Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 140 of 259
Found at i:45513935 original size:12 final size:13
Alignment explanation
Indices: 45513898--45513937 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 13
45513888 TCTTTGCATA
45513898 CTTATTATTATTAT
1 CTTATTATT-TTAT
45513912 CATTATTATTTTAT
1 C-TTATTATTTTAT
45513926 CTTATT-TTTTAT
1 CTTATTATTTTAT
45513938 TATCGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 6 0.24
15 8 0.32
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (13 bp):
CTTATTATTTTAT
Found at i:45513937 original size:17 final size:19
Alignment explanation
Indices: 45513914--45513956 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 19
45513904 ATTATTATCA
45513914 TTATTATTTTATC-TTATT
1 TTATTATTTTATCGTTATT
45513932 TT-TTA--TTATCGTTATT
1 TTATTATTTTATCGTTATT
45513948 TTATTATTT
1 TTATTATTT
45513957 CTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 6 0.29
18 2 0.10
19 1 0.05
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTATTTTATCGTTATT
Found at i:45513954 original size:29 final size:29
Alignment explanation
Indices: 45513902--45513967 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
45513892 TGCATACTTA
45513902 TTATTATTATCATTATTATTTTATCTTATT
1 TTATTATTATCATTATTATTTTAT-TTATT
* *
45513932 TT-TTATTATCGTTATT-TTATTATTTCTT
1 TTATTATTATCATTATTATT-TTATTTATT
45513960 TTATTATT
1 TTATTATT
45513968 TTCAGCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.25
29 22 0.69
30 2 0.06
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (29 bp):
TTATTATTATCATTATTATTTTATTTATT
Found at i:45520603 original size:13 final size:13
Alignment explanation
Indices: 45520585--45520611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45520575 AAGAAAGACT
45520585 AGTAAAGAAAAAG
1 AGTAAAGAAAAAG
45520598 AGTAAAGAAAAAG
1 AGTAAAGAAAAAG
45520611 A
1 A
45520612 ATGGGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.07
Consensus pattern (13 bp):
AGTAAAGAAAAAG
Found at i:45524432 original size:131 final size:132
Alignment explanation
Indices: 45524121--45524637 Score: 582
Period size: 132 Copynumber: 3.9 Consensus size: 132
45524111 TTTAGAGAGT
* * * * *
45524121 ATGAATGAAATTCT-AAAGGAATCTTCGATCATTTTG-GACAAAC-AGGAAGTAGCAACCCAGCA
1 ATGAGTGAAATTCTAAAAGG-ACCTTCGATTATTTTGAG-CAAACGA-GAAATTGCAACCCAGCA
* * * * * ** * *
45524183 CGATAGGGCACGATTCCCCGAATTGCCAAACATCGAATATTACCTTCGTTTTGAAGAGTTTTTAG
63 CGTTAGGGCACGATTCCGCGAATTGCCAAATATAGAACATCGCCTTCGTTTTAAAGAATTTTTAG
45524248 AAAAC
128 AAAAC
* * *
45524253 ATAAGTGAAATTC-AAAAGGGACCTTTGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACG
1 ATGAGTGAAATTCTAAAA-GGACCTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACG
* * *
45524317 TTAGGGCACGATTTCGCGAATTGTCAAATATAGAACATCGCCTTC-ATTTAAAGAATTTTTA-AA
65 TTAGGGCACGATTCCGCGAATTGCCAAATATAGAACATCGCCTTCGTTTTAAAGAATTTTTAGAA
*
45524380 GGAC
130 -AAC
* * * * *
45524384 ATGGGTGAAATTCTAAAATGACCTTCAATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAGTGAAATTCTAAAAGGACCTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
* * * *
45524449 TAGGGCACGATTCCTCGAATTGCCAAATATTGAACATCGCCTTCGTTTTAAAGGATTTTTAGAAT
66 TAGGGCACGATTCCGCGAATTGCCAAATATAGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAA
45524514 AC
131 AC
* * * **
45524516 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
1 ATGAGTGAAATTCTAAAAGGACCTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
* *
45524581 TAGGGCACAATTCCGCGAATTGCCAAATATCA-AATC-TCGCCTTCGTTTTGAAGAATT
66 TAGGGCACGATTCCGCGAATTGCCAAATAT-AGAA-CATCGCCTTCGTTTTAAAGAATT
45524638 GTTAAACGAA
Statistics
Matches: 324, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
130 2 0.01
131 107 0.33
132 209 0.65
133 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (132 bp):
ATGAGTGAAATTCTAAAAGGACCTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
TAGGGCACGATTCCGCGAATTGCCAAATATAGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAA
AC
Found at i:45528196 original size:30 final size:30
Alignment explanation
Indices: 45528162--45528260 Score: 144
Period size: 30 Copynumber: 3.3 Consensus size: 30
45528152 CTAGCCTTTG
*
45528162 CCACCACCAATTCCAATAGCCACACTTGCT
1 CCACCACCAACTCCAATAGCCACACTTGCT
* * *
45528192 CCACCACCTACTCCACTAGCCGCACTTGCT
1 CCACCACCAACTCCAATAGCCACACTTGCT
* *
45528222 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCAATAGCCACACTTGCT
45528252 CCACCACCA
1 CCACCACCA
45528261 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCAATAGCCACACTTGCT
Found at i:45542269 original size:33 final size:33
Alignment explanation
Indices: 45542227--45542289 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
45542217 TATGAATTTT
45542227 GCTTTTCTTGATCTATGTAATCAAAATTAATTC
1 GCTTTTCTTGATCTATGTAATCAAAATTAATTC
45542260 GCTTTTCTTGATCTATGTAATCAAAATTAA
1 GCTTTTCTTGATCTATGTAATCAAAATTAA
45542290 ATTATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (33 bp):
GCTTTTCTTGATCTATGTAATCAAAATTAATTC
Found at i:45545285 original size:32 final size:32
Alignment explanation
Indices: 45545229--45545305 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
45545219 CATGCTAGGC
* * *
45545229 CATGTGAGCCACACGGACTAGGCCAGGTAAGT
1 CATGTGGGCCACACAGACTAGGCCAAGTAAGT
* * *
45545261 CGTGTGGGCCACACAGACTGGGCCAAGTATGT
1 CATGTGGGCCACACAGACTAGGCCAAGTAAGT
45545293 CATGTGGGCCACA
1 CATGTGGGCCACA
45545306 AGAGTGTGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.25, C:0.26, G:0.32, T:0.17
Consensus pattern (32 bp):
CATGTGGGCCACACAGACTAGGCCAAGTAAGT
Found at i:45548855 original size:28 final size:26
Alignment explanation
Indices: 45548815--45548887 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
45548805 TTTTATTAAT
**
45548815 TTGTGATTTTATGAAATAATAACAAAA
1 TTGTGATAATATGAAATAAT-ACAAAA
*
45548842 TTGTGAATAATATGAAATAATATAAAA
1 TTGTG-ATAATATGAAATAATACAAAA
**
45548869 TTGTGATTTTATGAAATAA
1 TTGTGATAATATGAAATAA
45548888 CAACGATTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 12 0.30
27 15 0.38
28 13 0.32
ACGTcount: A:0.48, C:0.01, G:0.12, T:0.38
Consensus pattern (26 bp):
TTGTGATAATATGAAATAATACAAAA
Found at i:45562627 original size:30 final size:30
Alignment explanation
Indices: 45562553--45562635 Score: 112
Period size: 33 Copynumber: 2.7 Consensus size: 30
45562543 ATTCATTTTA
*
45562553 AACTAATTAGAAGGTTTTTTAACTAAATTT
1 AACTAATTAGAAGGTTTTTTAACTAAATTG
* *
45562583 AACAAATCATTAGAAGGTTTTTTAACTCAATTG
1 AAC---TAATTAGAAGGTTTTTTAACTAAATTG
45562616 AACTAATTAGAAGGTTTTTT
1 AACTAATTAGAAGGTTTTTT
45562636 TAAGCTCATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 19 0.41
33 27 0.59
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (30 bp):
AACTAATTAGAAGGTTTTTTAACTAAATTG
Found at i:45564450 original size:68 final size:68
Alignment explanation
Indices: 45564355--45564512 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 68
45564345 TTCACTTGGA
* *
45564355 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
45564420 CGT
66 CGT
45564423 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
45564488 CGT
66 CGT
45564491 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
45564513 TATATAGTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:45564529 original size:68 final size:67
Alignment explanation
Indices: 45564355--45564538 Score: 264
Period size: 68 Copynumber: 2.7 Consensus size: 67
45564345 TTCACTTGGA
* * *
45564355 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
45564420 CGT
65 CGT
*
45564423 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
45564488 CGT
65 CGT
*
45564491 ATCACACATGTGACCTAGCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATTTA-TATCTACGTAGCTC-TCTTGT
45564539 ACACATGATG
Statistics
Matches: 109, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
67 1 0.01
68 100 0.92
69 4 0.04
70 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACATTTATATCTACGTAGCTCTCTTGTCTACATGGGATACATCCC
GT
Found at i:45570954 original size:19 final size:19
Alignment explanation
Indices: 45570930--45571076 Score: 59
Period size: 19 Copynumber: 7.2 Consensus size: 19
45570920 AATGGTAATA
45570930 AAAAATTAATAAAATTTAT
1 AAAAATTAATAAAATTTAT
* *
45570949 AAAAA-TATTAAATTTTAAT
1 AAAAATTAATAAAATTT-AT
45570968 AAAAATATAAAAATATTTAAATTTTATT
1 AAAAAT-T---AATA---AAA-TTTA-T
* * * *
45570996 TAAAATTAGTACAAAATTAC
1 AAAAATTAATA-AAATTTAT
45571016 AAAAATCATAA-AAAATTTAT
1 AAAAAT--TAATAAAATTTAT
*
45571036 AAAAATT-ATAAAGTTTTAT
1 AAAAATTAATAAA-ATTTAT
*
45571055 AAAAA-TCATAAAATTTTAT
1 AAAAATTAATAAAA-TTTAT
45571074 AAA
1 AAA
45571077 GTCGTAAGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 34
0.66 0.10 0.23
Matches are distributed among these distances:
17 1 0.01
18 14 0.15
19 35 0.36
20 17 0.18
21 5 0.05
22 5 0.05
24 6 0.06
27 4 0.04
28 9 0.09
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAAATTAATAAAATTTAT
Found at i:45570960 original size:18 final size:19
