Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013746.1 Kokia drynarioides strain JFW-HI SEQ_128774, 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: 182578
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:2129 original size:70 final size:70
Alignment explanation
Indices: 2016--2149 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
2006 ATCTCTTGGT
2016 TCTACCAATACAACCAAGACTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCTT
1 TCTACCAATACAACCAAGACTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCTT
2081 AAGAC
66 AAGAC
* *
2086 TCTACCGATACAACCAAGAGTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCT
1 TCTACCAATACAACCAAGACTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCT
2150 GGGACTTCTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (70 bp):
TCTACCAATACAACCAAGACTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCTT
AAGAC
Found at i:2160 original size:70 final size:71
Alignment explanation
Indices: 2015--2166 Score: 245
Period size: 70 Copynumber: 2.2 Consensus size: 71
2005 CATCTCTTGG
*
2015 TTCTACCAATACAACCAAGACTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCT
1 TTCTACCGATACAACCAAGACTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCT
2080 TAAGAC
66 TAAGAC
*
2086 -TCTACCGATACAACCAAGAGTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGC-
1 TTCTACCGATACAACCAAGACTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCT
**
2149 TGGGAC
66 TAAGAC
*
2155 TTCTACTGATAC
1 TTCTACCGATAC
2167 TTGGAAGGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 4 0.05
70 71 0.95
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (71 bp):
TTCTACCGATACAACCAAGACTTCTATCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTGGCT
TAAGAC
Found at i:3104 original size:50 final size:50
Alignment explanation
Indices: 3045--3144 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
3035 AGGTACAAAA
3045 CTACCATAGGTTGGATCAATTAAGTAGGGACTCACCATGACTTTCGTCTT
1 CTACCATAGGTTGGATCAATTAAGTAGGGACTCACCATGACTTTCGTCTT
3095 CTACCATAGGTTGGATCAATTAAGTAGGGACTCACCATGACTTTCGTCTT
1 CTACCATAGGTTGGATCAATTAAGTAGGGACTCACCATGACTTTCGTCTT
3145 AGTTTTACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (50 bp):
CTACCATAGGTTGGATCAATTAAGTAGGGACTCACCATGACTTTCGTCTT
Found at i:5919 original size:18 final size:18
Alignment explanation
Indices: 5883--5920 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5873 TCTACACCAA
*
5883 TTCTTCTTTTCTTTTCTT
1 TTCTTCTTTGCTTTTCTT
5901 TTCTT-TTTGCTTTTACTT
1 TTCTTCTTTGCTTTT-CTT
5919 TT
1 TT
5921 TTTAAATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (18 bp):
TTCTTCTTTGCTTTTCTT
Found at i:13183 original size:17 final size:16
Alignment explanation
Indices: 13150--13194 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
13140 CATAAATTTT
13150 AAAATAAA--AAACTA
1 AAAATAAAGTAAACTA
13164 AAAATAAAGTAAAGCTA
1 AAAATAAAGTAAA-CTA
13181 AAAA-AAGAGTAAAC
1 AAAATAA-AGTAAAC
13195 GATAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.30
16 6 0.22
17 13 0.48
ACGTcount: A:0.71, C:0.07, G:0.09, T:0.13
Consensus pattern (16 bp):
AAAATAAAGTAAACTA
Found at i:21329 original size:19 final size:18
Alignment explanation
Indices: 21300--21391 Score: 73
Period size: 19 Copynumber: 4.9 Consensus size: 18
21290 ATTTTGTTAG
*
21300 AAAAGATTAAAAATTATA
1 AAAAAATTAAAAATTATA
21318 AAAGAAATTAAAAATTAT-
1 AAA-AAATTAAAAATTATA
*
21336 AAAATA-TAAAAATTTATAAA
1 AAAAAATTAAAAA-TTAT--A
*
21356 AAAAAATTAAACATTA-A
1 AAAAAATTAAAAATTATA
*
21373 TAAAAATTATAAAAATTAT
1 -AAAAAAT-TAAAAATTAT
21392 CTATGAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
16 6 0.10
17 7 0.12
18 12 0.20
19 21 0.36
20 8 0.14
21 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAAATTAAAAATTATA
Found at i:21363 original size:30 final size:30
Alignment explanation
Indices: 21327--21387 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
21317 AAAAGAAATT
21327 AAAAATTATAA-AAT-ATAAAAATTTATAAAA
1 AAAAATTA-AACAATAATAAAAA-TTATAAAA
*
21357 AAAAATTAAACATTAATAAAAATTATAAAA
1 AAAAATTAAACAATAATAAAAATTATAAAA
21387 A
1 A
21388 TTATCTATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
30 19 0.68
31 7 0.25
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (30 bp):
AAAAATTAAACAATAATAAAAATTATAAAA
Found at i:21366 original size:21 final size:22
Alignment explanation
Indices: 21336--21378 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
21326 TAAAAATTAT
*
21336 AAAATATAAAAATTTATAAAAA
1 AAAATATAAAAATTAATAAAAA
*
21358 AAAAT-TAAACATTAATAAAAA
1 AAAATATAAAAATTAATAAAAA
21379 TTATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATATAAAAATTAATAAAAA
Found at i:25468 original size:47 final size:47
Alignment explanation
Indices: 25415--25509 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
25405 GTTGTTTGAT
25415 AATGTTTACCTTTTTTAAAGTTAAACGTCAAAACCATTAAGTTAAAA
1 AATGTTTACCTTTTTTAAAGTTAAACGTCAAAACCATTAAGTTAAAA
*
25462 AATGTTTACTTTTTTTAAAGTTAAACGTCAAAACCATTAAGTTAAAA
1 AATGTTTACCTTTTTTAAAGTTAAACGTCAAAACCATTAAGTTAAAA
25509 A
1 A
25510 GAAAAACTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (47 bp):
AATGTTTACCTTTTTTAAAGTTAAACGTCAAAACCATTAAGTTAAAA
Found at i:26138 original size:52 final size:52
Alignment explanation
Indices: 26060--26165 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
26050 ATAAAGGATA
26060 CTTAGCTTACCGGTCATATTATGTTAAACAACCAAGAATAATTTCTTTAATC
1 CTTAGCTTACCGGTCATATTATGTTAAACAACCAAGAATAATTTCTTTAATC
26112 CTTAGCTTACCGGTCATATTATGTTAAACAACCAAGAATAATTTCTTTAATC
1 CTTAGCTTACCGGTCATATTATGTTAAACAACCAAGAATAATTTCTTTAATC
26164 CT
1 CT
26166 GAGCAAAACT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (52 bp):
CTTAGCTTACCGGTCATATTATGTTAAACAACCAAGAATAATTTCTTTAATC
Found at i:26398 original size:27 final size:26
Alignment explanation
Indices: 26367--26424 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
26357 GAATAAATAC
*
26367 TTCAT-ATAATCGTTTCATATATCTACT
1 TTCATAATAA-CGTTTCATATAACTA-T
* *
26394 TTCATAATAACTTTTCATGTAACTAT
1 TTCATAATAACGTTTCATATAACTAT
26420 TTCAT
1 TTCAT
26425 CTAAGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 17 0.63
28 4 0.15
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.48
Consensus pattern (26 bp):
TTCATAATAACGTTTCATATAACTAT
Found at i:27946 original size:29 final size:30
Alignment explanation
Indices: 27881--27962 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
27871 TGAGAATTTT
* *
27881 GGGTCAAAATCAAATTTCTAGAAAGTTCGA
1 GGGTTAAAATCAAATTTCTAGAAAGTTCAA
* * *
27911 GGGTTAAAATCAAATTT-TTGGAAGTTTAA
1 GGGTTAAAATCAAATTTCTAGAAAGTTCAA
*
27940 GGTTTAAAAT-ATAA-TTCTAGAAA
1 GGGTTAAAATCA-AATTTCTAGAAA
27963 AGTTTGGGGG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
28 3 0.07
29 23 0.55
30 16 0.38
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.33
Consensus pattern (30 bp):
GGGTTAAAATCAAATTTCTAGAAAGTTCAA
Found at i:27979 original size:30 final size:29
Alignment explanation
Indices: 27945--28117 Score: 126
Period size: 30 Copynumber: 5.9 Consensus size: 29
27935 TTTAAGGTTT
27945 AAAATATAATTCTAGAAAAGTTTGGGGGTC
1 AAAATATAATTCT-GAAAAGTTTGGGGGTC
* * *
27975 AAAATATGATTTTGGAAAAGTTTAGGGGTC
1 AAAATATAATTCT-GAAAAGTTTGGGGGTC
* *
28005 AAAATATGATTTTGGAAAAGTTT--GGGTC
1 AAAATATAATTCT-GAAAAGTTTGGGGGTC
* *
28033 AAAATCA-AATTTCT-AAAAGTTT-GTGGAC
1 AAAAT-ATAA-TTCTGAAAAGTTTGGGGGTC
* *
28061 TAAAATATAACTT-TAGAAAAATTTGAGGGTC
1 -AAAATATAA-TTCT-GAAAAGTTTGGGGGTC
28092 AAAATGA-AATTCTGAAAGAGTTTGGG
1 AAAAT-ATAATTCTGAAA-AGTTTGGG
28118 AGCTTTTTTA
Statistics
Matches: 117, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
27 8 0.07
28 16 0.14
29 19 0.16
30 70 0.60
31 4 0.03
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (29 bp):
AAAATATAATTCTGAAAAGTTTGGGGGTC
Found at i:29612 original size:6 final size:6
Alignment explanation
Indices: 29591--29661 Score: 58
Period size: 6 Copynumber: 12.0 Consensus size: 6
29581 TTTGGACATT
* ** *
29591 TTTAAA CTTAAA --TAAA TTTAAA TTTAAA TTTGTA TTGGACAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TA-AA TTTAAA
*
29639 TTTAAA -ATAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
29662 ATTTGTTTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
4 4 0.08
5 4 0.08
6 39 0.76
7 1 0.02
8 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:29647 original size:43 final size:44
Alignment explanation
Indices: 29582--29667 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
29572 GCTTGTAAAT
*
29582 TTGGACATTTTTAAACTTAAATAAATTTAAATTT-AAATTTGTA
1 TTGGACATATTTAAACTTAAATAAATTTAAATTTAAAATTTGTA
*
29625 TTGGACA-ATTTAAATTTAAAATAAATTTAAATTTAAAATTTGT
1 TTGGACATATTTAAACTT-AAATAAATTTAAATTTAAAATTTGT
29668 TTACTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 8 0.21
43 23 0.59
44 8 0.21
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (44 bp):
TTGGACATATTTAAACTTAAATAAATTTAAATTTAAAATTTGTA
Found at i:29670 original size:17 final size:17
Alignment explanation
Indices: 29631--29663 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
29621 TGTATTGGAC
29631 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
29648 AATTTAAATTTAAAAT
1 AATTTAAATTTAAAAT
29664 TTGTTTACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:30173 original size:79 final size:78
Alignment explanation
Indices: 30090--30297 Score: 290
Period size: 78 Copynumber: 2.7 Consensus size: 78
30080 GATTTGAATG
* * * * *
30090 ATGTCTTCAATCTGCCCTCTAATTAGGGTAAGAGATTCGATGCTTCAATCTGCCCTCATGATCAA
1 ATGTCTTCAATCTGCCCTCTGACTAGGGTAAAAGATTGGATGCTTCAATCTGACC-CATGATCAA
30155 GGTAAGAGATTGGT
65 GGTAAGAGATTGGT
