Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006631.1 Hibiscus syriacus cultivar Beakdansim tig00016298_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: 158435
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
File 1 of 2
Found at i:2418 original size:2 final size:2
Alignment explanation
Indices: 2413--2443 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2403 TCTCTCTCTC
2413 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2444 TGGTATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3883 original size:18 final size:17
Alignment explanation
Indices: 3850--3883 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3840 GAATAATTAA
3850 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
3867 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
3884 AAACAAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:10955 original size:18 final size:18
Alignment explanation
Indices: 10921--10955 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10911 TCTCGAAACT
**
10921 GGAGGAAGAGGTGGAGGC
1 GGAGGAAGAGGAAGAGGC
10939 GGAGGAAGAGGAAGAGG
1 GGAGGAAGAGGAAGAGG
10956 AGGTGTTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.60, T:0.03
Consensus pattern (18 bp):
GGAGGAAGAGGAAGAGGC
Found at i:11957 original size:18 final size:17
Alignment explanation
Indices: 11924--11957 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11914 GAATAATTAA
11924 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
11941 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
11958 AAACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:12957 original size:20 final size:20
Alignment explanation
Indices: 12932--12989 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
12922 TTTGGTTCAC
12932 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
12952 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
12972 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
12990 GGAATAGGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.10, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:13214 original size:34 final size:35
Alignment explanation
Indices: 13144--13214 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 35
13134 CAAATTGTAA
*
13144 AATATTTATATATTTTCTTTAAAAAATTAAATTAT
1 AATATTTATATATTTTCTTTAAAAAATTAAAATAT
*
13179 AATATTTATA-ATTTT-TTTACAAAATTAAAAATAT
1 AATATTTATATATTTTCTTTAAAAAATT-AAAATAT
13213 AA
1 AA
13215 AAAAGGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 10 0.30
34 13 0.39
35 10 0.30
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (35 bp):
AATATTTATATATTTTCTTTAAAAAATTAAAATAT
Found at i:15742 original size:21 final size:21
Alignment explanation
Indices: 15718--15788 Score: 124
Period size: 21 Copynumber: 3.4 Consensus size: 21
15708 CCAGGGAGAG
*
15718 TATCTATACTCAGGGTGACAA
1 TATCGATACTCAGGGTGACAA
15739 TATCGATACTCAGGGTGACAA
1 TATCGATACTCAGGGTGACAA
*
15760 TATCGATACTCAGGGTGACAG
1 TATCGATACTCAGGGTGACAA
15781 TATCGATA
1 TATCGATA
15789 TTGAGGCCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (21 bp):
TATCGATACTCAGGGTGACAA
Found at i:20072 original size:2 final size:2
Alignment explanation
Indices: 20067--20103 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
20057 ACACACACAC
20067 AT AT AT AT AT AT A- AT AT A- AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20104 CACCTAAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:20829 original size:18 final size:19
Alignment explanation
Indices: 20802--20839 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
20792 ATTTAATTAA
* *
20802 ATATTTTTTTTAAT-TTTT
1 ATATTATTTTCAATATTTT
20820 ATATTATTTTCAATATTTT
1 ATATTATTTTCAATATTTT
20839 A
1 A
20840 ACCTCTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATTATTTTCAATATTTT
Found at i:23551 original size:20 final size:19
Alignment explanation
Indices: 23522--23562 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
23512 ATATGTAGAA
23522 AAAAAATTTATCAATAAAAT
1 AAAAAATTTATCAA-AAAAT
* *
23542 AAAAATTTTATTAAAAAAT
1 AAAAAATTTATCAAAAAAT
23561 AA
1 AA
23563 TACATAGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAATTTATCAAAAAAT
Found at i:24969 original size:27 final size:27
Alignment explanation
Indices: 24938--24994 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
24928 AAACACAACC
24938 AAAATATAAATAAAGAAAACGATCGAT
1 AAAATATAAATAAAGAAAACGATCGAT
24965 AAAATATAAATAAAGAAAACGATCGAT
1 AAAATATAAATAAAGAAAACGATCGAT
24992 AAA
1 AAA
24995 GCTGGGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.65, C:0.07, G:0.11, T:0.18
Consensus pattern (27 bp):
AAAATATAAATAAAGAAAACGATCGAT
Found at i:28691 original size:2 final size:2
Alignment explanation
Indices: 28686--28715 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28676 ATATATTTAT
28686 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
28716 GTAGAATCCA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30728 original size:20 final size:20
Alignment explanation
Indices: 30697--30770 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 20
30687 TAGTGTTTAT
*
30697 AGTTTGGAAACTTT-GTAAG
1 AGTTTTGAAACTTTAGTAAG
*
30716 AGTTTTTGAAACTTTTATTAAG
1 AG-TTTTGAAAC-TTTAGTAAG
* *
30738 AGTTTTGAAACTTTA-CAAA
1 AGTTTTGAAACTTTAGTAAG
*
30757 AATTTTGAAACTTT
1 AGTTTTGAAACTTT
30771 GCACCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 17 0.36
20 12 0.26
21 12 0.26
22 6 0.13
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (20 bp):
AGTTTTGAAACTTTAGTAAG
Found at i:32479 original size:2 final size:2
Alignment explanation
Indices: 32472--32578 Score: 70
Period size: 2 Copynumber: 58.0 Consensus size: 2
32462 ATAATTATTT
* * *
32472 TA TA TA TA TA TA TA TA TA -A TA T- TA TT TA -A TT TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
32510 -A TT TA AA T- TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
32548 TT TA TA TA TT TA -A TT TA AA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32579 CCCGGTCCGA
Statistics
Matches: 78, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
1 9 0.12
2 69 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34138 original size:16 final size:17
Alignment explanation
Indices: 34117--34161 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
34107 AGGGGGAGTT
*
34117 TAAATATATTTTTTT-A
1 TAAATAGATTTTTTTCA
34133 TAAATAGATTTTTTTCA
1 TAAATAGATTTTTTTCA
34150 -AAATAGATTTTT
1 TAAATAGATTTTT
34162 CTAAAGGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (17 bp):
TAAATAGATTTTTTTCA
Found at i:34146 original size:15 final size:15
Alignment explanation
Indices: 34118--34166 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
34108 GGGGGAGTTT
*
34118 AAATATATTTTTTTA
1 AAATAGATTTTTTTA
34133 TAAATAGATTTTTTTCA
1 -AAATAGATTTTTTT-A
*
34150 AAATAGATTTTTCTA
1 AAATAGATTTTTTTA
34165 AA
1 AA
34167 GGGTAGCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 3 0.10
16 26 0.87
17 1 0.03
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
AAATAGATTTTTTTA
Found at i:45498 original size:17 final size:17
Alignment explanation
Indices: 45476--45520 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
45466 AAGAAGTAAT
45476 AACTCTTCCAAATGATC
1 AACTCTTCCAAATGATC
45493 AACTCTTCCAAATGATC
1 AACTCTTCCAAATGATC
* *
45510 TACTCGTCCAA
1 AACTCTTCCAA
45521 GCCTTGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.33, C:0.31, G:0.07, T:0.29
Consensus pattern (17 bp):
AACTCTTCCAAATGATC
Found at i:53042 original size:24 final size:25
Alignment explanation
Indices: 52978--53057 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 25
52968 CCCAAACTAA
*
52978 ATTGATGTCATTACTTACATCATTT
1 ATTGATGTCATTGCTTACATCATTT
53003 AATTAAAGATGTCATTGCTTACATCATTT
1 -ATT---GATGTCATTGCTTACATCATTT
53032 -TTGATGTCATTGCTTACATCAATTT
1 ATTGATGTCATTGCTTACATC-ATTT
53057 A
1 A
53058 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
24 18 0.38
25 4 0.08
26 3 0.06
27 2 0.04
29 21 0.44
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (25 bp):
ATTGATGTCATTGCTTACATCATTT
Found at i:57803 original size:24 final size:25
Alignment explanation
Indices: 57739--57818 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 25
57729 CCCAAACTAA
*
57739 ATTGATGTCATTACTTACATCATTT
1 ATTGATGTCATTGCTTACATCATTT
57764 AATTAAAGATGTCATTGCTTACATCATTT
1 -ATT---GATGTCATTGCTTACATCATTT
57793 -TTGATGTCATTGCTTACATCAATTT
1 ATTGATGTCATTGCTTACATC-ATTT
57818 A
1 A
57819 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
24 18 0.38
25 4 0.08
26 3 0.06
27 2 0.04
29 21 0.44
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (25 bp):
ATTGATGTCATTGCTTACATCATTT
Found at i:61872 original size:74 final size:73
Alignment explanation
Indices: 61732--61874 Score: 232
Period size: 74 Copynumber: 1.9 Consensus size: 73
61722 CCAAGGGGCT
** * * *
61732 CATTGGATTATCATGTTTTTGAGTTTTTTAAATAAAAAATGATGTTTAAAAATATTTTTTAATTA
1 CATTGGATTATCATGTTTCCGAGTGTTTGAAATAAAAAATGATATTTAAAAATATTTTTTAATTA
61797 TTAAGACC
66 TTAAGACC
61805 CATTGGATTATCATGTTTCCGAGTGTTTGAAATAAAAAAATGATATTTAAAAATATTTTTTAATT
1 CATTGGATTATCATGTTTCCGAGTGTTTGAAAT-AAAAAATGATATTTAAAAATATTTTTTAATT
61870 ATTAA
65 ATTAA
61875 ACTTAAAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
73 29 0.45
74 35 0.55
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (73 bp):
CATTGGATTATCATGTTTCCGAGTGTTTGAAATAAAAAATGATATTTAAAAATATTTTTTAATTA
TTAAGACC
Found at i:62253 original size:30 final size:30
Alignment explanation
Indices: 62219--62278 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
62209 CAATTTTTAT
62219 TTATTTTGACCCAAAATGAATTAAGATCAA
