Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 58 of 163
Found at i:14532210 original size:66 final size:66
Alignment explanation
Indices: 14532104--14532251 Score: 226
Period size: 66 Copynumber: 2.2 Consensus size: 66
14532094 CTCGCTGCTG
* *
14532104 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
14532169 A
66 A
* * *
14532170 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCATTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
*
14532234 AG
65 AA
14532236 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
14532252 AGCAATTTGC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
65 1 0.01
66 73 0.99
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
A
Found at i:14537795 original size:10 final size:9
Alignment explanation
Indices: 14537773--14538027 Score: 76
Period size: 8 Copynumber: 29.8 Consensus size: 9
14537763 CTATTTTTAT
14537773 TAATTAA-A
1 TAATTAATA
14537781 TAATTAAATA
1 TAATT-AATA
14537791 TAATTAA-A
1 TAATTAATA
14537799 -AATTTAATA
1 TAA-TTAATA
*
14537808 TAATT-ATT
1 TAATTAATA
*
14537816 TACCTTAATA
1 TA-ATTAATA
14537826 TAATTAA-A
1 TAATTAATA
14537834 TAATT-ATA
1 TAATTAATA
*
14537842 -ATTTAATA
1 TAATTAATA
**
14537850 T-A-TACCA
1 TAATTAATA
14537857 TAATTTAATA
1 TAA-TTAATA
14537867 TAATTAA-A
1 TAATTAATA
14537875 TAATTAA-A
1 TAATTAATA
*
14537883 T-CTT--T-
1 TAATTAATA
14537888 TAACTTAATA
1 TAA-TTAATA
**
14537898 TAATTCGT-
1 TAATTAATA
*
14537906 TACTTTAATA
1 TA-ATTAATA
14537916 TAATTAA-A
1 TAATTAATA
14537924 TAATTAA-A
1 TAATTAATA
*
14537932 T-CTT--T-
1 TAATTAATA
14537937 TAACTTAATA
1 TAA-TTAATA
*
14537947 TAATT-ATT
1 TAATTAATA
*
14537955 TACTTTAATA
1 TA-ATTAATA
14537965 TAATTAA-A
1 TAATTAATA
*
14537973 TAATTAAATCTT
1 TAATT-AA--TA
14537985 TAATTTAATA
1 TAA-TTAATA
*
14537995 TAATT-ATT
1 TAATTAATA
*
14538003 TACTTTAATA
1 TA-ATTAATA
14538013 TAATTAA-A
1 TAATTAATA
14538021 TAATTAA
1 TAATTAA
14538028 ATCTTTTAAC
Statistics
Matches: 181, Mismatches: 30, Indels: 72
0.64 0.11 0.25
Matches are distributed among these distances:
5 2 0.01
7 18 0.10
8 69 0.38
9 47 0.26
10 38 0.21
12 5 0.03
13 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (9 bp):
TAATTAATA
Found at i:14537796 original size:18 final size:18
Alignment explanation
Indices: 14537773--14538847 Score: 306
Period size: 18 Copynumber: 60.9 Consensus size: 18
14537763 CTATTTTTAT
*
14537773 TAATTAAATAATTAAATA
1 TAATTAAATAATTTAATA
14537791 TAATTAAA-AATTTAATA
1 TAATTAAATAATTTAATA
** **
14537808 TAATTATTTACCTTAATA
1 TAATTAAATAATTTAATA
*
14537826 TAATTAAATAATTATAATT
1 TAATTAAATAATT-TAATA
14537845 TAATATATACCATAATTTAATA
1 TAAT-TA-A--ATAATTTAATA
14537867 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
* * *
14537883 T-CTT--TTAACTTAATA
1 TAATTAAATAATTTAATA
*** *
14537898 TAATTCGTTACTTTAATA
1 TAATTAAATAATTTAATA
14537916 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
* * *
14537932 T-CTT--TTAACTTAATA
1 TAATTAAATAATTTAATA
** *
14537947 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
14537965 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
*
14537981 T-CTT---TAATTTAATA
1 TAATTAAATAATTTAATA
** *
14537995 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
14538013 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
* * *
14538029 T-CTT--TTAACTTAATA
1 TAATTAAATAATTTAATA
* ** *
14538044 TAATCATTTACTTTAATA
1 TAATTAAATAATTTAATA
* *
14538062 TAATTAAATAATTAAATCTTT
1 TAATTAAATAATTTAA---TA
14538083 TAACTTAAAT-ATTTAAT-
1 TAA-TTAAATAATTTAATA
** *
14538100 TAA-TCGATAGTGTT--TA
1 TAATTAAATAAT-TTAATA
*
14538116 TAATTAAATACATAATTAAACA
1 TAATTAAATA-AT--TT-AATA
*
14538138 TGATTAAATAATTTAATA
1 TAATTAAATAATTTAATA
** *
14538156 TAATTATTTAGTTTAATA
1 TAATTAAATAATTTAATA
14538174 TAATTAAATAATTATATAGATA
1 TAATTAAATAA-T-T-TA-ATA
**
14538196 TAATTATTTAATTTAATA
1 TAATTAAATAATTTAATA
** *
14538214 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
14538232 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
* * *
14538248 T-CTT--TTAACTTAATA
1 TAATTAAATAATTTAATA
* ** *
14538263 TAATCATTTACTTTAATA
1 TAATTAAATAATTTAATA
* *
14538281 TAATTAAATAATTAAATCTTT
1 TAATTAAATAATTTAA---TA
14538302 TAACTTAAAT-ATTTAAT-
1 TAA-TTAAATAATTTAATA
** *
14538319 TAA-TCGATAGTGTT--TA
1 TAATTAAATAAT-TTAATA
*
14538335 TAATTAAATACATAATTAAACA
1 TAATTAAATA-AT--TT-AATA
*
14538357 TGATTAAATAATTTAATA
1 TAATTAAATAATTTAATA
** *
14538375 TAATTATTTAGTTTAATA
1 TAATTAAATAATTTAATA
14538393 TAATTAAATAA-TT-ATA
1 TAATTAAATAATTTAATA
* * *
14538409 T-CTT--TTAAATTAATA
1 TAATTAAATAATTTAATA
**
14538424 TAATTATTTAATTTAATA
1 TAATTAAATAATTTAATA
** *
14538442 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
14538460 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
* *
14538476 T-CTT--TTAATTTAATA
1 TAATTAAATAATTTAATA
* ** *
14538491 TAATCATTTACTTTAATA
1 TAATTAAATAATTTAATA
* *
14538509 TAATTAAATAATTAAATCTTT
1 TAATTAAATAATTTAA---TA
14538530 TAACTTAAAT-ATTTAAT-
1 TAA-TTAAATAATTTAATA
** *
14538547 TAA-TCGATAGTGTT--TA
1 TAATTAAATAAT-TTAATA
*
14538563 TAATTAAATACATAATTAAACA
1 TAATTAAATA-AT--TT-AATA
*
14538585 TGATTAAATAATTTAATA
1 TAATTAAATAATTTAATA
** *
14538603 TAATTATTTAGTTTAATA
1 TAATTAAATAATTTAATA
14538621 TAATTAAATAA-TT-ATA
1 TAATTAAATAATTTAATA
* * *
14538637 T-CTT--TTAAATTAATA
1 TAATTAAATAATTTAATA
* ** *
14538652 TACTTATTTACTTTAATA
1 TAATTAAATAATTTAATA
14538670 TAATTAAATAA-TTAA-A
1 TAATTAAATAATTTAATA
14538686 T-ATT---TAATTTAATA
1 TAATTAAATAATTTAATA
** *
14538700 TAATTATTTACTTTAATA
1 TAATTAAATAATTTAATA
* *
14538718 TAATTAAATAATTAAATCTTT
1 TAATTAAATAATTTAA---TA
14538739 TAACTTAAAT-ATTTAAT-
1 TAA-TTAAATAATTTAATA
** *
14538756 TAA-TCGATAGTGTT--TA
1 TAATTAAATAAT-TTAATA
*
14538772 TAATTAAATACATAATTAAACA
1 TAATTAAATA-AT--TT-AATA
*
14538794 TGATTAAATAATTTAATA
1 TAATTAAATAATTTAATA
** *
14538812 TAATTATTTAGTTTAATA
1 TAATTAAATAATTTAATA
14538830 TAATTAAATAATTATAAT
1 TAATTAAATAATT-TAAT
14538848 CAAGCTGATA
Statistics
Matches: 778, Mismatches: 169, Indels: 219
0.67 0.14 0.19
Matches are distributed among these distances:
12 6 0.01
13 29 0.04
14 28 0.04
15 58 0.07
16 50 0.06
17 82 0.11
18 349 0.45
19 31 0.04
20 5 0.01
21 50 0.06
22 84 0.11
23 6 0.01
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (18 bp):
TAATTAAATAATTTAATA
Found at i:14537878 original size:49 final size:48
Alignment explanation
Indices: 14537820--14538090 Score: 375
Period size: 49 Copynumber: 5.5 Consensus size: 48
14537810 ATTATTTACC
* * * * *
14537820 TTAATATAATTAAATAATTATAATTTAATAT-ATACCATAATTTAATATAA
1 TTAA-ATAATTAAAT-CTTTTAACTTAATATAATA-CTTACTTTAATATAA
*
14537870 TTAAATAATTAAATCTTTTAACTTAATATAATTCGTTACTTTAATATAA
1 TTAAATAATTAAATCTTTTAACTTAATATAATAC-TTACTTTAATATAA
*
14537919 TTAAATAATTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAA
1 TTAAATAATTAAATCTTTTAACTTAATATAA-TACTTACTTTAATATAA
* *
14537968 TTAAATAATTAAATC-TTTAATTTAATATAATTATTTACTTTAATATAA
1 TTAAATAATTAAATCTTTTAACTTAATATAA-TACTTACTTTAATATAA
*
14538016 TTAAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAA
1 TTAAATAATTAAATCTTTTAACTTAATATAAT-ACTTACTTTAATATAA
14538065 TTAAATAATTAAATCTTTTAACTTAA
1 TTAAATAATTAAATCTTTTAACTTAA
14538091 ATATTTAATT
Statistics
Matches: 206, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
48 61 0.30
49 140 0.68
50 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.47
Consensus pattern (48 bp):
TTAAATAATTAAATCTTTTAACTTAATATAATACTTACTTTAATATAA
Found at i:14538014 original size:97 final size:97
Alignment explanation
Indices: 14537860--14538090 Score: 408
Period size: 97 Copynumber: 2.4 Consensus size: 97
14537850 TATACCATAA
*
14537860 TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTCGTTACTTTAATATAATTAAAT
1 TTTAATATAATTAAATAATTAAATC-TTTAACTTAATATAATTAGTTACTTTAATATAATTAAAT
*
14537925 AATTAAATCTTTTAACTTAATATAATTATTTAC
65 AATTAAATCTTTTAACTTAATATAATCATTTAC
* *
14537958 TTTAATATAATTAAATAATTAAATCTTTAATTTAATATAATTATTTACTTTAATATAATTAAATA
1 TTTAATATAATTAAATAATTAAATCTTTAACTTAATATAATTAGTTACTTTAATATAATTAAATA
14538023 ATTAAATCTTTTAACTTAATATAATCATTTAC
66 ATTAAATCTTTTAACTTAATATAATCATTTAC
14538055 TTTAATATAATTAAATAATTAAATCTTTTAACTTAA
1 TTTAATATAATTAAATAATTAAATC-TTTAACTTAA
14538091 ATATTTAATT
Statistics
Matches: 127, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
97 93 0.73
98 34 0.27
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (97 bp):
TTTAATATAATTAAATAATTAAATCTTTAACTTAATATAATTAGTTACTTTAATATAATTAAATA
ATTAAATCTTTTAACTTAATATAATCATTTAC
Found at i:14538263 original size:49 final size:49
Alignment explanation
Indices: 14538202--14538447 Score: 242
Period size: 49 Copynumber: 4.7 Consensus size: 49
14538192 GATATAATTA
*
14538202 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
*
14538251 TTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
* * * * *
14538300 TTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CAT
1 TTTAACTT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T
* * *
14538358 GATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCT
1 --TT---TAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
* *
14538412 TTTAAATTAATATAATTATTTAATTTAATATAATTA
1 TTTAACTTAATATAATTATTTACTTTAATATAATTA
14538448 TTTACTTTAA
Statistics
Matches: 165, Mismatches: 16, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
49 87 0.53
50 4 0.02
52 6 0.04
53 2 0.01
54 14 0.08
55 5 0.03
56 8 0.05
57 6 0.04
58 15 0.09
59 2 0.01
60 7 0.04
62 4 0.02
63 5 0.03
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (49 bp):
TTTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
Found at i:14538425 original size:31 final size:31
Alignment explanation
Indices: 14538381--14538494 Score: 120
Period size: 31 Copynumber: 3.5 Consensus size: 31
14538371 AATATAATTA
*
14538381 TTTAGTTTAATATAATTAAATAATTATATCT
1 TTTAATTTAATATAATTAAATAATTATATCT
* ** *
14538412 TTTAAATTAATATAATTATTTAATTTAATATAATT
1 TTTAATTTAATATAATTAAATAA-TT-ATAT--CT
* *
14538447 ATTTACTTTAATATAATTAAATAATTAAATCT
1 -TTTAATTTAATATAATTAAATAATTATATCT
14538479 TTTAATTTAATATAAT
1 TTTAATTTAATATAAT
14538495 CATTTACTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
31 34 0.52
32 3 0.05
33 4 0.06
34 3 0.05
35 3 0.05
36 19 0.29
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.52
Consensus pattern (31 bp):
TTTAATTTAATATAATTAAATAATTATATCT
Found at i:14538443 original size:67 final size:67
Alignment explanation
Indices: 14538365--14538514 Score: 255
Period size: 67 Copynumber: 2.2 Consensus size: 67
14538355 CATGATTAAA
* * *
14538365 TAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAATTAATATAATTA
1 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
14538430 TT
66 TT
*
14538432 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAATTTAATATAATCA
1 TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
14538497 TT
66 TT
*
14538499 TACTTTAATATAATTA
1 TAATTTAATATAATTA
14538515 AATAATTAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 78 1.00
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (67 bp):
TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAATTAATATAATCA
TT
Found at i:14538483 original size:49 final size:49
Alignment explanation
Indices: 14538430--14538746 Score: 368
Period size: 49 Copynumber: 6.2 Consensus size: 49
14538420 AATATAATTA
14538430 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
*
14538479 TTTAATTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
