Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001523.1 Hibiscus syriacus cultivar Beakdansim tig00002982_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: 1321709
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:14 original size:4 final size:4
Alignment explanation
Indices: 1--2430 Score: 3725
Period size: 4 Copynumber: 623.2 Consensus size: 4
* *
1 ACAT A-AT ACAT ACAT ACAT ACCT ACAT ACCAT ACCT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT
*
49 AC-T ACAT ACAT ACAT AC-C ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
95 ACAT ACAT ACACC ACAG ACAT ACAG ACAT ACAT ACAT ACAT ACAT ACAAT
1 ACAT ACAT ACA-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-AT
*
145 ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACCT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
192 ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
237 ACAT ACAT ACAT ACAT ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
284 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
332 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
379 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCA- ACAT ACAT ACAT ACA-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT
* *
426 ACAT ACAG ACAT ACAT ACAT ACAT ACAT ACAG ACAT ACCA- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT
474 ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCAT A-AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT
* * * * *
521 ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAC ACAC ACAC ACAC AC-C
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
566 ACAC ACAC ACAC ACAT AC-- ACAT ACACCT ACGT ACCAC ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACA--T ACAT A-CAT ACAT ACAT ACAT
*
615 AC-- ACAT ACAT ACA- ACCCAC ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT A--CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
662 ACAT -CAT ACAT ACAT ACAT --AT ACAT ACAG ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
707 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAG ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
755 AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
802 ACAT ACAT ACAT ACAT ACAT ACAC ATAT ACAT ACAT ACA- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
849 ACCT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
897 ACAT ACAT CCAT ACAT ACAT ACAT A-AT ACAT ACAT ACAT -C-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
942 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT
991 ACAT ACAT -CAT ACAT ACAT ACAT ACAT A-AT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1037 -CAT ACAG ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1083 ACAT ACAT ACAT ACCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1132 ACAT ACAT -CAT ACAT ACAG ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1179 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1225 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1273 ACAT ACAT ACAT ACAAC ACAT ACAT ACAT ACAT AC-T -CAT ACAT ACAT
1 ACAT ACAT ACAT AC-AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1320 ACTAC ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT
1 AC-AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1368 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAG ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1416 ACAT --AT ACAT -CAT ACAT ACAT ACAT ACAT AC-T AACAT ACAT AC-T
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT
*
1460 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAG ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1508 --AT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1552 ACAT ACAT ACAT AC-T AC-T ACAT ACAT AC-- ACAT ACAT ACAT AAAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
1596 ACAT ACAT ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1643 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1690 ACAT ACAT ACAT AC-T ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACA-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1734 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1782 ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1828 ACAT ACAT ACAT ACAT AC-T ACAT ACAT -CAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1874 ACAT ACAT ACAT ACAT ACAT ACAT ACA- AC-T ACAT AC-T ACAT AC-T
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1918 ACAT ACAT ACAT ACAT ACAT ACAT AACAT ACAT ACAT ACAT ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT ACAT
1965 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T AACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT
2013 ACAT AACAT ACAT ACAT ACAT ACA- ACATT ACAT ACAT ACAT AC-T ACAT
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT ACAT ACAT
2061 ACAT AACAT ACAT ACAT ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
2109 ACAT AACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA- ACAT ACAT ACAT
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
2157 ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
2204 ACAT ACAT ACAT AC-T ACAG ACAT ACAT ACAT ACAT ACAT --AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
2249 ACAT AC-T ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
2294 ACAT ACAT ACAT ACAT ACAT ACAT A-AT ACAT ACAT AC-T ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
2340 ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
2388 ACAT ACAT ACAT ACAT AC-- ACAC ACAC ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
2431 TATATATATA
Statistics
Matches: 2263, Mismatches: 57, Indels: 212
0.89 0.02 0.08
Matches are distributed among these distances:
2 34 0.02
3 140 0.06
4 2027 0.90
5 58 0.03
6 4 0.00
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:544 original size:6 final size:6
Alignment explanation
Indices: 533--623 Score: 55
Period size: 6 Copynumber: 15.2 Consensus size: 6
523 ATACATACAT
* * * * *
533 ACATAC ACAT-- ACATAC ACACAC ACACAC ACA-CC ACACAC ACACAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
* *
578 ACATAC ACATAC ACCTAC GTAC-CAC ACATAC ATACATAC ACATAC A
1 ACATAC ACATAC ACATAC --ACATAC ACATAC --ACATAC ACATAC A
624 TACAACCCAC
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.06
5 6 0.09
6 50 0.71
7 2 0.03
8 8 0.11
ACGTcount: A:0.47, C:0.40, G:0.01, T:0.12
Consensus pattern (6 bp):
ACATAC
Found at i:554 original size:2 final size:2
Alignment explanation
Indices: 537--591 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
527 ATACATACAT
* *
537 AC AC AT AC AT AC AC AC AC AC AC AC AC AC -C AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
578 AC AT AC AC AT AC AC
1 AC AC AC AC AC AC AC
592 CTACGTACCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.44, G:0.00, T:0.07
Consensus pattern (2 bp):
AC
Found at i:3112 original size:53 final size:53
Alignment explanation
Indices: 3032--3182 Score: 223
Period size: 53 Copynumber: 2.8 Consensus size: 53
3022 ACTAAGGTAA
*
3032 CAAAATGGTAATTCAAAAACTCATTATGAATACCATGGGTGCACACATAGTGC
1 CAAAATGGTAATTCAAAAACTCATTATGAATACCATGGTTGCACACATAGTGC
* * * *
3085 CAAAATGGTAATTCATAAACTCATTATGAATACCATGGTTTCACACCTAGTGT
1 CAAAATGGTAATTCAAAAACTCATTATGAATACCATGGTTGCACACATAGTGC
* *
3138 CGAAATGGTAATTCACAAACT-ATTTATGAATACCATGGTTGCACA
1 CAAAATGGTAATTCAAAAACTCA-TTATGAATACCATGGTTGCACA
3183 TAGAGTGTTG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 1 0.01
53 88 0.99
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (53 bp):
CAAAATGGTAATTCAAAAACTCATTATGAATACCATGGTTGCACACATAGTGC
Found at i:3393 original size:143 final size:143
Alignment explanation
Indices: 3133--3416 Score: 408
Period size: 143 Copynumber: 2.0 Consensus size: 143
3123 TTTCACACCT
* * * *
3133 AGTGTCGAAATGGTAATTCACAAACTATTTATGAATACCATGGTTGCACATAGAGTGTTGAAAGT
1 AGTGTCGAAATGGAAATTCACAAACTATTTATGAATACCATGGATGCACACAGAGTGTCGAAAGT
* *
3198 ACACATAGTACTGATACGAAAATACAATATATGCATTAAACAAAATCGATCGATAACCATCATAC
66 ACACATAGTACTGATACGAAAATACAACATATGCATTAAACAAAATCAATCGATAACCATCATAC
3263 ACAAAGTATGTCG
131 ACAAAGTATGTCG
* * *
3276 AGTGTCGAAATGGAAATTCACAAACTCA-TTATGAATTCTATGGATGCACACATAGTGTCGAAAG
1 AGTGTCGAAATGGAAATTCACAAACT-ATTTATGAATACCATGGATGCACACAGAGTGTCGAAAG
* * * * *
3340 TACATATAGTATTGATACGAAAATTCAACGTATGCATTAAACAAAATCAATCGATAATCATCATA
65 TACACATAGTACTGATACGAAAATACAACATATGCATTAAACAAAATCAATCGATAACCATCATA
* *
3405 CATATAGTATGT
130 CACAAAGTATGT
3417 TGAAATGCAC
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
143 123 0.99
144 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (143 bp):
AGTGTCGAAATGGAAATTCACAAACTATTTATGAATACCATGGATGCACACAGAGTGTCGAAAGT
ACACATAGTACTGATACGAAAATACAACATATGCATTAAACAAAATCAATCGATAACCATCATAC
ACAAAGTATGTCG
Found at i:3668 original size:16 final size:16
Alignment explanation
Indices: 3647--3683 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
3637 TCGAGGTTGA
3647 CTCATTTCAAGTCATC
1 CTCATTTCAAGTCATC
3663 CTCATTTCAAGTCATC
1 CTCATTTCAAGTCATC
3679 CTCAT
1 CTCAT
3684 CTCATATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (16 bp):
CTCATTTCAAGTCATC
Found at i:6031 original size:20 final size:20
Alignment explanation
Indices: 6008--6050 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5998 AATCCACCAC
*
6008 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
6028 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
6048 ATG
1 ATG
6051 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:28168 original size:2 final size:2
Alignment explanation
Indices: 28161--28198 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
28151 CTTCAAACAC
28161 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
28199 TAAATGTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28866 original size:53 final size:53
Alignment explanation
Indices: 28619--28859 Score: 383
Period size: 53 Copynumber: 4.5 Consensus size: 53
28609 ATAACCTACG
* ***
28619 AAACACATTATGAATACCATGGTTGCACACCTAGTGCCCAAATGGTAATTTGC
1 AAACTCATTATGAATACCATGGTTGCACACCTAGTGCCCAAATGGTAATTCAA
* * * * *
28672 AAACTTATTATGAATACCATGGGTGCACACATAGTGCCAAAATGGTAATTCAT
1 AAACTCATTATGAATACCATGGTTGCACACCTAGTGCCCAAATGGTAATTCAA
28725 AAACTCATTATGAATACCATGGTTGCACACCTAGTGCCCAAATGGTAATTCAA
1 AAACTCATTATGAATACCATGGTTGCACACCTAGTGCCCAAATGGTAATTCAA
*
28778 AAACTCATTATGAATACCATGGTTGCCCACCTAGTGCCCAAATGGTAATTCAA
1 AAACTCATTATGAATACCATGGTTGCACACCTAGTGCCCAAATGGTAATTCAA
*
28831 AAACTCATTTTGAATACCATGGTTGCACA
1 AAACTCATTATGAATACCATGGTTGCACA
28860 TATAGTGTCG
Statistics
Matches: 172, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 172 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (53 bp):
AAACTCATTATGAATACCATGGTTGCACACCTAGTGCCCAAATGGTAATTCAA
Found at i:29989 original size:20 final size:21
Alignment explanation
Indices: 29946--29989 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
29936 AAACTAACTT
** *
29946 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
29967 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
29987 ACA
1 ACA
29990 CTTAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:36665 original size:194 final size:193
Alignment explanation
Indices: 36447--36795 Score: 502
Period size: 194 Copynumber: 1.8 Consensus size: 193
36437 AACTAATTAT
** * **
36447 GTCACTAAATTATGTAAAATTTCGTTATTGATGATTTATATCGTCACGGATAATACATTAAAATC
1 GTCACTAAATTAAATAAAATTTCGTTATTGATAATTTATATCGTCACAAATAATACATTAAAATC
*
36512 AACCTATATGTGACAAAACAAATATTGTCAAATTTTTAGTAACATAATATAAAT-GTTACCTAAT
66 AACCTATATGTGACAAAACAAACATTGTCAAATTTTTAGTAACATAATAT--ATCGTTACCTAAT
* * *
36576 AATATTATGAATGGTGTTTATGCATAACGTCACTTTATATTTTATATTCTATGACAGTTGGTTAC
129 AATATTATGAATGATGATCATGCATAACGTCACTTTATATTTTATATTCTATGACAGTTGGTTAC
* * *
36641 GTCACTAAATTAAATAAGATTTCGTTATTGATAATTTATATTGTCACAAATAATGCATTAAAATC
1 GTCACTAAATTAAATAAAATTTCGTTATTGATAATTTATATCGTCACAAATAATACATTAAAATC