1 TTATTTTGACCCAAAATGAATTAAGATCAA
62249 TTATTTTGACCCAAAATGAATTAAGATCAA
1 TTATTTTGACCCAAAATGAATTAAGATCAA
62279 ATTGTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (30 bp):
TTATTTTGACCCAAAATGAATTAAGATCAA
Found at i:63812 original size:35 final size:35
Alignment explanation
Indices: 63733--63812 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 35
63723 AAATTTAGGT
63733 TAAAAAAGGGCAATTGCTAGAAGCAACCAAGAGCAAA
1 TAAAAAA--GCAATTGCTAGAAGCAACCAAGAGCAAA
* * *
63770 CATAAAAGCAATTGCTAGAAGCAACCAAGATG-AAG
1 TAAAAAAGCAATTGCTAGAAGCAACCAAGA-GCAAA
63805 TAAAAAAG
1 TAAAAAAG
63813 GGCTTACCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 31 0.84
36 1 0.03
37 5 0.14
ACGTcount: A:0.53, C:0.15, G:0.20, T:0.12
Consensus pattern (35 bp):
TAAAAAAGCAATTGCTAGAAGCAACCAAGAGCAAA
Found at i:65023 original size:31 final size:31
Alignment explanation
Indices: 64987--65045 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
64977 AACTTAAAAA
*
64987 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
65018 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
65046 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:65103 original size:22 final size:22
Alignment explanation
Indices: 65070--66113 Score: 1343
Period size: 22 Copynumber: 47.6 Consensus size: 22
65060 TAATAATTTT
**
65070 TTTTAAAAATAAATCAATTTATA
1 TTTT-AAAATAAATCAATCCATA
*
65093 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
65115 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* ***
65137 TTTT-AAAT--TTTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
65156 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*** *
65178 TTTTAAAAT-AATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
65199 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
65221 TTTAAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
65243 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
65265 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
*
65287 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
***
65309 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
65331 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
**
65353 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
65375 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
65397 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
65419 TTTTAAAATAAATCAATTCATT
1 TTTTAAAATAAATCAATCCATA
*
65441 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
65463 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
65485 TTTTAAAATAAATTAATTCATA
1 TTTTAAAATAAATCAATCCATA
65507 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
65529 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
65551 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* ***
65573 TTTTAAAATAATTTTTTTTCCATA
1 TTTTAAAATAA--ATCAATCCATA
65597 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*** *
65619 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
65641 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
*** *
65663 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
65685 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
65707 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
65729 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
**
65751 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
65773 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
65795 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
65817 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
*
65839 TTTTAAAATAAATCAATTCAT-
1 TTTTAAAATAAATCAATCCATA
* *** *
65860 TTTTAAAATAATTTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
65882 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
65904 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
65926 TTTT-AAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
65947 TTTTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *** **
65969 TTCTAAAATAAATTTTTTAATA
1 TTTTAAAATAAATCAATCCATA
65991 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
66013 TTTTAAAATAAATTTGTCCATA
1 TTTTAAAATAAATCAATCCATA
66035 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
66057 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
* **
66079 TTTTAAAATTAATCAATATATA
1 TTTTAAAATAAATCAATCCATA
66101 TTTTAAAATAAAT
1 TTTTAAAATAAAT
66114 TTAAATGATT
Statistics
Matches: 886, Mismatches: 119, Indels: 33
0.85 0.11 0.03
Matches are distributed among these distances:
19 11 0.01
20 4 0.00
21 76 0.09
22 757 0.85
23 20 0.02
24 18 0.02
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:66623 original size:18 final size:18
Alignment explanation
Indices: 66602--66636 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66592 CATCTTTACT
* *
66602 TATTTTATTGATTTACAA
1 TATTTTAATCATTTACAA
66620 TATTTTAATCATTTACA
1 TATTTTAATCATTTACA
66637 TTTCCAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (18 bp):
TATTTTAATCATTTACAA
Found at i:68366 original size:29 final size:29
Alignment explanation
Indices: 68323--68405 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
68313 CTCACCTAAC
*
68323 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
68353 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
68382 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
68406 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:73125 original size:29 final size:29
Alignment explanation
Indices: 73082--73166 Score: 134
Period size: 29 Copynumber: 2.9 Consensus size: 29
73072 CTCACCTAAC
*
73082 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
73112 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
73141 TAAATGATGTAAGTAATGACATCATT
1 TAAATGATGTAAGCAATGACATCATT
73167 TAGTTTGGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:75625 original size:15 final size:15
Alignment explanation
Indices: 75602--75631 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
75592 GATCTCTTCT
*
75602 TTGGGCACTACTAAA
1 TTGGACACTACTAAA
75617 TTGGACACTACTAAA
1 TTGGACACTACTAAA
75632 GCTACCAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (15 bp):
TTGGACACTACTAAA
Found at i:76822 original size:202 final size:205
Alignment explanation
Indices: 76381--76837 Score: 688
Period size: 202 Copynumber: 2.2 Consensus size: 205
76371 AGACTCGCCT
* * * *
76381 AATGTATATTCTACATCTTACACAGGGCAACACCAACTTCAAGGTAGTTTTAAAGGACATGTAGG
1 AATGTCTATTCTACATCTTACACAGGGCAACACCAACTTTAAGGTAGTTTTAAAGCAAATGTAGG
* *
76446 TCCGCTTAGGCAATAGGTACAATAAAAAAAAAAAGATGTATCGCCCTAATGCAGCCTAGCATGAC
66 TCCGCTTAGGCAATAGGTACAATAAAAAAAAAAAGATGTATCACCCTAATGCAGCCTAGCATGAA
*
76511 CAACTAAAATATTGGCAACAGGGAAAAGAGGAGATCGCAAGAAAATGATCACCTTGGCAAAGGTG
131 CAACTAAAATATTGGCAACAGGGAAAAGAGGAGATCGCAAGAAAATGATCACCTCGGCAAAGGTG
76576 CCTCCTCAAA
196 CCTCCTCAAA
* * * *
76586 AATGTCTATTCTACATCTTACACAGGGCAACACCAACTTTACGATAGTTTTCAAGCAAATTTAGG
1 AATGTCTATTCTACATCTTACACAGGGCAACACCAACTTTAAGGTAGTTTTAAAGCAAATGTAGG
* ***
76651 TCCGCTTAGGTAATAGGTAC-A-ACCCAAAAAAAGATGTATCACCCTAATGCAGCCTAGCATGAA
66 TCCGCTTAGGCAATAGGTACAATAAAAAAAAAAAGATGTATCACCCTAATGCAGCCTAGCATGAA
* *
76714 CAACTAAAAT-TTGGCAACAGGGAAAAGAGGATATCGCAAGAAAATGATCACCTCGGCAAAGTTG
131 CAACTAAAATATTGGCAACAGGGAAAAGAGGAGATCGCAAGAAAATGATCACCTCGGCAAAGGTG
*
76778 -CTCCTCTACA
196 CCTCCTC-AAA
* * *
76788 AATGTCTATTCCACATCTTAAACAGGGTAACACCAACTTTAAGGTAGTTT
1 AATGTCTATTCTACATCTTACACAGGGCAACACCAACTTTAAGGTAGTTT
76838 GACAAAAACA
Statistics
Matches: 228, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
201 6 0.03
202 98 0.43
203 47 0.21
204 1 0.00
205 76 0.33
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (205 bp):
AATGTCTATTCTACATCTTACACAGGGCAACACCAACTTTAAGGTAGTTTTAAAGCAAATGTAGG
TCCGCTTAGGCAATAGGTACAATAAAAAAAAAAAGATGTATCACCCTAATGCAGCCTAGCATGAA
CAACTAAAATATTGGCAACAGGGAAAAGAGGAGATCGCAAGAAAATGATCACCTCGGCAAAGGTG
CCTCCTCAAA
Found at i:78675 original size:23 final size:23
Alignment explanation
Indices: 78649--78696 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
78639 ATAAAGTACA
*
78649 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
78672 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
78695 AT
1 AT
78697 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:79445 original size:18 final size:18
Alignment explanation
Indices: 79422--79458 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
79412 CGAAATATAT
79422 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
79440 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
79458 A
1 A
79459 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:79688 original size:23 final size:23
Alignment explanation
Indices: 79662--79726 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
79652 ATGCGAGATA
79662 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
79685 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
79708 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
79727 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:82755 original size:182 final size:184
Alignment explanation
Indices: 82279--82946 Score: 1218
Period size: 183 Copynumber: 3.7 Consensus size: 184
82269 TTTTAAATGG
* *
82279 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
82344 TAAAACCGGTATATTTATA-CGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
82408 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
82462 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
* *
82527 TAAGACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
82592 GATGTGTAAAATGTCGACAC-TTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
