Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008656.1 Hibiscus syriacus cultivar Beakdansim tig00111650_pilon, whole genome shotgun sequence
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: 2456495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:2118693 original size:31 final size:34
Alignment explanation
Indices: 2118656--2118728 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 34
2118646 ATCTATAAAG
*
2118656 TATATATGCTTTATACTA-AAACTT-TATATATA
1 TATATATACTTTATACTATAAACTTATATATATA
* *
2118688 T-TATATACTTTATATTATATACTTATATATATA
1 TATATATACTTTATACTATAAACTTATATATATA
2118721 TATATATA
1 TATATATA
2118729 TAAAGTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.40
32 6 0.17
33 9 0.26
34 6 0.17
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (34 bp):
TATATATACTTTATACTATAAACTTATATATATA
Found at i:2118703 original size:14 final size:15
Alignment explanation
Indices: 2118682--2118724 Score: 70
Period size: 14 Copynumber: 2.9 Consensus size: 15
2118672 TAAAACTTTA
2118682 TATATATTATATACT
1 TATATATTATATACT
2118697 T-TATATTATATACT
1 TATATATTATATACT
2118711 TATATATATATATA
1 TATATAT-TATATA
2118725 TATATAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.54
15 6 0.23
16 6 0.23
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATTATATACT
Found at i:2118730 original size:14 final size:14
Alignment explanation
Indices: 2118682--2118729 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
2118672 TAAAACTTTA
2118682 TATATATTATATAC
1 TATATATTATATAC
*
2118696 TTTATATTATATAC
1 TATATATTATATAC
2118710 T-TATATATATATA-
1 TATATAT-TATATAC
2118723 TATATAT
1 TATATAT
2118730 AAAGTTTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 6 0.19
14 25 0.81
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (14 bp):
TATATATTATATAC
Found at i:2118782 original size:8 final size:8
Alignment explanation
Indices: 2118748--2118831 Score: 70
Period size: 8 Copynumber: 10.9 Consensus size: 8
2118738 AGTATGAAGT
*
2118748 GTATATAG
1 GTATATAA
*
2118756 GCATATAA
1 GTATATAA
2118764 -TAATATAAA
1 GT-ATAT-AA
2118773 GTATATAA
1 GTATATAA
2118781 GTATATAA
1 GTATATAA
*
2118789 ATATATAA
1 GTATATAA
*
2118797 ATATAT-A
1 GTATATAA
2118804 -TATA-AA
1 GTATATAA
*
2118810 CTATA-AA
1 GTATATAA
2118817 GTATATAA
1 GTATATAA
2118825 GTATATA
1 GTATATA
2118832 TATATATATA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
6 5 0.08
7 11 0.17
8 42 0.65
9 6 0.09
10 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (8 bp):
GTATATAA
Found at i:2118787 original size:2 final size:2
Alignment explanation
Indices: 2118782--2118841 Score: 50
Period size: 2 Copynumber: 29.0 Consensus size: 2
2118772 AGTATATAAG
* * * *
2118782 TA TA TA AA TA TA TA AA TA TA TA TA TA AA CTA TA AA GTA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
2118825 GTA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA
2118842 AAGTTTTCGT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
1 1 0.02
2 42 0.91
3 3 0.07
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (2 bp):
TA
Found at i:2118877 original size:111 final size:105
Alignment explanation
Indices: 2118715--2119014 Score: 329
Period size: 111 Copynumber: 2.7 Consensus size: 105
2118705 TATACTTATA
* * * ***
2118715 TATATATATATATATAAAGTTTTAGTATGAAGTGTATATAGGCATATAATAATATAAAGTATATA
1 TATATATATATATATAAAGTTTTCGTATAAAGTATATA-ACATATATAATAATATAAAG--TATA
*
2118780 AGTATATAAATATATAAATATATATATAA-ACTATAAAGTATATAAG
63 AGTATATAAATATATAAATA-ATATA-AAGACTATAAA-TATA-AAC
2118826 TATATATATATATATAAAGTTTTCGTATAAAGTATATAAACATATATAATAATATAAAGTATAAG
1 TATATATATATATATAAAGTTTTCGTATAAAGTATAT-AACATATATAATAATATAAAGTATAAG
* *
2118891 TATATATACACGTATAT-AATAATATAAAGAGTATATATATAAAC
65 TATATA-A-A--TATATAAATAATATAAAGACTATAAATATAAAC
*
2118935 TATAAAATATATATGTATAAAGTTTTTCGTATAAAGTATAT-ACATATATAATAATATAAAGTAT
1 TAT---ATATATATATATAAAG-TTTTCGTATAAAGTATATAACATATATAATAATATAAAGTAT
*
2118999 AAGTATAT-TATATATA
62 AAGTATATAAATATATA
2119015 GAGAGAGAGT
Statistics
Matches: 167, Mismatches: 11, Indels: 26
0.82 0.05 0.13
Matches are distributed among these distances:
106 5 0.03
108 1 0.01
109 17 0.10
110 7 0.04
111 94 0.56
112 20 0.12
113 23 0.14
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.38
Consensus pattern (105 bp):
TATATATATATATATAAAGTTTTCGTATAAAGTATATAACATATATAATAATATAAAGTATAAGT
ATATAAATATATAAATAATATAAAGACTATAAATATAAAC
Found at i:2118882 original size:18 final size:17
Alignment explanation
Indices: 2118859--2118947 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 17
2118849 CGTATAAAGT
2118859 ATATAAACATATATAATA
1 ATATAAA-ATATATAATA
* *
2118877 ATATAAAGTATA-AGTA
1 ATATAAAATATATAATA
**
2118893 TATATACACGTATATAATA
1 -ATATA-AAATATATAATA
2118912 ATATAAAGAGTATATATATAA
1 ATATAAA-A-TATATA-AT-A
2118933 ACTATAAAATATATA
1 A-TATAAAATATATA
2118948 TGTATAAAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
16 3 0.05
17 10 0.18
18 18 0.32
19 9 0.16
20 8 0.14
21 3 0.05
22 6 0.11
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (17 bp):
ATATAAAATATATAATA
Found at i:2118907 original size:35 final size:34
Alignment explanation
Indices: 2118767--2118957 Score: 135
Period size: 40 Copynumber: 5.4 Consensus size: 34
2118757 CATATAATAA
* *
2118767 TATAAAGTATATAAGTATATAAATATATAAATATATA
1 TATAAAGTATA-AAGTATATAAACATATATA-ATA-A
* **
2118804 TATAAACTATAAAGTATATAAGTATATAT-ATATA
1 TATAAAGTATAAAGTATATAAACATATATAATA-A
2118838 TATAAAGTTTTCGTATAAAGTATATAAACATATATAATAA
1 TATAAA------GTATAAAGTATATAAACATATATAATAA
*
2118878 TATAAAGTAT-AAGTATATATACACGTATATAATAA
1 TATAAAGTATAAAGTATATA-A-ACATATATAATAA
* *
2118913 TATAAAG-AGTATA-TATATAAAC-TATAAAAT-A
1 TATAAAGTA-TAAAGTATATAAACATATATAATAA
*
2118944 TAT-ATGTATAAAGT
1 TATAAAGTATAAAGT
2118958 TTTTCGTATA
Statistics
Matches: 130, Mismatches: 11, Indels: 32
0.75 0.06 0.18
Matches are distributed among these distances:
30 5 0.04
31 6 0.05
32 7 0.05
33 11 0.08
34 18 0.14
35 26 0.20
36 17 0.13
37 10 0.08
40 27 0.21
41 3 0.02
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (34 bp):
TATAAAGTATAAAGTATATAAACATATATAATAA
Found at i:2118945 original size:20 final size:23
Alignment explanation
Indices: 2118903--2118948 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
2118893 TATATACACG
2118903 TATATAATAATATAAAGAGTATA
1 TATATAATAATATAAAGAGTATA
*
2118926 TATATAA-ACTATAAA-A-TATA
1 TATATAATAATATAAAGAGTATA
2118946 TAT
1 TAT
2118949 GTATAAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 7 0.32
23 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (23 bp):
TATATAATAATATAAAGAGTATA
Found at i:2119063 original size:22 final size:21
Alignment explanation
Indices: 2119038--2119083 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
2119028 ATTATAAAGA
2119038 ATAAAATACATA-AGTATATAAT
1 ATAAAATACATATA-TATAT-AT
*
2119060 ATAAAATATATATATATATAT
1 ATAAAATACATATATATATAT
2119081 ATA
1 ATA
2119084 CTTTATACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 16 0.73
23 1 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAAAATACATATATATATAT
Found at i:2119070 original size:2 final size:2
Alignment explanation
Indices: 2119052--2119210 Score: 66
Period size: 2 Copynumber: 80.5 Consensus size: 2
2119042 AATACATAAG
* * *
2119052 TA TA TA -A TA TA -A AA TA TA TA TA TA TA TA TA TA CTT TA TA CTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
2119094 TA TA TA TA TA TA TA TA TA CTT TA TA TT TA -A TA CT- TA TA TA CTT
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA
* * ** *
2119137 TA TA TA TA CT- TA TA TA CTT TA TA TT TA -A TA CG TA TA TA TA TT
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
2119179 TA TA T- TA TA TC TT TA TA TA T- TT TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2119211 GCTTATATAC
Statistics
Matches: 116, Mismatches: 25, Indels: 32
0.67 0.14 0.18
Matches are distributed among these distances:
1 9 0.08
2 100 0.86
3 7 0.06
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2119090 original size:28 final size:28
Alignment explanation
Indices: 2119059--2119118 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
2119049 AAGTATATAA
2119059 TATAAAATATATATATATATATATACTT
1 TATAAAATATATATATATATATATACTT
***
2119087 TATACTTTATATATATATATATATACTT
1 TATAAAATATATATATATATATATACTT
2119115 TATA
1 TATA
2119119 TTTAATACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (28 bp):
TATAAAATATATATATATATATATACTT
Found at i:2119097 original size:22 final size:21
Alignment explanation
Indices: 2119072--2120512 Score: 189
Period size: 20 Copynumber: 67.6 Consensus size: 21
2119062 AAAATATATA
2119072 TATATATATATACTTTATACTT
1 TATATATATATACTTTATA-TT
*
2119094 TATATATATATA-TATATACTT
1 TATATATATATACTTTATA-TT
*
2119115 TATATTTA-ATACTTATATACTTT
1 TATATATATATACTT-TATA--TT
2119138 ATATATACTTATATACTTTATATT
1 -TATATA--TATATACTTTATATT
2119162 TAATACGTATATATA-TTTATATT
1 T-ATA--TATATATACTTTATATT
* * *
2119185 ATATCTTTATATATTTTATA-T
1 -TATATATATATACTTTATATT
*
2119206 TATATGCTTATATACTTTAT-TCT
1 TATAT--ATATATACTTTATAT-T
2119229 T-TATA-ATATAC-TTATATTT
1 TATATATATATACTTTATA-TT
* *
2119248 TATATTATTATATA-TGTATATA
1 TATA-TA-TATATACTTTATATT
* * * *
2119270 TACTTTATACGAAAACTTTATATA
1 TA-TATATA--TATACTTTATATT
* * *
2119294 TATATATATATA-TATAAACTG
1 TATATATATATACTTTATA-TT
** *
2119315 TA-A-AGTA-A-A-AGTATATA
1 TATATA-TATATACTTTATATT
* * * * *
2119332 TATAAACTATAAAGTGTGTGTATA
1 TATATA-TATATACT-T-TATATT
*
2119356 TATATATACATAC-TTATACTT
1 TATATATATATACTTTATA-TT
2119377 TATATGTATATATACTTTATA--
1 TATA--TATATATACTTTATATT
*
2119398 GAT-T-TATATACTTTATATT
1 TATATATATATACTTTATATT
* *
2119417 AT-TATATATGTA-TATATAATT
1 -TATATATATATACTTTAT-ATT
*
2119438 TATATTTA-ATACTTATATATT
1 TATATATATATACTT-TATATT
2119459 T-TATATTATATACTTGTATACTT
1 TATATA-TATATACTT-TATA-TT
*
2119482 TATAT-TATATGCTTATATACTT
1 TATATATATATACTT-TATA-TT
* * *
2119504 T-TATCTTTATA-GTTATACTT
1 TATATATATATACTTTATA-TT
*
2119524 TATAT-TATATACTTATATACCT
1 TATATATATATACTT-TATA-TT
* * *
2119546 TGT-TATTTATA-ATTATACTT
1 TATATATATATACTTTATA-TT
2119566 TATATATATATA-TACTTATACTT
1 TATATATATATACT--TTATA-TT
* *
2119589 TATAT-TATTATA-TATATACT
1 TATATATA-TATACTTTATATT
* *
2119609 TATATATATATA-TATATATA
1 TATATATATATACTTTATATT
*
2119629 TATATATATA-A-TTTATAGT
1 TATATATATATACTTTATATT
2119648 T-TATATATATACTTATATACTT
1 TATATATATATACTT-TATA-TT
* *
2119670 TATTTAAACTATATAACCTATATAATT
1 TA--TATA-TATAT-A-CTTTAT-ATT
* *
2119697 TATACATAGTATA-TATA-ATT
1 TATATATA-TATACTTTATATT
* * *
2119717 TATA-AT-TATACATAATATA
1 TATATATATATACTTTATATT
* ** *
2119736 TAAATATA-AGTTGTATATATT
1 TATATATATA-TACTTTATATT
* * *
2119757 TAAATATA-ATTCATATATAATT
1 TATATATATATAC-TTTAT-ATT
* *
2119779 TATAT-T-TAAACTATATAATT
1 TATATATATATACTTTAT-ATT
* *
2119799 TATAT-TAATAAACTATATATT
1 TATATAT-ATATACTTTATATT
* **
2119820 T-TATATATAGTTCAATAGTTCATT
1 TATATATATA-TACTTTA--T-ATT
* * *
2119844 TATAAACTATATAGTTTATACATAA
1 TATATA-TATATACTTTAT--AT-T
*
2119869 TATATATATATAGTTTATA--
1 TATATATATATACTTTATATT
*
2119888 TATAGTATATA-A-TTTA-A-A
1 TATA-TATATATACTTTATATT
* *
2119906 TATAAACTATATAGTTTATA--
1 TATATA-TATATACTTTATATT
* *
2119926 -ATATAGTTTATA--TTATATA
1 TATATA-TATATACTTTATATT
*
2119945 TATACATACTTATACTTTATATGT
1 TATATATA--TATACTTTATAT-T
2119969 ATATATACTTTATATAC-TTATATT
1 -TATATA---TATATACTTTATATT
*
2119993 T-TATATTATATATTTATATACTT
1 TATATA-TATATACTT-TATA-TT
* *
2120016 TAATCTTTATAATTATACTTTATATA
1 T-A--TATAT-A-TATACTTTATATT
2120042 TATA-ATATATAC-TTATACTT
1 TATATATATATACTTTATA-TT
* * *
2120062 TATATTATTATGTA-TATATTATA
1 TATA-TA-TATATACTTTA-TATT
* *
2120085 TATATATATATAGTTTATATA
1 TATATATATATACTTTATATT
*
2120106 TATACATATATACTTTATATT
1 TATATATATATACTTTATATT
* * * *
2120127 TAAACTACATAAACTATATAATT
1 TATA-TATATATACTTTAT-ATT
* * *
2120150 TATACATAGTGTA-TATA-ATT
1 TATATATA-TATACTTTATATT
* *
2120170 TATA-A-CTATAC---ATAGTA
1 TATATATATATACTTTATA-TT
* *
2120187 TATAAATATAAACTGTATATATT
1 TATATATATATACT-T-TATATT
* * *
2120210 TAAATATA-ATTCATATATAATT
1 TATATATATATAC-TTTAT-ATT
*
2120232 TATATATA-A-ACTATATAATT
1 TATATATATATACTTTAT-ATT
*
2120252 TATAT-TA-ATAAATTCTATAGTT
1 TATATATATAT-ACTT-TATA-TT
* *
2120274 TATATATATAGT-TTTTATATA
1 TATATATATA-TACTTTATATT
2120295 TA-ATATATATACTTTATA--
1 TATATATATATACTTTATATT
* * **
2120313 TATACACTATATAGTTTATACA
1 TATATA-TATATACTTTATATT
* * * *
2120335 TA-ATATACATAGTTTATGTA
1 TATATATATATACTTTATATT
2120355 TATAATATATATACTTTATA--
1 TAT-ATATATATACTTTATATT
* **
2120375 TATATACTATATAGTTTATACA
1 TATATA-TATATACTTTATATT
* *
2120397 TA-ATATATATAGTTTATATA
1 TATATATATATACTTTATATT
*
2120417 TAGTATATA-ATAATATTA-A--
1 TA-TATATATATACT-TTATATT
* * *
2120436 TATAAACTATATAGTTTATATA
1 TATATA-TATATACTTTATATT
2120458 TATAATATATATACTTTATATT
1 TAT-ATATATATACTTTATATT
* *
2120480 TA-A-ACTATATAGTTTATACAT
1 TATATA-TATATACTTTATA-TT
*
2120501 AATATATATATA
1 TATATATATATA
2120513 TATATAGTTC
Statistics
Matches: 1079, Mismatches: 167, Indels: 346
0.68 0.10 0.22
