Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 64 of 160
Found at i:13312670 original size:16 final size:18
Alignment explanation
Indices: 13312640--13312677 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
13312630 AGTAAAACCT
*
13312640 TCATTAAAAGAATC-ATG
1 TCATAAAAAGAATCAATG
13312657 TCATAAAAAG-ATCAATG
1 TCATAAAAAGAATCAATG
13312674 TCAT
1 TCAT
13312678 TTACAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (18 bp):
TCATAAAAAGAATCAATG
Found at i:13319762 original size:17 final size:16
Alignment explanation
Indices: 13319716--13319763 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
13319706 AACTTTCCAT
*
13319716 TTTTAGTAACTTTATA
1 TTTTAGTAATTTTATA
*
13319732 TTTTAGGTAATTTTCTA
1 TTTTA-GTAATTTTATA
13319749 TTTTAGTAAGTTTTA
1 TTTTAGTAA-TTTTA
13319764 GGGTTAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.58
Consensus pattern (16 bp):
TTTTAGTAATTTTATA
Found at i:13334229 original size:22 final size:22
Alignment explanation
Indices: 13334204--13334257 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
13334194 ACGTATGATA
13334204 TGGAATTTGATTATGAATATGG
1 TGGAATTTGATTATGAATATGG
13334226 TGGAATTTGATTATGAATATGG
1 TGGAATTTGATTATGAATATGG
*
13334248 TGGAACTTGA
1 TGGAATTTGA
13334258 AAGGAATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.02, G:0.28, T:0.39
Consensus pattern (22 bp):
TGGAATTTGATTATGAATATGG
Found at i:13339695 original size:123 final size:124
Alignment explanation
Indices: 13339475--13339723 Score: 491
Period size: 123 Copynumber: 2.0 Consensus size: 124
13339465 ATCCCTGTAA
13339475 ATAGTGCCAAAAACTTGATTGGGACATTTTCAAATGCACAGGTCATTTAAGTAATAATAGTGACC
1 ATAGTGCCAAAAACTTGATTGGGACATTTTCAAATGCACAGGTCATTTAAGTAATAATAGTGACC
13339540 AAAGGTCAAGATATCATTCTCACGAGGATTAGCTAAAAAGGTTCTTAGCCTAAGCACCT
66 AAAGGTCAAGATATCATTCTCACGAGGATTAGCTAAAAAGGTTCTTAGCCTAAGCACCT
13339599 ATAGTGCCAAAAACTTGATTGGGACATTTTCAAATGCAC-GGTCATTTAAGTAATAATAGTGACC
1 ATAGTGCCAAAAACTTGATTGGGACATTTTCAAATGCACAGGTCATTTAAGTAATAATAGTGACC
13339663 AAAGGTCAAGATATCATTCTCACGAGGATTAGCTAAAAAGGTTCTTAGCCTAAGCACCT
66 AAAGGTCAAGATATCATTCTCACGAGGATTAGCTAAAAAGGTTCTTAGCCTAAGCACCT
13339722 AT
1 AT
13339724 TATCCCTCAC
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 86 0.69
124 39 0.31
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (124 bp):
ATAGTGCCAAAAACTTGATTGGGACATTTTCAAATGCACAGGTCATTTAAGTAATAATAGTGACC
AAAGGTCAAGATATCATTCTCACGAGGATTAGCTAAAAAGGTTCTTAGCCTAAGCACCT
Found at i:13342568 original size:13 final size:13
Alignment explanation
Indices: 13342552--13342576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13342542 ACTGCCTCTC
13342552 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
13342565 TTTTTTCTTTTT
1 TTTTTTCTTTTT
13342577 CACATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Found at i:13348265 original size:66 final size:68
Alignment explanation
Indices: 13348186--13348318 Score: 177
Period size: 66 Copynumber: 2.0 Consensus size: 68
13348176 TTCTTCTTTT
13348186 TTTTTTCATTTTTTCA-TTTTCATTTTATTT-TTTTGAAACAAAAA-CAATTCAAATTTAAAACA
1 TTTTTTCATTTTTT-ATTTTTCATTTT-TTTATTTTGAAACAAAAATCAA-TCAAATTTAAAACA
13348248 AAACTC
63 AAACTC
* * *
13348254 TTTTTT-A-TTTTTATTTTTTATTTTTTTATTTTTAAACAAAAATGAATCAAATTTAAAACAAAA
1 TTTTTTCATTTTTTATTTTTCATTTTTTTATTTTGAAACAAAAATCAATCAAATTTAAAACAAAA
13348317 CT
66 CT
13348319 TTGGTACTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
65 4 0.07
66 46 0.78
67 3 0.05
68 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.51
Consensus pattern (68 bp):
TTTTTTCATTTTTTATTTTTCATTTTTTTATTTTGAAACAAAAATCAATCAAATTTAAAACAAAA
CTC
Found at i:13348271 original size:7 final size:7
Alignment explanation
Indices: 13348254--13348286 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
13348244 AACAAAACTC
13348254 TTTTTTA
1 TTTTTTA
13348261 -TTTTTA
1 TTTTTTA
13348267 TTTTTTA
1 TTTTTTA
13348274 TTTTTTTA
1 -TTTTTTA
13348282 TTTTT
1 TTTTT
13348287 AAACAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:13348285 original size:13 final size:13
Alignment explanation
Indices: 13348254--13348278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13348244 AACAAAACTC
13348254 TTTTTTATTTTTA
1 TTTTTTATTTTTA
13348267 TTTTTTATTTTT
1 TTTTTTATTTTT
13348279 TTATTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:13348331 original size:66 final size:64
Alignment explanation
Indices: 13348194--13348342 Score: 155
Period size: 66 Copynumber: 2.3 Consensus size: 64
13348184 TTTTTTTTCA
* *
13348194 TTTTTTCA-TTTTCATTTTATTTTTTTGAAACAAAAACAATTCAAATTTAAAACAAAACTCTTTT
1 TTTTTT-ATTTTTTATTTT-TTTTTTTGAAACAAAAACAATTCAAATTTAAAACAAAACTCTTTA
*
13348258 T
64 C
* *
13348259 TATTTTTATTTTTTATTTTTTTATTTTTAAACAAAAATGAA-TCAAATTTAAAACAAAACT-TTG
1 T-TTTTTATTTTTTATTTTTTT-TTTTGAAACAAAAA-CAATTCAAATTTAAAACAAAACTCTT-
13348322 GTAC
62 -TAC
13348326 -TTTTT-TTTTTTATTTTT
1 TTTTTTATTTTTTATTTTT
13348343 AGATTAAAGT
Statistics
Matches: 73, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
64 12 0.16
65 12 0.16
66 46 0.63
67 3 0.04
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (64 bp):
TTTTTTATTTTTTATTTTTTTTTTTGAAACAAAAACAATTCAAATTTAAAACAAAACTCTTTAC
Found at i:13348761 original size:7 final size:7
Alignment explanation
Indices: 13348751--13348980 Score: 125
Period size: 7 Copynumber: 34.3 Consensus size: 7
13348741 GAGGTTTATG
13348751 TTAGGGT
1 TTAGGGT
13348758 TTAGGGGT
1 TTA-GGGT
13348766 TTAAGGGT
1 TT-AGGGT
13348774 TTAGGG-
1 TTAGGGT
13348780 TTA-GG-
1 TTAGGGT
13348785 TTAGGG-
1 TTAGGGT
13348791 TTAGGGT
1 TTAGGGT
13348798 TTAGGG-
1 TTAGGGT
*
13348804 TTA-GGA
1 TTAGGGT
*
13348810 TTAAGGT
1 TTAGGGT
* *
13348817 CTAGGGA
1 TTAGGGT
13348824 TTAGGG-
1 TTAGGGT
* *
13348830 CTGGGGT
1 TTAGGGT
13348837 TTA-GGT
1 TTAGGGT
13348843 TTAGGGT
1 TTAGGGT
*
13348850 TT-TGGT
1 TTAGGGT
*
13348856 TTACGG-
1 TTAGGGT
*
13348862 TTAGGGA
1 TTAGGGT
13348869 TT-GGGT
1 TTAGGGT
*
13348875 TTAGGATT
1 TTAGG-GT
13348883 TTAGGGT
1 TTAGGGT
*
13348890 TTAGGTT
1 TTAGGGT
* *
13348897 TTTGGTTT
1 TTAGG-GT
13348905 TTA--GT
1 TTAGGGT
13348910 TTAGGG-
1 TTAGGGT
13348916 TTAGGGT
1 TTAGGGT
**
13348923 TTA-GAC
1 TTAGGGT
*
13348929 TTAGGATT
1 TTAGG-GT
13348937 TTAGGGT
1 TTAGGGT
*
13348944 TTAAGG-
1 TTAGGGT
13348950 TTAGGGT
1 TTAGGGT
13348957 TTAAGGGT
1 TT-AGGGT
13348965 TT-GGGAT
1 TTAGGG-T
13348972 TTAGGGT
1 TTAGGGT
13348979 TT
1 TT
13348981 CAAGTTTGAA
Statistics
Matches: 175, Mismatches: 26, Indels: 44
0.71 0.11 0.18
Matches are distributed among these distances:
5 11 0.06
6 60 0.34
7 66 0.38
8 37 0.21
9 1 0.01
ACGTcount: A:0.17, C:0.02, G:0.39, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:13348792 original size:6 final size:6
Alignment explanation
Indices: 13348750--13348850 Score: 69
Period size: 6 Copynumber: 15.5 Consensus size: 6
13348740 TGAGGTTTAT
13348750 GTTAGG GTTTAGGG GTTTAAGG GTTTAGG GTTA-G GTTAGG GTTAGG GTTTAGG
1 GTTAGG G-TTA-GG G-TT-AGG G-TTAGG GTTAGG GTTAGG GTTAGG G-TTAGG
* * * * *
13348803 GTTAGG ATTAAG GTCTAGG GATTAGG GCTGGG GTTTAGG TTTAGG GTT
1 GTTAGG GTTAGG GT-TAGG G-TTAGG GTTAGG G-TTAGG GTTAGG GTT
13348851 TTGGTTTACG
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
5 5 0.06
6 33 0.43
7 25 0.32
8 13 0.17
9 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.44, T:0.37
Consensus pattern (6 bp):
GTTAGG
Found at i:13348803 original size:13 final size:13
Alignment explanation
Indices: 13348750--13348979 Score: 107
Period size: 13 Copynumber: 17.2 Consensus size: 13
13348740 TGAGGTTTAT
13348750 GTTAGGGTTTAGGG
1 GTTAGGGTTTA-GG
13348764 GTTTAAGGGTTTAGG
1 G-TT-AGGGTTTAGG
13348779 GTTA-GG-TTAGG
1 GTTAGGGTTTAGG
13348790 GTTAGGGTTTAGG
1 GTTAGGGTTTAGG
* *
13348803 GTTA-GGATTAAG
1 GTTAGGGTTTAGG
*
13348815 GTCTAGGGATTAGG
1 GT-TAGGGTTTAGG
* *
13348829 GCTGGGGTTTAGG
1 GTTAGGGTTTAGG
* *
13348842 TTTAGGGTTTTGG
1 GTTAGGGTTTAGG
* *
13348855 TTTACGG-TTAGG
1 GTTAGGGTTTAGG
13348867 GATT-GGGTTTAGG
1 G-TTAGGGTTTAGG
*
13348880 ATTTTAGGGTTTAGG
1 --GTTAGGGTTTAGG
* * *
13348895 TTTTTGGTTTTTA-G
1 -GTTAGG-GTTTAGG
*
13348909 TTTAGGG-TTAGG
1 GTTAGGGTTTAGG
**
13348921 GTTTA-GACTTAGG
1 G-TTAGGGTTTAGG
* *
13348934 ATTTTAGGGTTTAAG
1 --GTTAGGGTTTAGG
13348949 GTTAGGGTTTAAGG
1 GTTAGGGTTT-AGG
*
13348963 GTTTGGGATTTAGG
1 GTTAGGG-TTTAGG
13348977 GTT
1 GTT
13348980 TCAAGTTTGA
Statistics
Matches: 168, Mismatches: 28, Indels: 40
0.71 0.12 0.17
Matches are distributed among these distances:
11 12 0.07
12 20 0.12
13 65 0.39
14 37 0.22
15 26 0.15
16 8 0.05
ACGTcount: A:0.17, C:0.02, G:0.39, T:0.42
Consensus pattern (13 bp):
GTTAGGGTTTAGG
Found at i:13348933 original size:54 final size:54
Alignment explanation
Indices: 13348833--13348958 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
13348823 ATTAGGGCTG
* * **
13348833 GGGTTTAGG-TTTAGGGTTTTGGTTTACGGTTAGGGATTGGGTTTAGGATTTTA
1 GGGTTTAGGTTTTAGGGTTTTAGTTTACGGTTAGGGATTAGACTTAGGATTTTA
* * * *
13348886 GGGTTTAGGTTTTTGGTTTTTAGTTTAGGGTTAGGGTTTAGACTTAGGATTTTA
1 GGGTTTAGGTTTTAGGGTTTTAGTTTACGGTTAGGGATTAGACTTAGGATTTTA
13348940 GGGTTTAAGG--TTAGGGTTT
1 GGGTTT-AGGTTTTAGGGTTT
13348959 AAGGGTTTGG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
53 16 0.26
54 42 0.69
55 3 0.05
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.47
Consensus pattern (54 bp):
GGGTTTAGGTTTTAGGGTTTTAGTTTACGGTTAGGGATTAGACTTAGGATTTTA
Found at i:13349624 original size:23 final size:22
Alignment explanation
Indices: 13349581--13349624 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
13349571 TCATCTATCA
* *
13349581 ATCATGAACCAAACAAGAGATG
1 ATCATCAACCAAACAAAAGATG
*
13349603 ATCATCAAGCCAAGCAAAAGAT
1 ATCATCAA-CCAAACAAAAGAT
13349625 TTGGCTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.20, G:0.16, T:0.14
Consensus pattern (22 bp):
ATCATCAACCAAACAAAAGATG
Found at i:13354044 original size:15 final size:16
Alignment explanation
Indices: 13354018--13354047 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13354008 CAAACTAAAC
13354018 CAAGTGATTTCTTTTG
1 CAAGTGATTTCTTTTG
13354034 CAAGT-ATTTCTTTT
1 CAAGTGATTTCTTTT
13354048 CTTATTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (16 bp):
CAAGTGATTTCTTTTG
Found at i:13354187 original size:69 final size:69
Alignment explanation
Indices: 13354102--13354233 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 69
13354092 AAAAACTTCC
* * *
13354102 AAAAAAATTTTTTTGAGAAAAAGTTGAAAACATCAATTTTTCTT-AAAAATAAAATTTCTAAAAT
1 AAAAAAAATATTTTGAGAAAAAGTTGAAAACATCAA-TTTTCTTCAAAAATAAAATTTCAAAAAT
13354166 TTTCA
65 TTTCA
* ** * *
13354171 AAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAATTTCAAAAA
1 AAAAAAAATATTTTGAGAAAAAGTTGAAAACATCAATTTTCTTCAAAAATAAAATTTCAAAAA
13354234 AATATTGTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
68 7 0.13
69 47 0.87
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (69 bp):
AAAAAAAATATTTTGAGAAAAAGTTGAAAACATCAATTTTCTTCAAAAATAAAATTTCAAAAATT
TTCA
Found at i:13354212 original size:52 final size:52
Alignment explanation
Indices: 13354156--13354328 Score: 154
Period size: 52 Copynumber: 3.2 Consensus size: 52
13354146 AAAAATAAAA
13354156 TTTC-TAAAATTTTCAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTCTTAAAA-TTTCAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAAT
* ** * *
13354208 TTTCTTCGAAATTAAAATTTCAAAAAAATATTGTG-GGAAAAAGTTGAAAGTACCAAT
