Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 106 of 204
Found at i:32932749 original size:18 final size:18
Alignment explanation
Indices: 32932728--32932762 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
32932718 AAAAATATTC
32932728 TAAAATTCTCGTGTTTTT
1 TAAAATTCTCGTGTTTTT
32932746 TAAAATTCTCGTGTTTT
1 TAAAATTCTCGTGTTTT
32932763 AATAGAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (18 bp):
TAAAATTCTCGTGTTTTT
Found at i:32932909 original size:18 final size:18
Alignment explanation
Indices: 32932886--32933196 Score: 209
Period size: 17 Copynumber: 17.4 Consensus size: 18
32932876 AAATCGTGTC
32932886 TCAAAAATTTTCGTGTTT
1 TCAAAAATTTTCGTGTTT
32932904 TCAAAAAAATTTCTCGTG-TT
1 TC--AAAAATTT-TCGTGTTT
* *
32932924 TCAAAAA-TCTCATTGTTT
1 TCAAAAATTTTC-GTGTTT
*
32932942 TCAAAAA-ATTCGTGTTT
1 TCAAAAATTTTCGTGTTT
* * *
32932959 TCAAAAATTCTCATG-CT
1 TCAAAAATTTTCGTGTTT
*
32932976 TCAAAAATCTTCGTGTTT
1 TCAAAAATTTTCGTGTTT
*
32932994 T-AAAAA-TTCCAGTGTTT
1 TCAAAAATTTTC-GTGTTT
32933011 T-AAAAATTTTCGTGTTT
1 TCAAAAATTTTCGTGTTT
*
32933028 TC-AAAATTTCCCGTGTTT
1 TCAAAAATTT-TCGTGTTT
* ** *
32933046 TCGAAAATTCCCGT-ATT
1 TCAAAAATTTTCGTGTTT
* *
32933063 TCAAAAATTTTCTTATTT
1 TCAAAAATTTTCGTGTTT
* *
32933081 TCAAAAAAGATCTCCGTG-TT
1 TC--AAAA-ATTTTCGTGTTT
*
32933101 TCATAAA-TTTCTGTGTTT
1 TCAAAAATTTTC-GTGTTT
* *
32933119 TAAAAAAATTCTCGT-TTT
1 T-CAAAAATTTTCGTGTTT
*
32933137 TCAAAAATTTTCATGTTT
1 TCAAAAATTTTCGTGTTT
*
32933155 TCAAAAATTGATCGTG-TT
1 TCAAAAATT-TTCGTGTTT
*
32933173 TCATAAATTTTCGTG-TT
1 TCAAAAATTTTCGTGTTT
32933190 TCAAAAA
1 TCAAAAA
32933197 AAATCCTCGT
Statistics
Matches: 229, Mismatches: 42, Indels: 45
0.72 0.13 0.14
Matches are distributed among these distances:
16 6 0.03
17 98 0.43
18 76 0.33
19 16 0.07
20 23 0.10
21 10 0.04
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (18 bp):
TCAAAAATTTTCGTGTTT
Found at i:32932979 original size:52 final size:52
Alignment explanation
Indices: 32932886--32933018 Score: 139
Period size: 52 Copynumber: 2.5 Consensus size: 52
32932876 AAATCGTGTC
* * * *
32932886 TCAAAAATTTTCGTGTTTTCAAAAAAATTTCTCGTGTTTCAAAAATC-TCATTGTTT
1 TCAAAAA-ATTCGTGTTTTC--AAAAA-TTCTCATGCTTCAAAAATCTTC-GTGTTT
32932942 TCAAAAAATTCGTGTTTTCAAAAATTCTCATGCTTCAAAAATCTTCGTGTTT
1 TCAAAAAATTCGTGTTTTCAAAAATTCTCATGCTTCAAAAATCTTCGTGTTT
32932994 T--AAAAATTCCAGTGTTTT-AAAAATT
1 TCAAAAAATT-C-GTGTTTTCAAAAATT
32933019 TTCGTGTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
50 7 0.10
51 8 0.11
52 30 0.43
53 7 0.10
55 11 0.16
56 7 0.10
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (52 bp):
TCAAAAAATTCGTGTTTTCAAAAATTCTCATGCTTCAAAAATCTTCGTGTTT
Found at i:32933071 original size:53 final size:52
Alignment explanation
Indices: 32932987--32933086 Score: 137
Period size: 53 Copynumber: 1.9 Consensus size: 52
32932977 CAAAAATCTT
* * *
32932987 CGTGTTTTAAAAATTCCAGTGTTTTAAAAATTTTCGTGTTTTCAAAATTTCC
1 CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTATTTTCAAAATTTCC
* * *
32933039 CGTGTTTTCGAAAATTCCCGTATTTCAAAAATTTTCTTATTTTCAAAA
1 CGTGTTTT-AAAAATTCCAGTATTTCAAAAATTTTCGTATTTTCAAAA
32933087 AAGATCTCCG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
52 8 0.20
53 33 0.80
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (52 bp):
CGTGTTTTAAAAATTCCAGTATTTCAAAAATTTTCGTATTTTCAAAATTTCC
Found at i:32933109 original size:74 final size:72
Alignment explanation
Indices: 32933020--32933198 Score: 202
Period size: 74 Copynumber: 2.5 Consensus size: 72
32933010 TTAAAAATTT
** *
32933020 TCGTGTTTTCA-AAATTTCCCGTGTTTT-CGAAAATTCCCGTATTTCAAAAATTTTCTTATTTTC
1 TCGTG-TTTCATAAATTT-CCGTGTTTTAAAAAAATTCCCGTATTTCAAAAATTTTCATATTTTC
32933083 AAAAA-AGA
64 AAAAATAGA
* * * *
32933091 TCTCCGTGTTTCATAAATTTCTGTGTTTTAAAAAAATTCTCGTTTTTCAAAAATTTTCATGTTTT
1 --T-CGTGTTTCATAAATTTCCGTGTTTTAAAAAAATTCCCGTATTTCAAAAATTTTCATATTTT
*
32933156 CAAAAATTGA
63 CAAAAATAGA
* *
32933166 TCGTGTTTCATAAATTTTCGTGTTTCAAAAAAA
1 TCGTGTTTCATAAATTTCCGTGTTTTAAAAAAA
32933199 ATCCTCGTGT
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
72 29 0.32
73 15 0.16
74 45 0.49
75 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (72 bp):
TCGTGTTTCATAAATTTCCGTGTTTTAAAAAAATTCCCGTATTTCAAAAATTTTCATATTTTCAA
AAATAGA
Found at i:32933175 original size:36 final size:35
Alignment explanation
Indices: 32932878--32933196 Score: 197
Period size: 36 Copynumber: 8.9 Consensus size: 35
32932868 TCTTAAAAAA
* *
32932878 ATCGTGTCTCAAAAATTTTCGTGTTTTCAAAAAAATTT
1 ATCGTGTTTCAAAAATTTTCATGTTTTC--AAAAA-TT
* * *
32932916 CTCGTGTTTCAAAAA-TCTCATTGTTTTCAAAAAAT
1 ATCGTGTTTCAAAAATTTTCA-TGTTTTCAAAAATT
* *
32932951 -TCGTGTTTTCAAAAATTCTCATG-CTTCAAAAATCT
1 ATCGTG-TTTCAAAAATTTTCATGTTTTCAAAAAT-T
* *
32932986 -TCGTGTTTTAAAAA-TTCCAGTGTTTT-AAAAATT
1 ATCGTGTTTCAAAAATTTTCA-TGTTTTCAAAAATT
* * * *
32933019 TTCGTGTTTTC-AAAATTTCCCGTGTTTTCGAAAATT
1 ATCGTG-TTTCAAAAATTT-TCATGTTTTCAAAAATT
** * * * *
32933055 CCCGTATTTCAAAAATTTTCTTATTTTCAAAAAAGAT
1 ATCGTGTTTCAAAAATTTTCATGTTTTC-AAAAA-TT
* * * *
32933092 CTCCGTGTTTCATAAA-TTTCTGTGTTTTAAAAAAATT
1 AT-CGTGTTTCAAAAATTTTC-ATGTTTT-CAAAAATT
* *
32933129 CTCGTTTTTCAAAAATTTTCATGTTTTCAAAAATT
1 ATCGTGTTTCAAAAATTTTCATGTTTTCAAAAATT
* *
32933164 GATCGTGTTTCATAAATTTTCGTG-TTTCAAAAA
1 -ATCGTGTTTCAAAAATTTTCATGTTTTCAAAAA
32933197 AAATCCTCGT
Statistics
Matches: 225, Mismatches: 37, Indels: 41
0.74 0.12 0.14
Matches are distributed among these distances:
33 4 0.02
34 38 0.17
35 58 0.26
36 68 0.30
37 16 0.07
38 41 0.18
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (35 bp):
ATCGTGTTTCAAAAATTTTCATGTTTTCAAAAATT
Found at i:32933242 original size:17 final size:17
Alignment explanation
Indices: 32933220--32933280 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
32933210 TTGTATTTTA
32933220 TCAAAAAATTTTTGTTT
1 TCAAAAAATTTTTGTTT
32933237 TCAAAAATAAATTTTGTGTTT
1 TC--AAA-AAATTTT-TGTTT
*
32933258 T-AAAAAA-TTTCGTGTT
1 TCAAAAAATTTTTGT-TT
32933274 TCAAAAA
1 TCAAAAA
32933281 GAAAATTCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
15 2 0.05
16 6 0.16
17 10 0.27
18 3 0.08
19 3 0.08
20 7 0.19
21 6 0.16
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (17 bp):
TCAAAAAATTTTTGTTT
Found at i:32933276 original size:37 final size:38
Alignment explanation
Indices: 32933222--32933357 Score: 131
Period size: 37 Copynumber: 3.6 Consensus size: 38
32933212 GTATTTTATC
* * *
32933222 AAAAAATTTTTGT-TTTCAAAAATAAATTTTGTGTTTT
1 AAAAAAATTTCGTGTTTCAAAAATAAATTTCGTGTTTT
* *
32933259 -AAAAAATTTCGTGTTTCAAAAAGAAAATTCGTGTTTT
1 AAAAAAATTTCGTGTTTCAAAAATAAATTTCGTGTTTT
*
32933296 CAAAAAAAAATCTCGTGTTTC-AAAAT---TTTCGTGTTTTT
1 ---AAAAAAATTTCGTGTTTCAAAAATAAATTTCGTG-TTTT
*
32933334 AAAAAAATTTCGTGTTTCTAAAAT
1 AAAAAAATTTCGTGTTTCAAAAAT
32933358 TCTTGTATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
35 17 0.20
36 15 0.18
37 27 0.33
38 4 0.05
40 4 0.05
41 16 0.19
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (38 bp):
AAAAAAATTTCGTGTTTCAAAAATAAATTTCGTGTTTT
Found at i:32933357 original size:36 final size:34
Alignment explanation
Indices: 32933245--32933392 Score: 111
Period size: 36 Copynumber: 4.1 Consensus size: 34
32933235 TTTCAAAAAT
32933245 AAATTTTGTG-TTTT-AAAAAATTTCGTGTTTCAAAAA
1 AAATTTTGTGTTTTTAAAAAAATTTCGTGTTTC----A
* * * *
32933281 GAAAATTCGTGTTTTCAAAAAAAAATCTCGTGTTTCA
1 -AAATTTTGTGTTTT--TAAAAAAATTTCGTGTTTCA
32933318 AAATTTTCGTGTTTTTAAAAAAATTTCGTGTTTCTA
1 AAATTTT-GTGTTTTTAAAAAAATTTCGTGTTTC-A
* * * *
32933354 AAATTCTTGTATTTTCAAAAAAAATTCGTATTTTCA
1 AAATT-TTGTGTTTTTAAAAAAATTTCGT-GTTTCA
32933390 AAA
1 AAA
32933393 AAAGAAAAAG
Statistics
Matches: 91, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
35 17 0.19
36 33 0.36
37 22 0.24
38 3 0.03
41 16 0.18
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (34 bp):
AAATTTTGTGTTTTTAAAAAAATTTCGTGTTTCA
Found at i:32933358 original size:16 final size:16
Alignment explanation
Indices: 32933302--32933358 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
32933292 TTTTCAAAAA
*
32933302 AAAATCTCGTGTTTC-
1 AAAATTTCGTGTTTCT
*
32933317 AAAATTTTCGTGTTTTT
1 AAAA-TTTCGTGTTTCT
32933334 AAAAAAATTTCGTGTTTCT
1 ---AAAATTTCGTGTTTCT
32933353 AAAATT
1 AAAATT
32933359 CTTGTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
15 4 0.12
16 15 0.44
19 11 0.32
20 4 0.12
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
AAAATTTCGTGTTTCT
Found at i:32944355 original size:1 final size:1
Alignment explanation
Indices: 32944349--32944396 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
32944339 TATGCCTAAC
* * * * *
32944349 AAAAAAAACAAAAAACAAAAAAAACAAAAAAACAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32944397 TCAAGATGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:32944360 original size:9 final size:9
Alignment explanation
Indices: 32944346--32944389 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
32944336 TATTATGCCT
32944346 AACAAAAAA
1 AACAAAAAA
32944355 AAC--AAAA
1 AACAAAAAA
32944362 AACAAAAAA
1 AACAAAAAA
32944371 AAC-AAAAA
1 AACAAAAAA
32944379 AACAAAAAA
1 AACAAAAAA
32944388 AA
1 AA
32944390 AGAAAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.22
8 8 0.25
9 17 0.53
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAAAAAA
Found at i:32944365 original size:16 final size:17
Alignment explanation
Indices: 32944346--32944389 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
32944336 TATTATGCCT
32944346 AACAAAAAAAAC-AAAA
1 AACAAAAAAAACAAAAA
32944362 AACAAAAAAAACAAAAA
1 AACAAAAAAAACAAAAA
32944379 AACAAAAAAAA
1 AACAAAAAAAA
32944390 AGAAAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (17 bp):
AACAAAAAAAACAAAAA
Found at i:32944395 original size:17 final size:16
Alignment explanation
Indices: 32944346--32944396 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 16
32944336 TATTATGCCT
*
32944346 AACAAAAAAAACAAAA
1 AACAAAAAAAAAAAAA
32944362 AACAAAAAAAACAAAAA
1 AACAAAAAAAA-AAAAA
32944379 AACAAAAAAAAAGAAAA
1 AACAAAAAAAAA-AAAA
32944396 A
1 A
32944397 TCAAGATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (16 bp):
AACAAAAAAAAAAAAA
Found at i:32944402 original size:10 final size:8
Alignment explanation
Indices: 32944350--32944388 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
32944340 ATGCCTAACA
32944350 AAAAAAAC
1 AAAAAAAC
32944358 -AAAAAAC
1 AAAAAAAC
32944365 AAAAAAAAC
1 -AAAAAAAC
32944374 AAAAAAAC
1 AAAAAAAC
32944382 AAAAAAA
1 AAAAAAA
32944389 AAGAAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.24
8 15 0.52
9 7 0.24
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:32945366 original size:75 final size:76
Alignment explanation
Indices: 32945241--32946069 Score: 945
Period size: 78 Copynumber: 10.8 Consensus size: 76
32945231 TTTCAAGAAT
* * * *
32945241 TATTTTTCAATTTTTATTTTTCCAAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTGTTTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
32945306 GTCACGCTGAGG
65 GTCACGCTGAGG
*
32945318 TA-TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
32945382 TTACGCTGAAG
66 TCACGCTGAGG
* *
32945393 TATTTTTCAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
32945456 TCGCACGCTGAGG
66 T--CACGCTGAGG
* *
32945469 TATTTCTTTTAAATTTCT-ATTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
32945531 GGGTTACATGCCGAGG
63 GGG-T-CACGCTGAGG
* ***
32945547 TATTTCTTTTAAGTTTCTGTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TA-TT-TTTCAA-TTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
32945612 CGGGTCGTACGCTGAGG
62 CGGGTC--ACGCTGAGG
* * * *
32945629 TATTTTTAAATTTTTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
32945692 TCGCACGCTGAGG
66 T--CACGCTGAGG
* *
32945705 TATTTCTTTTAAATTTCTG-TTTTC--AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
32945767 GAGTCATG-TCGATG
63 GGGTCACGCT-GAGG
* * * *
32945781 TATTTTTCAATTTTTGGTTTTT-AAAAAAATCAACTTATAATGCGAGAAGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
32945845 GTCACGCTGAGG
65 GTCACGCTGAGG
*
32945857 TA-TTTTCAATTTCTATTTTTCGAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TATTTTTCAATTTCTGTTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
** * *
32945921 GGACCATGCCGAGG
63 GGGTCACGCTGAGG
* *
32945935 TATTTCTT--TTTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TATTT-TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
*
32945998 GTCATGCTGAGG
