Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 143 of 218
Found at i:43641973 original size:37 final size:38
Alignment explanation
Indices: 43641924--43642089 Score: 101
Period size: 37 Copynumber: 4.4 Consensus size: 38
43641914 TTGATAATTG
*
43641924 TATTAATGGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
* * * * * *
43641961 TATTAATTGTTAGTATCAGTCA-AAACATTTTTTCAAATC
1 TATTAATTGTTAGTA-AAATTATCAA-ATTATATCAAATC
** * * * * * *
43642000 TAACATTATGTGAATGTAAAATTAT-TAATT-GAT-AATTG
1 TATTAAT-TGT-TA-GTAAAATTATCAAATTATATCAAATC
*
43642038 TATTAATGGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
43642075 TATTAATTGTTAGTA
1 TATTAATTGTTAGTA
43642090 TCAGTCAAAA
Statistics
Matches: 91, Mismatches: 28, Indels: 20
0.65 0.20 0.14
Matches are distributed among these distances:
35 10 0.11
36 5 0.05
37 34 0.37
38 23 0.25
39 5 0.05
40 6 0.07
41 5 0.05
42 3 0.03
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (38 bp):
TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
Found at i:43642023 original size:114 final size:114
Alignment explanation
Indices: 43641838--43642182 Score: 638
Period size: 114 Copynumber: 3.0 Consensus size: 114
43641828 TTAGTAAAAT
* * *
43641838 TATCAAATTATTAACTGTTAGTACCAATCAAAACATTTTTTTCAAATCTAACATTATGTGAATGT
1 TATCAAATTATTAATTGTTAGTATCAGTCAAAACA-TTTTTTCAAATCTAACATTATGTGAATGT
43641903 AAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTA
65 AAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTA
43641953 TATCAAATTATTAATTGTTAGTATCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTA
1 TATCAAATTATTAATTGTTAGTATCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTA
43642018 AAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTA
66 AAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTA
43642067 TATCAAATTATTAATTGTTAGTATCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTA
1 TATCAAATTATTAATTGTTAGTATCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTA
*
43642132 AAATTATTAATTGATAATTGTATTAA-GGTTAGTAAAATTGTCAAATTA
66 AAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTA
43642180 TAT
1 TAT
43642183 TTAAGTTAAG
Statistics
Matches: 226, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
113 24 0.11
114 170 0.75
115 32 0.14
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (114 bp):
TATCAAATTATTAATTGTTAGTATCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTA
AAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTA
Found at i:43642223 original size:22 final size:22
Alignment explanation
Indices: 43642182--43642738 Score: 652
Period size: 22 Copynumber: 25.5 Consensus size: 22
43642172 TCAAATTATA
43642182 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43642203 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43642225 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43642246 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
** * *
43642267 TTTAAAATAAAGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43642289 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43642310 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43642332 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* ** *
43642354 TTAAAGTCGAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
43642375 TTTAAGTTAAAGGTTTATAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43642397 TTTAAATTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43642419 TTTAAATTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43642440 TTTAAGTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43642462 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43642484 TTTAGGGCTTTTAGGGTTTAGGG-T
1 TTTA-AG--TTAAGGGTTTAGGGTT
*
43642508 TTTAAGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43642529 TTTAAGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43642550 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43642572 TTAAAGTTAA-AGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43642593 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43642615 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43642637 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43642659 TTTAATTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43642680 TTTATGTTAAGGGTTAGGGTTAGGGTT
1 TTTAAGTTAAGGG-T----TTAGGGTT
43642707 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43642729 TGTTAA-TTAA
1 T-TTAAGTTAA
43642739 ATTATACATT
Statistics
Matches: 460, Mismatches: 57, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
20 5 0.01
21 180 0.39
22 231 0.50
23 6 0.01
24 5 0.01
25 13 0.03
26 1 0.00
27 19 0.04
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:43642243 original size:43 final size:43
Alignment explanation
Indices: 43642182--43642738 Score: 629
Period size: 43 Copynumber: 12.7 Consensus size: 43
43642172 TCAAATTATA
43642182 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
43642225 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * * *
43642268 TTAAAATAAAGGTTTAGTGTTTTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
43642310 TTTAAGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* ** * * **
43642354 TTAAAGTCGAGGGTTAAGGTTTTTAAGTTAAAGGTTTATAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
43642397 TTTAAATTAAGGGTTTATGGTTTTTAAATTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
43642440 TTTAAGTTAATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
43642484 TTTAGGGCTTTTAGGGTTTAGGG-TTTTAAGTTAAGGG-TTAGTGTT
1 TTTA-AG--TTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
43642529 TTTAAGTTAAGGGTTAGTGTTTTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
43642572 TTAAAGTTAAAGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
43642615 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
43642659 TTTAATTTAAGGGTTAGGATTTTTATGTTAAGGGTTAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-T----TTAGGGTT
43642707 TTTAAGTTAAGGGTTTAGGGTTTGTTAA-TTAA
1 TTTAAGTTAAGGG-TTAGGGTTT-TTAAGTTAA
43642739 ATTATACATT
Statistics
Matches: 430, Mismatches: 65, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
41 5 0.01
42 37 0.09
43 228 0.53
44 88 0.20
45 12 0.03
46 16 0.04
47 9 0.02
48 20 0.05
49 12 0.03
50 3 0.01
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:43642980 original size:21 final size:21
Alignment explanation
Indices: 43642956--43643002 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
43642946 TTGTCCAGCT
*
43642956 TCCGGCGGCGG-TTGTGGTTCC
1 TCCGGCGG-GGATTCTGGTTCC
*
43642977 TCCGGCGGGGATTCTGGTTCT
1 TCCGGCGGGGATTCTGGTTCC
43642998 TCCGG
1 TCCGG
43643003 TAGGGCATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.02, C:0.28, G:0.40, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTCTGGTTCC
Found at i:43644171 original size:20 final size:20
Alignment explanation
Indices: 43644134--43644171 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43644124 TTTATTTTTA
*
43644134 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
43644154 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
43644172 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:43645165 original size:51 final size:52
Alignment explanation
Indices: 43645104--43645204 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 52
43645094 AATTATTTAA
43645104 AAATAGGGATTT-AAGAGAAATTTA-AGAGGAAATTAAGAGCAAA-TTGAGATT
1 AAATAGGGATTTCAA-AGAAATTTAGA-AGGAAATTAAGAGCAAATTTGAGATT
* * * *
43645155 AAATATGGATTTCAAAGAAATTTGGAAGGAAATTGAGAGGAAATTTGAGA
1 AAATAGGGATTTCAAAGAAATTTAGAAGGAAATTAAGAGCAAATTTGAGA
43645205 GGATTAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
51 34 0.79
52 9 0.21
ACGTcount: A:0.48, C:0.02, G:0.25, T:0.26
Consensus pattern (52 bp):
AAATAGGGATTTCAAAGAAATTTAGAAGGAAATTAAGAGCAAATTTGAGATT
Found at i:43645215 original size:14 final size:12
Alignment explanation
Indices: 43645171--43645207 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
43645161 GGATTTCAAA
43645171 GAAATTTG-GAAG
1 GAAATTTGAG-AG
43645183 GAAA-TTGAGAG
1 GAAATTTGAGAG
43645194 GAAATTTGAGAG
1 GAAATTTGAGAG
43645206 GA
1 GA
43645208 TTAATTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (12 bp):
GAAATTTGAGAG
Found at i:43652698 original size:28 final size:28
Alignment explanation
Indices: 43652658--43652716 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
43652648 CTCTGTATGA
43652658 CAGATTTTCCAACCATTTCATGAATTCC
1 CAGATTTTCCAACCATTTCATGAATTCC
43652686 CAGATTTTCCAACCATTTCATGAATTCC
1 CAGATTTTCCAACCATTTCATGAATTCC
43652714 CAG
1 CAG
43652717 CAATGCATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (28 bp):
CAGATTTTCCAACCATTTCATGAATTCC
Found at i:43656454 original size:10 final size:11
Alignment explanation
Indices: 43656439--43656484 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
43656429 AACTAAATCC
43656439 TTTCTCTC-AA
1 TTTCTCTCAAA
*
43656449 TTTCTCTCTAA
1 TTTCTCTCAAA
43656460 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
43656472 TTCCTCTCAAA
1 TTTCTCTCAAA
43656483 TT
1 TT
43656485 CCTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 8 0.25
11 14 0.44
12 10 0.31
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:43656465 original size:12 final size:10
Alignment explanation
Indices: 43656439--43656481 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
43656429 AACTAAATCC
43656439 TTTCTCTCAA
1 TTTCTCTCAA
43656449 TTTCTCTCTAA
1 TTTCTCTC-AA
43656460 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
43656472 TTCCTCTCAA
1 TTTCTCTCAA
43656482 ATTCCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:43658304 original size:18 final size:18
Alignment explanation
Indices: 43658281--43658323 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
43658271 TGCCAGTTGC
* *
43658281 GTATCCTAGCCCTTCTAT
1 GTATCCTAACCCTTATAT
43658299 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
43658317 GTTTCCT
1 GTATCCT
43658324 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.30, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:43658798 original size:49 final size:49
Alignment explanation
Indices: 43658744--43659012 Score: 466
Period size: 49 Copynumber: 5.5 Consensus size: 49
43658734 GTTTATATTA
* *
43658744 ATGTAATAAAATATAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
43658793 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
43658842 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
43658891 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
43658940 ATTTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
43658989 ATTTAATAAAATATAAAATAGTTT
1 ATGTAATAAAATACAAAATAGTTT
43659013 TAAAATAAAG
Statistics
Matches: 213, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 213 1.00