1 TTTCTT-AAAATTTCAA----AAAAAAATATTTTGAGG-AAAAGTTGAAAGTATCAAT
* * * * *
13354265 TTTCCTTAAAA-ATAAAAAAAAAACATTTTAAGGAAAAGTTGAAAGTATTAAT
1 TTT-CTTAAAATTTCAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAAT
13354317 TTTCCTTAAAAT
1 TTT-CTTAAAAT
13354329 AAAAACTCCT
Statistics
Matches: 98, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
52 43 0.44
53 7 0.07
54 3 0.03
56 5 0.05
57 37 0.38
58 3 0.03
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.34
Consensus pattern (52 bp):
TTTCTTAAAATTTCAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:13354281 original size:57 final size:50
Alignment explanation
Indices: 13354170--13354333 Score: 161
Period size: 57 Copynumber: 3.1 Consensus size: 50
13354160 TAAAATTTTC
*
13354170 AAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAA
1 AAAAAAAAATA-TTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT--AAAATAA
*
13354223 AATTTCAAAAAAATATTGTGGGAAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAA
1 AA----AAAAAAATATT-TGGG-AAAAGTTGAAAGTATCAATTTTCCTT-AAAATAA
* *
13354280 AAAAAAAACAT-TTTAAGGAAAAGTTGAAAGTATTAATTTTCCTTAAAATAA
1 AAAAAAAA-ATATTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAA
13354331 AAA
1 AAA
13354334 CTCCTAAATG
Statistics
Matches: 96, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
51 10 0.10
52 25 0.26
53 12 0.12
54 2 0.02
56 4 0.04
57 40 0.42
58 3 0.03
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (50 bp):
AAAAAAAAATATTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAA
Found at i:13358327 original size:26 final size:25
Alignment explanation
Indices: 13358287--13358393 Score: 124
Period size: 26 Copynumber: 4.0 Consensus size: 25
13358277 TCAAAGATGG
13358287 ATGAAAAAAAGAGAGAAAAAATAAAAA
1 ATGAAAAAAA-AGA-AAAAAATAAAAA
* *
13358314 ATGAAAAAAAAGAGAAAATATGAAAA
1 ATGAAAAAAAAGA-AAAAAATAAAAA
* *
13358340 AGGAAAGAAAAAGAAAAAATATGAAAA
1 ATGAAA-AAAAAGAAAAAA-ATAAAAA
13358367 ATGAAAAAAAAGAAAAAAATAAGAAA
1 ATGAAAAAAAAGAAAAAAATAA-AAA
13358393 A
1 A
13358394 GAGAGAAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
25 3 0.04
26 39 0.55
27 29 0.41
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (25 bp):
ATGAAAAAAAAGAAAAAAATAAAAA
Found at i:13358339 original size:27 final size:26
Alignment explanation
Indices: 13358287--13358393 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
13358277 TCAAAGATGG
*
13358287 ATGAAAAAAAGAGAGAAAAA-ATAAAAA
1 ATGAAAAAAA-AGA-AAAAATATGAAAA
*
13358314 ATGAAAAAAAAGAGAAAATATGAAAA
1 ATGAAAAAAAAGAAAAAATATGAAAA
*
13358340 AGGAAAGAAAAAGAAAAAATATGAAAA
1 ATGAAA-AAAAAGAAAAAATATGAAAA
*
13358367 ATGAAAAAAAAGAAAAAAATAAGAAAA
1 ATGAAAAAAAAG-AAAAAATATGAAAA
13358394 GAGAGAAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.06
26 20 0.28
27 47 0.66
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (26 bp):
ATGAAAAAAAAGAAAAAATATGAAAA
Found at i:13358367 original size:11 final size:9
Alignment explanation
Indices: 13358289--13358406 Score: 58
Period size: 10 Copynumber: 12.0 Consensus size: 9
13358279 AAAGATGGAT
13358289 GAAAAAAAGA
1 GAAAAAAA-A
*
13358299 GAGAAAAAA
1 GAAAAAAAA
* *
13358308 -TAAAAAAT
1 GAAAAAAAA
13358316 GAAAAAAAA
1 GAAAAAAAA
* *
13358325 GAGAAAATAT
1 GA-AAAAAAA
13358335 GAAAAAGGAAA
1 GAAAAA--AAA
13358346 GAAAAAGAAA
1 GAAAAA-AAA
*
13358356 AAATATGAAAAA
1 GAA-A--AAAAA
13358368 TGAAAAAAAA
1 -GAAAAAAAA
13358378 GAAAAAAATAA
1 G-AAAAAA-AA
* *
13358389 GAAAAGAGA
1 GAAAAAAAA
13358398 GAAAAAAAA
1 GAAAAAAAA
13358407 AATGAAAGAA
Statistics
Matches: 82, Mismatches: 16, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
8 5 0.06
9 22 0.27
10 36 0.44
11 11 0.13
12 4 0.05
13 4 0.05
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:13358372 original size:53 final size:54
Alignment explanation
Indices: 13358289--13358407 Score: 154
Period size: 53 Copynumber: 2.2 Consensus size: 54
13358279 AAAGATGGAT
* *
13358289 GAAAAAAAGAGAGAAAAAATAAAAAATGAAAAAAAAG-AGAAAATATGAAAA-AG-
1 GAAAAAAA-A-AGAAAAAATAAAAAATGAAAAAAAAGAAAAAAATAAGAAAAGAGA
*
13358342 GAAAGAAAAAGAAAAAATATGAAAAATGAAAAAAAAGAAAAAAATAAGAAAAGAGA
1 GAAAAAAAAAGAAAAAATA--AAAAATGAAAAAAAAGAAAAAAATAAGAAAAGAGA
13358398 GAAAAAAAAA
1 GAAAAAAAAA
13358408 ATGAAAGAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
51 10 0.18
52 1 0.02
53 23 0.40
54 12 0.21
55 2 0.04
56 9 0.16
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (54 bp):
GAAAAAAAAAGAAAAAATAAAAAATGAAAAAAAAGAAAAAAATAAGAAAAGAGA
Found at i:13358402 original size:27 final size:26
Alignment explanation
Indices: 13358292--13358422 Score: 90
Period size: 27 Copynumber: 4.9 Consensus size: 26
13358282 GATGGATGAA
* *
13358292 AAAAAGAGAGAAAAAATAA-AAAATGAA
1 AAAAA-AGA-AAAAAATAAGAAAAAGAG
* *
13358319 AAAAAAG-AGAAAATATGAAAAAG-G
1 AAAAAAGAAAAAAATAAGAAAAAGAG
* * *
13358343 AAAGAAAAAGAAAAAATATGAAAAATGAA
1 AAA-AAAGA-AAAAAATAAGAAAAA-GAG
13358372 AAAAAAGAAAAAAATAAGAAAAGAGAG
1 AAAAAAGAAAAAAATAAGAAAA-AGAG
*
13358399 AAAAAA-AAAATGAAAGAAGAAAAA
1 AAAAAAGAAAA--AAATAAGAAAAA
13358423 TGAAGACTCA
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
24 10 0.12
25 8 0.10
26 6 0.07
27 41 0.49
28 16 0.19
29 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (26 bp):
AAAAAAGAAAAAAATAAGAAAAAGAG
Found at i:13358402 original size:36 final size:37
Alignment explanation
Indices: 13358309--13358428 Score: 103
Period size: 36 Copynumber: 3.3 Consensus size: 37
13358299 GAGAAAAAAT
*
13358309 AAAAAATGAA-AAAAAAGAGAAAATATG--AAAAAGGA
1 AAAAAATGAAGAAAAAAGAGAAAA-ATGAAAAAAAAGA
* *
13358344 AAGAAA--AAGAAAAAATATGAAAAATGAAAAAAAAGA
1 AAAAAATGAAGAAAAAAGA-GAAAAATGAAAAAAAAGA
*
13358380 AAAAAAT-AAGAAAAGAGAGAAAAA--AAAAATGAAAGA
1 AAAAAATGAAGAAAAAAGAGAAAAATGAAAAA--AAAGA
13358416 AGAAAAATGAAGA
1 A-AAAAATGAAGA
13358429 CTCAAATTGA
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
33 2 0.03
34 15 0.21
35 10 0.14
36 24 0.34
37 15 0.21
38 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (37 bp):
AAAAAATGAAGAAAAAAGAGAAAAATGAAAAAAAAGA
Found at i:13358405 original size:21 final size:19
Alignment explanation
Indices: 13358363--13358422 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 19
13358353 AAAAAATATG
13358363 AAAAATGAAA-AA-AAAGAA
1 AAAAATGAAAGAAGAAA-AA
13358381 AAAAATAAGAAAAGAGAGAAAAA
1 AAAAAT--G-AAAGA-AGAAAAA
13358404 AAAAATGAAAGAAGAAAAA
1 AAAAATGAAAGAAGAAAAA
13358423 TGAAGACTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
18 6 0.17
19 7 0.19
20 6 0.17
21 4 0.11
22 1 0.03
23 9 0.25
24 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAAATGAAAGAAGAAAAA
Found at i:13358414 original size:20 final size:20
Alignment explanation
Indices: 13358363--13358422 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
13358353 AAAAAATATG
*
13358363 AAAAATGAAAAAAAAGAAAAA
1 AAAAATG-AAAAGAAGAAAAA
*
13358384 AATAA-GAAAAGAGAGAAAAA
1 AAAAATGAAAAGA-AGAAAAA
13358404 AAAAATG-AAAGAAGAAAAA
1 AAAAATGAAAAGAAGAAAAA
13358423 TGAAGACTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 12 0.35
20 17 0.50
21 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (20 bp):
AAAAATGAAAAGAAGAAAAA
Found at i:13358421 original size:16 final size:15
Alignment explanation
Indices: 13358300--13358422 Score: 72
Period size: 16 Copynumber: 7.5 Consensus size: 15
13358290 AAAAAAAGAG
13358300 AGAAAAAATAA-AAAA
1 AGAAAAAA-AAGAAAA
*
13358315 TGAAAAAAAAGAGAAAA
1 AG-AAAAAAA-AGAAAA
13358332 TATGAAAAAGGAAAGAAAA
1 -A-GAAAAA--AAAGAAAA
*
13358351 AGAAAAAATATGAAAA
1 AGAAAAAA-AAGAAAA
13358367 ATGAAAAAAAAGAAAA
1 A-GAAAAAAAAGAAAA
13358383 A-AATAAGAAAAGAGAGAA
1 AGAA-AA-AAAAGA-A-AA
*
13358401 A-AAAAAAATGAAAGA
1 AGAAAAAAAAGAAA-A
13358416 AGAAAAA
1 AGAAAAA
13358423 TGAAGACTCA
Statistics
Matches: 88, Mismatches: 5, Indels: 29
0.72 0.04 0.24
Matches are distributed among these distances:
14 3 0.03
15 8 0.09
16 37 0.42
17 20 0.23
18 11 0.12
19 7 0.08
20 2 0.02
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.07
Consensus pattern (15 bp):
AGAAAAAAAAGAAAA
Found at i:13359194 original size:63 final size:63
Alignment explanation
Indices: 13359061--13359231 Score: 218
Period size: 63 Copynumber: 2.7 Consensus size: 63
13359051 GAAACTGGTG
* * *
13359061 CTAAGAAGCCCATGAATGATGACCAAATGACAAAGGATGAAATTTGTTCTAAAATGGCTAATG
1 CTAAGAAGCCCATGAACGATGACCAAATGACAGAGGATGAAATTTGTTCTAAAATGGCTAATA
*
13359124 CTAAGAAGCCCATGAACGATGACCAAATGACAGAGGATGAAATTTGTTC-AGAAATGGCTAGTA
1 CTAAGAAGCCCATGAACGATGACCAAATGACAGAGGATGAAATTTGTTCTA-AAATGGCTAATA
* * ** * * * *
13359187 TTGAGAAGCTTATGAACGATAATCAAGTGACAGAGGATAAAATTT
1 CTAAGAAGCCCATGAACGATGACCAAATGACAGAGGATGAAATTT
13359232 ATTTTTGGTT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 1 0.01
63 94 0.99
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (63 bp):
CTAAGAAGCCCATGAACGATGACCAAATGACAGAGGATGAAATTTGTTCTAAAATGGCTAATA
Found at i:13359696 original size:21 final size:22
Alignment explanation
Indices: 13359649--13359698 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
13359639 CTTTTGATAA
*
13359649 AAAAAT-TTTTAATTTCAAATG
1 AAAAATCTTTGAATTTCAAATG
*
13359670 -AGAATCTTTGAATTTCAAA-G
1 AAAAATCTTTGAATTTCAAATG
13359690 AAAAATCTT
1 AAAAATCTT
13359699 AAAGTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
AAAAATCTTTGAATTTCAAATG
Found at i:13359957 original size:21 final size:21
Alignment explanation
Indices: 13359909--13359961 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
13359899 GAGCCTTTTG
*
13359909 ATGAAAATATTTGAATTTCAA
1 ATGAAAATCTTTGAATTTCAA
13359930 ATGAAAATCTTTGAATTTCAA
1 ATGAAAATCTTTGAATTTCAA
13359951 A-GAAAAATCTT
1 ATG-AAAATCTT
13359962 GGAGCTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (21 bp):
ATGAAAATCTTTGAATTTCAA
Found at i:13360003 original size:263 final size:263
Alignment explanation
Indices: 13359535--13360028 Score: 677
Period size: 264 Copynumber: 1.9 Consensus size: 263
13359525 TGGCATTATA
* * *
13359535 AGAATCTAGGTTGTTGCATTTGCATCATTAAGAAGGCATGTGCATCTTTGACCATGACATTCATT
1 AGAATCTAGGTTGTTGCATTTGCATCATTAAAAAAGCATGTGCATATTTGACCATGACATTCATT
* ** * *
13359600 CCTGCAAAATTTTGGGTCATTTGGAAAGAAATTATGAACCTTTTGATAAAAAAATTTTTAATTTC
66 CATGCAAAATTTTGGGTCACCTGAAAAGAAATTATGAACCTTTTGATAAAAAAATTTTGAATTTC
* *
13359665 AAATGAGAATCTTTGAATTTCAAAGAAAAATCTTAAAGTTTTAAGTTCTAAAGGAAAATCTTTAA
131 AAATGAAAATCTTTGAATTTCAAAGAAAAATCTTAAAGCTTTAAGTTCTAAAGGAAAATCTTTAA
* * * *
13359730 TATGTGAAACTCTAG-GGTTTCTTGAATGCGAATCTTTAAACTCGAATGAAAATCTTTGAGTTTC
196 GATATGAAACT-TAGAGGTTTATTGAATGAGAA-CTTTAAACTCGAATGAAAATCTTTGAGTTTC
13359794 AAATG
259 AAATG
* * ** * **
13359799 AGAATCTAGGTTGTTGCATTTGCGTTATTAAAAAATTATTTGCATATTTGATTATGACATTCATT
1 AGAATCTAGGTTGTTGCATTTGCATCATTAAAAAAGCATGTGCATATTTGACCATGACATTCATT
* * * *
13359864 CATGCAAAATTTTGGGTCACCTGAAAAGAAGTTATGAGCCTTTTGATGAAAATA-TTTGAATTTC
66 CATGCAAAATTTTGGGTCACCTGAAAAGAAATTATGAACCTTTTGATAAAAAAATTTTGAATTTC
** * * *
13359928 AAATGAAAATCTTTGAATTTCAAAGAAAAATCTTGGAGCTTTAAGTTTTAAATGAGAATCTTTAA
131 AAATGAAAATCTTTGAATTTCAAAGAAAAATCTTAAAGCTTTAAGTTCTAAAGGAAAATCTTTAA
*
13359993 GATATGAAACTTTGAGGTTTATTGAATGAGAACTTT
196 GATATGAAACTTAGAGGTTTATTGAATGAGAACTTT
13360029 TGAGCTTGAA
Statistics
Matches: 198, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
262 6 0.03
263 91 0.46
264 101 0.51
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (263 bp):
AGAATCTAGGTTGTTGCATTTGCATCATTAAAAAAGCATGTGCATATTTGACCATGACATTCATT
