Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 46 of 182
Found at i:16345417 original size:27 final size:27
Alignment explanation
Indices: 16345388--16345536 Score: 145
Period size: 27 Copynumber: 5.4 Consensus size: 27
16345378 AGCAAGATAA
*
16345388 AAAGCAAAGCAATATAAAAAGCAAAGA
1 AAAGCAAAGCAATATAAAAAGCAAAGC
* *
16345415 AAATCAAAGAAATATAAAAAGCAAAGC
1 AAAGCAAAGCAATATAAAAAGCAAAGC
**
16345442 AAATAAAAGCAATATAAAGCAAAGCAAAGC
1 AAAGCAAAGCAATAT-AA--AAAGCAAAGC
* **
16345472 ACAGCACGGCAATATAAAAAGCAAAGC
1 AAAGCAAAGCAATATAAAAAGCAAAGC
* * * **
16345499 AAAGCAAAACAATATCAATATAAAAGC
1 AAAGCAAAGCAATATAAAAAGCAAAGC
*
16345526 AAAGTAAAGCA
1 AAAGCAAAGCA
16345537 CAACAAAGCA
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
27 75 0.76
28 2 0.02
29 2 0.02
30 20 0.20
ACGTcount: A:0.62, C:0.14, G:0.13, T:0.10
Consensus pattern (27 bp):
AAAGCAAAGCAATATAAAAAGCAAAGC
Found at i:16345432 original size:44 final size:42
Alignment explanation
Indices: 16345356--16345470 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 42
16345346 AATATCATAC
* * *
16345356 AATATAAAGTAAAGCAAAGCAAAGCAAGATAAAAAGCAAAGCA
1 AATA-AAAGCAAAGAAAAGCAAAGAAAGATAAAAAGCAAAGCA
* *
16345399 ATATAAAAAGCAAAGAAAATCAAAGAAATATAAAAAGCAAAGCA
1 A-AT-AAAAGCAAAGAAAAGCAAAGAAAGATAAAAAGCAAAGCA
*
16345443 AATAAAAGCAATA-TAAAGCAAAGCAAAG
1 AATAAAAGCAA-AGAAAAGCAAAG-AAAG
16345471 CACAGCACGG
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 16 0.27
43 7 0.12
44 36 0.60
45 1 0.02
ACGTcount: A:0.65, C:0.10, G:0.14, T:0.10
Consensus pattern (42 bp):
AATAAAAGCAAAGAAAAGCAAAGAAAGATAAAAAGCAAAGCA
Found at i:16345498 original size:32 final size:31
Alignment explanation
Indices: 16345432--16345631 Score: 149
Period size: 32 Copynumber: 6.7 Consensus size: 31
16345422 AGAAATATAA
*
16345432 AAAGCAAAGCA-AATAAAAGCAATAT-AAAGC
1 AAAGCAAAGCACAA-CAAAGCAATATAAAAGC
* **
16345462 AAAGCAAAGCACAGCACGGCAATATAAAAAGC
1 AAAGCAAAGCACAACAAAGCAATAT-AAAAGC
* *
16345494 AAAGCAAAGCAAAACAATATCAATATAAAAGC
1 AAAGCAAAGCACAACAA-AGCAATATAAAAGC
* *
16345526 AAAGTAAAGCACAACAAAGCAATATAAAAAGT
1 AAAGCAAAGCACAACAAAGCAATAT-AAAAGC
* *
16345558 AAAACAAAG--C-A-AAA-CAATATAAAATGT
1 AAAGCAAAGCACAACAAAGCAATATAAAA-GC
16345585 AAAGCAAAGCA-AAGCAAAG----A-AAAA-C
1 AAAGCAAAGCACAA-CAAAGCAATATAAAAGC
*
16345610 AAAGCAAAGCACAACAATGCAA
1 AAAGCAAAGCACAACAAAGCAA
16345632 ACCAAAGCAC
Statistics
Matches: 136, Mismatches: 18, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
25 15 0.11
26 6 0.04
27 20 0.15
28 4 0.03
29 2 0.01
30 20 0.15
31 11 0.08
32 52 0.38
33 6 0.04
ACGTcount: A:0.62, C:0.16, G:0.13, T:0.09
Consensus pattern (31 bp):
AAAGCAAAGCACAACAAAGCAATATAAAAGC
Found at i:16345535 original size:64 final size:63
Alignment explanation
Indices: 16345432--16345600 Score: 216
Period size: 64 Copynumber: 2.7 Consensus size: 63
16345422 AGAAATATAA
* * **
16345432 AAAGCAAAGCAAATA-AA-AGCAATATAAAGCAAAGCAAAGCACAGCACGGCAATATAAAAAGC
1 AAAGCAAAGCAAA-ACAATATCAATATAAAGCAAAGCAAAGCACAACAAAGCAATATAAAAAGC
* *
16345494 AAAGCAAAGCAAAACAATATCAATATAAAAGCAAAGTAAAGCACAACAAAGCAATATAAAAAGT
1 AAAGCAAAGCAAAACAATATCAATAT-AAAGCAAAGCAAAGCACAACAAAGCAATATAAAAAGC
* * *
16345558 AAAACAAAGCAAAACAATATAAAATGTAAAGCAAAGCAAAGCA
1 AAAGCAAAGCAAAACAATAT-CAATATAAAGCAAAGCAAAGCA
16345601 AAGAAAAACA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
61 1 0.01
62 15 0.16
63 7 0.08
64 66 0.71
65 4 0.04
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.10
Consensus pattern (63 bp):
AAAGCAAAGCAAAACAATATCAATATAAAGCAAAGCAAAGCACAACAAAGCAATATAAAAAGC
Found at i:16345556 original size:27 final size:27
Alignment explanation
Indices: 16345494--16345617 Score: 74
Period size: 27 Copynumber: 4.5 Consensus size: 27
16345484 TATAAAAAGC
* *
16345494 AAAGCAAAGCAAAACAATATCAATATAAAA
1 AAAGCAAAGCAAATCAA-AGCAATAT--AA
*
16345524 GCAAAGTAAAGCACAA-CAAAGCAATATAA
1 --AAAGCAAAGCA-AATCAAAGCAATATAA
* * * *
16345553 AAAGTAAAACAAAGCAAAACAATATAA
1 AAAGCAAAGCAAATCAAAGCAATATAA
* * * *
16345580 AATGTAAAGCAAAGCAAAGCAA-AGAA
1 AAAGCAAAGCAAATCAAAGCAATATAA
16345606 AAA-CAAAGCAAA
1 AAAGCAAAGCAAA
16345618 GCACAACAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
25 8 0.10
26 7 0.09
27 41 0.51
29 2 0.03
31 7 0.09
32 13 0.16
33 2 0.03
ACGTcount: A:0.65, C:0.14, G:0.11, T:0.10
Consensus pattern (27 bp):
AAAGCAAAGCAAATCAAAGCAATATAA
Found at i:16346806 original size:10 final size:10
Alignment explanation
Indices: 16346793--16347787 Score: 196
Period size: 10 Copynumber: 100.4 Consensus size: 10
16346783 CTTTATGCTA
16346793 CTTTGCTTTG
1 CTTTGCTTTG
16346803 CTTTGCTTT-
1 CTTTGCTTTG
*
16346812 ATATTGCTTT-
1 CT-TTGCTTTG
* *
16346822 ATATTACTTTG
1 CT-TTGCTTTG
16346833 CTTTGCTTTG
1 CTTTGCTTTG
16346843 CTTTGCTTT-
1 CTTTGCTTTG
* *
16346852 ATATTACTTTG
1 CT-TTGCTTTG
16346863 CTTTGCTTT-
1 CTTTGCTTTG
16346872 CTATTGCTTT-
1 CT-TTGCTTTG
* *
16346882 ATATTACTTTG
1 CT-TTGCTTTG
16346893 CTTTGCTTT-
1 CTTTGCTTTG
16346902 CTATTGCTTT-
1 CT-TTGCTTTG
* *
16346912 ATATTTCTTTG
1 CT-TTGCTTTG
*
16346923 CTTTGCTTTA
1 CTTTGCTTTG
* *
16346933 CTTT-ATATG
1 CTTTGCTTTG
*
16346942 ACTTTGCTTTT
1 -CTTTGCTTTG
16346953 CTTTG-TTTG
1 CTTTGCTTTG
* *
16346962 CTTT-ATATTA
1 CTTTGCT-TTG
16346972 CTTTGCTTTG
1 CTTTGCTTTG
*
16346982 CTTTACTTT-
1 CTTTGCTTTG
* *
16346991 ATATGACTTTG
1 CTTTG-CTTTG
*
16347002 CTTTTCTTTG
1 CTTTGCTTTG
16347012 -TTTGCTTT-
1 CTTTGCTTTG
* *
16347020 ATATTACTTTG
1 CT-TTGCTTTG
16347031 CTTTGCTTTG
1 CTTTGCTTTG
*
16347041 CTTTG-TTAG
1 CTTTGCTTTG
* *
16347050 CTTT-ATATTA
1 CTTTGCT-TTG
* *
16347060 TTTTGCTTTA
1 CTTTGCTTTG
16347070 CTTTGCTTT-
1 CTTTGCTTTG
*
16347079 ATATTGCTTT-
1 CT-TTGCTTTG
*
16347089 ATATTGCTTT-
1 CT-TTGCTTTG
* *
16347099 ATATTTCTTTG
1 CT-TTGCTTTG
16347110 CTTTGCTTTG
1 CTTTGCTTTG
*
16347120 CTTTGCTTAG
1 CTTTGCTTTG
**
16347130 -TTTTATATTG
1 CTTTGCT-TTG
*
16347140 CTTT-ATATTG
1 CTTTGCT-TTG
16347150 CTTTGCTTTG
1 CTTTGCTTTG
*
16347160 CTTTGCCTT-
1 CTTTGCTTTG
* *
16347169 ATATTACTTTG
1 CT-TTGCTTTG
16347180 CTTTGCTTT-
1 CTTTGCTTTG
*
16347189 ATATAT-CTTTG
1 CT-T-TGCTTTG
*
16347200 CTTTTCTTT-
1 CTTTGCTTTG
*
16347209 ATATTGCTTT-
1 CT-TTGCTTTG
* *
16347219 ATATTACTTTG
1 CT-TTGCTTTG
*
16347230 CTTTGCCTT-
1 CTTTGCTTTG
* **
16347239 ATATCACTTTG
1 CT-TTGCTTTG
16347250 CTTTGCTTTG
1 CTTTGCTTTG
16347260 CTTTG-TTTG
1 CTTTGCTTTG
*
16347269 CTTT-ATACTT-
1 CTTTGCT--TTG
16347279 CTTTGCTTTG
1 CTTTGCTTTG
16347289 CTTTG-TTTG
1 CTTTGCTTTG
* **
16347298 CTTT-ATATCA
1 CTTTGCT-TTG
*
16347308 CTTTGCTTCG
1 CTTTGCTTTG
16347318 CTTTGCTTT-
1 CTTTGCTTTG
*
16347327 ATATTGCTTT-
1 CT-TTGCTTTG
* *
16347337 ATATTTCTTTG
1 CT-TTGCTTTG
16347348 CTTTGCTTTG
1 CTTTGCTTTG
*
16347358 CTTTACTTT-
1 CTTTGCTTTG
*
16347367 ATATTGCTTTG
1 CT-TTGCTTTG
*
16347378 CTTTG-TTGTT
1 CTTTGCTT-TG
*
16347388 CTTT-ATATTG
1 CTTTGCT-TTG
* *
16347398 CTTT-ATATTA
1 CTTTGCT-TTG
16347408 CTTTGCTTTG
1 CTTTGCTTTG
* * *
16347418 CCTT-ATATTA
1 CTTTGCT-TTG
*
16347428 CATTGCTTTG
1 CTTTGCTTTG
16347438 CTTTGCTTT-
1 CTTTGCTTTG
*
16347447 ATATTGCTTT-
1 CT-TTGCTTTG
* *
16347457 ATATTTCTTTG
1 CT-TTGCTTTG
*
16347468 CTTTGCTTTA
1 CTTTGCTTTG
* *
16347478 CTTT-ATATTA
1 CTTTGCT-TTG
*
16347488 CTTTGCGTTG
1 CTTTGCTTTG
16347498 CTTTG-TTTG
1 CTTTGCTTTG
* * *
16347507 CTAT-ATATTA
1 CTTTGCT-TTG
*
16347517 ATTTGCTTTG
1 CTTTGCTTTG
*
16347527 CATTGCTTT-
1 CTTTGCTTTG
*
16347536 ATATTGCTTT-
1 CT-TTGCTTTG
* *
16347546 ATATTTCTTTG
1 CT-TTGCTTTG
16347557 CTTTGCTTTG
1 CTTTGCTTTG
16347567 CTTTGCTTT-
1 CTTTGCTTTG
*
16347576 ATATTGCTTT-
1 CT-TTGCTTTG
* *
16347586 ATATTACTTTG
1 CT-TTGCTTTG
16347597 CTTTGCTTTG
1 CTTTGCTTTG
* * *
16347607 CATT-ATATTA
1 CTTTGCT-TTG
*
16347617 CTTTGCTTTA
1 CTTTGCTTTG
*
16347627 CTTTG-TTTT
1 CTTTGCTTTG
*
16347636 ATATTGCTTT-
1 CT-TTGCTTTG
* *
16347646 ATATTTCTTTG
1 CT-TTGCTTTG
*
16347657 CTTTGCTTTA
1 CTTTGCTTTG
*
16347667 CTTT-ATATTG
1 CTTTGCT-TTG
* * *
16347677 ATTT-ATATTA
1 CTTTGCT-TTG
*
16347687 TTTTGCTTTG
1 CTTTGCTTTG
*
16347697 CTTTG-TCTG
1 CTTTGCTTTG
* *
16347706 CTTT-ATATTA
1 CTTTGCT-TTG
*
16347716 CTTTGCTTTA
1 CTTTGCTTTG
16347726 CTTTG-TTTG
1 CTTTGCTTTG
* *
16347735 CTTTACACTT-
1 CTTTGC-TTTG
*
16347745 CTTTGTTTTG
1 CTTTGCTTTG
* *
16347755 CTTTGTTTTA
1 CTTTGCTTTG
* *
16347765 TTTTTCTTTG
1 CTTTGCTTTG
16347775 CTTTG-TTTG
1 CTTTGCTTTG
16347784 CTTT
1 CTTT
16347788 ATATTACTTT
Statistics
Matches: 744, Mismatches: 163, Indels: 157
0.70 0.15 0.15
Matches are distributed among these distances:
9 110 0.15
10 591 0.79
11 43 0.06
ACGTcount: A:0.13, C:0.15, G:0.12, T:0.61
Consensus pattern (10 bp):
CTTTGCTTTG
Found at i:16346821 original size:25 final size:25
Alignment explanation
Indices: 16346793--16347456 Score: 184
Period size: 25 Copynumber: 26.2 Consensus size: 25
16346783 CTTTATGCTA
16346793 CTTTGCTTTGCTTTGCTTTATATTG
1 CTTTGCTTTGCTTTGCTTTATATTG
* *
16346818 CTTT-ATATTACTTTGC----T-TTG
1 CTTTGCT-TTGCTTTGCTTTATATTG
*
16346838 CTTTGCTTTGCTTT-ATATTACT-TTG
1 CTTTGCTTTGCTTTGCT-TTA-TATTG
*
16346863 CTTTGCTTT-CTATTGCTTTATATTA
1 CTTTGCTTTGCT-TTGCTTTATATTG
*
16346888 CTTTGCTTTGCTTTCTATTGCTTTATATTT
1 CTTTGCTTTG----CT-TTGCTTTATATTG
*
16346918 CTTTGCTTTGCTTTACTTTATA-TG
1 CTTTGCTTTGCTTTGCTTTATATTG
* *
16346942 ACTTTGCTTTTCTTTGTTTGCTTTATATTA
1 -CTTTGCTTTGC----TTTGCTTTATATTG
*
16346972 CTTTGCTTTGCTTTACTTTATA-TG
1 CTTTGCTTTGCTTTGCTTTATATTG
* *
16346996 ACTTTGCTTTTCTTTGTTTGCTTTATATTA
1 -CTTTGCTTTGC----TTTGCTTTATATTG
* *
16347026 CTTTGCTTTGCTTTGCTTTGT-TAG
1 CTTTGCTTTGCTTTGCTTTATATTG
* **
16347050 CTTT-ATATTATTTTGC-TT-TA---
1 CTTTGCT-TTGCTTTGCTTTATATTG
*
16347070 CTTTGCTTT-ATATTGCTTTATATTG
1 CTTTGCTTTGCT-TTGCTTTATATTG
* *
16347095 CTTT-ATATTTCTTTGC----T-TTG
1 CTTTGCT-TTGCTTTGCTTTATATTG
* *
16347115 CTTTGCTTTGCTTAGTTTTATATTG
1 CTTTGCTTTGCTTTGCTTTATATTG
* *
16347140 CTTT-ATATTGCTTTGCTTTGCT-TTG
1 CTTTGCT-TTGCTTTGCTTT-ATATTG
*
16347165 CCTTATATTACTTTGCTTTGCTTTATATAT-
1 -C---T-TTGCTTTGCTTTGCTTTATAT-TG
16347195 CTTTGC--T--TTT-CTTTATATTG
1 CTTTGCTTTGCTTTGCTTTATATTG
* * **
16347215 CTTTATATTACTTTGCTTTGCCTTATATCA
1 C----T-TTGCTTTGCTTTGCTTTATATTG
*
16347245 CTTTGCTTTGCTTTGCTTTGT-TTG
1 CTTTGCTTTGCTTTGCTTTATATTG
* *
16347269 CTTTATACTTCTTTGCTTTGCTTTGT-TTG
1 C--T-T--TGCTTTGCTTTGCTTTATATTG
* ** **
16347298 CTTT-ATATCACTTTGCTTCGCT-TTG
1 CTTTGCT-TTGCTTTGCTT-TATATTG
* ** *
16347323 CTTT-ATATTGCTTTATATTTCT-TTG
1 CTTTGCT-TTGCTTT-GCTTTATATTG
*
16347348 CTTTGCTTTGCTTTACTTTATATTG
1 CTTTGCTTTGCTTTGCTTTATATTG
*
16347373 CTTTGCTTTG-TTGTTCTTTATATTG
1 CTTTGCTTTGCTT-TGCTTTATATTG
* * *
16347398 CTTTATATTACTTTGCTTTGCCTTATATTA
1 C----T-TTGCTTTGCTTTGCTTTATATTG
*
16347428 CATTGCTTTGCTTTGCTTTATATTG
1 CTTTGCTTTGCTTTGCTTTATATTG
16347453 CTTT
1 CTTT
16347457 ATATTTCTTT
Statistics
Matches: 481, Mismatches: 75, Indels: 166
0.67 0.10 0.23
Matches are distributed among these distances:
19 2 0.00
20 45 0.09
21 10 0.02
22 3 0.01
23 5 0.01
24 40 0.08
25 221 0.46
26 13 0.03
27 3 0.01
29 68 0.14
30 67 0.14
31 4 0.01
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.60
Consensus pattern (25 bp):
CTTTGCTTTGCTTTGCTTTATATTG
Found at i:16346823 original size:35 final size:35
Alignment explanation
Indices: 16346777--16348023 Score: 483
Period size: 35 Copynumber: 36.0 Consensus size: 35
16346767 TATTAATGTA
**
16346777 ATATTGCTTTATGCTACTTTGCTTTGCTTTGCTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
16346812 ATATTGCTTTATATTACTTTGCTTTGCTTTGC---
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
16346844 -T-TTGCTTTATATTACTTTGCTTTGCTTT-C---
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
16346873 -TATTGCTTTATATTACTTTGCTTTGCTTT-C---
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* *
16346903 -TATTGCTTTATATTTCTTTGCTTTGCTTTACTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* * *
16346937 ATA-TGACTTTGCT-TTTCTTTG-TTTGCTTT-ATATT
1 ATATTG-CTTT-ATATTACTTTGCTTTGCTTTGCT-TT
* *
16346971 ACT-TTGCTTTGCT-TTACTTTATATGACTTTGCTTTTCTTT
1 A-TATTGCTTT-ATATTAC--T-T-TG-CTTTGCTTTGCTTT
*
16347011 GT-TTGCTTTATATTACTTTGCTTTGCTTTGCTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* * * *
16347045 GT-TAGCTTTATATTATTTTGCTTTACTTTGCTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* *
16347079 ATATTGCTTTATATTGCTTTATATTTCTTTGCTTTGCTTT
1 ATATTGCTTTATATTAC----T-TTGCTTTGCTTTGCTTT
* * *
16347119 GCT-TTGC-TTAGTTTTA-TATTGCTTT-ATATTGCTTT
1 -ATATTGCTTTA-TATTACT-TTGCTTTGCT-TTGCTTT
* * *
16347154 GCT-TTGCTTTGCCTTATATTACTTTGCTTTGCTTT-ATAT
1 -ATATTGC-T----TTATATTACTTTGCTTTGCTTTGCTTT
* * * *
16347193 ATCTTTGCTTT-TCTTTA-TATTGCTTT-ATATTACTTT
1 AT-ATTGCTTTAT-ATTACT-TTGCTTTGCT-TTGCTTT
* * *
16347229 GCT-TTGCCTTATATCACTTTGCTTTGCTTTGCTTT
1 -ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
*
16347264 GT-TTGC-TT-TA-TAC-TT-CTTTGCTTTGCTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* * *
16347293 GT-TTGCTTTATATCACTTTGCTTCGCTTTGCTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
*
16347327 ATATTGCTTTATATTTCTTTGCTTTGCTTTGC-TT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* *
16347361 -TA---CTTTATATTGCTTTGCTTTG-TTGTTCTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTT-TGCTTT
* *
16347392 ATATTGCTTTATATTACTTTGCTTTGCCTT-ATATT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCT-TT
* * * * *
16347427 ACATTGCTTTGCT-TTGCTTTATATTGCTTT-ATATTTCTTT
