Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 190 of 328
Found at i:56622735 original size:71 final size:71
Alignment explanation
Indices: 56622614--56622778 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
56622604 GAGTTAAGCC
** * *
56622614 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
56622678 TGAGGTA
65 TGAGGTA
*
56622685 TTTTCAATTTTTGTGTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
56622749 TGAGGTA
65 TGAGGTA
*
56622756 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTCAATTT
56622779 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
70 3 0.04
71 71 0.84
72 11 0.13
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:56623014 original size:72 final size:71
Alignment explanation
Indices: 56622893--56623058 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
56622883 GAGTTAAGCC
** * *
56622893 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
56622957 TGAGGTA
65 TGAGGTA
*
56622964 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
56623029 TGAGGTA
65 TGAGGTA
* *
56623036 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
56623059 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:56623286 original size:70 final size:69
Alignment explanation
Indices: 56623167--56623589 Score: 385
Period size: 71 Copynumber: 6.2 Consensus size: 69
56623157 GAGTTAAGCC
*
56623167 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
56623231 TGAGGTA
63 TGAGGTA
* * * ** * *
56623238 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
56623303 AGGTA
65 AGGTA
* *
56623308 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
56623373 GAGGTA
64 GAGGTA
* * * ** * * *
56623379 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
56623435 ---A
66 GGTA
*** ** * *
56623436 TTTTTGTTTTTCA----AAATCGACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
56623497 GGTA
66 GGTA
* * *
56623501 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
56623566 TGAGGTA
63 TGAGGTA
*
56623573 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
56623590 CAATTTACGT
Statistics
Matches: 284, Mismatches: 45, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
53 32 0.11
57 9 0.03
60 2 0.01
62 2 0.01
65 5 0.02
66 4 0.01
69 34 0.12
70 64 0.23
71 69 0.24
72 63 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:56623461 original size:537 final size:539
Alignment explanation
Indices: 56622184--56623627 Score: 2373
Period size: 537 Copynumber: 2.7 Consensus size: 539
56622174 TTTCAAGGAA
*
56622184 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
56622249 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
56622309 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
56622373 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
196 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
* * * * *
56622438 TTTAA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA--
261 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATT
*
56622499 ------TT---TTT--GTT-TTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGG
326 TCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGA
56622551 CACGCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTT
391 CACGCTGAGGTA--TTTA-TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTT
56622616 TTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
453 TTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
56622681 GGTATTTTCAATTTTTGTGTTT
518 GGTATTTTCAATTTTTGTGTTT
* * * * *
56622703 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-----
56622768 GTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAC
59 ---TT---TTT--GTT-TTCAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAC
56622833 GCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA
114 GCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA
56622898 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT
179 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT
56622963 ATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
244 ATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
56623028 CTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGCGAGAAG
309 CTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGCGAGAAG
56623093 TGAGTTGAGCCTCGGGACACGCTGAGGTA-TT-TTTA-GTTTTAAATTGACTCATATTGCGAGAG
374 TGAGTTGAGCCTCGGGACACGCTGAGGTATTTATTTATGTTTTAAATTGACTCATATTGCGAGAG
56623155 GTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
439 GTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
56623220 TCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
504 TCGGGGCACGCTGAGGTATTTTCAATTTTTGTG-TTT
*
56623257 AATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
56623322 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
56623387 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
*
56623452 TCGACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
196 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
56623517 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATT
261 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATT
*
56623582 TCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGA
326 TCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGCGAGA
56623628 GGTAGGTTGA
Statistics
Matches: 863, Mismatches: 21, Indels: 64
0.91 0.02 0.07
Matches are distributed among these distances:
519 2 0.00
521 51 0.06
529 2 0.00
532 2 0.00
534 3 0.00
535 5 0.01
536 50 0.06
537 298 0.35
538 5 0.01
539 5 0.01
541 7 0.01
542 131 0.15
544 53 0.06
552 52 0.06
553 125 0.14
554 9 0.01
555 3 0.00
556 2 0.00
557 3 0.00
558 3 0.00
559 52 0.06
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (539 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATT
TCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGA
CACGCTGAGGTATTTATTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTA
ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT
ATTTTCAATTTTTGTGTTT
Found at i:56623475 original size:122 final size:124
Alignment explanation
Indices: 56623309--56623555 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 124
56623299 GTTGAGGTAT
56623309 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
56623374 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* * *
56623430 TTTTAATTTTTGTTTTTCAAAATCGACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
56623495 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
56623555 T
1 T
56623556 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 12 0.11
122 59 0.52
123 1 0.01
124 13 0.12
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:56623551 original size:72 final size:71
Alignment explanation
Indices: 56623430--56623595 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
56623420 GAGTTAAGCC
** * * *
56623430 TTTT-AATTTTTGTTTTTCAAAATCGACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
56623494 TGAGGTA
65 TGAGGTA
*
56623501 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
56623566 TGAGGTA
65 TGAGGTA
* *
56623573 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
56623596 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:56623926 original size:74 final size:76
Alignment explanation
Indices: 56623820--56623964 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
56623810 TTTTTGCCTT
*
56623820 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
56623882 CAATTTCTATTG
65 CAATTTCTATTG
* * *
56623894 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
56623959 AATTTC
66 AATTTC
56623965 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTATTG
Found at i:56623932 original size:165 final size:166
Alignment explanation
Indices: 56623660--56624141 Score: 677
Period size: 165 Copynumber: 2.9 Consensus size: 166
56623650 CTACTTTTTC
56623660 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
56623725 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
56623790 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
56623825 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
56623890 ATTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
56623955 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC---------AAAA
*
56624000 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
56624065 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
56624126 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
56624142 CAAAAAATCA
Statistics
Matches: 285, Mismatches: 22, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
165 153 0.54
171 27 0.09
173 34 0.12
175 71 0.25
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
Found at i:56624082 original size:72 final size:73
Alignment explanation
Indices: 56623998--56624505 Score: 399
Period size: 72 Copynumber: 6.5 Consensus size: 73
56623988 AAAAAAAAAA
*
56623998 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
56624063 CTGTTTTC
66 CTGTTTTC
* * ** ** *
56624071 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
56624135 CTGTTTTC
66 CTGTTTTC
* * * ** *
56624143 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
56624208 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
56624219 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
56624284 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
56624298 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
56624362 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
56624375 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
56624440 GCTATTTTCAATTTCTGTTTTTTTTTTC
52 GGTATTTTCAATTTCTG------TTTTC
56624468 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
56624506 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 53, Indels: 58
0.76 0.12 0.13
Matches are distributed among these distances:
72 64 0.18
73 33 0.09
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
82 5 0.01
83 29 0.08
86 2 0.01
88 54 0.16
89 1 0.00
92 2 0.01
93 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:56624321 original size:79 final size:76
Alignment explanation
Indices: 56623997--56624715 Score: 420
Period size: 88 Copynumber: 9.0 Consensus size: 76
56623987 AAAAAAAAAA
** *
56623997 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
56624060 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
56624071 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
56624132 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
56624143 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
56624207 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
56624219 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
56624284 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
56624298 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
56624362 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
56624375 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
56624440 GCTATTTTCAATTTCTGTTTTTTTTTTC
55 GGTATTTTCAATTTCTG------TTTTC
* * * * * *
56624468 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
56624532 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
56624555 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
56624616 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
56624630 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
56624695 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
56624716 TAATGTCTGT
Statistics
Matches: 503, Mismatches: 84, Indels: 103
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 2 0.00
82 6 0.01
83 30 0.06
84 29 0.06
85 7 0.01
86 2 0.00
87 12 0.02
88 114 0.23
89 8 0.02
90 1 0.00
91 1 0.00
92 13 0.03
93 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:56624375 original size:14 final size:13
Alignment explanation