Alignment explanation
Indices: 45570925--45570981 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
45570915 GTAAAAATGG
*
45570925 TAATAAAAAATTAATAAAATT
1 TAAT-AAAAA-TATTAAAATT
*
45570946 T-ATAAAAATATTAAATTT
1 TAATAAAAATATTAAAATT
*
45570964 TAATAAAAATATAAAAAT
1 TAATAAAAATATTAAAAT
45570982 ATTTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.29
19 19 0.61
20 2 0.06
21 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAAAAATATTAAAATT
Found at i:45570971 original size:28 final size:29
Alignment explanation
Indices: 45570935--45571002 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
45570925 TAATAAAAAA
45570935 TTAATAAAATTTATAAAAATA-TTAAATT
1 TTAATAAAATTTATAAAAATATTTAAATT
*
45570963 TTAATAAAA-ATATAAAAATATTTAAATT
1 TTAATAAAATTTATAAAAATATTTAAATT
*
45570991 TTATTTAAAATT
1 TTA-ATAAAATT
45571003 AGTACAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.29
28 19 0.56
29 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAATAAAATTTATAAAAATATTTAAATT
Found at i:45571028 original size:9 final size:9
Alignment explanation
Indices: 45570930--45571067 Score: 64
Period size: 10 Copynumber: 14.4 Consensus size: 9
45570920 AATGGTAATA
45570930 AAAAATTAAT
1 AAAAATT-AT
*
45570940 AAAATTTAT
1 AAAAATTAT
45570949 AAAAA-TATT
1 AAAAATTA-T
**
45570958 AAATTTTAAT
1 AAAAATT-AT
45570968 AAAAA-TAT
1 AAAAATTAT
*
45570976 AAAAATATTT
1 AAAAAT-TAT
**
45570986 AAATTTTATT
1 AAAAATTA-T
*
45570996 TAAAATTAGT
1 AAAAATTA-T
*
45571006 ACAAAATTAC
1 A-AAAATTAT
*
45571016 AAAAATCAT
1 AAAAATTAT
45571025 AAAAAATTTAT
1 -AAAAA-TTAT
45571036 AAAAATTAT
1 AAAAATTAT
**
45571045 AAAGTTTTAT
1 AAA-AATTAT
*
45571055 AAAAATCAT
1 AAAAATTAT
45571064 AAAA
1 AAAA
45571068 TTTTATAAAG
Statistics
Matches: 94, Mismatches: 24, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
8 9 0.10
9 32 0.34
10 42 0.45
11 11 0.12
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:45571058 original size:29 final size:27
Alignment explanation
Indices: 45570938--45571076 Score: 93
Period size: 28 Copynumber: 4.9 Consensus size: 27
45570928 TAAAAAATTA
*
45570938 ATAAAATTTATAAAAA-TATTAAATTTT
1 ATAAAAATTATAAAAATTA-TAAATTTT
*
45570965 AATAAAAA-TATAAAAATATTTAAATTTT
1 -ATAAAAATTATAAAAAT-TATAAATTTT
* * ** *
45570993 ATTTAAAATTAGTACAAAATTACAAAAATC
1 A-TAAAAATTA-TA-AAAATTATAAATTTT
45571023 ATAAAAAATTTATAAAAATTATAAAGTTTT
1 AT-AAAAA-TTATAAAAATTATAAA-TTTT
* *
45571053 ATAAAAATCATAAAATTTTATAAA
1 ATAAAAATTATAAAA-ATTATAAA
45571077 GTCGTAAGAA
Statistics
Matches: 86, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
27 9 0.10
28 26 0.30
29 26 0.30
30 17 0.20
31 8 0.09
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (27 bp):
ATAAAAATTATAAAAATTATAAATTTT
Found at i:45571370 original size:9 final size:10
Alignment explanation
Indices: 45571328--45571432 Score: 63
Period size: 10 Copynumber: 10.2 Consensus size: 10
45571318 TATATTATGA
*
45571328 TTTTTATAAA
1 TTTTTATAAT
* *
45571338 ATTTTACAAT
1 TTTTTATAAT
45571348 TTTTTATAAT
1 TTTTTATAAT
*
45571358 TTTTTATTA-
1 TTTTTATAAT
45571367 TTTTTATAACTT
1 TTTTTATAA--T
*
45571379 ATTTTTAATAAA
1 -TTTTT-ATAAT
*
45571391 ATTTTA-ATAT
1 TTTTTATA-AT
*
45571401 TTTTTAT-AG
1 TTTTTATAAT
*
45571410 TTTTTATATT
1 TTTTTATAAT
45571420 TTTATTATAAT
1 TTT-TTATAAT
45571431 TT
1 TT
45571433 AATAATTTTA
Statistics
Matches: 71, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
9 17 0.24
10 33 0.46
11 12 0.17
13 5 0.07
14 4 0.06
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:45571392 original size:53 final size:50
Alignment explanation
Indices: 45571327--45571424 Score: 144
Period size: 53 Copynumber: 1.9 Consensus size: 50
45571317 GTATATTATG
*
45571327 ATTTTTATAAAATTTTACA-ATTTTTTATAATTTTTTATTATTTTTATAACTT
1 ATTTTTATAAAATTTTA-ATATTTTTTAT-AGTTTTTA-TATTTTTATAACTT
45571379 ATTTTTAATAAAATTTTAATATTTTTTATAGTTTTTATATTTTTAT
1 ATTTTT-ATAAAATTTTAATATTTTTTATAGTTTTTATATTTTTAT
45571425 TATAATTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
51 9 0.21
52 14 0.33
53 20 0.47
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (50 bp):
ATTTTTATAAAATTTTAATATTTTTTATAGTTTTTATATTTTTATAACTT
Found at i:45571433 original size:10 final size:9
Alignment explanation
Indices: 45571322--45571473 Score: 63
Period size: 9 Copynumber: 15.6 Consensus size: 9
45571312 TTAATGTATA
*
45571322 TTATGATTT
1 TTATAATTT
*
45571331 TTATAAAATT
1 TTAT-AATTT
*
45571341 TTACAATTTT
1 TTATAA-TTT
45571351 TTATAATTTT
1 TTATAA-TTT
*
45571361 TTATTATTT
1 TTATAATTT
45571370 TTATAACTTATTT
1 TTAT-A---ATTT
45571383 TTAATAAAATTT
1 TT-AT--AATTT
* *
45571395 TAATATTTT
1 TTATAATTT
*
45571404 TTATAGTTT
1 TTATAATTT
45571413 TTAT-ATTT
1 TTATAATTT
*
45571421 TTATTATAATT
1 TTA-TA-ATTT
*
45571432 TAATAATTT
1 TTATAATTT
*
45571441 TAATAATTT
1 TTATAATTT
*
45571450 TTATTGATTT
1 TTA-TAATTT
**
45571460 TTATTTTTT
1 TTATAATTT
45571469 TTATA
1 TTATA
45571474 TTTATTTGCC
Statistics
Matches: 111, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
8 6 0.05
9 51 0.46
10 32 0.29
11 7 0.06
12 5 0.05
13 6 0.05
14 2 0.02
15 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:45571451 original size:37 final size:39
Alignment explanation
Indices: 45571377--45571464 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 39
45571367 TTTTTATAAC
* * * *
45571377 TTATTTTTAATAAAATTTTAATATTTTTTATAGTTTTTA
1 TTATTTTTATTAAAATTTTAATAATTTTAATAATTTTTA
*
45571416 -TATTTTTATTATAA-TTTAATAATTTTAATAATTTTTA
1 TTATTTTTATTAAAATTTTAATAATTTTAATAATTTTTA
45571453 TTGATTTTTATT
1 TT-ATTTTTATT
45571465 TTTTTTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 20 0.48
38 13 0.31
39 9 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (39 bp):
TTATTTTTATTAAAATTTTAATAATTTTAATAATTTTTA
Found at i:45571730 original size:86 final size:87
Alignment explanation
Indices: 45571568--45571804 Score: 291
Period size: 86 Copynumber: 2.7 Consensus size: 87
45571558 TTTTTTTGCA
* * * * * * *
45571568 TTTGATAGTTCAAGTAACCAATTGAGTGCAAAAAAAAATC-AGAGACTTGATTACTTTTTTTGAA
1 TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAAGGGGCTTAATTA-TTTTTTT--T
*
45571632 AAGTTTGAGGGTCTTTTTAATCCAT
63 AAGTTTGAGGGTCTTTTTAATACAT
* *
45571657 TTTGAAAGCTCAAGTACCCAATTGAGTGAAAAAAAAAAGCAAGGGGCTTAATT-TTTTTTTTAAG
1 TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAAGGGGCTTAATTATTTTTTTTAAG
*
45571721 TTTGAGGGTCTTTTTTATACAT
66 TTTGAGGGTCTTTTTAATACAT
* * *
45571743 TTTGAAAGTTTTAAGTACCCAATTGAGTGCAAAAAAAAAGTAA-GGGCTTAATTACTTTTTTT
1 TTTGAAAG-TTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAAGGGGCTTAATTATTTTTTTT
45571805 GAAAAAGTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
86 41 0.32
87 37 0.29
88 7 0.05
89 35 0.27
90 9 0.07
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (87 bp):
TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAAGGGGCTTAATTATTTTTTTTAAG
TTTGAGGGTCTTTTTAATACAT
Found at i:45571829 original size:87 final size:86
Alignment explanation
Indices: 45571560--45571809 Score: 269
Period size: 89 Copynumber: 2.9 Consensus size: 86
45571550 ATAATTTTTT
* * * * * * *
45571560 TTTTTGCA-TTTGATAGTTCAAGTAACCAATTGAGTGCAAAAAAAAA-TCAGAGACTTGATTACT
1 TTTTTACATTTTGAAAGCTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAG-GGCTTAATTACT
45571623 TTTTTTGAAAAGTTTGAGGGTC
65 TTTTTTGAAAAGTTTGAGGGTC
* *
45571645 TTTTTAATCCATTTTGAAAGCTCAAGTACCCAATTGAGTGAAAAAAAAAAGCAAGGGGCTTAATT
1 TTTTT-A--CATTTTGAAAGCTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAA-GGGCTTAATT
*
45571710 --TTTTTTT--TAAGTTTGAGGGTC
62 ACTTTTTTTGAAAAGTTTGAGGGTC
* *
45571731 TTTTTTATACATTTTGAAAGTTTTAAGTACCCAATTGAGTGCAAAAAAAAAGTAAGGGCTTAATT
1 --TTTT-TACATTTTGAAAG-CTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAGGGCTTAATT
45571796 ACTTTTTTTGAAAA
62 ACTTTTTTTGAAAA
45571810 AGTTACAAGA
Statistics
Matches: 136, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
85 5 0.04
86 34 0.25
87 30 0.22
88 21 0.15
89 35 0.26
90 10 0.07
91 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.37
Consensus pattern (86 bp):
TTTTTACATTTTGAAAGCTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAGGGCTTAATTACTT
TTTTTGAAAAGTTTGAGGGTC
Found at i:45572499 original size:6 final size:6
Alignment explanation
Indices: 45572490--45572524 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
45572480 ATAATCAGGA
*
45572490 ACAGAT ACAGAT GCAGAT ACAGAT ACAGAT ACAGA
1 ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT ACAGA
45572525 ATCATGTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (6 bp):
ACAGAT
Found at i:45581508 original size:14 final size:14
Alignment explanation
Indices: 45581489--45581517 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45581479 AATAAACATC
45581489 TATGCCTACTCGTG
1 TATGCCTACTCGTG
45581503 TATGCCTACTCGTG
1 TATGCCTACTCGTG
45581517 T
1 T
45581518 TTACATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.38
Consensus pattern (14 bp):
