Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 68 of 130
Found at i:14171328 original size:34 final size:33
Alignment explanation
Indices: 14171248--14171333 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
14171238 TACGAGCTTA
* * * *
14171248 AAATTCTTG-AGAATCTAAATTCTTGTGAATTTG
1 AAATTCTTGCA-AATTTGAATTCATGCGAATTTG
14171281 AAATTCTTGCAAATTTGAATTCATGCGAATTTG
1 AAATTCTTGCAAATTTGAATTCATGCGAATTTG
14171314 AAATGTCTTGCAAATTTGAA
1 AAAT-TCTTGCAAATTTGAA
14171334 AAGTATTGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
33 31 0.66
34 16 0.34
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (33 bp):
AAATTCTTGCAAATTTGAATTCATGCGAATTTG
Found at i:14171347 original size:18 final size:18
Alignment explanation
Indices: 14171307--14171363 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
14171297 GAATTCATGC
* * *
14171307 GAATTTGAAATGTCTTGC
1 GAATTTGAAAAGTATTGT
*
14171325 AAATTTGAAAAGTATTGT
1 GAATTTGAAAAGTATTGT
* *
14171343 GAATTTGAAAATTTTTGT
1 GAATTTGAAAAGTATTGT
14171361 GAA
1 GAA
14171364 CTAGAAATCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (18 bp):
GAATTTGAAAAGTATTGT
Found at i:14171560 original size:20 final size:19
Alignment explanation
Indices: 14171522--14171560 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14171512 TCAGAGAATC
* *
14171522 TTGAATTATTTCCAAACTT
1 TTGAAATATTTCAAAACTT
14171541 TTGAAATATTTGCAAAACTT
1 TTGAAATATTT-CAAAACTT
14171561 GAAATTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (19 bp):
TTGAAATATTTCAAAACTT
Found at i:14171564 original size:18 final size:17
Alignment explanation
Indices: 14171541--14171593 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
14171531 TTCCAAACTT
14171541 TTGAAATATTTGCAAAAC
1 TTGAAAT-TTTGCAAAAC
* *
14171559 TTGAAATTCTTGCGAATC
1 TTGAAATT-TTGCAAAAC
14171577 TTGAAATCTTTGCAAAA
1 TTGAAAT-TTTGCAAAA
14171594 TTTAAAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (17 bp):
TTGAAATTTTGCAAAAC
Found at i:14174137 original size:13 final size:13
Alignment explanation
Indices: 14174119--14174148 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14174109 TTATAATATG
14174119 TTATAGTATAATA
1 TTATAGTATAATA
*
14174132 TTATAGTATAGTA
1 TTATAGTATAATA
14174145 TTAT
1 TTAT
14174149 TGTTGGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
TTATAGTATAATA
Found at i:14174254 original size:3 final size:3
Alignment explanation
Indices: 14174226--14174276 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
14174216 TACTATAGTA
* * *
14174226 TAT TA- TAT TAG TAC TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14174273 TAT T
1 TAT T
14174277 CTGCTTTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:14175208 original size:16 final size:16
Alignment explanation
Indices: 14175181--14175223 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
14175171 CTAATTTTCA
*
14175181 TTATTTTATATTTTATAT
1 TTATTTTAT-TTTCA-AT
14175199 TTATTTTATTTTCAAT
1 TTATTTTATTTTCAAT
14175215 TTATTTTAT
1 TTATTTTAT
14175224 CTATTTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 11 0.46
17 4 0.17
18 9 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTTTATTTTCAAT
Found at i:14188379 original size:23 final size:23
Alignment explanation
Indices: 14188353--14188401 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
14188343 TTAATCAATA
14188353 AAAAATAAAATAACAAG-AAAAGT
1 AAAAATAAAATAA-AAGAAAAAGT
*
14188376 AAAAATAAAATAAAGGAAAAAGT
1 AAAAATAAAATAAAAGAAAAAGT
14188399 AAA
1 AAA
14188402 TGGAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (23 bp):
AAAAATAAAATAAAAGAAAAAGT
Found at i:14189910 original size:20 final size:20
Alignment explanation
Indices: 14189887--14189936 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
14189877 GTCAACTCTG
* * *
14189887 ATCAAACTTGGTCAAATAAA
1 ATCAAAATTAGTCAAACAAA
14189907 ATCAAAATTAGTCAAACAAA
1 ATCAAAATTAGTCAAACAAA
*
14189927 GTCAAAATTA
1 ATCAAAATTA
14189937 CACAAAACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (20 bp):
ATCAAAATTAGTCAAACAAA
Found at i:14192002 original size:7 final size:7
Alignment explanation
Indices: 14191975--14192105 Score: 59
Period size: 7 Copynumber: 20.1 Consensus size: 7
14191965 ACGCTAAAAA
14191975 CCTAAAC
1 CCTAAAC
*
14191982 CTTAAAC
1 CCTAAAC
14191989 TCC-AAAC
1 -CCTAAAC
14191996 CCTAAA-
1 CCTAAAC
*
14192002 CCTAAAT
1 CCTAAAC
14192009 CCTAAAC
1 CCTAAAC
14192016 CCTAAA-
1 CCTAAAC
* *
14192022 TCAAAAC
1 CCTAAAC
*
14192029 CTTAAAC
1 CCTAAAC
14192036 CC-AAAC
1 CCTAAAC
*
14192042 CTTAAA-
1 CCTAAAC
*
14192048 TC-AAAC
1 CCTAAAC
* *
14192054 CCCAAAT
1 CCTAAAC
14192061 CC-AAAC
1 CCTAAAC
**
14192067 GTTAAA-
1 CCTAAAC
*
14192073 CCTAAAT
1 CCTAAAC
14192080 CC-AAAC
1 CCTAAAC
14192086 CCT-AAC
1 CCTAAAC
14192092 CCT-AAC
1 CCTAAAC
*
14192098 CCCAAAC
1 CCTAAAC
14192105 C
1 C
14192106 TTAACATTAA
Statistics
Matches: 92, Mismatches: 21, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
5 3 0.03
6 41 0.45
7 47 0.51
8 1 0.01
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (7 bp):
CCTAAAC
Found at i:14192007 original size:20 final size:21
Alignment explanation
Indices: 14191975--14192049 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 21
14191965 ACGCTAAAAA
14191975 CCTAAACCTTAAACTCC-AAAC
1 CCTAAACCTTAAA-TCCTAAAC
14191996 CCTAAACC-TAAATCCTAAAC
1 CCTAAACCTTAAATCCTAAAC
* *
14192016 CCTAAA--TCAAAACCTTAAAC
1 CCTAAACCTTAAATCC-TAAAC
14192036 CC-AAACCTTAAATC
1 CCTAAACCTTAAATC
14192050 AAACCCCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
19 11 0.24
20 21 0.47
21 13 0.29
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTAAACCTTAAATCCTAAAC
Found at i:14192014 original size:13 final size:13
Alignment explanation
Indices: 14191972--14192049 Score: 54
Period size: 13 Copynumber: 5.8 Consensus size: 13
14191962 GAAACGCTAA
14191972 AAACCTAAA-CCTT
1 AAACCTAAATCC-T
* *
14191985 AAACTCCAAACCCT
1 AAAC-CTAAATCCT
14191999 AAACCTAAATCCT
1 AAACCTAAATCCT
*
14192012 AAACCCTAAAT-CA
1 AAA-CCTAAATCCT
*
14192025 AAACCTTAAA-CCC
1 AAACC-TAAATCCT
14192038 AAACCTTAAATC
1 AAACC-TAAATC
14192050 AAACCCCAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
12 2 0.04
13 33 0.61
14 17 0.31
15 2 0.04
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (13 bp):
AAACCTAAATCCT
Found at i:14192041 original size:26 final size:26
Alignment explanation
Indices: 14191999--14192066 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
14191989 TCCAAACCCT
*
14191999 AAACCTAAATCCTAAACCCTAAATCA
1 AAACCTAAATCCCAAACCCTAAATCA
*
14192025 AAACCTTAAA-CCCAAACCTTAAATCA
1 AAACC-TAAATCCCAAACCCTAAATCA
* *
14192051 AACCCCAAAT-CCAAAC
1 AAACCTAAATCCCAAAC
14192067 GTTAAACCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 9 0.25
26 23 0.64
27 4 0.11
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (26 bp):
AAACCTAAATCCCAAACCCTAAATCA
Found at i:14192065 original size:13 final size:13
Alignment explanation
Indices: 14192002--14192066 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 13
14191992 AAACCCTAAA
14192002 CCTAAATCCTAAAC
1 CCTAAATCC-AAAC
*
14192016 CCTAAATCAAAAC
1 CCTAAATCCAAAC
* *
14192029 CTTAAACCCAAAC
1 CCTAAATCCAAAC
*
14192042 CTTAAAT-CAAAC
1 CCTAAATCCAAAC
*
14192054 CCCAAATCCAAAC
1 CCTAAATCCAAAC
14192067 GTTAAACCTA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.23
13 25 0.58
14 8 0.19
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (13 bp):
CCTAAATCCAAAC
Found at i:14192095 original size:19 final size:19
Alignment explanation
Indices: 14191993--14192110 Score: 73
Period size: 19 Copynumber: 6.2 Consensus size: 19
14191983 TTAAACTCCA
*
14191993 AACCCTAAA-CCTAAATCCTA
1 AACCCTAAATCC-AAA-CCTT
*
14192013 AACCCTAAATCAAAACCTT
1 AACCCTAAATCCAAACCTT
* *
14192032 AAACCC-AAA-CCTTAAATC-A
1 -AACCCTAAATCC--AAACCTT
* *
14192051 AACCCCAAATCCAAACGTT
1 AACCCTAAATCCAAACCTT
* *
14192070 AAACCTAAATCCAAACCCT
1 AACCCTAAATCCAAACCTT
**
14192089 AACCCTAACCCCAAACCTT
1 AACCCTAAATCCAAACCTT
14192108 AAC
1 AAC
14192111 ATTAAATCAT
Statistics
Matches: 75, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
18 9 0.12
19 42 0.56
20 23 0.31
21 1 0.01
ACGTcount: A:0.46, C:0.36, G:0.01, T:0.17
Consensus pattern (19 bp):
AACCCTAAATCCAAACCTT
Found at i:14192263 original size:17 final size:19
Alignment explanation
Indices: 14192227--14192278 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 19
14192217 CTTATCATCA
*
14192227 CATGCATTCA-TATCTTGT
1 CATGCATTCATTATATTGT
*
14192245 CATTCA-T-ATTATATTGT
1 CATGCATTCATTATATTGT
14192262 CATGCATTCATTATATT
1 CATGCATTCATTATATT
14192279 TTATTATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.04
17 13 0.46
18 6 0.21
19 8 0.29
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (19 bp):
CATGCATTCATTATATTGT
Found at i:14192322 original size:14 final size:15
Alignment explanation
Indices: 14192303--14192345 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
14192293 CTTCTCAGGC
14192303 ATTTATTTTTAAA-A
1 ATTTATTTTTAAAGA
*
14192317 ATTTATTTTCAAAGTA
1 ATTTATTTTTAAAG-A
*
14192333 AATTATTTTTAAA
1 ATTTATTTTTAAA
14192346 TAAGATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
16 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTTTTAAAGA
Found at i:14195804 original size:13 final size:12
Alignment explanation
Indices: 14195787--14195829 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
14195777 AAAAAAAAAA
14195787 AAAAAATAGAAG
1 AAAAAATAGAAG
14195799 AGAAAAA-AGAAG
1 A-AAAAATAGAAG
*
14195811 AAAAAATGTGAAG
1 AAAAAAT-AGAAG
14195824 AAAAAA
1 AAAAAA
14195830 ATGGAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.19
12 7 0.26
13 15 0.56
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (12 bp):
AAAAAATAGAAG
Found at i:14195823 original size:25 final size:23
Alignment explanation
Indices: 14195777--14195830 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
14195767 AAAAAAATGC
14195777 AAAAAAAAAAAAAAAATAGAAGA
1 AAAAAAAAAAAAAAAATAGAAGA
* * *
14195800 GAAAAAAGAAGAAAAAATGTGAAGA
1 -AAAAAAAAAAAAAAAAT-AGAAGA
14195825 AAAAAA
1 AAAAAA