Indices: 56624356--56624391 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
56624346 TGTCGAGGTA
56624356 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
56624369 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
56624383 TTTTCAAAA
1 TTTTCAAAA
56624392 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:56624523 original size:30 final size:30
Alignment explanation
Indices: 56624487--56624548 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
56624477 CAACTCATAT
56624487 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
56624517 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
56624547 TG
1 TG
56624549 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:56624649 original size:255 final size:249
Alignment explanation
Indices: 56624137--56624716 Score: 757
Period size: 255 Copynumber: 2.3 Consensus size: 249
56624127 TTCAATTTCT
* * *
56624137 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
56624202 TTCAATTTC-----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
66 TTCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
* *
56624262 TCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTG
131 TCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTG
* ** * * * **
56624327 AGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 AGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
56624382 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
56624446 TTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTT
66 TTCAATTTCTGTTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTC
* * * * * * *
56624511 A-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTG
128 AGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTG
*
56624573 CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
56624637 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
56624701 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
56624717 AATGTCTGTT
Statistics
Matches: 291, Mismatches: 28, Indels: 22
0.85 0.08 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
249 13 0.04
250 30 0.10
251 1 0.00
252 3 0.01
253 2 0.01
254 5 0.02
255 146 0.50
256 5 0.02
257 13 0.04
258 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (249 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
TCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGA
GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:56625376 original size:15 final size:15
Alignment explanation
Indices: 56625358--56625397 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
56625348 AACCTAACCC
56625358 AAAAAAAAACAAAGA
1 AAAAAAAAACAAAGA
56625373 AAAAAAAGAA-AAAGA
1 AAAAAAA-AACAAAGA
*
56625388 AAAAGAAAAC
1 AAAAAAAAAC
56625398 CTACCCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAAAGA
Found at i:56625413 original size:15 final size:15
Alignment explanation
Indices: 56625393--56625426 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
56625383 AAAGAAAAAG
*
56625393 AAAACCTACCCCAAA
1 AAAACCTAACCCAAA
56625408 AAAACCTAACCCAAA
1 AAAACCTAACCCAAA
56625423 AAAA
1 AAAA
56625427 AGAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.62, C:0.32, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAACCTAACCCAAA
Found at i:56625424 original size:16 final size:15
Alignment explanation
Indices: 56625388--56625427 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
56625378 AAGAAAAAGA
56625388 AAAAGAAAACCTACCC
1 AAAA-AAAACCTACCC
*
56625404 CAAAAAAACCTAACCC
1 AAAAAAAACCT-ACCC
56625420 AAAAAAAA
1 AAAAAAAA
56625428 GAAGAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.65, C:0.28, G:0.03, T:0.05
Consensus pattern (15 bp):
AAAAAAAACCTACCC
Found at i:56627572 original size:41 final size:42
Alignment explanation
Indices: 56627527--56627641 Score: 146
Period size: 41 Copynumber: 2.8 Consensus size: 42
56627517 TTTTGTTGCC
*
56627527 TTTTTATC-AAAAACGCCACTATAGCTCAATTTTTTATGGCG
1 TTTTTACCGAAAAACGCCACTATAGCTCAATTTTTTATGGCG
* *
56627568 TTTTT-CCGAAAAACGCCACTATAGCTCAACTTTTTGTGGCG
1 TTTTTACCGAAAAACGCCACTATAGCTCAATTTTTTATGGCG
* * * *
56627609 -TTTTACCTAAAAACGCCCCCATTGCTCAATTTT
1 TTTTTACCGAAAAACGCCACTATAGCTCAATTTT
56627642 GATTTTTTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.08
41 59 0.92
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (42 bp):
TTTTTACCGAAAAACGCCACTATAGCTCAATTTTTTATGGCG
Found at i:56628467 original size:21 final size:21
Alignment explanation
Indices: 56628443--56628489 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
56628433 CTCAAATACC
56628443 AAACCCCAAATCCTAGACCAT
1 AAACCCCAAATCCTAGACCAT
* *
56628464 AAACCCTAAATCTTAGACCAT
1 AAACCCCAAATCCTAGACCAT
56628485 AAACC
1 AAACC
56628490 TACTCCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (21 bp):
AAACCCCAAATCCTAGACCAT
Found at i:56628871 original size:14 final size:14
Alignment explanation
Indices: 56628852--56628892 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
56628842 CCCCTATCCC
56628852 CATAAACCCTAAAT
1 CATAAACCCTAAAT
* *
56628866 CATAAAGCATAAAT
1 CATAAACCCTAAAT
56628880 CATAAACCCTAAA
1 CATAAACCCTAAA
56628893 CCCCTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (14 bp):
CATAAACCCTAAAT
Found at i:56628899 original size:8 final size:7
Alignment explanation
Indices: 56628831--56628970 Score: 50
Period size: 7 Copynumber: 19.0 Consensus size: 7
56628821 CTAATTAATA
56628831 TAAACCC
1 TAAACCC
56628838 TAAACCCC
1 TAAA-CCC
**
56628846 TATCCCC
1 TAAACCC
56628853 ATAAACCC
1 -TAAACCC
* *
56628861 TAAATCA
1 TAAACCC
* *
56628868 TAAAGCA
1 TAAACCC
* *
56628875 TAAATCA
1 TAAACCC
56628882 TAAACCC
1 TAAACCC
56628889 TAAACCCC
1 TAAA-CCC
56628897 T-AACCC
1 TAAACCC
*
56628903 TTAACCC
1 TAAACCC
56628910 ATATATCACCCC
1 -TA-A--A-CCC
*
56628922 TAAACCT
1 TAAACCC
56628929 TAAACCC
1 TAAACCC
*
56628936 -CAACCC
1 TAAACCC
*
56628942 TTAAACCA
1 -TAAACCC
*
56628950 TAAACCA
1 TAAACCC
* *
56628957 TAATCTC
1 TAAACCC
56628964 TAAACCC
1 TAAACCC
56628971 ATAATCCATA
Statistics
Matches: 101, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
6 9 0.09
7 64 0.63
8 20 0.20
9 1 0.01
10 1 0.01
11 3 0.03
12 3 0.03
ACGTcount: A:0.41, C:0.38, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:56629034 original size:14 final size:14
Alignment explanation
Indices: 56629012--56629056 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
56629002 TTTTAAAACT
56629012 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* * *
56629026 TACATCCTAAACTA
1 TAAACCCTAAACCA
*
56629040 TAAACCCTAAACTA
1 TAAACCCTAAACCA
56629054 TAA
1 TAA
56629057 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:56629372 original size:40 final size:40
Alignment explanation
Indices: 56629323--56629441 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 40
56629313 ACGGTAAAGC
*
56629323 TCGATCTATAGCGGCGTTTTTAAAAAAGCGCCGCTAGTGG
1 TCGATCTATAGCGGCGTTTTTAAAAAAGCGCCGCTAATGG
* * * * ** *
56629363 TCGACCTATAGTGGCATTTTTTAAAAAGCGTTGCTAATGT
1 TCGATCTATAGCGGCGTTTTTAAAAAAGCGCCGCTAATGG
* * *
56629403 TCAATCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATG
1 TCGATCTATAGCGGCGTTTTTAAAAAAGCGCCGCTAATG
56629442 CCGCTACAAC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (40 bp):
TCGATCTATAGCGGCGTTTTTAAAAAAGCGCCGCTAATGG
Found at i:56629566 original size:39 final size:40
Alignment explanation
Indices: 56629488--56629616 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
56629478 AATTTTTTTA
*
56629488 CGGCATTTTTCAAAAAGCGCCGCTAATGGTCGA-CTTATAG
1 CGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATC-TATAG
** * *
56629528 CGGCATTTTTTGAAAAGC-CCACTAATACTCGATCTATAG
1 CGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
*
56629567 CGGTATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
1 CGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
*
56629607 CGGCGTTTTT
1 CGGCATTTTT
56629617 TTATCCAAAC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 31 0.41
40 44 0.59
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (40 bp):
CGGCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG
Found at i:56630615 original size:2 final size:2
Alignment explanation
Indices: 56630610--56630646 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
56630600 GTAGTTTTCT
56630610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56630647 TTCTAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:56631363 original size:26 final size:26
Alignment explanation
Indices: 56631332--56631382 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
56631322 TTAACTCCCA
56631332 TTCTTTTT-TTTTCTTTCTTCTTCTTC
1 TTCTTTTTCTTTT-TTTCTTCTTCTTC
*
56631358 TTCTTTTTCTTTTTTTTTTCTTCTT
1 TTCTTTTTCTTTTTTTCTTCTTCTT
56631383 GGTGTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (26 bp):
TTCTTTTTCTTTTTTTCTTCTTCTTC
Found at i:56631390 original size:29 final size:29
Alignment explanation
Indices: 56631336--56631400 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
56631326 CTCCCATTCT
*
56631336 TTTTTTTTCTTTCTTCTTCTTCTTCTTT-
1 TTTTTTTTCTTTCTTCTTCGTCTTCTTTA
* * *
56631364 TTCTTTTTTTTTTCTTCTTGGTGTTCTTTA
1 TT-TTTTTTCTTTCTTCTTCGTCTTCTTTA
56631394 TTTTTTT
1 TTTTTTT
56631401 GATAATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 2 0.06
29 27 0.87
30 2 0.06
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.78
Consensus pattern (29 bp):
TTTTTTTTCTTTCTTCTTCGTCTTCTTTA
Found at i:56632550 original size:18 final size:19
Alignment explanation
Indices: 56632529--56632564 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
56632519 AATAAAGAAA
*
56632529 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
56632547 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
56632565 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:56633958 original size:59 final size:58
Alignment explanation
Indices: 56633862--56633993 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
56633852 AAAATTGTAC
56633862 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
56633920 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
56633979 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56633994 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:56633982 original size:88 final size:89
Alignment explanation
Indices: 56633832--56633993 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
56633822 GACAAGATTG
* * *
56633832 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
56633897 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
56633921 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
56633985 AAGTGTGCG
66 AAGTGTGCG
56633994 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:56634005 original size:29 final size:29
Alignment explanation
Indices: 56633862--56633993 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
56633852 AAAATTGTAC
*
56633862 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56633891 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56633920 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
56633950 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56633979 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56633994 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:56640210 original size:18 final size:19
Alignment explanation
Indices: 56640189--56640224 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
56640179 AATAAAGAAA
*
56640189 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
56640207 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
56640225 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:56641619 original size:59 final size:58
Alignment explanation
Indices: 56641523--56641654 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
