATTGTTGACATTACGTCGG
1 CTTGCGTGCCACTCCTTGGACTATGGGGAAGCACTAGTTTTGCGCCATTGTTGACATTACGTCGG
474484 TTTCAATGTCAACAATTTATCCCGTTCTTCGAAGATCTTGCAAATTGGGACTTTGAATATGGAGA
66 TTTCAATGTCAACAATTTATCCCGTTCTTCGAAGATCTTGCAAATTGGGACTTTGAATATGGAGA
474549 ATCAGGTTATAAAGAAAAAGTTCAAACGGCTTTTCATTCATGGAAGAAAGTGCATTGCATGGAAC
131 ATCAGGTTATAAAGAAAAAGTTCAAACGGCTTTTCATTCATGGAAGAAAGTGCATTGCATGGAAC
474614 GGTATTGGAGAGGCAGCCCTACGACCCCGGGATACGAAGAATAGAAGATTCGTCATGTCAATGAT
196 GGTATTGGAGAGGCAGCCCTACGACCCCGGGATACGAAGAATAGAAGATTCGTCATGTCAATGAT
474679 GCCATACTATCACCCAATTTGGGTATGTTACAAATCCTTGTGGAAGAATCCCCTTCTGAAGCTGA
261 GCCATACTATCACCCAATTTGGGTATGTTACAAATCCTTGTGGAAGAATCCCCTTCTGAAGCTGA
474744 TTTGCTGAAACGAGAGTTGGAACAAGTTAGAGTATCTTTCACTTCAGAGATTGCACGGTTAAAAG
326 TTTGCTGAAACGAGAGTTGGAACAAGTTAGAGTATCTTTCACTTCAGAGATTGCACGGTTAAAAG
474809 AAGAGAAAGGCCACTTAGAAATGGATCTCTACCTTCGGAATGGGGAAGTGGACCGTATGACCAAG
391 AAGAGAAAGGCCACTTAGAAATGGATCTCTACCTTCGGAATGGGGAAGTGGACCGTATGACCAAG
*
474874 GAACGAGATAACCTCAGGGAAGATCTTCAAAG
456 GAACGAGATAGCCTCAGGGAAGATCTTCAAAG
474906 CTTG
1 CTTG
474910 ACTAGGGATT
Statistics
Matches: 962, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
487 962 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (487 bp):
CTTGCGTGCCACTCCTTGGACTATGGGGAAGCACTAGTTTTGCGCCATTGTTGACATTACGTCGG
TTTCAATGTCAACAATTTATCCCGTTCTTCGAAGATCTTGCAAATTGGGACTTTGAATATGGAGA
ATCAGGTTATAAAGAAAAAGTTCAAACGGCTTTTCATTCATGGAAGAAAGTGCATTGCATGGAAC
GGTATTGGAGAGGCAGCCCTACGACCCCGGGATACGAAGAATAGAAGATTCGTCATGTCAATGAT
GCCATACTATCACCCAATTTGGGTATGTTACAAATCCTTGTGGAAGAATCCCCTTCTGAAGCTGA
TTTGCTGAAACGAGAGTTGGAACAAGTTAGAGTATCTTTCACTTCAGAGATTGCACGGTTAAAAG
AAGAGAAAGGCCACTTAGAAATGGATCTCTACCTTCGGAATGGGGAAGTGGACCGTATGACCAAG
GAACGAGATAGCCTCAGGGAAGATCTTCAAAG
Found at i:480288 original size:13 final size:13
Alignment explanation
Indices: 480270--480295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
480260 CAATTTTTTG
480270 TGTATCGATACAT
1 TGTATCGATACAT
480283 TGTATCGATACAT
1 TGTATCGATACAT
480296 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:480380 original size:20 final size:20
Alignment explanation
Indices: 480355--480427 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
480345 CATCCTTTTT
*
480355 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTACAAC
****
480375 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTACAAC
480396 ATGTATCGATACATTACAAC
1 ATGTATCGATACATTACAAC
480416 ATGTATCGATAC
1 ATGTATCGATAC
480428 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTACAAC
Found at i:480400 original size:21 final size:21
Alignment explanation
Indices: 480334--480410 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
480324 CTGCCAAGAA
*
480334 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
480355 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
480375 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
480396 ATGTATCGATACATT
1 ATGTATCGATACATT
480411 ACAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:480400 original size:41 final size:41
Alignment explanation
Indices: 480334--480427 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
480324 CTGCCAAGAA
*
480334 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTACAAC
*
480375 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTACAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTACAAC
480416 ATGTATCGATAC
1 ATGTATCGATAC
480428 TTTGAATTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 5 0.10
41 45 0.90
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTACAAC
Found at i:481033 original size:48 final size:48
Alignment explanation
Indices: 480978--481073 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
480968 AAATTTTACG
480978 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
481026 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
481074 TTATCTCCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
Found at i:482933 original size:13 final size:13
Alignment explanation
Indices: 482915--482953 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
482905 ATAATCACCC
*
482915 TGTATCGATACAG
1 TGTATCGATACAA
482928 TGTATCGATACAA
1 TGTATCGATACAA
482941 TGTATCGATACAA
1 TGTATCGATACAA
482954 GGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:485041 original size:15 final size:15
Alignment explanation
Indices: 485021--485051 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
485011 ATTTCGTTTG
*
485021 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
485036 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
485051 G
1 G
485052 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Done.