Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002671.1 Hibiscus syriacus cultivar Beakdansim tig00005486_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: 67558
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:1999 original size:24 final size:24
Alignment explanation
Indices: 1940--2000 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
1930 AACAAAAAGT
* *
1940 GGGAGAAGTGTAAAAATCTTAGAA
1 GGGAGAAGTGTTAAAATCTTAAAA
*
1964 GGGAGAAGTGTTAAAATTTTAAAA
1 GGGAGAAGTGTTAAAATCTTAAAA
1988 GGGAGAAGTGTTA
1 GGGAGAAGTGTTA
2001 TAGTAAGGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.25
Consensus pattern (24 bp):
GGGAGAAGTGTTAAAATCTTAAAA
Found at i:2476 original size:46 final size:46
Alignment explanation
Indices: 2424--2529 Score: 212
Period size: 46 Copynumber: 2.3 Consensus size: 46
2414 TGCACATACC
2424 ATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
2470 ATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
2516 ATGCATCGATGCAC
1 ATGCATCGATGCAC
2530 CAGCCATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (46 bp):
ATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
Found at i:2514 original size:111 final size:110
Alignment explanation
Indices: 2388--2594 Score: 312
Period size: 111 Copynumber: 1.9 Consensus size: 110
2378 AATTAAATTG
2388 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCATCGATGCACT-GAGGAT-TTTAT
1 AACATCGAATGCATTTCATGCATCGATGCACCA-ACCATGCATCGATGCACTCGA-GATATTT-T
*
2450 GAAAACATCGAATGCATTTGATGCATCGATGCACTGAGGATTTTATGAA
63 G-AAACATCGAATGCACTTGATGCATCGATGCACTGAGGATTTTATGAA
* * * *
2499 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTAGCTATTTTGAA
1 AACATCGAATGCATTTCATGCATCGATGCACCAACCATGCATCGATGCACTCGAGATATTTTGAA
2564 ACATCGAATGCACTTGATGCATCGATGCACT
66 ACATCGAATGCACTTGATGCATCGATGCACT
2595 CTAGTGCACC
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
110 32 0.36
111 50 0.57
112 6 0.07
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (110 bp):
AACATCGAATGCATTTCATGCATCGATGCACCAACCATGCATCGATGCACTCGAGATATTTTGAA
ACATCGAATGCACTTGATGCATCGATGCACTGAGGATTTTATGAA
Found at i:5622 original size:240 final size:240
Alignment explanation
Indices: 5199--5747 Score: 740
Period size: 240 Copynumber: 2.3 Consensus size: 240
5189 ACCAAGCTTC
* * * *
5199 ATTTCCAAAGTTTCTTACCTAGTAAGTCCATCGGGTCATCAGTAAGTCTTTCAAGCATTATGTTT
1 ATTTCCAAAGTTTCTTA-CTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTT
* *
5264 AGATCCTT-TGAGTCATATGTAAGTCTTTCGAACAAGATGATAAGTCCTTCGGGCCATCCATAAG
65 AAATCCTTCAGAGTCATATGTAAGTCTTTCGAACAAGATGATAAGTCCTTCGGGCCATCCATAAG
* * *
5328 ACCTTTGGAAAGGATGTTTTCACATGATTTTAAAAAATAAGAAAATAATTTCCAAACTTTCTAAT
130 ACCTTAGGAAAGGATGTTTTCACATGATTTTAAAAAATAAGAAAATAATTTCCAAACTTTATAAC
* *
5393 TTAAACC-TTTCTTGAAAATTGGTTTCTTTTGAAAAGTAAGAAAATG
195 TTAAACCTTTTC-TAAAAATTGGTTTCTTTTGAAAAGTAAGAAAACG
* * *
5439 ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTA
1 ATTTCCAAAGTTTCTTAC-TAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTT
* * * * *
5504 AAATCCTTCAG-GTCTTCTG-AATGTC-TTCGAGCAAGATGATAAGTCCTTTGGGCTATCCATAA
65 AAATCCTTCAGAGTCATATGTAA-GTCTTTCGAACAAGATGATAAGTCCTTCGGGCCATCCATAA
* * * *
5566 GACCTTCAGG-TAGGATGTTTTCACATGATTTTCAAAAAATGAGAAAGTAATTTCCAAAGTTTAT
129 GACCTT-AGGAAAGGATGTTTTCACATGATTTT-AAAAAATAAGAAAATAATTTCCAAACTTTAT
*
5630 CACTTAAACCTTTTCTAAAAATTGGTTTCTTTTGAAAAGTAAGAAAACG
192 AACTTAAACCTTTTCTAAAAATTGGTTTCTTTTGAAAAGTAAGAAAACG
* *
5679 ATTTCCAAAGTTT-TTAC---TAAGTCCTTCGGGCCATTAGTAAGTCTTGCAAGCATGATGCTTA
1 ATTTCCAAAGTTTCTTACTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTA
5740 AATCCTTC
66 AATCCTTC
5748 GGGCCATCTA
Statistics
Matches: 274, Mismatches: 29, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
235 47 0.17
239 68 0.25
240 154 0.56
241 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (240 bp):
ATTTCCAAAGTTTCTTACTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTA
AATCCTTCAGAGTCATATGTAAGTCTTTCGAACAAGATGATAAGTCCTTCGGGCCATCCATAAGA
CCTTAGGAAAGGATGTTTTCACATGATTTTAAAAAATAAGAAAATAATTTCCAAACTTTATAACT
TAAACCTTTTCTAAAAATTGGTTTCTTTTGAAAAGTAAGAAAACG
Found at i:6274 original size:133 final size:130
Alignment explanation
Indices: 6014--6465 Score: 453
Period size: 133 Copynumber: 3.4 Consensus size: 130
6004 GCGAATCAAA
* ** * *
6014 CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAAAATTTATAGATCTGATTTTCCTAAA
1 CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTAATTTCCCTAAA
6079 GAAA-TAGTGGAACAGATACACTTTTTCCATATTTGATCTTCCCTGAGAAGCAGTGGAACAAATC
66 GAAACT-GTGGAACAGAT-CACTTTTTCCAT-TTTGATCTTCCCTGAGAAGCAGTGGAACAAATC
6143 TAC
128 TAC
* *
6146 CTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTCCATATCTAAATTTCCCTGA
1 CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCT-AATTTCCCT-A
* * * *
6211 AA-AAACTGTGGAACATATCATCTTTTTCTAGTTTTGATCTTCCCTGAGAAACAGTAGAACAAAT
64 AAGAAACTGTGGAACAGATCA-CTTTTTCCA-TTTTGATCTTCCCTGAGAAGCAGTGGAACAAAT
6275 CTAC
127 CTAC
* * * * * * *
6279 CTCGATTCAATGTTTCCTAAAGAA-ATATGGAATGAATTAATATTTCCAGATCTGATTTTCCCTA
1 CTCGATTCAATATTCCCTGAAGAACA-GTGGAATGAATCAACATTTCCAGATCT-AATTTCCCTA
* * * * ** * * *
6343 AAGAAACAGCGGAACAGATCCCCTCTTTCCAAAGTTGGTC-TCCTCTAAAGAAGGAGTGGAACAA
64 AAGAAACTGTGGAACAGAT-CACTTTTTCC-ATTTTGATCTTCC-CT-GAGAAGCAGTGGAACAA