* * * * * *
14538528 TTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CAT
1 TTTAA-TTTAATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T
* *
14538586 GATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCT
1 --TT---TAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
* * *
14538640 TTTAAATTAATATACTTATTTACTTTAATATAATTAAATAATTAAAT-A
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
14538688 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
*
14538737 TTTAACTTAA
1 TTTAATTTAA
14538747 ATATTTAATT
Statistics
Matches: 228, Mismatches: 23, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
48 45 0.20
49 103 0.45
50 6 0.03
52 6 0.03
53 2 0.01
54 14 0.06
55 5 0.02
56 8 0.04
57 6 0.03
58 15 0.07
59 2 0.01
60 7 0.03
62 6 0.03
63 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (49 bp):
TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCT
Found at i:14538590 original size:228 final size:228
Alignment explanation
Indices: 14537983--14538675 Score: 1287
Period size: 228 Copynumber: 3.1 Consensus size: 228
14537973 TAATTAAATC
14537983 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
14538048 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGT
66 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGT
14538113 TTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAAT
131 TTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAAT
*
14538178 TAAATAATTATA-----T--A--GATATAATTA
196 TAAATAATTATATCTTTTAAATTAATATAATTA
14538202 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
14538267 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGT
66 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGT
14538332 TTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAAT
131 TTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAAT
14538397 TAAATAATTATATCTTTTAAATTAATATAATTA
196 TAAATAATTATATCTTTTAAATTAATATAATTA
*
14538430 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAATTTAATATAAT
1 TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
14538495 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGT
66 CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGT
14538560 TTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAAT
131 TTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAAT
*
14538625 TAAATAATTATATCTTTTAAATTAATATACTTA
196 TAAATAATTATATCTTTTAAATTAATATAATTA
*
14538658 TTTACTTTAATATAATTA
1 TTTAATTTAATATAATTA
14538676 AATAATTAAA
Statistics
Matches: 461, Mismatches: 4, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
219 207 0.45
224 1 0.00
226 1 0.00
228 252 0.55
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (228 bp):
TTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAT
CATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGT
TTATAATTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAAT
TAAATAATTATATCTTTTAAATTAATATAATTA
Found at i:14541204 original size:42 final size:41
Alignment explanation
Indices: 14541148--14541662 Score: 388
Period size: 41 Copynumber: 12.5 Consensus size: 41
14541138 GTGACGCTTA
14541148 TTAGA-AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCT
1 TTAGATAAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCT
* * * * *
14541188 TTATATATAAGTGCCGCTAATGACCCGAACTTTAGCGGCACT
1 TTAGATA-AAGCGCCGCTAATGACCTGACCTTTAGCGGCGCT
* *
14541230 TGAGGA-AAAGCGCCGCTAATGACCCGACCTTTTAGCGGCGCT
1 TTA-GATAAAGCGCCGCTAATGACCTGACC-TTTAGCGGCGCT
* * *
14541272 TGA-ATGAAAACGCCGATAAATGATCCT-ACCTTTAGCGGCGCT
1 TTAGAT-AAAGCGCCGCT-AATGA-CCTGACCTTTAGCGGCGCT
* * * * *
14541314 TTCA-CTCAAGCGCCGCTAATGACCCGACCTTTTCGTGGCGCT
1 TT-AGATAAAGCGCCGCTAATGACCTGACC-TTTAGCGGCGCT
* ** * * *
14541356 TCAGGGAAAGCGCTGCTAATGATCAT-ACCTTTAGTGGCGCT
1 TTAGATAAAGCGCCGCTAATGA-CCTGACCTTTAGCGGCGCT
* * * * *
14541397 TGAGTTAAAGCGCCGCTAATTACTTGGCCTTTAGCGGCGCT
1 TTAGATAAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCT
* * * *
14541438 TGACG-GAAAGCGCCGCTAATTACCCT-ACCTTTAGCGGCGCA
1 TTA-GATAAAGCGCCGCTAATGA-CCTGACCTTTAGCGGCGCT
* * *
14541479 TTAGAGAAAGCGCCGCTAATGACTTGAACTTTAGCGGCGCT
1 TTAGATAAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCT
** *
14541520 TGT-GATAAAGCGCCGCTAATGACCCCACCTTTAGCGGGGCT
1 T-TAGATAAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCT
* * ** *
14541561 TGTGGGTAAAGCGCCGCTAATGACCCCACCTTTAGCGACGCT
1 T-TAGATAAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCT
* * * * * *
14541603 TTTG-TTAAGCGCCGCTAATG-CTTTACCTTTTGCGGTGCAT
1 TTAGATAAAGCGCCGCTAATGACCTGACCTTTAGCGGCGC-T
*
14541643 TAAGA-AAAGCGCCGCTAATG
1 TTAGATAAAGCGCCGCTAATG
14541663 TTTTACCTTT
Statistics
Matches: 387, Mismatches: 66, Indels: 44
0.78 0.13 0.09
Matches are distributed among these distances:
39 12 0.03
40 44 0.11
41 172 0.44
42 145 0.37
43 12 0.03
44 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (41 bp):
TTAGATAAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCT
Found at i:14541477 original size:82 final size:82
Alignment explanation
Indices: 14541153--14541662 Score: 433
Period size: 82 Copynumber: 6.2 Consensus size: 82
14541143 GCTTATTAGA
* ** * * *
14541153 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTATATATAAGTGCCGCTAATGACCCGAAC
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTGATGGA-AAGCGCCGCTAATGACCCTACC
* *
14541218 TTTAGCGGCACTTGAGGA
65 TTTAGCGGCGCTTGAGGT
* * * *
14541236 AAAGCGCCGCTAATGACCCGACCTTTTAGCGGCGCTTGAAT-GAAAACGCCGATAAATGATCCTA
1 AAAGCGCCGCTAATGACCTGACC-TTTAGCGGCGCTTG-ATGGAAAGCGCCGCT-AATGACCCTA
* *
14541300 CCTTTAGCGGCGCTTTCA-CT
63 CCTTTAGCGGCGC-TTGAGGT
* * * * * * * * *
14541320 CAAGCGCCGCTAATGACCCGACCTTTTCGTGGCGCTTCAGGGAAAGCGCTGCTAATGATCATACC
1 AAAGCGCCGCTAATGACCTGACC-TTTAGCGGCGCTTGATGGAAAGCGCCGCTAATGACCCTACC
* *
14541385 TTTAGTGGCGCTTGAGTT
65 TTTAGCGGCGCTTGAGGT
* * * * *
14541403 AAAGCGCCGCTAATTACTTGGCCTTTAGCGGCGCTTGACGGAAAGCGCCGCTAATTACCCTACCT
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTGATGGAAAGCGCCGCTAATGACCCTACCT
14541468 TTAGCGGCGCATT-AGAG-
66 TTAGCGGCGC-TTGAG-GT
* * * *
14541485 AAAGCGCCGCTAATGACTTGAACTTTAGCGGCGCTTG-TGATAAAGCGCCGCTAATGACCCCACC
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTGATG-GAAAGCGCCGCTAATGACCCTACC
* *
14541549 TTTAGCGGGGCTTGTGGGT
65 TTTAGCGGCGCTTG-AGGT
** * * ** **
14541568 AAAGCGCCGCTAATGACCCCACCTTTAGCGACGCTT-TTGTTAAGCGCCGCTAATG-CTTTACCT
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTGATGGAAAGCGCCGCTAATGACCCTACCT
* * * *
14541631 TTTGCGGTGCATT-AAGA
66 TTAGCGGCGC-TTGAGGT
14541648 AAAGCGCCGCTAATG
1 AAAGCGCCGCTAATG
14541663 TTTTACCTTT
Statistics
Matches: 350, Mismatches: 63, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
80 16 0.05
81 16 0.05
82 131 0.37
83 106 0.30
84 76 0.22
85 5 0.01
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (82 bp):
AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTGATGGAAAGCGCCGCTAATGACCCTACCT
TTAGCGGCGCTTGAGGT
Found at i:14549862 original size:51 final size:51
Alignment explanation
Indices: 14549784--14549918 Score: 200
Period size: 51 Copynumber: 2.6 Consensus size: 51
14549774 GCTATGAACG
* * *
14549784 AAAGGATCCGATGACTAAGTGTTATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGG-TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGGATT
* *
14549836 AAAGGTCCGATGACTAGGTGTCATCGTGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGGATT
14549887 AAAGGTCCGATGACTATA-TGTCATCGTGAGTA
1 AAAGGTCCGATGACTA-AGTGTCATCGTGAGTA
14549919 TTAAATGAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 71 0.93
52 5 0.07
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGGATT
Found at i:14557305 original size:26 final size:28
Alignment explanation
Indices: 14557262--14557315 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
14557252 TTTAGCAAAT
14557262 AAGAAGAGAAGAGGAAAAAGAATTTGTAG
1 AAGAAGAGAAGA-GAAAAAGAATTTGTAG
14557291 AAGAAGAGAA-A-AAAAAGAATTTGTA
1 AAGAAGAGAAGAGAAAAAGAATTTGTA
14557316 AGGTTTGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 14 0.56
28 1 0.04
29 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (28 bp):
AAGAAGAGAAGAGAAAAAGAATTTGTAG
Found at i:14560611 original size:21 final size:21
Alignment explanation
Indices: 14560562--14560638 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
14560552 GGTTTAGAAT
14560562 TTTTAAATT-AGCGTTTAGGT-
1 TTTTAAATTAAG-GTTTAGGTA
* *
14560582 TATTAAAATTAAGGTTTTGGTA
1 T-TTTAAATTAAGGTTTAGGTA
*
14560604 TTTTAAA-TAAGGGTGTAGGGTA
1 TTTTAAATTAA-GGTTTA-GGTA
14560626 TTTTAAATTAAGG
1 TTTTAAATTAAGG
14560639 GTTATGGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
20 4 0.09
21 23 0.50
22 16 0.35
23 3 0.07
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.44
Consensus pattern (21 bp):
TTTTAAATTAAGGTTTAGGTA
Found at i:14564330 original size:62 final size:62
Alignment explanation
Indices: 14564230--14564357 Score: 202
Period size: 62 Copynumber: 2.1 Consensus size: 62
14564220 TTGGTTCTCA
* * *
14564230 ATTAAATGAAACAATATGTCAAAACTAATGTGTTCAAAAATATTCAAAAGAAATTCGATTTT
1 ATTAAATGAAACAAAATGCCAAAACTAATGTGTACAAAAATATTCAAAAGAAATTCGATTTT
* * *
14564292 ATTAAATGAAACAAAATGCCAAAACTAATGTGTACAAAAATATTCAAATGAACTTTGATTTT
1 ATTAAATGAAACAAAATGCCAAAACTAATGTGTACAAAAATATTCAAAAGAAATTCGATTTT
14564354 ATTA
1 ATTA
14564358 TCGACGGAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.32
Consensus pattern (62 bp):
ATTAAATGAAACAAAATGCCAAAACTAATGTGTACAAAAATATTCAAAAGAAATTCGATTTT
Found at i:14564444 original size:28 final size:28
Alignment explanation
Indices: 14564407--14564461 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
14564397 ATATTATTAA
* *
14564407 AAAATAATTAAGTTATACAAATAAAAAT
1 AAAATAATTAAATTATAAAAATAAAAAT
14564435 AAAATAATTAAATTATAAAAATAAAAA
1 AAAATAATTAAATTATAAAAATAAAAA
14564462 ATAATTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAATAATTAAATTATAAAAATAAAAAT
Found at i:14564452 original size:22 final size:23
Alignment explanation
Indices: 14564427--14564470 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
14564417 AGTTATACAA
14564427 ATAAAAAT-AAAATAATTAAATT
1 ATAAAAATAAAAATAATTAAATT
14564449 ATAAAAATAAAAAATAATTAAA
1 ATAAAAAT-AAAAATAATTAAA
14564471 GTAAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATAAAAATAATTAAATT
Found at i:14564467 original size:24 final size:26
Alignment explanation
Indices: 14564404--14564470 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 26
14564394 TAAATATTAT
*
14564404 TAAAAAATAATTAAGTTATACAAATAA
1 TAAAAAATAATTAAATTATA-AAATAA
*
14564431 AAATAAAATAATTAAATTAT-AAA-AA
1 TAA-AAAATAATTAAATTATAAAATAA
14564456 TAAAAAATAATTAAA
1 TAAAAAATAATTAAA
14564471 GTAAATGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 12 0.33
25 4 0.11
26 3 0.08
27 2 0.06
28 15 0.42
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (26 bp):
TAAAAAATAATTAAATTATAAAATAA
Found at i:14566211 original size:2 final size:2
Alignment explanation
Indices: 14566204--14566228 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14566194 ATTTATATTT
14566204 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14566229 TCTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14577232 original size:13 final size:13
Alignment explanation
Indices: 14577214--14577239 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14577204 CTAGCAATGC
14577214 AGCAGCATGAAGA
1 AGCAGCATGAAGA
14577227 AGCAGCATGAAGA
1 AGCAGCATGAAGA
