Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000686.1 Hibiscus syriacus cultivar Beakdansim tig00001340_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: 1443669
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:2680 original size:15 final size:16
Alignment explanation
Indices: 2660--2692 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2650 TTAGGAGGGA
*
2660 AATGAAATA-AAAGGT
1 AATGAAAAACAAAGGT
2675 AATGAAAAACAAAGGT
1 AATGAAAAACAAAGGT
2691 AA
1 AA
2693 ATAAAAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.03, G:0.18, T:0.15
Consensus pattern (16 bp):
AATGAAAAACAAAGGT
Found at i:4920 original size:30 final size:32
Alignment explanation
Indices: 4880--4942 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
4870 TTTAATAACA
* *
4880 TTTCTATCCAT-TTTC-TTTCTTATCATTTCTT
1 TTTCTATCCATATTCCATTT-TAATCATTTCTT
4911 TTTCT-TCCATATTCCATTTTAATCATTTCTT
1 TTTCTATCCATATTCCATTTTAATCATTTCTT
4942 T
1 T
4943 CTTTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.18
31 20 0.71
32 3 0.11
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (32 bp):
TTTCTATCCATATTCCATTTTAATCATTTCTT
Found at i:13726 original size:17 final size:18
Alignment explanation
Indices: 13698--13732 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
13688 GAAACGTGCA
13698 AAAATAAGAAAGTCAAAG
1 AAAATAAGAAAGTCAAAG
13716 AAAATAA-AAAGTCAAAG
1 AAAATAAGAAAGTCAAAG
13733 CAAGAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.69, C:0.06, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAATAAGAAAGTCAAAG
Found at i:15625 original size:12 final size:12
Alignment explanation
Indices: 15593--15631 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
15583 TTGTTGTAAC
15593 AAGAAGAAAAAGA
1 AAGAAG-AAAAGA
15606 AAGAAGAAAA-A
1 AAGAAGAAAAGA
15617 AAGAGAGAAAAGA
1 AAGA-AGAAAAGA
15630 AA
1 AA
15632 AGACTCTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.21
12 10 0.42
13 9 0.38
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAGA
Found at i:18903 original size:20 final size:20
Alignment explanation
Indices: 18860--18902 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
18850 TAAAGAGGTG
*
18860 AAAA-CATATATTATGCAAT
1 AAAATCATATAATATGCAAT
18879 AAAATCATATAATATGCAAGT
1 AAAATCATATAATATGCAA-T
18900 AAA
1 AAA
18903 TGATAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAATCATATAATATGCAAT
Found at i:18912 original size:25 final size:22
Alignment explanation
Indices: 18862--18913 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 22
18852 AAGAGGTGAA
*
18862 AACATATATTATGCAATAAAAT
1 AACATATAATATGCAATAAAAT
18884 --CATATAATATGCAAGTAAATGAT
1 AACATATAATATGCAA-TAAA--AT
18907 AACATAT
1 AACATAT
18914 GATTATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 13 0.54
21 4 0.17
23 2 0.08
25 5 0.21
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.31
Consensus pattern (22 bp):
AACATATAATATGCAATAAAAT
Found at i:22226 original size:3 final size:3
Alignment explanation
Indices: 22218--22251 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
22208 TATGCATTTA
*
22218 TAT TAT TAT TA- TAT TAT TAT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22252 ATAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:22231 original size:11 final size:11
Alignment explanation
Indices: 22215--22251 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
22205 GTTTATGCAT
22215 TTATATTATTA
1 TTATATTATTA
22226 TTATATTATTA
1 TTATATTATTA
*
22237 TTATTAGTATTA
1 TTA-TATTATTA
22249 TTA
1 TTA
22252 ATAAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TTATATTATTA
Found at i:28113 original size:2 final size:2
Alignment explanation
Indices: 28108--28145 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
28098 TTTTATTTTC
*
28108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28146 GTTGTTATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29444 original size:15 final size:16
Alignment explanation
Indices: 29424--29456 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29414 CTTTTCTATC
*
29424 TTTATTT-CATTTCTT
1 TTTATTTCCATTACTT
29439 TTTATTTCCATTACTT
1 TTTATTTCCATTACTT
29455 TT
1 TT
29457 ATTATTACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATTTCCATTACTT
Found at i:36102 original size:18 final size:18
Alignment explanation
Indices: 36079--36137 Score: 118
Period size: 18 Copynumber: 3.3 Consensus size: 18
36069 CATTGAGATG
36079 GTGTGTGAGAGGTGCCTA
1 GTGTGTGAGAGGTGCCTA
36097 GTGTGTGAGAGGTGCCTA
1 GTGTGTGAGAGGTGCCTA
36115 GTGTGTGAGAGGTGCCTA
1 GTGTGTGAGAGGTGCCTA
36133 GTGTG
1 GTGTG
36138 CAAAAGAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.15, C:0.10, G:0.46, T:0.29
Consensus pattern (18 bp):
GTGTGTGAGAGGTGCCTA
Found at i:47266 original size:332 final size:332
Alignment explanation
Indices: 46660--47303 Score: 1164
Period size: 332 Copynumber: 1.9 Consensus size: 332
46650 CTTATAAAGA
* *
46660 CTTATAAGAATCATGTCTTTGGTCGTCTATAGCATTGGTTTATTATTAGTCCTATAAGATACTAT
1 CTTATAAGAATCATGTCTTTGGTCATCTATAGCATTGGTTTATTATTAGTCCTACAAGATACTAT
* * *
46725 CACCTTAATAAATTTTTTTCATAAACCATCACCTTCCTATCACTTAATCAAATTCCATTTCTATT
66 CACCTTAATAAATTTCTTTCATAAACCATCACCTTCATATCACTTAATCAAATTCCATTTCCATT
* *
46790 CAAACAAAACAACCCATCATTCTTCACCTATATCAACTACCAAGCCATTCACTTACACTTACAGA
131 CAAACAAAACAACCCACCATTCTTCACCTATATCAACTACCAAGCCATTCACGTACACTTACAGA
* *
46855 TTGTTTTGCTTCCTTCCTAGATCCGCATTCAAAATGGTACAAAACCCTTAGATTACTAGTGTATC
196 TTGTTTTGCTTCCTTCCTAGATCCGCATTCAAAACGGTACAAAACCCTTAGATCACTAGTGTATC
46920 TTGACATGCTAAAGTGAGGTCAACTCCTCACTAGTTTCTATCTCACTCATTCAAAAAGGCATAAA
261 TTGACATGCTAAAGTGAGGTCAACTCCTCACTAGTTTCTATCTCACTCATTCAAAAAGGCATAAA
46985 CCATCAC
326 CCATCAC
46992 CTTATAAGAATCATGTCTTTGGTCATCTATAGCATTGGTTTATTATTAGTCCTACAAGATACTAT
1 CTTATAAGAATCATGTCTTTGGTCATCTATAGCATTGGTTTATTATTAGTCCTACAAGATACTAT
47057 CACCTTAA-AAATTGTCTTTCATAAACCATCACCTTCATATCACTTAATCAAATTCCATTTCCAT
66 CACCTTAATAAATT-TCTTTCATAAACCATCACCTTCATATCACTTAATCAAATTCCATTTCCAT
47121 TCAAACAAAACAACCCACCATTCTTCACCTATATCAACTACCAAGCCATTCACGTACACTTACAG
130 TCAAACAAAACAACCCACCATTCTTCACCTATATCAACTACCAAGCCATTCACGTACACTTACAG
* * *
47186 ATTGTTTTGCTTCCTTCCTAGATCTGCATTCTAAACGGTACAACACCCTTAGATCACTAGTGTAT
195 ATTGTTTTGCTTCCTTCCTAGATCCGCATTCAAAACGGTACAAAACCCTTAGATCACTAGTGTAT
47251 CTTGACATGCTAAAGTGAGGTCAACTCCTCACTAGTTTCTATCTCACTCATTC
260 CTTGACATGCTAAAGTGAGGTCAACTCCTCACTAGTTTCTATCTCACTCATTC
47304 TCTCTTTTAT
Statistics
Matches: 299, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
331 5 0.02
332 294 0.98
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (332 bp):
CTTATAAGAATCATGTCTTTGGTCATCTATAGCATTGGTTTATTATTAGTCCTACAAGATACTAT
CACCTTAATAAATTTCTTTCATAAACCATCACCTTCATATCACTTAATCAAATTCCATTTCCATT
CAAACAAAACAACCCACCATTCTTCACCTATATCAACTACCAAGCCATTCACGTACACTTACAGA
TTGTTTTGCTTCCTTCCTAGATCCGCATTCAAAACGGTACAAAACCCTTAGATCACTAGTGTATC
TTGACATGCTAAAGTGAGGTCAACTCCTCACTAGTTTCTATCTCACTCATTCAAAAAGGCATAAA
CCATCAC
Found at i:47354 original size:17 final size:17
Alignment explanation
Indices: 47329--47364 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47319 TATGTGACGG
*
47329 TTTATTAGTCTATTACT
1 TTTACTAGTCTATTACT
*
47346 TTTACTAGTTTATTACT
1 TTTACTAGTCTATTACT
47363 TT
1 TT
47365 ACTCTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTACTAGTCTATTACT
Found at i:48643 original size:16 final size:17
Alignment explanation
Indices: 48622--48655 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48612 GAAAGAAAGA
48622 AAGAAGAA-ATGAATAG
1 AAGAAGAAGATGAATAG
48638 AAGAAGAAGATGAATAG
1 AAGAAGAAGATGAATAG
48655 A
1 A
48656 TATAAAAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.12
Consensus pattern (17 bp):
AAGAAGAAGATGAATAG
Found at i:50108 original size:21 final size:23
Alignment explanation
Indices: 50077--50129 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
50067 TGAGTAAACT
*
50077 TTTTAAATTTTAAATTTAAT-TA
1 TTTTAAATTTTAAAGTTAATATA
*
50099 TTTT-AATTTTATAGTTAATATA
1 TTTTAAATTTTAAAGTTAATATA
*
50121 TTTAAAATT
1 TTTTAAATT
50130 ACTTCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 13 0.50
22 9 0.35
23 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTAAATTTTAAAGTTAATATA
Found at i:52366 original size:23 final size:24
Alignment explanation
Indices: 52335--52381 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
52325 CGATTCATAG
52335 ATATAAATATATTTA-TTAAATAA
1 ATATAAATATATTTAGTTAAATAA
* * *
52358 ATATCAATATCTTTAGTTATATAA
1 ATATAAATATATTTAGTTAAATAA
52382 GTAGTAGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (24 bp):
ATATAAATATATTTAGTTAAATAA
Found at i:52914 original size:28 final size:26
Alignment explanation
Indices: 52875--52933 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
52865 TTCATCCTAA
**
52875 AAAATATTTTATGTTTTTATTTTTTT-
1 AAAATATTTTAT-TTTCAATTTTTTTG
52901 AAAATAGTTATTATTTTCAATTTTTTTG
1 AAAATA-TT-TTATTTTCAATTTTTTTG
52929 AAAAT
1 AAAAT