14195831 TGGAAAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (23 bp):
AAAAAAAAAAAAAAAATAGAAGA
Found at i:14199356 original size:19 final size:21
Alignment explanation
Indices: 14199309--14199348 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14199299 AGGAACTCAA
14199309 ATTTGCAAAGTTCATATGGAG
1 ATTTGCAAAGTTCATATGGAG
14199330 ATTTGCAAAGTTCATATGG
1 ATTTGCAAAGTTCATATGG
14199349 TATTGCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (21 bp):
ATTTGCAAAGTTCATATGGAG
Found at i:14201393 original size:17 final size:19
Alignment explanation
Indices: 14201371--14201414 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
14201361 TATAGAAATA
14201371 TAATTATT-TATTTATT-T
1 TAATTATTATATTTATTGT
*
14201388 TAATTATTGATGTTTATTGT
1 TAATTATT-ATATTTATTGT
14201408 TAATTAT
1 TAATTAT
14201415 AGCATTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (19 bp):
TAATTATTATATTTATTGT
Found at i:14220156 original size:113 final size:113
Alignment explanation
Indices: 14219954--14220163 Score: 348
Period size: 113 Copynumber: 1.9 Consensus size: 113
14219944 AAGAATCATG
* *
14219954 ATTCTAAGAGTGAGATGCCAAATAGGGGACTCTTTCTTTTTAAGACATGTATATCATCTTAAGAG
1 ATTCTAAGAATGAGATGCCAAATAAGGGACTCTTTCTTTTTAAGACATGTATATCATCTTAAGAG
*
14220019 TATTATTAAGGGTATCAACTTTTAATTGGATTTGATTGTTTACTTTGC
66 TATTATTAAGGGTATCAACCTTTAATTGGATTTGATTGTTTACTTTGC
* **
14220067 ATTCTAAGAATGAGATGCCAAATAAGGGACTTTTTCTTTTTAAGACATGTATATCATCTTGTGAG
1 ATTCTAAGAATGAGATGCCAAATAAGGGACTCTTTCTTTTTAAGACATGTATATCATCTTAAGAG
* *
14220132 TATTATTAAGGGTGTGAACCTTTAATTGGATT
66 TATTATTAAGGGTATCAACCTTTAATTGGATT
14220164 CTAAGAGTGA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 89 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (113 bp):
ATTCTAAGAATGAGATGCCAAATAAGGGACTCTTTCTTTTTAAGACATGTATATCATCTTAAGAG
TATTATTAAGGGTATCAACCTTTAATTGGATTTGATTGTTTACTTTGC
Found at i:14220190 original size:94 final size:94
Alignment explanation
Indices: 14220067--14220257 Score: 301
Period size: 94 Copynumber: 2.0 Consensus size: 94
14220057 TTTACTTTGC
** * *
14220067 ATTCTAAGAATGAGATGCCAAATAAGGGACTTTTTCTTTTTAAGACATGTATATCATCTTGTGAG
1 ATTCTAAGAATGAGACACCAAATAAGGGACTCTTTCTTTTTAAGACATGTATATCATCTTGAGAG
* *
14220132 TATTATTAAGGGTGTGAACCTTTAATTGG
66 TACTATTAAAGGTGTGAACCTTTAATTGG
* * *
14220161 ATTCTAAGAGTGAGACACCAAATAGGGGACTCTTTCTTTTTAAGACTTGTATATCATCTTGAGAG
1 ATTCTAAGAATGAGACACCAAATAAGGGACTCTTTCTTTTTAAGACATGTATATCATCTTGAGAG
14220226 TACTATTAAAGGTGTGAACCTTTAATTGG
66 TACTATTAAAGGTGTGAACCTTTAATTGG
14220255 ATT
1 ATT
14220258 TGACTATTTG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (94 bp):
ATTCTAAGAATGAGACACCAAATAAGGGACTCTTTCTTTTTAAGACATGTATATCATCTTGAGAG
TACTATTAAAGGTGTGAACCTTTAATTGG
Found at i:14220490 original size:16 final size:15
Alignment explanation
Indices: 14220465--14220494 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14220455 CTTTGAAAAT
14220465 AAAAAAAAAAAAAGG
1 AAAAAAAAAAAAAGG
14220480 AAAAGAAAAAAAAAG
1 AAAA-AAAAAAAAAG
14220495 TTTTCTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAGG
Found at i:14221170 original size:5 final size:5
Alignment explanation
Indices: 14221160--14221189 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
14221150 GCAAAAAAAT
*
14221160 TGAAA TGAAA TGAAA CGAAA TGAAA TGAAA
1 TGAAA TGAAA TGAAA TGAAA TGAAA TGAAA
14221190 AAAAAAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.20, T:0.17
Consensus pattern (5 bp):
TGAAA
Found at i:14221181 original size:15 final size:15
Alignment explanation
Indices: 14221161--14221189 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14221151 CAAAAAAATT
14221161 GAAATGAAATGAAAC
1 GAAATGAAATGAAAC
14221176 GAAATGAAATGAAA
1 GAAATGAAATGAAA
14221190 AAAAAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.03, G:0.21, T:0.14
Consensus pattern (15 bp):
GAAATGAAATGAAAC
Found at i:14222083 original size:21 final size:21
Alignment explanation
Indices: 14222057--14222105 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
14222047 AGTGCATGGT
14222057 ATAATAATAAAAAAGAAAA-AA
1 ATAATAAT-AAAAAGAAAAGAA
*
14222078 ATAATAATCAAAAGAAAAGAA
1 ATAATAATAAAAAGAAAAGAA
*
14222099 AAAATAA
1 ATAATAA
14222106 GATAAATGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (21 bp):
ATAATAATAAAAAGAAAAGAA
Found at i:14223244 original size:14 final size:13
Alignment explanation
Indices: 14223225--14223258 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
14223215 AGAAATACTA
14223225 AAAAAAAAAAAAGG
1 AAAAAAAAAAAA-G
*
14223239 AAAAAAAGAAAAG
1 AAAAAAAAAAAAG
14223252 AAAAAAA
1 AAAAAAA
14223259 TTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:14223799 original size:23 final size:23
Alignment explanation
Indices: 14223756--14223820 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
14223746 AAAAGAGTTT
14223756 AAAGAAAGCAAAAAAAG-AAAA-GG
1 AAAG-AAG-AAAAAAAGAAAAAGGG
14223779 AAAGAAGAAAACAAAGAAAAAGGG
1 AAAGAAGAAAA-AAAGAAAAAGGG
*
14223803 AAA-AAAAAAAGAAAGAAA
1 AAAGAAGAAAA-AAAGAAA
14223821 GAAAACAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
21 4 0.11
22 7 0.19
23 21 0.57
24 5 0.14
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (23 bp):
AAAGAAGAAAAAAAGAAAAAGGG
Found at i:14224110 original size:33 final size:33
Alignment explanation
Indices: 14224025--14224920 Score: 280
Period size: 33 Copynumber: 27.4 Consensus size: 33
14224015 GTTGGGACCA
** *
14224025 ATGAGAATTAAATC-AGTTTAGCTGGCACCTAA-
1 ATGAGAATTAAGCCTAGTTTAGCTAGCA-CTAAG
* * * * * *
14224057 ATGAGATTTAAACCTCGTTTAACTGGCACAAAG
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTAAG
* *
14224090 ATGAGAATTAAGCCTAGTTTAGCTAGCATTTAG
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTAAG
* * * *
14224123 ATAAAAATTAAGCCTAGTTTAGCTAGCATTCAG
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTAAG
* *
14224156 ATGAGAATTAAG-CTCAGTTTAGTTAGCACCAAG
1 ATGAGAATTAAGCCT-AGTTTAGCTAGCACTAAG
* * *
14224189 ATGAGATTTAAGCC-AATTTAGCTAG---TAACA
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTAA-G
*** * * **
14224219 ATGAGAGCGAAGCCCAGTTTAGTTATAACTCAA-
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACT-AAG
*
14224252 ATAAGAATTAAGCCTAGTTTAGCTAGCAC-ACAG
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTA-AG
* ** * * ** * *
14224285 AGGAGGTTTAAGCCCAATTTAATTGGCA-TCAAA
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACT-AAG
* * *
14224318 ATGAGAATTAAGCCTAATTTAGCTCGCACCCAA-
1 ATGAGAATTAAGCCTAGTTTAGCTAGCA-CTAAG
* * *
14224351 ATGAAAAATTAA-ACTCAATTTAGCTAGCACTCAA-
1 ATG-AGAATTAAGCCT-AGTTTAGCTAGCACT-AAG
* * * * *
14224385 ATGAGAATTAAGCCCAATTTAGTTGGTACTCAA-
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACT-AAG
* * * *
14224418 ATAAAGAATTAAGTCGAGTTTAACTAGCAAC-AAG
1 AT-GAGAATTAAGCCTAGTTTAGCTAGC-ACTAAG
* * * *
14224452 ATAAGATTTAAATCC-AGTTTAGCTAGCACCAAG
1 ATGAGAATT-AAGCCTAGTTTAGCTAGCACTAAG
* * * *
14224485 ATGAG-ATTCAAGCCCAGTTTAGTTGGCAC--GG
1 ATGAGAATT-AAGCCTAGTTTAGCTAGCACTAAG
* * * *
14224516 ATAAGAATTAAGCTTAGCTTAGCT-GACACCCAA-
1 ATGAGAATTAAGCCTAGTTTAGCTAG-CA-CTAAG
* * *
14224549 ATGAAAATTAAG-CTCAATTTAGCTAGAACTAAG
1 ATGAGAATTAAGCCT-AGTTTAGCTAGCACTAAG
* * *
14224582 ATGAGATTTAAACCTAGTTTAGCT-GATACTAAG
1 ATGAGAATTAAGCCTAGTTTAGCTAG-CACTAAG
* * * *
14224615 ATAAG-ATTAAAGCTTAATTTAGCTGGCACT-A-
1 ATGAGAATT-AAGCCTAGTTTAGCTAGCACTAAG
* * * *
14224646 ATGAGAATTAAACCTAATTTAGTTGGCACTAA-
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTAAG
* * * * * * *
14224678 ATAAAAATTAAACCCAATTTAGCTAGTACTAGG
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTAAG
* ** * * *
14224711 ATAAGGTTTAAGCCTAATTTAGCTAGCACCAAA
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTAAG
* * * *
14224744 ATGAGATTTAAG-CTCAATTTAGTTAGTACT-AG
1 ATGAGAATTAAGCCT-AGTTTAGCTAGCACTAAG
* * * * * *
14224776 A-AAGATTTTAAGCCTAATTTAGTTTGCACTAAA
1 ATGAGA-ATTAAGCCTAGTTTAGCTAGCACTAAG
* * *
14224809 ATGAGATTTAAGCCTAATTTAGTCGGTA-C-CTTA-
1 ATGAGAATTAAGCCTAGTTTAG-C--TAGCACTAAG
* * * *
14224842 ATAAGATTTAATCC-CGATTTAGCTAGCAC-AA-
1 ATGAGAATTAAGCCTAG-TTTAGCTAGCACTAAG
* * * *
14224873 ATGAGATTTAAACCTAATTTAGCTAGCACTAAA
1 ATGAGAATTAAGCCTAGTTTAGCTAGCACTAAG
14224906 ATGAGATCATTAAGC
1 ATGAGA--ATTAAGC
14224921 TTAATGAACT
Statistics
Matches: 650, Mismatches: 157, Indels: 111
0.71 0.17 0.12
Matches are distributed among these distances:
29 2 0.00
30 14 0.02
31 78 0.12
32 103 0.16
33 380 0.58
34 62 0.10
35 10 0.02
36 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGAGAATTAAGCCTAGTTTAGCTAGCACTAAG
Found at i:14224200 original size:66 final size:66
Alignment explanation
Indices: 14223990--14224605 Score: 310
Period size: 66 Copynumber: 9.4 Consensus size: 66
14223980 ATTTTGAAAA
* * * * * * *
14223990 AAGATGAAGATTTAAGCCTAATTTAGTTGGGA-CCA-ATGAGAATTAA-ATCAGTTTAGCTGGCA
1 AAGATG-AGAATTAAGCCTAGTTTAGCTAGCACCCAGATGAGAATTAAGCTCAGTTTAGCTAGCA
14224052 CC
65 CC
* * * * * **
14224054 TAA-ATGAGATTTAAACCTCGTTTAACTGGCACAAAGATGAGAATTAAGC-CTAGTTTAGCTAGC
1 -AAGATGAGAATTAAGCCTAGTTTAGCTAGCACCCAGATGAGAATTAAGCTC-AGTTTAGCTAGC
**
14224117 ATT
64 ACC
* * * ** *
14224120 TAGATAAAAATTAAGCCTAGTTTAGCTAGCATTCAGATGAGAATTAAGCTCAGTTTAGTTAGCAC
1 AAGATGAGAATTAAGCCTAGTTTAGCTAGCACCCAGATGAGAATTAAGCTCAGTTTAGCTAGCAC
14224185 C
66 C
* * * * *** * * **
14224186 AAGATGAGATTTAAGCC-AATTTAGCTAGTA-ACA-ATGAGAGCGAAGCCCAGTTTAGTTATAAC
1 AAGATGAGAATTAAGCCTAGTTTAGCTAGCACCCAGATGAGAATTAAGCTCAGTTTAGCTAGCAC
14224248 TC
66 -C
* * * ** * * ** * *
14224250 AA-ATAAGAATTAAGCCTAGTTTAGCTAGCACACAGAGGAGGTTTAAGCCCAATTTAATTGGCAT
1 AAGATGAGAATTAAGCCTAGTTTAGCTAGCACCCAGATGAGAATTAAGCTCAGTTTAGCTAGCAC
14224314 C
66 C
* * * * * * *
14224315 AAAATGAGAATTAAGCCTAATTTAGCTCGCACCCAAATGAAAAATTAAACTCAATTTAGCTAGCA
1 AAGATGAGAATTAAGCCTAGTTTAGCTAGCACCCAGATG-AGAATTAAGCTCAGTTTAGCTAGCA
14224380 CTC
65 C-C
* * * * * * * * *
14224383 AA-ATGAGAATTAAGCCCAATTTAGTTGGTACTCAAATAAAGAATTAAG-TCGAGTTTAACTAGC
1 AAGATGAGAATTAAGCCTAGTTTAGCTAGCACCCAGAT-GAGAATTAAGCTC-AGTTTAGCTAGC
*
14224446 AAC
64 ACC
* * * * * * *
14224449 AAGATAAGATTTAAATCC-AGTTTAGCTAGCACCAAGATGAG-ATTCAAGCCCAGTTTAGTTGGC
1 AAGATGAGAATT-AAGCCTAGTTTAGCTAGCACCCAGATGAGAATT-AAGCTCAGTTTAGCTAGC