56641513 AAAATTGTAC
56641523 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
56641581 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
56641640 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56641655 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:56641643 original size:88 final size:89
Alignment explanation
Indices: 56641493--56641654 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
56641483 GACAAGATTG
* * *
56641493 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
56641558 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
56641582 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
56641646 AAGTGTGCG
66 AAGTGTGCG
56641655 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:56641666 original size:29 final size:29
Alignment explanation
Indices: 56641523--56641654 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
56641513 AAAATTGTAC
*
56641523 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56641552 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56641581 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
56641611 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56641640 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56641655 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:56645263 original size:93 final size:93
Alignment explanation
Indices: 56645149--56645319 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
56645139 GCCCATAAGT
* *
56645149 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCAGACTCAACTCAA
56645214 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
56645242 GAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCAGACTCAACTCAA
*
56645307 CGAGTTCGGATGC
66 CGAGCTCGGATGC
56645320 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56645316 original size:46 final size:46
Alignment explanation
Indices: 56645141--56645316 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
56645131 TGTAACCCGC
* * *
56645141 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
56645187 CCATAAGTAAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * * *
56645233 ACATCTCTCGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56645280 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
56645317 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.63
47 29 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:56647594 original size:30 final size:29
Alignment explanation
Indices: 56647550--56647638 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 29
56647540 CAAAGATAAC
56647550 AAGAAAACC-GAATAAAGAAATCCAAGAT
1 AAGAAAACCAGAATAAAGAAATCCAAGAT
*
56647578 AGAGAAACCCAGAATAAAGAAATCC-AGAAT
1 A-AGAAAACCAGAATAAAGAAATCCAAG-AT
* *
56647608 AA-AAAGATCCAGGATAAAGAAACCCAAGAT
1 AAGAAA-A-CCAGAATAAAGAAATCCAAGAT
56647638 A
1 A
56647639 CGATACTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
28 4 0.08
29 10 0.20
30 35 0.69
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (29 bp):
AAGAAAACCAGAATAAAGAAATCCAAGAT
Found at i:56647598 original size:15 final size:15
Alignment explanation
Indices: 56647550--56647629 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
56647540 CAAAGATAAC
*
56647550 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56647564 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56647579 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56647594 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
56647609 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
56647624 AAGAAA
1 AAGAAA
56647630 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 11 0.20
15 41 0.75
16 3 0.05
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56647638 original size:15 final size:15
Alignment explanation
Indices: 56647561--56647638 Score: 72
Period size: 15 Copynumber: 5.2 Consensus size: 15
56647551 AGAAAACCGA
56647561 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56647576 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56647590 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
56647605 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
56647621 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56647636 ATA
1 ATA
56647639 CGATACTATG
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 6 0.12
15 41 0.79
16 5 0.10
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56650702 original size:93 final size:93
Alignment explanation
Indices: 56650574--56650744 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
56650564 GCCCATACGT
* * *
56650574 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56650639 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
56650667 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56650732 CGAGTTCGGATGC
66 CGAGCTCGGATGC
56650745 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56650741 original size:46 final size:46
Alignment explanation
Indices: 56650566--56650741 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
56650556 TGTAACCCGC
* * * *
56650566 CCATACGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56650612 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
56650658 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56650705 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56650742 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:56650760 original size:46 final size:46
Alignment explanation
Indices: 56650572--56650760 Score: 124
Period size: 46 Copynumber: 4.1 Consensus size: 46
56650562 CCGCCCATAC
* ** * *
56650572 GTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTC--GCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-A
56650618 GTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT-
1 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTA
* * * * * * *
56650666 -CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AA
1 GTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTA
*
56650711 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTA
1 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTA
56650757 GTGA
1 GTGA
56650761 CATGTCACTT
Statistics
Matches: 112, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 62 0.55
47 29 0.26
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTA
Found at i:56653241 original size:17 final size:18
Alignment explanation
Indices: 56653206--56653248 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
56653196 ATTCTTTTCC
56653206 ATTTTCTCTATTTTCGTT
1 ATTTTCTCTATTTTCGTT
*
56653224 ATTTTCTCT-TTTTTGTT
1 ATTTTCTCTATTTTCGTT
*
56653241 ATATTCTC
1 ATTTTCTC
56653249 CTACCCGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.12, C:0.16, G:0.05, T:0.67
Consensus pattern (18 bp):
ATTTTCTCTATTTTCGTT
Found at i:56653678 original size:16 final size:16
Alignment explanation
Indices: 56653659--56653689 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56653649 TTCGATGAAA
56653659 TTCGAAAGTACATTCT
1 TTCGAAAGTACATTCT
*
56653675 TTCGAAAGTGCATTC
1 TTCGAAAGTACATTC
56653690 CCGATGCCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
TTCGAAAGTACATTCT
Found at i:56657965 original size:28 final size:27
Alignment explanation
Indices: 56657899--56657967 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
56657889 ATAGTGAGTC
*
56657899 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
56657926 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
56657954 CGCACACCTAGTGC
1 CGCACACTTAGTGC
56657968 CATTCTCATG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56667280 original size:39 final size:39
Alignment explanation
Indices: 56667234--56667375 Score: 205
Period size: 40 Copynumber: 3.6 Consensus size: 39
56667224 TGAATGATAC
56667234 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATATAT
56667273 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-TATAT
* ** * *
56667313 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATATAT
*
56667353 CCGGGCTAAG-ACCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT
56667376 GTGCAAGTTA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
39 45 0.48
40 47 0.50
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATATAT
Found at i:56667328 original size:40 final size:40
Alignment explanation
Indices: 56667234--56667438 Score: 231
Period size: 39 Copynumber: 5.2 Consensus size: 40
56667224 TGAATGATAC
* *
56667234 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-TATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56667273 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56667313 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
56667353 CCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
56667392 CCGGGTTAAGACCCGAA-GCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
56667431 CC-GGCTAA
1 CCGGGCTAA
56667439 ATTCCGAAGA
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
38 6 0.04
39 80 0.56
40 54 0.38
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:56667368 original size:79 final size:79
Alignment explanation
Indices: 56667234--56667447 Score: 229
Period size: 79 Copynumber: 2.7 Consensus size: 79
56667224 TGAATGATAC
* * * *
56667234 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTTGTTATATCCGGGCTAAGTACCGAAGGCATTTA
* ** *
56667298 TGCTAGTGATTATAT
65 TGCAAGTGACCAAAT
* *
56667313 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAG-ACCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATT-GTGCTAGTTGTTATATCCGGGCTAAGTACCGAAGGCATTTA
*
56667377 TGCAAGTTACCAAAT
65 TGCAAGTGACCAAAT
* * * * *
56667392 CCGGGTTAAGACCCGAA-GCAATTGTGCTTGTGGTTATATCC-GGCTAAATTCCGAAG
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCTAGTTGTTATATCCGGGCTAAGTACCGAAG
56667448 AGACTCGGTT
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
77 6 0.05
78 25 0.22
79 66 0.58
80 17 0.15
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCTAGTTGTTATATCCGGGCTAAGTACCGAAGGCATTTAT
GCAAGTGACCAAAT
Found at i:56671388 original size:42 final size:42
Alignment explanation
Indices: 56671275--56671422 Score: 190
Period size: 43 Copynumber: 3.5 Consensus size: 42
56671265 TACAAACACA
*
56671275 ATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCC
1 ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCC
* * *
56671317 AATAGCCCAGCTATGGTCTTACATGAAATCTCATATAGATGCC
1 -ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCC
* ** *
56671360 ATATCCCAAATATGGTCTTACAAAAAATCTCATA-CGATGTC
1 ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCC
* *
56671401 TTATCCCAGATATGGTGTTACA
1 ATATCCCAGATATGGTCTTACA
56671423 CATAGTCTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 24 0.26
42 29 0.32
43 38 0.42
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCC
Found at i:56678401 original size:2 final size:2
Alignment explanation
Indices: 56678394--56678423 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56678384 ATGTTTTGTG
56678394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56678424 TTAGCCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56682446 original size:32 final size:32
Alignment explanation
Indices: 56682410--56682478 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
56682400 TAGGTGTGGC
* *
56682410 CGTGTGGG-TCACACGGACTAGGCCAAGCTGGG
1 CGTGTGGGCT-ACACGGACAAAGCCAAGCTGGG
* *
56682442 CGTGTGGGCTACACGGGCAAAGCCAATCTGGG
1 CGTGTGGGCTACACGGACAAAGCCAAGCTGGG
56682474 CGTGT
1 CGTGT
56682479 AGGCCCATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.39, T:0.17
Consensus pattern (32 bp):
CGTGTGGGCTACACGGACAAAGCCAAGCTGGG
Found at i:56685468 original size:33 final size:33
Alignment explanation
Indices: 56685426--56685491 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