1 ATATTGCTTT-ATATTAC----T-TTGCTTTGCT-TTGCTTT
* * *
16347467 GCT-TTGCTTTACT-TTA-TATTACTTTGCGTTGCTTT
1 -ATATTGCTTTA-TATTACT-TTGCTTTGCTTTGCTTT
* * * *
16347502 GT-TTGCTATATATTAATTTGCTTTGCATTGCTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
*
16347536 ATATTGCTTTATATTTCTTTGCTTTGCTTTGC---
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* * *
16347568 -T-TTGCTTTATATTGCTTT-ATATTACTTTGCTTT
1 ATATTGCTTTATATTACTTTGCT-TTGCTTTGCTTT
* * * *
16347601 GCT-TTGCATTATATTACTTTGCTTTACTTTGTTTT
1 -ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* *
16347636 ATATTGCTTTATATTTCTTTGCTTTGCTTTACTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* *
16347671 ATATTGATTTATATTATTTTGCTTTGCTTTGTCTGCTTT
1 ATATTGCTTTATATTACTTTGCTTTGC--T-T-TGCTTT
* * * *
16347710 ATATTACTTTGCT-TTACTTTG-TTTGCTTTACACTT
1 ATATTGCTTT-ATATTACTTTGCTTTGCTTTGC-TTT
* * * ** ** *
16347745 CT-TTGTTTTGCT-TTGTTTTATTTTTCTTTGCTTT
1 ATATTGCTTT-ATATTACTTTGCTTTGCTTTGCTTT
* * *
16347779 GT-TTGCTTTATATTACTTTGCTTT-ATATTGCATT
1 ATATTGCTTTATATTACTTTGCTTTGCT-TTGCTTT
* * *
16347813 ATA----TTTCT-TTGCTTTACTTTG-TTTGCTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* * *
16347842 ATATTGCTTTGCT-TTA-TATTGCTTT-ATATTACTTT
1 ATATTGCTTT-ATATTACT-TTGCTTTGCT-TTGCTTT
* * *
16347877 ACT-TTACTTTATATTTCCTTGCTTTGCTTTGCTTT
1 A-TATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
* * * * * **
16347912 ATATTACTTTGTTTTGCTTTCCTTTATATTAATTTGCTTT
1 ATATTGCTTTATATTACTTTGC----T-TTGCTTTGCTTT
* * *
16347952 GCTTTATATTGCTTTATATTA--TTACTTTGCTTTGCTTT
1 -ATAT----TGCTTTATATTACTTTGCTTTGCTTTGCTTT
16347990 ATATTGCTTTATATTACTTTGCTTTGCTTT-CTTT
1 ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
16348024 GCTTTATATA
Statistics
Matches: 945, Mismatches: 149, Indels: 237
0.71 0.11 0.18
Matches are distributed among these distances:
29 34 0.04
30 143 0.15
31 13 0.01
32 6 0.01
33 26 0.03
34 178 0.19
35 361 0.38
36 14 0.01
37 6 0.01
38 20 0.02
39 42 0.04
40 81 0.09
41 10 0.01
43 3 0.00
45 8 0.01
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.61
Consensus pattern (35 bp):
ATATTGCTTTATATTACTTTGCTTTGCTTTGCTTT
Found at i:16346966 original size:29 final size:29
Alignment explanation
Indices: 16346798--16347045 Score: 271
Period size: 30 Copynumber: 8.7 Consensus size: 29
16346788 TGCTACTTTG
* *
16346798 CTTTGCTTTGCTTTATATTGCTTTATATTA
1 CTTTGCTTTGCTTTGT-TTGCTTTATATGA
*
16346828 CTTTGCTTTGCTTTGCTTTGCTTTATATTA
1 CTTTGCTTTGCTTTG-TTTGCTTTATATGA
* *
16346858 CTTTGCTTTGCTTTCTATTGCTTTATATTA
1 CTTTGCTTTGCTTTGT-TTGCTTTATATGA
*
16346888 CTTTGCTTTGCTTTCTATTGC-TT-TAT-A
1 CTTTGCTTTGCTTTGT-TTGCTTTATATGA
*
16346915 -TTT-CTTTGCTTTGCTTTACTTTATATGA
1 CTTTGCTTTGCTTTG-TTTGCTTTATATGA
* *
16346943 CTTTGCTTTTCTTTGTTTGCTTTATATTA
1 CTTTGCTTTGCTTTGTTTGCTTTATATGA
*
16346972 CTTTGCTTTGC----TTTACTTTATATGA
1 CTTTGCTTTGCTTTGTTTGCTTTATATGA
* *
16346997 CTTTGCTTTTCTTTGTTTGCTTTATATTA
1 CTTTGCTTTGCTTTGTTTGCTTTATATGA
16347026 CTTTGCTTTGCTTTGCTTTG
1 CTTTGCTTTGCTTTG-TTTG
16347046 TTAGCTTTAT
Statistics
Matches: 191, Mismatches: 14, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
25 34 0.18
26 6 0.03
27 4 0.02
28 4 0.02
29 54 0.28
30 88 0.46
31 1 0.01
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.61
Consensus pattern (29 bp):
CTTTGCTTTGCTTTGTTTGCTTTATATGA
Found at i:16347311 original size:24 final size:25
Alignment explanation
Indices: 16347255--16347330 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 25
16347245 CTTTGCTTTG
*
16347255 CTTTGCTTTGTTTGCTTTATACTTCTTTG
1 CTTTGCTTTGTTTGCTTTATA--TC--TA
16347284 CTTTGCTTTGTTTGCTTTATATC-A
1 CTTTGCTTTGTTTGCTTTATATCTA
*
16347308 CTTTGCTTCGCTTTGCTTTATAT
1 CTTTGCTTTG-TTTGCTTTATAT
16347331 TGCTTTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.20
25 12 0.27
27 2 0.05
29 21 0.48
ACGTcount: A:0.09, C:0.18, G:0.13, T:0.59
Consensus pattern (25 bp):
CTTTGCTTTGTTTGCTTTATATCTA
Found at i:16347540 original size:25 final size:25
Alignment explanation
Indices: 16346833--16347044 Score: 199
Period size: 25 Copynumber: 7.8 Consensus size: 25
16346823 TATTACTTTG
16346833 CTTTGCTTTGCTTTGCTTTATATTA
1 CTTTGCTTTGCTTTGCTTTATATTA
16346858 CTTTGCTTTGCTTTCTATTGCTTTATATTA
1 CTTTGCTTTG----CT-TTGCTTTATATTA
*
16346888 CTTTGCTTTGCTTTCTATTGCTTTATATTT
1 CTTTGCTTTG----CT-TTGCTTTATATTA
* *
16346918 CTTTGCTTTGCTTTACTTTATATGA
1 CTTTGCTTTGCTTTGCTTTATATTA
*
16346943 CTTTGCTTTTCTTTGTTTGCTTTATATTA
1 CTTTGCTTTGC----TTTGCTTTATATTA
* *
16346972 CTTTGCTTTGCTTTACTTTATATGA
1 CTTTGCTTTGCTTTGCTTTATATTA
*
16346997 CTTTGCTTTTCTTTGTTTGCTTTATATTA
1 CTTTGCTTTGC----TTTGCTTTATATTA
16347026 CTTTGCTTTGCTTTGCTTT
1 CTTTGCTTTGCTTTGCTTT
16347045 GTTAGCTTTA
Statistics
Matches: 160, Mismatches: 14, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
25 60 0.38
26 2 0.01
29 46 0.29
30 52 0.32
ACGTcount: A:0.11, C:0.16, G:0.11, T:0.61
Consensus pattern (25 bp):
CTTTGCTTTGCTTTGCTTTATATTA
Found at i:16347557 original size:25 final size:24
Alignment explanation
Indices: 16347529--16347660 Score: 95
Period size: 25 Copynumber: 5.3 Consensus size: 24
16347519 TTGCTTTGCA
16347529 TTGCTTTATATTGCTTTATATTTCT
1 TTGCTTTATATTGCTTTAT-TTTCT
* ** *
16347554 TTGCTTTGCT-TTGCTTTGCTTTAT
1 TTGCTTT-ATATTGCTTTATTTTCT
* * *
16347578 ATTGCTTTATATTACTTTGCTTTGCT
1 -TTGCTTTATATTGCTTT-ATTTTCT
* * * *
16347604 TTGCATTATATTACTTTGCTTTACT
1 TTGCTTTATATTGCTTT-ATTTTCT
*
16347629 TTGTTTTATATTGCTTTATATTTCT
1 TTGCTTTATATTGCTTTAT-TTTCT
16347654 TTGCTTT
1 TTGCTTT
16347661 GCTTTACTTT
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
24 6 0.07
25 74 0.88
26 4 0.05
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.62
Consensus pattern (24 bp):
TTGCTTTATATTGCTTTATTTTCT
Found at i:16347695 original size:25 final size:25
Alignment explanation
Indices: 16347567--16347882 Score: 127
Period size: 25 Copynumber: 12.4 Consensus size: 25
16347557 CTTTGCTTTG
*
16347567 CTTTGCTTTATATTGCTTTATATTA
1 CTTTGCTTTATATTGATTTATATTA
*
16347592 CTTTGCTTTGCT-TTGCA-TTATATTA
1 CTTTGCTTT-ATATTG-ATTTATATTA
16347617 CTTTGCTTTACT-TTG-TTT-TA-TA
1 CTTTGCTTTA-TATTGATTTATATTA
** * *
16347639 --TTGCTTTATATTTCTTTGCT-TTG
1 CTTTGCTTTATATTGATTT-ATATTA
*
16347662 CTTTACTTTATATTGATTTATATTA
1 CTTTGCTTTATATTGATTTATATTA
* * * *
16347687 TTTTGCTTTGCTTTGTCTGCTTTATATTA
1 CTTTGC-TT--TATAT-TGATTTATATTA
* * *
16347716 CTTTGCTTTACTTTGTTTGCTTTACACTT-
1 CTTTGCTTTA---T-ATTGATTTATA-TTA
* * * * *
16347745 CTTTGTTTTGCT-TTGTTTTATTTTT
1 CTTTGCTTT-ATATTGATTTATATTA
* *
16347770 CTTTGCTTTGT-TTGCTTTATATTA
1 CTTTGCTTTATATTGATTTATATTA
*
16347794 CTTTGCTTTATATTGCA-TTATATTT
1 CTTTGCTTTATATTG-ATTTATATTA
* * *
16347819 CTTTGCTTTACTTTGTTTGCTTTATATTG
1 CTTTGCTTTA---T-ATTGATTTATATTA
*
16347848 CTTTGCTTTATATTGCTTTATATTA
1 CTTTGCTTTATATTGATTTATATTA
*
16347873 CTTTACTTTA
1 CTTTGCTTTA
16347883 CTTTATATTT
Statistics
Matches: 223, Mismatches: 38, Indels: 60
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.00
20 10 0.04
21 3 0.01
22 2 0.01
23 4 0.02
24 26 0.12
25 109 0.49
26 5 0.02
27 1 0.00
28 6 0.03
29 53 0.24
30 3 0.01
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.62
Consensus pattern (25 bp):
CTTTGCTTTATATTGATTTATATTA
Found at i:16347809 original size:10 final size:10
Alignment explanation
Indices: 16347796--16347891 Score: 55
Period size: 10 Copynumber: 10.2 Consensus size: 10
16347786 TTATATTACT
16347796 TTGCTTTATA
1 TTGCTTTATA
*
16347806 TTGCATTATA
1 TTGCTTTATA
* *
16347816 TTTCTTTGCT-
1 TTGCTTT-ATA
* *
16347826 TTACTTTGT-
1 TTGCTTTATA
16347835 TTGCTTTATA
1 TTGCTTTATA
16347845 TTGC----T-
1 TTGCTTTATA
16347850 TTGCTTTATA
1 TTGCTTTATA
16347860 TTGCTTTATA
1 TTGCTTTATA
*
16347870 TTACTTTACT-
1 TTGCTTTA-TA
*
16347880 TTACTTTATA
1 TTGCTTTATA
16347890 TT
1 TT
16347892 TCCTTGCTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
5 4 0.06
6 1 0.01
9 10 0.15
10 51 0.75
11 2 0.03
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.61
Consensus pattern (10 bp):
TTGCTTTATA
Found at i:16347901 original size:25 final size:25
Alignment explanation
Indices: 16347873--16347957 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
16347863 CTTTATATTA
* *
16347873 CTTTACTTTACTTTATATTTCCTTG
1 CTTTGCTTTACTTTATATTACCTTG
* *
16347898 CTTTGCTTTGCTTTATATTACTTTG
1 CTTTGCTTTACTTTATATTACCTTG
* * **
16347923 TTTTGCTTTCCTTTATATTAATTTG
1 CTTTGCTTTACTTTATATTACCTTG
16347948 CTTTGCTTTA
1 CTTTGCTTTA
16347958 TATTGCTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.14, C:0.16, G:0.08, T:0.61
Consensus pattern (25 bp):
CTTTGCTTTACTTTATATTACCTTG
Found at i:16347965 original size:10 final size:10
Alignment explanation
Indices: 16347950--16348045 Score: 63
Period size: 10 Copynumber: 9.2 Consensus size: 10
16347940 TTAATTTGCT
16347950 TTGCTTTATA
1 TTGCTTTATA
16347960 TTGCTTTATATTA
1 TTGC-TT-TA-TA
* *
16347973 TTACTTTGCT-
1 TTGCTTT-ATA
16347983 TTGCTTTATA
1 TTGCTTTATA
16347993 TTGCTTTATA
1 TTGCTTTATA
* *
16348003 TTACTTTGCT-
1 TTGCTTT-ATA
*
16348013 TTGCTTTCT-
1 TTGCTTTATA
16348022 TTGCTTTATATA
1 TTGC-TT-TATA
16348034 TTGCTTTATA
1 TTGCTTTATA
16348044 TT
1 TT
16348046 ATTTTTTTGC
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
9 7 0.10
10 40 0.58
11 9 0.13
12 8 0.12
13 5 0.07
ACGTcount: A:0.17, C:0.12, G:0.09, T:0.61
Consensus pattern (10 bp):
TTGCTTTATA
Found at i:16347981 original size:33 final size:32
Alignment explanation
Indices: 16347936--16348040 Score: 153
Period size: 33 Copynumber: 3.3 Consensus size: 32
16347926 TGCTTTCCTT
*
16347936 TATATTAATTTGCTTTGCTTTATATTGCTTTA
1 TATATTACTTTGCTTTGCTTTATATTGCTTTA
16347968 TATTATTACTTTGCTTTGCTTTATATTGC-TT-
1 TA-TATTACTTTGCTTTGCTTTATATTGCTTTA
*
16347999 TATATTACTTTGCTTTGCTTTCT-TTGCTTTA
1 TATATTACTTTGCTTTGCTTTATATTGCTTTA
*
16348030 TATATTGCTTT
1 TATATTACTTT
16348041 ATATTATTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.06
30 22 0.33
31 12 0.18
32 4 0.06
33 25 0.37
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.61
Consensus pattern (32 bp):
TATATTACTTTGCTTTGCTTTATATTGCTTTA
Found at i:16347999 original size:20 final size:20
Alignment explanation
Indices: 16346795--16347966 Score: 282
Period size: 20 Copynumber: 59.4 Consensus size: 20
16346785 TTATGCTACT
16346795 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* * *
16346815 TTGCTTT-ATATTACTTTGCT-
1 TTGCTTTGCT-TTGCTTT-ATA
16346835 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16346855 TTACTTTGCTTTGCTTTCTA
1 TTGCTTTGCTTTGCTTTATA
* * *
16346875 TTGCTTT-ATATTACTTTGCT-
1 TTGCTTTGCT-TTGCTTT-ATA
16346895 TTGCTTT-CTATTGCTTTATA
1 TTGCTTTGCT-TTGCTTTATA
*
16346915 TTTCTTTGCTTTGCTTTACT-
1 TTGCTTTGCTTTGCTTTA-TA
* *
16346935 TT-ATATGACTTTGC--T-T-
1 TTGCTTTG-CTTTGCTTTATA
16346951 TT-CTTTG-TTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16346969 TTACTTTGCTTTGCTTTACT-
1 TTGCTTTGCTTTGCTTTA-TA
* *
16346989 TT-ATATGACTTTGC--T-T-
1 TTGCTTTG-CTTTGCTTTATA
16347005 TT-CTTTG-TTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16347023 TTACTTTGCTTTGCTTTGCT-
1 TTGCTTTGCTTTGCTTT-ATA
* * *
16347043 TTG-TTAGCTTT-ATATTATT
1 TTGCTTTGCTTTGCT-TTATA
*
16347062 TTGCTTTACTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16347082 TTGCTTT-ATATTGCTTTATA
1 TTGCTTTGCT-TTGCTTTATA
*
16347102 TTTCTTTGCTTTGC----T-
1 TTGCTTTGCTTTGCTTTATA
* *
16347117 TTGCTTTGCTTAGTTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16347137 TTGCTTT-ATATTGC----T-
1 TTGCTTTGCT-TTGCTTTATA
*
16347152 TTGCTTTGCTTTGCCTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16347172 TTACTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16347192 TAT-CTTTGCTTTTCTTTATA
1 T-TGCTTTGCTTTGCTTTATA
* * *
16347212 TTGCTTT-ATATTACTTTGCT-
1 TTGCTTTGCT-TTGCTTT-ATA
* *
16347232 TTGCCTTATATCACTTTGCTTTGCT-
1 TTG-C-T-T-T-GCTTTGCTTT-ATA
16347257 TTGCTTTG-TTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16347276 CTT-CTTTGCTTTGCTTTGT-
1 -TTGCTTTGCTTTGCTTTATA
* *
16347295 TTGCTTT-ATAT-C---ACT-
1 TTGCTTTGCTTTGCTTTA-TA
*
16347310 TTGCTTCGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* * *
16347330 TTGCTTT-ATATTTCTTTGCT-
1 TTGCTTTGCT-TTGCTTT-ATA
*
16347350 TTGCTTTGCTTTACTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16347370 TTGCTTTGCTTTG---T-TG
1 TTGCTTTGCTTTGCTTTATA
*
16347386 TT-CTTT-ATATTGCTTTATA
1 TTGCTTTGCT-TTGCTTTATA
*
16347405 TTACTTTGCTTTGCCTTATATTACA
1 TTGCTTTGCTTTG-CTT-TA-T--A
16347430 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* * *
16347450 TTGC-TT--TAT-ATTTCT-
1 TTGCTTTGCTTTGCTTTATA
*
16347465 TTGCTTTGCTTTACTTTATA
1 TTGCTTTGCTTTGCTTTATA
* * *
16347485 TTACTTTGCGTTGCTTTGT-
1 TTGCTTTGCTTTGCTTTATA
** **
16347504 TTGCTATATATTAATTTGCTTTGCA
1 TTGC----T-TTGCTTTGCTTTATA
*
16347529 TTGCTTT-ATATTGCTTTATA
1 TTGCTTTGCT-TTGCTTTATA
* *
16347549 TTTCTTTGCTTTGCTTTGCT-
1 TTGCTTTGCTTTGCTTT-ATA
*
16347569 TTGCTTT-ATATTGCTTTATA
1 TTGCTTTGCT-TTGCTTTATA
* **
16347589 TTACTTTGCTTTGCTTTGCA
1 TTGCTTTGCTTTGCTTTATA
* *
16347609 TT-ATATTACTTTGCTTTACT-
1 TTGCT-TTGCTTTGCTTTA-TA
**
16347629 TTG-TTTTATATTGCTTTATA
1 TTGCTTTGCT-TTGCTTTATA
*
16347649 TTTCTTTGCTTTGCTTTACT-
1 TTGCTTTGCTTTGCTTTA-TA
* * * *
16347669 TT-ATATTGATTT-ATATTATT
1 TTGCT-TTGCTTTGCT-TTATA
16347689 TTGCTTTGCTTTGTCTGCTTTATA
1 TTGCTTTGC--T-T-TGCTTTATA
* * *
16347713 TTACTTTGCTTTACTTTGT-