* *
82645 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
82709 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
82774 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACA-TTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
82827 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
* **
82892 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
82947 ATGTTGAAAG
Statistics
Matches: 467, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
182 156 0.33
183 246 0.53
184 65 0.14
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:84843 original size:198 final size:199
Alignment explanation
Indices: 84385--84935 Score: 1036
Period size: 199 Copynumber: 2.8 Consensus size: 199
84375 TTCTTGAAGG
84385 CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
1 CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
*
84450 TTTTATATATGGATCGACACTTTATTGATGCACATTGTTTTTAATTCATTCTGGAAAAAAAATAT
66 TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATAT
84515 CGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATT
131 CGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATT
84580 GTAC
196 GTAC
84584 CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
1 CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
84649 TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATAT
66 TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATAT
84714 CGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATT
131 CGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATT
84779 GTAC
196 GTAC
*
84783 CGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
1 CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
* *
84847 TTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGG-AAAAAAATAT
66 TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATAT
*
84910 CGACACAAACTATATTAGTATCGACA
131 CGACACAAACTATATTAGTGTCGACA
84936 TGACCCTTAA
Statistics
Matches: 347, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
196 35 0.10
197 16 0.05
198 88 0.25
199 208 0.60
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATAT
CGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATT
GTAC
Found at i:85044 original size:19 final size:19
Alignment explanation
Indices: 85017--85061 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
85007 ATTCACATAA
*
85017 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
85036 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
85055 AAAATTA
1 AAAATTA
85062 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:89051 original size:24 final size:24
Alignment explanation
Indices: 89014--89066 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
89004 CCGTTCTATC
89014 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
89038 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
89062 TATTT
1 TATTT
89067 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:89257 original size:20 final size:19
Alignment explanation
Indices: 89211--89257 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
89201 TCCGGTATCA
*
89211 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
89230 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
89251 TTTTACC
1 TTTTACC
89258 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:89421 original size:20 final size:20
Alignment explanation
Indices: 89377--89422 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
89367 CACTTTTAAA
89377 TTTACCGGTTTTATCATTTT
1 TTTACCGGTTTTATCATTTT
*
89397 GTTACCGGTTTTATC-TTATT
1 TTTACCGGTTTTATCATT-TT
89417 TTTACC
1 TTTACC
89423 TGGTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTACCGGTTTTATCATTTT
Found at i:94439 original size:21 final size:21
Alignment explanation
Indices: 94413--94589 Score: 159
Period size: 21 Copynumber: 8.5 Consensus size: 21
94403 GTTTCCAGAT
* *
94413 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
94434 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
94455 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
94476 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
94496 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
* *
94517 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
** * *
94537 TTACAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
94558 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
94579 TCGCATTGCGA
1 TCGCAATGCGA
94590 TAGTCCAAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
20 29 0.23
21 97 0.77
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:94499 original size:62 final size:61
Alignment explanation
Indices: 94433--94589 Score: 160
Period size: 62 Copynumber: 2.5 Consensus size: 61
94423 AACTTCGACT
* *
94433 ATCGCAATGCGAACTTGGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAATATGT-A-A
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAA-TATGGA-AATCACAATGCG-ATA-GTCACA
* * * * *
94495 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAATATGTAAATTACAATGCGATAGTCGACT
1 ATCGCAATGCGA-ACTTGGACTATCGCAATGCGAATATGGAAATCACAATGCGATAGTC-ACA
*
94557 ATCGCAATGCGAACTTGGACTATCGCATTGCGA
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGA
94590 TAGTCCAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
59 2 0.03
60 3 0.04
61 12 0.15
62 61 0.77
63 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (61 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGGAAATCACAATGCGATAGTCACA
Found at i:94500 original size:20 final size:20
Alignment explanation
Indices: 94475--94547 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
94465 AACTTGGACT
94475 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
94495 ATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
94516 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
**
94536 ATTACAATGCGA
1 ATCGCAATGCGA
94548 TAGTCGACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.05
19 3 0.07
20 22 0.50
21 12 0.27
22 3 0.07
23 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:94516 original size:41 final size:41
Alignment explanation
Indices: 94427--94569 Score: 191
Period size: 41 Copynumber: 3.5 Consensus size: 41
94417 AACGCGAACT
* * *
94427 TCGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGA-ACT
1 TCGACTATCGCAATGCGAA-TATGTA-AATCGCAATGCGATA-G
*
94469 TGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAG
1 TCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAG
**
94510 TCGACTATCGCAATGCGAATATGTAAATTACAATGCGATAG
1 TCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAG
94551 TCGACTATCGCAATGCGAA
1 TCGACTATCGCAATGCGAA
94570 CTTGGACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
41 70 0.76
42 22 0.24
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (41 bp):
TCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAG
Found at i:95229 original size:6 final size:6
Alignment explanation
Indices: 95213--95250 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
95203 TCTCGTCTCG
95213 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
95251 AATACGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:95368 original size:21 final size:21
Alignment explanation
Indices: 95343--95466 Score: 94
Period size: 21 Copynumber: 5.8 Consensus size: 21
95333 ATTTTGGACT
*
95343 ATCGCAACAAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
95364 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
* * *
95385 ATCACAATGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
95406 ATCGCAACGCAAACTTCGACT--
1 ATCGCAACG--AACTTGGAATAA
95427 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
95448 ATCGCAACGCGAACTTGGA
1 ATCGCAA--CGAACTTGGA
95467 CTATCGCAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
19 16 0.21
21 36 0.46
23 26 0.33
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:95386 original size:42 final size:42
Alignment explanation
Indices: 95339--95475 Score: 220
Period size: 42 Copynumber: 3.3 Consensus size: 42
95329 TGCGATTTTG
*
95339 GACTATCGCAACAAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * * *
95381 GACTATCACAATGAATTTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
95423 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
95465 GACTATCGCAA
1 GACTATCGCAA
95476 TGCGAATATG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:95472 original size:21 final size:20
Alignment explanation
Indices: 95336--95481 Score: 91
Period size: 21 Copynumber: 7.0 Consensus size: 20
95326 CGTTGCGATT
*
95336 TTGGACTATCGCAA-CAAAC
1 TTGGACTATCGCAAGCGAAC
*
95355 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* * * *
95378 TTCGACTATCACAA-TGAAT
1 TTGGACTATCGCAAGCGAAC
* *
95397 TTGGAATAAATCGCAACGCAAAC
1 TTGGACT--ATCGCAA-GCGAAC
*
95420 TTCGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
95439 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
95462 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAA-GCGAA
95482 TATGTAAATC
Statistics
Matches: 95, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
19 23 0.24
21 45 0.47
23 27 0.28
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:97149 original size:66 final size:66
Alignment explanation
Indices: 96857--97180 Score: 346
Period size: 66 Copynumber: 4.9 Consensus size: 66
96847 TCATATATTT
* * * * ** *
96857 ACTCCACCTTATGCACCACAAAAGTACACAAGTTTCATCGAGTGGTC-AGTACAGTATTCAATTA
1 ACTCCACCTCATGCACCACAAAGGTACATAAGTCTCATTAAGTGATCTA-TACAGTATTCAATTA
96921 TC
65 TC
* * * * ** * * * * *
96923 ATTTCATCTCATGCACCACAAAGGTACACAAGTAGCATTGAGAGATCTGTACAATATTCAATTGT
1 ACTCCACCTCATGCACCACAAAGGTACATAAGTCTCATTAAGTGATCTATACAGTATTCAATTAT