Matches are distributed among these distances:
15 1 0.00
16 1 0.00
17 35 0.03
18 37 0.03
19 72 0.07
20 254 0.24
21 179 0.17
22 223 0.21
23 113 0.10
24 73 0.07
25 33 0.03
26 25 0.02
27 22 0.02
28 11 0.01
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (21 bp):
TATATATATATACTTTATATT
Found at i:2119119 original size:41 final size:43
Alignment explanation
Indices: 2119066--2120497 Score: 212
Period size: 42 Copynumber: 34.3 Consensus size: 43
2119056 TAATATAAAA
* *
2119066 TATATA-TATATATATATACTT-TATACTTTATATATATATA-
1 TATATACTTTATATATATACTTATATACTTTATATTTATATAC
*
2119106 TATATACTTTATATTTAATACTTATATAC-TT-TA--TATATAC
1 TATATACTTTATATAT-ATACTTATATACTTTATATTTATATAC
*
2119146 TTATATACTTTATATTTAATACGTATATATA-TTTATA-TTATAT-C
1 -TATATACTTTATATAT-ATAC-T-TATATACTTTATATTTATATAC
* *
2119190 TTTATATATTTTATATTATATGCTTATATACTTTAT-TCTT-TATA-
1 --TATATACTTTATA-TATATACTTATATACTTTATAT-TTATATAC
*
2119234 -ATATACTTATATTTTATATTA-TTATATA-TGTATATATACTT-TATAC
1 TATATACTT-TA-TATATA-TACTTATATACT-T-TATAT--TTATATAC
* * * * * *
2119280 GA-AAACTTTATATATATA-TATATATA-TATAAACTGTA-A-AG
1 TATATACTTTATATATATACT-TATATACTTTATA-TTTATATAC
* * * * * * * *
2119320 TA-AAAGTATATATATAAAC-TATAAAGTGTGTGTATATATATA-
1 TATATACTTTATATATATACTTATATACT-T-TATATTTATATAC
* * *
2119362 TACATAC-TTATACTTTATATGTATATATACTTTATAGATTTATATAC
1 TATATACTTTATA-TATATA-CT-TATATACTTTAT--ATTTATATAC
* * * *
2119409 TTTATATTATTATATATGTA--TATATAATTTATATTTA-ATAC
1 TATATACT-TTATATATATACTTATATACTTTATATTTATATAC
* * *
2119450 TTATATATTTTATATTATATACTTGTATACTTTATA-TTATATGC
1 -TATATACTTTATA-TATATACTTATATACTTTATATTTATATAC
* * *
2119494 TTATATACTTTTATCTTTATA-GT-TATACTTTATA-TTATATAC
1 -TATATAC-TTTATATATATACTTATATACTTTATATTTATATAC
* *
2119536 TTATATACCTTGT-TATTTATA-AT-TATACTTTATATATATATATAC
1 -TATATA-CTT-TATATATATACTTATATACTTTATAT-T-TATATAC
*
2119581 T-TATACTTTATAT-TATTA-TATATATAC-TTATATATATATA-
1 TATATACTTTATATATA-TACT-TATATACTTTATATTTATATAC
* * *
2119621 TATATA-TATATATATATAATT-TATAGTTTATA--TATATAC
1 TATATACTTTATATATATACTTATATACTTTATATTTATATAC
* * *
2119660 TTATATACTTTAT-T-TAAAC-TATATAACCTATATAATTTATACATAGTA
1 -TATATACTTTATATATATACTTATAT-A-CTTTAT-ATTTAT--ATA--C
* * * * * **
2119708 TATATAATTTATA-ATTATACATA-ATA-TATAAATATA-AGTTG
1 TATATACTTTATATA-TATACTTATATACTTTATATTTATA-TAC
* * * *
2119749 TATATA-TTTAAATATAATTCATATATAATTTATATTTA-A-AC
1 TATATACTTTATATAT-ATACTTATATACTTTATATTTATATAC
* * * *
2119790 TATATAATTTATATTAATAAAC-TATATA-TTT-TATATATAGTTC
1 TATATACTTTATA-T-ATATACTTATATACTTTATATTTATA-TAC
* * * * * *
2119833 -A-ATAGTTCATTTATAAAC-TATATAGTTTATACATAATATATA-
1 TATATACTTTATATATATACTTATATACTTTAT--AT-TTATATAC
* * *
2119875 TATATAGTTTATATATAGTA--TATA-A-TTTA-A-ATATAAAC
1 TATATACTTTATATATA-TACTTATATACTTTATATTTATATAC
* * * *
2119913 TATATAGTTTATA-ATATAGTT-TATA-TTATATATATACATAC
1 TATATACTTTATATATATACTTATATACTT-TATATTTATATAC
*
2119954 T-TATACTTTATATGTATATATACTTTATATAC-TTATATTT-TATAT
1 TATATAC-TT-TA--TATATATAC-TTATATACTTTATATTTATATAC
* *
2119999 TATATA-TTTATATA-CT--TTA-AT-CTTTATA-AT-TATAC
1 TATATACTTTATATATATACTTATATACTTTATATTTATATAC
* *
2120034 TTTATA-TATATAATATATAC-T-TATACTTTATA-TTAT-TA-
1 TATATACTTTAT-ATATATACTTATATACTTTATATTTATATAC
* *
2120072 TGTATA-TATTATATATATA--TATATAGTTTATA--TATATAC
1 TATATACT-TTATATATATACTTATATACTTTATATTTATATAC
* * * * * *
2120111 ATATATACTTTATATTTAAACTACATAAACTATATAATT-TATAC
1 -TATATACTTTATATATATACT-TATATACTTTATATTTATATAC
* * * * * * ** *
2120155 -ATAGT-GTATATAATTTATAACTATACATAGTATATAAATATAAAC
1 TATA-TACTTTAT-ATATAT-ACT-TATATACTTTATATTTATATAC
* * * * *
2120200 TGTATATA-TTTAAATATAATTCATATATAATTTATA--TATAAAC
1 --TATATACTTTATATAT-ATACTTATATACTTTATATTTATATAC
* *
2120243 TATATAATTTATAT-TA-A--TA-A-A-TTCTATAGTT-TATA-
1 TATATACTTTATATATATACTTATATACTT-TATATTTATATAC
* * * *
2120278 TATATAGTTTTTATATATAATATATATACTTTATA--TATACAC
1 TATATACTTTATATATATACT-TATATACTTTATATTTATATAC
* * * * * *
2120320 TATATAGTTTATACATA-A-TATACATAGTTTATGTATATAATA-
1 TATATACTTTATATATATACT-TATATACTTTATATTTAT-ATAC
* **
2120362 TATATACTTTATATATATAC-TATATAGTTTATACATA-ATA-
1 TATATACTTTATATATATACTTATATACTTTATATTTATATAC
* * *
2120402 TATATAGTTTATATATAGTA--TATA-A--TAATATTAATATAAAC
1 TATATACTTTATATATA-TACTTATATACTTTATATT--TATATAC
* *
2120443 TATATAGTTTATATATATAATATATATACTTTATATTTA-A-AC
1 TATATACTTTATATATATACT-TATATACTTTATATTTATATAC
*
2120485 TATATAGTTTATA
1 TATATACTTTATA
2120498 CATAATATAT
Statistics
Matches: 1068, Mismatches: 151, Indels: 344
0.68 0.10 0.22
Matches are distributed among these distances:
34 2 0.00
35 32 0.03
36 18 0.02
37 27 0.03
38 52 0.05
39 52 0.05
40 124 0.12
41 152 0.14
42 209 0.20
43 104 0.10
44 124 0.12
45 74 0.07
46 50 0.05
47 27 0.03
48 8 0.01
49 11 0.01
50 2 0.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (43 bp):
TATATACTTTATATATATACTTATATACTTTATATTTATATAC
Found at i:2119131 original size:28 final size:28
Alignment explanation
Indices: 2119066--2119672 Score: 129
Period size: 28 Copynumber: 21.9 Consensus size: 28
2119056 TAATATAAAA
2119066 TATATATATATATATATACTTTATACTT
1 TATATATATATATATATACTTTATACTT
2119094 TATATATATATATATATACTTTATA-TT
1 TATATATATATATATATACTTTATACTT
2119121 TAATACTTATATACTTTATATATACTTATATACTT
1 T-ATA--TATATA---TATATATACTT-TATACTT
*
2119156 TATATTTAATACGTATATATA-TTTATA--T
1 TATATAT-ATA--TATATATACTTTATACTT
*
2119184 TATATCT-T-TATATAT--TTTATA--T
1 TATATATATATATATATACTTTATACTT
* * * * *
2119206 TATATGCTTATATACTTTATTCTTTATAATA
1 TATAT--ATATATA-TATATACTTTATACTT
* *
2119237 TACT-TATAT-TTTATATTA-TTATATA-TG
1 TA-TATATATATATATA-TACTT-TATACTT
* * * *
2119264 TATATATACTTTATACGAAAACTTTATA-TA
1 TATATATA-TATATA--TATACTTTATACTT
* * **
2119294 TATATATATATATATAAACTGTA-A-AG
1 TATATATATATATATATACTTTATACTT
* * * * *
2119320 TA-AAAGTATATATATAAACTATAAAGTGT
1 TATATA-TATATATATATACTTTATACT-T
* *
2119349 GTGTATATATATATACATAC-TTATAC--
1 -TATATATATATATATATACTTTATACTT
* *
2119375 T-T-TATATGTATATATACTTTATAGATT
1 TATATATATATATATATACTTTATA-CTT
* *
2119402 TATATACTTTATATTATTATATA-TGTATA-TA
1 TATATA---TATA-TA-TATATACTTTATACTT
* * *
2119433 TA-ATTTATATTTA-ATACTTATATATTT
1 TATATATATATATATATACTT-TATACTT
*
2119460 TATAT-TATATACTTGTATACTTTATA--T
1 TATATATATATA--TATATACTTTATACTT
* * *
2119487 TATATGCT-TATATACTTTTATCTTTATA-GT
1 TATAT-ATATATATA--TATA-CTTTATACTT
* *
2119517 TATACTTTATAT-TATATACTTATATACCT
1 TATA-TATATATATATATACTT-TATACTT
*
2119546 TGT-TAT-T-TATA-A----TTATACTT
1 TATATATATATATATATACTTTATACTT
2119566 TATATATATATATACTTATACTTTATA--T
1 TATATATATATATA--TATACTTTATACTT
* *
2119594 TAT-TATATATATACTTATA-TATATA-TA
1 TATATATATATATA--TATACTTTATACTT
* *
2119621 TATATATATATATATATAATTTATAGTT
1 TATATATATATATATATACTTTATACTT
2119649 TATATATATACT-TATATACTTTAT
1 TATATATATA-TATATATACTTTAT
2119673 TTAAACTATA
Statistics
Matches: 444, Mismatches: 58, Indels: 154
0.68 0.09 0.23
Matches are distributed among these distances:
20 8 0.02
21 4 0.01
22 13 0.03
23 24 0.05
24 10 0.02
25 9 0.02
26 42 0.09
27 75 0.17
28 95 0.21
29 39 0.09
30 57 0.13
31 17 0.04
32 14 0.03
33 21 0.05
34 13 0.03
35 3 0.01
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (28 bp):
TATATATATATATATATACTTTATACTT
Found at i:2119226 original size:27 final size:26
Alignment explanation
Indices: 2119169--2119277 Score: 74
Period size: 27 Copynumber: 4.3 Consensus size: 26
2119159 ATTTAATACG
*
2119169 TATATATA-TTTATATTATAT-CTT-
1 TATATTTATTTTATATTATATGCTTA
2119192 TATA-T-ATTTTATATTATATGCTTA
1 TATATTTATTTTATATTATATGCTTA
* *
2119216 TATACTTTATTCTT-TATAATATACTTA
1 TATA-TTTATT-TTATATTATATGCTTA
*
2119243 TAT-TTTATATTAT-TATATATG-TATA
1 TATATTTATTTTATAT-TATATGCT-TA
2119268 TATACTTTAT
1 TATA-TTTAT
2119278 ACGAAAACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
21 1 0.01
22 12 0.18
23 7 0.10
24 8 0.12
25 15 0.22
26 1 0.01
27 22 0.32
28 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.59
Consensus pattern (26 bp):
TATATTTATTTTATATTATATGCTTA
Found at i:2119238 original size:86 final size:84
Alignment explanation
Indices: 2119087--2119278 Score: 212
Period size: 86 Copynumber: 2.3 Consensus size: 84
2119077 ATATATACTT
* * *
2119087 TATACTTTATATATATATATATATACTTTATATTTAATACTTATATACTTTATATATACTTATAT
1 TATA-TTTATATATATCTTTATATACTTTATATTTAATACTTATATACTTTATATATACTAATAT
2119152 ACTTTATATTTAATACGTA-TA
65 AC-TTATATTTAATA-GTATTA
* * * *
2119173 TATATTTATATTATATCTTTATATATTTTATA-TTATATGCTTATATACTTTATTCTTTA-TAAT
1 TATATTTATA-TATATCTTTATATACTTTATATTTA-ATACTTATATACTTTA-TATATACTAAT
* *
2119236 ATACTTATATTTTATATTATTA
63 ATACTTATATTTAATAGTATTA
*
2119258 TATATGTATATATA-CTTTATA
1 TATATTTATATATATCTTTATA
2119279 CGAAAACTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
83 7 0.08
84 6 0.07
85 31 0.34
86 44 0.48
87 4 0.04
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (84 bp):
TATATTTATATATATCTTTATATACTTTATATTTAATACTTATATACTTTATATATACTAATATA
CTTATATTTAATAGTATTA
Found at i:2119573 original size:2 final size:2
Alignment explanation
Indices: 2119566--2120518 Score: 190
Period size: 2 Copynumber: 478.0 Consensus size: 2
2119556 AATTATACTT
*
2119566 TA TA TA TA TA TA TA CT- TA TA CTT TA TA T- TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* *
2119607 CT- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TT TA TA GTT
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * **
2119649 TA TA TA TA TA CT- TA TA TA CTT TA TT TA AA CTA TA TA -A CC TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
* * * *
2119690 TA TA -A TT TA TA CA TA GTA TA TA TA -A TT TA TA -A T- TA TA CA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2119729 TA -A TA TA TA AA TA TA -A GT- TG TA TA TA TT TA AA TA TA -A T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2119767 TCA TA TA TA -A TT TA TA TT TA AA CTA TA TA -A TT TA TA T- TA -A
1 T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
2119807 TA AA CTA TA TA T- TT TA TA TA TA GT- TCA -A TA GT- TCA TT TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA T-A TA TA -TA T-A TA TA TA
* * * *
2119848 AA CTA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA GTT TA TA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
2119890 TA GTA TA TA -A TT TA AA TA TA AA CTA TA TA GTT TA TA -A TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * * *
2119931 GTT TA TA T- TA TA TA TA TA CA TA CT- TA TA CTT TA TA TG TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * *
2119972 TA TA CTT TA TA TA CT- TA TA T- TT TA TA T- TA TA TA TT TA TA TA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2120013 CTT TA -A TC TT TA TA -A T- TA TA CTT TA TA TA TA TA -A TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* *
2120053 CT- TA TA CTT TA TA T- TA T- TA TG TA TA TA T- TA TA TA TA TA TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
2120093 TA TA GTT TA TA TA TA TA CA TA TA TA CTT TA TA TT TA AA CTA CA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
* * * * *
2120136 TA AA CTA TA TA -A TT TA TA CA TA GTG TA TA TA -A TT TA TA -A CTA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
* * * * * *
2120178 TA CA TA GTA TA TA AA TA TA AA CTG TA TA TA TT TA AA TA TA -A T-
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
2120220 TCA TA TA TA -A TT TA TA TA TA AA CTA TA TA -A TT TA TA T- TA -A
1 T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * *
2120260 TA AA T- TC TA TA GTT TA TA TA TA TA GTT TT TA TA TA TA -A TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
2120302 TA TA CTT TA TA TA TA CA CTA TA TA GTT TA TA CA TA -A TA TA CA
1 TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
2120344 TA GTT TA TG TA TA TA -A TA TA TA TA CTT TA TA TA TA TA CTA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
* * *
2120386 TA GTT TA TA CA TA -A TA TA TA TA GTT TA TA TA TA GTA TA TA -A
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA
* *
2120427 TA -A TA T- TA -A TA TA AA CTA TA TA GTT TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
2120467 TA TA CTT TA TA TT TA AA CTA TA TA GTT TA TA CA TA -A TA TA TA
1 TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
2120509 TA TA TA TA TA
1 TA TA TA TA TA
2120519 GTTCTTGTAA
Statistics
Matches: 668, Mismatches: 166, Indels: 234
0.63 0.16 0.22
Matches are distributed among these distances:
1 60 0.09
2 549 0.82
3 59 0.09
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2119607 original size:44 final size:43
Alignment explanation
Indices: 2119352--2119670 Score: 195
Period size: 44 Copynumber: 7.6 Consensus size: 43
2119342 AAAGTGTGTG
* *
2119352 TATATA-TATATACATACTTATAC-TTTATA-TGTATATATACTT
1 TATATATTATATACTTA--TATACTTTTATATTATATATATACTT
* * *
2119394 TATAGATTTATATACTT-TATA-TTATTATATATGTATATATAATT
1 TATATA-TTATATACTTATATACTT-TTATAT-TATATATATACTT
2119438 TATAT-TTA-ATACTTATATA-TTTTATATTATATACTTGTATAC-T
1 TATATATTATATACTTATATACTTTTATATTATATA----TATACTT
* *
2119481 T-TATATTATATGCTTATATACTTTTATCTT-TATAGTTATAC-T
1 TATATATTATATACTTATATACTTTTATATTATATA--TATACTT