* * * **
30169 ATGTCTTTAATCTGCCCTCTGACTAGGGTAAAAGATTGGATGATTCAATTTGACCCATGATCGGG
1 ATGTCTTCAATCTGCCCTCTGACTAGGGTAAAAGATTGGATGCTTCAATCTGACCCATGATCAAG
30234 GTAAGAGATTGGT
66 GTAAGAGATTGGT
* * *
30247 GTATCTTCAATCTACCCTCTGACTAGGGTAAAAGATTGGATGCTTCAATCT
1 ATGTCTTCAATCTGCCCTCTGACTAGGGTAAAAGATTGGATGCTTCAATCT
30298 TTCCTGTCAT
Statistics
Matches: 113, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 66 0.58
79 47 0.42
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (78 bp):
ATGTCTTCAATCTGCCCTCTGACTAGGGTAAAAGATTGGATGCTTCAATCTGACCCATGATCAAG
GTAAGAGATTGGT
Found at i:30492 original size:50 final size:50
Alignment explanation
Indices: 30380--31164 Score: 685
Period size: 50 Copynumber: 15.9 Consensus size: 50
30370 GTCGAATTTG
** * *
30380 CCGTTGCGGCCTCAACCTTTCCTTTCATATCTT-TATGGTATCGGGTTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * *
30429 CCGTTGCGGCCTCAACCTTTCTCATCACATCTTTTCAGGTATCGGGTTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* ** * * * *
30479 CCATTATGACCTCAACCTTTCCCTTCATATCTTC-ATGGTA-CGGGGTTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATC-GGGTTCA
** * * **
30528 CTATTGCGGCCTCAACTTTTTCCATCACATCTTCTAAGGTATCGGGTTTG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * * * * * *
30578 TCGTTGTGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTA-CTAGGTTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATC-GGGTTCA
* * * * * *
30627 TCGTTACGGCCTCAACCTTCCCCATCACATGTTCTAAGGTACCGAGTTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * * * * * * *
30677 TCGTTGCAGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCAGGTTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * * * *
30726 TCGTTGTGGCCTCAACCTTTTCCATCACATCTTCTAAGGTACCAGGTTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * * **
30776 CCTTTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTTG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * * * *
30826 TCGTTGCGACCTTAACCTTTCCTATCACATCTTCTAAGGTATCGGGTTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * * * * *
30876 CCATTGCAGCCTCAACCTTTCCCTTCATATCTTC-ATGGTATCGAGTTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * * * *
30925 CCGTTGCAGCCTCAA-CATTCCCATCACTTCTTCTAAGGTACCGGATTCA
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
** *
30974 CCGTTGTTGCCTCAACCTTTCCTC-TCACATCTTCTAAGGTA-CTGGGTTCG
1 CCGTTGCGGCCTCAACCTTTCC-CATCACATCTTCTAAGGTATC-GGGTTCA
* * * * * * *
31024 CCGTTGCGGCTTCAACATTTTCCTTCATATCTTC-ATGGTATCGGGTTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * * * *
31073 CAGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCAGGTTCG
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
* * *
31123 CCATTGCGGCCTCAACCTTTCCCTTCATATCTTC-AAGGTATC
1 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATC
31165 AGATTCGCCA
Statistics
Matches: 591, Mismatches: 130, Indels: 30
0.79 0.17 0.04
Matches are distributed among these distances:
48 16 0.03
49 242 0.41
50 330 0.56
51 3 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (50 bp):
CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCA
Found at i:31172 original size:99 final size:98
Alignment explanation
Indices: 30318--31164 Score: 715
Period size: 99 Copynumber: 8.6 Consensus size: 98
30308 GTTTTCTTAA
* * * * * * ** *
30318 GGTACTGGGTTCGCCATTGCAGCCTCAACCTTTCTCTTCATATCTT-TATA-GTGTCGAATTTGC
1 GGTAC-GGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTA-AGGTATCGGGTTCGC
* * *
30381 CGTTGCGGCCTCAACCTTTCCTTTCATATCTTTAT
64 AGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT
* * * * *
30416 GGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCTCATCACATCTTTTCAGGTATCGGGTTCACC
1 GGTA-CGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTC-GC
** *
30481 A-TTATGACCTCAACCTTTCCCTTCATATCTTCAT
64 AGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT
* ** * * *
30515 GGTACGGGGTTCACTATTGCGGCCTCAACTTTTTCCATCACATCTTCTAAGGTATCGGGTTTGTC
1 GGTAC-GGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCG-C
*
30580 -GTTGTGGCCTCAACCTTTCCCTTCATATCTTCAT
64 AGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT
* * * * * * * *
30614 GGTACTAGGTTCGTCGTTACGGCCTCAACCTTCCCCATCACATGTTCTAAGGTACCGAGTTCATC
1 GGTAC-GGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTC-GC
*
30679 -GTTGCAGCCTCAACCTTTCCCTTCATATCTTCAT
64 AGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT
* * * * * * * *
30713 GGTACCAGGTTCGTCGTTGTGGCCTCAACCTTTTCCATCACATCTTCTAAGGTACCAGGTTCACC
1 GGTA-CGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCA
* * * * *
30778 TTTACGGCCTCAACCTTTCCCATCACATCTTCTAA
65 GTTGCGGCCTCAACCTTTCCCTTCATATCTTC-AT
* * * * *
30813 GGTACCGGGTTTGTCGTTGCGACCTTAACCTTTCCTATCACATCTTCTAAGGTATCGGGTTCGCC
1 GGTA-CGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCG-C
*
30878 A-TTGCAGCCTCAACCTTTCCCTTCATATCTTCAT
64 AGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT
* * * * * * * * *
30912 GGTATCGAGTTCACCGTTGCAGCCTCAA-CATTCCCATCACTTCTTCTAAGGTACCGGATTCACC
1 GGTA-CGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCA
** * *
30976 GTTGTTGCCTCAACCTTT-CCTCTCACATCTTCTAA
65 GTTGCGGCCTCAACCTTTCCCT-TCATATCTTC-AT
* * * * * *
31011 GGTACTGGGTTCGCCGTTGCGGCTTCAACATTTTCCTTCATATCTTC-ATGGTATCGGGTTCGCA
1 GGTAC-GGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCA
* * * * *
31075 GTTACGGCCTCAACCTTTCCCATCACATCTTTTAA
65 GTTGCGGCCTCAACCTTTCCCTTCATATC-TTCAT
* * * *
31110 GGTATCAGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCATATCTTC-AAGGTATC
1 GGTA-CGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATC
31165 AGATTCGCCA
Statistics
Matches: 609, Mismatches: 120, Indels: 39
0.79 0.16 0.05
Matches are distributed among these distances:
97 4 0.01
98 95 0.16
99 409 0.67
100 100 0.16
101 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (98 bp):
GGTACGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTATCGGGTTCGCAG
TTGCGGCCTCAACCTTTCCCTTCATATCTTCAT
Found at i:38182 original size:22 final size:22
Alignment explanation
Indices: 38146--38206 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
38136 CGATCTAAAG
38146 AAAAATAAAAG-AAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
38167 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
38189 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
38207 GGAAGTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 11 0.30
22 25 0.68
23 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:38197 original size:15 final size:16
Alignment explanation
Indices: 38172--38201 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38162 GAATTAAAAA
38172 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
38188 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
38202 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:39033 original size:19 final size:20
Alignment explanation
Indices: 39009--39053 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
38999 AAACATACAT
39009 TAAATACAAAT-TTAAATAA
1 TAAATACAAATCTTAAATAA
* *
39028 TAAATA-ATATCTTAAATAT
1 TAAATACAAATCTTAAATAA
39047 TAAATAC
1 TAAATAC
39054 TAATATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATACAAATCTTAAATAA
Found at i:39984 original size:4 final size:4
Alignment explanation
Indices: 39975--40029 Score: 62
Period size: 4 Copynumber: 13.8 Consensus size: 4
39965 TCTTGGACAA
39975 AAAT AAAT AAAT AAAT AAAT AAAAT AAGAT AGAA- AAAT AAA- AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT
40023 AAAT AAA
1 AAAT AAA
40030 AATAATTGGG
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
3 8 0.18
4 28 0.62
5 8 0.18
6 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:40024 original size:13 final size:13
Alignment explanation
Indices: 39973--40034 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 13
39963 TTTCTTGGAC
39973 AAAAATAAATAAAT
1 AAAAATAAA-AAAT
*
39987 AAATAA-ATAAAAT
1 AAA-AATAAAAAAT
*
40000 -AAGATAGAAAAAT
1 AAAAATA-AAAAAT
40013 AAAAAATAAAAAAT
1 -AAAAATAAAAAAT
40027 AAAAATAA
1 AAAAATAA
40035 TTGGGTTGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
11 1 0.03
12 3 0.08
13 17 0.44
14 11 0.28
15 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:40034 original size:6 final size:7
Alignment explanation
Indices: 39973--40031 Score: 64
Period size: 7 Copynumber: 7.6 Consensus size: 7
39963 TTTCTTGGAC
39973 AAAAATA
1 AAAAATA
39980 AATAAATA
1 AA-AAATA
39988 AATAAATAA
1 AA-AAAT-A
39997 AATAAGATA
1 AA-AA-ATA
40006 GAAAAATA
1 -AAAAATA
40014 AAAAATA
1 AAAAATA
40021 AAAAATA
1 AAAAATA
40028 AAAA
1 AAAA
40032 TAATTGGGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
7 20 0.42
8 15 0.31
9 9 0.19
10 4 0.08
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:41231 original size:21 final size:21
Alignment explanation
Indices: 41205--41244 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
41195 ATAGATGCCT
*
41205 CAGTTTTCTTTTGAAAATTCA
1 CAGTTTGCTTTTGAAAATTCA
41226 CAGTTTGCTTTTGAAAATT
1 CAGTTTGCTTTTGAAAATT
41245 TATAGATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (21 bp):
CAGTTTGCTTTTGAAAATTCA
Found at i:41254 original size:21 final size:21
Alignment explanation
Indices: 41212--41255 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
41202 CCTCAGTTTT
*
41212 CTTTTGAAAATTCACAGTTTG
1 CTTTTGAAAATTCACAGATTG
* *
41233 CTTTTGAAAATTTATAGATTG
1 CTTTTGAAAATTCACAGATTG
41254 CT
1 CT
41256 GCTGAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (21 bp):
CTTTTGAAAATTCACAGATTG
Found at i:42817 original size:21 final size:21
Alignment explanation