14577240 CATGTTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.31, T:0.08
Consensus pattern (13 bp):
AGCAGCATGAAGA
Found at i:14577381 original size:25 final size:27
Alignment explanation
Indices: 14577318--14577383 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
14577308 AATTTAGTAG
*
14577318 TTAGTAGGTGAAAGATCTAAGATTTTT
1 TTAGTAGGTGAAAGATCTAAGATGTTT
*
14577345 TTAGTAGATGAAAGATC-AAGA-GTTT
1 TTAGTAGGTGAAAGATCTAAGATGTTT
*
14577370 TTAGAAGGTGAAAG
1 TTAGTAGGTGAAAG
14577384 GCCAAGGGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 15 0.43
26 4 0.11
27 16 0.46
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (27 bp):
TTAGTAGGTGAAAGATCTAAGATGTTT
Found at i:14577389 original size:25 final size:25
Alignment explanation
Indices: 14577342--14577389 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
14577332 ATCTAAGATT
* *
14577342 TTTTTAGTAGATGAAAGATCAAGAG
1 TTTTTAGAAGATGAAAGACCAAGAG
* *
14577367 TTTTTAGAAGGTGAAAGGCCAAG
1 TTTTTAGAAGATGAAAGACCAAG
14577390 GGTCAAATCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (25 bp):
TTTTTAGAAGATGAAAGACCAAGAG
Found at i:14581638 original size:25 final size:26
Alignment explanation
Indices: 14581568--14581632 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
14581558 AATTTAGTAG
*
14581568 TTAGTAGGTGAAAGATTAAGAGTTTT
1 TTAGTAGGTGAAAGATCAAGAGTTTT
*
14581594 TTAGTAGATGAAAGATCAAGAG-TTT
1 TTAGTAGGTGAAAGATCAAGAGTTTT
14581619 TTAGTAGGTGAAAG
1 TTAGTAGGTGAAAG
14581633 GCCAAGGGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 16 0.44
26 20 0.56
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.34
Consensus pattern (26 bp):
TTAGTAGGTGAAAGATCAAGAGTTTT
Found at i:14583185 original size:15 final size:15
Alignment explanation
Indices: 14583165--14583194 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14583155 CTTCTTGTGA
14583165 CATGCCTAGCAAATC
1 CATGCCTAGCAAATC
14583180 CATGCCTAGCAAATC
1 CATGCCTAGCAAATC
14583195 TTGAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.20
Consensus pattern (15 bp):
CATGCCTAGCAAATC
Found at i:14586125 original size:17 final size:17
Alignment explanation
Indices: 14586103--14586141 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
14586093 CTCCACCTTG
* *
14586103 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
14586120 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
14586137 ACAAG
1 ACAAG
14586142 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:14592175 original size:24 final size:24
Alignment explanation
Indices: 14592147--14592225 Score: 122
Period size: 24 Copynumber: 3.3 Consensus size: 24
14592137 TAGACTAATA
*
14592147 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTGATTCAAACAAATAAAC
14592171 AGAGTTTGATTCAAACAAATAAAC
1 AGAGTTTGATTCAAACAAATAAAC
* * *
14592195 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTGATTCAAACAAATAAAC
14592219 AGAGTTT
1 AGAGTTT
14592226 AACTGAAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTGATTCAAACAAATAAAC
Found at i:14592226 original size:24 final size:24
Alignment explanation
Indices: 14592159--14592233 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
14592149 AGTTTGACTC
* *
14592159 AAACAAATAAACAGAGTTTGATTC
1 AAACAAATAAACAGAGTTTAATTG
14592183 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* *
14592207 AAACAATTAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
14592231 AAA
1 AAA
14592234 GATTATTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:14595638 original size:17 final size:17
Alignment explanation
Indices: 14595616--14595654 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
14595606 CTTCACCTTG
* *
14595616 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
14595633 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
14595650 ACAAG
1 ACAAG
14595655 TTATCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:14602002 original size:220 final size:221
Alignment explanation
Indices: 14601612--14602462 Score: 1481
Period size: 221 Copynumber: 3.8 Consensus size: 221
14601602 ATTAAATAAA
* *
14601612 TTTCCAATAGTTTTATGACACATCTATAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
1 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
14601677 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGGA-ATAAAACTATTG
66 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGT-GACATAAAACTATTG
* * *
14601741 GAAAAGGGACACAAATGACGTGGTGTCACTATTTTATTCAATCCTTTTCCGATAGAAGGAGAAAG
130 GAAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCAATCCTTTTCCGATAGAAGGAGAAAG
* *
14601806 AATTGTATGAAACAGGGATATTATCCC
195 GATTGTATGAAACAGAGATATTATCCC
14601833 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
1 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
14601898 A-TTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGACATAAAACTATTGG
66 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGACATAAAACTATTGG
* *
14601962 AAAAGGGACACAAATGACTTGGTGTCACTGTTTCATTCAATCCTTTTCCGATAGAAGGAGAAAGG
131 AAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCAATCCTTTTCCGATAGAAGGAGAAAGG
14602027 ATTGTATGAAACAGAGATATTATCCC
196 ATTGTATGAAACAGAGATATTATCCC
*
14602053 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAAGATTTTAATTGTAATTTG
1 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
*
14602118 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGGCATAAAACTATTGG
66 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGACATAAAACTATTGG
* * * *
14602183 AAAAGAGATACAAATGACGTGGTGTCACTGTTCCATTCAATCCTTTTCCGATAAAATGAGAAAGG
131 AAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCAATCCTTTTCCGATAGAAGGAGAAAGG
* *
14602248 ATTGTATGAAATAGAGATATTATCCA
196 ATTGTATGAAACAGAGATATTATCCC
*
14602274 TTTCCAATAGTTTTATGACACATCAATAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
1 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
*
14602339 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTAATGTGACATAAAACTATTGG
66 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGACATAAAACTATTGG
*
14602404 AAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCAATACTTTTCCTTGATAGAAG
131 AAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCAATCCTTTTCC--GATAGAAG
14602463 TTACAGCAAT
Statistics
Matches: 600, Mismatches: 26, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
219 2 0.00
220 211 0.35
221 381 0.63
223 6 0.01
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (221 bp):
TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGACATAAAACTATTGG
AAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCAATCCTTTTCCGATAGAAGGAGAAAGG
ATTGTATGAAACAGAGATATTATCCC
Found at i:14602280 original size:441 final size:443
Alignment explanation
Indices: 14601612--14602462 Score: 1499
Period size: 441 Copynumber: 1.9 Consensus size: 443
14601602 ATTAAATAAA
* * *
14601612 TTTCCAATAGTTTTATGACACATCTATAATTTCATCCTAAATTTCAGGATTTTAATTGTAATTTG
1 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAAGATTTTAATTGTAATTTG
14601677 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGGAATAAAACTATTGG
66 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGGAATAAAACTATTGG
* ** *
14601742 AAAAGGGACACAAATGACGTGGTGTCACTATTTTATTCAATCCTTTTCCGATAGAAGGAGAAAGA
131 AAAAGAGACACAAATGACGTGGTGTCACTATTCCATTCAATCCTTTTCCGATAAAAGGAGAAAGA
* *
14601807 ATTGTATGAAACAGGGATATTATCCCTTTCCAATAGTTTTATGACACATCAACAATTTCATCCTA
196 ATTGTATGAAACAGAGATATTATCCATTTCCAATAGTTTTATGACACATCAACAATTTCATCCTA
14601872 AATTTCAGGATTTTAATTGTAATTTGA-TTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAA
261 AATTTCAGGATTTTAATTGTAATTTGATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAA
* * *
14601936 ATACTGATGTGACATAAAACTATTGGAAAAGGGACACAAATGACTTGGTGTCACTGTTTCATTCA
326 ATACTAATGTGACATAAAACTATTGGAAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCA
*
14602001 ATCCTTTTCC-GATAGAAGGAGAAAGGATTGTATGAAACAGAGATATTATCCC
391 ATACTTTTCCTGATAGAAGGAGAAAGGATTGTATGAAACAGAGATATTATCCC
14602053 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAAGATTTTAATTGTAATTTG
1 TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAAGATTTTAATTGTAATTTG
*
14602118 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGGCATAAAACTATTGG
66 ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGGAATAAAACTATTGG
* * * *
14602183 AAAAGAGATACAAATGACGTGGTGTCACTGTTCCATTCAATCCTTTTCCGATAAAATGAGAAAGG
131 AAAAGAGACACAAATGACGTGGTGTCACTATTCCATTCAATCCTTTTCCGATAAAAGGAGAAAGA
* *
14602248 ATTGTATGAAATAGAGATATTATCCATTTCCAATAGTTTTATGACACATCAATAATTTCATCCTA
196 ATTGTATGAAACAGAGATATTATCCATTTCCAATAGTTTTATGACACATCAACAATTTCATCCTA
14602313 AATTTCAGGATTTTAATTGTAATTTGATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAA
261 AATTTCAGGATTTTAATTGTAATTTGATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAA
14602378 ATACTAATGTGACATAAAACTATTGGAAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCA
326 ATACTAATGTGACATAAAACTATTGGAAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCA
14602443 ATACTTTTCCTTGATAGAAG
391 ATACTTTTCC-TGATAGAAG
14602463 TTACAGCAAT
Statistics
Matches: 387, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
441 271 0.70
442 108 0.28
444 8 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (443 bp):
TTTCCAATAGTTTTATGACACATCAACAATTTCATCCTAAATTTCAAGATTTTAATTGTAATTTG
ATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAAATACTGATGTGGAATAAAACTATTGG
AAAAGAGACACAAATGACGTGGTGTCACTATTCCATTCAATCCTTTTCCGATAAAAGGAGAAAGA
ATTGTATGAAACAGAGATATTATCCATTTCCAATAGTTTTATGACACATCAACAATTTCATCCTA
AATTTCAGGATTTTAATTGTAATTTGATTTTTTTCAGGATGAAAATGTTGAAATTAAGAATGAAA
ATACTAATGTGACATAAAACTATTGGAAAAGAGACACAAATGACGTGGTGTCACTGTTTCATTCA
ATACTTTTCCTGATAGAAGGAGAAAGGATTGTATGAAACAGAGATATTATCCC
Found at i:14609097 original size:21 final size:21
Alignment explanation
Indices: 14609057--14609098 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14609047 TAAATCTGAT
14609057 TCTTCCATGCTGCTGATAAGC
1 TCTTCCATGCTGCTGATAAGC
*
14609078 TCTT-CATGCTGCATGCTAAGC
1 TCTTCCATGCTGC-TGATAAGC
14609099 CATCAGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (21 bp):
TCTTCCATGCTGCTGATAAGC
Found at i:14629497 original size:29 final size:29
Alignment explanation
Indices: 14629449--14629530 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
14629439 TCTGCCTTCG
* * *
14629449 ACCTTCAAGCTCCCTACTTTCTTCTTTCA
1 ACCTTCAAGCTCCATCCTTTCTTCTTACA
14629478 ACCTTCAAGCTCCATCCTTTCTTCTTACA
1 ACCTTCAAGCTCCATCCTTTCTTCTTACA
*
14629507 ACCTTCAAGCTCCTTCCTTTCTTC
1 ACCTTCAAGCTCCATCCTTTCTTC
14629531 AATCTTCAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.17, C:0.39, G:0.04, T:0.40
Consensus pattern (29 bp):
ACCTTCAAGCTCCATCCTTTCTTCTTACA
Found at i:14629521 original size:25 final size:26
Alignment explanation
Indices: 14629465--14629540 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 26
14629455 AAGCTCCCTA
14629465 CTTTCTTCTTTCAACCTTCAAGCTCCATC
1 CTTTCTTC-TTCAACCTTCAAG--CCATC
14629494 CTTTCTTCTTACAACCTTCAAG-C-TC
1 CTTTCTTCTT-CAACCTTCAAGCCATC
* *
14629519 CTTCCTTTCTTCAATCTTCAAG
1 CTTTC-TTCTTCAACCTTCAAG
14629541 TGCCCGATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 16 0.37
26 6 0.14
28 2 0.05
29 19 0.44
ACGTcount: A:0.18, C:0.36, G:0.04, T:0.42
Consensus pattern (26 bp):
CTTTCTTCTTCAACCTTCAAGCCATC
Found at i:14630910 original size:26 final size:26
Alignment explanation
Indices: 14630872--14631096 Score: 94
Period size: 26 Copynumber: 8.9 Consensus size: 26