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:43662585 original size:125 final size:125
Alignment explanation
Indices: 43662075--43662734 Score: 1047
Period size: 125 Copynumber: 5.3 Consensus size: 125
43662065 CCTAAACATA
* * * *
43662075 CTACTGTAGCAAAAACTCGTCTACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
43662140 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * * * *
43662200 CTACTGTAGCAAAAGTGCGTCCACGTGAGAGCGATTTCAGAAATTCTTCTAATAAAACATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
43662265 TTGAAGC-ATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTCAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
43662323 CTACTGTAGCAAAAGTGCGTCCACGTGGGAGCGATTTCATAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
43662388 TTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
43662447 CTACTGTAGCAAAAGCGCGTCCACGTAGGAGTGATTTCAGAAATTCTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
43662512 TTCAAGCGTTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTTCAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
43662572 CTACTGTAGCAAAAGCGCGTCCAAGTGGGAGGGATTTCAGAAATTCTTCTGATTAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
43662637 TTCAAGCATTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
43662697 CTACTATAGCAGAAGCGCGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
43662735 CTTAATAAAT
Statistics
Matches: 492, Mismatches: 40, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
123 115 0.23
124 116 0.24
125 261 0.53
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:43662956 original size:16 final size:16
Alignment explanation
Indices: 43662913--43662961 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
43662903 AAATCCTAAA
43662913 AACCCTAAAAACCC-T
1 AACCCTAAAAACCCAT
* *
43662928 AAACCT--TAACCCAT
1 AACCCTAAAAACCCAT
*
43662942 AACCCTAAAAACCCAA
1 AACCCTAAAAACCCAT
43662958 AACC
1 AACC
43662962 TAACGTGGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
13 5 0.19
14 6 0.23
15 5 0.19
16 10 0.38
ACGTcount: A:0.49, C:0.39, G:0.00, T:0.12
Consensus pattern (16 bp):
AACCCTAAAAACCCAT
Found at i:43665596 original size:17 final size:17
Alignment explanation
Indices: 43665576--43665608 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43665566 TTAGTTAATA
43665576 TTATTATTATTATTTAC
1 TTATTATTATTATTTAC
*
43665593 TTATTATTATTGTTTA
1 TTATTATTATTATTTA
43665609 TTTTAGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATTATTATTATTTAC
Found at i:43666406 original size:73 final size:72
Alignment explanation
Indices: 43666265--43666406 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 72
43666255 TTTTCAAACT
* * * *
43666265 CAAGTTTTAAATGATCTCGGAAATTAAGAAGAGATCATGTCCTAACTTACTGGGCATGATCCTTT
1 CAAGTTTTAAACGATCTCGGAAATTAAAAAAAGACCATGTCCTAACTTACTGGGCATGATCC-TT
43666330 TTTTTCCC
65 TTTTTCCC
* **
43666338 CAAGTTTTAAACGATCTC-GAGAATTAAAAAAAAGACCGTGTCCTAACTTACTGGGTGTGATACC
1 CAAGTTTTAAACGATCTCGGA-AATT-AAAAAAAGACCATGTCCTAACTTACTGGGCATGAT-CC
43666402 TTTTT
63 TTTTT
43666407 CTAAAATCCG
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
72 2 0.03
73 21 0.36
74 34 0.58
75 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (72 bp):
CAAGTTTTAAACGATCTCGGAAATTAAAAAAAGACCATGTCCTAACTTACTGGGCATGATCCTTT
TTTTCCC
Found at i:43670137 original size:6 final size:6
Alignment explanation
Indices: 43670101--43670170 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
43670091 TTAAAAAAAG
* * * * *
43670101 AAAGAA AAATAA CAAGAA GAAG-A AAA-TA AAAGAA AAAGGA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
43670147 GGAAAGGA AAAGAA AAAGAA AAAG
1 --AAAGAA AAAGAA AAAGAA AAAG
43670171 GAGATGCCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
5 7 0.14
6 38 0.76
8 5 0.10
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:43670157 original size:20 final size:20
Alignment explanation
Indices: 43670129--43670166 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43670119 GAAGAAAATA
*
43670129 AAAGAAAAAGGAAAAGAAGG
1 AAAGAAAAAGAAAAAGAAGG
*
43670149 AAAGGAAAAGAAAAAGAA
1 AAAGAAAAAGAAAAAGAA
43670167 AAAGGAGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGAAGG
Found at i:43670167 original size:16 final size:16
Alignment explanation
Indices: 43670095--43670167 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 16
43670085 TATATTTTAA
* *
43670095 AAAAAGAAAGAAAAAT
1 AAAAAGAAAGGAAAAG
* * *
43670111 AACAAGAAGAAGAAAAT
1 AAAAAGAA-AGGAAAAG
*
43670128 AAAAGAAAAAGGAAAAG
1 AAAA-AGAAAGGAAAAG
*
43670145 --AAGGAAAGGAAAAG
1 AAAAAGAAAGGAAAAG
43670159 AAAAAGAAA
1 AAAAAGAAA
43670168 AAGGAGATGC
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
14 10 0.23
15 2 0.05
16 13 0.30
17 15 0.35
18 3 0.07
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAGGAAAAG
Found at i:43671540 original size:89 final size:89
Alignment explanation
Indices: 43671380--43671969 Score: 901
Period size: 89 Copynumber: 6.6 Consensus size: 89
43671370 AACAGATCAA
* * *
43671380 TGAAGATAGCAAATCTTGCCTTCCTGTACTAACGGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
43671445 TCCTGTATTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * *
43671469 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGTAAATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
43671534 TTCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * *
43671558 TGAAGATAGCAGATCTTGCCTTCCTGTACTGATGGTGAAGTAGATCAAAGACAACAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
43671623 TCCTGTACTGACAGCGGAACAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
*
43671647 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
43671712 GCCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
**
43671736 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
43671801 TCCTGTACTGACAGCGGAGGAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * *
43671825 TGAAGATAGCAGATCTTGCCTTCTTGTACTGACAGCAAAGCAGATCGAAGACACCAGCCTTGCAT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
43671890 TTCTGTACTGATAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * **
43671914 TGAAAATAGCAGATCTTGCATTCCTGTACGGACGGCAAATTAGATCGAAGACACCA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCA
43671970 TAGTTTGCAG
Statistics
Matches: 458, Mismatches: 43, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 458 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGAC
Found at i:43672166 original size:100 final size:100
Alignment explanation
Indices: 43671988--43672219 Score: 313
Period size: 100 Copynumber: 2.3 Consensus size: 100
43671978 AGCAAAGTAG
* *
43671988 TTAAAAAGATTTAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAG
1 TTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGCGGAACAGATTGAAG
* *
43672053 CTATAACGACGAATCTTGCTTTCCTGAAATTACAA
66 CTACAACGACGAATCTTGCTTTCCCGAAATTACAA
* * * * *
43672088 TTAAAAAGATGGAAGCCACAACAGCGAATCTTACTTCCTTGGCGGTGTAGCGGAACAGATTGAAG
1 TTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGCGGAACAGATTGAAG
* ** *
43672153 CTACAAC-AGCGAATCTTGCTTTCCCGATATTGTAG
66 CTACAACGA-CGAATCTTGCTTTCCCGAAATTACAA
* *
43672188 TTAAATAGATTGAAGCTACAACAACGAATCTT
1 TTAAAAAGATTGAAGCTACAACAGCGAATCTT
43672220 GTTTTCCTGG
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 113 0.99
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (100 bp):
TTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGCGGAACAGATTGAAG
CTACAACGACGAATCTTGCTTTCCCGAAATTACAA
Found at i:43672370 original size:45 final size:44
Alignment explanation
Indices: 43672312--43672406 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
43672302 AGATAAAAGT
* *
43672312 CTTATCTCCCTGAAGTTACAATGGTGTAGACTGAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTACAATAGAGTAGACTGAAG-TAGCAAAC
* * ** *
43672357 CTTATCTCTCTGAAGTTGCAATAGAGTAGGTTGAAGTAGCAAAT
1 CTTATCTCCCTGAAGTTACAATAGAGTAGACTGAAGTAGCAAAC
43672401 CTTATC
1 CTTATC
43672407 CTTATGAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 13 0.30
45 30 0.70
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTACAATAGAGTAGACTGAAGTAGCAAAC
Found at i:43672481 original size:44 final size:44
Alignment explanation
Indices: 43672250--43672505 Score: 150
Period size: 44 Copynumber: 5.8 Consensus size: 44
43672240 GAGCAGATAA
* * * * *
43672250 AGACAGAAGATAGCAAGCCTTATCCCCCTAAAGTTGCAGTGGGAC
1 AGACTGAAGATAGCAAGTCTTATCTCCTTGAAGTTGCAGTGGG-C
** * * * * *
43672295 AGGTTGAAGATA-AAAGTCTTATCTCCCTGAAGTTACAATGGTGT
1 AGACTGAAGATAGCAAGTCTTATCTCCTTGAAGTTGCAGTGG-GC
** * * *
43672339 AGACTGAAGATAGCAAACCTTATCT-CTCTGAAGTTGCAATAGAGT
1 AGACTGAAGATAGCAAGTCTTATCTCCT-TGAAGTTGCAGT-GGGC
** * *
43672384 AGGTTGAAG-TAGCAAATCTTATC-CTTATGAAGTTGCAGTGGGTC
1 AGACTGAAGATAGCAAGTCTTATCTCCT-TGAAGTTGCAGTGGG-C
* *
43672428 A-AGTTGAAGATA-CAAGTCTTATCTCATTGAAGTTGCAGTGGAGC
1 AGA-CTGAAGATAGCAAGTCTTATCTCCTTGAAGTTGCAGTGG-GC
* *
43672472 AGACAGAAGA-AGTCAA-TCCTATCTCCTTGAAGTT
1 AGACTGAAGATAG-CAAGTCTTATCTCCTTGAAGTT
43672506 ACTGTGTAGC
Statistics
Matches: 165, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
43 3 0.02
44 113 0.68
45 48 0.29
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
AGACTGAAGATAGCAAGTCTTATCTCCTTGAAGTTGCAGTGGGC
Found at i:43672605 original size:129 final size:127
Alignment explanation
Indices: 43672442--43672843 Score: 522
Period size: 129 Copynumber: 3.1 Consensus size: 127
43672432 TGAAGATACA
** * *
43672442 AGTCTTATCTCATTGAAGTTGCAGTGGAGCAGACAGAAGAAGTCAATCCTATCTCCTTGAAGTTA
1 AGTCTTATCTCCCTGAAGTT-CAGTGGAGCAGACAGAAGAAGCCAATCCTATCTCCCTGAAGTT-
*
43672507 CTGTGTAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
64 CTGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
*
43672571 AGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAAGCCAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTT-CAGTGGAGCAGACAGAAGAAGCCAATCCTATCTCCCTGAAGTT-
* ** * *
43672636 CAGTGGAGCGGATTAAAATTACAG-TCATATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
64 CTGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
** * * *
43672699 AACCTTATCCCCCTAAGAAG-T-AGTGGAGCAGACAGAAGAAACCAATCCTATCCCCCTGAAGTT
1 AGTCTTATCTCCCT--GAAGTTCAGTGGAGCAGACAGAAGAAGCCAATCCTATCTCCCTGAAGTT
* * *
43672762 GTAGTGGAGCGGATTAAAAACCACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCACATC
64 CT-GTGGAGCGGATT-AAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATC
*
43672827 A
127 C
*
43672828 ACTCTTATCTCCCTGA
1 AGTCTTATCTCCCTGA
43672844 CATTGCAGTA
Statistics
Matches: 237, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
127 53 0.22
128 56 0.24
129 124 0.52
130 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (127 bp):
AGTCTTATCTCCCTGAAGTTCAGTGGAGCAGACAGAAGAAGCCAATCCTATCTCCCTGAAGTTCT
GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCC
Found at i:43672770 original size:44 final size:44
Alignment explanation
Indices: 43672455--43672771 Score: 142
Period size: 44 Copynumber: 7.4 Consensus size: 44
43672445 CTTATCTCAT
** *
43672455 TGAAGTTGCAGTGGAGCAGACAGAAGAAGTCAATCCTATCTCCT
1 TGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCC
* * * * ** * * *
43672499 TGAAGTTACTGTGTAGCGGA-TTAA-AACCACAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCCTATCTCCC
* * * * * *
43672543 TAAAGTTGCAGT--AG-AG-CAGATCGCATCCAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCCTATCTCCC
* * *
43672584 TGAAGTTACAGTGGAGTAGACAGAAGAAGCCAATCCTATCTCCC
1 TGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCC
* * * * * *
43672628 TGAAGTTGCAGTGGAGCGGATTA-AA-ATTA-CAGTCATATCTCTC
1 TGAAGTTGCAGTGGAGCAGA-CAGAAGA-AACCAATCCTATCTCCC
* * * *
43672671 TGAAGTTGCAGT--AG-AG-CAGATCGCATCCAA-CCTTATCCCCC
1 TGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCC-TATCTCCC
** * *
43672712 T-AAGAAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCCCCC
1 TGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCC
*
43672755 TGAAGTTGTAGTGGAGC
1 TGAAGTTGCAGTGGAGC
43672772 GGATTAAAAA
Statistics
Matches: 195, Mismatches: 56, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 9 0.05
41 33 0.17
42 8 0.04
43 49 0.25
44 89 0.46
45 5 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCC
Found at i:43675817 original size:20 final size:18
Alignment explanation
Indices: 43675780--43675818 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
43675770 AATGCACTTG
*
43675780 ATTTTTATTTTGTTTAAA
1 ATTTTTATTCTGTTTAAA
*
43675798 ATTTATTATTCTGTTTTAA
1 ATTT-TTATTCTGTTTAAA
43675817 AT
1 AT
43675819 ATATATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTATTCTGTTTAAA
Found at i:43677913 original size:72 final size:73
Alignment explanation
Indices: 43677806--43677945 Score: 230
Period size: 72 Copynumber: 1.9 Consensus size: 73
43677796 TTTTCAAACT
*
43677806 CAAGTTTTAAACGATCTCTGAAATTAAGAAGAGATCGTGTCCTAACTTACTGCGCATGAT-CCTT
1 CAAGTTTTAAACGATCTCTGAAATTAAGAAAAGATCGTGTCCTAACTTACTGCGCATGATACCTT
43677870 TTTTTCCC
66 TTTTTCCC
* *
43677878 CAAGTTTTAAACGATCTC-GAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCGTGATACCT
1 CAAGTTTTAAACGATCTCTGA-AATTAAGAAAAGATCGTGTCCTAACTTACTGCGCATGATACCT
43677942 TTTT
65 TTTT
43677946 CTAAAATCTG
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
71 2 0.03
72 54 0.86
73 7 0.11
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (73 bp):
CAAGTTTTAAACGATCTCTGAAATTAAGAAAAGATCGTGTCCTAACTTACTGCGCATGATACCTT
TTTTTCCC
Found at i:43681815 original size:38 final size:37
Alignment explanation
Indices: 43681773--43681850 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
43681763 TTTTTATATC
* *
43681773 AATTTTAAAAAATATAAAAGTAAA-TATAAATATATAAA
1 AATTTCAAAAAATATAAAA-TAAAGTATAAA-AAATAAA
* *
43681811 AATTTCAGAAAATATATAATAAAGTATAAAAAATAAA
1 AATTTCAAAAAATATAAAATAAAGTATAAAAAATAAA
43681848 AAT
1 AAT
43681851 ACATTAATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 13 0.37
38 22 0.63
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (37 bp):
AATTTCAAAAAATATAAAATAAAGTATAAAAAATAAA
Found at i:43683457 original size:24 final size:23
Alignment explanation
Indices: 43683412--43683479 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
43683402 TAATAACATT
* *
43683412 ATTAAT-AATATTATTAAAATATGA
1 ATTAATAAAAATTA-TAATATAT-A
43683436 ATTAATAAAAATTATAATATATA
1 ATTAATAAAAATTATAATATATA
* *
43683459 ATATTATAAAAATAAT-ATATA
1 AT-TAATAAAAATTATAATATA
43683480 ACCTACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 8 0.21
24 24 0.63
25 6 0.16
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (23 bp):
ATTAATAAAAATTATAATATATA
Found at i:43685924 original size:14 final size:17
Alignment explanation
Indices: 43685905--43685940 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
43685895 TTCATTGCCA
43685905 TATTTCAC-T-TC-AAT
1 TATTTCACATATCAAAT
43685919 TATTTCACATATCAAAT
1 TATTTCACATATCAAAT
43685936 TATTT
1 TATTT
43685941 TACACTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.42
15 1 0.05
16 2 0.11
17 8 0.42
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTCACATATCAAAT
Found at i:43696126 original size:40 final size:39
Alignment explanation
Indices: 43696032--43696275 Score: 238
Period size: 40 Copynumber: 6.2 Consensus size: 39
43696022 GGCATTTGGA
* * *
43696032 TAAAAA-GCCGCTATAAATCGAGCATTAGTGACGCTTTT
1 TAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTT
*
43696070 TAAAAACGCCGCTATAGATTGAGCATTAGCGGCGCTTTT
1 TAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTT
* * *
43696109 TAAAAAATGCCGCTATAGATCGAGCATTAACGACGCCTTTT
1 T-AAAAACGCCGCTATAGATCGAGCATTAGCGGCG-CTTTT
* * * ** *
43696150 AAAAAACGCTGCTATAGATCTAGCATTAGTAGCACTTTTT
1 TAAAAACGCCGCTATAGATCGAGCATTAGCGGCGC-TTTT
* * *
43696190 TAAAATCGCTGCTATAAAATCGAGCATTAGCGGCGCTTTT
1 TAAAAACGCCGCTAT-AGATCGAGCATTAGCGGCGCTTTT
* * * * *
43696230 TGATAAACGTCACTATAGATCGAGCATTAGTGGCTCTTTT
1 T-AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTT
*
43696270 TTAAAA
1 TAAAAA
43696276 TTGCCGCAAA
Statistics
Matches: 166, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
38 6 0.04
39 33 0.20
40 98 0.59
41 29 0.17
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (39 bp):
TAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTT
Found at i:43696246 original size:81 final size:77
Alignment explanation
Indices: 43696032--43696282 Score: 270
Period size: 81 Copynumber: 3.1 Consensus size: 77
43696022 GGCATTTGGA
* *
43696032 TAAAAAGCCGCTATAAATCGAGCATTAGTGACGCTTTTTAAAAACGCCGCTATAGAT-TGAGCAT
1 TAAAATGCCGCTATAAATCGAGCATTAGCGACGCTTTTTAAAAACG-CGCTATAGATCT-AGCAT
* *
43696096 TAGCGGCGCTTTTT
64 TAGTGGCACTTTTT
* * * *
43696110 AAAAAATGCCGCTATAGATCGAGCATTAACGACGCCTTTTAAAAAACGCTGCTATAGATCTAGCA
1 -TAAAATGCCGCTATAAATCGAGCATTAGCGACG-CTTTTTAAAAACGC-GCTATAGATCTAGCA
*
43696175 TTAGTAGCACTTTTT
63 TTAGTGGCACTTTTT
* * * * *
43696190 TAAAATCGCTGCTATAAAATCGAGCATTAGCGGCGCTTTTTGATAAACGTCACTATAGATCGAGC
1 TAAAAT-GCCGCTAT-AAATCGAGCATTAGCGACGCTTTTT-AAAAACG-CGCTATAGATCTAGC
*
43696255 ATTAGTGGCTCTTTTT
62 ATTAGTGGCACTTTTT
43696271 TAAAATTGCCGC
1 TAAAA-TGCCGC
43696283 AAAAAATAAG
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
79 34 0.24
80 49 0.34
81 58 0.41
82 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (77 bp):
TAAAATGCCGCTATAAATCGAGCATTAGCGACGCTTTTTAAAAACGCGCTATAGATCTAGCATTA
GTGGCACTTTTT
Found at i:43696253 original size:121 final size:118
Alignment explanation
Indices: 43696033--43696258 Score: 292
Period size: 121 Copynumber: 1.9 Consensus size: 118
43696023 GCATTTGGAT
* *
43696033 AAAAAGCCGCTATAAATCGAGCATTAGTGACGCTTTTTAAAAACGCCGCTATAGATTGAGCATTA
1 AAAAAGCCGCTATAAATCGAGCATTAGTGACGCTTTTTAAAAACGCCGCTATAAATCGAGCATTA
* *
43696098 GCGGCGCTTTTTAAAAAATGCCGCTATAGATCGAGCATTAACGACGCCTTTTA
66 GCGGCGCTTTTTAAAAAACGCCACTATAGATCGAGCATTAACGACGCCTTTTA
* * * * * *
43696151 AAAAACGCTGCTATAGATCTAGCATTAGTAGCAC-TTTTTTAAAATCGCTGCTATAAAATCGAGC
1 AAAAA-GCCGCTATAAATCGAGCATTAGT-G-ACGCTTTTTAAAAACGCCGCTAT-AAATCGAGC
* * *
43696215 ATTAGCGGCGCTTTTTGATAAACGTCACTATAGATCGAGCATTA
62 ATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGAGCATTA
43696259 GTGGCTCTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
118 5 0.05
119 20 0.22
120 18 0.20
121 48 0.53
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (118 bp):
AAAAAGCCGCTATAAATCGAGCATTAGTGACGCTTTTTAAAAACGCCGCTATAAATCGAGCATTA
GCGGCGCTTTTTAAAAAACGCCACTATAGATCGAGCATTAACGACGCCTTTTA
Found at i:43696367 original size:40 final size:40
Alignment explanation
Indices: 43696312--43696421 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 40
43696302 GTATTTAGAG
* *
43696312 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
*
43696352 GCATTAGCGGCGCTTTTT-AAGAAACGCCACTATAGATCAA
1 GCATTAGCGGCGCTTTTTGAA-AAACGCCGCTATAGATCAA
* * *
43696392 GAAATAGCGGCGCTTTCTGAAAAACGCCGC
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGC
43696422 AAAACATCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
39 2 0.03
40 57 0.93
41 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
Found at i:43696712 original size:24 final size:25
Alignment explanation
Indices: 43696666--43696713 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
43696656 TTATAACTTT
43696666 TTTTTATTTACCAAAAAATATATATA
1 TTTTTATTTACC-AAAAATATATATA
43696692 TTTTTATTTACC-AAAATATATA
1 TTTTTATTTACCAAAAATATATA
43696714 AAAAAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.45
26 12 0.55
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTTTATTTACCAAAAATATATATA
Found at i:43696849 original size:27 final size:27
Alignment explanation
Indices: 43696781--43696850 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
43696771 CGCCAATGGT
*
43696781 ATTGGCGGCACCAAAGGTGCCAAAGCC
1 ATTGGCGGCACCAATGGTGCCAAAGCC
*
43696808 ATTGGCAGCACCAATGGTGCCAATA-CC
1 ATTGGCGGCACCAATGGTGCCAA-AGCC
43696835 ATTGGCGGCACCAATG
1 ATTGGCGGCACCAATG
43696851 TATAATAGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGCC
Found at i:43696898 original size:4 final size:4
Alignment explanation
Indices: 43696889--43697039 Score: 116
Period size: 4 Copynumber: 37.0 Consensus size: 4
43696879 GAAGGAGAGG
* * * *
43696889 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAAG GAAG GAGAG GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GAAA GAAA GA-AA GAAA
* * *
43696939 GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA
43696987 GAAA G-AA G-AA GAAAA GGAAA TGAGAA GAAA -AAA GAAA GAAA GAAA
1 GAAA GAAA GAAA G-AAA -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
43697032 GAAA GAAA
1 GAAA GAAA
43697040 AGGAAATGAG
Statistics
Matches: 125, Mismatches: 9, Indels: 26
0.78 0.06 0.16
Matches are distributed among these distances:
3 15 0.12
4 80 0.64
5 26 0.21
6 4 0.03
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:43696939 original size:34 final size:36
Alignment explanation
Indices: 43696901--43697050 Score: 142
Period size: 40 Copynumber: 4.0 Consensus size: 36
43696891 AAGAAAGAAA
*
43696901 GAAAGAAAGAAAGAAAGGAAG-GAAGG-AAGGAGAG
1 GAAAGAAAGAAAGAAAGGAAGAAAAGGAAAGGAGAG
*
43696935 GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG
1 GAAAGAAAGAAAGA-AAGG-AAGAAAAGGAAAGGAG-AG
* *
43696974 AGAAAAAAAGAAAGAAAGAAGAAGAAAAGGAAATGAGAAGAA
1 -GAAAGAAAGAAAGAAAG--GAAGAAAAGGAAA-G-G-AGAG
* * *
43697016 AAAAGAAAGAAAGAAAGAAAGAAAAGGAAATGAGA
1 GAAAGAAAGAAAGAAAGGAAGAAAAGGAAAGGAGA
43697051 ACAGAAAAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
34 13 0.14
35 4 0.04
36 6 0.06
37 5 0.05
38 6 0.06
39 17 0.18
40 24 0.25
41 17 0.18
42 2 0.02
43 2 0.02
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.01