* * *
6407 GTATGC
125 ATCTAC
* * * *
6413 CTCGATTCAATATTCCCTGAAGAATAGTAGAATAAATCAACATTTCCATATCT
1 CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCT
6466 CTTCTCAGAC
Statistics
Matches: 262, Mismatches: 46, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
132 57 0.22
133 139 0.53
134 65 0.25
135 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (130 bp):
CTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTAATTTCCCTAAA
GAAACTGTGGAACAGATCACTTTTTCCATTTTGATCTTCCCTGAGAAGCAGTGGAACAAATCTAC
Found at i:6664 original size:3 final size:3
Alignment explanation
Indices: 6656--6708 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
6646 ATGGAGACCG
6656 TTA TTA TTA TTA TTA TGT- TTA TTA TTAA TTA TT- TT- TTA TT- TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
6699 TTA TTA TTA T
1 TTA TTA TTA T
6709 AGGTCCAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 7 0.16
3 34 0.76
4 4 0.09
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6904 original size:26 final size:26
Alignment explanation
Indices: 6845--6904 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
6835 TAACCCTAAC
* *
6845 ATCCCCTACCACCCTCATATGCACTA
1 ATCCCCTGCCACCCTCATATGCACCA
* *
6871 ATCCCCTGCCACCGTCATCTGCACCA
1 ATCCCCTGCCACCCTCATATGCACCA
*
6897 GTCCCCTG
1 ATCCCCTG
6905 GCATTGTTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.48, G:0.10, T:0.22
Consensus pattern (26 bp):
ATCCCCTGCCACCCTCATATGCACCA
Found at i:9191 original size:130 final size:131
Alignment explanation
Indices: 9012--9362 Score: 510
Period size: 128 Copynumber: 2.7 Consensus size: 131
9002 GTAAAATCTT
* * *
9012 TTCATTTCGGTTGGAGTAATAAATGACTGCTATAAGGCATGAGAGGTCATTTATTCTCTATTTGA
1 TTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCTATTGGA
* * * * *
9077 AATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGATTTTTAAGATGAAATGGTGATATCC
66 AATAATTAGATATTATAGTTTTCTCTCAAATCAATATTGAATTTTAAGAGGAAATAGTGATATCC
9142 C
131 C
* * * * *
9143 TTCATTTTGATTGGAGTAAT-AATGACTGCTTTAAGGCATGAAAAGTCATTTATT-TTTATTGGT
1 TTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCTATTGGA
* * *
9206 AAT-ATTAGATGTTATAGTTTTCTATCAAATCAATATTGAATTTTAAGAGGAAATAGTGATATCT
66 AATAATTAGATATTATAGTTTTCTCTCAAATCAATATTGAATTTTAAGAGGAAATAGTGATATCC
9270 C
131 C
* *
9271 TTCATTTCGATCGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGA
1 TTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCTATTGGA
*
9336 AATAATTAGATATTATTGTTTTCTCTC
66 AATAATTAGATATTATAGTTTTCTCTC
9363 TTAGAATTAT
Statistics
Matches: 191, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
128 72 0.38
129 41 0.21
130 40 0.21
131 38 0.20
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (131 bp):
TTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCTATTGGA
AATAATTAGATATTATAGTTTTCTCTCAAATCAATATTGAATTTTAAGAGGAAATAGTGATATCC
C
Found at i:9863 original size:14 final size:14
Alignment explanation
Indices: 9844--9870 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9834 TAGAGATGGG
9844 ATCTTTTAAAAATC
1 ATCTTTTAAAAATC
9858 ATCTTTTAAAAAT
1 ATCTTTTAAAAAT
9871 TAAATGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
ATCTTTTAAAAATC
Found at i:10943 original size:7 final size:6
Alignment explanation
Indices: 10930--11081 Score: 86
Period size: 6 Copynumber: 25.2 Consensus size: 6
10920 ATTACACCTG
* *
10930 AAGAAA ATAGAAA AAGAAA AA-AGA AAGAAA AA-AGA AAGAAAA AAGAAGA
1 AAGAAA A-AGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAA-A
* * *
10979 AA-AAA GAGAAA AAGAGAA AGAGAAA AA-AAG GAGAAA AAGAAA GAA-AATGA
1 AAGAAA AAGAAA AAGA-AA A-AGAAA AAGAAA AAGAAA AAGAAA -AAGAA--A
** * *
11029 AA-AAA AAGAAA AAGAAA AAGAGAA AA-AAA GGGGAA AAGAAA GA-AAA
1 AAGAAA AAGAAA AAGAAA AAGA-AA AAGAAA AAGAAA AAGAAA AAGAAA
11075 AAGAAA A
1 AAGAAA A
11082 TTGAAATGAG
Statistics
Matches: 112, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
5 22 0.20
6 56 0.50
7 30 0.27
8 4 0.04
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:11080 original size:11 final size:11
Alignment explanation
Indices: 10942--11057 Score: 111
Period size: 11 Copynumber: 10.7 Consensus size: 11
10932 GAAAATAGAA
10942 AAAGAAAAAAG
1 AAAGAAAAAAG
10953 AAAGAAAAAAG
1 AAAGAAAAAAG
10964 AAAGAAAAAAG
1 AAAGAAAAAAG
10975 -AAGAAAAAAG
1 AAAGAAAAAAG
10985 --AGAAAAAGAG
1 AAAGAAAAA-AG
10995 AAAGAGAAAAA-
1 AAAGA-AAAAAG
*
11006 AAGGAGAAAAAG
1 AAAGA-AAAAAG
*
11018 AAAG-AAAATG
1 AAAGAAAAAAG
*
11028 AAA-AAAAAGAA
1 AAAGAAAAA-AG
11039 AAAGAAAAAGAG
1 AAAGAAAAA-AG
11051 AAA-AAAA
1 AAAGAAAA
11058 GGGGAAAAGA
Statistics
Matches: 91, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
9 7 0.08
10 24 0.26
11 39 0.43
12 17 0.19
13 4 0.04
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:11081 original size:50 final size:50
Alignment explanation
Indices: 10930--11081 Score: 191
Period size: 50 Copynumber: 3.0 Consensus size: 50
10920 ATTACACCTG
* *
10930 AAGAAAATAGAAAAAGA-AAAAAGAAAGAAAAAAGAAAGAAAAAAGAAGAAAAA
1 AAGAAAA-AGAAAAAGAGAAAAA-AAGGGAAAAAGAAAGAAAAAAG-A-AAAAA
* *
10983 AGAGAAAAAGAGAAAGAGAAAAAAAGGAGAAAAAGAAAG-AAAATGAAAAAA
1 A-AGAAAAAGAAAAAGAGAAAAAAAGG-GAAAAAGAAAGAAAAAAGAAAAAA
*
11034 AAGAAAAAGAAAAAGAGAAAAAAAGGGGAAAAGAAAGAAAAAAGAAAA