CATGCAAAATTTTGGGTCACCTGAAAAGAAATTATGAACCTTTTGATAAAAAAATTTTGAATTTC
AAATGAAAATCTTTGAATTTCAAAGAAAAATCTTAAAGCTTTAAGTTCTAAAGGAAAATCTTTAA
GATATGAAACTTAGAGGTTTATTGAATGAGAACTTTAAACTCGAATGAAAATCTTTGAGTTTCAA
ATG
Found at i:13360039 original size:20 final size:20
Alignment explanation
Indices: 13360014--13360051 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13360004 TTGAGGTTTA
*
13360014 TTGAATGAGAACTTTTGAGC
1 TTGAATAAGAACTTTTGAGC
13360034 TTGAATAAGAACTTTTGA
1 TTGAATAAGAACTTTTGA
13360052 AATTTTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGAATAAGAACTTTTGAGC
Found at i:13360408 original size:43 final size:43
Alignment explanation
Indices: 13360360--13360921 Score: 225
Period size: 43 Copynumber: 13.2 Consensus size: 43
13360350 TAGATGAGCC
* * *
13360360 ATTTATTTTTCAAAATCGTT-AGGCCTCTGTTTAAAAGAGCTTT
1 ATTTATTGTCCAAAATCGTTGA-GCCTCTGTTTAAAGGAGCTTT
* * * * * *
13360403 GTTTATTGTCCAAAGTCATTGAGCCTCTATTTAGAGGAGTTTT
1 ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
* *
13360446 ATTTATTGTCCAAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTT
1 ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
* * * * * *
13360489 ATTTATTTTTCCAAAAGTCATTGAGCCTCTGATTAGATGAGC--C
1 ATTTA-TTGTCCAAAA-TCGTTGAGCCTCTGTTTAAAGGAGCTTT
* * ** * * *
13360532 ATTTATTTTCCAAAGTCGTTGAGCCTCTAATTAGATGAGC--C
1 ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
** ** * * *
13360573 ATTTATT-TTTAAGGTCGTGGAGCCTCTGATTAGAGGAGCTTT
1 ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
* * * ** * * * *
13360615 GTTCATTTTTTAAAGTTGTTGAACCTCTGTTTAGAGGAGCTTT
1 ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
* * * * * * * *
13360658 ATTTATTTTCCAAAGTCATTGAGCCTTTGATTAGATGAGC--C
1 ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
* ** * *
13360699 ATTTATT-TTCAAGGTCG-TGGGACCTTTGTTTAGAA-GAGCTTT
1 ATTTATTGTCCAAAATCGTTGAG-CCTCTGTTTA-AAGGAGCTTT
* * * * * * *
13360741 GTTTATTTTTCTAAGTCATTGAGCCTCTGTTTAGAGGAGCTTT
1 ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
* * * * * *
13360784 ATTTATTTTTCCAAAGTCATTGAGCCTCTATTTAGAGGAGCCTT
1 ATTTA-TTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
* *** * * * *
13360828 ATTTATTTTTTTGAAGTTGTTGAGCATCTGTTTAGAGGAGCAATTT
1 ATTTA-TTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGC--TTT
* * * *
13360874 ATTT-TT-T-CAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTT
1 ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAG-CTTT
*
13360915 GTTTATT
1 ATTTATT
13360922 TTTCCAAAGT
Statistics
Matches: 418, Mismatches: 83, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.01
40 46 0.11
41 45 0.11
42 48 0.11
43 168 0.40
44 82 0.20
45 20 0.05
46 6 0.01
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (43 bp):
ATTTATTGTCCAAAATCGTTGAGCCTCTGTTTAAAGGAGCTTT
Found at i:13360472 original size:86 final size:85
Alignment explanation
Indices: 13360360--13360931 Score: 471
Period size: 86 Copynumber: 6.7 Consensus size: 85
13360350 TAGATGAGCC
* * * * * *
13360360 ATTTATTTTTCAAAATCGTT-AGGCCTCTGTTTAAAAGAGCTTTGTTTATTGTCCAAAGTCATTG
1 ATTTATTTTCCAAAGTCGTTGA-GCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTG
13360424 AGCCTCT-ATTTAGAGGAGTTTT
65 AGCCTCTGA-TTAGAGGAG-TTT
* * *
13360446 ATTTATTGTCCAAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTATTTATTTTTCCAAAAGTCATT
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTA-TTTTCC-AAAGTCATT
* **
13360511 GAGCCTCTGATTAGATGAG-CC
64 GAGCCTCTGATTAGAGGAGTTT
** * * * * * *
13360532 ATTTATTTTCCAAAGTCGTTGAGCCTCTAATTAGATGAGC--CATTTATTTT-TAAGGTCGTGGA
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGA
13360594 GCCTCTGATTAGAGGAGCTTT
66 GCCTCTGATTAGAGGAG-TTT
* * ** * *
13360615 GTTCATTTTTTAAAGTTGTTGAACCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGA
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGA
* * **
13360680 GCCTTTGATTAGATGAG-CC
66 GCCTCTGATTAGAGGAGTTT
* * * * * * *
13360699 ATTTATTTT-CAAGGTCG-TGGGACCTTTGTTTAGAAGAGCTTTGTTTATTTTTCTAAGTCATTG
1 ATTTATTTTCCAAAGTCGTTGAG-CCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTG
*
13360762 AGCCTCTGTTTAGAGGAGCTTT
65 AGCCTCTGATTAGAGGAG-TTT
* * * *** **
13360784 ATTTATTTTTCCAAAGTCATTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTTTGAAGTTGTT
1 ATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTA-TTTTCCAAAGTCATT
* * **
13360849 GAGCATCTGTTTAGAGGAG-CA
64 GAGCCTCTGATTAGAGGAGTTT
* * * *
13360870 ATTTATTTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTGTTTATTTTTCCAAAGT
1 ATTTA-TTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAG-CTTTATTTA-TTTTCCAAAGT
13360932 TGTTGAGTCT
Statistics
Matches: 385, Mismatches: 84, Indels: 33
0.77 0.17 0.07
Matches are distributed among these distances:
81 24 0.06
82 2 0.01
83 91 0.24
84 12 0.03
85 14 0.04
86 136 0.35
87 48 0.12
88 57 0.15
89 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (85 bp):
ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGA
GCCTCTGATTAGAGGAGTTT
Found at i:13360664 original size:126 final size:127
Alignment explanation
Indices: 13360361--13360931 Score: 543
Period size: 126 Copynumber: 4.5 Consensus size: 127
13360351 AGATGAGCCA
* * * * * *
13360361 TTTATTTTTC-AAAATCGTT-AGGCCTCTGTTTAAAAGAGCTTTGTTTATTGTCCAAAGTCATTG
1 TTTATTTTTCTAAAGTCATTGA-GCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTG
* ** * * * * *
13360424 AGCCTCTATTTAGAGGAGTTTTATTTATTGTCCAAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTT
65 AGCCTCTAATTAGAGGAG--CCATTTATT-TTCAAGGTCGTGGAGCCTCTGTTTAGAGGAGCTTT
*
13360489 A
127 G
* * * * *
13360490 TTTATTTTTCCAAAAGTCATTGAGCCTCTGATTAGATGAGC--CATTTATTTTCCAAAGTCGTTG
1 TTTATTTTT-CTAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTG
* * *
13360553 AGCCTCTAATTAGATGAGCCATTTATTTTTAAGGTCGTGGAGCCTCTGATTAGAGGAGCTTTG
65 AGCCTCTAATTAGAGGAGCCATTTATTTTCAAGGTCGTGGAGCCTCTGTTTAGAGGAGCTTTG
* ** *
13360616 TTCATTTTT-TAAAGTTGTTGAACCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGA
1 TTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGA
* * * * *
13360680 GCCTTTGATTAGATGAGCCATTTATTTTCAAGGTCGTGG-GACCTTTGTTTAGAAGAGCTTTG
66 GCCTCTAATTAGAGGAGCCATTTATTTTCAAGGTCGTGGAG-CCTCTGTTTAGAGGAGCTTTG
13360742 TTTATTTTTCT-AAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAGTCATTG
1 TTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTA-TTTTCCAAAGTCATTG
* * * * *
13360806 AGCCTCTATTTAGAGGAGCCTTATTTATTTTTTTGAA-GTTGTTGAGCATCTGTTTAGAGGAGC-
65 AGCCTCTAATTAGAGGAGCC--ATTTA---TTTTCAAGGTCGTGGAGCCTCTGTTTAGAGGAGCT
**
13360869 -AA
125 TTG
** * *
13360871 TTTATTTTT-TCAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTGTTTATTTTTCCAAAGT
1 TTTATTTTTCT-AAAGTCATTGAGCCTCTGTTTAGAGGAG-CTTTATTTA-TTTTCCAAAGT
13360932 TGTTGAGTCT
Statistics
Matches: 369, Mismatches: 56, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
124 24 0.07
125 1 0.00
126 152 0.41
127 40 0.11
128 1 0.00
129 57 0.15
130 25 0.07
131 61 0.17
132 8 0.02
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (127 bp):
TTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTCCAAAGTCATTGA
GCCTCTAATTAGAGGAGCCATTTATTTTCAAGGTCGTGGAGCCTCTGTTTAGAGGAGCTTTG
Found at i:13361213 original size:21 final size:20
Alignment explanation
Indices: 13361181--13361227 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
13361171 ATTTTTATTC
*
13361181 ATTTTTATTTTA-GATTTTTT
1 ATTTTTATTTTATCA-TTTTT
*
13361201 ATTTTTGTATTTATCATTTTT
1 ATTTTTAT-TTTATCATTTTT
13361222 ATTTTT
1 ATTTTT
13361228 TTATGGTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 15 0.65
22 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (20 bp):
ATTTTTATTTTATCATTTTT
Found at i:13365706 original size:19 final size:19
Alignment explanation
Indices: 13365669--13365706 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13365659 CACAATTTTC
* *
13365669 TTTCTTTTTTTCTTGATTT
1 TTTCTTTTTTTCCTCATTT
13365688 TTTCTTTTTTTCCTCATTT
1 TTTCTTTTTTTCCTCATTT
13365707 CACAAGCTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTCTTTTTTTCCTCATTT
Found at i:13366352 original size:145 final size:143
Alignment explanation
Indices: 13366035--13366560 Score: 462
Period size: 144 Copynumber: 3.7 Consensus size: 143
13366025 TCATCTTCAA
* * * * * * * **
13366035 GATTTTAAA-GCACAAAAAATAATAAAATATTATAAAATTAAAATCTAAAAAATTTTGTGAAAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAAT
* * * ** * * * *
13366099 TTGTATC-T-GAGAAGATCAAATTATGAAAATACCATTAAGGGGTATTTTGCTAATGTTAC--AT
66 TCG-AGCTTGGA-AAG-GCAAATTACAAAAATACCTTTAAGAGGTATTTTGGTAA--TTACAAAC
* * * *
13366160 CTTTCAGAGTACTACTGT
126 CTCTCAGGGTACTGCTAT
13366178 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAAT
* *
13366243 TCGAGCTTGGAAAGGCCAAATTACGATAATAACC-TTAA-AGGAATATTTTGGTAATTACAAACC
66 TCGAGCTTGGAAAGG-CAAATTACAAAAAT-ACCTTTAAGAGG--TATTTTGGTAATTACAAACC
13366306 TCTCAGGGTACTGCTAT
127 TCTCAGGGTACTGCTAT
* * *
13366323 GATTTCAAATACACCAAAAATCATCAAATATTA-AGAAATTAAGATTT-AGAAAG-TTCATGAAA
1 GATTTTAAATGCACCAAAAATCATGAAATATTATA-AAATTAAGATTTGA-AAAGTTTCATGAAA
* * * * * * *
13366385 A-TCTAAGCTTGGAAAGGCAAATTATAAAAATGCCTTTAAGAGGTATTTTGGTACTTTCACACTT
64 ATTC-GAGCTTGGAAAGGCAAATTACAAAAATACCTTTAAGAGGTATTTTGGTAATTACAAACCT
* * *
13366449 CTCGGGGTATTGTTAT
128 CTCAGGGTACTGCTAT
* * * *
13366465 GATTTTAAATGCACCAAAAATCATGAAATATTATGAAACTGAGATATGAAAAGTTTCATGAAAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAAT
* * *
13366530 TTGAGCTTGAAAAGGTTAAATTACAAAAATA
66 TCGAGCTTGGAAAGG-CAAATTACAAAAATA
13366561 TCCCTAAAAG
Statistics
Matches: 315, Mismatches: 49, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
142 75 0.24
143 56 0.18
144 108 0.34
145 76 0.24
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (143 bp):
GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAAT
TCGAGCTTGGAAAGGCAAATTACAAAAATACCTTTAAGAGGTATTTTGGTAATTACAAACCTCTC
AGGGTACTGCTAT
Found at i:13366494 original size:142 final size:143
Alignment explanation
Indices: 13366163--13366560 Score: 457
Period size: 142 Copynumber: 2.8 Consensus size: 143
13366153 GTTACATCTT
* * *
13366163 TCAGAGTACTACTGTGATTTTAAATGCACCAAAAATCATGAAATATTATA-AAATTAAGATTTGA
1 TCAGGGTACTGCTATGATTTTAAATGCACCAAAAATCATGAAATATTA-AGAAATTAAGATTTGA
* *
13366227 AAAGTTTCATGAAAATTCGAGCTTGGAAAGGCCAAATTACGATAATAACCTTAAAGGAATATTTT
65 AAAGTTTCATGAAAATT-GAGCTTGGAAAGGCCAAATTACAAAAATAACCTTAAAGG-ATATTTT
13366292 GGTAATTACAAACCTC
128 GGTAATTACAAACCTC
* * *
13366308 TCAGGGTACTGCTATGATTTCAAATACACCAAAAATCATCAAATATTAAGAAATTAAGATTT-AG
1 TCAGGGTACTGCTATGATTTTAAATGCACCAAAAATCATGAAATATTAAGAAATTAAGATTTGA-
* * *
13366372 AAAG-TTCATGAAAATCTAAGCTTGGAAAGG-CAAATTATAAAAAT-GCCTTTAAGAGG-TATTT
65 AAAGTTTCATGAAAAT-TGAGCTTGGAAAGGCCAAATTACAAAAATAACC-TTAA-AGGATATTT
* * * *
13366433 TGGTACTTTCACACTTC
127 TGGTAATTACAAACCTC
* * * * * * *
13366450 TCGGGGTATTGTTATGATTTTAAATGCACCAAAAATCATGAAATATTATGAAACTGAGATATGAA
1 TCAGGGTACTGCTATGATTTTAAATGCACCAAAAATCATGAAATATTAAGAAATTAAGATTTGAA
* **
13366515 AAGTTTCATGAAAATTTGAGCTTGAAAAGGTTAAATTACAAAAATA
66 AAGTTTCATGAAAA-TTGAGCTTGGAAAGGCCAAATTACAAAAATA
13366561 TCCCTAAAAG
Statistics
Matches: 214, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
142 76 0.36
143 38 0.18
144 41 0.19
145 59 0.28
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (143 bp):
TCAGGGTACTGCTATGATTTTAAATGCACCAAAAATCATGAAATATTAAGAAATTAAGATTTGAA