Indices: 42793--42832 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
42783 CGATCTAAGG
42793 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACAGAATT
*
42814 AAAAATAAAAGAAATAGAA
1 AAAAATAAAAGAAACAGAA
42833 AATAGGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:43663 original size:19 final size:19
Alignment explanation
Indices: 43639--43681 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
43629 AAACATAAAT
43639 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
43658 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
43677 TAAAT
1 TAAAT
43682 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:45947 original size:60 final size:60
Alignment explanation
Indices: 45793--46008 Score: 174
Period size: 60 Copynumber: 3.6 Consensus size: 60
45783 GTCAAAATCA
* * * *
45793 AATTTTTACAAAGTTCGAGGGTTAAAATCAAATTTTGG-AAAGTTTTGGGTTTAATATAT
1 AATTTTTAAAAAGTTTGAGGGTTAAAATCAAATTTTGGAAAAGTTTAGGGTTTAAAATAT
** * * *
45852 AATTTTGGAAAAGTTTTAGGGTTAAAAT-ATGATTTTGGAAAAGTTTA-AGTGTTAAAAT-T
1 AATTTTTAAAAAGTTTGAGGGTTAAAATCA-AATTTTGGAAAAGTTTAGGGT-TTAAAATAT
* ** * * **
45911 GAATTTTTAAAAAGTTTGGGGGTTAAAATCAAATTTTTAAAAAGTTCAAGGACTAAAATAT
1 -AATTTTTAAAAAGTTTGAGGGTTAAAATCAAATTTTGGAAAAGTTTAGGGTTTAAAATAT
* * *
45972 AA-TTTTAGAGAAA-TTCGAGGGTCAAAATGAAATTTTG
1 AATTTTTA-A-AAAGTTTGAGGGTTAAAATCAAATTTTG
46009 TAAGAGTTCG
Statistics
Matches: 123, Mismatches: 25, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
58 1 0.01
59 38 0.31
60 78 0.63
61 6 0.05
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (60 bp):
AATTTTTAAAAAGTTTGAGGGTTAAAATCAAATTTTGGAAAAGTTTAGGGTTTAAAATAT
Found at i:45953 original size:30 final size:30
Alignment explanation
Indices: 45777--45956 Score: 136
Period size: 30 Copynumber: 6.1 Consensus size: 30
45767 TTCTAAGAAT
* *
45777 TTTGA-GGTCAAAATCAAATTTTTACAAAG
1 TTTGAGGGTTAAAATCAAATTTTTAAAAAG
* **
45806 TTCGAGGGTTAAAATCAAA-TTTTGGAAAG
1 TTTGAGGGTTAAAATCAAATTTTTAAAAAG
* * **
45835 TTTTG-GGTTTAATAT-ATAATTTTGGAAAAG
1 -TTTGAGGGTTAAAATCA-AATTTTTAAAAAG
* * **
45865 TTTTAGGGTTAAAAT-ATGATTTTGGAAAAG
1 TTTGAGGGTTAAAATCA-AATTTTTAAAAAG
* * **
45895 TTTAAGTGTTAAAATTGAATTTTTAAAAAG
1 TTTGAGGGTTAAAATCAAATTTTTAAAAAG
*
45925 TTTGGGGGTTAAAATCAAATTTTTAAAAAG
1 TTTGAGGGTTAAAATCAAATTTTTAAAAAG
45955 TT
1 TT
45957 CAAGGACTAA
Statistics
Matches: 121, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.01
29 25 0.21
30 95 0.79
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.39
Consensus pattern (30 bp):
TTTGAGGGTTAAAATCAAATTTTTAAAAAG
Found at i:52827 original size:22 final size:23
Alignment explanation
Indices: 52779--52827 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
52769 TGGGTGGAGG
* *
52779 TAAAAGTTTTGGGGAAAAAAGTA
1 TAAAAGGTTTAGGGAAAAAAGTA
*
52802 -AAAAGGTTTAGGGTAAAAA-TA
1 TAAAAGGTTTAGGGAAAAAAGTA
52823 TAAAA
1 TAAAA
52828 TATTATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (23 bp):
TAAAAGGTTTAGGGAAAAAAGTA
Found at i:53345 original size:15 final size:15
Alignment explanation
Indices: 53325--53355 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53315 CTTAAACTTA
53325 ACCATTAATTCAAAT
1 ACCATTAATTCAAAT
53340 ACCATTAATTCAAAT
1 ACCATTAATTCAAAT
53355 A
1 A
53356 ACATAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (15 bp):
ACCATTAATTCAAAT
Found at i:53364 original size:15 final size:15
Alignment explanation
Indices: 53331--53364 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
53321 CTTAACCATT
* *
53331 AATTCAAATACCATT
1 AATTCAAATAACATA
53346 AATTCAAATAACATA
1 AATTCAAATAACATA
53361 AATT
1 AATT
53365 ATCTAGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTCAAATAACATA
Found at i:55461 original size:41 final size:43
Alignment explanation
Indices: 55385--55464 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
55375 AATTTTATTA
*
55385 TTTTTTGCAATTTTAATAATCTTCTATAACTTATTTGTAGTTT
1 TTTTTTGCAATTTTAATAATCTTCTATAACATATTTGTAGTTT
* *
55428 TTTTTTGCATTTGTTTATAAT-TTCTA-AA-ATATTTGTA
1 TTTTTTGCAATT-TTAATAATCTTCTATAACATATTTGTA
55465 ACAATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 8 0.24
42 2 0.06
43 16 0.48
44 7 0.21
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (43 bp):
TTTTTTGCAATTTTAATAATCTTCTATAACATATTTGTAGTTT
Found at i:55519 original size:18 final size:19
Alignment explanation
Indices: 55498--55534 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
55488 ATTTAATGAT
55498 ATTTTAAT-ATTTTAAAAC
1 ATTTTAATAATTTTAAAAC
55516 ATTTTAATAAATTTTAAAA
1 ATTTTAAT-AATTTTAAAA
55535 AATTATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAATAATTTTAAAAC
Found at i:62725 original size:21 final size:22
Alignment explanation
Indices: 62676--62725 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
62666 AAACAATTCA
*
62676 TGAAAC-AGTGTAGACTTCTAC
1 TGAAACAAGTGAAGACTTCTAC
*
62697 -CAATACAAGTGAAG-CTTCTAC
1 TGAA-ACAAGTGAAGACTTCTAC
62718 TGAAACAA
1 TGAAACAA
62726 ATCATACTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 8 0.35
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (22 bp):
TGAAACAAGTGAAGACTTCTAC
Found at i:63417 original size:36 final size:36
Alignment explanation
Indices: 63370--63505 Score: 236
Period size: 36 Copynumber: 3.8 Consensus size: 36
63360 AGATATCCGA
* *
63370 TTTACTCCCTGTTGACCTAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATACTCAT
63406 TTTACTCCCTGTTGACCCAAAGGTCATGATACTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATACTCAT
* *
63442 TTTACTTCCTATTGACCCAAAGGTCATGATACTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATACTCAT
63478 TTTACTCCCTGTTGACCCAAAGGTCATG
1 TTTACTCCCTGTTGACCCAAAGGTCATG
63506 CTTGTTACTA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 94 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (36 bp):
TTTACTCCCTGTTGACCCAAAGGTCATGATACTCAT
Found at i:67088 original size:106 final size:106
Alignment explanation
Indices: 66903--67108 Score: 333
Period size: 106 Copynumber: 1.9 Consensus size: 106
66893 AAAATAACAT
* * * *
66903 AATATAAAATATTATAAACTTAAAAATGGGTTGAGTCCGGCTTGGACCTTGAATGTTCAAATCTG
1 AATATAAAATATTATAAACATAAAAATGGGTCGAGTCCGGCATGGACCTTGAATGTTCAAACCTG
66968 AGCCCAACCCATATTTTAAACGAG-CATATTTTTTTGCCTAG
66 AGCCCAACCCATATTTTAAACGAGTC-TATTTTTTTGCCTAG
* * *
67009 AATATAAAATATTATAAACATAAATATGGGTCGGGTCGGGCATGGACCTTGAATGTTCAAACCTG
1 AATATAAAATATTATAAACATAAAAATGGGTCGAGTCCGGCATGGACCTTGAATGTTCAAACCTG
67074 AGCCCAACCCATATTTTAAACGAGTCTATTTTTTT
66 AGCCCAACCCATATTTTAAACGAGTCTATTTTTTT
67109 TGTTTAGACC
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
106 91 0.99
107 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (106 bp):
AATATAAAATATTATAAACATAAAAATGGGTCGAGTCCGGCATGGACCTTGAATGTTCAAACCTG
AGCCCAACCCATATTTTAAACGAGTCTATTTTTTTGCCTAG
Found at i:77215 original size:18 final size:18
Alignment explanation
Indices: 77200--77234 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77190 AAAGATATAT
*
77200 TAATTAATAATAATATTA
1 TAATAAATAATAATATTA
77218 TAATAAATAATAATATT
1 TAATAAATAATAATATT
77235 TTATTATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:78880 original size:2 final size:2
Alignment explanation
Indices: 78873--78918 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
78863 TACATAGGCT
*
78873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78915 TA TA
1 TA TA
78919 GAATATTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:81660 original size:24 final size:24
Alignment explanation
Indices: 81623--81669 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
81613 ATAATCTTCC
81623 AATTAAACTCTGTTTATTTGTTTT
1 AATTAAACTCTGTTTATTTGTTTT
* *
81647 AATTAAGCTTTGTTTATTTGTTT
1 AATTAAACTCTGTTTATTTGTTT
81670 CACTCAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (24 bp):
AATTAAACTCTGTTTATTTGTTTT
Found at i:85766 original size:30 final size:30
Alignment explanation
Indices: 85650--85790 Score: 144
Period size: 30 Copynumber: 4.7 Consensus size: 30
85640 AAAAGGGGTC
*
85650 AAATCAAAATTTTGGAAAGTTT-AGGAGTTA
1 AAATCAAATTTTTGGAAAGTTTGAGG-GTTA
** * *
85680 AAATGTAATTTTTAGAAAGTTTGAGAGTTA
1 AAATCAAATTTTTGGAAAGTTTGAGGGTTA
* *
85710 AAATGC-AATTTTTAGAAAATTTGAGGGTTA
1 AAAT-CAAATTTTTGGAAAGTTTGAGGGTTA
*
85740 AAATCAAATTTTTGGATAA-TTCGAGGGTTA
1 AAATCAAATTTTTGGA-AAGTTTGAGGGTTA
* *
85770 AAATTAAAATTTTGGAAAGTT
1 AAATCAAATTTTTGGAAAGTT
85791 CGGGGGTCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
29 3 0.03
30 87 0.93
31 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (30 bp):
AAATCAAATTTTTGGAAAGTTTGAGGGTTA
Found at i:86551 original size:21 final size:22
Alignment explanation
Indices: 86527--86572 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
86517 ACAAAAAATG
*
86527 TTTGCTTG-TTATTTTT-TGAGT
1 TTTGATTGTTTATTTTTGTGA-T
86548 TTTGATTGTTTATTTTTGTGAT
1 TTTGATTGTTTATTTTTGTGAT
86570 TTT
1 TTT
86573 CGAAAGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 12 0.55
23 3 0.14
ACGTcount: A:0.11, C:0.02, G:0.17, T:0.70
Consensus pattern (22 bp):
TTTGATTGTTTATTTTTGTGAT
Found at i:87573 original size:38 final size:38
Alignment explanation
Indices: 87519--88372 Score: 530
Period size: 38 Copynumber: 21.9 Consensus size: 38
87509 ATTGAATAAC
* * *
87519 TTCAATCTGCCTCATGATTGGGGTAAGAGATTGAATTT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATTT
* * **
87557 TTCAATCTACCCCATGATCGAGGTAAGAGATTGGATGC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATTT
* * * *
87595 TTCAATCTGCCTCATGATCGAGGTAAGAGATTGAATGATG
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT--TT
* ** * * **
87635 TT-AATAC-GCCCTATGATTAGGGTACGAGATTGGGTGC