1 TTGCTTTGCTTTGCTTTATA
* * * *
16347732 TTGCTTTACACTT-CTTTGTT
1 TTGCTTTGC-TTTGCTTTATA
** * *
16347752 TTGCTTTG-TTTTATTTTTCT
1 TTGCTTTGCTTTGCTTTAT-A
16347772 TTGCTTTG-TTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16347791 -----TTACTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16347806 TTGCATTAT-ATTT-CTTTGCT-
1 TTGC-TT-TGCTTTGCTTT-ATA
*
16347826 TTACTTTG-TTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
16347845 TTGCTTTGCTTTATATTGCTTTATA
1 TTGCTTTGC----T-TTGCTTTATA
* * *
16347870 TTACTTTACTTTACTTTATA
1 TTGCTTTGCTTTGCTTTATA
16347890 TTTCCTTGCTTTGCTTTGCTTTATATTA
1 -----TTGCTTTGCTTTGC-TT-TA-TA
* *
16347918 CTTTGTTTTGCTTTCCTTTATA
1 --TTGCTTTGCTTTGCTTTATA
**
16347940 TTAATTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
16347960 TTGCTTT
1 TTGCTTT
16347967 ATATTATTAC
Statistics
Matches: 860, Mismatches: 149, Indels: 286
0.66 0.12 0.22
Matches are distributed among these distances:
14 13 0.02
15 51 0.06
16 28 0.03
17 7 0.01
18 23 0.03
19 112 0.13
20 460 0.53
21 38 0.04
22 10 0.01
23 9 0.01
24 31 0.04
25 71 0.08
26 3 0.00
27 2 0.00
28 2 0.00
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.61
Consensus pattern (20 bp):
TTGCTTTGCTTTGCTTTATA
Found at i:16349973 original size:27 final size:27
Alignment explanation
Indices: 16349950--16350043 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
16349940 AAAGCAAAGT
* * **
16349950 AAAGCAAGATAAAAAGCAAAGCAAAGC
1 AAAGCAATATAAAAAGCAAAGAAAATA
* *
16349977 AGAGCAATATAAAAAGCAAAGAAAATC
1 AAAGCAATATAAAAAGCAAAGAAAATA
* *
16350004 AAAGCAATTTAAAAATCAAAGAAAATA
1 AAAGCAATATAAAAAGCAAAGAAAATA
16350031 AAAGCAATATAAA
1 AAAGCAATATAAA
16350044 GCAAAGTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.65, C:0.11, G:0.13, T:0.12
Consensus pattern (27 bp):
AAAGCAATATAAAAAGCAAAGAAAATA
Found at i:16350100 original size:22 final size:22
Alignment explanation
Indices: 16350051--16350097 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16350041 AAAGCAAAGT
*
16350051 AAAGCACAACACATCAATGTAA
1 AAAGCACAACACATCAATATAA
16350073 AAAGCACAAACACGA-CAATATAA
1 AAAGCAC-AACAC-ATCAATATAA
16350096 AA
1 AA
16350098 GCAAAGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 14 0.64
24 1 0.05
ACGTcount: A:0.60, C:0.21, G:0.09, T:0.11
Consensus pattern (22 bp):
AAAGCACAACACATCAATATAA
Found at i:16350105 original size:5 final size:5
Alignment explanation
Indices: 16350095--16350303 Score: 100
Period size: 5 Copynumber: 40.4 Consensus size: 5
16350085 CGACAATATA
* * ** *
16350095 AAAGC AAAGC AAAGC AAAAC AATATC AATATA AAAGC AAAGC AAAGC AAAAC
1 AAAGC AAAGC AAAGC AAAGC AA-AGC AA-AGC AAAGC AAAGC AAAGC AAAGC
* * ** * *
16350147 AAAGT AAAGC ACAGC AAAGC AATATAA AAAGC AAAGC AAAGC AAAAC AATATAC
1 AAAGC AAAGC AAAGC AAAGC AA-A-GC AAAGC AAAGC AAAGC AAAGC AA-A-GC
* * ** * * *
16350201 AAACC AAAGC AACGC AAAATA AAAGC AAAGA AAAAC AAAGC GAAGC ACAA-C
1 AAAGC AAAGC AAAGC -AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC A-AAGC
* * * * *
16350252 AAAGA AAAAC AAAGC ACAGC ATAGC ACAA-C ACAA-C AAAGC AGAGC AAAGC
1 AAAGC AAAGC AAAGC AAAGC AAAGC A-AAGC A-AAGC AAAGC AAAGC AAAGC
16350302 AA
1 AA
16350304 CATAAAAAAC
Statistics
Matches: 155, Mismatches: 39, Indels: 20
0.72 0.18 0.09
Matches are distributed among these distances:
4 4 0.03
5 127 0.82
6 18 0.12
7 6 0.04
ACGTcount: A:0.62, C:0.20, G:0.13, T:0.05
Consensus pattern (5 bp):
AAAGC
Found at i:16350109 original size:32 final size:32
Alignment explanation
Indices: 16350073--16350148 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 32
16350063 ATCAATGTAA
*
16350073 AAAGCACAAACACGA-CAATATAAAAGCAAAGC
1 AAAGCA-AAACAAGATCAATATAAAAGCAAAGC
*
16350105 AAAGCAAAACAATATCAATATAAAAGCAAAGC
1 AAAGCAAAACAAGATCAATATAAAAGCAAAGC
16350137 AAAGCAAAACAA
1 AAAGCAAAACAA
16350149 AGTAAAGCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 6 0.15
32 35 0.85
ACGTcount: A:0.63, C:0.18, G:0.11, T:0.08
Consensus pattern (32 bp):
AAAGCAAAACAAGATCAATATAAAAGCAAAGC
Found at i:16350130 original size:27 final size:25
Alignment explanation
Indices: 16350100--16350219 Score: 98
Period size: 27 Copynumber: 4.6 Consensus size: 25
16350090 ATATAAAAGC
16350100 AAAGCAAAGCAAAACAATATCAATAT
1 AAAGCAAAGCAAAACAATATCAA-AT
* *
16350126 AAAAGCAAAGCAAAGCAA-AACAAAGT
1 -AAAGCAAAGCAAAACAATATCAAA-T
* * * *
16350152 AAAGCACAGCAAAGCAATATAAAAAGC
1 AAAGCAAAGCAAAACAATAT-CAAA-T
*
16350179 AAAGCAAAGCAAAACAATATACAAACC
1 AAAGCAAAGCAAAACAATAT-CAAA-T
*
16350206 AAAGCAACGCAAAA
1 AAAGCAAAGCAAAA
16350220 TAAAAGCAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
25 17 0.22
26 6 0.08
27 56 0.71
ACGTcount: A:0.62, C:0.18, G:0.12, T:0.07
Consensus pattern (25 bp):
AAAGCAAAGCAAAACAATATCAAAT
Found at i:16350318 original size:17 final size:17
Alignment explanation
Indices: 16350296--16350340 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16350286 CAAAGCAGAG
16350296 CAAAGCAACATAAAAAA
1 CAAAGCAACATAAAAAA
** *
16350313 CAAAGCAATTTAAAAAG
1 CAAAGCAACATAAAAAA
16350330 CAAAGCAACAT
1 CAAAGCAACAT
16350341 GTTGACAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.11
Consensus pattern (17 bp):
CAAAGCAACATAAAAAA
Found at i:16351297 original size:30 final size:30
Alignment explanation
Indices: 16351242--16351298 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16351232 ACATAAAGTA
* *
16351242 ATATTGCTTTATATTACTTTGCTTTGCCTT
1 ATATTACTTTATATTACTTTCCTTTGCCTT
**
16351272 ATATTACTTTATATTGTTTTCCTTTGC
1 ATATTACTTTATATTACTTTCCTTTGC
16351299 TTTGCTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.58
Consensus pattern (30 bp):
ATATTACTTTATATTACTTTCCTTTGCCTT
Found at i:16351504 original size:27 final size:27
Alignment explanation
Indices: 16351451--16351504 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
16351441 TGGTAGGTGG
16351451 ATTTAATTTATTTAATGATTATTTTTT
1 ATTTAATTTATTTAATGATTATTTTTT
16351478 ATTTAATTATATTT-AT-ATTATTGTTTT
1 ATTTAATT-TATTTAATGATTATT-TTTT
16351505 TAATAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.24
27 14 0.56
28 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (27 bp):
ATTTAATTTATTTAATGATTATTTTTT
Found at i:16353655 original size:24 final size:24
Alignment explanation
Indices: 16353621--16353666 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
16353611 GTTGGATCCA
16353621 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAATTCTAAAAA-ATAATTAG
*
16353646 AATT-AATTCTAAACAATAATT
1 AATTAAATTCTAAAAAATAATT
16353667 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
AATTAAATTCTAAAAAATAATTAG
Found at i:16354714 original size:20 final size:20
Alignment explanation
Indices: 16354691--16354740 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
16354681 TTTCTTCTTC
16354691 TTTTTTTCCAAATTTTTTCT
1 TTTTTTTCCAAATTTTTTCT
* * *
16354711 TTTTTTTTCAATTTTTTTTT
1 TTTTTTTCCAAATTTTTTCT
16354731 TATTTTTTCC
1 T-TTTTTTCC
16354741 TTTCCTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTTCCAAATTTTTTCT
Found at i:16354723 original size:19 final size:20
Alignment explanation
Indices: 16354680--16354739 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
16354670 TTTTTTATAT
16354680 TTTTCTTCTTCTTTTTTTCCAAA
1 TTTT-TTCTT-TTTTTTT-CAAA
16354703 TTTTTTCTTTTTTTTTC-AA
1 TTTTTTCTTTTTTTTTCAAA
*
16354722 TTTTTTTTTTATTTTTTC
1 TTTTTTCTTT-TTTTTTC
16354740 CTTTCCTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 11 0.31
20 8 0.23
21 7 0.20
22 5 0.14
23 4 0.11
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTTCAAA
Found at i:16354729 original size:23 final size:22
Alignment explanation
Indices: 16354703--16354760 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
16354693 TTTTTCCAAA
*
16354703 TTTTTTCTTTTTT-TTTCAATTTT
1 TTTTTTCTTTTTTCTTTC--CTTT
*
16354726 TTTTTTATTTTTTCCTTTCCTTT
1 TTTTTTCTTTTTT-CTTTCCTTT
16354749 TTTTTTCTTTTT
1 TTTTTTCTTTTT
16354761 CTAAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 26 0.87
25 4 0.13
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTCTTTTTTCTTTCCTTT
Found at i:16356568 original size:18 final size:18
Alignment explanation
Indices: 16356545--16356580 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16356535 TCGGAGGTGC
16356545 TCATAAACTCCTCAGTGT
1 TCATAAACTCCTCAGTGT
16356563 TCATAAACTCCTCAGTGT
1 TCATAAACTCCTCAGTGT
16356581 AAATATCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (18 bp):
TCATAAACTCCTCAGTGT
Found at i:16357245 original size:3 final size:3
Alignment explanation
Indices: 16357225--16357298 Score: 85
Period size: 3 Copynumber: 23.7 Consensus size: 3
16357215 CTTTAGTACA
* * * *
16357225 AAT AGT AAT AAA AAT AAT AAT AAG AAT AAAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
16357271 AAAT ATAT AAT AAT AAT AAT AAT AAT AA
1 -AAT A-AT AAT AAT AAT AAT AAT AAT AA
16357299 AACAATATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 51 0.85
4 9 0.15
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:16357261 original size:16 final size:16
Alignment explanation
Indices: 16357236--16357298 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
16357226 ATAGTAATAA
16357236 AAATAATAATAAGAAT
1 AAATAATAATAAGAAT
*
16357252 AAATAGTAATAATAATAAT
1 -AA-A-TAATAATAAGAAT
*
16357271 AAATATATAATAATAAT
1 AAATA-ATAATAAGAAT
16357288 -AATAATAATAA
1 AAATAATAATAA
16357299 AACAATATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 7 0.17
16 6 0.14
17 14 0.33
18 3 0.07
19 12 0.29
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAATAATAATAAGAAT
Found at i:16358121 original size:75 final size:75
Alignment explanation
Indices: 16358002--16358159 Score: 201
Period size: 75 Copynumber: 2.1 Consensus size: 75
16357992 CTTCTCCCAT
* * * ** *
16358002 GCCCGTGTCTATAAGATGTATGTTGTTTCGAAATTTTGCAAAATTAAGCTTGAGTAGACACACGG
1 GCCCGTGTCTATAAGATGTATGTCGTTTCAAAATTTTACAAAATTAAGCTCCAGTAGACACACGA
*
16358067 TCAGTCCCAC
66 TCAGTCACAC
* * *
16358077 TCCCGTGTCTATAAG-TCGTGTGTCGTTTCAAAATTTTACGAAATTAAGCTCCAGTAGACACACG
1 GCCCGTGTCTATAAGAT-GTATGTCGTTTCAAAATTTTACAAAATTAAGCTCCAGTAGACACACG
*
16358141 ATCATTCACAC
65 ATCAGTCACAC
16358152 GCCCGTGT
1 GCCCGTGT
16358160 GTTTCGGTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
74 1 0.01
75 69 0.99
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (75 bp):
GCCCGTGTCTATAAGATGTATGTCGTTTCAAAATTTTACAAAATTAAGCTCCAGTAGACACACGA
TCAGTCACAC
Found at i:16363951 original size:10 final size:11
Alignment explanation
Indices: 16363938--16363984 Score: 53
Period size: 10 Copynumber: 4.3 Consensus size: 11
16363928 AATTTTTTTC
16363938 TTCTTTTCT-T
1 TTCTTTTCTCT
16363948 TTCTTTTCTCT
1 TTCTTTTCTCT
16363959 TTCTTTTTCTCAT
1 TTC-TTTTCTC-T
*
16363972 TT-TTTTCTTT
1 TTCTTTTCTCT
16363982 TTC
1 TTC
16363985 AAGTGACTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 12 0.38
11 10 0.31
12 7 0.22
13 3 0.09
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TTCTTTTCTCT
Found at i:16374528 original size:50 final size:50
Alignment explanation
Indices: 16374457--16374636 Score: 130
Period size: 50 Copynumber: 3.6 Consensus size: 50
16374447 AATAGAACGA
* * * *
16374457 CAAATC-CTATACCACTGAAGCTGTAGAGGAACGAATTAAAGTCGCAA-TGG
1 CAAATCTC-ATACAACTAAAGCTGTAGAGGAACAAATTAAAGCCG-AATTGG
* ** *
16374507 CAAATCTCATACAACTAAAGCTATAGAGGGGCAAATTGAAGCCGAATTGG
1 CAAATCTCATACAACTAAAGCTGTAGAGGAACAAATTAAAGCCGAATTGG
* * * * *** * * *
16374557 CGAATCTCATTCACCTAAAGCTGTAAAGGGGTAGATTGAAGCCGTATTGG
1 CAAATCTCATACAACTAAAGCTGTAGAGGAACAAATTAAAGCCGAATTGG
* * * *
16374607 CGAATCTCATTCACCTAAAGTTGTAGAGGA
1 CAAATCTCATACAACTAAAGCTGTAGAGGA
16374637 GAAGATTGAA
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 2 0.02
50 106 0.97
51 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (50 bp):
CAAATCTCATACAACTAAAGCTGTAGAGGAACAAATTAAAGCCGAATTGG
Found at i:16374643 original size:50 final size:50
Alignment explanation
Indices: 16374504--16374652 Score: 192
Period size: 50 Copynumber: 3.0 Consensus size: 50
16374494 AAAGTCGCAA
* * * * *
16374504 TGGCAAATCTCATACAACTAAAGCTATAGAGGGGCAA-ATTGAAGCCGAAT
1 TGGCGAATCTCATTCACCTAAAGCTGTAGAGGGG-AAGATTGAAGCCGTAT
* *
16374554 TGGCGAATCTCATTCACCTAAAGCTGTAAAGGGGTAGATTGAAGCCGTAT
1 TGGCGAATCTCATTCACCTAAAGCTGTAGAGGGGAAGATTGAAGCCGTAT
* * *
16374604 TGGCGAATCTCATTCACCTAAAGTTGTAGAGGAGAAGATTGAAGTCGTA
1 TGGCGAATCTCATTCACCTAAAGCTGTAGAGGGGAAGATTGAAGCCGTA
16374653 AGGACGAATC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 85 0.99
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (50 bp):
TGGCGAATCTCATTCACCTAAAGCTGTAGAGGGGAAGATTGAAGCCGTAT
Found at i:16374806 original size:39 final size:39
Alignment explanation
Indices: 16374700--16374990 Score: 218
Period size: 39 Copynumber: 7.4 Consensus size: 39
16374690 TACAACCCCG
* * * *
16374700 AATCTTTTACCCTAACTAAAGGGCAAATTGAAGACCATCC
1 AATCTTTTACCCTAACCAGAGGGCAGATTG-AGACAATCC
* * * * * *
16374740 GATCTCTTACCCTGACCA-TGGGAAGATTGAGGCAATCC
1 AATCTTTTACCCTAACCAGAGGGCAGATTGAGACAATCC
* *
16374778 AATCTTTTACCCTAACCAGAGGGCAGATTAAAGACCA-CC
1 AATCTTTTACCCTAACCAGAGGGCAGATT-GAGACAATCC
* * * *
16374817 TGATCTCTTACCTTTAA-CATG-GGACAGATTGA-AGCAATCC
1 -AATCTTTTACC-CTAACCA-GAGGGCAGATTGAGA-CAATCC
* *
16374857 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCC
1 AATCTTTTACCCTAACCAGAGGGCAGATTG-AGACAATCC
* * * *