* * * * * * *
36706 AACTTATATTTGACGAAAGAGACATTGTCACATTTTTAGTGACATAATATATCGTTACCTAATAA
66 AACCTATATGTGACAAAACAAACATTGTCAAATTTTTAGTAACATAATATATCGTTACCTAATAA
36771 TATTATGAATGATGATCATGCATAA
131 TATTATGAATGATGATCATGCATAA
36796 TATATAATGT
Statistics
Matches: 135, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
192 2 0.01
193 34 0.25
194 99 0.73
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (193 bp):
GTCACTAAATTAAATAAAATTTCGTTATTGATAATTTATATCGTCACAAATAATACATTAAAATC
AACCTATATGTGACAAAACAAACATTGTCAAATTTTTAGTAACATAATATATCGTTACCTAATAA
TATTATGAATGATGATCATGCATAACGTCACTTTATATTTTATATTCTATGACAGTTGGTTAC
Found at i:37723 original size:18 final size:19
Alignment explanation
Indices: 37688--37732 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
37678 TATGATTTCA
*
37688 AAAATAAAAATTATACTTT
1 AAAATAAAAATTAAACTTT
37707 AAAATAAAAA-TAAACTTT
1 AAAATAAAAATTAAACTTT
*
37725 ATAATAAA
1 AAAATAAA
37733 TATCAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAAAAATTAAACTTT
Found at i:39329 original size:13 final size:13
Alignment explanation
Indices: 39311--39335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39301 ATTATATAAG
39311 TTCATGAATGTGT
1 TTCATGAATGTGT
39324 TTCATGAATGTG
1 TTCATGAATGTG
39336 ATTAAGGCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (13 bp):
TTCATGAATGTGT
Found at i:40016 original size:18 final size:19
Alignment explanation
Indices: 39982--40031 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
39972 AATAAATTAT
** *
39982 TTAATATATAGAAAGTAAG
1 TTAATATATAGTTAGTAAA
40001 TTAAT-TATAGTTAGTAAA
1 TTAATATATAGTTAGTAAA
40019 TTAATATATAGTT
1 TTAATATATAGTT
40032 GATTAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (19 bp):
TTAATATATAGTTAGTAAA
Found at i:40083 original size:45 final size:45
Alignment explanation
Indices: 40028--40122 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
40018 ATTAATATAT
*
40028 AGTTGATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
1 AGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
*
40073 AGTTAATTAAAATATATTAATGAATTATTTAATATATAGAAAGTA
1 AGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
40118 AGTTA
1 AGTTA
40123 GTAAATTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (45 bp):
AGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
Found at i:40109 original size:22 final size:22
Alignment explanation
Indices: 40034--40110 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
40024 ATATAGTTGA
*
40034 TTAAAATATATTAATAAATTAT
1 TTAAAATATATTAATGAATTAT
* * * *
40056 TTAATATATA-GAAAGTAAGTTAA
1 TTAAAATATATTAATG-AA-TTAT
40079 TTAAAATATATTAATGAATTAT
1 TTAAAATATATTAATGAATTAT
*
40101 TTAATATATA
1 TTAAAATATA
40111 GAAAGTAAGT
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
21 2 0.05
22 23 0.55
23 14 0.33
24 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TTAAAATATATTAATGAATTAT
Found at i:41049 original size:53 final size:48
Alignment explanation
Indices: 40989--41120 Score: 198
Period size: 45 Copynumber: 2.7 Consensus size: 48
40979 AATTTACCAA
40989 CTATATATTAAATAATTTATTAATATATTTTAAATAATTTACTAACTTACTTT
1 CTATATATTAAATAATTTATTAATATATTTT-AATAA--T--TAACTTACTTT
41042 CTATATATTAAATAATTTATTAATATA-TTT--TAATTAACTTACTTT
1 CTATATATTAAATAATTTATTAATATATTTTAATAATTAACTTACTTT
41087 CTATATATTAAATAATTTATTAATATATTTTAAT
1 CTATATATTAAATAATTTATTAATATATTTTAAT
41121 CAACTATATA
Statistics
Matches: 76, Mismatches: 0, Indels: 11
0.87 0.00 0.13
Matches are distributed among these distances:
45 38 0.50
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
52 3 0.04
53 27 0.36
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (48 bp):
CTATATATTAAATAATTTATTAATATATTTTAATAATTAACTTACTTT
Found at i:41074 original size:22 final size:22
Alignment explanation
Indices: 41043--41200 Score: 93
Period size: 22 Copynumber: 6.8 Consensus size: 22
41033 ACTTACTTTC
41043 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
* * * **
41065 TATATTTTAATTAACTTACTTTC
1 TATATATTAAATAATTTA-TTAA
41088 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
*
41110 TATAT-TTTAATCAACTATATATTAA
1 TATATATTAAAT-AA-T-T-TATTAA
* * * **
41135 TTTACTAACTATAATTAACTTACTTTC
1 TATA-T-A-T-TAAATAATTTA-TTAA
41162 TATATATTAAATAATTTATTAA
1 TATATATTAAATAATTTATTAA
* * *
41184 TACATTTTAAAGAATTT
1 TATATATTAAATAATTT
41201 GTTTTGGATT
Statistics
Matches: 100, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
21 5 0.05
22 40 0.40
23 27 0.27
24 2 0.02
25 10 0.10
26 4 0.04
27 6 0.06
29 3 0.03
30 3 0.03
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (22 bp):
TATATATTAAATAATTTATTAA
Found at i:41157 original size:18 final size:19
Alignment explanation
Indices: 41122--41171 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
41112 TATTTTAATC
*
41122 AACTATATATTAATTTACT
1 AACTATATATTAACTTACT
41141 AACTATA-ATTAACTTACT
1 AACTATATATTAACTTACT
**
41159 TTCTATATATTAA
1 AACTATATATTAA
41172 ATAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (19 bp):
AACTATATATTAACTTACT
Found at i:63872 original size:3 final size:3
Alignment explanation
Indices: 63864--63889 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
63854 GAATTGGGTT
63864 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
63890 TGGGAACGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:64156 original size:2 final size:2
Alignment explanation
Indices: 64149--64180 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64139 ACATGATAAG
64149 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64181 AGCCATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65437 original size:82 final size:82
Alignment explanation
Indices: 65254--65830 Score: 775
Period size: 82 Copynumber: 7.1 Consensus size: 82
65244 TAATCATTAG
* * * ** * * * * *
65254 TCTTTTACCCAAAGATATATAGTCTTTCATCTAACTCGCATAATTGACACATTTATGCCAAATGT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
65319 ACAACTA-GACGTTAAA
66 ACAACTAGGCCATTAAA
* * * * * * * *
65335 TCTTTAACTCAAAGGCATTTAGCCTTTTATCTAACTAGCTTGATTGGCACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
65400 ACAGCTAGACCATTAAA
66 ACAACTAGGCCATTAAA
** **
65417 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAACATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
65482 ACAGCAAGGCTATT-AA
66 ACAACTAGGCCATTAAA
*
65498 TCTTTTACTCAAAGGTAATTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
65563 ACAGCTAGGGCATTAAA
66 ACAACTAGGCCATTAAA
*
65580 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
65645 ACAACTAGGCCATTAAA
66 ACAACTAGGCCATTAAA
* ** *
65662 TCTTTTACACAAAGGTATTTAACCTTTCATCTAGTTGGCATAATTGGCACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
65727 ACAACTAGGCCATT-AA
66 ACAACTAGGCCATTAAA
* *
65743 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
65808 ACAACTAGGCCATT-AA
66 ACAACTAGGCCATTAAA
65824 TCTTTTA
1 TCTTTTA
65831 TTTTAGAACA
Statistics
Matches: 439, Mismatches: 55, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
81 213 0.49
82 226 0.51
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (82 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTAAA
Found at i:65532 original size:163 final size:163
Alignment explanation
Indices: 65254--65830 Score: 791
Period size: 163 Copynumber: 3.5 Consensus size: 163
65244 TAATCATTAG
* * * ** * *
65254 TCTTTTACCCAAAGATATATAGTCTTTCATCTAACTCG-CATAATTGACACATTTATGCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GACATAATTGACACATTTCTGTCAAATG
* * * * * * * * * *
65318 TACAACTA-GACGTTAAATCTTTAACTCAAAGGCATTTAGCCTTTTATCTAACTAGCTTGATTGG
65 CACAACTAGGCCATT-AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGG
*
65382 CACCTTTCTGTCAAATGCACAGCTAGACCATTAAA
129 CACCTTTCTGTCAAATGCACAGCTAGGCCATTAAA
* *
65417 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAACATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGC
* * * * *
65482 ACAGCAAGGCTATTAATCTTTTACTCAAAGGTAATTAACCTTTCATCTAACTGGCATAATTGACA
66 ACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGGCA
*
65547 CCTTTCTGTCAAATGCACAGCTAGGGCATTAAA
131 CCTTTCTGTCAAATGCACAGCTAGGCCATTAAA
* * *
65580 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGC
* **
65645 ACAACTAGGCCATTAAATCTTTTACACAAAGGTATTTAACCTTTCATCTAGTTGGCATAATTGGC
66 ACAACTAGGCCATT-AATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGGC
*
65710 ACCTTTCTGTCAAATGCACAACTAGGCCATT-AA
130 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAAA
* *
65743 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGC
65808 ACAACTAGGCCATTAATCTTTTA
66 ACAACTAGGCCATTAATCTTTTA
65831 TTTTAGAACA
Statistics
Matches: 367, Mismatches: 44, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
162 9 0.02
163 281 0.77
164 77 0.21
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (163 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATGC
ACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGGCA
CCTTTCTGTCAAATGCACAGCTAGGCCATTAAA
Found at i:65647 original size:245 final size:245
Alignment explanation
Indices: 65277--65830 Score: 788
Period size: 245 Copynumber: 2.3 Consensus size: 245
65267 GATATATAGT
* * * * * *
65277 CTTTCATCTAACTCGCATAATTGACACATTTATGCCAAATGTACAACTA-GACGTTAAATCTTTA
1 CTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGACATTAAATCTTTT
* * * * ** *
65341 ACTCAAAGGCATTTAGCCTTTTATCTAACTAGCTTGATTGGCACCTTTCTGTCAAATGCACAGCT
66 ACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTAACACCTTTCTGTCAAATGCACAACT
* *
65406 AGACCATTAAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAACATAATTGACATATTT
131 AGACCATTAAATCTTTTACACAAAGGTATTTAACCTTTCATCTAACTAACATAATTGACACATTT
* *
65471 CTGTCAAATGCACAGCAAGGCTATTAATCTTTTACTCAAAGGTAATTAAC
196 CTGTCAAATGCACAACAAGGCCATTAATCTTTTACTCAAAGGTAATTAAC
* * *
65521 CTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGGCATTAAATCTTTT
1 CTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGACATTAAATCTTTT
* *
65586 ACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAACT
66 ACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTAACACCTTTCTGTCAAATGCACAACT
* ** ** * *
65651 AGGCCATTAAATCTTTTACACAAAGGTATTTAACCTTTCATCTAGTTGGCATAATTGGCACCTTT
131 AGACCATTAAATCTTTTACACAAAGGTATTTAACCTTTCATCTAACTAACATAATTGACACATTT
* *
65716 CTGTCAAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAAC
196 CTGTCAAATGCACAACAAGGCCATTAATCTTTTACTCAAAGGTAATTAAC
* * *
65766 CTTTCATCTAACTGACATAATTGACACCTTTTTGTCAAATGCACAACTAGGCCATT-AATCTTTT
1 CTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGACATTAAATCTTTT
65830 A
66 A
65831 TTTTAGAACA
Statistics
Matches: 274, Mismatches: 35, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
244 52 0.19
245 222 0.81
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (245 bp):
CTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGACATTAAATCTTTT
ACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTAACACCTTTCTGTCAAATGCACAACT
AGACCATTAAATCTTTTACACAAAGGTATTTAACCTTTCATCTAACTAACATAATTGACACATTT
CTGTCAAATGCACAACAAGGCCATTAATCTTTTACTCAAAGGTAATTAAC
Found at i:65964 original size:54 final size:55
Alignment explanation
Indices: 65897--66031 Score: 141
Period size: 55 Copynumber: 2.5 Consensus size: 55
65887 TCATTATAAA
* * * *
65897 TTCTATAG-TTTGCACCCGTAGTGCTAATAC-GACAATCCA-CAACTTACTATGAAT
1 TTCT-TAGTTTTGCACACATAGTGCCAATACGGA-AATCCATAAACTTACTATGAAT
* * *
65951 TTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAAT
1 TTCTTAGTTTTGCACACATAGTGCCAATACGGAAATCCATAAACTTACTATGAAT
* * *
66006 TTTTTAGTTTTTCACACACAGTGCCA
1 TTCTTAGTTTTGCACACATAGTGCCA
66032 TTTGGTAACC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
53 3 0.04
54 27 0.40
55 37 0.55
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (55 bp):
TTCTTAGTTTTGCACACATAGTGCCAATACGGAAATCCATAAACTTACTATGAAT
Found at i:69612 original size:19 final size:19
Alignment explanation
Indices: 69576--69612 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