1 AAGAAAAAGAAAAAGAGAAAAAAAGGGAAAAAGAAAGAAAAAAGAAAA
11082 TTGAAATGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
49 10 0.11
50 33 0.38
51 6 0.07
52 1 0.01
53 17 0.19
54 21 0.24
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (50 bp):
AAGAAAAAGAAAAAGAGAAAAAAAGGGAAAAAGAAAGAAAAAAGAAAAAA
Found at i:13466 original size:17 final size:17
Alignment explanation
Indices: 13424--13467 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
13414 CGTCTGATTT
13424 TAATTAATTATAGTTACA
1 TAATTAA-TATAGTTACA
* * *
13442 TGACTAATATAGTTATA
1 TAATTAATATAGTTACA
13459 TAATTAATA
1 TAATTAATA
13468 AATATCCATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (17 bp):
TAATTAATATAGTTACA
Found at i:16642 original size:29 final size:29
Alignment explanation
Indices: 16600--16656 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
16590 GAAAAAGATT
*
16600 AAATACTTTAAGTGCCTAATTTGACCAAC
1 AAATACTTTAAGTGCATAATTTGACCAAC
* *
16629 AAATATTTTAAGTGCATATTTTGACCAA
1 AAATACTTTAAGTGCATAATTTGACCAA
16657 AAAGATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (29 bp):
AAATACTTTAAGTGCATAATTTGACCAAC
Found at i:18530 original size:31 final size:31
Alignment explanation
Indices: 18492--18604 Score: 149
Period size: 31 Copynumber: 3.7 Consensus size: 31
18482 TTCAACGTTC
18492 AAGTGACCAAAATTTAATAAAATGATAATGT
1 AAGTGACCAAAATTTAATAAAATGATAATGT
**
18523 AAGTGACCAAAATTTAATAAACA--ATAACAT
1 AAGTGACCAAAATTTAATAAA-ATGATAATGT
* *
18553 AAATGACTAAAATTTAATAAAATGATAATGT
1 AAGTGACCAAAATTTAATAAAATGATAATGT
* *
18584 AAGTGACCAAAACTTATTAAA
1 AAGTGACCAAAATTTAATAAA
18605 CAATATTTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.01
30 24 0.35
31 43 0.62
32 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.27
Consensus pattern (31 bp):
AAGTGACCAAAATTTAATAAAATGATAATGT
Found at i:18595 original size:61 final size:61
Alignment explanation
Indices: 18495--18609 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
18485 AACGTTCAAG
*
18495 TGACCAAAATTTAATAAAATGATAATGTAAGTGACCAAAATTTAATAAACAATAACATAAA
1 TGACCAAAATTTAATAAAATGATAATGTAAGTGACCAAAACTTAATAAACAATAACATAAA
* *
18556 TGACTAAAATTTAATAAAATGATAATGTAAGTGACCAAAACTTATTAAACAATA
1 TGACCAAAATTTAATAAAATGATAATGTAAGTGACCAAAACTTAATAAACAATA
18610 TTTCATTTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.28
Consensus pattern (61 bp):
TGACCAAAATTTAATAAAATGATAATGTAAGTGACCAAAACTTAATAAACAATAACATAAA
Found at i:20389 original size:30 final size:31
Alignment explanation
Indices: 20337--20446 Score: 168
Period size: 31 Copynumber: 3.6 Consensus size: 31
20327 AACGTTCAAA
20337 TGACCAAAATTTAATAAAATAATAATGTAAG
1 TGACCAAAATTTAATAAAATAATAATGTAAG
* *
20368 TGACCAAAATTTAAT-AAATAATAACGTAAA
1 TGACCAAAATTTAATAAAATAATAATGTAAG
*
20398 TGACCAAAATTTAATAAAATGATAATGTAAG
1 TGACCAAAATTTAATAAAATAATAATGTAAG
* *
20429 TGACCAAAACTTATTAAA
1 TGACCAAAATTTAATAAA
20447 CAAGATTTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
30 28 0.39
31 43 0.61
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (31 bp):
TGACCAAAATTTAATAAAATAATAATGTAAG
Found at i:21524 original size:30 final size:31
Alignment explanation
Indices: 21459--21559 Score: 168
Period size: 31 Copynumber: 3.3 Consensus size: 31
21449 TTCAACGTTC
*
21459 AAGTGACCAAAATTTAATAAAATAATAATGT
1 AAGTGACCAAAATTTAATAAAATGATAATGT
*
21490 AAGTGACCAAAATTTAAT-AAATGATAACGT
1 AAGTGACCAAAATTTAATAAAATGATAATGT
*
21520 AAGTGACCAAAATTTAATAAAATGATAATAT
1 AAGTGACCAAAATTTAATAAAATGATAATGT
21551 AAGTGACCA
1 AAGTGACCA
21560 GAACTTATTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
30 28 0.43
31 37 0.57
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (31 bp):
AAGTGACCAAAATTTAATAAAATGATAATGT
Found at i:22785 original size:28 final size:29
Alignment explanation
Indices: 22731--22787 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
22721 TAATCTCATC
22731 ACCTCTTATTTTCTTTAGATAATATTACA
1 ACCTCTTATTTTCTTTAGATAATATTACA
22760 ACCTCTTATTTTC-TTAGATAATATTACA
1 ACCTCTTATTTTCTTTAGATAATATTACA
22788 TTTTTTGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.47
Consensus pattern (29 bp):
ACCTCTTATTTTCTTTAGATAATATTACA
Found at i:23963 original size:21 final size:21
Alignment explanation
Indices: 23939--23984 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
23929 TTTCAAAGAG
23939 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
23960 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
23981 GGGA
1 GGGA
23985 AGAATCTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (21 bp):
GGGACGACCAGCCCTTGCTTT
Found at i:31475 original size:36 final size:36
Alignment explanation
Indices: 31433--31591 Score: 180
Period size: 36 Copynumber: 4.4 Consensus size: 36
31423 GGAGAAAAGT
* *
31433 CCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAT
1 CCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
*
31469 CAATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
1 CCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
* *
31505 CCATCAT-AAGTCTTCACCAGAGAGTAGTGAAGCAAA
1 CCATC-TGAAGCCTTCACCAGAGAATAGTGAAGCAAA
* * *
31541 CCATCTTAAGTCTTCACCA-A-AAGTAGTGAAGCAGAT
1 CCATCTGAAGCCTTCACCAGAGAA-TAGTGAAGCA-AA
* *
31577 CCATTTTAAGCCTTC
1 CCATCTGAAGCCTTC
31592 TCAGAAGAGT
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
