Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 81 of 147
Found at i:14990808 original size:370 final size:368
Alignment explanation
Indices: 14990096--14990914 Score: 1325
Period size: 370 Copynumber: 2.2 Consensus size: 368
14990086 TTTGGCCGAA
* * *
14990096 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
* *
14990160 -ACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAAATAAATTGCTCC
66 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATTGCTCC
* *
14990224 TCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTG
131 TCTAAACAGAGGCA-CACGACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTG
*
14990289 AAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAAC
195 AAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTTTGGAAAAATAAATTGCTCCTCTAAAC
* *
14990354 AGAGGCAACGAACTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTA
259 AGAGGCAACGAACTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAATA
*
14990419 AATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
323 AATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATT
14990465 GCTCCTCTAAACAGAGGCACCACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
*
14990529 GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTC
65 GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATTGCTC
14990594 CTCTAAACAGAGGCA-ACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTT
130 CTCTAAACAGAGGCACACG-ACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTT
*
14990658 GAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAA
194 GAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG-ACTTTGGAAAAATAAATTGCTCCTCTAAA
14990721 CAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA-ACGAACTTTGGAA
258 CAGAGGCA--ACGAAC-TTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACACG-ACTTT-GAA
*
14990784 AAATAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGAAAAAATAAATT
318 AAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATT
*
14990835 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-TAC-G
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
*
14990898 AACTTGGAAAAGTAAAT
66 AACTTTGAAAAGTAAAT
14990915 ACTCCTAGAC
Statistics
Matches: 423, Mismatches: 16, Indels: 23
0.92 0.03 0.05
Matches are distributed among these distances:
368 53 0.13
369 44 0.10
370 252 0.60
371 74 0.17
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (368 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATTGCTCC
TCTAAACAGAGGCACACGACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGA
AAAGTAAATTGCTCCTCTAAACAGAGGCACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAG
AGGCAACGAACTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACACGACTTTGAAAAATAAAT
TGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATT
Found at i:14992125 original size:11 final size:11
Alignment explanation
Indices: 14992109--14992168 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
14992099 TATTTTCTCT
14992109 TTTTTTCCTTC
1 TTTTTTCCTTC
*
14992120 TTTTTT-TTTC
1 TTTTTTCCTTC
14992130 ATTTTTT-CTT-
1 -TTTTTTCCTTC
*
14992140 TTTTTTCCTTT
1 TTTTTTCCTTC
* *
14992151 TTTTTTCTTTT
1 TTTTTTCCTTC
14992162 TTTTTTC
1 TTTTTTC
14992169 GTCATTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
9 6 0.14
10 6 0.14
11 31 0.72
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCCTTC
Found at i:14992128 original size:30 final size:31
Alignment explanation
Indices: 14992092--14992181 Score: 101
Period size: 30 Copynumber: 2.8 Consensus size: 31
14992082 TTTGAATCTC
14992092 TTTTTTTTATTTTCTC-TTTTTTTCCTTCTT
1 TTTTTTTTATTTTCTCTTTTTTTTCCTTCTT
* * *
14992122 TTTTTTTCATTTTTTCTTTTTTTTCCTTTTTT
1 TTTTTTTTATTTTCTCTTTTTTTTCC-TTCTT
*
14992154 TTTCTTTTTTTTTTCGTCATTTTTTTTC
1 TTT-TTTTTATTTTC-TC-TTTTTTTTC
14992182 ATCCATTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 14 0.29
31 9 0.18
32 7 0.14
33 8 0.16
34 2 0.04
35 9 0.18
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.81
Consensus pattern (31 bp):
TTTTTTTTATTTTCTCTTTTTTTTCCTTCTT
Found at i:14992141 original size:14 final size:14
Alignment explanation
Indices: 14992090--14992180 Score: 59
Period size: 14 Copynumber: 6.6 Consensus size: 14
14992080 AATTTGAATC
*
14992090 TCTTTTTTTTAT-TT
1 TCTTTTTTTT-TCAT
* *
14992104 TCTCTTTTTTTCCT
1 TCTTTTTTTTTCAT
14992118 TCTTTTTTTTTCAT
1 TCTTTTTTTTTCAT
*
14992132 T-TTTTCTTTTT-TT
1 TCTTTT-TTTTTCAT
14992145 TCCTTTTTTTTTC-T
1 T-CTTTTTTTTTCAT
14992159 T-TTTTTTTTCGTCAT
1 TCTTTTTTTT--TCAT
14992174 T-TTTTTT
1 TCTTTTTT
14992181 CATCCATTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
12 8 0.12
13 7 0.11
14 37 0.58
15 12 0.19
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.81
Consensus pattern (14 bp):
TCTTTTTTTTTCAT
Found at i:14992163 original size:10 final size:10
Alignment explanation
Indices: 14992092--14992166 Score: 75
Period size: 10 Copynumber: 7.6 Consensus size: 10
14992082 TTTGAATCTC
*
14992092 TTTTTT-TTA
1 TTTTTTCTTT
*
14992101 TTTTCTCTTT
1 TTTTTTCTTT
14992111 TTTTCCTTCTTT
1 TTTT--TTCTTT
*
14992123 TTTTTTC--A
1 TTTTTTCTTT
14992131 TTTTTTCTTT
1 TTTTTTCTTT
*
14992141 TTTTTCCTTT
1 TTTTTTCTTT
14992151 TTTTTTCTTT
1 TTTTTTCTTT
14992161 TTTTTT
1 TTTTTT
14992167 TCGTCATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
8 7 0.13
9 5 0.09
10 33 0.61
12 9 0.17
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:14992166 original size:31 final size:32
Alignment explanation
Indices: 14992092--14992179 Score: 108
Period size: 31 Copynumber: 2.7 Consensus size: 32
14992082 TTTGAATCTC
*
14992092 TTTTTTTTATTTTCTCTTTTTTTCCTTCTTTT
1 TTTTTTTTTTTTTCTCTTTTTTTCCTTCTTTT
**
14992124 TTTTTCATTTTTTCT-TTTTTTTCCTT-TTTT
1 TTTTTTTTTTTTTCTCTTTTTTTCCTTCTTTT
14992154 TTTCTTTTTTTTTTCGTCATTTTTTT
1 TTT-TTTTTTTTTTC-TC-TTTTTTT
14992180 TCATCCATTG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
30 7 0.15
31 20 0.43
32 13 0.28
34 7 0.15
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.82
Consensus pattern (32 bp):
TTTTTTTTTTTTTCTCTTTTTTTCCTTCTTTT
Found at i:14992167 original size:42 final size:40
Alignment explanation
Indices: 14992092--14992180 Score: 106
Period size: 42 Copynumber: 2.2 Consensus size: 40
14992082 TTTGAATCTC
**
14992092 TTTTTTTTATTTTCTCTTTTTTTCCTTCTTTTTTTTTCAT
1 TTTTTTTTATTTTCTCTTTTTTTCCTTCTTTTTTCGTCAT
* * * *
14992132 TTTTTCTTTTTTTTCCTTTTTTTTTCTTTTTTTTTTCGTCAT
1 TTTTT-TTTATTTT-CTCTTTTTTTCCTTCTTTTTTCGTCAT
14992174 TTTTTTT
1 TTTTTTT
14992181 CATCCATTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 5 0.12
41 9 0.22
42 27 0.66
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.82
Consensus pattern (40 bp):
TTTTTTTTATTTTCTCTTTTTTTCCTTCTTTTTTCGTCAT
Found at i:14992183 original size:10 final size:9
Alignment explanation
Indices: 14992092--14992165 Score: 60
Period size: 9 Copynumber: 7.8 Consensus size: 9
14992082 TTTGAATCTC
14992092 TTTTTTT-T
1 TTTTTTTCT
* *
14992100 ATTTTCTCT
1 TTTTTTTCT
*
14992109 TTTTTTCCT
1 TTTTTTTCT
*
14992118 TCTTTTTTTT
1 T-TTTTTTCT
14992128 TCATTTTTTCT
1 T--TTTTTTCT
14992139 TTTTTTTCCTT
1 TTTTTTT-C-T
14992150 TTTTTTTCT
1 TTTTTTTCT
14992159 TTTTTTT
1 TTTTTTT
14992166 TTCGTCATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
8 5 0.10
9 22 0.42
10 9 0.17
11 16 0.31
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:14996250 original size:161 final size:160
Alignment explanation
Indices: 14995878--14996498 Score: 1002
Period size: 161 Copynumber: 3.9 Consensus size: 160
14995868 TAGTTGTTGA
*
14995878 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
14995943 TATGCAAGAAAAACTATTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAG----AAAA
66 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAAA
* * * * *
14996004 ATCAAGATCAACCAATTAATTAATTATTGA
131 ATCAAAATCAGCCAAGTAATTAATTATCGG
14996034 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
14996099 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAAA
66 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG-AAAAAAA
*
14996164 AATCAAAATCAGCGAAGTAATTAATTATCGG
130 AATCAAAATCAGCCAAGTAATTAATTATCGG
14996195 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* * *
14996260 TATGCAAGAAAAACTACTGTTTTTACTTGTATAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
66 TATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
14996325 AATCAAAATCAGCCAAGTAATTAATTATCGG
130 AATCAAAATCAGCCAAGTAATTAATTATCGG
*
14996356 AAATTATTCTCACTTGACTCTAAATACTTTTAGCATGAAAATTGAGAAAATTCCCTCACCTCAGG
1 AAATTATTCTCAATTGACTCT-AATACTTTTAGCA-GAAAATTGAGAAAATTCCCTCACCTCAGG
* *
14996421 AGTATGCAAGAAAAAATACTGTTT-ACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAATAAA
64 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAA-AAA
*
14996485 GAAAA-AAAAATCAG
128 -AAAATCAAAATCAG
14996499 ACAAAATCGA
Statistics
Matches: 438, Mismatches: 17, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
156 119 0.27
161 204 0.47
162 62 0.14
163 53 0.12
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (160 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAAA
ATCAAAATCAGCCAAGTAATTAATTATCGG
Found at i:14996865 original size:19 final size:19
Alignment explanation
Indices: 14996836--14996880 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
14996826 GAACGCCGGT
*
14996836 GCCGGATTCTGGAAATTTC
1 GCCGGAATCTGGAAATTTC
* *
14996855 GTCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAATTTC
14996874 GCCGGAA
1 GCCGGAA
14996881 ATTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (19 bp):
GCCGGAATCTGGAAATTTC
Found at i:14996980 original size:31 final size:31
Alignment explanation
Indices: 14996942--14997014 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
14996932 AAACTGGGTC
* *
14996942 TGTCGCCGGAAACTTC-AAAGTTCGTCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
14996973 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
*
14997004 TTTCGCCGGAA
1 TGTCGCCGGAA
14997015 TCTGGAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
Found at i:14997433 original size:3 final size:3
Alignment explanation
Indices: 14997425--14997458 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14997415 GATAATTAAA
14997425 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14997459 GATAACCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:14997597 original size:40 final size:41
Alignment explanation
Indices: 14997501--14997597 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 41
14997491 AAAAAAAAAA
*
14997501 AATAATAATAATAAATATAACTATATACATATAAATCTAATCT
1 AATAA-AATAATAAATATAACTATATACATATAAA-CTAATAT
*
14997544 AATAAAAAAATAAATA-AA-TATATACATA-ATAA-TAATAAT
1 AATAAAATAATAAATATAACTATATACATATA-AACTAAT-AT
14997583 AATAAAATACATAAA
1 AATAAAATA-ATAAA
14997598 ATACAAAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
38 4 0.08
39 10 0.21
40 17 0.35
41 2 0.04
42 10 0.21
43 5 0.10
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (41 bp):
AATAAAATAATAAATATAACTATATACATATAAACTAATAT
Found at i:14999795 original size:10 final size:11
Alignment explanation
Indices: 14999764--14999809 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