65 GTCACGCTGAGG
* * *
32946010 TA-TTTTCAATTTCTGTTGTTCAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCT
1 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
32946070 TAGGCTGCAC
Statistics
Matches: 658, Mismatches: 60, Indels: 70
0.84 0.08 0.09
Matches are distributed among these distances:
73 12 0.02
74 50 0.08
75 170 0.26
76 150 0.23
77 10 0.02
78 171 0.26
79 30 0.05
80 12 0.02
81 3 0.00
82 50 0.08
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (76 bp):
TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
TCACGCTGAGG
Found at i:32946340 original size:5 final size:5
Alignment explanation
Indices: 32946330--32946357 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32946320 TTCTTGTTCC
32946330 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
32946358 ATATATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:32946589 original size:30 final size:30
Alignment explanation
Indices: 32946549--32946714 Score: 99
Period size: 30 Copynumber: 5.6 Consensus size: 30
32946539 ATACAAAAAT
*
32946549 AAATTGCATTTTAGCCCCCAAATTTTTCAA
1 AAATTACATTTTAGCCCCCAAATTTTTCAA
* * *
32946579 AAATTACATTTT-GACCCCTAAATTTGTCTA
1 AAATTACATTTTAG-CCCCCAAATTTTTCAA
* * * * * **
32946609 AATTTGCATCTT-GACCCCTAATATTTT-GT
1 AAATTACATTTTAGCCCCCAAAT-TTTTCAA
* * * *
32946638 AAATTACA-TTTAGGGCCCTAAAATTTCCAA
1 AAATTACATTTTA-GCCCCCAAATTTTTCAA
* * *
32946668 AAATTACATTTTAG-CCCCATATTTTCCTA
1 AAATTACATTTTAGCCCCCAAATTTTTCAA
*
32946697 AAATTACATTTTTGCCCC
1 AAATTACATTTTAGCCCC
32946715 AAAAACTTCG
Statistics
Matches: 101, Mismatches: 28, Indels: 14
0.71 0.20 0.10
Matches are distributed among these distances:
28 2 0.02
29 40 0.40
30 55 0.54
31 4 0.04
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (30 bp):
AAATTACATTTTAGCCCCCAAATTTTTCAA
Found at i:32946684 original size:29 final size:29
Alignment explanation
Indices: 32946638--32946718 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
32946628 AATATTTTGT
*
32946638 AAATTACA-TTTAGGGCCCTAAAATTTCCAA
1 AAATTACATTTTA--GCCCCAAAATTTCCAA
* * *
32946668 AAATTACATTTTAGCCCCATATTTTCCTA
1 AAATTACATTTTAGCCCCAAAATTTCCAA
*
32946697 AAATTACATTTTTGCCCCAAAA
1 AAATTACATTTTAGCCCCAAAA
32946719 ACTTCGTGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 31 0.72
30 8 0.19
31 4 0.09
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (29 bp):
AAATTACATTTTAGCCCCAAAATTTCCAA
Found at i:32947067 original size:25 final size:25
Alignment explanation
Indices: 32947029--32947080 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
32947019 CTAGCAAAGC
32947029 AAACAACAACCAAG-AAGCAAAAAAA
1 AAACAACAACCAAGTAA-CAAAAAAA
* * *
32947054 AAACAAGAAGCAAGTAACAAACAAA
1 AAACAACAACCAAGTAACAAAAAAA
32947079 AA
1 AA
32947081 TAAAAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.71, C:0.17, G:0.10, T:0.02
Consensus pattern (25 bp):
AAACAACAACCAAGTAACAAAAAAA
Found at i:32947075 original size:18 final size:18
Alignment explanation
Indices: 32947025--32947077 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
32947015 GCACCTAGCA
* *
32947025 AAGCAAACAACAACCAAG
1 AAGCAAAAAACAAACAAG
*
32947043 AAGCAAAAAAAAAACAAG
1 AAGCAAAAAACAAACAAG
**
32947061 AAGCAAGTAACAAACAA
1 AAGCAAAAAACAAACAA
32947078 AAATAAAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.68, C:0.19, G:0.11, T:0.02
Consensus pattern (18 bp):
AAGCAAAAAACAAACAAG
Found at i:32947224 original size:13 final size:12
Alignment explanation
Indices: 32947206--32947239 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
32947196 AAGGAAAAGA
32947206 AAAAAGAAGAAG
1 AAAAAGAAGAAG
32947218 AAGAAAGAAGAAGG
1 AA-AAAGAAGAA-G
32947232 AAAAAGAA
1 AAAAAGAA
32947240 AAGGGGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 15 0.75
14 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAAAAGAAGAAG
Found at i:32947706 original size:9 final size:10
Alignment explanation
Indices: 32947670--32947715 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
32947660 TTTTTAAGTA
32947670 TTTTTATTTT
1 TTTTTATTTT
*
32947680 GTATTTATGTTCT
1 -TTTTTAT-TT-T
32947693 TTTTTATTTT
1 TTTTTATTTT
32947703 TTTTTATTTT
1 TTTTTATTTT
32947713 TTT
1 TTT
32947716 AAATTCGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 14 0.45
11 8 0.26
12 8 0.26
13 1 0.03
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:32948002 original size:17 final size:17
Alignment explanation
Indices: 32947982--32948301 Score: 150
Period size: 17 Copynumber: 17.8 Consensus size: 17
32947972 CTTAAAAAAA
32947982 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
32947999 TCGTGTTTTCAAAAAAATTT
1 TCGTG-TTTC--AAAAATTT
32948019 CTCGTGTTTCAAAAATTT
1 -TCGTGTTTCAAAAATTT
* * *
32948037 CCTTGTTTAAAAAAAATCTT
1 TCGTGTTT--CAAAAAT-TT
*
32948057 T-GTGTTTTCGAAAATTT
1 TCGTG-TTTCAAAAATTT
* * *
32948074 TCATGCTTCAAAAATCT
1 TCGTGTTTCAAAAATTT
32948091 TCGTGTTTTC-AAAA-TT
1 TCGTG-TTTCAAAAATTT
32948107 TCAGTGTTTCAAAAATTT
1 TC-GTGTTTCAAAAATTT
32948125 TCGTGTTTTC-AAAATTT
1 TCGTG-TTTCAAAAATTT
* *
32948142 CCCGTGTTTTCAAAAATTC
1 -TCGTG-TTTCAAAAATTT
* * **
32948161 CCGTATTTCAAAAAAAAAT
1 TCGTGTTTC--AAAAATTT
* * *
32948180 T-AT-TTTAAAAAAAGATCT
1 TCGTGTTT--CAAAA-ATTT
* *
32948198 CCGTGTTTCATAAA-TT
1 TCGTGTTTCAAAAATTT
* *
32948214 TCTGTGTTTTTAAAAAAATTC
1 TC-GTG--TTT-CAAAAATTT
* *
32948235 TAGTCTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
32948252 TCGTGTTTTCAAAAATTGA
1 TCGTG-TTTCAAAAATT-T
* *
32948271 CCGTGTTTCATAAATTT
1 TCGTGTTTCAAAAATTT
32948288 TCGTGTTTCAAAAA
1 TCGTGTTTCAAAAA
32948302 AAATCTTCGT
Statistics
Matches: 227, Mismatches: 46, Indels: 60
0.68 0.14 0.18
Matches are distributed among these distances:
16 9 0.04
17 85 0.37
18 73 0.32
19 27 0.12
20 26 0.11
21 7 0.03
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:32948010 original size:18 final size:18
Alignment explanation
Indices: 32947982--32948301 Score: 159
Period size: 18 Copynumber: 17.8 Consensus size: 18
32947972 CTTAAAAAAA
32947982 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
32947999 TCGTGTTTTCAAAAAAATTT
1 TCGTGTTTTC--AAAAATTT
32948019 CTCGTG-TTTCAAAAATTT
1 -TCGTGTTTTCAAAAATTT
* * **
32948037 CCTTGTTTAAAAAAAATCTT
1 TCGTGTTT-TCAAAAAT-TT
*
32948057 T-GTGTTTTCGAAAATTT
1 TCGTGTTTTCAAAAATTT
* * *
32948074 TCATG-CTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
32948091 TCGTGTTTTC-AAAA-TT
1 TCGTGTTTTCAAAAATTT
32948107 TCAGTG-TTTCAAAAATTT
1 TC-GTGTTTTCAAAAATTT
32948125 TCGTGTTTTC-AAAATTT
1 TCGTGTTTTCAAAAATTT
* *
32948142 CCCGTGTTTTCAAAAATTC
1 -TCGTGTTTTCAAAAATTT
* * **
32948161 CCGT-ATTTCAAAAAAAAAT
1 TCGTGTTTTC--AAAAATTT
* ** *
32948180 T-AT-TTTAAAAAAAGATCT
1 TCGTGTTT-TCAAAA-ATTT
* *
32948198 CCGTG-TTTCATAAA-TT
1 TCGTGTTTTCAAAAATTT
* **
32948214 TCTGTGTTTTTAAAAAAAT
1 TC-GTGTTTTCAAAAATTT
32948233 TC-TAGTCTTTCAAAAATTT
1 TCGT-GT-TTTCAAAAATTT
*
32948252 TCGTGTTTTCAAAAATTGA
1 TCGTGTTTTCAAAAATT-T
* *
32948271 CCGTG-TTTCATAAATTT
1 TCGTGTTTTCAAAAATTT
32948288 TCGTG-TTTCAAAAA
1 TCGTGTTTTCAAAAA
32948302 AAATCTTCGT
Statistics
Matches: 227, Mismatches: 48, Indels: 56
0.69 0.15 0.17
Matches are distributed among these distances:
16 9 0.04
17 70 0.31
18 83 0.37
19 45 0.20
20 15 0.07
21 5 0.02
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:32948023 original size:21 final size:19
Alignment explanation
Indices: 32947982--32948460 Score: 98
Period size: 17 Copynumber: 25.7 Consensus size: 19
32947972 CTTAAAAAAA
32947982 TCGTGTTTC--AAAAATTT
1 TCGTGTTTCAAAAAAATTT
32947999 TCGTGTTTTCAAAAAAATTT
1 TCGTG-TTTCAAAAAAATTT
32948019 CTCGTGTTTC--AAAAATTT
1 -TCGTGTTTCAAAAAAATTT
* * *
32948037 CCTTGTTTAAAAAAAATCTT
1 TCGTGTTTCAAAAAAAT-TT
*
32948057 T-GTGTTTTC--GAAAATTT
1 TCGTG-TTTCAAAAAAATTT
* * *
32948074 TCATGCTTC--AAAAATCT
1 TCGTGTTTCAAAAAAATTT
32948091 TCGTGTTTTC---AAAA-TT
1 TCGTG-TTTCAAAAAAATTT
32948107 TCAGTGTTTC--AAAAATTT
1 TC-GTGTTTCAAAAAAATTT
32948125 TCGTGTTTTC---AAAATTT
1 TCGTG-TTTCAAAAAAATTT
* *
32948142 CCCGTGTTTTC--AAAAATTC
1 -TCGTG-TTTCAAAAAAATTT
* * **
32948161 CCGTATTTCAAAAAAAAAT
1 TCGTGTTTCAAAAAAATTT
* * *
32948180 T-AT-TTTAAAAAAAGATCT
1 TCGTGTTTCAAAAAA-ATTT
* *
32948198 CCGTGTTTC--ATAAA-TT
1 TCGTGTTTCAAAAAAATTT
* *
32948214 TCTGTGTTTTTAAAAAAATTC
1 TC-GTG-TTTCAAAAAAATTT
* *
32948235 TAGTCTTTC--AAAAATTT
1 TCGTGTTTCAAAAAAATTT
*
32948252 TCGTGTTTTC--AAAAATTGA
1 TCGTG-TTTCAAAAAAATT-T
* *
32948271 CCGTGTTTC--ATAAATTT
1 TCGTGTTTCAAAAAAATTT
*
32948288 TCGTGTTTCAAAAAAAATCT
1 TCGTGTTTC-AAAAAAATTT
*
32948308 TCGTGTTTCGTATTTTATCAAAATTT
1 TCGTGTTTC--A----A-AAAAATTT
** *
32948334 TTATGTTTTCAAAAATAAAATT
1 TCGTG-TTTC-AAAA-AAATTT
*
32948356 T-GTGTTT-TAAAAAA-TT
1 TCGTGTTTCAAAAAAATTT
**
32948372 TCGTGTTTCAAAAAGAAAAT
1 TCGTGTTTCAAAAA-AATTT
* *
32948392 TCGTGTTTTCAAAAAAAATC
1 TCGTG-TTTCAAAAAAATTT
*
32948412 TCGTGTTT---TAAAATTT
1 TCGTGTTTCAAAAAAATTT
*
32948428 TCGTGTTTTTAAAAAAA-TT
1 TCGTG-TTTCAAAAAAATTT
32948447 TCGTGTTTCTAAAA
1 TCGTGTTTC-AAAA
32948461 TTCTTGTATT
Statistics
Matches: 347, Mismatches: 66, Indels: 96
0.68 0.13 0.19
Matches are distributed among these distances:
16 22 0.06
17 95 0.27
18 83 0.24
19 43 0.12
20 62 0.18
21 20 0.06
22 7 0.02
25 1 0.00
26 10 0.03
27 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (19 bp):
TCGTGTTTCAAAAAAATTT
Found at i:32948229 original size:37 final size:37
Alignment explanation
Indices: 32948182--32948316 Score: 132
Period size: 37 Copynumber: 3.6 Consensus size: 37
32948172 AAAAAAATTA
32948182 TTTTAAAAAAAGATCTCCGTGTTTCATAAA-TTTCTGTG
1 TTTTAAAAAAA-ATCTCCGTGTTTCATAAATTTTC-GTG
* * * *
32948220 TTTTTAAAAAAAT-TCTAGTCTTTCAAAAATTTTCGTG
1 TTTTAAAAAAAATCTC-CGTGTTTCATAAATTTTCGTG
* * **
32948257 TTTT-CAAAAATTGACCGTGTTTCATAAATTTTCGTG
1 TTTTAAAAAAAATCTCCGTGTTTCATAAATTTTCGTG
* *
32948293 TTTCAAAAAAAATCTTCGTGTTTC
1 TTTTAAAAAAAATCTCCGTGTTTC
32948317 GTATTTTATC
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
36 29 0.38
37 34 0.44
38 14 0.18
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (37 bp):
TTTTAAAAAAAATCTCCGTGTTTCATAAATTTTCGTG
Found at i:32948383 original size:37 final size:38
Alignment explanation
Indices: 32948340--32948461 Score: 121
Period size: 37 Copynumber: 3.3 Consensus size: 38
32948330 ATTTTTATGT
32948340 TTTCAAAAATAAAATTTGTGTTTT-AAAAAATTTCGTG
1 TTTCAAAAATAAAATTTGTGTTTTAAAAAAATTTCGTG
* * *
32948377 TTTCAAAAAGAAAATTCGTGTTTTCAAAAAAAATCTCGTG
1 TTTCAAAAATAAAATTTGTGTTTT--AAAAAAATTTCGTG
*
32948417 TTT-TAAAAT----TTTCGTGTTTTTAAAAAAATTTCGTG
1 TTTCAAAAATAAAATTT-GTG-TTTTAAAAAAATTTCGTG
*
32948452 TTTCTAAAAT
1 TTTCAAAAAT
32948462 TCTTGTATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
35 18 0.25
36 9 0.12
37 26 0.36
39 4 0.06
40 15 0.21
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (38 bp):
TTTCAAAAATAAAATTTGTGTTTTAAAAAAATTTCGTG
Found at i:32948442 original size:36 final size:36
Alignment explanation
Indices: 32948391--32948495 Score: 126
Period size: 35 Copynumber: 2.9 Consensus size: 36
32948381 AAAAAGAAAA
*
32948391 TTCGTGTTTTCAAAAAAAATCTCGTGTTTTAAAATT-
1 TTCGTGTTTTTAAAAAAAAT-TCGTGTTTTAAAATTC
*
32948427 TTCGTGTTTTTAAAAAAATTTCGTGTTTCTAAAATTC
1 TTCGTGTTTTTAAAAAAAATTCGTGTTT-TAAAATTC
* *
32948464 TT-GT-ATTTTAAAAAAAATTCGTATTTTCAAAA
1 TTCGTGTTTTTAAAAAAAATTCGTGTTTT-AAAA
32948496 AAAGAAAAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
34 1 0.02
35 31 0.51
36 27 0.44
37 2 0.03
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (36 bp):
TTCGTGTTTTTAAAAAAAATTCGTGTTTTAAAATTC
Found at i:32950701 original size:10 final size:10
Alignment explanation
Indices: 32950686--32950713 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
32950676 GTATTTATGA
32950686 AAAAAAATAT
1 AAAAAAATAT
32950696 AAAAAAATAT
1 AAAAAAATAT
32950706 AAAAAAAT
1 AAAAAAAT
32950714 TATAGAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:32950701 original size:11 final size:11
Alignment explanation
Indices: 32950685--32950717 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
32950675 TGTATTTATG
32950685 AAAAAAAATAT
1 AAAAAAAATAT
32950696 -AAAAAAATAT
1 AAAAAAAATAT
*
32950706 AAAAAAATTAT
1 AAAAAAAATAT
32950717 A
1 A
32950718 GAGTATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAAAAATAT
Found at i:32951524 original size:30 final size:30
Alignment explanation
Indices: 32951489--32951545 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
32951479 CCAGTCCGGC