34 1 0.01
35 12 0.11
36 95 0.87
37 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (36 bp):
CCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
Found at i:31969 original size:54 final size:53
Alignment explanation
Indices: 31787--33198 Score: 1206
Period size: 54 Copynumber: 26.7 Consensus size: 53
31777 AAGATTATTT
* *
31787 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGA-AGAGATG-TC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGA-AGATGTTC
*
31839 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA-AA-ATTGTTC
1 -GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGA-TGTTC
* * *
31892 GAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATATTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
* * * * * *
31946 GAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAG-ATGTTC
* * * * * * *
32001 GAG-TCTTATACTCTCT-GAAAGAATAGGGAGC-AGACACGATTGTTGAAGATTATTC
1 GAGTTC-TATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCGTTTG-AGAAGA-TGTTC
* * * * * * *
32056 GAG-TCTCATACTCTCT-GAAAGAATAGGGAG-TAGACACGATTGTCGAAGATTGTTC
1 GAGTTCT-ATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCGTTTG-AGAAGA-TGTTC
* * * ** * *
32111 GAG-TCTCATACTCTCT-GAAGGAATAGGGAGC-ATACACATTTTCAAAAGATGTTC
1 GAGTTCT-ATACTCCCTAG-AGAAAGAGGGAGCGA-AC-CCGTTTGAGAAGATGTTC
* * * * *
32165 GAGTTCCATACTCCTTAAAGGAAGAAGGAGCGAACCCGTTT--GAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGATGTTC
** * * * ** * *
32216 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
32270 GAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCAG-TT--GAAGATGTTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCC-GTTTGAGAAGATGTTC
32321 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT--GAAGATTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGA-TGTTC
* * ** *
32373 GAGTTCTATACTTCCT-GAAGAAAGATGGAGCGAACTTGTTTGAAAAAGATGTTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
* * *
32427 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAATATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
* * * *
32481 AAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
*
32535 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGGAATATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA-GAAGATGTTC
* *
32589 GAGTTCTATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTT--GAAGATTGTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGA-TGTTC
* * ** *
32639 GAGTTATATACTCCCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
* * *
32693 TAGTTCCATACTCCCTA-A-AAAGAGGGAGCGAACCCGTTT--GAAGATGTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGATGTTC
* * * * * **
32742 GAGTTTTATACTCCTTAAAGAAAGAAGGAGCGAACCCATAAGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
* *
32796 GAGTTCCATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTT--GAAGATTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGA-TGTTC
* * * *
32846 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCATTTGAAGAATATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
* * * **
32900 GAGTTCTATACTCCCTAGAGAAAGTGGGAGTGAACCCATAAGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
* *
32954 GAGTTCCATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTT--GAAGATTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGA-TGTTC
* *
33004 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
* * * * *
33058 GAGTTCTATACTCCCTAGAGAAAGAGGGAACAAATCCGTTT--GAAGATTTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGATGTTC
* * * *
33109 GAGTTGTATACTCCCTA-ATAAAGAGGGAGCAAACCCGTTTGCAGAAGAAGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AGAAGATGTTC
*
33162 GAGTTCTATACTCCCTA-AAAAAGAGGGAGCGAACCCG
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG
33199 ATGGTTGAAG
Statistics
Matches: 1144, Mismatches: 153, Indels: 124
0.81 0.11 0.09
Matches are distributed among these distances:
49 37 0.03
50 80 0.07
51 139 0.12
52 208 0.18
53 96 0.08
54 432 0.38
55 149 0.13
56 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (53 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGAAGATGTTC
Found at i:32140 original size:55 final size:55
Alignment explanation
Indices: 31982--32147 Score: 269
Period size: 55 Copynumber: 3.0 Consensus size: 55
31972 GGAACGAACC
* *
31982 CGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* *
32037 CGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* * *
32092 CGATTGTCGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACA
1 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
32147 C
1 C
32148 ATTTTCAAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 102 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (55 bp):
CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
Found at i:32160 original size:55 final size:55
Alignment explanation
Indices: 31982--32177 Score: 249
Period size: 55 Copynumber: 3.6 Consensus size: 55
31972 GGAACGAACC
* *
31982 CGATTGTT-GAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACA
1 CGATT-TTCGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* *
32037 CGATTGTT-GAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACA
1 CGATT-TTCGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