14224512 A-C
64 ACC
* * * * * * * *
14224514 -GGATAAGAATTAAGCTTAGCTTAGCT-GACACCCAAATGAAAATTAAGCTCAATTTAGCTAGAA
1 AAGATGAGAATTAAGCCTAGTTTAGCTAG-CACCCAGATGAGAATTAAGCTCAGTTTAGCTAGCA
*
14224577 CT
65 CC
* *
14224579 AAGATGAGATTTAAACCTAGTTTAGCT
1 AAGATGAGAATTAAGCCTAGTTTAGCT
14224606 GATACTAAGA
Statistics
Matches: 412, Mismatches: 115, Indels: 47
0.72 0.20 0.08
Matches are distributed among these distances:
63 58 0.14
64 60 0.15
65 39 0.09
66 161 0.39
67 87 0.21
68 7 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (66 bp):
AAGATGAGAATTAAGCCTAGTTTAGCTAGCACCCAGATGAGAATTAAGCTCAGTTTAGCTAGCAC
C
Found at i:14224232 original size:129 final size:130
Alignment explanation
Indices: 14224099--14224341 Score: 299
Period size: 129 Copynumber: 1.9 Consensus size: 130
14224089 GATGAGAATT
* * * * * ** *
14224099 AAGCCTAGTTTAGCTAGCATTTAGATAAAAATTAAGCCTAGTTTAGCTAGCATTCAGATGAGAAT
1 AAGCCCAGTTTAGCTAGAACTCAAATAAAAATTAAGCCTAGTTTAGCTAGCACACAGAGGAGAAT
* * * * *
14224164 TAAGCTCAGTTTAGTTAGCACCAAGATGAGATTTAAGCC-AATTTAGCTAGTAACAATGAGAGCG
66 TAAGCCCAATTTAATTAGCACCAAAATGAGAATTAAGCCTAATTTAGCTAGTAACAATGAGAGCG
* * * **
14224228 AAGCCCAGTTTAGTTATAACTCAAATAAGAATTAAGCCTAGTTTAGCTAGCACACAGAGGAGGTT
1 AAGCCCAGTTTAGCTAGAACTCAAATAAAAATTAAGCCTAGTTTAGCTAGCACACAGAGGAGAAT
* *
14224293 TAAGCCCAATTTAATTGGCATCAAAATGAGAATTAAGCCTAATTTAGCT
66 TAAGCCCAATTTAATTAGCACCAAAATGAGAATTAAGCCTAATTTAGCT
14224342 CGCACCCAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
129 84 0.90
130 9 0.10
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (130 bp):
AAGCCCAGTTTAGCTAGAACTCAAATAAAAATTAAGCCTAGTTTAGCTAGCACACAGAGGAGAAT
TAAGCCCAATTTAATTAGCACCAAAATGAGAATTAAGCCTAATTTAGCTAGTAACAATGAGAGCG
Found at i:14224371 original size:34 final size:33
Alignment explanation
Indices: 14224316--14224406 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 33
14224306 ATTGGCATCA
* * * *
14224316 AAATGAGAATTAAGCCTAATTTAGCTCGCACCC
1 AAATGAAAATTAAACCCAATTTAGCTAGCACCC
* *
14224349 AAATGAAAAATTAAACTCAATTTAGCTAGCACTC
1 AAATG-AAAATTAAACCCAATTTAGCTAGCACCC
* *
14224383 AAATGAGAATTAAGCCCAATTTAG
1 AAATGAAAATTAAACCCAATTTAG
14224407 TTGGTACTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
33 21 0.44
34 27 0.56
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (33 bp):
AAATGAAAATTAAACCCAATTTAGCTAGCACCC
Found at i:14224396 original size:100 final size:99
Alignment explanation
Indices: 14223990--14224592 Score: 303
Period size: 100 Copynumber: 6.1 Consensus size: 99
14223980 ATTTTGAAAA
* * * * * **
14223990 AAGATGAAGATTTAAGCCTAATTTAGTTGGGA-CCAATGAGAATTAAATC-AGTTTAGCTGGCAC
1 AAGATG-AGAATTAAGCCCAATTTAGTTGGCATCAAATAAGAATTAAGCCTAGTTTAGCT-GCAC
* * * * * * *
14224053 CTAAATG-AGATTTAAACCTC-GTTTAACTGGCAC-A
64 CCAAATGAAAAATTAAA-CTCAATTTAGCTAGCACTC
* * * * * * * *
14224087 AAGATGAGAATTAAGCCTAGTTTAGCTAGCATTTAGATAAAAATTAAGCCTAGTTTAGCTAGCAT
1 AAGATGAGAATTAAGCCCAATTTAGTTGGCA-TCAAATAAGAATTAAGCCTAGTTTAGCT-GCAC
* * * * * *
14224152 TCAGATG-AGAATTAAGCTCAGTTTAGTTAGCAC-C
64 CCAAATGAAAAATTAAACTCAATTTAGCTAGCACTC
* * * * * * *** * * ** *
14224186 AAGATGAGATTTAAG-CCAATTTAGCTAGTAAC-AATGAGAGCGAAGCCCAGTTTAGTTATAACT
1 AAGATGAGAATTAAGCCCAATTTAGTTGGCATCAAATAAGAATTAAGCCTAGTTTAGCT-GCACC
* * * *
14224249 CAAAT-AAGAATTAAGC-CTAGTTTAGCTAGCACAC
65 CAAATGAAAAATTAAACTC-AATTTAGCTAGCACTC
* ** * * *
14224283 -AGAGGAGGTTTAAGCCCAATTTAATTGGCATCAAAATGAGAATTAAGCCTAATTTAGCTCGCAC
1 AAGATGAGAATTAAGCCCAATTTAGTTGGCATC-AAATAAGAATTAAGCCTAGTTTAGCT-GCAC
14224347 CCAAATGAAAAATTAAACTCAATTTAGCTAGCACTC
64 CCAAATGAAAAATTAAACTCAATTTAGCTAGCACTC
* * * *
14224383 AA-ATGAGAATTAAGCCCAATTTAGTTGGTACTCAAATAAAGAATTAAGTCGAGTTTAACTAGCA
1 AAGATGAGAATTAAGCCCAATTTAGTTGGCA-TCAAAT-AAGAATTAAGCCTAGTTTAGCT-GCA
* * * *
14224447 -ACAAGAT-AAGATTTAAA-TCCAGTTTAGCTAGCAC-C
63 CCCAA-ATGAAAAATTAAACT-CAATTTAGCTAGCACTC
* ** * *
14224482 AAGATGAG-ATTCAAGCCCAGTTTAGTTGGCA-CGGATAAGAATTAAGCTTAGCTTAGCTGACAC
1 AAGATGAGAATT-AAGCCCAATTTAGTTGGCATCAAATAAGAATTAAGCCTAGTTTAGCTG-CAC
* *
14224545 CCAAATG-AAAATTAAGCTCAATTTAGCTAGAACT-
64 CCAAATGAAAAATTAAACTCAATTTAGCTAGCACTC
*
14224579 AAGATGAGATTTAA
1 AAGATGAGAATTAA
14224593 ACCTAGTTTA
Statistics
Matches: 387, Mismatches: 94, Indels: 50
0.73 0.18 0.09
Matches are distributed among these distances:
95 1 0.00
96 80 0.21
97 69 0.18
98 34 0.09
99 80 0.21
100 97 0.25
101 26 0.07
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (99 bp):
AAGATGAGAATTAAGCCCAATTTAGTTGGCATCAAATAAGAATTAAGCCTAGTTTAGCTGCACCC
AAATGAAAAATTAAACTCAATTTAGCTAGCACTC
Found at i:14224589 original size:130 final size:129
Alignment explanation
Indices: 14224436--14224767 Score: 337
Period size: 129 Copynumber: 2.6 Consensus size: 129
14224426 TTAAGTCGAG
* * *
14224436 TTTAACTAGCAAC-AAGATAAGATTTAAATCC-AGTTTAGCTAGCACCAAGATGAGATTCAAGCC
1 TTTAGCTAG-AACTAAGATAAGATTTAAA-CCTAGTTTAGCTAGCACCAAGATGAGATTAAAGCT
* * * * * * * *
14224499 CAGTTTAGTTGGCACGGATAAGAATTAAGCTTAGCTTAGCTGACACCCAAATGAAAATTAAGCTC
64 CAATTTAGTTGGCACGAATAAGAATTAAACCTAACTTAGCTGACA-CCAAATAAAAATTAAACCC
14224564 AA
128 AA
* * * * *
14224566 TTTAGCTAGAACTAAGATGAGATTTAAACCTAGTTTAGCT-GATACTAAGATAAGATTAAAGCTT
1 TTTAGCTAGAACTAAGATAAGATTTAAACCTAGTTTAGCTAG-CACCAAGATGAGATTAAAGCTC
* * * * * * *
14224630 AATTTAGCTGGCACTAATGAGAATTAAACCTAATTTAGTTGGCACTAAATAAAAATTAAACCCAA
65 AATTTAGTTGGCACGAATAAGAATTAAACCTAACTTAGCTGACACCAAATAAAAATTAAACCCAA
* * * * * * *
14224695 TTTAGCTAGTACTAGGATAAGGTTTAAGCCTAATTTAGCTAGCACCAAAATGAGATTTAAGCTCA
1 TTTAGCTAGAACTAAGATAAGATTTAAACCTAGTTTAGCTAGCACCAAGATGAGATTAAAGCTCA
14224760 ATTTAGTT
66 ATTTAGTT
14224768 AGTACTAGAA
Statistics
Matches: 162, Mismatches: 36, Indels: 9
0.78 0.17 0.04
Matches are distributed among these distances:
129 81 0.50
130 81 0.50
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (129 bp):
TTTAGCTAGAACTAAGATAAGATTTAAACCTAGTTTAGCTAGCACCAAGATGAGATTAAAGCTCA
ATTTAGTTGGCACGAATAAGAATTAAACCTAACTTAGCTGACACCAAATAAAAATTAAACCCAA
Found at i:14224687 original size:32 final size:31
Alignment explanation
Indices: 14224589--14224701 Score: 111
Period size: 32 Copynumber: 3.5 Consensus size: 31
14224579 AAGATGAGAT
* ** *
14224589 TTAAACCTAGTTTAGCTGATACTAAGATAAGA
1 TTAAACCTAATTTAGCTGGCACTAA-ATAAAA
* *
14224621 TTAAAGCTTAATTTAGCTGGCACT-AATGAGAA
1 TTAAA-CCTAATTTAGCTGGCACTAAAT-AAAA
*
14224653 TTAAACCTAATTTAGTTGGCACTAAATAAAAA
1 TTAAACCTAATTTAGCTGGCACTAAAT-AAAA
*
14224685 TTAAACCCAATTTAGCT
1 TTAAACCTAATTTAGCT
14224702 AGTACTAGGA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
31 18 0.27
32 34 0.52
33 14 0.21
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (31 bp):
TTAAACCTAATTTAGCTGGCACTAAATAAAA
Found at i:14225252 original size:46 final size:46
Alignment explanation
Indices: 14225182--14225473 Score: 347
Period size: 46 Copynumber: 6.4 Consensus size: 46
14225172 CCAATTTTCA
* * * * **
14225182 TTTAAATTTGTTTTCAAAACTTGTTAAACCTTTGTCTAAA-GAAGTT
1 TTTAAATTTATTTTCAAAAGTTATTAAGCCTTTACCTAAATG-AGTT
* * * *
14225228 TTTAAATTTATTTTCAATAGTTGTTGAGCCTTTA-CTAAAAGGAGTT
1 TTTAAATTTATTTTCAAAAGTTATTAAGCCTTTACCT-AAATGAGTT
* *
14225274 TGTAAATTTATTTTCAAAAATTATTAAGCCTTTACCTAAATGAGTT
1 TTTAAATTTATTTTCAAAAGTTATTAAGCCTTTACCTAAATGAGTT
* *
14225320 TTTAAATTTATTTTCAAAAGTTATTGAGCCTTTACCTAAATGAGCT
1 TTTAAATTTATTTTCAAAAGTTATTAAGCCTTTACCTAAATGAGTT
* * *
14225366 TTCAAATTTATTTTCAAAAGTCATTAAGCATTTACCTAAATGAGTT
1 TTTAAATTTATTTTCAAAAGTTATTAAGCCTTTACCTAAATGAGTT
* * * * *
14225412 TTTCAATTTATTTTCAAAAATTATTGAGCCTTTACCTAGAT-ATTT
1 TTTAAATTTATTTTCAAAAGTTATTAAGCCTTTACCTAAATGAGTT
14225457 TTTAAATTTATTTTCAA
1 TTTAAATTTATTTTCAA
14225474 TAATTGAGAA
Statistics
Matches: 213, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
45 21 0.10
46 189 0.89
47 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.46
Consensus pattern (46 bp):
TTTAAATTTATTTTCAAAAGTTATTAAGCCTTTACCTAAATGAGTT
Found at i:14225613 original size:17 final size:18
Alignment explanation
Indices: 14225586--14225624 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
14225576 AAAGCAAAGG
14225586 AAAAACACAAAAATAAAA
1 AAAAACACAAAAATAAAA
14225604 AAAAAC-CAAAAATAAAA
1 AAAAACACAAAAATAAAA
14225621 AAAA
1 AAAA
14225625 TCTCCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAACACAAAAATAAAA
Found at i:14235408 original size:121 final size:121
Alignment explanation
Indices: 14235194--14235435 Score: 475
Period size: 121 Copynumber: 2.0 Consensus size: 121
14235184 TTTATGCTTG
14235194 GTTTTTATGATAAAGATTGAAGTTTTAACGGTGAAATCTAACCTTTTCAAAACATAAAAGCTTAA
1 GTTTTTATGATAAAGATTGAAGTTTTAACGGTGAAATCTAACCTTTTCAAAACATAAAAGCTTAA
14235259 AGGTTTTGACAACTTCTAAAAATGGTTTTTGAAAGTGTTTTCTTTGGTTCTTGCCA
66 AGGTTTTGACAACTTCTAAAAATGGTTTTTGAAAGTGTTTTCTTTGGTTCTTGCCA
14235315 GTTTTTATGATAAAGATTGAAGTTTTAACGGTGAAATCTAACCTTTTCAAAACATAAAAGCTTAA
1 GTTTTTATGATAAAGATTGAAGTTTTAACGGTGAAATCTAACCTTTTCAAAACATAAAAGCTTAA
*
14235380 AGGTTTTGACAACTTCTAAAAATGGTTTTTGAGAGTGTTTTCTTTGGTTCTTGCCA
66 AGGTTTTGACAACTTCTAAAAATGGTTTTTGAAAGTGTTTTCTTTGGTTCTTGCCA
14235436 TATGGGTTTT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.40
Consensus pattern (121 bp):
GTTTTTATGATAAAGATTGAAGTTTTAACGGTGAAATCTAACCTTTTCAAAACATAAAAGCTTAA
AGGTTTTGACAACTTCTAAAAATGGTTTTTGAAAGTGTTTTCTTTGGTTCTTGCCA
Found at i:14237653 original size:25 final size:25
Alignment explanation
Indices: 14237616--14237679 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
14237606 AATTTATCAA
* * *
14237616 AATTATTATAATACCTTCTAACCAT
1 AATTATAAAAATACCCTCTAACCAT
* * *
14237641 AATTATGAAAATACCCTCTCATCAT
1 AATTATAAAAATACCCTCTAACCAT
*
14237666 ACTTATAAAAATAC
1 AATTATAAAAATAC
14237680 TTTCATATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (25 bp):
AATTATAAAAATACCCTCTAACCAT
Found at i:14238086 original size:27 final size:24
Alignment explanation
Indices: 14238018--14238088 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
14238008 AAATTATGTT
* *
14238018 AATACCCTCTAATTATAATTATGAA
1 AATA-CCTCTTATTATAATTACGAA
*
14238043 AATGCCTCTTATTATAATTACGAA
1 AATACCTCTTATTATAATTACGAA
14238067 AATACTCTCTTATATTATAATT
1 AATAC-CTC-T-TATTATAATT