2119523 T-TATATTATATACTTATATACCTTGTTAT-TTATA-ATTATACTT
1 TATATATTATATACTTATATA-CTT-TTATATTATATA-TATACTT
2119566 TATATATATATATAC-T-TATACTTTATATTATTATATATATAC-T
1 TATATAT-TATATACTTATATACTTT-TA-TATTATATATATACTT
* * *
2119609 TATATA-TATATA--TATATA--TATATATATATAATTTATA-GT
1 TATATATTATATACTTATATACTTTTATAT-TAT-ATATATACTT
2119648 T-TATA-TATATACTTATATACTTT
1 TATATATTATATACTTATATACTTT
2119671 ATTTAAACTA
Statistics
Matches: 231, Mismatches: 14, Indels: 64
0.75 0.05 0.21
Matches are distributed among these distances:
37 3 0.01
38 15 0.06
39 9 0.04
40 12 0.05
41 28 0.12
42 59 0.26
43 25 0.11
44 64 0.28
45 16 0.07
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (43 bp):
TATATATTATATACTTATATACTTTTATATTATATATATACTT
Found at i:2119711 original size:323 final size:322
Alignment explanation
Indices: 2119078--2119720 Score: 690
Period size: 323 Copynumber: 2.0 Consensus size: 322
2119068 TATATATATA
*
2119078 TATATACTTTATACTTTATATATATATATATATACTTTATATTTAATACTTATATACTTTATATA
1 TATATACTTTATACTTTATATATATATATATATAATTTATATTTAATACTTATATACTTTATATA
** *
2119143 TACTTATATACTTTATATTTAATACGTATATATATTTATATTATATCTTTATATATTTTATATTA
66 TACTTATATACTTTATATTTAATACGTATATATATTTATATTATATCAGTATATACTTTATATTA
* * * *
2119208 TATGCTTATATACTTTATTCTTTATAATATACTTATATTTTATATTATTATATATGTATATATAC
131 TATACTTATATACCTTATTATTTATAATATACTTATATTATATATTATTATATATGTATATATAC
*
2119273 TTTATACGAAAACTTTATATATATATATATATATATAAACTGTAAAGTAAAAGTATATATATAAA
196 TTTATAC-AAAACTTTATATATATATATATATATATAAACTATAAAGTAAAAGTATATATATAAA
* * * * *
2119338 CTATAAAGTGTGTGTATATATATATACATACTTATACTTTATATGTATATATACTTTATAGATT
260 CTATAAACTGTATGTAAATATATATACATAC-TATAATTTATATGTATATATAATTTATAGATT
* *
2119402 TATATACTTTATA--TTATTATATATGTATATATAATTTATATTTAATACTTATATATTTTATAT
1 TATATACTTTATACTTTA-TATATATATATATATAATTTATATTTAATACTTATATA-CTT-TA-
* * * *
2119465 TATATACTTGTATACTTTATA-TTATATGCTTATATACT-TTTATCTT-TAT-AGT-TATACTTT
62 TATATACTTATATACTTTATATTTA-ATACGTATATA-TATTTATATTATATCAGTATATACTTT
*
2119525 ATATTATATACTTATATACCTTGTTATTTATAATTATACTT-TATATATATATATACTTATACT-
125 ATATTATATACTTATATACCTTATTATTTATAA-TATACTTATAT-TATATAT-TA-TTATA-TA
* * * * * *
2119588 T-TATAT-TA-TTATATA-TATAC-TTATATATATATATATATATATATA-TATATAATTTATAG
185 TGTATATATACTT-TATACAAAACTTTATATATATATATATATATATAAACTATA-AAGTAAAAG
* * * * * *
2119647 TTTATATATATACTTATATACTTTATTTAAACTATATA-ACCTA-TATAATTTATACATAGTATA
248 TATATATATAAAC-TATAAACTGTATGTAAA-TATATATACATACTATAATTTAT--AT-GTATA
2119710 TATAATTTATA
308 TATAATTTATA
2119721 ATTATACATA
Statistics
Matches: 268, Mismatches: 33, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
320 12 0.04
321 41 0.15
322 23 0.09
323 98 0.37
324 35 0.13
325 15 0.06
326 42 0.16
327 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (322 bp):
TATATACTTTATACTTTATATATATATATATATAATTTATATTTAATACTTATATACTTTATATA
TACTTATATACTTTATATTTAATACGTATATATATTTATATTATATCAGTATATACTTTATATTA
TATACTTATATACCTTATTATTTATAATATACTTATATTATATATTATTATATATGTATATATAC
TTTATACAAAACTTTATATATATATATATATATATAAACTATAAAGTAAAAGTATATATATAAAC
TATAAACTGTATGTAAATATATATACATACTATAATTTATATGTATATATAATTTATAGATT
Found at i:2119946 original size:9 final size:9
Alignment explanation
Indices: 2119934--2120518 Score: 58
Period size: 9 Copynumber: 64.4 Consensus size: 9
2119924 TAATATAGTT
2119934 TATATTATA
1 TATATTATA
*
2119943 TATATACATA
1 TATAT-TATA
2119953 CTTATACTT-TA
1 --TATA-TTATA
*
2119964 TATGT-ATA
1 TATATTATA
2119972 TATACTT-TA
1 TATA-TTATA
2119981 TATACTTATA
1 TATA-TTATA
2119991 TTTTATATTATA
1 --T-ATATTATA
2120003 TAT-TTATA
1 TATATTATA
2120011 TACT-TTA-A
1 TA-TATTATA
*
2120019 TCT-TTATAA
1 TATATTAT-A
2120028 TTATACTTTATA
1 -TATA-T-TATA
*
2120040 TATATAATA
1 TATATTATA
2120049 TATACTTATA
1 TATA-TTATA
*
2120059 -CT-TTATA
1 TATATTATA
2120066 T-TATTATGTA
1 TATATTA--TA
2120076 TATATTATA
1 TATATTATA
2120085 TATA-TATA
1 TATATTATA
2120093 TATAGTTTATA
1 TATA--TTATA
*
2120104 TATATACATA
1 TATAT-TATA
2120114 TATACTT-TA
1 TATA-TTATA
*
2120123 TAT-TTAAA
1 TATATTATA
* *
2120131 CTACATAAACTA
1 -TATAT-TA-TA
2120143 TATAATTTATA
1 TAT-A-TTATA
*
2120154 CATAGTGTATA
1 TATA-T-TATA
2120165 TA-ATT-TA
1 TATATTATA
*
2120172 TA-ACTATA
1 TATATTATA
* *
2120180 CATAGTATA
1 TATATTATA
2120189 TA-A--ATA
1 TATATTATA
*
2120195 TAAACTGTATA
1 TATA-T-TATA
*
2120206 TAT-TTAAA
1 TATATTATA
2120214 TATAATTCATA
1 TAT-ATT-ATA
2120225 TATAATT-TA
1 TAT-ATTATA
*
2120234 TATA-TAAA
1 TATATTATA
* *
2120242 CTATATAATT
1 -TATATTATA
2120252 TATATTA-A
1 TATATTATA
* *
2120260 TAAATTCTA
1 TATATTATA
2120269 TAGT-TTATA
1 TA-TATTATA
2120278 TATA-TAGT-
1 TATATTA-TA
2120286 T-T-TTATA
1 TATATTATA
*
2120293 TATAATATA
1 TATATTATA
2120302 TATACTT-TA
1 TATA-TTATA
*
2120311 TATATACACTA
1 TATAT-TA-TA
2120322 TATAGTTTATA
1 TATA--TTATA
* *
2120333 CATAATATA
1 TATATTATA
*
2120342 CATAGTT-TA
1 TATA-TTATA
*
2120351 TGTA-TATA
1 TATATTATA
2120359 -ATA-TATA
1 TATATTATA
2120366 TACT-TTATA
1 TA-TATTATA
2120375 TATA-TACTA
1 TATATTA-TA
2120384 TATAGTTTATA
1 TATA--TTATA
* *
2120395 CATAATATA
1 TATATTATA
2120404 TATAGTT-TA
1 TATA-TTATA
2120413 TATA-TAGTA
1 TATATTA-TA
2120422 TATA--ATA
1 TATATTATA
2120429 -ATATTAATA
1 TATATT-ATA
* *
2120438 TAAACTATA
1 TATATTATA
2120447 TAGT-TTATA
1 TA-TATTATA
*
2120456 TATATAATA
1 TATATTATA
*
2120465 TATA-TACTT
1 TATATTA-TA
2120474 TATATT-TA
1 TATATTATA
*
2120482 -A-ACTATA
1 TATATTATA
2120489 TAGT-TTATA
1 TA-TATTATA
* *
2120498 CATAATATA
1 TATATTATA
2120507 TATA-TATA
1 TATATTATA
2120515 TATA
1 TATA
2120519 GTTCTTGTAA
Statistics
Matches: 422, Mismatches: 64, Indels: 181
0.63 0.10 0.27
Matches are distributed among these distances:
6 11 0.03
7 37 0.09
8 71 0.17
9 177 0.42
10 37 0.09
11 62 0.15
12 18 0.04
13 9 0.02
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (9 bp):
TATATTATA
Found at i:2120457 original size:453 final size:443
Alignment explanation
Indices: 2119576--2120458 Score: 1101
Period size: 453 Copynumber: 2.0 Consensus size: 443
2119566 TATATATATA
*
2119576 TATACTTATACTTTATATTATTATATATATACTTATATATATATATATATATATATATATATAAT
1 TATAATTATACTTTATATTATTATATATATACTTATATATATATATATATATATATATATATAAT
* * * *
2119641 TTATAGTTTATATATATACTTATATACTTTATTTAAACTATATAACCTATATAATTTATACATAG
66 ATATAGTTTATATATATACATATATACTTTATTTAAACTACATAAACTATATAATTTATACATAG
* **
2119706 TATATATAATTTATAATTATACATAATATATAAATATAAGTTGTATATATTTAAATATAATTCAT
131 TATATATAATTTATAACTATACATAATATATAAATATAAACTGTATATATTTAAATATAATTCAT
*
2119771 ATATAATTTATATTTAAACTATATAATTTATATTAATAAACTATATATTTTATATATAGTTCAAT
196 ATATAATTTATATATAAACTATATAATTTATATTAATAAACTATATATTTTATATATAGTT--AT
* * * * *
2119836 AGTTCATTTATAAACTATATAGTTTATACATAATATATATATATAGTTTATATATAGTATATAAT
259 A-TTCATATATAAACTATATACTTTATA-ATAATACATATATATAGTTTATACATAATATATAAT
* * * *
2119901 TTAAATATAAACTATATAGTTTATAATATAGTTTATATTATATATATACATACTTATACTTTATA
322 TTAAATATAAACTATATACTTTATAATATACTATATATTATATACATACATACTTATACTTTATA
* * * * * * *
2119966 TGTATATATACTTTATATACTTATATTTTATATTATATATTTATATACTTTAATCTT
387 TATATATATAATATATATAATTAAACTATATATTATATATTTATATACTTTAATCTT
* *
2120023 TATAATTATACTTTATA-TA-TATAATATATACTTATACTTTATATTATTATGTATATATTATAT
1 TATAATTATACTTTATATTATTAT-ATATATACTTATA-TATATA-TA-TATATATATA-TATAT
2120086 ATATATATATAGTTTATATATATACATATATACTTTATATTTAAACTACATAAACTATATAATTT
61 ATA-ATATATAGTTTATATATATACATATATAC-TT-TATTTAAACTACATAAACTATATAATTT
* *
2120151 ATACATAGTGTATATAATTTATAACTATACATAGTATATAAATATAAACTGTATATATTTAAATA
123 ATACATAGTATATATAATTTATAACTATACATAATATATAAATATAAACTGTATATATTTAAATA
* *
2120216 TAATTCATATATAATTTATATATAAACTATATAATTTATATTAATAAATTCTATAGTTTATATAT
188 TAATTCATATATAATTTATATATAAACTATATAATTTATATTAATAAACTATATA-TTT-TATAT
*
2120281 ATAGTT-T-TT-ATATATAATA-TATATACTTTAT-AT-ATACA-CTATATAGTTTATACATAAT
251 ATAGTTATATTCATATATAA-ACTATATACTTTATAATAATACATATATATAGTTTATACATAAT
* *
2120339 ATACATAGTTTATGTATATAATA-TATATACTTTATATATATACTATATAGTT-TATACATA-AT
315 AT--ATAATTTA--AATATAA-ACTATATACTTTATA-ATATACTATATA-TTATATACATACAT
*
2120401 A-TATATAGTTTATATATAGTATATAATA-ATATTAATATAAACTATATAGTTTATATAT
373 ACT-TATACTTTATATATA-TATATAATATATA-TAAT-TAAACTATATA--TTATATAT
2120459 ATAATATATA
Statistics
Matches: 377, Mismatches: 35, Indels: 42
0.83 0.08 0.09
Matches are distributed among these distances:
445 22 0.06
446 19 0.05
447 30 0.08
448 3 0.01
449 64 0.17
450 39 0.10
451 37 0.10
452 3 0.01
453 146 0.39
454 3 0.01
455 11 0.03
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (443 bp):
TATAATTATACTTTATATTATTATATATATACTTATATATATATATATATATATATATATATAAT
ATATAGTTTATATATATACATATATACTTTATTTAAACTACATAAACTATATAATTTATACATAG
TATATATAATTTATAACTATACATAATATATAAATATAAACTGTATATATTTAAATATAATTCAT
ATATAATTTATATATAAACTATATAATTTATATTAATAAACTATATATTTTATATATAGTTATAT
TCATATATAAACTATATACTTTATAATAATACATATATATAGTTTATACATAATATATAATTTAA
ATATAAACTATATACTTTATAATATACTATATATTATATACATACATACTTATACTTTATATATA
TATATAATATATATAATTAAACTATATATTATATATTTATATACTTTAATCTT
Found at i:2120477 original size:11 final size:10
Alignment explanation
Indices: 2119549--2120478 Score: 110
Period size: 11 Copynumber: 89.9 Consensus size: 10
2119539 TATACCTTGT
2119549 TATTTATAATTA
1 TATTTAT-A-TA
2119561 TACTTTATATA
1 TA-TTTATATA
*
2119572 TATATATACTTA
1 TATTTATA--TA
2119584 TACTTTATAT-
1 TA-TTTATATA
2119594 TATTATATATA
1 TATT-TATATA
*
2119605 TACTTATATA
1 TATTTATATA
*
2119615 TATATATATA
1 TATTTATATA
*
2119625 TATATATATA
1 TATTTATATA
* *
2119635 TA-TAATTTA
1 TATTTATATA
2119644 TAGTTTATATA
1 TA-TTTATATA
2119655 TATACTTATATA
1 TAT--TTATATA
* *
2119667 -CTTTATTTA
1 TATTTATATA
**
2119676 -AACTATATA
1 TATTTATATA
**
2119685 -ACCTATATA
1 TATTTATATA
*
2119694 -ATTTATACA
1 TATTTATATA
*
2119703 TA-GTATATA
1 TATTTATATA
2119712 TAATTTATA-A
1 T-ATTTATATA
* *
2119722 T-TATACATAA
1 TATTTATAT-A
* *
2119732 TATATAAATA
1 TATTTATATA
* *
2119742 TAAGTTGTATA
1 T-ATTTATATA
*
2119753 TATTTAAATA
1 TATTTATATA
*
2119763 TAATTCATATA
1 T-ATTTATATA
*
2119774 TAATTTATATT
1 T-ATTTATATA
**
2119785 TAAACTATATA
1 T-ATTTATATA
2119796 -ATTTATAT-
1 TATTTATATA
**
2119804 TAATAAACTATA
1 T-ATTTA-TATA
2119816 TATTTTATATA
1 TA-TTTATATA
*
2119827 TAGTTCA-ATA
1 TA-TTTATATA
2119837 GTTCATTTATA-A
1 --T-ATTTATATA
*
2119849 -A-CTATATA
1 TATTTATATA
*
2119857 GT-TTATACATAA
1 -TATT-TATAT-A
*
2119869 TATATATATA
1 TATTTATATA
2119879 TAGTTTATATA
1 TA-TTTATATA
*
2119890 TA-GTATATA
1 TATTTATATA
2119899 -ATTTA-A-A
1 TATTTATATA
**
2119906 TATAAACTATA
1 TATTTA-TATA
2119917 TAGTTTATAATA
1 TA-TTTAT-ATA
2119929 TAGTTTATATTA
1 TA-TTTATA-TA
* *
2119941 TATATATACA
1 TATTTATATA
*
2119951 TACTTATACTTTA
1 TA-TT-TA-TATA
*
2119964 TATGTATATA
1 TATTTATATA
*
2119974 TACTT-TATA
1 TATTTATATA
*
2119983 TA-CT-TATA
1 TATTTATATA
2119991 T-TTTATATTA
1 TATTTATA-TA
2120001 TATATT-TATA
1 TAT-TTATATA
*
2120011 TACTT-TA-A
1 TATTTATATA
*
2120019 TCTTTATAATTA
1 TATTTAT-A-TA
2120031 TACTTTATATA
1 TA-TTTATATA
*
2120042 TA-TAATATA
1 TATTTATATA
* *
2120051 TACTTATACTT
1 TATTTATA-TA
*
2120062 TATATTATTATG
1 TAT-TTA-TATA
*
2120074 TATATATTATA
1 TATTTA-TATA
*
2120085 TATATATATA
1 TATTTATATA
2120095 TAGTTTATATA
1 TA-TTTATATA
**
2120106 TATACATATA
1 TATTTATATA
*
2120116 TACTTTATATT
1 TA-TTTATATA
** *
2120127 TAAACTACATA
1 T-ATTTATATA
**
2120138 -AACTATATA
1 TATTTATATA
*
2120147 -ATTTATACA
1 TATTTATATA
*
2120156 TAGTGTATATA
1 TA-TTTATATA
2120167 -ATTTATA-A
1 TATTTATATA
**
2120175 CTATACATAGTA
1 -TATTTATA-TA
**
2120187 TATAAATATA
1 TATTTATATA
** *
2120197 -AACTGTATA
1 TATTTATATA
*
2120206 TATTTAAATA
1 TATTTATATA
*
2120216 TAATTCATATA
1 T-ATTTATATA
2120227 TAATTTATATA
1 T-ATTTATATA
**
2120238 TAAACTATATA
1 T-ATTTATATA
2120249 -ATTTATATTAA
1 TATTTATA-T-A
* *
2120260 TAAATTCTATA
1 T-ATTTATATA
2120271 GT-TTATATATA
1 -TATT-TATATA
*
2120282 TAGTTTTTATA
1 TA-TTTATATA
*
2120293 TATAATATATA
1 TAT-TTATATA
2120304 TACTTTATATA
1 TA-TTTATATA
*
2120315 TA--CACTATA
1 TATTTA-TATA
*
2120324 TAGTTTATACA
1 TA-TTTATATA
* *
2120335 TA-ATATACA
1 TATTTATATA
*
2120344 TAGTTTATGTA
1 TA-TTTATATA
*
2120355 TATAATATATA
1 TAT-TTATATA
2120366 TACTTTATATA
1 TA-TTTATATA
2120377 TA--TACTATA
1 TATTTA-TATA
*
2120386 TAGTTTATACA
1 TA-TTTATATA
*
2120397 TA-ATATATA
1 TATTTATATA
2120406 TAGTTTATATA
1 TA-TTTATATA
*
2120417 TAGTATATAATAA
1 TA-TTTAT-AT-A
*
2120430 TATTAATATA
1 TATTTATATA
**
2120440 -AACTATATA
1 TATTTATATA
*
2120449 -GTTTATATA
1 TATTTATATA
*
2120458 TATAATATATA
1 TAT-TTATATA
2120469 TACTTTATAT
1 TA-TTTATAT
2120479 TTAAACTATA
Statistics
Matches: 666, Mismatches: 152, Indels: 201
0.65 0.15 0.20
Matches are distributed among these distances:
7 5 0.01
8 26 0.04
9 142 0.21
10 121 0.18
11 268 0.40
12 73 0.11
13 31 0.05
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (10 bp):
TATTTATATA
Found at i:2120508 original size:20 final size:20
Alignment explanation
Indices: 2119559--2120510 Score: 299
Period size: 20 Copynumber: 46.2 Consensus size: 20
2119549 TATTTATAAT
*
2119559 TATACTTTATATATATATATA
1 TATAGTTTATATATA-ATATA
* *
2119580 CTTATACTTTATATTATTATATA