*
32951489 CATCGGCCACCGTGCCGGCCATCGGCCAAT
1 CATCGGCCACCGTGCCAGCCATCGGCCAAT
32951519 CATCGGCCACCGTGCCAGCCATCGGCC
1 CATCGGCCACCGTGCCAGCCATCGGCC
32951546 TCCGGCGACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.46, G:0.26, T:0.12
Consensus pattern (30 bp):
CATCGGCCACCGTGCCAGCCATCGGCCAAT
Found at i:32951535 original size:19 final size:18
Alignment explanation
Indices: 32951504--32951551 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
32951494 GCCACCGTGC
* *
32951504 CGGCCATCGGCCAATCAT
1 CGGCCACCGGCCAACCAT
*
32951522 CGGCCACCGTGCCAGCCAT
1 CGGCCACCG-GCCAACCAT
*
32951541 CGGCCTCCGGC
1 CGGCCACCGGC
32951552 GACGGCACCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.15, C:0.46, G:0.27, T:0.12
Consensus pattern (18 bp):
CGGCCACCGGCCAACCAT
Found at i:32961557 original size:3 final size:3
Alignment explanation
Indices: 32961549--32961594 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
32961539 CCTGACTTTC
32961549 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
32961595 CCAGTACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32963237 original size:9 final size:9
Alignment explanation
Indices: 32963152--32963233 Score: 137
Period size: 9 Copynumber: 9.1 Consensus size: 9
32963142 GGTATTTTTC
32963152 GGTAATTCG
1 GGTAATTCG
*
32963161 GTTAATTCG
1 GGTAATTCG
*
32963170 GTTAATTCG
1 GGTAATTCG
32963179 GGTAATTCG
1 GGTAATTCG
32963188 GGTAATTCG
1 GGTAATTCG
32963197 GGTAATTCG
1 GGTAATTCG
32963206 GGTAATTCG
1 GGTAATTCG
32963215 GGTAATTCG
1 GGTAATTCG
*
32963224 GTTAATTCG
1 GGTAATTCG
32963233 G
1 G
32963234 TTAACCGACC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 70 1.00
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:32963368 original size:12 final size:12
Alignment explanation
Indices: 32963351--32963375 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32963341 AGTAATTTCG
32963351 GGTCGGTTAACC
1 GGTCGGTTAACC
32963363 GGTCGGTTAACC
1 GGTCGGTTAACC
32963375 G
1 G
32963376 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:32978958 original size:45 final size:46
Alignment explanation
Indices: 32978890--32978992 Score: 120
Period size: 46 Copynumber: 2.3 Consensus size: 46
32978880 TGAGCCCACA
* *
32978890 TGCCCGTGTGGCTTGCCCATGT-GGTCCACACGCCCAGA-TTGGCCT
1 TGCCCGTGTGGCATGCCCATGTGGGCCCACACGCCCA-ACTTGGCCT
** * *
32978935 TGCCCGTGTGGCATGCCTGTGTGGGCCCACATGCCTAACTTGGCCT
1 TGCCCGTGTGGCATGCCCATGTGGGCCCACACGCCCAACTTGGCCT
*
32978981 AGCCCGTGTGGC
1 TGCCCGTGTGGC
32978993 TCACACGGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 20 0.41
46 29 0.59
ACGTcount: A:0.11, C:0.34, G:0.31, T:0.24
Consensus pattern (46 bp):
TGCCCGTGTGGCATGCCCATGTGGGCCCACACGCCCAACTTGGCCT
Found at i:32979024 original size:29 final size:29
Alignment explanation
Indices: 32978982--32979050 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
32978972 ACTTGGCCTA
32978982 GCCCGTGTGGCTCACACGGCCAAGCACAC
1 GCCCGTGTGGCTCACACGGCCAAGCACAC
32979011 GCCCGTGTGGCTCACACGGCCAAGCACAC
1 GCCCGTGTGGCTCACACGGCCAAGCACAC
32979040 GCCCGTGTGGC
1 GCCCGTGTGGC
32979051 AACGACAGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.17, C:0.41, G:0.30, T:0.12
Consensus pattern (29 bp):
GCCCGTGTGGCTCACACGGCCAAGCACAC
Found at i:32982677 original size:6 final size:6
Alignment explanation
Indices: 32982666--32982702 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
32982656 AATAAACCAT
32982666 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
32982703 TCATAAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:32983007 original size:7 final size:7
Alignment explanation
Indices: 32982990--32983030 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
32982980 GATTTTAAGC
32982990 TTAGAGGT
1 TTAG-GGT
32982998 TTAGGGT
1 TTAGGGT
32983005 TTAGGGT
1 TTAGGGT
*
32983012 TTAGAGT
1 TTAGGGT
32983019 TTAGGGT
1 TTAGGGT
32983026 TTAGG
1 TTAGG
32983031 ATGAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 27 0.87
8 4 0.13
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (7 bp):
TTAGGGT
Found at i:32983007 original size:21 final size:21
Alignment explanation
Indices: 32982983--32983029 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
32982973 ATTGATAGAT
32982983 TTTA-AGCTTAGAGGTTTAGGG
1 TTTAGAGCTTAGA-GTTTAGGG
* *
32983004 TTTAGGGTTTAGAGTTTAGGG
1 TTTAGAGCTTAGAGTTTAGGG
32983025 TTTAG
1 TTTAG
32983030 GATGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.43
Consensus pattern (21 bp):
TTTAGAGCTTAGAGTTTAGGG
Found at i:32983030 original size:21 final size:22
Alignment explanation
Indices: 32982990--32983030 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
32982980 GATTTTAAGC
32982990 TTAGAGGTTTAGGGTTTAGGGT
1 TTAGAGGTTTAGGGTTTAGGGT
32983012 TTAGA-GTTTAGGGTTTAGG
1 TTAGAGGTTTAGGGTTTAGG
32983031 ATGAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (22 bp):
TTAGAGGTTTAGGGTTTAGGGT
Found at i:32983734 original size:99 final size:99
Alignment explanation
Indices: 32983563--32983758 Score: 329
Period size: 99 Copynumber: 2.0 Consensus size: 99
32983553 ATTGCTTCAC
* *
32983563 TATTTCAGCCTCCCTCATCTTCAAGTTCTCAAAATCTCTTCTGAGATTAATAAGTTATTGCTACC
1 TATTTCAGCCTCCCACATCTTCAAGTTCTCAAAATCTCTTCTGAGATTAATAAGTTATTGCTACA
* *
32983628 TGGTCTTGTCTGAACCTTGAAACTCTTCTTTTAG
66 TGGTCTTGTCTAAACCTTGAAACTCCTCTTTTAG
* * *
32983662 TATTTCAGCCTCCCACATCTTCAAGTTCTTAAAATCTCTTTTGAGATTAATAAGTTGTTGCTACA
1 TATTTCAGCCTCCCACATCTTCAAGTTCTCAAAATCTCTTCTGAGATTAATAAGTTATTGCTACA
32983727 TGGTCTTGTCTAAACCTTGAAACTCCTCTTTT
66 TGGTCTTGTCTAAACCTTGAAACTCCTCTTTT
32983759 GGTTTATCCC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 90 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (99 bp):
TATTTCAGCCTCCCACATCTTCAAGTTCTCAAAATCTCTTCTGAGATTAATAAGTTATTGCTACA
TGGTCTTGTCTAAACCTTGAAACTCCTCTTTTAG
Found at i:32988922 original size:12 final size:13
Alignment explanation
Indices: 32988897--32988938 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
32988887 ATTACACCAA
32988897 ATAAAAATT-TAT
1 ATAAAAATTATAT
*
32988909 ATATCAAATTATAT
1 ATA-AAAATTATAT
32988923 ATTAAAAATTATAT
1 A-TAAAAATTATAT
32988937 AT
1 AT
32988939 TATAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 3 0.12
13 6 0.24
14 14 0.56
15 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAAAAATTATAT
Found at i:32988945 original size:28 final size:27
Alignment explanation
Indices: 32988898--32988955 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
32988888 TTACACCAAA
32988898 TAAAAATTTATATATCAAA-TTATATAT
1 TAAAAATTTATATATCAAATTTA-ATAT
32988925 TAAAAATTATATATTAT-AAATTTAATAT
1 TAAAAATT-TATA-TATCAAATTTAATAT
32988953 TAA
1 TAA
32988956 TCGCTACGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 8 0.29
28 14 0.50
29 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
TAAAAATTTATATATCAAATTTAATAT
Found at i:32988952 original size:16 final size:14
Alignment explanation
Indices: 32988914--32988955 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
32988904 TTTATATATC
32988914 AAATTATATATTAA
1 AAATTATATATTAA
*
32988928 AAATTATATATTAT
1 AAATTATATATTAA
32988942 AAATT-TAATATTAA
1 AAATTAT-ATATTAA
32988956 TCGCTACGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 1 0.04
14 24 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTATATATTAA
Found at i:33006079 original size:14 final size:14
Alignment explanation
Indices: 33006060--33006091 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
33006050 GAGTTTGGGG
33006060 GAGAAATAAGGTTA
1 GAGAAATAAGGTTA
33006074 GAGAAATAAGGTTA
1 GAGAAATAAGGTTA
33006088 GAGA
1 GAGA
33006092 CATTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (14 bp):
GAGAAATAAGGTTA
Found at i:33015915 original size:21 final size:21
Alignment explanation
Indices: 33015854--33015915 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
33015844 ATTTGGGGCT
*
33015854 AATTTAAAAATGATTCAAAGATA
1 AATTT-AAAAT-ATTCAAAAATA
* * **
33015877 CATTAAAAATATAGAAAAATA
1 AATTTAAAATATTCAAAAATA
*
33015898 AATTTAAAATATTTAAAA
1 AATTTAAAATATTCAAAA
33015916 TTACCCTTAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 22 0.73
22 5 0.17
23 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
AATTTAAAATATTCAAAAATA
Found at i:33018473 original size:19 final size:20
Alignment explanation
Indices: 33018449--33018489 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
33018439 CCTCCTTCTG
*
33018449 CATGGGCGTG-TGTCCCCCA
1 CATGGGCGTGTTGACCCCCA
*
33018468 CATGGGGGTGTTGACCCCCA
1 CATGGGCGTGTTGACCCCCA
33018488 CA
1 CA
33018490 CGGCTAGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.15, C:0.34, G:0.32, T:0.20
Consensus pattern (20 bp):
CATGGGCGTGTTGACCCCCA
Found at i:33021532 original size:43 final size:43
Alignment explanation
Indices: 33021484--33021588 Score: 176
Period size: 42 Copynumber: 2.5 Consensus size: 43
33021474 TGCGGCAATG
*
33021484 AGGAAAAAAACACCGCTAATGATCATGTTCTTTAGCGGCGCTT
1 AGGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
33021527 -GGGAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 AGGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
33021569 AGGAAAAAACCACCGCTAAA
1 AGGAAAAAAACACCGCTAAA
33021589 AGTAATATTC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 40 0.70
43 17 0.30
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (43 bp):
AGGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:33021673 original size:42 final size:42
Alignment explanation
Indices: 33021508--33021738 Score: 176
Period size: 42 Copynumber: 5.5 Consensus size: 42
33021498 GCTAATGATC
* * * * * *
33021508 ATGTTCTTTAGCGGCGCTTGGGAAAAAACACCGCT-AAAGATC
1 ATGTTCTATAGCGGCGCTTCGTAAAAAACGCCACTAAAAG-TA
* * * * *
33021550 ATGTTCTTTAGCGGCGCTTAGGAAAAAACCACCGCTAAAAGTA
1 ATGTTCTATAGCGGCGCTTCGTAAAAAA-CGCCACTAAAAGTA
* * * * *
33021593 ATATTCTATAGTGGCACTTCGTAAAAAATGCCGCTAAAAGTA
1 ATGTTCTATAGCGGCGCTTCGTAAAAAACGCCACTAAAAGTA
* * * *
33021635 ATGTTCTATAGCGGCGCTTGGTAGAAAACGCTATTAAAAGTA
1 ATGTTCTATAGCGGCGCTTCGTAAAAAACGCCACTAAAAGTA
* * * * * *
33021677 ATGTTCTTTAGCGGCGCTTCATCTACAAACGTCGCTAAAAGTA
1 ATGTTCTATAGCGGCGCTTCGT-AAAAAACGCCACTAAAAGTA
* *
33021720 GTGTTCTTTAGCGGCGCTT
1 ATGTTCTATAGCGGCGCTT
33021739 ATTTCACAAA
Statistics
Matches: 156, Mismatches: 30, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
42 91 0.58
43 61 0.39
44 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (42 bp):
ATGTTCTATAGCGGCGCTTCGTAAAAAACGCCACTAAAAGTA
Found at i:33021750 original size:43 final size:43
Alignment explanation
Indices: 33021624--33021738 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
33021614 TAAAAAATGC
* ** **
33021624 CGCTAAAAGTAATGTTCTATAGCGGCGCTTGGTAGA-AAACG-
1 CGCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACGT
**
33021665 CTATTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACGT
1 C-GCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACGT
*
33021709 CGCTAAAAGTAGTGTTCTTTAGCGGCGCTT
1 CGCTAAAAGTAATGTTCTTTAGCGGCGCTT
33021739 ATTTCACAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
41 1 0.02
42 28 0.46
43 31 0.51
44 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
CGCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACGT
Found at i:33022212 original size:21 final size:21
Alignment explanation
Indices: 33022188--33022240 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
33022178 TCTCTTGCTG
* *
33022188 CTTCTCTCGCTGTAGCTTCTA
1 CTTCTCTCGCTGCAGCCTCTA
*
33022209 CTTCTCTCGCTGCAGCCTCTG
1 CTTCTCTCGCTGCAGCCTCTA
*
33022230 CTTCCCTCGCT
1 CTTCTCTCGCT
33022241 TCCGCCTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.06, C:0.42, G:0.15, T:0.38
Consensus pattern (21 bp):
CTTCTCTCGCTGCAGCCTCTA
Found at i:33027654 original size:9 final size:9
Alignment explanation
Indices: 33027640--33028362 Score: 307
Period size: 9 Copynumber: 82.8 Consensus size: 9
33027630 AAGTTATACA
33027640 TTATGTAAG
1 TTATGTAAG
33027649 TTATGTAAG
1 TTATGTAAG
33027658 TTATGTAAG
1 TTATGTAAG
*
33027667 TTGTGTAAG
1 TTATGTAAG
*
33027676 TTGTGTAAG
1 TTATGTAAG
*
33027685 TTGTGT-A-
1 TTATGTAAG
* *
33027692 TTATGAAAC
1 TTATGTAAG
33027701 TTATGTAAG
1 TTATGTAAG
*
33027710 TTATGT--C
1 TTATGTAAG
33027717 TTATGTAAG
1 TTATGTAAG
*
33027726 TTATGTAAA
1 TTATGTAAG
33027735 TTATGT-A-
1 TTATGTAAG
*
33027742 TTACGTAAG
1 TTATGTAAG
*
33027751 TTATGT--C
1 TTATGTAAG
33027758 TTATGTAAG