Consensus pattern (36 bp):
GAAAGAAAGAAAGAAAGGAAGAAAAGGAAAGGAGAG
Found at i:43697057 original size:34 final size:34
Alignment explanation
Indices: 43696946--43697057 Score: 109
Period size: 39 Copynumber: 3.1 Consensus size: 34
43696936 AAAGAAAGAA
* * *
43696946 AAAGAAGGAAAGAAAAGGAAAGGAGAA-GAGAAAA
1 AAAGAAAGAAAGAAAAGAAAAGGA-AATGAGAAAG
*
43696980 AAAGAAAGAAAGAAGAAGAAAAGGAAATGAGAAGAAA
1 AAAGAAAGAAAGAA-AAGAAAAGGAAATGAG-A-AAG
43697017 AAAGAAAGAAAGAAAGAAAGAAAAGGAAATGAGAACAG
1 AAAGAAAGAAAG--A-AAAGAAAAGGAAATGAGAA-AG
43697055 AAA
1 AAA
43697058 AAAAAGAAGA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
34 15 0.22
35 12 0.18
36 1 0.01
37 16 0.24
38 5 0.07
39 17 0.25
40 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.02
Consensus pattern (34 bp):
AAAGAAAGAAAGAAAAGAAAAGGAAATGAGAAAG
Found at i:43702885 original size:18 final size:18
Alignment explanation
Indices: 43702862--43702906 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
43702852 ATCCCAATGA
43702862 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
43702880 TCGCCAGCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
43702898 TCACCACCA
1 TCGCCACCA
43702907 ACCATGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:43703872 original size:19 final size:21
Alignment explanation
Indices: 43703848--43703886 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
43703838 ACTAAAACAA
*
43703848 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
43703867 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
43703887 ATCTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:43704186 original size:22 final size:21
Alignment explanation
Indices: 43704144--43704187 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43704134 TTTTTTTGAT
43704144 ATATTTTGGTAAATAAAAAAA
1 ATATTTTGGTAAATAAAAAAA
43704165 ATATTTTGGTAAATAAAAAAA
1 ATATTTTGGTAAATAAAAAAA
43704186 AT
1 AT
43704188 TATAACATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (21 bp):
ATATTTTGGTAAATAAAAAAA
Found at i:43707750 original size:28 final size:28
Alignment explanation
Indices: 43707718--43707775 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
43707708 TATGCATATC
43707718 AAAGCATTATTGTATTAGTTAGTTTTTT
1 AAAGCATTATTGTATTAGTTAGTTTTTT
43707746 AAAGCATTATTGTATTAGTTAGTTTTTT
1 AAAGCATTATTGTATTAGTTAGTTTTTT
43707774 AA
1 AA
43707776 CATTAACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (28 bp):
AAAGCATTATTGTATTAGTTAGTTTTTT
Found at i:43708062 original size:40 final size:42
Alignment explanation
Indices: 43708009--43708106 Score: 105
Period size: 43 Copynumber: 2.4 Consensus size: 42
43707999 GCGATTTTTC
* *
43708009 ATAAA-CGCTGCTAAAAATC-ACT-TTTAGCGGCGTTTGT-G
1 ATAAAGCGCCGCTAAAAATCAACTGTTTAGCAGCGTTTGTGG
* *
43708047 ATAAAAGCGCCGCTAAAGATCATATTGTTTAGCAGCGTTTGTGG
1 AT-AAAGCGCCGCTAAAAATCA-ACTGTTTAGCAGCGTTTGTGG
*
43708091 GTAAAGCGCCGCTAAA
1 ATAAAGCGCCGCTAAA
43708107 GGTCATGTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
38 2 0.04
39 3 0.06
40 12 0.24
42 2 0.04
43 28 0.57
44 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (42 bp):
ATAAAGCGCCGCTAAAAATCAACTGTTTAGCAGCGTTTGTGG
Found at i:43708079 original size:43 final size:43
Alignment explanation
Indices: 43708031--43708172 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 43
43708021 AAAAATCACT
* * *
43708031 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGATCATATTG
1 TTTAGCGGCGTTTGTGGGT-AAAGCGCCGCTAAAGATCATGTTC
* *
43708074 TTTAGCAGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* * * *
43708117 TTTAGTGGCGTTTGTGGGTTAAGCGCCGATAAATATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
*
43708160 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
43708173 TATCACATTA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 85 0.98
44 2 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
Found at i:43708203 original size:34 final size:34
Alignment explanation
Indices: 43708160--43708266 Score: 178
Period size: 34 Copynumber: 3.1 Consensus size: 34
43708150 TATCATGTTC
*
43708160 TTTAGTGGCGTTTTATCACATTAACGCCGCAAAA
1 TTTAGTGGCGTTTTATCACATAAACGCCGCAAAA
43708194 TTTAGTGGCGTTTTATCACATAAACGCCGCAAAA
1 TTTAGTGGCGTTTTATCACATAAACGCCGCAAAA
* **
43708228 TTTAGCGGCGTTTTATCACATAAACGCTTCAAAA
1 TTTAGTGGCGTTTTATCACATAAACGCCGCAAAA
43708262 TTTAG
1 TTTAG
43708267 CATAATTGTC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (34 bp):
TTTAGTGGCGTTTTATCACATAAACGCCGCAAAA
Found at i:43720059 original size:44 final size:43
Alignment explanation
Indices: 43719957--43720086 Score: 133
Period size: 43 Copynumber: 3.0 Consensus size: 43
43719947 AGCTCGTACA
**
43719957 ATGCCAACGTCCCAGACGAGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGAGGTCTTACACATAATCAAATATCG
* *
43720000 ATACC-ACTGTCCCAGAC-AGGGTCTTACACATAAATCTCAA-ATCG
1 ATGCCAAC-GTCCCAGACGA-GGTCTTACACAT-AATC-AAATATCG
* *
43720044 ATGCCAACGTCCCAGACGTGGTCTTACACGA-AATCACATATCG
1 ATGCCAACGTCCCAGACGAGGTCTTACAC-ATAATCAAATATCG
43720087 GAATCTTATG
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
42 4 0.06
43 31 0.44
44 31 0.44
45 5 0.07
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACATAATCAAATATCG
Found at i:43720247 original size:34 final size:35
Alignment explanation
Indices: 43720195--43720267 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
43720185 TTCCATGCTA
* ** *
43720195 AATTCAATTCGGCAATGTA-ATTATACATACATAC
1 AATTCAATTCGACAATGTACAAAATAAATACATAC
* *
43720229 AATTCAATTTGACTATGTACAAAATAAATACATAC
1 AATTCAATTCGACAATGTACAAAATAAATACATAC
43720264 AATT
1 AATT
43720268 TAACATCCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (35 bp):
AATTCAATTCGACAATGTACAAAATAAATACATAC
Found at i:43720712 original size:34 final size:35
Alignment explanation
Indices: 43720660--43720732 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
43720650 TTCCATGCTA
* ** *
43720660 AATTCAATTCGGCAATGTA-ATTATACATACATAC
1 AATTCAATTCGACAATGTACAAAATAAATACATAC
* *
43720694 AATTCAATTTGACTATGTACAAAATAAATACATAC
1 AATTCAATTCGACAATGTACAAAATAAATACATAC
43720729 AATT
1 AATT
43720733 TAACATCCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (35 bp):
AATTCAATTCGACAATGTACAAAATAAATACATAC
Found at i:43720839 original size:465 final size:465
Alignment explanation
Indices: 43719968--43721365 Score: 2751
Period size: 465 Copynumber: 3.0 Consensus size: 465
43719958 TGCCAACGTC
*
43719968 CCAGACGAGGTCTTACATGTAATCAAATATCGATACCACTGTCCCAGACAGGGTCTTACACATAA
1 CCAGACGAGGTCTTACATGTAATCAAATATCGATACCACTGTCCCAGACAGGGTCTTACACGTAA
43720033 ATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCGGAATCTTATGT
66 ATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCGGAATCTTATGT
43720098 CATGACATATGTATTCTAACTATTCCTAAGGTTCGAACGGGGCTTTCGGACGTCGTATTTTGATC
131 CATGACATATGTATTCTAACTATTCCTAAGGTTCGAACGGGGCTTTCGGACGTCGTATTTTGATC
43720163 GATTCAAGCTCGTAACAAATCATTCCATGCTAAATTCAATTCGGCAATGTAATTATACATACATA
196 GATTCAAGCTCGTAACAAATCATTCCATGCTAAATTCAATTCGGCAATGTAATTATACATACATA
43720228 CAATTCAATTTGACTATGTACAAAATAAATACATACAATTTAACATCCTTTATTCACTTACAATC
261 CAATTCAATTTGACTATGTACAAAATAAATACATACAATTTAACATCCTTTATTCACTTACAATC
*
43720293 TTACCTCGGACGAAGACGAACGGACCGGGACGACTATTCGACAACTTTTGATTTCCTCCGATCCA
326 TTACCTCGGACGAAGATGAACGGACCGGGACGACTATTCGACAACTTTTGATTTCCTCCGATCCA
43720358 AATTCGATTTCTTCTTTTCTTGATCTAAATTAATACAAATTTGACTTGTTTAGTCATATATTTAT
391 AATTCGATTTCTTCTTTTCTTGATCTAAATTAATACAAATTTGACTTGTTTAGTCATATATTTAT
43720423 TCAAATTCAT
456 TCAAATTCAT
* *
43720433 CCAGACGAGGTCTTACATGTAATCAAATATTGATACCACTATCCCAGACAGGGTCTTACACGTAA
1 CCAGACGAGGTCTTACATGTAATCAAATATCGATACCACTGTCCCAGACAGGGTCTTACACGTAA
43720498 ATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCGGAATCTTATGT
66 ATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCGGAATCTTATGT
43720563 CATGACATATGTATTCTAACTATTCCTAAGGTTCGAACGGGGCTTTCGGACGTCGTATTTTGATC
131 CATGACATATGTATTCTAACTATTCCTAAGGTTCGAACGGGGCTTTCGGACGTCGTATTTTGATC
43720628 GATTCAAGCTCGTAACAAATCATTCCATGCTAAATTCAATTCGGCAATGTAATTATACATACATA
196 GATTCAAGCTCGTAACAAATCATTCCATGCTAAATTCAATTCGGCAATGTAATTATACATACATA
43720693 CAATTCAATTTGACTATGTACAAAATAAATACATACAATTTAACATCCTTTATTCACTTACAATC
261 CAATTCAATTTGACTATGTACAAAATAAATACATACAATTTAACATCCTTTATTCACTTACAATC
43720758 TTACCTCGGACGAAGATGAACGGACCGGGACGACTATTCGACAACTTTTGATTTCCTCCGATCCA
326 TTACCTCGGACGAAGATGAACGGACCGGGACGACTATTCGACAACTTTTGATTTCCTCCGATCCA
43720823 AATTCGATTTCTTCTTTTCTTGATCTAAATTAATACAAATTTGACTTGTTTAGTCATATATTTAT
391 AATTCGATTTCTTCTTTTCTTGATCTAAATTAATACAAATTTGACTTGTTTAGTCATATATTTAT
43720888 TCAAATTCAT
456 TCAAATTCAT
43720898 CCAGACGAGGTCTTACATGTAATCAAATATCGATACCACTGTCCCAGACAGGGTCTTACACGTAA
1 CCAGACGAGGTCTTACATGTAATCAAATATCGATACCACTGTCCCAGACAGGGTCTTACACGTAA
43720963 ATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCGGAATCTTATGT
66 ATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCGGAATCTTATGT
*
43721028 CATGACATATGTATTCTCACTATTCCTAAGGTTCGAACGGGGCTTTCGGACGTCGTATTTTGATC
131 CATGACATATGTATTCTAACTATTCCTAAGGTTCGAACGGGGCTTTCGGACGTCGTATTTTGATC
43721093 GATTCAAGCTCGTAACAAATCATTCCATGCTAAATTCAATTCGGCAATGTAATTATACATACATA
196 GATTCAAGCTCGTAACAAATCATTCCATGCTAAATTCAATTCGGCAATGTAATTATACATACATA
43721158 CAATTCAATTTGACTATGTACAAAATAAATACATACAATTTAACATCCTTTATTCACTTACAATC
261 CAATTCAATTTGACTATGTACAAAATAAATACATACAATTTAACATCCTTTATTCACTTACAATC
43721223 TTACCTCGGACGAAGATGAACGGACCGGGACGACTATTCGACAACTTTTGATTTCCTCCGATCCA
326 TTACCTCGGACGAAGATGAACGGACCGGGACGACTATTCGACAACTTTTGATTTCCTCCGATCCA
43721288 AATTCGATTTCTTCTTTTCTTGATCTAAATTAATACAAATTTGACTTGTTTAGTCATATATTTAT
391 AATTCGATTTCTTCTTTTCTTGATCTAAATTAATACAAATTTGACTTGTTTAGTCATATATTTAT
43721353 TCAAATTCAT
456 TCAAATTCAT
43721363 CCA
1 CCA
43721366 AAAACACAAA
Statistics
Matches: 926, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
465 926 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (465 bp):
CCAGACGAGGTCTTACATGTAATCAAATATCGATACCACTGTCCCAGACAGGGTCTTACACGTAA
ATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCGGAATCTTATGT
CATGACATATGTATTCTAACTATTCCTAAGGTTCGAACGGGGCTTTCGGACGTCGTATTTTGATC
GATTCAAGCTCGTAACAAATCATTCCATGCTAAATTCAATTCGGCAATGTAATTATACATACATA
CAATTCAATTTGACTATGTACAAAATAAATACATACAATTTAACATCCTTTATTCACTTACAATC
TTACCTCGGACGAAGATGAACGGACCGGGACGACTATTCGACAACTTTTGATTTCCTCCGATCCA
AATTCGATTTCTTCTTTTCTTGATCTAAATTAATACAAATTTGACTTGTTTAGTCATATATTTAT
TCAAATTCAT
Found at i:43721177 original size:34 final size:35
Alignment explanation
Indices: 43721125--43721197 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
43721115 TTCCATGCTA
* ** *
43721125 AATTCAATTCGGCAATGTA-ATTATACATACATAC
1 AATTCAATTCGACAATGTACAAAATAAATACATAC
* *
43721159 AATTCAATTTGACTATGTACAAAATAAATACATAC
1 AATTCAATTCGACAATGTACAAAATAAATACATAC
43721194 AATT
1 AATT