1 TTCAAT-CTGCCCCATGATCGGGGTAAGAGATTGGATTT
* * *
87672 GTCAATCTGCCTCATGATCGGGATAAGAGATTGGATTGT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATT-T
** * *
87711 CTTCAATCTGCCCTC-TGATTAGGGTAAGTGATTGGATTC
1 -TTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGATTT
* * * **
87750 TTCAATCTGCCCCATGATCAGGGTAAAAAATTGGATGC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATTT
* * * *
87788 TTCAATCTTCCCCATGATCGGGGTAAAATATTAGATTGT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATT-T
* ** *
87827 CTTCAATCTGCCCTC-TAATTAGGGTAAGAGATTGAATTCT
1 -TTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGATT-T
* * *
87867 TT-AACCTGCCCCATGATCGGGGTAAGAGATTAGATGAT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT-TT
* * * *
87905 TT-AATCTACCTCATAATCAGGGTAAGAGATTGG-TGTGT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT-T-T
* * * **
87943 CTTCATTCTGCCCTC-TGA-CTAGGGTAAAAGATTGGATGC
1 -TTCAATCTGCCC-CATGATC-GGGGTAAGAGATTGGATTT
* * *
87982 TTCAATATGCCCCATGATCGAGGTAAGAGATTGGTGTTT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-ATTT
* **
88021 CTTCAATCTGCCCTATGA-CTAAGGTAAGAGATT-GAGTTT
1 -TTCAATCTGCCCCATGATC-GGGGTAAGAGATTGGA-TTT
* * *
88060 TTCAATCTGCTCGATGATCGGGGTAAGAGATTGAATTGT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATT-T
*
88099 CTTCAATCTTCCCCATGATCGGGGTAAGAGATTGGATTGT
1 -TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATT-T
* ** **
88139 CTTCAATTTGTCGTC-TGATTAGGGTAAGAGATTGGATTCT
1 -TTCAATCTG-CCCCATGATCGGGGTAAGAGATTGGATT-T
* * *
88179 TT-AATTTTCCCTATGATCGGGGTAAGAGATTGGATGGTT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT--TT
* * * *
88218 GT-AATCTACCTCATGATCGGGGTAAGAGATTGGATGATGGC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT--T--T
* * * **
88259 TACAATCTGCCCTATGATCGGGGAAAGAGATTGGATGAC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT-TT
* * * **
88298 TACAATCTGCCTCATGATCGGGGTAAGAGATTGAATGGC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT-TT
* ** *
88337 TGCAATCTATCCCATGATTGGGGTAAGAGATTGGAT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT
88373 GGTGATGTAA
Statistics
Matches: 639, Mismatches: 140, Indels: 73
0.75 0.16 0.09
Matches are distributed among these distances:
37 8 0.01
38 283 0.44
39 138 0.22
40 175 0.27
41 6 0.01
42 29 0.05
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (38 bp):
TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATTT
Found at i:87757 original size:78 final size:77
Alignment explanation
Indices: 87518--88373 Score: 628
Period size: 78 Copynumber: 11.0 Consensus size: 77
87508 GATTGAATAA
* * * *
87518 CTTCAATCTGCCTCATGATTGGGGTAAGAGATTGAATT-T-TTCAATCTACCC-CATGATCGAGG
1 CTTCAATCTGCCTCATGA-TCGGGTAAGAGATTGGATTGTCTTCAATCTGCCCTC-TGATCGGGG
87580 TAAGAGATTGGATG
64 TAAGAGATTGGATG
* * * **
87594 CTTCAATCTGCCTCATGATCGAGGTAAGAGATT-GAATGATGTT-AATAC-GCCCTATGATTAGG
1 CTTCAATCTGCCTCATGATCG-GGTAAGAGATTGGATTG-TCTTCAAT-CTGCCCTCTGATCGGG
* *
87656 GTACGAGATTGGGTG
63 GTAAGAGATTGGATG
* **
87671 CGTCAATCTGCCTCATGATCGGGATAAGAGATTGGATTGTCTTCAATCTGCCCTCTGATTAGGGT
1 CTTCAATCTGCCTCATGATCGGG-TAAGAGATTGGATTGTCTTCAATCTGCCCTCTGATCGGGGT
* *
87736 AAGTGATTGGATT
65 AAGAGATTGGATG
* * * *
87749 CTTCAATCTGCCCCATGATCAGGGTAAAAAATTGGA-TG-CTTCAATCTTCCC-CATGATCGGGG
1 CTTCAATCTGCCTCATGATC-GGGTAAGAGATTGGATTGTCTTCAATCTGCCCTC-TGATCGGGG
* * *
87811 TAAAATATTAGATTG
64 TAAGAGATTGGA-TG
* * * * *
87826 TCTTCAATCTGCCCTC-TAATTAGGGTAAGAGATT-GAAT-TCTTTAACCTGCCC-CATGATCGG
1 -CTTCAATCTG-CCTCATGA-TCGGGTAAGAGATTGGATTGTCTTCAATCTGCCCTC-TGATCGG
*
87887 GGTAAGAGATTAGATG
62 GGTAAGAGATTGGATG
* * * * * *
87903 ATTTAATCTACCTCATAATCAGGGTAAGAGATTGG-TGTGTCTTCATTCTGCCCTCTGA-CTAGG
1 CTTCAATCTGCCTCATGATC-GGGTAAGAGATTGGAT-TGTCTTCAATCTGCCCTCTGATC-GGG
*
87966 GTAAAAGATTGGATG
63 GTAAGAGATTGGATG
* * * * **
87981 CTTCAATATGCCCCATGATCGAGGTAAGAGATTGG-TGTTTCTTCAATCTGCCCTATGA-CTAAG
1 CTTCAATCTGCCTCATGATCG-GGTAAGAGATTGGAT-TGTCTTCAATCTGCCCTCTGATC-GGG
*
88044 GTAAGAGATT-GAGTT
63 GTAAGAGATTGGA-TG
* * *
88059 TTTCAATCTG-CTCGATGATCGGGGTAAGAGATTGAATTGTCTTCAATCTTCCC-CATGATCGGG
1 CTTCAATCTGCCTC-ATGATC-GGGTAAGAGATTGGATTGTCTTCAATCTGCCCTC-TGATCGGG
88122 GTAAGAGATTGGATTG
63 GTAAGAGATTGGA-TG
* * * * * * *
88138 TCTTCAATTTGTCGTC-TGATTAGGGTAAGAGATTGGA-T-TCTTTAATTTTCCCTATGATCGGG
1 -CTTCAATCTG-CCTCATGA-TCGGGTAAGAGATTGGATTGTCTTCAATCTGCCCTCTGATCGGG
88200 GTAAGAGATTGGATG
63 GTAAGAGATTGGATG
* * * * * *
88215 GTTGTAATCTACCTCATGATCGGGGTAAGAGATTGGATGATGGCTACAATCTGCCCTATGATCGG
1 CTT-CAATCTGCCTCATGATC-GGGTAAGAGATTGGAT--TGTCTTCAATCTGCCCTCTGATCGG
*
88280 GGAAAGAGATTGGATG
62 GGTAAGAGATTGGATG
* * * * * * *
88296 ACTACAATCTGCCTCATGATCGGGGTAAGAGATT-GAATGGCTGCAATCTATCCC-ATGATTGGG
1 -CTTCAATCTGCCTCATGATC-GGGTAAGAGATTGGATTGTCTTCAATCT-GCCCTCTGATCGGG
88359 GTAAGAGATTGGATG
63 GTAAGAGATTGGATG
88374 GTGATGTAAC
Statistics
Matches: 630, Mismatches: 103, Indels: 92
0.76 0.12 0.11
Matches are distributed among these distances:
75 10 0.02
76 86 0.14
77 97 0.15
78 326 0.52
79 18 0.03
80 28 0.04
81 62 0.10
82 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (77 bp):
CTTCAATCTGCCTCATGATCGGGTAAGAGATTGGATTGTCTTCAATCTGCCCTCTGATCGGGGTA
AGAGATTGGATG
Found at i:87795 original size:116 final size:115
Alignment explanation
Indices: 87474--88373 Score: 650
Period size: 116 Copynumber: 7.7 Consensus size: 115
87464 GAGATGGTAG
* * *
87474 CTTCAATCTGCCCCTCTTGATTTTAGGGGT-AGAAGATTGAATAACTTCAATCTGCCTCATGATT
1 CTTCAATCTG-CCCTC-TGA--TTA-GGGTAAG-AGATTGAAT-TCTTCAATCTGCCCCATGATC
* ** * *
87538 GGGGTAAGAGATTGAATTTTTCAATCTACCCCATGATCGAGGTAAGAGATTGGA-TG-
59 GGGGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCG-GGTAAGAGATTGGATTGT
* * * **
87594 CTTCAATCTG-CCTCATGA-TCGAGGTAAGAGATTGAATGATGTT-AATAC-GCCCTATGATTAG
1 CTTCAATCTGCCCTC-TGATTAG-GGTAAGAGATTGAAT--TCTTCAAT-CTGCCCCATGATCGG
* * *
87655 GGTACGAGATTGGGTGCGTCAATCTGCCTCATGATCGGGATAAGAGATTGGATTGT
61 GGTAAGAGATTGGATGCTTCAATCTGCCTCATGATCGGG-TAAGAGATTGGATTGT
* * *
87711 CTTCAATCTGCCCTCTGATTAGGGTAAGTGATTGGATTCTTCAATCTGCCCCATGATCAGGGTAA
1 CTTCAATCTGCCCTCTGATTAGGGTAAGAGATTGAATTCTTCAATCTGCCCCATGATCGGGGTAA
* * * * * * *
87776 AAAATTGGATGCTTCAATCTTCCCCATGATCGGGGTAAAATATTAGATTGT
66 GAGATTGGATGCTTCAATCTGCCTCATGATC-GGGTAAGAGATTGGATTGT
* * *
87827 CTTCAATCTGCCCTCTAATTAGGGTAAGAGATTGAATTCTTTAACCTGCCCCATGATCGGGGTAA
1 CTTCAATCTGCCCTCTGATTAGGGTAAGAGATTGAATTCTTCAATCTGCCCCATGATCGGGGTAA
* * * * *
87892 GAGATTAGATGATTTAATCTACCTCATAATCAGGGTAAGAGATTGG-TGTGT
66 GAGATTGGATGCTTCAATCTGCCTCATGATC-GGGTAAGAGATTGGAT-TGT
* * * * * * *
87943 CTTCATTCTGCCCTCTGACTAGGGTAAAAGATTGGATGCTTCAATATGCCCCATGATCGAGGTAA
1 CTTCAATCTGCCCTCTGATTAGGGTAAGAGATTGAATTCTTCAATCTGCCCCATGATCGGGGTAA
**
88008 GAGATTGG-TGTTTCTTCAATCTGCC-CTATGACTAAGGTAAGAGATT-GAGTT-T
66 GAGATTGGATG---CTTCAATCTGCCTC-ATGA-TCGGGTAAGAGATTGGA-TTGT
* ** ** *
88060 -TTCAATCTGCTCGATGATCGGGGTAAGAGATTGAATTGTCTTCAATCTTCCCCATGATCGGGGT
1 CTTCAATCTGCCCTCTGATTAGGGTAAGAGATTGAA-T-TCTTCAATCTGCCCCATGATCGGGGT
* * *
88124 AAGAGATTGGATTGTCTTCAATTTGTCGTC-TGATTAGGGTAAGAGATTGGA-T-T
64 AAGAGATTGGA-TG-CTTCAATCTG-CCTCATGA-TCGGGTAAGAGATTGGATTGT
* * * * ** * ** * * *
88177 CTTTAATTTTCCCTATGATCGGGGTAAGAGATTGGATGGTTGTAATCTACCTCATGATCGGGGTA
1 CTTCAATCTGCCCTCTGATTAGGGTAAGAGATTGAATTCTT-CAATCTGCCCCATGATCGGGGTA
* * *
88242 AGAGATTGGATGATGGCTACAATCTGCC-CTATGATCGGGGAAAGAGATTGGA-TGA
65 AGAGATT-G--GAT-GCTTCAATCTGCCTC-ATGATC-GGGTAAGAGATTGGATTGT
* ** * * ** *
88297 CTACAATCTG-CCTCATGATCGGGGTAAGAGATTGAATGGCTGCAATCTATCCCATGATTGGGGT
1 CTTCAATCTGCCCTC-TGATTAGGGTAAGAGATTGAAT-TCTTCAATCTGCCCCATGATCGGGGT
88361 AAGAGATTGGATG
64 AAGAGATTGGATG
88374 GTGATGTAAC
Statistics
Matches: 629, Mismatches: 112, Indels: 82
0.76 0.14 0.10
Matches are distributed among these distances:
114 3 0.00
115 74 0.12
116 251 0.40
117 67 0.11
118 127 0.20
119 36 0.06
120 69 0.11
121 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (115 bp):
CTTCAATCTGCCCTCTGATTAGGGTAAGAGATTGAATTCTTCAATCTGCCCCATGATCGGGGTAA
GAGATTGGATGCTTCAATCTGCCTCATGATCGGGTAAGAGATTGGATTGT
Found at i:88740 original size:99 final size:99
Alignment explanation
Indices: 88486--89212 Score: 429
Period size: 99 Copynumber: 7.4 Consensus size: 99
88476 TATCATGTTC
* * *
88486 CTAAGGTACCGAGTTCACC-TT-TACGGCCTC-TACATTTCCCATCACATTTTTATGGTACCGAA
1 CTAAGGTACCGGGTTCACCGTTGTA--GCCTCAT-CCTTTCCCATCACATCTTTATGGTACCGAA
* * * *
88548 TTCGTCGTTGTGGCCTCAGTCCTTT-CTATCACATCTT
63 TTCATCGTTGCGGCCTCA-ACCTTTCCCATCACATCTT
*** * * ** ** *
88585 CTAAGGTACCGGGTTTTTCGTTGCAGCCTCAACCTTTCCTTTCATGTCTTCATGGTACCGAATTC
1 CTAAGGTACCGGGTTCACCGTTGTAGCCTCATCCTTTCCCATCACATCTTTATGGTACCGAATTC
* * *
88650 ATCGTTGTGGCCTAAATCC-TTCCCATCACACCTT
66 ATCGTTGCGGCCTCAA-CCTTTCCCATCACATCTT
* *
88684 CTAAGGTACCGGGTTCACCGTTGTAGCCTCATCCTTTCCCATCACATCTTTGTGGTACCGAGTT-
1 CTAAGGTACCGGGTTCACCGTTGTAGCCTCATCCTTTCCCATCACATCTTTATGGTACCGAATTC
* * * *
88748 -TGCTATTGTGGCCTCAACCTTTCCCTTCATATCTT
66 AT-C-GTTGCGGCCTCAACCTTTCCCATCACATCTT
* * * * * * * **
88783 C-ATGGCACCGGTTTCGCTGTTGCTA-CCTCAATCC-TTCCCATCACATCTTCTAAGGTACTGGG
1 CTAAGGTACCGGGTTCACCGTTG-TAGCCTC-ATCCTTTCCCATCACATCTT-TATGGTACCGAA
* **
88845 TT--TGCTGTTGCGGCCTCAACCTTTCCCTTCATGTCTT
63 TTCAT-C-GTTGCGGCCTCAACCTTTCCCATCACATCTT
* ** * *
88882 C--A--T--TGGGATTCACCGTTGCGGCCTCAATCC-TTCCCATCACATCTTCT-TAGGTACTGG
1 CTAAGGTACCGGG-TTCACCGTTGTAGCCTC-ATCCTTTCCCATCACATCTT-TAT-GGTACCGA
* * *
88939 GTTCACCGTTGCGGCCTAAACCTTTCCCATCACATCTT
62 ATTCATCGTTGCGGCCTCAACCTTTCCCATCACATCTT
** * ** * * * * * * *
88977 -TGTGGTACCGAGTTTGCCATTGTGGCCTCAACCTTTCCCTTCATATCTTCATGGTA-CTAGATT
1 CTAAGGTACCGGGTTCACCGTTGTAGCCTCATCCTTTCCCATCACATCTTTATGGTACCGA-ATT