16374897 GATCTCTTACCCTGACCATG-GGGCAGACTGA-AGCAATCC
1 AATCTTTTACCCTAACCA-GAGGGCAGATTGAGA-CAATCC
* * *
16374936 AATCTTTTACCCTAACCAGATGGTAGATTGAGACAATCT
1 AATCTTTTACCCTAACCAGAGGGCAGATTGAGACAATCC
16374975 AATCTTTTACCTCTAA
1 AATCTTTTACC-CTAA
16374991 AATTATAGAG
Statistics
Matches: 193, Mismatches: 42, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
38 29 0.15
39 85 0.44
40 73 0.38
41 6 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (39 bp):
AATCTTTTACCCTAACCAGAGGGCAGATTGAGACAATCC
Found at i:16374878 original size:79 final size:79
Alignment explanation
Indices: 16374700--16374966 Score: 394
Period size: 79 Copynumber: 3.4 Consensus size: 79
16374690 TACAACCCCG
* *
16374700 AATCTTTTACCCTAACTAAAGGGCAAATTGAAGACCATCCGATCTCTTACCCTGACCATGGGA-A
1 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATGGGACA
*
16374764 GATTGAGGCAATCC
66 GATTGAAGCAATCC
* * * * *
16374778 AATCTTTTACCCTAACCAGAGGGCAGATTAAAGACCA-CCTGATCTCTTACCTTTAACATGGGAC
1 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCC-GATCTCTTACCCTGACCATGGGAC
16374842 AGATTGAAGCAATCC
65 AGATTGAAGCAATCC
*
16374857 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATGGGGCA
1 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATGGGACA
*
16374922 GACTGAAGCAATCC
66 GATTGAAGCAATCC
* * *
16374936 AATCTTTTACCCTAACCAGATGGTAGATTGA
1 AATCTTTTACCCTAACTAGAGGGCAGATTGA
16374967 GACAATCTAA
Statistics
Matches: 168, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
77 2 0.01
78 53 0.32
79 111 0.66
80 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (79 bp):
AATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATGGGACA
GATTGAAGCAATCC
Found at i:16374986 original size:157 final size:157
Alignment explanation
Indices: 16374700--16374986 Score: 450
Period size: 157 Copynumber: 1.8 Consensus size: 157
16374690 TACAACCCCG
16374700 AATCTTTTACCCTAACTAAAGGGCAAATTGAAGACCATCCGATCTCTTACCCTGACCATGGGAAG
1 AATCTTTTACCCTAACTAAAGGGCAAATTGAAGACCATCCGATCTCTTACCCTGACCATGGGAAG
* * * *
16374765 ATTGAGGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTAAAGACCACCTGATCTCTTACCT
66 ACTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTAAAGACAACCTAATCTCTTACCT
16374830 TTAACATGGGACAGATTGAAGCAATCC
131 TTAACATGGGACAGATTGAAGCAATCC
* * *
16374857 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATGGGGCA
1 AATCTTTTACCCTAACTAAAGGGCAAATTGAAGACCATCCGATCTCTTACCCTGACCAT-GGGAA
* * * * *
16374922 GACTGAAGCAATCCAATCTTTTACCCTAACCAGATGGTAGATT-GAGACAATCTAATCTTTTACC
65 GACTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTAAAGACAACCTAATCTCTTACC
16374986 T
130 T
16374987 CTAAAATTAT
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
157 74 0.63
158 43 0.37
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (157 bp):
AATCTTTTACCCTAACTAAAGGGCAAATTGAAGACCATCCGATCTCTTACCCTGACCATGGGAAG
ACTGAAGCAATCCAATCTTTTACCCTAACCAGAGGGCAGATTAAAGACAACCTAATCTCTTACCT
TTAACATGGGACAGATTGAAGCAATCC
Found at i:16378191 original size:15 final size:15
Alignment explanation
Indices: 16378171--16378261 Score: 66
Period size: 15 Copynumber: 6.1 Consensus size: 15
16378161 TTTAGTAATA
16378171 TTGCTTTATATTGCT
1 TTGCTTTATATTGCT
16378186 TTGCTTT-TCATTGCT
1 TTGCTTTAT-ATTGCT
* *
16378201 TT-ATATTATTTTG-T
1 TTGCT-TTATATTGCT
*
16378215 TTCGCTTTATATTACT
1 TT-GCTTTATATTGCT
*
16378231 TTGCTTTGCT-TTG-T
1 TTGCTTT-ATATTGCT
*
16378245 TTGCTTTATATTACT
1 TTGCTTTATATTGCT
16378260 TT
1 TT
16378262 ATATTTCTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
13 1 0.02
14 15 0.26
15 36 0.62
16 6 0.10
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.63
Consensus pattern (15 bp):
TTGCTTTATATTGCT
Found at i:16378213 original size:25 final size:25
Alignment explanation
Indices: 16378170--16378237 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
16378160 ATTTAGTAAT
*
16378170 ATTGCTTTATATTGCTTTGCTTTTC
1 ATTGCTTTATATTACTTTGCTTTTC
*
16378195 ATTGCTTTATATTATTTTG--TTTC
1 ATTGCTTTATATTACTTTGCTTTTC
16378218 ---GCTTTATATTACTTTGCTTT
1 ATTGCTTTATATTACTTTGCTTT
16378238 GCTTTGTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 15 0.39
22 2 0.05
23 4 0.11
25 17 0.45
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.62
Consensus pattern (25 bp):
ATTGCTTTATATTACTTTGCTTTTC
Found at i:16378223 original size:20 final size:20
Alignment explanation
Indices: 16378196--16378281 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
16378186 TTGCTTTTCA
*
16378196 TTGCTTTATATTATTTTG-T
1 TTGCTTTATATTACTTTGCT
16378215 TTCGCTTTATATTACTTTGCT
1 TT-GCTTTATATTACTTTGCT
* * *
16378236 TTGCTTTGT-TTGCTTT-AT
1 TTGCTTTATATTACTTTGCT
* *
16378254 ATTACTTTATATTTCTTTGCT
1 -TTGCTTTATATTACTTTGCT
16378275 TTGCTTT
1 TTGCTTT
16378282 GCTTCATATT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
18 1 0.02
19 15 0.28
20 33 0.62
21 4 0.08
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.64
Consensus pattern (20 bp):
TTGCTTTATATTACTTTGCT
Found at i:16380775 original size:15 final size:15
Alignment explanation
Indices: 16380757--16380794 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
16380747 CTTTGCTTTG
*
16380757 CTTTTCTTTATATTA
1 CTTTGCTTTATATTA
*
16380772 CTTTGCTTTATATTG
1 CTTTGCTTTATATTA
16380787 CTTTGCTT
1 CTTTGCTT
16380795 CATCATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.16, G:0.08, T:0.63
Consensus pattern (15 bp):
CTTTGCTTTATATTA
Found at i:16381916 original size:27 final size:28
Alignment explanation
Indices: 16381882--16381963 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
16381872 GCTAGTATAG
* *
16381882 AGCAAAGAGCAAAGA-AAAGCCAAGTAA
1 AGCAAAGAGCAAAAACAAAGCCAAGCAA
16381909 AGCAAAGAG-AAAAACAAAGCCAAGCAA
1 AGCAAAGAGCAAAAACAAAGCCAAGCAA
* **
16381936 AGCAAAGAGC-GAAACAAAGTAAAGCAA
1 AGCAAAGAGCAAAAACAAAGCCAAGCAA
16381963 A
1 A
16381964 TTGAAATCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.08
27 44 0.92
ACGTcount: A:0.61, C:0.16, G:0.21, T:0.02
Consensus pattern (28 bp):
AGCAAAGAGCAAAAACAAAGCCAAGCAA
Found at i:16383457 original size:15 final size:15
Alignment explanation
Indices: 16383437--16383471 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16383427 TAACAATGTA
*
16383437 AATTTTAGTGGTATT
1 AATTTTAGTGATATT
16383452 AATTTTAGTGATATT
1 AATTTTAGTGATATT
16383467 -ATTTT
1 AATTTT
16383472 CATGGCAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (15 bp):
AATTTTAGTGATATT
Found at i:16402158 original size:15 final size:15
Alignment explanation
Indices: 16402138--16402169 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16402128 AAGTCCTGCA
16402138 TTATATTACTTTGCT
1 TTATATTACTTTGCT
*
16402153 TTATATTAGTTTGCT
1 TTATATTACTTTGCT
16402168 TT
1 TT
16402170 GCTTTGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.62
Consensus pattern (15 bp):
TTATATTACTTTGCT
Found at i:16402180 original size:25 final size:25
Alignment explanation
Indices: 16402146--16402250 Score: 92
Period size: 25 Copynumber: 4.2 Consensus size: 25
16402136 CATTATATTA
16402146 CTTTGCTTTATATTAGT-T-TGCTTTG
1 CTTTGCTTTATA-TA-TCTCTGCTTTG
16402171 CTTTGCTTTATATATCTCTGCTTTG
1 CTTTGCTTTATATATCTCTGCTTTG
* * * *
16402196 CTTTGCTTTGCTTTATAT-TGCCTT-
1 CTTTGCTTT-ATATATCTCTGCTTTG
* *
16402220 CATTTGTTTTATATTTCTCTGCTTTG
1 C-TTTGCTTTATATATCTCTGCTTTG
16402246 CTTTG
1 CTTTG
16402251 TTGTACTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.02
24 8 0.12
25 49 0.77
26 6 0.09
ACGTcount: A:0.10, C:0.17, G:0.13, T:0.59
Consensus pattern (25 bp):
CTTTGCTTTATATATCTCTGCTTTG
Found at i:16402216 original size:20 final size:20
Alignment explanation
Indices: 16402193--16402249 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
16402183 TATCTCTGCT
16402193 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16402213 TTGCCTT-CATTTGTTTTATA
1 TTGCTTTGC-TTTGCTTTATA
* *
16402233 TTTCTCTGCTTTGCTTT
1 TTGCTTTGCTTTGCTTT
16402250 GTTGTACTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.09, C:0.18, G:0.12, T:0.61
Consensus pattern (20 bp):
TTGCTTTGCTTTGCTTTATA
Found at i:16402474 original size:29 final size:27
Alignment explanation
Indices: 16402419--16402476 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 27
16402409 TAATAGATGG
16402419 ATTTAACTTATTTAATGATTATTTTTA
1 ATTTAACTTATTTAATGATTATTTTTA
* *
16402446 ATTTAATTATATTTATATTATTATTTTTA
1 ATTTAACT-TATTTA-ATGATTATTTTTA
16402475 AT
1 AT
16402477 AATTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 7 0.26
28 6 0.22
29 14 0.52
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
ATTTAACTTATTTAATGATTATTTTTA
Found at i:16405716 original size:52 final size:51
Alignment explanation
Indices: 16405631--16405821 Score: 222
Period size: 52 Copynumber: 3.7 Consensus size: 51
16405621 TTCACTTCAG
* * * * *
16405631 TCATATACTCATGATGACACATAGCCACCGGACCTTATAATCCGCAAGGGAT
1 TCATATACTCACGATGACACATAGTCATCGGACCTT-TAATCCGTAAAGGAT
* * *
16405683 TCATATACTTACGATGACACAGAGTCATAGGACCTCTTAATCCGTAAAGGAT
1 TCATATACTCACGATGACACATAGTCATCGGACCT-TTAATCCGTAAAGGAT
* * * *
16405735 CCATATACTCGA-GATGACACTTAGTCATCGAACCTTTTAATTCGTAAAGGAT
1 TCATATACTC-ACGATGACACATAGTCATCGGACC-TTTAATCCGTAAAGGAT
*
16405787 TCATATACTCACAATGACACATAGTCATCGGACCT
1 TCATATACTCACGATGACACATAGTCATCGGACCT
16405822 CTTCATTTAT
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
51 2 0.02
52 111 0.96
53 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (51 bp):
TCATATACTCACGATGACACATAGTCATCGGACCTTTAATCCGTAAAGGAT
Found at i:16405813 original size:104 final size:104
Alignment explanation
Indices: 16405632--16405824 Score: 262
Period size: 104 Copynumber: 1.9 Consensus size: 104
16405622 TCACTTCAGT
* * * *
16405632 CATATACTCATGATGACACATAGCCACCGGACCTTATAATCCGCAAGGGATTCATATACTTACGA
1 CATATACTCATGATGACACATAGCCACCGAACCTTATAATCCGCAAAGGATTCATATACTCACAA
16405697 TGACACAGAGTCATAGGACCTCTTAATCCGTAAAGGATC
66 TGACACAGAGTCATAGGACCTCTTAATCCGTAAAGGATC
* * * * * *
16405736 CATATACTCGA-GATGACACTTAGTCATCGAACCTTTTAATTCGTAAAGGATTCATATACTCACA
1 CATATACTC-ATGATGACACATAGCCACCGAACCTTATAATCCGCAAAGGATTCATATACTCACA
* *
16405800 ATGACACATAGTCATCGGACCTCTT
65 ATGACACAGAGTCATAGGACCTCTT
16405825 CATTTATGGC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
104 75 0.99
105 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (104 bp):
CATATACTCATGATGACACATAGCCACCGAACCTTATAATCCGCAAAGGATTCATATACTCACAA
TGACACAGAGTCATAGGACCTCTTAATCCGTAAAGGATC
Found at i:16409200 original size:27 final size:27
Alignment explanation
Indices: 16409165--16409396 Score: 133
Period size: 27 Copynumber: 8.7 Consensus size: 27
16409155 CATATAATAT
*
16409165 AAAGTAAAGCAAAGCAAAGCAATATAA
1 AAAGCAAAGCAAAGCAAAGCAATATAA
* * *
16409192 AAAGCAAAGAAAATCAAAACAATATAA
1 AAAGCAAAGCAAAGCAAAGCAATATAA
* **
16409219 AAAGCAAAGTAAATAAAAGCAATAT--
1 AAAGCAAAGCAAAGCAAAGCAATATAA
*
16409244 AATGCAAAGCAAAGCACAA-CACATA-AA
1 AAAGCAAAGCAAAGCA-AAGCA-ATATAA
* *
16409271 TATAA--AAAGCACAGC-ACGTCAATATAA
1 -A-AAGCAAAGCAAAGCAAAG-CAATATAA
* * *
16409298 AAAGCAAAGCAAAACAAAACAATATCA
1 AAAGCAAAGCAAAGCAAAGCAATATAA
* ** * *
16409325 ATATAAAACCAAAGCAAAGCAA-A-AC
1 AAAGCAAAGCAAAGCAAAGCAATATAA
* **
16409350 AAAGCAAAACAATATAAAAAGCAATAT-A
1 AAAGCAAAGCAA-A-GCAAAGCAATATAA
*
16409378 AAAGCAAAGCAAAACAAAG
1 AAAGCAAAGCAAAGCAAAG
16409397 TAAAGAATAG
Statistics
Matches: 153, Mismatches: 36, Indels: 33
0.69 0.16 0.15
Matches are distributed among these distances:
25 25 0.16
26 16 0.10
27 97 0.63
28 14 0.09
29 1 0.01
ACGTcount: A:0.64, C:0.15, G:0.10, T:0.11
Consensus pattern (27 bp):
AAAGCAAAGCAAAGCAAAGCAATATAA
Found at i:16409348 original size:32 final size:33
Alignment explanation
Indices: 16409289--16409351 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
16409279 GCACAGCACG
*
16409289 TCAATATAAAAAGCAAAGCAAAACAAAACAATA
1 TCAATATAAAAACCAAAGCAAAACAAAACAATA
*
16409322 TCAATAT-AAAACCAAAGCAAAGCAAAACAA
1 TCAATATAAAAACCAAAGCAAAACAAAACAA
16409352 AGCAAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.65, C:0.17, G:0.06, T:0.11
Consensus pattern (33 bp):
TCAATATAAAAACCAAAGCAAAACAAAACAATA
Found at i:16409388 original size:5 final size:5
Alignment explanation
Indices: 16409378--16409481 Score: 59
Period size: 5 Copynumber: 20.2 Consensus size: 5
16409368 AAGCAATATA
* * * **
16409378 AAAGC AAAGC AAAAC AAAGT AAAG- AATAGC AATGC AATATAA AAAGC
1 AAAGC AAAGC AAAGC AAAGC AAAGC AA-AGC AAAGC AA-A-GC AAAGC
* ** * *
16409425 AAAGC AAAGC CAAGC AATATAA AAAGC AAAGT AAAGC AAAG- AAAAC AAAGC
1 AAAGC AAAGC AAAGC AA-A-GC AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC
16409476 AAAGC A
1 AAAGC A
16409482 CAACACAGCA
Statistics
Matches: 73, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
4 5 0.07
5 59 0.81
6 5 0.07
7 4 0.05
ACGTcount: A:0.62, C:0.14, G:0.15, T:0.08
Consensus pattern (5 bp):
AAAGC
Found at i:16409439 original size:10 final size:10
Alignment explanation
Indices: 16409334--16409481 Score: 66
Period size: 10 Copynumber: 14.2 Consensus size: 10
16409324 AATATAAAAC
16409334 CAAAGCAAAG
1 CAAAGCAAAG
*
16409344 CAAAACAAAG
1 CAAAGCAAAG
* *
16409354 CAAAACAATATA
1 CAAAGCAA-A-G
* *
16409366 AAAAGCAATAT
1 CAAAGCAA-AG
*
16409377 AAAAGCAAAG
1 CAAAGCAAAG
*
16409387 CAAAACAAAG
1 CAAAGCAAAG
*
16409397 TAAAG-AATAG
1 CAAAGCAA-AG
* *
16409407 CAATGCAATATA
1 CAAAGCAA-A-G
*
16409419 AAAAGCAAAG