52934 TAAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.21
27 13 0.46
28 9 0.32
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (26 bp):
AAAATATTTTATTTTCAATTTTTTTG
Found at i:59648 original size:22 final size:22
Alignment explanation
Indices: 59594--59671 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
59584 CGCGACAAAC
59594 CCGTTGACTTTGACC----TGA
1 CCGTTGACTTTGACCAGTTTGA
* *
59612 CTCGTTAACTGTTGATCAGTTTGA
1 C-CGTTGACT-TTGACCAGTTTGA
*
59636 CCGTTGACTTTGACCGGTTTGA
1 CCGTTGACTTTGACCAGTTTGA
59658 CCGTTGACCTTTGA
1 CCGTTGA-CTTTGA
59672 ATTTGACCCC
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.02
19 7 0.15
20 5 0.10
22 18 0.38
23 13 0.27
24 4 0.08
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (22 bp):
CCGTTGACTTTGACCAGTTTGA
Found at i:60524 original size:26 final size:26
Alignment explanation
Indices: 60495--60554 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
60485 TTGAATTAAG
*
60495 AAAATGACTAAATACCCTTGAACTGT
1 AAAATGACAAAATACCCTTGAACTGT
* * *
60521 AAAATGACCAAAATATCCTTGGAGTGT
1 AAAATGA-CAAAATACCCTTGAACTGT
60548 -AAATGAC
1 AAAATGAC
60555 CAAGGTCACC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.03
26 13 0.45
27 15 0.52
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (26 bp):
AAAATGACAAAATACCCTTGAACTGT
Found at i:60534 original size:27 final size:27
Alignment explanation
Indices: 60495--60557 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
60485 TTGAATTAAG
*
60495 AAAATGA-CTAAATACCCTTGAACTGT
1 AAAATGACCAAAATACCCTTGAACTGT
* * *
60521 AAAATGACCAAAATATCCTTGGAGTGT
1 AAAATGACCAAAATACCCTTGAACTGT
60548 -AAATGACCAA
1 AAAATGACCAA
60558 GGTCACCCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.24
Consensus pattern (27 bp):
AAAATGACCAAAATACCCTTGAACTGT
Found at i:64986 original size:14 final size:13
Alignment explanation
Indices: 64967--65006 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
64957 TAAGATATTA
64967 TTTCCATCACCAT
1 TTTCCATCACCAT
64980 CTTTCCATCACCAT
1 -TTTCCATCACCAT
**
64994 AGTCCATCACCAT
1 TTTCCATCACCAT
65007 AGTTCATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.25, C:0.40, G:0.03, T:0.33
Consensus pattern (13 bp):
TTTCCATCACCAT
Found at i:65001 original size:13 final size:13
Alignment explanation
Indices: 64969--65017 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
64959 AGATATTATT
**
64969 TCCATCACCATCTT
1 TCCATCACCAT-AG
64983 TCCATCACCATAG
1 TCCATCACCATAG
64996 TCCATCACCATAG
1 TCCATCACCATAG
*
65009 TTCATCACC
1 TCCATCACC
65018 TTCACGACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
13 21 0.66
14 11 0.34
ACGTcount: A:0.27, C:0.41, G:0.04, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAG
Found at i:68301 original size:22 final size:22
Alignment explanation
Indices: 68275--68316 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
68265 TATTTATAGT
*
68275 TATGATGATAATATTATGAATG
1 TATGAAGATAATATTATGAATG
* *
68297 TATGAAGTTATTATTATGAA
1 TATGAAGATAATATTATGAA
68317 CCACATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (22 bp):
TATGAAGATAATATTATGAATG
Found at i:69454 original size:14 final size:14
Alignment explanation
Indices: 69435--69461 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
69425 TAAGATACTA
69435 TTTCCATCACCATC
1 TTTCCATCACCATC
69449 TTTCCATCACCAT
1 TTTCCATCACCAT
69462 AGTCCATCAC
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:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:76716 original size:15 final size:15
Alignment explanation
Indices: 76696--76732 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
76686 TCAATTATGT
*
76696 AGGCAACTTCAACCG
1 AGGCAACTTCAACAG
*
76711 AGGCAACTTTAACAG
1 AGGCAACTTCAACAG
76726 AGGCAAC
1 AGGCAAC
76733 AACAACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.14
Consensus pattern (15 bp):
AGGCAACTTCAACAG
Found at i:87823 original size:113 final size:113
Alignment explanation
Indices: 87616--87841 Score: 411
Period size: 113 Copynumber: 2.0 Consensus size: 113
87606 GTTCAATCCC
87616 TTTTATTTGTTTACAACTCTAAGTAATTATCATAATGATCCAATAGAACTTATTTAATCAAGTCG
1 TTTTATTTGTTTACAACTCTAAGTAATTATCATAATGATCCAATAGAACTTATTTAATCAAGTCG
87681 GTCAATAAAGTTAATTTGAAATGTTTTTTCTCAC-TTTTTAATTAAAAT
66 GTCAATAAAGTTAATTTGAAATG-TTTTTCTCACTTTTTTAATTAAAAT
87729 TTTTATTTGTTTACAACTCTAAGTAATTATCATAATTGATCCAATAGAACTTATTTAATCAAAGT
1 TTTTATTTGTTTACAACTCTAAGTAATTATCATAA-TGATCCAATAGAACTTATTTAATC-AAGT
87794 CGGTCAATAAAGTTAATTTGAAATG-TTTTCTCACTTTTTTAATTAAAA
64 CGGTCAATAAAGTTAATTTGAAATGTTTTTCTCACTTTTTTAATTAAAA
87842 ACTGTAGATT
Statistics
Matches: 110, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
113 44 0.40
114 37 0.34
115 29 0.26
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (113 bp):
TTTTATTTGTTTACAACTCTAAGTAATTATCATAATGATCCAATAGAACTTATTTAATCAAGTCG
GTCAATAAAGTTAATTTGAAATGTTTTTCTCACTTTTTTAATTAAAAT
Found at i:90568 original size:24 final size:24
Alignment explanation
Indices: 90541--90646 Score: 185
Period size: 24 Copynumber: 4.4 Consensus size: 24
90531 AGACCACCAA
*
90541 TTATACCTCCCTGAGAATCACGAG
1 TTATAACTCCCTGAGAATCACGAG
*
90565 TTATAACTCCCTGAGAATCATGAG
1 TTATAACTCCCTGAGAATCACGAG
*
90589 TTATAACTCCCTGAGAATCATGAG
1 TTATAACTCCCTGAGAATCACGAG
90613 TTATAACTCCCTGAGAATCACGAG
1 TTATAACTCCCTGAGAATCACGAG
90637 TTATAACTCC
1 TTATAACTCC
90647 AACAGTTGCT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 79 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (24 bp):
TTATAACTCCCTGAGAATCACGAG
Found at i:95473 original size:4 final size:4
Alignment explanation
Indices: 95464--95494 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
95454 CAATGCATGT
95464 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
95495 CATAGTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:96602 original size:23 final size:23
Alignment explanation
Indices: 96563--96609 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
96553 AAAACAACTA
*
96563 AAATGAAATAATAATATATATAG
1 AAATAAAATAATAATATATATAG
96586 AAATAAAAGTAATATATATATATA
1 AAATAAAA-TAATA-ATATATATA
96610 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (23 bp):
AAATAAAATAATAATATATATAG
Found at i:96773 original size:21 final size:21
Alignment explanation
Indices: 96748--96788 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
96738 TTTAAAAAAA
96748 TATACTATATA-ATATTATACC
1 TATAC-ATATAGATATTATACC
*
96769 TATACATATAGTTATTATAC
1 TATACATATAGATATTATAC
96789 ATGATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (21 bp):
TATACATATAGATATTATACC
Found at i:97467 original size:3 final size:3
Alignment explanation
Indices: 97459--97486 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
97449 GAATCGACCC
97459 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
97487 GTTTGGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:101267 original size:2 final size:2
Alignment explanation
Indices: 101260--101333 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
101250 TCAATCTACA
101260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101334 TTACGAAATA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101789 original size:49 final size:49
Alignment explanation
Indices: 101694--101788 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 49
101684 TTTAAAGAAT
* * *
101694 GATATTCTCCACTGCTCTTCAGGGTAGGCTATATCAAAAGAAAAAAGGA
1 GATATTCTCCACTACTCTTCAAGGTAGGCTAGATCAAAAGAAAAAAGGA
*
101743 GATATTCTCTACTACTTCTTCAAGGTAGG-TCAGATCAAAAGAAAAA
1 GATATTCTCCACTAC-TCTTCAAGGTAGGCT-AGATCAAAAGAAAAA
101789 GAATTTTCTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 14 0.35
50 26 0.65
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (49 bp):
GATATTCTCCACTACTCTTCAAGGTAGGCTAGATCAAAAGAAAAAAGGA
Found at i:104603 original size:16 final size:16
Alignment explanation
Indices: 104582--104614 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
104572 TCATCCATTT
104582 GGTTTTCTTCCCTAGG
1 GGTTTTCTTCCCTAGG
104598 GGTTTTCTTCCCTAGG
1 GGTTTTCTTCCCTAGG
104614 G
1 G
104615 ACATAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.27, T:0.42
Consensus pattern (16 bp):
GGTTTTCTTCCCTAGG
Found at i:105866 original size:84 final size:85
Alignment explanation
Indices: 105725--105892 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 85
105715 TTCAACCTGA
105725 AAGGCATCGTCTTATAGAAAAACGTGCCCCACATGGTGACAAACATCATTTTTCCATATCTTTT-
1 AAGGCATCGTCTTATAGAAAAACGTGCCCCACATGGTGACAAACATCATTTTTCCATATCTTTTG
105789 GGTGCATATTTATTTGATTG
66 GGTGCATATTTATTTGATTG
105809 AAGGCATCGTCTTATAGAAAAACGTGCCCCACATGGTGACAAACATCATTTTTCCATATCTTTTG
1 AAGGCATCGTCTTATAGAAAAACGTGCCCCACATGGTGACAAACATCATTTTTCCATATCTTTTG
105874 GGTGCATATTTATTTGATT
66 GGTGCATATTTATTTGATT
105893 ATATCTAGAG
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 64 0.77
85 19 0.23
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (85 bp):
AAGGCATCGTCTTATAGAAAAACGTGCCCCACATGGTGACAAACATCATTTTTCCATATCTTTTG
GGTGCATATTTATTTGATTG