* *
89040 CACCGTTGCGACCTCAATCC-TTCCCATCACATCTT
65 CATCGTTGCGGCCTCAA-CCTTTCCCATCACATCTT
* * * * * * **
89075 CTAAGGTACCAGGTTCATCGTTGTAGCCTCAACCTTTCCCATCACATCTTCTAAGCTACTGGGTT
1 CTAAGGTACCGGGTTCACCGTTGTAGCCTCATCCTTTCCCATCACATCTT-TATGGTACCGAATT
* * *
89140 CACCGTTGCGGCTTCAACCTTTCCCATCACAGCTT
65 CATCGTTGCGGCCTCAACCTTTCCCATCACATCTT
* * * * * *
89175 TTAAGGTACCAGGTTCGCTGTTGCAGCCTCAACCTTTC
1 CTAAGGTACCGGGTTCACCGTTGTAGCCTCATCCTTTC
89213 TGTTCATATC
Statistics
Matches: 494, Mismatches: 104, Indels: 59
0.75 0.16 0.09
Matches are distributed among these distances:
94 2 0.00
95 72 0.15
96 1 0.00
97 1 0.00
98 80 0.16
99 265 0.54
100 72 0.15
101 1 0.00
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (99 bp):
CTAAGGTACCGGGTTCACCGTTGTAGCCTCATCCTTTCCCATCACATCTTTATGGTACCGAATTC
ATCGTTGCGGCCTCAACCTTTCCCATCACATCTT
Found at i:88741 original size:148 final size:149
Alignment explanation
Indices: 88553--88846 Score: 346
Period size: 148 Copynumber: 2.0 Consensus size: 149
88543 CCGAATTCGT
* * * * *
88553 CGTTGTGGCCTCAGTCCTTTCTATCACATCTTCTAAGGTACCGGGTTT-TTCGTTGCAGCCTCAA
1 CGTTGTAGCCTCAGTCCTTTCCATCACATCTTCTAAGGTACCGAGTTTGCT-ATTGCAGCCTCAA
* * * * *
88617 CCTTTCCTTTCATGTCTTCATGGTACCGAATTC-ATCGTTG-TGGCCTAAATCCTTCCCATCACA
65 CCTTTCCCTTCATATCTTCATGGCACCGAATTCGCT-GTTGCT-ACCTAAATCCTTCCCATCACA
88680 CCTTCTAAGGTACCGGGTTCAC
128 CCTTCTAAGGTACCGGGTTCAC
** **
88702 CGTTGTAGCCTCA-TCCTTTCCCATCACATCTT-TGTGGTACCGAGTTTGCTATTGTGGCCTCAA
1 CGTTGTAGCCTCAGTCCTTT-CCATCACATCTTCTAAGGTACCGAGTTTGCTATTGCAGCCTCAA
** * *
88765 CCTTTCCCTTCATATCTTCATGGCACCGGTTTCGCTGTTGCTACCTCAATCCTTCCCATCACATC
65 CCTTTCCCTTCATATCTTCATGGCACCGAATTCGCTGTTGCTACCTAAATCCTTCCCATCACACC
*
88830 TTCTAAGGTACTGGGTT
130 TTCTAAGGTACCGGGTT
88847 TGCTGTTGCG
Statistics
Matches: 122, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
148 96 0.79
149 26 0.21
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (149 bp):
CGTTGTAGCCTCAGTCCTTTCCATCACATCTTCTAAGGTACCGAGTTTGCTATTGCAGCCTCAAC
CTTTCCCTTCATATCTTCATGGCACCGAATTCGCTGTTGCTACCTAAATCCTTCCCATCACACCT
TCTAAGGTACCGGGTTCAC
Found at i:88762 original size:49 final size:49
Alignment explanation
Indices: 88510--89170 Score: 332
Period size: 50 Copynumber: 13.4 Consensus size: 49
88500 TCACCTTTAC
* * * * * *
88510 GGCCTCTACATTTCCCATCACAT-TTTTATGGTACCGAATTCGTCGTTGT
1 GGCCTCAACCTTTCCCATCACATCTTCT-TGGTACCGAGTTTGCCGTTGT
* * * * ** *
88559 GGCCTCAGTCCTTT-CTATCACATCTTCTAAGGTACCGGGTTTTTCGTTGC
1 GGCCTCA-ACCTTTCCCATCACATCTTCT-TGGTACCGAGTTTGCCGTTGT
* ** ** * * ***
88609 AGCCTCAACCTTTCCTTTCATGTCTTCATGGTACCGAATTCATCGTTGT
1 GGCCTCAACCTTTCCCATCACATCTTCTTGGTACCGAGTTTGCCGTTGT
* * * * **
88658 GGCCTAAATCC-TTCCCATCACACCTTCTAAGGTACCGGGTTCACCGTTGT
1 GGCCTCAA-CCTTTCCCATCACATCTTCT-TGGTACCGAGTTTGCCGTTGT
* * **
88708 AGCCTCATCCTTTCCCATCACATCTT-TGTGGTACCGAGTTTGCTATTGT
1 GGCCTCAACCTTTCCCATCACATCTTCT-TGGTACCGAGTTTGCCGTTGT
* * * * *
88757 GGCCTCAACCTTTCCCTTCATATCTTCATGGCACCG-GTTTCGCTGTTGCT
1 GGCCTCAACCTTTCCCATCACATCTTCTTGGTACCGAGTTT-GCCGTTG-T
* * * * * *
88807 -ACCTCAATCC-TTCCCATCACATCTTCTAAGGTACTGGGTTTGCTGTTGC
1 GGCCTCAA-CCTTTCCCATCACATCTTCT-TGGTACCGAGTTTGCCGTTGT
* ** ** *
88856 GGCCTCAACCTTTCCCTTCATGTCTTCATTGG----GA-TTCACCGTTGC
1 GGCCTCAACCTTTCCCATCACATCTTC-TTGGTACCGAGTTTGCCGTTGT
* * ** *
88901 GGCCTCAATCC-TTCCCATCACATCTTCTTAGGTACTGGGTTCACCGTTGC
1 GGCCTCAA-CCTTTCCCATCACATCTTCTT-GGTACCGAGTTTGCCGTTGT
* *
88951 GGCCTAAACCTTTCCCATCACATCTT-TGTGGTACCGAGTTTGCCATTGT
1 GGCCTCAACCTTTCCCATCACATCTTCT-TGGTACCGAGTTTGCCGTTGT
* * * * ** *
89000 GGCCTCAACCTTTCCCTTCATATCTTCATGGTA-CTAGATTCACCGTTGC
1 GGCCTCAACCTTTCCCATCACATCTTCTTGGTACCGAG-TTTGCCGTTGT
* * *
89049 GACCTCAATCC-TTCCCATCACATCTTCTAAGGTACC-AGGTT-CATCGTTGT
1 GGCCTCAA-CCTTTCCCATCACATCTTCT-TGGTACCGAGTTTGC--CGTTGT
* * * * * ** *
89099 AGCCTCAACCTTTCCCATCACATCTTCTAAGCTACTGGGTTCACCGTTGC
1 GGCCTCAACCTTTCCCATCACATCTTCT-TGGTACCGAGTTTGCCGTTGT
*
89149 GGCTTCAACCTTTCCCATCACA
1 GGCCTCAACCTTTCCCATCACA
89171 GCTTTTAAGG
Statistics
Matches: 470, Mismatches: 108, Indels: 67
0.73 0.17 0.10
Matches are distributed among these distances:
44 2 0.00
45 31 0.07
46 3 0.01
48 8 0.02
49 203 0.43
50 214 0.46
51 8 0.02
52 1 0.00
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (49 bp):
GGCCTCAACCTTTCCCATCACATCTTCTTGGTACCGAGTTTGCCGTTGT
Found at i:88938 original size:95 final size:96
Alignment explanation
Indices: 88697--88976 Score: 309
Period size: 95 Copynumber: 2.9 Consensus size: 96
88687 AGGTACCGGG
* * * * *
88697 TTCACCGTTGTAGCCTC-ATCCTTTCCCATCACATCTT-TGT-GGTACCGAGTTTGCTATTGTGG
1 TTCACCGTTGCAGCCTCAATCC-TTCCCATCACATCTTCT-TAGGTACTGGGTTTGCTGTTGCGG
*
88759 CCTCAACCTTTCCCTTCATATCTTCATGGCACCGGT
64 CCTCAACCTTTCCCTTCATATCTTCATGG---CGGA
* * *
88795 TTCGCTGTTGCTA-CCTCAATCCTTCCCATCACATCTTCTAAGGTACTGGGTTTGCTGTTGCGGC
1 TTCACCGTTGC-AGCCTCAATCCTTCCCATCACATCTTCTTAGGTACTGGGTTTGCTGTTGCGGC
* *
88859 CTCAACCTTTCCCTTCATGTCTTCATTG-GGA
65 CTCAACCTTTCCCTTCATATCTTCATGGCGGA
* ** *
88890 TTCACCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTTAGGTACTGGGTTCACCGTTGCGGCC
1 TTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTTAGGTACTGGGTTTGCTGTTGCGGCC
* * *
88955 TAAACCTTTCCCATCACATCTT
66 TCAACCTTTCCCTTCATATCTT
88977 TGTGGTACCG
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
95 77 0.50
98 27 0.17
99 51 0.33
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.35
Consensus pattern (96 bp):
TTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTTAGGTACTGGGTTTGCTGTTGCGGCC
TCAACCTTTCCCTTCATATCTTCATGGCGGA
Found at i:88986 original size:243 final size:244
Alignment explanation
Indices: 88561--89212 Score: 792
Period size: 243 Copynumber: 2.6 Consensus size: 244
88551 GTCGTTGTGG
* * * * *
88561 CCTCAGTCCTTTCTATCACATCTTCTAAGGTACCGGGTTTTTCGTTGCAGCCTCAACCTTTCCTT
1 CCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTTCTCGTTGCAGCCTCAACCTTTCCCT
* *
88626 TCATGTCTTCATGGTACCGAATTCATCGTTGTGGCCTAAATCCTTCCCATCACACCTTCTAAGGT
66 TCATGTCTTCATGG---CGAATTCACCGTTGCGGCCTAAATCCTTCCCATCACACCTTCTAAGGT
* * * *
88691 ACCGGGTTCACCGTTGTAGCCTCATCCTTTCCCATCACATCTTTGTGGTACCGAGTTTGCTATTG
128 ACCGGGTTCACCGTTGCAGCCTAAACCTTTCCCATCACATCTTTGTGGTACCGAGTTTGCCATTG
* * * * *
88756 TGGCCTCAACCTTTCCCTTCATATCTTCATGGCACCGGTTTCGCTGTTGCTA
193 TGGCCTCAACCTTTCCCTTCATATCTTCATGGCACCAGATTCACCGTTGCGA
* *
88808 CCTCAATCCTTCCCATCACATCTTCTAAGGTACTGGGTTTGCT-GTTGCGGCCTCAACCTTTCCC
1 CCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTT-CTCGTTGCAGCCTCAACCTTTCCC
* * *
88872 TTCATGTCTTCATTGG-G-ATTCACCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTTAGGTA
65 TTCATGTCTTCA-TGGCGAATTCACCGTTGCGGCCTAAATCCTTCCCATCACACCTTCTAAGGTA
* *
88935 CTGGGTTCACCGTTGCGGCCTAAACCTTTCCCATCACATCTTTGTGGTACCGAGTTTGCCATTGT
129 CCGGGTTCACCGTTGCAGCCTAAACCTTTCCCATCACATCTTTGTGGTACCGAGTTTGCCATTGT
* *
89000 GGCCTCAACCTTTCCCTTCATATCTTCATGGTACTAGATTCACCGTTGCGA
194 GGCCTCAACCTTTCCCTTCATATCTTCATGGCACCAGATTCACCGTTGCGA
* *
89051 CCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGG-TTCATCGTTGTAGCCTCAACCTTTCCC
1 CCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTTC-TCGTTGCAGCCTCAACCTTTCCC
* ** * * ** * * * *
89115 ATCACATCTTCTAAGCTACTGGGTTCACCGTTGCGGCTTCAA-CCTTTCCCATCACAGCTTTTAA
65 TTCATGTCTTC-ATG--GC-GAATTCACCGTTGCGGCCTAAATCC-TTCCCATCACACCTTCTAA
* * * *
89179 GGTACCAGGTTCGCTGTTGCAGCCTCAACCTTTC
125 GGTACCGGGTTCACCGTTGCAGCCTAAACCTTTC
89213 TGTTCATATC
Statistics
Matches: 349, Mismatches: 45, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
241 1 0.00
242 3 0.01
243 207 0.59
244 2 0.01
247 70 0.20
248 66 0.19
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.34
Consensus pattern (244 bp):
CCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTTCTCGTTGCAGCCTCAACCTTTCCCT
TCATGTCTTCATGGCGAATTCACCGTTGCGGCCTAAATCCTTCCCATCACACCTTCTAAGGTACC
GGGTTCACCGTTGCAGCCTAAACCTTTCCCATCACATCTTTGTGGTACCGAGTTTGCCATTGTGG
CCTCAACCTTTCCCTTCATATCTTCATGGCACCAGATTCACCGTTGCGA
Found at i:89075 original size:148 final size:145
Alignment explanation
Indices: 88817--89164 Score: 430
Period size: 148 Copynumber: 2.4 Consensus size: 145
88807 ACCTCAATCC
* * ** *
88817 TTCCCATCACATCTTCTAAGGTACTGGGTTTGCTGTTGCGGCCTCAACCTTTCCCTTCATGTCTT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTTGCCATTGCGGCCTCAACCTTTCCCTTCATATCTT
* * **
88882 CATTGGGATTCACCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTTAGGTACTGGGTTCACCG
66 CATTGGGATTCACCGTTGCGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGGTTCACCG
*
88947 TTGCGGCCTAAACCT
131 TTGCAGCCTAAACCT
** *
88962 TTCCCATCACATCTT-TGTGGTACCGAGTTTGCCATTGTGGCCTCAACCTTTCCCTTCATATCTT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTTGCCATTGCGGCCTCAACCTTTCCCTTCATATCTT
89026 CA-TGGTACTAGATTCACCGTTGCGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGGTT
66 CATTGG-----GATTCACCGTTGCGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGGTT
* * *
89090 CATCGTTGTAGCCTCAACCT
126 CACCGTTGCAGCCTAAACCT
* * * ** * *
89110 TTCCCATCACATCTTCTAAGCTACTGGGTTCACCGTTGCGGCTTCAACCTTTCCC
1 TTCCCATCACATCTTCTAAGGTACCGAGTTTGCCATTGCGGCCTCAACCTTTCCC
89165 ATCACAGCTT
Statistics
Matches: 171, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
143 3 0.02
144 43 0.25
145 15 0.09
148 81 0.47
149 29 0.17
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (145 bp):
TTCCCATCACATCTTCTAAGGTACCGAGTTTGCCATTGCGGCCTCAACCTTTCCCTTCATATCTT
CATTGGGATTCACCGTTGCGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGGTTCACCG
TTGCAGCCTAAACCT
Found at i:90199 original size:12 final size:11
Alignment explanation