69566 TTTTTGGATC
*
69576 CATTTAAAATATTCTCTAA
1 CATTTAAAACATTCTCTAA
*
69595 CATTTAAAACATTTTCTA
1 CATTTAAAACATTCTCTA
69613 TATCAACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (19 bp):
CATTTAAAACATTCTCTAA
Found at i:71087 original size:164 final size:162
Alignment explanation
Indices: 70877--71428 Score: 662
Period size: 162 Copynumber: 3.5 Consensus size: 162
70867 ATCATTTAGC
* ** * *
70877 CTTTTACCCAAAGGTATTTAGTCTTTCATCTAACTTGCATAATTGACACATTTCTGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* * * * *
70942 TAGCTAAGG-CATTAAATCTTTAACTCAAAGGCATTTAGCCTTTTATCTAACTGGCATGATTGAC
66 CAGCT-AGGCCATT-AATCTTTAACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAACTGAC
*
71006 ACTTTTCTGTCAAATGCACAGCTAGGCCATTAAAT
129 ACATTTCTGTCAAATGCACAG-TAGGCCATTAAAT
71041 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* * * *
71106 CAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATTTTACTGGCATAACTGACAC
66 CAGCTAGGCCATTAATCTTTAACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAACTGACAC
* * *
71171 ATTTCTGTCTAATGCACAGTTGGCCATTAATT
131 ATTTCTGTCAAATGCACAGTAGGCCATTAAAT
* * * * *
71203 TTTTTACTCAAAGGTATTTAACCTTTCATTTAACTGGCATAGTTGAAACATTTTTGTCAAATG--
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* * *
71266 CA-C-A-G--------C-TT-ACTCAATGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC
66 CAGCTAGGCCATTAATCTTTAACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAACTGACAC
*
71318 TTTTCTGTCAAATGCAC---A--CCATT-AAT
131 ATTTCTGTCAAATGCACAGTAGGCCATTAAAT
* *
71344 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
71409 CAGCTAGGCCATTAATCTTT
66 CAGCTAGGCCATTAATCTTT
71429 TATTTTAGAA
Statistics
Matches: 335, Mismatches: 38, Indels: 39
0.81 0.09 0.09
Matches are distributed among these distances:
141 58 0.17
142 5 0.01
143 2 0.01
144 1 0.00
145 1 0.00
146 1 0.00
147 55 0.16
148 2 0.01
149 1 0.00
154 1 0.00
155 2 0.01
157 1 0.00
158 1 0.00
159 1 0.00
160 2 0.01
162 69 0.21
163 64 0.19
164 68 0.20
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (162 bp):
CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
CAGCTAGGCCATTAATCTTTAACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAACTGACAC
ATTTCTGTCAAATGCACAGTAGGCCATTAAAT
Found at i:71162 original size:81 final size:82
Alignment explanation
Indices: 70877--71272 Score: 555
Period size: 82 Copynumber: 4.9 Consensus size: 82
70867 ATCATTTAGC
* ** * *
70877 CTTTTACCCAAAGGTATTTAGTCTTTCATCTAACTTGCATAATTGACACATTTCTGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
*
70942 TAGCTAAGG-CATTAAAT
66 CAGCT-AGGCCATTAAAT
* * * * * *
70959 CTTTAACTCAAAGGCATTTAGCCTTTTATCTAACTGGCATGATTGACACTTTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
71024 CAGCTAGGCCATTAAAT
66 CAGCTAGGCCATTAAAT
71041 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
71106 CAGCTAGGCCATT-AAT
66 CAGCTAGGCCATTAAAT
* * * *
71122 CTTTTACTCAAAGGTATTTAACCTTTCATTTTACTGGCATAACTGACACATTTCTGTCTAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* *
71187 CAG-TTGGCCATTAATT
66 CAGCTAGGCCATTAAAT
* * * * *
71203 TTTTTACTCAAAGGTATTTAACCTTTCATTTAACTGGCATAGTTGAAACATTTTTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
71268 CAGCT
66 CAGCT
71273 TACTCAATGG
Statistics
Matches: 282, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
80 8 0.03
81 133 0.47
82 141 0.50
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (82 bp):
CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
CAGCTAGGCCATTAAAT
Found at i:71327 original size:66 final size:66
Alignment explanation
Indices: 71206--71413 Score: 256
Period size: 75 Copynumber: 3.0 Consensus size: 66
71196 ATTAATTTTT
* * *
71206 TTACTCAAAGGTATTTAACCTTTCATTTAACTGGCATAGTTGAAACATTTT-TGTCAAATGCACA
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-TTTTCTGTCAAATGCACA
71270 GC
65 GC
*
71272 TTACTCAATGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCACAC
1 TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATG--CA-
*
71337 CATTAATC
63 C----AGC
* *
71345 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCAC
1 --TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCAC
71410 AGC
64 AGC
71413 T
1 T
71414 AGGCCATTAA
Statistics
Matches: 123, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
65 4 0.03
66 52 0.42
68 4 0.03
69 1 0.01
72 1 0.01
73 4 0.03
75 57 0.46
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (66 bp):
TTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCACAG
C
Found at i:72918 original size:37 final size:38
Alignment explanation
Indices: 72868--72946 Score: 101
Period size: 37 Copynumber: 2.1 Consensus size: 38
72858 AACCCTTGAA
*
72868 AAATAGTTAAATA-TATATATATATATAA-ATGAT-ATTT
1 AAATAATTAAATATTATA-ATATATATAATAT-ATGATTT
*
72905 AAATAATTTAATATTATAATATATATAATATATGATTT
1 AAATAATTAAATATTATAATATATATAATATATGATTT
72943 AAAT
1 AAAT
72947 TTTAATGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 23 0.62
38 14 0.38
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (38 bp):
AAATAATTAAATATTATAATATATATAATATATGATTT
Found at i:75584 original size:3 final size:3
Alignment explanation
Indices: 75576--75601 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
75566 CTCTTTTTTA
75576 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
75602 GTTTATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:78991 original size:54 final size:54
Alignment explanation
Indices: 78913--79258 Score: 502
Period size: 54 Copynumber: 6.4 Consensus size: 54
78903 ATAAGTCCTA
*
78913 TGGG-TGCACACGTAGTGCCA-ATACGGTCGTTCATAAACATATTATGAATTCCG
1 TGGGTTGCACACTTAGTG-CAGATACGGTCGTTCATAAACATATTATGAATTCCG
* *
78966 TGGGTTGTACACTTAGTGCAGATACGGTCGTTCATAAACATATTATGAATTCTG
1 TGGGTTGCACACTTAGTGCAGATACGGTCGTTCATAAACATATTATGAATTCCG
* * *
79020 TGGGTTACACACTTAGTGCCA-ATACAGTCGTTCATAAAAATATTATGAATTCCG
1 TGGGTTGCACACTTAGTG-CAGATACGGTCGTTCATAAACATATTATGAATTCCG
**
79074 T-GGTTGCACACTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCG
1 TGGGTTGCACACTTAGTGCAGATACGGTCGTTCATAAACATATTATGAATTCCG
* * *
79127 TGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAACATATTATGAATTTCG
1 TGGGTTGCACACTTAGTGCAGATACGGTCGTTCATAAACATATTATGAATTCCG
* **
79181 TGGGTTGCACATTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCG
1 TGGGTTGCACACTTAGTGCAGATACGGTCGTTCATAAACATATTATGAATTCCG
* *
79235 TGGGTTGCAAACTTAGTGCCGATA
1 TGGGTTGCACACTTAGTGCAGATA
79259 GTACATATAG
Statistics
Matches: 262, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
53 53 0.20
54 207 0.79
55 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCAGATACGGTCGTTCATAAACATATTATGAATTCCG
Found at i:79186 original size:161 final size:162
Alignment explanation
Indices: 78933--79252 Score: 518
Period size: 161 Copynumber: 2.0 Consensus size: 162
78923 CGTAGTGCCA
* *
78933 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGTACACTTAGTGCAGATACGGTCGTT
1 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAGTGCAGATACGGTCATT
78998 CATAAACATATTATGAATTCTGTGGGTTACACACTTAGTGCCAATACAGTCGTTCATAAAAATAT
66 CATAAACATATTATGAATTCTGTGGGTTACACACTTAGTGCCAATACAGTCGTTCATAAAAATAT
*
79063 TATGAATTCCGT-GGTTGCACACTTAGTGTTG
131 TATGAATTCCGTGGGTTGCAAACTTAGTGTTG
*
79094 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCATT
1 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAGTGCAGATACGGTCATT
* * *** * *
79159 CATAAACATATTATGAATT-TCGTGGGTTGCACATTTAGTGTTGATACGGTCGTTCATAAACATA
66 CATAAACATATTATGAATTCT-GTGGGTTACACACTTAGTGCCAATACAGTCGTTCATAAAAATA
79223 TTATGAATTCCGTGGGTTGCAAACTTAGTG
130 TTATGAATTCCGTGGGTTGCAAACTTAGTG
79253 CCGATAGTAC
Statistics
Matches: 146, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
160 1 0.01
161 130 0.89
162 15 0.10
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (162 bp):
ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAGTGCAGATACGGTCATT
CATAAACATATTATGAATTCTGTGGGTTACACACTTAGTGCCAATACAGTCGTTCATAAAAATAT
TATGAATTCCGTGGGTTGCAAACTTAGTGTTG
Found at i:79258 original size:108 final size:108
Alignment explanation
Indices: 78913--79254 Score: 553
Period size: 108 Copynumber: 3.2 Consensus size: 108
78903 ATAAGTCCTA
* *
78913 TGGG-TGCACACGTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGTACA
1 TGGGTTGCACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACA
** *
78977 CTTAGTGCAGATACGGTCGTTCATAAACATATTATGAATTCTG
66 CTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCG
* * *
79020 TGGGTTACACACTTAGTGCCAATACAGTCGTTCATAAAAATATTATGAATTCCGT-GGTTGCACA
1 TGGGTTGCACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACA
79084 CTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCG
66 CTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCG
* * *
79127 TGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAACATATTATGAATTTCGTGGGTTGCACA
1 TGGGTTGCACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACA
*
79192 TTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCG
66 CTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCG
*
79235 TGGGTTGCAAACTTAGTGCC
1 TGGGTTGCACACTTAGTGCC
79255 GATAGTACAT
Statistics
Matches: 217, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
107 101 0.47
108 116 0.53
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (108 bp):
TGGGTTGCACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACA
CTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCCG
Found at i:81748 original size:64 final size:64
Alignment explanation
Indices: 81617--81826 Score: 216
Period size: 64 Copynumber: 3.3 Consensus size: 64
81607 TTGGACCCTT
* * * * *
81617 AGTGCATCGGTGCACT-AAGAGTGCATCAATGCATCAAGTGCATTCGATGTTTCAA--AATAGCC
1 AGTGCATCGATGCA-TGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAA-A-TC
*
81679 CG
63 AG
* *
81681 AGTGCATCGATGCATGGCTG-GTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAG
1 AGTGCATCGATGCATGG-AGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAG
* * *
81745 AGTGCATCGATGCATGGAGAGTGCATCGGTGCAT-AGAATGCATTCGATGTTTCAATTTATTCAT
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCATCA-AATGCATTCGATGTTTCAATTAAATCA-
81809 TG
64 -G
81811 A-TGCATCGATGCATGG
1 AGTGCATCGATGCATGG
81827 TATTTATGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
63 3 0.02
64 101 0.81
65 17 0.14
66 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (64 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAG
Found at i:82324 original size:2 final size:2
Alignment explanation
Indices: 82313--82342 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
82303 TAGCCAATTG
82313 AT AT -T 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
82343 GGCTGCTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87749 original size:17 final size:17
Alignment explanation
Indices: 87727--87762 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
87717 TTCCTTATCT
87727 CTATAGATCTCCTCAAG
1 CTATAGATCTCCTCAAG
87744 CTATAGATCTCCTCAAG
1 CTATAGATCTCCTCAAG
87761 CT
1 CT
87763 TATCCCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.31
Consensus pattern (17 bp):
CTATAGATCTCCTCAAG
Found at i:88908 original size:18 final size:17
Alignment explanation
Indices: 88854--88902 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
88844 TTGGACCCTT
* *
88854 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
88872 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
88890 AGTGCATTCGATG
1 AGTGCA-TCGATG
88903 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:89009 original size:64 final size:64
Alignment explanation
Indices: 88854--89063 Score: 187
Period size: 64 Copynumber: 3.3 Consensus size: 64
88844 TTGGACCCTT
* * * *
88854 AGTGCATCGGTGCACT-AAGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCAA--AATAGCC
1 AGTGCATCGATGCA-TGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAA-A-TC
**
88916 CG
63 AA
* * *