* * *
32092 CGATTGTCGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACA
1 CGATTTTCGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
*
32147 C-ATTTTCAAAAGA-TGTTCGAGT-TCCATACTC
1 CGATTTTC-GAAGATTGTTCGAGTCT-CATACTC
32178 CTTAAAGGAA
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 22 0.17
55 104 0.82
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (55 bp):
CGATTTTCGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACA
Found at i:32691 original size:104 final size:105
Alignment explanation
Indices: 31775--33198 Score: 1294
Period size: 104 Copynumber: 13.5 Consensus size: 105
31765 GTGAAGCAAA
* * * *
31775 TGAAGATTATTTGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAG-AGATG-T
1 TGAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
*
31838 CTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTT
66 C-GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTT
* * * * *
31880 TGAAAATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATATT
1 TGAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
* * *
31945 CGAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGT
66 CGAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCG--T-T
* * * * * * **
31989 TGAAGTTTGTTCGAG-TCTTATACTCTCT-GAAAGAATAGGGAGC-AGACACGATTGTTGAAGAT
1 TGAAGATTGTTCGAGTTC-TATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCGTTTGAAGAAGA-
* * * * *
32051 TATTCGAG-TCTCATACTCTCTGAA-AGAATAGGGAG-TAGACACGATT
62 TGTTCGAGTTCT-ATACTCCCT-AAGA-AAGAGGGAGCGA-ACCCG-TT
* * * ** *
32097 GTCGAAGATTGTTCGAG-TCTCATACTCTCT-GAAGGAATAGGGAGC-ATACACATTTTCAA-AA
1 -T-GAAGATTGTTCGAGTTCT-ATACTCCCTAG-AGAAAGAGGGAGCGA-AC-CCGTTTGAAGAA
* * * *
32158 GATGTTCGAGTTCCATACTCCTTAAAGGAAGAAGGAGCGAACCCGTT
60 GATGTTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTT
** * * * ** *
32205 TGAAGA-TGTTCGAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTT
1 TGAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
*
32269 TGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCAG-T
66 CGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCC-GTT
*
32310 TGAAGA-TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-A-TTGTT
1 TGAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
* * **
32372 CGAGTTCTATACTTCCTGAAGAAAGATGGAGCGAACTTGTT
66 CGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTT
* *
32413 TGAAAAAGA-TGTTCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAATA
1 TG---AAGATTGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * *
32476 TGTCCAAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCTGTT
62 TGTTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTT
* * * *
32521 TGAAGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGGAATATG
1 TGAAG-A-TTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
*
32586 TTCGAGTTCTATACTCCCTAA-AGAGAGGGAGCGAACCCGTT
64 TTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTT
* * * **
32627 TGAAGATTGTTTGAGTTATATACTCCCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTT
1 TGAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
** *
32692 TTAGTTCCATACTCCCTAA-AAAGAGGGAGCGAACCCGTT
66 CGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTT
* * * * * * **
32731 TGAAGA-TGTTTGAGTTTTATACTCCTTAAAGAAAGAAGGAGCGAACCCATAAGAAGAAGATGTT
1 TGAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
* *
32795 CGAGTTCCATACTCCCTAA-AGAGAGGGAGCGAACCCGTT
66 CGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTT
* * *
32834 TGAAGATTGTTCGAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCATTTGAAGAATATGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* * * * *
32898 CCGAGTTCTATACTCCCTAGAGAAAGTGGGAGTGAACCCATA
65 TCGAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTT
* * * * *
32940 AGAAGAAGATGTTCGAGTTCCATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTG
1 TGAAG-A-TTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
*
33001 TTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTT
64 TTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTT
* * * * * *
33044 TGAAGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGGAACAAATCCGTTT---GAAGATT
1 TGAAG-A-TTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
* * * *
33106 TTTGAGTTGTATACTCCCTAATAAAGAGGGAGCAAACCCGTT
64 TTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTT
* *
33148 TGCAGAAGA-AGTTCGAGTTCTATACTCCCTA-AAAAAGAGGGAGCGAACCCG
1 T---GAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG
33199 ATGGTTGAAG
Statistics
Matches: 1100, Mismatches: 167, Indels: 106
0.80 0.12 0.08
Matches are distributed among these distances:
102 1 0.00
103 150 0.14
104 268 0.24
105 191 0.17
106 185 0.17
107 12 0.01
108 139 0.13
109 78 0.07
110 72 0.07
111 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (105 bp):
TGAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
CGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTT
Found at i:32705 original size:158 final size:159
Alignment explanation
Indices: 31787--33198 Score: 1241
Period size: 158 Copynumber: 8.9 Consensus size: 159
31777 AAGATTATTT
* * *
31787 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGAGA-TG-TCTGAGTTCCATA