56685416 GCTTTTTAAT
56685426 ATTCTAAATACAATTTAAAAATACATGAAAAAA
1 ATTCTAAATACAATTTAAAAATACATGAAAAAA
* *
56685459 ATTCTAAATACAATTTAAAAATGCATGATAAAA
1 ATTCTAAATACAATTTAAAAATACATGAAAAAA
56685492 TTTAACTCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.29
Consensus pattern (33 bp):
ATTCTAAATACAATTTAAAAATACATGAAAAAA
Found at i:56685601 original size:13 final size:13
Alignment explanation
Indices: 56685583--56685609 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56685573 TAAACCCTTT
56685583 AAATTAAGTTCTA
1 AAATTAAGTTCTA
56685596 AAATTAAGTTCTA
1 AAATTAAGTTCTA
56685609 A
1 A
56685610 TTATAAATTC
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AAATTAAGTTCTA
Found at i:56686082 original size:2 final size:2
Alignment explanation
Indices: 56686075--56686111 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
56686065 AACATGCCAC
56686075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56686112 GGTAGAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:56686610 original size:573 final size:553
Alignment explanation
Indices: 56685636--56688368 Score: 2059
Period size: 573 Copynumber: 5.0 Consensus size: 553
56685626 AAATTACAAG
* * *
56685636 ATGGGTTTATAGAAGTTTCATGATAAAAATAATAATA-TTT-T------AT-ACACAATAGATGA
1 ATGGGTTTACAGTAGTTTCATGATAAAAATAATAATATTTTATAACAAGATGACACAATAGGTGA
* * *** * * *
56685692 AATCGTCGTATCAGTTTTTTTT-ATTAAAATTGTTTCAGCAATAATTTCATTATAAAAAGAATAA
66 AATCGTTGTATCAATTTTTTTTAATTAAAATTGCCACCGCAACAATTTCATGAT--AAA-AATAA
* * * * * * ** * *
56685756 TATTTTTATATTAAGACGATACAATGGGTGCAATCGTTGTACCAGGCGGCAGTTTCTCATATAAA
128 TAATTTTATAATAAGACGACAAAATGGGTGAAACCGTCATATCAGGCGGCAATTTCTCATAT-AA
* * * * *
56685821 AAAAAATATTTTCAAAGCCGAACATTACACCCTTGACATGTTTTAACATTTCTTAAAAAAAA-AT
192 AAAATAT-TTTTCAAAGCCGAACGTTACACCCTTGACATGTTTTAACAATTC-CAAAAAAAATTT
* * * * * * * * *
56685885 TTTGAGGCGTTACACCCTTAAAG-TGAAACGTTCCTCTCTTCTTTGTCCCTTAGTT-GTATTTGC
255 TTTGGGGCATTACACCCTTAAAGCCG-AATGTTCCTCACTTCTTTCTTCCTTGGTTCG-GTTTGC
* *
56685948 AC---G-AAA-A---AAA-------G-TTTTACCACCTATTCTCATTATCACATATGTTCTATTT
318 ACGAAGAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTCCCATTATCACATATGTTCTATTT
56685997 AATTAAATTTTCATTTTATAATTTTAATTACTAATGTTTTATAATATAGCATACATACTTACTTC
383 AATTAAATTTTCATTTTATAATTTTAATTACTAATGTTTTATAATATAGCATACATACTTACTTC
56686062 AATAACATGCCACATATATATATATATATATATATATATATATATATATAGGTAGAAGTACTATT
448 AATAACA-GCCAC--------------ATATATAT-TATATATATATATAGGTAGAA-TACTATT
*
56686127 TAACCCCTTTAAATTAAGTTCTAATTATAAATCTTTAAGCAAGTTACAAGATGATACA
496 TAACCCCTTTAAATTAAGTTCTAATTATAAATCTTTAAGCAAATTACAAGATGATACA
* *** * * * *
56686185 ATGGGTATACAACGGTTTCATGATAATAATAATAATATTTTATAATAAGATGGCACAATGGGTGA
1 ATGGGTTTACAGTAGTTTCATGATAAAAATAATAATATTTTATAACAAGATGACACAATAGGTGA
* *
56686250 AATCGTTGTATCAATTTTTTTTAATTAAAATTGCCACGGCAACAATTTCATGATAATAATAATAA
66 AATCGTTGTATCAATTTTTTTTAATTAAAATTGCCACCGCAACAATTTCATGATAAAAATAATAA
* * * * *
56686315 TTTTATAACAAGACGACAAAATGCGTGGAATCGTCATATCAGGTGGCAATTTCTCATATAAAAAA
131 TTTTATAATAAGACGACAAAATGGGTGAAACCGTCATATCAGGCGGCAATTTCTCATATAAAAAA
* * ** **
56686380 TATTTTTAAAAAGCCGAACATTACACCCTTGACATGTTTTAACACCTCCAAAAACGATTTTTTGG
196 TATTTTT-CAAAGCCGAACGTTACACCCTTGACATGTTTTAACAATTCCAAAAAAAATTTTTT--
* * *
56686445 GGGGCATTACACCCTTAAAGCCGAATGTTCCTCACTTCCTTATTGCTTGGTTCGGTTTGCACGAA
258 GGGGCATTACACCCTTAAAGCCGAATGTTCCTCACTTCTTTCTTCCTTGGTTCGGTTTGCACGAA
* * *
56686510 GAAAAGATGGAAATGTCTTTGCTTTTGCCACCTATTCCCATTATCACATATGTTATATTTAATTA
323 GAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTCCCATTATCACATATGTTCTATTTAATTA
*** *
56686575 AATTTTCATTTTATAATTTTAATTACGGGTGTTTTATAATATAACATACATACTTACTTCAATAG
388 AATTTTCATTTTATAATTTTAATTACTAATGTTTTATAATATAGCATACATACTTACTTCAATA-
* * * ** *
56686640 CCCGCCACATATATATTCTAGGTATA-AT---T---ATA--ATTTAACCCCTTTAAATTAAGTTT
452 ACAGCCACATATATATTATATATATATATAGGTAGAATACTATTTAACCCCTTTAAATTAAGTTC
* *
56686696 TAATTATACATCCTTAAGCAAATTACAAGATGATACA
517 TAATTATAAATCTTTAAGCAAATTACAAGATGATACA
* * * * * * *
56686733 ATGAGTTTATAGTAATTTCATAATAAAAATAATAATAATTTATAACAAGATAACACAAAAGGTGA
1 ATGGGTTTACAGTAGTTTCATGATAAAAATAATAATATTTTATAACAAGATGACACAATAGGTGA
* * * *
56686798 AACTGTCGTAATATAT-ATATATATATATATATATATATTTTGTTAAAATTGCCTCTGCAACGAT
66 AA---TCGT--TGTATCA-AT-T-T-T-T-T-T-TA-A-----TTAAAATTGCCACCGCAACAAT
* * *
56686862 TTCATGATAAAAATAATACTATTTTTATAATAAAACGTCACAATGGGTGAAACCGTCGA-ATCAG
112 TTCATGATAAAAATAATA--A-TTTTATAATAAGACGACAAAATGGGTGAAACCGTC-ATATCAG
* * ** * * *
56686926 GCGACAGTTTCTCATATAAAAAA-ATATTTTCAAAGTTTGAACGTTACACCTTTGACTTATTTTA
173 GCGGCAATTTCTCATATAAAAAATAT-TTTTCAAAG-CCGAACGTTACACCCTTGACATGTTTTA
* ***** * * * *
56686990 ACATTTCCAAAACAAAAAAAAAAAAAAAT-GGGCGTTACACCCTTAAAGCCAAACT-TTTCTCTC
236 ACAATT-C----C--AAAAAAAATTTTTTGGGGCATTACACCCTTAAAGCCGAA-TGTTCCTCAC
* * *
56687053 TTCTTTCCTCCTTGGTTCGGTTTGCACCAAGGAAAGATGGAAATGTTTTTGTTTTTGCCACCTAT
293 TTCTTTCTTCCTTGGTTCGGTTTGCACGAAGAAAAGATGGAAATGTTTTTGTTTTTGCCACCTAT
* * *
56687118 TCCCATTATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAATTTTAATTCCTAATGTTTT
358 TCCCATTATCACATATGTTCTATTTAATTAAATTTTCATTTTATAATTTTAATTACTAATGTTTT
* *
56687183 ATAATATAGCATACATACTAACTTCAATAACCAG-C-C---------ATATATAT-TCTAGGTAG
423 ATAATATAGCATACATACTTACTTCAATAA-CAGCCACATATATATTATATATATATATAGGTAG
* * * * * *
56687236 AATGACTATTTAACCTCTTTTAACTTAAGTTCTATTTACAAATCCTTCAA-CAAATTATAAGATG
487 AAT-ACTATTTAACC-CCTTTAAATTAAGTTCTAATTATAAAT-CTTTAAGCAAATTACAAGATG
* *
56687300 ACATA
549 ATACA
*
56687305 ATGGGTTTACAGTAGTTCCATGATAAAAATAATAATATTTTATAACAAGATGACACAATAGGTGA
1 ATGGGTTTACAGTAGTTTCATGATAAAAATAATAATATTTTATAACAAGATGACACAATAGGTGA
** * * * *
56687370 ACCCCTCGTATC-ATTTTTTTT-GTTAAAATTGTCACCGCAACAATTTCATGATACAAAGAATAA
66 AATCGTTGTATCAATTTTTTTTAATTAAAATTGCCACCGCAACAATTTCATGAT--AAA-AATAA
* * * * * * * *
56687433 TATTTTTATAATAAGATGA-AAGGATGGGTGTAACCATCGTATAAGGCGGCATTTTCTCATATAA
128 TAATTTTATAATAAGACGACAA-AATGGGTGAAACCGTCATATCAGGCGGCAATTTCTCATATAA
* *
56687497 GAAAATA-TTTTCATATCCGAACGTTACACCCTTG-CATGTTTTAACAATTCCAAGAACAAAATT
192 -AAAATATTTTTCAAAGCCGAACGTTACACCCTTGACATGTTTTAACAATTCCAA-AA-AAAATT
* * * *
56687560 TTTTGGGGCATTACACCCTTAAAGCCGAACGTTCCTCATTTCTTTCTCCCTTGGTTCGATTTGCA
254 TTTTGGGGCATTACACCCTTAAAGCCGAATGTTCCTCACTTCTTTCTTCCTTGGTTCGGTTTGCA
* * *
56687625 TGAAGAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTTCCATTATCACTTATGTTCTATTTA
319 CGAAGAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTCCCATTATCACATATGTTCTATTTA
* *
56687690 ATTAAATTTTAATTTTATAATTTTAATTACTAATGTTTTATAATAT---AT-CATACTTACTTTA
384 ATTAAATTTTCATTTTATAATTTTAATTACTAATGTTTTATAATATAGCATACATACTTACTTCA
* *
56687751 ATAACCAG-C-CATATATATTAT-TGGTATA-AT---T---AT--TGTTTAACCCCTTTAAATT-
449 ATAA-CAGCCACATATATATTATAT-ATATATATAGGTAGAATACTATTTAACCCCTTTAAATTA
* * * *
56687803 AG-----A-TATAAATCCTTAAGTAAATTACAAAATGACACA
512 AGTTCTAATTATAAATCTTTAAGCAAATTACAAGATGATACA
* * *
56687839 ATGGGTTTACAGCAGTTTCATGATAAAAATAATAATATTTTATAACAAGATAACACAATGGGTGA
1 ATGGGTTTACAGTAGTTTCATGATAAAAATAATAATATTTTATAACAAGATGACACAATAGGTGA
* ** ** * * *
56687904 AATTGTCATATCAATTTTTTTTTTGTTAAAATTGCCTCCGCAACAATTTCATGTTAAAAATGATA
66 AATCGTTGTATCAA-TTTTTTTTAATTAAAATTGCCACCGCAACAATTTCATGATAAAAATAATA
* * * * * *
56687969 ATATTT-T--T-ATA--AC--AA-----G--A-CGACACA--ATGAGGCAGTTTCTCATATAAAA
130 AT-TTTATAATAAGACGACAAAATGGGTGAAACCGTCATATCAGGCGGCAATTTCTCATATAAAA
* * * * * * * *
56688016 AAAATATTGTAAAAGTCGAACGTTACACACTTGACATGTTTTAACATTTCAAAAAATAAAAATTT
194 AATAT-TTTTCAAAGCCGAACGTTACACCCTTGACATGTTTTAACAATTC-CAAAA-AAAATTTT
** * * * * * * * *
56688081 TTCTGGCATTACACTCTTAAAACAGAA-GTTACTCTCTTATTTC-TCACTTGATTTGGTTTGCAC
256 TTGGGGCATTACACCCTTAAAGCCGAATGTTCCTCACTTCTTTCTTC-CTTGGTTCGGTTTGCAC
* * * *
56688144 AAAGAAAAGATGGAAA---TATT-TTTTTCCCACCTATTCCCATTATCACTTATGTTCTATTTAA
320 GAAGAAAAGATGGAAATGTTTTTGTTTTTGCCACCTATTCCCATTATCACATATGTTCTATTTAA
* * *
56688205 -TAAAATTTCATTTTATAATTTTAATTACAAATGTTTTATAATATAGCATACAAACTTACTTCAA
385 TTAAATTTTCATTTTATAATTTTAATTACTAATGTTTTATAATATAGCATACATACTTACTTCAA
* * *
56688269 TAACAG--AC-----CA-TATATATAT-TCTAGGTATAATTACTATTTAACCCCTTTAAATTAAG
450 TAACAGCCACATATATATTATATATATATATAGGTAGAA-TACTATTTAACCCCTTTAAATTAAG
* *
56688325 TTCTAATTAAAAAT-TCTTAAGCAAATTACAAGATGACACA
514 TTCTAATTATAAATCT-TTAAGCAAATTACAAGATGATACA
56688365 ATGG
1 ATGG
56688369 TTGAAACCGC
Statistics
Matches: 1759, Mismatches: 288, Indels: 297
0.75 0.12 0.13
Matches are distributed among these distances:
510 7 0.00
511 2 0.00
513 42 0.02
514 39 0.02
515 3 0.00
516 12 0.01
517 35 0.02
518 61 0.03
519 67 0.04
520 5 0.00
522 1 0.00
525 1 0.00
526 32 0.02
527 1 0.00
529 1 0.00
531 2 0.00
532 1 0.00
533 4 0.00
534 97 0.06
535 7 0.00
536 8 0.00
537 28 0.02
540 2 0.00
541 8 0.00
542 29 0.02
543 4 0.00
544 2 0.00
545 8 0.00
546 154 0.09
548 110 0.06
549 32 0.02
550 18 0.01
551 28 0.02
552 81 0.05
553 10 0.01
554 16 0.01
555 57 0.03
556 56 0.03
557 54 0.03
558 40 0.02
559 35 0.02
560 4 0.00
561 5 0.00
562 8 0.00
563 1 0.00
564 1 0.00
565 5 0.00
566 38 0.02
567 3 0.00
568 9 0.01
569 86 0.05
570 2 0.00
571 9 0.01
572 97 0.06
573 281 0.16
574 3 0.00
576 7 0.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (553 bp):
ATGGGTTTACAGTAGTTTCATGATAAAAATAATAATATTTTATAACAAGATGACACAATAGGTGA
AATCGTTGTATCAATTTTTTTTAATTAAAATTGCCACCGCAACAATTTCATGATAAAAATAATAA
TTTTATAATAAGACGACAAAATGGGTGAAACCGTCATATCAGGCGGCAATTTCTCATATAAAAAA
TATTTTTCAAAGCCGAACGTTACACCCTTGACATGTTTTAACAATTCCAAAAAAAATTTTTTGGG
GCATTACACCCTTAAAGCCGAATGTTCCTCACTTCTTTCTTCCTTGGTTCGGTTTGCACGAAGAA
AAGATGGAAATGTTTTTGTTTTTGCCACCTATTCCCATTATCACATATGTTCTATTTAATTAAAT
TTTCATTTTATAATTTTAATTACTAATGTTTTATAATATAGCATACATACTTACTTCAATAACAG
CCACATATATATTATATATATATATAGGTAGAATACTATTTAACCCCTTTAAATTAAGTTCTAAT
TATAAATCTTTAAGCAAATTACAAGATGATACA
Found at i:56686815 original size:2 final size:2
Alignment explanation
Indices: 56686808--56686835 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56686798 AACTGTCGTA
56686808 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56686836 TTTGTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56692576 original size:2 final size:2
Alignment explanation
Indices: 56692569--56692598 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56692559 ATAGCCCGCC
56692569 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56692599 TCTTGGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56693811 original size:29 final size:29
Alignment explanation
Indices: 56693750--56693811 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
56693740 TGTATGGTCG
*
56693750 TGTGGTTGGCCGTGTACGAGACACGATCC
1 TGTGGTTGGCCGTGTACGAGACACGAGCC
**
56693779 TGTGGTTGGCCGTGTGTGAGACACG-GCC
1 TGTGGTTGGCCGTGTACGAGACACGAGCC
56693807 ATGTG
1 -TGTG
56693812 TCTAAAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.15, C:0.21, G:0.39, T:0.26
Consensus pattern (29 bp):
TGTGGTTGGCCGTGTACGAGACACGAGCC
Found at i:56702420 original size:46 final size:45
Alignment explanation
Indices: 56702369--56702677 Score: 329
Period size: 46 Copynumber: 6.7 Consensus size: 45
56702359 GGCATCCAAA
* *
56702369 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGAG
* *** * * *
56702415 CTCGTTGAGTTGAGTCCGACTTCGAGAGATGTAACTAG-GCA-TCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCGAG
*
56702462 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGAG
*** * *
56702508 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCGAG
*
56702555 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGAG
*
56702601 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGAG
56702647 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56702678 GCGGGTTACA
Statistics
Matches: 220, Mismatches: 29, Indels: 28
0.79 0.10 0.10