1 --TATAGTTTATA-TATAATATA
*
2119603 TATACTTATATATATATATATA
1 TATAGTT-TATATATA-ATATA
*
2119625 TATA-TATATATATAAT-T-
1 TATAGTTTATATATAATATA
2119642 TATAGTTTATATATATACTTATA
1 TATAGTTTATATATA-A--TATA
**
2119665 TACTTTA-TTTAAACTATATAACCTA
1 TA---TAGTTT--A-TATATAATATA
* * *
2119690 TATAATTTATACATAGTATA
1 TATAGTTTATATATAATATA
* * *
2119710 TATAATTTATA-ATTATACA
1 TATAGTTTATATATAATATA
* * *
2119729 TAATA-TATAAATATAAGTTGTA
1 T-ATAGTTTATATATAA--TATA
*
2119751 TATA-TTTAAATATAATTCATA
1 TATAGTTTATATATAA-T-ATA
* *
2119772 TATAATTTATATTTAA-ACTA
1 TATAGTTTATATATAATA-TA
*
2119792 TATAATTTATAT-TAATAAACTA
1 TATAGTTTATATATAAT--A-TA
* *
2119814 TATATTTTATATATAGT-TCA
1 TATAGTTTATATATAATAT-A
* *
2119834 -ATAGTTCATTTATAA-ACTA
1 TATAGTTTATATATAATA-TA
2119853 TATAGTTTATACATAATATATATA
1 TATAGTTTAT--AT-ATA-ATATA
*
2119877 TATAGTTTATATATAGTATA
1 TATAGTTTATATATAATATA
*
2119897 TA-A-TTTAAATATAA-ACTA
1 TATAGTTTATATATAATA-TA
*
2119915 TATAGTTTATA-AT-ATAGTT
1 TATAGTTTATATATAATA-TA
2119934 TATA-TTATATATATACATACT-
1 TATAGTT-TATATATA-ATA-TA
* *
2119955 TATA-CTT-TATAT-GTATA
1 TATAGTTTATATATAATATA
* *
2119972 TATA-CTT-TATATACT-TA
1 TATAGTTTATATATAATATA
*
2119989 TAT--TTTATATTATATATTTA
1 TATAGTTTATA-TATA-ATATA
* *
2120009 TATACTTTAATCTTTATAAT-TA
1 TATAGTTT-A--TATATAATATA
2120031 TACT--TTATATATATAATATATA
1 TA-TAGTT-TATATAT-A-ATATA
* * *
2120053 CTTATACTTTATAT-TATTATG
1 --TATAGTTTATATATAATATA
2120074 TATA-TATTATATAT-ATATA
1 TATAGT-TTATATATAATATA
*
2120093 TATAGTTTATATATATACATA
1 TATAGTTTATATATA-ATATA
* *
2120114 TATACTTTATATTTAA-ACTA
1 TATAGTTTATATATAATA-TA
* *** *
2120134 CATAAACTATATA-ATTTATA
1 TATAGTTTATATATA-ATATA
*
2120154 CATAGTGTATATAATTTATAACTATA
1 TATAGT-T-TAT-A--TATAA-TATA
* * *
2120180 CATAGTATATAAATATAAACTGTA
1 TATAGT-T-TATATAT-AA-TATA
*
2120204 TATA-TTTAAATATAATTCATA
1 TATAGTTTATATATAA-T-ATA
*
2120225 TATAATTTATATATAA-ACTA
1 TATAGTTTATATATAATA-TA
*
2120245 TATAATTTATAT-TAATA-A
1 TATAGTTTATATATAATATA
* *
2120263 -AT--TCTATAGT-TTATATA
1 TATAGTTTATA-TATAATATA
2120280 TATAGTTTTTATATATAATATA
1 TATAG--TTTATATATAATATA
* *
2120302 TATACTTTATATATACA-CTA
1 TATAGTTTATATATA-ATATA
*
2120322 TATAGTTTATACATAATATA
1 TATAGTTTATATATAATATA
*
2120342 CATAGTTTATGTATATAATATA
1 TATAGTTTA--TATATAATATA
*
2120364 TATACTTTATATAT-ATACTA
1 TATAGTTTATATATAATA-TA
*
2120384 TATAGTTTATACATAATATA
1 TATAGTTTATATATAATATA
*
2120404 TATAGTTTATATATAGTATA
1 TATAGTTTATATATAATATA
*
2120424 TAATAATATTA-ATATAA-ACTA
1 T-ATAGT-TTATATATAATA-TA
2120445 TATAGTTTATATATATAATATA
1 TATAG-TT-TATATATAATATA
* *
2120467 TATACTTTATATTTAA-ACTA
1 TATAGTTTATATATAATA-TA
*
2120487 TATAGTTTATACATAATATA
1 TATAGTTTATATATAATATA
2120507 TATA
1 TATA
2120511 TATATATAGT
Statistics
Matches: 729, Mismatches: 93, Indels: 217
0.70 0.09 0.21
Matches are distributed among these distances:
15 5 0.01
16 8 0.01
17 29 0.04
18 35 0.05
19 90 0.12
20 224 0.31
21 102 0.14
22 122 0.17
23 39 0.05
24 36 0.05
25 14 0.02
26 17 0.02
27 2 0.00
28 6 0.01
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (20 bp):
TATAGTTTATATATAATATA
Found at i:2124262 original size:28 final size:28
Alignment explanation
Indices: 2124209--2124262 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
2124199 AAAATATTTT
* * *
2124209 AATCTTTAATATTTTATTTTAAGATAAA
1 AATCTCTAATATTTTAATTAAAGATAAA
2124237 AATCTCTAATA-TTTAATTAAATGATA
1 AATCTCTAATATTTTAATTAAA-GATA
2124263 CTATATAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (28 bp):
AATCTCTAATATTTTAATTAAAGATAAA
Found at i:2127198 original size:24 final size:24
Alignment explanation
Indices: 2127158--2127203 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2127148 CATTAAAAAA
* *
2127158 AATTAATTATATTATTATTATAAT
1 AATTAATTATATAATTAATATAAT
2127182 AATTAA-TATTATAATTAATATA
1 AATTAATTA-TATAATTAATATA
2127204 CTTTCATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATTAATTATATAATTAATATAAT
Found at i:2129489 original size:16 final size:16
Alignment explanation
Indices: 2129465--2129495 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2129455 GTTCTTTCGT
*
2129465 GAAATGAAAAAGAAAA
1 GAAAAGAAAAAGAAAA
2129481 GAAAAGAAAAAGAAA
1 GAAAAGAAAAAGAAA
2129496 TACCTCTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (16 bp):
GAAAAGAAAAAGAAAA
Found at i:2131986 original size:16 final size:17
Alignment explanation
Indices: 2131965--2131999 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2131955 GGAGTCTTTC
2131965 TTACTTT-ATTACATCA
1 TTACTTTAATTACATCA
*
2131981 TTACTTTAATTATATCA
1 TTACTTTAATTACATCA
2131998 TT
1 TT
2132000 CATTCACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (17 bp):
TTACTTTAATTACATCA
Found at i:2132638 original size:22 final size:22
Alignment explanation
Indices: 2132613--2132670 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
2132603 ACTTTGGACC
* *
2132613 AAGTTGCTGAAAAGTAGATTGA
1 AAGTAGCTGAAAAGTAGATGGA
* * *
2132635 AAGTAACTGAAAGGTAGCTGGA
1 AAGTAGCTGAAAAGTAGATGGA
*
2132657 GAGTAGCTGAAAAG
1 AAGTAGCTGAAAAG
2132671 CTTACAAGAC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.31, T:0.21
Consensus pattern (22 bp):
AAGTAGCTGAAAAGTAGATGGA
Found at i:2138349 original size:34 final size:34
Alignment explanation
Indices: 2138268--2138351 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 34
2138258 TGCATTTAAA
* * *
2138268 GCATCTAGTTCATTTAGGAAAGTAGTTTATTTAT
1 GCATCTAGTTCATTTAGGAAAGTACTTCATTCAT
* * * *
2138302 GTATTTAGATCATTTA-GTAAGCTACTTCATTCAT
1 GCATCTAGTTCATTTAGGAAAG-TACTTCATTCAT
2138336 GCATCTAGTTCATTTA
1 GCATCTAGTTCATTTA
2138352 ATAAAGTTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (34 bp):
GCATCTAGTTCATTTAGGAAAGTACTTCATTCAT
Found at i:2139104 original size:21 final size:23
Alignment explanation
Indices: 2139078--2139128 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
2139068 ATTTATAAGT
2139078 TGGTGATAATATA-GCGTGAT-A
1 TGGTGATAATATAGGCGTGATAA
*
2139099 TGGTGATGATATAGGCGTGATAA
1 TGGTGATAATATAGGCGTGATAA
2139122 TGGTGAT
1 TGGTGAT
2139129 GGACTATGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 12 0.44
22 7 0.26
23 8 0.30
ACGTcount: A:0.29, C:0.04, G:0.33, T:0.33
Consensus pattern (23 bp):
TGGTGATAATATAGGCGTGATAA
Found at i:2139128 original size:23 final size:23
Alignment explanation
Indices: 2139078--2139201 Score: 91
Period size: 23 Copynumber: 5.3 Consensus size: 23
2139068 ATTTATAAGT
*
2139078 TGGTGATAATATA-GCGTGAT-A
1 TGGTGATGATATAGGCGTGATAA
2139099 TGGTGATGATATAGGCGTGATAA
1 TGGTGATGATATAGGCGTGATAA
*
2139122 TGGTGATGGACTAT-GGTGATGAT-A
1 TGGTGAT-GA-TATAGGCG-TGATAA
* *
2139146 TGG-GCGTGATA-ATG-GTGATGGAATA
1 TGGTG-ATGATATAGGCGTGAT---A-A
2139171 TGGTGATGATATAGGCGTGATAA
1 TGGTGATGATATAGGCGTGATAA
2139194 TGGTGATG
1 TGGTGATG
2139202 GACTATGGTG
Statistics
Matches: 82, Mismatches: 6, Indels: 28
0.71 0.05 0.24
Matches are distributed among these distances:
20 4 0.05
21 13 0.16
22 10 0.12
23 20 0.24
24 11 0.13
25 16 0.20
26 3 0.04
27 5 0.06
ACGTcount: A:0.28, C:0.04, G:0.36, T:0.31
Consensus pattern (23 bp):
TGGTGATGATATAGGCGTGATAA
Found at i:2139139 original size:13 final size:12
Alignment explanation
Indices: 2139095--2139239 Score: 71
Period size: 11 Copynumber: 12.2 Consensus size: 12
2139085 AATATAGCGT
2139095 GATATGGTGAT-
1 GATATGGTGATG
*
2139106 GATATAGGCG-T-
1 GATAT-GGTGATG
2139117 GATAATGGTGATG
1 GAT-ATGGTGATG
2139130 GACTATGGTGAT-
1 GA-TATGGTGATG
*
2139142 GATATGG-G-CG
1 GATATGGTGATG
2139152 TGATAATGGTGATG
1 -GAT-ATGGTGATG
2139166 GAATATGGTGAT-
1 G-ATATGGTGATG
*
2139178 GATATAGGCG-T-
1 GATAT-GGTGATG
2139189 GATAATGGTGATG
1 GAT-ATGGTGATG
2139202 GACTATGGTGAT-
1 GA-TATGGTGATG
*
2139214 GATATAGGCG-T-
1 GATAT-GGTGATG
2139225 GATAATGGTGATG
1 GAT-ATGGTGATG
2139238 GA
1 GA
2139240 CAGATTGTAT
Statistics
Matches: 106, Mismatches: 8, Indels: 38
0.70 0.05 0.25
Matches are distributed among these distances:
10 1 0.01
11 41 0.39
12 27 0.25
13 32 0.30
14 5 0.05
ACGTcount: A:0.28, C:0.04, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:2139140 original size:36 final size:36
Alignment explanation
Indices: 2139097--2139240 Score: 270
Period size: 36 Copynumber: 4.0 Consensus size: 36
2139087 TATAGCGTGA
2139097 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
* *
2139133 TATGGTGATGATATGGGCGTGATAATGGTGATGGAA
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
2139169 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
2139205 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
2139241 AGATTGTATC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 104 1.00
ACGTcount: A:0.28, C:0.05, G:0.37, T:0.31
Consensus pattern (36 bp):
TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
Found at i:2139233 original size:23 final size:24
Alignment explanation
Indices: 2139100--2139237 Score: 78
Period size: 23 Copynumber: 5.8 Consensus size: 24
2139090 AGCGTGATAT
* *
2139100 GGTGATGATATAGGCG-TGATA-AT
1 GGTGATGATAT-GGTGATGATATAG
2139123 GGTGATGGACTATGGTGATGATAT-G
1 GGTGAT-GA-TATGGTGATGATATAG
* *
2139148 GGCG-TGATAATGGTGATGGA-ATAT
1 GGTGATGAT-ATGGTGAT-GATATAG
* *
2139172 GGTGATGATATAGGCG-TGATA-AT
1 GGTGATGATAT-GGTGATGATATAG
2139195 GGTGATGGACTATGGTGATGATATAG
1 GGTGAT-GA-TATGGTGATGATATAG
2139221 GCGTGAT-A-ATGGTGATG
1 G-GTGATGATATGGTGATG
2139238 GACAGATTGT
Statistics
Matches: 92, Mismatches: 8, Indels: 30
0.71 0.06 0.23
Matches are distributed among these distances:
22 1 0.01
23 37 0.40
24 20 0.22
25 27 0.29
26 2 0.02
27 5 0.05
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.30
Consensus pattern (24 bp):
GGTGATGATATGGTGATGATATAG
Found at i:2143593 original size:13 final size:12
Alignment explanation
Indices: 2143574--2143731 Score: 106
Period size: 11 Copynumber: 13.2 Consensus size: 12
2143564 ATATAGGCGT
2143574 GATATGGTGATG
1 GATATGGTGATG
2143586 GAATATGGTGAT-
1 G-ATATGGTGATG
2143598 GATATAGGTG-T-
1 GATAT-GGTGATG
2143609 GATAATGGTGATG
1 GAT-ATGGTGATG
2143622 GACTATGGTGAT-
1 GA-TATGGTGATG
*
2143634 GATATGG-G-CG
1 GATATGGTGATG
2143644 TGATAATGGTGATG
1 -GAT-ATGGTGATG
2143658 GAATATGGTGAT-
1 G-ATATGGTGATG
2143670 GATATAGGTG-T-
1 GATAT-GGTGATG
2143681 GATAATGGTGATG
1 GAT-ATGGTGATG
2143694 GACTATGGTGAT-
1 GA-TATGGTGATG
*
2143706 GATATAGGCG-T-
1 GATAT-GGTGATG
2143717 GATAATGGTGATG
1 GAT-ATGGTGATG
2143730 GA
1 GA
2143732 CAGATTGTAT
Statistics
Matches: 121, Mismatches: 4, Indels: 41
0.73 0.02 0.25
Matches are distributed among these distances:
10 1 0.01
11 42 0.35
12 31 0.26
13 42 0.35
14 5 0.04
ACGTcount: A:0.28, C:0.03, G:0.37, T:0.32
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:2143618 original size:23 final size:24
Alignment explanation
Indices: 2143573--2143709 Score: 105
Period size: 25 Copynumber: 5.7 Consensus size: 24
2143563 AATATAGGCG
2143573 TGATAT-GGTGATGGA-ATATGGTGA
1 TGATATAGGTGAT-GATA-ATGGTGA
2143597 TGATATAGGTG-TGATAATGGTGA
1 TGATATAGGTGATGATAATGGTGA
*
2143620 TGGACTAT-GGTGATGAT-ATGG-GCG
1 T-GA-TATAGGTGATGATAATGGTG-A
2143644 TGATA-ATGGTGATGGA-ATATGGTGA
1 TGATATA-GGTGAT-GATA-ATGGTGA
2143669 TGATATAGGTG-TGATAATGGTGA
1 TGATATAGGTGATGATAATGGTGA
2143692 TGGACTAT-GGTGATGATA
1 T-GA-TATAGGTGATGATA
2143710 TAGGCGTGAT
Statistics
Matches: 94, Mismatches: 2, Indels: 33
0.73 0.02 0.26
Matches are distributed among these distances:
22 2 0.02
23 29 0.31
24 29 0.31
25 32 0.34
26 2 0.02
ACGTcount: A:0.28, C:0.02, G:0.36, T:0.33
Consensus pattern (24 bp):
TGATATAGGTGATGATAATGGTGA
Found at i:2143629 original size:36 final size:36
Alignment explanation
Indices: 2143556--2143732 Score: 293
Period size: 36 Copynumber: 4.9 Consensus size: 36
2143546 ATTTATAAGT
* *
2143556 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
2143591 TGGTGATGATATAGGTGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
* *
2143627 TGGTGATGATATGGGCGTGATAATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
2143663 TGGTGATGATATAGGTGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
2143699 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
2143733 AGATTGTATC
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
35 19 0.15
36 112 0.85
ACGTcount: A:0.28, C:0.03, G:0.37, T:0.32
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:2143664 original size:72 final size:72
Alignment explanation
Indices: 2143556--2143731 Score: 327
Period size: 72 Copynumber: 2.5 Consensus size: 72
2143546 ATTTATAAGT
*
2143556 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATATGGTGATGATATAGGTGTGATAATGGTGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATATGGTGATGATATAGGTGTGATAATGGTGA
2143620 TGGACTA
66 TGGACTA
*
2143627 TGGTGATGATATGGGCGTGATAATGGTGATGGAATATGGTGATGATATAGGTGTGATAATGGTGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATATGGTGATGATATAGGTGTGATAATGGTGA
2143692 TGGACTA
66 TGGACTA
2143699 TGGTGATGATATAGGCGTGATAATGGTGATGGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGA
2143732 CAGATTGTAT
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 19 0.19
