Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 345 of 356
Found at i:110459457 original size:4 final size:4
Alignment explanation
Indices: 110459448--110459571 Score: 81
Period size: 4 Copynumber: 31.5 Consensus size: 4
110459438 ATTAACGGAG
* * * *
110459448 GAGA GAGA GAGA GAAA GAGG GAGA GAGA GAGA GAAA GAGG GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * * * * *
110459496 GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GAGA GATA GAGG GATA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* *
110459544 GA-A G-GA GGGA GGGA GAGA GAGA GAGA GA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA
110459572 AATAACCAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
3 4 0.04
4 98 0.96
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (4 bp):
GAGA
Found at i:110459472 original size:20 final size:20
Alignment explanation
Indices: 110459447--110459496 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
110459437 TATTAACGGA
110459447 GGAGAGAGAGAGAGAAAGAG
1 GGAGAGAGAGAGAGAAAGAG
110459467 GGAGAGAGAGAGAGAAAGAG
1 GGAGAGAGAGAGAGAAAGAG
110459487 GGAGAGAGAG
1 GGAGAGAGAG
110459497 GGAGGGAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (20 bp):
GGAGAGAGAGAGAGAAAGAG
Found at i:110459540 original size:38 final size:38
Alignment explanation
Indices: 110459448--110459571 Score: 121
Period size: 38 Copynumber: 3.4 Consensus size: 38
110459438 ATTAACGGAG
* * *
110459448 GAGAGAGAGAGAGAAAGAGGGAGAG-A-GA--GAGAGA
1 GAGAGGGAGAGAGAGAGAGGGAGAGAAGGAGGGAGGGA
* * * *
110459482 AAGAGGGAGAGAGAGGGAGGGAGGGAGGGAGGGAGGGA
1 GAGAGGGAGAGAGAGAGAGGGAGAGAAGGAGGGAGGGA
* * *
110459520 GGGAGGGAGAGAGATAGAGGGATAGAAGGAGGGAGGGA
1 GAGAGGGAGAGAGAGAGAGGGAGAGAAGGAGGGAGGGA
*
110459558 GAGAGAGAGAGAGA
1 GAGAGGGAGAGAGA
110459572 AATAACCAAA
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
34 20 0.29
36 2 0.03
38 48 0.69
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (38 bp):
GAGAGGGAGAGAGAGAGAGGGAGAGAAGGAGGGAGGGA
Found at i:110459932 original size:18 final size:18
Alignment explanation
Indices: 110459859--110459933 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
110459849 GCTGGGTATA
110459859 AATATTATA-TTAATTAT
1 AATATTATATTTAATTAT
* * * *
110459876 ACTATTAGATATATTTAT
1 AATATTATATTTAATTAT
*
110459894 AATA-TAT-GTT-ATTA-
1 AATATTATATTTAATTAT
110459908 AATTATTATATTTAATTAT
1 AA-TATTATATTTAATTAT
110459927 AATATTA
1 AATATTA
110459934 CAAATTTCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
14 2 0.05
15 5 0.12
16 4 0.10
17 11 0.26
18 18 0.43
19 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (18 bp):
AATATTATATTTAATTAT
Found at i:110460860 original size:4 final size:4
Alignment explanation
Indices: 110460846--110460910 Score: 53
Period size: 4 Copynumber: 15.5 Consensus size: 4
110460836 ACAGAAGAAG
* *
110460846 AAGA TAGA AAGA AAGA AAGGA GAAG- AAGA TAGA AAGA AAGA AAGGA GAAG-
1 AAGA AAGA AAGA AAGA AA-GA -AAGA AAGA AAGA AAGA AAGA AA-GA -AAGA
110460896 AAGA AAGAA AAGA AA
1 AAGA AAG-A AAGA AA
110460911 AGGTAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
3 6 0.12
4 30 0.60
5 10 0.20
6 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:110460862 original size:21 final size:20
Alignment explanation
Indices: 110460840--110460905 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
110460830 AAATTTACAG
110460840 AAGAAGAAGATAGAAAGAAAGA
1 AAGAAGAAGA-AG-AAGAAAGA
*
110460862 AAGGAGAAGAAGATAGAAAGA
1 AAGAAGAAGAAGA-AGAAAGA
*
110460883 AAGAAAGGAGAAGAAGAAAGA
1 AAG-AAGAAGAAGAAGAAAGA
110460904 AA
1 AA
110460906 AGAAAAGGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 21 0.54
22 17 0.44
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (20 bp):
AAGAAGAAGAAGAAGAAAGA
Found at i:110460869 original size:25 final size:25
Alignment explanation
Indices: 110460841--110460910 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
110460831 AATTTACAGA
110460841 AGAAGAAGATAGAAAGAAAGAAAGG
1 AGAAGAAGATAGAAAGAAAGAAAGG
110460866 AGAAGAAGATAGAAAGAAAGAAAGG
1 AGAAGAAGATAGAAAGAAAGAAAGG
*
110460891 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGATAG-AAAGAAA
110460911 AGGTAATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 36 0.84
26 7 0.16
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (25 bp):
AGAAGAAGATAGAAAGAAAGAAAGG
Found at i:110467902 original size:144 final size:142
Alignment explanation
Indices: 110467305--110468467 Score: 1539
Period size: 144 Copynumber: 8.1 Consensus size: 142
110467295 TATTTTGGTA
*
110467305 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
110467369 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTAATAAAAAAACT
66 TTTAGTACATAATGTTTC--ATGTATTATTTTAG--TTTTTTTATATTAATTTAGT-AAAAAACT
* *
110467434 CTAATTTTGACCGTTTGTTT
126 CTGATTTTGGCCG--T-TTT
* * * *
110467454 TTCTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTA-TTTTTATATTA
1 TT-TATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* *
110467518 TTTTAGTACATAATGTTCCAAATGTATTATTTTAG-TTTTTTATATTAATTTAAT-AAAAACTCT
65 TTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCT
110467581 GATTTTGGCCGTTTATTT
128 GATTTTGGCCG--T-TTT
* *
110467599 TTTATTTTATTTTTGAATTTTATTTTTTTAAAATATACTATTTTCGTATTTTATGTTTTTTATAT
1 TTTATTTTATTTTCGGATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATAT
* * * * *
110467664 TATTTTAGTACATAATATTTAAAATGTATTATTTTAGTTTTTTTATATGAATATAGAAAAAAACT
63 TATTTTAGTACATAATGTTT--CATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACT
*
110467729 CTGATTTTGGCCCTTTT
126 CTGATTTTGGCCGTTTT
110467746 TATT-TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
1 T-TTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* * * *
110467810 TTATAGTACATAATGTTTCATTTATTATTTTAGTTTTTTCTATATTAATTTAGTAAAAATCTGTG
65 TTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTT-TATATTAATTTAGTAAAAAACTCTG
110467875 ATTTTGGCCGTTTT
129 ATTTTGGCCGTTTT
* *
110467889 ATTTATTTTATTTTCTGATTTTATTTTTTAAAATATACTATTTTCGTATCTTATTTTTTTATATT
1 -TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* * *
110467954 ATTTTAGTATATAATGTTTTAAATGTATTATTTTAG-TTTTTTATATTAATTTAGAAAAAAAACT
64 ATTTTAGTACATAATG-TTT-CATGTATTATTTTAGTTTTTTTATATTAATTTAG-TAAAAAACT
*
110468018 CTGATTTTAGCC--TTT
126 CTGATTTTGGCCGTTTT
* * *
110468033 TTTATTTTTATTTTCAGG-TTTTATTTTTTAAGATATATTATTTTCGTATTTTGTTTTTTATATT
1 TTTA-TTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
* *
110468097 ATTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGTG
64 ATTTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
*
110468162 GTTTTGGCC-TTTT
129 ATTTTGGCCGTTTT
*
110468175 TTTATTTTGTTTTCGGATTTT-TTATTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 TTTATTTTATTTTCGGATTTTATT-TTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
* *
110468239 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAATTA
64 ATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
110468304 TGATTTTGGCCG--TT
127 TGATTTTGGCCGTTTT
*
110468318 TTT-TTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTT-TATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
110468381 TTTAGTACATAATGTTTCATATGTATTATTTTAGTTTATTTATATTAATTTAGTAAAAAAACTCT
66 TTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAAACTCT
110468446 GATTTTGGCC-TTTT
128 GATTTTGGCCGTTTT
110468460 TTTATTTT
1 TTTATTTT
110468468 CTAATTTCTT
Statistics
Matches: 910, Mismatches: 72, Indels: 70
0.87 0.07 0.07
Matches are distributed among these distances:
140 62 0.07
141 92 0.10
142 126 0.14
143 76 0.08
144 186 0.20
145 92 0.10
146 55 0.06
147 52 0.06
148 44 0.05
149 17 0.02
150 108 0.12
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (142 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGAT
TTTGGCCGTTTT
Found at i:110468983 original size:7 final size:6