Indices: 90172--90209 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
90162 CGACTTCTCC
*
90172 TTTTTCTTTC-
1 TTTTTATTTCT
90182 TTTTTATTTTCT
1 TTTTTA-TTTCT
90194 TTTTTATTTCT
1 TTTTTATTTCT
90205 TTTTT
1 TTTTT
90210 CCTTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 5 0.20
11 14 0.56
12 6 0.24
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTCT
Found at i:94891 original size:109 final size:104
Alignment explanation
Indices: 94699--94949 Score: 272
Period size: 109 Copynumber: 2.4 Consensus size: 104
94689 TTTAAACGAA
* * * * ** *
94699 ATATTCGATTACTTAGGGTCAAGGC-AAAATCATACCCAACATGTTAGGGCACAATTTTTCGAGT
1 ATATTCAATTACTTAGGTTCAA-ACAAAAATCATACCCAACAAGTTAGGGCACAATTCCTCGACT
*
94763 CCCCTAAAATAACAAAATATTGAGCATTAATTGGTTCCAAATAGG
65 CCCCTAAAATAACAAAATATT--GCATCAATT--TT-CAAATAGG
* * *
94808 ATATTCAATTATTTAGGTTCAAACAAAAATCATACCCAACAAGTTAGGGCATAATTCCTCGACTT
1 ATATTCAATTACTTAGGTTCAAACAAAAATCATACCCAACAAGTTAGGGCACAATTCCTCGACTC
* * **
94873 CCCTAAAATAA-AAGAATATTGCCTCGATTTTTTAATAGG
66 CCCTAAAATAACAA-AATATTGCATCAATTTTCAAATAGG
* *
94912 ATATTCAATTACTTAGGTTCAAAGAAAAATCGTACCCA
1 ATATTCAATTACTTAGGTTCAAACAAAAATCATACCCA
94950 GTACGTTTGA
Statistics
Matches: 122, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
104 41 0.34
105 2 0.02
107 6 0.05
108 3 0.02
109 70 0.57
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (104 bp):
ATATTCAATTACTTAGGTTCAAACAAAAATCATACCCAACAAGTTAGGGCACAATTCCTCGACTC
CCCTAAAATAACAAAATATTGCATCAATTTTCAAATAGG
Found at i:95502 original size:30 final size:30
Alignment explanation
Indices: 95467--95531 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
95457 TTTAGGTGTC
95467 AAAATGTAATATTCA-AAAAGTTTAAGGGTT
1 AAAATGTAATATTCAGAAAA-TTTAAGGGTT
* * *
95497 GAAATGTAATTTTTAGAAAATTTAAGGGTT
1 AAAATGTAATATTCAGAAAATTTAAGGGTT
95527 AAAAT
1 AAAAT
95532 TAGATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (30 bp):
AAAATGTAATATTCAGAAAATTTAAGGGTT
Found at i:95539 original size:30 final size:29
Alignment explanation
Indices: 95482--95589 Score: 99
Period size: 30 Copynumber: 3.6 Consensus size: 29
95472 GTAATATTCA
*
95482 AAAAGTTTAAGGGTTGAAATGTAATTTTTAG
1 AAAA-TTTAAGGGTTAAAAT-TAATTTTTAG
95513 AAAATTTAAGGGTTAAAATTAGATTTTTAG
1 AAAATTTAAGGGTTAAAATTA-ATTTTTAG
* * ** * *
95543 ATAGTTCGAGGGTCAAAATCAAATTTTTAG
1 AAAATTTAAGGGTTAAAAT-TAATTTTTAG
* *
95573 AAAGTTTAAGTGTTAAA
1 AAAATTTAAGGGTTAAA
95590 TTTGACTTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
29 2 0.03
30 56 0.89
31 5 0.08
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (29 bp):
AAAATTTAAGGGTTAAAATTAATTTTTAG
Found at i:101771 original size:17 final size:18
Alignment explanation
Indices: 101749--101789 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
101739 TTAGTTTTCA
101749 TGCATTCTT-ATTGT-GCT
1 TGCATTCTTAATTGTCG-T
101766 TGCATT-TTAATTGTCGT
1 TGCATTCTTAATTGTCGT
101783 TGCATTC
1 TGCATTC
101790 ATTTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.10
17 18 0.86
18 1 0.05
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (18 bp):
TGCATTCTTAATTGTCGT
Found at i:104868 original size:24 final size:24
Alignment explanation
Indices: 104839--104900 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
104829 GAAATAATCT
*
104839 TTCAATTAGACTCTGTTTATTTGA
1 TTCAATTAAACTCTGTTTATTTGA
*
104863 TTCAATTAAACTCTGTTTATTTGT
1 TTCAATTAAACTCTGTTTATTTGA
104887 TTC-ATTAAAACTCT
1 TTCAATT-AAACTCT
104901 TATTAGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 3 0.09
24 32 0.91
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (24 bp):
TTCAATTAAACTCTGTTTATTTGA
Found at i:108398 original size:63 final size:63
Alignment explanation
Indices: 108327--108448 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
108317 CTTTTTATTG
* * * *
108327 CTATCCTTTTCAACCTTTTCATTGTTATCCTTTCGGATAATATCCTTTTGAACCTTTTCCTTT
1 CTATCCTTTTCAACCTTTTCATAGATATCCTTTCGGATAACATCCTTTTCAACCTTTTCCTTT
*
108390 CTATCCTTTTTAACCTTTTCATAGATATCCTTTCGGATAACATCCTTTTCAACCTTTTC
1 CTATCCTTTTCAACCTTTTCATAGATATCCTTTCGGATAACATCCTTTTCAACCTTTTC
108449 AAGAATTCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.20, C:0.26, G:0.06, T:0.48
Consensus pattern (63 bp):
CTATCCTTTTCAACCTTTTCATAGATATCCTTTCGGATAACATCCTTTTCAACCTTTTCCTTT
Found at i:108418 original size:24 final size:24
Alignment explanation
Indices: 108366--108422 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
108356 CTTTCGGATA
* **
108366 ATATCCTTTTGAACCTTTTCCTTT
1 ATATCCTTTTGAACCTTTTCATAG
* *
108390 CTATCCTTTTTAACCTTTTCATAG
1 ATATCCTTTTGAACCTTTTCATAG
108414 ATATCCTTT
1 ATATCCTTT
108423 CGGATAACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.53
Consensus pattern (24 bp):
ATATCCTTTTGAACCTTTTCATAG
Found at i:110696 original size:20 final size:21
Alignment explanation
Indices: 110635--110701 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
110625 CAGTTCTACT
* *
110635 GATACAACTGAGACAACTACC
1 GATACAAGTGAGACAACTATC
110656 GATACAAGTGAGACAACTATC
1 GATACAAGTGAGACAACTATC
* *
110677 GATACAAGT-ATACTACTATC
1 GATACAAGTGAGACAACTATC
110697 GATAC
1 GATAC
110702 TAAAAACTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 14 0.33
21 28 0.67
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.21
Consensus pattern (21 bp):
GATACAAGTGAGACAACTATC
Found at i:110798 original size:21 final size:21
Alignment explanation
Indices: 110773--110843 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
110763 CAATGTACAA
110773 AACTATCGATACCTGTTTTAC
1 AACTATCGATACCTGTTTTAC
* ** *
110794 AACTA-CTGATACGTCAATGTAC
1 AACTATC-GATACCT-GTTTTAC
110816 AAAACTATCGATACCTGTTTTAC
1 --AACTATCGATACCTGTTTTAC
110839 AACTA
1 AACTA
110844 CTGAAACAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 4 0.11
23 4 0.11
24 11 0.30
25 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (21 bp):
AACTATCGATACCTGTTTTAC
Found at i:110828 original size:24 final size:24
Alignment explanation
Indices: 110763--110831 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 24
110753 AGTATTTAAA
110763 CAATGTACAAAACTATCGATACCT
1 CAATGTACAAAACTATCGATACCT
** * *
110787 -GTTTTAC--AACTA-CTGATACGT
1 CAATGTACAAAACTATC-GATACCT
110808 CAATGTACAAAACTATCGATACCT
1 CAATGTACAAAACTATCGATACCT
110832 GTTTTACAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
20 1 0.03
21 11 0.34
22 4 0.12
23 4 0.12
24 11 0.34
25 1 0.03
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (24 bp):
CAATGTACAAAACTATCGATACCT
Found at i:110983 original size:116 final size:116
Alignment explanation
Indices: 110802--111021 Score: 316
Period size: 116 Copynumber: 1.9 Consensus size: 116
110792 ACAACTACTG
* * * * *
110802 ATACGTCAATGTACAAAACTATCGATACCTGTTTTACAACTACTGAAACAACTCAAGTCAAAGAA
1 ATACCTCAATGAACAAAACTATCGATACCTATTATACAACTACTAAAACAACTCAAGTCAAAGAA
* *
110867 CAACCTCTCTCTTACCCTGTACTTCTACCGATACAAGCATTTAAACTACCA
66 CAACCTCTCTCCTACCCTGTACTTCTACCAATACAAGCATTTAAACTACCA
* * * *
110918 ATACCTCAATGAACAGAACTA-CTGATACCTATTATACAACTATTAAAACAACTCAGGTCAGAGA
1 ATACCTCAATGAACAAAACTATC-GATACCTATTATACAACTACTAAAACAACTCAAGTCAAAGA
*
110982 ACAACCTCTCTCCTACCCTGTACTTCTACTAATACAAGCA
65 ACAACCTCTCTCCTACCCTGTACTTCTACCAATACAAGCA
111022 CGAGTTCTAC
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
115 1 0.01
116 90 0.99
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.26
Consensus pattern (116 bp):
ATACCTCAATGAACAAAACTATCGATACCTATTATACAACTACTAAAACAACTCAAGTCAAAGAA
CAACCTCTCTCCTACCCTGTACTTCTACCAATACAAGCATTTAAACTACCA
Found at i:111602 original size:35 final size:36
Alignment explanation
Indices: 111514--111614 Score: 159
Period size: 35 Copynumber: 2.8 Consensus size: 36
111504 TCGTTATTCG
* *
111514 TTTTACTCCCTGTTGACCCCAAAGATCATGATGCTCA
1 TTTTACTCCCTGTTGA-CCCAAAGGTCATTATGCTCA
111551 TTTTACTCCCTGTTGACCCAAAGGTCATTATGCTCA
1 TTTTACTCCCTGTTGACCCAAAGGTCATTATGCTCA
*
111587 TTTT-CTCCCTATTGACCCAAAGGTCATT
1 TTTTACTCCCTGTTGACCCAAAGGTCATT
111615 CCTGTTACCA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 23 0.38
36 22 0.36
37 16 0.26
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.36
Consensus pattern (36 bp):
TTTTACTCCCTGTTGACCCAAAGGTCATTATGCTCA
Found at i:113319 original size:13 final size:13
Alignment explanation
Indices: 113298--113345 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
113288 CAAACATGGG
113298 ACATAAGAAATTA
1 ACATAAGAAATTA
* *
113311 ACATCAGAATATGA
1 ACATAAGAA-ATTA
113325 A-ATAAGAAATTA
1 ACATAAGAAATTA
*
113337 ACATTAGAA
1 ACATAAGAA
113346 TATAAAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 4 0.14
13 20 0.71
14 4 0.14
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (13 bp):
ACATAAGAAATTA
Found at i:114074 original size:21 final size:21
Alignment explanation
Indices: 114050--114107 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
114040 TAGTGTAGAT
*
114050 TTCTAGCGATACAAGTGACAC
1 TTCTACCGATACAAGTGACAC
* * *
114071 TTCTACCGACACATGTGACTC
1 TTCTACCGATACAAGTGACAC
* *
114092 CTCTACCGATAAAAGT
1 TTCTACCGATACAAGT
114108 CTTACCTCTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACAC
Found at i:118566 original size:16 final size:16
Alignment explanation
Indices: 118547--118588 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
118537 CATTAACAAA
*
118547 AAATCAATTTAATGTT
1 AAATCAATTTAATCTT
*
118563 AAAT-AATTTCATCTT
1 AAATCAATTTAATCTT
*
118578 ACATCAATTTA
1 AAATCAATTTA
118589 TCAACTATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (16 bp):
AAATCAATTTAATCTT
Found at i:121648 original size:16 final size:16
Alignment explanation
Indices: 121627--121657 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