14630862 AGTAAATTTA
*
14630872 GCTCATACAAGCCCAGT-CAGTAAATC
1 GCTCTTACAAG-CCAGTACAGTAAATC
* *
14630898 GCTCTTACGAGCCAGTACAGTATATC
1 GCTCTTACAAGCCAGTACAGTAAATC
* * * * *
14630924 GCTCTTACAAACCAGTTCAATATATT
1 GCTCTTACAAGCCAGTACAGTAAATC
* * *
14630950 TCTCTTCCGAGCCAGTACAGT--A--
1 GCTCTTACAAGCCAGTACAGTAAATC
* *** *
14630972 --TCTT-CAAGTC-TCCCAGTAAATTTA
1 GCTCTTACAAGCCAGTACAGTAAA--TC
* *
14630996 GCTCATACGAGCTCAGT-CAGTAAATC
1 GCTCTTACAAGC-CAGTACAGTAAATC
* * *
14631022 GCTCTTACGAGCCAGTACAATATATC
1 GCTCTTACAAGCCAGTACAGTAAATC
* * * *
14631048 ACCCTTACAAGCCAATATAGTATAA-C
1 GCTCTTACAAGCCAGTACAGTA-AATC
*
14631074 GCTCTTACAAGCCAATACAGTAA
1 GCTCTTACAAGCCAGTACAGTAA
14631097 TTCTTCAGAG
Statistics
Matches: 147, Mismatches: 38, Indels: 29
0.69 0.18 0.14
Matches are distributed among these distances:
18 4 0.03
19 4 0.03
20 5 0.03
24 1 0.01
25 10 0.07
26 111 0.76
27 4 0.03
28 8 0.05
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (26 bp):
GCTCTTACAAGCCAGTACAGTAAATC
Found at i:14631079 original size:124 final size:126
Alignment explanation
Indices: 14630848--14631109 Score: 341
Period size: 124 Copynumber: 2.1 Consensus size: 126
14630838 CCAAACAATC
**
14630848 TCTTCAAGTCTCTTAGTAAATTTAGCTCATACAAGCCCAGTCAGTAAATCGCTCTTACGAGCCAG
1 TCTTCAAGTCTCCCAGTAAATTTAGCTCATACAAGCCCAGTCAGTAAATCGCTCTTACGAGCCAG
* * * * *** * * *
14630913 TACAGTATATCGCTCTTACAAACCAGTTCAATATATTTCTCTTCCGAGCCAGTACAGT-A-
66 TACAATATATCACCCTTACAAACCAATTCAATATAACGCTCTTACAAGCCAATACAGTAAT
* *
14630972 TCTTCAAGTCTCCCAGTAAATTTAGCTCATACGAGCTCAGTCAGTAAATCGCTCTTACGAGCCAG
1 TCTTCAAGTCTCCCAGTAAATTTAGCTCATACAAGCCCAGTCAGTAAATCGCTCTTACGAGCCAG
* *
14631037 TACAATATATCACCCTTACAAGCCAATAT-AGTATAACGCTCTTACAAGCCAATACAGTAAT
66 TACAATATATCACCCTTACAAACCAAT-TCAATATAACGCTCTTACAAGCCAATACAGTAAT
14631098 TCTTCAGAGTCT
1 TCTTCA-AGTCT
14631110 TCCATCTCAT
Statistics
Matches: 118, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
124 105 0.89
125 2 0.02
126 6 0.05
127 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (126 bp):
TCTTCAAGTCTCCCAGTAAATTTAGCTCATACAAGCCCAGTCAGTAAATCGCTCTTACGAGCCAG
TACAATATATCACCCTTACAAACCAATTCAATATAACGCTCTTACAAGCCAATACAGTAAT
Found at i:14638046 original size:25 final size:25
Alignment explanation
Indices: 14637984--14638046 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
14637974 ATAGAAATTC
* * *
14637984 AATTATTATTATAAATTAGTGTTGT
1 AATTATTATTGTAAATTAGTATTAT
* * *
14638009 AATTAATAGTGTAAATTATTATTAT
1 AATTATTATTGTAAATTAGTATTAT
*
14638034 TATTATTATTGTA
1 AATTATTATTGTA
14638047 GCTAGCAAAG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (25 bp):
AATTATTATTGTAAATTAGTATTAT
Found at i:14643166 original size:19 final size:18
Alignment explanation
Indices: 14643124--14643224 Score: 103
Period size: 18 Copynumber: 5.4 Consensus size: 18
14643114 TCCTTGCGAT
*
14643124 CCAGTATTGCTCAATGAG
1 CCAGTATTGCTCAACGAG
*
14643142 CCAGTATTGCTCTTACGAG
1 CCAGTATTGCTC-AACGAG
*
14643161 CTAGTATTTGCTCAACGAG
1 CCAGTA-TTGCTCAACGAG
* * *
14643180 CCGGTATTACTCAATGAG
1 CCAGTATTGCTCAACGAG
* *
14643198 CCAGCATTGCTCTTACGAG
1 CCAGTATTGCTC-AACGAG
14643217 CCAGTATT
1 CCAGTATT
14643225 TGCTATTCCC
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
18 31 0.47
19 29 0.44
20 6 0.09
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (18 bp):
CCAGTATTGCTCAACGAG
Found at i:14645150 original size:94 final size:94
Alignment explanation
Indices: 14644977--14645162 Score: 284
Period size: 94 Copynumber: 2.0 Consensus size: 94
14644967 ATTGTCTCTG
* * * *
14644977 TTACTAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTTGCAACATTTACGGTACCTCATT
1 TTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTTGAAACATATACGGTACCTCAGT
14645042 CATCTATACAGTATCTGTACATATAACTA
66 CATCTATACAGTATCTGTACATATAACTA
* * *
14645071 TTACCAGTATACGATGTTGCTCACACTAAGTTGACGAGGACTTGAAACATATGCGTTACCTCAGT
1 TTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTTGAAACATATACGGTACCTCAGT
*
14645136 CAT-TGATACGGTATCTGTACATATAAC
66 CATCT-ATACAGTATCTGTACATATAAC
14645163 CGTTCCCTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 1 0.01
94 82 0.99
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (94 bp):
TTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTTGAAACATATACGGTACCTCAGT
CATCTATACAGTATCTGTACATATAACTA
Found at i:14645821 original size:16 final size:16
Alignment explanation
Indices: 14645797--14645828 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14645787 TCCTTACAAA
*
14645797 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
14645813 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
14645829 AAAAATATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:14649241 original size:34 final size:34
Alignment explanation
Indices: 14649197--14649272 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
14649187 ATATGAAAAA
* * * *
14649197 TTAAGAAAGATAAAAGGTT-AAAGATCAAGGGAGG
1 TTAAGGAAGATAAAACGTTAAAAG-TCAAAGGAAG
**
14649231 TTAAGGAAGATGGAACGTTAAAAGTCAAAGGAAG
1 TTAAGGAAGATAAAACGTTAAAAGTCAAAGGAAG
14649265 TTAAGGAA
1 TTAAGGAA
14649273 AATGGAGGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 31 0.89
35 4 0.11
ACGTcount: A:0.49, C:0.04, G:0.29, T:0.18
Consensus pattern (34 bp):
TTAAGGAAGATAAAACGTTAAAAGTCAAAGGAAG
Found at i:14649278 original size:34 final size:35
Alignment explanation
Indices: 14649216--14649290 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
14649206 ATAAAAGGTT
* * *
14649216 AAAGATCAAGGGAGGTTAAGGAAGATGGAACGTTA
1 AAAGATCAAAGGAAGTTAAGGAAAATGGAACGTTA
**
14649251 AAAG-TCAAAGGAAGTTAAGGAAAATGGAGGGTTA
1 AAAGATCAAAGGAAGTTAAGGAAAATGGAACGTTA
14649285 AAAGAT
1 AAAGAT
14649291 GAATGATTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 29 0.85
35 5 0.15
ACGTcount: A:0.47, C:0.04, G:0.32, T:0.17
Consensus pattern (35 bp):
AAAGATCAAAGGAAGTTAAGGAAAATGGAACGTTA
Found at i:14660858 original size:15 final size:16
Alignment explanation
Indices: 14660815--14660859 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
14660805 ACTAAATTAG
14660815 TTAATTAAGTTTAAGTT
1 TTAATTAA-TTTAAGTT
14660832 TTAATTAA-TTAAG-T
1 TTAATTAATTTAAGTT
14660846 TTAATTAATTTAAG
1 TTAATTAATTTAAG
14660860 CATGATTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.33
15 10 0.37
17 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (16 bp):
TTAATTAATTTAAGTT
Found at i:14661496 original size:62 final size:62
Alignment explanation
Indices: 14661399--14661522 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
14661389 ATTTGAAAAA
14661399 TATATTTGAACTGGCACATGAATATAATAGGATTGTATAAGATGTTTGGAATTGATAAATTG
1 TATATTTGAACTGGCACATGAATATAATAGGATTGTATAAGATGTTTGGAATTGATAAATTG
14661461 TATATTTGAACTGGCACATGAATATAATAGGATTGTATAAGATGTTTGGAATTGATAAATTG
1 TATATTTGAACTGGCACATGAATATAATAGGATTGTATAAGATGTTTGGAATTGATAAATTG
14661523 AATTTAATTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (62 bp):
TATATTTGAACTGGCACATGAATATAATAGGATTGTATAAGATGTTTGGAATTGATAAATTG
Found at i:14662762 original size:17 final size:17
Alignment explanation
Indices: 14662740--14662773 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14662730 GGTCGTGTTG
14662740 TAGACCATGTGTCAGAT
1 TAGACCATGTGTCAGAT
14662757 TAGACCATGTGTCAGAT
1 TAGACCATGTGTCAGAT
14662774 CGTGTAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (17 bp):
TAGACCATGTGTCAGAT
Found at i:14663751 original size:45 final size:43
Alignment explanation
Indices: 14663622--14663919 Score: 240
Period size: 45 Copynumber: 6.7 Consensus size: 43
14663612 GGATGCTAGG
* * ***
14663622 GTATCTTTCAACCATGGTCTTATACGACTCCGAAAAGATGCCATA
1 GTATCTTTCAACTATGGTCTTATAC-A-TTCGATTTGATGCCATA
* * ** * *
14663667 ATATCTTTCAACTATAGTCTTA-ATTGTTCCTAATATGATGCCATA
1 GTATCTTTCAACTATGGTCTTATA-CATT-C-GATTTGATGCCATA
* *
14663712 GTGTCTTTCAACTAAGGTCTTATACATATCGAATTTGATGCCATA
1 GTATCTTTCAACTATGGTCTTATACAT-TCG-ATTTGATGCCATA
* * * * *
14663757 GTATCTTTCAACTACGGTCTTACACATTCTCAGGTTAATGCCATA
1 GTATCTTTCAACTATGGTCTTATACATTC-GA-TTTGATGCCATA
** * *
14663802 GTATCTTTCAACTATGGTCTTACTTA-AGCCGATGTAATGCCATA
1 GTATCTTTCAACTATGGTCTTA--TACATTCGATTTGATGCCATA
* *
14663846 GTATCTTTCAACTATGGTCTTGTATATTTCCGATTTGATGCCATA
1 GTATCTTTCAACTATGGTCTTATACA-TT-CGATTTGATGCCATA
*
14663891 GTATCTTTCAACTATGGTCTTATTCATTC
1 GTATCTTTCAACTATGGTCTTATACATTC
14663920 CAGCAAAGAT
Statistics
Matches: 202, Mismatches: 38, Indels: 28
0.75 0.14 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.01
44 38 0.19
45 154 0.76
46 4 0.02
47 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (43 bp):
GTATCTTTCAACTATGGTCTTATACATTCGATTTGATGCCATA
Found at i:14663887 original size:89 final size:89
Alignment explanation
Indices: 14663622--14663913 Score: 276
Period size: 90 Copynumber: 3.3 Consensus size: 89
14663612 GGATGCTAGG
* * * *
14663622 GTATCTTTCAACCATGGTCTTATACGACT-CCGAA--AAGATGCCATAATATCTTTCAACTATAG
1 GTATCTTTCAACTATGGTCTTATAC-A-TACCGAATGTA-ATGCCATAGTATCTTTCAACTATGG
* *
14663684 TCTTAAT-TGTTCCTAATATGATGCCATA
63 TCTTAATAT-TTCC-GATTTGATGCCATA
* * * * * *
14663712 GTGTCTTTCAACTAAGGTCTTATACATATCGAATTTGATGCCATAGTATCTTTCAACTACGGTCT
1 GTATCTTTCAACTATGGTCTTATACATACCGAATGTAATGCCATAGTATCTTTCAACTATGGTCT
* * * *
14663777 TACACATTCTCAG-GTTAATGCCATA
66 TA-ATATT-TCCGATTTGATGCCATA
*
14663802 GTATCTTTCAACTATGGTCTTACTTA-A-GCCG-ATGTAATGCCATAGTATCTTTCAACTATGGT
1 GTATCTTTCAACTATGGTCTTA--TACATACCGAATGTAATGCCATAGTATCTTTCAACTATGGT
*
14663864 CTTGTATATTTCCGATTTGATGCCATA
64 CTT-AATATTTCCGATTTGATGCCATA
14663891 GTATCTTTCAACTATGGTCTTAT
1 GTATCTTTCAACTATGGTCTTAT
14663914 TCATTCCAGC
Statistics
Matches: 165, Mismatches: 27, Indels: 23
0.77 0.13 0.11
Matches are distributed among these distances:
87 1 0.01
88 4 0.02
89 72 0.44
90 80 0.48
91 3 0.02
92 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (89 bp):
GTATCTTTCAACTATGGTCTTATACATACCGAATGTAATGCCATAGTATCTTTCAACTATGGTCT
TAATATTTCCGATTTGATGCCATA
Found at i:14663919 original size:134 final size:135
Alignment explanation
Indices: 14663659--14663912 Score: 350
Period size: 134 Copynumber: 1.9 Consensus size: 135
14663649 CTCCGAAAAG
*** * *
14663659 ATGCCATAATATCTTTCAACTATAGTCTTAATTGTTCCTAATATGATGCCATAGTGTCTTTCAAC
1 ATGCCATAATATCTTTCAACTATAGTCTTAATTAAGCCTAATATAATGCCATAGTATCTTTCAAC
14663724 TAAGGTCTTATACATATCGAATTTGATGCCATAGTATCTTTCAACTACGGTCTTACACATTCTCA
66 TAAGGTCTTATACATATCGAATTTGATGCCATAGTATCTTTCAACTACGGTCTTACACATTCTCA
14663789 GGTTA
131 GGTTA
* * * * *
14663794 ATGCCATAGTATCTTTCAACTATGGTCTTACTTAAGCC-GATGTAATGCCATAGTATCTTTCAAC
1 ATGCCATAATATCTTTCAACTATAGTCTTAATTAAGCCTAATATAATGCCATAGTATCTTTCAAC
* * * * *
14663858 TATGGTCTTGTATATTTCCG-ATTTGATGCCATAGTATCTTTCAACTATGGTCTTA
66 TAAGGTCTTATACATAT-CGAATTTGATGCCATAGTATCTTTCAACTACGGTCTTA
14663913 TTCATTCCAG
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
134 69 0.67
135 34 0.33
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (135 bp):
ATGCCATAATATCTTTCAACTATAGTCTTAATTAAGCCTAATATAATGCCATAGTATCTTTCAAC
TAAGGTCTTATACATATCGAATTTGATGCCATAGTATCTTTCAACTACGGTCTTACACATTCTCA
GGTTA
Found at i:14679159 original size:32 final size:34
Alignment explanation
Indices: 14679094--14679166 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 34
14679084 CATGAATACT
* *
14679094 ATATAAATATACTAACATGTCAATATTTTTATAA
1 ATATAAATATACTAACATGTAAATATTTATATAA
*
14679128 AT-TAAAT-TATTAACATGTAAA-ATATTATATAA
1 ATATAAATATACTAACATGTAAATAT-TTATATAA