88918 AGTGCATCGATGCATGGCTG-GTTCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAA
1 AGTGCATCGATGCATGG-AGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAA
* * * * * *
88982 AGTGCATCGATGCATGGAGAGTGCATCGGTGTAT-AGAATACATTCGATGTTTCAATTTATTCAT
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCATCA-AATGCATTCGATGTTTCAATTAAATCAA
*
89046 TGATGCATCGATGCATGG
1 AG-TGCATCGATGCATGG
89064 TATTCATGCA
Statistics
Matches: 120, Mismatches: 19, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
63 3 0.03
64 98 0.82
65 17 0.14
66 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (64 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAA
Found at i:94148 original size:54 final size:54
Alignment explanation
Indices: 94070--94363 Score: 421
Period size: 54 Copynumber: 5.4 Consensus size: 54
94060 ATAAGTCCTT
* * * *
94070 TGGGGTGCACA-TGTAGTGTCGATACGGTCGTTGATAAACATATTATGAATTCTA
1 TGGGTTGCACACT-TAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTG
* *
94124 TGGGTTACACACTTAGTGCCGATACGGTCGTTCATAAATATATTATGAATTCTG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTG
** * *
94178 TGGGTTGCACACTTAGTGTTGATACGATCGTTCATAAACATATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTG
* *
94232 TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACATATTATGAATTCTG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTG
* *
94286 TGGGTTGCACACTTAGTGCCGATATGGTCGTTCATAAACATATTATAAATT-TCG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCT-G
*
94340 TGGGTTACACACTTAGTGCCGATA
1 TGGGTTGCACACTTAGTGCCGATA
94364 GTACACATAG
Statistics
Matches: 217, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
53 1 0.00
54 215 0.99
55 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTG
Found at i:98297 original size:21 final size:20
Alignment explanation
Indices: 98262--98301 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
98252 GAATTAATGT
*
98262 TTTTGTTGAATCCATGAAATA
1 TTTTGTTGAAGCCAT-AAATA
*
98283 TTTTGTTGAGGCCATAAAT
1 TTTTGTTGAAGCCATAAAT
98302 TCTTGCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (20 bp):
TTTTGTTGAAGCCATAAATA
Found at i:103242 original size:10 final size:9
Alignment explanation
Indices: 103227--103313 Score: 51
Period size: 9 Copynumber: 9.3 Consensus size: 9
103217 ATAAAAAGGG
103227 TAAATAGAAA
1 TAAATA-AAA
103237 TAAATAAAA
1 TAAATAAAA
103246 TATAATAATAA
1 TA-AATAA-AA
103257 T-AATAATAA
1 TAAATAA-AA
103266 T-AATAATAA
1 TAAATAA-AA
103275 T-AATAATAA
1 TAAATAA-AA
103284 T-AATAATAA
1 TAAATAA-AA
103293 T-AATAATAA
1 TAAATAA-AA
103302 T-AATAATAA
1 TAAATAA-AA
103311 TAA
1 TAA
103314 TAATAAAAAC
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
9 59 0.80
10 12 0.16
11 3 0.04
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAATAAAA
Found at i:103255 original size:3 final size:3
Alignment explanation
Indices: 103239--103342 Score: 149
Period size: 3 Copynumber: 34.7 Consensus size: 3
103229 AATAGAAATA
103239 AAT AA- AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
103285 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAC AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
103331 AAA AAGT AAT AA
1 AAT AA-T AAT AA
103343 AAGAAAATAA
Statistics
Matches: 92, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
2 4 0.04
3 83 0.90
4 5 0.05
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:103621 original size:3 final size:3
Alignment explanation
Indices: 103613--103659 Score: 60
Period size: 3 Copynumber: 15.0 Consensus size: 3
103603 AATAAAACAT
103613 ATA ATA ATA ATA ATA ATA ATA ATA ATGA AGT- ATA TATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A A-TA ATA -ATA ATA ATA ATA
103660 GTAAGGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 1 0.03
3 33 0.82
4 5 0.12
5 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:104065 original size:37 final size:37
Alignment explanation
Indices: 104015--104155 Score: 230
Period size: 37 Copynumber: 3.8 Consensus size: 37
104005 TGGATCTTAT
*
104015 TTTTAGGAGTTTGAATCATAGTAAAACTCTATCCTAC
1 TTTTAGGAGTTTGAATCATAGTAAAACTCTATCATAC
104052 TTTTAGGAGTTTGAATCATAGTAAAACTCTATCATAC
1 TTTTAGGAGTTTGAATCATAGTAAAACTCTATCATAC
* * *
104089 TTTTAGGAGTTTGAATCATAG-AAAACTATATCTTAT
1 TTTTAGGAGTTTGAATCATAGTAAAACTCTATCATAC
*
104125 TTTTAGGAGTTTGAATCCTAGTAAAACTCTA
1 TTTTAGGAGTTTGAATCATAGTAAAACTCTA
104156 ACGTTATGTT
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 32 0.33
37 65 0.67
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTTAGGAGTTTGAATCATAGTAAAACTCTATCATAC
Found at i:104139 original size:73 final size:74
Alignment explanation
Indices: 104015--104155 Score: 239
Period size: 73 Copynumber: 1.9 Consensus size: 74
104005 TGGATCTTAT
*
104015 TTTTAGGAGTTTGAATCATAGTAAAACTCTATCCTACTTTTAGGAGTTTGAATCATAGTAAAACT
1 TTTTAGGAGTTTGAATCATAGTAAAACTATATCCTACTTTTAGGAGTTTGAATCATAGTAAAACT
104080 CTATCATAC
66 CTATCATAC
* * *
104089 TTTTAGGAGTTTGAATCATAG-AAAACTATATCTTATTTTTAGGAGTTTGAATCCTAGTAAAACT
1 TTTTAGGAGTTTGAATCATAGTAAAACTATATCCTACTTTTAGGAGTTTGAATCATAGTAAAACT
104153 CTA
66 CTA
104156 ACGTTATGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 42 0.67
74 21 0.33
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (74 bp):
TTTTAGGAGTTTGAATCATAGTAAAACTATATCCTACTTTTAGGAGTTTGAATCATAGTAAAACT
CTATCATAC
Found at i:107132 original size:13 final size:13
Alignment explanation
Indices: 107116--107150 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
107106 CTCTTTTTTA
107116 TTTTCTCTTTGCT
1 TTTTCTCTTTGCT
*
107129 TTTTC-CTTTGTT
1 TTTTCTCTTTGCT
107141 TTTTCTCTTT
1 TTTTCTCTTT
107151 TTTTGTTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTTCTCTTTGCT
Found at i:107159 original size:13 final size:12
Alignment explanation
Indices: 107097--107159 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 12
107087 TTTTCCTTGG
*
107097 TTTTTGTTTCTC
1 TTTTTTTTTCTC
107109 TTTTTTATTTTCTC
1 -TTTTT-TTTTCTC
*
107123 TTTGCTTTTTC-C
1 TTT-TTTTTTCTC
107135 TTTGTTTTTTCTC
1 TTT-TTTTTTCTC
107148 TTTTTTTGTTCT
1 TTTTTTT-TTCT
107160 GATTGGATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
12 15 0.35
13 21 0.49
14 7 0.16
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:110211 original size:25 final size:25
Alignment explanation
Indices: 110156--110212 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
110146 AAATAAATAG
* *
110156 AATAAAGAAAATAAAAAAGTGACTGA
1 AATAAAG-GAATAAAAAAGAGACTGA
*
110182 AATAAAGGAATAAAAAA-AGAGTGA
1 AATAAAGGAATAAAAAAGAGACTGA
110206 AGATAAA
1 A-ATAAA
110213 AATGAATACG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 6 0.22
25 14 0.52
26 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.18, T:0.14
Consensus pattern (25 bp):
AATAAAGGAATAAAAAAGAGACTGA
Found at i:110722 original size:19 final size:19
Alignment explanation
Indices: 110695--110739 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
110685 AAAAAATAAT
110695 AAATGAAAAAAGATAAAATA
1 AAAT-AAAAAAGATAAAATA
* *
110715 AAATAAAACATATAAAATA
1 AAATAAAAAAGATAAAATA
*
110734 TAATAA
1 AAATAA
110740 TAATAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (19 bp):
AAATAAAAAAGATAAAATA
Found at i:110741 original size:3 final size:3
Alignment explanation
Indices: 110733--110788 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
110723 CATATAAAAT
*
110733 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGA AGT- ATA TATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A A-TA ATA -ATA ATA
110780 ATA ATA ATA
1 ATA ATA ATA
110789 GTAAGGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 1 0.02
3 41 0.87
4 4 0.09
5 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:111198 original size:37 final size:37
Alignment explanation
Indices: 111148--111259 Score: 206
Period size: 37 Copynumber: 3.0 Consensus size: 37
111138 ATGCTTATGG
111148 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
111185 ATCCTACTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
111222 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
111259 A
1 A
111260 ACGTTATGTT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:114152 original size:19 final size:19
Alignment explanation
Indices: 114128--114173 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
114118 AATGATTCAA
*
114128 GTTTAGCCCATACTCGTTG
1 GTTTAGCCCATACTCATTG
114147 GTTTAGCCCATACTCATTG
1 GTTTAGCCCATACTCATTG
*
114166 GTTCAGCC
1 GTTTAGCC
114174 AGCGAAAGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (19 bp):
GTTTAGCCCATACTCATTG
Found at i:115797 original size:515 final size:516
Alignment explanation
Indices: 114568--116114 Score: 2503
Period size: 515 Copynumber: 3.0 Consensus size: 516
114558 ACAACACACA
114568 TCAACTTAGTAACAAACTTTTTGCCTCGAGTCGATGGTTGTGCATTTGAAAGTATCACCATCCAC
1 TCAACTTAGTAACAAACTTTTTGCCTCGAGTCGATGGTTGTGCATTTGAAAGTATCACCATCCAC
* * *
114633 CGGTTGTCAACGATTCACCTCTATTTTCTC-GTTCTCCCTTCTTCAAATCCTTTGTAACATTCTT
66 CAGTCGTCAACGATTCACCTCTATTTTCTCATTTCTCCCTTCTTCAAATCCTTTGTAACATTCTT
*
114697 CATAATCATCATGAAAGCAAACTCAAGTGAAAATGGTGTGATGAGAGCAAAGATATAAATAGGAG
131 CATAATCATCATGAAAGCAAACTCAAGTGAAAATGGTGTGATGAGAGCAAAGATATAAATAAGAG
114762 GATTTATGTTTGCTATTCTAAATATTTCTTATATAATTAGACAATATGAAACACCATCAACAGTC
196 GATTTATGTTTGCTATTCTAAAT-TTTCTTATATAATTAGACAATATGAAACACCATCAACAGTC
* **
114827 GAAATAACGCGTCATGTCATCGCGCTAGACATAAGACATAGCATATTTAAGCCTCCGTGCTATTC
260 GAAATAACGCGTCATGCCATCGCGCTAGACATAAGACATAGCATATTTAAGCCTCCAAGCTATTC
* * **
114892 AAGAAATAATAATTACGATGTTTCCCCAAAAACAACCTATTAAACGCCTATAATGCTAAAACGAT
325 AAGAAATAATAATTACGATGTTTCCCCAAAAACTACCTATTAAACGCCTATAACGCTCTAACGAT
*
114957 TAAGTCTCAAGTCAAGCCACTTTATGACATTCACTTGACTAAGGGGAGACATATATTTTACCTTT
390 TAAGTCTCAAGTCAAGCCACTTTATGACATTCCCTTGACTAAGGGGAGACATATATTTTACCTTT
*
115022 GTCAAACGTCCTCCAAGTGTCATTTTCATATCTGCACCTCAAAACCTCCAGAGAACCTCAAATCC
455 GTCAAA---CCTCCAAGTGTCATTTTCATATCCGCACCTCAAAACCTCCAGAGAACCTCAAATCC
* *
115087 TCAACTTAGTAACAAACTTTTTGCCTCGAGTCAATGTTTGTGCATTTGAAAGTATCACCATCCAC
1 TCAACTTAGTAACAAACTTTTTGCCTCGAGTCGATGGTTGTGCATTTGAAAGTATCACCATCCAC
*
115152 CAGTCGTCAACGGTTCACCTCTATTTTCTCATTTCTCCCTTCTTCAAATCCTTTGTAACATTCTT
66 CAGTCGTCAACGATTCACCTCTATTTTCTCATTTCTCCCTTCTTCAAATCCTTTGTAACATTCTT
*
115217 CATAATCATCATGAAAGCAAACTCAAGTGAAAACGGTGTGATGAGAGCAAAGATATAAATAAGAG
131 CATAATCATCATGAAAGCAAACTCAAGTGAAAATGGTGTGATGAGAGCAAAGATATAAATAAGAG
* *
115282 GATTTAT-TCTTGCTATTCTAAATCTTTCTTATATAATTAGACAATATGAAGCACCATCAACAAT
196 GATTTATGT-TTGCTATTCTAAAT-TTTCTTATATAATTAGACAATATGAAACACCATCAACAGT
*
115346 CGAAATAACGCGTCATGCCATCGCGCTAGACATAAGACATAGCATATTTAAACCTCCAAGCTATT
259 CGAAATAACGCGTCATGCCATCGCGCTAGACATAAGACATAGCATATTTAAGCCTCCAAGCTATT
* *
115411 TAAGAAATAATAATTACTATGTTTCCCCAAAAACTACCTATTAAACGCCTATAACGCTCTAACGA
324 CAAGAAATAATAATTACGATGTTTCCCCAAAAACTACCTATTAAACGCCTATAACGCTCTAACGA
*
115476 TTAAGTCTCAAGTCAAGTCACTTTATGACATTCCCTTGACTAAGGGG-GACATATATTTTACCTT
389 TTAAGTCTCAAGTCAAGCCACTTTATGACATTCCCTTGACTAAGGGGAGACATATATTTTACCTT
* * *
115540 TGGCAAA-CTCCAAATGTCATTTTCATATCCGCACCTCAAAACCTCCAAAGAACCTCAAATCC
454 TGTCAAACCTCCAAGTGTCATTTTCATATCCGCACCTCAAAACCTCCAGAGAACCTCAAATCC
* *
115602 TCAACTTAGTAACGAACTTTTTGCCTCGAGTCGATGGTTATGCATTTGAAAGTATCACCATCCAC
1 TCAACTTAGTAACAAACTTTTTGCCTCGAGTCGATGGTTGTGCATTTGAAAGTATCACCATCCAC
*
115667 CAGTCGTCAACAATTCACCTCTATTTTCTCATTTCTCCCTTCTTCAAATCCTTTGTAACATTCTT
66 CAGTCGTCAACGATTCACCTCTATTTTCTCATTTCTCCCTTCTTCAAATCCTTTGTAACATTCTT
*
115732 CATAATCATCATGAAAGCAAACTCAAGTGAAAATGGTGTGATGAGAGCAAATATATAAATAAGAG
131 CATAATCATCATGAAAGCAAACTCAAGTGAAAATGGTGTGATGAGAGCAAAGATATAAATAAGAG
* * * *
115797 GATTTATGTTTGCAATTCCAAAATTTTCTTATATAATTAGACAATATGAAACACCATCAATAGTA
196 GATTTATGTTTGCTATT-CTAAATTTTCTTATATAATTAGACAATATGAAACACCATCAACAGTC
* * * *
115862 GAAATAACGTGTCATTCCATCGCGCTGGACATAAGACATATCATATTTAAGCCTCCAAGCTATTC
260 GAAATAACGCGTCATGCCATCGCGCTAGACATAAGACATAGCATATTTAAGCCTCCAAGCTATTC
* * *
115927 AATAAATAATAATTACGATGTTT-CCCAAAAA-TAACCTATTAAACCCCTATAACGCTCTAATGA