96988 C
66 C
* * * *
96989 ACTCCACCTCATGCACCACAAAGGTATATAAGTCTCATTAAGTGATATGTACGGTATTCAATTAT
1 ACTCCACCTCATGCACCACAAAGGTACATAAGTCTCATTAAGTGATCTATACAGTATTCAATTAT
97054 C
66 C
* * *
97055 ACTCCACCTCATGCACCACAAAGGTACATGAGTCTCATTAAGTGATTTATGCAGTATTCAATTAT
1 ACTCCACCTCATGCACCACAAAGGTACATAAGTCTCATTAAGTGATCTATACAGTATTCAATTAT
97120 C
66 C
* * * * *
97121 ACTCTACCTCGTGCACCACAAAGGTACATGAA-TCTTATTGAGTGATCTATATAGTATTCA
1 ACTCCACCTCATGCACCACAAAGGTACAT-AAGTCTCATTAAGTGATCTATACAGTATTCA
97181 GCAATCATTC
Statistics
Matches: 216, Mismatches: 40, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
66 215 1.00
67 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (66 bp):
ACTCCACCTCATGCACCACAAAGGTACATAAGTCTCATTAAGTGATCTATACAGTATTCAATTAT
C
Found at i:101895 original size:18 final size:17
Alignment explanation
Indices: 101872--101905 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
101862 CAATCTGTTT
101872 TATTTTAATGATTTTATA
1 TATTTTAAT-ATTTTATA
*
101890 TATTTTGATATTTTAT
1 TATTTTAATATTTTAT
101906 TTAATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTAATATTTTATA
Found at i:103645 original size:118 final size:118
Alignment explanation
Indices: 103433--103656 Score: 376
Period size: 118 Copynumber: 1.9 Consensus size: 118
103423 GTTTCCCAAG
* *
103433 TTTTTGGGTATTACATGGGTGACCAAAATGCAAGCGTCCTAAAAGTTCAGGAACTATTTATATAC
1 TTTTTGGGTATTACATGGGTGACCAAAATACAAGCATCCTAAAAGTTCAGGAACTATTTATATAC
*
103498 TTTACCATAATAATAATAATAATAAAAAGAAGAAGAAGAAGGAGGTCCTCAAA
66 TTTACCATAATAATAATAATAATAAAAAGAAGAAAAAGAAGGAGGTCCTCAAA
* *
103551 TTTTTGGGTATTACATGGGTGACCGAAATACTAGCATCCTAAAAGTTCAGGAACTATTTATATAC
1 TTTTTGGGTATTACATGGGTGACCAAAATACAAGCATCCTAAAAGTTCAGGAACTATTTATATAC
* * *
103616 TTTACCCTAATACTAATAATAATATAAAGAAGAAAAAGAAG
66 TTTACCATAATAATAATAATAATAAAAAGAAGAAAAAGAAG
103657 AAGAAGAATA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 98 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (118 bp):
TTTTTGGGTATTACATGGGTGACCAAAATACAAGCATCCTAAAAGTTCAGGAACTATTTATATAC
TTTACCATAATAATAATAATAATAAAAAGAAGAAAAAGAAGGAGGTCCTCAAA
Found at i:105308 original size:27 final size:28
Alignment explanation
Indices: 105251--105313 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
105241 TTAATTCTAT
* * *
105251 TATATGGTCGGCTCTATCGCCTGATTGA
1 TATATGGTAGGCTCTATCCCCTGAATGA
105279 TATATGGTAGGCTCTA-CCCCTGAATGA
1 TATATGGTAGGCTCTATCCCCTGAATGA
105306 TATATGGT
1 TATATGGT
105314 CGACACTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (28 bp):
TATATGGTAGGCTCTATCCCCTGAATGA
Found at i:108502 original size:3 final size:3
Alignment explanation
Indices: 108494--108533 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
108484 TCTAATTGTA
108494 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
108534 GCTTATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:109078 original size:23 final size:26
Alignment explanation
Indices: 109048--109100 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 26
109038 GAGGAGATTC
*
109048 GGAAAAAAAAA-ACG-AAAAT-AGAA
1 GGAAAAAAAAAGAAGAAAAATAAGAA
109071 GGAAAAAAAAAGAAGAAAAATAAGAA
1 GGAAAAAAAAAGAAGAAAAATAAGAA
109097 GGAA
1 GGAA
109101 GCTCTCACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 5 0.19
26 8 0.31
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.04
Consensus pattern (26 bp):
GGAAAAAAAAAGAAGAAAAATAAGAA
Found at i:110076 original size:29 final size:29
Alignment explanation
Indices: 110021--110077 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
110011 TTGTATGTTA
* *
110021 CTATTTAGTCTCTTAAATGTCTGTTTTTG
1 CTATTTAGTCCCTTAAATGTCTATTTTTG
110050 CTATTTAGTCCCTTAAGAT-TCTATTTTT
1 CTATTTAGTCCCTTAA-ATGTCTATTTTT
110078 ACAGTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (29 bp):
CTATTTAGTCCCTTAAATGTCTATTTTTG
Found at i:116381 original size:105 final size:102
Alignment explanation
Indices: 116192--116432 Score: 299
Period size: 105 Copynumber: 2.3 Consensus size: 102
116182 TGTGAGAATT
* * *
116192 TTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCA
1 TTAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCA
*
116257 CTTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCT-
66 CTTAAAACAAAATTAATCTCA-CTTGAGA---TCGTTTCTA
* * *
116296 TTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTC
1 TT-AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTC
* *
116361 ACATT-AAACAAAGTTGATCTCACTTGAGATCGTTTCTA
65 AC-TTAAAACAAAATTAATCTCACTTGAGATCGTTTCTA
** *
116399 TTAAAACAAATTTTATCTCGCTTGAGACAATTTC
1 TTAAAACAAATTTCGTCTCGCTTGAGACATTTTC
116433 TCTAAAAACA
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
102 35 0.29
103 2 0.02
104 5 0.04
105 76 0.63
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (102 bp):
TTAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCA
CTTAAAACAAAATTAATCTCACTTGAGATCGTTTCTA
Found at i:116433 original size:36 final size:35
Alignment explanation
Indices: 116366--116497 Score: 115
Period size: 36 Copynumber: 3.7 Consensus size: 35
116356 GTTTCACATT
* * *
116366 AAACAAAGTTGATCTCACTTGAGATC-GTTTCTATTA
1 AAACAAATTTTATCTCACTTGAGA-CAATTTCT-TTA
* *
116402 AAACAAATTTTATCTCGCTTGAGACAATTTCTCTAA
1 AAACAAATTTTATCTCACTTGAGACAATTTCT-TTA
* * * *
116438 AAACAAATTTTGTCTCATTTGAGACTATATC-TTA
1 AAACAAATTTTATCTCACTTGAGACAATTTCTTTA
* * *
116472 AAGCAAATTTTGTCTCGCTTGAGACA
1 AAACAAATTTTATCTCACTTGAGACA
116498 TCATTTTCTC
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
34 24 0.30
35 1 0.01
36 54 0.68
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (35 bp):
AAACAAATTTTATCTCACTTGAGACAATTTCTTTA
Found at i:116484 original size:34 final size:34
Alignment explanation
Indices: 116399--116497 Score: 126
Period size: 36 Copynumber: 2.9 Consensus size: 34
116389 ATCGTTTCTA
* *
116399 TTAAAACAAATTTTATCTCGCTTGAGACAATTTC
1 TTAAAACAAATTTTGTCTCGCTTGAGACAATATC
** *
116433 TCTAAAAACAAATTTTGTCTCATTTGAGACTATATC
1 T-T-AAAACAAATTTTGTCTCGCTTGAGACAATATC
*
116469 TTAAAGCAAATTTTGTCTCGCTTGAGACA
1 TTAAAACAAATTTTGTCTCGCTTGAGACA
116498 TCATTTTCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
34 24 0.44
35 2 0.04
36 28 0.52
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (34 bp):
TTAAAACAAATTTTGTCTCGCTTGAGACAATATC
Found at i:116846 original size:29 final size:27
Alignment explanation
Indices: 116748--116876 Score: 179
Period size: 27 Copynumber: 4.6 Consensus size: 27
116738 TTCTTTTGAG
116748 GAAAAAATCTTTGAGTTTGTTCCTCTT
1 GAAAAAATCTTTGAGTTTGTTCCTCTT
116775 GAAAAAATCTTTGAGTTTGTTCCTCTT
1 GAAAAAATCTTTGAGTTTGTTCCTCTT
*
116802 GAAAAAATCTTTGAGTTTGTTCCTTTT
1 GAAAAAATCTTTGAGTTTGTTCCTCTT
*
116829 GAATAAAAATCTTGGAGTTTGTTCCT-TT
1 G-A-AAAAATCTTTGAGTTTGTTCCTCTT
*
116857 GGAATAAAAATCTGTGAGTT
1 -G-A-AAAAATCTTTGAGTT
116877 GTTTCGTTTG
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
27 54 0.57
28 3 0.03
29 38 0.40
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (27 bp):
GAAAAAATCTTTGAGTTTGTTCCTCTT
Found at i:116991 original size:30 final size:30
Alignment explanation
Indices: 116955--117219 Score: 154
Period size: 30 Copynumber: 8.1 Consensus size: 30
116945 AATTTTGTGA
*
116955 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
*
116985 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
* * ** *
117015 AAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTGAGATTGTTTCTTTGGAAAC
*
117052 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
* * * *
117082 AAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGAAAC
1 AAAA------ATCT-TTGAGATTGTTTCTTTGGAAAC
*
117119 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
* * ** * *
117149 AAAATTTTGTCTCTCTTAAGATAATTCCTTTTGAAAC
1 AAAA------ATCT-TTGAGATTGTTTCTTTGGAAAC
117186 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGAT-TGTTTCTTTGGAAAC
117216 AAAA
1 AAAA
117220 TTTTGTCTCT
Statistics
Matches: 176, Mismatches: 37, Indels: 44
0.68 0.14 0.17
Matches are distributed among these distances:
29 1 0.01
30 94 0.53
31 9 0.05
36 9 0.05
37 63 0.36
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:116998 original size:92 final size:95
Alignment explanation
Indices: 116862--117085 Score: 267
Period size: 92 Copynumber: 2.3 Consensus size: 95
116852 CCTTTGGAAT
* * * * *
116862 AAAAATCTGTGAGTTGTTTCGTTTGAAAGAAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAG
1 AAAAATCTTTGAGTTGTTTCTTTTG-AA-ACAAAAATCTTTGAGTCTATTTATTTGGAAACAAAA
*
116927 TTTTGTCTCTCTTGAGACAA-TT-TTGTG-A-
64 TTTTGTCTCTCTTAAGACAATTTCTTGTGAAC
* * *
116955 AAAAATCTTTGAGATTGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAAT
1 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAAAAATCTTTGAGTCTATTTATTTGGAAACAAAAT
* *
117020 TTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
65 TTTGTCTCTCTTAAGACAATTTCTTGTG-AAC
*
117052 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA
1 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAAAA
117086 TTTTGTCTCT
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
92 48 0.43
93 16 0.14
94 15 0.13
96 1 0.01
97 32 0.29
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (95 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAAACAAAAATCTTTGAGTCTATTTATTTGGAAACAAAATT
TTGTCTCTCTTAAGACAATTTCTTGTGAAC
Found at i:117049 original size:67 final size:67
Alignment explanation
Indices: 116972--117273 Score: 543
Period size: 67 Copynumber: 4.5 Consensus size: 67
116962 TTTGAGATTG
116972 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
117037 AA
66 AA
117039 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
*
117104 AG
66 AA
117106 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