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 2 0.01
46 138 0.63
47 62 0.28
48 2 0.01
49 6 0.03
50 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCGAG
Found at i:56702477 original size:47 final size:47
Alignment explanation
Indices: 56702409--56702577 Score: 202
Period size: 47 Copynumber: 3.6 Consensus size: 47
56702399 GATGCGAATG
* *
56702409 TCCGAACTCGTTGAGTTGAGTCCGACTTCGAGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* *** * *
56702456 TCTGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA
*
56702500 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
56702549 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
56702578 ACTTATGGAT
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.31
47 58 0.59
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:56702518 original size:93 final size:93
Alignment explanation
Indices: 56702359--56702677 Score: 455
Period size: 93 Copynumber: 3.4 Consensus size: 93
56702349 AGGATATTTG
* * *
56702359 GGCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
56702424 TTGAGTCCGACTTCGAGAGATGTAACTA
66 TTGAGTCCGACTTCGAGAGATGTAACTA
*
56702452 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
56702517 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGACTTCGAGAGATGTAACTA
* * *
56702545 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
* *** * * *
56702610 TTGAGTCCGAGTTC-ACTTATGGATGCGAA
66 TTGAGTCCGACTTCGAGAGATGTA-AC-TA
*
56702639 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56702678 GCGGGTTACA
Statistics
Matches: 208, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
92 41 0.20
93 164 0.79
94 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGACTTCGAGAGATGTAACTA
Found at i:56708827 original size:46 final size:45
Alignment explanation
Indices: 56708777--56708952 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
56708767 TGGTTGAGCA
56708777 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
56708823 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
56708870 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56708916 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56708953 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56708933 original size:93 final size:93
Alignment explanation
Indices: 56708774--56708944 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56708764 GGATGGTTGA
* *
56708774 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56708839 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
56708867 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56708932 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56708945 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:56712102 original size:46 final size:47
Alignment explanation
Indices: 56712002--56712217 Score: 197
Period size: 46 Copynumber: 4.7 Consensus size: 47
56711992 AGGATATTTG
*
56712002 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATG-GATGCGAA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG---A-GAGATG-TAACTA
56712051 -G--TCCGAACTCGTTGAG-TGAGTCCGAGTTCGAGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
* *** *
56712094 GGCATCCGAGCTCGTTGAGTTGAGT-CGAGTTC-ACTTATG-GA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
*
56712136 GCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
*
56712186 GGCATCCGAGCTCGTTGA-TTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
56712218 ACTTATGGAT
Statistics
Matches: 138, Mismatches: 14, Indels: 33
0.75 0.08 0.18
Matches are distributed among these distances:
41 3 0.02
42 7 0.05
43 3 0.02
44 2 0.01
45 38 0.28
46 57 0.41
47 22 0.16
48 2 0.01
49 3 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:56712159 original size:45 final size:45
Alignment explanation
Indices: 56712006--56712270 Score: 249
Period size: 45 Copynumber: 5.8 Consensus size: 45
56711996 TATTTGGGCA
*
56712006 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
56712052 TCCGAACTCGTTGAG-TGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
56712098 TCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
56712143 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
56712190 TCCGAGCTCGTTGA-TTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
56712235 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56712271 GCGGGTTACA
Statistics
Matches: 178, Mismatches: 24, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.01
43 6 0.03
44 15 0.08
45 63 0.35
46 60 0.34
47 23 0.13
48 4 0.02
49 4 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56712168 original size:92 final size:93
Alignment explanation
Indices: 56712002--56712262 Score: 458
Period size: 92 Copynumber: 2.8 Consensus size: 93
56711992 AGGATATTTG
* *
56712002 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
56712067 -TGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
56712094 GGCATCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
56712158 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
56712186 GGCATCCGAGCTCGTTGA-TTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
56712249 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
56712263 ACTTATGGGC
Statistics
Matches: 163, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
91 71 0.44
92 92 0.56
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:56719979 original size:13 final size:13
Alignment explanation
Indices: 56719961--56719985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56719951 GCTCGACAAG
56719961 GACACGCCCGTGT
1 GACACGCCCGTGT
56719974 GACACGCCCGTG
1 GACACGCCCGTG
56719986 CGGTGTGGCT
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:0.16, C:0.40, G:0.32, T:0.12
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:56721963 original size:18 final size:18
Alignment explanation
Indices: 56721940--56721975 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56721930 AAAAGTAAGT
*
56721940 TAAAAAGATAAATAAATA
1 TAAAAAGAAAAATAAATA
*
56721958 TAAAAATAAAAATAAATA
1 TAAAAAGAAAAATAAATA
56721976 AAAGATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
TAAAAAGAAAAATAAATA
Found at i:56722352 original size:160 final size:160
Alignment explanation
Indices: 56722088--56722452 Score: 561
Period size: 160 Copynumber: 2.3 Consensus size: 160
56722078 GACAGTTTTA
** * * *
56722088 ACCACGGGTGGTGGGCACGATCGTGTCGCACGCCCGTGGTAATTTCTCAGTTTTTACCATGGCTT
1 ACCACGGGTGGTGGGCACGGGCGTGTCGCACGCCCGTGTTAATTTCTCAGTTTCTACCACGGCTT
** * *
56722153 ATAGACATGGGCGTGTTGTACACCGTGTCCTACTTCGTTCGCTTCTCCCACGCCTGTGTATGTAT
66 ATAGACACAGGCGTGTTGTACACCGTATCCTACTTCGTTCGCTTCTCCCACGCCCGTGTATGTAT
56722218 GCGCACGCCCGTGTTATTTCGACAATTTCG
131 GCGCACGCCCGTGTTATTTCGACAATTTCG
* *
56722248 ACCACGGGTGGTGGGTACGGGCGTGTCTCACGCCCGTGTTAATTTCTCAGTTTCTACCACGGCTT
1 ACCACGGGTGGTGGGCACGGGCGTGTCGCACGCCCGTGTTAATTTCTCAGTTTCTACCACGGCTT
56722313 ATAGACACAGGCGTGTT-TCACACCGTATCCTACTTCGTTCGCTTCTCCCACGCCCGTGTATGTA
66 ATAGACACAGGCGTGTTGT-ACACCGTATCCTACTTCGTTCGCTTCTCCCACGCCCGTGTATGTA
* * *
56722377 TGTGTACGCCCGTGTTATTTCGACAATTTTG
130 TGCGCACGCCCGTGTTATTTCGACAATTTCG
* * *
56722408 CCCACGGGTGGTGGGCACAGGCGTGTCGCATGCCCGTGTTAATTT
1 ACCACGGGTGGTGGGCACGGGCGTGTCGCACGCCCGTGTTAATTT
56722453 GGCAGGATTG
Statistics
Matches: 185, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
159 1 0.01
160 184 0.99
ACGTcount: A:0.16, C:0.28, G:0.26, T:0.31
Consensus pattern (160 bp):
ACCACGGGTGGTGGGCACGGGCGTGTCGCACGCCCGTGTTAATTTCTCAGTTTCTACCACGGCTT
ATAGACACAGGCGTGTTGTACACCGTATCCTACTTCGTTCGCTTCTCCCACGCCCGTGTATGTAT
GCGCACGCCCGTGTTATTTCGACAATTTCG
Found at i:56730366 original size:49 final size:49
Alignment explanation
Indices: 56730266--56730403 Score: 152
Period size: 49 Copynumber: 2.8 Consensus size: 49
56730256 ACCATTGTTA
* * * * **
56730266 ATGAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATTTAAG
1 ATGAGATCTCGTGTAAGACCATGTCTGGGACATAGCATCGACATCCAAG
* *
56730315 ATGAGATCTCGTGTAAGACTATGTCTGGGACATAGCATCGACATCCGAG
1 ATGAGATCTCGTGTAAGACCATGTCTGGGACATAGCATCGACATCCAAG
* * * *
56730364 ATGAGAGC-CAGTATAAGACCATATCTGGGACATAACATCG
1 ATGAGATCTC-GTGTAAGACCATGTCTGGGACATAGCATCG
56730404 GCGTTGATAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 74 0.99
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
ATGAGATCTCGTGTAAGACCATGTCTGGGACATAGCATCGACATCCAAG
Found at i:56730523 original size:48 final size:49
Alignment explanation
Indices: 56730473--56730641 Score: 175
Period size: 48 Copynumber: 3.5 Consensus size: 49
56730463 TGTGCCAGTG
*
56730473 TAAGACCATATCTGGGATATGGCATTGGCATCAG-TATGAGATCCCATG
1 TAAGACCATATCTGGGATATGGCATTGGCATCAGATATGAGATCCCATA
* * * * *
56730521 TAAGACCATATCTGGGATATGACATTGGCAT-TGCTATGAGGTCCCGTA
1 TAAGACCATATCTGGGATATGGCATTGGCATCAGATATGAGATCCCATA
* * * * * * * *
56730569 TAAGACCATGTCTGAGACATGCCATCGGCA-CCGACATGAGA-CTTCATA
1 TAAGACCATATCTGGGATATGGCATTGGCATCAGATATGAGATC-CCATA
56730617 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
56730642 CGATATGTAG
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
47 2 0.02
48 96 0.98
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (49 bp):
TAAGACCATATCTGGGATATGGCATTGGCATCAGATATGAGATCCCATA
Found at i:56730529 original size:96 final size:96
Alignment explanation
Indices: 56730277--56730537 Score: 231
Period size: 96 Copynumber: 2.7 Consensus size: 96
56730267 TGAGATCTCA
* * * *
56730277 TGTAAGACCATGTCTGGGACATGGCATTGGCATTTAAG-ATGAGATCTCGTGTAAGACTATGTCT
1 TGTAAGACCATATCTGGGACATGGCATTGGCA--T-AGTATGAGATCCCATGTAAGACCATGTCT
56730341 GGGACATAGCATCGACATCCGAGATGAGAGCCAG
63 GGGACATAGCATCGACATCCGAGATGAGAGCCAG
* ** * * * * * * * *
56730375 TATAAGACCATATCTGGGACATAACATCGGCGTTGATATGTG-TGCTAGCGTAAAACCATGTCTG
1 TGTAAGACCATATCTGGGACATGGCATTGGCATAG-TATGAGATCCCA-TGTAAGACCATGTCTG
* * * * * * *
56730439 GGACATGGCATCGGCGT-TGATATGTGTGCCAG
64 GGACATAGCATCGACATCCGAGATGAGAGCCAG
* *
56730471 TGTAAGACCATATCTGGGATATGGCATTGGCATCAGTATGAGATCCCATGTAAGACCATATCTGG
1 TGTAAGACCATATCTGGGACATGGCATTGGCAT-AGTATGAGATCCCATGTAAGACCATGTCTGG
56730536 GA
65 GA
56730538 TATGACATTG
Statistics
Matches: 123, Mismatches: 35, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
95 1 0.01
96 61 0.50
97 35 0.28
98 26 0.21
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (96 bp):
TGTAAGACCATATCTGGGACATGGCATTGGCATAGTATGAGATCCCATGTAAGACCATGTCTGGG
ACATAGCATCGACATCCGAGATGAGAGCCAG
Found at i:56730643 original size:48 final size:48
Alignment explanation
Indices: 56730266--56730643 Score: 174
Period size: 48 Copynumber: 7.8 Consensus size: 48
56730256 ACCATTGTTA
* * * * * ** *
56730266 ATGAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATTTAAG
1 ATGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCA-TCGAC
* * * * * * * * *
56730315 ATGAGATCTCGTGTAAGACTATGTCTGGGACATAGCATCGACATCCGAG
1 ATGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCAT-CGAC
* * ** * * *
56730364 ATGAGA-GCCAGTATAAGACCATATCTGGGACATAACATCGGCGTTGAT
1 ATGAGATCCCA-TATAAGACCATATCTGGGATATGGCATCGGCATCGAC
* * * ** * * * * * *
56730412 ATGTG-TGCTAGCGTAAAACCATGTCTGGGACATGGCATCGGCGTTGAT
1 ATGAGATCCCA-TATAAGACCATATCTGGGATATGGCATCGGCATCGAC
* * * * *
56730460 ATGTG-TGCCAGTGTAAGACCATATCTGGGATATGGCATTGGCATC-AGT
1 ATGAGATCCCA-TATAAGACCATATCTGGGATATGGCATCGGCATCGA-C
* * * *
56730508 ATGAGATCCCATGTAAGACCATATCTGGGATATGACATTGGCATTG-C
1 ATGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGAC
* * * * * * *
56730555 TATGAGGTCCCGTATAAGACCATGTCTGAGACATGCCATCGGCACCGAC
1 -ATGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGAC
*
56730604 ATGAGA-CTTCATATAAGACCATATCTGGGATATGGCATCG
1 ATGAGATC-CCATATAAGACCATATCTGGGATATGGCATCG
56730644 ATATGTAGAC
Statistics
Matches: 264, Mismatches: 56, Indels: 19
0.78 0.17 0.06