TATGCCTACTCGTG
Found at i:45583345 original size:19 final size:19
Alignment explanation
Indices: 45583321--45583359 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45583311 ATTACAAACA
* *
45583321 AATTAAATTTAAAAATATC
1 AATTAAATATAAAAAAATC
45583340 AATTAAATATAAAAAAATC
1 AATTAAATATAAAAAAATC
45583359 A
1 A
45583360 TAACTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAAATATAAAAAAATC
Found at i:45584655 original size:15 final size:15
Alignment explanation
Indices: 45584635--45584687 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
45584625 TAATACAAAC
45584635 TATTTATTATTAATA
1 TATTTATTATTAATA
*
45584650 TATTTATAATTGTAATAAA
1 TATTTATTA-T-TAAT--A
*
45584669 TATTTATTATTAAAA
1 TATTTATTATTAATA
45584684 TATT
1 TATT
45584688 AATATTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 13 0.42
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTTATTATTAATA
Found at i:45584814 original size:18 final size:18
Alignment explanation
Indices: 45584788--45584822 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45584778 AACTTATTAT
45584788 ATAACTAAATATAAATAA
1 ATAACTAAATATAAATAA
* *
45584806 ATAATTAAATATTAATA
1 ATAACTAAATATAAATA
45584823 TTTATGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTAAATATAAATAA
Found at i:45585977 original size:41 final size:41
Alignment explanation
Indices: 45585903--45586192 Score: 340
Period size: 41 Copynumber: 7.1 Consensus size: 41
45585893 CAAAAATTGT
* *
45585903 AAAACACAGAGCAATAGCGGCGTTTTAC-CAAAAACGCCGCTA
1 AAAAC-CAGAGCAATAGCGGCGCTTT-CGGAAAAACGCCGCTA
* * * *
45585945 AAAA-TAGAGCAATAGCGGCGTTTTAAC-AAAAAATGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTT--CGGAAAAACGCCGCTA
*
45585986 AAAA-CAG-GTCAATAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAG-CAATAGCGGCGCTTTCGGAAAAACGCCGCTA
* *
45586026 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTCGGAAAAACGCCGCTA
* * *
45586067 AAAACCAGAGCATTAGCGGTGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTCGGAAAAACGCCGCTA
* *
45586108 AAAACCAGAG-AATTAGCGGCGCTTTCTGTAAAACGCCGCTA
1 AAAACCAGAGCAA-TAGCGGCGCTTTCGGAAAAACGCCGCTA
* *
45586149 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTCGGAAAAACGCCGCTA
45586190 AAA
1 AAA
45586193 GTCATATAAC
Statistics
Matches: 226, Mismatches: 15, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.00
40 36 0.16
41 183 0.81
42 6 0.03
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (41 bp):
AAAACCAGAGCAATAGCGGCGCTTTCGGAAAAACGCCGCTA
Found at i:45586470 original size:14 final size:15
Alignment explanation
Indices: 45586453--45586488 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
45586443 AATATTTAAA
45586453 GTTTAAGG-TCTATG
1 GTTTAAGGTTCTATG
*
45586467 GTTTAGGGTTCTATG
1 GTTTAAGGTTCTATG
45586482 GTTTAAG
1 GTTTAAG
45586489 TTTAATGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.19, C:0.06, G:0.31, T:0.44
Consensus pattern (15 bp):
GTTTAAGGTTCTATG
Found at i:45591323 original size:19 final size:19
Alignment explanation
Indices: 45591300--45591346 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
45591290 ATTTAATCTA
*
45591300 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
45591318 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
45591338 ATTTTTATT
1 ATTTTTATT
45591347 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:45591680 original size:43 final size:42
Alignment explanation
Indices: 45591608--45591884 Score: 304
Period size: 43 Copynumber: 6.5 Consensus size: 42
45591598 TTTTAAAATT
* ** *
45591608 TCATGACCTTTAGCGGCGTTTGGGGAAAAAGTGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTT-GCAAAAAAGCGCCGCTAAAGG
* *
45591651 TTATGATCTTTAGCGGCGTTTGTCAAAAAAGTGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTG-CAAAAAAGCGCCGCTAAAGG
* * * * *
45591694 TCGTGGTCTTTAGCGGCATTTGCTAAAAAGTGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGCAAAAAAGCGCCGCTAAAGG
* * * *
45591736 TCGTGGTCTTTAGCGACGTTTGCGAAAAAAGCGTCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGC-AAAAAAGCGCCGCTAAAGG
* *
45591779 TTATTG-TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGG
1 TCA-TGATCTTTAGCGGCGTTTG-CAAAAAAGCGCCGCTAAAGG
* * *
45591822 TCCTGATCTTTAGAGGCGTTTGCGAAAAAGGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGC-AAAAAAGCGCCGCTAAAGG
*
45591865 TCATGGTCTTTAGCGGCGTT
1 TCATGATCTTTAGCGGCGTT
45591885 GCATATAGCG
Statistics
Matches: 201, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
42 43 0.21
43 156 0.78
44 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (42 bp):
TCATGATCTTTAGCGGCGTTTGCAAAAAAGCGCCGCTAAAGG
Found at i:45591842 original size:86 final size:85
Alignment explanation
Indices: 45591615--45591884 Score: 355
Period size: 86 Copynumber: 3.2 Consensus size: 85
45591605 ATTTCATGAC
* *
45591615 CTTTAGCGGCGTTTGGGGAAAAAGTGCCGCTAAAGGTTATGATCTTTAGCGGCGTTTGTC-AAAA
1 CTTTAGCGGCGTTT-GTGAAAAAGTGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTG-CGAAAA
* *
45591679 AAGTGCCGCTAAAGGTCGTGGT
64 AAGCGCCGCTAAAGGTCATGGT
* * * *
45591701 CTTTAGCGGCATTTGCT-AAAAAGTGCCGCTAAAGGTCGTGGTCTTTAGCGACGTTTGCGAAAAA
1 CTTTAGCGGCGTTTG-TGAAAAAGTGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGCGAAAAA
* * *
45591765 AGCGTCGCTAAAGGTTATTGT
65 AGCGCCGCTAAAGGTCATGGT
* * *
45591786 CTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTTTAGAGGCGTTTGCGAAAAA
1 CTTTAGCGGCGTTTGTG-AAAAAGTGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGCGAAAAA
*
45591851 GGCGCCGCTAAAGGTCATGGT
65 AGCGCCGCTAAAGGTCATGGT
45591872 CTTTAGCGGCGTT
1 CTTTAGCGGCGTT
45591885 GCATATAGCG
Statistics
Matches: 159, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
84 2 0.01
85 72 0.45
86 85 0.53
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (85 bp):
CTTTAGCGGCGTTTGTGAAAAAGTGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGCGAAAAAA
GCGCCGCTAAAGGTCATGGT
Found at i:45591844 original size:128 final size:129
Alignment explanation
Indices: 45591615--45591884 Score: 391
Period size: 128 Copynumber: 2.1 Consensus size: 129
45591605 ATTTCATGAC
* * *
45591615 CTTTAGCGGCGTTTGGGGAAAAAGTGCCGCTAAAGGTTATGATCTTTAGCGGCGTTTGTCAAAAA
1 CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTTATGATCTTTAGCGGCGTTTGTCAAAAA
* * * * * * *
45591680 AGTGCCGCTAAAGGTCGTGGTCTTTAGCGGCATTTGCTAAAAA-GTGCCGCTAAAGGTCGTGGT
66 AGCGCCGCTAAAGGTCCTGATCTTTAGAGGCATTTGCGAAAAAGGCGCCGCTAAAGGTCATGGT
* * *
45591743 CTTTAGCGACGTTTGCGAAAAAAGCGTCGCTAAAGGTTATTG-TCTTTAGCGGCGTTTGTGAAAA
1 CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTTA-TGATCTTTAGCGGCGTTTGTCAAAA
*
45591807 AAGCGCCGCTAAAGGTCCTGATCTTTAGAGGCGTTTGCGAAAAAGGCGCCGCTAAAGGTCATGGT
65 AAGCGCCGCTAAAGGTCCTGATCTTTAGAGGCATTTGCGAAAAAGGCGCCGCTAAAGGTCATGGT
45591872 CTTTAGCGGCGTT
1 CTTTAGCGGCGTT
45591885 GCATATAGCG
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
128 93 0.74
129 32 0.26
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (129 bp):
CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTTATGATCTTTAGCGGCGTTTGTCAAAAA
AGCGCCGCTAAAGGTCCTGATCTTTAGAGGCATTTGCGAAAAAGGCGCCGCTAAAGGTCATGGT
Found at i:45601504 original size:13 final size:16
Alignment explanation
Indices: 45601468--45601498 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45601458 TTATATTACA
45601468 ATAATTAATAATAAAG
1 ATAATTAATAATAAAG
45601484 ATAATTAATAATAAA
1 ATAATTAATAATAAA
45601499 AATTAAGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAATTAATAATAAAG
Found at i:45602350 original size:35 final size:34
Alignment explanation
Indices: 45602301--45602369 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
45602291 ATATTATAAA
45602301 TTTTATAAAATTATATTATAAAAATAAT-TTATTTT
1 TTTTATAAAATTATA--ATAAAAATAATATTATTTT
* * *
45602336 TTTTGTAAATTTATAATAAAAATTATATTATTTT
1 TTTTATAAAATTATAATAAAAATAATATTATTTT
45602370 AGAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 10 0.33
34 7 0.23
35 13 0.43
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (34 bp):
TTTTATAAAATTATAATAAAAATAATATTATTTT
Found at i:45617952 original size:23 final size:24
Alignment explanation
Indices: 45617926--45617974 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
45617916 AAACAAAAAG
45617926 AATAAAAACATTTTAAA-TTTTAA
1 AATAAAAACATTTTAAATTTTTAA
**
45617949 AATAAAATTATTTTAAATTTTTAA
1 AATAAAAACATTTTAAATTTTTAA
45617973 AA
1 AA
45617975 AATTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATAAAAACATTTTAAATTTTTAA
Found at i:45621164 original size:66 final size:66
Alignment explanation
Indices: 45621091--45621217 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 66
45621081 TTCTTTACTA
* * * *
45621091 TTTTTATTAAAAAGTTAATTTTAATCCCACATTTATTAGAGAACACTCTTATAGTTCACTTCTTT
1 TTTTTATTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCTTATAGCTCACTTCTTT
45621156 G
66 G
* * *
45621157 TTTTTATTAAAAAGTTAATTTTAATTCCATATTAACTAGAAAATACTCTTATAGCTCACTT