117171 AA
66 AA
* *
117173 TTCCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
117238 AA
66 AA
* * *
117240 TTTCTTTTGGAA-AAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCT
117274 CTTAAAATGA
Statistics
Matches: 228, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
66 21 0.09
67 207 0.91
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:118298 original size:28 final size:27
Alignment explanation
Indices: 118267--118348 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 27
118257 GAAACACATT
118267 ATCTTTGAGCTTGTTTTTCTTGAAACAA
1 ATCTTTGAG-TTGTTTTTCTTGAAACAA
*
118295 ATCTTTAAGTCTGTTTCTT-TTGAAACAA
1 ATCTTTGAGT-TGTTT-TTCTTGAAACAA
* *
118323 ATCTTTGAATTGGTTTCTCTTGAAAC
1 ATCTTTGAGTT-GTTTTTCTTGAAAC
118349 CATAACTCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.07
28 41 0.89
29 2 0.04
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (27 bp):
ATCTTTGAGTTGTTTTTCTTGAAACAA
Found at i:118513 original size:46 final size:45
Alignment explanation
Indices: 118374--118729 Score: 193
Period size: 43 Copynumber: 8.3 Consensus size: 45
118364 TGGCCAGCCG
* * *
118374 TCCTCATCATGTAGGAACCGTGTCATC-CC---CA-GACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAAC
* * *
118414 TCCTCATCACGTAGGAGCCGTGTCA--A-CTATAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCACCT-TAGATGACCAGAAC
* *
118456 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCATCACC-TTAGATGACCAGAAC
* * * * *
118503 TCTTCATCACGTATGAGCCGTGTCATTC-CC-CA-A--ACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCA-TCACCTTAGATGACCAGAAC
* * * * *
118544 TCCTCATCACGTAGGAGCTGTGTCA--ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAAC
* *
118586 GTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCATCACCTT-AGATGACC-AGAAC
* * * * * * **
118634 TCTTCATCACGTATGAGCAGTGTCA--ACCCT---CGACCAGATT
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAAC
* * *
118674 TCCTCATCACGTAGGAACCATGTCA-C-CCTTAGACGACCCGAAC
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAAC
*
118717 TCTTCATCACGTA
1 TCCTCATCACGTA
118730 TGAGCAGTGT
Statistics
Matches: 239, Mismatches: 49, Indels: 53
0.70 0.14 0.16
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 50 0.21
41 32 0.13
42 3 0.01
43 75 0.31
44 1 0.00
45 9 0.04
46 39 0.16
47 26 0.11
48 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (45 bp):
TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAAC
Found at i:118593 original size:130 final size:130
Alignment explanation
Indices: 118377--118698 Score: 504
Period size: 130 Copynumber: 2.5 Consensus size: 130
118367 CCAGCCGTCC
* * * *
118377 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACT
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
*
118442 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
* *
118506 TCATCACGTATGAGCCGTGTCATTCCCCAAACCAGATCTCCTCATCACGTAGGAGCTGTGTCAAC
1 TCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
118571 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
65 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTC
118636 T
130 T
* * * * *
118637 TCATCACGTATGAGCAGTGTCAACCCTC-GACCAGATTTCCTCATCACGTAGGAACCATGTCA
1 TCATCACGTATGAGCCGTGTCATCCC-CAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
118699 CCCTTAGACG
Statistics
Matches: 176, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
129 19 0.11
130 127 0.72
131 30 0.17
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (130 bp):
TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
Found at i:118914 original size:3 final size:3
Alignment explanation
Indices: 118906--118963 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
118896 TCTAATTGTA
118906 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
118954 ATT A-T ATT AT
1 ATT ATT ATT AT
118964 GCTTATTTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:119518 original size:25 final size:25
Alignment explanation
Indices: 119481--119530 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
119471 GAGATTCGGG
*
119481 AAAAAAAACGAAAAAT-AGAAGGAA
1 AAAAAAAAAGAAAAATAAGAAGGAA
119505 AAAAAAAGAAGAAAAATAAGAAGGAA
1 AAAAAAA-AAGAAAAATAAGAAGGAA
119531 GCTCTCACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 8 0.35
26 8 0.35
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAGAAAAATAAGAAGGAA
Found at i:120505 original size:29 final size:29
Alignment explanation
Indices: 120450--120506 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
120440 TTGTATGTTA
* *
120450 CTATTTAGTCTCTTAAATGTCTGTTTTTG
1 CTATTTAGTCCCTTAAATGTCTATTTTTG
120479 CTATTTAGTCCCTTAAGAT-TCTATTTTT
1 CTATTTAGTCCCTTAA-ATGTCTATTTTT
120507 ACAGTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (29 bp):
CTATTTAGTCCCTTAAATGTCTATTTTTG
Found at i:126168 original size:20 final size:20
Alignment explanation
Indices: 126143--126216 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
126133 TTTTCCCAAT
*
126143 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
126163 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
*
126184 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
126204 TCGCAACGCGAAT
1 TCGCAACGCGAAT
126217 TGGGAAAATC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:126186 original size:21 final size:21
Alignment explanation
Indices: 126160--126230 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
126150 GCGAATAAGT
126160 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
126181 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
126201 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
126222 AAATCGCAA
1 AAATCGCAA
126231 TGTGATACTT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:126188 original size:41 final size:41
Alignment explanation
Indices: 126143--126232 Score: 180
Period size: 41 Copynumber: 2.2 Consensus size: 41
126133 TTTTCCCAAT
126143 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
126184 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
126225 TCGCAATG
1 TCGCAATG
126233 TGATACTTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:126248 original size:41 final size:41
Alignment explanation
Indices: 126162--126296 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
126152 GAATAAGTAA
* ** *
126162 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGAG-ATACTTACT
*
126203 ATCGCAACGCGAATTGGGAAAATCGCAATGTGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGAGATACTTACT
* * ** *
126244 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGAGATACTTACT
*
126285 TTCGCAACGCGA
1 ATCGCAACGCGA
126297 TACTAACTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 5 0.06
41 73 0.91
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGAGATACTTACT
Found at i:126249 original size:20 final size:20
Alignment explanation
Indices: 126224--126317 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
126214 AATTGGGAAA
* *
126224 ATCGCAATGTGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
126244 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
126265 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
126285 TTCGCAACGCGATACTAACT
1 ATCGCAACGCGATACTTACT
*
126305 TTCGCAACGCGAT
1 ATCGCAACGCGAT
126318 TTACATAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.70
21 12 0.20
22 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:126533 original size:22 final size:22
Alignment explanation
Indices: 126505--126548 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
126495 CACTCTCTCA
126505 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
126527 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
126549 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:128102 original size:18 final size:18
Alignment explanation
Indices: 128081--128125 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
128071 TCCACTTCGG
* *
128081 GAGCCATCACCTCGCCCA
1 GAGCCATCACCCCACCCA
*
128099 GAGCTATCACCCCACCCA
1 GAGCCATCACCCCACCCA
128117 GAGCCATCA
1 GAGCCATCA
128126 TCTGATCGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.47, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCCCACCCA
Found at i:128669 original size:14 final size:14
Alignment explanation
Indices: 128650--128707 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
128640 ATGCGAAATG
128650 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
128664 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
128680 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
128696 AAAATCGCAACG
1 AAAATCGCAACG
128708 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:128692 original size:32 final size:33
Alignment explanation
Indices: 128634--128724 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
128624 GGAAATGGCT
*
128634 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
128667 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
128699 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
128725 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:128718 original size:19 final size:19
Alignment explanation
Indices: 128596--128729 Score: 92
Period size: 19 Copynumber: 7.6 Consensus size: 19
128586 TAGTTTACTT
* **
128596 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
128615 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
128635 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
128654 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
128668 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
128686 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
128700 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