14999754 GGTTTTGTTT
*
14999764 AGAGAGAAAGA
1 AGAGAAAAAGA
14999775 AGAGAAAAAGA
1 AGAGAAAAAGA
*
14999786 AG-GGAAAAG-
1 AGAGAAAAAGA
14999795 AGAGAAGAAAGA
1 AGAGAA-AAAGA
14999807 AGA
1 AGA
14999810 CGCATCTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 2 0.07
10 8 0.28
11 16 0.55
12 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (11 bp):
AGAGAAAAAGA
Found at i:15000180 original size:15 final size:16
Alignment explanation
Indices: 15000152--15000184 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15000142 TTTTTGCATG
15000152 AATAAATTAGAAAAAA
1 AATAAATTAGAAAAAA
*
15000168 AATAATTTA-AAAAAA
1 AATAAATTAGAAAAAA
15000183 AA
1 AA
15000185 GACATTTGAA
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:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AATAAATTAGAAAAAA
Found at i:15000303 original size:14 final size:14
Alignment explanation
Indices: 15000284--15000315 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15000274 ATTTTTCTTA
*
15000284 AAAATAAAATTTCT
1 AAAATAAAAATTCT
15000298 AAAATAAAAATTCT
1 AAAATAAAAATTCT
15000312 AAAA
1 AAAA
15000316 GCATTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATAAAAATTCT
Found at i:15000358 original size:70 final size:71
Alignment explanation
Indices: 15000228--15000363 Score: 181
Period size: 70 Copynumber: 1.9 Consensus size: 71
15000218 TCCTTTAAAA
* * *
15000228 AAAATAAAATTTTCAAAAGCATTTTAAGGAAAAGTTTAAAGTATCAATTTTTCTTAAAAAT-AAA
1 AAAATAAAATTCTCAAAAGCATTTTAAGGAAAAGTTGAAAGTATCAATTTCTCTTAAAAATGAAA
15000292 ATTTCT
66 ATTTCT
*
15000298 AAAATAAAAATTCT-AAAAGCATTTT-AGGAGAAAGTTGAAAGTATCAATTTC-CTTTGAAAATG
1 AAAAT-AAAATTCTCAAAAGCATTTTAAGGA-AAAGTTGAAAGTATCAATTTCTC-TTAAAAATG
15000360 AAAA
63 AAAA
15000364 GCTTAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
69 5 0.09
70 42 0.72
71 11 0.19
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.33
Consensus pattern (71 bp):
AAAATAAAATTCTCAAAAGCATTTTAAGGAAAAGTTGAAAGTATCAATTTCTCTTAAAAATGAAA
ATTTCT
Found at i:15000415 original size:60 final size:58
Alignment explanation
Indices: 15000319--15000533 Score: 195
Period size: 60 Copynumber: 3.6 Consensus size: 58
15000309 TCTAAAAGCA
* * *
15000319 TTTTAGGAGAAAGTTGAAAGTATCAA-TTTCCTTTGAAAATGAAAAGCTT-AAAAAAATGAT
1 TTTTAGGAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAAT-AAAA-TTTAAAAAAAAT-AT
* * *
15000379 TTTTAGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAGAAAAAAAAACAT
1 TTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTT----AAAAAAAATAT
** * * *
15000441 TTCGAGGAAAAA-TTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAAAAAAATAT
1 TTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAATT-T-AAAAAAAATAT
*
15000501 TTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTT
1 TTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTT
15000534 TTACAAAATC
Statistics
Matches: 127, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
58 2 0.02
59 8 0.06
60 65 0.51
61 27 0.21
62 17 0.13
63 8 0.06
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (58 bp):
TTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTAAAAAAAATAT
Found at i:15004118 original size:14 final size:14
Alignment explanation
Indices: 15004095--15004136 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
15004085 AAAAGGTCTC
*
15004095 AAAGATAGAAAAAA
1 AAAGAAAGAAAAAA
15004109 AAAGAAAGAAAAGAA
1 AAAGAAAGAAAA-AA
*
15004124 AAACAAA-AAAAAA
1 AAAGAAAGAAAAAA
15004137 TGAATGCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 15 0.60
15 8 0.32
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAGAAAGAAAAAA
Found at i:15006519 original size:41 final size:41
Alignment explanation
Indices: 15006435--15006748 Score: 164
Period size: 45 Copynumber: 7.3 Consensus size: 41
15006425 CATGATTGTC
* * *
15006435 AAGGAGCATTTTATTTTTCAAAGTTATAGTTGCCTCTGTTTA
1 AAGGAGCAATTTATTTTTCAAAGTTGT-GGTGCCTCTGTTTA
15006477 AAGGAGCAATTTACTTTTT-AAAGTTGTGGTGCCTCTGTTTA
1 AAGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTA
* * * * *
15006518 AAGGCGTAATCTATTTTTTCAAAGTTGTGGTACCTCTGATTA
1 AAGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTA
* * * * *
15006560 GAGGAGCTTTATTTATTTTTTGCAAAGTTGTTGAGCCTCTGATTA
1 AAGGAGC--AATTTA-TTTTT-CAAAGTTGTGGTGCCTCTGTTTA
* * * ** * * *
15006605 GAGGAACTTTTATTTATTTTTCAAAAGTCATTGAGCCTCTATTTA
1 AAGGAGC---AATTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTA
*** * * * *
15006650 AAGGAGTTTTGTTTATTTTTTTAAAAGTTATTGAGCCTCTGTTTA
1 AAGGAG--CAATTTA--TTTTTCAAAGTTGTGGTGCCTCTGTTTA
* * * ** *
15006695 GAGAAGCATTTTATTTTTCAAAGTTGTACTGCCTCTATTTA
1 AAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTA
*
15006736 TAGGAGC-ATTTAT
1 AAGGAGCAATTTAT
15006749 CATTAAGGCT
Statistics
Matches: 218, Mismatches: 43, Indels: 24
0.76 0.15 0.08
Matches are distributed among these distances:
40 5 0.02
41 55 0.25
42 43 0.20
43 9 0.04
44 16 0.07
45 77 0.35
46 13 0.06
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (41 bp):
AAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTA
Found at i:15007711 original size:4 final size:4
Alignment explanation
Indices: 15007699--15007750 Score: 53
Period size: 4 Copynumber: 14.5 Consensus size: 4
15007689 TTTTTTTTGC
*
15007699 TATT T-TT TATT TATT TA-T TATA TATT T-TT TA-T T-TT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
15007742 TATT T-TT TA
1 TATT TATT TA
15007751 GAGTATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
3 16 0.40
4 24 0.60
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TATT
Found at i:15007872 original size:59 final size:56
Alignment explanation
Indices: 15007789--15007907 Score: 157
Period size: 59 Copynumber: 2.1 Consensus size: 56
15007779 AAAAAATTAA
* *
15007789 AAAAACATTTTAAGGAAAAATTGAAATTATCAATTTTCCTTTAAAAAAATAAAATTTTT
1 AAAAACATTTTAAGGAAAAATTGAAAGTATCAATTTTCC-TT--AAAAATAAAATTTCT
* * * *
15007848 AAAAGCATTTTAAGGGAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCT
1 AAAAACATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCT
15007904 AAAA
1 AAAA
15007908 TAAAAATTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
56 18 0.33
58 2 0.04
59 34 0.63
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (56 bp):
AAAAACATTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCT
Found at i:15007909 original size:14 final size:14
Alignment explanation
Indices: 15007890--15007921 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15007880 ATTTTTCTTA
*
15007890 AAAATAAAATTTCT
1 AAAATAAAAATTCT
15007904 AAAATAAAAATTCT
1 AAAATAAAAATTCT
15007918 AAAA
1 AAAA
15007922 GTATTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATAAAAATTCT
Found at i:15007964 original size:70 final size:71
Alignment explanation
Indices: 15007834--15007969 Score: 188
Period size: 70 Copynumber: 1.9 Consensus size: 71
15007824 TTCCTTTAAA
* *
15007834 AAAATAAAATTTTTAAAAGCATTTTAAGGGAAAGTTGAAAGTATCAATTTTTCTTAAAAA-TAAA
1 AAAATAAAAATTCTAAAAGCATTTTAAGGGAAAGTTGAAAGTATCAATTTTTCTTAAAAATTAAA
15007898 ATTTCT
66 ATTTCT
* * *
15007904 AAAATAAAAATTCTAAAAGTATTTT-GGGAGAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATTA
1 AAAATAAAAATTCTAAAAGCATTTTAAGG-GAAAGTTGAAAGTATCAATTTTTC-TTAAAAATTA
15007967 AAA
64 AAA
15007970 GATTAAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
69 7 0.12
70 46 0.79
71 5 0.09
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (71 bp):
AAAATAAAAATTCTAAAAGCATTTTAAGGGAAAGTTGAAAGTATCAATTTTTCTTAAAAATTAAA
ATTTCT
Found at i:15008051 original size:54 final size:54
Alignment explanation
Indices: 15007993--15008117 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
15007983 AATTTTTAGA
15007993 GAAAAGTTAAAAGTATTAATTTTTCTTAAAATAAAAACTCTCAAATGCTTTAAG
1 GAAAAGTTAAAAGTATTAATTTTTCTTAAAATAAAAACTCTCAAATGCTTTAAG
*
15008047 GAAAAGTTGAAAA-TATCAATTTTTCTTAAAATAAAAACTCTCAAATGCTTTAAG
1 GAAAAGTT-AAAAGTATTAATTTTTCTTAAAATAAAAACTCTCAAATGCTTTAAG
* *
15008101 GAAAAGCTGAAAGTATT
1 GAAAAGTTAAAAGTATT
15008118 TTCTTGTACA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
53 3 0.05
54 58 0.89
55 4 0.06
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (54 bp):
GAAAAGTTAAAAGTATTAATTTTTCTTAAAATAAAAACTCTCAAATGCTTTAAG
Found at i:15009123 original size:11 final size:11
Alignment explanation
Indices: 15009109--15009155 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
15009099 AAAAACAAAT
15009109 TAAAAAAATTC
1 TAAAAAAATTC
*
15009120 TAAATAAA-T-
1 TAAAAAAATTC
15009129 T--AAAAATTC
1 TAAAAAAATTC
15009138 T-AAAAAATTC
1 TAAAAAAATTC
15009148 TAAAAAAA
1 TAAAAAAA
15009156 ATTTCACTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.13
8 1 0.03
9 2 0.07
10 10 0.33
11 13 0.43
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAAAAATTC
Found at i:15009152 original size:18 final size:18
Alignment explanation
Indices: 15009112--15009146 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15009102 AACAAATTAA
15009112 AAAAATTCTAAATAAATT
1 AAAAATTCTAAATAAATT
15009130 AAAAATTCTAAA-AAATT
1 AAAAATTCTAAATAAATT
15009147 CTAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATTCTAAATAAATT
Found at i:15009158 original size:12 final size:10
Alignment explanation
Indices: 15009111--15009154 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
15009101 AAACAAATTA
15009111 AAAAAATTCT
1 AAAAAATTCT
15009121 AAATAAA-T-T
1 AAA-AAATTCT
15009130 -AAAAATTCT
1 AAAAAATTCT
15009139 AAAAAATTCT
1 AAAAAATTCT
15009149 AAAAAA
1 AAAAAA
15009155 AATTTCACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 3 0.10
8 3 0.10
9 2 0.07
10 19 0.63
11 3 0.10
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:15010190 original size:13 final size:13
Alignment explanation
Indices: 15010147--15010200 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
15010137 CGATATTAAA
*
15010147 AATTAAAAGATTT
1 AATTAAAATATTT
* *
15010160 AATATATAAAAATAT
1 AAT-TA-AAATATTT
*
15010175 AATTTAAATATTT
1 AATTAAAATATTT
15010188 AATTAAAATATTT
1 AATTAAAATATTT
15010201 TTATTTAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 21 0.64
14 3 0.09
15 9 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
AATTAAAATATTT
Found at i:15022080 original size:2 final size:2
Alignment explanation
Indices: 15022062--15022103 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
15022052 TTTAAATTTC
* *
15022062 AT AT TT AT AT GT 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
15022104 CCTTTTGTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:15022255 original size:16 final size:16
Alignment explanation
Indices: 15022223--15022256 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
15022213 ATACTAGTAC
15022223 AAATGAAAATTTTAAA
1 AAATGAAAATTTTAAA
15022239 AAAT-AAAATTTTAAA
1 AAATGAAAATTTTAAA
15022254 AAA
1 AAA
15022257 GTAGTAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAATGAAAATTTTAAA
Found at i:15025161 original size:3 final size:3
Alignment explanation
Indices: 15025148--15025179 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
15025138 TTTTTCAAAA
15025148 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