1 TTTTTATTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCTTATAGCTCACTT
45621218 ATTTCATTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (66 bp):
TTTTTATTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCTTATAGCTCACTTCTTT
G
Found at i:45622477 original size:26 final size:26
Alignment explanation
Indices: 45622441--45622490 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
45622431 TTATTTAACA
45622441 AACACATTAAACACAT-TAAACACACT
1 AACACATTAAACACATGT-AACACACT
45622467 AACACATTAAACACATGTAACACA
1 AACACATTAAACACATGTAACACA
45622491 TGTAACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.54, C:0.26, G:0.02, T:0.18
Consensus pattern (26 bp):
AACACATTAAACACATGTAACACACT
Found at i:45622497 original size:9 final size:9
Alignment explanation
Indices: 45622440--45622491 Score: 72
Period size: 9 Copynumber: 5.9 Consensus size: 9
45622430 TTTATTTAAC
45622440 AAACACATT
1 AAACACATT
45622449 AAACACATT
1 AAACACATT
*
45622458 AAACACACT
1 AAACACATT
45622467 -AACACATT
1 AAACACATT
45622475 AAACACATGT
1 AAACACAT-T
45622485 -AACACAT
1 AAACACAT
45622492 GTAACAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 7 0.18
9 31 0.79
10 1 0.03
ACGTcount: A:0.54, C:0.25, G:0.02, T:0.19
Consensus pattern (9 bp):
AAACACATT
Found at i:45625621 original size:21 final size:21
Alignment explanation
Indices: 45625580--45625624 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
45625570 ACCTCCACTC
45625580 TCTTAATTGTTTCTTTCTTTT
1 TCTTAATTGTTTCTTTCTTTT
45625601 TCTT-ATT-TTTCTTTTCTTTT
1 TCTTAATTGTTTC-TTTCTTTT
45625621 TCTT
1 TCTT
45625625 TTGATTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.17
20 15 0.65
21 4 0.17
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.76
Consensus pattern (21 bp):
TCTTAATTGTTTCTTTCTTTT
Found at i:45631380 original size:44 final size:45
Alignment explanation
Indices: 45631315--45631442 Score: 195
Period size: 45 Copynumber: 2.9 Consensus size: 45
45631305 CGTGCTTTCA
* *
45631315 CATGATGCCATAACATCTTTCAGTTATGGTCTTACTTAT-TTTAT
1 CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATCTTTAT
* * * *
45631359 CTTGATGCCATAGCATCTTTCAGCTGTGGCCTTACTCATCTTTAT
1 CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATCTTTAT
45631404 CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCAT
1 CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCAT
45631443 ATTGACATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 33 0.45
45 40 0.55
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATCTTTAT
Found at i:45641907 original size:55 final size:56
Alignment explanation
Indices: 45641837--45641942 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 56
45641827 TTATAATTAT
** * *
45641837 TTTTAAACATGTTAT-ATGATTTTAAAATTTTG-AAACATTATAAAGTTTTAATAAA
1 TTTTAAACAAATTATAATG-TTCTAAAATTTTGAAAACATTATAAAATTTTAATAAA
* *
45641892 TTTTAAACAAATTATAATGTTCTAAATTTTTGATAAAGATTATAAAATTTT
1 TTTTAAACAAATTATAATGTTCTAAAATTTTGA-AAACATTATAAAATTTT
45641943 TTAAATAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
55 24 0.57
56 3 0.07
57 15 0.36
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (56 bp):
TTTTAAACAAATTATAATGTTCTAAAATTTTGAAAACATTATAAAATTTTAATAAA
Found at i:45644925 original size:20 final size:20
Alignment explanation
Indices: 45644900--45644948 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
45644890 TTTGTATAGT
*
45644900 TGTTCTGTTATGAAGTTAAA
1 TGTTCTGTTATAAAGTTAAA
*
45644920 TGTTCTGTTGTAAAGTTAAA
1 TGTTCTGTTATAAAGTTAAA
45644940 TGTTCTGTT
1 TGTTCTGTT
45644949 TTGCTCGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.06, G:0.20, T:0.49
Consensus pattern (20 bp):
TGTTCTGTTATAAAGTTAAA
Found at i:45648135 original size:5 final size:5
Alignment explanation
Indices: 45648125--45648154 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
45648115 TTAGTTAATA
45648125 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
45648155 TTTAAGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:45649032 original size:26 final size:26
Alignment explanation
Indices: 45648996--45649050 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
45648986 CTTGAATAGT
45648996 AGGCCTTGAGTCGGTGTTTATTTAGC
1 AGGCCTTGAGTCGGTGTTTATTTAGC
45649022 AGGCCTTGAGTCGGTGTTTATTTAGC
1 AGGCCTTGAGTCGGTGTTTATTTAGC
45649048 AGG
1 AGG
45649051 ATTTGAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.16, C:0.15, G:0.33, T:0.36
Consensus pattern (26 bp):
AGGCCTTGAGTCGGTGTTTATTTAGC
Found at i:45649056 original size:26 final size:26
Alignment explanation
Indices: 45649000--45649058 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
45648990 AATAGTAGGC
*
45649000 CTTGAGTCGGTGTTTATTTAGCAGGC
1 CTTGAGTCGGTGTTTATTTAGCAGGA
45649026 CTTGAGTCGGTGTTTATTTAGCAGGA
1 CTTGAGTCGGTGTTTATTTAGCAGGA
*
45649052 TTTGAGT
1 CTTGAGT
45649059 TTGTGAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.31, T:0.41
Consensus pattern (26 bp):
CTTGAGTCGGTGTTTATTTAGCAGGA
Found at i:45662214 original size:14 final size:15
Alignment explanation
Indices: 45662192--45662268 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
45662182 CAATCAAACA
45662192 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
45662206 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
45662221 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
45662241 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
45662255 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
45662269 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:45662233 original size:20 final size:20
Alignment explanation
Indices: 45662208--45662247 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45662198 AATATTTTCC
*
45662208 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45662228 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45662248 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45662253 original size:34 final size:35
Alignment explanation
Indices: 45662196--45662262 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45662186 CAAACACCAG
*
45662196 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
45662231 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45662263 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45662269 original size:14 final size:14
Alignment explanation
Indices: 45662231--45662270 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45662221 ACAGAAAAGT
*
45662231 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
45662245 AAATCATTTTACGG
1 AAAACATTTTACAG
45662259 AAAACATTTTAC
1 AAAACATTTTAC
45662271 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:45667822 original size:30 final size:30
Alignment explanation
Indices: 45667788--45667847 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
45667778 ACTTAACAAG
45667788 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
45667818 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
45667848 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:45668547 original size:33 final size:32
Alignment explanation
Indices: 45668508--45668575 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
45668498 TACTCCTACA
*
45668508 AAGTCTAAATTAAAATCATCCAATAATTAATAC
1 AAGTCTAAATTAAAATCATCCAATAA-AAATAC
45668541 AAGTCTAAATTAAAATCATCCAATAAAAATAC
1 AAGTCTAAATTAAAATCATCCAATAAAAATAC
45668573 AAG
1 AAG
45668576 CCTCTTCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.26
Consensus pattern (32 bp):
AAGTCTAAATTAAAATCATCCAATAAAAATAC
Found at i:45669444 original size:45 final size:45
Alignment explanation
Indices: 45669391--45669481 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
45669381 TAATTCCAAC
45669391 TACTGCTGCCTTGTGTCAGATATTTTATAACATCTTCCATGTCAA
1 TACTGCTGCCTTGTGTCAGATATTTTATAACATCTTCCATGTCAA
*
45669436 TACTGCTGCCTTGTGTCAGATATTTTATAACATCTTTCATGTCAA
1 TACTGCTGCCTTGTGTCAGATATTTTATAACATCTTCCATGTCAA
45669481 T
1 T
45669482 GTTTTCAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (45 bp):
TACTGCTGCCTTGTGTCAGATATTTTATAACATCTTCCATGTCAA
Found at i:45670063 original size:23 final size:23
Alignment explanation
Indices: 45670036--45670112 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
45670026 GATAGTTTTA
45670036 TGATTGAAATTTGAGTAAAATAT
1 TGATTGAAATTTGAGTAAAATAT
* * * ** *
45670059 TGATTTAAATTAGAGGGATAGTTTT
1 TGATTGAAATTTGA-GTA-AAATAT
*
45670084 ATGATTGAAATTTGAGTAAAATAG
1 -TGATTGAAATTTGAGTAAAATAT
45670108 TGATT
1 TGATT
45670113 ATGTCGTTGG
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
23 17 0.45
24 4 0.11
25 5 0.13
26 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.40
Consensus pattern (23 bp):
TGATTGAAATTTGAGTAAAATAT
Found at i:45670071 original size:49 final size:49
Alignment explanation
Indices: 45670014--45670112 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
45670004 TGAAGTTAGA
*
45670014 TTAAATTAGAGCGATAGTTTTATGATTGAAATTTGAGTAAAATATTGAT