1 TTATGTAAG
*
33027767 TTATGTAAA
1 TTATGTAAG
33027776 TTATGT-A-
1 TTATGTAAG
*
33027783 TTACGTAAG
1 TTATGTAAG
33027792 TTATGTAAG
1 TTATGTAAG
*
33027801 TTGTGT-A-
1 TTATGTAAG
*
33027808 TTATATAAG
1 TTATGTAAG
33027817 TTATGTAAG
1 TTATGTAAG
*
33027826 TTCTGT-A-
1 TTATGTAAG
33027833 TTATGTAAG
1 TTATGTAAG
33027842 TTATGTAAG
1 TTATGTAAG
* **
33027851 TTTTTGT-TT
1 -TTATGTAAG
*
33027860 TTGTGT-A-
1 TTATGTAAG
* *
33027867 TTATATAAC
1 TTATGTAAG
* *
33027876 TTATTTAAT
1 TTATGTAAG
*
33027885 TTATGTAGG
1 TTATGTAAG
*
33027894 GTATGTATTA-
1 TTATGTA--AG
*
33027904 TTATGTAAC
1 TTATGTAAG
* *
33027913 TTATTTAAT
1 TTATGTAAG
*
33027922 TTATGTAGG
1 TTATGTAAG
*
33027931 GTATGTAAG
1 TTATGTAAG
33027940 TTATGTAAG
1 TTATGTAAG
* *
33027949 TTGTGTATTAT
1 TTATGTA--AG
33027960 TTGCACATGTAAG
1 TT----ATGTAAG
*
33027973 TTGTGT-A-
1 TTATGTAAG
33027980 TTATGTAAG
1 TTATGTAAG
*
33027989 TTATGCAAG
1 TTATGTAAG
33027998 TTATGT-A-
1 TTATGTAAG
*
33028005 TTAAGT-AG
1 TTATGTAAG
33028013 ATTATGTAAG
1 -TTATGTAAG
33028023 TTATGTAAG
1 TTATGTAAG
*
33028032 TTGTGT-A-
1 TTATGTAAG
*
33028039 TTATTTACA-
1 TTATGTA-AG
*
33028048 -CATGTAAG
1 TTATGTAAG
*
33028056 TTGTGT-A-
1 TTATGTAAG
33028063 TTATGTAAG
1 TTATGTAAG
*
33028072 TTATGCAAG
1 TTATGTAAG
33028081 TTATGT-A-
1 TTATGTAAG
* *
33028088 TTAAGTAGG
1 TTATGTAAG
33028097 TTATGTAAG
1 TTATGTAAG
33028106 TTATGT-A-
1 TTATGTAAG
33028113 TTATGTAAG
1 TTATGTAAG
33028122 TTATGTAAG
1 TTATGTAAG
* **
33028131 TTTTTGT-TT
1 -TTATGTAAG
*
33028140 TTGTGT-A-
1 TTATGTAAG
* *
33028147 TTATATAAC
1 TTATGTAAG
* *
33028156 TTATTTAAT
1 TTATGTAAG
*
33028165 TTATGTAGG
1 TTATGTAAG
*
33028174 GTATGTATTA-
1 TTATGTA--AG
33028184 TTATGTAAG
1 TTATGTAAG
33028193 TTATTATGTAAG
1 ---TTATGTAAG
*
33028205 ATATTATGTAACTTA
1 ---TTATGTAA---G
33028220 TTATGTAAG
1 TTATGTAAG
33028229 TTATGT-A-
1 TTATGTAAG
33028236 TTATGT-A-
1 TTATGTAAG
*
33028243 TTATATAAG
1 TTATGTAAG
*
33028252 TTATGT-AT
1 TTATGTAAG
*
33028260 TTATTTAAG
1 TTATGTAAG
33028269 TTAT-T-A-
1 TTATGTAAG
*
33028275 TTATGTAAA
1 TTATGTAAG
*
33028284 CTATGTAAG
1 TTATGTAAG
* *
33028293 CTATGTACCAT
1 TTATGTA--AG
33028304 TTAT-TAAG
1 TTATGTAAG
*
33028312 TTATGTATG
1 TTATGTAAG
* *
33028321 -TATGTGAC
1 TTATGTAAG
*
33028329 TTTTGTAAG
1 TTATGTAAG
*
33028338 TTATGTGAG
1 TTATGTAAG
*
33028347 TTATGTAAA
1 TTATGTAAG
33028356 TTATGTA
1 TTATGTA
33028363 TTAAATTAAA
Statistics
Matches: 544, Mismatches: 107, Indels: 126
0.70 0.14 0.16
Matches are distributed among these distances:
6 4 0.01
7 89 0.16
8 57 0.10
9 327 0.60
10 26 0.05
11 7 0.01
12 27 0.05
13 3 0.01
15 4 0.01
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:33027719 original size:16 final size:16
Alignment explanation
Indices: 33027700--33027772 Score: 79
Period size: 16 Copynumber: 5.0 Consensus size: 16
33027690 TATTATGAAA
33027700 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
33027716 CTTATGTAAGTTATG-
1 CTTATGTAAGTTATGT
33027731 --TA---AA-TTATGT
1 CTTATGTAAGTTATGT
* *
33027741 ATTACGTAAGTTATGT
1 CTTATGTAAGTTATGT
33027757 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
33027773 AAATTATGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
12 2 0.04
13 2 0.04
15 2 0.04
16 35 0.73
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:33027774 original size:25 final size:25
Alignment explanation
Indices: 33027640--33028272 Score: 296
Period size: 25 Copynumber: 25.2 Consensus size: 25
33027630 AAGTTATACA
33027640 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-A-TTATGTAAG
* * *
33027667 TTGTGTAAGTTGTGTAAGTTGTGT-A-
1 TTATGTAAGTTATGT-A-TTATGTAAG
* * *
33027692 TTATGAAACTTATGTAAGTTATGT--C
1 TTATGTAAGTTATGT-A-TTATGTAAG
33027717 TTATGTAAGTTATGTAAATTATGT-A-
1 TTATGTAAGTTATGT--ATTATGTAAG
* *
33027742 TTACGTAAGTTATGTCTTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* *
33027767 TTATGTAAATTATGTATTACGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* *
33027792 TTATGTAAGTTGTGTATTATATAAG
1 TTATGTAAGTTATGTATTATGTAAG
*
33027817 TTATGTAAGTTCTGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* * *
33027842 TTATGTAAGTTTTTGT-TTTTGTGTA-
1 TTATGTAAG-TTATGTATTATGT-AAG
* * * *
33027867 TTATATAACTTATTTAATTTATGTAGG
1 TTATGTAAGTTATGT-A-TTATGTAAG
* * *
33027894 GTATGTATTA-TTATGTAACTTATTTAAT
1 TTATGTA--AGTTATGT-A-TTATGTAAG
* *
33027922 TTATGTAGGGTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-A-TTATGTAAG
* * *
33027949 TTGTGT-A-TTATTTGCA-CATGTAAG
1 TTATGTAAGTTA--TGTATTATGTAAG
* *
33027973 TTGTGT-A-TTATGTAAGTTATGCAAG
1 TTATGTAAGTTATGT-A-TTATGTAAG
*
33027998 TTATGT-A-TTAAGTAGATTATGTAAG
1 TTATGTAAGTTATGT--ATTATGTAAG
* *
33028023 TTATGTAAGTTGTGTATTATTTACA-
1 TTATGTAAGTTATGTATTATGTA-AG
* *
33028048 -CATGTAAGTTGTGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* * *
33028072 TTATGCAAGTTATGTATTAAGTAGG
1 TTATGTAAGTTATGTATTATGTAAG
33028097 TTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* * *
33028122 TTATGTAAGTTTTTGT-TTTTGTGTA-
1 TTATGTAAG-TTATGTATTATGT-AAG
* * * *
33028147 TTATATAACTTATTTAATTTATGTAGG
1 TTATGTAAGTTATGT-A-TTATGTAAG
* * *
33028174 GTATGT-A-TTAT-TATGTAAGTTA-
1 TTATGTAAGTTATGTAT-TATGTAAG
* ** *
33028196 TTATGTAAGATAT-TATGTAACTTA-
1 TTATGTAAGTTATGTAT-TATGTAAG
33028220 TTATGTAAGTTATGTATTATGT-A-
1 TTATGTAAGTTATGTATTATGTAAG
* *
33028243 TTATATAAGTTATGTATTTATTTAAG
1 TTATGTAAGTTATGTA-TTATGTAAG
33028269 TTAT
1 TTAT
33028273 TATTATGTAA
Statistics
Matches: 475, Mismatches: 93, Indels: 77
0.74 0.14 0.12
Matches are distributed among these distances:
22 8 0.02
23 30 0.06
24 80 0.17
25 248 0.52
26 24 0.05
27 65 0.14
28 19 0.04
29 1 0.00
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.49
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTAAG
Found at i:33027790 original size:16 final size:16
Alignment explanation
Indices: 33027730--33027798 Score: 62
Period size: 16 Copynumber: 4.8 Consensus size: 16
33027720 TGTAAGTTAT
*
33027730 GTAAATTATGTATTAC
1 GTAAGTTATGTATTAC
* *
33027746 GTAAGTTATGTCTTAT
1 GTAAGTTATGTATTAC
33027762 GTAAGTTATG---TA-
1 GTAAGTTATGTATTAC
33027774 --AA-TTATGTATTAC
1 GTAAGTTATGTATTAC
33027787 GTAAGTTATGTA
1 GTAAGTTATGTA
33027799 AGTTGTGTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
9 5 0.12
10 2 0.05
12 2 0.05
13 2 0.05
15 2 0.05
16 30 0.70
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.45
Consensus pattern (16 bp):
GTAAGTTATGTATTAC
Found at i:33027823 original size:41 final size:41
Alignment explanation
Indices: 33027705--33027797 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
33027695 TGAAACTTAT
33027705 GTAAGTTATGTCTTATGTAAGTTATGTAAATTATGTATTAC
1 GTAAGTTATGTCTTATGTAAGTTATGTAAATTATGTATTAC
33027746 GTAAGTTATGTCTTATGTAAGTTATGTAAATTATGTATTAC
1 GTAAGTTATGTCTTATGTAAGTTATGTAAATTATGTATTAC
33027787 GTAAGTTATGT
1 GTAAGTTATGT
33027798 AAGTTGTGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.46
Consensus pattern (41 bp):
GTAAGTTATGTCTTATGTAAGTTATGTAAATTATGTATTAC
Found at i:33027851 original size:34 final size:35
Alignment explanation
Indices: 33027640--33028362 Score: 314
Period size: 34 Copynumber: 20.7 Consensus size: 35
33027630 AAGTTATACA
*
33027640 TTATGTAAGTTATGTAAGTTATGTAAGTTGTGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAA-TTATGTAAG
* * *
33027676 TTGTGTAAGTTGTGT-A-TTATGAAACTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAA-TTATGTAAG
*
33027710 TTATGT--CTTATGTAAGTTATGTAAATTATGT-A-
1 TTATGTAAGTTATGTAAGTTATGT-AATTATGTAAG
* * *
33027742 TTACGTAAGTTATGT--CTTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAGTTATGTAA-TTATGTAAG
* *
33027776 TTATGT-A-TTACGTAAGTTATGTAAGTTGTGT-A-
1 TTATGTAAGTTATGTAAGTTATGTAA-TTATGTAAG
* *
33027808 TTATATAAGTTATGTAAGTTCTGT-ATTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAATTATGTAAG
* ** * * *
33027842 TTATGTAAGTTTTTGT-TTTTGTGT-ATTATATAAC
1 TTATGTAAG-TTATGTAAGTTATGTAATTATGTAAG
* * * * *
33027876 TTATTTAATTTATGTAGGGTATGTATTATTATGTAAC
1 TTATGTAAGTTATGTAAGTTATGTA--ATTATGTAAG
* * * *
33027913 TTATTTAATTTATGTAGGGTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAA-TTATGTAAG
* * *
33027949 TTGTGTATTATTTGCACATGTAAGTTGTGT-ATTATGTAAG
1 TTATGTA--AGTT----ATGTAAGTTATGTAATTATGTAAG
* *
33027989 TTATGCAAGTTATGT-A-TTAAGTAGATTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTA-ATTATGTAAG
* * *
33028023 TTATGTAAGTTGTGT-A-TTATTTACA-CATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTA-ATTATGTAAG
* *
33028056 TTGTGT-A-TTATGTAAGTTATGCAAGTTATGT-A-
1 TTATGTAAGTTATGTAAGTTATGTAA-TTATGTAAG
* *
33028088 TTAAGTAGGTTATGTAAGTTATGT-ATTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAATTATGTAAG
* ** * * *
33028122 TTATGTAAGTTTTTGT-TTTTGTGT-ATTATATAAC
1 TTATGTAAG-TTATGTAAGTTATGTAATTATGTAAG
* * * *
33028156 TTATTTAATTTATGTAGGGTATGTATTATTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTA--ATTATGTAAG
*
33028193 TTATTATGTAAGATATTATGTAACTTATTATGTAAGTTATGT-A-
1 ---TTATGTAAG---TTATGTAA---GTTATGTAA-TTATGTAAG
* * *
33028236 TTATGT-A-TTATATAAGTTATGTATTTATTTAAG
1 TTATGTAAGTTATGTAAGTTATGTAATTATGTAAG
** * *
33028269 TTAT-T-A-TTATGTAAACTATGTAAGCTATGTACCAT
1 TTATGTAAGTTATGTAAGTTATGTAA-TTATGTA--AG
* * *
33028304 TTAT-TAAGTTATGTATG-TATGTGACTTTTGTAAG
1 TTATGTAAGTTATGTAAGTTATGT-AATTATGTAAG
* *
33028338 TTATGTGAGTTATGTAAATTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
33028363 TTAAATTAAA
Statistics
Matches: 523, Mismatches: 103, Indels: 123
0.70 0.14 0.16
Matches are distributed among these distances:
31 12 0.02
32 77 0.15
33 48 0.09
34 189 0.36
35 38 0.07
36 42 0.08
37 50 0.10
38 7 0.01
39 1 0.00
40 27 0.05
41 1 0.00
42 10 0.02
43 7 0.01
44 2 0.00
45 6 0.01
46 6 0.01
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (35 bp):
TTATGTAAGTTATGTAAGTTATGTAATTATGTAAG
Found at i:33027913 original size:37 final size:37
Alignment explanation
Indices: 33027865--33027937 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
33027855 TGTTTTTGTG
33027865 TATTATATAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATATAACTTATTTAATTTATGTAGGGTATGTAT
*
33027902 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATATAACTTATTTAATTTATGTAGGGTATGTA
33027938 AGTTATGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.51
Consensus pattern (37 bp):
TATTATATAACTTATTTAATTTATGTAGGGTATGTAT
Found at i:33028030 original size:83 final size:83
Alignment explanation
Indices: 33027670--33028112 Score: 358
Period size: 83 Copynumber: 5.2 Consensus size: 83
33027660 ATGTAAGTTG
* * * * * *
33027670 TGTAAGTTGTGTAAGTTGTGTATTA-TGAAACTTATGTAAGTTATGTCTTATGTAAGTTATGTAA
1 TGTAAGTTATGTAAGTTGTGTATTATTTACAC--ATGTAAGTTGTGTATTATGTAAGTTATGCAA
* *
33027734 ATTATGTATTACGTAAGTTATGTCTTA
64 GTTATGTA-T---TAAG-TA-G-ATTA
* * ** * * *
33027761 TGTAAGTTATGTAAATTATGTATTACGTA-AGTTATGTAAGTTGTGTATTATATAAGTTATGTAA
1 TGTAAGTTATGTAAGTTGTGTATTATTTACA--CATGTAAGTTGTGTATTATGTAAGTTATGCAA
* *
33027825 GTTCTGTATTATGTA-AGTTA
64 GTTATGTATTAAGTAGA-TTA
* ** * * * * *
33027845 TGTAAGTTTTTGT-TTTTGTGTATTATATA-ACTTATTTAATTTATGTAGGGTATGTATTA-TTA
1 TGTAAG-TTATGTAAGTTGTGTATTATTTACAC--ATGTAAGTTGTGTA--TTATGTA--AGTTA
* * * * **
33027907 TGTAACTTATTTAATTTATGTAGGGTA
59 TGCAAGTTATGT-A-TTAAGTAGATTA
*
33027934 TGTAAGTTATGTAAGTTGTGTATTATTTGCACATGTAAGTTGTGTATTATGTAAGTTATGCAAGT
1 TGTAAGTTATGTAAGTTGTGTATTATTTACACATGTAAGTTGTGTATTATGTAAGTTATGCAAGT
33027999 TATGTATTAAGTAGATTA
66 TATGTATTAAGTAGATTA
33028017 TGTAAGTTATGTAAGTTGTGTATTATTTACACATGTAAGTTGTGTATTATGTAAGTTATGCAAGT
1 TGTAAGTTATGTAAGTTGTGTATTATTTACACATGTAAGTTGTGTATTATGTAAGTTATGCAAGT
*
33028082 TATGTATTAAGTAGGTTA
66 TATGTATTAAGTAGATTA
33028100 TGTAAGTTATGTA
1 TGTAAGTTATGTA
33028113 TTATGTAAGT
Statistics
Matches: 288, Mismatches: 47, Indels: 42
0.76 0.12 0.11
Matches are distributed among these distances:
83 103 0.36
84 34 0.12
85 17 0.06
86 13 0.05
87 15 0.05
88 18 0.06
89 27 0.09
90 3 0.01
91 57 0.20
92 1 0.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (83 bp):
TGTAAGTTATGTAAGTTGTGTATTATTTACACATGTAAGTTGTGTATTATGTAAGTTATGCAAGT
TATGTATTAAGTAGATTA
Found at i:33028070 original size:16 final size:17
Alignment explanation
Indices: 33028049--33028362 Score: 94
Period size: 16 Copynumber: 18.8 Consensus size: 17
33028039 TTATTTACAC
*
33028049 ATGTAAGTTGTGTA-TT
1 ATGTAAGTTATGTAGTT
*
33028065 ATGTAAGTTATGCAAGTT
1 ATGTAAGTTATG-TAGTT
*
33028083 ATGT-A-TTAAGTAGGTT
1 ATGTAAGTTATGTA-GTT
33028099 ATGTAAGTTATGTA-TT