15025180 TGTGCAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:15026455 original size:20 final size:21
Alignment explanation
Indices: 15026426--15026475 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
15026416 AAAATAAAAT
15026426 TATT-ATATATT-TTTTA-CAA
1 TATTAATATATTATTTTATC-A
15026445 TATTAATATATTATTTTATCA
1 TATTAATATATTATTTTATCA
15026466 TATTTAATAT
1 TA-TTAATAT
15026476 TAAAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.15
20 7 0.26
21 8 0.30
22 8 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTAATATATTATTTTATCA
Found at i:15029093 original size:2 final size:2
Alignment explanation
Indices: 15029086--15029122 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
15029076 TTTCAATTTA
*
15029086 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15029123 AAGCTAGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15029741 original size:30 final size:30
Alignment explanation
Indices: 15029707--15029774 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
15029697 TTTATTACAA
* *
15029707 TCAATTGAACTGTCAAACATTTATTTTCAT
1 TCAATTGAACTCTCAAACATTTATTTTCAC
* **
15029737 TCAATTGAACTCTTAAATGTTTATTTTCAC
1 TCAATTGAACTCTCAAACATTTATTTTCAC
15029767 TCAATTGA
1 TCAATTGA
15029775 GCCCTTGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.44
Consensus pattern (30 bp):
TCAATTGAACTCTCAAACATTTATTTTCAC
Found at i:15037574 original size:16 final size:16
Alignment explanation
Indices: 15037553--15037595 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
15037543 TATCATATAT
*
15037553 AATTTTGAAGA-CTTGA
1 AATTTTGAAGACCAT-A
*
15037569 AATTTTGTAGACCATA
1 AATTTTGAAGACCATA
15037585 AATTTTGAAGA
1 AATTTTGAAGA
15037596 TTTTTAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (16 bp):
AATTTTGAAGACCATA
Found at i:15041191 original size:21 final size:21
Alignment explanation
Indices: 15041166--15041207 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15041156 CTGTTTCACA
15041166 ATCTCTTGGGCCCACGAACCT
1 ATCTCTTGGGCCCACGAACCT
15041187 ATCTCTTGGGCCCACGAACCT
1 ATCTCTTGGGCCCACGAACCT
15041208 TAAACCTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.24
Consensus pattern (21 bp):
ATCTCTTGGGCCCACGAACCT
Found at i:15041525 original size:6 final size:6
Alignment explanation
Indices: 15041514--15041547 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
15041504 TAGGATTATT
15041514 AAACCA AAACCA AAACCA AAACCA AAACCA AAAC
1 AAACCA AAACCA AAACCA AAACCA AAACCA AAAC
15041548 ATCTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCA
Found at i:15043225 original size:161 final size:159
Alignment explanation
Indices: 15042840--15043313 Score: 735
Period size: 153 Copynumber: 3.0 Consensus size: 159
15042830 AAAATTTTAC
* * *
15042840 CAAGTAATTAGTTGTTGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
1 CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
*
15042905 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGGA
66 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
* *
15042970 TTTATTAAAG---AAAAAAACAAAATCAT
131 TTAATTAAAGAAAAAAAAAACAAAATCAG
* *
15042996 C---CAATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAA
1 CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
*
15043058 ATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
66 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
15043123 TTAATTAAAGAAAAAAAAAATCAAAATCAG
131 TTAATTAAAGAAAAAAAAAA-CAAAATCAG
*
15043153 CAAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 C-AAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
* * *
15043218 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCTGTCGTCG
65 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG
* *
15043283 GATTGATTAAAGAAAAAAGAAAAAAAAATCA
129 GATTAATTAAAGAAAAAA-AAAACAAAATCA
15043314 AGATCAAAAT
Statistics
Matches: 290, Mismatches: 18, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
153 128 0.44
156 8 0.03
157 9 0.03
161 94 0.32
162 47 0.16
163 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (159 bp):
CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
TTAATTAAAGAAAAAAAAAACAAAATCAG
Found at i:15043350 original size:1 final size:1
Alignment explanation
Indices: 15043346--15043378 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
15043336 AAAAAAATTC
15043346 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15043379 CCTGGAGCGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15043353 original size:15 final size:14
Alignment explanation
Indices: 15043329--15043378 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 14
15043319 AAAATCAAAG
*
15043329 TCAAATAAAAAAAAT
1 TCAAA-AAAAAAAAA
15043344 TCAAAAAAAAAAAA
1 TCAAAAAAAAAAAA
15043358 --AAAAAAAAAAAA
1 TCAAAAAAAAAAAA
15043370 --AAAAAAAAA
1 TCAAAAAAAAA
15043379 CCTGGAGCGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 21 0.62
14 8 0.24
15 5 0.15
ACGTcount: A:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (14 bp):
TCAAAAAAAAAAAA
Found at i:15043742 original size:20 final size:20
Alignment explanation
Indices: 15043713--15043758 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15043703 GGAAGATTCA
*
15043713 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
15043733 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
15043753 CCGGAA
1 CCGGAA
15043759 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:15043801 original size:20 final size:20
Alignment explanation
Indices: 15043776--15043814 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
15043766 GGAAATTTGA
15043776 CGGTTTCTGGGATTCTTCGT
1 CGGTTTCTGGGATTCTTCGT
15043796 CGGTTTCTGGGATTCTTCG
1 CGGTTTCTGGGATTCTTCG
15043815 CCGGAAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.21, G:0.31, T:0.44
Consensus pattern (20 bp):
CGGTTTCTGGGATTCTTCGT
Found at i:15043825 original size:20 final size:20
Alignment explanation
Indices: 15043782--15043826 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15043772 TTGACGGTTT
* ***
15043782 CTGGGATTCTTCGTCGGTTT
1 CTGGGATTCTTCGCCGGAAA
15043802 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
15043822 CTGGG
1 CTGGG
15043827 CAGGTCGCCG
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:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:15043855 original size:19 final size:19
Alignment explanation
Indices: 15043833--15043896 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
15043823 TGGGCAGGTC
15043833 GCCGGAAACTTCAATGTTG
1 GCCGGAAACTTCAATGTTG
15043852 GCCGG-AA--T---T-TTG
1 GCCGGAAACTTCAATGTTG
15043864 GCCGGAAACTTCAA-GATTG
1 GCCGGAAACTTCAATG-TTG
*
15043883 GCCGGAAAATTCAA
1 GCCGGAAACTTCAA
15043897 CCGGAAACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 16
0.68 0.02 0.30
Matches are distributed among these distances:
12 8 0.22
13 3 0.08
15 1 0.03
16 1 0.03
18 2 0.06
19 21 0.58
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (19 bp):
GCCGGAAACTTCAATGTTG
Found at i:15044539 original size:20 final size:20
Alignment explanation
Indices: 15044516--15044561 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15044506 CTTGCCCATT
15044516 TGGGCCAGGCCCAAATGATC
1 TGGGCCAGGCCCAAATGATC
* *
15044536 TGGGTCAGGCCCAATTGATC
1 TGGGCCAGGCCCAAATGATC
*
15044556 CGGGCC
1 TGGGCC
15044562 CGGACCTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (20 bp):
TGGGCCAGGCCCAAATGATC
Found at i:15044776 original size:83 final size:83
Alignment explanation
Indices: 15044689--15045109 Score: 668
Period size: 83 Copynumber: 5.1 Consensus size: 83
15044679 TTTTTTTTTA
** *
15044689 GCTCCTCTTGACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
* *
15044754 ACTTTTTGAAATTAAATT
66 ACTTTTGGAAAATAAATT
*
15044772 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
*
15044837 A-TTTTGGAAAGTAAATT
66 ACTTTTGGAAAATAAATT
* * *
15044854 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
*
15044919 ACTTTTGGAAAGTAAATT
66 ACTTTTGGAAAATAAATT
* *
15044937 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
15045002 GAC-TTTGGAAAAATAAATT
65 GACTTTTGG-AAAATAAATT
*
15045021 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
15045086 AC-TTTGGAAAAATAAATT
66 ACTTTTGG-AAAATAAATT
15045104 GCTCCT
1 GCTCCT
15045110 TGACAATCAT
Statistics
Matches: 320, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
82 78 0.24
83 169 0.53
84 73 0.23
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG
ACTTTTGGAAAATAAATT
Found at i:15044785 original size:42 final size:42
Alignment explanation
Indices: 15044689--15045109 Score: 642
Period size: 41 Copynumber: 10.1 Consensus size: 42
15044679 TTTTTTTTTA
** *
15044689 GCTCCTCTTGACAGAGGTACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
15044730 GCTCCTCTCAACAGAGGCACCACGACTTTTTG-AAATTAAATT
1 GCTCCTCTCAACAGAGGCACCACGAC-TTTGGAAAAGTAAATT
*
15044772 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
15044813 GCTCCTCTAAACAGAGGCACCACGATTTTGG-AAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
15044854 GCTCCTCTCAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
15044895 GCTCCTCTAAACAGAGGCACCACGACTTTTGG-AAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGAC-TTTGGAAAAGTAAATT
*
15044937 GCTCCTCTAAACAGAGGCACCACGACTTTTGG-AAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGAC-TTTGGAAAAGTAAATT
* *
15044979 GCTCCTCTCAACAGAGGTACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
15045021 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
15045062 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
15045104 GCTCCT
1 GCTCCT
15045110 TGACAATCAT
Statistics
Matches: 357, Mismatches: 16, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
40 1 0.00
41 182 0.51
42 173 0.48
43 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:15048951 original size:14 final size:15
Alignment explanation
Indices: 15048932--15048961 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15048922 TAGAAATGTT
15048932 ATGCTTT-ATGTATG
1 ATGCTTTGATGTATG
15048946 ATGCTTTGATGTATG
1 ATGCTTTGATGTATG
15048961 A
1 A
15048962 ATAAAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (15 bp):
ATGCTTTGATGTATG
Found at i:15050258 original size:162 final size:160
Alignment explanation
Indices: 15049919--15050392 Score: 727
Period size: 152 Copynumber: 3.0 Consensus size: 160
15049909 AAAATTTTAC
* * *
15049919 CAAGTAATTAGTTGTTGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
1 CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
*
15049984 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGGA
66 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
15050049 TTATTAAAGAAAAAAACAAAATC---ATC--
131 TTATTAAAGAAAAAAA-AAAATCAAAATCAA
*
15050075 C----AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAA
1 CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
*
15050136 ATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
66 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
15050201 TTAATTAAAGAAAAAAAAAAATCAAAATCAA
131 TT-ATTAAAGAAAAAAAAAAATCAAAATCAA
*
15050232 CAAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 C-AAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