1 TTAAATTAGAGCGATAGTTTTATGATTGAAATTTGAGTAAAATAGTGAT
*
45670063 TTAAATTAGAGGGATAGTTTTATGATTGAAATTTGAGTAAAATAGTGAT
1 TTAAATTAGAGCGATAGTTTTATGATTGAAATTTGAGTAAAATAGTGAT
45670112 T
1 T
45670113 ATGTCGTTGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.40
Consensus pattern (49 bp):
TTAAATTAGAGCGATAGTTTTATGATTGAAATTTGAGTAAAATAGTGAT
Found at i:45670089 original size:26 final size:26
Alignment explanation
Indices: 45670012--45670095 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 26
45670002 AATGAAGTTA
*
45670012 GATT-AAATTAGAGCGATAGTTTTAT
1 GATTGAAATTAGAGGGATAGTTTTAT
* * ** *
45670037 GATTGAAATTTGA-GTA-AAATAT-T
1 GATTGAAATTAGAGGGATAGTTTTAT
*
45670060 GATTTAAATTAGAGGGATAGTTTTAT
1 GATTGAAATTAGAGGGATAGTTTTAT
45670086 GATTGAAATT
1 GATTGAAATT
45670096 TGAGTAAAAT
Statistics
Matches: 42, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
23 12 0.29
24 5 0.12
25 8 0.19
26 17 0.40
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.40
Consensus pattern (26 bp):
GATTGAAATTAGAGGGATAGTTTTAT
Found at i:45678469 original size:23 final size:24
Alignment explanation
Indices: 45678413--45678475 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
45678403 TCATTAACAT
*
45678413 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* * **
45678437 TGTTCATGAACTTGTTCGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
45678460 TGTTCGTGAACATGTT
1 TGTTCGTGAACATGTT
45678476 TGATTAAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:45678482 original size:23 final size:23
Alignment explanation
Indices: 45678413--45678482 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
45678403 TCATTAACAT
* *
45678413 TGTTCGTGAACATATTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* * *
45678437 TGTTCATGAACTTGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
45678460 TGTTCGTGAACATGTTTGATTAA
1 TGTTCGTGAACATGTTCGATTAA
45678483 GTTAAATGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.44
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:45684731 original size:34 final size:35
Alignment explanation
Indices: 45684654--45684743 Score: 121
Period size: 35 Copynumber: 2.6 Consensus size: 35
45684644 TTTAAAAAAA
* **
45684654 TAAATTAAGGTTTAAATTTTTAAAAAAAATTAATT
1 TAAATTAGGGTTTAGGTTTTTAAAAAAAATTAATT
*
45684689 TAAATTAGGGTTTAGTGTTTTT-AAGAAAATTAA-T
1 TAAATTAGGGTTTAG-GTTTTTAAAAAAAATTAATT
45684723 TAAATTAGGGTTTAGGTTTTT
1 TAAATTAGGGTTTAGGTTTTT
45684744 TTAAATAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 6 0.12
34 16 0.32
35 23 0.46
36 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (35 bp):
TAAATTAGGGTTTAGGTTTTTAAAAAAAATTAATT
Found at i:45685059 original size:124 final size:124
Alignment explanation
Indices: 45684835--45685215 Score: 456
Period size: 124 Copynumber: 3.1 Consensus size: 124
45684825 GAAAAAAAAA
* *
45684835 TTTCTACAGTAGTT-TCTG-AAAAATAATTTTGAGAAGACGGTTCCGAAAAGATAATGT-AAAAA
1 TTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAAT-A-GTCAAAAA
* * * * * * * *
45684897 CGCTTCAAGTAGTATACACTGTGAACAAAAATACTGAAAAAAGCTCCCACATAGACGCTCTT
63 CGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCACACGTAGACACTCTT
* *
45684959 TTTATACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTCAAAAACAC
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTCAAAAACGC
* *
45685024 TTCAAGCAGGATGCACTGTCAACAAAATTAGTGAAAAAAGCTCATACGTAGACACTCTT
66 TTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCACACGTAGACACTCTT
* * * * * *
45685083 TTTCTATAGTAGTTCCTGAAAAAGTAATTTTGAGAAAACAG-T-T---AATAT-GTCAAAAACGC
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTCAAAAACGC
* * *
45685142 TTCAAGCAGGATGCATTGTCAACAAAATTACTGAAAAAAGCTCTCACGTTGACACTCTT
66 TTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCACACGTAGACACTCTT
*
45685201 TTTCTACAATAGTTC
1 TTTCTACAGTAGTTC
45685216 CTGCTTGGCC
Statistics
Matches: 225, Mismatches: 29, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
118 77 0.34
119 4 0.02
122 1 0.00
123 3 0.01
124 107 0.48
125 33 0.15
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (124 bp):
TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTCAAAAACGC
TTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCACACGTAGACACTCTT
Found at i:45690191 original size:28 final size:28
Alignment explanation
Indices: 45690137--45690193 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
45690127 GCATAAGTTT
* * *
45690137 ATATATATTATGAATTTTTAAAGTTAAA
1 ATATATATTATGAATATTAAAAATTAAA
45690165 ATATATATTAT-AATATTAAAATATTAAA
1 ATATATATTATGAATATTAAAA-ATTAAA
45690193 A
1 A
45690194 GTTAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATATTATGAATATTAAAAATTAAA
Found at i:45690264 original size:17 final size:17
Alignment explanation
Indices: 45690242--45690277 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
45690232 ACAATTAAAT
45690242 AAAAGAAAAAGAATAGA
1 AAAAGAAAAAGAATAGA
*
45690259 AAAAGAAAGAGAATAGA
1 AAAAGAAAAAGAATAGA
45690276 AA
1 AA
45690278 CGAAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAGAATAGA
Found at i:45690305 original size:11 final size:10
Alignment explanation
Indices: 45690243--45690310 Score: 55
Period size: 11 Copynumber: 6.3 Consensus size: 10
45690233 CAATTAAATA
45690243 AAAGAAAAAG
1 AAAGAAAAAG
45690253 AATAGAAAAAG
1 AA-AGAAAAAG
*
45690264 AAAGAGAATAG
1 AAAGA-AAAAG
*
45690275 AAACGAAATAG
1 AAA-GAAAAAG
*
45690286 AAGAAAAAAAGG
1 AA-AGAAAAA-G
*
45690298 AAAGAAAAGG
1 AAAGAAAAAG
45690308 AAA
1 AAA
45690311 AAGAAGGAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
10 9 0.19
11 33 0.69
12 6 0.12
ACGTcount: A:0.72, C:0.01, G:0.22, T:0.04
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:45690310 original size:28 final size:29
Alignment explanation
Indices: 45690243--45690316 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 29
45690233 CAATTAAATA
*
45690243 AAAGAAAAAG-AATAGAA-AAAGAAAGAG
1 AAAGAAAAAGAAATAGAAGAAAAAAAGAG
*
45690270 AATAG-AAACGAAATAGAAGAAAAAAAG-G
1 AA-AGAAAAAGAAATAGAAGAAAAAAAGAG
* *
45690298 AAAGAAAAGGAAAAAGAAG
1 AAAGAAAAAGAAATAGAAG
45690317 GAGAATTAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 8 0.21
28 24 0.62
29 7 0.18
ACGTcount: A:0.72, C:0.01, G:0.23, T:0.04
Consensus pattern (29 bp):
AAAGAAAAAGAAATAGAAGAAAAAAAGAG
Found at i:45691316 original size:41 final size:40
Alignment explanation
Indices: 45691226--45691319 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
45691216 AATTGTACAT
* *
45691226 TAGCGGCGTTTTAGCAAAAATGCCGCTAAAAGCAGAGCAA
1 TAGCGGCGTTTTTGCAAAAATGCCGCTAAAAACAGAGCAA
**
45691266 TAGCGGCGTTTTTGGTAAAATGCCGCTAAAAACTAGAGCAA
1 TAGCGGCGTTTTTGCAAAAATGCCGCTAAAAAC-AGAGCAA
45691307 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
45691320 CCAGAGCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 29 0.59
41 20 0.41
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (40 bp):
TAGCGGCGTTTTTGCAAAAATGCCGCTAAAAACAGAGCAA
Found at i:45691478 original size:37 final size:38
Alignment explanation
Indices: 45691422--45691494 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
45691412 CCTAAAACCC
* *
45691422 TAAACCCCCAAAAATCATAAACACTAATCTATAACCTT
1 TAAACCCCCAAAAACCATAAACACTAAACTATAACCTT
* *
45691460 TAAA-CCCTAAAAACCATAAATACTAAACTATAACC
1 TAAACCCCCAAAAACCATAAACACTAAACTATAACC
45691495 CCTAAAACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 27 0.87
38 4 0.13
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (38 bp):
TAAACCCCCAAAAACCATAAACACTAAACTATAACCTT
Found at i:45691668 original size:15 final size:15
Alignment explanation
Indices: 45691639--45691682 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
45691629 GGATTTAATA
*
45691639 TTTAAGG-TCTATGG
1 TTTAAGGTTTTATGG
*
45691653 TTTAGGGTTTTATGG
1 TTTAAGGTTTTATGG
*
45691668 TTTAAGGTTTAATGG
1 TTTAAGGTTTTATGG
45691683 CCATGGGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (15 bp):
TTTAAGGTTTTATGG
Found at i:45692680 original size:3 final size:3
Alignment explanation
Indices: 45692672--45692697 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45692662 CATTTTAGTA
45692672 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
45692698 AAGAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:45698724 original size:3 final size:3
Alignment explanation
Indices: 45698716--45698743 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45698706 AGCAACTGCA
45698716 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
45698744 GAGCTCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:45701663 original size:19 final size:19
Alignment explanation
Indices: 45701641--45701679 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45701631 TCTATATTTA
45701641 TATTTAATCTAATTTTGAT
1 TATTTAATCTAATTTTGAT
* * *
45701660 TATTTATTTTAGTTTTGAT
1 TATTTAATCTAATTTTGAT
45701679 T
1 T
45701680 CTATATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (19 bp):
TATTTAATCTAATTTTGAT