14238089 GATTTAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 22 0.56
25 6 0.15
26 1 0.03
27 10 0.26
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.41
Consensus pattern (24 bp):
AATACCTCTTATTATAATTACGAA
Found at i:14239979 original size:15 final size:16
Alignment explanation
Indices: 14239959--14239994 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
14239949 CATAATTAAA
14239959 AATAAT-TATAAAATT
1 AATAATGTATAAAATT
14239974 AATAATGTATAAAATT
1 AATAATGTATAAAATT
*
14239990 CATAA
1 AATAA
14239995 AAAAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (16 bp):
AATAATGTATAAAATT
Found at i:14240332 original size:27 final size:27
Alignment explanation
Indices: 14240302--14240356 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
14240292 GTTATTATAT
*
14240302 TTATTAAAATAT-AAATATTATTTCTAA
1 TTATTAAAATATAAAATATGATTT-TAA
14240329 TTATTAAAATATAAAATATGATTTTAA
1 TTATTAAAATATAAAATATGATTTTAA
14240356 T
1 T
14240357 AAAATGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
TTATTAAAATATAAAATATGATTTTAA
Found at i:14241312 original size:16 final size:17
Alignment explanation
Indices: 14241281--14241318 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
14241271 GCTTTATAAA
14241281 ATTAATTTATATTTGAT
1 ATTAATTTATATTTGAT
*
14241298 TTTAATTTA-ATTTGAT
1 ATTAATTTATATTTGAT
14241314 ATTAA
1 ATTAA
14241319 AATATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
ATTAATTTATATTTGAT
Found at i:14252712 original size:20 final size:20
Alignment explanation
Indices: 14252687--14252732 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
14252677 AAAAATTAAT
14252687 ATTTATTAATAATATATAAA
1 ATTTATTAATAATATATAAA
* * *
14252707 ATTTATTTATAATGTATAGA
1 ATTTATTAATAATATATAAA
14252727 ATTTAT
1 ATTTAT
14252733 ATATTGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
ATTTATTAATAATATATAAA
Found at i:14267123 original size:2 final size:2
Alignment explanation
Indices: 14267116--14267141 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14267106 CTTTTCATCA
14267116 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14267142 TTTTTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14278165 original size:21 final size:20
Alignment explanation
Indices: 14278131--14278169 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14278121 GGGCCTCACT
*
14278131 CCCTTTCTCCTCTTACTCTTA
1 CCCTTACTCCTCTT-CTCTTA
*
14278152 CCCTTACTCTTCTTCTCT
1 CCCTTACTCCTCTTCTCT
14278170 CAACCTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.49
Consensus pattern (20 bp):
CCCTTACTCCTCTTCTCTTA
Found at i:14283218 original size:39 final size:39
Alignment explanation
Indices: 14283159--14283236 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
14283149 ATGGCTAGTA
*
14283159 AATGACTGTTTTTCCATTTTGCCCCTCCATTCTGCTGTG
1 AATGACTGTTTTTCCATTTTGCCACTCCATTCTGCTGTG
* *
14283198 AATGATTGTTTTTCCTTTTTGCCACTCCATTCTGCTGTG
1 AATGACTGTTTTTCCATTTTGCCACTCCATTCTGCTGTG
14283237 GAGTATTAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (39 bp):
AATGACTGTTTTTCCATTTTGCCACTCCATTCTGCTGTG
Found at i:14284777 original size:22 final size:22
Alignment explanation
Indices: 14284752--14284795 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14284742 ATTTTTTGTC
*
14284752 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14284774 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14284796 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14303150 original size:27 final size:27
Alignment explanation
Indices: 14303112--14303169 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
14303102 GATGATAAAT
* *
14303112 ATGATGATGAGTTTGATGACTATGAAG
1 ATGATGATGAGTTTGACGACAATGAAG
*
14303139 ATGATGGTGAGTTTGACGACAATGAAG
1 ATGATGATGAGTTTGACGACAATGAAG
14303166 ATGA
1 ATGA
14303170 GGATAACAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.05, G:0.31, T:0.29
Consensus pattern (27 bp):
ATGATGATGAGTTTGACGACAATGAAG
Found at i:14305560 original size:17 final size:17
Alignment explanation
Indices: 14305531--14305588 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
14305521 CTTTTTAAAA
*
14305531 AAAAAGCCT-AAAAATT
1 AAAAATCCTAAAAAATT
14305547 AAAAATCCTAAAAAATT
1 AAAAATCCTAAAAAATT
*
14305564 AAAAATCCCAAAAAATT
1 AAAAATCCTAAAAAATT
14305581 ATAAAATC
1 A-AAAATC
14305589 TATTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.21
17 24 0.63
18 6 0.16
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAATCCTAAAAAATT
Found at i:14305819 original size:22 final size:22
Alignment explanation
Indices: 14305794--14305844 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
14305784 TATTTCTTGA
*
14305794 AATTTT-TGAAAAATCATATTTC
1 AATTTTATGAAAAAT-AAATTTC
*
14305816 AATTTTATTAAAAATAAATTTC
1 AATTTTATGAAAAATAAATTTC
*
14305838 AAGTTTA
1 AATTTTA
14305845 GAATTTTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (22 bp):
AATTTTATGAAAAATAAATTTC
Found at i:14306223 original size:52 final size:52
Alignment explanation
Indices: 14306162--14306262 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
14306152 TACTTATGCT
*
14306162 ATCAATTCAATGAGCACATCAATATTTTTAATTTTAACAGAGTTATTGAGCC
1 ATCAATTCAACGAGCACATCAATATTTTTAATTTTAACAGAGTTATTGAGCC
* **
14306214 ATCAATTCAACGAGCACATCAATATTTTTAATTTTGATGGAGTTATTGA
1 ATCAATTCAACGAGCACATCAATATTTTTAATTTTAACAGAGTTATTGA
14306263 TTAAATTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (52 bp):
ATCAATTCAACGAGCACATCAATATTTTTAATTTTAACAGAGTTATTGAGCC
Found at i:14315006 original size:19 final size:19
Alignment explanation
Indices: 14314975--14315016 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14314965 TAATAGCATC
14314975 AAAA-ATACCAATTGATAA
1 AAAATATACCAATTGATAA
* *
14314993 AAAATATACTAATTGCTAA
1 AAAATATACCAATTGATAA
14315012 AAAAT
1 AAAAT
14315017 GAATTTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.26
Consensus pattern (19 bp):
AAAATATACCAATTGATAA
Found at i:14315733 original size:25 final size:24
Alignment explanation
Indices: 14315694--14315747 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 24
14315684 GATAAAAAAT
14315694 TTAAGTATTTTCAAATCATAAACA
1 TTAAGTATTTTCAAATCATAAACA
14315718 TTAAGTGATTTTCAAATCATAAACA
1 TTAAGT-ATTTTCAAATCATAAACA
14315743 TTAAG
1 TTAAG
14315748 GTTAAGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (24 bp):
TTAAGTATTTTCAAATCATAAACA
Found at i:14317562 original size:18 final size:18
Alignment explanation
Indices: 14317525--14317562 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14317515 TCATCAAAAC
*
14317525 ATCAAATTTTCTTTTCAA
1 ATCAAATTTTCTTTTAAA
14317543 ATCAAATTTT-TTTCTAAA
1 ATCAAATTTTCTTT-TAAA
14317561 AT
1 AT
14317563 ATCATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (18 bp):
ATCAAATTTTCTTTTAAA
Found at i:14322134 original size:18 final size:18
Alignment explanation
Indices: 14322108--14322147 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14322098 CAGAGTATTC
*
14322108 AAAATACAACAATAATTT
1 AAAAAACAACAATAATTT
*
14322126 AAAAAACAATAATAATTT
1 AAAAAACAACAATAATTT
14322144 AAAA
1 AAAA
14322148 GCTATTCAAT
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:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAACAACAATAATTT
Found at i:14324643 original size:58 final size:58
Alignment explanation
Indices: 14324444--14324780 Score: 364
Period size: 58 Copynumber: 5.8 Consensus size: 58
14324434 TGCTTTTGTA
* * * *
14324444 CAAGAAAAATTGATACTTTTAACTTTTCC-CTAAAATATTTTTTTG-AAACTTTAATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAC-TT-ATTTT
* ** *
14324502 -GAGGAAAATTGATACTTTCAACTTTTCCAAAAAAAAAAAACCCTTTTTTAGAAAA-TTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCC---TCAAAAATA---TTTTTTAGAAAACTTATTTT
* * * *
14324564 CAAAGAAAATTGATACCTTCAACTTTTCCTCGAAAATATTTCTTAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
14324622 TAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTA--TT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* *
14324678 CAAGGAAAATTGATATTTTCAACTTTTCCTCAAAAATA-GTTTTAGAAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG--AAAACTTATTTT
* * *
14324737 CAAGGAAAATTGATACTTTCAATTTTTCCTCAAGAATTTTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
14324781 TTGAATTTTA
Statistics
Matches: 234, Mismatches: 30, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
55 6 0.03
56 37 0.16
57 44 0.19
58 55 0.24
59 36 0.15
60 9 0.04
61 5 0.02
62 5 0.02
63 27 0.12
64 7 0.03
65 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:14324754 original size:115 final size:114
Alignment explanation
Indices: 14324449--14324780 Score: 334
Period size: 115 Copynumber: 2.9 Consensus size: 114
14324439 TTGTACAAGA
* * * * * * *
14324449 AAAATTGATACTTTTAACTTTTCC-CTAAAATATTTTTTTG-AAACTTTAATTTT-GAGGAAAAT
1 AAAATTGATACCTTCAACTTTTCCTCAAAAATAGTTCTTAGAAAAC-TT-ATTTTCAAGGAAAAT
* ** *
14324511 TGATACTTTCAACTTTTCCAAAAAAAAAAAACCCTTTTTTAGAAAATTATTTTCAAAG
64 TGATACTTTCAATTTTTCC---TCAAAAATA---TTTTTTAGAAAATTA-TTTCAAAG
* * *
14324569 AAAATTGATACCTTCAACTTTTCCTCGAAAATATTTCTTAGAAAACTTATTTTTAAGGAAAATTG
1 AAAATTGATACCTTCAACTTTTCCTCAAAAATAGTTCTTAGAAAACTTATTTTCAAGGAAAATTG
*
14324634 ATACTTTCAACTTTTT-CTCAAAAATATTTTTTAGAAAACTTA-TTCAAGG
66 ATACTTTCAA-TTTTTCCTCAAAAATATTTTTTAGAAAA-TTATTTCAAAG
**
14324683 AAAATTGATATTTTCAACTTTTCCTCAAAAATAGTT-TTAGAAAAAACTTATTTTCAAGGAAAAT
1 AAAATTGATACCTTCAACTTTTCCTCAAAAATAGTTCTTAG--AAAACTTATTTTCAAGGAAAAT
* *
14324747 TGATACTTTCAATTTTTCCTCAAGAATTTTTTTT
64 TGATACTTTCAATTTTTCCTCAAAAATATTTTTT
14324781 TTGAATTTTA
Statistics
Matches: 186, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
113 4 0.02
114 43 0.23
115 59 0.32
116 3 0.02
118 6 0.03
120 27 0.15
121 36 0.19
122 8 0.04
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (114 bp):
AAAATTGATACCTTCAACTTTTCCTCAAAAATAGTTCTTAGAAAACTTATTTTCAAGGAAAATTG
ATACTTTCAATTTTTCCTCAAAAATATTTTTTAGAAAATTATTTCAAAG
Found at i:14324805 original size:5 final size:5
Alignment explanation
Indices: 14324797--14324841 Score: 67
Period size: 5 Copynumber: 9.4 Consensus size: 5
14324787 TTTATTTAAG
*