Matches are distributed among these distances:
47 2 0.01
48 184 0.70
49 78 0.30
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (48 bp):
ATGAGATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGAC
Found at i:56733651 original size:551 final size:541
Alignment explanation
Indices: 56732454--56734132 Score: 1932
Period size: 551 Copynumber: 3.1 Consensus size: 541
56732444 TCTAGGTAAC
* * * * *
56732454 TTAAGTTCTAATTTTAAATCCTTAAGTAAATTACAAGATGATGCAATGGGTTTATAGTAGTTCCA
1 TTAAGTTCTAATTATAAATCCTTAAGCAAATTACAAGATGAGGCAATGGGTTTACAGTAGTTTCA
* * * ***
56732519 TGATAAAAATAACAACATTTTATAACAAGATGATACAATGGGTGAAACCG--TT-GTATCAGTTT
66 TGATAAAAATAAAAATATTTTATAACAAGATGACACAATGGGTGAAACCGTATTAGT-TTTTTTT
* * * *
56732581 TTTTATTAAAATT---T---TAACAATTTCATGATAAAAAGAATAATATTTTTATAATAAGATGA
130 TTTTGTTAAAATTGCCTCCGAAACAA-TTCATGATAAAAATAATAATATTTTTATAATAAGACGA
* * * ** * * *
56732640 CACAATGGGTGTAACCATCGTATGAGGTGGTAGATTCTCATATAAAAAAAATATTTTCAAAGGCT
194 CACAAT-GGTG-AAACGTCGTATCAACTGGTAGTTTCTCATAT-AAAAAAATATTTTCAAAGCCA
* * * * * * * *
56732705 AATGTTACACCCTTAACAAGTTTTAGCAATTACAAGAACAAAAATTTTTGGGGTGTTACACCCTT
256 AACGTTACACCCTTGACATGTTTTAACATTTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTT
* * * * * * * * *
56732770 AAAGCCGAAAGCTCGTCTCTTCTTTCTCACTTTGTTCGGTTTACACAAAAAAAGATGGAAATGTT
321 AAAGCCGAACGTTCCTCTCTTATTTCTCACTTGGTTCGGTTTGCAGAAGAAAAGATGGAAATCTT
* *
56732835 TTTTTTTG-CATTC-TATTCCCATGATCACTTATGTTCTATTTAATTAAAATTTCATTTTATAAT
386 TTTTTTTGCCA--CGTATTCCCATTATCACTTATGTTCTATTTAATTAAATTTTCATTTTATAAT
** * *
56732898 TTTAATTACTAACATTTTATAATATAACTTACATACTTACTTCAATAACCCGCCATATATATATA
449 TTTAATTACTAATGTTTTATAATATAACATACATACTTTCTTCAATAA-CCGCC----ATATATA
* *
56732963 TTCTAGGTATAATTACTATTTAGCCCCTTTGAA
509 TTCTAGGTATAATTACTATTTAACCCCTTTAAA
* ** * ** *
56732996 TTAAGATCTAATTATACTTCCTTAAGCAAATTACAAGATG-GCACAATGGGTTTACAACAATTTC
1 TTAAGTTCTAATTATAAATCCTTAAGCAAATTACAAGATGAG-GCAATGGGTTTACAGTAGTTTC
*
56733060 ATGATAAAAATAAAAATATTTTATAACAAGATGACACAATGGATGAAACTAACGTATTAGTTTTT
65 ATGATAAAAATAAAAATATTTTATAACAAGATGACACAATGGGTGAAAC---CGTATTAGTTTTT
56733125 TTTTTTTGTTAAAATTGCCTCCGAAACAATATCATGATAAAAATAATAATATTTTTATAATAAGA
127 TTTTTTTGTTAAAATTGCCTCCGAAACAAT-TCATGATAAAAATAATAATATTTTTATAATAAGA
* * * **
56733190 CGACACAATAGGTGAAATCGTTGTATCAATTGGCAGTTTCTCATATAAAAAAATATTTTCAAAAT
191 CGACACAAT-GGTGAAA-CGTCGTATCAACTGGTAGTTTCTCATATAAAAAAATATTTTCAAAGC
* * *
56733255 CAAACATTACACCCTTGACATGTTTTAACATTTCCAAAAACAAAAGTTTTTGGGGCATTACACCC
254 CAAACGTTACACCCTTGACATGTTTTAACATTTCCAAAAACAAAAATTTTTGGGGCGTTACACCC
* *
56733320 TTAAAGTCGAACGTTCCTCTCTTATTTCTCACTTGGTTCGGTTTGTATGAAGAAAAGATGGAAAT
319 TTAAAGCCGAACGTTCCTCTCTTATTTCTCACTTGGTTCGGTTTGCA-GAAGAAAAGATGGAAAT
* * * *
56733385 ATTTTTGTTTTTGCCACGTATTCCCATTATTACTTATGCTCTTTTTAATTAAATTTTCATTTTAT
383 -CTTTT-TTTTTGCCACGTATTCCCATTATCACTTATGTTCTATTTAATTAAATTTTCATTTTAT
* *
56733450 AGTTTTAATTAATAATGTTTTATAATATAACATACATACTTTCTTCAATAACCGACCATATATAT
446 AATTTTAATTACTAATGTTTTATAATATAACATACATACTTTCTTCAATAACCG-CCATATATAT
* *
56733515 TCTTGGTATAATTATTATTTAACCCCTTTAAA
510 TCTAGGTATAATTACTATTTAACCCCTTTAAA
* * *
56733547 TTAAGTTCTAGA-TATAAATCCTTAAGCAAATCACAAGATGAGGCAACGGGTTTACAGTAGTTTT
1 TTAAGTTCTA-ATTATAAATCCTTAAGCAAATTACAAGATGAGGCAATGGGTTTACAGTAGTTTC
* * ** *
56733611 ATGATAAAAATAATAATATTTTATAACAAGATGGCACAATGGGTGAAACCGTCGTA-TCAATTTT
65 ATGATAAAAATAAAAATATTTTATAACAAGATGACACAATGGGTGAAACCGTATTAGT--TTTTT
* *
56733675 TTTTTTGTTAAAATTGCCTCCGCAGCAAGTTCATGATAATAATAATAATAATAATACTTTTATAA
128 TTTTTTGTTAAAATTGCCTCCGAAACAA-TTCATGAT-A-AA-AATAATAAT-AT--TTTTATAA
* * * *
56733740 TAAGACGACACAATGATTGAAACTGTCGAATCAAGCT-GTA-TTTCTCATGTAAAAATATATTTT
186 TAAGACGACACAATG-GTGAAAC-GTCGTATCAA-CTGGTAGTTTCTCATATAAAAAAATATTTT
* *
56733803 CAAAGCCAAACGTTACACCTTTGACATGTTTTAACATTTCCAAAAA-AAAAATTGTT---GCGTT
248 CAAAGCCAAACGTTACACCCTTGACATGTTTTAACATTTCCAAAAACAAAAATTTTTGGGGCGTT
*
56733864 ACACCCTTAAAGCCAAACGTTCCTCTCTTATTTCTCACTTGGTTCGGTTTGCACGAAGAAAAGAT
313 ACACCCTTAAAGCCGAACGTTCCTCTCTTATTTCTCACTTGGTTCGGTTTGCA-GAAGAAAAGAT
*
56733929 GGAAATGCTTTTTTTTTGCC-TGCTATTCCCATTATCACTTATGTTCTATTTAATTAAATTTTCA
377 GGAAAT-CTTTTTTTTTGCCACG-TATTCCCATTATCACTTATGTTCTATTTAATTAAATTTTCA
* * *
56733993 TTTTATAAATTTCATTACTAATGTTTTATAATATAACATACATA---T-TTCAATAATCGGCCAT
440 TTTTATAATTTTAATTACTAATGTTTTATAATATAACATACATACTTTCTTCAATAA-CCGCCAT
* * *
56734054 AAATATTCTGGGTATAATTACTATTTAACCCCTTAAAA
504 ATATATTCTAGGTATAATTACTATTTAACCCCTTTAAA
*
56734092 TTAAGTTCTAATTATAAATTCTTAAGCAAATTACAAGATGA
1 TTAAGTTCTAATTATAAATCCTTAAGCAAATTACAAGATGA
56734133 CATAATGGGT
Statistics
Matches: 974, Mismatches: 125, Indels: 73
0.83 0.11 0.06
Matches are distributed among these distances:
542 96 0.10
544 1 0.00
545 85 0.09
546 3 0.00
547 19 0.02
548 8 0.01
549 123 0.13
550 78 0.08
551 134 0.14
552 123 0.13
553 96 0.10
554 73 0.07
555 132 0.14
556 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (541 bp):
TTAAGTTCTAATTATAAATCCTTAAGCAAATTACAAGATGAGGCAATGGGTTTACAGTAGTTTCA
TGATAAAAATAAAAATATTTTATAACAAGATGACACAATGGGTGAAACCGTATTAGTTTTTTTTT
TTTGTTAAAATTGCCTCCGAAACAATTCATGATAAAAATAATAATATTTTTATAATAAGACGACA
CAATGGTGAAACGTCGTATCAACTGGTAGTTTCTCATATAAAAAAATATTTTCAAAGCCAAACGT
TACACCCTTGACATGTTTTAACATTTCCAAAAACAAAAATTTTTGGGGCGTTACACCCTTAAAGC
CGAACGTTCCTCTCTTATTTCTCACTTGGTTCGGTTTGCAGAAGAAAAGATGGAAATCTTTTTTT
TTGCCACGTATTCCCATTATCACTTATGTTCTATTTAATTAAATTTTCATTTTATAATTTTAATT
ACTAATGTTTTATAATATAACATACATACTTTCTTCAATAACCGCCATATATATTCTAGGTATAA
TTACTATTTAACCCCTTTAAA
Found at i:56735568 original size:40 final size:39
Alignment explanation
Indices: 56735523--56735649 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
56735513 CGGAACATAA
56735523 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
56735563 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56735603 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
56735643 CCGGATA
1 CCGGATA
56735650 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56735667 original size:40 final size:40
Alignment explanation
Indices: 56735539--56735689 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
56735529 ATAACCATGT
* * *
56735539 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
56735579 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
56735619 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
56735659 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATA
56735690 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:56735673 original size:80 final size:80
Alignment explanation
Indices: 56735539--56735688 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
56735529 ATAACCATGT
* *
56735539 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
56735603 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
56735619 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
56735682 CCCGGAT
64 CCCGGAT
56735689 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:56741930 original size:29 final size:29
Alignment explanation
Indices: 56741897--56741970 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56741887 CCTTCGAGCT
56741897 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56741926 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56741955 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56741971 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56741931 original size:58 final size:58
Alignment explanation
Indices: 56741838--56741970 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
56741828 ATACTCGATT
* * * * *
56741838 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
56741896 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
56741954 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
56741971 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:56747436 original size:29 final size:29
Alignment explanation
Indices: 56747403--56747476 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56747393 CCTTCGAGCT
56747403 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56747432 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56747461 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56747477 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56747437 original size:58 final size:58
Alignment explanation
Indices: 56747344--56747476 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
56747334 ATACTCGATT
* * * * *
56747344 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
56747402 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
56747460 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
56747477 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:56752245 original size:40 final size:39
Alignment explanation
Indices: 56752200--56752326 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
56752190 CGGAACATAA
56752200 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
56752240 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56752280 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
56752320 CCGGATA
1 CCGGATA
56752327 AATTTCCAGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56764481 original size:2 final size:2
Alignment explanation
Indices: 56764474--56764498 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56764464 ATTTCAATGC
56764474 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
56764499 TAACACGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56764767 original size:18 final size:18
Alignment explanation
Indices: 56764731--56764769 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
56764721 TAAATTTTAC
* **
56764731 AATTTGAATTACTTGAAT
1 AATTTGAATAACTCAAAT
56764749 AATTTGAATAACTCAAAT
1 AATTTGAATAACTCAAAT
56764767 AAT
1 AAT
56764770 AGATTAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (18 bp):
AATTTGAATAACTCAAAT
Found at i:56764862 original size:11 final size:10
Alignment explanation
Indices: 56764840--56764882 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
56764830 TATATTTTTT
56764840 AAATTTAAAA
1 AAATTTAAAA
56764850 AAATTTAAAA
1 AAATTTAAAA
56764860 AAATCTTAAAA
1 AAAT-TTAAAA
*
56764871 AATATATAAAA
1 AA-ATTTAAAA
56764882 A
1 A
56764883 TGTTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 14 0.47
11 14 0.47
12 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:56764870 original size:20 final size:20
Alignment explanation
Indices: 56764847--56764900 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
56764837 TTTAAATTTA
56764847 AAAAAATTTAAAAAAATCTT
1 AAAAAATTTAAAAAAATCTT
* * *
56764867 AAAAAATATATAAAAATGTT
1 AAAAAATTTAAAAAAATCTT
* *
56764887 TAAAATTTTAAAAA
1 AAAAAATTTAAAAA
56764901 TAAAAGTCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAAATTTAAAAAAATCTT
Found at i:56764901 original size:9 final size:10
Alignment explanation
Indices: 56764842--56764902 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
56764832 TATTTTTTAA
*
56764842 ATTTAAAAAA
1 ATTTAAAAAT
*
56764852 ATTTAAAAAA
1 ATTTAAAAAT
56764862 ATCTTAAAAAAT
1 AT-TT-AAAAAT
*
56764874 ATATAAAAAT
1 ATTTAAAAAT
*
56764884 GTTT-AAAAT
1 ATTTAAAAAT
56764893 -TTTAAAAAT
1 ATTTAAAAAT
56764902 A
1 A
56764903 AAAGTCCCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 3 0.07
9 10 0.23
10 20 0.47
11 3 0.07
12 7 0.16
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:56770851 original size:26 final size:28
Alignment explanation
Indices: 56770802--56770861 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
56770792 ATCATTTTTT
56770802 AAATATAAAAAGCTAAAAAGTTATTAAA
1 AAATATAAAAAGCTAAAAAGTTATTAAA
* *
56770830 AAAT-TAAAAAGTTTAAAA-TTATTAAA
1 AAATATAAAAAGCTAAAAAGTTATTAAA
*
56770856 ATATAT
1 AAATAT
56770862 TTTTTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.39