43721198 TAACATCCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (35 bp):
AATTCAATTCGACAATGTACAAAATAAATACATAC
Found at i:43726170 original size:37 final size:37
Alignment explanation
Indices: 43726129--43726199 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
43726119 GATGGGTTTC
* *
43726129 TTTAGTTCTTTTATATATTTTTATA-AGTTTATAAAAT
1 TTTAGTTCTTTTATACATTTATATATA-TTTATAAAAT
43726166 TTTAGTTCTTTTATACATTTATATATATTTATAA
1 TTTAGTTCTTTTATACATTTATATATATTTATAA
43726200 TTTTTCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (37 bp):
TTTAGTTCTTTTATACATTTATATATATTTATAAAAT
Found at i:43727714 original size:13 final size:13
Alignment explanation
Indices: 43727696--43727723 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43727686 ATGCAGCAGC
43727696 CAAGGTGGCCATG
1 CAAGGTGGCCATG
43727709 CAAGGTGGCCATG
1 CAAGGTGGCCATG
43727722 CA
1 CA
43727724 GGGAACGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.14
Consensus pattern (13 bp):
CAAGGTGGCCATG
Found at i:43731079 original size:21 final size:21
Alignment explanation
Indices: 43731047--43731087 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
43731037 GAACATTTGG
43731047 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
43731068 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
43731088 CCTCAAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:43732214 original size:13 final size:13
Alignment explanation
Indices: 43732196--43732223 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43732186 ATGCAGCAGC
43732196 CAAGGTGGCCATG
1 CAAGGTGGCCATG
43732209 CAAGGTGGCCATG
1 CAAGGTGGCCATG
43732222 CA
1 CA
43732224 GGGAACATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.14
Consensus pattern (13 bp):
CAAGGTGGCCATG
Found at i:43735361 original size:29 final size:30
Alignment explanation
Indices: 43735318--43735399 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
43735308 GAATTAGATC
43735318 AAATTAAAATTTTATATATAAAATTACACA-
1 AAATTAAAA-TTTATATATAAAATTACACAT
* * * *
43735348 AAATCAAAATTTATATATTAAATTATATATT
1 AAATTAAAATTTATATATAAAATTACACA-T
*
43735379 AAATTAAAATTTATGTATAAA
1 AAATTAAAATTTATATATAAA
43735400 TTTAATACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 18 0.42
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (30 bp):
AAATTAAAATTTATATATAAAATTACACAT
Found at i:43735375 original size:12 final size:12
Alignment explanation
Indices: 43735358--43735384 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43735348 AAATCAAAAT
43735358 TTATATATTAAA
1 TTATATATTAAA
43735370 TTATATATTAAA
1 TTATATATTAAA
43735382 TTA
1 TTA
43735385 AAATTTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATATATTAAA
Found at i:43735388 original size:31 final size:29
Alignment explanation
Indices: 43735318--43735401 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 29
43735308 GAATTAGATC
*
43735318 AAATTAAAATTTTATATATAAAATTACACA
1 AAATTAAAA-TTTATATATTAAATTACACA
* * *
43735348 AAATCAAAATTTATATATTAAATTATATA
1 AAATTAAAATTTATATATTAAATTACACA
*
43735377 TTAAATTAAAATTTATGTA-TAAATT
1 --AAATTAAAATTTATATATTAAATT
43735402 TAATACTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.37
30 14 0.30
31 15 0.33
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
AAATTAAAATTTATATATTAAATTACACA
Found at i:43745719 original size:19 final size:19
Alignment explanation
Indices: 43745690--43745735 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
43745680 GGATATATTT
43745690 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
43745708 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
*
43745727 TAATTCTTA
1 TAAATCTTA
43745736 GAATAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:43753634 original size:25 final size:25
Alignment explanation
Indices: 43753609--43753732 Score: 85
Period size: 25 Copynumber: 5.0 Consensus size: 25
43753599 ATACATATAT
*
43753609 GCTCATACGAGCTATGAATCGGTAT
1 GCTCATACGAGCTATGAATCGGTAA
* * * *
43753634 GCTC-TCACGAGCTGTAAACCGGCAA
1 GCTCAT-ACGAGCTATGAATCGGTAA
* * *
43753659 GCTCATACGAGTTAAGAATTGGTAA
1 GCTCATACGAGCTATGAATCGGTAA
* *
43753684 GCT-TTCACGAGCTGT-AATCGGTAA
1 GCTCAT-ACGAGCTATGAATCGGTAA
* *
43753708 GCTCATATGAGTTGA-GAATCGGTAA
1 GCTCATACGAGCT-ATGAATCGGTAA
43753733 TCACTAATGA
Statistics
Matches: 72, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
24 18 0.25
25 53 0.74
26 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTATGAATCGGTAA
Found at i:43753720 original size:49 final size:50
Alignment explanation
Indices: 43753609--43753732 Score: 160
Period size: 50 Copynumber: 2.5 Consensus size: 50
43753599 ATACATATAT
* * *
43753609 GCTCATACGAGCTATGAATCGGTATGCTCTCACGAGCTGTAAACCGGCAA
1 GCTCATACGAGTTAAGAATCGGTAAGCTCTCACGAGCTGTAAACCGGCAA
* * * *
43753659 GCTCATACGAGTTAAGAATTGGTAAGCTTTCACGAGCTGT-AATCGGTAA
1 GCTCATACGAGTTAAGAATCGGTAAGCTCTCACGAGCTGTAAACCGGCAA
* *
43753708 GCTCATATGAGTTGAGAATCGGTAA
1 GCTCATACGAGTTAAGAATCGGTAA
43753733 TCACTAATGA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
49 29 0.45
50 35 0.55
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (50 bp):
GCTCATACGAGTTAAGAATCGGTAAGCTCTCACGAGCTGTAAACCGGCAA
Found at i:43763737 original size:24 final size:23
Alignment explanation
Indices: 43763697--43763743 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
43763687 TAGGCATCCC
* *
43763697 CAAAAATTCCACAAAGGCGCTTA
1 CAAAAATGCCACAAAGGCACTTA
43763720 CAAAATATGCCACAAAGGCACTTA
1 CAAAA-ATGCCACAAAGGCACTTA
43763744 TATAATGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.17
Consensus pattern (23 bp):
CAAAAATGCCACAAAGGCACTTA
Found at i:43767457 original size:31 final size:33
Alignment explanation
Indices: 43767417--43767482 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
43767407 GGGTAAGACA
43767417 TTTTCCACAGCTCATC-TTCACTCTCTTCACCC
1 TTTTCCACAGCTCATCTTTCACTCTCTTCACCC
*
43767449 TTTT-CACAGCTCCTCTTTTCACTCTCTTCACCC
1 TTTTCCACAGCTCATC-TTTCACTCTCTTCACCC
43767482 T
1 T
43767483 AACGATTGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 10 0.32
32 4 0.13
33 17 0.55
ACGTcount: A:0.14, C:0.42, G:0.03, T:0.41
Consensus pattern (33 bp):
TTTTCCACAGCTCATCTTTCACTCTCTTCACCC
Found at i:43767707 original size:12 final size:12
Alignment explanation
Indices: 43767689--43767720 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
43767679 TGAATTAGGG
43767689 CTTTTTTTT-TC
1 CTTTTTTTTCTC
43767700 CTTTTTTTTCTC
1 CTTTTTTTTCTC
43767712 CTTTTTTTT
1 CTTTTTTTT
43767721 GGGTTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTTTTCTC
Found at i:43772683 original size:34 final size:35
Alignment explanation
Indices: 43772617--43772683 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43772607 CAAACACCAG
*
43772617 AAAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAATAAATCATTTTACAGAAAAGT
* *
43772652 AAAACATTTTCCAA-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAATAAATCATTTTACAGAAAA
43772684 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAATAAATCATTTTACAGAAAAGT
Found at i:43777193 original size:19 final size:19
Alignment explanation
Indices: 43777169--43777206 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43777159 TCATAGAAAT
43777169 GGGCTTAAAGTTTTGACAA
1 GGGCTTAAAGTTTTGACAA
43777188 GGGCTTAAAGTTTTGACAA
1 GGGCTTAAAGTTTTGACAA
43777207 ATGACCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
GGGCTTAAAGTTTTGACAA
Found at i:43778111 original size:77 final size:77
Alignment explanation
Indices: 43778018--43778192 Score: 298
Period size: 77 Copynumber: 2.3 Consensus size: 77
43778008 AAAGTTTATT
**
43778018 TATTTAAATTGAAAAAAAAATTCATAAAATTGATAAATAAAATGGA-AAAAAAGTCATTACATAA
1 TATTTAAATTGAAAAAAAAACCCATAAAATTGATAAATAAAAT-GACAAAAAAGTCATTACATAA
43778082 ATACAAAGTTGAC
65 ATACAAAGTTGAC
*
43778095 TATTTAAATTGAAAAAAAAACCCATAAAATTGATAAATAAAATGACAAAAAATTCATTACATAAA
1 TATTTAAATTGAAAAAAAAACCCATAAAATTGATAAATAAAATGACAAAAAAGTCATTACATAAA
43778160 TACAAAGTTGAC
66 TACAAAGTTGAC
43778172 TATTTAAATTGCAAAAAAAAA
1 TATTTAAATTG-AAAAAAAAA
43778193 ATAAAAAAAT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
76 2 0.02
77 82 0.88
78 9 0.10
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.27
Consensus pattern (77 bp):
TATTTAAATTGAAAAAAAAACCCATAAAATTGATAAATAAAATGACAAAAAAGTCATTACATAAA
TACAAAGTTGAC
Found at i:43778273 original size:89 final size:88
Alignment explanation
Indices: 43778106--43778332 Score: 281
Period size: 91 Copynumber: 2.6 Consensus size: 88
43778096 ATTTAAATTG
43778106 AAAAAAAAACCCATAAAATTGATAAATAAAATGACAAAAAATTCATTACATAAATACAAAGTTGA
1 AAAAAAAAACCCATAAAATTGATAAATAAAATGACAAAAAATTCATTACA-AAATACAAAGTTGA
43778171 CTATTTAAATTGCAAAAAAAAAATA
65 CTATTTAAATTGC-AAAAAAAAATA
* * * **
43778196 AAAAAATAAACCCATAAATTTGATAAATAAAATGACAACAAATTCATTTC-AAATATGAAGTTGA
1 AAAAAA-AAACCCATAAAATTGATAAATAAAATGACAAAAAATTCATTACAAAATACAAAGTTGA
*
43778260 CTATTTAAATTGCAGAAAAAAAT-
65 CTATTTAAATTGCAAAAAAAAATA
* * *
43778283 ------AAACTCATAAAATTGATAAACAAAATGGCAAAAAATTCATTACATAAATA
1 AAAAAAAAACCCATAAAATTGATAAATAAAATGACAAAAAATTCATTACA-AAATA
43778333 TGAAGTTATT
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
80 37 0.30
82 5 0.04
88 9 0.07
89 25 0.20
90 6 0.05
91 40 0.33
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.25
Consensus pattern (88 bp):
AAAAAAAAACCCATAAAATTGATAAATAAAATGACAAAAAATTCATTACAAAATACAAAGTTGAC
TATTTAAATTGCAAAAAAAAATA
Found at i:43780807 original size:103 final size:102
Alignment explanation
Indices: 43780679--43780919 Score: 358
Period size: 103 Copynumber: 2.3 Consensus size: 102
43780669 AAAATTACAT
* *
43780679 TAAAAATCACAAAACACTAAACTAAACACTAACAAATTATATAACCTAATCATAAATTACTAATA
1 TAAAAATCACAAAACACT-AACTAAACACTAACAAATTATATAACCTAATCATAAAATACTAACA
*
43780744 AAATAACTATAAATTTA-TTTTTTTAAAAATACATTAC
65 AAATAACTATAAAATTATTTTTTTTAAAAATACATTAC
* *
43780781 TAAAATATCACAAAACACATACCTAAACACTAACAATTTATATAACCTAATCATAAAATACTAAC
1 TAAAA-ATCACAAAACAC-TAACTAAACACTAACAAATTATATAACCTAATCATAAAATACTAAC
*
43780846 AAAATAACTATAAAATTATTTTTTTTAAAATTACATTAC
64 AAAATAACTATAAAATTATTTTTTTTAAAAATACATTAC
* *
43780885 TAGAAAATCACAAAACCCTATGCTAAACACTAACA
1 TA-AAAATCACAAAACACTA-ACTAAACACTAACA
43780920 GCATGTTTGG
Statistics
Matches: 126, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
102 5 0.04
103 72 0.57
104 46 0.37
105 3 0.02
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.29
Consensus pattern (102 bp):
TAAAAATCACAAAACACTAACTAAACACTAACAAATTATATAACCTAATCATAAAATACTAACAA
AATAACTATAAAATTATTTTTTTTAAAAATACATTAC
Found at i:43784525 original size:17 final size:17
Alignment explanation
Indices: 43784491--43784531 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
43784481 AGAATTTCAT
**
43784491 TAAATTATATTTTTTAA
1 TAAATTATATTTAATAA