14324797 AAAAT AAAAT AAAAT --AGT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
14324842 GAAATACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
5 34 0.94
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:14324877 original size:3 final size:3
Alignment explanation
Indices: 14324864--14324897 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
14324854 AATTCTAATC
14324864 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14324898 ATAAGAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:14324896 original size:18 final size:18
Alignment explanation
Indices: 14324799--14324897 Score: 61
Period size: 18 Copynumber: 5.8 Consensus size: 18
14324789 TATTTAAGAA
*
14324799 AATAA-AATAA-AATAGT
1 AATAATAATAATAATAAT
14324815 AA-AATAA-AATAA-AAT
1 AATAATAATAATAATAAT
*
14324830 AA-AATAA-AATAAGAAAT
1 AATAATAATAATAA-TAAT
* ** *
14324847 ACTAAATAATTCTAAT-CT
1 AAT-AATAATAATAATAAT
14324865 AATAAATAATAATAATAAT
1 AAT-AATAATAATAATAAT
14324884 AATAATAATAATAA
1 AATAATAATAATAA
14324898 ATAAGAAAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
15 18 0.28
16 6 0.09
17 4 0.06
18 25 0.38
19 9 0.14
20 3 0.05
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (18 bp):
AATAATAATAATAATAAT
Found at i:14325754 original size:24 final size:23
Alignment explanation
Indices: 14325718--14325867 Score: 137
Period size: 24 Copynumber: 6.3 Consensus size: 23
14325708 GAAAAGATAA
14325718 AAATAA-AATATATATTAATAGAT
1 AAATAATAA-ATATATTAATAGAT
*
14325741 AAATAAT-AATATATGAATAGAT
1 AAATAATAAATATATTAATAGAT
14325763 AAATAATAAAAATATATATTAATAGAT
1 AAATAAT---AA-ATATATTAATAGAT
*
14325790 AAATAATAAAATATGTTAATAGAT
1 AAATAAT-AAATATATTAATAGAT
* *
14325814 AAATAATAAAAAATATATATTA-AT
1 AAATAAT-AAATATAT-TAATAGAT
* *
14325838 AAATAA-AAATAGTAATAATAAAT
1 AAATAATAAATA-TATTAATAGAT
14325861 AAATAAT
1 AAATAAT
14325868 TAAAAATTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
22 28 0.26
23 17 0.16
24 35 0.32
25 7 0.06
26 1 0.01
27 20 0.19
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATAATAAATATATTAATAGAT
Found at i:14325787 original size:27 final size:27
Alignment explanation
Indices: 14325734--14325848 Score: 139
Period size: 27 Copynumber: 4.3 Consensus size: 27
14325724 AATATATATT
*
14325734 AATAGATAAATAATAATATATGAATAGATA
1 AATA-ATAAA-AAT-ATATATTAATAGATA
14325764 AATAATAAAAATATATATTAATAGATA
1 AATAATAAAAATATATATTAATAGATA
*
14325791 AATAAT--AAA-ATATGTTAATAGATA
1 AATAATAAAAATATATATTAATAGATA
*
14325815 AATAATAAAAAATATATATTAATAAATA
1 AATAAT-AAAAATATATATTAATAGATA
14325843 AA-AATA
1 AATAATA
14325849 GTAATAATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
24 20 0.26
25 3 0.04
26 1 0.01
27 26 0.34
28 18 0.23
29 5 0.06
30 4 0.05
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.31
Consensus pattern (27 bp):
AATAATAAAAATATATATTAATAGATA
Found at i:14325811 original size:51 final size:49
Alignment explanation
Indices: 14325712--14325874 Score: 210
Period size: 49 Copynumber: 3.3 Consensus size: 49
14325702 CCAACCGAAA
*
14325712 AGATAAA-AAT-AAAATATATATTAATAGATAAATAATAATATATGAAT
1 AGATAAATAATAAAAATATATATTAATAGATAAATAATAAAATATGAAT
14325759 AGATAAATAATAAAAATATATATTAATAGATAAATAATAAAATATGTTAAT
1 AGATAAATAATAAAAATATATATTAATAGATAAATAATAAAATATG--AAT
* **
14325810 AGATAAATAATAAAAAATATATATTAATAAATAAA-AATAGTA-AT-AAT
1 AGATAAATAAT-AAAAATATATATTAATAGATAAATAATAAAATATGAAT
*
14325857 AAATAAATAATTAAAAAT
1 AGATAAATAA-TAAAAAT
14325875 TTTAAAAAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
47 25 0.24
48 4 0.04
49 33 0.31
50 2 0.02
51 19 0.18
52 22 0.21
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (49 bp):
AGATAAATAATAAAAATATATATTAATAGATAAATAATAAAATATGAAT
Found at i:14325856 original size:19 final size:18
Alignment explanation
Indices: 14325815--14325863 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
14325805 TTAATAGATA
*
14325815 AATAATAAA-AAATATAT
1 AATAATAAATAAAAATAT
*
14325832 ATTAATAAATAAAAATAGT
1 AATAATAAATAAAAATA-T
14325851 AATAATAAATAAA
1 AATAATAAATAAA
14325864 TAATTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 8 0.30
18 6 0.22
19 13 0.48
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AATAATAAATAAAAATAT
Found at i:14325885 original size:43 final size:47
Alignment explanation
Indices: 14325722--14325891 Score: 138
Period size: 51 Copynumber: 3.6 Consensus size: 47
14325712 AGATAAAAAT
* * * *
14325722 AAAATATATATTAATAGATAAATAATAATATATGAATAGATAAATAAT-A
1 AAAATATATATTAAAAAATAAA-AATAGTA-AT-AATAAATAAATAATAA
*
14325771 AAAATATATATTAATAGATAAATAATAAAATATGT--TAATAGATAAATAATAA
1 AAAATATATATT-A-A-A-AAAT-A-AAAATA-GTAATAATAAATAAATAATAA
* *
14325823 AAAATATATATTAATAAATAAAAATAGTAATAATAAATAAATAAT-T
1 AAAATATATATTAAAAAATAAAAATAGTAATAATAAATAAATAATAA
14325869 AAAA-AT-T-TTAAAAAATAAAAATA
1 AAAATATATATTAAAAAATAAAAATA
14325892 CAAATGCAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
43 15 0.14
44 1 0.01
45 4 0.04
46 10 0.10
47 15 0.14
48 4 0.04
49 12 0.12
50 2 0.02
51 16 0.15
52 14 0.13
53 3 0.03
54 5 0.05
55 3 0.03
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (47 bp):
AAAATATATATTAAAAAATAAAAATAGTAATAATAAATAAATAATAA
Found at i:14326076 original size:18 final size:17
Alignment explanation
Indices: 14326049--14326095 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
14326039 CACTCAACAT
14326049 TTTTTCTTTTTTTTCAC
1 TTTTTCTTTTTTTTCAC
14326066 TTTTTCTTTTTTTTCAC
1 TTTTTCTTTTTTTTCAC
14326083 TTTTT-TTTTTTTT
1 TTTTTCTTTTTTTT
14326096 TGTGTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTTTTTTCAC
Found at i:14326221 original size:41 final size:41
Alignment explanation
Indices: 14326117--14326551 Score: 485
Period size: 41 Copynumber: 10.4 Consensus size: 41
14326107 TTTGATCAAA
* * * **
14326117 GCTCCTCTAAGCAGAGGCTTAATGACTTTGAGAAACATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTG-GAAA-AT-AA-ATG
*
14326162 GCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATG
* * * * *
14326203 GTTCCTCTAATCAAAGGCTTAACGACTGTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATG
14326244 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATG
* * *
14326285 GCTCCTCTATTTAGAGGCTCAACGACTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATG
* * * ** *
14326326 GCTCCTCTAATAAAAGGCTTAACGACTTTTAAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAA-TAAATG
* * * * *
14326368 GCTCCTCTAATCAAAGGCTCAACGAGTTTTAGAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACGA-CTTTGGAAAATAAATG
* * * *
14326410 TCTCCTCTAATCAG-GACTCAACAACTTTGGAAAATAAATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATG
* *
14326450 GCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAATTAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATG
* **
14326491 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAT-AA-ATG
14326534 GCTCCTCTAATCAGAGGC
1 GCTCCTCTAATCAGAGGC
14326552 ATCACAACTT
Statistics
Matches: 337, Mismatches: 48, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
40 26 0.08
41 203 0.60
42 49 0.15
43 27 0.08
44 4 0.01
45 28 0.08
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATG
Found at i:14326571 original size:206 final size:205
Alignment explanation
Indices: 14326162--14326562 Score: 536
Period size: 206 Copynumber: 1.9 Consensus size: 205
14326152 CATAAACAAA
* * * * *
14326162 GCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAATAAATGGTTCCTCTAATCAAAGGCTTAACG
1 GCTCCTCTAATCAAAGGCTCAACGACTTTAGAAAATAAATGGTTCCTCTAATC-AAGGCTCAACA
14326227 ACTGTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTC
65 ACTGTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTC
* * ** * *
14326292 TATTTAGAGGCTCAACGACTTTGAAAAATAAATGGCTCCTCTAATAAAAGGCTTAACGACTTTTA
130 TAATCAGAGGCTCAACGACTTTGAAAAATAAAAAGCTCCTCTAATAAAAGGCATAACAACTTTTA
14326357 AAAAGTAAATT
195 AAAAGTAAATT
* * *
14326368 GCTCCTCTAATCAAAGGCTCAACGAGTTTTAGAAAGTAAAT-TTCTCCTCTAATC-AGGACTCAA
1 GCTCCTCTAATCAAAGGCTCAACGA-CTTTAGAAAATAAATGGT-TCCTCTAATCAAGG-CTCAA
* * * * *
14326431 CAACTTTGGAAAATAAATTGCTCCTCTAATCAGAGGCTCAATGACTTTGGAAAATTAATGGCTCC
63 CAACTGTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATGGCTCC
* * *
14326496 TCTAATCAGAGGCTCAACGACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCATCACAACT
128 TCTAATCAGAGGCTCAACGACTTTGAAAAAT-AA-AAAGCTCCTCTAATAAAAGGCATAACAACT
14326561 TT
191 TT
14326563 GAAAGTAAAC
Statistics
Matches: 168, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
205 3 0.02
206 116 0.69
207 24 0.14
208 25 0.15
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (205 bp):
GCTCCTCTAATCAAAGGCTCAACGACTTTAGAAAATAAATGGTTCCTCTAATCAAGGCTCAACAA
CTGTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATGGCTCCTCT
AATCAGAGGCTCAACGACTTTGAAAAATAAAAAGCTCCTCTAATAAAAGGCATAACAACTTTTAA
AAAGTAAATT
Found at i:14328563 original size:47 final size:47
Alignment explanation
Indices: 14328490--14328585 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
14328480 CTAAAACATG
*
14328490 TAAAACAAATGGTGGAGCATATATCTTATTAGCATATATCTGGCATT
1 TAAAACAAATGGTGGAGCATAGATCTTATTAGCATATATCTGGCATT
14328537 TAAAACAAATGGTGGAGCATAGATCTTATTAGCATATATCTGGCATT
1 TAAAACAAATGGTGGAGCATAGATCTTATTAGCATATATCTGGCATT
14328584 TA
1 TA
14328586 TGGCATTTAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (47 bp):
TAAAACAAATGGTGGAGCATAGATCTTATTAGCATATATCTGGCATT
Found at i:14333022 original size:70 final size:70
Alignment explanation
Indices: 14332909--14333048 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
14332899 GCTTATAAGT
14332909 TTTGATAGGGTGACAAACTGTCCCATTATGATATTTACAACTAGTGCCTATTATATACATTCTAT
1 TTTGATAGGGTGACAAACTGTCCCATTATGATATTTACAACTAGTGCCTATTATATACATTCTAT
14332974 GATAG
66 GATAG
14332979 TTTGATAGGGTGACAAACTGTCCCATTATGATATTTACAACTAGTGCCTATTATATACATTCTAT
1 TTTGATAGGGTGACAAACTGTCCCATTATGATATTTACAACTAGTGCCTATTATATACATTCTAT
14333044 GATAG
66 GATAG
14333049 CTGTGCGGAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (70 bp):
TTTGATAGGGTGACAAACTGTCCCATTATGATATTTACAACTAGTGCCTATTATATACATTCTAT
GATAG
Found at i:14338267 original size:58 final size:58
Alignment explanation