Found at i:45701694 original size:19 final size:18
Alignment explanation
Indices: 45701652--45701694 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
45701642 ATTTAATCTA
*
45701652 ATTTTGATTATTTATTTT
1 ATTTTGATTATATATTTT
*
45701670 AGTTTTGATTCTATATTTTT
1 A-TTTTGATTATATA-TTTT
45701690 ATTTT
1 ATTTT
45701695 TATTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (18 bp):
ATTTTGATTATATATTTT
Found at i:45707721 original size:43 final size:43
Alignment explanation
Indices: 45707673--45707758 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
45707663 TTAATGTAGG
* * *
45707673 ATTAAAGATAACATTTTAGTAAAAATAATGAAGAAATTGACAC
1 ATTAAAAATAACATTTTAATAAAAATAATGAAGAAAATGACAC
* *
45707716 ATTAAAAATAACTTTTTAATAAAAATAATGAATAAAATGACAC
1 ATTAAAAATAACATTTTAATAAAAATAATGAAGAAAATGACAC
45707759 TTTTATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (43 bp):
ATTAAAAATAACATTTTAATAAAAATAATGAAGAAAATGACAC
Found at i:45707878 original size:12 final size:12
Alignment explanation
Indices: 45707857--45707886 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45707847 TGCTGAAGTA
*
45707857 ACCAATTTCACT
1 ACCAACTTCACT
45707869 ACCAACTTCACT
1 ACCAACTTCACT
45707881 ACCAAC
1 ACCAAC
45707887 CATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (12 bp):
ACCAACTTCACT
Found at i:45708963 original size:18 final size:17
Alignment explanation
Indices: 45708935--45708978 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
45708925 ACGTGCCCAT
45708935 AAAATATAATAAAATATTA
1 AAAATATAAT--AATATTA
45708954 AAAATA-AATAATATTAA
1 AAAATATAATAATATT-A
45708971 AAAATATA
1 AAAATATA
45708979 CATGACATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 7 0.30
18 4 0.17
19 6 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATATAATAATATTA
Found at i:45715997 original size:17 final size:17
Alignment explanation
Indices: 45715962--45716000 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
45715952 AGGCAATAAA
* **
45715962 AGAAAAAGAAGAATCAG
1 AGAAAAAGAAAAAGAAG
45715979 AGAAAAAGAAAAAGAAG
1 AGAAAAAGAAAAAGAAG
45715996 AGAAA
1 AGAAA
45716001 TTTGAGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (17 bp):
AGAAAAAGAAAAAGAAG
Found at i:45717807 original size:46 final size:46
Alignment explanation
Indices: 45717740--45717917 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
45717730 TGTAACCCGC
*
45717740 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
45717786 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * * **
45717832 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
45717879 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
45717918 CCCAAATATC
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
46 73 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:45717860 original size:93 final size:93
Alignment explanation
Indices: 45717748--45717919 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45717738 GCCCATAAGT
* ***
45717748 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45717813 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
45717841 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
45717906 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
45717920 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:45726693 original size:21 final size:20
Alignment explanation
Indices: 45726662--45726701 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
45726652 AGAAACCCAA
45726662 CCATATCCAACCGTATACACCT
1 CCATATCCAACC-T-TACACCT
45726684 CCATA-CCAACCTTACACC
1 CCATATCCAACCTTACACC
45726702 GTGCGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.45, G:0.03, T:0.20
Consensus pattern (20 bp):
CCATATCCAACCTTACACCT
Found at i:45726812 original size:27 final size:27
Alignment explanation
Indices: 45726782--45726868 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
45726772 GTGATGGAGT
45726782 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
45726809 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
45726836 CATCAGAT-CAGATAATTGTAGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
45726863 CACCAG
1 CACCAG
45726869 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.15
27 43 0.81
28 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:45727000 original size:27 final size:26
Alignment explanation
Indices: 45726974--45727047 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
45726964 AAATTAACCT
*
45726974 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACC
* *
45727000 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTGC--ACC
* *
45727028 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
45727048 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACC
Found at i:45728521 original size:26 final size:26
Alignment explanation
Indices: 45728490--45728597 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
45728480 TGAAATGCCC
*
45728490 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45728516 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
45728542 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45728568 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45728594 ATCA
1 ATCA
45728598 ATTTGTACAA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45736454 original size:33 final size:34
Alignment explanation
Indices: 45736415--45736507 Score: 122
Period size: 33 Copynumber: 2.8 Consensus size: 34
45736405 TGAGGTGTAC
45736415 ATTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 ATTCCTTTCCAAGTGGTACACACAAAGTATACCT
* *
45736449 -TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 ATTCCTTTCCA-AGTGGTACACACAAAGTATACCT
*
45736482 AAT-CTTTCCAAGT-GTACACACAAAGT
1 ATTCCTTTCCAAGTGGTACACACAAAGT
45736508 GTACATAACC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
32 13 0.25
33 36 0.71
34 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (34 bp):
ATTCCTTTCCAAGTGGTACACACAAAGTATACCT
Found at i:45738151 original size:10 final size:10
Alignment explanation
Indices: 45738136--45738162 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
45738126 ATAATATGTT
45738136 GTTGGAATAA
1 GTTGGAATAA
45738146 GTTGGAATAA
1 GTTGGAATAA
45738156 GTTGGAA
1 GTTGGAA
45738163 AAAGATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (10 bp):
GTTGGAATAA
Found at i:45739848 original size:23 final size:22
Alignment explanation
Indices: 45739817--45739863 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
45739807 TGAATTCATC
* *
45739817 TTTTATTCATTTTTTTGTTATTT
1 TTTTATTCATATTTTTATT-TTT
*
45739840 TTTTTTTCATATTTTTATTTTT
1 TTTTATTCATATTTTTATTTTT
45739862 TT
1 TT
45739864 CCTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTATTCATATTTTTATTTTT
Found at i:45743408 original size:38 final size:38
Alignment explanation
Indices: 45743361--45743440 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
45743351 TTTTTTCTAA
*
45743361 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAATCT
1 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
*
45743399 TTAATTCCATCTATTTTTATTGTATTTCAAATAAACCT
1 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
45743437 TTAA
1 TTAA
45743441 CTAGCAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.50
Consensus pattern (38 bp):
TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
Found at i:45748746 original size:14 final size:16
Alignment explanation
Indices: 45748727--45748758 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45748717 CATAAAGTAC
45748727 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
45748741 AATAAATCCAACAATT
1 AATAAATCCAACAATT
45748757 AA
1 AA
45748759 GTACAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:45748834 original size:21 final size:21
Alignment explanation
Indices: 45748810--45748856 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
45748800 ATGGATGGAG
*
45748810 AACAATTAATATAATAA-ATAA
1 AACAATGAATA-AATAATATAA
*
45748831 AACAATGAATAAATAATATAC
1 AACAATGAATAAATAATATAA
45748852 AACAA
1 AACAA
45748857 CAATAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
AACAATGAATAAATAATATAA
Found at i:45749866 original size:11 final size:11
Alignment explanation
Indices: 45749850--45749876 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45749840 ATGCAAATAG
45749850 AAAATTAAATT
1 AAAATTAAATT
45749861 AAAATTAAATT
1 AAAATTAAATT
45749872 AAAAT
1 AAAAT
45749877 AAGAGGGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:45753373 original size:41 final size:41
Alignment explanation
Indices: 45753275--45753521 Score: 316
Period size: 41 Copynumber: 6.0 Consensus size: 41
45753265 TTGTAAAATA
* * * * *
45753275 CAGATCAATAGCGGCGTTTTTGGTAAAACGCCACTAAAA-A
1 CAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGT
** *
45753315 CAGAGCAATAGCAACGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGT
* * *
45753356 CAGAGTAATAGCGACGCTTCCGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGT
* *
45753397 CAGACCAATAGCGGTGCTTTCGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGT
* * *
45753438 CGGAGCAACAGCGGCGCTTTCGGTAAAACACCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGT
* * *
45753479 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGT
45753520 CA
1 CA
45753522 TATAACTCCT
Statistics
Matches: 180, Mismatches: 26, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 0.19
41 146 0.81
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGT
Found at i:45753755 original size:7 final size:7
Alignment explanation
Indices: 45753743--45753806 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
45753733 TTTATTTTTT
*
45753743 GGTTTAC
1 GGTTTAA
45753750 GGTTTAA
1 GGTTTAA
**
45753757 TATTTAA
1 GGTTTAA
45753764 GGTTTAA
1 GGTTTAA
* *
45753771 GGTCTAT
1 GGTTTAA
*
45753778 GGTTTAG
1 GGTTTAA
*
45753785 GGTTTTAT
1 GG-TTTAA
45753793 GGTTTAA
1 GGTTTAA
45753800 GGTTTAA
1 GGTTTAA
45753807 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:45753795 original size:15 final size:15
Alignment explanation
Indices: 45753759--45753809 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
45753749 CGGTTTAATA
*
45753759 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
45753773 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
45753788 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
45753803 TTAATGG
1 TTTATGG
45753810 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:45754420 original size:8 final size:8
Alignment explanation
Indices: 45754409--45754461 Score: 58
Period size: 8 Copynumber: 7.0 Consensus size: 8
45754399 ACTCAAAAAA
45754409 TAAAAATT
1 TAAAAATT
45754417 TAAAAA-T
1 TAAAAATT
45754424 T-AAAATT
1 TAAAAATT
45754431 TAAAAA-T
1 TAAAAATT
*
45754438 AAAAAATT
1 TAAAAATT
* *
45754446 AAAAAACT
1 TAAAAATT
45754454 TAAAAATT
1 TAAAAATT
45754462 AATATTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 4 0.11
7 10 0.26
8 24 0.63
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAAATT
Found at i:45754421 original size:14 final size:14
Alignment explanation
Indices: 45754404--45754450 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
45754394 AATAAACTCA
45754404 AAAAATAAAAATTT
1 AAAAATAAAAATTT
*
45754418 AAAAATTAAAATTT
1 AAAAATAAAAATTT
*
45754432 AAAAATAAAAAATT
1 AAAAATAAAAATTT
45754446 AAAAA
1 AAAAA
45754451 ACTTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATAAAAATTT
Found at i:45754458 original size:7 final size:7
Alignment explanation
Indices: 45754403--45754463 Score: 68
Period size: 7 Copynumber: 8.3 Consensus size: 7
45754393 AAATAAACTC
*
45754403 AAAAAAT
1 AAAAATT
45754410 AAAAATTT
1 AAAAA-TT
45754418 AAAAATT
1 AAAAATT
*
45754425 AAAATTT
1 AAAAATT
*
45754432 AAAAATA
1 AAAAATT
45754439 AAAAATT
1 AAAAATT
45754446 AAAAAACTT
1 -AAAAA-TT
45754455 AAAAATT
1 AAAAATT
45754462 AA
1 AA
45754464 TATTTTAGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
7 28 0.61
8 16 0.35
9 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:45755720 original size:17 final size:17
Alignment explanation
Indices: 45755698--45755730 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45755688 TGGAAGAAGA
*
45755698 AATGGGTTTTCTGAAAC
1 AATGGGTTTTCAGAAAC
45755715 AATGGGTTTTCAGAAA
1 AATGGGTTTTCAGAAA
45755731 GAAAAAATAA
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:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (17 bp):
AATGGGTTTTCAGAAAC
Found at i:45757185 original size:17 final size:18
Alignment explanation
Indices: 45757165--45757202 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45757155 CATTGATATC
45757165 TTTA-TATTTAATTTAAT
1 TTTATTATTTAATTTAAT
* *
45757182 TTTATTATTTATTTTAGT
1 TTTATTATTTAATTTAAT
45757200 TTT
1 TTT
45757203 GATTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTATTATTTAATTTAAT
Found at i:45757337 original size:27 final size:28
Alignment explanation
Indices: 45757302--45757355 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
45757292 TATTTTGATA
*
45757302 ATGAATTTTA-AATTTTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATTTTTC
* *
45757329 ATGACTTTTATAATATTTTATTTTTTT
1 ATGAATTTTATAATATTTTATATTTTT
45757356 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTTC
Found at i:45757720 original size:21 final size:21
Alignment explanation
Indices: 45757673--45757721 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
45757663 TGAATTCATC
* *
45757673 TTTTATTCATTTTGTTGTTAT
1 TTTTTTTCATTTTGTTATTAT
*
45757694 TTTTTTTCATTTTTTTATT-T
1 TTTTTTTCATTTTGTTATTAT
*
45757714 TTCTTTTC
1 TTTTTTTC
45757722 CTTAGTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTTTCATTTTGTTATTAT
Found at i:45770926 original size:18 final size:18
Alignment explanation
Indices: 45770903--45770945 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
45770893 AAATATTGCA
* *
45770903 TTTTTATTACGTATATAT
1 TTTTTATTACGGATACAT
* *
45770921 TTTTTAATGCGGATACAT
1 TTTTTATTACGGATACAT
45770939 TTTTTAT
1 TTTTTAT
45770946 ATATTACGTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (18 bp):
TTTTTATTACGGATACAT
Found at i:45771213 original size:3 final size:3
Alignment explanation
Indices: 45771175--45771233 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
45771165 TAATACTATA
* * * * *
45771175 TAT TA- TAT TCT TAC TAT TAT CAT TAC TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
45771222 TAT TAT TTT TAT
1 TAT TAT TAT TAT
45771234 CTTTACTTAT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:45773209 original size:27 final size:29
Alignment explanation
Indices: 45773173--45773231 Score: 95
Period size: 27 Copynumber: 2.1 Consensus size: 29
45773163 AATTTAAAAG
*
45773173 AAATATAAAAAATATTTTTAA-A-TTTAA
1 AAATATAAAAAATATTTTAAATATTTTAA
45773200 AAATATAAAAAATATTTTAAATATTTTAA
1 AAATATAAAAAATATTTTAAATATTTTAA
45773229 AAA
1 AAA
45773232 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 20 0.69
28 1 0.03
29 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATATAAAAAATATTTTAAATATTTTAA
Found at i:45773453 original size:26 final size:26
Alignment explanation
Indices: 45773424--45773476 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
45773414 CAAAAGCCAG
45773424 TAATGGAGAAAAACATTGGTTTTTTT
1 TAATGGAGAAAAACATTGGTTTTTTT
45773450 TAATGGAGAAAAACATTGGTTTTTTT
1 TAATGGAGAAAAACATTGGTTTTTTT
45773476 T
1 T
45773477 TTTACTTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.43
Consensus pattern (26 bp):
TAATGGAGAAAAACATTGGTTTTTTT
Found at i:45776871 original size:25 final size:25
Alignment explanation
Indices: 45776807--45776881 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 25
45776797 ATTTGAAATG
*
45776807 TATATTTGAAATACTTTATAATATA
1 TATATTTGAAATATTTTATAATATA
* *
45776832 TAT-TTTTAAAAATTTTA-AATATA
1 TATATTTGAAATATTTTATAATATA
* *
45776855 TATATTTGAAATTATTTTTTAAAATA
1 TATATTTGAAA-TATTTTATAATATA
45776881 T
1 T
45776882 TAAATATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.22
24 17 0.43
25 8 0.20
26 6 0.15
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (25 bp):
TATATTTGAAATATTTTATAATATA
Found at i:45776892 original size:21 final size:20
Alignment explanation
Indices: 45776863--45776902 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
45776853 TATATATTTG
45776863 AAATTATTTTTTAA-AATATT
1 AAATTA-TTTTTAATAATATT
45776883 AAATATATTTTTAATAATAT
1 AAAT-TATTTTTAATAATAT
45776903 AAAACATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTATTTTTAATAATATT
Found at i:45776911 original size:19 final size:20
Alignment explanation
Indices: 45776870--45776911 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
45776860 TTGAAATTAT
*
45776870 TTTTTAAAATATTAAATATA
1 TTTTTAAAATATTAAATACA
45776890 TTTTTAATAATA-TAAA-ACA
1 TTTTTAA-AATATTAAATACA
45776909 TTT
1 TTT
45776912 AAATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTTAAAATATTAAATACA
Found at i:45777048 original size:18 final size:18
Alignment explanation
Indices: 45777006--45777048 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
45776996 ATTTGTTTTA
*
45777006 TAATTTTTTAAATATTTT
1 TAATTTTTTAAATATTAT
45777024 TAATTTTTTAAA-ATATAT
1 TAATTTTTTAAATAT-TAT
45777042 T-ATTTTT
1 TAATTTTT
45777049 AAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATTTTTTAAATATTAT
Found at i:45777133 original size:29 final size:29
Alignment explanation
Indices: 45777077--45777166 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 29
45777067 ATTTATTATT
* *
45777077 TATTTTATAATATTTTTAATGTATATTTTAAA
1 TATTTT-TAA-ATTTTAAATATA-ATTTTAAA
45777109 TATTTTTAAATTTTAAATATAATTTTTATAA
1 TATTTTTAAATTTTAAATATAA-TTTTA-AA
*
45777140 -ATTATT-AATTTTAAA-ATTAATTTTAAA
1 TATTTTTAAATTTTAAATA-TAATTTTAAA
45777167 AATATTCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
27 2 0.04
28 6 0.12
29 13 0.25
30 20 0.38
31 5 0.10
32 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