1 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGA-ATTGTTC-GAGTTCTATA
*
31850 CTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA-AA-TTGTTCGAGTTCTATACTCCCTAGAGA
63 CTCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAGAGA
* * * *
31913 AAGAGAGAGCGAACTCGTTTGCAGAAGATATTC
127 AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
31946 GAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAG-TTTGTTCGAG-TCTTA
1 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCG--T-TTGAAGAATTGTTCGAGTTC-TA
* * * * ** * *
32009 TACTCTCTGAA-AGAATAGGGAGC-AGACACGATTGTTGAAGATTATTCGAG-TCTCATACTCTC
61 TACTCCCT-AAGA-AAGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTTCGAGTTCT-ATACTCCC
* * * * * **
32071 T-GAAAGAATAGGGAG-TAGACACGATTGTCGAAGATTGTTC
121 TAGAGA-AAGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTTC
* * * ** * * *
32111 GAG-TCTCATACTCTCTGAAGGAATAGGGAGC-ATACACATTTTCAA-AAGATGTTCGAGTTCCA
1 GAGTTCT-ATACTCCCT-AAGAAAGAGGGAGCGA-AC-CCGTTTGAAGAA-TTGTTCGAGTTCTA
* * * ** *
32173 TACTCCTTAAAGGAAGAAGGAGCGAACCCGTTT---GAAGATGTTCGAGTTCTATACTCTTTAAA
61 TACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAGA
* * ** * *
32235 GAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
125 GAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
32270 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCAG-TTGAAG-A-TGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCC-GTTTGAAGAATTGTTCGAGTTCTATAC
* *
32332 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTCGAGTTCTATACTTCCT-GAAGA
64 TCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG-AGA
* ** *
32394 AAGATGGAGCGAACTTGTTTGAAAAAGATGTTC
127 AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
32427 GAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAATATGTCCAAGTTCTATAC
1 GAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAT-TGTTCGAGTTCTATAC
* * *
32492 TTCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTAGAGAA
64 TCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAA
* *
32557 AGAGGGAGCGAACCCGTTTGAGGAATATGTTC
128 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
32589 GAGTTCTATACTCCCTAA-AGAGAGGGAGCGAACCCGTTTGAAG-ATTGTTTGAGTTATATACTC
1 GAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAATTGTTCGAGTTCTATACTC
* ** ** *
32652 CCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTTTTAGTTCCATACTCCCTA-A-AAAG
66 CCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAG
*
32715 AGGGAGCGAACCCGTTT---GAAGATGTTT
130 AGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * ** * *
32742 GAGTTTTATACTCCTTAAAGAAAGAAGGAGCGAACCCATAAGAAGAAGATGTTCGAGTTCCATAC
1 GAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAA-TTGTTCGAGTTCTATAC
* * *
32807 TCCCTAA-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTCGAGTTCTATACTTCCT-GAAGAA
64 TCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG-AGAA
* * *
32868 AGAGGGAGCGAACCCATTTGAAGAATATGTCC
128 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * ** * *
32900 GAGTTCTATACTCCCTAGAGAAAGTGGGAGTGAACCCATAAGAAGAAGATGTTCGAGTTCCATAC
1 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGAA-TTGTTCGAGTTCTATAC
* * *
32965 TCCCTAA-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTCGAGTTCTATACTTCCT-GAAGAA
64 TCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG-AGAA
*
33026 AGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
128 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
33058 GAGTTCTATACTCCCTAGAGAAAGAGGGAACAAATCCGTTTGAAG-ATT-TTTGAGTTGTATACT
1 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGAATTGTTCGAGTTCTATACT
* * * * *
33121 CCCTAATAAAGAGGGAGCAAACCCGTTTGCAGAAGAAGTTCGAGTTCTATACTCCCTA-AAAAAG
65 CCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAG
33185 AGGGAGCGAACCCG
130 AGGGAGCGAACCCG
33199 ATGGTTGAAG
Statistics
Matches: 1028, Mismatches: 164, Indels: 124
0.78 0.12 0.09
Matches are distributed among these distances:
153 39 0.04
154 4 0.00
155 80 0.08
156 87 0.08
157 130 0.13
158 281 0.27
159 67 0.07
160 107 0.10
161 46 0.04
162 75 0.07
163 12 0.01
164 69 0.07
165 29 0.03
166 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (159 bp):
GAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAATTGTTCGAGTTCTATACTC
CCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGA
GGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:33267 original size:55 final size:55
Alignment explanation
Indices: 33203--33575 Score: 391
Period size: 55 Copynumber: 6.8 Consensus size: 55
33193 AACCCGATGG
*
33203 TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGTAGACACGATTA
1 TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
* * *
33258 TTAAAGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
1 TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATT-A
* * *
33314 TTGAAGATTGTTC-AAGTCTTATACTCTCTGAAGGAATAGGGAGCATACACGATTG
1 TTGAAGATTGTTCGAA-TCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
* * * * * **
33369 TTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCG
1 TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
* * *
33424 TTGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGG-GACAGACGCGATTGA
1 TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAG-CAGACACGATT-A
* ** * *