14679160 ATATAAA
1 ATATAAA
14679167 ATAACTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 2 0.06
32 21 0.62
33 9 0.26
34 2 0.06
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (34 bp):
ATATAAATATACTAACATGTAAATATTTATATAA
Found at i:14682105 original size:39 final size:38
Alignment explanation
Indices: 14682031--14682106 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
14682021 GACTCAATTG
* *
14682031 ATAAAATAAATCAATAATTTAAATATCTCATTTTTTTA
1 ATAAAATAAATAAATAATTTAAATATATCATTTTTTTA
* *
14682069 ATAAAATAAATAAATTATTTCAAATATAATTATTTTTT
1 ATAAAATAAATAAATAATTT-AAATAT-ATCATTTTTT
14682107 GCATTAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 18 0.56
39 6 0.19
40 8 0.25
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (38 bp):
ATAAAATAAATAAATAATTTAAATATATCATTTTTTTA
Found at i:14683646 original size:30 final size:30
Alignment explanation
Indices: 14683606--14683789 Score: 257
Period size: 30 Copynumber: 6.2 Consensus size: 30
14683596 ACATTAAAAT
14683606 AGGGTCAAATTTGAATTTTTA-AAAACTTTG
1 AGGGTCAAATTTGAATTTTTAGAAAA-TTTG
* * *
14683636 GGGGTTAAATTTGAATTTTTGGAAAATTTG
1 AGGGTCAAATTTGAATTTTTAGAAAATTTG
* * *
14683666 GGGGTCAATTTTGAATTTTTGGAAAATTT-
1 AGGGTCAAATTTGAATTTTTAGAAAATTTG
14683695 AGGGGTCAAATTTGAATTTTTAGAAAATTT-
1 A-GGGTCAAATTTGAATTTTTAGAAAATTTG
*
14683725 AGGGTTAAATTTGAATTTTTAGAAAATTTG
1 AGGGTCAAATTTGAATTTTTAGAAAATTTG
*
14683755 AGGGTCAAAGTTGAATTTTTAGAAAATTTG
1 AGGGTCAAATTTGAATTTTTAGAAAATTTG
14683785 AGGGT
1 AGGGT
14683790 TAAAAAAAAT
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
29 27 0.19
30 109 0.78
31 4 0.03
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.41
Consensus pattern (30 bp):
AGGGTCAAATTTGAATTTTTAGAAAATTTG
Found at i:14684137 original size:26 final size:28
Alignment explanation
Indices: 14684089--14684147 Score: 95
Period size: 26 Copynumber: 2.2 Consensus size: 28
14684079 TATTTGATTA
*
14684089 TTTCCATTAAAAAAGACATAACTCATTC
1 TTTCCATTAAAAAAGACAAAACTCATTC
14684117 TTTCCATT-AAAAA-ACAAAACTCATTC
1 TTTCCATTAAAAAAGACAAAACTCATTC
14684143 TTTCC
1 TTTCC
14684148 TTCTTCAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 17 0.57
27 5 0.17
28 8 0.27
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.34
Consensus pattern (28 bp):
TTTCCATTAAAAAAGACAAAACTCATTC
Found at i:14696103 original size:21 final size:21
Alignment explanation
Indices: 14696061--14696104 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14696051 CTGAAAGTTT
* *
14696061 TACCGATACAACTCTGGGTTC
1 TACCGATACAACTCCGGCTTC
14696082 TACCGATACAAC-CCGGACTTC
1 TACCGATACAACTCCGG-CTTC
14696103 TA
1 TA
14696105 TTGGTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (21 bp):
TACCGATACAACTCCGGCTTC
Found at i:14699374 original size:21 final size:21
Alignment explanation
Indices: 14699350--14699402 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
14699340 AGAGGAGCCT
14699350 TGTCTCGAGACATGCATATTG
1 TGTCTCGAGACATGCATATTG
* *
14699371 TGTCTCTAGACATGCATATTT
1 TGTCTCGAGACATGCATATTG
14699392 TGTCTCGAGAC
1 TGTCTCGAGAC
14699403 CTCAAGCTCC
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:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (21 bp):
TGTCTCGAGACATGCATATTG
Found at i:14701491 original size:31 final size:32
Alignment explanation
Indices: 14701453--14701512 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
14701443 AATTTTTGAA
*
14701453 TATTGAAA-TTTTAAT-GTTTAAGTTTGTTTAC
1 TATTGAAAGTTTT-ATGGTTTAACTTTGTTTAC
14701484 TATTGAAAGTTTTATGGTTTAACTTTGTT
1 TATTGAAAGTTTTATGGTTTAACTTTGTT
14701513 GGATTGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (32 bp):
TATTGAAAGTTTTATGGTTTAACTTTGTTTAC
Found at i:14717578 original size:15 final size:14
Alignment explanation
Indices: 14717555--14717615 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 14
14717545 TGTGAAAGTT
14717555 TTTTAAAAATAAAA
1 TTTTAAAAATAAAA
14717569 TTTTATAAAATAAAA
1 TTTTA-AAAATAAAA
*
14717584 TCTTAAAAATAATTAA
1 TTTTAAAAATAA--AA
*
14717600 TTTTAATAATCAAAA
1 TTTTAAAAAT-AAAA
14717615 T
1 T
14717616 AAATAGAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 12 0.30
15 16 0.40
16 10 0.25
17 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
TTTTAAAAATAAAA
Found at i:14723334 original size:82 final size:82
Alignment explanation
Indices: 14723019--14723337 Score: 324
Period size: 83 Copynumber: 3.8 Consensus size: 82
14723009 CAGAATTTAA
*
14723019 TTAATTCTTGTTTGGAAACAAAATCAAAATCA-AATCACATCAAATCTGTTGAACGAC-AGGAAT
1 TTAATTCTTGTTTGGAAACAAAATCAAAAT-AGAAT---A--AAATCTGTTAAACGACGA-GAAT
* * *
14723082 AAATCCCGAAACAAAATTATTTAATT
59 AAATCCCGAAACAAGATTA-TTCA-C
* * * * * * **
14723108 TTAATTATTGTTTGGAAACTAAATCAAAATAGAATAAAATCTGTTAAATGGCGGGGATAAATTTC
1 TTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAGAATAAATCCC
*
14723173 GAGAC-AGATTTATTCAAC
66 GAAACAAGA-TTATTC-AC
* *
14723191 TT-ATTCTTCTTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACG-GTACTAAATC
1 TTAATTCTT-GTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAG-AATAAATC
14723254 CCGAAACAAGATTATTCAC
64 CCGAAACAAGATTATTCAC
* * *
14723273 TTAATTCTTGTTTGGAAACAAAATTAAAATAGAATAAAATCTGTTGAACAACGAGAATAAATCCC
1 TTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAGAATAAATCCC
14723338 AAAATAAATT
Statistics
Matches: 193, Mismatches: 28, Indels: 25
0.78 0.11 0.10
Matches are distributed among these distances:
82 59 0.31
83 69 0.36
84 32 0.17
86 1 0.01
88 1 0.01
89 31 0.16
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.30
Consensus pattern (82 bp):
TTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAGAATAAATCCC
GAAACAAGATTATTCAC
Found at i:14723351 original size:82 final size:82
Alignment explanation
Indices: 14723019--14723353 Score: 329
Period size: 82 Copynumber: 4.0 Consensus size: 82
14723009 CAGAATTTAA
*
14723019 TTAATTCTTGTTTGGAAACAAAATCAAAATCA-AATCACATCAAATCTGTTGAACGAC-AGGAAT
1 TTAATTCTTGTTTGGAAACAAAATCAAAAT-AGAAT---A--AAATCTGTTAAACGACGA-GAAT
* * *
14723082 AAATCCCGAAACAAAATTATTTAATT
59 AAATCCCGAAACAAATTTA-TTCA-C
* * * * * * **
14723108 TTAATTATTGTTTGGAAACTAAATCAAAATAGAATAAAATCTGTTAAATGGCGGGGATAAATTTC
1 TTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAGAATAAATCCC
* *
14723173 GAGACAGATTTATTCAAC
66 GAAACAAATTTATTC-AC
* *
14723191 TT-ATTCTTCTTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACG-GTACTAAATC
1 TTAATTCTT-GTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAG-AATAAATC
14723254 CCGAAACAAGA-TTATTCAC
64 CCGAAACAA-ATTTATTCAC
* * *
14723273 TTAATTCTTGTTTGGAAACAAAATTAAAATAGAATAAAATCTGTTGAACAACGAGAATAAATCCC
1 TTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAGAATAAATCCC
* *
14723338 AAAATAAATTTATTCA
66 GAAACAAATTTATTCA
14723354 ATTTTAATTT
Statistics
Matches: 205, Mismatches: 32, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
81 1 0.00
82 71 0.35
83 68 0.33
84 32 0.16
86 1 0.00
88 1 0.00
89 31 0.15
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.30
Consensus pattern (82 bp):
TTAATTCTTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAGAATAAATCCC
GAAACAAATTTATTCAC
Found at i:14723351 original size:165 final size:169
Alignment explanation
Indices: 14723029--14723354 Score: 385
Period size: 165 Copynumber: 1.9 Consensus size: 169
14723019 TTAATTCTTG
*
14723029 TTTGGAAACAAAATCAAAATCAAATCACATCAAATCTGTTGAACGACAGGAATAAATCCCGAAAC
1 TTTGGAAACAAAATCAAAATCAAAT--CA-CAAATCTGTTAAACGACAGGAATAAATCCCGAAAC
* * ***
14723094 AAAATTATTTAATTTTAATTATTGTTTGGAAACTAAATCAAAATAGAATAAAATCTGTTAAATGG
63 AAAATTATTTAATCTTAATTATTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACAA
* * ** * * *
14723159 CGGGGATAAATTTCGAGACAGATTTATTCAACTTATTCTTCT
128 CGAGAATAAATCCCAAAACAAATTTATTCAACTTATTCTTCT
*
14723201 TTTGGAAACAAAATCAAAAT-AGAAT-A-AAATCTGTTAAACGAC-GGTACTAAATCCCGAAACA
1 TTTGGAAACAAAATCAAAATCA-AATCACAAATCTGTTAAACGACAGG-AATAAATCCCGAAACA
* * * * *
14723262 AGATTA-TTCA-CTTAATTCTTGTTTGGAAACAAAATTAAAATAGAATAAAATCTGTTGAACAAC
64 AAATTATTTAATCTTAATTATTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACAAC
*
14723325 GAGAATAAATCCCAAAATAAATTTATTCAA
129 GAGAATAAATCCCAAAACAAATTTATTCAA
14723355 TTTTAATTTT
Statistics
Matches: 132, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
165 67 0.51
166 5 0.04
167 35 0.27
169 1 0.01
171 1 0.01
172 23 0.17
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (169 bp):
TTTGGAAACAAAATCAAAATCAAATCACAAATCTGTTAAACGACAGGAATAAATCCCGAAACAAA
ATTATTTAATCTTAATTATTGTTTGGAAACAAAATCAAAATAGAATAAAATCTGTTAAACAACGA
GAATAAATCCCAAAACAAATTTATTCAACTTATTCTTCT
Found at i:14724048 original size:31 final size:31
Alignment explanation
Indices: 14724008--14724068 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
14723998 TGGAGACTTT
*
14724008 AAATCAATTTGAATAAAATCAAATCAAAATG
1 AAATCAATTTGAATAAAATAAAATCAAAATG
* * **
14724039 AAATTAATTTGATTGGAATAAAATCAAAAT
1 AAATCAATTTGAATAAAATAAAATCAAAAT
14724069 AAGATATTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.30
Consensus pattern (31 bp):
AAATCAATTTGAATAAAATAAAATCAAAATG
Found at i:14724986 original size:18 final size:17
Alignment explanation
Indices: 14724956--14724990 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14724946 GGTAAAATAA
14724956 AATTAATTCGGTTAATC
1 AATTAATTCGGTTAATC
*
14724973 AATTGAATTTGGTTAATC
1 AATT-AATTCGGTTAATC
14724991 GGTCGGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (17 bp):
AATTAATTCGGTTAATC
Found at i:14730648 original size:15 final size:15
Alignment explanation
Indices: 14730624--14730654 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14730614 ATCACTCCCA
14730624 TGATCCTCGCCCCCT
1 TGATCCTCGCCCCCT
*
14730639 TGATCTTCGCCCCCT
1 TGATCCTCGCCCCCT
14730654 T
1 T
14730655 CTACTCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.48, G:0.13, T:0.32
Consensus pattern (15 bp):
TGATCCTCGCCCCCT
Found at i:14731655 original size:20 final size:20
Alignment explanation
Indices: 14731630--14731670 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14731620 AAATCTATTT
14731630 ATGAGTCGGGTTATTCATCC
1 ATGAGTCGGGTTATTCATCC
14731650 ATGAGTCGGGTTATTCATCC
1 ATGAGTCGGGTTATTCATCC
14731670 A
1 A
14731671 GATTCCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (20 bp):
ATGAGTCGGGTTATTCATCC
Found at i:14732703 original size:16 final size:16
Alignment explanation
Indices: 14732676--14732709 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
14732666 TAAAATTACA
14732676 TTAAAAATTTAAAATTT
1 TTAAAAATTT-AAATTT
14732693 TTAAAAA-TTAAATTT
1 TTAAAAATTTAAATTT
14732708 TT
1 TT
14732710 CATAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAAATTTAAATTT
Found at i:14732780 original size:21 final size:19
Alignment explanation
Indices: 14732752--14732803 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
14732742 ATAATTTCGC
*
14732752 TTAAAAATAAAAAATATTTT
1 TTAAAAATAAAAAATA-TAT
14732772 TTAAAAAATATAAAAATATAT
1 TT-AAAAATA-AAAAATATAT
14732793 TTAAAAATAAA
1 TTAAAAATAAA
14732804 CTCTTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 11 0.38
22 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAAAAATAAAAAATATAT
Found at i:14733907 original size:17 final size:18
Alignment explanation
Indices: 14733862--14733909 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
14733852 TTCTGTGTTG
14733862 TTATTGTTTTGTAACTTT
1 TTATTGTTTTGTAACTTT
* *
14733880 TTATCGATTTGTAA-TTT
1 TTATTGTTTTGTAACTTT
14733897 TTATTGTTTTGTA