72 82 0.81
ACGTcount: A:0.28, C:0.03, G:0.37, T:0.32
Consensus pattern (72 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATATGGTGATGATATAGGTGTGATAATGGTGA
TGGACTA
Found at i:2143725 original size:23 final size:24
Alignment explanation
Indices: 2143556--2143729 Score: 111
Period size: 23 Copynumber: 7.3 Consensus size: 24
2143546 ATTTATAAGT
* *
2143556 TGGTGATAATATA-GGCG-TGATA
1 TGGTGATGATATAGGGTGATGATA
*
2143578 TGGTGATGGA-ATATGGTGATGATA
1 TGGTGAT-GATATAGGGTGATGATA
*
2143602 TAGGTG-TGATA-ATGGTGATGGACTA
1 T-GGTGATGATATAGGGTGAT-GA-TA
*
2143627 TGGTGATGATAT-GGGCG-TGATAA
1 TGGTGATGATATAGGGTGATGAT-A
*
2143650 TGGTGATGGA-ATATGGTGATGATA
1 TGGTGAT-GATATAGGGTGATGATA
*
2143674 TAGGTG-TGATA-ATGGTGATGGACTA
1 T-GGTGATGATATAGGGTGAT-GA-TA
2143699 TGGTGATGATATAGGCGTGAT-A-A
1 TGGTGATGATATAGG-GTGATGATA
2143722 TGGTGATG
1 TGGTGATG
2143730 GACAGATTGT
Statistics
Matches: 125, Mismatches: 7, Indels: 39
0.73 0.04 0.23
Matches are distributed among these distances:
22 11 0.09
23 45 0.36
24 30 0.24
25 32 0.26
26 2 0.02
27 5 0.04
ACGTcount: A:0.28, C:0.03, G:0.37, T:0.32
Consensus pattern (24 bp):
TGGTGATGATATAGGGTGATGATA
Found at i:2147069 original size:15 final size:15
Alignment explanation
Indices: 2147051--2147176 Score: 98
Period size: 15 Copynumber: 8.4 Consensus size: 15
2147041 AGGGTATAAC
2147051 TGAAAGTGGTAGTGT
1 TGAAAGTGGTAGTGT
2147066 TGAAAGTGGTAGTGT
1 TGAAAGTGGTAGTGT
*
2147081 TGAAAGTGGTAGTGC
1 TGAAAGTGGTAGTGT
* *
2147096 TGAAAGTGATGGTGT
1 TGAAAGTGGTAGTGT
* * *
2147111 AGAAA-TGGATAATGC
1 TGAAAGTGG-TAGTGT
*
2147126 T-AGAAGTGGTGGTGT
1 TGA-AAGTGGTAGTGT
* * *
2147141 AGAAA-TGGATACTGC
1 TGAAAGTGG-TAGTGT
2147156 TGAAA-TGGGTAGTGT
1 TGAAAGT-GGTAGTGT
2147171 TGAAAG
1 TGAAAG
2147177 GGACATTGAG
Statistics
Matches: 84, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
14 6 0.07
15 72 0.86
16 6 0.07
ACGTcount: A:0.31, C:0.03, G:0.37, T:0.29
Consensus pattern (15 bp):
TGAAAGTGGTAGTGT
Found at i:2147087 original size:30 final size:31
Alignment explanation
Indices: 2147051--2147176 Score: 120
Period size: 30 Copynumber: 4.2 Consensus size: 31
2147041 AGGGTATAAC
*
2147051 TGAAAGTGG-TAGTGTTGAAAGTGGTAGTGT
1 TGAAAGTGGATAGTGCTGAAAGTGGTAGTGT
* *
2147081 TGAAAGTGG-TAGTGCTGAAAGTGATGGTGT
1 TGAAAGTGGATAGTGCTGAAAGTGGTAGTGT
* * *
2147111 AGAAA-TGGATAATGCT-AGAAGTGGTGGTGT
1 TGAAAGTGGATAGTGCTGA-AAGTGGTAGTGT
* *
2147141 AGAAA-TGGATACTGCTGAAA-TGGGTAGTGT
1 TGAAAGTGGATAGTGCTGAAAGT-GGTAGTGT
2147171 TGAAAG
1 TGAAAG
2147177 GGACATTGAG
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.06
30 76 0.93
31 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.37, T:0.29
Consensus pattern (31 bp):
TGAAAGTGGATAGTGCTGAAAGTGGTAGTGT
Found at i:2149022 original size:20 final size:20
Alignment explanation
Indices: 2148997--2149061 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 20
2148987 TGAAATATGC
2148997 ATGTTGAAATATGTTGAGAT
1 ATGTTGAAATATGTTGAGAT
2149017 ATGTTGTTGAAATATGTTGAGAT
1 A---TGTTGAAATATGTTGAGAT
** *
2149040 ATACTGAAATATCTTGAGAT
1 ATGTTGAAATATGTTGAGAT
2149060 AT
1 AT
2149062 ACAAACCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
20 19 0.49
23 20 0.51
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (20 bp):
ATGTTGAAATATGTTGAGAT
Found at i:2149026 original size:13 final size:13
Alignment explanation
Indices: 2148986--2149035 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
2148976 TAAGTTTCTA
*
2148986 TTGAAATATGCATG
1 TTGAAATATG-TTG
2149000 TTGAAATA---TG
1 TTGAAATATGTTG
*
2149010 TTGAGATATGTTG
1 TTGAAATATGTTG
2149023 TTGAAATATGTTG
1 TTGAAATATGTTG
2149036 AGATATACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
10 9 0.29
13 14 0.45
14 8 0.26
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.42
Consensus pattern (13 bp):
TTGAAATATGTTG
Found at i:2149028 original size:23 final size:23
Alignment explanation
Indices: 2148998--2149041 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
2148988 GAAATATGCA
2148998 TGTTGAAATATGTTGAGATATGT
1 TGTTGAAATATGTTGAGATATGT
2149021 TGTTGAAATATGTTGAGATAT
1 TGTTGAAATATGTTGAGATAT
2149042 ACTGAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (23 bp):
TGTTGAAATATGTTGAGATATGT
Found at i:2149062 original size:20 final size:20
Alignment explanation
Indices: 2149024--2149063 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2149014 GATATGTTGT
*
2149024 TGAAATATGTTGAGATATAC
1 TGAAATATCTTGAGATATAC
2149044 TGAAATATCTTGAGATATAC
1 TGAAATATCTTGAGATATAC
2149064 AAACCATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (20 bp):
TGAAATATCTTGAGATATAC
Found at i:2153492 original size:4 final size:4
Alignment explanation
Indices: 2153483--2153524 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
2153473 GTCAAACACC
* *
2153483 TTTA TTTA TTTA TTT- TTAA TTTA TTTA TTT- TTAA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
2153525 GGTTTTTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 4 0.12
4 28 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:2153504 original size:15 final size:15
Alignment explanation
Indices: 2153486--2153524 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
2153476 AAACACCTTT
2153486 ATTTATTTATTTTTA
1 ATTTATTTATTTTTA
2153501 ATTTATTTATTTTTA
1 ATTTATTTATTTTTA
2153516 ATTTATTTA
1 ATTTATTTA
2153525 GGTTTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTATTTATTTTTA
Found at i:2157337 original size:7 final size:7
Alignment explanation
Indices: 2157327--2157357 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2157317 ATTATCTCCT
2157327 TTCTCTC
1 TTCTCTC
2157334 TTCTCTC
1 TTCTCTC
2157341 TTCTCTC
1 TTCTCTC
2157348 TTCTCTC
1 TTCTCTC
2157355 TTC
1 TTC
2157358 CTTCTCCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
TTCTCTC
Found at i:2157741 original size:16 final size:15
Alignment explanation
Indices: 2157720--2157755 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
2157710 TTGATTCTTC
2157720 TGTTGTTGATGTTTTT
1 TGTTGTTG-TGTTTTT
*
2157736 TGTTGTTGTTTTTTT
1 TGTTGTTGTGTTTTT
2157751 TGTTG
1 TGTTG
2157756 CTTCCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.03, C:0.00, G:0.25, T:0.72
Consensus pattern (15 bp):
TGTTGTTGTGTTTTT
Found at i:2158835 original size:23 final size:23
Alignment explanation
Indices: 2158809--2158858 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
2158799 CCTAATCAAA
2158809 AAGAAAAATTATTGTATCACATT
1 AAGAAAAATTATTGTATCACATT
2158832 AAG-AAAATTATTGTATCACATT
1 AAGAAAAATTATTGTATCACATT
2158854 -AGAAA
1 AAGAAA
2158859 GAAAAATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 2 0.08
22 21 0.81
23 3 0.12
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (23 bp):
AAGAAAAATTATTGTATCACATT
Found at i:2161286 original size:15 final size:16
Alignment explanation
Indices: 2161268--2161297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2161258 CTGTTGCTCC
2161268 TATAA-AATATTTTAG
1 TATAATAATATTTTAG
2161283 TATAATAATATTTTA
1 TATAATAATATTTTA
2161298 TATCTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TATAATAATATTTTAG
Found at i:2162021 original size:2 final size:2
Alignment explanation
Indices: 2162009--2162041 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
2161999 GAAGGCCCAC
2162009 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
2162042 TTAGAGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2163934 original size:14 final size:14
Alignment explanation
Indices: 2163915--2163942 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2163905 CAAGTTACTT
2163915 GCCACTTAAATCAA
1 GCCACTTAAATCAA
2163929 GCCACTTAAATCAA
1 GCCACTTAAATCAA
2163943 TTCCTATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (14 bp):
GCCACTTAAATCAA
Found at i:2164180 original size:60 final size:60
Alignment explanation
Indices: 2164097--2164262 Score: 165
Period size: 60 Copynumber: 2.8 Consensus size: 60
2164087 TATGACCCCT
* * * * ** *
2164097 ATTTTAAATTAGTCTTTAAACTTTTAAATGTTTCAATTTCATCTCTGAATTATGAC-TATC
1 ATTTTAAATTAGTCCTCAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACAT-TC
* *
2164157 ATTTTAAATTAGTCCTCAAACTTTTGAATATTTTAATTTCATCCCCAAACTATGACATTC
1 ATTTTAAATTAGTCCTCAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACATTC
* * * * *
2164217 ATTCTAAATTAGTCC-CTACACTTGTTGAACATTCCAATTTCATCCC
1 ATTTTAAATTAGTCCTC-AAACTT-TTAAATATTTCAATTTCATCCC
2164263 AAAATATATG
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
59 1 0.01
60 68 0.76
61 20 0.22
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (60 bp):
ATTTTAAATTAGTCCTCAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACATTC
Found at i:2165250 original size:16 final size:16
Alignment explanation
Indices: 2165231--2165263 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2165221 GAAACATTTC
*
2165231 AAAAGCTGAACAATTG
1 AAAAGATGAACAATTG
2165247 AAAAGATGAACAATTG
1 AAAAGATGAACAATTG
2165263 A
1 A
2165264 GTCGAAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (16 bp):
AAAAGATGAACAATTG
Found at i:2165305 original size:36 final size:36
Alignment explanation
Indices: 2165260--2165393 Score: 191
Period size: 36 Copynumber: 3.7 Consensus size: 36
2165250 AGATGAACAA
*
2165260 TTGAGTCGAAAGTGCTGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCACT
* *
2165296 TTGAATCGAAAGTG-TCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCT-GATGCTTCCTTCCGTTCACT
*
2165331 CTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACT
1 -TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCACT
*
2165368 TTGAATCGAAAGTGTTGATGCTTCCT
1 TTGAATCGAAAGTGCTGATGCTTCCT
2165394 GTCGTACTTC
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
35 2 0.02
36 83 0.97
37 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (36 bp):
TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCACT
Found at i:2165382 original size:72 final size:72
Alignment explanation
Indices: 2165260--2165405 Score: 247
Period size: 72 Copynumber: 2.0 Consensus size: 72
2165250 AGATGAACAA
* * *
2165260 TTGAGTCGAAAGTGCTGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTGTC
*
2165325 GTTCTTC
66 GTACTTC
*
2165332 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTTGATGCTTCCTGTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTGTC
2165397 GTACTTC
66 GTACTTC
2165404 TT
1 TT
2165406 ATTCACCTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (72 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTGTC
GTACTTC
Found at i:2168555 original size:20 final size:20
Alignment explanation
Indices: 2168530--2168577 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
2168520 TGAAAATTTC
2168530 AAAATTTTATATATTTTAAA
1 AAAATTTTATATATTTTAAA
* **
2168550 AAAA--TTATATTTTTTATT
1 AAAATTTTATATATTTTAAA
2168568 AAAATTTTAT
1 AAAATTTTAT
2168578 TTTCGTCGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 15 0.65
20 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAAATTTTATATATTTTAAA
Found at i:2169097 original size:3 final size:3
Alignment explanation
Indices: 2169085--2169115 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2169075 TGTCTTTTAA
2169085 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2169116 ATTTACACGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2173585 original size:28 final size:28
Alignment explanation
Indices: 2173548--2173608 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
2173538 TTAGGGTTCA
* *
2173548 AGTCGGGTTTTT-TAAAGTTTGATATTCG
1 AGTCGAGTTTTTGT-AAGTGTGATATTCG
2173576 AGTCGAGTTTTTGTAAGTGTGATATTCG
1 AGTCGAGTTTTTGTAAGTGTGATATTCG
*
2173604 GGTCG
1 AGTCG
2173609 GGTCGGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.20, C:0.08, G:0.30, T:0.43
Consensus pattern (28 bp):
AGTCGAGTTTTTGTAAGTGTGATATTCG
Found at i:2178176 original size:182 final size:181
Alignment explanation
Indices: 2177861--2178306 Score: 729
Period size: 182 Copynumber: 2.5 Consensus size: 181
2177851 TTAGTATCGA
*
2177861 TTTTGTCA-TTTGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* * *
2177925 TTTATAAAGAATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTAGA
66 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTAGA
* *
2177990 TACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCAG
131 TACTTATAATAAAGTAT-GACACTATCAACATATCCGGTAGCGCTTTACCAG
*
2178042 TTTTGTCATTTTGAGACCGGTTTTATCATATTATTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
* *
2178107 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTTTCGA
66 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTAGA
*
2178172 TACTTATAATAAAGTATGACACTATCAACATATCCGGTAGCGCTTTACCTG
131 TACTTATAATAAAGTATGACACTATCAACATATCCGGTAGCGCTTTACCAG
* *
2178223 TTTTGTCATTTAT-AGACCGGTTTTGTCAT-TTTTTACCTGTTATATTGTTATGAATCGATACA-
1 TTTTGTCATTT-TGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
*
2178285 TTTTATAAAGTATTGACACTTT
65 TTTTATAAAGTATCGACACTTT
2178307 CAATATCCGG
Statistics
Matches: 249, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