43784508 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
43784525 T-AATTAT
1 TAAATTAT
43784532 GTTAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:43784564 original size:119 final size:121
Alignment explanation
Indices: 43784419--43784715 Score: 503
Period size: 119 Copynumber: 2.5 Consensus size: 121
43784409 TACATTATAC
*
43784419 ATTAT-TTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
43784483 AATTTCATTAAATTATAT-TTTTTAATAAATTATATTTAATAATAATTATGTT-AA
66 AATTTCATTAAATTATATATTTTTAATAAATTATATTTAATAATAATTATGTTAAA
43784537 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-TTTAATATTAA
* *
43784602 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
65 GAATTTCATTAAATTATATATTTTTAATAAATTATATTTAATAATAATTATGTTAAA
* *
43784659 ATTATATTTTATAGTATTATATATTATGATTTTAGTAATTTAATATTAAGAAT-TTTA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATA-TAAGAATATTTA
43784716 TTAAATTATA
Statistics
Matches: 169, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
118 5 0.03
119 46 0.27
120 29 0.17
121 37 0.22
122 45 0.27
123 7 0.04
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (121 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTCATTAAATTATATATTTTTAATAAATTATATTTAATAATAATTATGTTAAA
Found at i:43784617 original size:17 final size:17
Alignment explanation
Indices: 43784582--43784635 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
43784572 TAAATTCATA
*
43784582 TAAGAATATT-TTAATAT
1 TAAGAATTTTATTAA-AT
43784599 TAAGAATTTTATTAAAT
1 TAAGAATTTTATTAAAT
* *
43784616 TATATATTTTTATTAAAT
1 TA-AGAATTTTATTAAAT
43784634 TA
1 TA
43784636 TATTTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TAAGAATTTTATTAAAT
Found at i:43784704 original size:22 final size:22
Alignment explanation
Indices: 43784659--43784729 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
43784649 TTATGTTAAA
*
43784659 ATTAT-ATTTTATAGTATTATAT
1 ATTATGATTTTATAAT-TTATAT
43784681 ATTATGATTTTAGTAATTTA-AT
1 ATTATGATTTTA-TAATTTATAT
* *
43784703 ATTAAGAATTTTATTAAATTATAT
1 ATTATG-ATTTTA-TAATTTATAT
43784727 ATT
1 ATT
43784730 TTTACTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 12 0.29
23 21 0.51
24 8 0.20
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
ATTATGATTTTATAATTTATAT
Found at i:43784728 original size:24 final size:23
Alignment explanation
Indices: 43784674--43784729 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
43784664 ATTTTATAGT
*
43784674 ATTATATATTATGATTTTAGTAA
1 ATTATATATTAAGATTTTAGTAA
* *
43784697 TTTA-ATATTAAGAATTTTATTAA
1 ATTATATATTAAG-ATTTTAGTAA
43784720 ATTATATATT
1 ATTATATATT
43784730 TTTACTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 7 0.26
23 15 0.56
24 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (23 bp):
ATTATATATTAAGATTTTAGTAA
Found at i:43785002 original size:16 final size:16
Alignment explanation
Indices: 43784977--43785030 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
43784967 TTAAATTGCT
*
43784977 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
43784993 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
**
43785009 ATTACGTCTCTATTCC
1 ATTACACCTCTATTCC
43785025 ATTACA
1 ATTACA
43785031 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:43785118 original size:18 final size:19
Alignment explanation
Indices: 43785076--43785120 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
43785066 TCCCATAAAT
*
43785076 TACTAACAAAATAAATAAC
1 TACTAACAAAACAAATAAC
43785095 TA-TAACAAAACACAA-AA-
1 TACTAACAAAACA-AATAAC
43785112 TACTAACAA
1 TACTAACAA
43785121 TTTATAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (19 bp):
TACTAACAAAACAAATAAC
Found at i:43785361 original size:60 final size:60
Alignment explanation
Indices: 43785288--43785402 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
43785278 TAAAATAAAT
* *
43785288 ACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAAC
1 ACAACAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAC
43785348 ACAACAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 ACAACAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
43785403 TAAAAAAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (60 bp):
ACAACAAGTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAC
Found at i:43785583 original size:3 final size:3
Alignment explanation
Indices: 43785575--43785615 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
43785565 CTTTCTTTCT
* *
43785575 TTC TTC TTC TTC -TC TTC TTC TTC TTA TTC TT- TTT TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
43785616 CCTTTCTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:43785584 original size:14 final size:14
Alignment explanation
Indices: 43785559--43785628 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
43785549 CATTACCTTT
43785559 TTCTTTCTTTC-T-
1 TTCTTTCTTTCTTC
43785571 TTCTTTC-TTCTTC
1 TTCTTTCTTTCTTC
*
43785584 TTCTCTTCTTCTTCTTA
1 TTCT-TTC-T-TTCTTC
*
43785601 TTCTTTTTTTCTTC
1 TTCTTTCTTTCTTC
* *
43785615 TCCTTTCTCTCTTC
1 TTCTTTCTTTCTTC
43785629 CGGTGCACCT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
11 3 0.07
12 8 0.17
13 4 0.09
14 19 0.41
15 1 0.02
16 2 0.04
17 9 0.20
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTTCTTTCTTC
Found at i:43785595 original size:17 final size:17
Alignment explanation
Indices: 43785575--43785628 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
43785565 CTTTCTTTCT
43785575 TTCTTCTTCTTCTCTTC
1 TTCTTCTTCTTCTCTTC
* * *
43785592 TTCTTCTTATTCTTTTT
1 TTCTTCTTCTTCTCTTC
*
43785609 TTCTTCTCCTT-TCTCTC
1 TTCTTCTTCTTCTCT-TC
43785626 TTC
1 TTC
43785629 CGGTGCACCT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 2 0.07
17 27 0.93
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTTCTTCTTCTCTTC
Found at i:43785958 original size:20 final size:20
Alignment explanation
Indices: 43785935--43785972 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43785925 TTAATAAAAA
*
43785935 TAAAATAATAATATTTTATT
1 TAAAATAAAAATATTTTATT
43785955 TAAAATAAAAATATTTTA
1 TAAAATAAAAATATTTTA
43785973 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAATAAAAATATTTTATT
Found at i:43787852 original size:44 final size:44
Alignment explanation
Indices: 43787789--43787877 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
43787779 GCTTGGATAT
43787789 TTGTGTCTCTATTTATGAATCCATGTTCGGTTAATTGAGGCTAA
1 TTGTGTCTCTATTTATGAATCCATGTTCGGTTAATTGAGGCTAA
43787833 TTGTGTCTCTATTTATGAATCCATGTTCGGTTAATTGAGGCTAA
1 TTGTGTCTCTATTTATGAATCCATGTTCGGTTAATTGAGGCTAA
43787877 T
1 T
43787878 CTTAGTGAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (44 bp):
TTGTGTCTCTATTTATGAATCCATGTTCGGTTAATTGAGGCTAA
Found at i:43792515 original size:74 final size:74
Alignment explanation
Indices: 43792416--43792560 Score: 202
Period size: 74 Copynumber: 2.0 Consensus size: 74
43792406 AAAGTGCCAC
* * *
43792416 AAAAAACCTAAGTCCAACGATGCCGTTTCCCGAGCTTTCGGGGATTTAGTAGCGTTTTTCGGAAA
1 AAAAAACCTAAGTCCAACGACGCCGTTTCCCGAGCTTTCGGGGATTTAGCAGCGTTTTTCAGAAA
43792481 GCGCCGTAA
66 GCGCCGTAA
* *** *
43792490 AAAAAACCTAAG-CCTAGCGACGCCGTTTTTTGAGCTTTCGGGGATTTAGCGGCGTTTTTCAGAA
1 AAAAAACCTAAGTCC-AACGACGCCGTTTCCCGAGCTTTCGGGGATTTAGCAGCGTTTTTCAGAA
43792554 AGCGCCG
65 AGCGCCG
43792561 CTAATGCTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 2 0.03
74 60 0.97
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (74 bp):
AAAAAACCTAAGTCCAACGACGCCGTTTCCCGAGCTTTCGGGGATTTAGCAGCGTTTTTCAGAAA
GCGCCGTAA
Found at i:43792661 original size:114 final size:113
Alignment explanation
Indices: 43792460--43793245 Score: 1083
Period size: 114 Copynumber: 6.9 Consensus size: 113
43792450 CTTTCGGGGA
* * * * * *
43792460 TTTAGTAGCGTTTTTCGGAAAGCGCCGTAAAAAAAACCTAAGCCTAGCGACGCCGTTTTTTGAGC
1 TTTAGCAGCGTTTTTGGGAAAGCGCCG-CAAAAAAACCTAAGCC-AACGGCGCCGTTTTCTGAGC
* *
43792525 TTTCGGGGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCAGGGC
64 TTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
* * *
43792575 TTTAGCAGTGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCGAACGGTGCCTTTTTCTGAGCT
1 TTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCC-AACGGCGCCGTTTTCTGAGCT
* *
43792640 ATCGGGGATTTAGCGGCGTTTTTAAGGAAGTGCCGCTAATGCTCAGGGC
65 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
* * * *
43792689 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAACAAACCTAAGACCAACGACGCCGTTTTCTAAGCT
1 TTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAG-CCAACGGCGCCGTTTTCTGAGCT
* *
43792754 TTTGGGGATTTAGCGGCGTTTTTAGGGAAGCGCCGCTAATGCTCAGGGC
65 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
43792803 TTTAGC-GACGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTGAGC
1 TTTAGCAG-CGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAG-CCAACGGCGCCGTTTTCTGAGC
* * *
43792867 TATCAGGGATTTAGTGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
64 TTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
* * * * * * *
43792917 TTTAGCGGCATTTTTGGGAAAGCTCCGCAAATAAACCTAAGACCAACGGTGCCGTTTTATAAGCT
1 TTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAG-CCAACGGCGCCGTTTTCTGAGCT
* * *
43792982 TTCGGGGATTTAGCGGCTTTTTTAGGGAAGCGCTGCTAATGCTCAGGGC
65 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
* *
43793031 TTTAGC-GATGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTTTGAGC
1 TTTAGCAG-CGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAG-CCAACGGCGCCGTTTTCTGAGC
* * * *
43793095 TTTCGGGGATTTTGCGGCGTTTTTAAGGAAGCGTCACTAATGCTCAGGCC
64 TTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
* *
43793145 TTTAGTAGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCTCAACGGCGCCATTTTCTGAGCT
1 TTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGC-CAACGGCGCCGTTTTCTGAGCT
*
43793210 TTCGGGGATTTAGCGGCGTTTTTGAA-AAAGCGCCGC
65 TTCGGGGATTTAGCGGCGTTTTT-AAGGAAGCGCCGC
43793246 AAAAAACCTA
Statistics
Matches: 594, Mismatches: 70, Indels: 15
0.87 0.10 0.02
Matches are distributed among these distances:
113 3 0.01
114 561 0.94
115 30 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (113 bp):
TTTAGCAGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCAACGGCGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
Found at i:43793288 original size:72 final size:72
Alignment explanation
Indices: 43793152--43793322 Score: 254
Period size: 72 Copynumber: 2.4 Consensus size: 72
43793142 GCCTTTAGTA
* *
43793152 GCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCTCAACGGCGCCATTTTCTGAGCTTTCGGGG
1 GCGTTTTTGGAAAAGCGCCGC-AAAAAACCTAAGCTCAACGGCGCCATTTTCTGAGATTTCGGGG
43793217 ATTTAGCG
65 ATTTAGCG
* * *
43793225 GCGTTTTTGAAAAAGCGCCGCAAAAAACCTAAGC-CTAACGTCGCCGTTTTCTGAGATTTCGGGG
1 GCGTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCTC-AACGGCGCCATTTTCTGAGATTTCGGGG