Found at i:107184 original size:12 final size:12
Alignment explanation
Indices: 107167--107214 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
107157 GACCGATGTT
107167 AATCAAATTATG
1 AATCAAATTATG
*
107179 AATCAAATCAATGATT
1 AATCAAAT---T-ATG
107195 AATCAAATTATG
1 AATCAAATTATG
107207 AATCAAAT
1 AATCAAAT
107215 CAATGATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 18 0.60
13 1 0.03
15 1 0.03
16 10 0.33
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (12 bp):
AATCAAATTATG
Found at i:107200 original size:16 final size:16
Alignment explanation
Indices: 107179--107223 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
107169 TCAAATTATG
107179 AATCAAATCAATGATT
1 AATCAAATCAATGATT
*
107195 AATCAAAT---T-ATG
1 AATCAAATCAATGATT
107207 AATCAAATCAATGATT
1 AATCAAATCAATGATT
107223 A
1 A
107224 CAAAAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
12 10 0.43
13 1 0.04
15 1 0.04
16 11 0.48
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (16 bp):
AATCAAATCAATGATT
Found at i:107205 original size:28 final size:28
Alignment explanation
Indices: 107165--107223 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
107155 ATGACCGATG
107165 TTAATCAAATTATGAATCAAATCAATGA
1 TTAATCAAATTATGAATCAAATCAATGA
107193 TTAATCAAATTATGAATCAAATCAATGA
1 TTAATCAAATTATGAATCAAATCAATGA
107221 TTA
1 TTA
107224 CAAAAATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (28 bp):
TTAATCAAATTATGAATCAAATCAATGA
Found at i:107230 original size:28 final size:28
Alignment explanation
Indices: 107165--107231 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
107155 ATGACCGATG
*
107165 TTAATCAAATTATGAATCAAATCAATGA
1 TTAATAAAATTATGAATCAAATCAATGA
*
107193 TTAATCAAATTATGAATCAAATCAATGA
1 TTAATAAAATTATGAATCAAATCAATGA
107221 TTACA-AAAATT
1 TTA-ATAAAATT
107232 TGGTATCCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (28 bp):
TTAATAAAATTATGAATCAAATCAATGA
Found at i:125814 original size:21 final size:22
Alignment explanation
Indices: 125790--125861 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 22
125780 ATTCGTCCCG
125790 AATATATTAATATT-TTAAAAT
1 AATATATTAATATTATTAAAAT
* *
125811 AATATATTTATAATTATT--TAT
1 AATATATTAAT-ATTATTAAAAT
* *
125832 TATATTTTAA-ATTATTAAAAT
1 AATATATTAATATTATTAAAAT
125853 AATATATTA
1 AATATATTA
125862 TATAATATGT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 6 0.15
21 28 0.72
22 3 0.08
23 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATATTAATATTATTAAAAT
Found at i:125851 original size:42 final size:42
Alignment explanation
Indices: 125791--125906 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
125781 TTCGTCCCGA
*
125791 ATATATTAATATT-TTAAAATAATATATTTATAATTAT-TTATT
1 ATATTTTAA-ATTATTAAAATAATATATTTATAATTATGTT-TT
125833 ATATTTTAAATTATTAAAATAATATATTATATAA-TATGTTTT
1 ATATTTTAAATTATTAAAATAATATATT-TATAATTATGTTTT
* * *
125875 ATATTTTTAATAATT-AAAGAATATATTT-TAAT
1 ATATTTTAAATTATTAAAATAATATATTTATAAT
125907 AATATAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
39 3 0.05
40 1 0.02
41 14 0.21
42 41 0.62
43 7 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (42 bp):
ATATTTTAAATTATTAAAATAATATATTTATAATTATGTTTT
Found at i:125903 original size:21 final size:22
Alignment explanation
Indices: 125874--125918 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
125864 TAATATGTTT
125874 TATATTTTTAATAAT-TAAAGAA
1 TATATTTTTAATAATATAAA-AA
125896 TATA-TTTTAATAATATAAAAA
1 TATATTTTTAATAATATAAAAA
125917 TA
1 TA
125919 AAAATCCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATTTTTAATAATATAAAAA
Found at i:125962 original size:19 final size:19
Alignment explanation
Indices: 125929--125968 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
125919 AAAATCCTTA
*
125929 AAATATTAAATAAATTATAT
1 AAATATTAAAAAAATTA-AT
125949 AAATA-TAAAAAAATTAAT
1 AAATATTAAAAAAATTAAT
125967 AA
1 AA
125969 TTTAAATCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATTAAAAAAATTAAT
Found at i:135139 original size:27 final size:26
Alignment explanation
Indices: 135085--135143 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
135075 TTTTCTTCGA
*
135085 TATTGAAAAATAAATATTAAAATAATT
1 TATT-AAAAATAAATATAAAAATAATT
* *
135112 TATTAAAAATATATATAAATAATTATT
1 TATTAAAAATAAATATAAA-AATAATT
135139 TATTA
1 TATTA
135144 TATATATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
TATTAAAAATAAATATAAAAATAATT
Found at i:136473 original size:3 final size:3
Alignment explanation
Indices: 136465--136551 Score: 156
Period size: 3 Copynumber: 29.0 Consensus size: 3
136455 TATATATATT
* *
136465 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
136513 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
136552 ATAAATCAAT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:137036 original size:113 final size:115
Alignment explanation
Indices: 136880--137092 Score: 340
Period size: 113 Copynumber: 1.9 Consensus size: 115
136870 GGCAATGTTG
*
136880 ATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-T-
1 ATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
136943 TCCTTCTTCAGATGAGTTCTTCCCATTATGAACTTTCTCTGGAAAAGATA
66 TCCTTCTTCAGATGAGTTCTTCCCATTATGAACTTTCTCTGGAAAAGATA
* * ** * *
136993 ATCCATCAAGTGATGTATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
1 ATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
*
137058 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
66 TCCTTCTTCAGATGAGTTCTTCCCATTATGAACTT
137093 CTTCTTCTCC
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
113 55 0.61
114 1 0.01
115 34 0.38
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (115 bp):
ATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
TCCTTCTTCAGATGAGTTCTTCCCATTATGAACTTTCTCTGGAAAAGATA
Found at i:137055 original size:20 final size:20
Alignment explanation
Indices: 137032--137101 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
137022 GTTGAACAAA
137032 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
* * * **
137052 TTCTTCTCCTTCTTCAGA-TGAG
1 TTCTTCTCATT-ATGA-ACT-TC
137074 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
137094 TTCTTCTC
1 TTCTTCTC
137102 CTTCTTCAGA
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
20 19 0.53
21 6 0.17
22 11 0.31
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.50
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTC
Found at i:137079 original size:22 final size:22
Alignment explanation
Indices: 137052--137123 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
137042 TATGAACTTC
137052 TTCTTCTCCTTCTTCAGATGAG
1 TTCTTCTCCTTCTTCAGATGAG
* * * **
137074 TTCTTCTCATT-ATGA-ACT-TC
1 TTCTTCTCCTTCTTCAGA-TGAG
137094 TTCTTCTCCTTCTTCAGATGAG
1 TTCTTCTCCTTCTTCAGATGAG
137116 TTCTTCTC
1 TTCTTCTC
137124 ATTATGAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
20 11 0.31
21 6 0.17
22 19 0.53
ACGTcount: A:0.14, C:0.28, G:0.10, T:0.49
Consensus pattern (22 bp):
TTCTTCTCCTTCTTCAGATGAG
Found at i:137091 original size:42 final size:42
Alignment explanation
Indices: 137032--137133 Score: 204
Period size: 42 Copynumber: 2.4 Consensus size: 42
137022 GTTGAACAAA
137032 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAG
137074 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAG
137116 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
137134 CGAACTGGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (42 bp):
TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAG
Found at i:137111 original size:157 final size:155
Alignment explanation
Indices: 136917--137248 Score: 531
Period size: 157 Copynumber: 2.1 Consensus size: 155
136907 AAGTTGAACA
****
136917 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCCCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCCCATTATGAACTCGAAC
* *
136982 TGGAAAAGA-TAATCCATCAAGTGATGTATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATG
66 TGGAAAA-ATTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATG
137046 AACTTCTTCTTCTCCTTCTTCAGATG
130 AACTTCTTCTTCTCCTTCTTCAGATG
*
137072 AGTTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
1 AGTTCTTCTCATTATGAACTTCTTC-T-TCCTTCTTCAGATGAGTTCTTCCCATTATGAACTCGA
* *
137137 ACTGGAAAAATTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTAT
64 ACTGGAAAAATTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
* *
137202 GGAGTTCTTCTTCTCCTTCTTCAGATG
129 GAACTTCTTCTTCTCCTTCTTCAGATG
137229 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
137249 CGAACTGGAA
Statistics
Matches: 163, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
155 25 0.15
156 2 0.01
157 136 0.83
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (155 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCCCATTATGAACTCGAAC
TGGAAAAATTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCTCCTTCTTCAGATG
Found at i:137148 original size:115 final size:115
Alignment explanation
Indices: 137074--137457 Score: 727