AAGTTTCATGAAAATTGAGCTTGGAAAGGCCAAATTACAAAAATAACCTTAAAGGATATTTTGGT
AATTACAAACCTC
Found at i:13367085 original size:16 final size:16
Alignment explanation
Indices: 13367064--13367109 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
13367054 CCCCTCATTC
13367064 ATTTTTTTTTTTTGTT
1 ATTTTTTTTTTTTGTT
* *
13367080 ATTTTTGTTCTTTGTT
1 ATTTTTTTTTTTTGTT
13367096 -TTTTTTTTCTTTTG
1 ATTTTTTTT-TTTTG
13367110 AAAAATAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.04, C:0.04, G:0.09, T:0.83
Consensus pattern (16 bp):
ATTTTTTTTTTTTGTT
Found at i:13367504 original size:35 final size:35
Alignment explanation
Indices: 13367364--13367911 Score: 176
Period size: 35 Copynumber: 15.5 Consensus size: 35
13367354 TAGATAAAAA
* * *
13367364 AAAAAAAAAAGATGACCAGGACAACACCAATGGTC
1 AAAAAATAAAGATGATCAGGACAACACCAATAGTC
* * * * *
13367399 AAAAAAACAAATATGATCTGGACAACATCACA-AGTT
1 -AAAAAATAAAGATGATCAGGACAACACCA-ATAGTC
* * ****
13367435 AAAAAATAAAGATGAT-TGAAACAACATTGTTAGTC
1 AAAAAATAAAGATGATCAG-GACAACACCAATAGTC
*
13367470 AAAAAATAAAGATGATCAGGATAACACCAATAGTC
1 AAAAAATAAAGATGATCAGGACAACACCAATAGTC
** * * * *
13367505 AGGGAAATAAATATGATCGGGATAACATTGC-A-AGTC
1 A-AAAAATAAAGATGATCAGGACAACA--CCAATAGTC
* *
13367541 AAAAAATAAAAATTGATC-GAAACAACACTGC-A-AGTC
1 AAAAAATAAAGA-TGATCAG-GACAACAC--CAATAGTC
13367577 -AAAAA-AAAGATGA-CTAGGACAACATCGC-A-AGTC
1 AAAAAATAAAGATGATC-AGGACAACA-C-CAATAGTC
* * ** *
13367610 AAAAAAATAAAGATGGT-TGAGACAACA-CGGTAGGTT
1 -AAAAAATAAAGATGATCAG-GACAACACCAATA-GTC
* *
13367646 AAAAAATAAAGATGA-CAGAGACATCACC-TTAGGTC
1 AAAAAATAAAGATGATCAG-GACAACACCAATA-GTC
*
13367681 AAAAAAATAAATATGATCA-GACAACATCGC-AT-GTC
1 -AAAAAATAAAGATGATCAGGACAACA-C-CAATAGTC
** * * * *
13367716 AAAAAATAAAGACAACCAAGACAACATC-GTAGGTC
1 AAAAAATAAAGATGATCAGGACAACACCAATA-GTC
* *
13367751 AAAAAATAAAGATAATCAGGACAACACC-GTAAGTC
1 AAAAAATAAAGATGATCAGGACAACACCAAT-AGTC
* * * * *
13367786 ATAAAATAACA-ATGACCAAGAAAACACC-GTAGGTC
1 AAAAAATAA-AGATGATCAGGACAACACCAATA-GTC
* * * *
13367821 AAAAAAGTAAAGATGA-CTGGGATAACACCAATTGTTG
1 AAAAAA-TAAAGATGATC-AGGACAACACCAATAG-TC
* * *
13367858 AGAAAACAAATATGA-CTAGGACAACACC-ATAAGTC
1 AAAAAATAAAGATGATC-AGGACAACACCAAT-AGTC
13367893 AAAAAAATAAAGATGATCA
1 -AAAAAATAAAGATGATCA
13367912 CAATAACACC
Statistics
Matches: 392, Mismatches: 78, Indels: 84
0.71 0.14 0.15
Matches are distributed among these distances:
32 1 0.00
33 19 0.05
34 23 0.06
35 183 0.47
36 151 0.39
37 14 0.04
38 1 0.00
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.17
Consensus pattern (35 bp):
AAAAAATAAAGATGATCAGGACAACACCAATAGTC
Found at i:13367532 original size:106 final size:106
Alignment explanation
Indices: 13367247--13367616 Score: 295
Period size: 106 Copynumber: 3.4 Consensus size: 106
13367237 ATAACATCGT
** *
13367247 AAGTCAAGAAAATAAAGATGACTGGGACAACACCAAACTA-TCAAAAAAACAAATATGATCGAGA
1 AAGTCAA-AAAA-AAAGATGACCAGGACAACACC-AA-TAGTCAAAAAAACAAATATGATCGGGA
** * * * * *
13367311 CAATGTCGC-AGTTCAAAAAATAAAAA-TGATTGAGATAACACTATAGATA
62 CAACATCACAAG-TCAAAAAATAAAAATTGATCGAAACAACAC--T-G--C
*** * *
13367360 AAAAAAAAAAAAAAGATGACCAGGACAACACCAATGGTCAAAAAAACAAATATGATCTGGACAAC
1 AAGTCAAAAAAAAAGATGACCAGGACAACACCAATAGTCAAAAAAACAAATATGATCGGGACAAC
* * * * *
13367425 ATCACAAGTTAAAAAATAAAGA-TGATTGAAACAACATTGT
66 ATCACAAGTCAAAAAATAAAAATTGATCGAAACAACACTGC
* * * *** * *
13367465 TAGTCAAAAAATAAAGATGATCAGGATAACACCAATAGTCAGGGAAATAAATATGATCGGGATAA
1 AAGTCAAAAAA-AAAGATGACCAGGACAACACCAATAGTCAAAAAAACAAATATGATCGGGACAA
**
13367530 CATTGCAAGTCAAAAAATAAAAATTGATCGAAACAACACTGC
65 CATCACAAGTCAAAAAATAAAAATTGATCGAAACAACACTGC
*
13367572 AAGTC-AAAAAAAAGATGACTAGGACAACATCGC-A-AGTCAAAAAAA
1 AAGTCAAAAAAAAAGATGACCAGGACAACA-C-CAATAGTCAAAAAAA
13367617 TAAAGATGGT
Statistics
Matches: 207, Mismatches: 44, Indels: 20
0.76 0.16 0.07
Matches are distributed among these distances:
105 31 0.15
106 70 0.34
107 21 0.10
108 1 0.00
109 1 0.00
110 54 0.26
111 21 0.10
112 4 0.02
113 4 0.02
ACGTcount: A:0.53, C:0.14, G:0.15, T:0.17
Consensus pattern (106 bp):
AAGTCAAAAAAAAAGATGACCAGGACAACACCAATAGTCAAAAAAACAAATATGATCGGGACAAC
ATCACAAGTCAAAAAATAAAAATTGATCGAAACAACACTGC
Found at i:13367558 original size:36 final size:35
Alignment explanation
Indices: 13367509--13367582 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 35
13367499 ATAGTCAGGG
* ** * *
13367509 AAATAAATATGATCGGGATAACATTGCAAGTCAAA
1 AAATAAAAATGATCGAAACAACACTGCAAGTCAAA
13367544 AAATAAAAATTGATCGAAACAACACTGCAAGTCAAA
1 AAATAAAAA-TGATCGAAACAACACTGCAAGTCAAA
13367580 AAA
1 AAA
13367583 AAGATGACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
35 8 0.24
36 25 0.76
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.19
Consensus pattern (35 bp):
AAATAAAAATGATCGAAACAACACTGCAAGTCAAA
Found at i:13367634 original size:36 final size:35
Alignment explanation
Indices: 13367400--13367839 Score: 188
Period size: 35 Copynumber: 12.5 Consensus size: 35
13367390 CCAATGGTCA
* * * *
13367400 AAAAAACAAATATGATCTG-GACAACATCACAAGTT
1 AAAAAATAAAGATGA-CTGAGACAACATCGCAAGTC
* * * **
13367435 AAAAAATAAAGATGATTGAAACAACATTGTTAGTC
1 AAAAAATAAAGATGACTGAGACAACATCGCAAGTC
* *
13367470 AAAAAATAAAGATGA-TCAGGATAACA-C-CAATAGTC
1 AAAAAATAAAGATGACTGA-GACAACATCGC-A-AGTC
** * * * *
13367505 AGGGAAATAAATATGA-TCGGGATAACATTGCAAGTC
1 A-AAAAATAAAGATGACT-GAGACAACATCGCAAGTC
* *
13367541 AAAAAATAAAAATTGA-TCGAAACAACA-CTGCAAGTC
1 AAAAAATAAAGA-TGACT-GAGACAACATC-GCAAGTC
13367577 -AAAAA-AAAGATGACT-AGGACAACATCGCAAGTC
1 AAAAAATAAAGATGACTGA-GACAACATCGCAAGTC
** * * *
13367610 AAAAAAATAAAGATGGTTGAGACAACA-CGGTAGGTT
1 -AAAAAATAAAGATGACTGAGACAACATC-GCAAGTC
* * * ** *
13367646 AAAAAATAAAGATGACAGAGACATCACCTTAGGTC
1 AAAAAATAAAGATGACTGAGACAACATCGCAAGTC
* * *
13367681 AAAAAAATAAATATGA-TCAGACAACATCGCATGTC
1 -AAAAAATAAAGATGACTGAGACAACATCGCAAGTC
** ** * *
13367716 AAAAAATAAAGACAACCAAGACAACATCGTAGGTC
1 AAAAAATAAAGATGACTGAGACAACATCGCAAGTC
* * * *
13367751 AAAAAATAAAGAT-AATCAGGACAACACCGTAAGTC
1 AAAAAATAAAGATGACTGA-GACAACATCGCAAGTC
* ** * * * *
13367786 ATAAAATAACA-ATGACCAAGAAAACACCGTAGGTC
1 AAAAAATAA-AGATGACTGAGACAACATCGCAAGTC
13367821 AAAAAAGTAAAGATGACTG
1 AAAAAA-TAAAGATGACTG
13367840 GGATAACACC
Statistics
Matches: 308, Mismatches: 71, Indels: 51
0.72 0.17 0.12
Matches are distributed among these distances:
32 1 0.00
33 16 0.05
34 24 0.08
35 177 0.57
36 87 0.28
37 2 0.01
38 1 0.00
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.17
Consensus pattern (35 bp):
AAAAAATAAAGATGACTGAGACAACATCGCAAGTC
Found at i:13367720 original size:70 final size:71
Alignment explanation
Indices: 13367364--13367911 Score: 284
Period size: 70 Copynumber: 7.8 Consensus size: 71
13367354 TAGATAAAAA
* * * * * * *
13367364 AAAAAAAAAAGATGACCAGGACAACACC-AATGGTCAAAAAAACAAATATGATCTGGACAACATC
1 AAAAAATAAAGATGACCAAGACAACACCGTA-GGTCAAAAAAATAAAGATGATCAGGACAACACC
* *
13367428 ACAAGTT
65 GCAAGTC
** ** *
13367435 AAAAAATAAAGATGATTGAA-ACAACATTGTTA-GTC-AAAAAATAAAGATGATCAGGATAACAC
1 AAAAAATAAAGATGA-CCAAGACAACACCG-TAGGTCAAAAAAATAAAGATGATCAGGACAACAC
*
13367497 C-AATAGTC
64 CGCA-AGTC
** * * ** * ** * * * *
13367505 AGGGAAATAAATATGATCGGGATAACATTGCAAGTC-AAAAAATAAAAATTGATC-GAAACAACA
1 A-AAAAATAAAGATGACCAAGACAACACCGTAGGTCAAAAAAATAAAGA-TGATCAG-GACAACA
*
13367568 CTGCAAGTC
63 CCGCAAGTC
* * * * * * * *
13367577 -AAAAA-AAAGATGACTAGGACAACATCGCAAGTCAAAAAAATAAAGATGGT-TGAGACAACACG
1 AAAAAATAAAGATGACCAAGACAACACCGTAGGTCAAAAAAATAAAGATGATCAG-GACAACACC
* * *
13367639 GTAGGTT
65 GCAAGTC
* * * *
13367646 AAAAAATAAAGATGA-CAGAGACATCACCTTAGGTCAAAAAAATAAATATGATCA-GACAACATC
1 AAAAAATAAAGATGACCA-AGACAACACCGTAGGTCAAAAAAATAAAGATGATCAGGACAACACC
*
13367709 GCATGTC
65 GCAAGTC
** * *
13367716 AAAAAATAAAGACAACCAAGACAACATCGTAGGTC-AAAAAATAAAGATAATCAGGACAACACCG
1 AAAAAATAAAGATGACCAAGACAACACCGTAGGTCAAAAAAATAAAGATGATCAGGACAACACCG
*
13367780 TAAGTC
66 CAAGTC
* * * * *
13367786 ATAAAATAACA-ATGACCAAGAAAACACCGTAGGTCAAAAAAGTAAAGATGA-CTGGGATAACA-
1 AAAAAATAA-AGATGACCAAGACAACACCGTAGGTCAAAAAAATAAAGATGATC-AGGACAACAC
*
13367848 C-CAATTGTTG
64 CGCAA--G-TC
* * * * * * *
13367858 AGAAAACAAATATGACTAGGACAACACCATAAGTCAAAAAAATAAAGATGATCA
1 AAAAAATAAAGATGACCAAGACAACACCGTAGGTCAAAAAAATAAAGATGATCA
13367912 CAATAACACC
Statistics
Matches: 364, Mismatches: 87, Indels: 51
0.73 0.17 0.10
Matches are distributed among these distances:
69 57 0.16
70 130 0.36
71 116 0.32
72 58 0.16
73 3 0.01
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.17
Consensus pattern (71 bp):
AAAAAATAAAGATGACCAAGACAACACCGTAGGTCAAAAAAATAAAGATGATCAGGACAACACCG
CAAGTC
Found at i:13367822 original size:105 final size:106
Alignment explanation
Indices: 13367629--13367833 Score: 240
Period size: 105 Copynumber: 1.9 Consensus size: 106
13367619 AAGATGGTTG
* * * * *
13367629 AGACAACACGGTAGGTTAAAAAATAAAGATGACAGAGACATCACCTTAGGTCAAAAAAATAAATA
1 AGACAACACGGTAGGTCAAAAAATAAAGATAACAGAGACAACACCGTAAGTCAAAAAAATAAATA
* * * *
13367694 TGATCAGACAACATCGCATGTCAAAAAA-TAAAGACAACCA
66 TGACCAGAAAACACCGCAGGTCAAAAAAGTAAAGACAACCA
*
13367734 AGACAACATC-GTAGGTCAAAAAATAAAGATAATCAG-GACAACACCGTAAGTC-ATAAAATAAC
1 AGACAACA-CGGTAGGTCAAAAAATAAAGATAA-CAGAGACAACACCGTAAGTCAAAAAAATAA-
*
13367796 A-ATGACCAAGAAAACACCGTAGGTCAAAAAAGTAAAGA
63 ATATGACC-AGAAAACACCGCAGGTCAAAAAAGTAAAGA
13367834 TGACTGGGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
104 13 0.15
105 61 0.73
106 10 0.12
ACGTcount: A:0.52, C:0.17, G:0.16, T:0.15
Consensus pattern (106 bp):
AGACAACACGGTAGGTCAAAAAATAAAGATAACAGAGACAACACCGTAAGTCAAAAAAATAAATA
TGACCAGAAAACACCGCAGGTCAAAAAAGTAAAGACAACCA
Found at i:13367897 original size:71 final size:72
Alignment explanation
Indices: 13367577--13368011 Score: 228
Period size: 70 Copynumber: 6.2 Consensus size: 72
13367567 ACTGCAAGTC
* * * * *
13367577 AAAAA-AAAGATGACTAGGACAACATCGCA-A-GTCAAAAAAATAAAGATGGTTGAGACAACA-C
1 AAAAACAAATATGACCAGGACAACA-C-CATAGGTCAAAAAAATAAAGATGATCGAGATAACACC
**
13367638 GGTAGGTT-A
64 AATA-GTTGA
* * * * * *
13367647 AAAAATAAAGATGA-CAGAGACATCACCTTAGGTCAAAAAAATAAATATGATC-AGACAACATCG
1 AAAAACAAATATGACCAG-GACAACACCATAGGTCAAAAAAATAAAGATGATCGAGATAACA-C-
*
13367710 C-AT-G-TCA
63 CAATAGTTGA
* * ** * * * * *
13367717 AAAAATAAAGACAACCAAGACAACATCGTAGGTC-AAAAAATAAAGATAATC-AGGACAACACC-
1 AAAAACAAATATGACCAGGACAACACCATAGGTCAAAAAAATAAAGATGATCGA-GATAACACCA
* *
13367779 GTAAG-TCA
65 AT-AGTTGA
* * * * * * *
13367787 TAAAATAACA-ATGACCAAGAAAACACCGTAGGTCAAAAAAGTAAAGATGA-CTGGGATAACACC
1 AAAAACAA-ATATGACCAGGACAACACCATAGGTCAAAAAAATAAAGATGATC-GAGATAACACC
*
13367850 AATTGTTGA
64 AATAGTTGA
* * * *
13367859 GAAAACAAATATGACTAGGACAACACCATAAGTCAAAAAAATAAAGATGATC-ACAATAACACCA
1 AAAAACAAATATGACCAGGACAACACCATAGGTCAAAAAAATAAAGATGATCGA-GATAACACCA
*
13367923 A-CGATTGA
65 ATAG-TTGA
* * *
13367931 AAAAACAAATATGACCGGGACAATACCACAGGTC-AAAAAATAATA-ATGATCGAGATAACA-CA
1 AAAAACAAATATGACCAGGACAACACCATAGGTCAAAAAAATAA-AGATGATCGAGATAACACCA
*
13367993 ATAGTCGA
65 ATAGTTGA
13368001 AAAAACAAATA
1 AAAAACAAATA
13368012 ATAAAGTTTC
Statistics
Matches: 292, Mismatches: 48, Indels: 50
0.75 0.12 0.13
Matches are distributed among these distances:
68 2 0.01
69 19 0.07
70 100 0.34
71 81 0.28
72 88 0.30
73 2 0.01
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (72 bp):
AAAAACAAATATGACCAGGACAACACCATAGGTCAAAAAAATAAAGATGATCGAGATAACACCAA
TAGTTGA
Found at i:13368990 original size:13 final size:13
Alignment explanation