Alignment explanation
Indices: 110468955--110468979 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
110468945 CTTCTCCTGC
110468955 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
110468980 TCTTCCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:110492230 original size:122 final size:121
Alignment explanation
Indices: 110492013--110492238 Score: 287
Period size: 122 Copynumber: 1.9 Consensus size: 121
110492003 AAATTTTTAA
** * *
110492013 AAAATCAACTATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATG
1 AAAATCAACTATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTATG
** ** *
110492078 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
**
110492134 AAAATCAACTCATATTGCGAGAA-TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTT-
1 AAAATCAACT-ATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT-AATTTA
*
110492197 T-TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
64 TGTT--AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
110492239 CGGGGCACGC
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
120 2 0.02
121 40 0.45
122 47 0.53
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (121 bp):
AAAATCAACTATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTATG
TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:110492267 original size:191 final size:191
Alignment explanation
Indices: 110491945--110492454 Score: 850
Period size: 191 Copynumber: 2.7 Consensus size: 191
110491935 CTTTCCAAGG
110491945 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
1 AAAATCAACTCATATTGCGAG-AATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
110492009 TT-AAAAAATCAACT-ATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
65 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
110492072 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
110492134 AAAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTT
1 AAAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTT
110492199 TAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
66 TAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
110492264 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * * * *
110492325 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGA-ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-AT-T
* * * * *
110492389 ATTTTAAAAAAA-CAACTCATATTGCGAGAGGTGAGGTGAGCCTCGGGACACGCTGAGGTAATTT
63 -TTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
110492453 TA
127 TA
110492455 TTTCTATTTT
Statistics
Matches: 304, Mismatches: 10, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
188 39 0.13
189 26 0.09
190 12 0.04
191 152 0.50
192 14 0.05
193 50 0.16
194 11 0.04
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (191 bp):
AAAATCAACTCATATTGCGAGAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTT
TAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:110492613 original size:69 final size:71
Alignment explanation
Indices: 110492307--110492937 Score: 622
Period size: 67 Copynumber: 8.9 Consensus size: 71
110492297 GAGTTAAGCC
**
110492307 TTTTAATTT-TTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
1 TTTTAATTTCTT-TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
110492371 GAGGTAA
65 GAGGTAA
* * *
110492378 TTTTAATTTCTATTTTAAAAAAACAACTCATATTGCGAGAGGTGAGGTGAGCCTCGGGACACGCT
1 TTTTAATTTCTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCT
110492443 GAGGTAA
65 GAGGTAA
* *
110492450 TTTT-ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGATGA-TTGAG-CTCGGACA-GC
1 TTTTAATTTCT-TTTT-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGC
110492511 TGA--TAA
64 TGAGGTAA
* *
110492517 TTTTAATTT-TATTTTTAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGACACGC
1 TTTTAATTTCT-TTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGC
110492581 TGA-GT-A
64 TGAGGTAA
* * *
110492587 TTTTAATTTCTTTTTTAAAAAATCAACTCATATTGCGAGAGAT-A-TTGAGCTTAGGACAC-CTG
1 TTTTAATTTCTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTG
110492649 AGGTAA
66 AGGTAA
* * * **
110492655 -TTTAATTTCTGTTTTCAAAAAATCAACT-ATATTGCGAGA-ATGAGTTGAGCCTCAAGACACAT
1 TTTTAATTTCT-TTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGC
110492717 TGAGGT-A
64 TGAGGTAA
* * * *
110492724 TTTCAATTTCTATTTTCAAAAAT-AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATG
1 TTTTAATTTCTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACG
110492788 CTGAGGTAA
63 CTGAGGTAA
* * * * * * * **
110492797 TTTCAATTGT-GTTGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAG-CTCAAGACATAC
1 TTTTAATT-TCTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGC
*
110492860 TTA-GT-A
64 TGAGGTAA
* * * *
110492866 TTGTCAATTTTTTGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGAC
1 TT-TTAA-TTTCT-T-T-TTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC
110492931 ACGCTGA
60 ACGCTGA
110492938 ATGAGTTGAG
Statistics
Matches: 477, Mismatches: 48, Indels: 66
0.81 0.08 0.11
Matches are distributed among these distances:
66 6 0.01
67 79 0.17
68 38 0.08
69 70 0.15
70 60 0.13
71 68 0.14
72 38 0.08
73 48 0.10
74 59 0.12
75 11 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (71 bp):
TTTTAATTTCTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTG
AGGTAA
Found at i:110493578 original size:35 final size:35
Alignment explanation
Indices: 110493539--110493607 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
110493529 ACTTGCCTCT
110493539 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
110493574 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
110493608 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:110494797 original size:22 final size:23
Alignment explanation
Indices: 110494769--110494823 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
110494759 AATTTTTTTA
110494769 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
110494791 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
110494815 -TA-ATATTAT
1 ATATATATTAT
110494824 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:110496231 original size:14 final size:15
Alignment explanation
Indices: 110496208--110496247 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
110496198 ACAGAAAAGT
*
110496208 AAAA-CATTTTCCA-
1 AAAATCATTTTACAG
110496221 AAAATCATTTTACAG
1 AAAATCATTTTACAG
110496236 AAAAT-ATTTTAC
1 AAAATCATTTTAC
110496248 CGACAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 15 0.62
15 5 0.21
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (15 bp):
AAAATCATTTTACAG
Found at i:110496231 original size:34 final size:35
Alignment explanation
Indices: 110496172--110496239 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
110496162 TCAAACACCA
* *
110496172 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
1 TAAAACATTTTCCAGAAAATCATTTTACAGAAAAG
110496207 TAAAACATTTTCCA-AAAATCATTTTACAGAAAA
1 TAAAACATTTTCCAGAAAATCATTTTACAGAAAA
110496240 TATTTTACCG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (35 bp):
TAAAACATTTTCCAGAAAATCATTTTACAGAAAAG
Found at i:110497060 original size:18 final size:19
Alignment explanation
Indices: 110497037--110497074 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
110497027 ATTTTCTCTA
110497037 TTTTTAATAATTT-TTTAT
1 TTTTTAATAATTTATTTAT
*
110497055 TTTTTAATGATTTATTTAT
1 TTTTTAATAATTTATTTAT
110497074 T
1 T
110497075 AAACTGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTTTAATAATTTATTTAT
Found at i:110497470 original size:51 final size:51
Alignment explanation
Indices: 110497401--110497541 Score: 142
Period size: 51 Copynumber: 2.8 Consensus size: 51
110497391 TTGTGTAAAT
* * **
110497401 ATTGAC-AGAATGTGTAAATTTTGCAAGTTAAATTTGTTAAATCAGGACCAA
1 ATTGACAAG-ATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