* * *
15050297 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCTGTCGTCG
65 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG
*
15050362 GATTGATTAAAGAAAAAAGAAAA--AAAATCAA
129 GATT-ATTAAAGAAAAAAAAAAATCAAAATCAA
15050393 GATCAAAATC
Statistics
Matches: 292, Mismatches: 14, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
152 127 0.43
153 14 0.05
155 3 0.01
156 1 0.00
157 1 0.00
161 8 0.03
162 94 0.32
163 44 0.15
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (160 bp):
CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
TTATTAAAGAAAAAAAAAAATCAAAATCAA
Found at i:15050427 original size:1 final size:1
Alignment explanation
Indices: 15050423--15050454 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
15050413 AAAAAAATTC
15050423 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15050455 CCTGGAGCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15050430 original size:14 final size:13
Alignment explanation
Indices: 15050407--15050454 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 13
15050397 AAAATCAAAG
*
15050407 TCAAATAAAAAAAT
1 TCAAA-AAAAAAAA
15050421 TCAAAAAAAAAAA
1 TCAAAAAAAAAAA
15050434 --AAAAAAAAAAA
1 TCAAAAAAAAAAA
15050445 --AAAAAAAAAA
1 TCAAAAAAAAAA
15050455 CCTGGAGCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 21 0.64
13 7 0.21
14 5 0.15
ACGTcount: A:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (13 bp):
TCAAAAAAAAAAA
Found at i:15050816 original size:20 final size:20
Alignment explanation
Indices: 15050787--15050832 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15050777 GGAAGATTCA
*
15050787 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
15050807 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
15050827 CCGGAA
1 CCGGAA
15050833 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:15050875 original size:20 final size:20
Alignment explanation
Indices: 15050850--15050892 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
15050840 GGAAATTTGA
15050850 CGGTTTCTGGGATTCTTCGC
1 CGGTTTCTGGGATTCTTCGC
15050870 CGGTTTCTGGGATTCTTCGC
1 CGGTTTCTGGGATTCTTCGC
15050890 CGG
1 CGG
15050893 AAACTGGGCA
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:0.05, C:0.26, G:0.33, T:0.37
Consensus pattern (20 bp):
CGGTTTCTGGGATTCTTCGC
Found at i:15050899 original size:20 final size:20
Alignment explanation
Indices: 15050856--15050900 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15050846 TTGACGGTTT
***
15050856 CTGGGATTCTTCGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
15050876 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
15050896 CTGGG
1 CTGGG
15050901 CAGGTCGCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.31
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:15050929 original size:19 final size:19
Alignment explanation
Indices: 15050907--15050970 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
15050897 TGGGCAGGTC
15050907 GCCGGAAACTTCAATGTTG
1 GCCGGAAACTTCAATGTTG
15050926 GCCGG-AA--T---T-TTG
1 GCCGGAAACTTCAATGTTG
15050938 GCCGGAAACTTCAA-GATTG
1 GCCGGAAACTTCAATG-TTG
*
15050957 GCCGGAAAATTCAA
1 GCCGGAAACTTCAA
15050971 CCGGAAACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 16
0.68 0.02 0.30
Matches are distributed among these distances:
12 8 0.22
13 3 0.08
15 1 0.03
16 1 0.03
18 2 0.06
19 21 0.58
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (19 bp):
GCCGGAAACTTCAATGTTG
Found at i:15051647 original size:20 final size:20
Alignment explanation
Indices: 15051624--15051669 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15051614 CTTGCCCATT
15051624 TGGGCCAGGCCCAAATGATC
1 TGGGCCAGGCCCAAATGATC
* *
15051644 TGGGTCAGGCCCAATTGATC
1 TGGGCCAGGCCCAAATGATC
*
15051664 CGGGCC
1 TGGGCC
15051670 CGGACCTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (20 bp):
TGGGCCAGGCCCAAATGATC
Found at i:15055665 original size:13 final size:14
Alignment explanation
Indices: 15055647--15055682 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
15055637 AAAATTAAAA
15055647 TTTATTAAAAAT-T
1 TTTATTAAAAATAT
15055660 TTTATTAAAAATAT
1 TTTATTAAAAATAT
*
15055674 TTTAATAAA
1 TTTATTAAA
15055683 TCATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTATTAAAAATAT
Found at i:15058175 original size:3 final size:3
Alignment explanation
Indices: 15058157--15058201 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
15058147 TTAAAAAATT
*
15058157 ATA AAA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15058202 ACAAACCTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:15058734 original size:217 final size:218
Alignment explanation
Indices: 15058430--15058844 Score: 602
Period size: 217 Copynumber: 1.9 Consensus size: 218
15058420 TTAGTAATGT
* * * * *
15058430 GACAAATAAGAATTTAGAAAAGAAAGTATAATAGAGGCATGAAACACACTCATATAACCTTTCAC
1 GACAAACAAGAATTGAGAAAAGAAAGTATAATAGAGACATGAAACAAACTCATATAACCTCTCAC
* *
15058495 CCTTAAAAGAGATGGAAAACCATAACTTATAAGAAAATCAAAAGCAAAAAATATAAATGTTACAA
66 CCTTAAAAGAGATAGAAAACCATAACTTATAAGAAAATCAAAAGCAAAAAAGATAAATGTTACAA
* * * *
15058560 AACAAAAGATTTGATTAATAAATTTTAACAAATAATGGTTTTAAAGAAAATGAATATAAGAAAAT
131 AACAAAAGAGTTGATCAATAAATTTTAAAAAATAATGATTTTAAAGAAAATGAAT-TAA-AAAAT
15058625 CAAAAATAACAAATCCAAATAATAC
194 CAAAAATAACAAATCCAAATAATAC
* *
15058650 GACAAACAAGAATTGAG-AAA-AAAGTGTAATAGAGACATGAAAGAAACTCATATAA-CTCTCAC
1 GACAAACAAGAATTGAGAAAAGAAAGTATAATAGAGACATGAAACAAACTCATATAACCTCTCAC
* * * ** *
15058712 CCTTAAAAGAGATAGAAAACCATAAGTTTTAAGAAAATTAAAAGTTAAAAAGATAAATGTTATAA
66 CCTTAAAAGAGATAGAAAACCATAACTTATAAGAAAATCAAAAGCAAAAAAGATAAATGTTACAA
* *
15058777 AACTAAAGGGTTGATCAATAAATTTTAAAAAATAATGATTTTAAAGAAAATGAATTAAAAAATCA
131 AACAAAAGAGTTGATCAATAAATTTTAAAAAATAATGATTTTAAAGAAAATGAATTAAAAAATCA
15058842 AAA
196 AAA
15058845 GTCAATAATC
Statistics
Matches: 174, Mismatches: 21, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
215 10 0.06
216 3 0.02
217 112 0.64
218 31 0.18
219 3 0.02
220 15 0.09
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (218 bp):
GACAAACAAGAATTGAGAAAAGAAAGTATAATAGAGACATGAAACAAACTCATATAACCTCTCAC
CCTTAAAAGAGATAGAAAACCATAACTTATAAGAAAATCAAAAGCAAAAAAGATAAATGTTACAA
AACAAAAGAGTTGATCAATAAATTTTAAAAAATAATGATTTTAAAGAAAATGAATTAAAAAATCA
AAAATAACAAATCCAAATAATAC
Found at i:15058819 original size:16 final size:16
Alignment explanation
Indices: 15058798--15058839 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
15058788 TGATCAATAA
15058798 ATTTTAAAAAATAATG
1 ATTTTAAAAAATAATG
*
15058814 ATTTTAAAGAA-AATG
1 ATTTTAAAAAATAATG
*
15058829 A-ATTAAAAAAT
1 ATTTTAAAAAAT
15058840 CAAAAGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (16 bp):
ATTTTAAAAAATAATG
Found at i:15060919 original size:30 final size:30
Alignment explanation
Indices: 15060885--15060949 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
15060875 CAATTGAGCT
* * *
15060885 CTCAAATATTTATTTTTATTCAATAGAACC
1 CTCAAAAATCTATTTTCATTCAATAGAACC
* *
15060915 CTCAAAAATCTATTTTCATTCGATTGAACC
1 CTCAAAAATCTATTTTCATTCAATAGAACC
*
15060945 TTCAA
1 CTCAA
15060950 TTGGACAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (30 bp):
CTCAAAAATCTATTTTCATTCAATAGAACC
Found at i:15067222 original size:30 final size:31
Alignment explanation
Indices: 15067188--15067255 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 31
15067178 GATTAAAGAC
*
15067188 TTATTTGGA-TACAATTTAAAGCCTAAGGGT
1 TTATTTGGAGTACAAATTAAAGCCTAAGGGT
* * **
15067218 TTATTT-AAGTGCAAATTAAAGGTTAAGGGT
1 TTATTTGGAGTACAAATTAAAGCCTAAGGGT
15067248 TTATTTGG
1 TTATTTGG
15067256 GTATAATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (31 bp):
TTATTTGGAGTACAAATTAAAGCCTAAGGGT
Found at i:15069502 original size:17 final size:17
Alignment explanation
Indices: 15069480--15069515 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15069470 CAGTTTTGAG
* *
15069480 TCTAATTATAAAAAGAA
1 TCTAATAATAAAAAAAA
15069497 TCTAATAATAAAAAAAA
1 TCTAATAATAAAAAAAA
15069514 TC
1 TC
15069516 CATTTAAATT
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:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (17 bp):
TCTAATAATAAAAAAAA
Found at i:15069845 original size:13 final size:13
Alignment explanation
Indices: 15069829--15069855 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15069819 AACCACTAGT
15069829 TATAAAGAATTAA
1 TATAAAGAATTAA
15069842 TATAAAGAATTAA
1 TATAAAGAATTAA
15069855 T
1 T
15069856 TTTTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
TATAAAGAATTAA
Found at i:15071734 original size:935 final size:925
Alignment explanation
Indices: 15070768--15072801 Score: 2249
Period size: 935 Copynumber: 2.2 Consensus size: 925
15070758 TGTAGCATCT
* * * * * * *
15070768 TTAAGAAAAAGTTATGATAATCCAAAACATAATGAAAGGTAACAACAAATATAAAAAGATATTAT
1 TTAAGAAAAAGTTGTGATAATTCTAAACATAATAAAATGTAAGAACAAA-AT-AAAA-ATTTTAT
* *
15070833 TATAATGTAAATAATTAAGTTGATAACATAAAAAAATTTATTATTATAAATAAAAAATTCTAAAC
63 TGTAACGTAAATAATTAAGTTGA-AACATAAAAAAA-TTATTATTATAAATAAAAAATTCTAAAC
* ** *
15070898 AAAAAAAAAGTGTTAACATAAAAAGTAAGAATAATTGTAAAAT-TGAAATCATTTTGCAT-AAAT
126 AAAAAAAAAGTGTTAACATAAAAAGTGAGAATAATTAAAAAATAAG-AATCATTTTGCATAAAAT
15070961 AGTGTTAG-AAGTGTCT-TAATGTAAAA-AAGTAAAAATAGTTGTAAAATTAGTGTCATTTAACA
190 A-TGTT-GCAA-TGT-TGTAA-GTAAAAGAA-TAAAAATAGTTGTAAAATTAGTGTCATTTAACA
* * * * ** *
15071023 TAGATTGGATTAGAATTGTCGTAATGCCCTAACAAAGAACTGTGATAAATTTAAACATAATAAAA
249 TAAATTGAATTAGAAGTGTCATAACACCCTAACAAAAAACTGTGAT-AATTTAAACATAATAAAA
* * * * **
15071088 AGCAAAAATAAACATAAAAAA-TATTATTATAATATAAATAATATTTTTGCCAATGTAAAAGAAT
313 AGCAAAAACAAACATAAAAAATTATTAATATAACATAAATAATATTTTTGACAACATAAAAGAAT
* * *
15071152 TATCATTATAAATAATTAATAATTCTAAA-TAAAAA-AAGTGCTAGTATAAAAAAAAGATGAGAG
378 TATCATTACAAATAAATAATAATTCTAAACAAAAAATAAGTGCTA--ATAAAAAAAAGATGAGAG
* * * ** *
15071215 TAATCATAAAATTAATATTATTTAGCATAAAATGGTTAGAAGTATCGTAACACCTTTAAGAAAAA
441 TAATCATAAAATTAACATCATTTAGCATAAAATGGTTAGAAGCATAATAACACATTTAA-AAAAA
* * ** * * *
15071280 TATTGTAATATTTTTAAATGTAATTAAAGGTAACAAC-GA-GTATAAAAAAATATTATTAAAACA
505 -ATTATAATAATCCTAAATGTAATGAAAGGTAACAACAAATGTAAAAAAAAATATTATTAAAACA
* * *
15071343 TAAATAATTAAGTTGGCATTATAAAAGAACTATTATTACAAATAAAAAATAATTTTAAATAAAAA
569 TAAATAATTAAGTT-GCAATATAAAAAAACTATTATTACAAAT-AAAAATAATTTTAAACAAAAA
* * * **
15071408 GTTAAGAGTTAACATATAACGGTGAAAATAATAATAAAATTGGTATTATCTAACGTAAAATAGTT
632 -ATAAGAGTTAACAAAAAACGGTGAAAATAATAATAAAATTAATATTATCTAACGTAAAATAGTT
* * * *
15071473 AAAAGTGTCATTACACCTTAAGAAAAAAATTGTTATAATTCTAAATGAAATAAAAAGTACCAACA
696 AAAAGTATCATTACACCTTAACAAAAAAATTGTAATAATTCTAAACGAAATAAAAAGTACCAACA
* *
15071538 AATGTAAACAA-ATATTATTGAAACGTAATAAATTGGTAACTTAAAAAAATAAGCAATATAAATA
761 AATATAAA-AAGATATTATTGAAACGTAATAAATTGGTAACATAAAAAAATAAGCAATATAAATA
* * *
15071602 AAAATAATTC--AATAAAAAAATAAGTGTT-AACGT-AAAA-ATGCAAGAATAATCGTAAAATTG
825 AAAATAATTCTAAAT-AAAAAATAAGTGTTGAA-GTAAAAAGATG-AA-AATAAACATAAAATTA
* * * *
15071662 GTATCATTTGGTGCAAAATATATTAAAAGTATCATAATACC
886 GTATAATTTAGTGAAAAATATATTAAAACTATCATAATA-C
* * * *
15071703 TTAAGAAAAACTTGTGATAATTCTTAACATAATAAAATATAAGAACAAGCATTAAAAATTTTATT