1 ATGTAAGTTATGTAGTT
33028115 ATGTAAGTTATGTAAGTTT
1 ATGTAAGTTATGT-AG-TT
* ** *
33028134 TTGT-TTTTGTGTA-TT
1 ATGTAAGTTATGTAGTT
* * * *
33028149 ATATAACTTATTTAATTT
1 ATGTAAGTTATGT-AGTT
* *
33028167 ATGTAGGGTATGTA-TT
1 ATGTAAGTTATGTAGTT
* *
33028183 AT-TATG-TAAGTTA-TT
1 ATGTAAGTTATG-TAGTT
* *
33028198 ATGTAAGATAT-TATGTA
1 ATGTAAGTTATGTA-GTT
33028215 ACT-T-A-TTATGTAAGTT
1 A-TGTAAGTTATGT-AGTT
33028231 ATGT-A-TTATGTA-TT
1 ATGTAAGTTATGTAGTT
* *
33028245 ATATAAGTTATGTATTT
1 ATGTAAGTTATGTAGTT
*
33028262 ATTTAAGTTAT-TA-TT
1 ATGTAAGTTATGTAGTT
** *
33028277 ATGTAAACTATGTAAGCT
1 ATGTAAGTTATGT-AGTT
*
33028295 ATGTACCATTTAT-TAAGTT
1 ATGTA--AGTTATGT-AGTT
* *
33028314 ATGTATG-TATGTGACTT
1 ATGTAAGTTATGT-AGTT
*
33028331 TTGTAAGTTATGTGAGTT
1 ATGTAAGTTATGT-AGTT
*
33028349 ATGTAAATTATGTA
1 ATGTAAGTTATGTA
33028363 TTAAATTAAA
Statistics
Matches: 223, Mismatches: 45, Indels: 59
0.68 0.14 0.18
Matches are distributed among these distances:
14 8 0.04
15 32 0.14
16 74 0.33
17 36 0.16
18 54 0.24
19 15 0.07
20 4 0.02
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.49
Consensus pattern (17 bp):
ATGTAAGTTATGTAGTT
Found at i:33028198 original size:12 final size:12
Alignment explanation
Indices: 33028181--33028255 Score: 91
Period size: 12 Copynumber: 6.3 Consensus size: 12
33028171 AGGGTATGTA
33028181 TTATTATGTAAG
1 TTATTATGTAAG
33028193 TTATTATGTAAG
1 TTATTATGTAAG
* *
33028205 ATATTATGTAAC
1 TTATTATGTAAG
33028217 TTATTATGTAAG
1 TTATTATGTAAG
*
33028229 TTATGTAT-TATG
1 TTAT-TATGTAAG
*
33028241 -TATTATATAAG
1 TTATTATGTAAG
33028252 TTAT
1 TTAT
33028256 GTATTTATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.06
11 6 0.11
12 42 0.78
13 3 0.06
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:33028268 original size:17 final size:17
Alignment explanation
Indices: 33028236--33028276 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
33028226 AAGTTATGTA
33028236 TTATGTA-TTATATAAG
1 TTATGTATTTATATAAG
*
33028252 TTATGTATTTATTTAAG
1 TTATGTATTTATATAAG
33028269 TTAT-TATT
1 TTATGTATT
33028277 ATGTAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (17 bp):
TTATGTATTTATATAAG
Found at i:33030620 original size:147 final size:147
Alignment explanation
Indices: 33030391--33030693 Score: 507
Period size: 147 Copynumber: 2.1 Consensus size: 147
33030381 AAATCATTTA
* * *
33030391 CGGCGCTTAACAATAAGCGCCACTAATATCAGTACAAACGCAGCAGTTTAACACACATTAGAGTA
1 CGGCACTTAACAATAAGCACCACTAATATCAGTAAAAACGCAGCAGTTTAACACACATTAGAGTA
* * * *
33030456 AAACTTGTGGCGCTTAGAGTAAAAATGCCACTAATAACACGGACAAAATGGCACTGTTATAAGAT
66 AAACTTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACAAAACGGCACCGTTATAAGAT
33030521 AACATTAAACATTTTTG
131 AACATTAAACATTTTTG
* * *
33030538 TGGCACTTAACAATAAGCACCACTAATATTAGTAAAAACGCAGCCGTTTAACACACATTAGAGTA
1 CGGCACTTAACAATAAGCACCACTAATATCAGTAAAAACGCAGCAGTTTAACACACATTAGAGTA
33030603 AAACTTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACAAAACGGCACCGTTATAAGAT
66 AAACTTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACAAAACGGCACCGTTATAAGAT
33030668 AACATTAAACATTTTTG
131 AACATTAAACATTTTTG
*
33030685 CGGCGCTTA
1 CGGCACTTA
33030694 TTGTACAAAC
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (147 bp):
CGGCACTTAACAATAAGCACCACTAATATCAGTAAAAACGCAGCAGTTTAACACACATTAGAGTA
AAACTTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACAAAACGGCACCGTTATAAGAT
AACATTAAACATTTTTG
Found at i:33030638 original size:73 final size:73
Alignment explanation
Indices: 33030408--33030638 Score: 204
Period size: 73 Copynumber: 3.2 Consensus size: 73
33030398 TAACAATAAG
*
33030408 CGCCACTAATATCAGTACAAACGCAGCAGTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAG
1 CGCCACTAATATCAGTAAAAACGCAGCAGTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAG
33030473 AGTAAAAA
66 AGTAAAAA
* * * * * * * ***
33030481 TGCCACTAATAACACGGACAAAATGGCA-CTGTTATAAGATAACATTA-A--ACATTTTTGTGGC
1 CGCCACTAATATCA-GTA-AAAA-CGCAGCAGTT-TAACA-CACATTAGAGTA-AAACTTGTGGC
* * *
33030542 ACTTA-A-CAATAAG
60 GCTTAGAGTAA-AAA
* * *
33030555 CACCACTAATATTAGTAAAAACGCAGCCGTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAG
1 CGCCACTAATATCAGTAAAAACGCAGCAGTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAG
33030620 AGTAAAAA
66 AGTAAAAA
33030628 CGCCACTAATA
1 CGCCACTAATA
33030639 ACACGAACAA
Statistics
Matches: 115, Mismatches: 30, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
70 6 0.05
71 8 0.07
72 20 0.17
73 30 0.26
74 18 0.16
75 19 0.17
76 8 0.07
77 6 0.05
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (73 bp):
CGCCACTAATATCAGTAAAAACGCAGCAGTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAG
AGTAAAAA
Found at i:33030660 original size:75 final size:75
Alignment explanation
Indices: 33030436--33030660 Score: 205
Period size: 75 Copynumber: 3.0 Consensus size: 75
33030426 AAACGCAGCA
* *
33030436 GTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAGAGTAAAAATGCCACTAATAACACGGACA
1 GTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACA
* *
33030501 AAATGGCACT
66 AAACGGCACC
* * *** * * * * **
33030511 GTTATAAGATAACATTA-A--ACATTTTTGTGGCACTTA-A-CAATAAGCACCACTAATATTA-G
1 GTT-TAACA-CACATTAGAGTA-AAACTTGTGGCGCTTAGAGTAA-AAACGCCACTAATAACACG
*
33030570 TA-AAAAC-GCAGCC
62 AACAAAACGGCA-CC
33030583 GTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACA
1 GTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACA
33030648 AAACGGCACC
66 AAACGGCACC
33030658 GTT
1 GTT
33030661 ATAAGATAAC
Statistics
Matches: 110, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
70 6 0.05
71 8 0.07
72 20 0.18
73 19 0.17
74 18 0.16
75 25 0.23
76 8 0.07
77 6 0.05
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (75 bp):
GTTTAACACACATTAGAGTAAAACTTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACA
AAACGGCACC
Found at i:33030690 original size:75 final size:75
Alignment explanation
Indices: 33030460--33030693 Score: 214
Period size: 75 Copynumber: 3.2 Consensus size: 75
33030450 AGAGTAAAAC
* * * *
33030460 TTGTGGCGCTTAGAGTAAAAATGCCACTAATAACACGGACAAAATGGCACTGTTATAAGATAACA
1 TTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACAAAACGGCACCGTTATAAGATAACA
33030525 TTAAACATTT
66 TTAAACATTT
* * * * ** * * *
33030535 TTGTGGCACTTA-A-CAATAAGCACCACTAATATTA-GTA-AAAAC-GCAGCCGTT-TAACA-CA
1 TTGTGGCGCTTAGAGTAA-AAACGCCACTAATAACACGAACAAAACGGCA-CCGTTATAAGATAA
***
33030593 CATTAGAGTA-AAAC
64 CATTA-A--ACATTT
33030607 TTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACAAAACGGCACCGTTATAAGATAACA
1 TTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACAAAACGGCACCGTTATAAGATAACA
33030672 TTAAACATTT
66 TTAAACATTT
*
33030682 TTGCGGCGCTTA
1 TTGTGGCGCTTA
33030694 TTGTACAAAC
Statistics
Matches: 118, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
70 6 0.05
71 8 0.07
72 20 0.17
73 19 0.16
74 18 0.15
75 33 0.28
76 8 0.07
77 6 0.05
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (75 bp):
TTGTGGCGCTTAGAGTAAAAACGCCACTAATAACACGAACAAAACGGCACCGTTATAAGATAACA
TTAAACATTT
Found at i:33031019 original size:115 final size:115
Alignment explanation
Indices: 33030813--33031051 Score: 379
Period size: 115 Copynumber: 2.1 Consensus size: 115
33030803 AAATATTTGT
*
33030813 GGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACCGCACCGTCTTTGTTACAGTTAAAG
1 GGCGTTTTTAAAATGCGCCACAAAAAGAAAACAACAAAACCGCACCGTCTTTGTTACAGTTAAAG
** *
33030878 GAAATTTGCGGCGTTTCTTCGTAAAACGCCAGTAAGATATCACCTTTAGC
66 GAAATTTGCGGCGTTTCTTCACAAAACACCAGTAAGATATCACCTTTAGC
* * * *
33030928 GGCGTTTTTCAAATGCGCCACAAAAAGCAAACAACAAAACGGCACCGTCTTTGTTACGGTTAAAG
1 GGCGTTTTTAAAATGCGCCACAAAAAGAAAACAACAAAACCGCACCGTCTTTGTTACAGTTAAAG
* * *
33030993 GAAATTTGCGGTGTTTCTTTACAAAACACCAGTAATATATCACCTTTAGC
66 GAAATTTGCGGCGTTTCTTCACAAAACACCAGTAAGATATCACCTTTAGC
33031043 GGCGTTTTT
1 GGCGTTTTT
33031052 TCTGAAGCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (115 bp):
GGCGTTTTTAAAATGCGCCACAAAAAGAAAACAACAAAACCGCACCGTCTTTGTTACAGTTAAAG
GAAATTTGCGGCGTTTCTTCACAAAACACCAGTAAGATATCACCTTTAGC
Found at i:33031894 original size:50 final size:50
Alignment explanation
Indices: 33031747--33031991 Score: 212
Period size: 50 Copynumber: 4.8 Consensus size: 50
33031737 TAACAACACA
* * ** * *
33031747 CCAAAGCCATGTCCCAGACATGGTCTTACCTGGGATGTTTCATGTAC--TG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTG
* * * ** *
33031796 CCAATGCCATATCCCAGATATGGTCTT-CTATGAGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGGTG
*
33031846 CTC-ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTG
1 C-CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
33031896 CCAACGCCATGTCCCTA-ACATGGCCTTACATGGGACCTCTCATGATCTCAAGGATG
1 CCAATGCCATGTCCC-AGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TG
* *
33031952 CCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33031992 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 23, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
48 2 0.01
49 35 0.22
50 76 0.48
51 3 0.02
53 4 0.03
55 3 0.02
56 36 0.23
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:33039565 original size:56 final size:51
Alignment explanation
Indices: 33039300--33039595 Score: 273
Period size: 50 Copynumber: 5.8 Consensus size: 51
33039290 AATAATAACA
* ** *
33039300 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TC-ATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCT-CGG
* * * * * * ** *
33039348 TACCAATGTCATATCCTAGATATGGTCTTACATGGGAGTTCTC-ATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGG
* * * * **
33039398 TGCCCATGCCATGTTCTAGACATGGTCTTACGGGGGACCTCTC-ATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGG
*
33039448 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCG-TCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGG
*
33039498 TGCCAACGCCATGTCCCTGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--GATCTC--GG
* * *
33039553 ATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33039596 TTACCCAAAT
Statistics
Matches: 205, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
48 33 0.16
49 5 0.02
50 122 0.60
52 1 0.00
53 4 0.02
55 2 0.01
56 38 0.19
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (51 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGG
Found at i:33041250 original size:23 final size:24
Alignment explanation
Indices: 33041211--33041268 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 24
33041201 CTCCAAAAGT
33041211 TACCAA-ATTAGAAGCTAAGC-A-CA
1 TACCAACATTAG--GCTAAGCTACCA
33041234 TACCAAGCATTAGGCTAAGCTACCA
1 TACCAA-CATTAGGCTAAGCTACCA
33041259 TACCAACATT
1 TACCAACATT
33041269 GCCTCAACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 13 0.42
24 5 0.16
25 13 0.42
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (24 bp):
TACCAACATTAGGCTAAGCTACCA
Found at i:33042955 original size:14 final size:14
Alignment explanation
Indices: 33042936--33042966 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33042926 TATCTTCTTC
*
33042936 TTTTATTTCTTTCT
1 TTTTATTTCTTTAT
33042950 TTTTATTTCTTTAT
1 TTTTATTTCTTTAT
33042964 TTT
1 TTT
33042967 CTAATTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTCTTTAT
Found at i:33057389 original size:44 final size:43
Alignment explanation
Indices: 33057294--33057647 Score: 214
Period size: 44 Copynumber: 8.2 Consensus size: 43
33057284 GAAAAGCAAG
* *
33057294 TCTTATCCCCTTGAAGTTGCAGTGGAGCAGA-CAAAA-CAAACCA-A
1 TCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAATC--A-CAGA
*
33057338 TCCTATCTCCATGAAGTTG-ACGTGGAGCAGATTAAAATCACAGA
1 TCTTATCTCC-TGAAGTTGCA-GTGGAGCAGATTAAAATCACAGA
* * * ***
33057382 TCTTATCTCTTTGAAGTTGCAGTAGAGAAGA-TCGCATC-CAG-
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGA
**
33057423 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGA-CACCA-A
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-CAGA
* * * * **
33057467 TCCTATCTCTTTAAAGTTGCAGTGGAGCGGATTAAAATCATGGA
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGA
* * ***
33057511 TCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-TCGCATC-CAG-
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGA
** *
33057552 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGA-AACCA-A
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-CAGA
* * *
33057596 TCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACATA
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGA
33057640 TCTTATCT
1 TCTTATCT
33057648 ATTCTAAGTT
Statistics
Matches: 236, Mismatches: 50, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
41 53 0.22
42 7 0.03
43 19 0.08
44 151 0.64
45 5 0.02
46 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGA
Found at i:33057448 original size:85 final size:85
Alignment explanation
Indices: 33057341--33057665 Score: 234
Period size: 85 Copynumber: 3.8 Consensus size: 85
33057331 AAACCAATCC
*
33057341 TATCTCCATGAAGTTG-ACGTGGAGCAGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCA-GTGGAGCAGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAGT
* *
33057405 AGAGAAGATCGCATCCAGTCT
65 AGAGAAGATAGAATCCAGTCT
** * *
33057426 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGA-CACCA-ATCCTATCTCTTTAAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-CAGATCTTATCTCTTTGAAGTTGCAG
* ** *
33057489 TGGAGCGGATTAAAAT-CATGGATCT
64 TAGAGAAGA-TAGAATCCA--G-TCT
* * * *** **
33057514 TATCTCTCTGAAGTTGTAGTAGAGCAGA-TCGCATC-CAG-TCTTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAGT-
* * * * *
33057576 GAGCAGACGAAAGAAACCAATCC
65 -AG-AGAAGATAGAATCCAGTCT
* * * * *
33057599 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCACATATCTTATCTATTCT-AAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTT-TGAAGTTGCAGT
33057663 AGA
65 AGA
33057666 TCAGTTCGCA
Statistics
Matches: 182, Mismatches: 41, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
85 108 0.59
86 14 0.08
87 8 0.04
88 51 0.28
89 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTTTGAAGTTGCAGTA
GAGAAGATAGAATCCAGTCT
Found at i:33057703 original size:129 final size:129
Alignment explanation
Indices: 33057292--33057677 Score: 557
Period size: 129 Copynumber: 3.0 Consensus size: 129
33057282 AAGAAAAGCA
* *
33057292 AGTCTTATC-CCCTTGAAGTTGCAGTGGAGCAGACAAAACAAACCAATCCTATCTC-CATGAAGT
1 AGTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACGAAAGAAACCAATCCTATCTCTC-TGAAGT
* *
33057355 TG-ACGTGGAGCAGATTAAAATCACAGATCTTATCTCTT-TGAAGTTGCAGTAGAGAAGATCGCA
64 TGCA-GTGGAGCGGATTAAAATCACAGATCTTATCT-TTCTGAAGTTGCAGTAGAGCAGATCGCA
33057418 TCC
127 TCC
* * *
33057421 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGACACCAATCCTATCTCTTTAAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACCAATCCTATCTCTCTGAAGTTG
** * *
33057486 CAGTGGAGCGGATTAAAATCATGGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCC
66 CAGTGGAGCGGATTAAAATCACAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCGCATCC
33057550 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACCAATCCTATCTCTCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACCAATCCTATCTCTCTGAAGTTG
* * * *
33057615 CAGTGGAGCGGATTAAAATCACATATCTTATCTATTCT-AAGTTACAGTAGATCAGTTCGCATC
66 CAGTGGAGCGGATTAAAATCACAGATCTTATCT-TTCTGAAGTTGCAGTAGAGCAGATCGCATC
33057678 AGATTTTATT
Statistics
Matches: 230, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
128 1 0.00
129 222 0.97
130 7 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (129 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACCAATCCTATCTCTCTGAAGTTG
CAGTGGAGCGGATTAAAATCACAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCGCATCC
Found at i:33057988 original size:44 final size:44
Alignment explanation
Indices: 33057861--33057994 Score: 180
Period size: 44 Copynumber: 3.0 Consensus size: 44
33057851 TGGAACAAAC
* * * *
33057861 TGAAGATAACAAACCTTATCTCCCTGAAGTTGTAGTGGATCAAAT
1 TGAAGAT-ACTAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
33057906 TGAAGATACTAATCTTATCTCCCTGAAGTTGCT-GTGGAGCAGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTG-TAGTGGAGCAGAT
* * *
33057950 TGAAGCTACTAATCTTATCTCCTTGAAGTTGTAGTGGAGCGGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
33057994 T
1 T
33057995 AAAACGATGA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
43 1 0.01
44 71 0.89
45 8 0.10
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
TGAAGATACTAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
Found at i:33058008 original size:44 final size:44
Alignment explanation
Indices: 33057875--33058011 Score: 129
Period size: 44 Copynumber: 3.1 Consensus size: 44
33057865 GATAACAAAC
* * * *
33057875 CTTATCTCCCTGAAGTTG-TAGTGGATCAAATTGAAGA-TACTAAT
1 CTTATCTCCCTGAAGTTGCT-GTGGAGCAGATT-AAAACGACTAAT
* * *
33057919 CTTATCTCCCTGAAGTTGCTGTGGAGCAGATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCTGTGGAGCAGATTAAAACGACTAAT
* *
33057963 CTTATCTCCTTGAAGTTG-TAGTGGAGCGGATTAAAACGA-TGAAT
1 CTTATCTCCCTGAAGTTGCT-GTGGAGCAGATTAAAACGACT-AAT
33058007 CTTAT
1 CTTAT
33058012 ACCTTTAAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
43 3 0.04
44 75 0.95
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCTGTGGAGCAGATTAAAACGACTAAT
Found at i:33058595 original size:15 final size:15
Alignment explanation
Indices: 33058552--33058595 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
33058542 CAAATACCCA
33058552 CTAAACCCAATTAAC
1 CTAAACCCAATTAAC
*
33058567 CT-AGCCC-A--AAC
1 CTAAACCCAATTAAC
33058578 CTAAACCCAATTAAC
1 CTAAACCCAATTAAC
33058593 CTA
1 CTA
33058596 GCCTGGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
11 5 0.22
12 4 0.17
13 2 0.09
14 4 0.17
15 8 0.35
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.18
Consensus pattern (15 bp):
CTAAACCCAATTAAC
Found at i:33071013 original size:16 final size:17
Alignment explanation
Indices: 33070992--33071025 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
33070982 GTGATAGATC
33070992 TCCGA-CAAGCTTCCAA
1 TCCGACCAAGCTTCCAA
33071008 TCCGACCAAGCTTCCAA
1 TCCGACCAAGCTTCCAA
33071025 T
1 T
33071026 AATCTGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.21
Consensus pattern (17 bp):
TCCGACCAAGCTTCCAA
Found at i:33071980 original size:40 final size:40
Alignment explanation
Indices: 33071929--33072114 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
33071919 TAGACCGAAC
*
33071929 ACACCAGACAGAAGCTCATAAGAGCTGATCCAACCGAAAT
1 ACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGAAAT
* * *
33071969 ACACCAAACAGAAGCTCATAAGAGCTGGTCCACCCGAAAC
1 ACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGAAAT
** *
33072009 ATGCC-AACAGAAGTTCATAAGAGCTGATCCAACCGAAAT
1 ACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGAAAT
* * * *
33072048 ACGCCAAACAGAAGCTCATAAGAGTTGGTCC-ACCTAAA-
1 ACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGAAAT
* *
33072086 ACACGCCAACAGAAGCTCGTAAGAGCTGA
1 ACAC-CAAACAGAAGCTCATAAGAGCTGA
33072115 ACAGAAGCTC
Statistics
Matches: 124, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
38 3 0.02
39 60 0.48
40 61 0.49
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.13
Consensus pattern (40 bp):
ACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGAAAT
Found at i:33072055 original size:79 final size:79
Alignment explanation
Indices: 33071926--33072114 Score: 297
Period size: 79 Copynumber: 2.4 Consensus size: 79
33071916 CACTAGACCG
*
33071926 AACACACCAGACAGAAGCTCATAAGAGCTGATCCAACCGAAATACACCAAACAGAAGCTCATAAG
1 AACACGCCA-ACAGAAGCTCATAAGAGCTGATCCAACCGAAATACACCAAACAGAAGCTCATAAG
*
33071991 AGCTGGTCCACCCGA
65 AGCTGGTCCACCCAA
* * *
33072006 AACATGCCAACAGAAGTTCATAAGAGCTGATCCAACCGAAATACGCCAAACAGAAGCTCATAAGA
1 AACACGCCAACAGAAGCTCATAAGAGCTGATCCAACCGAAATACACCAAACAGAAGCTCATAAGA
* *
33072071 GTTGGTCCACCTAA
66 GCTGGTCCACCCAA
*
33072085 AACACGCCAACAGAAGCTCGTAAGAGCTGA
1 AACACGCCAACAGAAGCTCATAAGAGCTGA
33072115 ACAGAAGCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 92 0.93
80 7 0.07
ACGTcount: A:0.41, C:0.28, G:0.19, T:0.13
Consensus pattern (79 bp):
AACACGCCAACAGAAGCTCATAAGAGCTGATCCAACCGAAATACACCAAACAGAAGCTCATAAGA
GCTGGTCCACCCAA
Found at i:33072119 original size:21 final size:21
Alignment explanation
Indices: 33072093--33072134 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33072083 AAAACACGCC
*
33072093 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
*
33072114 AACAGAAGCTCATAAGTGCTG
1 AACAGAAGCTCATAAGAGCTG
33072135 CTCCATTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:33081987 original size:10 final size:10
Alignment explanation
Indices: 33081972--33081997 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33081962 AATCAATATA
33081972 AGAGTGGTTT
1 AGAGTGGTTT
33081982 AGAGTGGTTT
1 AGAGTGGTTT
33081992 AGAGTG
1 AGAGTG
33081998 TTTTTATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (10 bp):
AGAGTGGTTT
Found at i:33094217 original size:21 final size:22
Alignment explanation
Indices: 33094170--33094217 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
33094160 AAAATAATTA
33094170 GAATTAAAAATTTTATGTTAAG
1 GAATTAAAAATTTTATGTTAAG
* *
33094192 TAATT-AAAA-TTTAGTGTTCAG
1 GAATTAAAAATTTTA-TGTTAAG
33094213 GAATT
1 GAATT
33094218 TATTTGGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 4 0.18
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (22 bp):
GAATTAAAAATTTTATGTTAAG
Found at i:33105632 original size:83 final size:83
Alignment explanation
Indices: 33105493--33105659 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
33105483 GCAATGTGGT
33105493 TAGACTTTGATCGATTATTACTGTGGTCCTCATGAAATTTTATGGGTTTAGTTTTCTAGCACTTT
1 TAGACTTTGATCGATTATTACTGTGGTCCTCATGAAATTTTATGGGTTTAGTTTTCTAGCACTTT
*
33105558 TGATAGATGTTATAATTA
66 TGATAGATGTTACAATTA
33105576 TAGACTTTGATCGATTATTACTGTGGTCCTCATGAAATTTTATGGGTTTAGTTTTCTAGCACTTT
1 TAGACTTTGATCGATTATTACTGTGGTCCTCATGAAATTTTATGGGTTTAGTTTTCTAGCACTTT
33105641 TGATAGATGTTACAATTA
66 TGATAGATGTTACAATTA
33105659 T
1 T
33105660 TTCATTGGTA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (83 bp):
TAGACTTTGATCGATTATTACTGTGGTCCTCATGAAATTTTATGGGTTTAGTTTTCTAGCACTTT
TGATAGATGTTACAATTA
Found at i:33110008 original size:19 final size:20
Alignment explanation
Indices: 33109977--33110036 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
33109967 TAAAAAACAA
*
33109977 ATTTTAGAATTTTTATAAA-T
1 ATTTTA-AATTTTTAAAAATT
33109997 ATTTTAAA-TTTTAAAAATT
1 ATTTTAAATTTTTAAAAATT
* *
33110016 ATTTTCAATTTTTGAAAATT
1 ATTTTAAATTTTTAAAAATT
33110036 A
1 A
33110037 ATTTGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.23
19 10 0.29
20 17 0.49
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTTAAATTTTTAAAAATT
Found at i:33110033 original size:20 final size:18
Alignment explanation
Indices: 33109984--33110047 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
33109974 CAAATTTTAG
33109984 AATTTTTATAAA-TATTTT
1 AATTTTTA-AAATTATTTT
*
33110002 AAATTTTAAAAATTATTTT
1 -AATTTTTAAAATTATTTT
*
33110021 CAATTTTTGAAAATTAATTT
1 -AATTTTT-AAAATTATTTT
*
33110041 GATTTTT
1 AATTTTT
33110048 TTTTGTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 3 0.08
19 25 0.66
20 10 0.26
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (18 bp):
AATTTTTAAAATTATTTT
Found at i:33110814 original size:3 final size:3
Alignment explanation
Indices: 33110806--33110837 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
33110796 ATTCGATCCT
33110806 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33110838 TAATTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:33111579 original size:27 final size:27
Alignment explanation
Indices: 33111549--33111611 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
33111539 GGAATGTGTA
*
33111549 AAAAAAACATAAATAT-AAAT-AGACATG
1 AAAAAAA-ATAAAAATGAAATAAGA-ATG
*
33111576 AAAATAAATAAAAATGAAATAAGAATG
1 AAAAAAAATAAAAATGAAATAAGAATG
*
33111603 AATAAAAAT
1 AAAAAAAAT
33111612 TATACAAGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 7 0.23
27 20 0.67
28 3 0.10
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.19
Consensus pattern (27 bp):
AAAAAAAATAAAAATGAAATAAGAATG
Found at i:33112424 original size:148 final size:147
Alignment explanation
Indices: 33112215--33112484 Score: 380
Period size: 148 Copynumber: 1.8 Consensus size: 147
33112205 ACTCAAAAAA
* ** * * *
33112215 TTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTTAACATTTTAAACTTTCCTTTAAAATG
1 TTATTTCGAAATAGTTAAAAAAAATAAAAAAATTGTTTTAAAATTTTAAACTTTCCCTTAAAAAG
** * *
33112280 ACTTGAAAAACAGATTTTTATTTTTCAAAATCTGAACTTTCTC-CTTTTAAAAAAAACTATATTT
66 ACTAAAAAAACAGATTTTTATTTTTCAAAATCTAAACATTCTCTCTTTTAAAAAAAACTATATTT
33112344 CTTAAAGATTAAAAATT
131 CTTAAAGATTAAAAATT
* *
33112361 TTATTTTGAAATAGTTGAAAAAAATAAAAAAAATTGTTTTAAAAATTTTAAACTTTCCCTTAAAA