Indices: 13368974--13369025 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
13368964 TTTTTGTTTG
13368974 AATTTTTTTAATT
1 AATTTTTTTAATT
*
13368987 AATTTTTTTATTT
1 AATTTTTTTAATT
*
13369000 TATTTTGACTTTAATT
1 AATTTT---TTTAATT
*
13369016 ACTTTTTTTA
1 AATTTTTTTA
13369026 TTGATTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 21 0.68
16 10 0.32
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (13 bp):
AATTTTTTTAATT
Found at i:13369047 original size:15 final size:15
Alignment explanation
Indices: 13369019--13369101 Score: 71
Period size: 16 Copynumber: 5.3 Consensus size: 15
13369009 TTTAATTACT
*
13369019 TTTTTTATTGATTTGA
1 TTTTTT-TTAATTTGA
13369035 TTTTTTTTAATTTTGA
1 TTTTTTTTAA-TTTGA
*
13369051 TTTATTTTT-ATTTTA
1 TTT-TTTTTAATTTGA
*
13369066 TTTTGTTCTAATTTGA
1 TTTT-TTTTAATTTGA
*
13369082 -TTTTTTTATTTTTGA
1 TTTTTTTTA-ATTTGA
13369097 TTTTT
1 TTTTT
13369102 AAATATATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
14 5 0.09
15 21 0.38
16 24 0.44
17 5 0.09
ACGTcount: A:0.17, C:0.01, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTTTTTTAATTTGA
Found at i:13369050 original size:21 final size:21
Alignment explanation
Indices: 13369026--13369070 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
13369016 ACTTTTTTTA
13369026 TTGATTTGATTTTT-TTTAATT
1 TTGATTT-ATTTTTATTTAATT
*
13369047 TTGATTTATTTTTATTTTATT
1 TTGATTTATTTTTATTTAATT
13369068 TTG
1 TTG
13369071 TTCTAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (21 bp):
TTGATTTATTTTTATTTAATT
Found at i:13369112 original size:64 final size:60
Alignment explanation
Indices: 13368989--13369120 Score: 144
Period size: 64 Copynumber: 2.1 Consensus size: 60
13368979 TTTTAATTAA
**
13368989 TTTTTTTATTTTATTTTGACTTTAATTACTTTTTTTATTGATTTGATTTTTTTTAATTTTGAT
1 TTTTTTTATTTTATTTTGA-TTTAATTACTTTTTTTATT-ATTTGATTTTTAATAATTTT-AT
13369052 TTATTTTTATTTTATTTTG-TTCTAATTTGA-TTTTTTTATT-TTTGATTTTTAAATATATTTTA
1 TT-TTTTTATTTTATTTTGATT-TAA-TT-ACTTTTTTTATTATTTGATTTTT-AATA-ATTTTA
13369114 T
60 T
13369115 TTTTTT
1 TTTTTT
13369121 AACTAAGGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
62 16 0.26
63 11 0.18
64 33 0.54
65 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (60 bp):
TTTTTTTATTTTATTTTGATTTAATTACTTTTTTTATTATTTGATTTTTAATAATTTTAT
Found at i:13370891 original size:144 final size:143
Alignment explanation
Indices: 13370511--13370895 Score: 474
Period size: 144 Copynumber: 2.7 Consensus size: 143
13370501 CAATTTTAAC
*
13370511 TCATGAAATATTACGAAATTAAGATCTGAAAAGTTTCATGAAAATTTGAGTTCGGGAAGGTCAAA
1 TCATGAAATATTA-GAAATTAAGATCTGAAAAGTTTCATGAAAATTTGAGTTCAGGAAGGTCAAA
* * *
13370576 TTATGAAAATATCCTTAATGGGGTATTTTAGTAATTTTACACCTTTAGAGGTACTATTGTGATTT
65 TTATGAAAATATCCTTAA-GAGGTATTTTAGTAATTTCACACCTTTAGAGGTACTATTGTAATTT
*
13370641 CCAATGCACCAAAAA
129 CAAATGCACCAAAAA
** * *
13370656 T-ATGAAATATTAGAAAATTAAGATCTGAAAAGTTTCATGAAAATTTGAGTTCAAAAAAGCCAAA
1 TCATGAAATATTAG-AAATTAAGATCTGAAAAGTTTCATGAAAATTTGAGTTCAGGAAGGTCAAA
* *
13370720 TTATGAAAATATCCTTAAGAGGTATTTT-GATAATTTCACACCTTATA-AGGTATTGTTGTAATT
65 TTATGAAAATATCCTTAAGAGGTATTTTAG-TAATTTCACACCTT-TAGAGGTACTATTGTAATT
13370783 TCAAATGCACCAAAAA
128 TCAAATGCACCAAAAA
* * * ** *
13370799 TCATGAAATATTATGAAATTAAGATCTAAAAACTTTTATGAAAATCCGAACTT-AGGAAGGTCAA
1 TCATGAAATATTA-GAAATTAAGATCTGAAAAGTTTCATGAAAATTTG-AGTTCAGGAAGGTCAA
** * *
13370863 ATTACAAAAATATCCCTAA-AGGACATTTTAGTA
64 ATTATGAAAATATCCTTAAGAGG-TATTTTAGTA
13370896 CTTTTGTAAT
Statistics
Matches: 207, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
142 1 0.00
143 55 0.27
144 145 0.70
145 6 0.03
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (143 bp):
TCATGAAATATTAGAAATTAAGATCTGAAAAGTTTCATGAAAATTTGAGTTCAGGAAGGTCAAAT
TATGAAAATATCCTTAAGAGGTATTTTAGTAATTTCACACCTTTAGAGGTACTATTGTAATTTCA
AATGCACCAAAAA
Found at i:13371072 original size:19 final size:19
Alignment explanation
Indices: 13371026--13371074 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
13371016 ATTGACCAAG
*
13371026 TTTTTGTACAATTTTGACTT
1 TTTTTG-ACAATTTTGAATT
*
13371046 TATTTGACTAATTTT-AATT
1 TTTTTGAC-AATTTTGAATT
13371065 TTTTTGACAA
1 TTTTTGACAA
13371075 AGTTTGATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 12 0.48
20 11 0.44
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (19 bp):
TTTTTGACAATTTTGAATT
Found at i:13373082 original size:58 final size:58
Alignment explanation
Indices: 13373013--13373128 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
13373003 TGGAAGGGTG
*
13373013 GAACAAATTATCACATGTTGATCTCCCAAGTAAGCTAAAGGTATTTGGTTGAAGATTA
1 GAACAAATTATCACATGTTGATCTCCCAAGTAAACTAAAGGTATTTGGTTGAAGATTA
13373071 GAACAAATTATCACATGTTGATCTCCCAAGTAAACTAAAGGTATTTGGTTGAAGATTA
1 GAACAAATTATCACATGTTGATCTCCCAAGTAAACTAAAGGTATTTGGTTGAAGATTA
13373129 TGTAATGAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (58 bp):
GAACAAATTATCACATGTTGATCTCCCAAGTAAACTAAAGGTATTTGGTTGAAGATTA
Found at i:13374506 original size:8 final size:8
Alignment explanation
Indices: 13374481--13374518 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
13374471 ATGTAAGAAT
*
13374481 TTAAAATA
1 TTAAAAAA
13374489 TTATAAAAA
1 TTA-AAAAA
13374498 TTAAAAAA
1 TTAAAAAA
13374506 TT-AAAAA
1 TTAAAAAA
13374513 TTAAAA
1 TTAAAA
13374519 TAGATTAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
TTAAAAAA
Found at i:13377042 original size:6 final size:6
Alignment explanation
Indices: 13377031--13377074 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
13377021 AGATGGGAGA
13377031 AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AG
1 AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AG
13377075 AAGGTTCTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.18, C:0.00, G:0.66, T:0.16
Consensus pattern (6 bp):
AGTGGG
Found at i:13380464 original size:145 final size:145
Alignment explanation
Indices: 13380291--13380636 Score: 353
Period size: 146 Copynumber: 2.4 Consensus size: 145
13380281 TCGAGCTTGG
* * * *
13380291 ATTTTTATGAAACTTTTCAAATATTAATTTTATAATATTTCATGATTTTTATTGCA-TCTAAAA-
1 ATTTTCATGAAACTTTTCAAAT-CTAATTTTATAATATTTCATAATTTTTAGTGCATTCTAAAAT
* * ** * *
13380354 T-C-GTAGTAATCCCCCGAAAAGGGTAAAATTACCAATATACCCTTTTATGGGTATTTTCGTAAT
65 TACTGCAGT-A--CCCCGAAAAGGGTAAAATTACCAAAATACCCTTAGAGGGGTATTTTCATAAT
*
13380417 TTAGC-TTTCTCAATCTCGAA
127 TTAGCATTTC-CAAACTC-AA
* * * *
13380437 A-TTTCATGAAACTTTTCAGATCCTAATTTTATATTATTTCATAATTTTTGGTGCATTGTAAAAT
1 ATTTTCATGAAACTTTTCAAAT-CTAATTTTATAATATTTCATAATTTTTAGTGCATTCTAAAAT
* * *
13380501 TACTGCAGTACCCTGAAAATGGTAAAATTACCAAAATACTCTTAGAGGGGTATTTTCATAATTTA
65 TACTGCAGTACCCCGAAAAGGGTAAAATTACCAAAATACCCTTAGAGGGGTATTTTCATAATTTA
13380566 GCATTTCCAAACTCAA
130 GCATTTCCAAACTCAA
* * * * * * *
13380582 ATTTTCACGAAAATTTTTAAATCTCAATTTCATAATATTTTATTATTTTTGGTGC
1 ATTTTCATGAAACTTTTCAAATCT-AATTTTATAATATTTCATAATTTTTAGTGC
13380637 TTAAAAATCT
Statistics
Matches: 166, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
145 51 0.31
146 104 0.63
147 5 0.03
148 2 0.01
149 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (145 bp):
ATTTTCATGAAACTTTTCAAATCTAATTTTATAATATTTCATAATTTTTAGTGCATTCTAAAATT
ACTGCAGTACCCCGAAAAGGGTAAAATTACCAAAATACCCTTAGAGGGGTATTTTCATAATTTAG
CATTTCCAAACTCAA
Found at i:13384499 original size:22 final size:23
Alignment explanation
Indices: 13384444--13384499 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
13384434 ATTTAGCTAC
* *
13384444 CTAGCCTTTCCTAGAGGAATTGA
1 CTAGTCTTTCCTAGAGCAATTGA
13384467 CTAGTCTTTCCTAGAGCAATTGA
1 CTAGTCTTTCCTAGAGCAATTGA
13384490 CTA-TCTTTCC
1 CTAGTCTTTCC
13384500 AAGAATTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (23 bp):
CTAGTCTTTCCTAGAGCAATTGA
Found at i:13398487 original size:62 final size:62
Alignment explanation
Indices: 13398390--13398705 Score: 232
Period size: 62 Copynumber: 5.1 Consensus size: 62
13398380 TTTGGCAGGA
* * *
13398390 GATTATTCAAGGTGTGTTTGGCCAAAAATC-TCTTGAATAATCCCTAATAAAAAATTGAAGGG
1 GATTATTCAAGGTGTTTTTAGCCAAAAA-CACCTTGAATAATCCCTAATAAAAAATTGAAGGG
* * * * * * *
13398452 GATTATTCAAGGTGTTTTTGGCTAAAAACTCCTTGAATAATCCCCTTAT-AAAAATTAAAAAGA
1 GATTATTCAAGGTGTTTTTAGCCAAAAACACCTTGAATAAT-CCCTAATAAAAAATT-GAAGGG
* * * * * * ****
13398515 GATTATTTAAGGCGTTTTTAGCTAGAAACACCTTGAATAA-CTCTATTCAATTTTTTGTAA-GG
1 GATTATTCAAGGTGTTTTTAGCCAAAAACACCTTGAATAATCCCTAAT-AAAAAATTG-AAGGG
* ** * * * * *
13398577 GATTATTCATGGCATTTCTAGCCAAAAACACCTTGAATAAT--CAAAAAAAAAATGGTAGGG
1 GATTATTCAAGGTGTTTTTAGCCAAAAACACCTTGAATAATCCCTAATAAAAAATTGAAGGG
* * * * *
13398637 GATTATTCAAGGTATTTTTAGCCAAAAACACCTTAAATAATCCCCTCAT-AAAAATTAAAGAG
1 GATTATTCAAGGTGTTTTTAGCCAAAAACACCTTGAATAAT-CCCTAATAAAAAATTGAAGGG
13398699 GATTATT
1 GATTATT
13398706 AAAAGCATTT
Statistics
Matches: 196, Mismatches: 47, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
59 1 0.01
60 43 0.22
61 7 0.04
62 94 0.48
63 51 0.26
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (62 bp):
GATTATTCAAGGTGTTTTTAGCCAAAAACACCTTGAATAATCCCTAATAAAAAATTGAAGGG
Found at i:13408444 original size:25 final size:25
Alignment explanation
Indices: 13408416--13408475 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
13408406 AATTAACTGC
*
13408416 AAAAATAAAAG-TAAATAAA-GCATA
1 AAAAATAAAAGCTAAATAAATG-AAA
*
13408440 AAAAATATAAAGCTAAGTAAATGAAAA
1 AAAAATA-AAAGCTAAATAAATG-AAA
13408467 AAAAATAAA
1 AAAAATAAA
13408476 CAAGAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 7 0.23
25 4 0.13
26 9 0.30
27 10 0.33
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (25 bp):
AAAAATAAAAGCTAAATAAATGAAA
Found at i:13412703 original size:7 final size:7
Alignment explanation
Indices: 13412688--13412830 Score: 76
Period size: 7 Copynumber: 20.7 Consensus size: 7
13412678 GTTTAGGGGT
*
13412688 TTTAGGG
1 TTTAAGG
13412695 TTTAAGG
1 TTTAAGG
* **
13412702 TTTTACA
1 TTTAAGG
*
13412709 TTTATGG
1 TTTAAGG
13412716 TTTAAGG
1 TTTAAGG
* *
13412723 TATAGGG
1 TTTAAGG
13412730 TTT-AGG
1 TTTAAGG
*
13412736 ATT-AGAG
1 TTTAAG-G
*
13412743 TTTCAGG
1 TTTAAGG
*
13412750 TTTAAGA
1 TTTAAGG
*
13412757 TTTAGGG
1 TTTAAGG
*
13412764 TTTAGGG
1 TTTAAGG
*
13412771 TTTAA-T
1 TTTAAGG
13412777 TTTAAGG
1 TTTAAGG
*
13412784 TTTAGGG
1 TTTAAGG
*
13412791 TTTAGGG
1 TTTAAGG
*
13412798 TTTAGGG
1 TTTAAGG
* *
13412805 TCTAGGG
1 TTTAAGG
*
13412812 TTTAGGG
1 TTTAAGG
*
13412819 TTTAAGA
1 TTTAAGG
13412826 TTTAA
1 TTTAA
13412831 AATTTTGGGT
Statistics
Matches: 106, Mismatches: 27, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
6 11 0.10
7 93 0.88
8 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.44
Consensus pattern (7 bp):
TTTAAGG
Found at i:13412763 original size:34 final size:33
Alignment explanation
Indices: 13412709--13412829 Score: 109
Period size: 34 Copynumber: 3.5 Consensus size: 33
13412699 AGGTTTTACA
* *
13412709 TTTATGGTTTAAGGTATAGGGTTTAGGATTAGAG
1 TTTA-GGTTTAAGATTTAGGGTTTAGGATTAGAG
* *
13412743 TTTCAGGTTTAAGATTTAGGGTTTAGGGTTTA-AT
1 TTT-AGGTTTAAGATTTAGGGTTTA-GGATTAGAG
* * * *
13412777 TTTAAGGTTTAGGGTTTAGGGTTTAGGGTCTAGGG
1 TTT-AGGTTTAAGATTTAGGGTTTAGGAT-TAGAG
13412812 TTTAGGGTTTAAGATTTA
1 TTTA-GGTTTAAGATTTA
13412830 AAATTTTGGG
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
33 3 0.04
34 47 0.67
35 20 0.29
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.44
Consensus pattern (33 bp):
TTTAGGTTTAAGATTTAGGGTTTAGGATTAGAG
Found at i:13412785 original size:20 final size:20