1 TTAAGAAAAAGTTGTGATAATTCTAAACATAATAAAATGTAAGAACAA--AATAAAAATTTTATT
* *
15071768 GTAACATAAAT-A-TAAGTTGACA-ATAACAAAAAATTATTATTATAAATAAAAAATGATTCTAA
64 GTAACGTAAATAATTAAGTTGAAACAT-A-AAAAAATTATTATTATAAAT-AAAAA--ATTCTAA
* *
15071830 ACAAAAACTAAATACATGTTAA-AGTAAAAATGTGAGAATAATTAAAAAATAAGAATCATTTTGT
124 ACAAAAA--AAA-A-GTGTTAACA-TAAAAA-GTGAGAATAATTAAAAAATAAGAATCATTTTGC
* * * * *
15071894 GTAAAATATGTTGCAATGTTGTAAGTAAAAGAATAAGAATAGTTGTAAAATTGGTGTTATTTGAC
183 ATAAAATATGTTGCAATGTTGTAAGTAAAAGAATAAAAATAGTTGTAAAATTAGTGTCATTTAAC
* ** *
15071959 TTAAATTGAATTAGAAGTGTCATAACACTTTAACAAAAAATTGTGATAATTTAAACATAATAAAA
248 ATAAATTGAATTAGAAGTGTCATAACACCCTAACAAAAAACTGTGATAATTTAAACATAATAAAA
* ** ** * *
15072024 AGTAGGAACAAGTATAAAAAATTGTTAATGTAACATAAATAATATTTTTGACAACATAAAAGAAT
313 AGCAAAAACAAACATAAAAAATTATTAATATAACATAAATAATATTTTTGACAACATAAAAGAAT
* * * * *
15072089 TATTATTACAAATAAATAATAATTCTAAACCAAAAAATAAGTGTTAATATAAAAAAGGTTAGAGT
378 TATCATTACAAATAAATAATAATTCTAAA-CAAAAAATAAGTGCTAATAAAAAAAAGATGAGAGT
* ** *
15072154 AATCATAAAATTAACATCATTTGGTGTAAAATGGTTAGAAGCATAATAACACATTTAAAAAAAGT
442 AATCATAAAATTAACATCATTTAGCATAAAATGGTTAGAAGCATAATAACACATTTAAAAAAAAT
* * **
15072219 TATGATAATCCTAAATGTAATGAAAGGTAACAACAAATGTAAAAAAAAATATTATTATAATGTAA
507 TATAATAATCCTAAATGTAATGAAAGGTAACAACAAATGTAAAAAAAAATATTATTAAAACATAA
* * * *
15072284 GTAATTAAGTTGTAATATAAAAAAATTATTATTATAAATAAAAATAATTTTAAACAAAAAATAAG
572 ATAATTAAGTTGCAATATAAAAAAACTATTATTACAAATAAAAATAATTTTAAACAAAAAATAAG
* * * * * * * * *
15072349 AGTTAACAAAAAATGGTGAGACTAATCATAAAATTAATATTATTTTATGTAAAATGGTTAGAAGT
637 AGTTAACAAAAAACGGTGAAAATAATAATAAAATTAATATTATCTAACGTAAAATAGTTAAAAGT
* * * * * * *
15072414 ATCGTTACACTTTAACCAAAAAATTGTAATAATTTTAAACGTAATAACAAGTATCAACAAATATA
702 ATCATTACACCTTAACAAAAAAATTGTAATAATTCTAAACGAAATAAAAAGTACCAACAAATATA
* * * *
15072479 AAAAGATATTATTGAAACGTAATAAATTTGTAACATAAAAAAATTAGTATTATAAATAAAAATAA
767 AAAAGATATTATTGAAACGTAATAAATTGGTAACATAAAAAAATAAGCAATATAAATAAAAATAA
*
15072544 TTCTAAATAAAAAATAGGTGTTGAAGTAAAAAGATGAAAATAAACATAAAATTAGTATAATTTAG
832 TTCTAAATAAAAAATAAGTGTTGAAGTAAAAAGATGAAAATAAACATAAAATTAGTATAATTTAG
* ** *
15072609 TGAAAAATATGTTTGAACTATTATAATAC
897 TGAAAAATATATTAAAACTATCATAATAC
* * *
15072638 TTAAGAAAAAGTTGTGATAATTCTAAATATAATAAAATGTAAGAACAAGAGTAACACATTTTATT
1 TTAAGAAAAAGTTGTGATAATTCTAAACATAATAAAATGTAAGAACAA-AATAA-AAATTTTATT
* * *
15072703 GTAACGTAAATAATTAAATTGACAACAT-AAAAAATTATTATAAATAAA-AAATAATTCTAAACC
64 GTAACGTAAATAATTAAGTTGA-AACATAAAAAAATTATTAT-TATAAATAAAAAATTCTAAA-C
* * * *
15072766 TAATAATAAGTATTAACATAAAAAAGTGAGAATAAT
126 AAAAAAAAAGTGTTAACAT-AAAAAGTGAGAATAAT
15072802 CATAAATTTG
Statistics
Matches: 914, Mismatches: 146, Indels: 83
0.80 0.13 0.07
Matches are distributed among these distances:
930 19 0.02
931 23 0.03
932 21 0.02
933 9 0.01
934 39 0.04
935 280 0.31
936 159 0.17
937 188 0.21
938 123 0.13
939 40 0.04
940 13 0.01
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.31
Consensus pattern (925 bp):
TTAAGAAAAAGTTGTGATAATTCTAAACATAATAAAATGTAAGAACAAAATAAAAATTTTATTGT
AACGTAAATAATTAAGTTGAAACATAAAAAAATTATTATTATAAATAAAAAATTCTAAACAAAAA
AAAAGTGTTAACATAAAAAGTGAGAATAATTAAAAAATAAGAATCATTTTGCATAAAATATGTTG
CAATGTTGTAAGTAAAAGAATAAAAATAGTTGTAAAATTAGTGTCATTTAACATAAATTGAATTA
GAAGTGTCATAACACCCTAACAAAAAACTGTGATAATTTAAACATAATAAAAAGCAAAAACAAAC
ATAAAAAATTATTAATATAACATAAATAATATTTTTGACAACATAAAAGAATTATCATTACAAAT
AAATAATAATTCTAAACAAAAAATAAGTGCTAATAAAAAAAAGATGAGAGTAATCATAAAATTAA
CATCATTTAGCATAAAATGGTTAGAAGCATAATAACACATTTAAAAAAAATTATAATAATCCTAA
ATGTAATGAAAGGTAACAACAAATGTAAAAAAAAATATTATTAAAACATAAATAATTAAGTTGCA
ATATAAAAAAACTATTATTACAAATAAAAATAATTTTAAACAAAAAATAAGAGTTAACAAAAAAC
GGTGAAAATAATAATAAAATTAATATTATCTAACGTAAAATAGTTAAAAGTATCATTACACCTTA
ACAAAAAAATTGTAATAATTCTAAACGAAATAAAAAGTACCAACAAATATAAAAAGATATTATTG
AAACGTAATAAATTGGTAACATAAAAAAATAAGCAATATAAATAAAAATAATTCTAAATAAAAAA
TAAGTGTTGAAGTAAAAAGATGAAAATAAACATAAAATTAGTATAATTTAGTGAAAAATATATTA
AAACTATCATAATAC
Found at i:15072079 original size:21 final size:20
Alignment explanation
Indices: 15072055--15072109 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
15072045 TTGTTAATGT
*
15072055 AACATAAATAATATTTTTGAC
1 AACATAAATAATATTATT-AC
*
15072076 AACATAAAAGAATTATTATTAC
1 AACAT-AAATAA-TATTATTAC
15072098 AA-ATAAATAATA
1 AACATAAATAATA
15072110 ATTCTAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 7 0.24
22 9 0.31
23 6 0.21
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (20 bp):
AACATAAATAATATTATTAC
Found at i:15072344 original size:219 final size:212
Alignment explanation
Indices: 15072076--15072565 Score: 554
Period size: 218 Copynumber: 2.3 Consensus size: 212
15072066 TATTTTTGAC
* * *
15072076 AACATAAAAGAATTATTATTACAAATAAATAATAATTCTAAACCAAAAAATAAGTGTTAATATAA
1 AACATAAAAAAATTATTATTATAAATAAA-AATAATTCTAAA-CAAAAAATAAGTGTTAACA-AA
* * *
15072141 AAAAGGTTAGAGTAATCATAAAATTAACATCATTTGGTGTAAAATGGTTAGAAGCATAATAACAC
63 AAAAGGTGAGACTAATCATAAAATTAACATCATTTGATGTAAAATGGTTAGAAGCATAATAACAC
* * * *
15072206 ATTTAA-AAAAAGTTATGATAATCCTAAATGTAATGAA-AGGTAACAACAAATGTAAAAAAAAAT
128 -TTTAACAAAAAATTATAATAATCCTAAACGTAAT-AACAAGTAACAACAAA--TAAAAAAAAAT
*
15072269 ATTATT-ATAATGTAAGTAATTAAGTTGT
189 ATTATTGA-AACGTAA-T-A--AAGTTGT
* * *
15072297 AATATAAAAAAATTATTATTATAAATAAAAATAATTTTAAACAAAAAATAAGAGTTAACAAAAAA
1 AACATAAAAAAATTATTATTATAAATAAAAATAATTCTAAACAAAAAATAAGTGTTAACAAAAAA
* * * * * ** *
15072362 TGGTGAGACTAATCATAAAATTAATATTATTTTATGTAAAATGGTTAGAAGTATCGTTACACTTT
66 AGGTGAGACTAATCATAAAATTAACATCATTTGATGTAAAATGGTTAGAAGCATAATAACACTTT
* ** * * *
15072427 AACCAAAAAATTGTAATAATTTTAAACGTAATAACAAGTATCAACAAATATAAAAAGATATTATT
131 AA-CAAAAAATTATAATAATCCTAAACGTAATAACAAGTAACAACAAATAAAAAAAAATATTATT
*
15072492 GAAACGTAATAAATTTGT
195 GAAACGTAATAAAGTTGT
* * *
15072510 AACATAAAAAAATTAGTATTATAAATAAAAATAATTCTAAATAAAAAATAGGTGTT
1 AACATAAAAAAATTATTATTATAAATAAAAATAATTCTAAACAAAAAATAAGTGTT
15072566 GAAGTAAAAA
Statistics
Matches: 230, Mismatches: 35, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
213 56 0.24
215 1 0.00
216 1 0.00
217 26 0.11
218 59 0.26
219 50 0.22
220 11 0.05
221 26 0.11
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (212 bp):
AACATAAAAAAATTATTATTATAAATAAAAATAATTCTAAACAAAAAATAAGTGTTAACAAAAAA
AGGTGAGACTAATCATAAAATTAACATCATTTGATGTAAAATGGTTAGAAGCATAATAACACTTT
AACAAAAAATTATAATAATCCTAAACGTAATAACAAGTAACAACAAATAAAAAAAAATATTATTG
AAACGTAATAAAGTTGT
Found at i:15072594 original size:213 final size:209
Alignment explanation
Indices: 15071969--15072830 Score: 639
Period size: 213 Copynumber: 4.0 Consensus size: 209
15071959 TTAAATTGAA
* * **
15071969 TTAGAAGTGTCATAACACTTTAACAAAAAATTGTGATAA-TTTAAACATAATAAAAAGTAGGAAC
1 TTAGAAGTATCATAACACTTTAACAAAAAATTGTGATAATTTTAAACGTAAT-AAAAGTAACAAC
* * * * * * * *
15072033 AAGTATAAAAAATTGTTAATGTAACATAAATAATATTTTTGACAACATAAAAGAATTATTATTAC
65 AAATATAAAAAA-TATTATTGAAACGT-AATAA-A--TTTG-TAACATAAAAAAATTATTATTAT
* *
15072098 AAATAAATAATAATTCTAAACCAAAAAATAAGTGTTAATATAAAAAAGGTTAGAGTAATCATAAA
124 AAATAAA-AATAATTCTAAA-CAAAAAATAAGTGTTAA-AT-AAAAAGGTGAGAATAATCATAAA
* * *
15072163 ATTAACATCATTTGGTGTAAAATGG
185 ATTAATATAATTTGATGTAAAATGG
* * * * ** * *
15072188 TTAGAAGCATAATAACACATTTAA-AAAAAGTTATGATAATCCTAAATGTAATGAAAGGTAACAA
1 TTAGAAGTATCATAACAC-TTTAACAAAAAATTGTGATAATTTTAAACGTAAT-AAAAGTAACAA
* * * *
15072252 CAAATGTAAAAAAAAATATTATT-ATAATGTAAGTAATTAAGTTGTAATATAAAAAAATTATTAT
64 CAAA--T-ATAAAAAATATTATTGA-AACGTAA-T-A--AATTTGTAACATAAAAAAATTATTAT
* * *
15072316 TATAAATAAAAATAATTTTAAACAAAAAATAAGAGTTAACA-AAAAATGGTGAGACTAATCATAA
121 TATAAATAAAAATAATTCTAAACAAAAAATAAGTGTTAA-ATAAAAA-GGTGAGAATAATCATAA
* *
15072380 AATTAATATTATTTTATGTAAAATGG
184 AATTAATATAATTTGATGTAAAATGG
* * * *
15072406 TTAGAAGTATCGTTACACTTTAACCAAAAAATTGTAATAATTTTAAACGTAATAACAAGTATCAA
1 TTAGAAGTATCATAACACTTTAA-CAAAAAATTGTGATAATTTTAAACGTAATAA-AAGTAACAA
*
15072471 CAAATATAAAAAGATATTATTGAAACGTAATAAATTTGTAACATAAAAAAATTAGTATTATAAAT
64 CAAATATAAAAA-ATATTATTGAAACGTAATAAATTTGTAACATAAAAAAATTATTATTATAAAT
* * * * * * *
15072536 AAAAATAATTCTAAATAAAAAATAGGTGTTGAAGTAAAAAGATGAAAATAAACATAAAATTAGTA
128 AAAAATAATTCTAAACAAAAAATAAGTGTT-AAATAAAAAGGTGAGAATAATCATAAAATTAATA
* *
15072601 TAATTT-AGTGAAAAATATG
192 TAATTTGA-TGTAAAAT-GG
* * * * * * * ** *
15072620 TTTGAACTATTATAATAC-TTAAGAAAAAGTTGTGATAATTCTAAATATAATAAAATGTAAGAAC
1 TTAGAAGTATCATAACACTTTAACAAAAAATTGTGATAATTTTAAACGTAATAAAA-GTAACAAC
* * * * * * *
15072684 AAGA-GTAACACATTTTATTGTAACGTAAATAATTAAATTGACAACAT--AAAAA--ATTATTAT
65 AA-ATATAAAAAATATTATTGAAACGT-AAT-A--AATTTG-TAACATAAAAAAATTATTATTAT
* * * * *
15072744 AAATAAAAAATAATTCTAAACCTAATAATAAGTATTAACATAAAAAAGTGAGAATAATCATAAAT
124 AAAT-AAAAATAATTCTAAA-CAAAAAATAAGTGTTAA-ATAAAAAGGTGAGAATAATCATAAAA
** *
15072809 TTGGTATAATTTAATGTAAAAT
186 TTAATATAATTTGATGTAAAAT
15072831 TTGTTAAAAA
Statistics
Matches: 513, Mismatches: 99, Indels: 67
0.76 0.15 0.10
Matches are distributed among these distances:
211 15 0.03
212 52 0.10
213 111 0.22
214 73 0.14
215 7 0.01
216 12 0.02
217 25 0.05
218 54 0.11
219 78 0.15
220 35 0.07
221 28 0.05
222 13 0.03
223 8 0.02
224 1 0.00
225 1 0.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (209 bp):
TTAGAAGTATCATAACACTTTAACAAAAAATTGTGATAATTTTAAACGTAATAAAAGTAACAACA
AATATAAAAAATATTATTGAAACGTAATAAATTTGTAACATAAAAAAATTATTATTATAAATAAA
AATAATTCTAAACAAAAAATAAGTGTTAAATAAAAAGGTGAGAATAATCATAAAATTAATATAAT
TTGATGTAAAATGG
Found at i:15072763 original size:17 final size:17
Alignment explanation
Indices: 15072729--15072763 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15072719 AATTGACAAC
*
15072729 ATAAAAAATTATTATAA
1 ATAAAAAATAATTATAA
*
15072746 ATAAAAAATAATTCTAA
1 ATAAAAAATAATTATAA
15072763 A
1 A
15072764 CCTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAAATAATTATAA
Found at i:15073176 original size:212 final size:219
Alignment explanation
Indices: 15072850--15073277 Score: 482
Period size: 212 Copynumber: 2.0 Consensus size: 219
15072840 ATATCGTAAC
* * * *
15072850 GTAAAAATGTAAGAATAGTTGTAAAATTAGTATAATTTGGTATAAAATAGGTTAAAACTATTGTA
1 GTAAAAATGTAAGAATAATTATAAAATTAGTATAATTTGGCATAAAATAGATTAAAACTATTGTA
* * * * * *
15072915 ACACCATAAAGAAGAGTTATAATAATTTTAAACATAGTGAAATATAAGAACAAGCAT-AAAA-AT
66 ACACCATAAAAAAAAGTTATAATAATTCTAAACATAATAAAAAATAAGAACAAGCATAAAAACAT
* *
15072978 -TTATTTTAACATAAATAATTAAGTTGACAATATAAAAGAA-T-T-ATTATAAA-TAAAAAATAA
131 ATTATTATAACATAAATAATTAAATTGACAATATAAAA-AATTATCATTATAAATTAAAAAATAA
15073038 -TTC-AATCAAAAAATAAGTGTTTAT
195 TTTCAAAT-AAAAAATAAGTGTTTAT
* * * *
15073062 GTAAAAATGT-AGAATAATTATAAAATTTGTATCATTTGGCATAAAATATATTAGAAGC-ATTGT
1 GTAAAAATGTAAGAATAATTATAAAATTAGTATAATTTGGCATAAAATAGATTA-AAACTATTGT
* * * * * **
15073125 AATACCTTAAGAAAAAAGTTGTGATAATTCTAAACATAATAAAAAATAAGAATAAGTGTAAAAAC
65 AACACCATAA-AAAAAAGTTATAATAATTCTAAACATAATAAAAAATAAGAACAAGCATAAAAAC
* * * * **
15073190 ATATTATTATAACATAAGTATTTAAATTGATAATGTAAAAAATTATCATTATAAATTAAAATGTA
129 ATATTATTATAACATAAATAATTAAATTGACAATATAAAAAATTATCATTATAAATTAAAAAATA
15073255 ATTTCAAATAAAAAATAAGTGTT
194 ATTTCAAATAAAAAATAAGTGTT
15073278 AACATAAAAA
Statistics