Period size: 115 Copynumber: 3.4 Consensus size: 115
137064 TTCAGATGAG
137074 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
137139 TGGAAAAATTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAA
66 TGGAAAAATTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAA
* *
137189 TTCTTCTCATTATGGAGTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
137254 TGGAAAAATTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAA
66 TGGAAAAATTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAA
137304 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
137369 TGGAAAAATTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAA
66 TGGAAAAATTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAA
*
137419 TTCTTCTCATTATGAACTTATTC-T-TCCTTCTTCAGATGA
1 TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGA
137458 CGAGTTCTTA
Statistics
Matches: 264, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
113 15 0.06
114 1 0.00
115 248 0.94
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (115 bp):
TTCTTCTCATTATGAACTTCTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
TGGAAAAATTGATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAA
Found at i:138509 original size:115 final size:115
Alignment explanation
Indices: 138198--138512 Score: 560
Period size: 115 Copynumber: 2.7 Consensus size: 115
138188 GATCATGCAG
* * *
138198 TTCATCTTTTAATTCCAATGATTGGTTCTGTAG-TTCCTACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTAGTTTCATACCAAACCAGATCAGATAACTCAAAG
* *
138262 AACACTTCCAGAAGATGATATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACAATGAGCAAA
*
138312 TTCATCTTTCAAATCCAATGATTGGTTCTGTAGTTTCATACCAAGCCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTAGTTTCATACCAAACCAGATCAGATAACTCAAAG
138377 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACAATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACAATGAGCAAA
*
138427 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTAGTTTCATACCAAACCAGATCAGATAACTCAAAG
138492 AACACTTCCAGAAGATGCTAT
66 AACACTTCCAGAAGATGCTAT
138513 GAGCACATTC
Statistics
Matches: 192, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 31 0.16
115 161 0.84
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGTAGTTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACAATGAGCAAA
Found at i:138604 original size:83 final size:83
Alignment explanation
Indices: 138465--139216 Score: 1050
Period size: 83 Copynumber: 8.9 Consensus size: 83
138455 TGTGGTTTCA
*
138465 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
138530 AAATTCAATAACTGGTTT
66 AAATTCAATGATTGGTTT
* *
138548 TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCCTCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
138613 AAATTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
* *
138631 TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCCTCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
138696 AAATTCAATAATTGGTTT
66 AAATTCAATGATTGGTTT
* *
138714 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
138779 AAATTCAATGATTGGTTCT
66 AAATTCAATGATTGGTT-T
* *
138798 GT-CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTC
1 -TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTT
* *
138861 CAAATTCAATGATTGATCCTG
65 CAAATTCAATGATTGGT--TT
* * *
138882 T-CC-AACCAGATCAGATAACTCAAACAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
138945 AAATTCAATGATTGATTCT
66 AAATTCAATGATTGGTT-T
** *
138964 GT-CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTCATTCGCAAATTCATC-T
1 -TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-ATGAGCACATTCATCTT
139026 TCAAAATTCAATGATTGATTCTGTGGTTT
64 TC-AAATTC-A--A-TGA---T-TGGTTT
* * * *
139055 CATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTCATTAGTACATTTATCT
1 --TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-ATGAGCACATTCATCT
139120 TTCAAATTCAATGATTGGTTT
63 TTCAAATTCAATGATTGGTTT
*
139141 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
139206 AAATTCAATGA
66 AAATTCAATGA
139217 GCCACCTTCT
Statistics
Matches: 620, Mismatches: 29, Indels: 40
0.90 0.04 0.06
Matches are distributed among these distances:
81 1 0.00
83 464 0.75
84 66 0.11
85 3 0.00
86 6 0.01
87 2 0.00
88 3 0.00
90 3 0.00
91 3 0.00
92 5 0.01
93 2 0.00
94 59 0.10
95 3 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATGATTGGTTT
Found at i:139153 original size:84 final size:83
Alignment explanation
Indices: 139060--139216 Score: 287
Period size: 84 Copynumber: 1.9 Consensus size: 83
139050 GGTTTCATAT
* *
139060 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTCATTAGTACATTTATCTTTCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-ATGAGCACATTTATCTTTCAA
139125 ATTCAATGATTGGTTTTAC
65 ATTCAATGATTGGTTTTAC
139144 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTCAAA
139209 TTCAATGA
66 TTCAATGA
139217 GCCACCTTCT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 28 0.39
84 43 0.61
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTCAAA
TTCAATGATTGGTTTTAC
Found at i:139183 original size:178 final size:176
Alignment explanation
Indices: 138885--139216 Score: 499
Period size: 178 Copynumber: 1.9 Consensus size: 176
138875 GATCCTGTCC
*
138885 AACCAGATCAGATAACTCAAACAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAACAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
**
138950 CAATGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTCATTCG
66 CAATGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-ATGAG
139015 CAAATTCATC-TTCAAAATTCAATGATTGATTCTGTGGTTTCATATCA
130 CAAATTCATCTTTC-AAATTCAATGATTGATTCTGTGGTTTCATATCA
* * * * *
139062 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTCATTAGTACATTTATCTTTCAAAT
1 AACCAGATCAGATAACTCAAACAACACTTCCAGAAGATGCT-ATGAGCACATTCATCTTCCAAAT
*
139127 TCAATGATTGGTT-T-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
65 TCAATGATTGATTCTGT-CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
* *
139190 AGCACATTTATCTTTCAAATTCAATGA
128 AGCAAATTCATCTTTCAAATTCAATGA
139217 GCCACCTTCT
Statistics
Matches: 140, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
176 1 0.01
177 65 0.46
178 74 0.53
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (176 bp):
AACCAGATCAGATAACTCAAACAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
CAATGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
AAATTCATCTTTCAAATTCAATGATTGATTCTGTGGTTTCATATCA
Found at i:140090 original size:17 final size:18
Alignment explanation
Indices: 140064--140107 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
140054 CCCCCCCCCC
*
140064 TTTTTCTTCTTTTTTCT-
1 TTTTTTTTCTTTTTTCTA
140081 TTTTTTTTCTTTTTTCTA
1 TTTTTTTTCTTTTTTCTA
140099 TATTTTTTT
1 T-TTTTTTT
140108 TTCAAGCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.67
18 1 0.04
19 7 0.29
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTCTA
Found at i:147426 original size:15 final size:15
Alignment explanation
Indices: 147403--147434 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
147393 TGGAATGAAT
147403 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
147418 AATGCATGTATGCAA
1 AATGAATGTATGCAA
147433 AA
1 AA
147435 AGGTATTGAT
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:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:150748 original size:18 final size:18
Alignment explanation
Indices: 150711--150762 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
150701 AAATACTTGC
150711 AAATAAA-ATAAAACATAT
1 AAATAAATATAAAA-ATAT
*
150729 AAAT-ATTATAAAAATAAT
1 AAATAAATATAAAAAT-AT
*
150747 AAGTAAATATAAAAAT
1 AAATAAATATAAAAAT
150763 TTTGAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.11
18 15 0.54
19 10 0.36
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
AAATAAATATAAAAATAT
Found at i:151458 original size:21 final size:22
Alignment explanation
Indices: 151417--151458 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
151407 ATTGAAAAAT
151417 AAATATTAAAATAATTTATTAA
1 AAATATTAAAATAATTTATTAA
151439 AAATA-TATAAATAA-TTATTA
1 AAATATTA-AAATAATTTATTA
151459 TATATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATATTAAAATAATTTATTAA
Found at i:151507 original size:24 final size:24
Alignment explanation
Indices: 151462--151510 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
151452 ATTATTATAT
* *
151462 ATTATTTAATTATATAATAATAAA
1 ATTATTTAAATATATAAAAATAAA
151486 ATTATTTAAATATA-AACAAATAAA
1 ATTATTTAAATATATAA-AAATAAA
151510 A
1 A
151511 CAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTATTTAAATATATAAAAATAAA
Found at i:152820 original size:3 final size:3
Alignment explanation
Indices: 152812--152910 Score: 126
Period size: 3 Copynumber: 33.0 Consensus size: 3
152802 TATATATATT
* *
152812 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
152860 TAA TAT TTA TAG TAA TTA TAA TAA TAA TAA TAA TTA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
152908 TAA