27 13 0.46
28 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
AAATATAAAAAGCTAAAAAGTTATTAAA
Found at i:56771381 original size:16 final size:16
Alignment explanation
Indices: 56771360--56771392 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56771350 GGGAAAAAGT
*
56771360 AGGAAAACGCTTTCTC
1 AGGAAAACGCTTCCTC
56771376 AGGAAAACGCTTCCTC
1 AGGAAAACGCTTCCTC
56771392 A
1 A
56771393 AGGATGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (16 bp):
AGGAAAACGCTTCCTC
Found at i:56771605 original size:11 final size:11
Alignment explanation
Indices: 56771578--56771639 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
56771568 CAATCTTCAA
56771578 TCTT-TCAATAT
1 TCTTCTCAA-AT
56771589 TC-TCTCAAAT
1 TCTTCTCAAAT
56771599 TCTTCTCAAA-
1 TCTTCTCAAAT
56771609 TC-TCTCAAAT
1 TCTTCTCAAAT
*
56771619 T-TCTCTTAAAT
1 TCT-TCTCAAAT
*
56771630 TCCTCTCAAA
1 TCTTCTCAAA
56771640 ACTCTCGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 7 0.17
10 8 0.19
11 27 0.64
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TCTTCTCAAAT
Found at i:56771629 original size:20 final size:21
Alignment explanation
Indices: 56771578--56771639 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
56771568 CAATCTTCAA
56771578 TCTT-TCAATATTCTCTCAAAT
1 TCTTCTCAA-ATTCTCTCAAAT
56771599 TCTTCTCAAA-TCTCTCAAAT
1 TCTTCTCAAATTCTCTCAAAT
*
56771619 T-TCTCTTAAATTCCTCTCAAA
1 TCT-TCTCAAATT-CTCTCAAA
56771640 ACTCTCGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 1 0.03
20 17 0.47
21 6 0.17
22 12 0.33
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTTCTCAAATTCTCTCAAAT
Found at i:56773467 original size:18 final size:18
Alignment explanation
Indices: 56773422--56773467 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
56773412 TGATGCCAGG
*
56773422 TACGTATCCTAGCCCTTT
1 TACGTATCCTAGCCCTTA
*
56773440 TATGTATCCTAGCCCTTA
1 TACGTATCCTAGCCCTTA
*
56773458 TACGTTTCCT
1 TACGTATCCT
56773468 TTTTCTAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.11, T:0.41
Consensus pattern (18 bp):
TACGTATCCTAGCCCTTA
Found at i:56774079 original size:54 final size:54
Alignment explanation
Indices: 56773901--56774198 Score: 174
Period size: 55 Copynumber: 5.2 Consensus size: 54
56773891 TAAAAGGTTG
* * *
56773901 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTTAATAAAATTG-AAATTA
1 TTTTAAATAAACTAATTATAAATTACTTTTATA-TTTTTAATAAAA-TGAAAATTA
* * * * * *
56773956 TTTTAAATAAGGCAATATTTTGAA-TATTTTTATATTATTTCATGTAATTAGAT-AAAAGGTTA
1 TTTTAAATAA-ACTA-ATTATAAATTACTTTTATATT-TTT-A-ATAA--A-ATGAAAA--TTA
* *
56774018 TTTTAAATAAATTAATTATAAATTACTTTTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAACTAATTATAAATTACTTTTATATTTTTAATAAAATGAAAATTA
* * * * * * *
56774072 TTTTAAATAAGGCAACATTTTGAA-TATTTTTATATTATTTCATGTGATAATAT-AAAAGGTTG
1 TTTTAAATAA-ACTA-ATTATAAATTACTTTTATATT-TTT-A----ATAAAATGAAAA--TTA
* **
56774134 TTTTAAATAAAGTAATTATATTTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAACTAATTATAAATTACTTTTATATTTTTAATAAAATGAAAATTA
56774188 TTTTAAATAAA
1 TTTTAAATAAA
56774199 GAAATATTTT
Statistics
Matches: 183, Mismatches: 35, Indels: 51
0.68 0.13 0.19
Matches are distributed among these distances:
54 26 0.14
55 32 0.17
56 30 0.16
57 7 0.04
58 6 0.03
59 2 0.01
60 24 0.13
61 31 0.17
62 25 0.14
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (54 bp):
TTTTAAATAAACTAATTATAAATTACTTTTATATTTTTAATAAAATGAAAATTA
Found at i:56774127 original size:116 final size:116
Alignment explanation
Indices: 56773852--56774237 Score: 619
Period size: 116 Copynumber: 3.3 Consensus size: 116
56773842 TATTTGTACA
* *
56773852 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
56773917 TGTAATTTACTTTTATATTTTTTAATAAAATTGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATA-TTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
56773969 AATATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTATTTTAAATAAATTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
56774034 TATAAATTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
56774085 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * * *
56774150 TATATTTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGA
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
56774201 AATATTTTGAATATTTTTATATTATTTCATGTAATAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAA
56774238 AATATAAATA
Statistics
Matches: 249, Mismatches: 20, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
116 173 0.69
117 76 0.31
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:56777693 original size:251 final size:251
Alignment explanation
Indices: 56777247--56777792 Score: 837
Period size: 251 Copynumber: 2.2 Consensus size: 251
56777237 GCCCAAGTTA
* * *
56777247 TTTTAGAAACCACTGTAATAAAAGAGCGTCCACGTAGG-AGCTTATTTCAGTACTTTTGCTGAAA
1 TTTTAGAGACTACTGTAACAAAAGAGCGTCCACGT-GGAAGCTTATTTCAGTACTTTTGCTGAAA
* **
56777311 ATGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTTTTT
65 ATGCATCCTACTTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTT
56777376 CAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGC
130 CAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGC
56777441 ATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATT
195 ATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATT
* * *
56777498 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTTAGAGACTACTGTAACAAAAGAGCGTCCACGTGGAAGCTTATTTCAGTACTTTTGCTGAAAA
*
56777563 TGCATCCTACTTGAAGCGTTTTTTG-CACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTT
66 TGCATCCTACTTGAAGCG-TTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTT
* * * * * *
56777627 CAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
130 CAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGC
* * *
56777692 ATCCTGCTTGAAGCGTTTTTGACATTATTTGTGCAGACACGTCTTCTCAAATTTATT
195 ATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATT
** *
56777749 TTTTCAGAGACTTTTGTAACAAAAGAGCGTCCACGTAGAAGCTT
1 TTTT-AGAGACTACTGTAACAAAAGAGCGTCCACGTGGAAGCTT
56777793 TTTTAGATTA
Statistics
Matches: 268, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
250 2 0.01
251 224 0.84
252 42 0.16
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (251 bp):
TTTTAGAGACTACTGTAACAAAAGAGCGTCCACGTGGAAGCTTATTTCAGTACTTTTGCTGAAAA
TGCATCCTACTTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTTC
AGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATT
Found at i:56777792 original size:126 final size:126
Alignment explanation
Indices: 56777266--56777784 Score: 819
Period size: 126 Copynumber: 4.1 Consensus size: 126
56777256 CCACTGTAAT
* *
56777266 AAAAGAGCGTCCACGTAGGAGCTTATTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAAGCGT
1 AAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAAGCGT
** *
56777331 TTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACCACTGTAGC
66 TTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTGTAGC
* * *
56777392 AAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCATCCTGCTTGAAGCGT
1 AAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAAGCGT
56777457 TTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTT-AGAGACTACTGTAGC
66 TTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTGTAGC
* * *
56777517 AAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTACTTGAAGCGT
1 AAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAAGCG-
* *
56777582 TTTTTG-CACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGC
65 TTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTGTAGC
*
56777643 AAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCTTGAAGCGT
1 AAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAAGCGT
* * * ** *
56777708 TTTTGACATTATTTGTGCAGACACGTCTTCTCAAATTTATTTTTTCAGAGACTTTTGTAAC
66 TTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTGTAGC
56777769 AAAAGAGCGTCCACGT
1 AAAAGAGCGTCCACGT
56777785 AGAAGCTTTT
Statistics
Matches: 362, Mismatches: 26, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
125 117 0.32
126 245 0.68
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
AAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAAGCGT
TTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTGTAGC
Found at i:56778047 original size:96 final size:98
Alignment explanation
Indices: 56777872--56778068 Score: 253
Period size: 96 Copynumber: 2.0 Consensus size: 98
56777862 TAAATACCCT
* * * **
56777872 AAAACCCTAAACTCTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAA
1 AAAACCATAAACACTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAAA
*
56777937 CCTTAAATCCTAATTTATTTGATTTTTTCCTTA
66 CCTTAAATCCTAATTTATTTAATTTTTTCCTTA
*
56777970 AAAACCATAAACACT-AAA-CCATAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAACA
1 AAAACCATAAACACTAAAATCC-TAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAACA
56778031 AACAC-TAAA-CCTTAATTTATTTAATTTTTTCCTTA
64 AAC-CTTAAATCC-TAATTTATTTAATTTTTTCCTTA
56778066 AAA
1 AAA
56778069 CCCTAAAATT
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
95 5 0.06
96 58 0.66
97 12 0.14
98 13 0.15
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.41
Consensus pattern (98 bp):
AAAACCATAAACACTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAAA
CCTTAAATCCTAATTTATTTAATTTTTTCCTTA
Found at i:56779103 original size:22 final size:23
Alignment explanation
Indices: 56779075--56779117 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
56779065 ATTTCATAAT
*
56779075 AAAAATATTAATAAA-ATTTATA
1 AAAAATAATAATAAACATTTATA
56779097 AAAAATAATAATAAACATTTA
1 AAAAATAATAATAAACATTTA
56779118 GAGTCGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAATAATAATAAACATTTATA
Found at i:56780532 original size:25 final size:25
Alignment explanation
Indices: 56780498--56780546 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
56780488 AAACAAAAAG
56780498 ATGACAAAATAAAAAAGAAAAGAAA
1 ATGACAAAATAAAAAAGAAAAGAAA
56780523 ATGACAAAATAAAAAAGAAAAGAA
1 ATGACAAAATAAAAAAGAAAAGAA
56780547 CATTAAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.08
Consensus pattern (25 bp):
ATGACAAAATAAAAAAGAAAAGAAA
Found at i:56783138 original size:46 final size:44
Alignment explanation
Indices: 56783034--56783141 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
56783024 TGTCTTTGAC
** * * *
56783034 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
56783078 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
56783124 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
56783142 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:56789447 original size:75 final size:73
Alignment explanation
Indices: 56789359--56789530 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
56789349 GGTTTTCCTC
*** * * **
56789359 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
56789423 TCAGTATGG
65 TCAGTATGG
*
56789432 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
56789497 CTCAGTATGG
64 CTCAGTATGG
56789507 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
56789531 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:56789528 original size:35 final size:35
Alignment explanation
Indices: 56789364--56789530 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
56789354 TCCTCATTGA
*** *
56789364 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
56789399 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
56789439 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
56789474 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
56789509 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
56789531 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:56798805 original size:124 final size:124
Alignment explanation