Matches: 176, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
211 49 0.28
212 50 0.28
213 4 0.02
214 4 0.02
215 32 0.18
216 1 0.01
217 8 0.05
218 8 0.05
219 17 0.10
220 3 0.02
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (219 bp):
GTAAAAATGTAAGAATAATTATAAAATTAGTATAATTTGGCATAAAATAGATTAAAACTATTGTA
ACACCATAAAAAAAAGTTATAATAATTCTAAACATAATAAAAAATAAGAACAAGCATAAAAACAT
ATTATTATAACATAAATAATTAAATTGACAATATAAAAAATTATCATTATAAATTAAAAAATAAT
TTCAAATAAAAAATAAGTGTTTAT
Found at i:15074471 original size:38 final size:38
Alignment explanation
Indices: 15074429--15074545 Score: 98
Period size: 38 Copynumber: 3.1 Consensus size: 38
15074419 CCATCAAAGT
15074429 ATAAAAAATAATTTAAATTAAAAATTATTAAAATTTTA
1 ATAAAAAATAATTTAAATTAAAAATTATTAAAATTTTA
** * * * * *
15074467 ATAAATCAGAATTTAATAATAATAATAAGT-AAA---TA
1 ATAAAAAATAATTTAA-ATTAAAAATTATTAAAATTTTA
* *
15074502 ATAAAAAATCATTTAAATTAAAATTTATTAAAAATTTTA
1 ATAAAAAATAATTTAAATTAAAAATTATT-AAAATTTTA
*
15074541 TTAAA
1 ATAAA
15074546 GATATTTTAA
Statistics
Matches: 56, Mismatches: 17, Indels: 11
0.67 0.20 0.13
Matches are distributed among these distances:
34 8 0.14
35 14 0.25
36 3 0.05
38 16 0.29
39 15 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (38 bp):
ATAAAAAATAATTTAAATTAAAAATTATTAAAATTTTA
Found at i:15080843 original size:3 final size:3
Alignment explanation
Indices: 15080835--15080870 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15080825 AATTTAAAGA
15080835 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15080871 GTGTAAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15084030 original size:21 final size:21
Alignment explanation
Indices: 15084004--15084075 Score: 64
Period size: 18 Copynumber: 3.5 Consensus size: 21
15083994 TATGTGAGTA
15084004 TTAAAAAAAAATTTTAAAAAT
1 TTAAAAAAAAATTTTAAAAAT
*
15084025 TT---AAAAAATTATAAAAAT
1 TTAAAAAAAAATTTTAAAAAT
*
15084043 ATCAAAAAACAAA--TTAAAAAT
1 -TTAAAAAA-AAATTTTAAAAAT
15084064 TCTAAAAAAAAA
1 T-TAAAAAAAAA
15084076 ATTCCACTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
18 15 0.37
19 1 0.02
20 4 0.10
21 15 0.37
22 3 0.07
23 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.26
Consensus pattern (21 bp):
TTAAAAAAAAATTTTAAAAAT
Found at i:15084077 original size:21 final size:21
Alignment explanation
Indices: 15084005--15084078 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
15083995 ATGTGAGTAT
*
15084005 TAAAAAAAAATTTTAAAAATT-
1 TAAAAAAAAA-ATTAAAAATTC
**
15084026 T-AAAAAATTA-TAAAAATATC
1 TAAAAAAAAAATTAAAAAT-TC
*
15084046 -AAAAAACAAATTAAAAATTC
1 TAAAAAAAAAATTAAAAATTC
15084066 TAAAAAAAAAATT
1 TAAAAAAAAAATT
15084079 CCACTATACT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
18 7 0.17
19 1 0.02
20 14 0.34
21 19 0.46
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAAAAAAAATTAAAAATTC
Found at i:15084944 original size:10 final size:10
Alignment explanation
Indices: 15084931--15084960 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15084921 TTTTATAGAA
15084931 TTTTTTAAAT
1 TTTTTTAAAT
*
15084941 TTTTTTAAAA
1 TTTTTTAAAT
15084951 TTTTTTAAAT
1 TTTTTTAAAT
15084961 ATTAATGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:15088189 original size:20 final size:19
Alignment explanation
Indices: 15088164--15088220 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
15088154 ATAATAACTA
15088164 AAAAATACTAAA-AAAATGCT
1 AAAAATA-TAAAGAAAAT-CT
* *
15088184 AAAAATAAAAATAATAATCT
1 AAAAATATAAAGAA-AATCT
15088204 AAAAATAATAAAGAAAA
1 AAAAAT-ATAAAGAAAA
15088221 AACTTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.10
20 19 0.61
21 9 0.29
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (19 bp):
AAAAATATAAAGAAAATCT
Found at i:15088665 original size:14 final size:15
Alignment explanation
Indices: 15088646--15088796 Score: 87
Period size: 15 Copynumber: 10.1 Consensus size: 15
15088636 TTAACCCTTT
15088646 AAACCCTAAAAT-TA
1 AAACCCTAAAATCTA
* *
15088660 AAACCCTAAACTCTCC
1 AAACCCTAAAATCT-A
*
15088676 AAACCCTAAAATCAA
1 AAACCCTAAAATCTA
*
15088691 AAACCTTAAACCATCT-
1 AAACCCTAAA--ATCTA
*
15088707 AAACCTTAAAATC-A
1 AAACCCTAAAATCTA
* *
15088721 AAACCCCAAAATCCA
1 AAACCCTAAAATCTA
* * *
15088736 AAACTC-GAAA-CCA
1 AAACCCTAAAATCTA
* *
15088749 AAATCCTAAAATCCA
1 AAACCCTAAAATCTA
* *
15088764 AAACCTTAAAATCCA
1 AAACCCTAAAATCTA
**
15088779 AAATTCTAAAAATCTA
1 AAACCCT-AAAATCTA
15088795 AA
1 AA
15088797 TTTGATACGC
Statistics
Matches: 108, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
13 7 0.06
14 31 0.29
15 36 0.33
16 31 0.29
17 3 0.03
ACGTcount: A:0.53, C:0.28, G:0.01, T:0.19
Consensus pattern (15 bp):
AAACCCTAAAATCTA
Found at i:15088700 original size:15 final size:15
Alignment explanation
Indices: 15088676--15088781 Score: 67
Period size: 14 Copynumber: 7.1 Consensus size: 15
15088666 TAAACTCTCC
*
15088676 AAACCCTAAAATCAA
1 AAACCTTAAAATCAA
*
15088691 AAACCTTAAACCATC-T
1 AAACCTTAAA--ATCAA
15088707 AAACCTTAAAATC-A
1 AAACCTTAAAATCAA
** *
15088721 AAACCCCAAAATCCA
1 AAACCTTAAAATCAA
** *
15088736 AAA-CTCGAAACCAA
1 AAACCTTAAAATCAA
* *
15088750 AATCC-TAAAATCCA
1 AAACCTTAAAATCAA
15088764 AAACCTTAAAATCCAA
1 AAACCTTAAAAT-CAA
15088780 AA
1 AA
15088782 TTCTAAAAAT
Statistics
Matches: 69, Mismatches: 16, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
14 32 0.46
15 20 0.29
16 14 0.20
17 3 0.04
ACGTcount: A:0.55, C:0.28, G:0.01, T:0.16
Consensus pattern (15 bp):
AAACCTTAAAATCAA
Found at i:15088701 original size:31 final size:31
Alignment explanation
Indices: 15088646--15088723 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
15088636 TTAACCCTTT
*
15088646 AAACCCTAAAAT-TAAAACCCTAAACTC-TCC
1 AAACCCTAAAATCAAAAACCCTAAAC-CATCC
* *
15088676 AAACCCTAAAATCAAAAACCTTAAACCATCT
1 AAACCCTAAAATCAAAAACCCTAAACCATCC
*
15088707 AAACCTTAAAATCAAAA
1 AAACCCTAAAATCAAAA
15088724 CCCCAAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 13 0.31
31 29 0.69
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (31 bp):
AAACCCTAAAATCAAAAACCCTAAACCATCC
Found at i:15090770 original size:18 final size:19
Alignment explanation
Indices: 15090732--15090770 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15090722 AAAATAAAAT
* *
15090732 TTTCGTATTTTATTTCATC
1 TTTCATATTTTATTACATC
15090751 TTTCATATTTTA-TACATC
1 TTTCATATTTTATTACATC
15090769 TT
1 TT
15090771 AATAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTCATATTTTATTACATC
Found at i:15095033 original size:41 final size:41
Alignment explanation
Indices: 15094988--15095066 Score: 142
Period size: 41 Copynumber: 1.9 Consensus size: 41
15094978 AAAGAATCAT
15094988 TTTCAATCAAGATTTCAAAGCTTCTATTTA-AGAGGAACTAA
1 TTTCAATCAAGATTTCAAAGCTTCTATTTAGA-AGGAACTAA
15095029 TTTCAATCAAGATTTCAAAGCTTCTATTTAGAAGGAAC
1 TTTCAATCAAGATTTCAAAGCTTCTATTTAGAAGGAAC
15095067 CTTATTTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (41 bp):
TTTCAATCAAGATTTCAAAGCTTCTATTTAGAAGGAACTAA
Found at i:15095331 original size:22 final size:22
Alignment explanation
Indices: 15095306--15095349 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15095296 GTCGATTCTG
*
15095306 TAAAACC-TCTGGGCATGATTTC
1 TAAAACCTTC-GGGCATAATTTC
15095328 TAAAACCTTCGGGCATAATTTC
1 TAAAACCTTCGGGCATAATTTC
15095350 AATTCGCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (22 bp):
TAAAACCTTCGGGCATAATTTC
Found at i:15095490 original size:88 final size:88
Alignment explanation
Indices: 15095341--15095691 Score: 402
Period size: 88 Copynumber: 4.0 Consensus size: 88
15095331 AACCTTCGGG
* * * **
15095341 CATAATTTCAATTCGCGATGTTGTCCCAATCGATTCTTTATTTTTTGACTTGTGGCATTGTCCCA
1 CATAATTTCGATTCGCGATGTTGTCCCAATCGATTCTTTATTTCTCGACTTGTGGTGTTGTCCCA
15095406 GTCGATTCTGTAAGGCCTCCGGA
66 GTCGATTCTGTAAGGCCTCCGGA
* * * *
15095429 CATAATTTTGATTCGC-AGTGTCGTCCCAATCGATTCTTTATTTCTCGACTTGCGATGTTGTCCC
1 CATAATTTCGATTCGCGA-TGTTGTCCCAATCGATTCTTTATTTCTCGACTTGTGGTGTTGTCCC
* *
15095493 AGTCGATTTTGTAAGGCCTCCGAA
65 AGTCGATTCTGTAAGGCCTCCGGA
* * * * * *
15095517 CATAATTTTCGATTCGCTG-TATTGTCTCGATCAATTCTTTATTTCTCTACTTGAGGTGTTGTCC
1 CATAA-TTTCGATTCGC-GATGTTGTCCCAATCGATTCTTTATTTCTCGACTTGTGGTGTTGTCC
* *
15095581 TAGTCGATTCTGTAAGACCTCCAGG-
64 CAGTCGATTCTGTAAGGCCTCC-GGA
* * * * * *
15095606 CATAATTTCGATTCGCGATGTTGTCTCGATCGATTTTTTATTTCTCAACTTTTGGTGTTGTCTCA
1 CATAATTTCGATTCGCGATGTTGTCCCAATCGATTCTTTATTTCTCGACTTGTGGTGTTGTCCCA
* *
15095671 GTCGATTTTTTAAGGCCTCCG
66 GTCGATTCTGTAAGGCCTCCG
15095692 AGCATGATTT
Statistics
Matches: 222, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
87 3 0.01
88 147 0.66
89 71 0.32
90 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (88 bp):
CATAATTTCGATTCGCGATGTTGTCCCAATCGATTCTTTATTTCTCGACTTGTGGTGTTGTCCCA
GTCGATTCTGTAAGGCCTCCGGA
Found at i:15095806 original size:109 final size:110
Alignment explanation
Indices: 15095593--15095967 Score: 421
Period size: 109 Copynumber: 3.4 Consensus size: 110
15095583 GTCGATTCTG
* * * * *
15095593 TAAGACCTCCAGGCATAATTTCGATTCGCGATGTTGTCTCGATCGATTTTTTATTTCTCAACTTT
1 TAAGACCTCCAAGTATAATTTCGATTCGCGGTGTTATCTCGATCGATTTTTTATTTCTCAACTTG
* * * * * *
15095658 TGGTGTTGTCTCAGTCGATTTTTTAAGGCCTCCGAGCATGATTTC
66 CGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
**** * * *
15095703 TAAGACCTATGGGTATAATTTTGATTCGCGGTGTTCTCTCGATC-ATTTTTTATTTCTCGACTTG
1 TAAGACCTCCAAGTATAATTTCGATTCGCGGTGTTATCTCGATCGATTTTTTATTTCTCAACTTG
* *
15095767 CGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTT
66 CGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
* * *
15095812 TATA-ACCTCCAAGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTCTCAACT
1 TA-AGACCTCCAAGTATAATTTCGATTCGCGGTGTTATCTCGATCGATTTTTTA-TTTCTCAACT
* * * ** *
15095876 TGCGATGTTGTCCCATTCGATTCTGTAAGATCTTTGAGCATTATTTT
64 TGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
* * * *
15095923 TAAGACCTCCAAGTATAATTTTGATTCGTGGTGTTTTCTAGATCG
1 TAAGACCTCCAAGTATAATTTCGATTCGCGGTGTTATCTCGATCG
15095968 GTTCTTTAAT
Statistics
Matches: 220, Mismatches: 41, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
109 89 0.40
110 46 0.21
111 85 0.39
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (110 bp):
TAAGACCTCCAAGTATAATTTCGATTCGCGGTGTTATCTCGATCGATTTTTTATTTCTCAACTTG
CGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
Found at i:15095922 original size:111 final size:110
Alignment explanation
Indices: 15095593--15095975 Score: 419
Period size: 111 Copynumber: 3.5 Consensus size: 110
15095583 GTCGATTCTG
* * * * *
15095593 TAAGACCTCCAGGCATAATTTCGATTCGCGATGTTGTCTCGATCGATTTTTTATTTCTCAACTTT
1 TAAGACCTCCAAGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCTTTATTTCTCAACTTG
* * * * * *
15095658 TGGTGTTGTCTCAGTCGATTTTTTAAGGCCTCCGAGCATGATTTC
66 CGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
**** * * * * *
15095703 TAAGACCTATGGGTATAATTTTGATTCGCGGTGTTCTCTCGATC-ATTTTTTATTTCTCGACTTG
1 TAAGACCTCCAAGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCTTTATTTCTCAACTTG
* *
15095767 CGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGGGCATGATTTT
66 CGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
*
15095812 TATA-ACCTCCAAGCATAATTTCGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTCTCAACT
1 TA-AGACCTCCAAGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCTTTA-TTTCTCAACT
* * * ** *
15095876 TGCGATGTTGTCCCATTCGATTCTGTAAGATCTTTGAGCATTATTTT
64 TGCGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
* * * * * *
15095923 TAAGACCTCCAAGTATAATTTTGATTCGTGGTGTTTTCTAGATCGGTTCTTTA
1 TAAGACCTCCAAGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCTTTA
15095976 ATTTTGACTT
Statistics
Matches: 227, Mismatches: 42, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
109 89 0.39
110 46 0.20
111 92 0.41
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (110 bp):
TAAGACCTCCAAGCATAATTTCGATTCGCGGTGTTATCTCGATCGATTCTTTATTTCTCAACTTG
CGGTGTTGTCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT
Found at i:15097798 original size:30 final size:29
Alignment explanation
Indices: 15097750--15097890 Score: 122
Period size: 30 Copynumber: 4.7 Consensus size: 29
15097740 CTTAAATATC
*
15097750 CAAATCCTAAAATCAAAACCCTAAATCCCT
1 CAAACCCTAAAATCAAAACCCTAAA-CCCT
* * *
15097780 CAAACCTTAAAGTCAAAACTCT-AACCCTT
1 CAAACCCTAAAATCAAAACCCTAAACCC-T
* * * *
15097809 TAAACCCTAAAATTAAGACCCTAAACTCTT
1 CAAACCCTAAAATCAAAACCCTAAAC-CCT
* * *
15097839 CGAACCCTAAAATCAAAAACCTTAAACCAT
1 CAAACCCTAAAATC-AAAACCCTAAACCCT
*
15097869 CTAAACCTTAAAATCAAAACCC
1 C-AAACCCTAAAATCAAAACCC
15097891 CAAAATTCAA
Statistics
Matches: 86, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
28 3 0.03
29 19 0.22
30 42 0.49
31 22 0.26
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.21
Consensus pattern (29 bp):
CAAACCCTAAAATCAAAACCCTAAACCCT
Found at i:15097864 original size:15 final size:14
Alignment explanation
Indices: 15097841--15097930 Score: 74
Period size: 14 Copynumber: 6.1 Consensus size: 14
15097831 AAACTCTTCG
*
15097841 AACCCTAAAATCAAA
1 AACCTTAAAATC-AA
*
15097856 AACCTTAAACCATCTA
1 AACCTTAAA--ATCAA
15097872 AACCTTAAAATCAA
1 AACCTTAAAATCAA
**
15097886 AACCCCAAAATTCAA
1 AACCTTAAAA-TCAA
* *
15097901 AA-CTCAAAACCAA
1 AACCTTAAAATCAA
15097914 AACCTTAAAATCCAA
1 AACCTTAAAAT-CAA
15097929 AA
1 AA
15097931 TTCTAAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
13 5 0.08
14 24 0.39
15 19 0.31
16 10 0.16
17 3 0.05
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCTTAAAATCAA
Found at i:15100835 original size:7 final size:7
Alignment explanation
Indices: 15100823--15100847 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15100813 CTAAATATAA
15100823 AAATTTC
1 AAATTTC
15100830 AAATTTC
1 AAATTTC
15100837 AAATTTC
1 AAATTTC
15100844 AAAT
1 AAAT
15100848 ATAGTGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTC
Found at i:15102098 original size:57 final size:57
Alignment explanation
Indices: 15101880--15102234 Score: 409
Period size: 59 Copynumber: 6.0 Consensus size: 57
15101870 ATTTTTTTAG
* *
15101880 GGAAAATTGATACTTTCAAACTTTTCCGTAAAAATA-TTTTTTGAAAATTTTCGATTTCAAA
1 GGAAAATTGATACTTTC-AACTTTTCCCTAAAAATATTTTTTTG-AAA-TTT--ATTTCTAA
* ** *
15101941 GGAAAATTGATAAACTTCCAACCTTTT-CCTCAAAAACCCTTTTTTTAAAAATTTATTTCTAA
1 GGAAAATTGAT--ACTTTCAA-CTTTTCCCT-AAAAA-TATTTTTTT-GAAATTTATTTCTAA
15102003 GGAAAATT-ATACTTTTCAACTTTTCCC--AAAATATTTTTTTGAAATTTA-TTCTTAA
1 GGAAAATTGATAC-TTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTC-TAA
*
15102058 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGAAATTTATTTCTAA
* *
15102117 GGAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTC-TAA
15102174 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTT-GAAATTTATTTCTAA
15102234 G
1 G
15102235 TTCCCTAAAA
Statistics
Matches: 257, Mismatches: 16, Indels: 43
0.81 0.05 0.14
Matches are distributed among these distances:
54 3 0.01
55 32 0.12
56 14 0.05
57 60 0.23
59 64 0.25
60 22 0.09
61 16 0.06
62 19 0.07
63 15 0.06
64 3 0.01
65 9 0.04
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
Found at i:15102192 original size:116 final size:116
Alignment explanation
Indices: 15101880--15102234 Score: 468
Period size: 116 Copynumber: 3.0 Consensus size: 116
15101870 ATTTTTTTAG
* * *
15101880 GGAAAATTGATACTTTCAAACTTTTCCGTAAAAATATTTTTTGAAAATTTTCGATT-TCAAAGGA
1 GGAAAATTGATACTTTC-AACTTTTCCCTAAAAATATTTTTTGGAAA-TTT--ATTCT-TAAGGA
* *** **
15101944 AAATTGATAAACTTCCAACCTTTT-CCTCAAAAACCCTTTTTTTAAAAATTTATTTCTAA
61 AAATTGAT--ACTTTCAA-CTTTTCCCT-AAAAATATTTTTTTTTGAAATTTATTTCTAA
*
15102003 GGAAAATT-ATACTTTTCAACTTTTCCC--AAAATATTTTTTTGAAATTTATTCTTAAGGAAAAT
1 GGAAAATTGATAC-TTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAAT
*
15102065 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
65 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
*
15102117 GGAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTTGGAAATTTATTCTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATT
15102182 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAA
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT-GAAATTTATTTCTAA
15102234 G
1 G
15102235 TTCCCTAAAA
Statistics
Matches: 211, Mismatches: 14, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
114 52 0.25
115 14 0.07
116 70 0.33
117 31 0.15
118 1 0.00
119 3 0.01
120 15 0.07
122 13 0.06
123 12 0.06
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
Found at i:15102239 original size:39 final size:39
Alignment explanation
Indices: 15102196--15102273 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
15102186 CTTTCAACTT
15102196 TTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAG
1 TTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAG
15102235 TTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAG
1 TTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAG
15102274 GAAAATTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (39 bp):
TTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAG
Found at i:15102258 original size:99 final size:96
Alignment explanation
Indices: 15102152--15102330 Score: 290
Period size: 99 Copynumber: 1.8 Consensus size: 96
15102142 CCTAAAAACA
15102152 TTTTTTGGAAATTTA-TTCTTAAGGAAAATTGATACTTTCAACTTT-TCCCTAAAAATATTTTTT
1 TTTTTTGGAAATTTATTTC-TAAGGAAAATTGATACTTTCAA-TTTCTCCCTAAAAATA---TTT
*
15102215 TTTGGAAATTTATTTCTAAGTTCCCTAAAAATATTT
61 TTTGGAAATTTATTCCTAAGTTCCCTAAAAATATTT
15102251 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAATTTCTCCCTAAAAATATTTTTTGG
1 TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAATTTCTCCCTAAAAATATTTTTTGG
15102316 AAATTTATTCCTAAG
66 AAATTTATTCCTAAG
15102331 AAAAATTGAT
Statistics
Matches: 77, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
96 22 0.29
98 3 0.04
99 49 0.64
100 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.47
Consensus pattern (96 bp):
TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAATTTCTCCCTAAAAATATTTTTTGG
AAATTTATTCCTAAGTTCCCTAAAAATATTT
Found at i:15102278 original size:156 final size:155
Alignment explanation
Indices: 15102080--15102373 Score: 518
Period size: 156 Copynumber: 1.9 Consensus size: 155
15102070 CTTTCAACTT
*
15102080 TTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGAGGAAAATTGATACTTTCAACTTT-TCCC
1 TTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAA-TTTCTCCC
* *
15102144 TAAAAACATTTTTTGGAAATTTATTCTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA
65 TAAAAACATTTTTTGGAAATTTATTCCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATA
*
15102209 TTTTTTTTTGGAAATTTATTTCTAAG
130 TATTTTTTTGGAAATTTATTTCTAAG
15102235 TTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAATTTCTCCC
1 TTCCCTAAAAATATTTTTTTTT-GAAATTTATTTCTAAGGAAAATTGATACTTTCAATTTCTCCC
*
15102300 TAAAAATATTTTTTGGAAATTTATTCCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATA
65 TAAAAACATTTTTTGGAAATTTATTCCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATA
15102365 TATTTTTTT
130 TATTTTTTT
15102374 AGAATTTTTT
Statistics
Matches: 132, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
155 25 0.19
156 107 0.81
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (155 bp):
TTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACTTTCAATTTCTCCCT
AAAAACATTTTTTGGAAATTTATTCCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
ATTTTTTTGGAAATTTATTTCTAAG
Found at i:15102301 original size:60 final size:59
Alignment explanation
Indices: 15102235--15102373 Score: 212
Period size: 57 Copynumber: 2.4 Consensus size: 59
15102225 TATTTCTAAG
* *
15102235 TTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAA-TT
1 TTCCCTAAAAATA-TTTTTTTTGGAAATTTATTCCTAAGAAAAATTGATACTTTCAACTT
15102294 TCTCCCTAAAAATA--TTTTTTGGAAATTTATTCCTAAGAAAAATTGATACTTTCAACTT
1 T-TCCCTAAAAATATTTTTTTTGGAAATTTATTCCTAAGAAAAATTGATACTTTCAACTT
15102352 TTCCCTAAAAATATATTTTTTT
1 TTCCCTAAAAATAT-TTTTTTT
15102374 AGAATTTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
57 51 0.70
58 3 0.04
59 1 0.01
60 18 0.25
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (59 bp):
TTCCCTAAAAATATTTTTTTTGGAAATTTATTCCTAAGAAAAATTGATACTTTCAACTT
Found at i:15102474 original size:8 final size:8
Alignment explanation
Indices: 15102454--15102492 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
15102444 CTAATCTAAT
15102454 AAATAAA-
1 AAATAAAC
15102461 AAATAAAC
1 AAATAAAC
15102469 AAAT--A-
1 AAATAAAC
15102474 AAATAAAC
1 AAATAAAC
15102482 AAATAAAC
1 AAATAAAC
15102490 AAA
1 AAA
15102493 AGAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 8 0.29
8 15 0.54
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAC
Found at i:15102487 original size:21 final size:20
Alignment explanation
Indices: 15102454--15102504 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
15102444 CTAATCTAAT
15102454 AAATAAAAAATAAACAAATA-
1 AAATAAAAAATAAACAAA-AG
15102474 AAATAAACAAATAAACAAAAG
1 AAATAAA-AAATAAACAAAAG
15102495 AAATAAAAAA
1 AAATAAAAAA
15102505 AAATTCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (20 bp):
AAATAAAAAATAAACAAAAG
Found at i:15102506 original size:13 final size:13
Alignment explanation
Indices: 15102454--15102506 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
15102444 CTAATCTAAT
15102454 AAATAAAAAATAAAC
1 AAAT-AAAAA-AAAC
*
15102469 AAATAAAATAAAC
1 AAATAAAAAAAAC
* *
15102482 AAATAAACAAAAG
1 AAATAAAAAAAAC
15102495 AAATAAAAAAAA
1 AAATAAAAAAAA
15102507 ATTCAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
13 25 0.76
14 4 0.12
15 4 0.12
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (13 bp):
AAATAAAAAAAAC
Found at i:15102880 original size:19 final size:20
Alignment explanation
Indices: 15102840--15102885 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
15102830 GAACACCGGT
*
15102840 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
15102860 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
15102879 GCCGGAA
1 GCCGGAA
15102886 GTTGGCCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:15103053 original size:25 final size:25
Alignment explanation
Indices: 15103017--15103064 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15103007 AATCTGGAAA
15103017 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAGAAATTTCCAGAAAAATT
**
15103042 TTTCGCCA-AAATTTTTAGAAAAA
1 TTTC-CCAGAAATTTCCAGAAAAA