Alignment explanation
Indices: 13412757--13412794 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13412747 AGGTTTAAGA
*
13412757 TTTAGGGTTTAGGGTTTAAT
1 TTTAAGGTTTAGGGTTTAAT
13412777 TTTAAGGTTTAGGGTTTA
1 TTTAAGGTTTAGGGTTTA
13412795 GGGTTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (20 bp):
TTTAAGGTTTAGGGTTTAAT
Found at i:13412829 original size:14 final size:14
Alignment explanation
Indices: 13412675--13412822 Score: 93
Period size: 14 Copynumber: 10.6 Consensus size: 14
13412665 AGGGTTGGGA
13412675 AAGGTTTAGGGGTTTT
1 AAGGTTTA-GGG-TTT
* *
13412691 AGGGTTTAAGGTTT
1 AAGGTTTAGGGTTT
* ** *
13412705 TACATTTATGGTTT
1 AAGGTTTAGGGTTT
*
13412719 AAGGTATAGGGTTT
1 AAGGTTTAGGGTTT
* *
13412733 -AGGATTAGAGTTT
1 AAGGTTTAGGGTTT
* * *
13412746 CAGGTTTAAGATTT
1 AAGGTTTAGGGTTT
*
13412760 AGGGTTTAGGGTTT
1 AAGGTTTAGGGTTT
* *
13412774 AA-TTTTAAGGTTT
1 AAGGTTTAGGGTTT
*
13412787 AGGGTTTAGGGTTT
1 AAGGTTTAGGGTTT
* *
13412801 AGGGTCTAGGGTTT
1 AAGGTTTAGGGTTT
*
13412815 AGGGTTTA
1 AAGGTTTA
13412823 AGATTTAAAA
Statistics
Matches: 99, Mismatches: 31, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
13 20 0.20
14 70 0.71
15 2 0.02
16 7 0.07
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.43
Consensus pattern (14 bp):
AAGGTTTAGGGTTT
Found at i:13422456 original size:9 final size:10
Alignment explanation
Indices: 13422430--13422468 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
13422420 GTAACCAAGT
13422430 TAACTAACTA
1 TAACTAACTA
13422440 TAACTAAC-A
1 TAACTAACTA
* *
13422449 TGACTAACTT
1 TAACTAACTA
13422459 TAACTAACTA
1 TAACTAACTA
13422469 CTCAACTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (10 bp):
TAACTAACTA
Found at i:13429539 original size:9 final size:9
Alignment explanation
Indices: 13429525--13429558 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
13429515 ATAATCAAAT
13429525 TAACTAACA
1 TAACTAACA
13429534 TAACTAACA
1 TAACTAACA
*
13429543 TGACTAACA
1 TAACTAACA
13429552 CTAACTA
1 -TAACTA
13429559 GCTACTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.24
Consensus pattern (9 bp):
TAACTAACA
Found at i:13432150 original size:16 final size:16
Alignment explanation
Indices: 13432125--13432158 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13432115 GATAGGTATA
13432125 TTTTGATGTTTTGATGT
1 TTTTGATGTTTTGA-GT
13432142 TTTTG-TGTTTTGAGT
1 TTTTGATGTTTTGAGT
13432157 TT
1 TT
13432159 ATTTTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 8 0.47
17 5 0.29
ACGTcount: A:0.09, C:0.00, G:0.24, T:0.68
Consensus pattern (16 bp):
TTTTGATGTTTTGAGT
Found at i:13441679 original size:145 final size:145
Alignment explanation
Indices: 13441416--13441679 Score: 359
Period size: 145 Copynumber: 1.8 Consensus size: 145
13441406 GTGACATTCT
* * *** * *
13441416 AAATTACGAAAATACCCCTATGAGGGTATTTTGGTAATTTCACACTTTTGGGGGTACTATTATAA
1 AAATTACAAAAATACCCCTATAAGGGTATTTTGGTAATTTCACACTTCCCGGGATACTACTATAA
* * *
13441481 TTTCAAATGCATCAAAAATAATGAAATATTATAAAACTAGGATCTGGAAAGTTTTGTGAAATTTC
66 TTTCAAATGCACCAAAAATAATGAAATATTACAAAACTAAGATCTGGAAAGTTTTGTGAAATTTC
13441546 AAGCTCGAAAAGGCC
131 AAGCTCGAAAAGGCC
* * *
13441561 AAATTACAAAAATACCCTTCA-AAGGGTATTTTGGTAATTTCACACTTCCCGGGATGCTACTATG
1 AAATTACAAAAATACCCCT-ATAAGGGTATTTTGGTAATTTCACACTTCCCGGGATACTACTATA
* * * *
13441625 ATTTCGAATTCACCAAAAATCATGAAATATTACAAAAGTAAGATCTGGAAAGTTT
65 ATTTCAAATGCACCAAAAATAATGAAATATTACAAAACTAAGATCTGGAAAGTTT
13441680 CACAAAATTC
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
145 100 0.99
146 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (145 bp):
AAATTACAAAAATACCCCTATAAGGGTATTTTGGTAATTTCACACTTCCCGGGATACTACTATAA
TTTCAAATGCACCAAAAATAATGAAATATTACAAAACTAAGATCTGGAAAGTTTTGTGAAATTTC
AAGCTCGAAAAGGCC
Found at i:13441880 original size:11 final size:11
Alignment explanation
Indices: 13441866--13441941 Score: 66
Period size: 11 Copynumber: 6.6 Consensus size: 11
13441856 TTTTCTTTTC
13441866 TTTTTTTTGTT
1 TTTTTTTTGTT
*
13441877 TTTTTATTGTT
1 TTTTTTTTGTT
13441888 ATTTTTTTT-TT
1 -TTTTTTTTGTT
13441899 ATTTTTGTTTGTT
1 -TTTTT-TTTGTT
13441912 TTGTTTATTT-TT
1 TT-TTT-TTTGTT
**
13441924 GGTTTTTTGTT
1 TTTTTTTTGTT
13441935 TTTTTTT
1 TTTTTTT
13441942 GTCCCTGAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
10 3 0.06
11 28 0.53
12 14 0.26
13 8 0.15
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:13441895 original size:17 final size:18
Alignment explanation
Indices: 13441871--13441920 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
13441861 TTTTCTTTTT
13441871 TTTGTTTTTTTATTGTTA
1 TTTGTTTTTTTATTGTTA
* *
13441889 TTT-TTTTTTTATTTTTG
1 TTTGTTTTTTTATTGTTA
13441906 TTTGTTTTGTTTATT
1 TTTGTTTT-TTTATT
13441921 TTTGGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.54
18 7 0.25
19 6 0.21
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (18 bp):
TTTGTTTTTTTATTGTTA
Found at i:13441914 original size:40 final size:37
Alignment explanation
Indices: 13441855--13441943 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 37
13441845 CATCGATCTC
* * *
13441855 TTTTTCTTTTCTTTTT-TTTGTTTT-TTTATTGTT-AT
1 TTTTTGTTTT-TTTTTGTTTGTTTTGTTTATTTTTGGT
13441890 TTTTT-TTTTATTTTTGTTTGTTTTGTTTATTTTTGGT
1 TTTTTGTTTT-TTTTTGTTTGTTTTGTTTATTTTTGGT
13441927 TTTTTGTTTTTTTTTGT
1 TTTTTGTTTTTTTTTGT
13441944 CCCTGAACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
34 9 0.19
35 13 0.28
36 8 0.17
37 13 0.28
38 4 0.09
ACGTcount: A:0.04, C:0.02, G:0.10, T:0.83
Consensus pattern (37 bp):
TTTTTGTTTTTTTTTGTTTGTTTTGTTTATTTTTGGT
Found at i:13441940 original size:18 final size:18
Alignment explanation
Indices: 13441867--13441943 Score: 91
Period size: 20 Copynumber: 4.1 Consensus size: 18
13441857 TTTCTTTTCT
13441867 TTTTTTTGTTTTTTTATTG
1 TTTTTTTGTTTTTTT-TTG
*
13441886 TTATTTTTTTTTTATTTTTG
1 TT-TTTTTGTTTT-TTTTTG
*
13441906 TTTGTTTTGTTTATTTTTG
1 TTT-TTTTGTTTTTTTTTG
*
13441925 GTTTTTTGTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTG
13441943 T
1 T
13441944 CCCTGAACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 14 0.29
19 11 0.22
20 21 0.43
21 3 0.06
ACGTcount: A:0.05, C:0.00, G:0.12, T:0.83
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTTTG
Found at i:13442099 original size:12 final size:12
Alignment explanation
Indices: 13442090--13442116 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13442080 TACAAATGTC
13442090 AATGTCAATGCA
1 AATGTCAATGCA
13442102 AATGTCAATGCA
1 AATGTCAATGCA
13442114 AAT
1 AAT
13442117 ACATGACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (12 bp):
AATGTCAATGCA
Found at i:13442103 original size:18 final size:18
Alignment explanation
Indices: 13442072--13442111 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
13442062 TCTATCCAAT
*
13442072 AATGTGAATACAAATGTC
1 AATGTCAATACAAATGTC
*
13442090 AATGTCAATGCAAATGTC
1 AATGTCAATACAAATGTC
13442108 AATG
1 AATG
13442112 CAAATACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (18 bp):
AATGTCAATACAAATGTC
Found at i:13442313 original size:42 final size:43
Alignment explanation
Indices: 13442261--13442359 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
13442251 GCAGATAAAA
*
13442261 ATGCAAATGCAAGTGATACAAATATAAATGTCTTTTT-TCT-TG
1 ATGCAAATGCAAGTGATACAAATACAAATGTCTTTTTCT-TATG
* * * *
13442303 ATGCAGATGCAAGTGATGCATATGCAAATGTCTTTTTCTTATG
1 ATGCAAATGCAAGTGATACAAATACAAATGTCTTTTTCTTATG
*
13442346 ATGCACATGCAAGT
1 ATGCAAATGCAAGT
13442360 ATAAATGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
42 33 0.67
43 16 0.33
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (43 bp):
ATGCAAATGCAAGTGATACAAATACAAATGTCTTTTTCTTATG
Found at i:13442490 original size:31 final size:31
Alignment explanation
Indices: 13442401--13442490 Score: 119
Period size: 31 Copynumber: 2.9 Consensus size: 31
13442391 GAGCAATGCA
*
13442401 AATGCAAGTGTCTTTTTATTAATGCAGAGCTG
1 AATGCAAATGTCTTTTTATTAATGCA-AGCTG
* * *
13442433 AATGCAACTTTCTTTTTATTGATGCAAGCTG
1 AATGCAAATGTCTTTTTATTAATGCAAGCTG
13442464 AATGCAAATGTCTTTTTCA-TAATGCAA
1 AATGCAAATGTCTTTTT-ATTAATGCAA
13442491 ATGCAAGTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
31 27 0.53
32 24 0.47
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (31 bp):
AATGCAAATGTCTTTTTATTAATGCAAGCTG
Found at i:13442567 original size:39 final size:40
Alignment explanation
Indices: 13442468--13442567 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 40
13442458 AAGCTGAATG
* * *
13442468 CAAATGTCTTTTTCATAATGCAAATGCAAGTGACGCAAATG
1 CAAATGTCTTTTTTATGATGCAAATGCAAGTGAC-CAAATA
* *
13442509 CAAATGTCTTTTTTATGATGCACATGCAAGT-A-TAAATA
1 CAAATGTCTTTTTTATGATGCAAATGCAAGTGACCAAATA
13442547 CAAATGTCCTTTTTTATGATG
1 CAAATGT-CTTTTTTATGATG
13442568 TAGATACAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
38 11 0.21
39 13 0.25
40 1 0.02
41 28 0.53
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (40 bp):
CAAATGTCTTTTTTATGATGCAAATGCAAGTGACCAAATA
Found at i:13442578 original size:39 final size:38
Alignment explanation
Indices: 13442468--13442579 Score: 107
Period size: 41 Copynumber: 2.8 Consensus size: 38
13442458 AAGCTGAATG
* * * * * *
13442468 CAAATGTCTTTTTCATAATGCAAATGCAAGTGACGCAAATG
1 CAAATGTCTTTTTTATGATGCACATACAAGT-A--TAAATA
*
13442509 CAAATGTCTTTTTTATGATGCACATGCAAGTATAAATA
1 CAAATGTCTTTTTTATGATGCACATACAAGTATAAATA
* *
13442547 CAAATGTCCTTTTTTATGATGTAGATACAAGTA
1 CAAATGT-CTTTTTTATGATGCACATACAAGTA
13442580 AGGCAAATGT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 11 0.18
39 22 0.35
40 1 0.02
41 28 0.45
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (38 bp):
CAAATGTCTTTTTTATGATGCACATACAAGTATAAATA
Found at i:13443631 original size:12 final size:12
Alignment explanation
Indices: 13443592--13443645 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
13443582 TCTTTCCTTT
13443592 TTTTTTTTGGCTC
1 TTTTTTTT-GCTC
* *
13443605 ATTCTTTTG--C
1 TTTTTTTTGCTC
13443615 TTTTTTTTGCTC
1 TTTTTTTTGCTC
*
13443627 TTTTTTTTACT-
1 TTTTTTTTGCTC
13443638 TTTTTTTT
1 TTTTTTTT
13443646 TTTTGCTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 8 0.24
11 8 0.24
12 12 0.35
13 6 0.18
ACGTcount: A:0.04, C:0.13, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTTTTGCTC
Found at i:13443644 original size:22 final size:23
Alignment explanation
Indices: 13443592--13443644 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
13443582 TCTTTCCTTT
*
13443592 TTTTTTTTGGCTCATTCTTTTGC
1 TTTTTTTTGGCTCATTCTTTTAC
* *
13443615 TTTTTTTT-GCTCTTTTTTTTAC
1 TTTTTTTTGGCTCATTCTTTTAC
13443637 TTTTTTTT
1 TTTTTTTT
13443645 TTTTTGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.04, C:0.13, G:0.08, T:0.75
Consensus pattern (23 bp):
TTTTTTTTGGCTCATTCTTTTAC
Found at i:13444189 original size:17 final size:18
Alignment explanation
Indices: 13444169--13444202 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13444159 TCTTTTCTCT
13444169 TTTTTTC-TTTTTTTTTC
1 TTTTTTCATTTTTTTTTC
13444186 TTTTTTCATTTTTTTTT
1 TTTTTTCATTTTTTTTT
13444203 GGTTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTCATTTTTTTTTC
Found at i:13444208 original size:18 final size:17
Alignment explanation
Indices: 13444170--13444209 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
13444160 CTTTTCTCTT
*
13444170 TTTTTCTTTTTTTTTCT
1 TTTTTCTTTTTTTTTCG
*
13444187 TTTTTCATTTTTTTTTGG
1 TTTTTC-TTTTTTTTTCG