1 TTATTGTTTTGTA
14733910 TTATATTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.65
Consensus pattern (18 bp):
TTATTGTTTTGTAACTTT
Found at i:14734521 original size:33 final size:34
Alignment explanation
Indices: 14734367--14734540 Score: 155
Period size: 33 Copynumber: 5.3 Consensus size: 34
14734357 TTGACTGTTA
* *
14734367 GGGAGGGTGATG-ATGAAGGGGTAGAA-TTTGATG
1 GGGAGGGTGATGTAGGAAGGGGTAGAAGCTT-ATG
* * *
14734400 GGGAGGGTGATG-ATGAAGGGGTAGAATCTGATG
1 GGGAGGGTGATGTAGGAAGGGGTAGAAGCTTATG
* * * * * *
14734433 GTGAAGGTGAT-TTGGAAAGGCTAGAAG-TTGTTG
1 GGGAGGGTGATGTAGGAAGGGGTAGAAGCTT-ATG
*
14734466 GGGAGGGTGATTTA-GAAGGGGTAGAAGCTTATG
1 GGGAGGGTGATGTAGGAAGGGGTAGAAGCTTATG
* *
14734499 GGGAGGGTGATGTAGGAA-GGGTACAAGCTAATG
1 GGGAGGGTGATGTAGGAAGGGGTAGAAGCTTATG
14734532 GGGAGGGTG
1 GGGAGGGTG
14734541 TGTCTACTAC
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
32 1 0.01
33 107 0.93
34 7 0.06
ACGTcount: A:0.27, C:0.03, G:0.47, T:0.23
Consensus pattern (34 bp):
GGGAGGGTGATGTAGGAAGGGGTAGAAGCTTATG
Found at i:14743334 original size:6 final size:7
Alignment explanation
Indices: 14743318--14743344 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14743308 TGAGAGAATG
14743318 AAAAATA
1 AAAAATA
14743325 AAAAATA
1 AAAAATA
14743332 AAAAATA
1 AAAAATA
14743339 AAAAAT
1 AAAAAT
14743345 TTAAATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:14744870 original size:75 final size:77
Alignment explanation
Indices: 14744791--14744949 Score: 188
Period size: 75 Copynumber: 2.1 Consensus size: 77
14744781 TCGTTTTTTT
*
14744791 TTTGTTTATC-TAAAATTTAAATTT-AAAAGAAATATATTATTTTATTA-GT-GAAGCCAC-TAA
1 TTTGTTTATCATAAAATTTAAATTTAAAAAAAAATATATTATTTTA-TAGGTGGAA-CC-CTTAA
14744851 ATATGGCGCCACCAC
63 ATATGGCGCCACCAC
* * **
14744866 TTTG--TATCATATACTTTATTTTTAAAAAAAAATATATTATTTTATAGGTGGAACCCTTAAATA
1 TTTGTTTATCATAAAATTTAAATTTAAAAAAAAATATATTATTTTATAGGTGGAACCCTTAAATA
14744929 TGGCGCCACCAC
66 TGGCGCCACCAC
14744941 TTTGCTTTA
1 TTTG-TTTA
14744950 ATTTTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
73 4 0.06
74 13 0.18
75 49 0.69
76 3 0.04
78 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (77 bp):
TTTGTTTATCATAAAATTTAAATTTAAAAAAAAATATATTATTTTATAGGTGGAACCCTTAAATA
TGGCGCCACCAC
Found at i:14746814 original size:84 final size:84
Alignment explanation
Indices: 14746673--14746840 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
14746663 CCAACATTAT
14746673 ATAGCACTATGGAACGCCCGATACAACAGGCAGGTTGAGATGCACTCCTGTATGAATGACTTTAG
1 ATAGCACTATGGAACGCCCGATACAACAGGCAGGTTGAGATGCACTCCTGTATGAATGACTTTAG
*
14746738 TCCCTCGACTAAATACATG
66 CCCCTCGACTAAATACATG
*
14746757 ATAGCACTATGGAACGCCCGATACAACAGGTAGGTTGAGATGCACTCCTGTATGAATGACTTTAG
1 ATAGCACTATGGAACGCCCGATACAACAGGCAGGTTGAGATGCACTCCTGTATGAATGACTTTAG
*
14746822 CCCCTCGACTACATACATG
66 CCCCTCGACTAAATACATG
14746841 TAGTGTGGTA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (84 bp):
ATAGCACTATGGAACGCCCGATACAACAGGCAGGTTGAGATGCACTCCTGTATGAATGACTTTAG
CCCCTCGACTAAATACATG
Found at i:14752110 original size:25 final size:24
Alignment explanation
Indices: 14752082--14752137 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
14752072 AAGCTTATGA
* *
14752082 AAAAAAATAGAACTCTTT-AAAGTAT
1 AAAAAAATA-AA-TATTTAAAAATAT
14752107 AAAAATAATAAATATTTAAAAATAT
1 AAAAA-AATAAATATTTAAAAATAT
14752132 AAAAAA
1 AAAAAA
14752138 TTTCAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 18 0.67
26 4 0.15
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAAAATAAATATTTAAAAATAT
Found at i:14752948 original size:26 final size:24
Alignment explanation
Indices: 14752901--14752967 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
14752891 AATTTTATCA
*
14752901 AAAATATATT-TTTATTATATAATT
1 AAAATA-ATTATTTATTATATAAAT
*
14752925 AGAAATAATTATTTGATTTTATAAAT
1 A-AAATAATTATTT-ATTATATAAAT
* *
14752951 AAAAGAATTATTAATTA
1 AAAATAATTATTTATTA
14752968 AAAAGATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 7 0.20
25 18 0.51
26 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
AAAATAATTATTTATTATATAAAT
Found at i:14753001 original size:49 final size:49
Alignment explanation
Indices: 14752947--14753040 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
14752937 TTGATTTTAT
*
14752947 AAATAAAAGAATTATTAATTAAAAAGATGAATTAAAAATAAAAAATTGA
1 AAATAAAAGAATTATTAATTAAAAACATGAATTAAAAATAAAAAATTGA
* * * *
14752996 AAATAATATATTTATTAATTAAAAACATTAATTAAAAATAAAAAA
1 AAATAAAAGAATTATTAATTAAAAACATGAATTAAAAATAAAAAA
14753041 ACTTAGAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (49 bp):
AAATAAAAGAATTATTAATTAAAAACATGAATTAAAAATAAAAAATTGA
Found at i:14753027 original size:13 final size:13
Alignment explanation
Indices: 14753009--14753033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14752999 TAATATATTT
14753009 ATTAATTAAAAAC
1 ATTAATTAAAAAC
14753022 ATTAATTAAAAA
1 ATTAATTAAAAA
14753034 TAAAAAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:14755168 original size:27 final size:27
Alignment explanation
Indices: 14755120--14755178 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
14755110 TATTAATTAG
* *
14755120 ATTT-AAATCTGTCAGTATTATTTTGAA
1 ATTTAAAATCTGCCACTATTATTTT-AA
14755147 ATTTAAAATCTGCCACTA-TATTTTAA
1 ATTTAAAATCTGCCACTATTATTTTAA
*
14755173 TTTTAA
1 ATTTAA
14755179 TTTTATGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.25
27 10 0.36
28 11 0.39
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (27 bp):
ATTTAAAATCTGCCACTATTATTTTAA
Found at i:14763400 original size:16 final size:17
Alignment explanation
Indices: 14763373--14763406 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14763363 CTTTAAAGCA
*
14763373 TAAAAATAATAAATATT
1 TAAAAATAATAAAAATT
14763390 TAAAAAT-ATAAAAATT
1 TAAAAATAATAAAAATT
14763406 T
1 T
14763407 TTAGAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAATAATAAAAATT
Found at i:14763978 original size:103 final size:103
Alignment explanation
Indices: 14763794--14764003 Score: 375
Period size: 103 Copynumber: 2.0 Consensus size: 103
14763784 CCCAATGTTA
*
14763794 CTTACAGGATGATTAAGCCTTTCACTACAACTGGTTGGTTGGTGAAGCTATAGACGGGCTAGCTT
1 CTTACAGGATGATCAAGCCTTTCACTACAACTGGTTGGTTGGTGAAGCTATAGACGGGCTAGCTT
14763859 TTTTTAGGCTGATCTTTAAGACCCATCTAGCAAAAAAC
66 TTTTTAGGCTGATCTTTAAGACCCATCTAGCAAAAAAC
* * *
14763897 CTTATAGGATGATCAAGCCTTTCATTACAACTGGTTGGTTGGTGAAGCTGTAGACGGGCTAGCTT
1 CTTACAGGATGATCAAGCCTTTCACTACAACTGGTTGGTTGGTGAAGCTATAGACGGGCTAGCTT
*
14763962 TTTTTAGGTTGATCTTTAAGACCCATCTAGCAAAAAAC
66 TTTTTAGGCTGATCTTTAAGACCCATCTAGCAAAAAAC
14764000 CTTA
1 CTTA
14764004 GTCTTGAGAA
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (103 bp):
CTTACAGGATGATCAAGCCTTTCACTACAACTGGTTGGTTGGTGAAGCTATAGACGGGCTAGCTT
TTTTTAGGCTGATCTTTAAGACCCATCTAGCAAAAAAC
Found at i:14765459 original size:11 final size:11
Alignment explanation
Indices: 14765443--14765470 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
14765433 AATATCAGTT
14765443 GAATTGATTTC
1 GAATTGATTTC
14765454 GAATTGATTTC
1 GAATTGATTTC
14765465 GAATTG
1 GAATTG
14765471 GTTTGATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (11 bp):
GAATTGATTTC
Found at i:14773449 original size:20 final size:20
Alignment explanation
Indices: 14773411--14773448 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14773401 AAAAATTATA
*
14773411 ATTTTTAAAATAATAAAAAC
1 ATTTTAAAAATAATAAAAAC
14773431 ATTTTAAAAAT-ATAAAAA
1 ATTTTAAAAATAATAAAAA
14773449 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTTTAAAAATAATAAAAAC
Found at i:14776988 original size:7 final size:7
Alignment explanation
Indices: 14776976--14777003 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14776966 ATAAATTATT
14776976 AAAAATA
1 AAAAATA
14776983 AAAAATA
1 AAAAATA
14776990 AAAAATA
1 AAAAATA
14776997 AAAAATA
1 AAAAATA
14777004 GGAAACTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:14782924 original size:157 final size:158
Alignment explanation
Indices: 14782621--14782947 Score: 426
Period size: 157 Copynumber: 2.1 Consensus size: 158
14782611 ATTTCGAGAT
* *
14782621 TTACATGATACATGGACGCTGGTCTTAGATCTCTTACCGATGGCTGAGATCTGGCATATGTTGCA
1 TTACATGATACATGGACGCTGGTCTTAGATCTCCTACCGATGGCTGAGATCTGGCATAAGTTGCA
* * * * *
14782686 GATTCTCCACAGCTCGTGTGAGTAGCATCATTTAGCTTAACATCTTGAACCACAACTCGTGTAAG
66 GATTCACCACAGCTCGTGTGAGCAACATCATGTAGCTTAACATCTCGAACCACAACTCGTGTAAG
**
14782751 CAAGCCCACTTTACAGCTTGTGTGAGCA
131 CAAGCCCACTTTACAGCTCATGTGAGCA
* ** * *
14782779 TTACATGATATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGA-ATCTGGCATAAGTTGCG
1 TTACATGATACATGGACGCTGGTCTTAGATCTCCTACCGATGGCTGAGATCTGGCATAAGTTGCA
* * * * *
14782843 GATTCACCACAGCTCGTGTGAGCAACATCGTGTAGCTTAATATCTCGACCCACAACTTGTGTGAG
66 GATTCACCACAGCTCGTGTGAGCAACATCATGTAGCTTAACATCTCGAACCACAACTCGTGTAAG
14782908 C-AGACCCA-TTTCACAGCTCATGTGAGCA
131 CAAG-CCCACTTT-ACAGCTCATGTGAGCA
**
14782936 CCACATGATACA
1 TTACATGATACA
14782948 AAGATGTTAC
Statistics
Matches: 145, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
156 5 0.03
157 98 0.68
158 42 0.29
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (158 bp):
TTACATGATACATGGACGCTGGTCTTAGATCTCCTACCGATGGCTGAGATCTGGCATAAGTTGCA
GATTCACCACAGCTCGTGTGAGCAACATCATGTAGCTTAACATCTCGAACCACAACTCGTGTAAG
CAAGCCCACTTTACAGCTCATGTGAGCA
Found at i:14787655 original size:24 final size:24
Alignment explanation
Indices: 14787569--14787643 Score: 132
Period size: 24 Copynumber: 3.1 Consensus size: 24
14787559 AGAAATAATC
* *
14787569 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
14787593 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
14787617 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
14787641 TTT
1 TTT
14787644 GAGTCAAACT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:14789365 original size:24 final size:24
Alignment explanation
Indices: 14789337--14789399 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
14789327 AGAAATAATC
*
14789337 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAGTTAAACTCTGTTTAATTA
* * *
14789361 TTTCAATTAAACTATGTTTATTTA
1 TTTCAGTTAAACTCTGTTTAATTA
* *
14789385 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
14789400 TATTAGTCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.49
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTAATTA
Found at i:14789832 original size:44 final size:46
Alignment explanation
Indices: 14789744--14789838 Score: 133
Period size: 44 Copynumber: 2.1 Consensus size: 46
14789734 GGTTCGCTAT
* *
14789744 AATGGAATAGAGCTGTAATCAGTAATTCAGTTGTTTGGTTGAATGG
1 AATGAAATAGAGCTGTAATCAGTAATTCAGTTGTTTGGTTGAATGA
*
14789790 AATGAAATAGAGCTGTAAT-AGT-ATTC-TTGTGTTTGGTTGAATGA
1 AATGAAATAGAGCTGTAATCAGTAATTCAGT-TGTTTGGTTGAATGA
14789834 AATGA
1 AATGA
14789839 TACTATAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 3 0.07
46 18 0.40
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (46 bp):
AATGAAATAGAGCTGTAATCAGTAATTCAGTTGTTTGGTTGAATGA
Found at i:14789997 original size:58 final size:59
Alignment explanation
Indices: 14789935--14790085 Score: 200
Period size: 58 Copynumber: 2.6 Consensus size: 59
14789925 ATTTAATAAG
* *
14789935 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
* * *
14789993 ATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAACATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
* *
14790051 ATTATTATTAAAATATGAA-TTAGTAAAAATCATAA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATAA
14790086 TATATAATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
57 21 0.26
58 40 0.50
59 9 0.11
60 10 0.12
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
Found at i:14794143 original size:2 final size:2
Alignment explanation
Indices: 14794136--14794211 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
14794126 TTAATACTCT
14794136 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14794178 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14794212 TATAGATATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14803757 original size:21 final size:23
Alignment explanation
Indices: 14803718--14803762 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
14803708 TTTATAGGAT
14803718 TTTAGAAGAGGCAAAAATG-TAA
1 TTTAGAAGAGGCAAAAATGATAA
*
14803740 TTTAGCAGAGGC-AAAATGATAA
1 TTTAGAAGAGGCAAAAATGATAA
14803762 T
1 T
14803763 ATTTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (23 bp):
TTTAGAAGAGGCAAAAATGATAA
Found at i:14804867 original size:21 final size:21
Alignment explanation
Indices: 14804842--14804884 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
14804832 TAATTATATT
14804842 ATAAC-ATGATTTTAATTTAAC
1 ATAACAAT-ATTTTAATTTAAC
*
14804863 ATAACTAATTTTTTAATTTAAC
1 ATAAC-AATATTTTAATTTAAC
14804885 TCGAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (21 bp):
ATAACAATATTTTAATTTAAC
Found at i:14807922 original size:10 final size:8
Alignment explanation
Indices: 14807895--14807929 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
14807885 AAAACACATC
14807895 ATATTGAT
1 ATATTGAT
14807903 ATATTGAT
1 ATATTGAT
14807911 ATATTGAT
1 ATATTGAT
14807919 ATATTGAT
1 ATATTGAT
14807927 ATA
1 ATA
14807930 AAGAGTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (8 bp):
ATATTGAT
Found at i:14812810 original size:5 final size:5
Alignment explanation
Indices: 14812797--14812831 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
14812787 ATAAAAACAA
*
14812797 TAAAG TAAAT TAAAG TAAAG TAAAG TAAAG TAAAG
1 TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG
14812832 AGAAATGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (5 bp):
TAAAG
Found at i:14814713 original size:24 final size:24
Alignment explanation
Indices: 14814671--14814731 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
14814661 ACTCATGAAT
* *
14814671 TTTTCTTCTTTTGTTTCTTCTCATCTC
1 TTTTC-TCTTTTG-ATCTTCTCA-CTA
*
14814698 TTTTCT-TTTTGATCTTTTCACTA
1 TTTTCTCTTTTGATCTTCTCACTA
14814721 TTTTCTCTTTT
1 TTTTCTCTTTT
14814732 TGGCTATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 8 0.27
24 11 0.37
25 5 0.17
26 1 0.03
27 5 0.17
ACGTcount: A:0.07, C:0.21, G:0.03, T:0.69
Consensus pattern (24 bp):
TTTTCTCTTTTGATCTTCTCACTA
Found at i:14823856 original size:24 final size:24
Alignment explanation
Indices: 14823666--14823847 Score: 265
Period size: 24 Copynumber: 7.6 Consensus size: 24
14823656 ACTGGTTAAC
*
14823666 CATTTTGGGCTCGTAAGAGCTAAT
1 CATTCTGGGCTCGTAAGAGCTAAT
* * *
14823690 TATTCTAGGCTCGTAAGAGCTAAC
1 CATTCTGGGCTCGTAAGAGCTAAT
* *
14823714 CATTATGGGCTCGTAAGAGCTAAC
1 CATTCTGGGCTCGTAAGAGCTAAT
*
14823738 CATTATGGGCTCGTAAGAGCTAAT
1 CATTCTGGGCTCGTAAGAGCTAAT
14823762 CATTCTGGGCTCGTAAGAGCTAAT
1 CATTCTGGGCTCGTAAGAGCTAAT
*
14823786 CATTCTGGGCTCGTAAGAGCTAAA
1 CATTCTGGGCTCGTAAGAGCTAAT
* *
14823810 CATTCTAGGCTCGTAGGAGCTAAT
1 CATTCTGGGCTCGTAAGAGCTAAT
*
14823834 CATTTTGGGCTCGT
1 CATTCTGGGCTCGT
14823848 GTGGGCTAAA
Statistics
Matches: 143, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 143 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (24 bp):
CATTCTGGGCTCGTAAGAGCTAAT
Found at i:14826596 original size:22 final size:19
Alignment explanation
Indices: 14826567--14826606 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 19
14826557 TTTTATGTGG
14826567 AATTTTGAATTGAAAGATTTT
1 AATTTTGAATT-AAA-ATTTT
14826588 AATTATTGAATTAAAATTT
1 AATT-TTGAATTAAAATTT
14826607 AGTATAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (19 bp):
AATTTTGAATTAAAATTTT
Found at i:14827819 original size:24 final size:24
Alignment explanation
Indices: 14827701--14827810 Score: 184
Period size: 24 Copynumber: 4.6 Consensus size: 24
14827691 ACTGGTTAAC
* *
14827701 CATTTTGGGCTCGTAAGAGCTAAC
1 CATTCTGGGCTCGTAAGAGCTAAT
14827725 CATTCTGGGCTCGTAAGAGCTAAT
1 CATTCTGGGCTCGTAAGAGCTAAT
*
14827749 CATTCTGGGCTCGTAAGAGCTAAA
1 CATTCTGGGCTCGTAAGAGCTAAT
14827773 CATTCTGGGCTCGTAAGAGCTAAT
1 CATTCTGGGCTCGTAAGAGCTAAT
*
14827797 CATTTTGGGCTCGT
1 CATTCTGGGCTCGT
14827811 GTGGGCTAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 81 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (24 bp):
CATTCTGGGCTCGTAAGAGCTAAT
Found at i:14833532 original size:23 final size:22
Alignment explanation
Indices: 14833482--14833524 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14833472 AATGAAAATC
*
14833482 TAAATTTAAATTATTTAAATAA
1 TAAATTTAAATTATTCAAATAA
*
14833504 TAAATTTGAATTAATTCAAAT
1 TAAATTTAAATT-ATTCAAAT
14833525 TATGAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAATTTAAATTATTCAAATAA
Found at i:14842661 original size:29 final size:29
Alignment explanation
Indices: 14842628--14842688 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
14842618 ATAGAAATAA
* * *
14842628 TACAGATACAGTCATGTCATAGATACAGT
1 TACAGATACAGGCATGTCACAAATACAGT
* *
14842657 TACAGGTATAGGCATGTCACAAATACAGT
1 TACAGATACAGGCATGTCACAAATACAGT
14842686 TAC
1 TAC
14842689 GAATGCAGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (29 bp):
TACAGATACAGGCATGTCACAAATACAGT
Found at i:14842883 original size:40 final size:40
Alignment explanation
Indices: 14842821--14842915 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
14842811 CACATAGCAA
* * * *
14842821 TGTTTACAGTGTCACTGCCAGTTTAGTTGTATTCTTGCAG
1 TGTTTACAGTGTCACAGCCAGTTTAGCTGAAATCTTGCAG
* *
14842861 TGTTTGCAGTGTCACAGTCAGTTTAGCTGAAATCTTGCAG
1 TGTTTACAGTGTCACAGCCAGTTTAGCTGAAATCTTGCAG
*
14842901 TGTTAACAGTGTCAC
1 TGTTTACAGTGTCAC
14842916 TGCTAATTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (40 bp):
TGTTTACAGTGTCACAGCCAGTTTAGCTGAAATCTTGCAG
Found at i:14843371 original size:41 final size:41
Alignment explanation
Indices: 14843326--14843416 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
14843316 TTATTACAGA
* *
14843326 CCATGTGTCTCAAAACAATATGCACACACCTTGACACACGC
1 CCATGTGTCCCAAAACAATATACACACACCTTGACACACGC
* * *
14843367 CCATGTGCCCCAGAACAGTATACACACACCTTGACACACGC
1 CCATGTGTCCCAAAACAATATACACACACCTTGACACACGC
14843408 CCATGTGTC
1 CCATGTGTC
14843417 AGCCCGTGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.19
Consensus pattern (41 bp):
CCATGTGTCCCAAAACAATATACACACACCTTGACACACGC
Found at i:14843486 original size:41 final size:41
Alignment explanation
Indices: 14843418--14843810 Score: 299
Period size: 43 Copynumber: 9.3 Consensus size: 41
14843408 CCATGTGTCA
*
14843418 GCCCGTGTGCC-CCAAA-A-TAGTATACACACCCTGACACAC
1 GCCCGTGTGCCTCCAAACAGTA-TACACACACCCTGACACAC
** * *
14843457 GCTTGTATGCCTCCAAACAGTATACACACACACCTTAACACAC
1 GCCCGTGTGCCTCCAAACAGTATACACACAC-CC-TGACACAC
* * * * *
14843500 ACCCATGTGCCTTCAAACAATATACACATACCCTGACACAC
1 GCCCGTGTGCCTCCAAACAGTATACACACACCCTGACACAC
** *
14843541 GCTTGTGTGTCTCCAAACAGTAT------A--C--ACACAC
1 GCCCGTGTGCCTCCAAACAGTATACACACACCCTGACACAC
* *
14843572 GCCCGTGTACCTCCAAACAGTGTACACACACCCTGACACAC
1 GCCCGTGTGCCTCCAAACAGTATACACACACCCTGACACAC
* *
14843613 GCCCGTGTACCTCCAAACAATATACACACACACACCTTGACACAC
1 GCCCGTGTGCCTCCAAACAGTAT--ACACACAC-CC-TGACACAC
*
14843658 GCCCGTGTGCCTCCAAATAGTATACACACACCCTGACACACGTCC
1 GCCCGTGTGCCTCCAAACAGTATACACACACCCTGACACA----C
14843703 ATGTGGCAGCTCGTGTGCCTCCAAACAGTATACACACACACCCTGACACAC
1 -----GC--C-CGTGTGCCTCCAAACAGTAT--ACACACACCCTGACACAC
** *
14843754 ATCCGTGTGCCTCCAAATAGTATACACACATACCCTGACACAC
1 GCCCGTGTGCCTCCAAACAGTATACACAC--ACCCTGACACAC
14843797 GCCCGTGTGCCTCC
1 GCCCGTGTGCCTCC
14843811 TGCAACTCAT
Statistics
Matches: 282, Mismatches: 37, Indels: 66
0.73 0.10 0.17
Matches are distributed among these distances:
31 24 0.09
33 1 0.00
35 1 0.00
37 1 0.00
39 9 0.03
40 5 0.02
41 72 0.26
42 8 0.03
43 89 0.32
44 3 0.01
45 29 0.10
50 2 0.01
51 1 0.00
52 1 0.00
53 19 0.07
55 17 0.06
ACGTcount: A:0.31, C:0.37, G:0.13, T:0.19
Consensus pattern (41 bp):
GCCCGTGTGCCTCCAAACAGTATACACACACCCTGACACAC
Found at i:14843571 original size:72 final size:72
Alignment explanation
Indices: 14843494--14843645 Score: 196
Period size: 72 Copynumber: 2.1 Consensus size: 72
14843484 ACACACCTTA
* * * ** **
14843494 ACACACACCCATGTGCCTTCAAACAATATACACATACCCTGACACACGCTTGTGTGTCTCCAAAC
1 ACACACACCCATGTACCTCCAAACAATATACACACACCCTGACACACGCCCGTGTACCTCCAAAC
*
14843559 AGTATAC
66 AATATAC
* * * *
14843566 ACACACGCCCGTGTACCTCCAAACAGTGTACACACACCCTGACACACGCCCGTGTACCTCCAAAC
1 ACACACACCCATGTACCTCCAAACAATATACACACACCCTGACACACGCCCGTGTACCTCCAAAC
14843631 AATATAC
66 AATATAC
14843638 ACACACAC
1 ACACACAC
14843646 ACCTTGACAC
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.34, C:0.38, G:0.11, T:0.18
Consensus pattern (72 bp):
ACACACACCCATGTACCTCCAAACAATATACACACACCCTGACACACGCCCGTGTACCTCCAAAC
AATATAC
Found at i:14843697 original size:55 final size:55
Alignment explanation
Indices: 14843638--14843754 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 55
14843628 AACAATATAC
* *
14843638 ACACACACACCTTGACACACGCCCGTGTGCCTCCAAATAGTAT-ACACACACCCTG
1 ACACACACACCATGACACA-GCCCGTGTGCCTCCAAACAGTATAACACACACCCTG
** *** *
14843693 ACACAC-GTCCATGTGGCAGCTCGTGTGCCTCCAAACAGTATACACACACACCCTG
1 ACACACACACCATGACACAGCCCGTGTGCCTCCAAACAGTATA-ACACACACCCTG
14843748 ACACACA
1 ACACACA
14843755 TCCGTGTGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
53 21 0.41
54 6 0.12
55 24 0.47
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.16
Consensus pattern (55 bp):
ACACACACACCATGACACAGCCCGTGTGCCTCCAAACAGTATAACACACACCCTG
Found at i:14843767 original size:96 final size:99
Alignment explanation
Indices: 14843616--14843797 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 99
14843606 GACACACGCC
*
14843616 CGTGTACCTCCAAACAATATACACACACACACCTTGACACACGCCCGTGTGCCTCCAAATAGTAT
1 CGTGTACCTCCAAACAATATACACACACACACCTTGACACACACCCGTGTGCCTCCAAATAGTAT
14843681 ACACAC-ACCCTGACACACGTCCATGTGGCAGCT
66 ACACACAACCCTGACACACGTCCATGTGGCAGCT
* * *
14843714 CGTGTGCCTCCAAACAGTATACACACACAC-CC-TGACACACATCCGTGTGCCTCCAAATAGTAT
1 CGTGTACCTCCAAACAATATACACACACACACCTTGACACACACCCGTGTGCCTCCAAATAGTAT
14843777 ACACACATACCCTGACACACG
66 ACACACA-ACCCTGACACACG
14843798 CCCGTGTGCC
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
96 35 0.45
97 2 0.03
98 41 0.53
ACGTcount: A:0.31, C:0.37, G:0.14, T:0.18
Consensus pattern (99 bp):
CGTGTACCTCCAAACAATATACACACACACACCTTGACACACACCCGTGTGCCTCCAAATAGTAT
ACACACAACCCTGACACACGTCCATGTGGCAGCT
Found at i:14843835 original size:96 final size:95
Alignment explanation
Indices: 14843623--14843818 Score: 234
Period size: 96 Copynumber: 2.0 Consensus size: 95
14843613 GCCCGTGTAC
* *
14843623 CTCCAAACAATATACACACACACACCTTGACACACGCCCGTGTGCCTCCAAATAGTATACACACA
1 CTCCAAAC-A-ATACACACACACACCCTGACACACACCCGTGTGCCTCCAAATAGTATACACACA
* * ***
14843688 CCCTGACACACGTCCATGTGGCAGCTCGTGTGC
64 CCCTGACACACGCCCATGTGGCA-CTCCTGCAA
* * *
14843721 CTCCAAACAGTATACACACACACCCTGACACACATCCGTGTGCCTCCAAATAGTATACACACATA
1 CTCCAAACAATACACACACACACCCTGACACACACCCGTGTGCCTCCAAATAGTATACACAC--A
*
14843786 CCCTGACACACGCCCGTGT-GC-CTCCTGCAA