* ** * *
110497452 ATTGACAAGATGTATAAATATTGTGAGCTAAATTTGTTCAATTAAAACCAA
1 ATTGACAAGATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
* * *
110497503 ATTGACAAAATGTATAAACTTTG-AGGGCTAAATTTGTTA
1 ATTGACAAGATGTATAAATTTTGCA-AGCTAAATTTGTTA
110497542 TTATATAAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
51 71 0.97
52 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (51 bp):
ATTGACAAGATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
Found at i:110509163 original size:12 final size:12
Alignment explanation
Indices: 110509142--110509181 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
110509132 TTAATACATG
110509142 ATAT-AAAAATA
1 ATATAAAAAATA
110509153 ATATAAAAAATA
1 ATATAAAAAATA
*
110509165 ATATGAAAAATA
1 ATATAAAAAATA
110509177 ATATA
1 ATATA
110509182 TTTTAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (12 bp):
ATATAAAAAATA
Found at i:110509206 original size:18 final size:16
Alignment explanation
Indices: 110509174--110509219 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
110509164 AATATGAAAA
110509174 ATAATATATTTTAATT
1 ATAATATATTTTAATT
*
110509190 ATAATATA-TTTAATA
1 ATAATATATTTTAATT
*
110509205 ATAAT-TATGTTAATT
1 ATAATATATTTTAATT
110509220 TATATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 2 0.08
15 16 0.62
16 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATAATATATTTTAATT
Found at i:110509323 original size:15 final size:15
Alignment explanation
Indices: 110509288--110509339 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
110509278 TTAAGAATTT
*
110509288 TATTAAATTAT-ATA
1 TATTTAATTATAATA
110509302 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
110509316 TATTTAATAATAAT-
1 TATTTAATTATAATA
110509330 TATGTTAATT
1 TAT-TTAATT
110509340 TATATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:110509403 original size:16 final size:16
Alignment explanation
Indices: 110509382--110509415 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
110509372 TAAATTCATA
*
110509382 TAAGAATATTATTTAT
1 TAAGAATATTATTAAT
*
110509398 TAAGAATTTTATTAAT
1 TAAGAATATTATTAAT
110509414 TA
1 TA
110509416 TATATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
TAAGAATATTATTAAT
Found at i:110509420 original size:120 final size:120
Alignment explanation
Indices: 110509172--110509573 Score: 745
Period size: 119 Copynumber: 3.4 Consensus size: 120
110509162 ATAATATGAA
*
110509172 AAATAATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
* * *
110509237 TATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
110509292 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATA-TTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
110509356 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
110509411 -AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
*
110509475 TATATTATGATTTCAGTAAATTCATATAAGAAAATTATTTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
110509530 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
110509574 TAAATATGAT
Statistics
Matches: 275, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
118 51 0.19
119 130 0.47
120 94 0.34
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
Found at i:110509441 original size:15 final size:15
Alignment explanation
Indices: 110509409--110509457 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
110509399 AAGAATTTTA
110509409 TTAATTAT-ATAT-T
1 TTAATTATAATATAT
110509422 TTAATTATAATATAT
1 TTAATTATAATATAT
*
110509437 TTAATAATAAT-TAT
1 TTAATTATAATATAT
110509451 GTTAATT
1 -TTAATT
110509458 TATATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.26
14 7 0.23
15 16 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TTAATTATAATATAT
Found at i:110509556 original size:16 final size:16
Alignment explanation
Indices: 110509535--110509576 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
110509525 TTATTAAATT
*
110509535 ATATATTTTAATTATA
1 ATATATTTTAATAATA
110509551 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
110509566 AT-TATGTTTAA
1 ATATAT-TTTAA
110509577 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:110509561 original size:15 final size:15
Alignment explanation
Indices: 110509526--110509567 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
110509516 TTAAGAATTT
*
110509526 TATTAAATTAT-ATA
1 TATTTAATTATAATA
110509540 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
110509554 TATTTAATAATAAT
1 TATTTAATTATAAT
110509568 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:110509835 original size:16 final size:16
Alignment explanation
Indices: 110509803--110509852 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
110509793 ACATCTCTAA
*
110509803 TCCATTAC-ACTTCTAT
1 TCCATTACGCCTT-TAT
110509819 TCCATTACGCCTTTAT
1 TCCATTACGCCTTTAT
*
110509835 TCCATTACGCCTCTAT
1 TCCATTACGCCTTTAT
110509851 TC
1 TC
110509853 TAATACAGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 28 0.90
17 3 0.10
ACGTcount: A:0.20, C:0.34, G:0.04, T:0.42
Consensus pattern (16 bp):
TCCATTACGCCTTTAT
Found at i:110510053 original size:37 final size:40
Alignment explanation
Indices: 110509984--110510063 Score: 103
Period size: 37 Copynumber: 2.1 Consensus size: 40
110509974 ATTTTAAATT
*
110509984 AATAATGATAAAATTATATTTTAATCTCTTAAAAATAATA
1 AATAATAATAAAATTATATTTTAATCTCTTAAAAATAATA
* * *
110510024 AATAATAAT-AAATTA-A-TTTAATTTTTTAAAAATTATA
1 AATAATAATAAAATTATATTTTAATCTCTTAAAAATAATA
110510061 AAT
1 AAT
110510064 GTATAGACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 21 0.58
38 1 0.03
39 6 0.17
40 8 0.22
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (40 bp):
AATAATAATAAAATTATATTTTAATCTCTTAAAAATAATA
Found at i:110515019 original size:21 final size:21
Alignment explanation
Indices: 110514993--110515033 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110514983 ATCTGCTCAA
* *
110514993 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
110515014 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
110515034 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:110523412 original size:17 final size:17
Alignment explanation
Indices: 110523363--110523401 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
110523353 TCTAGTTCAG
* * *
110523363 GAAAAAAAAAGAAAAAA
1 GAAAAAAGAAGAAGAGA
110523380 GAAAAAAGAAGAAGAGA
1 GAAAAAAGAAGAAGAGA
110523397 GAAAA
1 GAAAA
110523402 TAGAGAGAGA
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:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAGAAGAGA
Found at i:110550350 original size:10 final size:11
Alignment explanation
Indices: 110550335--110550372 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
110550325 TTAATACATG
110550335 ATATAAAAAT-
1 ATATAAAAATA
110550345 ATATAAAAAATA
1 ATAT-AAAAATA
*
110550357 ATATGAAAATA
1 ATATAAAAATA
110550368 ATATA
1 ATATA
110550373 TTTAATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 4 0.17
11 16 0.67
12 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:110550385 original size:15 final size:15
Alignment explanation
Indices: 110550365--110550517 Score: 74
Period size: 15 Copynumber: 10.5 Consensus size: 15
110550355 TAATATGAAA
110550365 ATAATATATTTAATT
1 ATAATATATTTAATT
*
110550380 ATAATATATTTAATA
1 ATAATATATTTAATT
110550395 ATAAT-TA-TTAATT
1 ATAATATATTTAATT
*
110550408 -T-ATAT-TTTATAGT
1 ATAATATATTTA-ATT
* *
110550421 ATCATATATTATTATT
1 ATAATATATT-TAATT
* * *
110550437 -TGAGTA-AATTCA-T
1 AT-AATATATTTAATT
*
110550450 ATAAGA-ATATTAATT
1 ATAATATAT-TTAATT
* *
110550465 ATAAGA-ATTTTATT
1 ATAATATATTTAATT
*
110550479 AATTATATATTTTAATT
1 -ATAATATA-TTTAATT
*
110550496 ATAATATATTTAATA
1 ATAATATATTTAATT
110550511 ATAATAT
1 ATAATAT
110550518 GTTAATTTAT
Statistics
Matches: 105, Mismatches: 19, Indels: 28
0.69 0.12 0.18