1 TAA
152911 ATAAATCAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:152847 original size:27 final size:27
Alignment explanation
Indices: 152807--152910 Score: 163
Period size: 27 Copynumber: 3.8 Consensus size: 27
152797 ATATATATAT
152807 ATATTTAATAATAATAATAATAATAATA
1 ATATTT-ATAATAATAATAATAATAATA
152835 ATATTTATAATAATAATAATAATAATA
1 ATATTTATAATAATAATAATAATAATA
* *
152862 ATATTTATAGTAATTATAATAATAATA
1 ATATTTATAATAATAATAATAATAATA
* *
152889 ATAATTATTATAATAATAATAA
1 ATATTTATAATAATAATAATAA
152911 ATAAATCAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 64 0.91
28 6 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
ATATTTATAATAATAATAATAATAATA
Found at i:153472 original size:115 final size:115
Alignment explanation
Indices: 153238--153796 Score: 867
Period size: 115 Copynumber: 4.9 Consensus size: 115
153228 GGCAATGTTT
* * * * * *
153238 ATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-T-
1 ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
* **** *
153301 TCCTTCTTCAGATGAGTTCTTCCCATTATGAACTTTCTCTGGAAAAGA-TA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAA-ATTG
* * * *
153351 ATCCATCAAGTGATGTATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
1 ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
*
153416 TCCTTCTTCAGATGAGTTCTTCTCATTATGATCTCGAACTGGAAAAATTG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATTG
153466 ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
1 ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
153531 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATTG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATTG
153581 ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
1 ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
*
153646 TCATTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATTG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATTG
*
153696 ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTC-T-
1 ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
*
153759 TCCTTCTTCAGATGACGAGTTCTTCTTATTATGAACTC
66 TCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTC
153797 TACCTGGCAA
Statistics
Matches: 416, Mismatches: 24, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
113 66 0.16
114 3 0.01
115 326 0.78
116 21 0.05
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (115 bp):
ATCCATCAAGTGATGGATTTAATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATTG
Found at i:154692 original size:115 final size:115
Alignment explanation
Indices: 154519--154833 Score: 569
Period size: 115 Copynumber: 2.7 Consensus size: 115
154509 GATCATGCAG
* * * *
154519 TTCATCTTTTAATTCCAATGATTGGTTCTGTAG-TTCCTACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
154583 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
*
154633 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTTAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
*
154698 AACACTTCCAGAATATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
154748 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
154813 AACACTTCCAGAAGATGCTAT
66 AACACTTCCAGAAGATGCTAT
154834 GAGCACATTC
Statistics
Matches: 192, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 30 0.16
115 162 0.84
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:154925 original size:83 final size:83
Alignment explanation
Indices: 154786--155454 Score: 902
Period size: 83 Copynumber: 7.9 Consensus size: 83
154776 TGTGGTTTCA
*
154786 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
154851 AAATTCAATAACTGGTTT
66 AAATTCAATGATTGGTTT
* *
154869 TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCCTCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
154934 AAATTCAATAATTGGTTT
66 AAATTCAATGATTGGTTT
*
154952 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
155017 AAATTCAATGATTGGTTCT
66 AAATTCAATGATTGGTT-T
* * * *
155036 GT-CC-AGCCAGATCAGATAACTCAAACAACACTTCCAGAAGATGCTATGAGCATATTCATCTTC
1 -TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTT
* *
155099 CAAATTCAATGATTGATCCTG
65 CAAATTCAATGATTGGT--TT
* *
155120 T-CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
155183 AAATTCAATGATTGATTCT
66 AAATTCAATGATTGGTT-T
** *
155202 GT-CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTCATTCGCAAATTCATC-T
1 -TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-ATGAGCACATTCATCTT
155264 TCAAAATTCAATGATTGATTCTGTGGTTT
64 TC-AAATTC-A--A-TGA---T-TGGTTT
* * * *
155293 CATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTCATTAGTACATTTATCT
1 --TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-ATGAGCACATTCATCT
155358 TTCAAATTCAATGATTGGTTT
63 TTCAAATTCAATGATTGGTTT
*
155379 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
155444 AAATTCAATGA
66 AAATTCAATGA
155455 GCCACCTTCG
Statistics
Matches: 538, Mismatches: 28, Indels: 40
0.89 0.05 0.07
Matches are distributed among these distances:
81 1 0.00
83 382 0.71
84 66 0.12
85 3 0.01
86 6 0.01
87 2 0.00
88 3 0.01
90 3 0.01
91 3 0.01
92 5 0.01
93 2 0.00
94 59 0.11
95 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATGATTGGTTT
Found at i:155391 original size:84 final size:83
Alignment explanation
Indices: 155298--155454 Score: 287
Period size: 84 Copynumber: 1.9 Consensus size: 83
155288 GGTTTCATAT
* *
155298 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTCATTAGTACATTTATCTTTCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-ATGAGCACATTTATCTTTCAA
155363 ATTCAATGATTGGTTTTAC
65 ATTCAATGATTGGTTTTAC
155382 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTCAAA
155447 TTCAATGA
66 TTCAATGA
155455 GCCACCTTCG
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 28 0.39
84 43 0.61
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTCAAA
TTCAATGATTGGTTTTAC
Found at i:155976 original size:16 final size:16
Alignment explanation
Indices: 155940--155977 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
155930 TGAATTTTCG
155940 AAAATAAATTGAATCT
1 AAAATAAATTGAATCT
*
155956 CAAATAAATTGAA-CTT
1 AAAATAAATTGAATC-T
155972 AAAATA
1 AAAATA
155978 GATAGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATAAATTGAATCT
Found at i:163681 original size:15 final size:15
Alignment explanation
Indices: 163658--163689 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
163648 TGGAATGATT
163658 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
163673 AATGCATGTATGCAA
1 AATGAATGTATGCAA
163688 AA
1 AA
163690 AGGTATTGAT
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:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:167003 original size:18 final size:18
Alignment explanation
Indices: 166966--167017 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
166956 AAATACTTGC
166966 AAATAAA-ATAAAACATAT
1 AAATAAATATAAAA-ATAT
*
166984 AAAT-ATTATAAAAATAAT
1 AAATAAATATAAAAAT-AT
*
167002 AAGTAAATATAAAAAT
1 AAATAAATATAAAAAT
167018 TTTGAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.11
18 15 0.54
19 10 0.36
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
AAATAAATATAAAAATAT
Found at i:167717 original size:27 final size:26
Alignment explanation
Indices: 167663--167721 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
167653 TTTTCTTCGA
*
167663 TATTGAAAAATAAATATTAAAATAATT
1 TATT-AAAAATAAATATAAAAATAATT
* *
167690 TATTAAAAATATATATAAATAATTATT
1 TATTAAAAATAAATATAAA-AATAATT
167717 TATTA
1 TATTA
167722 TAATTATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
TATTAAAAATAAATATAAAAATAATT
Found at i:167726 original size:13 final size:13
Alignment explanation
Indices: 167708--167732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167698 ATATATATAA
167708 ATAATTATTTATT
1 ATAATTATTTATT
167721 ATAATTATTTAT
1 ATAATTATTTAT
167733 AATTATATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATAATTATTTATT
Found at i:169094 original size:3 final size:3
Alignment explanation
Indices: 169086--169178 Score: 123
Period size: 3 Copynumber: 31.0 Consensus size: 3
169076 TATATATATT
* * *
169086 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
169134 TTA TAG TAA TTA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
169179 ATAAATCAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:169189 original size:15 final size:14
Alignment explanation
Indices: 169087--169189 Score: 58
Period size: 15 Copynumber: 7.5 Consensus size: 14
169077 ATATATATTT
169087 AATAATAAT-AAT-
1 AATAATAATAAATA
**
169099 AATAATAATATTTA
1 AATAATAATAAATA
169113 TAATAATAAT-AAT-
1 -AATAATAATAAATA
**
169126 AATAAT-ATTTATA
1 AATAATAATAAATA
*
169139 GTAATTATAAT-AAT-
1 --AATAATAATAAATA
*
169153 AATAATAATAATTA
1 AATAATAATAAATA
169167 TAATAATAATAAATA
1 -AATAATAATAAATA
169182 AATCAATA
1 AAT-AATA
169190 TGGGTAAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
11 2 0.03
12 25 0.36
13 3 0.04
14 4 0.06
15 33 0.48