179 21 0.08
180 31 0.12
181 65 0.26
182 132 0.53
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (181 bp):
TTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTAGA
TACTTATAATAAAGTATGACACTATCAACATATCCGGTAGCGCTTTACCAG
Found at i:2178527 original size:111 final size:111
Alignment explanation
Indices: 2178180--2178634 Score: 722
Period size: 111 Copynumber: 4.1 Consensus size: 111
2178170 GATACTTATA
* * *
2178180 ATAAAGTAT-GACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
* *
2178244 TTTGTCATTTTTTACCTGTTATATTGTTATGAATCGATACA-TTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* *
2178289 ATAAAGTATTGACACTTTC-A-ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
*
2178352 TTTGTCATTTTTTTACCTGTTATATTGTTTTGGATCAATACATTTTT
66 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
2178399 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
*
2178464 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
**
2178510 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACAAGTTTTGTCATTTATAAACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
* * * * *
2178575 TTTGTTATTTTTTACTTGTTATATTGTT-TTGATTAATATATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
2178620 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
2178635 AAATCGACAA
Statistics
Matches: 325, Mismatches: 16, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
108 50 0.15
109 41 0.13
110 58 0.18
111 127 0.39
112 49 0.15
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.45
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
Found at i:2179693 original size:27 final size:27
Alignment explanation
Indices: 2179656--2179709 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
2179646 CGAGTTAATC
*
2179656 TTAGATAACTCGTGATCTATCTTATCT
1 TTAGACAACTCGTGATCTATCTTATCT
*
2179683 TTAGACAACTCGTGATTTATCTTATCT
1 TTAGACAACTCGTGATCTATCTTATCT
2179710 CGTTTACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (27 bp):
TTAGACAACTCGTGATCTATCTTATCT
Found at i:2179962 original size:28 final size:29
Alignment explanation
Indices: 2179912--2179970 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
2179902 TTCAAAAGAT
*
2179912 ATACCATTCTTTTCTTTGAAAACCACTCC
1 ATACCATTCTTTTCTTTAAAAACCACTCC
2179941 ATACCATTC-TTTCTTTAAAAACCACTCC
1 ATACCATTCTTTTCTTTAAAAACCACTCC
2179969 AT
1 AT
2179971 CTAAAATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.37
Consensus pattern (29 bp):
ATACCATTCTTTTCTTTAAAAACCACTCC
Found at i:2181248 original size:11 final size:10
Alignment explanation
Indices: 2181227--2181252 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2181217 TAAAGAGAAG
2181227 TTTTTTGTTT
1 TTTTTTGTTT
2181237 TTTTTTGTTT
1 TTTTTTGTTT
2181247 TTTTTT
1 TTTTTT
2181253 ATCTTAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:2183906 original size:28 final size:28
Alignment explanation
Indices: 2183856--2183912 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
2183846 ATAAAACCTG
*
2183856 ACCCGACCCGAACATCATCTTTAAAAAA
1 ACCCGACCCGAACACCATCTTTAAAAAA
*
2183884 ACCCGACCCGAAC-CCGATTTTTAAAAAA
1 ACCCGACCCGAACACC-ATCTTTAAAAAA
2183912 A
1 A
2183913 AACCCCGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.42, C:0.32, G:0.09, T:0.18
Consensus pattern (28 bp):
ACCCGACCCGAACACCATCTTTAAAAAA
Found at i:2187281 original size:30 final size:29
Alignment explanation
Indices: 2187240--2187305 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
2187230 TAACAGAAGC
* *
2187240 TTTAAAGGACTAAAATAATACAAACATGAA
1 TTTAAAGGACTAAAATAACA-AAACATAAA
*
2187270 TTTATAGGACTAAAATAACAAAACATAAA
1 TTTAAAGGACTAAAATAACAAAACATAAA
2187299 TTTAAAG
1 TTTAAAG
2187306 ACCAAATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (29 bp):
TTTAAAGGACTAAAATAACAAAACATAAA
Found at i:2189239 original size:86 final size:85
Alignment explanation
Indices: 2189104--2189272 Score: 259
Period size: 86 Copynumber: 2.0 Consensus size: 85
2189094 TTCATGAGTC
* * * *
2189104 TTGGCCATCTAAGGTGGTAATACGGTTCCACTCTGATGGGGATGGCTGGTTATCTAATTTGACAC
1 TTGGCCATCTAAGGTGATAACACGGTTCCAC-CTGATGGGGACGGCTGGTTATCTAAGTTGACAC
2189169 AACTCCTACATAATGAGGAAAT
65 -ACTCCTACATAATGAGGAAAT
*
2189191 TTGGTCATCTAAAGGTGATAACACGGTTCCA-CTGATGGGGACGGCTGGTTATCTAAGTTGACAC
1 TTGGCCATCT-AAGGTGATAACACGGTTCCACCTGATGGGGACGGCTGGTTATCTAAGTTGACAC
2189255 ACTCCTACATAATGAGGA
65 ACTCCTACATAATGAGGA
2189273 GATCTGATTA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
85 18 0.24
86 31 0.41
87 9 0.12
88 18 0.24
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (85 bp):
TTGGCCATCTAAGGTGATAACACGGTTCCACCTGATGGGGACGGCTGGTTATCTAAGTTGACACA
CTCCTACATAATGAGGAAAT
Found at i:2194142 original size:14 final size:13
Alignment explanation
Indices: 2194098--2194140 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
2194088 CTTAAAAATG
*
2194098 AAATGCAGATGCA
1 AAATGCATATGCA
2194111 AAATGCAAATATG-A
1 AAATGC--ATATGCA
2194125 AAATGCATATGCA
1 AAATGCATATGCA
2194138 AAA
1 AAA
2194141 ATATTGATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.19
13 10 0.38
14 7 0.27
15 4 0.15
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (13 bp):
AAATGCATATGCA
Found at i:2196075 original size:32 final size:32
Alignment explanation
Indices: 2196033--2196093 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2196023 GAAAAAATGA
*
2196033 CACAATCAAAAGAAATA-AAATAAGTTAGTGTG
1 CACAAACAAAAGAAA-ACAAATAAGTTAGTGTG
*
2196065 CACAAACAAAAGAAAACAAATTAGTTAGT
1 CACAAACAAAAGAAAACAAATAAGTTAGT
2196094 ACAGGTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.56, C:0.11, G:0.13, T:0.20
Consensus pattern (32 bp):
CACAAACAAAAGAAAACAAATAAGTTAGTGTG
Found at i:2198035 original size:30 final size:28
Alignment explanation
Indices: 2198000--2198067 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 28
2197990 AGAAGCTTTA
*
2198000 AAGGACCAAAATAATACAAACATAAATTT
1 AAGGACCAAAATAACA-AAACATAAATTT
*
2198029 ATAGGACTAAAATAACAAAACATAAATTT
1 A-AGGACCAAAATAACAAAACATAAATTT
*
2198058 AAAGACCAAA
1 AAGGACCAAA
2198068 TCATAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.21
29 14 0.41
30 13 0.38
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.19
Consensus pattern (28 bp):
AAGGACCAAAATAACAAAACATAAATTT
Found at i:2198057 original size:29 final size:29
Alignment explanation
Indices: 2197965--2198061 Score: 104
Period size: 31 Copynumber: 3.2 Consensus size: 29
2197955 ATTTGATGAC
* * * *
2197965 TTTAAGGGACTAAAACAACAATAACAGAAGC
1 TTTAAAGGACTAAAATAACAA-AACATAA-A
* *
2197996 TTTAAAGGACCAAAATAATACAAACATAAA
1 TTTAAAGGACTAAAATAACA-AAACATAAA
*
2198026 TTTATAGGACTAAAATAACAAAACATAAA
1 TTTAAAGGACTAAAATAACAAAACATAAA
2198055 TTTAAAG
1 TTTAAAG
2198062 ACCAAATCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 15 0.27
30 17 0.31
31 22 0.40
32 1 0.02
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.22
Consensus pattern (29 bp):
TTTAAAGGACTAAAATAACAAAACATAAA
Found at i:2206075 original size:78 final size:78
Alignment explanation
Indices: 2205992--2206150 Score: 176
Period size: 78 Copynumber: 2.0 Consensus size: 78
2205982 GAGGTAAAAG
** * *
2205992 AGAGGGATTTACTCTATTCAAATACTGCTGAGACT-AAGCTTAATGCCTCAGAAGCCCTTGCAAA
1 AGAGGGACATACTCGATTCAAATACTGCTGAGACTAAAG-GTAATGCCTCAGAAGCCCTTGCAAA
* *
2206056 GGCATTGTAAGTAA
65 GGCATTGCAAGAAA
* * * * * * * *
2206070 AGAGGGGCATGCTGGATTTAAATACTGTTGAGACTAAAGGTGATGCCTCAGATGCCCTTGCACAG
1 AGAGGGACATACTCGATTCAAATACTGCTGAGACTAAAGGTAATGCCTCAGAAGCCCTTGCAAAG
2206135 GCATTGCAAGAAA
66 GCATTGCAAGAAA
2206148 AGA
1 AGA
2206151 TGGCAGCACT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 63 0.95
79 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (78 bp):
AGAGGGACATACTCGATTCAAATACTGCTGAGACTAAAGGTAATGCCTCAGAAGCCCTTGCAAAG
GCATTGCAAGAAA
Found at i:2208509 original size:264 final size:262
Alignment explanation
Indices: 2208052--2208837 Score: 1100
Period size: 264 Copynumber: 3.0 Consensus size: 262
2208042 TGGCAGTGCT
* * * *
2208052 ACTTTAATCACAGAGTTCTCTTCTTTTGATAATGAATCTGAGACCACAACCATTGCTTGTTTTGT
1 ACTTTAACCACAGAGTCCTCTTCTTTGGATAATGAATCTGAGACCACAACCATTGCTTGTTTTGC
* * * * *
2208117 GGGCTGCAGATTTTTGCAGCCATCACTTGCATCCAGATTCCTCCGCTCCTGTTCTTCAGACTCTT
66 AGACTGCAGA-TTTTGAAGCCATCACTTGCATCCAGATTCCTCCTCTCTTGTTCTTCAGACTCTT
* * * * *
2208182 GTGTAGATTTTACTTCAGCTGGAGAATTCTCCCTTTCTGGTGCATTAGATATCATAAACTCCTGG
130 TTGTAGATTTAACTTCAGCTGGAGAA-TCTCCCTTTCTGATGCATTAGCTATCATGAACTCCTGG
*
2208247 CCTGCTTTCGCCTCCTTCGGCATTTTGTCATTATCTTCGATCTCCTCTTCCTTTGATGATTTGGC
194 CCTGCTTTCACCTCCTTCGGCATTTTGTCATTATCTTCGATCTCCTCTTCCTTTGATGATTTGGC
2208312 TTCC
259 TTCC
* * *
2208316 GCTTTAACCACAGAGTCCTCTTCTTTGGATAATGAATCCGAGATCACAATCCA-TGCTTGTTTTG
1 ACTTTAACCACAGAGTCCTCTTCTTTGGATAATGAATCTGAGACCACAA-CCATTGCTTGTTTTG
2208380 CAGACTGCAGACTTTTGAAGCCATCACTTGCATCCAGATTCCTCCTCTCTTGTTCTTCAGACTCT
65 CAGACTGCAGA-TTTTGAAGCCATCACTTGCATCCAGATTCCTCCTCTCTTGTTCTTCAGACTCT
* * * *
2208445 TTTGCAGATTTAACTTCAGCTGGAGAAGCATCCCTTTCTGATACATTAGCTATCATGGACTCCTG
129 TTTGTAGATTTAACTTCAGCTGGAGAATC-TCCCTTTCTGATGCATTAGCTATCATGAACTCCTG
* * * * *
2208510 GCCTGCTTTCACCTCCTTTGGCGTTTTGTCAATATCTTCAATCTCCTCTTCTTTTGATGATTTGG
193 GCCTGCTTTCACCTCCTTCGGCATTTTGTCATTATCTTCGATCTCCTCTTCCTTTGATGATTTGG
2208575 CTTCC
258 CTTCC
* * *
2208580 ACTTTAACCAC--AGTCCTCTTCCTCGGATAATGAATTTGAGACCACAACCATTGCTTGTTTTGC
1 ACTTTAACCACAGAGTCCTCTTCTTTGGATAATGAATCTGAGACCACAACCATTGCTTGTTTTGC
* *
2208643 AGACTGCAGATTATTGAAACCATCACTTGCATCCAGATTCCTCCTCTCTTGCTCTTCAGACTCTT
66 AGACTGCAGATT-TTGAAGCCATCACTTGCATCCAGATTCCTCCTCTCTTGTTCTTCAGACTCTT
* * *
2208708 TTGTGGATTTGACTTCAGCTGGAGAATTGTCCCTTTCTGATGCATTAGCTATCATGAACTCCTGG
130 TTGTAGATTTAACTTCAGCTGGAGAA-TCTCCCTTTCTGATGCATTAGCTATCATGAACTCCTGG
* * * *
2208773 CCTGCTTTCACCTCCTTCAGCATTTTGGC-TCTATCTTCGA--T-CTCTTGCTTTGACGATTTGG
194 CCTGCTTTCACCTCCTTCGGCATTTTGTCAT-TATCTTCGATCTCCTCTTCCTTTGATGATTTGG
2208834 CTTC
258 CTTC
2208838 TACTGAAGAG
Statistics
Matches: 464, Mismatches: 52, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
259 21 0.05
260 1 0.00
261 5 0.01
262 193 0.42
263 1 0.00
264 240 0.52
265 3 0.01
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (262 bp):
ACTTTAACCACAGAGTCCTCTTCTTTGGATAATGAATCTGAGACCACAACCATTGCTTGTTTTGC
AGACTGCAGATTTTGAAGCCATCACTTGCATCCAGATTCCTCCTCTCTTGTTCTTCAGACTCTTT
TGTAGATTTAACTTCAGCTGGAGAATCTCCCTTTCTGATGCATTAGCTATCATGAACTCCTGGCC
TGCTTTCACCTCCTTCGGCATTTTGTCATTATCTTCGATCTCCTCTTCCTTTGATGATTTGGCTT
CC
Found at i:2213635 original size:3 final size:3
Alignment explanation
Indices: 2213627--2213676 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
2213617 TTTACTTAAT
**
2213627 TTA TTA TTA TTA AAA TTA TTA TTA TTA -TA TTA TATA TATA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA
2213672 TTA TT
1 TTA TT
2213677 TAATAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 29 0.73
4 7 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2213670 original size:16 final size:14
Alignment explanation
Indices: 2213627--2213676 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
2213617 TTTACTTAAT
*
2213627 TTATTATTATTAAAA
1 TTATTATTATT-ATA
2213642 TTATTATTATTATA
1 TTATTATTATTATA
2213656 TTATATATATATTATA
1 TTAT-TAT-TATTATA
2213672 TTATT
1 TTATT
2213677 TAATAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 6 0.19
15 15 0.47
16 11 0.34
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:2213686 original size:19 final size:20
Alignment explanation
Indices: 2213627--2213688 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 20
2213617 TTTACTTAAT
*
2213627 TTATTATTA-TTAA-AATTA
1 TTATTATTATTTAATAAATA
*
2213645 TTATTATTATATTATATATATA
1 TTATTATTAT-TTA-ATAAATA
2213667 TTA-TATTATTTAATAAATA
1 TTATTATTATTTAATAAATA
2213686 TTA
1 TTA
2213689 CAAACCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
20 6 0.16
21 7 0.19
22 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTATTATTTAATAAATA
Found at i:2215226 original size:2 final size:2
Alignment explanation
Indices: 2215219--2215299 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
2215209 TTTAGCCATA
2215219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2215261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2215300 ATAAATAATA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2216135 original size:25 final size:26
Alignment explanation
Indices: 2216092--2216144 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
2216082 CTTTCAAATT
*
2216092 TTTTATTACTTATTATTTTTATATTA
1 TTTTATTACATATTATTTTTATATTA
* *
2216118 TTTTATTA-ATATTTTTTTTATTTTA
1 TTTTATTACATATTATTTTTATATTA
2216143 TT
1 TT
2216145 CAGGTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTATTACATATTATTTTTATATTA
Found at i:2216140 original size:20 final size:22
Alignment explanation
Indices: 2216105--2216144 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
2216095 TATTACTTAT
2216105 TATTTTTATATTATTTTATTAA
1 TATTTTTATATTATTTTATTAA
2216127 TATTTTT-T-TTATTTTATT
1 TATTTTTATATTATTTTATT