33480 -TGAAGACTG-T-GGGTCTTATACTCTCTTAAGAAATAGGGAGCAGACCCGATTA
1 TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
** * * * *
33532 CAGAAGATTATTTGAGT-TCTATACT-TCCTGAAGAAAGAGGGAGC
1 TTGAAGATTGTTCGAATCT-TATACTCT-CTGAAGAAATAGGGAGC
33576 GAACCCATAG
Statistics
Matches: 278, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.00
53 42 0.15
54 6 0.02
55 180 0.65
56 49 0.18
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (55 bp):
TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
Found at i:33334 original size:111 final size:110
Alignment explanation
Indices: 33158--33530 Score: 420
Period size: 111 Copynumber: 3.4 Consensus size: 110
33148 TGCAGAAGAA
* * * * *
33158 GTTCGAGT-TCTATACTCCCT-AAAAAAGAGGGAGC-GAACCCGATGGTTGAAGATTGTTCGAA-
1 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTTGAAGATTGTTC-AAG
* *
33219 TCTTATACTCTCTGAAGAAATAGGGAGTAGACACGATTATTAAAGATT
63 TCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGAAGATT
* *
33267 GTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTTGAAGATTGTTCAAGTC
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG-TTGAAGATTGTTCAAGTC
* * *
33332 TTATACTCTCTGAAGGAATAGGGAGCATACACGATTGTTGAAGATT
65 TTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGAAGATT
* * * * * **
33378 ATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCGTTGAAGATTGTTTGAGTCT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCAAGTCT
* *
33443 TATACTCTCTGAAGAAATAGGG-GACAGACGCGATTGA-TGAAGACT
66 TATACTCTCTGAAGAAATAGGGAG-CAGACACGATT-ATTGAAGATT
* * *
33488 G-T-GGGTCTTATACTCTCTTAAGAAATAGGGAGCAGACCCGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATT
33531 ACAGAAGATT
Statistics
Matches: 224, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
108 35 0.16
109 17 0.08
110 76 0.34
111 96 0.43
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (110 bp):
GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCAAGTCT
TATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGAAGATT
Found at i:33377 original size:166 final size:163
Alignment explanation
Indices: 33197--33575 Score: 431
Period size: 166 Copynumber: 2.3 Consensus size: 163
33187 GGAGCGAACC
* * * *
33197 CGATGGTTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATAGGGAGTAGACACGATTATTAA
1 CGATTGTTGAAGATTATTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCATTAA
* *
33262 AGATTGTTCAAATCTTATACTCTCTGAAGAAATA-GGGAGCAGACACGATTGTTTGAAGATTGTT
66 AGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGGA-CAGACACGATTG-ATGAAGACTG-T
* *
33326 CAAGTCTTATACTCTCTGAAGGAATAGGGAGCATACA
128 -AAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACA
* * * * * *
33363 CGATTGTTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCGTTGA
1 CGATTGTTGAAGATTATTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCATTAA
** * * **
33428 AGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGGACAGACGCGATTGATGAAGACTGTGGG
66 AGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGGACAGACACGATTGATGAAGACTGTAAG
* *
33493 TCTTATACTCTCTTAAGAAATAGGGAGCAGACC
131 TCTTATACTCTCTGAAGAAATAGGGAGCAGACA
*** * * *
33526 CGATTACAGAAGATTATTTGAGT-TCTATACT-TCCTGAAGAAAGAGGGAGC
1 CGATTGTTGAAGATTATTCGAATCT-TATACTCT-CTGAAGAAATAGGGAGC
33576 GAACCCATAG
Statistics
Matches: 182, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
162 2 0.01
163 70 0.38
164 1 0.01
165 8 0.04
166 97 0.53
167 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (163 bp):
CGATTGTTGAAGATTATTCGAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCATTAA
AGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGGACAGACACGATTGATGAAGACTGTAAG
TCTTATACTCTCTGAAGAAATAGGGAGCAGACA
Found at i:33547 original size:108 final size:111
Alignment explanation
Indices: 33203--33572 Score: 380
Period size: 111 Copynumber: 3.4 Consensus size: 111
33193 AACCCGATGG
* * * *
33203 TTGAAGATTGTTCGAATCTTATACTCTCTGAAGAAATA-GGGAGTAGACACGATT-ATTAAAGA-
1 TTGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGA-TGAAGAC
* * * *
33265 TTGTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
65 TAG-TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATT-A
** * * * *
33314 TTGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATA-GGGAGCATACACGATTGTTGAAGATT
1 TTGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
* * * * **
33378 ATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCG
66 AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
*
33424 TTGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGGA-CAGACGCGATTGATGAAGACT
1 TTGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
* * *
33488 -GT-GGGTCTTATACTCTCTTAAGAAATAGGGAGCAGACCCGATTA
66 AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
** * *
33532 CAGAAGATTATTTGAGT-TCTATACT-TCCTGAAGAAAGAGGG
1 TTGAAGATTGTTTGAGTCT-TATACTCT-CTGAAGAAATAGGG
33573 AGCGAACCCA
Statistics
Matches: 219, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
107 2 0.01
108 68 0.31
109 1 0.00
110 52 0.24
111 95 0.43
112 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (111 bp):
TTGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
Found at i:34689 original size:21 final size:21
Alignment explanation
Indices: 34665--34710 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