16 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:177916 original size:21 final size:20
Alignment explanation
Indices: 177892--178076 Score: 64
Period size: 20 Copynumber: 9.0 Consensus size: 20
177882 TATCGTAAAT
177892 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-GTTGAAAA
* ** **
177913 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATGTTGAAAA
* ** **
177933 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATGTTGAAAA
*
177953 TTGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-GTTGAAAA
* * * ***
177974 GCGCGTTGCGATTTTCCATTT
1 TCGCGTTGCGATGTT-GAAAA
* ** **
177995 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATGTTGAAAA
* * ** **
178015 TCGCATTGCGATTTTCCATT
1 TCGCGTTGCGATGTTGAAAA
*
178035 TTGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-GTTGAAAA
178056 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-GTTGAAAA
178077 ACGCACGCGT
Statistics
Matches: 128, Mismatches: 33, Indels: 6
0.77 0.20 0.04
Matches are distributed among these distances:
20 65 0.51
21 63 0.49
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATGTTGAAAA
Found at i:177938 original size:20 final size:20
Alignment explanation
Indices: 177913--178046 Score: 151
Period size: 20 Copynumber: 6.6 Consensus size: 20
177903 TAGTTGAAAA
*
177913 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
177933 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
177953 TTGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
177974 GCGCGTTGCGATTTTCCATTT
1 TCGCGTTGCGATTTTCCA-TT
*
177995 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
*
178015 TCGCATTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
178035 TTGCGTTGCGAT
1 TCGCGTTGCGAT
178047 AGTTGAAAAT
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
20 63 0.68
21 29 0.32
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:177979 original size:41 final size:41
Alignment explanation
Indices: 177933--178067 Score: 191
Period size: 41 Copynumber: 3.3 Consensus size: 41
177923 ATTTTTCATT
177933 TCGCGTTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAA
* * ** **
177974 GCGCGTTGCGATTTTCCATTTTCGCGTTGCGAT-TTTTCATT
1 TCGCGTTGCGATTTTCCATTTT-GCGTTGCGATAGTTGAAAA
*
178015 TCGCATTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAA
178056 TCGCGTTGCGAT
1 TCGCGTTGCGAT
178068 AGTTGAAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 10 0.13
41 58 0.74
42 10 0.13
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAA
Found at i:177994 original size:61 final size:62
Alignment explanation
Indices: 177891--178026 Score: 220
Period size: 61 Copynumber: 2.2 Consensus size: 62
177881 GTATCGTAAA
* *
177891 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCA-TTTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAAGCGCGTTGCGATTTTCCATTTTCGCGTTGCGATTTTCCAT
* *
177952 TTTGCGTTGCGATAGTTGAAAAGCGCGTTGCGATTTTCCATTTTCGCGTTGCGATTTTTCAT
1 TTCGCGTTGCGATAGTTGAAAAGCGCGTTGCGATTTTCCATTTTCGCGTTGCGATTTTCCAT
*
178014 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
178027 TTTCCATTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
61 37 0.54
62 31 0.46
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (62 bp):
TTCGCGTTGCGATAGTTGAAAAGCGCGTTGCGATTTTCCATTTTCGCGTTGCGATTTTCCAT
Found at i:178002 original size:82 final size:82
Alignment explanation
Indices: 177913--178067 Score: 292
Period size: 82 Copynumber: 1.9 Consensus size: 82
177903 TAGTTGAAAA
*
177913 TCGCGTTGCGATTTTTCATTTCGCGTTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAAGCGC
1 TCGCGTTGCGATTTTTCATTTCGCATTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAAGCGC
177978 GTTGCGATTTTCCATTT
66 GTTGCGATTTTCCATTT
*
177995 TCGCGTTGCGATTTTTCATTTCGCATTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAATCGC
1 TCGCGTTGCGATTTTTCATTTCGCATTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAAGCGC
178060 GTTGCGAT
66 GTTGCGAT
178068 AGTTGAAAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.42
Consensus pattern (82 bp):
TCGCGTTGCGATTTTTCATTTCGCATTGCGATTTTCCATTTTGCGTTGCGATAGTTGAAAAGCGC
GTTGCGATTTTCCATTT
Found at i:178095 original size:25 final size:21
Alignment explanation
Indices: 178037--178080 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
178027 TTTCCATTTT
*
178037 GCGTTGCGATAGTTGAAAATC
1 GCGTTGCGATAGTTGAAAAAC
178058 GCGTTGCGATAGTTGAAAAAC
1 GCGTTGCGATAGTTGAAAAAC
178079 GC
1 GC
178081 ACGCGTTGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (21 bp):
GCGTTGCGATAGTTGAAAAAC
Found at i:178147 original size:41 final size:41
Alignment explanation
Indices: 178084--178177 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
178074 AAAACGCACG
* * *
178084 CGTTGCGATAGTCTACAATTGTCGTTGTGATTTTTCAAATT
1 CGTTGCGATAGTCTACAATTGTCATTGCGATTTTCCAAATT
* *
178125 TGTTGCGATAGTCTACAGTTGTCATTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAATTGTCATTGCGATTTTCCAAATT
178166 CGTTGCGATAGT
1 CGTTGCGATAGT
178178 TAAAAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.41
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAATTGTCATTGCGATTTTCCAAATT
Found at i:178266 original size:6 final size:6
Alignment explanation
Indices: 178255--178291 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
178245 GACACGTATT
178255 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
178292 TCTGAGACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:178847 original size:6 final size:6
Alignment explanation
Indices: 178836--178868 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
178826 TCTCGTCTCG
178836 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
178869 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:178996 original size:21 final size:21
Alignment explanation
Indices: 178970--179023 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
178960 GAAATGAAAA
178970 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
178991 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
179012 ATCGCAACGCGA
1 ATCGCAACGCGA
179024 AATGCAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:179031 original size:21 final size:21
Alignment explanation
Indices: 178946--179031 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
178936 TTTTTTTTTT
178946 AACTATCGCAACGCGAAATG-
1 AACTATCGCAACGCGAAATGC
** ** *
178966 AAAAATCGCAACGCGATTTTC
1 AACTATCGCAACGCGAAATGC
** *
178987 AACTATCGCAACGCGATTTTC
1 AACTATCGCAACGCGAAATGC
179008 AACTATCGCAACGCGAAATGC
1 AACTATCGCAACGCGAAATGC
179029 AAC
1 AAC
179032 ACGAATTTGC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 15 0.27
21 40 0.73
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (21 bp):
AACTATCGCAACGCGAAATGC
Found at i:179429 original size:21 final size:21
Alignment explanation
Indices: 179405--179450 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
179395 GCCCCGAGCC
*
179405 CACCACTCAAATCCTCCTCAT
1 CACCACCCAAATCCTCCTCAT
179426 CACCACCCAAATCCTCCTCAT
1 CACCACCCAAATCCTCCTCAT
179447 CACC
1 CACC
179451 CCCGTTCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.52, G:0.00, T:0.20
Consensus pattern (21 bp):
CACCACCCAAATCCTCCTCAT
Found at i:187474 original size:33 final size:33
Alignment explanation
Indices: 187427--187491 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
187417 ATCCCAAATG
* *
187427 CAATAGGATTGTTAGTGTAGAGCGAAGTTCCAA
1 CAATAGGATAGTTAGTGTAGAACGAAGTTCCAA
*
187460 CAATAGGATAGTTAGTGTGGAACGAAGTTCCA
1 CAATAGGATAGTTAGTGTAGAACGAAGTTCCA
187492 GCCTGATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (33 bp):
CAATAGGATAGTTAGTGTAGAACGAAGTTCCAA
Found at i:189848 original size:20 final size:20
Alignment explanation
Indices: 189823--189865 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
189813 ATTCTACAAA
189823 ATGGGTTCATGAAAATTCAT
1 ATGGGTTCATGAAAATTCAT
189843 ATGGGTTCATGAAAATTCAT
1 ATGGGTTCATGAAAATTCAT
189863 ATG
1 ATG
189866 AGTACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (20 bp):
ATGGGTTCATGAAAATTCAT
Found at i:191633 original size:20 final size:20
Alignment explanation
Indices: 191608--191647 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
191598 TGGGTGACCT
*
191608 GATCCGATCCTAGGTATCAC
1 GATCCGATCCGAGGTATCAC
191628 GATCCGATCCGAGGTATCAC
1 GATCCGATCCGAGGTATCAC
191648 ATTAGGGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (20 bp):
GATCCGATCCGAGGTATCAC
Found at i:193790 original size:20 final size:20
Alignment explanation
Indices: 193760--193814 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
193750 GTCTTGACTA
* * *
193760 GTTCAAGTTGACTCGATTTG
1 GTTCGAGTTGACTCAATCTG
*
193780 GTTTGAGTTGACTCAATCTG
1 GTTCGAGTTGACTCAATCTG
*
193800 GTTCGAGTTAACTCA
1 GTTCGAGTTGACTCA
193815 GTCCGGTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTCGAGTTGACTCAATCTG
Found at i:193822 original size:20 final size:20
Alignment explanation
Indices: 193779--193823 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
193769 GACTCGATTT
* * *