Matches are distributed among these distances:
11 2 0.02
12 5 0.05
13 11 0.10
14 14 0.13
15 52 0.50
16 14 0.13
17 7 0.07
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (15 bp):
ATAATATATTTAATT
Found at i:110550614 original size:37 final size:36
Alignment explanation
Indices: 110550573--110550729 Score: 102
Period size: 37 Copynumber: 4.1 Consensus size: 36
110550563 ATATAAGAAT
110550573 ATTATTTATTAAGAATTTTATTAAATTATATATTTTA
1 ATTATTTATTAAG-ATTTTATTAAATTATATATTTTA
* * *
110550610 ATTATAATATATTAATAATAATTATGTTAATT-TATATTTTA
1 ATTAT--T-TATTAA-GAT-TTTAT-TAAATTATATATTTTA
* * * * * ****
110550651 GTATCATATATTATGATTTCAGTAAATTCATATAAGAAA
1 --ATTATTTATTAAGATTTTATTAAATT-ATATATTTTA
110550690 ATTATTTATTAAGATTTTATTAAATTATATA-TTTA
1 ATTATTTATTAAGATTTTATTAAATTATATATTTTA
110550725 ATTAT
1 ATTAT
110550730 ATATATTTAA
Statistics
Matches: 87, Mismatches: 23, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
35 6 0.07
36 5 0.06
37 31 0.36
38 2 0.02
39 8 0.09
40 13 0.15
41 13 0.15
42 5 0.06
43 4 0.05
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (36 bp):
ATTATTTATTAAGATTTTATTAAATTATATATTTTA
Found at i:110550637 original size:117 final size:118
Alignment explanation
Indices: 110550363--110550755 Score: 644
Period size: 116 Copynumber: 3.4 Consensus size: 118
110550353 AATAATATGA
*
110550363 AAATAATATATTTAATTATAATATATTTAATAATAATTA--TTAATTTATATTTTATAGTATCAT
1 AAATTATATATTTAATTATAATATATTTAATAATAATTATGTTAATTTATA-TTTATAGTATCAT
* * *
110550426 ATATTATTATTTGAGTAAATTCATATAAGAATATTAATTA-TAAGAATTTTATT
65 ATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
110550479 -AATTATATATTTTAATTATAATATATTTAATAATAA-TATGTTAATTTATATTTATAGTATCAT
1 AAATTATATA-TTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTATAGTATCAT
110550542 ATATTATGATTTCA-TAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
65 ATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
110550595 AAATTATATATTTTAATTATAATATA-TTAATAATAATTATGTTAATTTATATTT-TAGTATCAT
1 AAATTATATA-TTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTATAGTATCAT
*
110550658 ATATTATGATTTCAGTAAATTCATATAAGAAAATTATTTATTAAG-ATTTTATT
65 ATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
110550711 AAATTATATATTTAATTAT-ATATATTTAATAATAATTATGTTAAT
1 AAATTATATATTTAATTATAATATATTTAATAATAATTATGTTAAT
110550756 ATGATTAAAT
Statistics
Matches: 264, Mismatches: 5, Indels: 17
0.92 0.02 0.06
Matches are distributed among these distances:
114 5 0.02
115 63 0.24
116 115 0.44
117 81 0.31
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (118 bp):
AAATTATATATTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTATAGTATCATA
TATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
Found at i:110550727 original size:12 final size:12
Alignment explanation
Indices: 110550688--110550733 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
110550678 TCATATAAGA
*
110550688 AAATTATTTATT
1 AAATTATATATT
110550700 AAGATT-T-TATT
1 AA-ATTATATATT
110550711 AAATTATATATT
1 AAATTATATATT
*
110550723 TAATTATATAT
1 AAATTATATAT
110550734 ATTTAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
12 17 0.57
13 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
AAATTATATATT
Found at i:110551010 original size:15 final size:16
Alignment explanation
Indices: 110550971--110551025 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
110550961 GCTATTACAT
* *
110550971 CTCTAATCCATTACAC
1 CTCTATTCCATTACGC
*
110550987 TTCTATTCCA-TACGC
1 CTCTATTCCATTACGC
*
110551002 CTTTATTCCATTACGC
1 CTCTATTCCATTACGC
110551018 CTCTATTC
1 CTCTATTC
110551026 TAATACAGCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 12 0.38
16 20 0.62
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.40
Consensus pattern (16 bp):
CTCTATTCCATTACGC
Found at i:110551196 original size:36 final size:35
Alignment explanation
Indices: 110551155--110551232 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
110551145 AATTTTAAAT
*
110551155 TAATAATGATAA-AATTATATTTTAATCTCTTAAAAA
1 TAATAATAATAATAATTA-A-TTTAATCTCTTAAAAA
* *
110551191 TAATAAATAATAATAATTAATTTAATTTTTTAAAAA
1 TAAT-AATAATAATAATTAATTTAATCTCTTAAAAA
*
110551227 TTATAA
1 TAATAA
110551233 ATGTATAGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 2 0.06
36 21 0.58
37 8 0.22
38 5 0.14
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (35 bp):
TAATAATAATAATAATTAATTTAATCTCTTAAAAA
Found at i:110556130 original size:21 final size:21
Alignment explanation
Indices: 110556104--110556144 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110556094 ATCTGCTCAA
* *
110556104 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
110556125 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
110556145 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:110564536 original size:17 final size:17
Alignment explanation
Indices: 110564488--110564525 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
110564478 TCTAGTTCAG
* *
110564488 GAAAAAA-AAGAAAAAA
1 GAAAAAAGAAGAAGAGA
110564504 GAAAAAAGAAGAAGAGA
1 GAAAAAAGAAGAAGAGA
110564521 GAAAA
1 GAAAA
110564526 TAGAGAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAGAAGAGA
Found at i:110582437 original size:14 final size:15
Alignment explanation
Indices: 110582418--110582447 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
110582408 TATATATATG
110582418 AATAATAAT-AATAA
1 AATAATAATAAATAA
110582432 AATAATAATAAATAA
1 AATAATAATAAATAA
110582447 A
1 A
110582448 TAAATGAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:110583420 original size:20 final size:20
Alignment explanation
Indices: 110583384--110583423 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
110583374 TCCTATTGTT
110583384 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
110583404 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
110583424 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:110584072 original size:44 final size:44
Alignment explanation
Indices: 110583991--110584074 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
110583981 AGGATAGTGT
* * *
110583991 CTTCGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTGG
1 CTTCAATCTGCTCCACTGTAATCTCGGGGAGACAAGATCTCTGG
110584035 CTTCAATCTGCTCCACTGTAA-CTTCAGGGG-GACAAGATCT
1 CTTCAATCTGCTCCACTGTAATC-TC-GGGGAGACAAGATCT
110584075 GTAATTTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 1 0.03
44 30 0.86
45 4 0.11
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGTAATCTCGGGGAGACAAGATCTCTGG
Found at i:110584413 original size:44 final size:44
Alignment explanation
Indices: 110584365--110584591 Score: 176
Period size: 44 Copynumber: 5.2 Consensus size: 44
110584355 TAATGTAGGA
*
110584365 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCGATCACAACCGAAAG
* * * * * * ** *
110584409 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAA-
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TCGATCACAA--CCGAAAG
110584454 A-GCAAGATCTTTTGTCTTCAACCAGCTCGATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCGATCACAACCGAAAG
* * * * * * ** * * *
110584497 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGG
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TCGATCACAACCGAAAG
*
110584540 AAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAAAG
1 -AGGCAAGATCTTTTGTCTTCAACCAGCTCGATCACAACCGAAAG
110584585 AGGCAAG
1 AGGCAAG
110584592 GTTTATGTCT
Statistics
Matches: 131, Mismatches: 42, Indels: 20
0.68 0.22 0.10
Matches are distributed among these distances:
42 5 0.04
43 30 0.23
44 61 0.47
45 30 0.23
46 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (44 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCGATCACAACCGAAAG
Found at i:110584459 original size:88 final size:88
Alignment explanation
Indices: 110584212--110584639 Score: 546