34655 TTTCAAAGAG
34665 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
34686 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
34707 GGGA
1 GGGA
34711 AGAATCTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (21 bp):
GGGACGACCAGCCCTTGCTTT
Found at i:37907 original size:15 final size:15
Alignment explanation
Indices: 37887--37918 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37877 CATGCCCATA
*
37887 TTTAAATTTCTAAAT
1 TTTAAATTTCCAAAT
37902 TTTAAATTTCCAAAT
1 TTTAAATTTCCAAAT
37917 TT
1 TT
37919 AATTAACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAATTTCCAAAT
Found at i:56031 original size:21 final size:20
Alignment explanation
Indices: 55997--56058 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
55987 TATTATGGTT
55997 TCTATACTCCTTGTTTGAGTA
1 TCTATACTCCTTG-TTGAGTA
*
56018 TTTATAC-CCTTTGTTGAGTA
1 TCTATACTCC-TTGTTGAGTA
*
56038 TCTATACTCCCTGATTGAGTA
1 TCTATACTCCTTG-TTGAGTA
56059 CTCAACTCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (20 bp):
TCTATACTCCTTGTTGAGTA
Found at i:57603 original size:23 final size:23
Alignment explanation
Indices: 57573--57670 Score: 112
Period size: 23 Copynumber: 4.3 Consensus size: 23
57563 GTCGAGGGTT
*
57573 CTATGTGGTCCTTCAGGACAAAC
1 CTATGTGGTCATTCAGGACAAAC
* *
57596 CTATGTGGTCCTTC-GAAACAAAC
1 CTATGTGGTCATTCAG-GACAAAC
* *
57619 CTATATGGTCATTCGGGACAAAC
1 CTATGTGGTCATTCAGGACAAAC
*
57642 CTATGTGGTTATTCAGGACAAA-
1 CTATGTGGTCATTCAGGACAAAC
57664 -TATGTGG
1 CTATGTGG
57671 CACTTCGGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
21 7 0.11
22 1 0.02
23 57 0.86
24 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCATTCAGGACAAAC
Found at i:66334 original size:37 final size:37
Alignment explanation
Indices: 66292--66401 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
66282 ATTTGGGCCA
66292 CTTAAGCCTTCACCAAAGAGTAGTAAAGCAAATCCAT
1 CTTAAGCCTTCACCAAAGAGTAGTAAAGCAAATCCAT
* * * *
66329 TTTAAGCCTTCACCAAAGAGTAGTGAAGTAAATCAAT
1 CTTAAGCCTTCACCAAAGAGTAGTAAAGCAAATCCAT
*
66366 CTTAAGCCTTCACGAAAGAGTAGTGAAA-CAAATCCA
1 CTTAAGCCTTCACCAAAGAGTAGT-AAAGCAAATCCA
66402 AGATTTGATA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
37 61 0.97
38 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (37 bp):
CTTAAGCCTTCACCAAAGAGTAGTAAAGCAAATCCAT
Found at i:66453 original size:48 final size:48
Alignment explanation
Indices: 66398--66659 Score: 377
Period size: 48 Copynumber: 5.5 Consensus size: 48
66388 GTGAAACAAA
* *
66398 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTTTTTTTTC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
*
66446 TCCAAGATTTGATATTCCTTTCAGAGTAAGCGGAACAAGTCTC-TTTC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
*
66493 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTATCTTTTC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
* *
66541 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATA-TCTCTCTTA
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACA-AGTCTCTTTTC
* * ** * *
66589 T-CAAGATTTGATATTCCATTTAGAGTAAGTAGAACATGTCTCTCTTC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
*
66636 TCAAAGATTTGATATTCCCTTCAG
1 TCCAAGATTTGATATTCCCTTCAG
66660 GAACAAGTCT
Statistics
Matches: 193, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
47 85 0.44
48 107 0.55
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (48 bp):
TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
Found at i:66564 original size:95 final size:96
Alignment explanation
Indices: 66397--66659 Score: 388
Period size: 95 Copynumber: 2.8 Consensus size: 96
66387 AGTGAAACAA
* *
66397 ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTTTTTTTTCTCCAAGATTTGATATT
1 ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTATCTTTTCTCCAAGATTTGATATT
*
66462 CCTTTCAGAGTAAGCGGAACA-AGTCTCT-TT
66 CCCTTCAGAGTAAGCGGAACATA-TCTCTCTT
*
66492 CTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTATCTTTTCTCCAAGATTTGATATT
1 ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTATCTTTTCTCCAAGATTTGATATT
66557 CCCTTCAGAGTAAGCGGAACATATCTCTCTT
66 CCCTTCAGAGTAAGCGGAACATATCTCTCTT
* * ** * * * *
66588 AT-CAAGATTTGATATTCCATTTAGAGTAAGTAGAACATGTCTCTCTTCTCAAAGATTTGATATT
1 ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTATCTTTTCTCCAAGATTTGATATT
66652 CCCTTCAG
66 CCCTTCAG
66660 GAACAAGTCT
Statistics
Matches: 153, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
95 149 0.97
96 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (96 bp):
ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTATCTTTTCTCCAAGATTTGATATT
CCCTTCAGAGTAAGCGGAACATATCTCTCTT
Found at i:66771 original size:65 final size:65
Alignment explanation
Indices: 66659--66780 Score: 190
Period size: 65 Copynumber: 1.9 Consensus size: 65
66649 ATTCCCTTCA
* * * * *
66659 GGAACAAGTCTGACCTGATTGAATGGATCAATTCCTCCATATTTGATATTTCCTTCAAAGTAAGT
1 GGAACAAGTCTGACCTGATTGAATGGATCAACTCCCCCAGATCTGATATTCCCTTCAAAGTAAGT
*
66724 GGAACAAGTCTGCCCTGATTGAATGGATCAACTCCCCCAGATCTGATATTCCCTTCA
1 GGAACAAGTCTGACCTGATTGAATGGATCAACTCCCCCAGATCTGATATTCCCTTCA
66781 GACGGAACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (65 bp):
GGAACAAGTCTGACCTGATTGAATGGATCAACTCCCCCAGATCTGATATTCCCTTCAAAGTAAGT
Done.