193779 GGTTTGAGTTGACTCAATCT
1 GGTTCGAGTTAACTCAATCC
*
193799 GGTTCGAGTTAACTCAGTCC
1 GGTTCGAGTTAACTCAATCC
193819 GGTTC
1 GGTTC
193824 TAGAAGGTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.36
Consensus pattern (20 bp):
GGTTCGAGTTAACTCAATCC
Found at i:196463 original size:20 final size:20
Alignment explanation
Indices: 196415--196467 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
196405 TTATTTAATT
196415 AATT-CAAA-TTA-AATATG
1 AATTACAAACTTATAATATG
*
196432 CATTA-AAGACTTATAATATG
1 AATTACAA-ACTTATAATATG
196452 AATTACAAACTT-TAAT
1 AATTACAAACTTATAAT
196468 GTTTATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 7 0.24
20 14 0.48
21 2 0.07
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (20 bp):
AATTACAAACTTATAATATG
Found at i:200053 original size:24 final size:24
Alignment explanation
Indices: 200026--200074 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
200016 TATATCACAA
*
200026 ATCAAAACATAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* *
200050 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
200074 A
1 A
200075 ACAGATTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAAATCAGGTCAAGT
Found at i:200158 original size:24 final size:24
Alignment explanation
Indices: 200043--200158 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
200033 CATAAATCAG
* *
200043 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* * *
200067 GTCAAGTAACAGATTAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
200091 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
200115 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
200139 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
200159 TCAAATCGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 5 0.06
24 75 0.91
25 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:200174 original size:48 final size:48
Alignment explanation
Indices: 200076--200176 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
200066 GGTCAAGTAA
* ** *
200076 CAGATTAGAATCCAAGTCAAGTATCAGATCAGAATCCATGTCAGATAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAAT
* *
200124 CAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATC-GAAAAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG-AAAT
200172 CAGAT
1 CAGAT
200177 AAAATATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (48 bp):
CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAAT
Found at i:201152 original size:26 final size:26
Alignment explanation
Indices: 201123--201175 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
201113 TCAGTTTTAT
*
201123 TCCATTCATTTCAGAGCTCGAGGATA
1 TCCAATCATTTCAGAGCTCGAGGATA
* * *
201149 TCCAATCATTTCTGAGCTTGATGATA
1 TCCAATCATTTCAGAGCTCGAGGATA
201175 T
1 T
201176 TCTTGGGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (26 bp):
TCCAATCATTTCAGAGCTCGAGGATA
Found at i:204672 original size:9 final size:9
Alignment explanation
Indices: 204658--204689 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
204648 AAATATCAAG
204658 TTATAATTT
1 TTATAATTT
204667 TTATAATTTT
1 TTATAA-TTT
204677 TTATAATTT
1 TTATAATTT
204686 TTAT
1 TTAT
204690 GAAATCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATAATTT
Found at i:204679 original size:10 final size:10
Alignment explanation
Indices: 204658--204687 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
204648 AAATATCAAG
204658 TTATAA-TTT
1 TTATAATTTT
204667 TTATAATTTT
1 TTATAATTTT
204677 TTATAATTTT
1 TTATAATTTT
204687 T
1 T
204688 ATGAAATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATAATTTT
Found at i:205613 original size:13 final size:13
Alignment explanation
Indices: 205595--205619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
205585 CGATTTATTA
205595 TATTTTTTATTTT
1 TATTTTTTATTTT
205608 TATTTTTTATTT
1 TATTTTTTATTT
205620 AATTGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:207632 original size:258 final size:259
Alignment explanation
Indices: 207115--207666 Score: 621
Period size: 258 Copynumber: 2.1 Consensus size: 259
207105 AGACTTTTAA
* * **
207115 TTTCCCACGATAAGAAAATAAGTTAAAAGCTTAAAATGTTATGAATATATATAAAAAATATTGTT
1 TTTCCCACGACAAGAAAATAAGTTAAAAGCTTAAAATGTCATGAATATATATAAAAAATACAGTT
* * * *
207180 GCGCCTAATAATATCAGTTCAACAAGAAATAGGTTGCAATTTGTAATGTTAATATTTTATTAATA
66 ACACCCAATAATATCAGTCCAACAAGAAATAGGTTGCAATTTGTAATGTTAATATTTTATTAATA
* ** * * * * **
207245 AAATAGGTTGCACTCATGAATGTCATGATTCATTAAGAATCATGTTGCAATATGAAATTTTACTA
131 AAATAGGTTGCACCCAAAAATATCATGATTAACTAAGAAACATGTTGCAATATGAAATAATACTA
* * * *** * *
207310 TTTTTAATAATAAAATGGGTTGTGCCTAAATATTATCAAAGTTTAATCTGATGGAGCCTTAGAG
196 TTTTTAATAATAAAATGAGTTGTACCTAAATATTATCAAAGTCTAAGAAGATGAAGCATTAGAG
* * * * * *
207374 TTTCCCATGACGAG-AAATAAATTAAAAGCCTAAAATGTCATGAATATGTAT-AATAATACAGTT
1 TTTCCCACGACAAGAAAATAAGTTAAAAGCTTAAAATGTCATGAATATATATAAAAAATACAGTT
* * ** **
207437 ACACCCAATAATATCATGTCCAATAAGAAATGGGTTGTGATTTGTGTTG-TAAT-TTTT-TTAAT
66 ACACCCAATAATATCA-GTCCAACAAGAAATAGGTTGCAATTTGTAATGTTAATATTTTATTAAT
* * * * **
207499 AAAATAGGTTGCTCCCAAAAATATTATGGTTAACTAAGAAAACATGTTGCAATCTTCAATAATAC
130 AAAATAGGTTGCACCCAAAAATATCATGATTAACTAAG-AAACATGTTGCAATATGAAATAATAC
207564 TATTTTTAATAATAAAATGAGTT-TCACCTAAAATATTATCAAAAGTCTAAGAAGATGAAGCATT
194 TATTTTTAATAATAAAATGAGTTGT-ACCT-AAATATTATC-AAAGTCTAAGAAGATGAAGCATT
207628 AGAG
256 AGAG
*
207632 TTTCCCACGATAAGAAAATAAGTTAAAAGCTTAAA
1 TTTCCCACGACAAGAAAATAAGTTAAAAGCTTAAA
207667 TTGTTATAAT
Statistics
Matches: 239, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
255 35 0.15
256 49 0.21
257 36 0.15
258 90 0.38
259 29 0.12
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (259 bp):
TTTCCCACGACAAGAAAATAAGTTAAAAGCTTAAAATGTCATGAATATATATAAAAAATACAGTT
ACACCCAATAATATCAGTCCAACAAGAAATAGGTTGCAATTTGTAATGTTAATATTTTATTAATA
AAATAGGTTGCACCCAAAAATATCATGATTAACTAAGAAACATGTTGCAATATGAAATAATACTA
TTTTTAATAATAAAATGAGTTGTACCTAAATATTATCAAAGTCTAAGAAGATGAAGCATTAGAG
Found at i:208376 original size:34 final size:37
Alignment explanation
Indices: 208332--208433 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
208322 TTTCGTCCTA
208332 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
208367 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
208402 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
208434 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:208457 original size:37 final size:37
Alignment explanation
Indices: 208329--208459 Score: 171
Period size: 37 Copynumber: 3.6 Consensus size: 37
208319 ATTTTTCGTC
208329 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
208366 -T--TAGGATTCAAACTCCTAAAAATAGGATA-ACATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGA-ATT
* * *
208400 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
208437 CTACTAAGATTTAAATTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
208460 GATAAGATCC
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 31 0.37
35 1 0.01
36 1 0.01
37 48 0.58
38 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:208843 original size:14 final size:13
Alignment explanation
Indices: 208824--208862 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
208814 TATATGGATA
208824 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
208838 TTTTATTATTTAT
1 TTTTATTATTTAT
208851 GTTATTATTATT
1 -TT-TTATTATT
208863 ATATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:208861 original size:18 final size:17
Alignment explanation
Indices: 208822--208864 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
208812 ATTATATGGA
208822 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
* *
208838 TTTTATTATTTATGTTAT
1 TATTATTATTCAT-TTAT
208856 TATTATTAT
1 TATTATTAT
208865 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:209281 original size:2 final size:2
Alignment explanation
Indices: 209276--209310 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
209266 TACTTTGATG
209276 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
209311 TTCCTTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:209384 original size:9 final size:9
Alignment explanation
Indices: 209363--209433 Score: 76
Period size: 9 Copynumber: 7.9 Consensus size: 9
209353 TTTTTTTTCC
209363 TTTATCTTA-
1 TTTAT-TTAT
209372 TTTATTTAT
1 TTTATTTAT
209381 TTTATTTAT
1 TTTATTTAT
209390 TTTATTTAT
1 TTTATTTAT
209399 TTTATTT-T
1 TTTATTTAT
* *
209407 TCCCT-TTTAC
1 T--TTATTTAT
209417 TTTATTTAT
1 TTTATTTAT
209426 TTTATTTA
1 TTTATTTA
209434 CCTTGTTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.11
9 45 0.85
10 2 0.04
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTATTTAT
Found at i:209420 original size:5 final size:4
Alignment explanation
Indices: 209363--209405 Score: 50
Period size: 4 Copynumber: 9.8 Consensus size: 4
209353 TTTTTTTTCC
209363 TTTA TCTTA TTTA TTTA TTTTA TTTA TTTTA TTTA TTTTA TTT
1 TTTA T-TTA TTTA TTTA -TTTA TTTA -TTTA TTTA -TTTA TTT