TATTTTTAAATTTTAAATATAATTTTAAA
Found at i:45777134 original size:12 final size:13
Alignment explanation
Indices: 45777117--45777166 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
45777107 AATATTTTTA
45777117 AATTTTAAATA-T
1 AATTTTAAATATT
45777129 AATTTTTATAAATTATT
1 AA--TTT-TAAA-TATT
45777146 AATTTTAAA-ATT
1 AATTTTAAATATT
45777158 AATTTTAAA
1 AATTTTAAA
45777167 AATATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 14 0.42
14 7 0.21
15 7 0.21
16 2 0.06
17 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTAAATATT
Found at i:45780500 original size:29 final size:30
Alignment explanation
Indices: 45780425--45780525 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
45780415 GTTGCTTTGG
* * * *
45780425 GTGAAATGAACTCGAACCGCCTATGTGCGGA
1 GTGATATGAACTCGAACTGCCAATGT-CAGA
45780456 -TGATATGAACTCGAACTGTCC-ATGTCAG-
1 GTGATATGAACTCGAACTG-CCAATGTCAGA
* * *
45780484 GTGATGTGAACTTGAACTGCCAATGTCTGA
1 GTGATATGAACTCGAACTGCCAATGTCAGA
45780514 GTGATATGAACT
1 GTGATATGAACT
45780526 ACTCTGCGAC
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.03
29 24 0.41
30 31 0.53
31 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (30 bp):
GTGATATGAACTCGAACTGCCAATGTCAGA
Found at i:45782772 original size:17 final size:17
Alignment explanation
Indices: 45782750--45782790 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
45782740 TCAATATTTT
45782750 CTTTTAACATATTTAAA
1 CTTTTAACATATTTAAA
*
45782767 CTTTTAATATATTTAAA
1 CTTTTAACATATTTAAA
*
45782784 ATTTTAA
1 CTTTTAA
45782791 AGTTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
CTTTTAACATATTTAAA
Found at i:45782983 original size:71 final size:71
Alignment explanation
Indices: 45782886--45783029 Score: 225
Period size: 71 Copynumber: 2.0 Consensus size: 71
45782876 ATATTTTTAA
* *
45782886 AAAATATATTGAATATATTAAAATTTTAAAATTAGTTATACTTAACATTTTTTAATATATTTAAA
1 AAAATATACTAAATATATTAAAATTTTAAAATTAGTTATACTTAACATTTTTTAATATATTTAAA
45782951 ATTTTT
66 ATTTTT
* * * *
45782957 AAAATATACTAAATATATTAACATTTTAAAATTGGTTGTACTTAATATTTTTTAATATATTTAAA
1 AAAATATACTAAATATATTAAAATTTTAAAATTAGTTATACTTAACATTTTTTAATATATTTAAA
*
45783022 TTTTTT
66 ATTTTT
45783028 AA
1 AA
45783030 GTTTTTAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (71 bp):
AAAATATACTAAATATATTAAAATTTTAAAATTAGTTATACTTAACATTTTTTAATATATTTAAA
ATTTTT
Found at i:45783153 original size:17 final size:17
Alignment explanation
Indices: 45783128--45783166 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
45783118 AAAATATATA
* * *
45783128 TTAAGTATATTAAAGTT
1 TTAAATATACTAAACTT
45783145 TTAAATATACTAAACTT
1 TTAAATATACTAAACTT
45783162 TTAAA
1 TTAAA
45783167 ATTAATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
TTAAATATACTAAACTT
Found at i:45783200 original size:19 final size:20
Alignment explanation
Indices: 45783168--45783206 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
45783158 ACTTTTAAAA
*
45783168 TTAATTATACTTAACATTTT
1 TTAATTATACTTAAAATTTT
*
45783188 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
45783207 AGAAAACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATTATACTTAAAATTTT
Found at i:45787724 original size:3 final size:3
Alignment explanation
Indices: 45787716--45787792 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
45787706 GAATATAAGT
* * * * * * *
45787716 ATA ATA ATA ATA GTA ATA AT- ATA ATA ATG ACA ATA GTG ACA AAA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
45787764 ACA ATA ATA ATA ATA AT- ATCA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT
45787793 GATGATGATG
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
2 4 0.07
3 47 0.85
4 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:45788836 original size:7 final size:7
Alignment explanation
Indices: 45788824--45788861 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
45788814 AAATAAAAAT
45788824 AACCAAG
1 AACCAAG
45788831 AACCAAG
1 AACCAAG
45788838 AACCAAG
1 AACCAAG
45788845 AACCAAG
1 AACCAAG
45788852 AACCAAG
1 AACCAAG
45788859 AAC
1 AAC
45788862 ACCTTTTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.58, C:0.29, G:0.13, T:0.00
Consensus pattern (7 bp):
AACCAAG
Found at i:45789711 original size:44 final size:44
Alignment explanation
Indices: 45789653--45789964 Score: 230
Period size: 44 Copynumber: 7.2 Consensus size: 44
45789643 TAAATTCAGC
45789653 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * ** * *
45789697 CTGTTTCCCTACTGCTTAGGGCGTTAA-GATC-T-GTAAATTT-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--CTTTGA-T
*
45789740 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * * ** ** * *
45789784 CTGTTTCCCTACTGCTTAGGGAGCTAA-GATC-T-GTAAATTCAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGAT
*
45789826 CTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
1 C-TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
* * * * ** ** * *
45789871 CTCTTTCCTTACTGCTTAGGGGGCTAA-GATC-T-GTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT-CTTTGA-T
* *
45789914 CTGTTACTCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
45789958 CTGTTAC
1 CTGTTAC
45789965 ACCATTCTTT
Statistics
Matches: 195, Mismatches: 56, Indels: 34
0.68 0.20 0.12
Matches are distributed among these distances:
41 6 0.03
42 9 0.05
43 79 0.41
44 86 0.44
45 9 0.05
46 6 0.03
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGAT
Found at i:45789756 original size:87 final size:87
Alignment explanation
Indices: 45789624--45789962 Score: 579
Period size: 87 Copynumber: 3.9 Consensus size: 87
45789614 TACCTTGCTA
* *
45789624 CTTAGGGGGTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
1 CTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
*
45789689 TCTTTGATCTGTTTCCCTACTG
66 TCTTCGATCTGTTTCCCTACTG
* * *
45789711 CTTAGGGCGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
1 CTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
45789776 TCTTCGATCTGTTTCCCTACTG
66 TCTTCGATCTGTTTCCCTACTG
* *
45789798 CTTAGGGAGCTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
1 CTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
* *
45789863 TCTTCGATCTCTTTCCTTACTG
66 TCTTCGATCTGTTTCCCTACTG
*
45789885 CTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACTCTACTGCTTAGGGGGTTAAGGCCCTTCG
1 CTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
45789950 TCTTCGATCTGTT
66 TCTTCGATCTGTT
45789963 ACACCATTCT
Statistics
Matches: 238, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 238 1.00
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (87 bp):
CTTAGGGGGCTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCG
TCTTCGATCTGTTTCCCTACTG
Found at i:45789758 original size:43 final size:43
Alignment explanation
Indices: 45789607--45789941 Score: 225
Period size: 43 Copynumber: 7.7 Consensus size: 43
45789597 TTTGATTTCC
* * * * *
45789607 AGCCTGTTACCTTGCTACTTAGGGGGTTAAGATTTGTAAATTC
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
** *
45789650 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--CTTT
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTT
* * *
45789694 -GATCTGTTTCCCTACTGCTTAGGGCGTTAAGATCTGTAAATTT
1 AG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
** **
45789737 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCT-T-CGTCTT
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATCTGTAAAT-TT
* * * * * *
45789780 CGATCTGTTTCCCTACTGCTTAGGGAGCTAAGATCTGTAAATTC
1 AG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
* ** **
45789824 AGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCT-T-CGTCTT
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATCTGTAAAT-TT
* * * * * * *
45789867 CGATCTCTTTCCTTACTGCTTAGGGGGCTAAGATCTGTAAATTC
1 AG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
*
45789911 AGCCTGTTACTCTACTGCTTAGGGGGTTAAG
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAG
45789942 GCCCTTCGTC
Statistics
Matches: 214, Mismatches: 61, Indels: 34
0.69 0.20 0.11
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
43 117 0.55
44 87 0.41
45 3 0.01
46 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (43 bp):
AGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTT
Found at i:45794952 original size:53 final size:54
Alignment explanation
Indices: 45794875--45794990 Score: 130
Period size: 53 Copynumber: 2.2 Consensus size: 54
45794865 ACAATGGCTC
* * * **
45794875 ACACGATCTGTCACATGGCCTGACACACGAC-C-TGTGACCCATGTTAA-AGAGTT
1 ACACGGTCTGGCACACGGCCTGACACAC-ACTCGTGTGACCCA-ACTAAGAGAGTT
* *
45794928 ACACGGTCTGGCACACGGCTTGACACACACTCGTGTGACTCAACTAAGAGAGTT
1 ACACGGTCTGGCACACGGCCTGACACACACTCGTGTGACCCAACTAAGAGAGTT
45794982 ACACGGTCT
1 ACACGGTCT
45794991 AAACATACGC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
52 2 0.04
53 28 0.53
54 23 0.43
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (54 bp):
ACACGGTCTGGCACACGGCCTGACACACACTCGTGTGACCCAACTAAGAGAGTT
Done.