43793289 ATTTAGCG
65 ATTTAGCG
* *
43793297 TCGTTTTTGGAAAAGCGCCGCTAAAA
1 GCGTTTTTGGAAAAGCGCCGCAAAAA
43793323 TTATTTTATC
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.01
72 69 0.78
73 19 0.21
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (72 bp):
GCGTTTTTGGAAAAGCGCCGCAAAAAACCTAAGCTCAACGGCGCCATTTTCTGAGATTTCGGGGA
TTTAGCG
Found at i:43793652 original size:15 final size:15
Alignment explanation
Indices: 43793605--43793654 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
43793595 TATGGATTAG
*
43793605 GGGTT-GGGATTTAA
1 GGGTTAGGGGTTTAA
* *
43793619 GGATTAGGGGTTAAA
1 GGGTTAGGGGTTTAA
*
43793634 GGGTTAGGGGTTTAG
1 GGGTTAGGGGTTTAA
43793649 GGGTTA
1 GGGTTA
43793655 AAAGTTAGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (15 bp):
GGGTTAGGGGTTTAA
Found at i:43793672 original size:22 final size:23
Alignment explanation
Indices: 43793624--43793674 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
43793614 TTTAAGGATT
* ** *
43793624 AGGGGTTAAAGGGTTAGGGGTTT
1 AGGGGTTAAAGAGTTAGGAATTC
43793647 AGGGGTTAAA-AGTTAGGAATTC
1 AGGGGTTAAAGAGTTAGGAATTC
43793669 AGGGGT
1 AGGGGT
43793675 CGAGTTAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.27, C:0.02, G:0.43, T:0.27
Consensus pattern (23 bp):
AGGGGTTAAAGAGTTAGGAATTC
Found at i:43793904 original size:21 final size:22
Alignment explanation
Indices: 43793880--43793921 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
43793870 TAGTGATTAT
43793880 GGTTTAAGGGTT-GGGATTTAA
1 GGTTTAAGGGTTAGGGATTTAA
* *
43793901 GGTTTAGGGGTTAGGGGTTTA
1 GGTTTAAGGGTTAGGGATTTA
43793922 GGGGTTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGATTTAA
Found at i:43793914 original size:7 final size:7
Alignment explanation
Indices: 43793904--43793952 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
43793894 GATTTAAGGT
43793904 TTAGGGG
1 TTAGGGG
43793911 TTAGGGG
1 TTAGGGG
43793918 TTTAGGGG
1 -TTAGGGG
**
43793926 TTAGATG
1 TTAGGGG
43793933 TTAGGGG
1 TTAGGGG
* *
43793940 TTAAGAG
1 TTAGGGG
43793947 TTAGGG
1 TTAGGG
43793953 ATTTAAAGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:43793921 original size:15 final size:15
Alignment explanation
Indices: 43793900--43793942 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
43793890 TTGGGATTTA
43793900 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
43793915 GGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
43793930 ATG-TTAGGGGTTA
1 AGGTTTAGGGGTTA
43793943 AGAGTTAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.35
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:43793929 original size:22 final size:22
Alignment explanation
Indices: 43793887--43793952 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 22
43793877 TATGGTTTAA
* *
43793887 GGGTT-GGGATTTAAGGTTTAG
1 GGGTTAGGGGTTTAAGGGTTAG
*
43793908 GGGTTAGGGGTTTAGGGGTTAG
1 GGGTTAGGGGTTTAAGGGTTAG
** *
43793930 ATGTTAGGGG-TTAAGAGTTAG
1 GGGTTAGGGGTTTAAGGGTTAG
43793951 GG
1 GG
43793953 ATTTAAAGTT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 14 0.40
22 21 0.60
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (22 bp):
GGGTTAGGGGTTTAAGGGTTAG
Found at i:43794889 original size:103 final size:105
Alignment explanation
Indices: 43794748--43794935 Score: 308
Period size: 103 Copynumber: 1.8 Consensus size: 105
43794738 AAAGATAAGC
* * *
43794748 AATAGCGGTGTTTTCTATAAAACGCTGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAA
1 AATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
*
43794813 TTTTTAGCATAACAAAACGGCGTTATTTTGTTCAAAATGA
66 TTTTTAGAATAACAAAACGGCGTTATTTTGTTCAAAATGA
*
43794853 AATAGCGGCGTTTT-TAT-TAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
1 AATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
*
43794916 TTTTTAGAATAGCAAAACGG
66 TTTTTAGAATAACAAAACGG
43794936 TATCGTTTTG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 61 0.79
104 3 0.04
105 13 0.17
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (105 bp):
AATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
TTTTTAGAATAACAAAACGGCGTTATTTTGTTCAAAATGA
Found at i:43794947 original size:103 final size:105
Alignment explanation
Indices: 43794748--43794957 Score: 307
Period size: 103 Copynumber: 2.0 Consensus size: 105
43794738 AAAGATAAGC
* * *
43794748 AATAGCGGTGTTTTCTATAAAACGCTGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAA
1 AATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
* * *
43794813 TTTTTAGCATAACAAAACGGCGTTATTTTGTTCAAAATGA
66 TTTTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
*
43794853 AATAGCGGCGTTTT-TAT-TAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
1 AATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
* * * *
43794916 TTTTTAGAATAGCAAAACGGTATCGTTTTGTTTAAAATGA
66 TTTTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
43794956 AA
1 AA
43794958 AATTTTTTAC
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 78 0.83
104 3 0.03
105 13 0.14
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (105 bp):
AATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
TTTTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
Found at i:43797714 original size:45 final size:45
Alignment explanation
Indices: 43797657--43797758 Score: 204
Period size: 45 Copynumber: 2.3 Consensus size: 45
43797647 GGAATGTTAA
43797657 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
43797702 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
43797747 ACCTTTATGTGG
1 ACCTTTATGTGG
43797759 TGATAGTGGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.46
Consensus pattern (45 bp):
ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
Found at i:43798696 original size:43 final size:43
Alignment explanation
Indices: 43798596--43798846 Score: 242
Period size: 43 Copynumber: 5.8 Consensus size: 43
43798586 TTTTTGCAAG
* * * * *
43798596 AAGCGTCGCTAAAGGT-TTGTTCTATAGCGGCGTTTTTGATAT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAA
* *
43798638 AAGCGCTGCTAAAAGGTCTTGATCTATAGCGGCGTTTGT-AAAA
1 AAGCGCCGCT-AAAGGTCTTGATCTATAGCGGCGTTTGTGAGAA
* * * * *
43798681 AAGGTGCCGCTAAAGGTCTTGATCTACAGTGGCATTTGTGGGAA
1 AA-GCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAA
** * *
43798725 AATTGCCGTTAAAGGTCTTGAGCTATAGCGGCGTTTGTTGTAG--
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTG-TG-AGAA
* *
43798768 AAGCGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGAGGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGA-GAA
* *
43798812 AA-CGCCGCTAAAGGTCATGGTCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
43798847 ATTTCCAAAA
Statistics
Matches: 171, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 11 0.06
43 125 0.73
44 33 0.19
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAGAA
Found at i:43806749 original size:20 final size:18
Alignment explanation
Indices: 43806712--43806751 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
43806702 CCAACAAAAA
*
43806712 ATCTTAAACATGTTAAAT
1 ATCTTAAACATATTAAAT
43806730 ATCTATAAACGATATTAAAT
1 ATCT-TAAAC-ATATTAAAT
43806750 AT
1 AT
43806752 TTCTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (18 bp):
ATCTTAAACATATTAAAT
Found at i:43811319 original size:35 final size:36
Alignment explanation
Indices: 43811279--43811350 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
43811269 TCTAGGATCA
43811279 CATATC-TCAAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
* *
43811314 CATATCTTCAAAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
43811350 C
1 C
43811351 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 6 0.18
36 28 0.82
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (36 bp):
CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
Found at i:43813173 original size:35 final size:36
Alignment explanation
Indices: 43813133--43813204 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
43813123 TCTAGGATCA
43813133 CATATC-TCAAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
* *
43813168 CATATCTTCAAAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
43813204 C
1 C
43813205 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 6 0.18
36 28 0.82
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (36 bp):
CATATCTTCAAAAGATCACCTTCCATATTTGCCAAG
Found at i:43818704 original size:22 final size:24
Alignment explanation
Indices: 43818661--43818704 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
43818651 GATCCTTCCA
*
43818661 CCCTTAAAATATTTTCACTATTGG
1 CCCTTAAAATATTTCCACTATTGG
*
43818685 CCCTTTAAAT-TTTCCA-TATT
1 CCCTTAAAATATTTCCACTATT
43818705 TACACTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 5 0.28
24 9 0.50
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (24 bp):
CCCTTAAAATATTTCCACTATTGG
Found at i:43823777 original size:30 final size:30
Alignment explanation
Indices: 43823721--43824006 Score: 215
Period size: 30 Copynumber: 9.6 Consensus size: 30
43823711 GTACATGTTT
*
43823721 TATAT-ATTGCCAAATTGATTTGTATATAGA
1 TATATCATTGCCGAATTGA-TTGTATATAGA
* *
43823751 TATATTTATTGTCGAATTGATT-TATAT--A
1 TATA-TCATTGCCGAATTGATTGTATATAGA
* * *
43823779 TAT-TTATAGCCGAATTGATTCGTATATGGA
1 TATATCATTGCCGAATTGATT-GTATATAGA
* *
43823809 TATA-CATTGCTGAATTGATTTGTATATGGA
1 TATATCATTGCCGAATTGA-TTGTATATAGA
* *
43823839 TATA-CATTACCGAATTGATTTGTATATGGA
1 TATATCATTGCCGAATTGA-TTGTATATAGA
*
43823869 TATA-CATTGCCGGATTGATTTGTATAT-G-
1 TATATCATTGCCGAATTGA-TTGTATATAGA
*
43823897 TATATACATTGCCGAATTAATTTGTATATAGA
1 TATAT-CATTGCCGAATTGA-TTGTATATAGA
*
43823929 TATA-CATTACCGAATTGATTTGTATAT-G-
1 TATATCATTGCCGAATTGA-TTGTATATAGA
* *
43823957 TATATGTATTGTCGAATTGATTTGTATAT-GTA
1 TATAT-CATTGCCGAATTGA-TTGTATATAG-A
*
43823989 TATAT-ATTGCCGATTTGA
1 TATATCATTGCCGAATTGA
43824007 GCATTGGATG
Statistics
Matches: 220, Mismatches: 20, Indels: 32
0.81 0.07 0.12
Matches are distributed among these distances:
26 15 0.07
28 17 0.08
29 2 0.01
30 160 0.73
31 6 0.03
32 20 0.09
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.44
Consensus pattern (30 bp):
TATATCATTGCCGAATTGATTGTATATAGA
Found at i:43823804 original size:26 final size:26
Alignment explanation
Indices: 43823750--43823805 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
43823740 TTGTATATAG
* * *
43823750 ATATATTTATTGTCGAATTGATTTAT
1 ATATATTTATAGCCGAATTGATTCAT
*
43823776 ATATATTTATAGCCGAATTGATTCGT
1 ATATATTTATAGCCGAATTGATTCAT
43823802 ATAT
1 ATAT
43823806 GGATATACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.48
Consensus pattern (26 bp):
ATATATTTATAGCCGAATTGATTCAT
Found at i:43823864 original size:60 final size:60
Alignment explanation
Indices: 43823721--43824006 Score: 328
Period size: 60 Copynumber: 4.8 Consensus size: 60
43823711 GTACATGTTT
* * * * *