1 TTATTTCGAAATAGTTAAAAAAAAT-AAAAAAATTGTTTT-AAAATTTTAAACTTTCCCTTAAAA
* * *
33112426 AGACTAAAAAAACATATTTTTATTTTTTAAAATCTAAACATTCTCTTTTTTAAAAAAAA
64 AGACTAAAAAAACAGATTTTTATTTTTCAAAATCTAAACATTCTCTCTTTTAAAAAAAA
33112485 AATCAAAACT
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
146 23 0.22
147 11 0.10
148 60 0.57
149 12 0.11
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (147 bp):
TTATTTCGAAATAGTTAAAAAAAATAAAAAAATTGTTTTAAAATTTTAAACTTTCCCTTAAAAAG
ACTAAAAAAACAGATTTTTATTTTTCAAAATCTAAACATTCTCTCTTTTAAAAAAAACTATATTT
CTTAAAGATTAAAAATT
Found at i:33113357 original size:42 final size:42
Alignment explanation
Indices: 33113306--33113820 Score: 688
Period size: 42 Copynumber: 12.3 Consensus size: 42
33113296 CTTCATATAC
* * *
33113306 AATGCAATGAAAAGTAAATGGACTTCCACACTTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * ** *
33113348 AATTCAATGAAAATTAAACAGACCTCCACACCTGGGTCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* **
33113390 AATGCAATGAAAAGCAAATGGACCTCCACACCTAAGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
33113432 AATGCAATAAAAAGCAAATAGACCTCCACACCTGGGTCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
33113474 AATGCAATGAAAAGTGAATGGACCTCCACACCTAGGTCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
33113516 AATGCAATGAAAAGTGAATGGACCTCCATACCTGCGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
33113558 AATGCAATGAAAAGTAAACGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* ***
33113600 AATGCAACGAAAAGTAAATGGACCTCCACACCTGGATATCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
33113642 AATGCAATGAAAAGTAAATGGACCTCTACACTTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
** *
33113684 AATGCAATGAAAAGTAAACAGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * **
33113726 AATGCAACGAAAAGTAAATGGACCTCCACACCTAGATCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
33113768 AATGCAATGAAAAGTAAATGGGCCTCGACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
33113810 AATGCAATGAA
1 AATGCAATGAA
33113821 TGCTTTCCTT
Statistics
Matches: 410, Mismatches: 63, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 410 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:33122377 original size:19 final size:17
Alignment explanation
Indices: 33122335--33122377 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
33122325 TTTTATTCTC
33122335 AATTCATCAACAAATAT
1 AATTCATCAACAAATAT
33122352 -ATCTCATCATACATAATAT
1 AAT-TCATCA-ACA-AATAT
33122371 AATTCAT
1 AATTCAT
33122378 GAAATTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.09
17 6 0.27
18 3 0.14
19 9 0.41
20 2 0.09
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTCATCAACAAATAT
Found at i:33124718 original size:21 final size:21
Alignment explanation
Indices: 33124694--33124735 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33124684 ATCCAAATCT
*
33124694 GATTTTATTAAAGAGAAATTA
1 GATTTCATTAAAGAGAAATTA
*
33124715 GATTTCGTTAAAGAGAAATTA
1 GATTTCATTAAAGAGAAATTA
33124736 CAAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (21 bp):
GATTTCATTAAAGAGAAATTA
Found at i:33128215 original size:30 final size:31
Alignment explanation
Indices: 33128154--33128215 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
33128144 TACTTTTCTT
* * *
33128154 AAAAATTAAAACTTTATTTCGAAATAGTTAA
1 AAAAATCAAAACTTTATTTCGAAAAACTTAA
*
33128185 AAAAATCAAAACTTTATTT-TAAAAACTTAA
1 AAAAATCAAAACTTTATTTCGAAAAACTTAA
33128215 A
1 A
33128216 CTTTCCTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (31 bp):
AAAAATCAAAACTTTATTTCGAAAAACTTAA
Found at i:33128286 original size:148 final size:148
Alignment explanation
Indices: 33128101--33128433 Score: 428
Period size: 148 Copynumber: 2.3 Consensus size: 148
33128091 GGCCGGATTT
* * * * *
33128101 TTTTTTTTTTTGCAAAATC-AAAGTTT-T-C-TTTAGAAAAAATCATTACTTTTCTTAAAAATTA
1 TTTTTATTTTT-CAAAATCTAAAATTTCTACTTTTAAAAAAAAACACTACTTTTCTTAAAAATTA
33128162 AAAC-TTTATTTCGAAATAGTT-AAAAAAATCAAAACTTTATTTTAAAAACTTAAACTTTCCTTT
65 AAACTTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAAACTTAAACTTTCCTTT
33128225 AAAAAGACTTAAAAAATAG-A
130 AAAAAGAC-TAAAAAA-AGTA
* * * *
33128245 TTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTAAAAAAAAACACTATTTTTCTTAAAGATTAA
1 TTTTTATTTTTCAAAATCTAAAATTTCTACTTTTAAAAAAAAACACTACTTTTCTTAAAAATTAA
* * * **
33128310 AACTTTTATTTGGAAATAGTTGAAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTTCCTTTA
66 AACTTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAAACTTAAACTTTCCTTTA
* *
33128375 AAATGACTAAAAAACGTA
131 AAAAGACTAAAAAAAGTA
* *
33128393 TTTTTATTTTTTAAAATCTAAAATTTCTATTTTTAAAAAAA
1 TTTTTATTTTTCAAAATCTAAAATTTCTACTTTTAAAAAAA
33128434 TCAAAACTTT
Statistics
Matches: 164, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
143 7 0.04
144 16 0.10
145 1 0.01
146 1 0.01
147 33 0.20
148 61 0.37
149 45 0.27
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (148 bp):
TTTTTATTTTTCAAAATCTAAAATTTCTACTTTTAAAAAAAAACACTACTTTTCTTAAAAATTAA
AACTTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAAACTTAAACTTTCCTTTA
AAAAGACTAAAAAAAGTA
Found at i:33147151 original size:2 final size:2
Alignment explanation
Indices: 33147144--33147190 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
33147134 TGCTAAAATA
33147144 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
33147186 CT CT C
1 CT CT C
33147191 ACTTCTAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:33153469 original size:14 final size:14
Alignment explanation
Indices: 33153408--33153508 Score: 57
Period size: 14 Copynumber: 7.1 Consensus size: 14
33153398 CTTTCTTCCT
33153408 AAATTCTCAATCTTC
1 AAATT-TCAATCTTC
*
33153423 AATATTT-AATC-CC
1 AA-ATTTCAATCTTC
* *
33153436 CAATTTCCAAT-TTT
1 AAATTT-CAATCTTC
33153450 ATAATTTCAATCTTC
1 A-AATTTCAATCTTC
* *
33153465 AAATTTTAATTTTC
1 AAATTTCAATCTTC
* *
33153479 AATTTTCAATTTTC
1 AAATTTCAATCTTC
*
33153493 -AATTTCGAATTTTC
1 AAATTTC-AATCTTC
33153507 AA
1 AA
33153509 TCCTCAAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
12 4 0.06
13 7 0.10
14 41 0.61
15 12 0.18
16 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.01, T:0.48
Consensus pattern (14 bp):
AAATTTCAATCTTC
Found at i:33153477 original size:6 final size:7
Alignment explanation
Indices: 33153436--33153509 Score: 73
Period size: 7 Copynumber: 10.6 Consensus size: 7
33153426 ATTTAATCCC
*
33153436 CAATTTC
1 CAATTTT
33153443 CAATTTT
1 CAATTTT
*
33153450 -ATAATTT
1 CA-ATTTT
*
33153457 CAATCTT
1 CAATTTT
33153464 CAAATTTT
1 C-AATTTT
33153472 -AATTTT
1 CAATTTT
33153478 CAATTTT
1 CAATTTT
33153485 CAATTTT
1 CAATTTT
33153492 CAA-TTT
1 CAATTTT
33153498 CGAATTTT
1 C-AATTTT
33153506 CAAT
1 CAAT
33153510 CCTCAAATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
6 11 0.20
7 35 0.62
8 10 0.18
ACGTcount: A:0.32, C:0.15, G:0.01, T:0.51
Consensus pattern (7 bp):
CAATTTT
Found at i:33153515 original size:21 final size:20
Alignment explanation
Indices: 33153475--33153515 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
33153465 AAATTTTAAT
**
33153475 TTTCAATTTTCAATTTTCAA
1 TTTCAATTTTCAATCCTCAA
33153495 TTTCGAATTTTCAATCCTCAA
1 TTTC-AATTTTCAATCCTCAA
33153516 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTCAATTTTCAATCCTCAA
Found at i:33156938 original size:41 final size:41
Alignment explanation
Indices: 33156881--33157067 Score: 266
Period size: 41 Copynumber: 4.6 Consensus size: 41
33156871 ATGAAGTAAT
*
33156881 CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
33156922 CCAGACATTACATCTAGCAGGCTTGATGCCGATGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
33156963 CCAGACATTACGTTTAGCAGGCTTGATGCCAGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
33157004 CCAGACTTTACTTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * * * *
33157045 TCAAACTTTATGTCTAGTAGGCT
1 CCAGACATTACGTCTAGCAGGCT
33157068 AAGTGTCGGT
Statistics
Matches: 130, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 130 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:33170038 original size:18 final size:19
Alignment explanation
Indices: 33170017--33170063 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
33170007 TTTGATTTAA
*
33170017 TTATTTAATTGTTCA-ATT
1 TTATTTAATTGTTAATATT
*
33170035 TTA-TGAATTGTTAATATT
1 TTATTTAATTGTTAATATT
33170053 TTATTCTAATT
1 TTATT-TAATT
33170064 AAATTTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.39
18 9 0.39
19 1 0.04
20 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (19 bp):
TTATTTAATTGTTAATATT
Found at i:33171637 original size:379 final size:379
Alignment explanation
Indices: 33170938--33171699 Score: 1436
Period size: 379 Copynumber: 2.0 Consensus size: 379
33170928 CTTGCTGGAG
*
33170938 GCAAGAGAGTGTTTATTTTGCTGCTGAGCTGTGGAGGGAGTGTTGGAGTTTGACTAAAACACTGA
1 GCAAGAGAGTGTTTATTTTGCTGCTGAGCTGTGGACGGAGTGTTGGAGTTTGACTAAAACACTGA
33171003 AGTGGTTGAGGAGATTTCAAATTTAATGGTTGAGGGGAGTTGTGATCAGGTGGAGAGATTTGAGA
66 AGTGGTTGAGGAGATTTCAAATTTAATGGTTGAGGGGAGTTGTGATCAGGTGGAGAGATTTGAGA
33171068 AGGGATTTTAGGAGAAAATCAAGGGAGTTGAGGGGAGAGGGAGTGTTGTGCAGGAAGTGGACTCT
131 AGGGATTTTAGGAGAAAATCAAGGGAGTTGAGGGGAGAGGGAGTGTTGTGCAGGAAGTGGACTCT
* *
33171133 GGCACTCACGAATTTCGGCCAGAGTGGTACCACCTCATTTGGTTTGCCTCATTGCAATTTTTTCT
196 GGCACTCACGAATTTCGGCCAGAGTGGTACCACCTCATTTGGTTTACCTCATTCCAATTTTTTCT
* *
33171198 TTCCTCTTCTTTTTGGCCGAATGTGGTAGGAGTTTTTGGCATATTCTTCTGTTCCACTTTTGACA
261 TTCCTCTTCTTTTTGGCCGAATGTAGTAGGAGTTTTTGGCATATTCTTCTATTCCACTTTTGACA
33171263 ACCTTCCTTTTTGGCCGAAATCTCTCCAAGTGTCTCCTTTCTTTTCTCTCGTTT
326 ACCTTCCTTTTTGGCCGAAATCTCTCCAAGTGTCTCCTTTCTTTTCTCTCGTTT
33171317 GCAAGAGAGTGTTTATTTTGCTGCTGAGCTGTGGACGGAGTGTTGGAGTTTGACTAAAACACTGA
1 GCAAGAGAGTGTTTATTTTGCTGCTGAGCTGTGGACGGAGTGTTGGAGTTTGACTAAAACACTGA
*
33171382 AGTGGTTGAGGAGATTTCAAATTTAATGGTTGAGGGGAGTTGTGATCAGGTGGAGAGATTTGAGG
66 AGTGGTTGAGGAGATTTCAAATTTAATGGTTGAGGGGAGTTGTGATCAGGTGGAGAGATTTGAGA
33171447 AGGGATTTTAGGAGAAAATCAAGGGAGTTGAGGGGAGAGGGAGTGTTGTGCAGGAAGTGGACTCT
131 AGGGATTTTAGGAGAAAATCAAGGGAGTTGAGGGGAGAGGGAGTGTTGTGCAGGAAGTGGACTCT
*
33171512 GGCACTCACGAATTTCGGCCAGAGTGGTA-CTCCTCATTTGGTTTACCTCATTCCAATTTTTTTC
196 GGCACTCACGAATTTCGGCCAGAGTGGTACCACCTCATTTGGTTTACCTCATTCCAA-TTTTTTC
33171576 TTTCCTCTTCTTTTTGGCCGAATGTAGTAGGAGTTTTTGGCATATTCTTCTATTCCACTTTTGAC
260 TTTCCTCTTCTTTTTGGCCGAATGTAGTAGGAGTTTTTGGCATATTCTTCTATTCCACTTTTGAC
*
33171641 AACCTTCCTTTTTGGCCGAAATCTCTCCAAGTGTCTCTTTTCTTTTCTCTCGTTT
325 AACCTTCCTTTTTGGCCGAAATCTCTCCAAGTGTCTCCTTTCTTTTCTCTCGTTT
33171696 GCAA
1 GCAA
33171700 TTTCTTTCTA
Statistics
Matches: 374, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
378 24 0.06
379 350 0.94
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (379 bp):
GCAAGAGAGTGTTTATTTTGCTGCTGAGCTGTGGACGGAGTGTTGGAGTTTGACTAAAACACTGA
AGTGGTTGAGGAGATTTCAAATTTAATGGTTGAGGGGAGTTGTGATCAGGTGGAGAGATTTGAGA
AGGGATTTTAGGAGAAAATCAAGGGAGTTGAGGGGAGAGGGAGTGTTGTGCAGGAAGTGGACTCT
GGCACTCACGAATTTCGGCCAGAGTGGTACCACCTCATTTGGTTTACCTCATTCCAATTTTTTCT
TTCCTCTTCTTTTTGGCCGAATGTAGTAGGAGTTTTTGGCATATTCTTCTATTCCACTTTTGACA
ACCTTCCTTTTTGGCCGAAATCTCTCCAAGTGTCTCCTTTCTTTTCTCTCGTTT
Found at i:33179448 original size:27 final size:27
Alignment explanation
Indices: 33179379--33179631 Score: 249
Period size: 27 Copynumber: 9.4 Consensus size: 27
33179369 CCCTAAAATA
* *
33179379 GGTAAAATGACCAAAATACCCCCATA-
1 GGTAAAATGACCGAAATACCCCTATAG
* ** * *
33179405 GGTAAAATAACTAAAATGCCCTTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
33179432 GGTAAAATGACCGAAATACCCCAATAA
1 GGTAAAATGACCGAAATACCCCTATAG
* * * *
33179459 GGTAAAGTAATCGAAATTCCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
33179486 GGTAAAATGACCGAAATAACTCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
33179513 GGTAGAATGTA-CAAAATACCTCTATAG
1 GGTAAAATG-ACCGAAATACCCCTATAG
* * * *
33179540 GGTAAAATGATCAAAATACCCCCAAAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
33179567 GATAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
33179594 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
33179621 GGTAAAATGAC
1 GGTAAAATGAC
33179632 ATAAGTACCC
Statistics
Matches: 182, Mismatches: 42, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
26 22 0.12
27 159 0.87
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:33179629 original size:54 final size:54
Alignment explanation
Indices: 33179379--33179631 Score: 278