1 CAAAGCAAAG
*
16409429 CAAAGCCAAG
1 CAAAGCAAAG
**
16409439 CAATATAAAAAG
1 CAA-A-GCAAAG
*
16409451 CAAAGTAAAG
1 CAAAGCAAAG
*
16409461 CAAAG-AAAA
1 CAAAGCAAAG
16409470 CAAAGCAAAG
1 CAAAGCAAAG
16409480 CA
1 CA
16409482 CAACACAGCA
Statistics
Matches: 105, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
9 10 0.10
10 59 0.56
11 16 0.15
12 20 0.19
ACGTcount: A:0.64, C:0.15, G:0.14, T:0.08
Consensus pattern (10 bp):
CAAAGCAAAG
Found at i:16409441 original size:27 final size:27
Alignment explanation
Indices: 16409340--16409481 Score: 134
Period size: 27 Copynumber: 5.4 Consensus size: 27
16409330 AAACCAAAGC
* *
16409340 AAAGCAAAACAAAGCAAAACAATATAA
1 AAAGCAAAGCAAAGCAAAGCAATATAA
** *
16409367 AAAGCAATATAAAAGCAAAGCAA-A-AC
1 AAAGCAA-AGCAAAGCAAAGCAATATAA
* *
16409393 AAAGTAAAG-AATAGCAATGCAATATAA
1 AAAGCAAAGCAA-AGCAAAGCAATATAA
*
16409420 AAAGCAAAGCAAAGCCAAGCAATATAA
1 AAAGCAAAGCAAAGCAAAGCAATATAA
* *
16409447 AAAGCAAAGTAAAGCAAAG-AA-A-AC
1 AAAGCAAAGCAAAGCAAAGCAATATAA
16409471 AAAGCAAAGCA
1 AAAGCAAAGCA
16409482 CAACACAGCA
Statistics
Matches: 95, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
24 13 0.14
25 11 0.12
26 10 0.11
27 47 0.49
28 14 0.15
ACGTcount: A:0.64, C:0.14, G:0.13, T:0.08
Consensus pattern (27 bp):
AAAGCAAAGCAAAGCAAAGCAATATAA
Found at i:16410867 original size:3 final size:3
Alignment explanation
Indices: 16410861--16410885 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16410851 GTTGTCCTCT
16410861 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
16410886 ATAGGTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16414029 original size:5 final size:5
Alignment explanation
Indices: 16414015--16414283 Score: 75
Period size: 5 Copynumber: 51.4 Consensus size: 5
16414005 CATATAATAT
* ** * **
16414015 AAAGT AAAGC AAAGC AAGATA AAAAGC AAAGC AAAGC AGAGC AATATAA
1 AAAGC AAAGC AAAGC AA-AGC A-AAGC AAAGC AAAGC AAAGC AA-A-GC
* * ** ** *
16414064 AAAGC AAAGA AAATC AAAGC AATATAA AAAGC AAAGC AAATA AAAGC AATA-T
1 AAAGC AAAGC AAAGC AAAGC AA-A-GC AAAGC AAAGC AAAGC AAAGC AA-AGC
* * ** *
16414116 AAAGC AAAGC AAAGC AAAGC ACAGC -ATGAC AATATAA AAAGG AAAGC
1 AAAGC AAAGC AAAGC AAAGC AAAGC AAAG-C AA-A-GC AAAGC AAAGC
** ** ** *
16414163 AAAGC AATATAA AAAGC AAAGC AAAAT AATATAA AAAGC AAAGA AAAGC
1 AAAGC AA-A-GC AAAGC AAAGC AAAGC AA-A-GC AAAGC AAAGC AAAGC
* *
16414212 AAAG- AGAAAC AAAGC AAAGC ACAA-C AAAGC AAAGC AAAGC ACAGC ACAA-C
1 AAAGC A-AAGC AAAGC AAAGC A-AAGC AAAGC AAAGC AAAGC AAAGC A-AAGC
16414262 ACAA-C ACAA-C AAAGC AAAGC AA
1 A-AAGC A-AAGC AAAGC AAAGC AA
16414284 CATGTTGACA
Statistics
Matches: 193, Mismatches: 49, Indels: 44
0.67 0.17 0.15
Matches are distributed among these distances:
4 7 0.04
5 155 0.80
6 19 0.10
7 12 0.06
ACGTcount: A:0.62, C:0.16, G:0.15, T:0.07
Consensus pattern (5 bp):
AAAGC
Found at i:16414050 original size:27 final size:27
Alignment explanation
Indices: 16414015--16414243 Score: 185
Period size: 27 Copynumber: 8.6 Consensus size: 27
16414005 CATATAATAT
* *
16414015 AAAGTAAAGCAAAGCAAGATAAAAAGC
1 AAAGCAAAGCAAAGCAATATAAAAAGC
*
16414042 AAAGCAAAGCAGAGCAATATAAAAAGC
1 AAAGCAAAGCAAAGCAATATAAAAAGC
* *
16414069 AAAGAAAATCAAAGCAATATAAAAAGC
1 AAAGCAAAGCAAAGCAATATAAAAAGC
**
16414096 AAAGCAAATAAAAGCAATAT--AAAGC
1 AAAGCAAAGCAAAGCAATATAAAAAGC
* *
16414121 AAAGCAAAGCAAAGCACAGCATGACAATATA-A
1 AAAGCAAAGCAAAGCA-A-TAT-A-AA-A-AGC
*
16414153 AAAGGAAAGCAAAGCAATATAAAAAGC
1 AAAGCAAAGCAAAGCAATATAAAAAGC
*
16414180 AAAGC--A--AAA-TAATATAAAAAGC
1 AAAGCAAAGCAAAGCAATATAAAAAGC
* *
16414202 AAAGAAAAGCAAAG-AGA-A-ACAAAGC
1 AAAGCAAAGCAAAGCA-ATATAAAAAGC
16414227 AAAGCACAA-CAAAGCAA
1 AAAGCA-AAGCAAAGCAA
16414244 AGCAAAGCAC
Statistics
Matches: 165, Mismatches: 20, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
22 16 0.10
23 3 0.02
24 1 0.01
25 37 0.22
26 10 0.06
27 74 0.45
28 2 0.01
29 1 0.01
30 2 0.01
31 2 0.01
32 16 0.10
33 1 0.01
ACGTcount: A:0.63, C:0.14, G:0.15, T:0.08
Consensus pattern (27 bp):
AAAGCAAAGCAAAGCAATATAAAAAGC
Found at i:16414129 original size:20 final size:20
Alignment explanation
Indices: 16414096--16414252 Score: 78
Period size: 22 Copynumber: 7.8 Consensus size: 20
16414086 TATAAAAAGC
**
16414096 AAAGCAAATAAAAGCAATAT
1 AAAGCAAAGCAAAGCAATAT
16414116 AAAGCAAAGCAAAGC-----
1 AAAGCAAAGCAAAGCAATAT
* *
16414131 AAAGCACAGC-ATGACAATAT
1 AAAGCAAAGCAAAG-CAATAT
*
16414151 AAAAAGGAAAGCAAAGCAATAT
1 --AAAGCAAAGCAAAGCAATAT
**
16414173 AAAAAGCAAAGCAAAATAATAT
1 --AAAGCAAAGCAAAGCAATAT
* *
16414195 AAAAAGCAAAGAAAAGCAA-AG
1 --AAAGCAAAGCAAAGCAATAT
* *
16414216 AGAAACAAAGCAAAGCACA-AC
1 A-AAGCAAAGCAAAGCA-ATAT
16414237 AAAGCAAAGCAAAGCA
1 AAAGCAAAGCAAAGCA
16414253 CAGCACAACA
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
14 2 0.02
15 10 0.09
19 1 0.01
20 40 0.37
21 4 0.04
22 49 0.45
23 2 0.02
ACGTcount: A:0.63, C:0.15, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAGCAAAGCAAAGCAATAT
Found at i:16414180 original size:17 final size:17
Alignment explanation
Indices: 16414158--16414191 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16414148 TATAAAAAGG
*
16414158 AAAGCAAAGCAATATAA
1 AAAGCAAAGCAAAATAA
16414175 AAAGCAAAGCAAAATAA
1 AAAGCAAAGCAAAATAA
16414192 TATAAAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAGCAAAGCAAAATAA
Found at i:16414213 original size:111 final size:111
Alignment explanation
Indices: 16414042--16414252 Score: 247
Period size: 111 Copynumber: 1.9 Consensus size: 111
16414032 GATAAAAAGC
* * *
16414042 AAAGCAAAGCAGAGCAATATAAAAAGCAAAGAAAATCAAAGCAATATAAAAAGCAAAGCAAATA-
1 AAAGCAAAGCAAAGCAATATAAAAAGCAAAGAAAATCAAAGCAATATAAAAAGAAAAGCAAAGAG
* *
16414106 AAAGCAATA-TAAAGCA-AAGCAAAGCAAAGCACAGCATGACAATATAA
66 AAA-CAA-AGCAAAGCACAA-CAAAGCAAAGCAAAGCATGACAATATAA
* *
16414153 AAAGGAAAGCAAAGCAATATAAAAAGCAAAGCAAAAT-AATA-TAA-A-AAGCAAAGAAAAGCAA
1 AAAGCAAAGCAAAGCAATATAAAAAGCAAAG-AAAATCAA-AGCAATATAA--AAAGAAAAGCAA
16414214 AGAGAAACAAAGCAAAGCACAACAAAGCAAAGCAAAGCA
62 AGAGAAACAAAGCAAAGCACAACAAAGCAAAGCAAAGCA
16414253 CAGCACAACA
Statistics
Matches: 86, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
109 2 0.02
110 2 0.02
111 71 0.83
112 11 0.13
ACGTcount: A:0.63, C:0.14, G:0.15, T:0.08
Consensus pattern (111 bp):
AAAGCAAAGCAAAGCAATATAAAAAGCAAAGAAAATCAAAGCAATATAAAAAGAAAAGCAAAGAG
AAACAAAGCAAAGCACAACAAAGCAAAGCAAAGCATGACAATATAA
Found at i:16414239 original size:25 final size:24
Alignment explanation
Indices: 16414197--16414282 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 24
16414187 AATAATATAA
*
16414197 AAAGCAAAG-AAAAGCAAAGAGAAAC
1 AAAGCAAAGCACAA-CAAAGA-AAAC
*
16414222 AAAGCAAAGCACAACAAAGCAAAGC
1 AAAGCAAAGCACAACAAAG-AAAAC
* * *
16414247 AAAGCACAGCACAACACAACACAAC
1 AAAGCAAAGCACAACA-AAGAAAAC
16414272 AAAGCAAAGCA
1 AAAGCAAAGCA
16414283 ACATGTTGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
25 45 0.88
26 6 0.12
ACGTcount: A:0.62, C:0.23, G:0.15, T:0.00
Consensus pattern (24 bp):
AAAGCAAAGCACAACAAAGAAAAC
Found at i:16414246 original size:35 final size:35
Alignment explanation
Indices: 16414201--16414283 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
16414191 ATATAAAAAG
*
16414201 CAAAGAAAAGCAAAG-AGAAACA-AAGCA-AAGCACAA
1 CAAAGCAAAGCAAAGCA-AAACACAA-CACAA-CACAA
* *
16414236 CAAAGCAAAGCAAAGCACAGCACAACACAACACAA
1 CAAAGCAAAGCAAAGCAAAACACAACACAACACAA
16414271 CAAAGCAAAGCAA
1 CAAAGCAAAGCAA
16414284 CATGTTGACA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 37 0.88
36 5 0.12
ACGTcount: A:0.61, C:0.24, G:0.14, T:0.00
Consensus pattern (35 bp):
CAAAGCAAAGCAAAGCAAAACACAACACAACACAA
Found at i:16417046 original size:41 final size:43
Alignment explanation
Indices: 16416923--16417079 Score: 248
Period size: 43 Copynumber: 3.7 Consensus size: 43
16416913 CCGCAAAAAA
16416923 TAGCGGCGCTTT-TCCCACAAGCGCCGCTAAAGGCCATGTTCTT
1 TAGCGGCGCTTTCT-CCACAAGCGCCGCTAAAGGCCATGTTCTT
* *
16416966 TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGACAATGTTCTT
1 TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
*
16417009 TAGCGGCGC-TTC-CCACTAGCGCCGCTAAAGGCCATGTTCTT
1 TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
*
16417050 TAGCGGCGCTTTCTCCATAAGCGCCGCTAA
1 TAGCGGCGCTTTCTCCACAAGCGCCGCTAA
16417080 TATAACTGAT
Statistics
Matches: 104, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
41 35 0.34
42 6 0.06
43 62 0.60
44 1 0.01
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (43 bp):
TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
Found at i:16417066 original size:84 final size:85
Alignment explanation
Indices: 16416923--16417079 Score: 280
Period size: 84 Copynumber: 1.8 Consensus size: 85
16416913 CCGCAAAAAA
16416923 TAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGC
1 TAGCGGCGC-TTTCCCACAAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGC
16416988 GCCGCTAAAGACAATGTTCTT
65 GCCGCTAAAGACAATGTTCTT
* *
16417009 TAGCGGCGC-TTCCCACTAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCATAAGCG
1 TAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGCG
16417073 CCGCTAA
66 CCGCTAA
16417080 TATAACTGAT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
84 60 0.87
86 9 0.13
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (85 bp):
TAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGCG
CCGCTAAAGACAATGTTCTT
Found at i:16417168 original size:15 final size:15
Alignment explanation
Indices: 16417148--16417176 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16417138 CCTGTAAATT
16417148 CAAATCCAACCAATG
1 CAAATCCAACCAATG
16417163 CAAATCCAACCAAT
1 CAAATCCAACCAAT
16417177 AACTTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.34, G:0.03, T:0.14
Consensus pattern (15 bp):
CAAATCCAACCAATG
Found at i:16417402 original size:21 final size:21
Alignment explanation
Indices: 16417377--16417429 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
16417367 CTTGTAGCCT
* *
16417377 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
16417398 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
*
16417419 CTGTTGCCTCC
1 CTGCTGCCTCC
16417430 ACTTTAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.21, T:0.34
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTGCCTCG
Found at i:16417501 original size:66 final size:66
Alignment explanation
Indices: 16417415--16417572 Score: 246
Period size: 66 Copynumber: 2.4 Consensus size: 66
16417405 CTCCGCTTGC
** * *
16417415 CTCGCTGTTGCCTCCACTTTAAGTTGTAGATGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTC
1 CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTC
16417480 T
66 T
* *
16417481 CT-GACTGCAGCCTCCTCTTTAAGTTTTAGATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTT
1 CTCG-CTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTT
16417545 CT
65 CT
16417547 CTCGCTGCAGCCTCCTCTTTAAGTTG
1 CTCGCTGCAGCCTCCTCTTTAAGTTG
16417573 AGCAATTTGC
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.98
67 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (66 bp):
CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTC
T
Found at i:16423074 original size:31 final size:32
Alignment explanation
Indices: 16423004--16423075 Score: 121
Period size: 33 Copynumber: 2.3 Consensus size: 32
16422994 TTGATTTAAA
16423004 TTTAAA-ATATATATTAGTGACAACATTTTAC
1 TTTAAATATATATATTAGTGACAACATTTTAC
16423035 TTTAAAATATATATATTAGTGACAACATTTTAC
1 TTT-AAATATATATATTAGTGACAACATTTTAC
16423068 -TTAAATAT
1 TTTAAATAT
16423076 TTTGGTTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
31 9 0.23
32 5 0.13
33 25 0.64
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (32 bp):
TTTAAATATATATATTAGTGACAACATTTTAC
Found at i:16423104 original size:8 final size:8
Alignment explanation
Indices: 16423091--16423162 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
16423081 TTGTTTTTAT
16423091 TAATTAAA
1 TAATTAAA
16423099 TAATTAAA
1 TAATTAAA
*
16423107 T-ATTTAA
1 TAATTAAA
*
16423114 T--TTAGTA
1 TAATTA-AA
16423121 TAATTAAA
1 TAATTAAA
16423129 TAATTAATTA
1 TAATTAA--A
*
16423139 AAATTAAA
1 TAATTAAA
16423147 TAATTATATA
1 TAATTA-A-A
16423157 TAATTA
1 TAATTA
16423163 TTTACGAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
6 2 0.04
7 8 0.16
8 23 0.45
9 4 0.08
10 14 0.27
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (8 bp):
TAATTAAA
Found at i:16423161 original size:18 final size:18
Alignment explanation
Indices: 16423119--16423162 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
16423109 TTTAATTTAG
16423119 TATAATTAAATAATTAAT
1 TATAATTAAATAATTAAT
*
16423137 TAAAATTAAATAATT-AT
1 TATAATTAAATAATTAAT
16423154 ATATAATTA
1 -TATAATTA
16423163 TTTACGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATAATTAAATAATTAAT
Found at i:16423263 original size:112 final size:110
Alignment explanation
Indices: 16423140--16423924 Score: 757
Period size: 112 Copynumber: 7.3 Consensus size: 110
16423130 AATTAATTAA
*
16423140 AATTAAATAA-TTATATATAATTATTTACGAAAATATTTTAAATTAAAT-ATTTAA-TTAAATAT
1 AATTAAATAATTTA-ATATAATTATTTACGAAAATA---TAAATTAAATAATTAAATTTAAAT-T
*
16423202 AATTAAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
61 AAATAAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
*** *
16423252 AATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATAATTAAATCTTTTAATTAAA
1 AATTAAATAATTTAATATAATTATTTACGAAAATATAAATTAAATAATTAAA--TTTAAATTAAA
**
16423317 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
64 TAAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * * ***
16423364 AATTAATTGATTTAATATAATTATTGACTTTAATAT-AATTAAATAATT-AA-TT--A-T---T-
1 AATTAAATAATTTAATATAATTATTTACGAAAATATAAATTAAATAATTAAATTTAAATTAAATA
*
16423419 --TAATTAATTGATACTGTTTATAATTAAATACATAATTAAACAT
66 AATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
** * *
16423462 AATTAAATAATTTAATATAATTATTTA-GTTTAATAT-AATTAAA-CA-T---TTTAAATTAATT
1 AATTAAATAATTTAATATAATTATTTACG-AAAATATAAATTAAATAATTAAATTTAAATTAAAT
** * * * *
16423520 ATTTAATTAATTGGTACTGTTTATATTTTAATACATAATTAAACAT
65 AAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
***
16423566 AATTAAATAATTTAATATAATTATTTACTTTAATATAAATTAAATAATTAAATCTTTTAAATTAA
1 AATTAAATAATTTAATATAATTATTTACGAAAATATAAATTAAATAATTAAA---TTTAAATTAA
**
16423631 ATATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
63 ATAAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * *** *
16423679 AATTAATTGATTTAATATAATTATTTACTTTAATATAAATTAAATAAATAAATTTTTAAATTAAA
1 AATTAAATAATTTAATATAATTATTTACGAAAATATAAATTAAATAATTAAA--TTTAAATTAAA
**
16423744 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
64 TAAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * *
16423791 AATTAATTGATTTAATATAATTATTTA-G----TTTAATATT---TAATTAAATCTTTCAAATTA
1 AATTAAATAATTTAATATAATTATTTACGAAAATATAA-ATTAAATAATTAAA--TTT-AAATTA
** * * * * *
16423848 AATATTTAATTAACTAATAATGTTTATAATTAAATATATAATTAAACAT
62 AATAAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* *
16423897 AGTTAAATAATTAAATATAATTATTTAC
1 AATTAAATAATTTAATATAATTATTTAC
16423925 TTTAATATTT
Statistics
Matches: 600, Mismatches: 44, Indels: 63
0.85 0.06 0.09
Matches are distributed among these distances:
95 2 0.00
96 1 0.00
97 2 0.00
98 81 0.14
101 2 0.00
104 75 0.12
105 19 0.03
106 74 0.12
107 7 0.01
108 3 0.00
109 10 0.02
110 7 0.01
111 12 0.02
112 195 0.32
113 110 0.18
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (110 bp):
AATTAAATAATTTAATATAATTATTTACGAAAATATAAATTAAATAATTAAATTTAAATTAAATA
AATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
Found at i:16423312 original size:13 final size:12
Alignment explanation
Indices: 16423099--16423327 Score: 83
Period size: 12 Copynumber: 19.6 Consensus size: 12
16423089 ATTAATTAAA
16423099 TAATTAAATATT
1 TAATTAAATATT
* *
16423111 TAATTTAGTA--
1 TAATTAAATATT
*
16423121 TAATTAAATAAT
1 TAATTAAATATT
16423133 TAATTAAA-A-T
1 TAATTAAATATT
* * *
16423143 TAAATAATTATA
1 TAATTAAATATT
*
16423155 T-A-TAATTATT
1 TAATTAAATATT
***
16423165 TACGAAAATATTT
1 TAATTAAATA-TT
16423178 TAAATTAAATATT
1 T-AATTAAATATT
16423191 TAATTAAATA--
1 TAATTAAATATT
*
16423201 TAATTAAATAAT
1 TAATTAAATATT
* *
16423213 TAATTGATACTGTT
1 TAATT-A-AATATT
**
16423227 TACAATTAAATACA
1 T--AATTAAATATT
*
16423241 TAATTAAACA--
1 TAATTAAATATT
16423251 TAATTAAATAATT
1 TAATTAAAT-ATT
*
16423264 TAATATAATTATT
1 TAAT-TAAATATT
* *
16423277 TACTTTAATA-T
1 TAATTAAATATT
*
16423288 AAATT-AA-A--
1 TAATTAAATATT
*
16423296 TAATTAAATCTTT
1 TAATTAAAT-ATT
16423309 TAATTAAATATT
1 TAATTAAATATT
16423321 TAATTAA
1 TAATTAA
16423328 TTGATACTGT
Statistics
Matches: 162, Mismatches: 32, Indels: 46
0.68 0.13 0.19
Matches are distributed among these distances:
8 4 0.02
9 3 0.02
10 43 0.27
11 8 0.05
12 56 0.35
13 26 0.16
14 17 0.10
15 1 0.01
16 4 0.02
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (12 bp):
TAATTAAATATT
Found at i:16423441 original size:40 final size:42
Alignment explanation
Indices: 16423352--16423456 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 42
16423342 AATTAAATAC
16423352 ATAATTAAACATAATTAATTGATTTAATATAATTATTGACTTTAAT
1 ATAATT-AA-ATAATTAATT-ATTTAATATAATTATTGACTTT-AT
16423398 ATAATTAAATAATTAATTATTTAAT-TAATTGA-T-ACTGTT-T
1 ATAATTAAATAATTAATTATTTAATATAATT-ATTGACT-TTAT
16423438 ATAATTAAATACA-TAATTA
1 ATAATTAAATA-ATTAATTA
16423457 AACATAATTA
Statistics
Matches: 56, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
40 18 0.32
41 4 0.07
42 8 0.14
43 8 0.14
44 10 0.18
45 2 0.04
46 6 0.11
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (42 bp):
ATAATTAAATAATTAATTATTTAATATAATTATTGACTTTAT
Found at i:16423511 original size:18 final size:18
Alignment explanation
Indices: 16423240--16423614 Score: 109
Period size: 18 Copynumber: 20.3 Consensus size: 18
16423230 AATTAAATAC
* *
16423240 ATAATTAAACATAATTAA
1 ATAATTTAATATAATTAA
*
16423258 ATAATTTAATATAATTAT
1 ATAATTTAATATAATTAA
* *
16423276 TTACTTTAATATAAATTAA
1 ATAATTTAATAT-AATTAA
* *
16423295 ATAATTAAATCTTTTAATTAA
1 ATAATTTAA---TATAATTAA
*
16423316 AT-ATTTAAT-TAATT-G
1 ATAATTTAATATAATTAA
* *
16423331 ATACTGTT--TACAATTAA
1 ATAAT-TTAATATAATTAA
*
16423348 ATACATAATTAAACATAATTAA
1 ATA-AT--TT-AATATAATTAA
* *
16423370 TTGATTTAATATAATT-A
1 ATAATTTAATATAATTAA
* *
16423387 TTGACTTTAATATAATTAA
1 AT-AATTTAATATAATTAA
16423406 ATAA-TTAATTATTTAATTAA
1 ATAATTTAA-TA--TAATTAA
*
16423426 TTGATACTGTT--TATAATTAA
1 ---ATAAT-TTAATATAATTAA
*
16423446 ATACATAATTAAACATAATTAA
1 ATA-AT--TT-AATATAATTAA
*
16423468 ATAATTTAATATAATTAT
1 ATAATTTAATATAATTAA
* *
16423486 TTAGTTTAATATAATTAA
1 ATAATTTAATATAATTAA
*
16423504 A-CATTT--TA-AATT-A
1 ATAATTTAATATAATTAA
* *
16423517 ATTATTTAAT-TAATT-G
1 ATAATTTAATATAATTAA
* * * *
16423533 GTACTGTTTATATTTTAA-TAC
1 ATA--ATTTA-A-TATAATTAA
* *
16423554 ATAATTAAACATAATTAA
1 ATAATTTAATATAATTAA
*
16423572 ATAATTTAATATAATTAT
1 ATAATTTAATATAATTAA
* *
16423590 TTACTTTAATATAAATTAA
1 ATAATTTAATAT-AATTAA
16423609 ATAATT
1 ATAATT
16423615 AAATCTTTTA
Statistics
Matches: 259, Mismatches: 58, Indels: 79
0.65 0.15 0.20
Matches are distributed among these distances:
13 2 0.01
14 8 0.03
15 5 0.02
16 16 0.06
17 22 0.08
18 106 0.41
19 34 0.13
20 21 0.08
21 17 0.07
22 23 0.09
23 3 0.01
25 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (18 bp):
ATAATTTAATATAATTAA
Found at i:16423636 original size:45 final size:48
Alignment explanation
Indices: 16423546--16423637 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 48
16423536 CTGTTTATAT
*
16423546 TTTAATACATAATTAAACATAATTAAATAATTTAATATAATTATTTAC
1 TTTAATACATAATTAAACATAATTAAATAATTTAATATAAATATTTAC
* **
16423594 TTTAATATA-AATT-AA-ATAATTAAATCTTTTAA-ATTAAATATTTA
1 TTTAATACATAATTAAACATAATTAAATAATTTAATA-TAAATATTTA
16423638 ATTAATTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
44 1 0.03
45 24 0.62
46 2 0.05
47 4 0.10
48 8 0.21
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (48 bp):
TTTAATACATAATTAAACATAATTAAATAATTTAATATAAATATTTAC
Found at i:16423636 original size:113 final size:113
Alignment explanation
Indices: 16423491--16423950 Score: 632
Period size: 113 Copynumber: 4.1 Consensus size: 113
16423481 ATTATTTAGT
* * * * *
16423491 TTAATATAATTAAA-CATTTTAAATTAATTATTTAATTAATTGGTACTGTTTATATTTTAATACA
1 TTAA-ATAATTAAATC-TTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACA
16423555 TAATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAA
64 TAATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAA
16423605 TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
1 TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
* *
16423670 ATTAAACATAATTAATTGATTTAATATAATTATTTACTTTAATATAAA
66 ATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAA
*
16423718 TTAAATAAATAAAT-TTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
1 TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
* * *
16423782 ATTAAACATAATTAATTGATTTAATATAATTATTTAGTTT-A-AT--A
66 ATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAA
* * * * * *
16423826 TT---TAATTAAATCTTTCAAATTAAATATTTAATTAACTAATAATGTTTATAATTAAATATATA
1 TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
* *
16423888 ATTAAACATAGTTAAATAATTAAATATAATTATTTACTTTAATATTTTAAA
66 ATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATA---TAAA
*
16423939 TTAAATATTTAA
1 TTAAATAATTAA
16423951 TTTAATATAA
Statistics
Matches: 312, Mismatches: 22, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
105 8 0.03
106 79 0.25
107 1 0.00
108 4 0.01
110 2 0.01
111 2 0.01
112 89 0.29
113 116 0.37
114 5 0.02
116 6 0.02
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (113 bp):
TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
ATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAA
Found at i:16423700 original size:18 final size:19
Alignment explanation
Indices: 16423677--16423721 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
16423667 ATAATTAAAC
16423677 ATAATTAATTGA-TTTAAT
1 ATAATTAATTGACTTTAAT
*
16423695 ATAATT-ATTTACTTTAAT
1 ATAATTAATTGACTTTAAT
16423713 ATAAATTAA
1 AT-AATTAA
16423722 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 4 0.17
20 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAATTAATTGACTTTAAT
Found at i:16423812 original size:18 final size:18
Alignment explanation
Indices: 16423789--16423826 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16423779 ATAATTAAAC
16423789 ATAATTAATTGA-TTTAAT
1 ATAATT-ATTGAGTTTAAT
*
16423807 ATAATTATTTAGTTTAAT
1 ATAATTATTGAGTTTAAT
16423825 AT
1 AT
16423827 TTAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
ATAATTATTGAGTTTAAT
Found at i:16423816 original size:13 final size:12
Alignment explanation
Indices: 16423790--16423860 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 12
16423780 TAATTAAACA
16423790 TAATTAATTGATT
1 TAATTAATT-ATT
16423803 TAATATAATTATT
1 TAAT-TAATTATT
*
16423816 TAGTTTAA-TATT
1 TA-ATTAATTATT
* *
16423828 TAATTAAATCTT
1 TAATTAATTATT
*
16423840 TCAAATTAAATATT
1 T--AATTAATTATT
16423854 TAATTAA
1 TAATTAA
16423861 CTAATAATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.08
12 16 0.33
13 12 0.24
14 17 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (12 bp):
TAATTAATTATT
Found at i:16423909 original size:62 final size:60
Alignment explanation
Indices: 16423843--16423969 Score: 141
Period size: 62 Copynumber: 2.0 Consensus size: 60
16423833 AAATCTTTCA
*
16423843 AATTAAATAT-TTAATTAAC-TAATAATGTTTATAATTAAATATATAATTAAACATAGTTAAAT
1 AATTAAATATATT-ATTAACTTAAT-AT-TTTA-AATTAAATATATAATTAAACATAATTAAAT
* * * *
16423905 AATTAAATATAATTATTTACTTTAATATTTTAAATTAAATATTTAATTTAATATAATTAAAT
1 AATTAAATAT-ATTATTAAC-TTAATATTTTAAATTAAATATATAATTAAACATAATTAAAT
16423967 AAT
1 AAT
16423970 AATTTCCTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
62 39 0.70
63 9 0.16
64 4 0.07
65 4 0.07
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (60 bp):
AATTAAATATATTATTAACTTAATATTTTAAATTAAATATATAATTAAACATAATTAAAT
Found at i:16423936 original size:13 final size:14
Alignment explanation
Indices: 16423914--16423964 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 14
16423904 TAATTAAATA
*
16423914 TAAT-TATTTACTT
1 TAATATATTTAATT
*
16423927 TAATAT-TTTAAAT
1 TAATATATTTAATT
16423940 TAA-ATATTTAATT
1 TAATATATTTAATT
*
16423953 TAATATAATTAA
1 TAATATATTTAA
16423965 ATAATAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 2 0.06
13 21 0.68
14 8 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATATATTTAATT
Found at i:16423947 original size:26 final size:27
Alignment explanation
Indices: 16423907--16423967 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
16423897 AGTTAAATAA
* *
16423907 TTAAATATAATTATTTACTTTAATATT
1 TTAAATATAAATATTTAATTTAATATT
*
16423934 TTAAAT-TAAATATTTAATTTAATATAA
1 TTAAATATAAATATTTAATTTAATAT-T
16423961 TTAAATA
1 TTAAATA
16423968 ATAATTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TTAAATATAAATATTTAATTTAATATT
Found at i:16423980 original size:26 final size:26
Alignment explanation
Indices: 16423872--16423981 Score: 73
Period size: 26 Copynumber: 4.0 Consensus size: 26
16423862 TAATAATGTT
*
16423872 TATAATTAAATATATAATTAAACATAGTTAA
1 TATAATTAAATA-ATAATT-TAC-T--TTAA
*
16423903 -ATAATTAAATATAATTATTTACTTTAA
1 TATAATTAAAT--AATAATTTACTTTAA
* *
16423930 TAT-TTTAAATTAA-ATATTTAATTTAA
1 TATAATTAAA-TAATA-ATTTACTTTAA
*
16423956 TATAATTAAATAATAATTTCCTTTAA
1 TATAATTAAATAATAATTTACTTTAA
16423982 AAGACGGCTC
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
26 27 0.42
27 15 0.23
28 3 0.05
29 1 0.02
30 12 0.19
31 5 0.08
32 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (26 bp):
TATAATTAAATAATAATTTACTTTAA
Found at i:16425157 original size:16 final size:18
Alignment explanation
Indices: 16425123--16425157 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
16425113 ATTATTTGTT
16425123 TTTTTCTTTTAAATCTAA
1 TTTTTCTTTTAAATCTAA
16425141 TTTTT-TTTTAAAT-TAA
1 TTTTTCTTTTAAATCTAA
16425157 T
1 T
16425158 CAAACTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTCTTTTAAATCTAA
Found at i:16425779 original size:16 final size:16
Alignment explanation
Indices: 16425758--16425791 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16425748 GAACATGTGC
16425758 ACGTGTGGGTATATAA
1 ACGTGTGGGTATATAA
16425774 ACGTGTGGGTATATAA
1 ACGTGTGGGTATATAA
16425790 AC
1 AC
16425792 AGGCCATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (16 bp):
ACGTGTGGGTATATAA
Found at i:16426338 original size:42 final size:42
Alignment explanation
Indices: 16426274--16426432 Score: 200
Period size: 42 Copynumber: 3.9 Consensus size: 42
16426264 GCTTATGGGA