Period size: 88 Copynumber: 4.9 Consensus size: 88
110584202 TGTAACCTTT
* ** * *
110584212 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTCGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
** *
110584274 CAGGAAGGCAAGATCTGCT-TCTTT
64 CAGGAAGGCAAGATCTTTTGTCTTC
* * * ** * *
110584298 AACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATG
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
*
110584360 TAGGAAGGCAAGATCTTTTGTCTTC
64 CAGGAAGGCAAGATCTTTTGTCTTC
*
110584385 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
* *
110584450 GAAAAGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* *
110584473 AACCAGCTCGATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
110584538 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* * * *
110584561 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
110584626 GGAAGGCAAGATCT
66 GGAAGGCAAGATCT
110584640 GTAACTTCAT
Statistics
Matches: 307, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
85 1 0.00
86 76 0.25
87 28 0.09
88 202 0.66
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GGAAGGCAAGATCTTTTGTCTTC
Found at i:110584633 original size:44 final size:44
Alignment explanation
Indices: 110584497--110584635 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
110584487 CAACCGAAAG
* * * * *
110584497 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGAAGGA
* * * * * * *
110584541 AGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCA-CAACCGAAAG-
1 AGGCAAGGT-TTATGTCTTCGACCTGCTTCACT-ATCAA-TGAAGGA
*
110584585 AGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGCAGGA
1 AGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGAAGGA
110584629 AGGCAAG
1 AGGCAAG
110584636 ATCTGTAACT
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 21 0.30
44 31 0.44
45 18 0.26
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (44 bp):
AGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGAAGGA
Found at i:110589017 original size:19 final size:20
Alignment explanation
Indices: 110588988--110589036 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
110588978 CACTTCGTGA
* *
110588988 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
110589007 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
110589027 AAATG-AATGC
1 AAATGTAATGC
110589037 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:110602883 original size:19 final size:20
Alignment explanation
Indices: 110602854--110602902 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
110602844 CACTTCGTGA
* *
110602854 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
110602873 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
110602893 AAATG-AATGC
1 AAATGTAATGC
110602903 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:110605153 original size:14 final size:15
Alignment explanation
Indices: 110605134--110605163 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
110605124 TATATATATG
110605134 AATAATAAT-AATAA
1 AATAATAATAAATAA
110605148 AATAATAATAAATAA
1 AATAATAATAAATAA
110605163 A
1 A
110605164 TAAATGAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:110606138 original size:20 final size:20
Alignment explanation
Indices: 110606102--110606141 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
110606092 TCCTATTGTT
110606102 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
110606122 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
110606142 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:110612545 original size:22 final size:20
Alignment explanation
Indices: 110612520--110612559 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
110612510 TTAAAAAATT
*
110612520 GTTAAGATACATATATATATAA
1 GTTAA-ATAAATA-ATATATAA
110612542 GTTAAATAAATAATATAT
1 GTTAAATAAATAATATAT
110612560 TAAATTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (20 bp):
GTTAAATAAATAATATATAA
Found at i:110614949 original size:42 final size:42
Alignment explanation
Indices: 110614903--110615064 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
110614893 GCACATGAGT
* * *
110614903 GCTAAAC-AGAAACCCGTAAGGGTTGAATGGAAGCTC-ATAAGA
1 GCTAAACGA-AAACCCATAAGGGTTAAATAGAAGCTCAAT-AGA
* * *
110614945 GCTAAACGAAAACCCATAAGGGTTAAACAAAAGTTCAATAGA
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
*
110614987 GCTGAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
* * * * * *
110615029 GCTAAACGGAAACTCATATGAGTTAAACAAAAGCTC
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTC
110615065 GTGAGAGATA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 98 0.97
43 3 0.03
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
Found at i:110614962 original size:21 final size:21
Alignment explanation
Indices: 110614938--110615006 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
110614928 AATGGAAGCT
110614938 CATAAGAGCTAAACGAAAACC
1 CATAAGAGCTAAACGAAAACC
* * **
110614959 CATAAGGGTTAAAC-AAAAGTT
1 CATAAGAGCTAAACGAAAA-CC
*
110614980 CA-ATAGAGCTGAACGAAAACC
1 CATA-AGAGCTAAACGAAAACC
110615001 CATAAG
1 CATAAG
110615007 GGTTAAATAG
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.14
Consensus pattern (21 bp):
CATAAGAGCTAAACGAAAACC
Found at i:110620238 original size:18 final size:19
Alignment explanation
Indices: 110620201--110620239 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
110620191 TAATTTATTT
110620201 AAAAAAAATCAGACATTGA
1 AAAAAAAATCAGACATTGA
110620220 AAAATAAAATCA-ACA-TGA
1 AAAA-AAAATCAGACATTGA
110620238 AA
1 AA
110620240 TTTTATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (19 bp):
AAAAAAAATCAGACATTGA
Found at i:110620474 original size:18 final size:19
Alignment explanation
Indices: 110620441--110620516 Score: 75
Period size: 20 Copynumber: 4.0 Consensus size: 19
110620431 AAAATTATTT
**
110620441 TTTTAGAAAATTTTTAAAA
1 TTTTAGAATTTTTTTAAAA
*
110620460 TTTTA-AATTTTTTT-ATA
1 TTTTAGAATTTTTTTAAAA
*
110620477 TGTTTAGAATTTTTTAAAAA
1 T-TTTAGAATTTTTTTAAAA
*
110620497 TTTTTATAATTTTTTTAAAA
1 -TTTTAGAATTTTTTTAAAA
110620517 ATATAAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
17 3 0.07
18 11 0.24
19 13 0.28
20 18 0.39
21 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTAGAATTTTTTTAAAA
Found at i:110620554 original size:19 final size:20
Alignment explanation
Indices: 110620483--110620577 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
110620473 TATATGTTTA
110620483 GAATTTTTTAAAAATT-TTTAT
1 GAATTTTTT-AAAATTATTT-T
110620504 -AATTTTTTTAAAAATATAAATTTT
1 GAA-TTTTTT-AAAAT-T--ATTTT
110620528 GTAA-TTTTTATAAA-TATTTT
1 G-AATTTTTTA-AAATTATTTT
110620548 GAATTTTTTAAAATTATTTT
1 GAATTTTTTAAAATTATTTT
110620568 GAATTATTTT
1 GAATT-TTTT
110620578 GTAATTTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 22
0.74 0.00 0.26
Matches are distributed among these distances:
19 5 0.08
20 25 0.40
21 16 0.25
22 2 0.03
23 1 0.02
24 9 0.14
25 3 0.05
26 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
GAATTTTTTAAAATTATTTT
Found at i:110620572 original size:10 final size:10
Alignment explanation
Indices: 110620542--110620583 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
110620532 TTTTTATAAA
110620542 TATTTTGAAT
1 TATTTTGAAT
*
110620552 T-TTTTAAAAT
1 TATTTT-GAAT
110620562 TATTTTGAAT
1 TATTTTGAAT
110620572 TATTTTGTAAT
1 TATTTTG-AAT
110620583 T
1 T
110620584 TTTGTTGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 4 0.15
10 15 0.56
11 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (10 bp):
TATTTTGAAT
Found at i:110621633 original size:21 final size:21
Alignment explanation
Indices: 110621612--110621691 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
110621602 CTTTCTATTT
* *
110621612 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTACGAGCTTCTGTTC
* * *