128719 TCGCAATGCGA
1 TCGCAACGCGA
128730 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 35 0.38
20 17 0.18
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:128760 original size:14 final size:14
Alignment explanation
Indices: 128741--128798 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
128731 TTGTGTTTCG
128741 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
128755 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
128771 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
128787 CGTTGCGGTTTT
1 CGTTGCGATTTT
128799 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.07, C:0.17, G:0.28, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:128775 original size:32 final size:33
Alignment explanation
Indices: 128736--128814 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
128726 GCGATTTGTG
128736 TTTCGCGTTGCGATTTTGTCGTTGC-GATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGGATTTCA
*
128768 TTTCGCGTTGCGATTTTGTCGTTGCGGTTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGGATTTCA
*
128801 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
128815 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 25 0.57
33 19 0.43
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGGATTTCA
Found at i:130850 original size:19 final size:19
Alignment explanation
Indices: 130826--130960 Score: 182
Period size: 19 Copynumber: 7.6 Consensus size: 19
130816 AAAACAGACT
* *
130826 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
130845 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
130864 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
130883 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
130902 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
130916 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
130935 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
130949 ATCGCAATGCGA
1 ATCGCAATGCGA
130961 TTTTCATTTC
Statistics
Matches: 106, Mismatches: 2, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
14 22 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 1 0.01
19 73 0.69
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:130877 original size:38 final size:37
Alignment explanation
Indices: 130826--130960 Score: 187
Period size: 33 Copynumber: 3.8 Consensus size: 37
130816 AAAACAGACT
*
130826 ATCGCAACGCGAAATGGAAATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAAATCGCAATGCGAAATGAAA
130864 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAAATCGCAATGCGAAATGAAA
130902 ATCGCAA-CG--A-GAAAATCGCAATGCGAAATGAAA
1 ATCGCAAGCGAAATGAAAATCGCAATGCGAAATGAAA
130935 ATCGCAA-CG--A-GAAAATCGCAATGCGA
1 ATCGCAAGCGAAATGAAAATCGCAATGCGA
130961 TTTTCATTTC
Statistics
Matches: 95, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
33 49 0.52
34 1 0.01
36 2 0.02
38 43 0.45
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (37 bp):
ATCGCAAGCGAAATGAAAATCGCAATGCGAAATGAAA
Found at i:130948 original size:14 final size:14
Alignment explanation
Indices: 130898--130955 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
130888 AATGCGAAAT
130898 GAAAATCGCAACGA
1 GAAAATCGCAACGA
130912 GAAAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
130930 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
130945 GAAAATCGCAA
1 GAAAATCGCAA
130956 TGCGATTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 22 0.56
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 11 0.28
ACGTcount: A:0.50, C:0.19, G:0.21, T:0.10
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:130973 original size:33 final size:33
Alignment explanation
Indices: 130843--130960 Score: 191
Period size: 33 Copynumber: 3.4 Consensus size: 33
130833 CGCGAAATGG
130843 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GA
130881 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
130914 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
130947 AAATCGCAATGCGA
1 AAATCGCAATGCGA
130961 TTTTCATTTC
Statistics
Matches: 80, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
33 49 0.61
34 1 0.01
36 2 0.03
38 28 0.35
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGA
Found at i:131036 original size:20 final size:20
Alignment explanation
Indices: 130979--131036 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
130969 TCGCATTGCG
* *
130979 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
130999 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
131019 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
131037 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:132097 original size:24 final size:24
Alignment explanation
Indices: 132070--132123 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
132060 GTATTCGAAA
* *
132070 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
132094 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
132118 TTTGAT
1 TTTGAT
132124 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:132314 original size:12 final size:12
Alignment explanation
Indices: 132297--132321 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
132287 ATATAATCCT
132297 GAAGAAGAAAAA
1 GAAGAAGAAAAA
132309 GAAGAAGAAAAA
1 GAAGAAGAAAAA
132321 G
1 G
132322 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:134648 original size:32 final size:33
Alignment explanation
Indices: 134607--134731 Score: 184
Period size: 32 Copynumber: 3.8 Consensus size: 33
134597 GGAAATTACT
134607 ATCGCAATGCGAAATG-AAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
134639 ATCGCAATGCGAAATG-AAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
134670 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
134704 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
134732 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
31 1 0.01
32 43 0.52
33 38 0.46
34 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:134706 original size:65 final size:65
Alignment explanation
Indices: 134608--134738 Score: 228
Period size: 65 Copynumber: 2.0 Consensus size: 65
134598 GAAATTACTA
*
134608 TCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATG-AAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
134672 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
134737 T
65 T
134738 T
1 T
134739 AATTTCACGT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 15 0.24
65 31 0.49
66 17 0.27
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (65 bp):
TCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:134753 original size:19 final size:20
Alignment explanation
Indices: 134731--134773 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
134721 AAATCGCAAC
134731 GCGAATTT-AATTTCACGTT
1 GCGAATTTCAATTTCACGTT
* * *
134750 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCACGTT
134770 GCGA
1 GCGA
134774 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCACGTT
Found at i:134934 original size:14 final size:14
Alignment explanation
Indices: 134915--134951 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
134905 CATCAATTAA
134915 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
134929 ACAAATCACCTTTT
1 ACAAATCAACTTTT
134943 ACAAATCAA
1 ACAAATCAA
134952 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:136389 original size:42 final size:41
Alignment explanation
Indices: 136304--136426 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
136294 GTGAATCGGG
* * * *
136304 CTCTTGAATGGTGGGA-GGGACCTCTTCAATGATGACAGTGGC
1 CTCTTGAATGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
*
136346 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
136388 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAATGGTGGGAGGGGACTCTCGA-GGATGATAGG
136427 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.16, G:0.37, T:0.24
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:138473 original size:39 final size:38
Alignment explanation
Indices: 138430--138580 Score: 177
Period size: 39 Copynumber: 4.1 Consensus size: 38
138420 TCTTTTGGTT
* *
138430 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** * *
138469 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
138502 GAAATGAAAATCGCAACCGCGAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
138541 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
138579 GA
1 GA
138581 TTTTGGTTTC
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
33 26 0.28
34 2 0.02
35 1 0.01
38 23 0.24
39 42 0.45
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:138481 original size:19 final size:19
Alignment explanation
Indices: 138430--138580 Score: 177
Period size: 19 Copynumber: 8.1 Consensus size: 19
138420 TCTTTTGGTT
*
138430 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
138449 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
138469 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
138487 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
138502 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
138522 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
138541 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
138560 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
138579 GA
1 GA
138581 TTTTGGTTTC
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
14 10 0.09
15 2 0.02
18 2 0.02
19 65 0.57
20 35 0.31
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:138609 original size:19 final size:19
Alignment explanation
Indices: 138576--138641 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
138566 AAAATCGCAA