Indices: 14338149--14338361 Score: 277
Period size: 58 Copynumber: 3.7 Consensus size: 58
14338139 TTGTATAAGA
* * * ** * *
14338149 AAAATTGATGCTTTCAACTTTT--TCCAAAATATTTTTTTGAAATTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTATTTTCAAGG
* *
14338205 AAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTTCAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTATTTTCAAGG
**
14338263 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAGAAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TTAAAAACTTATTTTCAAGG
* * *
14338322 AAAATTGATACATTCAATTTTTTCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
14338362 TTGAAATTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
56 20 0.15
58 65 0.47
59 52 0.38
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTATTTTCAAGG
Found at i:14338318 original size:59 final size:56
Alignment explanation
Indices: 14338149--14338359 Score: 253
Period size: 59 Copynumber: 3.7 Consensus size: 56
14338139 TTGTATAAGA
* * * ** * *
14338149 AAAATTGATGCTTTCAACTTTTTC-CAAAATATTTTTTTGAAATTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTGAAAACTTATTTTCAAGG
* *
14338205 AAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTTCAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTGAAAACTTATTTTCAAGG
14338263 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAGAAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-G--AAAACTTATTTTCAAGG
* * *
14338322 AAAATTGATACATTCAATTTTTTCTCAAAAATATTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
14338360 TTTTGAAATT
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
56 28 0.21
57 5 0.04
58 50 0.37
59 52 0.39
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTGAAAACTTATTTTCAAGG
Found at i:14338440 original size:3 final size:3
Alignment explanation
Indices: 14338432--14338487 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
14338422 CTAATCAATA
*
14338432 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAGA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
14338477 AAT AAT AAT AA
1 AAT AAT AAT AA
14338488 ATAAGAAAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.92
4 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:14339383 original size:22 final size:22
Alignment explanation
Indices: 14339340--14339397 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
14339330 AAAGATAAAA
* *
14339340 ATAAAAAATATATATATTAATAG
1 ATAAATAATA-ATATATGAATAG
14339363 ATAAATAATAATATATGAATAG
1 ATAAATAATAATATATGAATAG
*
14339385 ATAAATGATAATA
1 ATAAATAATAATA
14339398 AAATATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 23 0.72
23 9 0.28
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
ATAAATAATAATATATGAATAG
Found at i:14339414 original size:21 final size:21
Alignment explanation
Indices: 14339388--14339443 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 21
14339378 TGAATAGATA
14339388 AATGATAATAAAATATATATT
1 AATGATAATAAAATATATATT
14339409 AATGATAAATAATAAATATATATT
1 AATGAT-AAT-A-AAATATATATT
14339433 AAT-A-AATAAAA
1 AATGATAATAAAA
14339444 ATAGTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 3 0.09
20 1 0.03
21 9 0.28
22 3 0.09
23 2 0.06
24 14 0.44
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (21 bp):
AATGATAATAAAATATATATT
Found at i:14339431 original size:53 final size:51
Alignment explanation
Indices: 14339332--14339429 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
14339322 CCAACCGAAA
14339332 AGATAAAAATAAAAAATATATATATTAATAGATAAATAATAATATATGAAT
1 AGATAAAAATAAAAAATATATATATTAATAGATAAATAATAATATATGAAT
* *
14339383 AGATAAATGATAATAAA-ATATATATTAAT-GATAAATAATAAATATAT
1 AGATAAA-AATAAAAAATATATATATTAATAGATAAATAAT-AATATAT
14339430 ATTAATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 10 0.23
51 26 0.60
52 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (51 bp):
AGATAAAAATAAAAAATATATATATTAATAGATAAATAATAATATATGAAT
Found at i:14343748 original size:20 final size:19
Alignment explanation
Indices: 14343724--14343768 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
14343714 AATTAATTTA
*
14343724 AAATAATAATTTATATTACT
1 AAATAAAAATTTAT-TTACT
*
14343744 TAATAAAAAATTTATTTACT
1 AAAT-AAAAATTTATTTACT
14343764 AAATA
1 AAATA
14343769 TATATGTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 11 0.52
21 9 0.43
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATAAAAATTTATTTACT
Found at i:14347118 original size:2 final size:2
Alignment explanation
Indices: 14347106--14347136 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14347096 ACCCTTGTTT
*
14347106 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14347137 CATGATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14349322 original size:2 final size:2
Alignment explanation
Indices: 14349315--14349351 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14349305 CCCCTTATCT
14349315 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14349352 ATGAAAACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14350486 original size:42 final size:42
Alignment explanation
Indices: 14350435--14350554 Score: 108
Period size: 42 Copynumber: 2.9 Consensus size: 42
14350425 ATATACTTTC
*
14350435 ATTATTTATTTAAT-TTTATATTTATATATATT-ATATTAATAAA
1 ATTATTTATTTAATATTTA-ATTTA-AAATATTAAT-TTAATAAA
14350478 ATTA-TTATTTAATACTTTAATTTAAAATATTAATTTAATAAA
1 ATTATTTATTTAATA-TTTAATTTAAAATATTAATTTAATAAA
* * * *
14350520 AATACTATATTT-ATATATAA-TTAAGATA-TAATTTA
1 ATTA-TTTATTTAATATTTAATTTAAAATATTAATTTA
14350555 TATTAAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
40 7 0.10
41 7 0.10
42 30 0.45
43 14 0.21
44 9 0.13
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.52
Consensus pattern (42 bp):
ATTATTTATTTAATATTTAATTTAAAATATTAATTTAATAAA
Found at i:14351392 original size:14 final size:14
Alignment explanation
Indices: 14351355--14351392 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
14351345 TATAAAAATT
*
14351355 TATATTTTATTATA
1 TATATTATATTATA
14351369 TAT-TTA-ATTATA
1 TATATTATATTATA
14351381 TATATTATATTA
1 TATATTATATTA
14351393 ATAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 9 0.43
13 5 0.24
14 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATTATATTATA
Found at i:14351494 original size:16 final size:15
Alignment explanation
Indices: 14351475--14351547 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
14351465 TTATAAACTT
14351475 TTTTTCTTATTTTTAA
1 TTTTT-TTATTTTTAA
* *
14351491 TTTTTTAATTTTT-C
1 TTTTTTTATTTTTAA
*
14351505 TTTTTTTCTTTTTTCAA
1 TTTTTTT-ATTTTT-AA
* *
14351522 ATTTTTTATTTTTGA
1 TTTTTTTATTTTTAA
14351537 TCTTTTTTATT
1 T-TTTTTTATT
14351548 AGATAAATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
14 6 0.14
15 13 0.30
16 19 0.43
17 6 0.14
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTTTTTATTTTTAA
Found at i:14351502 original size:24 final size:24
Alignment explanation
Indices: 14351475--14351543 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 24
14351465 TTATAAACTT
14351475 TTTTTCTTATTTTTAATTTTTT-AA
1 TTTTTCTTATTTTT-ATTTTTTCAA
*
14351499 TTTTTCTT-TTTTTCTTTTTTCAA
1 TTTTTCTTATTTTTATTTTTTCAA
*
14351522 ATTTT-TTATTTTTGATCTTTTT
1 TTTTTCTTATTTTT-AT-TTTTT
14351544 TATTAGATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 8 0.21
23 16 0.42
24 9 0.24
25 5 0.13
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.77
Consensus pattern (24 bp):
TTTTTCTTATTTTTATTTTTTCAA
Found at i:14351513 original size:32 final size:33
Alignment explanation
Indices: 14351472--14351544 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
14351462 CCTTTATAAA
*
14351472 CTTTTTTTCTTATTTT-TAATTTTTTAATTTT-T
1 CTTTTTTTCTT-TTTTCAAATTTTTTAATTTTAT
*
14351504 CTTTTTTTCTTTTTTCAAATTTTTTATTTTTGAT
1 CTTTTTTTCTTTTTTCAAATTTTTTAATTTT-AT
14351538 CTTTTTT
1 CTTTTTT
14351545 ATTAGATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 4 0.11
32 24 0.67
34 8 0.22
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (33 bp):
CTTTTTTTCTTTTTTCAAATTTTTTAATTTTAT
Found at i:14354849 original size:20 final size:21
Alignment explanation
Indices: 14354815--14354855 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
14354805 ATATATATTT
*
14354815 ATATATTTATTTTAAAAAATA
1 ATATATTTATATTAAAAAATA
14354836 ATAT-TTTATATTAAAAAATA
1 ATATATTTATATTAAAAAATA
14354856 TTTTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATATTTATATTAAAAAATA
Found at i:14358006 original size:2 final size:2
Alignment explanation
Indices: 14357999--14358034 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14357989 TGTAAAAAGA
14357999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14358035 GGAGGGAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14359728 original size:26 final size:27
Alignment explanation
Indices: 14359669--14359741 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
14359659 GAAAAATAAT
***
14359669 ATAAAAATAAAAATAAAATCAAATGGG
1 ATAAAAATAAAAATAAAATCAAATCAA
*
14359696 TTAAAAAT-AAAATAAAATCAAATCAA
1 ATAAAAATAAAAATAAAATCAAATCAA
14359722 ATCAAAAAATAAAAATAAAA
1 AT--AAAAATAAAAATAAAA
14359742 ATAAAATGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 16 0.42
27 7 0.18
28 6 0.16
29 9 0.24
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.19
Consensus pattern (27 bp):
ATAAAAATAAAAATAAAATCAAATCAA
Found at i:14360150 original size:19 final size:19
Alignment explanation
Indices: 14360113--14360150 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14360103 TTAAAAATTC
*
14360113 CCCAAAAACCTAACCCTAA
1 CCCAAAAACCTAAACCTAA
*
14360132 CCCAAAAACCTAAATCTAA
1 CCCAAAAACCTAAACCTAA
14360151 ACTCATAAAC
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:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (19 bp):
CCCAAAAACCTAAACCTAA
Found at i:14360566 original size:3 final size:3
Alignment explanation
Indices: 14360560--14360600 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14360550 GATGATAACT
14360560 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14360601 GTAACACCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14361020 original size:73 final size:73