Period size: 54 Copynumber: 4.7 Consensus size: 54
33179369 CCCTAAAATA
* * * *
33179379 GGTAAAATGACCAAAATACCCCCATA-GGTAAAATAACTAAAATGCCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTAAAATACCCCTATAG
* * * * * *
33179432 GGTAAAATGACCGAAATACCCCAATAAGGTAAAGT-AATCGAAATTCCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACT-AAAATACCCCTATAG
* * * * *
33179486 GGTAAAATGACCGAAATAACTCTATAGGGTAGAATGTAC-AAAATACCTCTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATG-ACTAAAATACCCCTATAG
* * * * *
33179540 GGTAAAATGATCAAAATACCCCCAAAGGATAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTAAAATACCCCTATAG
*
33179594 GGTAGAATGACCGAAATACCCCCATAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
33179632 ATAAGTACCC
Statistics
Matches: 163, Mismatches: 32, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
53 28 0.17
54 134 0.82
56 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (54 bp):
GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTAAAATACCCCTATAG
Found at i:33179629 original size:81 final size:80
Alignment explanation
Indices: 33179375--33179630 Score: 291
Period size: 81 Copynumber: 3.2 Consensus size: 80
33179365 GATACCCTAA
* * * * * *
33179375 AATA-GGTAAAATGACCAAAATACCCCCATAGGTAAAATAACTAAAATGCCCTTATAGGGTAAAA
1 AATAGGGTAAAATGATCAAAATACCCCCATAGGTAAAATGACTGAAATACCCCTATAGGGTAGAA
33179439 TGACCGAAATACCCC
66 TGACCGAAATACCCC
* * * * * * * * *
33179454 AATAAGGTAAAGTAATCGAAATTCCCCTATAGGGTAAAATGACCGAAATAACTCTATAGGGTAGA
1 AATAGGGTAAAATGATCAAAATACCCCCATA-GGTAAAATGACTGAAATACCCCTATAGGGTAGA
* *
33179519 ATGTA-CAAAATACCTC
65 ATG-ACCGAAATACCCC
* *
33179535 TATAGGGTAAAATGATCAAAATACCCCCAAAGGATAAAATGACTGAAATACCCCTATAGGGTAGA
1 AATAGGGTAAAATGATCAAAATACCCCCATAGG-TAAAATGACTGAAATACCCCTATAGGGTAGA
33179600 ATGACCGAAATACCCC
65 ATGACCGAAATACCCC
*
33179616 CATAGGGTAAAATGA
1 AATAGGGTAAAATGA
33179631 CATAAGTACC
Statistics
Matches: 142, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
79 4 0.03
80 23 0.16
81 114 0.80
82 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (80 bp):
AATAGGGTAAAATGATCAAAATACCCCCATAGGTAAAATGACTGAAATACCCCTATAGGGTAGAA
TGACCGAAATACCCC
Found at i:33180431 original size:24 final size:24
Alignment explanation
Indices: 33180383--33180429 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
33180373 ATTGGTCATA
*
33180383 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
33180407 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
33180430 GGGATTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:33180669 original size:27 final size:27
Alignment explanation
Indices: 33180638--33180998 Score: 368
Period size: 27 Copynumber: 13.4 Consensus size: 27
33180628 CCCCAAATTA
*
33180638 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
** *
33180665 GGTAAAATGACTAAAATGCCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
33180692 GTTAAAATGATCGAAATACCCCTACAG
1 GGTAAAATGACCGAAATACCCCTATAG
** *
33180719 GGTAAAATGA-TTAAGATACCCCTAGAG
1 GGTAAAATGACCGAA-ATACCCCTATAG
**
33180746 GGTAAAATGATTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
33180773 GGTAAAATAACCGGAATA-CCCTCATAA
1 GGTAAAATGACCGAAATACCCCT-ATAG
* * * *
33180800 GGTAGAACGACCGAAATACCCCCAGAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
33180827 GGTAAAATGACCAAAATACCCCTAAAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
33180854 GATAAAATGACCAAAATA-CCCTCATGG
1 GGTAAAATGACCGAAATACCCCT-ATAG
* * *
33180881 GGTAAAATGATCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * * *
33180908 GGTAAAATAACTGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCTATAG
*
33180935 GGTAAAATGACCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
33180962 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
33180989 GGTAAAATGA
1 GGTAAAATGA
33180999 TATAAATACC
Statistics
Matches: 276, Mismatches: 52, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
26 10 0.04
27 257 0.93
28 9 0.03
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:33182549 original size:54 final size:54
Alignment explanation
Indices: 33182468--33182679 Score: 176
Period size: 54 Copynumber: 3.7 Consensus size: 54
33182458 CCCTAAAATA
** *
33182468 GGTAAAATGATTAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAG
* * * *
33182522 GGTAGAATGACCAAAATACCTCTATAGGGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAG
*
33182576 GGTAAAATGATCGAAGTAGAATGACCGAAATACCCCCATAGGGTAAAATGA-C-AAATACCCCCA
1 GGTAAAATGA-C-CA--A-AAT-ACC------C--CCATAGGGTAAAATGACCGAAATACCCCCA
33182639 TAG
52 TAG
* * * *
33182642 GGTAAAATGATCAAAATACCCTCATAAGGTAGAATGAC
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
33182680 TGTTTACCCC
Statistics
Matches: 126, Mismatches: 17, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
52 13 0.10
54 57 0.45
55 1 0.01
56 1 0.01
58 1 0.01
59 3 0.02
60 6 0.05
61 3 0.02
62 1 0.01
64 1 0.01
66 24 0.19
67 1 0.01
68 14 0.11
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (54 bp):
GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAG
Found at i:33182590 original size:27 final size:27
Alignment explanation
Indices: 33182468--33182590 Score: 165
Period size: 27 Copynumber: 4.6 Consensus size: 27
33182458 CCCTAAAATA
**
33182468 GGTAAAATGATTAAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCCCATAG
33182495 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCCCATAG
* * * * *
33182522 GGTAGAATGACCAAAATACCTCTATAG
1 GGTAAAATGATCGAAATACCCCCATAG
* *
33182549 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCCCATAG
33182576 GGTAAAATGATCGAA
1 GGTAAAATGATCGAA
33182591 GTAGAATGAC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
GGTAAAATGATCGAAATACCCCCATAG
Found at i:33182608 original size:68 final size:66
Alignment explanation
Indices: 33182523--33182653 Score: 208
Period size: 68 Copynumber: 2.0 Consensus size: 66
33182513 CCCCCATAGG
* * *
33182523 GTAGAATGACCAAAATACCTCTATAGGGTAGAATGACCGAAATACCCCCATAGGGTAAAATGATC
1 GTAGAATGACCAAAATACCCCCATAGGGTAAAATGA-C-AAATACCCCCATAGGGTAAAATGATC
33182588 GAA
64 GAA
*
33182591 GTAGAATGACCGAAATACCCCCATAGGGTAAAATGACAAATACCCCCATAGGGTAAAATGATC
1 GTAGAATGACCAAAATACCCCCATAGGGTAAAATGACAAATACCCCCATAGGGTAAAATGATC
33182654 AAAATACCCT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 26 0.44
67 1 0.02
68 32 0.54
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (66 bp):
GTAGAATGACCAAAATACCCCCATAGGGTAAAATGACAAATACCCCCATAGGGTAAAATGATCGA
A
Found at i:33182633 original size:25 final size:26
Alignment explanation
Indices: 33182603--33182679 Score: 111
Period size: 25 Copynumber: 3.0 Consensus size: 26
33182593 AGAATGACCG
33182603 AAATACCCCCATAGGGTAAAATGAC-
1 AAATACCCCCATAGGGTAAAATGACA
33182628 AAATACCCCCATAGGGTAAAATGATCA
1 AAATACCCCCATAGGGTAAAATGA-CA
* * *
33182655 AAATACCCTCATAAGGTAGAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
33182680 TGTTTACCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
25 24 0.51
26 2 0.04
27 21 0.45
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (26 bp):
AAATACCCCCATAGGGTAAAATGACA
Found at i:33182678 original size:93 final size:95
Alignment explanation
Indices: 33182500--33182678 Score: 254
Period size: 93 Copynumber: 1.9 Consensus size: 95
33182490 CATAGGGTAA
* * * * * *
33182500 AATGATCGAAATACCCCCATAGGGTAGAATGACCAAAATACCTCTATAGGGTAGAATGACCGAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAA
*
33182565 TACCCCCATAGGGTAAAATGATCGAAGTAG
66 TACCCCCATAAGGTAAAATGATCGAAGTAG
*
33182595 AATGACCGAAATACCCCCATAGGGTAAAATGA-C-AAATACCCCCATAGGGTAAAATGATCAAAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAA
* *
33182658 TACCCTCATAAGGTAGAATGA
66 TACCCCCATAAGGTAAAATGA
33182679 CTGTTTACCC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 43 0.58
94 1 0.01
95 30 0.41
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (95 bp):
AATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAA
TACCCCCATAAGGTAAAATGATCGAAGTAG
Found at i:33185991 original size:33 final size:32
Alignment explanation
Indices: 33185949--33186052 Score: 104
Period size: 33 Copynumber: 3.3 Consensus size: 32
33185939 ATATTTTATT
* *
33185949 TATTTTAAATATTTTAAATTTAATTTTAGATA
1 TATTTTAAATATTTTAAATTAAATTGTAGATA
* * *
33185981 TATTTTTAAATATTTAAAATAAAATTGTATATA
1 TA-TTTTAAATATTTTAAATTAAATTGTAGATA
* * *
33186014 TACTTTAAATAATTTAAATTGAATTG-A-ATA
1 TATTTTAAATATTTTAAATTAAATTGTAGATA
*
33186044 TAATTTAAA
1 TATTTTAAA
33186053 AATAAATTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
30 11 0.18
31 1 0.02
32 21 0.35
33 27 0.45
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (32 bp):
TATTTTAAATATTTTAAATTAAATTGTAGATA
Found at i:33198084 original size:45 final size:45
Alignment explanation
Indices: 33197951--33198150 Score: 167
Period size: 45 Copynumber: 4.5 Consensus size: 45
33197941 TACACGGTGG
* * * *
33197951 ATCAGCACACAGC-ACCACCCTTATAGTCAATAGTACTC-AATGAA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTAC-CGAGTGAA
* *
33197995 ATCAGCACAGAGCAACCACCTTTATACTCAATGGTACCGAGTGAA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTACCGAGTGAA
*
33198040 ATCAGCACATAGCAACCA-CTTATATAAC-CATTAGTATCCG-GTGAA
1 ATCAGCACATAGCAACCACCTT-TAT-ACTCAATAGTA-CCGAGTGAA
* ** ** * * * *
33198085 ATCAACACATAGCAACCAAGTTTATTTTCATTAATACCGGGTGGA
1 ATCAGCACATAGCAACCACCTTTATACTCAATAGTACCGAGTGAA
* *
33198130 ATTAGCACATAGCATCCACCT
1 ATCAGCACATAGCAACCACCT
33198151 ATATTTCCAA
Statistics
Matches: 129, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
44 19 0.15
45 103 0.80
46 7 0.05
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.23
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATACTCAATAGTACCGAGTGAA
Found at i:33205452 original size:18 final size:18
Alignment explanation
Indices: 33205429--33205463 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33205419 TTGTCGTCCT
* *
33205429 CTAAGGGGAAGTAGAAAG
1 CTAAGGGAAAGAAGAAAG
33205447 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
33205464 TTTAATAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.34, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:33209295 original size:32 final size:33
Alignment explanation
Indices: 33209259--33209324 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
33209249 ATCTTTATGC
* *
33209259 CTTAAATTGAAAAAGATTTTTA-TATAGGGGAG
1 CTTAAATTGAAAAAGAATTTTATTAAAGGGGAG
*
33209291 CTTAAATTGAAAATGAATTTTATTAAAGGGGAG
1 CTTAAATTGAAAAAGAATTTTATTAAAGGGGAG
33209324 C
1 C
33209325 AATCTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (33 bp):
CTTAAATTGAAAAAGAATTTTATTAAAGGGGAG
Found at i:33210853 original size:75 final size:74
Alignment explanation
Indices: 33210774--33210913 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 74
33210764 AATATAATGG
* * *
33210774 TGTGCCTAACACTAGTC-AGATAAA-CTGACAAAGTTTGCACCCAGCGCTATTCGGATAAACCAA
1 TGTGCCTAACACTAGTCGA-ATAAATC-GACAAAGATTGCACCCAGCGCTAGTCGAAT-AACCAA
33210837 CAAGTATGATAT
63 CAAGTATGATAT
* * *
33210849 TGTGCCTAGCACTAGTCGAATAAATCGACAAAGATTGCGCCCAGTGCTAGTCGAATAACCAACAA
1 TGTGCCTAACACTAGTCGAATAAATCGACAAAGATTGCACCCAGCGCTAGTCGAATAACCAACAA
33210914 TAGTTGTTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
74 9 0.16
75 46 0.81
76 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (74 bp):
TGTGCCTAACACTAGTCGAATAAATCGACAAAGATTGCACCCAGCGCTAGTCGAATAACCAACAA
GTATGATAT
Found at i:33211168 original size:24 final size:24
Alignment explanation
Indices: 33211136--33211185 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
33211126 TGTCACATAG
33211136 AAGTGTTCTATAAAATCAAAGTCT
1 AAGTGTTCTATAAAATCAAAGTCT
* *
33211160 AAGTGTTCTATGAAATCGAAGTCT
1 AAGTGTTCTATAAAATCAAAGTCT
33211184 AA
1 AA
33211186 CGAAGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (24 bp):
AAGTGTTCTATAAAATCAAAGTCT
Found at i:33211928 original size:9 final size:9
Alignment explanation
Indices: 33211911--33211977 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
33211901 GTAGTGATTC
*
33211911 AATTTGGTT
1 AATTCGGTT
33211920 AATTCGGTT
1 AATTCGGTT
*
33211929 AATTCGGGT
1 AATTCGGTT
*
33211938 AATTCACG-T
1 AATTC-GGTT
33211947 AATTCGGTT
1 AATTCGGTT
*
33211956 AATTTGGTT
1 AATTCGGTT
*
33211965 AATTTGGTT
1 AATTCGGTT
33211974 AATT
1 AATT
33211978 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 1 0.02
9 49 0.96
10 1 0.02
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (9 bp):
AATTCGGTT
Done.