**
138576 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
138595 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
138614 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
138634 TGCGATTT
1 TGCGATTT
138642 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.73
20 11 0.28
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:139184 original size:20 final size:20
Alignment explanation
Indices: 139159--139247 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
139149 ATGTAAATCA
*
139159 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTAAGTATCG
*
139179 CGTTGCGAAAGTAAGTATCT
1 CGTTGCGAAAGTAAGTATCG
** *
139199 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--AAGTAAGTATCG
* *
139220 CATTGCGATAGTAAGTATCG
1 CGTTGCGAAAGTAAGTATCG
*
139240 CATTGCGA
1 CGTTGCGA
139248 TTTTCCCAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 40 0.70
21 12 0.21
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (20 bp):
CGTTGCGAAAGTAAGTATCG
Found at i:139266 original size:21 final size:21
Alignment explanation
Indices: 139237--139329 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
139227 ATAGTAAGTA
139237 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
139258 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
139278 TCACATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
139299 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
139319 TCGCATTGCGA
1 TCGCATTGCGA
139330 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:139267 original size:41 final size:41
Alignment explanation
Indices: 139176--139310 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
139166 AAAGTCAGTA
* * * ** *
139176 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* *
139216 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* **
139258 TCGCGTTGCGAT-TTACTTATTCACATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCACATTGCGATTTTCCCAAT
139299 TCGCGTTGCGAT
1 TCGCGTTGCGAT
139311 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
Found at i:139311 original size:41 final size:41
Alignment explanation
Indices: 139240--139329 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
139230 GTAAGTATCG
139240 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
*
139281 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
139322 CATTGCGA
1 CATTGCGA
139330 ATTGGGAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (41 bp):
CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
Found at i:139633 original size:21 final size:20
Alignment explanation
Indices: 139594--139633 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
139584 TATGTTACGA
*
139594 TGCTGATGTGGATTTCACAG
1 TGCTGATGTGGAGTTCACAG
139614 TGCTGATGTGGCAGTTCACA
1 TGCTGATGTGG-AGTTCACA
139634 ATATTGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (20 bp):
TGCTGATGTGGAGTTCACAG
Found at i:140443 original size:16 final size:18
Alignment explanation
Indices: 140412--140445 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
140402 AAACAAAATA
140412 TTAAAAACTAAAATATTT
1 TTAAAAACTAAAATATTT
140430 TTAAAAA-T-AAATATTT
1 TTAAAAACTAAAATATTT
140446 AATCGGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAAAACTAAAATATTT
Found at i:142148 original size:11 final size:11
Alignment explanation
Indices: 142132--142157 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
142122 TAATTTAAGG
142132 TTATTTTTACT
1 TTATTTTTACT
142143 TTATTTTTACT
1 TTATTTTTACT
142154 TTAT
1 TTAT
142158 AAATATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTTACT
Found at i:143314 original size:21 final size:19
Alignment explanation
Indices: 143272--143318 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
143262 GAATACCTTC
*
143272 AAACTTTTGATTGCTGAAA
1 AAACTTTTGATTGCTCAAA
*
143291 AAACTTGTTGTATTGCTCAGA
1 AAACTT-TTG-ATTGCTCAAA
143312 AAA-TTTT
1 AAACTTTT
143319 TCTTTGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 5 0.21
21 11 0.46
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
AAACTTTTGATTGCTCAAA
Found at i:144181 original size:140 final size:139
Alignment explanation
Indices: 143945--144294 Score: 538
Period size: 140 Copynumber: 2.5 Consensus size: 139
143935 GGAAACAAGT
* * * *
143945 TAAGGTTGAACACGTTCTTCTCATTATGAATTTTTTCTCCCTCATCGGATGAGTTATTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
* * * * * *
144010 TGAACTCTCCACTGGAAATGTTGGTCCCTCGAGTAAGGTGTTGCTGATTCAATTCCATATGCGAT
66 TGAACTCTCCACTGGAAATATTGATCACTCGAGTAAGGTATTGCTGATTCAACTCCATATACGAT
144075 GAATTGAGC
131 GAATTGAGC
* * ** *
144084 TAAGTTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTTTGTTGGATGAGTTCTTCTCATT
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC-TCATCGGATGAGTTCTTCTCATT
* *
144149 ATGAACTCTCCACTGGAAATATTGATCACTCGAGTGAGGTATTGCTGATTCAACTCCATATATGA
65 ATGAACTCTCCACTGGAAATATTGATCACTCGAGTAAGGTATTGCTGATTCAACTCCATATACGA
144214 TGAATTGAGC
130 TGAATTGAGC
144224 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
144289 TGAACT
66 TGAACT
144295 TCTTCTCCTT
Statistics
Matches: 188, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
139 63 0.34
140 125 0.66
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (139 bp):
TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTA
TGAACTCTCCACTGGAAATATTGATCACTCGAGTAAGGTATTGCTGATTCAACTCCATATACGAT
GAATTGAGC
Found at i:144260 original size:17 final size:17
Alignment explanation
Indices: 144238--144301 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
144228 GTTGAACAAG
144238 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* * *
144255 TTCTTCTCCCTCATCGGATGAG
1 TTCTTCT-CATTAT--GA--AC
144277 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
144294 TTCTTCTC
1 TTCTTCTC
144302 CTTCATCGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 16 0.44
18 4 0.11
19 2 0.06
20 2 0.06
21 4 0.11
22 8 0.22
ACGTcount: A:0.17, C:0.28, G:0.09, T:0.45
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:144279 original size:39 final size:39
Alignment explanation
Indices: 144236--144333 Score: 178
Period size: 39 Copynumber: 2.5 Consensus size: 39
144226 AGGTTGAACA
144236 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATG
*
144275 AGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATG
*
144314 AGTTCTTCTCATTATTAACT
1 AGTTCTTCTCATTATGAACT
144334 CTCCACTAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATG
Found at i:144281 original size:22 final size:22
Alignment explanation
Indices: 144255--144323 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
144245 CATTATGAAC
*
144255 TTCTTCTCCCTCATCGGATGAG
1 TTCTTCTCCATCATCGGATGAG
* *
144277 TTCTTCT-CATTAT--GA--AC
1 TTCTTCTCCATCATCGGATGAG
*
144294 TTCTTCTCCTTCATCGGATGAG
1 TTCTTCTCCATCATCGGATGAG
144316 TTCTTCTC
1 TTCTTCTC
144324 ATTATTAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 8 0.22
18 4 0.11
19 2 0.06
20 2 0.06
21 4 0.11
22 16 0.44
ACGTcount: A:0.14, C:0.29, G:0.13, T:0.43
Consensus pattern (22 bp):
TTCTTCTCCATCATCGGATGAG
Found at i:144404 original size:178 final size:179
Alignment explanation
Indices: 144098--144472 Score: 635
Period size: 178 Copynumber: 2.1 Consensus size: 179
144088 TTTGAACAAA
** *
144098 TTCTTCTCATTATGAACTTCTTCTCCCTTTGTTGGATGAGTTCTTCTCATTATGAACTCTCCACT
1 TTCTTCTCATTATGAACTTCTTCTCCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACT
* *
144163 GGAAATATTGATCACTCGAGTGAGGTATTGCTGATTCAACTCCATATATGATGAATTGAGCTAAG
66 AGAAATATTGATCACTCGAGTGAGGTATTGCTGATTCAACTCCATATATGATGAATCGAGCTAAG
144228 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAG
131 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAG
*
144277 TTCTTCTCATTATGAACTTCTTCT-CCTTCATCGGATGAGTTCTTCTCATTATTAACTCTCCACT
1 TTCTTCTCATTATGAACTTCTTCTCCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACT
* * * * *
144341 AGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATGAATCGAGCTAAG
66 AGAAATATTGATCACTCGAGTGAGGTATTGCTGATTCAACTCCATATATGATGAATCGAGCTAAG
*
144406 GTTGAACAATTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAG
131 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAG
144455 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
144473 CTCCACTGGA
Statistics
Matches: 184, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
178 160 0.87
179 24 0.13
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (179 bp):
TTCTTCTCATTATGAACTTCTTCTCCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCACT
AGAAATATTGATCACTCGAGTGAGGTATTGCTGATTCAACTCCATATATGATGAATCGAGCTAAG
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAG
Found at i:145039 original size:36 final size:36
Alignment explanation
Indices: 144916--145112 Score: 130
Period size: 36 Copynumber: 5.4 Consensus size: 36
144906 AGGGAAACTT
* * *
144916 TCTCAAGCGAGATGAAATTTGTTTTAAG-AAAACAA
1 TCTCAAGTGAGATGAAGTTTGTTTTAAGAAAAATAA
* * * * **
144951 TCCCAAGTGAGATAAAATTTCTTGTTTTGAGTAAAAATTG
1 TCTCAAGTGAGAT-GAA-GT-TTGTTTTAAG-AAAAATAA
* *
144991 TCTCAGGCGAGATGAAGTTTGTTTTAAGAAAAATAA
1 TCTCAAGTGAGATGAAGTTTGTTTTAAGAAAAATAA
* * * * * *
145027 TCTCGAGTGAGATAAAATTTTGTTTCGAATG-AAACT-G
1 TCTCAAGTGAGAT-GAAGTTTGTTT-TAA-GAAAAATAA
* *
145064 TCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATGAAGTTTGTTTTAAGAAAAATAA
*
145100 TCTCGAGTGAGAT
1 TCTCAAGTGAGAT
145113 AAAATTTTAT
Statistics
Matches: 118, Mismatches: 34, Indels: 19
0.69 0.20 0.11
Matches are distributed among these distances:
34 1 0.01
35 16 0.14
36 38 0.32
37 30 0.25
38 16 0.14
39 3 0.03
40 14 0.12
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (36 bp):
TCTCAAGTGAGATGAAGTTTGTTTTAAGAAAAATAA