Alignment explanation
Indices: 14360896--14361052 Score: 201
Period size: 73 Copynumber: 2.2 Consensus size: 73
14360886 ATAAAGTGAT
*
14360896 CAAGATCGAGTCGATGTCAAAAATAAATGACCAACATGAAACCACGAGTCATAAGAAATGATTTG
1 CAAGATCAAGTCGATGTCAAAAATAAATGACCAACATGAAACCACGAGTCATAAGAAATGATTTG
14360961 AATTAAGC
66 AATTAAGC
* * ** *
14360969 CAAGATCAAGTCGA-GATCGAAAATAAATGATCATGATGAAACCAC-AGGTCATAAGAAATTATT
1 CAAGATCAAGTCGATG-TCAAAAATAAATGACCAACATGAAACCACGA-GTCATAAGAAATGATT
* *
14361032 TGGATTGAGC
64 TGAATTAAGC
*
14361042 CAAGATTAAGT
1 CAAGATCAAGT
14361053 GATCGGGATG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
72 2 0.03
73 71 0.97
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (73 bp):
CAAGATCAAGTCGATGTCAAAAATAAATGACCAACATGAAACCACGAGTCATAAGAAATGATTTG
AATTAAGC
Found at i:14361193 original size:119 final size:118
Alignment explanation
Indices: 14360968--14361640 Score: 648
Period size: 119 Copynumber: 5.7 Consensus size: 118
14360958 TTGAATTAAG
* * * *
14360968 CCAAGATCAAGTCGAGATCGAAAATAAATGATC-ATGATGAAACCAC-AGGTCATAAGAAATTAT
1 CCAAGATCGAGTCGAGGTCAAAAATAAATGATCGA-GATGAAACCACGA-GTCATAAGAAATGAT
* * *
14361031 TTGGATTGAGCCAAGATTAAGTGA-TCGGGATGAAATCACGAGTCAAAATGGAGCGA
64 TTGGACTGAGCCAAGATCAA-TGACT-GGGATGAAATCACGAGTCAAAATGAAGCGA
* * * * * * * * *
14361087 CCAACACCGAGTCTAGATCGAAAATAAATGATTGAGATGAAACCATGGGTCATAAGAAATGATAT
1 CCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCACGAGTCATAAGAAATGATTT
* * *
14361152 GGACTGAGCCAAAATCACATGACTGGGATGAAACCACGAGTCAAAATGAAGTG-
66 GGACTGAGCCAAGATCA-ATGACTGGGATGAAATCACGAGTCAAAATGAAGCGA
* ** * *
14361205 CCAAGATCAAGTCGAGGTTGAAAATTAATGATCGAAATGAAACCACGAGTCATAAGAAATGATTT
1 CCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCACGAGTCATAAGAAATGATTT
* * * * * *
14361270 GG-CTTGAGCTAAGATC-GTGTAACCGGGATGAAATCACGAGTTAAAATGAAACAA
66 GGAC-TGAGCCAAGATCAATG--ACTGGGATGAAATCACGAGTCAAAATGAAGCGA
* * **
14361324 CCAAGATCGAGTC-ATGGTTAAAAATAAATGATCGAAACAAAACCACGAGTCATAAGAAATGATT
1 CCAAGATCGAGTCGA-GGTCAAAAATAAATGATCGAGATGAAACCACGAGTCATAAGAAATGATT
* * * * *
14361388 TGGATTGAGCCAAGATCACATGACCGAGATGAAATCA-TAGTCAAAA-GAAGCAA
65 TGGACTGAGCCAAGATCA-ATGACTGGGATGAAATCACGAGTCAAAATGAAGCGA
* * * * *
14361441 CCAAGATCGAGTCAAGGTAAAAAATAAATGATCGAGATGAAACCATGAGTCATAAAAAATGATCT
1 CCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCACGAGTCATAAGAAATGATTT
* * * **
14361506 GGACTGAACCAAGATCAAGTGACTGGGACGAAATCAC-AGGTCAAAATAAAATGA
66 GGACTGAGCCAAGATCAA-TGACTGGGATGAAATCACGA-GTCAAAATGAAGCGA
* * * * *
14361560 CCAAGACCAAGTCGAGGTCAAAAATAGATGATC-AGGATGAAACCATGAGTCATAAAAAATGATT
1 CCAAGATCGAGTCGAGGTCAAAAATAAATGATCGA-GATGAAACCACGAGTCATAAGAAATGATT
* *
14361624 TGGATTGAGCTAAGATC
65 TGGACTGAGCCAAGATC
14361641 GAGCGATCGA
Statistics
Matches: 463, Mismatches: 73, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
116 3 0.01
117 93 0.20
118 108 0.23
119 254 0.55
120 3 0.01
121 2 0.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (118 bp):
CCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCACGAGTCATAAGAAATGATTT
GGACTGAGCCAAGATCAATGACTGGGATGAAATCACGAGTCAAAATGAAGCGA
Found at i:14361565 original size:236 final size:236
Alignment explanation
Indices: 14360968--14361640 Score: 707
Period size: 237 Copynumber: 2.8 Consensus size: 236
14360958 TTGAATTAAG
* * ** * *
14360968 CCAAGATCAAGTCGAGATCGAAAATAAATGATC-ATGATGAAACCACAGGTCATAAGAAATTATT
1 CCAAGATCAAGTCAAGGTAAAAAATAAATGATCGA-GATGAAACCAGA-GTCATAAGAAATGATT
* * * * *
14361032 TGGATTGAGCCAAGATTAAGTGA-TCGGGATGAAATCACGAGTCAAAATGGAGCGACCAACACCG
64 TGGACTGAGCCAAGATCAAGTGACT-GGGATGAAATCACGAGTCAAAATGAAACGACCAAGACCG
* * * * * *
14361096 AGTC-TAGATCGAAAATAAATGATTGAGATGAAACCATGGGTCATAAGAAATGATATGGACTGAG
128 AGTCAT-GGTCAAAAATAAATGATCGAGATGAAACCATGAGTCATAAGAAATGATTTGGATTGAG
* * * **
14361160 CCAAAATCACATGACTGGGATGAAACCACGAGTCAAAATGAAGTG
192 CCAAGATCACATGACCGAGATGAAACCACGAGTCAAAATGAAGAA
* ** * *
14361205 CCAAGATCAAGTCGAGGTTGAAAATTAATGATCGAAATGAAACCACGAGTCATAAGAAATGATTT
1 CCAAGATCAAGTCAAGGTAAAAAATAAATGATCGAGATGAAACCA-GAGTCATAAGAAATGATTT
* ** * * * * *
14361270 GG-CTTGAGCTAAGATCGTGTAACCGGGATGAAATCACGAGTTAAAATGAAACAACCAAGATCGA
65 GGAC-TGAGCCAAGATCAAGTGACTGGGATGAAATCACGAGTCAAAATGAAACGACCAAGACCGA
* * ** *
14361334 GTCATGGTTAAAAATAAATGATCGAAACAAAACCACGAGTCATAAGAAATGATTTGGATTGAGCC
129 GTCATGGTCAAAAATAAATGATCGAGATGAAACCATGAGTCATAAGAAATGATTTGGATTGAGCC
* *
14361399 AAGATCACATGACCGAGATGAAATCA-TAGTCAAAA-GAAGCAA
194 AAGATCACATGACCGAGATGAAACCACGAGTCAAAATGAAG-AA
* * *
14361441 CCAAGATCGAGTCAAGGTAAAAAATAAATGATCGAGATGAAACCATGAGTCATAAAAAATGATCT
1 CCAAGATCAAGTCAAGGTAAAAAATAAATGATCGAGATGAAACCA-GAGTCATAAGAAATGATTT
* * * * *
14361506 GGACTGAACCAAGATCAAGTGACTGGGACGAAATCAC-AGGTCAAAATAAAATGACCAAGACCAA
65 GGACTGAGCCAAGATCAAGTGACTGGGATGAAATCACGA-GTCAAAATGAAACGACCAAGACCGA
* *
14361570 GTCGA-GGTCAAAAATAGATGATC-AGGATGAAACCATGAGTCATAAAAAATGATTTGGATTGAG
129 GTC-ATGGTCAAAAATAAATGATCGA-GATGAAACCATGAGTCATAAGAAATGATTTGGATTGAG
*
14361633 CTAAGATC
192 CCAAGATC
14361641 GAGCGATCGA
Statistics
Matches: 359, Mismatches: 67, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
235 6 0.02
236 170 0.47
237 180 0.50
238 3 0.01
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (236 bp):
CCAAGATCAAGTCAAGGTAAAAAATAAATGATCGAGATGAAACCAGAGTCATAAGAAATGATTTG
GACTGAGCCAAGATCAAGTGACTGGGATGAAATCACGAGTCAAAATGAAACGACCAAGACCGAGT
CATGGTCAAAAATAAATGATCGAGATGAAACCATGAGTCATAAGAAATGATTTGGATTGAGCCAA
GATCACATGACCGAGATGAAACCACGAGTCAAAATGAAGAA
Found at i:14361948 original size:86 final size:84
Alignment explanation
Indices: 14361794--14361954 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 84
14361784 GATTCAAGAT
* *
14361794 TTGCAAAGGTTTTCAAATTTTCAAGAACAGAAAAATCACAAGATTTCAAATTTCGCAAAGATCCT
1 TTGCAAAGGTTTTCAAATTCTCAAGAACAGAAAAATCACAAGACTTCAAATTTCGCAAAGATCCT
14361859 AGATTCGCAAAAATACAAG
66 AGATTCGCAAAAATACAAG
* * * * *
14361878 TTGCACAAGGATTTTCATAA-TCTCAAGAA-AGAAAGATTCGCAAGACTTCAAGTTTCGTAAAGG
1 TTGCA-AAGG-TTTTCA-AATTCTCAAGAACAGAAA-AATCACAAGACTTCAAATTTCGCAAAGA
*
14361941 TTCTAGATTCGCAA
62 TCCTAGATTCGCAA
14361955 GGATTCTAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
84 5 0.08
85 9 0.14
86 49 0.75
87 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (84 bp):
TTGCAAAGGTTTTCAAATTCTCAAGAACAGAAAAATCACAAGACTTCAAATTTCGCAAAGATCCT
AGATTCGCAAAAATACAAG
Found at i:14361961 original size:17 final size:16
Alignment explanation
Indices: 14361937--14361971 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
14361927 AAGTTTCGTA
14361937 AAGGTTCTAGATTCGC
1 AAGGTTCTAGATTCGC
*
14361953 AAGGATTCTAGGTTCGC
1 AAGG-TTCTAGATTCGC
14361970 AA
1 AA
14361972 TGACTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (16 bp):
AAGGTTCTAGATTCGC
Found at i:14363022 original size:11 final size:11
Alignment explanation
Indices: 14363006--14363050 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
14362996 TTGTCTTTTT
14363006 TTTTTTTTTGC
1 TTTTTTTTTGC
14363017 TTTTTTTTTGC
1 TTTTTTTTTGC
14363028 --TTTTTTT-C
1 TTTTTTTTTGC
*
14363036 TTTTTTTTTTC
1 TTTTTTTTTGC
14363047 TTTT
1 TTTT
14363051 ACATTTGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 1 0.03
9 7 0.23
10 7 0.23
11 16 0.52
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTGC
Found at i:14363023 original size:19 final size:18
Alignment explanation
Indices: 14363001--14363050 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
14362991 CTCCTTTGTC
*
14363001 TTTTTTTTTTTTTTGCTT
1 TTTTTTTTTTTTTTTCTT
*
14363019 TTTTTTTGCTTTTTTTCTT
1 TTTTTTT-TTTTTTTTCTT
14363038 TTTTTTTTCTTTT
1 TTTTTTTT-TTTT
14363051 ACATTTGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCTT
Found at i:14363286 original size:17 final size:17
Alignment explanation
Indices: 14363266--14363306 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
14363256 AACCCATTAA
14363266 TTTTTTTTT-CTTCTTC
1 TTTTTTTTTGCTTCTTC
* *
14363282 TTTTTTTTTGCTTTTTG
1 TTTTTTTTTGCTTCTTC
14363299 TTTTTTTT
1 TTTTTTTT
14363307 AGTAGAGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTGCTTCTTC
Found at i:14363356 original size:14 final size:14
Alignment explanation
Indices: 14363337--14363366 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14363327 TCCCCATCAA
*
14363337 TTCTTTTTTTCTTT
1 TTCTTTTCTTCTTT
14363351 TTCTTTTCTTCTTT
1 TTCTTTTCTTCTTT
14363365 TT
1 TT
14363367 TTACAGAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTCTTCTTT
Found at i:14363400 original size:62 final size:61
Alignment explanation
Indices: 14363276--14363425 Score: 157
Period size: 61 Copynumber: 2.5 Consensus size: 61
14363266 TTTTTTTTTC
* * *
14363276 TTCTTCTTTTTTTTTGCTTTT-TGT-TTTTTTTAGTAGAGCACATTGGCATTTTCCCCATCAA
1 TTCTT-TTTTTTTTTTCTTTTCT-TCTTTTTTTAGCAGAGCACATTGACATTTTCCCCATCAA
* **
14363337 TTCTTTTTTTCTTTTTCTTTTCTTCTTTTTTTA-CAGAGCACATTGATATTTTACCTTATCAA
1 TTCTTTTTTT-TTTTTCTTTTCTTCTTTTTTTAGCAGAGCACATTGACATTTT-CCCCATCAA
*
14363399 TT-TTTCTTTTATTTT-TTTTCTTCTTTT
1 TTCTTT-TTTTTTTTTCTTTTCTTCTTTT
14363426 GTCAAAAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
60 17 0.22
61 38 0.49
62 22 0.29
ACGTcount: A:0.14, C:0.17, G:0.07, T:0.63
Consensus pattern (61 bp):
TTCTTTTTTTTTTTTCTTTTCTTCTTTTTTTAGCAGAGCACATTGACATTTTCCCCATCAA
Found at i:14369064 original size:78 final size:78
Alignment explanation
Indices: 14368976--14369137 Score: 182
Period size: 78 Copynumber: 2.1 Consensus size: 78
14368966 TTATTTATAA
* * * * *
14368976 AAATTCAGAGATGAAAATAAAAAATGTTCTACCTTATTCATATAATATCCATTGATATTTTTAAA
1 AAATTTAGAGATGAAAATAAAAAATATTCTACCCTATTCATATAATAGCCATTGATATTCTTAAA
14369041 TTTAACTCCATTT
66 TTTAACTCCATTT
* * * * * ** *
14369054 AAATTTAGAGATGAGAATAGAAAATATTTTACCCTCTTTATATCTTAGCCATTGATATTCTTAGA
1 AAATTTAGAGATGAAAATAAAAAATATTCTACCCTATTCATATAATAGCCATTGATATTCTTAAA
* *
14369119 TTTAATTCTATTT
66 TTTAACTCCATTT
14369132 -AATTTA
1 AAATTTA
14369138 AAACCGTGTT
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
77 6 0.09
78 63 0.91
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (78 bp):
AAATTTAGAGATGAAAATAAAAAATATTCTACCCTATTCATATAATAGCCATTGATATTCTTAAA