2216145 CAGGTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (22 bp):
TATTTTTATATTATTTTATTAA
Found at i:2220765 original size:2 final size:2
Alignment explanation
Indices: 2220758--2220787 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2220748 TTATCCTTTA
2220758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2220788 CCTTTGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2221126 original size:8 final size:8
Alignment explanation
Indices: 2221110--2221192 Score: 67
Period size: 8 Copynumber: 9.4 Consensus size: 8
2221100 TCTAGCAAAG
*
2221110 AAAGGAAA
1 AAAGAAAA
2221118 AAAGAAAA
1 AAAGAAAA
2221126 AAAGAGGAAA
1 AAAGA--AAA
2221136 AAAGAAAA
1 AAAGAAAA
2221144 AAAGGAAAGA
1 AAA-GAAA-A
*
2221154 AATAAAAAA
1 AA-AGAAAA
*
2221163 AAACAACAA
1 AAAGAA-AA
2221172 AAAGGAAAAA
1 AAA-G-AAAA
2221182 AAAGAAAA
1 AAAGAAAA
2221190 AAA
1 AAA
2221193 TTGAATCAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
8 28 0.44
9 13 0.21
10 19 0.30
11 3 0.05
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.01
Consensus pattern (8 bp):
AAAGAAAA
Found at i:2221135 original size:18 final size:18
Alignment explanation
Indices: 2221112--2221147 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2221102 TAGCAAAGAA
2221112 AGGAAAAAAGAAAAAAAG
1 AGGAAAAAAGAAAAAAAG
2221130 AGGAAAAAAGAAAAAAAG
1 AGGAAAAAAGAAAAAAAG
2221148 GAAAGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AGGAAAAAAGAAAAAAAG
Found at i:2221161 original size:18 final size:16
Alignment explanation
Indices: 2221110--2221192 Score: 67
Period size: 18 Copynumber: 4.8 Consensus size: 16
2221100 TCTAGCAAAG
2221110 AAAGGAAAAAAGAAAAA
1 AAAGGAAAAAA-AAAAA
*
2221127 AAGAGGAAAAAAGAAAA
1 AA-AGGAAAAAAAAAAA
2221144 AAAGGAAAGAAATAAAAA
1 AAAGGAAA-AAA-AAAAA
**
2221162 AAAACAACAAAAAGGAAAA
1 AAAGGAA-AAAAA--AAAA
*
2221181 AAAAGAAAAAAA
1 AAAGGAAAAAAA
2221193 TTGAATCAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
16 6 0.11
17 12 0.22
18 26 0.47
19 11 0.20
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.01
Consensus pattern (16 bp):
AAAGGAAAAAAAAAAA
Found at i:2221165 original size:28 final size:25
Alignment explanation
Indices: 2221115--2221192 Score: 68
Period size: 28 Copynumber: 3.0 Consensus size: 25
2221105 CAAAGAAAGG
* *
2221115 AAAAAA-GAAAAAAAGAGGAAAAAAGA
1 AAAAAAGGAAAAAAA-A-AAAAAAAAA
2221141 AAAAAAGGAAAGAAATAAAAAAAAACAA
1 AAAAAAGGAAA-AAA-AAAAAAAAA-AA
* *
2221169 CAAAAAGGAAAAAAAAGAAAAAAA
1 AAAAAAGGAAAAAAAAAAAAAAAA
2221193 TTGAATCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
25 1 0.02
26 14 0.32
27 13 0.30
28 15 0.34
29 1 0.02
ACGTcount: A:0.82, C:0.03, G:0.14, T:0.01
Consensus pattern (25 bp):
AAAAAAGGAAAAAAAAAAAAAAAAA
Found at i:2221834 original size:32 final size:32
Alignment explanation
Indices: 2221798--2221859 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
2221788 GTTAGACACA
*
2221798 AGAAGTATCTCTA-ACAGATGGGCATAACAACG
1 AGAAGTATCTCTACA-AGATGAGCATAACAACG
2221830 AGAAGTATCTCTACAAGATGAGCATAACAA
1 AGAAGTATCTCTACAAGATGAGCATAACAA
2221860 TCATTTCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (32 bp):
AGAAGTATCTCTACAAGATGAGCATAACAACG
Found at i:2223694 original size:114 final size:114
Alignment explanation
Indices: 2223489--2223708 Score: 368
Period size: 114 Copynumber: 1.9 Consensus size: 114
2223479 CACGTTCTCG
* *
2223489 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGATTC
* *
2223554 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
66 GGTATGAACCCCAAAACAAATCATTGGAATTGAAAGATGAATTTGTTCA
*
2223603 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGATTC
* * *
2223668 GGTATGAACCCCATAACAAATTATTGGAATTGAATGATGAA
66 GGTATGAACCCCAAAACAAATCATTGGAATTGAAAGATGAA
2223709 CTGCATGATC
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGATTC
GGTATGAACCCCAAAACAAATCATTGGAATTGAAAGATGAATTTGTTCA
Found at i:2226204 original size:22 final size:22
Alignment explanation
Indices: 2226175--2226229 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2226165 ATCTACACTC
*
2226175 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTATT
*
2226197 TTTAAAGATGATAGATTCTATT
1 TTCAAAGATGATAGATTCTATT
2226219 TTCAAAGATGA
1 TTCAAAGATGA
2226230 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTATT
Found at i:2227047 original size:166 final size:167
Alignment explanation
Indices: 2226743--2227071 Score: 518
Period size: 165 Copynumber: 2.0 Consensus size: 167
2226733 AGAATGAACA
* * *
2226743 TTATCTTGAGATTGGGTCATGTTACCCAATCAACATGTTATTTCAAAAAAAAAATAATGAGAAAA
1 TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTCATTT---AAAAAAAATAATGAGAAAA
** *
2226808 CAATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAGAAGTAAGAAAACGATT
63 CAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
2226873 TCCTTAG-TTTTTTTACTTAGTAAACTATTTCCAACAGCC
128 TCCTTAGTTTTTTTTACTTAGTAAACTATTTCCAACAGCC
** *
2226912 TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTCATTT-TGAAAAATAATGAGAAAACGA
1 TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTCATTTAAAAAAAATAATGAGAAAACAA
*
2226976 TTTCTATAGTTTCTCATTCAATCTTTTCTAGAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
66 TTTCCATAGTTTCTCATTCAATCTTTTCTA-AAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
2227041 CTTAGTTTTTTTTACTTAGTAAACTATTTCC
130 CTTAGTTTTTTTTACTTAGTAAACTATTTCC
2227072 CACATCTGTA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
165 45 0.30
166 38 0.26
167 25 0.17
169 40 0.27
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (167 bp):
TTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTCATTTAAAAAAAATAATGAGAAAACAA
TTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
TTAGTTTTTTTTACTTAGTAAACTATTTCCAACAGCC
Found at i:2227173 original size:76 final size:76
Alignment explanation
Indices: 2227074--2227936 Score: 1570
Period size: 76 Copynumber: 11.4 Consensus size: 76
2227064 CTATTTCCCA
* *
2227074 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227139 AGCCTTAGGGT
66 AGCCTTAGGGT
2227150 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2227215 AGCCTTATGGT
66 AGCCTTAGGGT
*
2227226 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTT-ATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227290 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2227301 CATCTGTAAGTCCTACAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2227366 AGCCTTAGGGA
66 AGCCTTAGGGT
*
2227377 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2227442 AACCTTAGGGT
66 AGCCTTAGGGT
2227453 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227518 AGCCTTAGGGT
66 AGCCTTAGGGT
2227529 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227594 AGCCTTAGGGT
66 AGCCTTAGGGT
2227605 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227670 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
2227681 CATTTGTAAGTCCTTCAGTGCATGATG-TTCC-AAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227744 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2227755 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227820 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2227831 CATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227896 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2227907 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
2227937 TTAGGACCTA
Statistics
Matches: 760, Mismatches: 24, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
74 68 0.09
75 80 0.11
76 612 0.81
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2227831 original size:226 final size:228
Alignment explanation
Indices: 2227074--2227936 Score: 1570
Period size: 226 Copynumber: 3.8 Consensus size: 228
2227064 CTATTTCCCA
* *
2227074 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227139 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
2227204 GATGTTTTCAAAGCCTTATGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
2227269 GGGAACTTTTT-ATGTTTTCAAAGCCTTAGGGT
196 GGGAACTTTTTGATGTTTTCAAAGCCTTAGGGT
*
2227301 CATCTGTAAGTCCTACAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2227366 AGCCTTAGGGACATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
2227431 GATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
*
2227496 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 GGGAACTTTTTGATGTTTTCAAAGCCTTAGGGT
2227529 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2227594 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
2227659 GATGTTTTCAAAGCCTTAGGGTCATTTGTAAGTCCTTCAGTGCATGATG-TTCC-AAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
*
2227722 GGGATCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 GGGAACTTTTTGATGTTTTCAAAGCCTTAGGGT
*
2227755 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2227820 AGCCTTAGGGTCATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
2227885 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTT
2227937 TTAGGACCTA
Statistics
Matches: 615, Mismatches: 19, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
226 217 0.35
227 204 0.33
228 194 0.32
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAACTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:2228100 original size:3 final size:3
Alignment explanation
Indices: 2228092--2228157 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
2228082 TTTACTTAAT
** * *
2228092 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA ATA TTAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
2228138 TTA -TA TATA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TT
2228158 TAATAAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.87
4 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:2230097 original size:23 final size:25
Alignment explanation
Indices: 2230061--2230108 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
2230051 AGGGACAACC
* *
2230061 ATTTTTTTTCTAAATA-A-ATAAAT
1 ATTTTATTTATAAATATATATAAAT
2230084 ATTTTATTTATAAATATATATAAAT
1 ATTTTATTTATAAATATATATAAAT
2230109 TAATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 1 0.05
25 6 0.29
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTTATTTATAAATATATATAAAT
Found at i:2234976 original size:4 final size:4
Alignment explanation
Indices: 2234967--2235511 Score: 453
Period size: 4 Copynumber: 133.8 Consensus size: 4
2234957 CATGTAACAA
2234967 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2235015 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2235063 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2235111 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* ** ** * * * * * ** *
2235159 ATAC ATAC ATAC ATAC ATAC ATAG ATGG ACGC TTTGAG TTGC TGTTT ATCGCC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -AT-AC ATAC -ATAC AT--AC
** * * * * * * * * *
2235212 ATTG GTGC -TGC GGTTA- GTAA AT-C A-AT ATA- ATTC TGTTGAC -T-C
1 ATAC ATAC ATAC --ATAC ATAC ATAC ATAC ATAC ATAC --AT-AC ATAC
* * * * * * * * * * * * ** *
2235254 ATTTC TGTTAC ATGC ATTTC ACAT TTAA ATGATT ATA- TTTC TTGTG TTAC
1 A-TAC --ATAC ATAC A-TAC ATAC ATAC AT-A-C ATAC ATAC AT-AC ATAC
* * *
2235304 GGTTA- GTAA AT-C AATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 --ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2235353 ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2235401 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2235449 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2235497 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
2235512 GATGGACGCT
Statistics
Matches: 459, Mismatches: 52, Indels: 60
0.80 0.09 0.11
Matches are distributed among these distances:
2 1 0.00
3 12 0.03
4 421 0.92
5 13 0.03
6 11 0.02
7 1 0.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:2237126 original size:19 final size:19
Alignment explanation
Indices: 2237104--2237234 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
2237094 GGAAATTACT
2237104 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2237123 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2237137 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
2237156 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
2237170 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* **
2237189 ATCGTAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
2237203 ATCGCAATGCGAAATGAGA
1 ATCGCAATGCGAAATGAAA
*
2237222 ATCGCAACGCGAA
1 ATCGCAATGCGAA
2237235 TTTAATTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 26 0.31
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.47
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2237146 original size:33 final size:33
Alignment explanation
Indices: 2237104--2237230 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
2237094 GGAAATTACT
2237104 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
2237137 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