* * **
16426274 AAGCGCCGCTAAT--TCACACCTTTAGTAGCGCTTTTCTAAT
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTTTCTAAT
* * *
16426314 AAGCGCCGCTAAAGACCTGACCTTTAGCGGCGCTTATTATAA-
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTT-TTCTAAT
*
16426356 AAGCGCCGCTAATGACAAGACCTTTAGCGGCGCTTTTCT-AT
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTTTCTAAT
*
16426397 AAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTT
1 AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTT
16426433 GTGGAAAGGG
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
40 13 0.13
41 37 0.36
42 47 0.46
43 5 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (42 bp):
AAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTTTCTAAT
Found at i:16426419 original size:83 final size:81
Alignment explanation
Indices: 16426256--16426431 Score: 237
Period size: 83 Copynumber: 2.1 Consensus size: 81
16426246 GTTAAATAAA
* * * *
16426256 TTAGCGGCGCTTATGGGAAAGCGCCGCTAATTCACACCTTTAGTAGCGCTTTTCTAATAAGCGCC
1 TTAGCGGCGCTTATAGAAAAGCGCCGCTAATACACACCTTTAGCAGCGCTTTTCTAATAAGCGCC
*
16426321 GCTAAAGACCTGACCT
66 GCTAAAGACCCGACCT
* * *
16426337 TTAGCGGCGCTTATTATAAAAGCGCCGCTAATGACAAGACCTTTAGCGGCGCTTTTCT-ATAAGC
1 TTAGCGGCGCTTA-TAGAAAAGCGCCGCTAAT-AC-ACACCTTTAGCAGCGCTTTTCTAATAAGC
*
16426401 GCCGCTAATGACCCGACCT
63 GCCGCTAAAGACCCGACCT
16426420 TTAGCGGCGCTT
1 TTAGCGGCGCTT
16426432 TGTGGAAAGG
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
81 13 0.16
82 15 0.18
83 36 0.43
84 19 0.23
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TTAGCGGCGCTTATAGAAAAGCGCCGCTAATACACACCTTTAGCAGCGCTTTTCTAATAAGCGCC
GCTAAAGACCCGACCT
Found at i:16426471 original size:40 final size:40
Alignment explanation
Indices: 16426416--16426514 Score: 189
Period size: 40 Copynumber: 2.5 Consensus size: 40
16426406 TAATGACCCG
*
16426416 ACCTTTAGCGGCGCTTTGTGGAAAGGGTCGCGAATGCTTT
1 ACCTTTTGCGGCGCTTTGTGGAAAGGGTCGCGAATGCTTT
16426456 ACCTTTTGCGGCGCTTTGTGGAAAGGGTCGCGAATGCTTT
1 ACCTTTTGCGGCGCTTTGTGGAAAGGGTCGCGAATGCTTT
16426496 ACCTTTTGCGGCGCTTTGT
1 ACCTTTTGCGGCGCTTTGT
16426515 TTCCAAACGC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.14, C:0.21, G:0.31, T:0.33
Consensus pattern (40 bp):
ACCTTTTGCGGCGCTTTGTGGAAAGGGTCGCGAATGCTTT
Found at i:16428751 original size:16 final size:17
Alignment explanation
Indices: 16428730--16428767 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16428720 ATTGCATGTA
16428730 TTATTA-TTAGTGAATT
1 TTATTATTTAGTGAATT
* *
16428746 TTATTATTTATTGTATT
1 TTATTATTTAGTGAATT
16428763 TTATT
1 TTATT
16428768 TATAAGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (17 bp):
TTATTATTTAGTGAATT
Found at i:16429476 original size:6 final size:6
Alignment explanation
Indices: 16429467--16429495 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16429457 GAGGCCCTCG
16429467 CCCCCT CCCCCT CCCCCT CCCCCT CCCCC
1 CCCCCT CCCCCT CCCCCT CCCCCT CCCCC
16429496 CTAAATCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.86, G:0.00, T:0.14
Consensus pattern (6 bp):
CCCCCT
Found at i:16429980 original size:26 final size:26
Alignment explanation
Indices: 16429944--16429994 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
16429934 CAGTGGTTGG
*
16429944 TTTGATCAACTAATTTTATTAATTGA
1 TTTGACCAACTAATTTTATTAATTGA
* *
16429970 TTTGACCAACTGATTTTGTTAATTG
1 TTTGACCAACTAATTTTATTAATTG
16429995 TTTATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (26 bp):
TTTGACCAACTAATTTTATTAATTGA
Found at i:16430792 original size:5 final size:5
Alignment explanation
Indices: 16430782--16430869 Score: 72
Period size: 5 Copynumber: 17.6 Consensus size: 5
16430772 ATCTATTGCT
* * *
16430782 CTTTG CTTTG CTTTG GTTTG CTTTG CTTT- ATATTA CTTTG CTTTG CTTTG
1 CTTTG CTTTG CTTTG CTTTG CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG
* * * * *
16430832 CTTTT CTTTG -TATTA CTTTG CTTTA TTTTT CTTTG CTT
1 CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG CTTTG CTT
16430870 CATCGTTGTA
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
4 2 0.03
5 61 0.94
6 2 0.03
ACGTcount: A:0.07, C:0.16, G:0.14, T:0.64
Consensus pattern (5 bp):
CTTTG
Found at i:16430821 original size:30 final size:30
Alignment explanation
Indices: 16430787--16430869 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 30
16430777 TTGCTCTTTG
*
16430787 CTTTGCTTTGGTTTGCTTTGCTTTATATTA
1 CTTTGCTTTGCTTTGCTTTGCTTTATATTA
* *
16430817 CTTTGCTTTGCTTTGCTTTTCTTTGTATTA
1 CTTTGCTTTGCTTTGCTTTGCTTTATATTA
** *
16430847 CTTTGCTTTATTTTTCTTTGCTT
1 CTTTGCTTTGCTTTGCTTTGCTT
16430870 CATCGTTGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.07, C:0.16, G:0.13, T:0.64
Consensus pattern (30 bp):
CTTTGCTTTGCTTTGCTTTGCTTTATATTA
Found at i:16436292 original size:42 final size:41
Alignment explanation
Indices: 16436246--16436348 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 41
16436236 AATATAAAGT
* * * *
16436246 AAAGCAAAGCGAAGCAAAGAAATATTAAAAGCAAATAAAATC
1 AAAGCAAA-CAAAGCAAAGAAATATAAAAAGCAAAGAAAATA
* * * *
16436288 AAAGCGATATAAAGCAAAGCAATATAAAAAGCAAAGCAAATA
1 AAAGC-AAACAAAGCAAAGAAATATAAAAAGCAAAGAAAATA
*
16436330 AAAGCAATATAAAGCAAAG
1 AAAGCAA-ACAAAGCAAAG
16436349 CAAAGCACAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 47 0.94
43 2 0.04
ACGTcount: A:0.62, C:0.12, G:0.15, T:0.12
Consensus pattern (41 bp):
AAAGCAAACAAAGCAAAGAAATATAAAAAGCAAAGAAAATA
Found at i:16436305 original size:15 final size:15
Alignment explanation
Indices: 16436273--16436351 Score: 71
Period size: 15 Copynumber: 5.5 Consensus size: 15
16436263 AGAAATATTA
*
16436273 AAAGCAA-ATAAAATC
1 AAAGCAATAT-AAAGC
*
16436288 AAAGCGATATAAAGC
1 AAAGCAATATAAAGC
16436303 AAAGCAATATAAAAAGC
1 AAAGCAATAT--AAAGC
16436320 AAAGCAA-AT--A--
1 AAAGCAATATAAAGC
16436330 AAAGCAATATAAAGC
1 AAAGCAATATAAAGC
16436345 AAAGCAA
1 AAAGCAA
16436352 AGCACAACAC
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
10 7 0.13
11 2 0.04
12 1 0.02
13 1 0.02
15 26 0.49
16 4 0.08
17 12 0.23
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.11
Consensus pattern (15 bp):
AAAGCAATATAAAGC
Found at i:16436349 original size:25 final size:26
Alignment explanation
Indices: 16436303--16436557 Score: 85
Period size: 25 Copynumber: 9.9 Consensus size: 26
16436293 GATATAAAGC
16436303 AAAGCAATATAAAAAGCAAAGCAAATA
1 AAAGCAATAT-AAAAGCAAAGCAAATA
*
16436330 AAAGCAATAT-AAAGCAAAGCAAAGCA
1 AAAGCAATATAAAAGCAAAGCAAA-TA
* * *
16436356 CAACA-CATCAGTATAAAAAGCATAGCACGACA
1 -AA-AGCA--A-TAT-AAAAGCAAAGCA-AATA
* ** * * *
16436388 ATATAAAAAGAAAAGCTAAGCAAA-A
1 AAAGCAATATAAAAGCAAAGCAAATA
*
16436413 CAATATCAATATAAAAGCAAAGC----A
1 -AA-AGCAATATAAAAGCAAAGCAAATA
*
16436437 AAAG-AATAT-AAA--AA-GCGAAA-C
1 AAAGCAATATAAAAGCAAAGC-AAATA
16436458 AAAGCAATATAAAAGCAAAGCAAA-A
1 AAAGCAATATAAAAGCAAAGCAAATA
* ** * **
16436483 CAAAGTAA-AGCACAGCAAAGCAAAGC
1 -AAAGCAATATAAAAGCAAAGCAAATA
*
16436509 AAAGCAATATAAAAGCAAAGCAAAGA
1 AAAGCAATATAAAAGCAAAGCAAATA
*
16436535 AAAACACA-AT-AAAGCAAAGCAAA
1 AAAGCA-ATATAAAAGCAAAGCAAA
16436558 GTACAACAAA
Statistics
Matches: 174, Mismatches: 29, Indels: 52
0.68 0.11 0.20
Matches are distributed among these distances:
17 2 0.01
18 2 0.01
20 3 0.02
21 9 0.05
22 6 0.03
23 5 0.03
24 1 0.01
25 51 0.29
26 32 0.18
27 40 0.23
28 2 0.01
29 2 0.01
30 4 0.02
31 2 0.01
32 12 0.07
33 1 0.01
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.09
Consensus pattern (26 bp):
AAAGCAATATAAAAGCAAAGCAAATA
Found at i:16436409 original size:27 final size:26
Alignment explanation
Indices: 16436299--16436451 Score: 82
Period size: 27 Copynumber: 5.8 Consensus size: 26
16436289 AAGCGATATA
* *
16436299 AAGCAAAGCAATATAAAAAGCAAAGC
1 AAGCAAAACAATATAAAAAGAAAAGC
** *
16436325 AAATAAAAGCAATAT--AAAGCAAAGC
1 AAGCAAAA-CAATATAAAAAGAAAAGC
* *
16436350 AAAGCACAACACATCAGT--ATA-AAAAGC
1 -AAGCAAAACA-AT-A-TAAAAAGAAAAGC
**
16436377 ATAGCACGACAATATAAAAAGAAAAGC
1 A-AGCAAAACAATATAAAAAGAAAAGC
* * *
16436404 TAAGCAAAACAATATCAATATAAAAGC
1 -AAGCAAAACAATATAAAAAGAAAAGC
*
16436431 AAAGCAAAAGAATATAAAAAG
1 -AAGCAAAACAATATAAAAAG
16436452 CGAAACAAAG
Statistics
Matches: 97, Mismatches: 20, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
24 1 0.01
25 13 0.13
26 17 0.18
27 62 0.64
28 4 0.04
ACGTcount: A:0.61, C:0.14, G:0.12, T:0.12
Consensus pattern (26 bp):
AAGCAAAACAATATAAAAAGAAAAGC
Found at i:16436429 original size:54 final size:54
Alignment explanation
Indices: 16436307--16436464 Score: 140
Period size: 54 Copynumber: 2.9 Consensus size: 54
16436297 TAAAGCAAAG
* * * * *
16436307 CAATATAAAAAGCAAAGCAAATAAAAGCAATATAAAGCAAAGCAAAGCACAACACAT
1 CAATATAAAAAGCAAAGCAAA-ACAA--TATAAAAAGAAAAGCAAAGCAAAACACAT
* * ** * *
16436364 CAGTATAAAAAGCATAGCACGACAATATAAAAAGAAAAGCTAAGCAAAACAATAT
1 CAATATAAAAAGCAAAGCAAAACAATATAAAAAGAAAAGCAAAGCAAAAC-ACAT
* *
16436419 CAATAT-AAAAGCAAAGCAAAAGAATATAAAAAGCGAAA-CAAAGCAA
1 CAATATAAAAAGCAAAGCAAAACAATATAAAAAG-AAAAGCAAAGCAA
16436465 TATAAAAGCA
Statistics
Matches: 81, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
54 50 0.62
55 11 0.14
56 3 0.04
57 17 0.21
ACGTcount: A:0.61, C:0.15, G:0.12, T:0.11
Consensus pattern (54 bp):
CAATATAAAAAGCAAAGCAAAACAATATAAAAAGAAAAGCAAAGCAAAACACAT
Found at i:16436446 original size:21 final size:22
Alignment explanation
Indices: 16436405--16436505 Score: 90
Period size: 22 Copynumber: 4.8 Consensus size: 22
16436395 AAGAAAAGCT
* * *
16436405 AAGCAAAACAATATCAATATAA
1 AAGCAAAGCAAAAGCAATATAA
16436427 AAGCAAAGCAAAAG-AATATAAA
1 AAGCAAAGCAAAAGCAATAT-AA
16436449 AAGCGAAA-C-AAAGCAATATAA
1 AAGC-AAAGCAAAAGCAATATAA
16436470 AAGCAAAGCAAAA-CAA-AGT-A
1 AAGCAAAGCAAAAGCAATA-TAA
*
16436490 AAGCACAGC-AAAGCAA
1 AAGCAAAGCAAAAGCAA
16436506 AGCAAAGCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
19 3 0.04
20 16 0.24
21 20 0.29
22 26 0.38
23 3 0.04
ACGTcount: A:0.63, C:0.15, G:0.13, T:0.09
Consensus pattern (22 bp):
AAGCAAAGCAAAAGCAATATAA
Found at i:16436595 original size:27 final size:27
Alignment explanation
Indices: 16436565--16436616 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
16436555 AAAGTACAAC
16436565 AAAGCAAACCAACATAAAAAGCAAATG
1 AAAGCAAACCAACATAAAAAGCAAATG
* **
16436592 AAAGCAAAGCAATTTAAAAAGCAAA
1 AAAGCAAACCAACATAAAAAGCAAA
16436617 GCAACATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.63, C:0.15, G:0.12, T:0.10
Consensus pattern (27 bp):
AAAGCAAACCAACATAAAAAGCAAATG
Found at i:16436620 original size:5 final size:5
Alignment explanation
Indices: 16436469--16436603 Score: 87
Period size: 5 Copynumber: 26.4 Consensus size: 5
16436459 AAGCAATATA
* * * **
16436469 AAAGC AAAGC AAAAC AAAGT AAAGC ACAGC AAAGC AAAGC AAAGC AATATA
1 AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AA-AGC
* * * *
16436520 AAAGC AAAGC AAAGA AAAAC ACAA-T AAAGC AAAGC AAAGT ACAA-C AAAGC
1 AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AAAGC AAAGC A-AAGC AAAGC
* **
16436570 AAACC AACATAA AAAGC AAATG- AAAGC AAAGC AA
1 AAAGC AA-A-GC AAAGC AAA-GC AAAGC AAAGC AA
16436604 TTTAAAAAGC
Statistics
Matches: 99, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
4 5 0.05
5 82 0.83
6 10 0.10
7 2 0.02
ACGTcount: A:0.63, C:0.18, G:0.14, T:0.05
Consensus pattern (5 bp):
AAAGC
Found at i:16440126 original size:20 final size:20
Alignment explanation
Indices: 16440101--16440158 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
16440091 ATAAACCTAA
16440101 TTATATTGCTTTGCTTTACT
1 TTATATTGCTTTGCTTTACT
**
16440121 TTATATTGCTTTGCTTTGTT
1 TTATATTGCTTTGCTTTACT
16440141 TTATATTGCTTTGCTTTA
1 TTATATTGCTTTGCTTTA
16440159 TATTATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.62
Consensus pattern (20 bp):
TTATATTGCTTTGCTTTACT
Found at i:16440149 original size:15 final size:15
Alignment explanation
Indices: 16440131--16440162 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16440121 TTATATTGCT
*
16440131 TTGCTTTGTTTTATA
1 TTGCTTTGCTTTATA
16440146 TTGCTTTGCTTTATA
1 TTGCTTTGCTTTATA
16440161 TT
1 TT
16440163 ATTTTTTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.66
Consensus pattern (15 bp):
TTGCTTTGCTTTATA
Found at i:16440164 original size:20 final size:20
Alignment explanation
Indices: 16440100--16440164 Score: 96
Period size: 20 Copynumber: 3.2 Consensus size: 20
16440090 TATAAACCTA
16440100 ATTATATTGCTTTGCTTTACT
1 ATTATATTGCTTTGCTTTA-T
*
16440121 -TTATATTGCTTTGCTTTGT
1 ATTATATTGCTTTGCTTTAT
*
16440140 TTTATATTGCTTTGCTTTAT
1 ATTATATTGCTTTGCTTTAT
16440160 ATTAT
1 ATTAT
16440165 TTTTTTGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.62
Consensus pattern (20 bp):
ATTATATTGCTTTGCTTTAT
Found at i:16441949 original size:5 final size:5
Alignment explanation
Indices: 16441939--16442006 Score: 50
Period size: 5 Copynumber: 13.6 Consensus size: 5
16441929 ATCTATTGCT
* * * * *
16441939 CTTTG CTTTG CTTTG CTTT- ATATTA CTTTG CTTTT CTTCG CTTTG CTTTT
1 CTTTG CTTTG CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG CTTTG CTTTG
*
16441989 CTTT- ATATTG CTTTG CTT
1 CTTTG CT-TTG CTTTG CTT
16442007 CATCGTTGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
4 2 0.04
5 45 0.92
6 2 0.04
ACGTcount: A:0.07, C:0.19, G:0.12, T:0.62
Consensus pattern (5 bp):
CTTTG
Found at i:16441982 original size:35 final size:35
Alignment explanation