Found at i:145084 original size:73 final size:73
Alignment explanation
Indices: 144910--145153 Score: 310
Period size: 73 Copynumber: 3.3 Consensus size: 73
144900 ATTTCAAGGG
* * * * *
144910 AAACTTTCTCAAGCGAGATGAAATTTGTTTTAAG-AAAACAATCCCAAGTGAGATAAAATTTCTT
1 AAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAA-TT-TT
144974 GTTTTGAGTAA
64 GTTTTGAGT-A
* * * *
144985 AAATTGTCTCAGGCGAGATGAAGTTTGTTTTAAGAAAAATAATCTCGAGTGAGATAAAATTTTGT
1 AAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTGT
* * *
145050 TTCGAATG
66 TTTGAGTA
* *
145058 AAACTGTCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTAT
1 AAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTGT
145123 TTTGAGTA
66 TTTGAGTA
* *
145131 AAACTGTCTTAAGTGAGACGAAG
1 AAACTGTCTCAAGCGAGACGAAG
145154 ATCTCTCAAG
Statistics
Matches: 148, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
73 86 0.58
74 9 0.06
75 32 0.22
76 21 0.14
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (73 bp):
AAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTGT
TTTGAGTA
Found at i:145146 original size:37 final size:37
Alignment explanation
Indices: 144910--145148 Score: 146
Period size: 37 Copynumber: 6.5 Consensus size: 37
144900 ATTTCAAGGG
* * * *
144910 AAACTTTCTCAAGCGAGATGAAA-TTTGTTTTAAG-A
1 AAACTGTCTCAAGTGAGATAAAATTTTGTTTTGAGTA
** *
144945 AAACAATCCCAAGTGAGATAAAATTTCTTGTTTTGAGTAA
1 AAACTGTCTCAAGTGAGATAAAA-TT-TTGTTTTGAGT-A
* * * * * *
144985 AAATTGTCTCAGGCGAGAT-GAAGTTTGTTTTAAG-A
1 AAACTGTCTCAAGTGAGATAAAATTTTGTTTTGAGTA
* * * * * *
145020 AAAATAATCTCGAGTGAGATAAAATTTTGTTTCGAATG
1 AAACT-GTCTCAAGTGAGATAAAATTTTGTTTTGAGTA
** * * *
145058 AAACTGTCTCAAGTGAGA-CGAAGTTTGTTTTAAGAA
1 AAACTGTCTCAAGTGAGATAAAATTTTGTTTTGAGTA
** * *
145094 AAACAATCTCGAGTGAGATAAAATTTTATTTTGAGTA
1 AAACTGTCTCAAGTGAGATAAAATTTTGTTTTGAGTA
*
145131 AAACTGTCTTAAGTGAGA
1 AAACTGTCTCAAGTGAGA
145149 CGAAGATCTC
Statistics
Matches: 145, Mismatches: 50, Indels: 16
0.69 0.24 0.08
Matches are distributed among these distances:
35 23 0.16
36 35 0.24
37 57 0.39
38 14 0.10
39 2 0.01
40 14 0.10
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (37 bp):
AAACTGTCTCAAGTGAGATAAAATTTTGTTTTGAGTA
Found at i:145481 original size:55 final size:55
Alignment explanation
Indices: 145382--145695 Score: 405
Period size: 55 Copynumber: 5.7 Consensus size: 55
145372 CTTTCAAATA
* ** * * * * *
145382 CATTTGAAAA-CATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTT
1 CATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
* * ** * *
145436 CTTTTAAAAATCACCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACT
1 CATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
*
145491 AATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
1 CATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
* * *
145546 CATTTGAAAATCGTCAAGAAACTTCTGAAAATCATACTTAATTTCTTTGAAAGTT
1 CATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
* * * * *
145601 CATTTAAAAATCATTAAGAAACTTCTGAAAATTAGAATTAATTTCTTTAAAAGCT
1 CATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
*
145656 CATTTGAAAATTGTCAAGAAACTTCTGAAAATCAGACTTA
1 CATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTA
145696 GTTAAAAAAA
Statistics
Matches: 222, Mismatches: 37, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
54 8 0.04
55 214 0.96
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (55 bp):
CATTTGAAAATCGTCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
Found at i:145666 original size:165 final size:164
Alignment explanation
Indices: 145382--145695 Score: 475
Period size: 165 Copynumber: 1.9 Consensus size: 164
145372 CTTTCAAATA
* * *
145382 CATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAAT
1 CATTTGAAAACATCAAGAAACCCCTAAAAATCAGACTTAATTTCTTTGAAAGTTCATTTAAAAAT
* *
145447 CACCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTAATTTGAAAATCGTCAAGAAA
66 CACCAAGAAACTTCTGAAAATCAGAATTAATTTCTTTAAAAACTAATTTGAAAATCGTCAAGAAA
145512 CTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
131 CTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
* ** * *
145546 CATTTGAAAATCGTCAAGAAACTTCTGAAAATCATACTTAATTTCTTTGAAAGTTCATTTAAAAA
1 CATTTGAAAA-CATCAAGAAACCCCTAAAAATCAGACTTAATTTCTTTGAAAGTTCATTTAAAAA
** * * * *
145611 TCATTAAGAAACTTCTGAAAATTAGAATTAATTTCTTTAAAAGCTCATTTGAAAATTGTCAAGAA
65 TCACCAAGAAACTTCTGAAAATCAGAATTAATTTCTTTAAAAACTAATTTGAAAATCGTCAAGAA
145676 ACTTCTGAAAATCAGACTTA
130 ACTTCTGAAAATCAGACTTA
145696 GTTAAAAAAA
Statistics
Matches: 133, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
164 10 0.08
165 123 0.92
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (164 bp):
CATTTGAAAACATCAAGAAACCCCTAAAAATCAGACTTAATTTCTTTGAAAGTTCATTTAAAAAT
CACCAAGAAACTTCTGAAAATCAGAATTAATTTCTTTAAAAACTAATTTGAAAATCGTCAAGAAA
CTTCTGAAAATCAGACTTAATTTCTTTAAAAGCT
Found at i:145877 original size:4 final size:4
Alignment explanation
Indices: 145870--146169 Score: 586
Period size: 4 Copynumber: 75.5 Consensus size: 4
145860 AAGAATTAAT
145870 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
145918 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
145966 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
146014 TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
146060 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
146108 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
146156 TATG TATG TATG TA
1 TATG TATG TATG TA
146170 CTTAAATGAA
Statistics
Matches: 294, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
4 292 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:149367 original size:13 final size:13
Alignment explanation
Indices: 149349--149373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
149339 TGATGTATAG
149349 ATGCAAATGCAAA
1 ATGCAAATGCAAA
149362 ATGCAAATGCAA
1 ATGCAAATGCAA
149374 CAAAGGAATT
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
ATGCAAATGCAAA
Found at i:150217 original size:21 final size:21
Alignment explanation
Indices: 150193--150234 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
150183 AAGCAAAATT
150193 GTGCATCGATGT-ACTGCTACA
1 GTGCATCGAT-TCACTGCTACA
150214 GTGCATCGATTCACTGCTACA
1 GTGCATCGATTCACTGCTACA
150235 TTGCTGCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (21 bp):
GTGCATCGATTCACTGCTACA
Found at i:150863 original size:23 final size:23
Alignment explanation
Indices: 150797--150882 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
150787 TAGTATAAAT
150797 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
150820 TTTGTC-CCGAAG-GACCGCGTAGAA
1 -TTG-CACCGAAGTG-CCACGTAGAA
*
150844 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
* *
150867 TTGCACTGTAGTGCCA
1 TTGCACCGAAGTGCCA
150883 TATAATATGT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 1 0.02
23 31 0.60
24 19 0.37
25 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.20
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:151179 original size:31 final size:31
Alignment explanation
Indices: 151123--151202 Score: 117
Period size: 31 Copynumber: 2.5 Consensus size: 31
151113 TTATATCGCG
151123 TAGACATATCATTTT-CATACCTTTATCACA
1 TAGACATATCATTTTCCATACCTTTATCACA
*
151153 TAGACATATCATTTTCCATACTTTTATCACA
1 TAGACATATCATTTTCCATACCTTTATCACA
*
151184 TAGCTCATATCACTTTTCC
1 TAG-ACATATCA-TTTTCC
151203 TGCATATTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 15 0.33
31 17 0.38
32 7 0.16
33 6 0.13
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.41
Consensus pattern (31 bp):
TAGACATATCATTTTCCATACCTTTATCACA
Found at i:151272 original size:25 final size:24
Alignment explanation
Indices: 151228--151276 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
151218 CATAATGCAT
151228 ATAATATGAATTAATGTCATGTATC
1 ATAATATGAATTAA-GTCATGTATC
151253 ATAATATGAAATGTAA-TCATGTAT
1 ATAATATG-AAT-TAAGTCATGTAT
151277 TAAAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 16 0.73
26 3 0.14
27 3 0.14
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (24 bp):
ATAATATGAATTAAGTCATGTATC
Found at i:153660 original size:2 final size:2
Alignment explanation
Indices: 153648--153682 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
153638 ATTTTTACTT
*
153648 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
153683 TCTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:155480 original size:30 final size:30
Alignment explanation
Indices: 155412--155505 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
155402 GAAGGACCTA
* * *
155412 TCCAGAGGTCACAAAG-ACCTCAGTAACTA
1 TCCAGAGGTCACAAAGAACCTCGGAAACTG
* *
155441 TCCAGAGGTCATAAAGAACCTCGGCAACTG
1 TCCAGAGGTCACAAAGAACCTCGGAAACTG
* * *
155471 TCCATAGGTCCCAAAGAACCTAGGTAAACTG
1 TCCAGAGGTCACAAAGAACCTCGG-AAACTG
155502 TCCA
1 TCCA
155506 TATATTCCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.28
30 30 0.56
31 9 0.17
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCTCGGAAACTG
Found at i:155504 original size:31 final size:31
Alignment explanation
Indices: 155466--155593 Score: 123
Period size: 31 Copynumber: 4.1 Consensus size: 31
155456 GAACCTCGGC
* *
155466 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * **
155497 AACTGTCCATATATTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
155528 TACTGTCCATATGTCTCGAAAG-ACATAGGTAA
1 AACTGTCCATATGTC-CCAAAGAACATAGGT-A
* * **
155560 AACTGTCCATATATTCCGTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
155591 AAC
1 AAC
155594 CCTCGACTCT
Statistics
Matches: 76, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
31 52 0.68
32 24 0.32
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Done.