2237169 TTTCGCAATGCGAAATGAAAATCGTAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2237203 ATCGCAATGCGAAATGAGAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2237231 CGAATTTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 80 0.98
34 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2237211 original size:66 final size:66
Alignment explanation
Indices: 2237105--2237237 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
2237095 GAAATTACTA
*
2237105 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
2237170 T
66 T
* * *
2237171 TCGCAATGCGAAATGAAAATCGTAACGAGGGAATCGCAATGCGAAATGAGAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
2237236 T
66 T
2237237 T
1 T
2237238 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:2237262 original size:14 final size:14
Alignment explanation
Indices: 2237245--2237301 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2237235 TTTAATTTCG
2237245 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2237259 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2237278 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2237292 CGTTGCGATT
1 CGTTGCGATT
2237302 TCATTTCGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2237309 original size:32 final size:32
Alignment explanation
Indices: 2237234--2237315 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 32
2237224 CGCAACGCGA
*
2237234 ATTTAATTTCGCGTTGCGATTCTCTCGTTGCG
1 ATTTCATTTCGCGTTGCGATTCTCTCGTTGCG
2237266 ATTTTCATTTCGCGTTGCGATTCTCTCGTTGCG
1 A-TTTCATTTCGCGTTGCGATTCTCTCGTTGCG
*
2237299 ATTTCATTTCGCATTGC
1 ATTTCATTTCGCGTTGC
2237316 AATAGTACTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 16 0.34
33 31 0.66
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (32 bp):
ATTTCATTTCGCGTTGCGATTCTCTCGTTGCG
Found at i:2237457 original size:14 final size:14
Alignment explanation
Indices: 2237424--2237459 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
2237414 CATCAATTAA
2237424 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2237438 AC-AATCACCTTTT
1 ACAAATCAACTTTT
2237451 ACAAATCAA
1 ACAAATCAA
2237460 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2238870 original size:21 final size:21
Alignment explanation
Indices: 2238804--2238870 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2238794 GTGAATCGGG
*
2238804 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
2238824 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
2238846 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
2238867 CTCT
1 CTCT
2238871 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:2239258 original size:18 final size:18
Alignment explanation
Indices: 2239235--2239280 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
2239225 CTAAGCAATC
2239235 TAAGTGAAATGGTTAATT
1 TAAGTGAAATGGTTAATT
2239253 TAAGTGAAATGGTTAATT
1 TAAGTGAAATGGTTAATT
2239271 TAAGTGAAAT
1 TAAGTGAAAT
2239281 TACGAGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (18 bp):
TAAGTGAAATGGTTAATT
Found at i:2240964 original size:20 final size:19
Alignment explanation
Indices: 2240919--2241040 Score: 68
Period size: 20 Copynumber: 6.8 Consensus size: 19
2240909 TCTTTTGGTT
2240919 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
2240938 GATAATGAGAATCGCAATGCG-
1 GA-AATGAAAATCGCAA--CGA
**
2240959 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
2240978 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
2240992 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
2241011 G--A-G--AATCGCAACGT
1 GAAATGAAAATCGCAACGA
2241025 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2241041 TGCGATTTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
14 19 0.24
16 4 0.05
17 4 0.05
18 2 0.03
19 20 0.26
20 25 0.32
21 2 0.03
22 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:2241001 original size:33 final size:33
Alignment explanation
Indices: 2240944--2241040 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 33
2240934 ACGAGATAAT
*
2240944 GAGAATCGCAATGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
2240978 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
2241011 GAGAATCGCAACGTGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
2241041 TGCGATTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 44 0.77
34 13 0.23
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:2241072 original size:17 final size:17
Alignment explanation
Indices: 2241046--2241078 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2241036 CGCAATGCGA
*
2241046 TTTTTGTTTCGCGTTGG
1 TTTTTATTTCGCGTTGG
2241063 TTTTTATTTCGCGTTG
1 TTTTTATTTCGCGTTG
2241079 CGATTCTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.12, G:0.24, T:0.61
Consensus pattern (17 bp):
TTTTTATTTCGCGTTGG
Found at i:2241680 original size:20 final size:20
Alignment explanation
Indices: 2241632--2241682 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2241622 GCGCTATGTA
*
2241632 AATCGCGTTACGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
2241652 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
2241672 TATCTCGTTGC
1 AATCGCGTTGC
2241683 AATTTTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:2241718 original size:20 final size:20
Alignment explanation
Indices: 2241693--2241746 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2241683 AATTTTGTAT
2241693 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
2241713 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
*
2241733 TATCGCATTACGAT
1 TATCGCATTGCGAT
2241747 TTTTCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:2241857 original size:21 final size:21
Alignment explanation
Indices: 2241817--2241857 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2241807 ACTGTAGACC
**
2241817 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
2241838 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
2241858 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:2242093 original size:27 final size:27
Alignment explanation
Indices: 2242055--2242126 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
2242045 ATAAAAACCA
* *
2242055 TATAAACTATATACTATAGTTGATATT
1 TATATACTATATACTATAATTGATATT
* * *
2242082 TATATACTATATAATATAATTTATGTT
1 TATATACTATATACTATAATTGATATT
* *
2242109 TATATAATTTATACTATA
1 TATATACTATATACTATA
2242127 TAAATTCAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.49
Consensus pattern (27 bp):
TATATACTATATACTATAATTGATATT
Found at i:2242284 original size:18 final size:17
Alignment explanation
Indices: 2242261--2242355 Score: 71
Period size: 18 Copynumber: 5.9 Consensus size: 17
2242251 TATAAAAAAC
*
2242261 TATATATAAAGTATATGG
1 TATATATAAACTATAT-G
*
2242279 TATATACAAACTATAT-
1 TATATATAAACTATATG
2242295 TATATAGT--A-T-TA-G
1 TATATA-TAAACTATATG
2242308 TATATATAAACTATA--
1 TATATATAAACTATATG
*
2242323 TATATATAAATTATATGG
1 TATATATAAACTATAT-G
*
2242341 TATGTATAAACTATA
1 TATATATAAACTATA
2242356 CATTATATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
12 1 0.02
13 8 0.13
14 2 0.03
15 16 0.26
16 8 0.13
18 27 0.44
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.41
Consensus pattern (17 bp):
TATATATAAACTATATG
Found at i:2242338 original size:62 final size:67
Alignment explanation
Indices: 2242261--2242399 Score: 198
Period size: 62 Copynumber: 2.1 Consensus size: 67
2242251 TATAAAAAAC
2242261 TATATATAAAGTATATGGTATATACAAACTAT-A-T-TATATAG-T-ATTAGTATATATAAACTA
1 TATATATAAAGTATATGGTATATACAAACTATAATTATATATAGTTCATTAGTATATATAAACTA
2242321 TA
66 TA
* * *
2242323 TATATATAAATTATATGGTATGTATAAACTATACATTATATATAGTTCATTAGTATATATAAACT
1 TATATATAAAGTATATGGTATATACAAACTATA-ATTATATATAGTTCATTAGTATATATAAACT
2242388 ATA
65 ATA
2242391 TATTATATA
1 TA-TATATA
2242400 GTTCATTAGT
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
62 29 0.43
64 1 0.01
65 1 0.01
66 7 0.10
67 1 0.01
68 22 0.33
69 6 0.09
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (67 bp):
TATATATAAAGTATATGGTATATACAAACTATAATTATATATAGTTCATTAGTATATATAAACTA
TA
Found at i:2242403 original size:33 final size:32
Alignment explanation
Indices: 2242278--2242424 Score: 158
Period size: 33 Copynumber: 4.5 Consensus size: 32
2242268 AAAGTATATG
*
2242278 GTATATACAAAC--TATATTATATAG-TATTA
1 GTATATATAAACTATATATTATATAGTTATTA
* *
2242307 GTATATATAAACTATATA-TATATAAATTATATG
1 GTATATATAAACTATATATTATAT-AGTTAT-TA
* *
2242340 GTATGTATAAACTATACATTATATATAGTTCATTA
1 GTATATATAAACTATATA-T-TATATAGTT-ATTA
2242375 GTATATATAAACTATATATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATAGTT-ATTA
*
2242408 GTATATATAACCTATAT
1 GTATATATAAACTATAT
2242425 TAATTATTAA
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
29 11 0.11
30 5 0.05
31 5 0.05
32 3 0.03
33 47 0.47
34 1 0.01
35 20 0.20
36 7 0.07
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (32 bp):
GTATATATAAACTATATATTATATAGTTATTA
Found at i:2242416 original size:17 final size:17
Alignment explanation
Indices: 2242359--2242416 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
2242349 AACTATACAT
2242359 TATATATAGTTCATTAG
1 TATATATAGTTCATTAG
**
2242376 TATATATA-AAC-TATA-
1 TATATATAGTTCAT-TAG
2242391 TATTATATAGTTCATTAG
1 TA-TATATAGTTCATTAG
2242409 TATATATA
1 TATATATA
2242417 ACCTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (17 bp):
TATATATAGTTCATTAG
Found at i:2242417 original size:68 final size:66
Alignment explanation
Indices: 2242261--2242423 Score: 185
Period size: 68 Copynumber: 2.5 Consensus size: 66
2242251 TATAAAAAAC
* * *
2242261 TATATATAAAGTATATGGTATATACAAACTAT--A-T-TATATAGTATTAGTATATATAAACTAT
1 TATATATAAATTATATAGTATATATAAACTATACATTATATATAGTATTAGTATATATAAACTAT
2242322 A
66 A
* *
2242323 TATATATAAATTATATGGTATGTATAAACTATACATTATATATAGTTCATTAGTATATATAAACT
1 TATATATAAATTATATAGTATATATAAACTATACATTATATATAG-T-ATTAGTATATATAAACT
2242388 ATA
64 ATA
* *
2242391 TAT-TATATAGTTCAT-TAGTATATATAACCTATA
1 TATATATA-AATT-ATATAGTATATATAAACTATA
2242424 TTAATTATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
62 29 0.34
64 1 0.01
65 1 0.01
66 7 0.08
67 5 0.06
68 41 0.48
69 2 0.02
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.42
Consensus pattern (66 bp):
TATATATAAATTATATAGTATATATAAACTATACATTATATATAGTATTAGTATATATAAACTAT
A
Found at i:2242561 original size:60 final size:60
Alignment explanation
Indices: 2242482--2242616 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 60
2242472 TATAAGGATC
* * *
2242482 AAATTGAACAATTTTAAATATGAAGCTTAAATTAATAAATTGTAACATT-AATTTGAACT
1 AAATTGAAAAATTTGAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTGAACT
* * * *
2242541 AAATTGAAGAAATTTGAAATATTAAGCTTAAATTAATATATTGCATCATTAAATTTGGACT
1 AAATTGAA-AAATTTGAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTGAACT
2242602 AAATTGAACAAATTT
1 AAATTGAA-AAATTT
2242617 AAAACTAGGA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
59 8 0.12
60 35 0.53
61 23 0.35
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (60 bp):
AAATTGAAAAATTTGAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTGAACT
Found at i:2243225 original size:12 final size:12
Alignment explanation
Indices: 2243205--2243248 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
2243195 GTTCATCTTT
*
2243205 CTAACCCCTAAC
1 CTAAACCCTAAC
2243217 CTAAACCCTAAC
1 CTAAACCCTAAC
* *
2243229 CAAAACCCAAAC
1 CTAAACCCTAAC
*
2243241 CCAAACCC
1 CTAAACCC
2243249 GATCCCAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.43, C:0.48, G:0.00, T:0.09
Consensus pattern (12 bp):
CTAAACCCTAAC
Found at i:2243261 original size:6 final size:6
Alignment explanation
Indices: 2243214--2243354 Score: 86
Period size: 6 Copynumber: 23.7 Consensus size: 6
2243204 TCTAACCCCT
* * * * *
2243214 AACCTA AACCCT AACCAA AACCCA AACCCA AACCCG ATCCCA AACCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * * * * ** * *
2243262 AACTCG AACCC- AATCCA TATCTA AACCTG AAGCCA AATCCA AACCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * * * *
2243309 AACCCA AATCCA AACCCG AATCCA AACTCG AACCCA AACCCG AACC
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACC
2243355 TAAATCCGAA
Statistics
Matches: 100, Mismatches: 34, Indels: 2
0.74 0.25 0.01
Matches are distributed among these distances:
5 4 0.04
6 96 0.96
ACGTcount: A:0.44, C:0.42, G:0.05, T:0.09
Consensus pattern (6 bp):
AACCCA
Found at i:2243536 original size:2 final size:2
Alignment explanation
Indices: 2243529--2243559 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2243519 TATATTCTTG
2243529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2243560 CTGGTATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2245293 original size:23 final size:23
Alignment explanation
Indices: 2245239--2245299 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
2245229 TGTTTTCTTA
*
2245239 ATAC-ATGATGCTGGCTGAATTG
1 ATACAATGATGCTTGCTGAATTG
*
2245261 ATGCAATGATGCTTGCTGAATTG
1 ATACAATGATGCTTGCTGAATTG
* * *
2245284 GTATAGTGATGCTTGC
1 ATACAATGATGCTTGC
2245300 CGGTTGCTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (23 bp):
ATACAATGATGCTTGCTGAATTG
Done.