Indices: 16441938--16442006 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
16441928 CATCTATTGC
*
16441938 TCTTTGCTTTGCTTTGCTTTATATTACTTTGCTTT
1 TCTTCGCTTTGCTTTGCTTTATATTACTTTGCTTT
* *
16441973 TCTTCGCTTTGCTTTTCTTTATATTGCTTTGCTT
1 TCTTCGCTTTGCTTTGCTTTATATTACTTTGCTT
16442007 CATCGTTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.07, C:0.19, G:0.12, T:0.62
Consensus pattern (35 bp):
TCTTCGCTTTGCTTTGCTTTATATTACTTTGCTTT
Found at i:16441987 original size:20 final size:20
Alignment explanation
Indices: 16441941--16442006 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
16441931 CTATTGCTCT
16441941 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16441961 TTACTTTGC--T--TTTCT-
1 TTGCTTTGCTTTGCTTTATA
* *
16441976 TCGCTTTGCTTTTCTTTATA
1 TTGCTTTGCTTTGCTTTATA
16441996 TTGCTTTGCTT
1 TTGCTTTGCTT
16442007 CATCGTTGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
15 7 0.20
16 4 0.11
17 1 0.03
18 1 0.03
19 4 0.11
20 18 0.51
ACGTcount: A:0.08, C:0.18, G:0.12, T:0.62
Consensus pattern (20 bp):
TTGCTTTGCTTTGCTTTATA
Found at i:16448346 original size:32 final size:31
Alignment explanation
Indices: 16448277--16448500 Score: 118
Period size: 32 Copynumber: 7.4 Consensus size: 31
16448267 AGCAAAATAA
* *
16448277 AAAGAAAAGCAAATA-AAAACAATAT-AAAGC
1 AAAGCAAAGCAAA-ACAAGACAATATAAAAGC
* *
16448307 AAAGCAAAGCACAACACGACAATATAAAAAGC
1 AAAGCAAAGCAAAACAAGACAATAT-AAAAGC
* *
16448339 AATGCAAAGCAAAACAATATCAATAT---A--
1 AAAGCAAAGCAAAACAAGA-CAATATAAAAGC
16448366 AAAGCAAAGC---A-AAG-CAATATAAAAGGC
1 AAAGCAAAGCAAAACAAGACAATATAAAA-GC
* * *
16448393 AACGCAAAGCAAAACAATATCAATGTAAAAGC
1 AAAGCAAAGCAAAACAAGA-CAATATAAAAGC
* * *
16448425 AAAGCAAAACAAAACAAAACAA-AGCAAAA-C
1 AAAGCAAAGCAAAACAAGACAATA-TAAAAGC
** *
16448455 AATATAAAAAGCAAAGCAATG-CAATATAAAAGC
1 AA-A-GCAAAGCAAAACAA-GACAATATAAAAGC
*
16448488 AAAGCAAAACAAA
1 AAAGCAAAGCAAA
16448501 GTAAAGCACA
Statistics
Matches: 145, Mismatches: 27, Indels: 43
0.67 0.13 0.20
Matches are distributed among these distances:
21 6 0.04
23 2 0.01
24 2 0.01
27 18 0.12
29 2 0.01
30 23 0.16
31 17 0.12
32 56 0.39
33 19 0.13
ACGTcount: A:0.63, C:0.16, G:0.11, T:0.09
Consensus pattern (31 bp):
AAAGCAAAGCAAAACAAGACAATATAAAAGC
Found at i:16448350 original size:5 final size:5
Alignment explanation
Indices: 16448334--16448603 Score: 98
Period size: 5 Copynumber: 51.4 Consensus size: 5
16448324 GACAATATAA
* * * ** **
16448334 AAAGC AATGC AAAGC AAAAC AATATC AATATA AAAGC AAAGC AAAGC AATATA
1 AAAGC AAAGC AAAGC AAAGC AA-AGC AA-AGC AAAGC AAAGC AAAGC AA-AGC
* * * * * *
16448387 AAAGGC AACGC AAAGC AAAAC AATATC AATGTA AAAGC AAAGC AAAAC
1 AAA-GC AAAGC AAAGC AAAGC AA-AGC AAAG-C AAAGC AAAGC AAAGC
* * * ** * **
16448435 AAAAC AAAAC AAAGC AAAAC AATATAA AAAGC AAAGC AATGC AATATA
1 AAAGC AAAGC AAAGC AAAGC AA-A-GC AAAGC AAAGC AAAGC AA-AGC
* * **
16448483 AAAGC AAAGC AAAAC AAAGT AAAGC ACAA-C AAAGC AATATAA AAAGC
1 AAAGC AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AA-A-GC AAAGC
* *
16448530 AAAGC ATAGC ACAA-C AAAGC AAAGC AAAGC ACAA-C ATAGC ACAA-C
1 AAAGC AAAGC A-AAGC AAAGC AAAGC AAAGC A-AAGC AAAGC A-AAGC
**
16448575 AAAGC AACATAA AAAGC AAAGC AAAGC AA
1 AAAGC AA-A-GC AAAGC AAAGC AAAGC AA
16448604 CATGTTGATA
Statistics
Matches: 197, Mismatches: 48, Indels: 40
0.69 0.17 0.14
Matches are distributed among these distances:
4 7 0.04
5 148 0.75
6 35 0.18
7 7 0.04
ACGTcount: A:0.61, C:0.18, G:0.12, T:0.08
Consensus pattern (5 bp):
AAAGC
Found at i:16448355 original size:27 final size:27
Alignment explanation
Indices: 16448250--16448478 Score: 154
Period size: 27 Copynumber: 8.6 Consensus size: 27
16448240 TATATAATAT
* * * *
16448250 AAAGGAAAGCAAATCAAAGCAAAATAA
1 AAAGCAAAGCAAAGCAAAACAATATAA
* **
16448277 AAAGAAAAGCAAATAAAAACAATAT--
1 AAAGCAAAGCAAAGCAAAACAATATAA
16448302 AAAGCAAAGCAAAGCACAACACGACAATATAA
1 AAAGCAAAGCAAAG--CAA-A--ACAATATAA
* *
16448334 AAAGCAATGCAAAGCAAAACAATATCA
1 AAAGCAAAGCAAAGCAAAACAATATAA
* ** *
16448361 ATATAAAAGCAAAGCAAAGCAATATAA
1 AAAGCAAAGCAAAGCAAAACAATATAA
* * *
16448388 AAGGCAACGCAAAGCAAAACAATAT-C
1 AAAGCAAAGCAAAGCAAAACAATATAA
* *
16448414 AATGTAAAAGCAAAGCAAAAC------A
1 AAAG-CAAAGCAAAGCAAAACAATATAA
*
16448436 AAA-CAAAACAAAGCAAAACAATATAA
1 AAAGCAAAGCAAAGCAAAACAATATAA
*
16448462 AAAGCAAAGCAATGCAA
1 AAAGCAAAGCAAAGCAA
16448479 TATAAAAGCA
Statistics
Matches: 156, Mismatches: 31, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
20 14 0.09
22 2 0.01
25 12 0.08
26 7 0.04
27 96 0.62
28 1 0.01
29 1 0.01
30 10 0.06
32 13 0.08
ACGTcount: A:0.63, C:0.16, G:0.12, T:0.09
Consensus pattern (27 bp):
AAAGCAAAGCAAAGCAAAACAATATAA
Found at i:16448572 original size:62 final size:61
Alignment explanation
Indices: 16448413--16448603 Score: 217
Period size: 63 Copynumber: 3.0 Consensus size: 61
16448403 AAAACAATAT
* * *
16448413 CAATGTAAAAGCAAAGCAAAACAAAACAAAACA-AAGCAAAACAATATAAAAAGCAAAGCAATG
1 CAATATAAAAGCAAAGCAAAAC-AAACAAAGCACAA-CAAAGCAATATAAAAAGCAAAGCAA-G
*
16448476 CAATATAAAAGCAAAGCAAAACAAAGTAAAGCACAACAAAGCAATATAAAAAGCAAAGCATAG
1 CAATATAAAAGCAAAGCAAAACAAA-CAAAGCACAACAAAGCAATATAAAAAGCAAAGCA-AG
* * * *
16448539 CACA-A-CAAAGCAAAGCAAAGCACAACATAGCACAACAAAGCAACATAAAAAGCAAAGCAAAG
1 CA-ATATAAAAGCAAAGCAAAACA-AACAAAGCACAACAAAGCAATATAAAAAGCAAAGC-AAG
16448601 CAA
1 CAA
16448604 CATGTTGATA
Statistics
Matches: 113, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
61 1 0.01
62 52 0.46
63 56 0.50
64 4 0.04
ACGTcount: A:0.62, C:0.19, G:0.12, T:0.07
Consensus pattern (61 bp):
CAATATAAAAGCAAAGCAAAACAAACAAAGCACAACAAAGCAATATAAAAAGCAAAGCAAG
Found at i:16456882 original size:34 final size:34
Alignment explanation
Indices: 16456844--16456913 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
16456834 GGTCAACTGT
* * *
16456844 CAGTGTTAGCTAGTTCCTCTTGAGAACATTTAGG
1 CAGTGTTAACTAGTTCCTCTAGAGAACATTCAGG
*
16456878 CAGTGTTAACTAGTTCCTCTAGAGAGCATTCAGG
1 CAGTGTTAACTAGTTCCTCTAGAGAACATTCAGG
16456912 CA
1 CA
16456914 TTCAGGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (34 bp):
CAGTGTTAACTAGTTCCTCTAGAGAACATTCAGG
Found at i:16464897 original size:843 final size:842
Alignment explanation
Indices: 16463215--16464900 Score: 2910
Period size: 843 Copynumber: 2.0 Consensus size: 842
16463205 GAGACAAGCC
16463215 TCCTCTATGCCAGGGAAATCTCGATCCACAATAGGCTAAATCACAAAGGTTATTATTAAACAAGA
1 TCCTCTATGCCAGGGAAATCTCGATCCACAATAGGCTAAATCACAAAGGTTATTATTAAACAAGA
*
16463280 ATTATCTAAAGAACTCACACCCATTCTTTGAAGAAGTAGCACCCCCTGCACGCTCAGAAGAATCC
66 ATTATCTAAAGAACTCACACCCATTCTTTGAAGAAGTAGCACCCCCTGCACACTCAGAAGAATCC
*
16463345 AATATCGTATTAAAATCTCCAACAACAACCTAAGGTTCTGAAGTTTGAGTTGAAAACACCCCAAG
131 AATATCGTATTAAAATCTCCAACAACAACCCAAGGTTCTGAAGTTTGAGTTGAAAACACCCCAAG
16463410 AACTCACATAACCATTTCCATTTCCCATGTTGAGGACTAGCATAAACTGTCGAACAACAAAATTT
196 AACTCACATAACCATTTCCATTTCCCATGTTGAGGACTAGCATAAACTGTCGAACAACAAAATTT
*
16463475 CGACATGAAGCTACAGTTACTAATCCTCATATGAATCATTTAAGAATGAGAGTTAGAATATCAAC
261 CGACATGAAGCTACAGTTACTAATCCTCATATGAATCATTTAAGAATGAGAGCTAGAATATCAAC
* * * * *
16463540 ACTCATTTATCCTTTCAAAACACCTAGATTCCTCTAACAAAACTAGCTGCTTCTACCTTACACGA
326 ACTCAGTTACCCTTTCAAAACACCTAGATTCCTCCAACAAAACTAGCTGCTTCTACCCTACACAA
16463605 ATTTTGAAACCCAATTTTTCCCACAATATCATCCGCTCTTAAGCCACTAATACGGGTTTCAAACA
391 ATTTTGAAACCCAATTTTTCCCACAATATCATCCGCTCTTAAGCCACTAATACGGGTTTCAAACA
*
16463670 GACAGAGCATATCAAGATTAAATTCTTTCCTATATTCAGCAACAATTTTGTGGAATCGTGGATGT
456 GACAGAGCAAATCAAGATTAAATTCTTTCCTATATTCAGCAACAATTTTGTGGAATCGTGGATGT
16463735 CTCATTCCTTGACAATTCCAAAATATTAGGTTTAAATCCATTAATAGAAAGAAAATAAAAGTCGA
521 CTCATTCCTTGACAATTCCAAAATATTAGGTTTAAATCCATTAATAGAAAGAAAATAAAAGTCGA
16463800 ACACCACAGACACATCATTACTGAAAGGAGAAAAATTAACAGCTTACCCCCATTCCTCGATCCGT
586 ACACCACAGACACATCATTACTGAAAGGAGAAAAATTAACAGCTTACCCCCATTCCTCGATCCGT
* * * *
16463865 TCCTTTGTCATTATCTTTAATAACCAAACCCGAGGACTCCTCTGACATGATTTGCTTATGGGATT
651 TCCTTTGTCATTATCTTGAACAACCAAACCCGAGGACTCCTCTCACATGATTTGCTTATGGCATT
* * *
16463930 GCTCAATCCCCTATATTGTGTTACGTAATGGTTTAAGTTAGAGAAGAAAAGGGTAAGAAGAAGAA
716 GCTCAATCCCCTATACTGTGTTACATAATGGTTTAAGTTAGAGAAGAAAAGGGAAAGAAGAAGAA
* *
16463995 GAAAGAGAACAGAGAGAGATGAAAGAGAGAAAGAATTTCATAGAGAAAGACTGTAATACTGA
781 GAAAGAGAACAAAGAGAGATGAAAGAGAGAAAGAATTTCAGAGAGAAAGACTGTAATACTGA
* ** *
16464057 TCCTCTATGCCAGGTAAATCTCGATCCACGGTAGGCTAAATCACAGAGGTTATTATTAAACAAGA
1 TCCTCTATGCCAGGGAAATCTCGATCCACAATAGGCTAAATCACAAAGGTTATTATTAAACAAGA
* *
16464122 ATTCTCTAATGAACTCACACCCATTCTTTGAAGAAGTAGCACCCCCTGCACACTCAGAAGAATCC
66 ATTATCTAAAGAACTCACACCCATTCTTTGAAGAAGTAGCACCCCCTGCACACTCAGAAGAATCC
16464187 AATATCGTATTAAAATCTCCAACAACAACCCAAGGTTCTGAAGTTTGAGTTGAAAACACCCCTAA
131 AATATCGTATTAAAATCTCCAACAACAACCCAAGGTTCTGAAGTTTGAGTTGAAAACACCCC-AA
* *
16464252 GAACTCCCATAACCATTTCCATTTCCCATGTTGATGG-CTA-CAATAAACTGTCGAATAACAAAA
195 GAACTCACATAACCATTTCCATTTCCCATGTTGA-GGACTAGC-ATAAACTGTCGAACAACAAAA
* * * *
16464315 TTTCGACATGGAGCTAGAGTTACTAATCCTTATATGAATCGTTTAAGAATGAGAGCTAGAATATC
258 TTTCGACATGAAGCTACAGTTACTAATCCTCATATGAATCATTTAAGAATGAGAGCTAGAATATC
* *
16464380 AACACTCAGTTACCCTTTCAAAGCACCTAGATTCCTCCAACAAAACTAGTTGCTTCTACCCTACA
323 AACACTCAGTTACCCTTTCAAAACACCTAGATTCCTCCAACAAAACTAGCTGCTTCTACCCTACA
*
16464445 CAAATTTTGAAACCCAATTTTTCCCACAATATCATCTGCTCTTAAGCCACTAATACGGGTTTCAA
388 CAAATTTTGAAACCCAATTTTTCCCACAATATCATCCGCTCTTAAGCCACTAATACGGGTTTCAA
* * *
16464510 ACAGATAGAGCAAATCAGGATTAAATTCTTTCCTATATTCAGCAATAATTTTGTGGAATCGTGGA
453 ACAGACAGAGCAAATCAAGATTAAATTCTTTCCTATATTCAGCAACAATTTTGTGGAATCGTGGA
16464575 TGTCTCATTCCTTGACAATTCCAAAATATTAGGTTTAAATCCATTAATAGAAAGAAAATAAAAGT
518 TGTCTCATTCCTTGACAATTCCAAAATATTAGGTTTAAATCCATTAATAGAAAGAAAATAAAAGT
* *
16464640 CGAACACCACAGACACATCATTACTGAAAGGAGAAAGATTAACAGCTTACCCCCGTTCCTCGATC
583 CGAACACCACAGACACATCATTACTGAAAGGAGAAAAATTAACAGCTTACCCCCATTCCTCGATC
* * *
16464705 CGTTCCTTTGTCATTATCTTGAACGATCAAACCTGAGGACTCCTC-CACATGATTTGCTTATGGC
648 CGTTCCTTTGTCATTATCTTGAACAACCAAACCCGAGGACTCCTCTCACATGATTTGCTTATGGC
* * * *
16464769 ATTGCTTAATCCCCTATACTGTGTTACATGATGGTTTAAGTTGGAGAAGAAAAGTGAAAGAAGAA
713 ATTGCTCAATCCCCTATACTGTGTTACATAATGGTTTAAGTTAGAGAAGAAAAGGGAAAGAAGAA
16464834 GAAGAAAGAGAACAAAGAGAGATGAAAGAGAGAAAGAATTTCAGAGAGAAAGACTGATAATACTG
778 GAAGAAAGAGAACAAAGAGAGATGAAAGAGAGAAAGAATTTCAGAGAGAAAGACTG-TAATACTG
16464899 A
842 A
16464900 T
1 T
16464901 TCTCATTTCA
Statistics
Matches: 795, Mismatches: 45, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
842 314 0.39
843 479 0.60
844 2 0.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (842 bp):
TCCTCTATGCCAGGGAAATCTCGATCCACAATAGGCTAAATCACAAAGGTTATTATTAAACAAGA
ATTATCTAAAGAACTCACACCCATTCTTTGAAGAAGTAGCACCCCCTGCACACTCAGAAGAATCC
AATATCGTATTAAAATCTCCAACAACAACCCAAGGTTCTGAAGTTTGAGTTGAAAACACCCCAAG
AACTCACATAACCATTTCCATTTCCCATGTTGAGGACTAGCATAAACTGTCGAACAACAAAATTT
CGACATGAAGCTACAGTTACTAATCCTCATATGAATCATTTAAGAATGAGAGCTAGAATATCAAC
ACTCAGTTACCCTTTCAAAACACCTAGATTCCTCCAACAAAACTAGCTGCTTCTACCCTACACAA
ATTTTGAAACCCAATTTTTCCCACAATATCATCCGCTCTTAAGCCACTAATACGGGTTTCAAACA
GACAGAGCAAATCAAGATTAAATTCTTTCCTATATTCAGCAACAATTTTGTGGAATCGTGGATGT
CTCATTCCTTGACAATTCCAAAATATTAGGTTTAAATCCATTAATAGAAAGAAAATAAAAGTCGA
ACACCACAGACACATCATTACTGAAAGGAGAAAAATTAACAGCTTACCCCCATTCCTCGATCCGT
TCCTTTGTCATTATCTTGAACAACCAAACCCGAGGACTCCTCTCACATGATTTGCTTATGGCATT
GCTCAATCCCCTATACTGTGTTACATAATGGTTTAAGTTAGAGAAGAAAAGGGAAAGAAGAAGAA
GAAAGAGAACAAAGAGAGATGAAAGAGAGAAAGAATTTCAGAGAGAAAGACTGTAATACTGA
Found at i:16477160 original size:20 final size:17
Alignment explanation
Indices: 16477125--16477179 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
16477115 AAAAGCACGT
16477125 AAAAGTAAAAAAGTCAA
1 AAAAGTAAAAAAGTCAA
16477142 ATAAAGTAAAAGGAAGTCAA
1 A-AAAGTAAAA--AAGTCAA
*
16477162 AAAAG-AAAGAAACTCAA
1 AAAAGTAAA-AAAGTCAA
16477179 A
1 A
16477180 CTGTCCCCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 8 0.24
18 12 0.36
19 5 0.15
20 8 0.24
ACGTcount: A:0.67, C:0.07, G:0.15, T:0.11
Consensus pattern (17 bp):
AAAAGTAAAAAAGTCAA
Found at i:16478062 original size:18 final size:19
Alignment explanation
Indices: 16478035--16478078 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
16478025 AAATAAAAAA
16478035 AAAT-TAAA-TTATTTTTT
1 AAATATAAATTTATTTTTT
16478052 AAATATAAATTTATTTTTT
1 AAATATAAATTTATTTTTT
*
16478071 AAAAATAA
1 AAATATAA
16478079 TAAAATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 16 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATATAAATTTATTTTTT
Found at i:16479242 original size:17 final size:17
Alignment explanation
Indices: 16479220--16479253 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16479210 TCCCAAAAAA
*
16479220 ATTTTAAATGTTTTTTT
1 ATTTTAAATATTTTTTT
*
16479237 ATTTTAATTATTTTTTT
1 ATTTTAAATATTTTTTT
16479254 TAAGTTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTAAATATTTTTTT
Found at i:16479265 original size:20 final size:19
Alignment explanation
Indices: 16479230--16479271 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
16479220 ATTTTAAATG
*
16479230 TTTTTTTATTTTAATT-AT
1 TTTTTTTATTTAAATTCAT
16479248 TTTTTTTAAGTTTAAATTCAT
1 TTTTTTT-A-TTTAAATTCAT
16479269 TTT
1 TTT
16479272 CTGACATGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 7 0.35
21 5 0.25
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTTATTTAAATTCAT
Done.