325 AAGAAATAATAATTACGATGTTTCCCCAAAAACT-ACCTATTAAACGCCTATAACGCTCTAACGA
* * ***
115990 TTAAGTTTCAAGTCAAGCCACTTTATGACTTTCCCACAACTAAGGGGAGACATATATTTTACCTT
389 TTAAGTCTCAAGTCAAGCCACTTTATGACATTCCCTTGACTAAGGGGAGACATATATTTTACCTT
* ** *
116055 TTTCAAACATCCTCCAAGTGTCATTTTCGCATCCACACCTCAAAACCTCCAGAGAACCTC
454 TGTC-AA-A-CCTCCAAGTGTCATTTTCATATCCGCACCTCAAAACCTCCAGAGAACCTC
116115 TCTATATGTA
Statistics
Matches: 954, Mismatches: 64, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
513 1 0.00
514 77 0.08
515 389 0.41
516 8 0.01
517 1 0.00
519 158 0.17
520 320 0.34
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.31
Consensus pattern (516 bp):
TCAACTTAGTAACAAACTTTTTGCCTCGAGTCGATGGTTGTGCATTTGAAAGTATCACCATCCAC
CAGTCGTCAACGATTCACCTCTATTTTCTCATTTCTCCCTTCTTCAAATCCTTTGTAACATTCTT
CATAATCATCATGAAAGCAAACTCAAGTGAAAATGGTGTGATGAGAGCAAAGATATAAATAAGAG
GATTTATGTTTGCTATTCTAAATTTTCTTATATAATTAGACAATATGAAACACCATCAACAGTCG
AAATAACGCGTCATGCCATCGCGCTAGACATAAGACATAGCATATTTAAGCCTCCAAGCTATTCA
AGAAATAATAATTACGATGTTTCCCCAAAAACTACCTATTAAACGCCTATAACGCTCTAACGATT
AAGTCTCAAGTCAAGCCACTTTATGACATTCCCTTGACTAAGGGGAGACATATATTTTACCTTTG
TCAAACCTCCAAGTGTCATTTTCATATCCGCACCTCAAAACCTCCAGAGAACCTCAAATCC
Found at i:120825 original size:9 final size:9
Alignment explanation
Indices: 120803--120865 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
120793 AAGGTTTTCA
120803 ACCGGTTCTG
1 ACCGGTT-TG
120813 ACCGGTTTG
1 ACCGGTTTG
*
120822 ACCGGTTCG
1 ACCGGTTTG
**
120831 AACTAGTTTG
1 -ACCGGTTTG
*
120841 ACCGGTCTG
1 ACCGGTTTG
120850 AACCGGTTTG
1 -ACCGGTTTG
120860 ACCGGT
1 ACCGGT
120866 CAGACCCGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
9 22 0.51
10 21 0.49
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:120827 original size:19 final size:20
Alignment explanation
Indices: 120803--120865 Score: 87
Period size: 19 Copynumber: 3.3 Consensus size: 20
120793 AAGGTTTTCA
120803 ACCGGTTCTG-ACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
**
120822 ACCGGTTC-GAACTAGTTTG
1 ACCGGTTCTGAACCGGTTTG
120841 ACCGG-TCTGAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
120860 ACCGGT
1 ACCGGT
120866 CAGACCCGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.08
19 34 0.92
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.29
Consensus pattern (20 bp):
ACCGGTTCTGAACCGGTTTG
Found at i:120924 original size:5 final size:5
Alignment explanation
Indices: 120868--120923 Score: 67
Period size: 5 Copynumber: 10.8 Consensus size: 5
120858 TGACCGGTCA
* * *
120868 GACCC GACCC GACCC GACCC GACCTTT AACCC GACCC GACCC GACCC GACCG
1 GACCC GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACCC GACCC
120920 GACC
1 GACC
120924 GTTGACCGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
5 41 0.93
7 3 0.07
ACGTcount: A:0.21, C:0.54, G:0.20, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:128096 original size:19 final size:18
Alignment explanation
Indices: 128070--128138 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
128060 CTGGTTTTCA
128070 ACCGGTTCTGACCGGTTTG
1 ACCGG-TCTGACCGGTTTG
* ** *
128089 ATCGGTTCAAACCGATTTG
1 ACCGG-TCTGACCGGTTTG
*
128108 ACCGGTCTGAACCAGTTTG
1 ACCGGTCTG-ACCGGTTTG
128127 ACCGGTCTGACC
1 ACCGGTCTGACC
128139 CGACCCGACC
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 5 0.12
19 35 0.88
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (18 bp):
ACCGGTCTGACCGGTTTG
Found at i:128162 original size:17 final size:17
Alignment explanation
Indices: 128140--128177 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
128130 GGTCTGACCC
*
128140 GACCCGACCCGACCTTT
1 GACCCGACCCGACCGTT
128157 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
128174 GACC
1 GACC
128178 GTTGACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.13
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:132288 original size:18 final size:18
Alignment explanation
Indices: 132265--132314 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
132255 CGAGACAAAA
132265 CACCCAAACTCAACGAGG
1 CACCCAAACTCAACGAGG
*
132283 CACCCAAACTCAATGAGG
1 CACCCAAACTCAACGAGG
132301 CACCCAAACTCAAC
1 CACCCAAACTCAAC
132315 AAAAACAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.40, G:0.12, T:0.08
Consensus pattern (18 bp):
CACCCAAACTCAACGAGG
Found at i:135025 original size:88 final size:88
Alignment explanation
Indices: 134874--135038 Score: 312
Period size: 88 Copynumber: 1.9 Consensus size: 88
134864 ATAGAACACC
134874 GTACTAATATGAAGGTCTTCATCAAGTTCACCAAAAAGTTTCTTCAACCATATCACTTCCTTACA
1 GTACTAATATGAAGGTCTTCATCAAGTTCACCAAAAAGTTTCTTCAACCATATCACTTCCTTACA
134939 AGCTTCAATGATCACAAAACATT
66 AGCTTCAATGATCACAAAACATT
* *
134962 GTACTAATATGAAGGTCTTCATTAAGTTCACCAAAAAGTTTCTTCAACCATATCACTTTCTTACA
1 GTACTAATATGAAGGTCTTCATCAAGTTCACCAAAAAGTTTCTTCAACCATATCACTTCCTTACA
135027 AGCTTCAATGAT
66 AGCTTCAATGAT
135039 TGTCATATAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (88 bp):
GTACTAATATGAAGGTCTTCATCAAGTTCACCAAAAAGTTTCTTCAACCATATCACTTCCTTACA
AGCTTCAATGATCACAAAACATT
Found at i:137242 original size:24 final size:24
Alignment explanation
Indices: 137204--137271 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
137194 CGGAGATATC
137204 AGAAATCA-AAGTAGAATTCAGATA
1 AGAAATCAGAA-TAGAATTCAGATA
* * *
137228 AGATATCAGAATAGAATCCAGATC
1 AGAAATCAGAATAGAATTCAGATA
* *
137252 AGAAATCATAACAGAATTCA
1 AGAAATCAGAATAGAATTCA
137272 AGTCGGAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 34 0.94
25 2 0.06
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (24 bp):
AGAAATCAGAATAGAATTCAGATA
Found at i:139760 original size:15 final size:16
Alignment explanation
Indices: 139729--139763 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
139719 TGGTCAACAG
139729 CGGTCAACGTCGGTCAA
1 CGGTCAACG-CGGTCAA
139746 CGGTCAACG-GGTCAA
1 CGGTCAACGCGGTCAA
139761 CGG
1 CGG
139764 GTAGGGTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
17 9 0.50
ACGTcount: A:0.23, C:0.29, G:0.34, T:0.14
Consensus pattern (16 bp):
CGGTCAACGCGGTCAA
Found at i:139776 original size:18 final size:18
Alignment explanation
Indices: 139753--139793 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
139743 CAACGGTCAA
139753 CGGGTCAACGGGTAGGGT
1 CGGGTCAACGGGTAGGGT
*
139771 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTAGGGT
139789 CGGGT
1 CGGGT
139794 TATAACCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.20, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCAACGGGTAGGGT
Found at i:141898 original size:24 final size:24
Alignment explanation
Indices: 141871--141941 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
141861 AAACGGAGAT
*
141871 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
141895 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
141919 ATTAGAAATCAGAACATAATTCA
1 ATCAGAAATCAGAACAGAATTCA
141942 AGTAATGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:141900 original size:12 final size:12
Alignment explanation
Indices: 141873--141941 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
141863 ACGGAGATAT
* *
141873 CAGAAATCAAAA
1 CAGAATTCAGAA
*
141885 CAGAATTCAGAT
1 CAGAATTCAGAA
141897 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
141909 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
141921 TAGAAATCAGAA
1 CAGAATTCAGAA
*
141933 CATAATTCA
1 CAGAATTCA
141942 AGTAATGTAT
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
11 2 0.05
12 38 0.90
13 2 0.05
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:141977 original size:24 final size:23
Alignment explanation
Indices: 141876--141977 Score: 66
Period size: 24 Copynumber: 4.3 Consensus size: 23
141866 GAGATATCAG
*
141876 AAATCAAAACAGAATTC-AGATCA
1 AAATCAGAACAGAATTCAAG-TCA
* * *
141899 GATATCAGAACAGAA-TCCAGATTA
1 -AAATCAGAACAGAATTCAAG-TCA
*
141923 GAAATCAGAACATAATTCAAGT-A
1 -AAATCAGAACAGAATTCAAGTCA
*
141946 ATGTATCAGAACAGAATTCAAGTCGA
1 A--AATCAGAACAGAATTCAAGTC-A
141972 AAATCA
1 AAATCA
141978 AAAAAAATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
22 1 0.02
23 3 0.05
24 53 0.84
25 4 0.06
26 2 0.03
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.21
Consensus pattern (23 bp):
AAATCAGAACAGAATTCAAGTCA
Found at i:144454 original size:13 final size:13
Alignment explanation
Indices: 144436--144465 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
144426 GGTCAACGTC
*
144436 GGTCAACGGGTCG
1 GGTCAACGAGTCG
144449 GGTCAACGAGTCG
1 GGTCAACGAGTCG
144462 GGTC
1 GGTC
144466 GGGTAAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACGAGTCG
Found at i:144463 original size:18 final size:18
Alignment explanation
Indices: 144442--144487 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
144432 CGTCGGTCAA
*
144442 CGGGTCGGGTCAACGAG-T
1 CGGGTCGGGTAAACG-GTT
144460 CGGGTCGGGTAAACGGTT
1 CGGGTCGGGTAAACGGTT
*
144478 CAGGTCGGGT
1 CGGGTCGGGT
144488 TATGAACGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.15, C:0.20, G:0.46, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGTT
Found at i:152409 original size:18 final size:17
Alignment explanation
Indices: 152382--152428 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
152372 ATATTCTCAC
152382 TATT-TTAATAA-AAAT
1 TATTATTAATAATAAAT
152397 AATATTATTAATAATAAAT
1 --TATTATTAATAATAAAT
152416 TATTATTTAATAA
1 TATTA-TTAATAA
152429 CGATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
18 14 0.52
19 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTATTAATAATAAAT
Found at i:153113 original size:48 final size:48
Alignment explanation
Indices: 153048--153146 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
153038 ATGCGGGTAC
153048 TGATTGAATTGACCAAAGCCTTGTTGTTTGATCGATTCGCGTGTACTT
1 TGATTGAATTGACCAAAGCCTTGTTGTTTGATCGATTCGCGTGTACTT
153096 TGATTGAATTGACCAAAGCCTTGTTGTTTGATCGATTCGCGTGTACTT
1 TGATTGAATTGACCAAAGCCTTGTTGTTTGATCGATTCGCGTGTACTT
153144 TGA
1 TGA
153147 GCTGGAAGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.39
Consensus pattern (48 bp):
TGATTGAATTGACCAAAGCCTTGTTGTTTGATCGATTCGCGTGTACTT
Found at i:157881 original size:21 final size:22
Alignment explanation
Indices: 157856--157904 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
157846 TACCGGAAAA
157856 ATTATTAATTT-TACCGGTTTT
1 ATTATTAATTTCTACCGGTTTT
* **
157877 GTTATTTTTTTCTACCGGTTTT
1 ATTATTAATTTCTACCGGTTTT
157899 ATTATT
1 ATTATT
157905 GTTGGGCACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.61
Consensus pattern (22 bp):
ATTATTAATTTCTACCGGTTTT
Found at i:159174 original size:13 final size:13
Alignment explanation
Indices: 159156--159203 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
159146 AAGCTAGTCA
*
159156 AAAAAATCAAAAT
1 AAAAAATCCAAAT
159169 AAAAAAATACCAAAT
1 -AAAAAAT-CCAAAT
*
159184 AAAACATCCAAAT
1 AAAAAATCCAAAT
159197 AAAAAAT
1 AAAAAAT
159204 AATAACAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.40
14 13 0.43
15 5 0.17
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATCCAAAT
Found at i:160503 original size:12 final size:12
Alignment explanation
Indices: 160486--160512 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
160476 AAAATCTATG
160486 ATTTTGTTACAT
1 ATTTTGTTACAT
160498 ATTTTGTTACAT
1 ATTTTGTTACAT
160510 ATT
1 ATT
160513 GTATACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
ATTTTGTTACAT
Found at i:167940 original size:17 final size:16
Alignment explanation
Indices: 167917--167992 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 16
167907 ATTCTTGTTC
167917 AAAAAAAGAGAAAAAA
1 AAAAAAAGAGAAAAAA
*
167933 ATAAAAAATAGAAGGAAAA
1 A-AAAAAAGAGAA--AAAA
*
167952 GAAAAGAAAAAGAAAAAGA
1 -AAAA-AAAGAGAAAAA-A
*
167971 GAAAAAAGA-AAAAAA
1 AAAAAAAGAGAAAAAA
167986 GAAAAAA
1 -AAAAAA
167993 TAGATCAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
15 1 0.02
16 11 0.23
17 14 0.29
18 6 0.12
19 8 0.17
20 8 0.17
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAA
Found at i:167954 original size:26 final size:24
Alignment explanation
Indices: 167918--167996 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 24
167908 TTCTTGTTCA
167918 AAAAAAGAGAAAAAAATAAAAAATAG
1 AAAAAAGA-AAAAAAA-AAAAAATAG
*
167944 AAGGAAAAGAAAAGAAAAAGAAAAAGAG
1 AA--AAAAGAAAA-AAAAA-AAAAATAG
*
167972 AAAAAAGAAAAAAAGAAAAAATAG
1 AAAAAAGAAAAAAAAAAAAAATAG
167996 A
1 A
167997 TCAAGTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 8 0.17
25 4 0.09
26 11 0.24
27 4 0.09
28 19 0.41
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (24 bp):
AAAAAAGAAAAAAAAAAAAAATAG
Found at i:167975 original size:8 final size:8
Alignment explanation
Indices: 167918--167992 Score: 71
Period size: 8 Copynumber: 8.8 Consensus size: 8
167908 TTCTTGTTCA
167918 AAAAAAGAG
1 AAAAAA-AG
*
167927 AAAAAAAT
1 AAAAAAAG
167935 AAAAAATAG
1 AAAAAA-AG
*
167944 AAGGAAAAG
1 AA-AAAAAG
167953 AAAAGAAA-
1 AAAA-AAAG
167961 AAGAAAAAG
1 AA-AAAAAG
167970 AGAAAAAAG
1 A-AAAAAAG
167979 AAAAAAAG
1 AAAAAAAG
167987 AAAAAA
1 AAAAAA
167993 TAGATCAAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
8 26 0.46
9 26 0.46
10 4 0.07
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:167978 original size:15 final size:15
Alignment explanation
Indices: 167953--167992 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
167943 GAAGGAAAAG
167953 AAAAG-AAAAAGAAA
1 AAAAGAAAAAAGAAA
*
167967 AAGAGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
167982 AAAAGAAAAAA
1 AAAAGAAAAAA
167993 TAGATCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAGAAA
Found at i:170249 original size:42 final size:42
Alignment explanation
Indices: 170184--170263 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
170174 AATTGGCAAG
* * *
170184 TCCTTTGGGCCATCAATAAGTCTTTTGAGCATGATGATTAAA
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATGATTAAA
* * *
170226 TCCTTCGGGTCATCTATCAGTCTTTCGAGCAAGATGAT
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATGAT
170264 AAGTCATTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (42 bp):
TCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATGATTAAA
Found at i:170507 original size:42 final size:41
Alignment explanation
Indices: 170436--170545 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 41
170426 TTTCCAAAAT
* * * *
170436 TGATAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGA
1 TGATAAATCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGA
* *
170477 TGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGA
1 TGA-TAAATCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGA
* * *
170519 TGATAAGTTCTTCGGGCCATCTATAAG
1 TGATAAATCCTTCGGGCCATCTGTAAG
170546 ACCTTTGGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 22 0.39
42 35 0.61
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (41 bp):
TGATAAATCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGA
Found at i:170582 original size:259 final size:259
Alignment explanation
Indices: 170056--170765 Score: 1043
Period size: 259 Copynumber: 2.8 Consensus size: 259
170046 TTGTTTTTAT
* * * *
170056 ATAATTTG-AAAACGAGAAAGCGATTTTCAAAGTTTATCATTTAGTAATTTCAGAAAATGAAA-T
1 ATAATTTGAAAAATGAGAAGGCGATTTTCAAAGTTTCTCATTTAGTAATTTTAGAAAATGAAATT
*** ** * **
170119 TGCAAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACATAGTAAACTATTTCCAAAATTGGCAAG
66 TTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGATAAG
* * *
170184 TCCTTTGGGCCATCAATAAGTCTTTTGAGCATGATGATTAAATCCTTCGGGTCATCTATCAGTCT
131 TCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCT
* * ** * *
170249 TTCGAGCAAGATGATAAGTCATTTGTGTTATCTATAAGACCTTTGGGCAAGATGTTTTCATATG
196 TTCGAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTTGGGCAAGATGCTTTCACATG
* *
170313 ATAATTTGAAAAATGAGAAGGCGATTTTCAAAGTTTCTCATTTAGTACTTTTAGAAAAAGAAATT
1 ATAATTTGAAAAATGAGAAGGCGATTTTCAAAGTTTCTCATTTAGTAATTTTAGAAAATGAAATT
* *
170378 TTTGAAAAGTAAGAAAACGATTACCAAAATTTCTTACCTAGTAAACTATTTCCAAAATTGATAAG
66 TTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGATAAG
170443 TCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCT
131 TCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCT
*
170508 TTCGAGCAAGATGATAAGTTC-TTCGGGCCATCTATAAGACCTTTGGGCAATATGCTTTCACATG
196 TTCGAGCAAGATGATAAG-TCATTCGGGCCATCTATAAGACCTTTGGGCAAGATGCTTTCACATG
* * *
170572 ATAATTTGAAAAATGAGAAGGCAATTTTCAAAGTTTCTCATTTAGTATTTTTTGAAAATGAAATT
1 ATAATTTGAAAAATGAGAAGGCGATTTTCAAAGTTTCTCATTTAGTAATTTTAGAAAATGAAATT
* *
170637 TTTGAAAAGTAAGAAATCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGTTAAG
66 TTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGATAAG
* * * * *
170702 T-CTTTGGGCCATCAGTAATTATTTCAAGAATGATGATTAAATCCTTCGGGACATCTAGT-AGTC
131 TCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCT-GTCAGTC
170765 T
195 T
170766 CACTTGAGAC
Statistics
Matches: 410, Mismatches: 39, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
257 8 0.02
258 103 0.25
259 297 0.72
260 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (259 bp):
ATAATTTGAAAAATGAGAAGGCGATTTTCAAAGTTTCTCATTTAGTAATTTTAGAAAATGAAATT
TTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGATAAG
TCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCT
TTCGAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTTGGGCAAGATGCTTTCACATG
Found at i:171366 original size:182 final size:182
Alignment explanation
Indices: 171102--171450 Score: 583
Period size: 182 Copynumber: 1.9 Consensus size: 182
171092 AAACAATTCT
* *
171102 AATTAATTTAAATAATATATAATTATAAAATAAGAATTTTATATAAATTTTTTAATTAATTAATA
1 AATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATA
* * * *
171167 TTGATTTAGGTTTAAAAGTTATTGGATATTAAATTATT-ATTTGGTTTTAAATGGTTTGGACTGA
66 TTGATTTAGGTTTAAAAGTTATTAGATATTAAATTATTAACTGGGTTTTAAATGATTTGGACTGA
* *
171231 GCCCATAGGTTTTATATAATATATTTAATATTTTAATTCAAAAAATAGTTTAC
131 GCCCATAGGTTATATATAATATATTTAA-AATTTAATTCAAAAAATAGTTTAC
171284 AATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATA
1 AATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATA
* *
171349 TTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAACTGGGTTTTAAATGATTTGGGCTGA
66 TTGATTTAGGTTTAAAAGTTATTAGATATTAAATTATTAACTGGGTTTTAAATGATTTGGACTGA
*
171414 GCCCATATGTTATATATAATATATTTAAAATTTAATT
131 GCCCATAGGTTATATATAATATATTTAAAATTTAATT
171451 TCAGTTAATT
Statistics
Matches: 155, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 107 0.69
183 48 0.31
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (182 bp):
AATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATA
TTGATTTAGGTTTAAAAGTTATTAGATATTAAATTATTAACTGGGTTTTAAATGATTTGGACTGA
GCCCATAGGTTATATATAATATATTTAAAATTTAATTCAAAAAATAGTTTAC
Found at i:173203 original size:17 final size:17
Alignment explanation
Indices: 173178--173213 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
173168 AAACATATCA
*
173178 TATACTTATATTTATAT
1 TATACTTATATATATAT
*
173195 TATATTTATATATATAT
1 TATACTTATATATATAT
173212 TA
1 TA
173214 ATTGACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TATACTTATATATATAT
Found at i:174088 original size:28 final size:28
Alignment explanation
Indices: 174053--174113 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
174043 GGACTTAATT
174053 GGAATATTTTTGTAGGACGAATATTAAA
1 GGAATATTTTTGTAGGACGAATATTAAA
*
174081 GGAATATTTTTGTAGGCCGAATATTAAA
1 GGAATATTTTTGTAGGACGAATATTAAA
*
174109 AGAAT
1 GGAAT
174114 GAAAGCTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (28 bp):
GGAATATTTTTGTAGGACGAATATTAAA
Found at i:174905 original size:37 final size:37
Alignment explanation
Indices: 174841--174911 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
174831 CATCTTCATG
** *
174841 AGGTATCGATACCGGAAGGGGTAGTATCGATACCCAT
1 AGGTATCGATACCGGAAAAGGCAGTATCGATACCCAT
174878 AGGTATCGATACC-GAAAAGGCAGGTATCGATACC
1 AGGTATCGATACCGGAAAAGGCA-GTATCGATACC
174912 ATTGTTGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 24 0.80
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (37 bp):
AGGTATCGATACCGGAAAAGGCAGTATCGATACCCAT
Found at i:175623 original size:23 final size:23
Alignment explanation
Indices: 175596--175663 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
175586 CATTTTATAT
175596 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
175619 GGCACTTCGGTGCAATTCTATGG
1 GGCACTTCGGTGCATTTCTACGC
*
175642 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
175664 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:182478 original size:23 final size:23
Alignment explanation
Indices: 182428--182530 Score: 110
Period size: 23 Copynumber: 4.7 Consensus size: 23
182418 TTGGTGCAGA
* *
182428 GGGAATCGA-TCCCCCCTTG-A-
1 GGGAACCGATTCCCCCTTTGAAG
182448 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
*
182471 GGGAACCGATTCCCCC---CACAG
1 GGGAACCGATTCCCCCTTTGA-AG
* *
182492 GGGAATCGATACCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
182515 GGGAACCGATTCCCCC
1 GGGAACCGATTCCCCC
182531 CACAGGGGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
20 9 0.13
21 25 0.37
22 1 0.01
23 32 0.47
24 1 0.01
ACGTcount: A:0.22, C:0.35, G:0.25, T:0.17
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:182496 original size:44 final size:44
Alignment explanation
Indices: 182448--182552 Score: 192
Period size: 44 Copynumber: 2.4 Consensus size: 44
182438 CCCCCCTTGA
* *
182448 GGGAACCGATTCCCCCTTTGAAGGGGAACCGATTCCCCCCACAG
1 GGGAATCGATACCCCCTTTGAAGGGGAACCGATTCCCCCCACAG
182492 GGGAATCGATACCCCCTTTGAAGGGGAACCGATTCCCCCCACAG
1 GGGAATCGATACCCCCTTTGAAGGGGAACCGATTCCCCCCACAG
182536 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
182553 GGGGTTCTGG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.24, C:0.35, G:0.25, T:0.16
Consensus pattern (44 bp):
GGGAATCGATACCCCCTTTGAAGGGGAACCGATTCCCCCCACAG
Found at i:182539 original size:21 final size:21
Alignment explanation
Indices: 182469--182551 Score: 87
Period size: 21 Copynumber: 3.9 Consensus size: 21
182459 CCCCCTTTGA
*
182469 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
* *
182490 AGGGGAATCGATACCCCCTTTGA-
1 AGGGGAACCGATACCCCC---CAC
*
182513 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
182534 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
182552 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.02
21 32 0.64
23 16 0.32
24 1 0.02
ACGTcount: A:0.25, C:0.36, G:0.25, T:0.13
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:191861 original size:23 final size:23
Alignment explanation
Indices: 191834--191899 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
191824 TTTTATACGA
*
191834 CACTTCGATGCATTTCTACGGGG
1 CACTTCGGTGCATTTCTACGGGG
* * *
191857 CACTTTGGTGCAATTCTACGTGG
1 CACTTCGGTGCATTTCTACGGGG
*
191880 CACTTCGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
191900 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGGGG
Found at i:194248 original size:34 final size:34
Alignment explanation
Indices: 194208--194273 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 34
194198 AATGAACATG
194208 TTCATTTAGTGTTCGAGAACATGT-TCGTTTAGCT
1 TTCATTTAGTGTTCGAGAACATGTAT-GTTTAGCT
*
194242 TTCATTTAGTGTTCGTGAACATGTATGTTTAG
1 TTCATTTAGTGTTCGAGAACATGTATGTTTAG
194274 TGTCCATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (34 bp):
TTCATTTAGTGTTCGAGAACATGTATGTTTAGCT
Found at i:197227 original size:130 final size:131
Alignment explanation
Indices: 196993--197330 Score: 358
Period size: 130 Copynumber: 2.5 Consensus size: 131
196983 GAGTTCTGGT
* * * *
196993 CATCTTTGGGAAGGGTGATAACATGGTTCCTACGCGATGAGGATGGTTGGTTATCTAGGGGTGAC
1 CATCTTTAGGAA-GATGATAACATGGTTCCTACGCGATGAGGACGGCTGGTTATC-A-GGGTGAC
* ** * * * * * **
197058 ACAGATCCTATGTGATGAGGAGGTCTGGTCTATGGATGACACGGTTCCTATGCGATGAAGACGGT
63 ACAGCTCCTATACGACGAGAAGGTCTGGTCTAGGGATGACACAGTTCCTATACGATGAAGACGAC
*
197123 AGGC
128 AAGC
* * **