15103065 ATTCTCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAGAAAAATT
Found at i:15105705 original size:20 final size:22
Alignment explanation
Indices: 15105680--15105725 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
15105670 TGAAATCATT
15105680 ATATATT-TTTTATAATA-TTA
1 ATATATTATTTTATAATATTTA
*
15105700 ATATATTATTTTATCATATTTA
1 ATATATTATTTTATAATATTTA
15105722 ATAT
1 ATAT
15105726 TTAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATATTATTTTATAATATTTA
Found at i:15111481 original size:14 final size:14
Alignment explanation
Indices: 15111462--15111488 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15111452 TCTTTAAATA
15111462 AAAAAAAAATATTC
1 AAAAAAAAATATTC
15111476 AAAAAAAAATATT
1 AAAAAAAAATATT
15111489 TTTAGGATGT
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:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAAAAAATATTC
Found at i:15114961 original size:15 final size:15
Alignment explanation
Indices: 15114941--15114985 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
15114931 ATACATGCAT
15114941 TTCTCATTCATTACA
1 TTCTCATTCATTACA
*
15114956 TTCTCATTCATTGCA
1 TTCTCATTCATTACA
15114971 TTCTCATTCATTACA
1 TTCTCATTCATTACA
15114986 CTTACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.47
Consensus pattern (15 bp):
TTCTCATTCATTACA
Found at i:15122188 original size:8 final size:8
Alignment explanation
Indices: 15122169--15122228 Score: 97
Period size: 8 Copynumber: 7.8 Consensus size: 8
15122159 ACTATGCTTA
15122169 AAAAAATG
1 AAAAAATG
15122177 -AAAAATG
1 AAAAAATG
15122184 AAAAAATG
1 AAAAAATG
15122192 AAAAAATG
1 AAAAAATG
15122200 AAAAAATG
1 AAAAAATG
15122208 AAAAAA-G
1 AAAAAATG
*
15122215 AAAAAGTG
1 AAAAAATG
15122223 AAAAAA
1 AAAAAA
15122229 GAGGACTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
7 13 0.27
8 35 0.73
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:15122228 original size:16 final size:16
Alignment explanation
Indices: 15122169--15122228 Score: 97
Period size: 15 Copynumber: 3.9 Consensus size: 16
15122159 ACTATGCTTA
15122169 AAAAAATG-AAAAATG
1 AAAAAATGAAAAAATG
15122184 AAAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
15122200 AAAAAATGAAAAAA-G
1 AAAAAATGAAAAAATG
*
15122215 AAAAAGTGAAAAAA
1 AAAAAATGAAAAAA
15122229 GAGGACTCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
15 22 0.51
16 21 0.49
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAAAATGAAAAAATG
Found at i:15123349 original size:42 final size:41
Alignment explanation
Indices: 15123235--15123568 Score: 487
Period size: 41 Copynumber: 8.1 Consensus size: 41
15123225 ATTGTCAAGA
*
15123235 AGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
15123276 AGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
* * *
15123316 AGCAATTTACTTTCCAAAAGTCATGGTACCTCTGTTTAGAGG
1 AGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGG
15123358 AGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGG
1 AGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGG
*
15123400 AGCAATTTAATTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
1 AGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
* *
15123441 AGCAATTTA-TTTTCCAAAGCCGTGGTGCCTCTGTTTAAAGG
1 AGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGG
15123482 AGCAA-TTACCTTTGTCAAAGT-GTGGTGCCTCTGTTTAGAGG
1 AGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGG
* * *
15123523 AGCAATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGG
1 AGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGG
15123566 AGC
1 AGC
15123569 TTTGAAAAAA
Statistics
Matches: 269, Mismatches: 16, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
40 47 0.17
41 102 0.38
42 98 0.36
43 22 0.08
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
AGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
Found at i:15123850 original size:21 final size:20
Alignment explanation
Indices: 15123826--15123872 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
15123816 TGTATTTTAT
15123826 TATTTATTATTATTATATGTA
1 TATTTATTATTATTATAT-TA
15123847 TATTT-TTACTTATT-TATT-
1 TATTTATTA-TTATTATATTA
15123865 TATTTATT
1 TATTTATT
15123873 TATTCTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 5 0.21
19 3 0.12
20 6 0.25
21 10 0.42
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTATTATTATTATATTA
Found at i:15123865 original size:4 final size:4
Alignment explanation
Indices: 15123812--15123957 Score: 56
Period size: 4 Copynumber: 35.8 Consensus size: 4
15123802 TCTTGTGTAT
* * *
15123812 TTTA TGTA TTT- TATTA TTTA -TTA -TTA TTATA TGTA TATT- TTTA CTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TT-TA TTTA T-TTA TTTA TTTA
* *
15123859 TTTA TTTA TTTA TTTA TTCTG TTAATA TTTA TATGTA TTTTA TTTA TATA
1 TTTA TTTA TTTA TTTA TT-TA TT--TA TTTA T-T-TA -TTTA TTTA TTTA
* * * *
15123909 GTTC TATA TTTA TTATA TATTA -TAA TTTA TTTA -TTA TTT- TTT- TTTA
1 TTTA TTTA TTTA TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
15123955 TTT
1 TTT
15123958 TTTTCTTGTA
Statistics
Matches: 107, Mismatches: 19, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
3 20 0.19
4 63 0.59
5 16 0.15
6 7 0.07
7 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:15123918 original size:21 final size:17
Alignment explanation
Indices: 15123826--15123946 Score: 58
Period size: 19 Copynumber: 6.9 Consensus size: 17
15123816 TGTATTTTAT
15123826 TATTTA-TTAT-TATTA
1 TATTTATTTATATATTA
*
15123841 TATGTATATTTTTACTTATT-
1 TAT-T-TATTTATA--TATTA
* *
15123861 TATTTATTTATTTATTC
1 TATTTATTTATATATTA
* *
15123878 TGTTAATATTTATAT-GTA
1 TATT--TATTTATATATTA
15123896 T-TTTATTTATATAGTTCTA
1 TATTTATTTATATA--T-TA
15123915 TATTTA-TTATATATTA
1 TATTTATTTATATATTA
15123931 TAATTTATTTAT-TATT
1 T-ATTTATTTATATATT
15123947 TTTTTTTATT
Statistics
Matches: 82, Mismatches: 8, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
15 12 0.15
16 8 0.10
17 17 0.21
18 15 0.18
19 19 0.23
20 7 0.09
21 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTATTTATATATTA
Found at i:15123936 original size:17 final size:19
Alignment explanation
Indices: 15123897--15123939 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
15123887 TTATATGTAT
*
15123897 TTTATTTATATAGTTCTATA
1 TTTA-TTATATAGTTATATA
15123917 TTTATTATATA-TTATA-A
1 TTTATTATATAGTTATATA
15123934 TTTATT
1 TTTATT
15123940 TATTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 7 0.32
20 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATTATATAGTTATATA
Found at i:15124046 original size:16 final size:16
Alignment explanation
Indices: 15124025--15124055 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15124015 TTTTCTCTTG
*
15124025 TTTTGTTTATCTGATT
1 TTTTGTATATCTGATT
15124041 TTTTGTATATCTGAT
1 TTTTGTATATCTGAT
15124056 ATTATTATTA
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:0.16, C:0.06, G:0.13, T:0.65
Consensus pattern (16 bp):
TTTTGTATATCTGATT
Found at i:15124107 original size:18 final size:17
Alignment explanation
Indices: 15124059--15124108 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
15124049 ATCTGATATT
15124059 ATTAT-TATTATTTTTA
1 ATTATCTATTATTTTTA
* *
15124075 TTTATCCTATCT-TTTCTA
1 ATTAT-CTAT-TATTTTTA
15124093 ATTATCTATTATTTTT
1 ATTATCTATTATTTTT
15124109 TTTATTTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 12 0.46
19 1 0.04
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTATCTATTATTTTTA
Found at i:15125008 original size:17 final size:16
Alignment explanation
Indices: 15124988--15125046 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
15124978 TTTATCTTAT
15124988 TTTTATTTTTGTTTTAC
1 TTTTATTTTT-TTTTAC
*
15125005 TTTTCTTTATTTTTTA-
1 TTTTATTT-TTTTTTAC
* *
15125021 TCTTTATTTATTTTCAC
1 T-TTTATTTTTTTTTAC
15125038 TTTTATTTT
1 TTTTATTTT
15125047 ATTCTATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 13 0.38
17 19 0.56
18 2 0.06
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTTTTTAC
Found at i:15125054 original size:22 final size:22
Alignment explanation
Indices: 15125016--15125057 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
15125006 TTTCTTTATT
15125016 TTTTATCTTTATTTATTTTCAC
1 TTTTATCTTTATTTATTTTCAC
15125038 TTTTAT-TTTATTCTATTTTC
1 TTTTATCTTTATT-TATTTTC
15125058 TTTAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTATTTATTTTCAC
Found at i:15125142 original size:58 final size:58
Alignment explanation
Indices: 15125070--15125227 Score: 282
Period size: 58 Copynumber: 2.7 Consensus size: 58
15125060 TAAATAAAAA
15125070 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* *
15125128 TCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
*
15125186 TC-AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTC
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
15125228 TCTACGCAAG
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 37 0.39
58 58 0.61
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
Found at i:15126372 original size:3 final size:3
Alignment explanation
Indices: 15126359--15126422 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
15126349 AAAAATTAAA
*
15126359 AAT AA- AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15126406 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
15126423 AAACAAACCT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15128393 original size:22 final size:22
Alignment explanation
Indices: 15128351--15128393 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15128341 TCCAAGGCTG
*
15128351 AAAAAATTCAAAAATATAGAAT
1 AAAAAATTCAAAAAGATAGAAT
15128373 AAAAAATATCAAAAAGA-AGAA
1 AAAAAAT-TCAAAAAGATAGAA
15128394 GATGAAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.16
Consensus pattern (22 bp):
AAAAAATTCAAAAAGATAGAAT
Found at i:15128460 original size:14 final size:14
Alignment explanation
Indices: 15128441--15128472 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15128431 AAATACTTCT
15128441 AAATAGAAAAATTA
1 AAATAGAAAAATTA
*
15128455 AAATAGAGAAATTA
1 AAATAGAAAAATTA
15128469 AAAT
1 AAAT
15128473 TAGACATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (14 bp):
AAATAGAAAAATTA
Found at i:15130009 original size:21 final size:23
Alignment explanation
Indices: 15129967--15130009 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
15129957 TCCAAAGTTG
* *
15129967 AAAAAAATTCAAAAATATAGAAT
1 AAAAAAATTAAAAAAGATAGAAT
15129990 AAAAAAA-TAAAAAAGA-AGAA
1 AAAAAAATTAAAAAAGATAGAA
15130010 GATGAAGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (23 bp):
AAAAAAATTAAAAAAGATAGAAT
Found at i:15130514 original size:28 final size:31
Alignment explanation
Indices: 15130459--15130515 Score: 84
Period size: 28 Copynumber: 1.9 Consensus size: 31
15130449 TTAAAAATAT
15130459 TTATTAATGAGATATCATCATTTAATTTATC
1 TTATTAATGAGATATCATCATTTAATTTATC
*
15130490 TTATTAATGA-A-ATGA-CATTTAATTTA
1 TTATTAATGAGATATCATCATTTAATTTA
15130516 ATGACAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 11 0.44
29 3 0.12
30 1 0.04
31 10 0.40
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (31 bp):
TTATTAATGAGATATCATCATTTAATTTATC
Done.