64 CCCTGACACACGCCCATGTGGCACTCCTGCAA
14843816 CTC
1 CTC
14843819 ATTTTAATGA
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
95 8 0.09
96 48 0.56
97 3 0.04
98 26 0.31
ACGTcount: A:0.30, C:0.38, G:0.14, T:0.18
Consensus pattern (95 bp):
CTCCAAACAATACACACACACACCCTGACACACACCCGTGTGCCTCCAAATAGTATACACACACC
CTGACACACGCCCATGTGGCACTCCTGCAA
Found at i:14845471 original size:18 final size:18
Alignment explanation
Indices: 14845448--14845482 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14845438 GAGATAAATG
*
14845448 AATCGAGTTATTTGAGTT
1 AATCGAGTTATTCGAGTT
14845466 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
14845483 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:14847122 original size:43 final size:43
Alignment explanation
Indices: 14847058--14847140 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
14847048 ACCCTTAACC
14847058 ATCAGGTCATCACATGAGGTTTGAAACGAATCATTTTTCGACT
1 ATCAGGTCATCACATGAGGTTTGAAACGAATCATTTTTCGACT
* *
14847101 ATCAGGTCATCACATGGGGTTTGAAATGAATCATTTTTCG
1 ATCAGGTCATCACATGAGGTTTGAAACGAATCATTTTTCG
14847141 TATATTCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (43 bp):
ATCAGGTCATCACATGAGGTTTGAAACGAATCATTTTTCGACT
Found at i:14852448 original size:26 final size:26
Alignment explanation
Indices: 14852419--14852472 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
14852409 TTCAAAAGTG
14852419 TTATAAGTTTTAATCTTTAATGGATT
1 TTATAAGTTTTAATCTTTAATGGATT
14852445 TTATAAGTTTTAATCTTTAATGGATT
1 TTATAAGTTTTAATCTTTAATGGATT
14852471 TT
1 TT
14852473 TTCTAAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.56
Consensus pattern (26 bp):
TTATAAGTTTTAATCTTTAATGGATT
Found at i:14855462 original size:21 final size:20
Alignment explanation
Indices: 14855425--14855463 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14855415 TAAATCATGT
*
14855425 ATCAAATTTCGAGTATATGA
1 ATCAAATTTCAAGTATATGA
*
14855445 ATCACAATTTCAATTATAT
1 ATCA-AATTTCAAGTATAT
14855464 TTTCATGCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (20 bp):
ATCAAATTTCAAGTATATGA
Found at i:14857255 original size:15 final size:15
Alignment explanation
Indices: 14857219--14857256 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14857209 TATAAAGAAC
14857219 ATAAATAAATAAAAG
1 ATAAATAAATAAAAG
*
14857234 ATCAATAAATAAAA-
1 ATAAATAAATAAAAG
14857248 ATTAAATAA
1 A-TAAATAA
14857257 CAAATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 19 0.95
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
ATAAATAAATAAAAG
Found at i:14858756 original size:101 final size:101
Alignment explanation
Indices: 14858616--14858854 Score: 293
Period size: 101 Copynumber: 2.4 Consensus size: 101
14858606 CTAGTATTAC
* * *
14858616 AGCTTCATCTTGCTCCATTGCAACTTCAAGCAGATAAAGATTTGCTTTCATAACTTTAAT-TCGA
1 AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTGATTTCATAACTTTAATCT-GA
** *
14858680 CCCATTACAACTTCAAGGGTATAGGATTTTGTGCGGT
65 CCCACCACAACTTCAAGGGTATAGGATTTGGTGCGGT
* *
14858717 AGCTTTATCTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTGATTTCATTACTTTAATCTGAC
1 AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTGATTTCATAACTTTAATCTGAC
* * * * ***
14858782 CCACCGCAATTTTAGGGGTATAGGATTTGGTTTTGT
66 CCACCACAACTTCAAGGGTATAGGATTTGGTGCGGT
* *
14858818 AGCTTCATCCTGCTCTACTGCAACTTC-AGAGAGATAA
1 AGCTTCATCTTGCTCCACTGCAACTTCAAG-GAGATAA
14858855 GGACTCCCTT
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
100 2 0.02
101 115 0.97
102 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (101 bp):
AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAAGATTTGATTTCATAACTTTAATCTGAC
CCACCACAACTTCAAGGGTATAGGATTTGGTGCGGT
Found at i:14860869 original size:347 final size:347
Alignment explanation
Indices: 14860234--14860925 Score: 1375
Period size: 347 Copynumber: 2.0 Consensus size: 347
14860224 ATGGAATTCT
14860234 CTAGGGCAAACCATTTTATCATAAGCCCGTATCATCCGTTTTTGGTAAATCTGGTCATGTTGGAT
1 CTAGGGCAAACCATTTTATCATAAGCCCGTATCATCCGTTTTTGGTAAATCTGGTCATGTTGGAT
14860299 AGCTTTCAGCCTCTTCTCCTCAATTAGGTTTAGCTGGTCATATCTTGATCGGATCCATTCTGCCT
66 AGCTTTCAGCCTCTTCTCCTCAATTAGGTTTAGCTGGTCATATCTTGATCGGATCCATTCTGCCT
14860364 CATCTAACTTTACTTCTGATAAGACTCGGAGGGAAGAAATCTCGATTTCAATGGGTAAGACTACC
131 CATCTAACTTTACTTCTGATAAGACTCGGAGGGAAGAAATCTCGATTTCAATGGGTAAGACTACC
14860429 TCCAGTCCATATACTAATGAGAAAGGTGTTGCTGCAGTAGAAGTTCTGACAGACGTTCGATAGGC
196 TCCAGTCCATATACTAATGAGAAAGGTGTTGCTGCAGTAGAAGTTCTGACAGACGTTCGATAGGC
14860494 GTAAACAGCAAATGGTAACTTCTCATGCCAATCTTTGTAGGTCTTTGTCATTGTCCCAACGATTT
261 GTAAACAGCAAATGGTAACTTCTCATGCCAATCTTTGTAGGTCTTTGTCATTGTCCCAACGATTT
14860559 TCTTGATGTTCTTATTAGCTAC
326 TCTTGATGTTCTTATTAGCTAC
14860581 CTAGGGCAAACCATTTTATCATAAGCCCGTATCATCCGTTTTTGGTAAATCTGGTCATGTTGGAT
1 CTAGGGCAAACCATTTTATCATAAGCCCGTATCATCCGTTTTTGGTAAATCTGGTCATGTTGGAT
14860646 AGCTTTCAGCCTCTTCTCCTCAATTAGGTTTAGCTGGTCATATCTTGATCGGATCCATTCTGCCT
66 AGCTTTCAGCCTCTTCTCCTCAATTAGGTTTAGCTGGTCATATCTTGATCGGATCCATTCTGCCT
*
14860711 CATCTAACTTTACTTCTGATAAGACTCGGAGGGAAGAAATCTCGATTTCAATGGGTAAGACTGCC
131 CATCTAACTTTACTTCTGATAAGACTCGGAGGGAAGAAATCTCGATTTCAATGGGTAAGACTACC
14860776 TCCAGTCCATATACTAATGAGAAAGGTGTTGCTGCAGTAGAAGTTCTGACAGACGTTCGATAGGC
196 TCCAGTCCATATACTAATGAGAAAGGTGTTGCTGCAGTAGAAGTTCTGACAGACGTTCGATAGGC
14860841 GTAAACAGCAAATGGTAACTTCTCATGCCAATCTTTGTAGGTCTTTGTCATTGTCCCAACGATTT
261 GTAAACAGCAAATGGTAACTTCTCATGCCAATCTTTGTAGGTCTTTGTCATTGTCCCAACGATTT
14860906 TCTTGATGTTCTTATTAGCT
326 TCTTGATGTTCTTATTAGCT
14860926 GCCTCCACTT
Statistics
Matches: 344, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
347 344 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (347 bp):
CTAGGGCAAACCATTTTATCATAAGCCCGTATCATCCGTTTTTGGTAAATCTGGTCATGTTGGAT
AGCTTTCAGCCTCTTCTCCTCAATTAGGTTTAGCTGGTCATATCTTGATCGGATCCATTCTGCCT
CATCTAACTTTACTTCTGATAAGACTCGGAGGGAAGAAATCTCGATTTCAATGGGTAAGACTACC
TCCAGTCCATATACTAATGAGAAAGGTGTTGCTGCAGTAGAAGTTCTGACAGACGTTCGATAGGC
GTAAACAGCAAATGGTAACTTCTCATGCCAATCTTTGTAGGTCTTTGTCATTGTCCCAACGATTT
TCTTGATGTTCTTATTAGCTAC
Found at i:14873643 original size:17 final size:18
Alignment explanation
Indices: 14873616--14873649 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14873606 ACTTCGGGGA
*
14873616 ATATGCCAAAATTTTCAC
1 ATATGCCAAAATCTTCAC
14873634 ATAT-CCAAAATCTTCA
1 ATATGCCAAAATCTTCA
14873650 TAATTGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (18 bp):
ATATGCCAAAATCTTCAC
Found at i:14876226 original size:4 final size:4
Alignment explanation
Indices: 14876217--14876264 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
14876207 TATAAAGAAC
* * *
14876217 ATAA ATAA ATAA ATAA ATAA A-AG ATCA ATAT ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
14876264 A
1 A
14876265 ATTAAATAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
3 2 0.05
4 35 0.95
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:14879535 original size:107 final size:107
Alignment explanation
Indices: 14879349--14879562 Score: 428
Period size: 107 Copynumber: 2.0 Consensus size: 107
14879339 GAATAAATTA
14879349 AATACCAAACTCTTTTAGTTTCCTTCTCCCCCAACCCCCCAACTCTTTTACTTTCCCTAAAAAAT
1 AATACCAAACTCTTTTAGTTTCCTTCTCCCCCAACCCCCCAACTCTTTTACTTTCCCTAAAAAAT
14879414 TGTACTTCCCCCAAAATCCCAAAAACTCTTTTCTTTTTACTT
66 TGTACTTCCCCCAAAATCCCAAAAACTCTTTTCTTTTTACTT
14879456 AATACCAAACTCTTTTAGTTTCCTTCTCCCCCAACCCCCCAACTCTTTTACTTTCCCTAAAAAAT
1 AATACCAAACTCTTTTAGTTTCCTTCTCCCCCAACCCCCCAACTCTTTTACTTTCCCTAAAAAAT
14879521 TGTACTTCCCCCAAAATCCCAAAAACTCTTTTCTTTTTACTT
66 TGTACTTCCCCCAAAATCCCAAAAACTCTTTTCTTTTTACTT
14879563 TCCCACAAAC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.27, C:0.35, G:0.02, T:0.36
Consensus pattern (107 bp):
AATACCAAACTCTTTTAGTTTCCTTCTCCCCCAACCCCCCAACTCTTTTACTTTCCCTAAAAAAT
TGTACTTCCCCCAAAATCCCAAAAACTCTTTTCTTTTTACTT
Found at i:14879905 original size:20 final size:20
Alignment explanation
Indices: 14879880--14879917 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14879870 GGGTTTGGAA
14879880 GGAAGTAAATTTTTTGAGGT
1 GGAAGTAAATTTTTTGAGGT
14879900 GGAAGTAAATTTTTTGAG
1 GGAAGTAAATTTTTTGAG
14879918 AGAAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
GGAAGTAAATTTTTTGAGGT
Found at i:14879924 original size:19 final size:20
Alignment explanation
Indices: 14879882--14879927 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14879872 GTTTGGAAGG
* *
14879882 AAGTAAATTTTTTGAGGTGG
1 AAGTAAATTTTTTGAGGAGA
14879902 AAGTAAATTTTTTGA-GAGA
1 AAGTAAATTTTTTGAGGAGA
14879921 AAGTAAA
1 AAGTAAA
14879928 AGGAAAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (20 bp):
AAGTAAATTTTTTGAGGAGA
Found at i:14888772 original size:11 final size:11
Alignment explanation
Indices: 14888756--14888802 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
14888746 TCAAATAATA
14888756 AATTAAAAATT
1 AATTAAAAATT
14888767 AATTAAAATACATT
1 AATT-AAA-A-ATT
14888781 -ATCTAAAAATT
1 AAT-TAAAAATT
14888792 AATTAAAAATT
1 AATTAAAAATT
14888803 CAAACGCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
11 15 0.48
12 6 0.19
13 6 0.19
14 4 0.13
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTAAAAATT
Found at i:14897183 original size:114 final size:114
Alignment explanation
Indices: 14897029--14897236 Score: 272
Period size: 114 Copynumber: 1.8 Consensus size: 114
14897019 TGTTTAGCCT
* * * * * * ** * *
14897029 AAAACATTTAAAAACTTAATTCAAGGTTCGCCTTAAGTCGTGAGGCCTTCTCATATATACTTTTC
1 AAAACATTTAAAAACTCAAGTAAAGGTTCACCTCAAGTCGTGAAGCCAGCTCACACATACTTTTC
14897094 AAAAAACTCAAACAAGGTCTACCTTAGGTCGTGATGCTTGTTTTATCTA
66 AAAAAACTCAAACAAGGTCTACCTTAGGTCGTGATGCTTGTTTTATCTA
* * *
14897143 AAAACATTTAAAAACTCGAGTAAAGGTTCACCTCAGGTCGTGAAGCCAGCTCACACATTCTTTTC
1 AAAACATTTAAAAACTCAAGTAAAGGTTCACCTCAAGTCGTGAAGCCAGCTCACACATACTTTTC
* * *
14897208 AAAAAACTCGAACAAGGTTTGCCTTAGGT
66 AAAAAACTCAAACAAGGTCTACCTTAGGT
14897237 TACAAGATAG
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
114 78 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (114 bp):
AAAACATTTAAAAACTCAAGTAAAGGTTCACCTCAAGTCGTGAAGCCAGCTCACACATACTTTTC
AAAAAACTCAAACAAGGTCTACCTTAGGTCGTGATGCTTGTTTTATCTA
Found at i:14898778 original size:7 final size:7
Alignment explanation
Indices: 14898763--14898796 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
14898753 GAGAACAATA
*
14898763 AGTTAAG
1 AGTTGAG
14898770 AGTTGAG
1 AGTTGAG
14898777 AGTTGAG
1 AGTTGAG
14898784 AGTTGAG
1 AGTTGAG
14898791 AGTTGA
1 AGTTGA
14898797 ATTGAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (7 bp):
AGTTGAG
Found at i:14900557 original size:16 final size:17
Alignment explanation
Indices: 14900525--14900562 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
14900515 ATGTTTTAAA
14900525 TAAAAATAATAATATTT
1 TAAAAATAATAATATTT
*
14900542 TAAAAATTATAA-ATTT
1 TAAAAATAATAATATTT
14900558 TAAAA
1 TAAAA
14900563 CAATAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAAATAATAATATTT
Found at i:14900606 original size:27 final size:26
Alignment explanation
Indices: 14900558--14900623 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
14900548 TTATAAATTT
* * *
14900558 TAAAACAATAAAAAGCTCTTTACAAA
1 TAAAAAAATAAAAAGATCTTTAAAAA
*
14900584 TAAAAAAATAAAAAGATATTTTAAAAA
1 TAAAAAAATAAAAAGAT-CTTTAAAAA
*
14900611 T-ATAAAATAAAAA
1 TAAAAAAATAAAAA
14900624 ATTCAATGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 26 0.76
27 8 0.24
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (26 bp):
TAAAAAAATAAAAAGATCTTTAAAAA
Done.