197127 TATCTTTAGG-A-ATGATAACATAGTTCCTACGTAATGAGGACGGCTGGTTATCAGAGGTGACAC
1 CATCTTTAGGAAGATGATAACATGGTTCCTACGCGATGAGGACGGCTGGTTATCAG-GGTGACAC
* *
197190 AGCTCCTATACGACGAGAAGGTCTGGTC-AGGGGATGACACAGTTCCTATATGATGAGGACGACA
65 AGCTCCTATACGACGAGAAGGTCTGGTCTA-GGGATGACACAGTTCCTATACGATGAAGACGACA
197254 AGC
129 AGC
* * * *
197257 CATCTTTAGGAAGGATGATAACATGGTTCCTATGCGATGAAGACAGCTGGTTATTAGGGATGACA
1 CATCTTTAGGAA-GATGATAACATGGTTCCTACGCGATGAGGACGGCTGGTTATCAGGG-TGACA
*
197322 TAGCTCCTA
64 CAGCTCCTA
197331 CGTGATGAAG
Statistics
Matches: 168, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
129 2 0.01
130 70 0.42
131 36 0.21
132 2 0.01
133 50 0.30
134 8 0.05
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (131 bp):
CATCTTTAGGAAGATGATAACATGGTTCCTACGCGATGAGGACGGCTGGTTATCAGGGTGACACA
GCTCCTATACGACGAGAAGGTCTGGTCTAGGGATGACACAGTTCCTATACGATGAAGACGACAAG
C
Found at i:197548 original size:37 final size:36
Alignment explanation
Indices: 197431--197676 Score: 202
Period size: 36 Copynumber: 6.8 Consensus size: 36
197421 GACAAAATTC
*
197431 ATTTCAAGGGAAACTA-TCTCAAAGATATTTTT-TCTTT
1 ATTTCAAGGGAAAC-AGACTCAAAGAT-TTTTTGT-TTT
* **
197468 GA-TTCAAGGGAAACAAACTCAAAGATGACCTTTGTTTT
1 -ATTTCAAGGGAAACAGACTCAAAGAT--TTTTTGTTTT
* *
197506 GTTTCAAGTGAAACAGACTCAAAGATTTCTTTGTTTT
1 ATTTCAAGGGAAACAGACTCAAAGATTT-TTTGTTTT
** *
197543 ATTTCAAAAGAAACAGACT--TAGATTTTTTGTTTT
1 ATTTCAAGGGAAACAGACTCAAAGATTTTTTGTTTT
* * * * *
197577 GTTTCAAGTGAAATAAACTCAAAGATTTTTCGTTTT
1 ATTTCAAGGGAAACAGACTCAAAGATTTTTTGTTTT
* * *
197613 GTTTCAAGGGAAACATATTCAAAGATTTTTT-TCTTT
1 ATTTCAAGGGAAACAGACTCAAAGATTTTTTGT-TTT
*
197649 ATTTCAAGTGAAACAGACTC--AGATTTTT
1 ATTTCAAGGGAAACAGACTCAAAGATTTTT
197677 CTTCAAAAGA
Statistics
Matches: 172, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
34 30 0.17
35 7 0.04
36 59 0.34
37 45 0.26
38 30 0.17
39 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (36 bp):
ATTTCAAGGGAAACAGACTCAAAGATTTTTTGTTTT
Found at i:197642 original size:71 final size:71
Alignment explanation
Indices: 197448--197677 Score: 211
Period size: 71 Copynumber: 3.2 Consensus size: 71
197438 GGGAAACTAT
* * * *
197448 CTCAAAGATATTTT-TTCTTTGATTCAAGGGAAACAAACTCAAAGATGACCTTTGTTTTGTTTCA
1 CTCAAAGAT-TTTTCGT-TTTGTTTCAAGGGAAACAAATTCAAAGAT---TTTTGTTTTGTTTCA
197512 AGTGAAACAGA
61 AGTGAAACAGA
* * ** *
197523 CTCAAAGATTTCTTTGTTTTATTTCAAAAGAAACAGACTT---AGATTTTTTGTTTTGTTTCAAG
1 CTCAAAGATTT-TTCGTTTTGTTTCAAGGGAAACA-AATTCAAAGA-TTTTTGTTTTGTTTCAAG
* *
197585 TGAAATAAA
63 TGAAACAGA
* * *
197594 CTCAAAGATTTTTCGTTTTGTTTCAAGGGAAACATATTCAAAGATTTTTTTCTTTATTTCAAGTG
1 CTCAAAGATTTTTCGTTTTGTTTCAAGGGAAACAAATTCAAAGATTTTTGT-TTTGTTTCAAGTG
197659 AAACAGA
65 AAACAGA
197666 CTC--AGATTTTTC
1 CTCAAAGATTTTTC
197678 TTCAAAAGAA
Statistics
Matches: 127, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
69 2 0.02
70 28 0.22
71 40 0.31
72 23 0.18
73 3 0.02
74 3 0.02
75 25 0.20
76 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (71 bp):
CTCAAAGATTTTTCGTTTTGTTTCAAGGGAAACAAATTCAAAGATTTTTGTTTTGTTTCAAGTGA
AACAGA
Found at i:197713 original size:31 final size:31
Alignment explanation
Indices: 197671--197763 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 31
197661 ACAGACTCAG
*
197671 ATTTTTCTTCAAAAGAAACTATCTCAAGAGA
1 ATTTTTTTTCAAAAGAAACTATCTCAAGAGA
** * * *
197702 ATTTTTTTTCAATGGAAACGATATCAA-AGG
1 ATTTTTTTTCAAAAGAAACTATCTCAAGAGA
* * * *
197732 TTTTTTTTCTCAAATGAAATTGTCTCAAGAGA
1 ATTTTTTT-TCAAAAGAAACTATCTCAAGAGA
197764 GACAAAACTT
Statistics
Matches: 46, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
30 9 0.20
31 35 0.76
32 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (31 bp):
ATTTTTTTTCAAAAGAAACTATCTCAAGAGA
Found at i:202488 original size:10 final size:10
Alignment explanation
Indices: 202473--202508 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
202463 ATTTTTCACA
*
202473 AAAATAAAAT
1 AAAATAAAAC
202483 AAAATAAAAC
1 AAAATAAAAC
*
202493 AAAATGAAAC
1 AAAATAAAAC
202503 AAAATA
1 AAAATA
202509 CCAAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.14
Consensus pattern (10 bp):
AAAATAAAAC
Found at i:203349 original size:28 final size:28
Alignment explanation
Indices: 203302--203426 Score: 103
Period size: 28 Copynumber: 4.5 Consensus size: 28
203292 GGATAAAACT
**
203302 ATTTTT-T-AATTACATTAAAGTACAAA
1 ATTTTTATAAATTACAAAAAAGTACAAA
* *
203328 ATTTTTATAATTTACAAAAAAGTACATA
1 ATTTTTATAAATTACAAAAAAGTACAAA
* ** *
203356 TTTTTTATAAATTACAATTAAGTATAAA
1 ATTTTTATAAATTACAAAAAAGTACAAA
** *
203384 ACGTTTATAAATTA-AAATAAAATACAAA
1 ATTTTTATAAATTACAAA-AAAGTACAAA
*
203412 AGTATTTATAAATTA
1 A-TTTTTATAAATTA
203427 TGATAAAAGA
Statistics
Matches: 76, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
26 6 0.08
27 3 0.04
28 56 0.74
29 11 0.14
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (28 bp):
ATTTTTATAAATTACAAAAAAGTACAAA
Found at i:205675 original size:24 final size:25
Alignment explanation
Indices: 205632--205684 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
205622 AAATTATTGG
* *
205632 TTTAATTCAAACTTCAAATT-TATT
1 TTTAATTCAAACTCCAAATTGGATT
205656 TTTAATT-AAACTCCATAATTGGATT
1 TTTAATTCAAACTCCA-AATTGGATT
205681 TTTA
1 TTTA
205685 TTTTGACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 11 0.44
25 7 0.28
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (25 bp):
TTTAATTCAAACTCCAAATTGGATT
Found at i:205880 original size:13 final size:13
Alignment explanation
Indices: 205862--205887 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
205852 TTATTTTAAG
205862 TTTTATTATTATT
1 TTTTATTATTATT
205875 TTTTATTATTATT
1 TTTTATTATTATT
205888 GAGATCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTATTATT
Found at i:206229 original size:27 final size:28
Alignment explanation
Indices: 206199--206259 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
206189 TAAAACTAAA
*
206199 ATATTTTA-ACATTTT-TAATTATTAT-AT
1 ATATTTTATA-ATTTTGAAATT-TTATAAT
206226 ATATTTTATAATTTTGAAATTTTATAAT
1 ATATTTTATAATTTTGAAATTTTATAAT
206254 ATATTT
1 ATATTT
206260 AATGACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
ATATTTTATAATTTTGAAATTTTATAAT
Found at i:206400 original size:27 final size:28
Alignment explanation
Indices: 206345--206401 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
206335 TATTTTTTTT
*
206345 AATTTTGAAATATTTTTAAAATAATAAA
1 AATTTTGAAATATTTTTAAAATAAAAAA
*
206373 AATTTT-AAATA-TTTTAAATTTAAAAAA
1 AATTTTGAAATATTTTTAAA-ATAAAAAA
206400 AA
1 AA
206402 ATGTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.27
27 13 0.50
28 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
AATTTTGAAATATTTTTAAAATAAAAAA
Found at i:207005 original size:43 final size:43
Alignment explanation
Indices: 206940--207163 Score: 297
Period size: 43 Copynumber: 5.2 Consensus size: 43
206930 TGAGAACCAA
* * * *
206940 AAACGCCGCCATAGGTCAAGATCTATAGCGGCGTTTTTGTAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
206983 AAACGCCGCAAAAGGTTGAGATCTATAGCGGTGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * * *
207026 AAACGCCGCAAAAGGTC-ATATCTATAGCGTCATTTTTGGAAT
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
207068 AAACGCCGCAAAAAGTCGAGATCTATAACGGCATTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
**
207111 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTAAATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGA-AC
207155 AAACGCCGC
1 AAACGCCGC
207164 TAATTACCTT
Statistics
Matches: 157, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 36 0.23
43 110 0.70
44 11 0.07
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:207062 original size:85 final size:86
Alignment explanation
Indices: 206940--207163 Score: 297
Period size: 85 Copynumber: 2.6 Consensus size: 86
206930 TGAGAACCAA
* * * * *
206940 AAACGCCGCCATAGGTCAAGATCTATAGCGGCGTTTTTGTAACAAACGCCGCAAAAGGTTGAGAT
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGAAACAAACGCCGCAAAAAGTCGAGAT
* **
207005 CTATAGCGGTGTTTTTGGAAC
66 CTATAACGGCATTTTTGGAAC
* * * * *
207026 AAACGCCGCAAAAGGTC-ATATCTATAGCGTCATTTTTGGAATAAACGCCGCAAAAAGTCGAGAT
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGAAACAAACGCCGCAAAAAGTCGAGAT
207090 CTATAACGGCATTTTTGGAAC
66 CTATAACGGCATTTTTGGAAC
* *
207111 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTAAATACAAACGCCGC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGAA-ACAAACGCCGC
207164 TAATTACCTT
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
85 75 0.64
86 33 0.28
87 10 0.08
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (86 bp):
AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGAAACAAACGCCGCAAAAAGTCGAGAT
CTATAACGGCATTTTTGGAAC
Found at i:211944 original size:159 final size:158
Alignment explanation
Indices: 211656--211964 Score: 494
Period size: 159 Copynumber: 1.9 Consensus size: 158
211646 TTAGGGGTTT
*
211656 ATGTTTAACTTTGACGGGAATAAAAAATATGTGAAGTAGGAAAAGTGAAAAAGGGTTAAAGGCTA
1 ATGTTTAACTTCGACGGGAATAAAAAATATGTGAAGTAGGAAAAGTGAAAAAGGGTTAAAGGCTA
*
211721 GTGGGATTTAAAAAATTGTAAACTTGTGGCGTTTGCATAAAAACGCCACTGAAACACAAGTCTTT
66 GTGGGATTTAAAAAATTGTAAACTTGTAGCGTTTGCATAAAAACGCCACTGAAACACAAGTCTTT
211786 AGCGGCGTTTATAAAAAAACGCCACTTC
131 AGCGGCGTTTATAAAAAAACGCCACTTC
**
211814 ATGTTTAACTTCGGGGGGAATAAAAAATATGTGAAGTAGGAAAAGTGAAAAAGGGTTAAAAGGGC
1 ATGTTTAACTTCGACGGGAATAAAAAATATGTGAAGTAGGAAAAGTGAAAAAGGGTT-AAA-GGC
* ** *
211879 -GGTGGGATTTAAAAAATTGTAAACTTGTAGCGTTTGCATAAAAATTCCACTGAAACACGAGTCT
64 TAGTGGGATTTAAAAAATTGTAAACTTGTAGCGTTTGCATAAAAACGCCACTGAAACACAAGTCT
* * *
211943 TTAGTGGCGTTTGTATAAAAAC
129 TTAGCGGCGTTTATAAAAAAAC
211965 ACCGCTAAAG
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
158 54 0.39
159 81 0.59
160 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.27
Consensus pattern (158 bp):
ATGTTTAACTTCGACGGGAATAAAAAATATGTGAAGTAGGAAAAGTGAAAAAGGGTTAAAGGCTA
GTGGGATTTAAAAAATTGTAAACTTGTAGCGTTTGCATAAAAACGCCACTGAAACACAAGTCTTT
AGCGGCGTTTATAAAAAAACGCCACTTC
Found at i:211980 original size:41 final size:41
Alignment explanation
Indices: 211935--212461 Score: 222
Period size: 41 Copynumber: 13.0 Consensus size: 41
211925 CCACTGAAAC
* *
211935 ACGAGTCTTTAGTGGCGTTTGTATAAAAACACCGCTAAAGT
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * * * * **
211976 ACGAGTCTTTAGCGGCATTTTTATAAAAAAAAATGCTACTAAAAC
1 ACGAGTCTTTAGTGGC--GTTTATATAAAAACA--CCACTAAAGT
* * *
212021 AAGAGTCTATAGCGGCGTTTATATAAAAACACCACTAAAGT
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * **
212062 ACGAATCTTTAGT-GTGTTTATATAAAAATGCCACTAAAGT
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * * * * **
212102 ACGAATCTTTAGTGGTGTTTATATAAAAACGCTATTAAAAC
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * *
212143 ATC-AGTCTTTAGTGGCATTT-T-T--ATACA--A--ACA-T
1 A-CGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * * ** *
212175 --GAGTTTTTAGCGGCGTTTGTATAAAAATGCCGCTAAAGT
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * * * ** **
212214 ATGAGTCTTTTA-CGGCATTTATATAGAAATGCCACTAAAAC
1 ACGAGTC-TTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * ** * **
212255 AAGAGTCTATAGCAGCATTTATATAAAAATGCCACTAAAGT
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * * **
212296 ACGAGTCTTGAGCGGC-TTTATATAAAACAAATCCACTAAAAC
1 ACGAGTCTTTAGTGGCGTTTATATAAAA-ACA-CCACTAAAGT
* * * ** *
212338 ACGAGTCTTTAGCGACGTTTGTATAAAAATGCCACTAACGT
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * * * * * *
212379 ATGAGTATATAGCGGAGTTTA-AAAAAAACGCCACTAAAGT
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
* * * * ** *
212419 ACGAGTATATAGCGGCGTTTGTACCAAAACGCCACTAAAGT
1 ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
212460 AC
1 AC
212462 TACTCTGTCG
Statistics
Matches: 375, Mismatches: 87, Indels: 48
0.74 0.17 0.09
Matches are distributed among these distances:
30 14 0.04
31 1 0.00
32 1 0.00
33 2 0.01
34 2 0.01
35 1 0.00
37 3 0.01
38 2 0.01
39 2 0.01
40 86 0.23
41 180 0.48