13444205 TTTTT
1 TTTTT
13444210 TTGTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.03, C:0.07, G:0.05, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTCG
Found at i:13445090 original size:27 final size:28
Alignment explanation
Indices: 13445044--13445105 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
13445034 CTTAAAATTA
* *
13445044 TTTTTTTTTTTTACTCTTGCTTTTTTTCC
1 TTTTTTTTTTTTA-TCTTGCCTATTTTCC
*
13445073 TTTTTTTTTTTT-TTTTGCCTATTTTCC
1 TTTTTTTTTTTTATCTTGCCTATTTTCC
*
13445100 CTTTTT
1 TTTTTT
13445106 CCAAAGTACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 17 0.59
29 12 0.41
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTTTTTTTTTTATCTTGCCTATTTTCC
Found at i:13445097 original size:28 final size:28
Alignment explanation
Indices: 13445044--13445105 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
13445034 CTTAAAATTA
* *
13445044 TTTTTTTTTTTTACTCTTGCTTTTTTTCC
1 TTTTTTTTTTTTA-TCTTGCTATTTTCCC
*
13445073 TTTTTTTTTTTT-TTTTGCCTATTTTCCC
1 TTTTTTTTTTTTATCTTG-CTATTTTCCC
13445101 TTTTT
1 TTTTT
13445106 CCAAAGTACC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 4 0.14
28 13 0.45
29 12 0.41
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTTTTTTTTTTATCTTGCTATTTTCCC
Found at i:13447132 original size:21 final size:21
Alignment explanation
Indices: 13447095--13447134 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13447085 TTAAAAAACC
*
13447095 TTTATTTTTGAAAATTTTCAT
1 TTTATTTTTAAAAATTTTCAT
13447116 TTTA-TTTTAAAACATTTTC
1 TTTATTTTTAAAA-ATTTTC
13447135 TGAAAATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTATTTTTAAAAATTTTCAT
Found at i:13454493 original size:235 final size:234
Alignment explanation
Indices: 13454081--13454507 Score: 624
Period size: 235 Copynumber: 1.8 Consensus size: 234
13454071 CAGAAACGCC
* * *
13454081 TTCAATAACCCTATTCAATATTTTGTTAGGGACTATTCAAGGCATTTTCTGGGTAAAAACGCCTT
1 TTCAATAACCCCATTCAATATTTTGTTAGGGACTATTCAAGGCATTTTCTAGGTAAAAACACCTT
*
13454146 CAATAATCTACTCATAAATTCCTAAAGGGGATTATTCAAGACGTTTCCAACCATAAATCCCTTAC
66 CAATAATCTACTCATAAATGCCTAAAGGGGATTATTCAAGA-GTTTCCAACCATAAATCCCTTAC
* *
13454211 TAACCCTAAGGGATTATTCAAGGTGTTTAATCACAAAAATGCCTTGAATGATCCAAAAAAAAAAA
130 TAACCCCAAGGGATTATTCAAGGTGTTTAATCACAAAAATACCTTGAATGATCCAAAAAAAAAAA
13454276 AGAGAGCAAATTATTCAAGGCATTTTTGGCTAAAAGCACT
195 AGAGAGCAAATTATTCAAGGCATTTTTGGCTAAAAGCACT
* * *
13454316 TTCAATAACCCCATTCAATATTTTGTTAGGGATTATTTAAGGTATTTTCTAGGTAAAAACACCTT
1 TTCAATAACCCCATTCAATATTTTGTTAGGGACTATTCAAGGCATTTTCTAGGTAAAAACACCTT
* * * * *** *
13454381 TAATAATCTCCTCATAAATGCCTGAAGGGGATTTTTCAAG-GTATATTTTACCATAAATGCCTTA
66 CAATAATCTACTCATAAATGCCTAAAGGGGATTATTCAAGAGT-T-TCCAACCATAAATCCCTT-
* * *
13454445 ACTAACCCCAATGGATTATTCAAGGTGTTTTATCAC-AAAATACCTTGAATGATCCCAAAAAAA
128 ACTAACCCCAAGGGATTATTCAAGGTGTTTAATCACAAAAATACCTTGAATGATCCAAAAAAAA
13454508 TAGGAGGGAC
Statistics
Matches: 169, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
233 2 0.01
234 1 0.01
235 133 0.79
236 33 0.20
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (234 bp):
TTCAATAACCCCATTCAATATTTTGTTAGGGACTATTCAAGGCATTTTCTAGGTAAAAACACCTT
CAATAATCTACTCATAAATGCCTAAAGGGGATTATTCAAGAGTTTCCAACCATAAATCCCTTACT
AACCCCAAGGGATTATTCAAGGTGTTTAATCACAAAAATACCTTGAATGATCCAAAAAAAAAAAA
GAGAGCAAATTATTCAAGGCATTTTTGGCTAAAAGCACT
Found at i:13455073 original size:62 final size:61
Alignment explanation
Indices: 13454993--13455110 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
13454983 TTTTTTTAAG
* * * *
13454993 GGATTATTAAAGGCATTTTTTAGC-TAAAATACCTTGATTAATCCCCTCATAAAAAATGAAAA
1 GGATTATTAAAGGAATTTTTGA-CAAAAAATACCTTGAATAATCCCCT-ATAAAAAATGAAAA
* * *
13455055 GGATTATTGAAGGAATTTTTGACAAAAAATACCTTTAATAATCTCCTATAAAAAAT
1 GGATTATTAAAGGAATTTTTGACAAAAAATACCTTGAATAATCCCCTATAAAAAAT
13455111 TTTGGAGATT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 10 0.21
62 38 0.79
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (61 bp):
GGATTATTAAAGGAATTTTTGACAAAAAATACCTTGAATAATCCCCTATAAAAAATGAAAA
Found at i:13459142 original size:56 final size:56
Alignment explanation
Indices: 13459074--13459197 Score: 142
Period size: 56 Copynumber: 2.2 Consensus size: 56
13459064 TAAAAAAATT
* * *
13459074 TATAAGTCTATACTGACAG-GCGTTAACCATCGGTATAGGTCAGAAAAATTAAAACA
1 TATAAGTCTATACTGA-AGAGCATTAACCATCGGTATAGGTAAAAAAAATTAAAACA
* * * **
13459130 TATAAGTTTATACTGATGAGCATTAGCTGTCGGTATAGGTAAAAAAAATTAAAACA
1 TATAAGTCTATACTGAAGAGCATTAACCATCGGTATAGGTAAAAAAAATTAAAACA
* *
13459186 TACAAATCTATA
1 TATAAGTCTATA
13459198 TTAACAGGCT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 1 0.02
56 55 0.98
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (56 bp):
TATAAGTCTATACTGAAGAGCATTAACCATCGGTATAGGTAAAAAAAATTAAAACA
Found at i:13459169 original size:160 final size:160
Alignment explanation
Indices: 13459003--13459307 Score: 382
Period size: 160 Copynumber: 1.9 Consensus size: 160
13458993 AACTGTCATA
* * * * *
13459003 TATAGGT-AAGAAAATTAAAAAATACAAGTCTATACTGA-TGGATGCTAAGCGTCAGTATAGGTA
1 TATAGGTAAAAAAAATTAAAAAATACAAATCTATACTAACAGGAT-CTAAGCGTCAGTATAAGTA
* * ** * *
13459066 AAAAAATTTATAAGTCTATACTGACAGGCGTTAACCATCGGTATAGGTC-AGAAAAATTAAAACA
65 AAAAAA-TTACAAGTCTATACTAACAACCATTAACCATCGATATAGG-CAAGAAAAATTAAAACA
* *
13459130 TATAAGTTTATACTGATGAGCATTAGCTGTCGG
128 TACAAGTCTATACTGATGAGCATTAGCTGTCGG
* * * * *
13459163 TATAGGTAAAAAAAATTAAAACATACAAATCTATATTAACAGGCTTTAAGTGTCAGTATAAGTAA
1 TATAGGTAAAAAAAATTAAAAAATACAAATCTATACTAACAGGATCTAAGCGTCAGTATAAGTAA
*
13459228 AAAAATTACAAGTTTATACTAACAACCATTAACCATCGATATAGGCAAGAAAAATTAAAACATAC
66 AAAAATTACAAGTCTATACTAACAACCATTAACCATCGATATAGGCAAGAAAAATTAAAACATAC
*
13459293 AAGTCTATATTGATG
131 AAGTCTATACTGATG
13459308 GTTGTTAACC
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
159 1 0.01
160 70 0.57
161 48 0.39
162 3 0.02
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (160 bp):
TATAGGTAAAAAAAATTAAAAAATACAAATCTATACTAACAGGATCTAAGCGTCAGTATAAGTAA
AAAAATTACAAGTCTATACTAACAACCATTAACCATCGATATAGGCAAGAAAAATTAAAACATAC
AAGTCTATACTGATGAGCATTAGCTGTCGG
Found at i:13460403 original size:15 final size:16
Alignment explanation
Indices: 13460377--13460411 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
13460367 AACTTCTTTG
13460377 ATAATATTATTTATAA
1 ATAATATTATTTATAA
*
13460393 ATAAT-TTATTTATGA
1 ATAATATTATTTATAA
13460408 ATAA
1 ATAA
13460412 AAATGAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATAATATTATTTATAA
Found at i:13461009 original size:14 final size:14
Alignment explanation
Indices: 13460982--13461021 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
13460972 AAAATTAGCT
13460982 AAATAAATTTAATTC
1 AAATAAA-TTAATTC
* *
13460997 AATTAAATTAATTG
1 AAATAAATTAATTC
13461011 AAATAAATTAA
1 AAATAAATTAA
13461022 GAAAATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
AAATAAATTAATTC
Found at i:13463831 original size:2 final size:2
Alignment explanation
Indices: 13463826--13463864 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
13463816 AGGTAGTGTG
* *
13463826 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13463865 TTGATTGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13464994 original size:2 final size:2
Alignment explanation
Indices: 13464982--13465041 Score: 56
Period size: 2 Copynumber: 31.5 Consensus size: 2
13464972 GTATGTTGTA
* *
13464982 AT AT A- AT AT AT AT AT AT AT AT AT AT -T AG AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
13465022 AT -T AT GAT -T GT AT AT AT AT A
1 AT AT AT -AT AT AT AT AT AT AT A
13465042 AATTACATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
1 4 0.08
2 42 0.88
3 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13465013 original size:17 final size:18
Alignment explanation
Indices: 13464982--13465040 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 18
13464972 GTATGTTGTA
13464982 ATATA-ATA-TAT-ATAT
1 ATATATATATTATGATAT
13464997 ATATATATATTA-GATAT
1 ATATATATATTATGATAT
*
13465014 ATATGTATATTATGAT-T
1 ATATATATATTATGATAT
*
13465031 GTATATATAT
1 ATATATATAT
13465041 AAATTACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 5 0.14
16 3 0.08
17 26 0.70
18 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (18 bp):
ATATATATATTATGATAT
Found at i:13465046 original size:21 final size:22
Alignment explanation
Indices: 13464987--13465046 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
13464977 TTGTAATATA
13464987 ATATATATATATATATATATTAG
1 ATATATATATATAT-TATATTAG
*
13465010 ATATATATGTATATTATGATT-G
1 ATATATATATATATTAT-ATTAG
*
13465032 -TATATATATAAATTA
1 ATATATATATATATTA
13465047 CATAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 13 0.39
22 4 0.12
23 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
ATATATATATATATTATATTAG
Found at i:13466996 original size:12 final size:12
Alignment explanation
Indices: 13466979--13467005 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13466969 CATTTACACG
13466979 TATTAAAATTTC
1 TATTAAAATTTC
13466991 TATTAAAATTTC
1 TATTAAAATTTC
13467003 TAT
1 TAT
13467006 CAAGCAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTAAAATTTC
Found at i:13469713 original size:27 final size:29
Alignment explanation
Indices: 13469648--13469723 Score: 104
Period size: 27 Copynumber: 2.7 Consensus size: 29
13469638 TTAAATTATA
*
13469648 ATAAAATATTTAATATAATATTTGAATTTT
1 ATAAAAT-TTTAATATAATAATTGAATTTT
13469678 ATAAAATTTTAATATAATAATT-AA-TTT
1 ATAAAATTTTAATATAATAATTGAATTTT
13469705 ATAAAATTTTTAAT-TAATA
1 ATAAAA-TTTTAATATAATA
13469724 TGATATTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
27 14 0.32
28 9 0.20
29 14 0.32
30 7 0.16
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
ATAAAATTTTAATATAATAATTGAATTTT
Found at i:13469731 original size:27 final size:27
Alignment explanation
Indices: 13469648--13469733 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
13469638 TTAAATTATA
*
13469648 ATAAAATATTTAATATAATATTTGAATTTT
1 ATAAAATTTTTAATATAATA--TGAA-TTT
*
13469678 ATAAAA-TTTTAATATAATAATTAATTT
1 ATAAAATTTTTAATATAAT-ATGAATTT
13469705 ATAAAATTTTTAAT-TAATATGATATTT
1 ATAAAATTTTTAATATAATATGA-ATTT
13469732 AT
1 AT
13469734 CTTTAATGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
26 3 0.06
27 19 0.38
28 10 0.20
29 11 0.22
30 7 0.14
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
ATAAAATTTTTAATATAATATGAATTT
Found at i:13471387 original size:26 final size:26
Alignment explanation
Indices: 13471333--13471387 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
13471323 TATTTATTTT
*
13471333 AAACTATAAATTTTTAAAATATATTA
1 AAACTATAAATTTTTAAAATATATAA
*
13471359 AAACTATATTATTTTTAGAAA-AT-TAA
1 AAACTATA-AATTTTTA-AAATATATAA
13471385 AAA
1 AAA
13471388 ACTTATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 13 0.52
27 9 0.36
28 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
AAACTATAAATTTTTAAAATATATAA
Found at i:13471408 original size:178 final size:181
Alignment explanation
Indices: 13471108--13471433 Score: 493
Period size: 178 Copynumber: 1.8 Consensus size: 181
13471098 AAATTAAAAA
*
13471108 AAAAAACTTATTAAAAATAGAAAGTTTTAAAATTTATTTATTTTAAACAATCAAATTTGATAAAA
1 AAAAAACTTATTAAAAATAGAAAATTTTAAAATTTATTTATTTTAAACAATCAAATTT-ATAAAA
* * *
13471173 ATATATTAAAACTATATTATATTTTAAAAATTTTAAAAACTTATCAAAAATAAAATTTTGAAATT
65 ATATATTAAAACTATATTATATTTTAAAAATTTAAAAAACTTATCAAAAAGAAAATTTTGAAACT