43823721 TATATATTGCCAAATTGATTTGTATATAGATATATTTATTGTCGAATTGA-TT-TATA--TA
1 TATACATTGCCGAATTGATTTGTATATGGATATA--CATTGCCGAATTGATTTGTATATGTA
** * * * *
43823779 TATTTATAGCCGAATTGATTCGTATATGGATATACATTGCTGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGTA
* *
43823839 TATACATTACCGAATTGATTTGTATATGGATATACATTGCCGGATTGATTTGTATATGTA
1 TATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGTA
* * *
43823899 TATACATTGCCGAATTAATTTGTATATAGATATACATTACCGAATTGATTTGTATATGTA
1 TATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGTA
** * * * *
43823959 TATGTATTGTCGAATTGATTTGTATATGTATATATATTGCCGATTTGA
1 TATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGA
43824007 GCATTGGATG
Statistics
Matches: 193, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
56 11 0.06
57 2 0.01
58 33 0.17
60 147 0.76
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.44
Consensus pattern (60 bp):
TATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGTA
Found at i:43823914 original size:90 final size:89
Alignment explanation
Indices: 43823721--43824006 Score: 353
Period size: 90 Copynumber: 3.2 Consensus size: 89
43823711 GTACATGTTT
* * * ** *
43823721 TATATATTGCCAAATTGATTTGTATATAGATATATTTATTGTCGAATTGA-TT-TATAT-ATATT
1 TATACATTGCCGAATTGATTTGTATATAGATATA--CATTACCGAATTGATTTGTATATGATATA
* * *
43823783 TATAGCCGAATTGATTCGTATATGGA
64 TATTGCCGAATTGATTTGTATATGTA
* * *
43823809 TATACATTGCTGAATTGATTTGTATATGGATATACATTACCGAATTGATTTGTATATGGATATAC
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTACCGAATTGATTTGTATAT-GATATAT
*
43823874 ATTGCCGGATTGATTTGTATATGTA
65 ATTGCCGAATTGATTTGTATATGTA
* *
43823899 TATACATTGCCGAATTAATTTGTATATAGATATACATTACCGAATTGATTTGTATATGTATATGT
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTACCGAATTGATTTGTATATG-ATATAT
*
43823964 ATTGTCGAATTGATTTGTATATGTA
65 ATTGCCGAATTGATTTGTATATGTA
* *
43823989 TATATATTGCCGATTTGA
1 TATACATTGCCGAATTGA
43824007 GCATTGGATG
Statistics
Matches: 170, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
86 11 0.06
87 2 0.01
88 35 0.21
89 1 0.01
90 121 0.71
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.44
Consensus pattern (89 bp):
TATACATTGCCGAATTGATTTGTATATAGATATACATTACCGAATTGATTTGTATATGATATATA
TTGCCGAATTGATTTGTATATGTA
Found at i:43826336 original size:49 final size:49
Alignment explanation
Indices: 43826266--43826405 Score: 228
Period size: 49 Copynumber: 2.9 Consensus size: 49
43826256 ACTTATTTTC
* *
43826266 TCGATGCCATAGTCCAACTATGGTCTTACACGTAATCACATAACATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
*
43826315 -CTGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
1 TC-GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
*
43826364 TCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
43826406 TCACTTATTA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
48 1 0.01
49 82 0.98
50 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (49 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
Found at i:43829481 original size:18 final size:17
Alignment explanation
Indices: 43829448--43829486 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43829438 TTTTATAAAT
43829448 TGTGAATTATGTTTGATA
1 TGTGAATTATGTTTGA-A
43829466 TGTGAATTAT-TATTGAA
1 TGTGAATTATGT-TTGAA
43829483 TGTG
1 TGTG
43829487 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (17 bp):
TGTGAATTATGTTTGAA
Found at i:43829738 original size:23 final size:23
Alignment explanation
Indices: 43829712--43829810 Score: 117
Period size: 23 Copynumber: 4.3 Consensus size: 23
43829702 AGTGTTATTG
*
43829712 ATCAGTGGTAGCTACAACTACAT
1 ATCAGTGGTAGCTACAGCTACAT
* * *
43829735 ATCAATGGTAGTTTCAGCTACAT
1 ATCAGTGGTAGCTACAGCTACAT
* *
43829758 ATCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACAGCTACAT
* * *
43829781 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTACAGCTACAT
43829804 ATCAGTG
1 ATCAGTG
43829811 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACAGCTACAT
Found at i:43829784 original size:46 final size:46
Alignment explanation
Indices: 43829712--43829810 Score: 135
Period size: 46 Copynumber: 2.2 Consensus size: 46
43829702 AGTGTTATTG
*
43829712 ATCAGTGGTAGCTACAACTACATATCAATGGTAGTTTCAGCTACAT
1 ATCAGTGGTAGCTACAACTACATATCAATGGTAGCTTCAGCTACAT
** * * * *
43829758 ATCAGTGGTAGCTACGGCTACGTATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTACAACTACATATCAATGGTAGCTTCAGCTACAT
43829804 ATCAGTG
1 ATCAGTG
43829811 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (46 bp):
ATCAGTGGTAGCTACAACTACATATCAATGGTAGCTTCAGCTACAT
Found at i:43832461 original size:29 final size:29
Alignment explanation
Indices: 43832429--43832484 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
43832419 TAAATTTGGC
43832429 TTAATCT-TGTAATTTTTCAAAAAAAAAGT
1 TTAATCTAT-TAATTTTTCAAAAAAAAAGT
**
43832458 TTAATCTATTAATTTTTTTAAAAAAAA
1 TTAATCTATTAATTTTTCAAAAAAAAA
43832485 TGACATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (29 bp):
TTAATCTATTAATTTTTCAAAAAAAAAGT
Found at i:43848755 original size:31 final size:31
Alignment explanation
Indices: 43848692--43848755 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
43848682 TTTATTAATG
*
43848692 TATGAATATTATGTTTGTTAATATATGAATA
1 TATGAATATTATGTTTGATAATATATGAATA
43848723 TATGAATATTATGTTTGGAT-AT-TATGACATA
1 TATGAATATTATGTTT-GATAATATATGA-ATA
43848754 TA
1 TA
43848756 AACTAATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 5 0.17
31 23 0.77
32 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.47
Consensus pattern (31 bp):
TATGAATATTATGTTTGATAATATATGAATA
Found at i:43848983 original size:21 final size:21
Alignment explanation
Indices: 43848938--43848984 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
43848928 AAATAATAAA
*
43848938 ATAG-ATTATATATTATTTTT
1 ATAGTATTATATATTATATTT
43848958 ATAGTATTATATATTATGATTT
1 ATAGTATTATATATTAT-ATTT
43848980 -TAGTA
1 ATAGTA
43848985 AATTCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 17 0.71
22 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
ATAGTATTATATATTATATTT
Found at i:43849026 original size:17 final size:18
Alignment explanation
Indices: 43849001--43849046 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
43848991 TATAAGAATA
*
43849001 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
43849018 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
43849036 ATTAAATTATA
1 ATTAAATTATA
43849047 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:43849043 original size:55 final size:54
Alignment explanation
Indices: 43848977--43849093 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 54
43848967 TATATTATGA
* * *
43848977 TTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAATTTTATTAAATTATATAT
1 TTTTATTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAAATTATATAT
* * *
43849032 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTAT
1 TTTTATTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAAATTATATAT
43849087 TATTTAT
1 T-TTTAT
43849094 ATTAATAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 3 0.06
55 29 0.55
56 21 0.40
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (54 bp):
TTTTATTAAATTATATTAAGAATAATTATATTAAAATATGATTAAATTATATAT
Found at i:43849111 original size:44 final size:41
Alignment explanation
Indices: 43849000--43849114 Score: 108
Period size: 48 Copynumber: 2.7 Consensus size: 41
43848990 ATATAAGAAT
* * *
43849000 AATTATATTAAGAATTTTATT-AAATTATATATTTTTATTA
1 AATTATATTAATAATATTATTAAAATTATAAATTTTTATTA
43849040 AATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTATT-
1 AATTATA-TTAATAAT-ATTA--TTAAAAT-T-A-TAAATT-TTTATTA
*
43849088 ATTTATATTAATAATATTATTAAAATT
1 AATTATATTAATAATATTATTAAAATT
43849115 TAATAACAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
40 7 0.11
41 7 0.11
42 3 0.05
43 1 0.02
44 9 0.15
45 4 0.06
46 5 0.08
47 9 0.15
48 11 0.18
49 6 0.10
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (41 bp):
AATTATATTAATAATATTATTAAAATTATAAATTTTTATTA
Found at i:43849293 original size:45 final size:44
Alignment explanation
Indices: 43849205--43849297 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 44
43849195 ATTACAACAT
43849205 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
43849249 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
43849294 CATT
1 CATT
43849298 ACAGCTCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:43849300 original size:16 final size:16
Alignment explanation
Indices: 43849279--43849332 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
43849269 TTGAATTACT
43849279 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
* * *
43849295 ATTACAGCTCCATTCA
1 ATTACAGTTCTATTCC
43849311 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
43849327 ATTACA
1 ATTACA
43849333 ACGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:43866065 original size:16 final size:15
Alignment explanation
Indices: 43866016--43866057 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
43866006 TAACAATCCA
*
43866016 AGTTCAAGAAAACCTG
1 AGTTCAA-AAAACCCG
43866032 AGTTCAAAAAACCCG
1 AGTTCAAAAAACCCG
43866047 AGTTCAAAAAA
1 AGTTCAAAAAA
43866058 GTCCGAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (15 bp):
AGTTCAAAAAACCCG
Found at i:43868239 original size:17 final size:18
Alignment explanation
Indices: 43868217--43868277 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
43868207 TCATTAATGC
43868217 ATATATATAAACTAT-TA
1 ATATATATAAACTATATA
* *
43868234 ATATATTATATACTATATG
1 ATATA-TATAAACTATATA
* *
43868253 ATATGATATAACATTGTATA
1 ATAT-ATATAA-ACTATATA
43868273 ATATA
1 ATATA
43868278 GTACAAGAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 5 0.15
18 9 0.26
19 10 0.29
20 10 0.29
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATATATAAACTATATA
Found at i:43871208 original size:25 final size:24
Alignment explanation
Indices: 43871165--43871214 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
43871155 TGAGCATTCT
**
43871165 GATATTGGCTTTCTTGAGCTACCC
1 GATATTGGCTTTCACGAGCTACCC
*
43871189 GATATATGGCTTTCACGAGCTTCCC
1 GATAT-TGGCTTTCACGAGCTACCC
43871214 G
1 G
43871215 TTAATAGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
GATATTGGCTTTCACGAGCTACCC
Found at i:43871438 original size:25 final size:25
Alignment explanation
Indices: 43871383--43871445 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
43871373 CATGACTCAC
43871383 ATGAGCTTCCCGTTATATGGCTCGG
1 ATGAGCTTCCCGTTATATGGCTCGG
* * **
43871408 AAGAGCTTCTCGTT-TATGTGCTCTT
1 ATGAGCTTCCCGTTATATG-GCTCGG
43871433 ATGAGCATTCCCG
1 ATGAGC-TTCCCG
43871446 AATATGAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 4 0.13
25 21 0.70
26 5 0.17
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCGG
Done.