42 28 0.07
43 33 0.09
45 20 0.05
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (41 bp):
ACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGT
Found at i:212021 original size:86 final size:81
Alignment explanation
Indices: 211918--212131 Score: 239
Period size: 86 Copynumber: 2.6 Consensus size: 81
211908 GCGTTTGCAT
* * * * *
211918 AAAAATTCCACTGAAACACGAGTCTTTAGTGGCGTTTGTATAAAAACACCGCTAAAGTACGAGTC
1 AAAAATGCCACTAAAACACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGTACGAATC
*
211983 TTTAGCGGCATTTTTATAAAA
66 TTTAG-GG--TGTTTAT--AA
* * * *
212004 AAAAATGCTACTAAAACAAGAGTCTATAGCGGCGTTTATATAAAAACACCACTAAAGTACGAATC
1 AAAAATGCCACTAAAACACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGTACGAATC
* *
212069 TTTAGTGTGTTTATAT
66 TTTAGGGTGTTTATAA
** * *
212085 AAAAATGCCACTAAAGTACGAATCTTTAGTGGTGTTTATATAAAAAC
1 AAAAATGCCACTAAAACACGAGTCTTTAGTGGCGTTTATATAAAAAC
212132 GCTATTAAAA
Statistics
Matches: 108, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
81 40 0.37
83 6 0.06
85 1 0.01
86 61 0.56
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (81 bp):
AAAAATGCCACTAAAACACGAGTCTTTAGTGGCGTTTATATAAAAACACCACTAAAGTACGAATC
TTTAGGGTGTTTATAA
Found at i:212368 original size:83 final size:81
Alignment explanation
Indices: 212182--212461 Score: 248
Period size: 83 Copynumber: 3.4 Consensus size: 81
212172 CATGAGTTTT
* * * *
212182 TAGCGGCGTTTGTATAAAAATGCCGCTAAAGTATGAGTCTTTTA-CGGCATTTATAT--AGAAAT
1 TAGCGACGTTTGTATAAAAATGCCACTAAAGTACGAGTC--TTAGCGGC-TTTATATAAAAAAAT
*
212244 GCCACTAAAACAAGAGTCTA
63 -CCACTAAAACACGAGTCTA
* *
212264 TAGC-AGCATTTATATAAAAATGCCACTAAAGTACGAGTCTTGAGCGGCTTTATATAAAACAAAT
1 TAGCGA-CGTTTGTATAAAAATGCCACTAAAGTACGAGTCTT-AGCGGCTTTATATAAAA-AAAT
*
212328 CCACTAAAACACGAGTCTT
63 CCACTAAAACACGAGTCTA
* * * * **
212347 TAGCGACGTTTGTATAAAAATGCCACTAACGTATGAGTATATAGCGGAGTTTA-A-AAAAAACGC
1 TAGCGACGTTTGTATAAAAATGCCACTAAAGTACGAGTCT-TAGCGG-CTTTATATAAAAAAATC
** *
212410 CACTAAAGTACGAGTATA
64 CACTAAAACACGAGTCTA
* ** *
212428 TAGCGGCGTTTGTACCAAAACGCCACTAAAGTAC
1 TAGCGACGTTTGTATAAAAATGCCACTAAAGTAC
212462 TACTCTGTCG
Statistics
Matches: 163, Mismatches: 26, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
80 2 0.01
81 53 0.33
82 41 0.25
83 57 0.35
84 10 0.06
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (81 bp):
TAGCGACGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTAGCGGCTTTATATAAAAAAATCCA
CTAAAACACGAGTCTA
Found at i:212414 original size:40 final size:41
Alignment explanation
Indices: 212362--212461 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 41
212352 ACGTTTGTAT
* * *
212362 AAAAATGCCACTAACGTATGAGTATATAGCGGAGTTT-AAA
1 AAAAACGCCACTAAAGTACGAGTATATAGCGGAGTTTGAAA
* * *
212402 AAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTAC
1 AAAAACGCCACTAAAGTACGAGTATATAGCGGAGTTTGAAA
*
212443 CAAAACGCCACTAAAGTAC
1 AAAAACGCCACTAAAGTAC
212462 TACTCTGTCG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 33 0.63
41 19 0.37
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACGAGTATATAGCGGAGTTTGAAA
Found at i:214604 original size:8 final size:8
Alignment explanation
Indices: 214587--214624 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
214577 TTAATATGAT
*
214587 TAATAAAA
1 TAATATAA
214595 TAATATAA
1 TAATATAA
214603 T-ATGATAA
1 TAAT-ATAA
214611 TAATATAA
1 TAATATAA
214619 TAATAT
1 TAATAT
214625 TTTTGTAGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 2 0.07
8 23 0.85
9 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (8 bp):
TAATATAA
Found at i:215409 original size:17 final size:17
Alignment explanation
Indices: 215387--215419 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
215377 GAAAAAGATC
215387 ATTATCAAGTAATAATT
1 ATTATCAAGTAATAATT
215404 ATTATCAAGTAATAAT
1 ATTATCAAGTAATAAT
215420 ATAATACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTATCAAGTAATAATT
Found at i:217288 original size:17 final size:16
Alignment explanation
Indices: 217254--217294 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
217244 ATTTATAAAA
217254 AATTAAT-ATATTAAT
1 AATTAATAATATTAAT
*
217269 AATTAATAATAATTATT
1 AATTAATAAT-ATTAAT
217286 AATTAATAA
1 AATTAATAA
217295 CTTAACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 2 0.09
17 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAATAATATTAAT
Found at i:219245 original size:17 final size:18
Alignment explanation
Indices: 219225--219262 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
219215 TATAAGTGTT
219225 TAAATAAAATAAA-ATCA
1 TAAATAAAATAAAGATCA
*
219242 TAAATAACATAAAGATCA
1 TAAATAAAATAAAGATCA
219260 TAA
1 TAA
219263 TTCAAGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (18 bp):
TAAATAAAATAAAGATCA
Found at i:219320 original size:2 final size:2
Alignment explanation
Indices: 219313--219342 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
219303 GAAACAAGCC
219313 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
219343 TCATATTCAT
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:219477 original size:44 final size:45
Alignment explanation
Indices: 219402--219493 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 45
219392 TTAAATGACT
* *
219402 AAAATTAAAGTACTGAAAAATGAAGGGTAAAAATAAAAAAAT-AG
1 AAAATTAAAGTAATGAAAAATAAAGGGTAAAAATAAAAAAATAAG
* * * *
219446 AAAATTAAAGTAATG-AAATTAAAGGATTAAAATTAAATAAATAAG
1 AAAATTAAAGTAATGAAAAATAAAGG-GTAAAAATAAAAAAATAAG
219491 AAA
1 AAA
219494 GTAAAGGGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 8 0.20
44 27 0.68
45 5 0.12
ACGTcount: A:0.64, C:0.01, G:0.13, T:0.22
Consensus pattern (45 bp):
AAAATTAAAGTAATGAAAAATAAAGGGTAAAAATAAAAAAATAAG
Found at i:219478 original size:14 final size:14
Alignment explanation
Indices: 219446--219529 Score: 51
Period size: 14 Copynumber: 5.6 Consensus size: 14
219436 AAAAAAATAG
*
219446 AAAATTAAAGTAAT
1 AAAATTAAAGGAAT
* *
219460 GAAATTAAAGGATT
1 AAAATTAAAGGAAT
**
219474 AAAATTAAATAAAT
1 AAAATTAAAGGAAT
*
219488 AAGAAAGTAAAGGGAAT
1 -A-AAATTAAA-GGAAT
* *
219505 AAATTTAAATGTGCAT
1 AAAATTAAA-G-GAAT
219521 AAAATTAAA
1 AAAATTAAA
219530 TAACAAAAAT
Statistics
Matches: 51, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
14 21 0.41
15 8 0.16
16 19 0.37
17 3 0.06
ACGTcount: A:0.60, C:0.01, G:0.13, T:0.26
Consensus pattern (14 bp):
AAAATTAAAGGAAT
Found at i:221455 original size:163 final size:164
Alignment explanation
Indices: 221115--221511 Score: 493
Period size: 163 Copynumber: 2.4 Consensus size: 164
221105 GAGCTCCAAG
* * *
221115 TTCTCATTATGAACTT-TTCACTTTTCTGTTCGGACGAGTTTTTCTCATTATGAACCCTTCCATT
1 TTCTCATTATGAACTTCTTCTC-CTTCT-TT-GGACGAGTTCTTCTCATTATGAACCCTTCCATT
* * * * *
221179 -GAAATGTTGATCCACCATCTTCTGTGATAAAATCAAACAGAATGTTGATGATGATCTATCTCCT
63 GGAAATGTTGATACACCAACTTCTGTGATAAAATCAAAAAAAATGTTGACGATGATCTATCTCCT
*
221243 TCTTTGATAGAATCGAGCAAAAAGGGTGAACACATAC
128 TCTTTGATAGAATCGAGCAAAAAGAGTGAACACATAC
* *
221280 TTCTCATTATGAACTTCTTCTCCTTCTTTGGATGAGTTCTTCTCATTATGAACCCCTCCATTGGA
1 TTCTCATTATGAACTTCTTCTCCTTCTTTGGACGAGTTCTTCTCATTATGAACCCTTCCATTGGA
** *
221345 AATGTTGATACA-CAACATTCTGTGATGGAATCAAAAAAAATGTTGACGCTGATCTA-C-CACTT
66 AATGTTGATACACCAAC-TTCTGTGATAAAATCAAAAAAAATGTTGACGATGATCTATCTC-CTT
* * *
221407 TTTGTGATAGAATTGAGC-AAAAGAGTGAACA-AGTTC
129 CTT-TGATAGAATCGAGCAAAAAGAGTGAACACA-TAC
* * * *
221443 TTCTCATTATGAACTTCATCTCCCTCTTCGGACGAGTTCTTCTCATTATGAACCCTTTCATTGGA
1 TTCTCATTATGAACTTCTTCTCCTTCTTTGGACGAGTTCTTCTCATTATGAACCCTTCCATTGGA
221508 AATG
66 AATG
221512 ACGATCCACC
Statistics
Matches: 203, Mismatches: 23, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
162 2 0.01
163 116 0.57
164 61 0.30
165 20 0.10
166 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (164 bp):
TTCTCATTATGAACTTCTTCTCCTTCTTTGGACGAGTTCTTCTCATTATGAACCCTTCCATTGGA
AATGTTGATACACCAACTTCTGTGATAAAATCAAAAAAAATGTTGACGATGATCTATCTCCTTCT
TTGATAGAATCGAGCAAAAAGAGTGAACACATAC
Found at i:221728 original size:208 final size:208
Alignment explanation
Indices: 221362--221742 Score: 557
Period size: 208 Copynumber: 1.8 Consensus size: 208
221352 ATACACAACA
* * *
221362 TTCTGTGATGGAATCAAAAAAAATGTTGACGCTGATCTACCACTTTTTGTGATAGAATTGAGCAA
1 TTCTGTGATGGAATCAAAAAAAATGTTGACGCTGATCTACCACCTTCTGTGATAGAATCGAGCAA
** * *
221427 AAGAGTGAACAAGTTCTTCTCATTATGAACTTCATCTCCCTCTTCGGACGAGTTCTTCTCATTAT
66 AAGAGCAAACAAGTTCTTCTCATTATGAACTTCATCTCCATCTTCGGACGAATTCTTCTCATTAT
* *
221492 GAACCCTTTCATTGGAAATGACGATCCACCTCCTTCTTTGATGAAATCGAGCAAGAATTACAATA
131 GAACCCTTCCATTGGAAATGACGATCCACCTCCTTCTGTGATGAAATCGAGCAAGAATTACAATA
221557 TTGATCCACCTTC
196 TTGATCCACCTTC
** * * * *
221570 TTCTGTGATGGAATTGAACAAAATGTTGATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAA
1 TTCTGTGATGGAATCAAAAAAAATGTTGACGCTGATCTACCACCTTCTGTGATAGAATCGAGCAA
* * *
221635 AAGGGCAAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCTTCGGATGAATTCTTCTCATTAT
66 AAGAGCAAACAAGTTCTTCTCATTATGAACTTCATCTCCATCTTCGGACGAATTCTTCTCATTAT
** *
221700 GAACTCC-TCCATTGGAAATGTTGATCCACCTCTTTCTGTGATG
131 GAAC-CCTTCCATTGGAAATGACGATCCACCTCCTTCTGTGATG
221743 GATTTCAATA
Statistics
Matches: 151, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
208 149 0.99
209 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (208 bp):
TTCTGTGATGGAATCAAAAAAAATGTTGACGCTGATCTACCACCTTCTGTGATAGAATCGAGCAA
AAGAGCAAACAAGTTCTTCTCATTATGAACTTCATCTCCATCTTCGGACGAATTCTTCTCATTAT
GAACCCTTCCATTGGAAATGACGATCCACCTCCTTCTGTGATGAAATCGAGCAAGAATTACAATA
TTGATCCACCTTC
Found at i:227477 original size:3 final size:3
Alignment explanation
Indices: 227469--227513 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
227459 GTGTAATGTA
227469 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
227514 ATAAAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:228685 original size:86 final size:85
Alignment explanation
Indices: 228591--228814 Score: 283
Period size: 86 Copynumber: 2.6 Consensus size: 85
228581 TTTTTTGAAC
*
228591 AAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAA-AGTTATG
1 AAACGCCGCAAAAGGTC-ATATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGAG-CA-G
*
228654 ATATATAGC-AGCGTTTCTAGAAA
63 ACATATA-CTAGCGTTTCTAGAAA
* * * *
228677 AAATGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTTTGATACAAACGCCGCAAAAGAGCAGAC
1 AAACGCCGCAAAAGGTCATATCTATAGCGGC-GTTTTTGGATACAAACGCCGCAAAAGAGCAGAC
* * *
228742 CTATACTAGCGTTTTTAGAAT
65 ATATACTAGCGTTTCTAGAAA
* *
228763 AAACGCCGCAAAAGGTCATACCTATAGCGGCGTTTTTGGATATAAACGCCGC
1 AAACGCCGCAAAAGGTCATATCTATAGCGGCGTTTTTGGATACAAACGCCGC
228815 TAATTACCTT
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
85 32 0.27
86 69 0.58
87 16 0.13
88 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (85 bp):
AAACGCCGCAAAAGGTCATATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGAGCAGACA
TATACTAGCGTTTCTAGAAA
Found at i:228798 original size:42 final size:42
Alignment explanation
Indices: 228552--228814 Score: 244
Period size: 43 Copynumber: 6.1 Consensus size: 42
228542 AACAAAAAAT
* *
228552 GCCGCAATAGGTCAATATCTATTA-CGGCGTTTTTTGAACAAAC
1 GCCGCAAAAGGTC-ATATCTA-TAGCGGCGTTTTTAGAACAAAC
*
228595 GCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTC-ATATCTATAGCGGCGTTTTTAGAACAAAC
* * * * * * *
228638 GCCGCAAAAAGTTATGATATATAGCAGCGTTTCTAGAAAAAAT
1 GCCGCAAAAGGTCAT-ATCTATAGCGGCGTTTTTAGAACAAAC
* * *
228681 GCCGCAAAAGGTCAGATCTATAGCGGCATTTTTTTGATACAAAC
1 GCCGCAAAAGGTCATATCTATAGCGGC-GTTTTTAGA-ACAAAC
* * * *
228725 GCCGCAAAAGAG-CAGACCTATA-CTAGCGTTTTTAGAATAAAC
1 GCCGCAAAAG-GTCATATCTATAGC-GGCGTTTTTAGAACAAAC
* * *
228767 GCCGCAAAAGGTCATACCTATAGCGGCGTTTTTGGATATAAAC
1 GCCGCAAAAGGTCATATCTATAGCGGCGTTTTTAGA-ACAAAC
228810 GCCGC
1 GCCGC
228815 TAATTACCTT
Statistics
Matches: 182, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 48 0.26
43 107 0.59
44 25 0.14
45 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
GCCGCAAAAGGTCATATCTATAGCGGCGTTTTTAGAACAAAC
Done.