13471238 TATTT-TTTCAAATTATAAAACTATATAAAATATACAAATATATCTAAAAATT
130 TATTTATTT-AAATTATAAAACTATATAAAATATACAAATATATCTAAAAATT
* * * * *
13471290 AAAAAA-TTCTTAAAAATGGAAAATTTTAAATTTTATTTATTTTAAACTAT-AAATTT-TTAAAA
1 AAAAAACTTATTAAAAATAGAAAATTTTAAAATTTATTTATTTTAAACAATCAAATTTATAAAAA
13471352 TATATTAAAACTATATTAT-TTTTAGAAAA-TTAAAAAACTTATTCAAAAAGAAAATTTTGAAAC
66 TATATTAAAACTATATTATATTTTA-AAAATTTAAAAAACTTA-TCAAAAAGAAAATTTTGAAAC
13471415 TTATTTATTTAAATTATAA
129 TTATTTATTTAAATTATAA
13471434 TATTTGATAA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
177 16 0.12
178 62 0.47
179 3 0.02
180 6 0.05
181 39 0.30
182 6 0.05
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (181 bp):
AAAAAACTTATTAAAAATAGAAAATTTTAAAATTTATTTATTTTAAACAATCAAATTTATAAAAA
TATATTAAAACTATATTATATTTTAAAAATTTAAAAAACTTATCAAAAAGAAAATTTTGAAACTT
ATTTATTTAAATTATAAAACTATATAAAATATACAAATATATCTAAAAATT
Found at i:13471464 original size:57 final size:54
Alignment explanation
Indices: 13471402--13471561 Score: 157
Period size: 53 Copynumber: 2.9 Consensus size: 54
13471392 ATTCAAAAAG
13471402 AAAATTTTGAAACTTATTTATTTAAATTATAATATTTGATAAAACATAATAAAAATA
1 AAAATTTTGAAACTTATTTATTTAAATTATAATATTTGATAAAA-AT-AT-AAAATA
* * * ***
13471459 AAAATTTTAAAACTTATTT-TTTAAAAATGATACTATTTG-T--AAATATTTGATA
1 AAAATTTTGAAACTTATTTATTT--AAATTATAATATTTGATAAAAATATAAAATA
* *
13471511 AAACATTTTGAAATTTAATTATTTTAAATTATAATATTTGATAAAAATATA
1 AAA-ATTTTGAAACTTATTTA-TTTAAATTATAATATTTGATAAAAATATA
13471562 TTTATTTTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
52 6 0.07
53 28 0.34
54 3 0.04
55 5 0.06
56 9 0.11
57 19 0.23
58 13 0.16
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (54 bp):
AAAATTTTGAAACTTATTTATTTAAATTATAATATTTGATAAAAATATAAAATA
Found at i:13471466 original size:93 final size:92
Alignment explanation
Indices: 13471250--13471466 Score: 205
Period size: 93 Copynumber: 2.3 Consensus size: 92
13471240 TTTTTTCAAA
* *
13471250 TTATAAAAC-T-ATATAAAATATACAAATATATCTA-AAAATTAAAAAATTCTTAAAAATGGAAA
1 TTATAAAACATAATA-AAAATATA-AAAT-T-TTTAGAAAATTAAAAAATTATTAAAAA-GGAAA
*
13471312 ATTTTAAATTTTATTTATTTTAAACTATAAAT
61 ATTTTAAATCTTATTTATTTTAAACTATAAAT
* * * * **
13471344 TTTTAAAATATATTAAAACTATATTATTTTTAGAAAATTAAAAAACTTATTCAAAAA-GAAAATT
1 TTATAAAACATAATAAAAATATAAAATTTTTAGAAAATTAAAAAA-TTATT-AAAAAGGAAAATT
*
13471408 TTGAAA-CTTATTTA-TTTAAATTATAATAT
64 TT-AAATCTTATTTATTTTAAACTATAA-AT
13471437 TTGATAAAACATAATAAAAATA-AAAATTTT
1 TT-ATAAAACATAATAAAAATATAAAATTTT
13471467 AAAACTTATT
Statistics
Matches: 99, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
92 14 0.14
93 39 0.39
94 31 0.31
95 13 0.13
96 2 0.02
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (92 bp):
TTATAAAACATAATAAAAATATAAAATTTTTAGAAAATTAAAAAATTATTAAAAAGGAAAATTTT
AAATCTTATTTATTTTAAACTATAAAT
Found at i:13471545 original size:16 final size:17
Alignment explanation
Indices: 13471515--13471573 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 17
13471505 TTGATAAAAC
*
13471515 ATTTTGAAATT-TAATT
1 ATTTTAAAATTATAATT
13471531 ATTTT-AAATTATAA-T
1 ATTTTAAAATTATAATT
* *
13471546 ATTTGATAAAAATATATTT
1 ATTT--TAAAATTATAATT
13471565 ATTTTAAAA
1 ATTTTAAAA
13471574 GTATTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 10 0.28
16 8 0.22
17 6 0.17
18 7 0.19
19 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTTAAAATTATAATT
Found at i:13471608 original size:12 final size:12
Alignment explanation
Indices: 13471581--13471614 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
13471571 AAAGTATTTA
13471581 TTTTTATTTTCT
1 TTTTTATTTTCT
13471593 TTTTTCATTTTCT
1 TTTTT-ATTTTCT
13471606 TTTTT-TTTT
1 TTTTTATTTT
13471615 TAATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 5 0.24
13 12 0.57
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTCT
Found at i:13471608 original size:18 final size:18
Alignment explanation
Indices: 13471577--13471621 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
13471567 TTTAAAAGTA
*
13471577 TTTATTTTTATTTTCTTT
1 TTTAATTTTATTTTCTTT
* * *
13471595 TTTCATTTTCTTTTTTTT
1 TTTAATTTTATTTTCTTT
13471613 TTTAATTTT
1 TTTAATTTT
13471622 TTTCAACTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTAATTTTATTTTCTTT
Found at i:13472134 original size:6 final size:6
Alignment explanation
Indices: 13472125--13472158 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
13472115 GACGTAGAGG
* *
13472125 TGGGTT TGGGTT TGGGAT TGGGAT TGGGAT TGGG
1 TGGGAT TGGGAT TGGGAT TGGGAT TGGGAT TGGG
13472159 TCAGCAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.09, C:0.00, G:0.53, T:0.38
Consensus pattern (6 bp):
TGGGAT
Found at i:13477053 original size:33 final size:33
Alignment explanation
Indices: 13477003--13477065 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
13476993 CCTCTGCTGC
* * *
13477003 TCTTTCTTTGTTCTCTTCCTTCTCTTTCTGCAA
1 TCTTGCTTTCTTCTCTTCCTTCTCTATCTGCAA
13477036 TCTTGCTTTCTTCTCTTCCTTCTCTATCTG
1 TCTTGCTTTCTTCTCTTCCTTCTCTATCTG
13477066 TTCTTTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.05, C:0.32, G:0.06, T:0.57
Consensus pattern (33 bp):
TCTTGCTTTCTTCTCTTCCTTCTCTATCTGCAA
Found at i:13480182 original size:10 final size:10
Alignment explanation
Indices: 13480169--13480211 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
13480159 TTTTTTATTA
13480169 TTTTATCTTT
1 TTTTATCTTT
13480179 TTTTATCTTT
1 TTTTATCTTT
*
13480189 AATTTATCTTT
1 -TTTTATCTTT
13480200 TTTTAT-TTT
1 TTTTATCTTT
13480209 TTT
1 TTT
13480212 AAATAAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 6 0.20
10 15 0.50
11 9 0.30
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATCTTT
Found at i:13480630 original size:19 final size:19
Alignment explanation
Indices: 13480602--13480643 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13480592 AACTCACATA
*
13480602 ATAAACTCATAAAATAATC
1 ATAAACTCATAAAACAATC
* *
13480621 ATAAATTCATATAACAATC
1 ATAAACTCATAAAACAATC
13480640 ATAA
1 ATAA
13480644 CAACTCATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAACTCATAAAACAATC
Found at i:13486476 original size:5 final size:5
Alignment explanation
Indices: 13486455--13486492 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
13486445 CTAAAAAACC
*
13486455 TTCCA TTCC- TTCACT TTCCT TTCCT TTCCT TTCCT TTC
1 TTCCT TTCCT TTC-CT TTCCT TTCCT TTCCT TTCCT TTC
13486493 TCTCACTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 3 0.10
5 25 0.81
6 3 0.10
ACGTcount: A:0.05, C:0.39, G:0.00, T:0.55
Consensus pattern (5 bp):
TTCCT
Found at i:13487058 original size:27 final size:26
Alignment explanation
Indices: 13487028--13487079 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
13487018 ATAAAAATTT
*
13487028 TAAATCATTTAATATTTATAAAATTAA
1 TAAATCATTAAATA-TTATAAAATTAA
* *
13487055 TAAATTATTAAATATTATTAAATTA
1 TAAATCATTAAATATTATAAAATTA
13487080 TTTTTATGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAATCATTAAATATTATAAAATTAA
Found at i:13487076 original size:18 final size:17
Alignment explanation
Indices: 13487046--13487081 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13487036 TTAATATTTA
13487046 TAAAATTAATAAATTAT
1 TAAAATTAATAAATTAT
*
13487063 TAAATATTATTAAATTAT
1 TAAA-ATTAATAAATTAT
13487081 T
1 T
13487082 TTTATGTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATTAATAAATTAT
Found at i:13489209 original size:18 final size:20
Alignment explanation
Indices: 13489186--13489223 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13489176 TTCAATCTTC
13489186 AATTTAA-A-ATTTTTTATT
1 AATTTAATATATTTTTTATT
13489204 AATTTAATATATTTTTTATT
1 AATTTAATATATTTTTTATT
13489224 GCTTGTTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTAATATATTTTTTATT
Found at i:13497624 original size:17 final size:17
Alignment explanation
Indices: 13497602--13497634 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
13497592 AGATAAAGAG
13497602 ATAACAAGTAAGCATAT
1 ATAACAAGTAAGCATAT
13497619 ATAACAAGTAAGCATA
1 ATAACAAGTAAGCATA
13497635 AGCAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (17 bp):
ATAACAAGTAAGCATAT
Found at i:13498578 original size:26 final size:26
Alignment explanation
Indices: 13498549--13498598 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
13498539 TATCAAAGAA
13498549 ATCATAAAACCATAATTATCCAAAAG
1 ATCATAAAACCATAATTATCCAAAAG
13498575 ATCATAAAACCATAATTATCCAAA
1 ATCATAAAACCATAATTATCCAAA
13498599 GGCATGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (26 bp):
ATCATAAAACCATAATTATCCAAAAG
Found at i:13500382 original size:14 final size:14
Alignment explanation
Indices: 13500330--13500381 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
13500320 ATTGAAATAT
13500330 TCAAAG-TC-AAAG
1 TCAAAGATCAAAAG
*
13500342 TCAAA-ATTAAAAG
1 TCAAAGATCAAAAG
13500355 TCAAAGATCAAAAG
1 TCAAAGATCAAAAG
13500369 TCAAATGATCAAA
1 TCAAA-GATCAAA
13500382 GGGGTGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 6 0.18
13 9 0.26
14 12 0.35
15 7 0.21
ACGTcount: A:0.56, C:0.13, G:0.12, T:0.19
Consensus pattern (14 bp):
TCAAAGATCAAAAG
Found at i:13500559 original size:73 final size:73
Alignment explanation
Indices: 13500482--13500631 Score: 185
Period size: 73 Copynumber: 2.1 Consensus size: 73
13500472 CTCCAAGAGA
* * *
13500482 GGATTAATCCATTTTAGTGTTTTGAGCAAAATTTACATATT-GAAACAAAAATGGATCGATTAGG
1 GGATTAATCCATTTTAGGGTTTTAAGCAAAATTTACAT-TTAGAAACAAAAATGGATCGATCAGG
*
13500546 TAAAATAGG
65 TAAAATAAG
* * * * ** *
13500555 GGATTGATCCATTTTAGGGTTTTAAGCCAATTTTGCATTTAGGGACAAAAATGGATCGATCGGGT
1 GGATTAATCCATTTTAGGGTTTTAAGCAAAATTTACATTTAGAAACAAAAATGGATCGATCAGGT
13500620 AAAATAAG
66 AAAATAAG
13500628 GGAT
1 GGAT
13500632 GGATCCATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 2 0.03
73 63 0.97
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (73 bp):
GGATTAATCCATTTTAGGGTTTTAAGCAAAATTTACATTTAGAAACAAAAATGGATCGATCAGGT
AAAATAAG
Found at i:13502221 original size:3 final size:3
Alignment explanation
Indices: 13502213--13502313 Score: 141
Period size: 3 Copynumber: 34.0 Consensus size: 3
13502203 CTTTGGCCTA
* * * * * *
13502213 ATT ATT ATT -GT ATT ATT ATT ACT ATT ACT ATT ACT ATT ACT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13502260 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13502308 ATT ATT
1 ATT ATT
13502314 CAAAAAGAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 1 0.01
3 84 0.99
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13502388 original size:12 final size:13
Alignment explanation
Indices: 13502368--13502396 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13502358 AATCAAAAGA
13502368 ATAAAAAAATGCG
1 ATAAAAAAATGCG
13502381 ATAAAAAAATGCG
1 ATAAAAAAATGCG
13502394 ATA
1 ATA
13502397 CTATAGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (13 bp):
ATAAAAAAATGCG
Found at i:13503383 original size:20 final size:20
Alignment explanation
Indices: 13503334--13503389 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
13503324 TATATTTGTC
13503334 TATATGATTACATGATAATT
1 TATATGATTACATGATAATT
13503354 T-TACTGATTACATGAT-ATGT
1 TATA-TGATTACATGATAAT-T
* *
13503374 TATATTATTAGATGAT
1 TATATGATTACATGAT
13503390 GTACTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 4 0.13
20 25 0.81
21 2 0.06
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.46
Consensus pattern (20 bp):
TATATGATTACATGATAATT
Done.