121617 TTTTGTATAC
121627 ATTTTTATTTCTATTT
1 ATTTTTATTTCTATTT
*
121643 ATTTTTATTTTTATT
1 ATTTTTATTTCTATT
121658 GTCTATTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTATTTCTATTT
Found at i:122392 original size:30 final size:30
Alignment explanation
Indices: 122358--122484 Score: 152
Period size: 30 Copynumber: 4.3 Consensus size: 30
122348 AAAAACATAT
*
122358 TTTGACCCCTAAACTTTCC-AAAATTTCAAA
1 TTTGACCCCTAAACTTTCCAAAAATTT-GAA
*
122388 TTTGACCCCTTAACTTTCCAAAAATTTGAA
1 TTTGACCCCTAAACTTTCCAAAAATTTGAA
*
122418 TTTG-GCCCTAAACTTTCCAAAAATTTGAA
1 TTTGACCCCTAAACTTTCCAAAAATTTGAA
* * * * *
122447 TTTGGCTCTTAAACTTTCCAAAATTTTG-T
1 TTTGACCCCTAAACTTTCCAAAAATTTGAA
122476 TTTGACCCC
1 TTTGACCCC
122485 ATTTTTCTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
29 33 0.40
30 43 0.52
31 7 0.08
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (30 bp):
TTTGACCCCTAAACTTTCCAAAAATTTGAA
Found at i:127597 original size:29 final size:29
Alignment explanation
Indices: 127560--127615 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
127550 TTTTACCTAA
127560 AAAGAAAAGAGAGAA-A-AAAAAAGAAAAGG
1 AAAGAAAAG-GA-AATAGAAAAAAGAAAAGG
*
127589 AAAGGAAAGGAAATAGAAAAAAGAAAA
1 AAAGAAAAGGAAATAGAAAAAAGAAAA
127616 AAGGAGATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.08
28 3 0.12
29 19 0.79
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (29 bp):
AAAGAAAAGGAAATAGAAAAAAGAAAAGG
Found at i:128588 original size:49 final size:48
Alignment explanation
Indices: 128440--128744 Score: 213
Period size: 49 Copynumber: 6.3 Consensus size: 48
128430 GGAAATGTCA
* * * * * * **
128440 AATCATATACTCTAAAGACGTGAAGGGAAAGATTGAGGTCGCAACAACG
1 AATCTTATACCCTAGAGATGTGAAGGGAAAG-TTGAGGCCGTAACGGCG
** * * *
128489 AATCTCGTACCCTAG-GAATGTGAAGGGAAAGATTGATGCCGCAACAGCG
1 AATCTTATACCCTAGAG-ATGTGAAGGGAAAG-TTGAGGCCGTAACGGCG
* * *
128538 AATCTTGTACCCTAGAGATGTGAAGGGAAATGTTGGGGCCATAACGGCG
1 AATCTTATACCCTAGAGATGTGAAGGGAAA-GTTGAGGCCGTAACGGCG
* * * ** ** * *
128587 AACCTTATACCTTAGAAATAAGAAAGCCAAA-TTGA-GTCGTAATGGCG
1 AATCTTATACCCTAGAGATGTG-AAGGGAAAGTTGAGGCCGTAACGGCG
* * * *
128634 AATCTTGA-ACCCTAAAGAAGTGAAGGGAAAGGTCGAGGCCGCAACGGCG
1 AATCTT-ATACCCTAGAGATGTGAAGGGAAA-GTTGAGGCCGTAACGGCG
* * **
128683 AACCTTATACCCTAGAGATATGAAGGGAAAGATTGAGGCCGTAATAGCG
1 AATCTTATACCCTAGAGATGTGAAGGGAAAG-TTGAGGCCGTAACGGCG
128732 AATCTTATACCCT
1 AATCTTATACCCT
128745 GAAGATGAAG
Statistics
Matches: 197, Mismatches: 49, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
46 6 0.03
47 22 0.11
48 10 0.05
49 151 0.77
50 8 0.04
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.20
Consensus pattern (48 bp):
AATCTTATACCCTAGAGATGTGAAGGGAAAGTTGAGGCCGTAACGGCG
Found at i:128846 original size:42 final size:42
Alignment explanation
Indices: 128760--128863 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
128750 TGAAGCAGAC
* * *
128760 TGAAGTCGCAAAGGTGAATCTCAAAATAGTAGAGAAATAGAT
1 TGAAGTCGCAAAGGTAAATCTCAAAATAGTAAAGAAATAAAT
***
128802 TGAAGTCGCAAAGGTAAATCTCAAAGAT-GTAAAGGGCTAAAT
1 TGAAGTCGCAAAGGTAAATCTCAAA-ATAGTAAAGAAATAAAT
* *
128844 TGAAGTTGCAAAGGCAAATC
1 TGAAGTCGCAAAGGTAAATC
128864 ATATATCCCT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 51 0.96
43 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (42 bp):
TGAAGTCGCAAAGGTAAATCTCAAAATAGTAAAGAAATAAAT
Found at i:129170 original size:75 final size:75
Alignment explanation
Indices: 128995--129172 Score: 189
Period size: 75 Copynumber: 2.4 Consensus size: 75
128985 ATGAAGCAGT
* * * * *
128995 CATCTTCCTAATGAGATACAGAGAAGAGAACCAAATCAACATTATGGCGCTCAATACGAGTAAAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACATGAAGGAGCTCAATACGAGTAAAA
* *
129060 CTTCAAACCC
66 CATCAAACCA
* * * * * *
129070 CATCTTCTTGATAATATATAGAGAAGTGAACCAAATC-A-ATGAAGCGAAGCTCAATGCGAGTGA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACATGAAG-G-AGCTCAATACGAGTAA
129133 AACATCAAACCA
64 AACATCAAACCA
* *
129145 TATCTTCCTGATGAGATACAAAGAAGTG
1 CATCTTCCTGATGAGATACAGAGAAGTG
129173 GGTTAAAACA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
73 4 0.05
74 2 0.02
75 76 0.93
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (75 bp):
CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACATGAAGGAGCTCAATACGAGTAAAA
CATCAAACCA
Found at i:129230 original size:123 final size:123
Alignment explanation
Indices: 129070--130164 Score: 1340
Period size: 123 Copynumber: 8.9 Consensus size: 123
129060 CTTCAAACCC
* * * * * *
129070 CATCTTCTTGATAATATATAGAGAAGTGAACCAAATCAATGAAGCGAAGCTCAATGCGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGAAGCTCAATGTGAGTGAAA
* ** * *
129135 CATCAAACCATATCTTCCTGATGAGATACAAAGAAGTGGGTTAAAACAATGAAGCGGT
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGCGGT
* * * *
129193 CATCTTCCTAATAAGATACAGAGAAGTGAACCAAATCAACGAAGTCGGAGCTCAATGCGAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACGAAG-CGAAGCTCAATGTGAGTGAA
* * *
129258 ACTTCAAA-CCCATCTTCTTGATGAGATATAAAGAAGTGGGTCAAAACAATGAAGCGGT
65 ACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGCGGT
* * * *
129316 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACTAAGCGGAGCTTAATGTAAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGAAGCTCAATGTGAGTGAAA
* * * * *
129381 CTTTAAACCTCATCTTCGTGATGAGATACAGAGAAAG-GGATCAAAACAATGAAGCAGT
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAG-AAGTGGGTCAAAACAATGAAGCGGT
* * * * *
129439 CATCTTCCTGATGAGATGCAGAGAAGTGGACCAAATCAACTAAGTGGAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGAAGCTCAATGTGAGTGAAA
* *** *
129504 CTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGTGAACCAAATCAATGAAGCGGT
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGCGGT
* * * *
129562 CATCTTCTTGATGAGATAGAGAGAAGTGGACCAAATCAACGAAG-TAGAGCTCAATGTGAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGA-AGCTCAATGTGAGTGAA
* * * *
129626 ACTTCAAACCCCATCTTCCTAATGAGATACAAAGAAGTGGGTCAAAACAATAAAGTGGT
65 ACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGCGGT
* * *
129685 CATCTTCCTGATAAGATACAGAGATGT-AGACCAAATCAACGAAGCGGAGCTCAATGTGAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTGA-ACCAAATCAACGAAGCGAAGCTCAATGTGAGTGAA
* * * *
129749 ACTTCAAACCCCTATCTTCCTAATGAGATACAGAGAAGTGGATCAAAATAATGAAGCAGT
65 ACTTCAAACCCC-ATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGCGGT
* * * * * ***
129809 CATCTACCTGATGAGATACAAAGAAGTGGACCAAATCAACGAAG-TAGAGCTTAATACAAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGA-AGCTCAATGTGAGTGAA
* * *
129873 ACTTCAAACCCCATCTTCCTGATGAGATAGAGAGAAGTGGGTCAAATCAATGAAGTGGT
65 ACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGCGGT
* * * * *
129932 CATCTTCTTGATGAGATACAGAGAAG-AAGACCAAAACAATGAAGCGAAGCTCAATGCGAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTGA-ACCAAATCAACGAAGCGAAGCTCAATGTGAGTGAA
* * *
129996 ACTTCAAACCCTATCTTCCTGATGAGAT-CTAGAGAAGTAGGTCAAAACAATGAAGCGAT
65 ACTTCAAACCCCATCTTCCTGATGAGATAC-AGAGAAGTGGGTCAAAACAATGAAGCGGT
* * * * * * * **
130055 CAACTTTCTGATGAAATATAGAGAAGAGGACCAAATCAACAAAGAAAAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGAAGCTCAATGTGAGTGAAA
*
130120 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGCCAAA
66 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAA
130165 TAAGTAACAA
Statistics
Matches: 841, Mismatches: 116, Indels: 30
0.85 0.12 0.03
Matches are distributed among these distances:
122 27 0.03
123 679 0.81
124 135 0.16
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (123 bp):
CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGAAGCTCAATGTGAGTGAAA
CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAACAATGAAGCGGT
Found at i:129585 original size:48 final size:48
Alignment explanation
Indices: 129514--129605 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
129504 CTTCAAACCC
*
129514 CATCTTCTTGATGAGATACAGAGAAGTGAACCAAATCAATGAAGCGGT
1 CATCTTCTTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGGT
* *
129562 CATCTTCTTGATGAGATAGAGAGAAGTGGACCAAATCAACGAAG
1 CATCTTCTTGATGAGATACAGAGAAGTGAACCAAATCAACGAAG
129606 TAGAGCTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (48 bp):
CATCTTCTTGATGAGATACAGAGAAGTGAACCAAATCAACGAAGCGGT
Found at i:129972 original size:48 final size:48
Alignment explanation
Indices: 129884--129975 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
129874 CTTCAAACCC
* ** ** *
129884 CATCTTCCTGATGAGATAGAGAGAAGTGGGTCAAATCAATGAAGTGGT
1 CATCTTCCTGATGAGATACAGAGAAGAAGACCAAAACAATGAAGTGGT
*
129932 CATCTTCTTGATGAGATACAGAGAAGAAGACCAAAACAATGAAG
1 CATCTTCCTGATGAGATACAGAGAAGAAGACCAAAACAATGAAG
129976 CGAAGCTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGAAGACCAAAACAATGAAGTGGT
Found at i:129995 original size:493 final size:491
Alignment explanation
Indices: 129070--130164 Score: 1495
Period size: 493 Copynumber: 2.2 Consensus size: 491
129060 CTTCAAACCC
* * * *
129070 CATCTTCTTGAT-AATATATAGAGAAGTGAACCAAATCAATGAAGCGAAGCTCAATGCGAGTGAA
1 CATCTTCTTGATGAA-ATATAGAGAAGTGGACCAAATCAACGAAGAG-AGCTCAATGTGAGTGAA
* ** * *
129134 ACATCAAACCATATCTTCCTGATGAGATACAAAGAAGTGGGTTAAAACAATGAAGCGGTCATCTT
64 ACTTCAAACCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAACAATAAAGCGGTCATCTT
129199 CCTAATAAGATACAGAGAAGTGAACCAAATCAACGAAGTCGGAGCTCAATGCGAGTGAAACTTCA
129 CCTAATAAGATACAGAGAAGTGAACCAAATCAACGAAGTCGGAGCTCAATGCGAGTGAAACTTCA
* * * * * *
129264 AACCCATCTTCTTGATGAGATATAAAGAAGTGGGTCAAAACAATGAAGCGGTCATCTTCCTGATG
194 AACCCATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACAATGAAGCAGTCATCTACCTGATG
* * * ** * *
129329 AGATACAGAGAAGTGAACCAAATCAACTAAGCGGAGCTTAATGTAAGTGAAACTTTAAACCTCAT