209406 TTCCCTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 19 0.54
5 16 0.46
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:209434 original size:18 final size:18
Alignment explanation
Indices: 209342--209434 Score: 77
Period size: 18 Copynumber: 5.2 Consensus size: 18
209332 TATATAATTA
* *
209342 TTACTTTA-CTATTTTTT
1 TTACTTTATTTATTTTAT
*
209359 TTCCTTTATCTTA-TTTAT
1 TTACTTTAT-TTATTTTAT
*
209377 TTATTTTATTTATTTTAT
1 TTACTTTATTTATTTTAT
* *
209395 TTATTTTATTT-TTCCCT-T
1 TTACTTTATTTATT--TTAT
209413 TTACTTTATTTATTTTAT
1 TTACTTTATTTATTTTAT
209431 TTAC
1 TTAC
209435 CTTGTTTATC
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
17 13 0.21
18 43 0.70
19 5 0.08
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (18 bp):
TTACTTTATTTATTTTAT
Found at i:211261 original size:8 final size:8
Alignment explanation
Indices: 211248--211283 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
211238 AAACATTTCA
*
211248 TGCATTCT
1 TGCATTTT
211256 TGCA-TTT
1 TGCATTTT
211263 TGCATTTT
1 TGCATTTT
211271 TGCATTTT
1 TGCATTTT
211279 TGCAT
1 TGCAT
211284 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (8 bp):
TGCATTTT
Found at i:211268 original size:15 final size:16
Alignment explanation
Indices: 211248--211283 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
211238 AAACATTTCA
211248 TGCATTCTTGCA-TTT
1 TGCATTCTTGCATTTT
*
211263 TGCATTTTTGCATTTT
1 TGCATTCTTGCATTTT
211279 TGCAT
1 TGCAT
211284 CTTCATCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (16 bp):
TGCATTCTTGCATTTT
Found at i:212470 original size:16 final size:15
Alignment explanation
Indices: 212451--212509 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 15
212441 GGGCAAAAAC
212451 CAAAAAAGAAAAGAA
1 CAAAAAAGAAAAGAA
212466 GCAAAAAAGAAGAA-AA
1 -CAAAAAAGAA-AAGAA
*
212482 CAAAAAAAAGAAAGAA
1 CAAAAAAGA-AAAGAA
*
212498 CAAAAAATAAAA
1 CAAAAAAGAAAA
212510 AAAGGGACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 13 0.34
16 23 0.61
17 2 0.05
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.02
Consensus pattern (15 bp):
CAAAAAAGAAAAGAA
Found at i:212497 original size:21 final size:22
Alignment explanation
Indices: 212471--212513 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
212461 AAGAAGCAAA
*
212471 AAAGAAGAAAACAA-AA-AAAAG
1 AAAGAACAAAA-AATAAAAAAAG
212492 AAAGAACAAAAAATAAAAAAAG
1 AAAGAACAAAAAATAAAAAAAG
212514 GGACAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 12 0.63
22 5 0.26
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAGAACAAAAAATAAAAAAAG
Found at i:212513 original size:18 final size:17
Alignment explanation
Indices: 212452--212523 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
212442 GGCAAAAACC
*
212452 AAAAAAGAAAAGAAGC-A
1 AAAAAAAAAAAGAA-CAA
* *
212469 AAAAAGAAGAA-AAC-A
1 AAAAAAAAAAAGAACAA
*
212484 AAAAAAAGAAAGAACAA
1 AAAAAAAAAAAGAACAA
*
212501 AAAATAAAAAAAGGGACAA
1 AAAA-AAAAAAA-GAACAA
212520 AAAA
1 AAAA
212524 CACATGCAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 10 0.23
16 5 0.12
17 13 0.30
18 6 0.14
19 9 0.21
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAAAGAACAA
Found at i:213142 original size:29 final size:29
Alignment explanation
Indices: 213100--213162 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
213090 CCAGTAGAGA
213100 AGCATGCAAGCTACCCCATCAATCCTTTG
1 AGCATGCAAGCTACCCCATCAATCCTTTG
213129 AGCATGCAAGCTACCCCATCAATCCTTTG
1 AGCATGCAAGCTACCCCATCAATCCTTTG
213158 AGCAT
1 AGCAT
213163 CAAAGGCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AGCATGCAAGCTACCCCATCAATCCTTTG
Found at i:214137 original size:71 final size:73
Alignment explanation
Indices: 214052--214237 Score: 211
Period size: 72 Copynumber: 2.6 Consensus size: 73
214042 ATTTTTCTTA
* * * * ** *
214052 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTTTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
214114 TTTCCCTTG
65 TTTCCCTTG
* *
214123 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
*
214187 TTCCCTTT
66 TTCCCTTG
* * *
214195 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
214238 ATATTTGAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
70 8 0.08
71 25 0.25
72 67 0.67
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:214142 original size:36 final size:36
Alignment explanation
Indices: 214094--214237 Score: 234
Period size: 36 Copynumber: 4.0 Consensus size: 36
214084 ACTAGAAGAG
*
214094 TTTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
214130 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * *
214166 TTTCGTCTATCTTGAGACAGTTTCCCTTTAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
214202 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
214238 ATATTTGAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 97 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:215202 original size:105 final size:105
Alignment explanation
Indices: 214978--215850 Score: 1335
Period size: 105 Copynumber: 8.3 Consensus size: 105
214968 GGGCCATCTG
* * * * * *
214978 CAATTTCAACTCCACGAA-GGAGGATATCGTGGCACTCGAGGCAACACAAGTTCAACTTCACAAC
1 CAATTTCAACTTCAC-AACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGAC
* *
215042 GAAGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
62 GAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGC
*
215087 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
215152 GGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGC
66 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
* * *
215192 CAATTTCAACTTCACAATGAAGGATATTGGACTTCAGATAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
215257 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
66 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
215297 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
215362 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
66 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
*
215402 CAATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
215467 GGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGC
66 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
* *
215507 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCGACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
215572 GGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGC
66 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
215612 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* **
215677 GGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCATATT
66 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
* * *
215712 CAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * * ** *
215777 GGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGC
66 GGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGC
* *
215818 CAATTTCAACTTCACGACGGAGGATATTGGACT
1 CAATTTCAACTTCACAACGAAGGATATTGGACT
215851 TGGAACAATG
Statistics
Matches: 713, Mismatches: 44, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
100 82 0.12
101 3 0.00
102 3 0.00
103 4 0.01
104 3 0.00
105 511 0.72
106 80 0.11
107 3 0.00
108 2 0.00
109 22 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGC
Found at i:216483 original size:37 final size:35
Alignment explanation
Indices: 216398--216534 Score: 170
Period size: 37 Copynumber: 3.8 Consensus size: 35
216388 TTTCGTCCTA
216398 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
216433 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
216468 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
216505 ACTAAGATTTAAATTCCTAAAGATAGGATA
1 -CTAGGATTCAAACTCCTAAAAATAGGATA
216535 CACAAGCACT
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.01
34 29 0.32
35 3 0.03
36 2 0.02
37 54 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:216914 original size:12 final size:12
Alignment explanation
Indices: 216891--216925 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
216881 TTATATGGAT
216891 TTTTATTCATTTA
1 TTTTATT-ATTTA
216904 TTTTATTATTTA
1 TTTTATTATTTA
*
216916 TGTTATTATT
1 TTTTATTATT
216926 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:216932 original size:2 final size:2
Alignment explanation
Indices: 216925--216949 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
216915 ATGTTATTAT
216925 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
216950 CTTTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:217419 original size:9 final size:9
Alignment explanation
Indices: 217398--217459 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
217388 TTTTTTTTCC
217398 TTTATCTTA-
1 TTTAT-TTAT
217407 TTTATTTAT
1 TTTATTTAT
217416 TTTATTTAT
1 TTTATTTAT
217425 TTTATTT-T
1 TTTATTTAT
* *
217433 TCCCT-TTTAC
1 T--TTATTTAT
217443 TTTATTTAT
1 TTTATTTAT
217452 TTTATTTA
1 TTTATTTA
217460 CCTTGTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 6 0.14
9 36 0.82
10 2 0.05
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTATTTAT
Done.