Indices: 56798583--56798807 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
56798573 GAATTATGTG
* * * * * * *
56798583 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
56798648 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
56798707 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
56798772 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
56798808 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:56798929 original size:40 final size:40
Alignment explanation
Indices: 56798802--56798931 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
56798792 TTGCTGGAAA
* * *
56798802 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
56798842 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
56798882 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
56798922 TTATATCCGG
1 TTATATCCGG
56798932 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:56811194 original size:124 final size:124
Alignment explanation
Indices: 56810972--56811196 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
56810962 GAATTATGTG
* * * * * * *
56810972 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
56811037 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
56811096 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
56811161 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
56811197 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:56811318 original size:40 final size:40
Alignment explanation
Indices: 56811191--56811320 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
56811181 TTGCTGGAAA
* * *
56811191 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
56811231 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
56811271 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
56811311 TTATATCCGG
1 TTATATCCGG
56811321 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:56816057 original size:40 final size:40
Alignment explanation
Indices: 56816008--56816172 Score: 190
Period size: 40 Copynumber: 4.2 Consensus size: 40
56815998 TCTTCGGAAT
* * *
56816008 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
56816047 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
56816087 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
56816127 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
56816167 TTAGCC
1 TTAGCC
56816173 GGGTATCATT
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 3 0.03
40 100 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:56827715 original size:47 final size:47
Alignment explanation
Indices: 56827645--56827763 Score: 148
Period size: 47 Copynumber: 2.5 Consensus size: 47
56827635 CTTCGGGACT
* * * * *
56827645 TATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * *
56827692 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
56827739 TATCACGTATATATACACTTTCACA
1 TATCAC--ATATATACACTTTCACA
56827764 AATTTTAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 45 0.73
49 17 0.27
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:56832317 original size:46 final size:46
Alignment explanation
Indices: 56832267--56832581 Score: 349
Period size: 46 Copynumber: 6.8 Consensus size: 46
56832257 TGGTTGAGCA
56832267 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56832313 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56832358 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56832406 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56832452 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56832497 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
56832545 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56832582 GCGGGTTACA
Statistics
Matches: 227, Mismatches: 24, Indels: 36
0.79 0.08 0.13
Matches are distributed among these distances:
42 4 0.02
43 10 0.04
45 6 0.03
46 131 0.58
47 58 0.26
48 6 0.03
50 8 0.04
51 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56832423 original size:93 final size:93
Alignment explanation
Indices: 56832264--56832434 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56832254 GGATGGTTGA
* *
56832264 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56832329 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56832357 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56832422 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56832435 ACTTACGGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56832498 original size:139 final size:139
Alignment explanation
Indices: 56832268--56832572 Score: 592
Period size: 139 Copynumber: 2.2 Consensus size: 139
56832258 GGTTGAGCAT
* *
56832268 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGTTGAG
56832333 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
66 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
56832398 TGCGAACGC
131 TGCGAACGC
56832407 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGTTGAG
56832472 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
66 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
56832537 TGCGAACGC
131 TGCGAACGC
56832546 CCGAGCTCGTTGAGTTGAGTCCGAGTT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTT
56832573 TGCTTATGGG
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 164 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (139 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGTTGAG
TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
TGCGAACGC
Found at i:56835554 original size:15 final size:15
Alignment explanation
Indices: 56835534--56835602 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
56835524 GTATCTTGGG
56835534 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
56835549 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
56835564 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
56835579 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
56835594 TTTCTTTAT
1 TTTCTTTAT
56835603 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:56835603 original size:30 final size:30
Alignment explanation
Indices: 56835525--56835612 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
56835515 CATAGTATCG
* * * *
56835525 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
56835555 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
56835585 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
56835613 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:56838045 original size:46 final size:46
Alignment explanation
Indices: 56837995--56838309 Score: 349
Period size: 46 Copynumber: 6.8 Consensus size: 46
56837985 TGGTTGAGCA
56837995 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56838041 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56838086 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56838134 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56838180 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56838225 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
56838273 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56838310 GCGGGTTACA
Statistics
Matches: 227, Mismatches: 24, Indels: 36
0.79 0.08 0.13
Matches are distributed among these distances:
42 4 0.02
43 10 0.04
45 6 0.03
46 131 0.58
47 58 0.26
48 6 0.03
50 8 0.04
51 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56838151 original size:93 final size:93
Alignment explanation
Indices: 56837992--56838162 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56837982 GGATGGTTGA
* *
56837992 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56838057 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56838085 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56838150 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56838163 ACTTACGGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56838226 original size:139 final size:139
Alignment explanation
Indices: 56837996--56838306 Score: 586
Period size: 139 Copynumber: 2.2 Consensus size: 139
56837986 GGTTGAGCAT
* *
56837996 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGTTGAG
56838061 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
66 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
56838126 TGCGAACGC
131 TGCGAACGC
56838135 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGTTGAG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGTTGAG
56838200 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
66 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
56838265 TGCGAACGC
131 TGCGAACGC
* *
56838274 CCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
56838307 TGGGCGGGTT
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 168 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (139 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGTTGAG
TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
TGCGAACGC
Found at i:56841765 original size:47 final size:47
Alignment explanation
Indices: 56841677--56841793 Score: 135
Period size: 47 Copynumber: 2.4 Consensus size: 47
56841667 AAAATTTGTA
* * *
56841677 AAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATAT--GTGATAAGGCCGAATGGCCAACGTGATGAATGTG
* * * *
56841726 AAAGTGTATATATGTGATAGGGCCGAGTGGTCAACGTGATGGATGTG
1 AAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG
* *
56841773 GAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
56841794 TCCCGAAGGG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 45 0.78
49 13 0.22
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
AAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG
Found at i:56843870 original size:40 final size:40
Alignment explanation
Indices: 56843821--56844012 Score: 321
Period size: 40 Copynumber: 4.8 Consensus size: 40
56843811 CCAGCATGAT
* * *
56843821 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
56843861 TGCTCTTCGGGACTTAGTCCGGTTGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
56843901 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
56843941 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
56843981 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
56844013 CTCAATTCTC
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:56848698 original size:46 final size:45
Alignment explanation
Indices: 56848603--56848773 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 45
56848593 CTCATAGCCA
* * * * * *
56848603 ATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCCAAACATGTCTTACACTAGCCT-CATCTTGATGCTG
**
56848649 ATGCATGTCCCGGACATGTCTTACACTAGCACTCATCTTGATGCTG
1 ATGCATGTCCCAAACATGTCTTACACTAGC-CTCATCTTGATGCTG
* * **
56848695 ATGCCATATCCCAGACATGGTCTTACA-TAGGCTCTCATAATG-TGGCTG
1 ATG-CATGTCCCAAACAT-GTCTTACACTA-GC-CTCATCTTGAT-GCTG
*
56848743 ATGCATGTCCCAAACATGTCTAACACTAGCC
1 ATGCATGTCCCAAACATGTCTTACACTAGCC
56848774 CACAATAACC
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 48 0.47
47 30 0.29
48 24 0.23
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCCTCATCTTGATGCTG
Found at i:56848721 original size:48 final size:46
Alignment explanation
Indices: 56848648--56848772 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 46
56848638 TCTCGAGGCC
* **
56848648 GATGCATGTCCCGGACATGTCTTACACTAGCACTCATCTTGAT-GCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATAATG-TGGCT
* *
56848694 GATGCCATATCCCAGACATGGTCTTACA-TAGGCTCTCATAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTA-GCACTCATAATGTGGCT
* *
56848742 GATGCATGTCCCAAACATGTCTAACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
56848773 CCACAATAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
46 13 0.20
47 29 0.44
48 24 0.36
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATAATGTGGCT
Done.