259 AGATACAAAGAAGTGAACCAAATCAACGAAGCAGAGCTTAATACAAGTGAAACTTCAAACCCCAT
* *
129394 CTTCGTGATGAGATACAGAGAAAGGGATCAAAACAATGAAGCAGTCATCTTCCTGATGAGATGCA
324 CTTCCTGATGAGATACAGAGAAAGGGATCAAAACAATGAAGCAGTCATCTTCCTGATGAGATACA
** * * * * *
129459 GAGAAGTGGACCAAATCAACTAAGTGGAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCTTG
389 GAGAAGAAGACCAAAACAACTAAGCGAAGCTCAATGCGAGTGAAACTTCAAACCCCATCTTCCTG
* *
129524 ATGAGATAC-AGAGAAGT-GAACCAAATCAATGAAGCGGT
454 ATGAGAT-CTAGAGAAGTAG-ACCAAAACAATGAAGCGAT
* *
129562 CATCTTCTTGATGAGATAGAGAGAAGTGGACCAAATCAACGAAGTAGAGCTCAATGTGAGTGAAA
1 CATCTTCTTGATGAAATATAGAGAAGTGGACCAAATCAACGAAG-AGAGCTCAATGTGAGTGAAA
* *
129627 CTTCAAACCCCATCTTCCTAATGAGATACAAAGAAGTGGGTCAAAACAATAAAGTGGTCATCTTC
65 CTTCAAACCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAACAATAAAGCGGTCATCTTC
* * *
129692 CTGATAAGATACAGAGATGT-AGACCAAATCAACGAAG-CGGAGCTCAATGTGAGTGAAACTTCA
130 CTAATAAGATACAGAGAAGTGA-ACCAAATCAACGAAGTCGGAGCTCAATGCGAGTGAAACTTCA
* *
129755 AACCCCTATCTTCCTAATGAGATACAGAGAAGTGGATCAAAATAATGAAGCAGTCATCTACCTGA
194 AA-CCC-ATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACAATGAAGCAGTCATCTACCTGA
* *
129820 TGAGATACAAAGAAGTGGACCAAATCAACGAAGTAGAGCTTAATACAAGTGAAACTTCAAACCCC
257 TGAGATACAAAGAAGTGAACCAAATCAACGAAGCAGAGCTTAATACAAGTGAAACTTCAAACCCC
* * * ** *
129885 ATCTTCCTGATGAGATAGAGAG-AAGTGGGTCAAATCAATGAAGTGGTCATCTTCTTGATGAGAT
322 ATCTTCCTGATGAGATACAGAGAAAG-GGATCAAAACAATGAAGCAGTCATCTTCCTGATGAGAT
*
129949 ACAGAGAAGAAGACCAAAACAA-TGAAGCGAAGCTCAATGCGAGTGAAACTTCAAACCCTATCTT
386 ACAGAGAAGAAGACCAAAACAACT-AAGCGAAGCTCAATGCGAGTGAAACTTCAAACCCCATCTT
**
130013 CCTGATGAGATCTAGAGAAGTAGGTCAAAACAATGAAGCGAT
450 CCTGATGAGATCTAGAGAAGTAGACCAAAACAATGAAGCGAT
* * * *
130055 CAACTT-TCTGATGAAATATAGAGAAGAGGACCAAATCAACAAAGAAAAGCTCAATGTGAGTGAA
1 CATCTTCT-TGATGAAATATAGAGAAGTGGACCAAATCAACGAAG-AGAGCTCAATGTGAGTGAA
* *
130119 ACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGCCAAA
64 ACTTCAAACCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAA
130165 TAAGTAACAA
Statistics
Matches: 530, Mismatches: 63, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
491 28 0.05
492 155 0.29
493 346 0.65
494 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (491 bp):
CATCTTCTTGATGAAATATAGAGAAGTGGACCAAATCAACGAAGAGAGCTCAATGTGAGTGAAAC
TTCAAACCCCATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAACAATAAAGCGGTCATCTTCC
TAATAAGATACAGAGAAGTGAACCAAATCAACGAAGTCGGAGCTCAATGCGAGTGAAACTTCAAA
CCCATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACAATGAAGCAGTCATCTACCTGATGAG
ATACAAAGAAGTGAACCAAATCAACGAAGCAGAGCTTAATACAAGTGAAACTTCAAACCCCATCT
TCCTGATGAGATACAGAGAAAGGGATCAAAACAATGAAGCAGTCATCTTCCTGATGAGATACAGA
GAAGAAGACCAAAACAACTAAGCGAAGCTCAATGCGAGTGAAACTTCAAACCCCATCTTCCTGAT
GAGATCTAGAGAAGTAGACCAAAACAATGAAGCGAT
Found at i:132008 original size:30 final size:30
Alignment explanation
Indices: 131935--132019 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 30
131925 AAAATCATAT
*
131935 TTTGACCCCTAAACTTTTCAAAATTTAGAA
1 TTTGACCCCTAAACTTTCCAAAATTTAGAA
* * *
131965 TTT-AACACTAAACTTTCCAAAATTTTGAA
1 TTTGACCCCTAAACTTTCCAAAATTTAGAA
*
131994 TTTGGCCCCTAAACTTTCCAAAATTT
1 TTTGACCCCTAAACTTTCCAAAATTT
132020 CTTTTTTAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 25 0.53
30 22 0.47
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (30 bp):
TTTGACCCCTAAACTTTCCAAAATTTAGAA
Found at i:137910 original size:18 final size:18
Alignment explanation
Indices: 137887--137921 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
137877 TAAATTTGGT
137887 ATAATATATTTATATAAA
1 ATAATATATTTATATAAA
*
137905 ATAATATCTTTATATAA
1 ATAATATATTTATATAA
137922 TTTTTCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATATATTTATATAAA
Found at i:140998 original size:19 final size:19
Alignment explanation
Indices: 140976--141032 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
140966 AAACTTAATT
*
140976 ATTTTAATTGATAATATTA
1 ATTTTAATTCATAATATTA
140995 ATTTTAATTCATAATATTA
1 ATTTTAATTCATAATATTA
141014 ATTTTAATTCATAATATTA
1 ATTTTAATTCATAATATTA
141033 GTACATATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTTAATTCATAATATTA
Found at i:141525 original size:12 final size:12
Alignment explanation
Indices: 141500--141531 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
141490 TTATTACATG
141500 AAAAA-CAA-TA
1 AAAAATCAACTA
141510 AAAAATCAACTA
1 AAAAATCAACTA
141522 AAAAATCAAC
1 AAAAATCAAC
141532 GACGGTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.25
11 3 0.15
12 12 0.60
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAATCAACTA
Found at i:146111 original size:33 final size:33
Alignment explanation
Indices: 146069--146134 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
146059 CTTACCCAAC
146069 CCGTTTTAAGTTTATAATACTTTATATTATGTT
1 CCGTTTTAAGTTTATAATACTTTATATTATGTT
146102 CCGTTTTAAGTTTATAATACTTTATATTATGTT
1 CCGTTTTAAGTTTATAATACTTTATATTATGTT
146135 TTTTTTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (33 bp):
CCGTTTTAAGTTTATAATACTTTATATTATGTT
Found at i:146292 original size:22 final size:24
Alignment explanation
Indices: 146265--146309 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
146255 ATAAAATTAT
*
146265 TAAATA-TTAAAATAAT-ATAATG
1 TAAATATTTAAAAAAATAATAATG
146287 TAAATATTTAAAAAAATAATAAT
1 TAAATATTTAAAAAAATAATAAT
146310 AATAATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 9 0.45
24 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAATATTTAAAAAAATAATAATG
Found at i:159374 original size:18 final size:18
Alignment explanation
Indices: 159351--159387 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
159341 ACAATTCATA
159351 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
159369 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
159387 T
1 T
159388 TGATCACAAA
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:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:165180 original size:6 final size:6
Alignment explanation
Indices: 165163--165207 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
165153 ACAATTCATA
* *
165163 TCACTT TTACTT TCACTT TTACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
165208 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (6 bp):
TCACTT
Found at i:165922 original size:195 final size:195
Alignment explanation
Indices: 165590--165971 Score: 746
Period size: 195 Copynumber: 2.0 Consensus size: 195
165580 TAAATTCTTT
*
165590 CAATTTACGCTTTCTCTGTTGTCTAACAGTTTCGTCCTTTATTTACTAAAAGTTATTTATCTTTT
1 CAATTTACGCTTTCTCTGTTGTCTAACAGTTTCGTCCTTTATTTACTAAAAGTTATTTATCTCTT
165655 AGTATAGAGATCAAATAATGTTCTCGTCTATTTCTTTTGAAAATAGACTCATTAAGGATCCAACC
66 AGTATAGAGATCAAATAATGTTCTCGTCTATTTCTTTTGAAAATAGACTCATTAAGGATCCAACC
*
165720 ACATAAATTTTAGTCTCTAATAATTTTTCTAAATTTTTCTATGATTTTTCAAAATTATAGAGATC
131 ACATAAATTTTAGTCTCTAATAAATTTTCTAAATTTTTCTATGATTTTTCAAAATTATAGAGATC
165785 CAATTTACGCTTTCTCTGTTGTCTAACAGTTTCGTCCTTTATTTACTAAAAGTTATTTATCTCTT
1 CAATTTACGCTTTCTCTGTTGTCTAACAGTTTCGTCCTTTATTTACTAAAAGTTATTTATCTCTT
165850 AGTATAGAGATCAAATAATGTTCTCGTCTATTTCTTTTGAAAATAGACTCATTAAGGATCCAACC
66 AGTATAGAGATCAAATAATGTTCTCGTCTATTTCTTTTGAAAATAGACTCATTAAGGATCCAACC
165915 ACATAAATTTTAGTCTCTAATAAATTTTCTAAATTTTTCTATGATTTTTCAAAATTA
131 ACATAAATTTTAGTCTCTAATAAATTTTCTAAATTTTTCTATGATTTTTCAAAATTA
165972 GAACAGGGGA
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 185 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (195 bp):
CAATTTACGCTTTCTCTGTTGTCTAACAGTTTCGTCCTTTATTTACTAAAAGTTATTTATCTCTT
AGTATAGAGATCAAATAATGTTCTCGTCTATTTCTTTTGAAAATAGACTCATTAAGGATCCAACC
ACATAAATTTTAGTCTCTAATAAATTTTCTAAATTTTTCTATGATTTTTCAAAATTATAGAGATC
Found at i:177029 original size:47 final size:47
Alignment explanation
Indices: 176960--177102 Score: 277
Period size: 47 Copynumber: 3.0 Consensus size: 47
176950 TTTGATGGGT
176960 TCACTTCTTCCTCAGGTAAGTTGACATTTACTTACAATTAGTAATTC
1 TCACTTCTTCCTCAGGTAAGTTGACATTTACTTACAATTAGTAATTC
*
177007 TCACTTCTTCCTCAGGTAAGTTGACATTTAGTTACAATTAGTAATTC
1 TCACTTCTTCCTCAGGTAAGTTGACATTTACTTACAATTAGTAATTC
177054 TCACTTCTTCCTCAGGTAAGTTGACATTTACTTACAATTAGTAATTC
1 TCACTTCTTCCTCAGGTAAGTTGACATTTACTTACAATTAGTAATTC
177101 TC
1 TC
177103 GTTCATCCTT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (47 bp):
TCACTTCTTCCTCAGGTAAGTTGACATTTACTTACAATTAGTAATTC
Found at i:181759 original size:29 final size:30
Alignment explanation
Indices: 181687--181974 Score: 381
Period size: 30 Copynumber: 9.7 Consensus size: 30
181677 GTCGGGGGTG
* * *
181687 AAATGGTAATTTTGGGAAATTTTGGGGTTAA
1 AAATGG-AATTTTTGGAAGTTTTGGGGTCAA
181718 AAATGGAATTTTT-GAAGGTTTTGGGGTCAA
1 AAATGGAATTTTTGGAA-GTTTTGGGGTCAA
*
181748 AAATGGATTTTTTGGAAGTTTTGGGGTCAA
1 AAATGGAATTTTTGGAAGTTTTGGGGTCAA
*
181778 AAATGGATTTTTTGGAAGTTTTGGGGTCAA
1 AAATGGAATTTTTGGAAGTTTTGGGGTCAA
***
181808 AAATGGAATTTTTGGAAGTTTCAAGGTCAA
1 AAATGGAATTTTTGGAAGTTTTGGGGTCAA
* *
181838 AAATGGAATTTTTTGAAGTTTAGGGGT--A
1 AAATGGAATTTTTGGAAGTTTTGGGGTCAA
181866 AAATGGAATTTTTGGAAGTTTTGGGGTC-A
1 AAATGGAATTTTTGGAAGTTTTGGGGTCAA
*
181895 AAATGGAATTTTTGGAAGTTTCGAGGGT-AA
1 AAATGGAATTTTTGGAAGTTTTG-GGGTCAA
* **
181925 AAATGGAATTTTTTGAAGTTCGGGGGT-AA
1 AAATGGAATTTTTGGAAGTTTTGGGGTCAA
181954 AAATGGAATTTTTGGAAGTTT
1 AAATGGAATTTTTGGAAGTTT
181975 CGGGACCTCC
Statistics
Matches: 232, Mismatches: 20, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
28 26 0.11
29 51 0.22
30 146 0.63
31 9 0.04
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.38
Consensus pattern (30 bp):
AAATGGAATTTTTGGAAGTTTTGGGGTCAA
Done.