TTTAACTCCATTT
Found at i:14370651 original size:15 final size:15
Alignment explanation
Indices: 14370631--14370670 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
14370621 AAGTATTTGG
14370631 ATATTTTAATTTTAA
1 ATATTTTAATTTTAA
*
14370646 ATATTTTAATTTTAT
1 ATATTTTAATTTTAA
14370661 ATATTATTAA
1 ATATT-TTAA
14370671 ACATAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTTTAATTTTAA
Found at i:14370976 original size:21 final size:20
Alignment explanation
Indices: 14370942--14371055 Score: 70
Period size: 21 Copynumber: 5.3 Consensus size: 20
14370932 TAATAGATAC
14370942 TTTTAAT-ATAAAATATAAATA
1 TTTTAATAAT-AAATAT-AATA
*
14370963 TTTTAATAATAAATATTACTA
1 TTTTAATAATAAATA-TAATA
*
14370984 TTTAAACATTAATAAATATAATA
1 TTT-TA-A-TAATAAATATAATA
* *
14371007 TTTTAAGAAT-AATAATACTA
1 TTTTAATAATAAAT-ATAATA
* *
14371027 TTTTAAATATTATAATAATACTA
1 TTTT-AATAATA-AAT-ATAATA
14371050 TTTTAA
1 TTTTAA
14371056 ATATTTTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.04
20 12 0.16
21 23 0.30
22 7 0.09
23 22 0.29
24 9 0.12
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (20 bp):
TTTTAATAATAAATATAATA
Found at i:14371028 original size:20 final size:21
Alignment explanation
Indices: 14371005--14371059 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
14370995 ATAAATATAA
14371005 TATTTTAAGA-ATAATAATAC
1 TATTTTAAGATATAATAATAC
*
14371025 TATTTTAAATATTATAATAATAC
1 TATTTT-AAGA-TATAATAATAC
14371048 TATTTTAA-ATAT
1 TATTTTAAGATAT
14371060 TTTAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 9 0.29
21 4 0.13
22 2 0.06
23 16 0.52
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTTTAAGATATAATAATAC
Found at i:14371041 original size:23 final size:23
Alignment explanation
Indices: 14371015--14371068 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
14371005 TATTTTAAGA
14371015 ATAATAATACTATTTTAAATATT
1 ATAATAATACTATTTTAAATATT
14371038 ATAATAATACTATTTTAAATATT
1 ATAATAATACTATTTTAAATATT
*
14371061 TTAA-AATA
1 ATAATAATA
14371069 TTAATATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAATAATACTATTTTAAATATT
Found at i:14371052 original size:43 final size:44
Alignment explanation
Indices: 14370952--14371055 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 44
14370942 TTTTAATATA
* *
14370952 AAATATAAATATTTTAATAATAAATATTACTATTTAAACATTAAT
1 AAATAT-AATATTTTAAGAATAAATAATACTATTTAAACATTAAT
*
14370997 AAATATAATATTTTAAGAAT-AATAATACTATTTTAAATATT-AT
1 AAATATAATATTTTAAGAATAAATAATACTA-TTTAAACATTAAT
*
14371040 -AATAATACTATTTTAA
1 AAAT-ATAATATTTTAA
14371056 ATATTTTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
42 3 0.06
43 22 0.42
44 22 0.42
45 6 0.11
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (44 bp):
AAATATAATATTTTAAGAATAAATAATACTATTTAAACATTAAT
Found at i:14371105 original size:15 final size:15
Alignment explanation
Indices: 14371085--14371137 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
14371075 TAAAGAATAA
*
14371085 TAAATATTTTTATTT
1 TAAATATTTTTATAT
14371100 TAAATATTTTTATAT
1 TAAATATTTTTATAT
14371115 TAATATAATATTTTAATAT
1 TAA-AT-AT-TTTT-ATAT
14371134 TAAA
1 TAAA
14371138 CATTATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 5 0.15
19 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATATTTTTATAT
Found at i:14371124 original size:19 final size:18
Alignment explanation
Indices: 14371082--14371136 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 18
14371072 ATATAAAGAA
14371082 TAATAAATATTTTTAT-T
1 TAATAAATATTTTTATAT
14371099 T--TAAATATTTTTATAT
1 TAATAAATATTTTTATAT
*
14371115 TAATATAATATTTTAATAT
1 TAATA-AATATTTTTATAT
14371134 TAA
1 TAA
14371137 ACATTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 13 0.39
16 2 0.06
17 1 0.03
18 2 0.06
19 15 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATAAATATTTTTATAT
Found at i:14371137 original size:34 final size:34
Alignment explanation
Indices: 14371081--14371186 Score: 92
Period size: 34 Copynumber: 3.1 Consensus size: 34
14371071 AATATAAAGA
* *
14371081 ATAATA-AATATTTTTATTTTAAATATTTTTA-T
1 ATAATATAATATTTTAATATTAAATATTTTTATT
* *
14371113 ATTAATATAATATTTTAATATTAAACATTATTATT
1 A-TAATATAATATTTTAATATTAAATATTTTTATT
* * *
14371148 AAAATATAATTATTCTTGAATATT-AATAATTTTAAT
1 ATAATATAA-TATT-TT-AATATTAAATATTTTTATT
14371184 ATA
1 ATA
14371187 CTTTAAATAG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
32 1 0.02
33 5 0.09
34 28 0.48
35 6 0.10
36 12 0.21
37 6 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (34 bp):
ATAATATAATATTTTAATATTAAATATTTTTATT
Found at i:14371678 original size:16 final size:16
Alignment explanation
Indices: 14371653--14371699 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
14371643 ATGTAAATTA
*
14371653 AAATTTTAATTTTTTT
1 AAATTATAATTTTTTT
*
14371669 AAATTATAATTATTTT
1 AAATTATAATTTTTTT
*
14371685 ATATTATAAATTTTT
1 AAATTAT-AATTTTT
14371700 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 20 0.77
17 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AAATTATAATTTTTTT
Found at i:14371701 original size:15 final size:15
Alignment explanation
Indices: 14371664--14371704 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
14371654 AATTTTAATT
* *
14371664 TTTTTAAATTATAAT
1 TTTTTATATTATAAA
14371679 TATTTTATATTATAAA
1 T-TTTTATATTATAAA
14371695 TTTTTATATT
1 TTTTTATATT
14371705 TTCAAACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTATATTATAAA
Found at i:14379210 original size:19 final size:19
Alignment explanation
Indices: 14379186--14379241 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
14379176 CCTTTTTATG
14379186 TTTATTTACTCATGCCTTT
1 TTTATTTACTCATGCCTTT
*
14379205 TTTATTTACTCATACCTTT
1 TTTATTTACTCATGCCTTT
14379224 TTTATTTACTCATGCCTT
1 TTTATTTACTCATGCCTT
14379242 GTTGCCACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.18, C:0.21, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTATTTACTCATGCCTTT
Found at i:14382940 original size:28 final size:29
Alignment explanation
Indices: 14382858--14382966 Score: 100
Period size: 29 Copynumber: 3.8 Consensus size: 29
14382848 AATTTGTCAT
*
14382858 TTTAT-TTATATAAATTTTTATATTTTT-A
1 TTTATATTAAATAAATTTTT-TATTTTTAA
* * * *
14382886 -TTATGTTTAAATAAAATTATAATTTTTAA
1 TTTAT-ATTAAATAAATTTTTTATTTTTAA
* *
14382915 TTTGTATTTAAAT-AGTTTTTTATTTTTAA
1 TTTATA-TTAAATAAATTTTTTATTTTTAA
14382944 TTTATATTAAATAAATTTTTTAT
1 TTTATATTAAATAAATTTTTTAT
14382967 ATATATTTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.06
28 12 0.19
29 38 0.60
30 9 0.14
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTATATTAAATAAATTTTTTATTTTTAA
Found at i:14382954 original size:58 final size:59
Alignment explanation
Indices: 14382836--14382958 Score: 137
Period size: 58 Copynumber: 2.1 Consensus size: 59
14382826 AAGTTAAAAT
* * *
14382836 AATAAAAATATAAATTTGTCATTTTATTTATATAAATTTTTATATTTTTATTATGTTTA
1 AATAAAAATATAAATTTGTAATTTTATTTAAATAAATTTTTATATTTTTATTATGATTA
* * *
14382895 AATAAAATTAT-AATTTTTAATTTGTATTTAAAT-AGTTTTT-TATTTTTAATTTAT-ATTA
1 AATAAAAATATAAATTTGTAATTT-TATTTAAATAAATTTTTATATTTTT-A-TTATGATTA
14382953 AATAAA
1 AATAAA
14382959 TTTTTTATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
57 7 0.13
58 26 0.47
59 22 0.40
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (59 bp):
AATAAAAATATAAATTTGTAATTTTATTTAAATAAATTTTTATATTTTTATTATGATTA
Found at i:14382962 original size:22 final size:23
Alignment explanation
Indices: 14382936--14382988 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
14382926 ATAGTTTTTT
*
14382936 ATTTTTAATTTATA-TTAAATAA
1 ATTTTTAATATATATTTAAATAA
*
14382958 ATTTTTTATATATATTTAAATAA
1 ATTTTTAATATATATTTAAATAA
*
14382981 AATTTTAA
1 ATTTTTAA
14382989 CATTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTTAATATATATTTAAATAA
Found at i:14382998 original size:22 final size:23
Alignment explanation
Indices: 14382949--14382998 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
14382939 TTTAATTTAT
* * *
14382949 ATTAAATAAATTTTTTATATATA
1 ATTAAATAAAATTTTAACATATA
*
14382972 TTTAAATAAAATTTTAACAT-TA
1 ATTAAATAAAATTTTAACATATA
14382994 ATTAA
1 ATTAA
14382999 TTTTTTGTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTAAATAAAATTTTAACATATA
Found at i:14383179 original size:93 final size:94
Alignment explanation
Indices: 14383076--14383262 Score: 349
Period size: 94 Copynumber: 2.0 Consensus size: 94
14383066 TAAAAATATA
14383076 AAGATCTAAATAAGAAAAGTGAAATACTTAAATTTTTTTTAGTA-TTTTAGTCCAGAAAATAAGA
1 AAGATCTAAATAAGAAAAGTGAAATACTTAAATTTTTTTTAGTATTTTTAGTCCAGAAAATAAGA
14383140 TTTAAAAAAGTTTTTTTTGGACTATGGTT
66 TTTAAAAAAGTTTTTTTTGGACTATGGTT
**
14383169 AAGATCTAAATAAGAAAAGTGAAATACTTAAATTTTTTTTAGTATTTTTTTTCCAGAAAATAAGA
1 AAGATCTAAATAAGAAAAGTGAAATACTTAAATTTTTTTTAGTATTTTTAGTCCAGAAAATAAGA
14383234 TTTAAAAAAGTTTTTTTTGGACTATGGTT
66 TTTAAAAAAGTTTTTTTTGGACTATGGTT
14383263 TCATTTATTT
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 44 0.48
94 47 0.52
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.41
Consensus pattern (94 bp):
AAGATCTAAATAAGAAAAGTGAAATACTTAAATTTTTTTTAGTATTTTTAGTCCAGAAAATAAGA
TTTAAAAAAGTTTTTTTTGGACTATGGTT
Found at i:14385100 original size:21 final size:21
Alignment explanation
Indices: 14385067--14385109 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14385057 TTTTAAGATA
**
14385067 AATTTTATTTATTAAAAAAAT
1 AATTTTAAATATTAAAAAAAT
* *
14385088 AATTTTAAATATTTAAATAAT
1 AATTTTAAATATTAAAAAAAT
14385109 A
1 A
14385110 TATGATAGCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTTAAATATTAAAAAAAT
Found at i:14385277 original size:22 final size:21
Alignment explanation
Indices: 14385250--14385306 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
14385240 GTAAAAGCTA
14385250 AAATAAAATTATTTTATATTTT
1 AAATAAAATTATTTTA-ATTTT
*
14385272 AAATAAAAGTA-TTTAATTTT
1 AAATAAAATTATTTTAATTTT
14385292 AAAT--AATTATTTTAA
1 AAATAAAATTATTTTAA
14385307 AATTTTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 4 0.12
19 5 0.16
20 9 0.28
21 4 0.12
22 10 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATAAAATTATTTTAATTTT
Done.