110621633 AACTCATACGAGTTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
110621654 AGCTCTCACGAGCTTCTATTC
1 AGCTCTTACGAGCTTCTGTTC
110621675 AGCT-TT-CGAGCTTCTGT
1 AGCTCTTACGAGCTTCTGT
110621692 GAACGATGCA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 10 0.21
20 1 0.02
21 36 0.77
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:110622189 original size:20 final size:22
Alignment explanation
Indices: 110622160--110622200 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
110622150 GGTTGAATGA
*
110622160 TATGCTTAT-GAATG-GTGTGT
1 TATGCATATGGAATGAGTGTGT
110622180 TATGCATATGGAATGAGTGTG
1 TATGCATATGGAATGAGTGTG
110622201 GAAAGTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.39
Consensus pattern (22 bp):
TATGCATATGGAATGAGTGTGT
Found at i:110624427 original size:19 final size:18
Alignment explanation
Indices: 110624405--110624440 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
110624395 ATTTCAACTT
*
110624405 TTTTTATATGTTTAAAATC
1 TTTTTAAAT-TTTAAAATC
110624424 TTTTTAAATTTTAAAAT
1 TTTTTAAATTTTAAAAT
110624441 ATAAAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTTAAATTTTAAAATC
Found at i:110624474 original size:19 final size:20
Alignment explanation
Indices: 110624447--110624494 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
110624437 AAATATAAAA
110624447 TTTGAAATTTTT-ATAAA-TAT
1 TTTG-AATTTTTGA-AAATTAT
110624467 TTTGAATTTTTGAAAATTAT
1 TTTGAATTTTTGAAAATTAT
110624487 TTTGAATT
1 TTTGAATT
110624495 CTTTTTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTGAATTTTTGAAAATTAT
Found at i:110625826 original size:3 final size:3
Alignment explanation
Indices: 110625818--110625844 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
110625808 AAGCATAAAC
110625818 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
110625845 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:110627699 original size:44 final size:41
Alignment explanation
Indices: 110627605--110627701 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 41
110627595 AGGGACAGAT
* * *
110627605 CTGCTTTCTTCGATCTACTTCGCCCATATGGAAGACAAGAT
1 CTGCTATCTTCGATCCACTTCGCCCATATGGAAGACAAGAC
* *
110627646 CTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGAC
1 CTGCTATCTTCGATCCACTTCGC--CC-ATAT-GGAAGACAAGAC
110627689 CTGCTATCTTCGA
1 CTGCTATCTTCGA
110627702 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
39 1 0.02
40 14 0.30
41 6 0.13
42 4 0.09
43 13 0.28
44 8 0.17
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (41 bp):
CTGCTATCTTCGATCCACTTCGCCCATATGGAAGACAAGAC
Found at i:110639879 original size:17 final size:18
Alignment explanation
Indices: 110639841--110639879 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
110639831 AATGTGTTCT
*
110639841 AAATTACATAATATATAA
1 AAATAACATAATATATAA
110639859 AAATAACATAATATA-AA
1 AAATAACATAATATATAA
110639876 AAAT
1 AAAT
110639880 TATAAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:110646913 original size:47 final size:47
Alignment explanation
Indices: 110646854--110647010 Score: 233
Period size: 47 Copynumber: 3.3 Consensus size: 47
110646844 TCGGGACTTT
* * * *
110646854 TCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTT
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
110646901 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
* * *
110646948 TCTCATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
* *
110646995 TCTCATATATATACTT
1 TCACATATATACACTT
110647011 GTACATCAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 102 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
Found at i:110651514 original size:27 final size:27
Alignment explanation
Indices: 110651484--110651535 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
110651474 GGATAGGTAT
*
110651484 ATAATATAATATGAAA-AATATATGCAC
1 ATAAGATAATAT-AAAGAATATATGCAC
*
110651511 ATAAGATAATGTAAAGAATATATGC
1 ATAAGATAATATAAAGAATATATGC
110651536 GTAACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.29
Consensus pattern (27 bp):
ATAAGATAATATAAAGAATATATGCAC
Found at i:110651923 original size:3 final size:3
Alignment explanation
Indices: 110651909--110651959 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
110651899 AAACATAAAC
* *
110651909 TAA TACA TAA TAA TAT TAA TAA TAA TAA -AA TTAA TAA T-A TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
110651954 TAA TAA
1 TAA TAA
110651960 GAGTATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:110651941 original size:15 final size:15
Alignment explanation
Indices: 110651909--110651959 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
110651899 AAACATAAAC
*
110651909 TAATACATAATAATAT
1 TAATA-ATAATAAAAT
110651925 TAATAATAATAAAAT
1 TAATAATAATAAAAT
*
110651940 TAATAAT-ATAAAAA
1 TAATAATAATAAAAT
110651954 TAATAA
1 TAATAA
110651960 GAGTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.36
15 16 0.48
16 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAATAATAAAAT
Found at i:110659873 original size:30 final size:30
Alignment explanation
Indices: 110659839--110659899 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
110659829 ACGTGGGCTA
110659839 GAATAAAATAAAAAATAAATTATAAATTAT
1 GAATAAAATAAAAAATAAATTATAAATTAT
110659869 GAATAAAATAAAAAATAAATTATAAATTAT
1 GAATAAAATAAAAAATAAATTATAAATTAT
110659899 G
1 G
110659900 TATTGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (30 bp):
GAATAAAATAAAAAATAAATTATAAATTAT
Found at i:110668008 original size:26 final size:26
Alignment explanation
Indices: 110667972--110668081 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
110667962 CATGAAATTC
110667972 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
*
110667998 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
*
110668024 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAAACCA
*
110668050 TTATCATGGAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
110668076 TTATCA
1 TTATCA
110668082 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 3 0.04
26 76 0.96
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:110677929 original size:12 final size:12
Alignment explanation
Indices: 110677912--110677942 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
110677902 CTAAGGCCTT
110677912 CCTGACATGACA
1 CCTGACATGACA
110677924 CCTGACATGACA
1 CCTGACATGACA
*
110677936 CATGACA
1 CCTGACA
110677943 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (12 bp):
CCTGACATGACA
Found at i:110678043 original size:30 final size:31
Alignment explanation
Indices: 110678009--110678066 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
110677999 GTTTATGGTT
*
110678009 AAATTTCAG-TTTAATCCTTATATTTTATTC
1 AAATTTCAGATTTAATCCTTATACTTTATTC
* *
110678039 AAATTTGAGATTTAATCTTTATACTTTA
1 AAATTTCAGATTTAATCCTTATACTTTA
110678067 CTTTTAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (31 bp):
AAATTTCAGATTTAATCCTTATACTTTATTC
Found at i:110682152 original size:14 final size:15
Alignment explanation
Indices: 110682133--110682162 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110682123 TTGGCTCTCC
110682133 ACTTA-TTAATTACA
1 ACTTATTTAATTACA
110682147 ACTTATTTAATTACA
1 ACTTATTTAATTACA
110682162 A
1 A
110682163 AGTCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ACTTATTTAATTACA
Found at i:110685017 original size:35 final size:35
Alignment explanation
Indices: 110684971--110685043 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
110684961 TATACTAGGT
110684971 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
1 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
110685006 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
1 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
110685041 CAT
1 CAT
110685044 GTATTGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (35 bp):
CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
Found at i:110692730 original size:81 final size:81
Alignment explanation
Indices: 110692606--110693139 Score: 590
Period size: 81 Copynumber: 6.6 Consensus size: 81
110692596 TGTCATCATA
* * * * *
110692606 AAGAAAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACTTAGTGG
1 AAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTGG
* **
110692671 TTTTAATGTCATTGTG
66 TTTAAACATCATTGTG
* * * ** * *
110692687 AAGAGAGAAGCTCCGAGAGGTCCAAATTCTCTTCATATTTCTAATCTTCCGTTGGCACCTAGTGG
1 AAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTGG
110692752 TTTAAACATCATTGTG
66 TTTAAACATCATTGTG
* * * * * *
110692768 AAGAGATAAACT-CTAGGAGGACTAAATCCTCTTCATAACTCTAATCCTCTGCTGGCACATGGTG
1 AAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTG
* *
110692832 GTTTTAATATCATTGTG
65 GTTTAAACATCATTGTG
* * * * *
110692849 AAGAGAGAAACCCCGGGA-GATCCAAATCCTCTTCATAATTCTAATCCTCTGTTGGCACCTAGTG
1 AAGAGAGAAACTCCGAGAGGA-CCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTG
**
110692913 GTTTAAACATCATCATG
65 GTTTAAACATCATTGTG
* * ** * * * *
110692930 AAGAGAGAAACT-CTAGGAGGATCAAATCCAATTCGTAATTCTAATCCTCTGCTAGCACCTAGTG
1 AAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTG
* **
110692994 GTTTTAATGTCATTGTG
65 GTTTAAACATCATTGTG
* * *
110693011 AAGAGAGAAACTCCGGGAGGACCAAATCCTATTCATAACTCTAATCCTCCGTTGGCACCTAGTGG
1 AAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTGG
110693076 TTTAAACATCATTGTG
66 TTTAAACATCATTGTG
* *
110693092 AAAAGAGAAACTCCG-GAAGGACCAAATCCTCTTCACAACTCTAATCCT
1 AAGAGAGAAACTCCGAG-AGGACCAAATCCTCTTCATAACTCTAATCCT
110693140 TTGCTAGCTC
Statistics
Matches: 374, Mismatches: 72, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
80 6 0.02
81 364 0.97
82 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (81 bp):
AAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTGG
TTTAAACATCATTGTG
Found at i:110692893 original size:162 final size:162
Alignment explanation
Indices: 110692606--110693147 Score: 755
Period size: 162 Copynumber: 3.3 Consensus size: 162
110692596 TGTCATCATA
* ** ** *
110692606 AAGAAAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACTTAGTGG
1 AAGAGAGAAACTCTAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCACATAGTGG
* * * * * *
110692671 TTTTAATGTCATTGTGAAGAGAGAAGCTCCGAGAGGTCCAAATTCTCTTCATATTTCTAATCTTC
66 TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGATCCAAATCCTCTTCATAATTCTAATCCTC
110692736 CGTTGGCACCTAGTGGTTTAAACATCATTGTG
131 CGTTGGCACCTAGTGGTTTAAACATCATTGTG
* * * *
110692768 AAGAGATAAACTCTAGGAGGACTAAATCCTCTTCATAACTCTAATCCTCTGCTGGCACATGGTGG
1 AAGAGAGAAACTCTAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCACATAGTGG
* *
110692833 TTTTAATATCATTGTGAAGAGAGAAACCCCGGGAGATCCAAATCCTCTTCATAATTCTAATCCTC
66 TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGATCCAAATCCTCTTCATAATTCTAATCCTC
* **
110692898 TGTTGGCACCTAGTGGTTTAAACATCATCATG
131 CGTTGGCACCTAGTGGTTTAAACATCATTGTG
* ** * * *
110692930 AAGAGAGAAACTCTAGGAGGATCAAATCCAATTCGTAATTCTAATCCTCTGCTAGCACCTAGTGG
1 AAGAGAGAAACTCTAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCACATAGTGG
* *
110692995 TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGA-CCAAATCCTATTCATAACTCTAATCCT
66 TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGA-GATCCAAATCCTCTTCATAATTCTAATCCT
110693059 CCGTTGGCACCTAGTGGTTTAAACATCATTGTG
130 CCGTTGGCACCTAGTGGTTTAAACATCATTGTG
* * * *
110693092 AAAAGAGAAACTC-CGGAAGGACCAAATCCTCTTCACAACTCTAATCCTTTGCTAGC
1 AAGAGAGAAACTCTAGG-AGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGC
110693148 TCTGGGCATA
Statistics
Matches: 331, Mismatches: 47, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
161 2 0.01
162 327 0.99
163 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (162 bp):
AAGAGAGAAACTCTAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCACATAGTGG
TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGATCCAAATCCTCTTCATAATTCTAATCCTC
CGTTGGCACCTAGTGGTTTAAACATCATTGTG
Found at i:110693048 original size:243 final size:243
Alignment explanation
Indices: 110692606--110693139 Score: 651
Period size: 243 Copynumber: 2.2 Consensus size: 243
110692596 TGTCATCATA
* *
110692606 AAGAAAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACTTAGTGG
1 AAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACCTAGTGG
* ** ** * * * ** * *
110692671 TTTTAATGTCATTGTGAAGAGAGAAGCTCCGAGAGGTCCAAATTCTCTTCATATTTCTAATCTTC
66 TTTAAACATCATCATGAAGAGAGAAACTCAGAGAGGTCCAAATCCAATTCATAATTCTAATCCTC
* * * * * *
110692736 CGTTGGCACCTAGTGGTTTAAACATCATTGTGAAGAGATAAACTCTAGGAGGACTAAATCCTCTT
131 CGCTAGCACCTAGTGGTTTAAACATCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATT
* * * *
110692801 CATAACTCTAATCCTCTGCTGGCACATGGTGGTTTTAATATCATTGTG
196 CATAACTCTAATCCTCCGCTGGCACATAGTGGTTTAAACATCATTGTG
* * *** *
110692849 AAGAGAGAAACCCCGGGA-GATCCAAATCCTCTTCATAATTCTAATCCTCTGTTGGCACCTAGTG
1 AAGAGAGAAACTCCGGGAGGA-CCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACCTAGTG
*
110692913 GTTTAAACATCATCATGAAGAGAGAAACTCTAG-GAGGAT-CAAATCCAATTCGTAATTCTAATC
65 GTTTAAACATCATCATGAAGAGAGAAACTC-AGAGAGG-TCCAAATCCAATTCATAATTCTAATC
* * ** *
110692976 CTCTGCTAGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCT
128 CTCCGCTAGCACCTAGTGGTTTAAACATCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
* *
110693041 ATTCATAACTCTAATCCTCCGTTGGCACCTAGTGGTTTAAACATCATTGTG
193 ATTCATAACTCTAATCCTCCGCTGGCACATAGTGGTTTAAACATCATTGTG
* * *
110693092 AAAAGAGAAACTCCGGAAGGACCAAATCCTCTTCACAACTCTAATCCT
1 AAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCT
110693140 TTGCTAGCTC
Statistics
Matches: 244, Mismatches: 43, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
242 2 0.01
243 238 0.98
244 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (243 bp):
AAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACCTAGTGG
TTTAAACATCATCATGAAGAGAGAAACTCAGAGAGGTCCAAATCCAATTCATAATTCTAATCCTC
CGCTAGCACCTAGTGGTTTAAACATCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATT
CATAACTCTAATCCTCCGCTGGCACATAGTGGTTTAAACATCATTGTG
Found at i:110694484 original size:27 final size:27
Alignment explanation
Indices: 110694452--110694503 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
110694442 ATCACTTAAA
110694452 ATAGTTTTAACAGTGTAGCTGAAAAAT
1 ATAGTTTTAACAGTGTAGCTGAAAAAT
110694479 ATAGTTTTAACAGTGTAGCTGAAAA
1 ATAGTTTTAACAGTGTAGCTGAAAA
110694504 TTGATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (27 bp):
ATAGTTTTAACAGTGTAGCTGAAAAAT
Found at i:110697232 original size:21 final size:21
Alignment explanation
Indices: 110697206--110697246 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110697196 ATCTGCTCAA
* *
110697206 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
110697227 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
110697247 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:110703538 original size:81 final size:81
Alignment explanation
Indices: 110703436--110703882 Score: 650
Period size: 81 Copynumber: 5.5 Consensus size: 81
110703426 AAATGTTAAA
** * * *
110703436 AATGTCATCATGAAGAGAGAAACTCCGGGAGGATCAAATTCTCTTCACAATTCTAATCCTCTTCA
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTTCA
110703501 GGTACCTAGTGGTTTT
66 GGTACCTAGTGGTTTT
* * *
110703517 AATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTACATGATTCTAATCCT-TTGC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTT-C
* *
110703581 AGGCACTTAGTGGTTTT
65 AGGTACCTAGTGGTTTT
*
110703598 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATTCT-TTGC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTT-C
*
110703662 AGGCT-CCTAGTGGTTAT
65 AGG-TACCTAGTGGTTTT
** *
110703679 AATGTCATTGTGAAGAGAGAAACTTTGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTTCA
*
110703744 GGCACCTAGTGGTTTT
66 GGTACCTAGTGGTTTT
* *
110703760 AATGTCATTGTAAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTTCA
110703825 GGCT-CCTAGTGGTTTT
66 GG-TACCTAGTGGTTTT
* *
110703841 AATGTCATTGCGAAAAGAGAAACTCCGGGAGGACCAAATCCT
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCT
110703883 TTGCAAGCAC
Statistics
Matches: 331, Mismatches: 30, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
80 2 0.01
81 328 0.99
82 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (81 bp):
AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTTCA
GGTACCTAGTGGTTTT
Found at i:110703711 original size:162 final size:163
Alignment explanation
Indices: 110703436--110704122 Score: 817
Period size: 162 Copynumber: 4.3 Consensus size: 163
110703426 AAATGTTAAA
** * * *
110703436 AATGTCATCATGAAGAGAGAAACTCCGGGAGGATCAAATTCTCTTCACAATTCTAATCCT-CTTC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
* *
110703500 AGG-TACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTACA
66 AGGCT-CCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCA
* * *
110703564 TGATTCTAATCCTTTGCAGGCACTTAGTGGTTTT
130 CGATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
* * *
110703598 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATTCT-TTGC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
* **
110703662 AGGCTCCTAGTGGTTATAATGTCATTGTGAAGAGAGAAACTTTGGGAGGACCAAATCCTCTTCAC
66 AGGCTCCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
110703727 GATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
131 GATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
* *
110703760 AATGTCATTGTAAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCT-CTGC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
* *
110703824 AGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGAGGACCAAATCCT-TT---
66 AGGCTCCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
* * *
110703885 G---C--A--------A-GCACTTAGCGATTTT
131 GATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
* ** * * *
110703904 AATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAAT-CTACCGT
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
* * ** * *
110703968 AGGCACCTAGTGGTTTCAATGTCATCATGAAGAGAGAAACTCTGAGAGGACCAAATCCTCTTCAC
66 AGGCTCCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
* * * * *
110704033 GATTCTAGTTCTCCGTAGGTACCTAGTGGTTTT
131 GATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
* * *
110704066 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATTCTCTTCATAACTCTAAT
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAAT
110704123 ACTCTAATAG
Statistics
Matches: 452, Mismatches: 53, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
143 2 0.00
144 116 0.26
145 3 0.01
148 1 0.00
151 1 0.00
153 1 0.00
155 1 0.00
158 1 0.00
161 3 0.01
162 322 0.71
163 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (163 bp):
AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
AGGCTCCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
GATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
Found at i:110704004 original size:144 final size:144
Alignment explanation
Indices: 110703733--110704028 Score: 387
Period size: 144 Copynumber: 2.1 Consensus size: 144
110703723 TCACGATTCT
* * * * **
110703733 AATCCTCTGCAGGCACCTAGTGGTTTTAATGTCATTGTAAAGAGAGAAACTCCGGGAGGACCAAA
1 AATCCTCTGCAAGCACCTAGCGATTTTAATGTCATTGTAAAGAAAGAAACTCCAAGAGGACCAAA
* * * * **
110703798 TCCTCTTCACGATTCTAATCCTCTGCAGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAA
66 TCCTCTTCACAATTCTAATCCTCCGCAGGCACCTAGTGGTTTCAATGTCATCACGAAAAGAGAAA
*
110703863 CTCCGGGAGGACCA
131 CTCCGAGAGGACCA
* * *
110703877 AATCCTTTGCAAGCACTTAGCGATTTTAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAA
1 AATCCTCTGCAAGCACCTAGCGATTTTAATGTCATTGTAAAGAAAGAAACTCCAAGAGGACCAAA
* * * *
110703942 TCCTCTTCATAATTCTAAT-CTACCGTAGGCACCTAGTGGTTTCAATGTCATCATGAAGAGAGAA
66 TCCTCTTCACAATTCTAATCCT-CCGCAGGCACCTAGTGGTTTCAATGTCATCACGAAAAGAGAA
*
110704006 ACTCTGAGAGGACCA
130 ACTCCGAGAGGACCA
110704021 AATCCTCT
1 AATCCTCT
110704029 TCACGATTCT
Statistics
Matches: 129, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
143 2 0.02
144 127 0.98
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (144 bp):
AATCCTCTGCAAGCACCTAGCGATTTTAATGTCATTGTAAAGAAAGAAACTCCAAGAGGACCAAA
TCCTCTTCACAATTCTAATCCTCCGCAGGCACCTAGTGGTTTCAATGTCATCACGAAAAGAGAAA
CTCCGAGAGGACCA
Found at i:110704039 original size:81 final size:81
Alignment explanation
Indices: 110703904--110704112 Score: 294
Period size: 81 Copynumber: 2.6 Consensus size: 81
110703894 TAGCGATTTT
* * *
110703904 AATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTA-ATCTACCGT
1 AATGTCATTGTGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCACAATTCTAGATCT-CCGT
110703968 AGGCACCTAGTGGTTTC
65 AGGCACCTAGTGGTTTC
** * * *
110703985 AATGTCATCATGAAGAGAGAAACTCTGAGAGGACCAAATCCTCTTCACGATTCTAGTTCTCCGTA
1 AATGTCATTGTGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCACAATTCTAGATCTCCGTA
* *
110704050 GGTACCTAGTGGTTTT
66 GGCACCTAGTGGTTTC
* *
110704066 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATTCTCTTCA
1 AATGTCATTGTGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCA
110704113 TAACTCTAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
81 109 0.97
82 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (81 bp):
AATGTCATTGTGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCACAATTCTAGATCTCCGTA
GGCACCTAGTGGTTTC
Found at i:110704060 original size:225 final size:225
Alignment explanation
Indices: 110703678--110704104 Score: 633
Period size: 225 Copynumber: 1.9 Consensus size: 225
110703668 CTAGTGGTTA
* **** * *
110703678 TAATGTCATTGTGAAGAGAGAAACTTTGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGC
1 TAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCACAATTCTAATCCTCCGC
* ** *
110703743 AGGCACCTAGTGGTTTTAATGTCATTGTAAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
66 AGGCACCTAGTGGTTTCAATGTCATCATAAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCAC
*
110703808 GATTCTAATCCTCTGCAGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGAGG
131 GATTCTAATCCTCCGCAGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGAGG
110703873 ACCAAATCCTTTGCAAGCACTTAGCGATTT
196 ACCAAATCCTTTGCAAGCACTTAGCGATTT
*
110703903 TAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAAT-CTACCG
1 TAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCACAATTCTAATCCT-CCG
* * *
110703967 TAGGCACCTAGTGGTTTCAATGTCATCATGAAGAGAGAAACTCTGAGAGGACCAAATCCTCTTCA
65 CAGGCACCTAGTGGTTTCAATGTCATCATAAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCA
* * * * *
110704032 CGATTCTAGTTCTCCGTAGG-TACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGA
130 CGATTCTAATCCTCCGCAGGCT-CCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGA
110704096 GGACCAAAT
194 GGACCAAAT
110704105 TCTCTTCATA
Statistics
Matches: 179, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
224 3 0.02
225 176 0.98
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (225 bp):
TAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCACAATTCTAATCCTCCGC
AGGCACCTAGTGGTTTCAATGTCATCATAAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCAC
GATTCTAATCCTCCGCAGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGAGG
ACCAAATCCTTTGCAAGCACTTAGCGATTT
Found at i:110710558 original size:132 final size:133
Alignment explanation
Indices: 110710320--110710576 Score: 385
Period size: 132 Copynumber: 1.9 Consensus size: 133
110710310 CAACTATTAG
* * *
110710320 GAATTCTTTAAAACGAAAGCGATATTCGATACTTGGTAATTCGTGGGAATCGTGCCCTAACGTGT
1 GAATTCTTTAAAACGAAAGCGATATGCGATACTTGGCAATTCGTGGGAATCGTGCCCTAACGTGC
*
110710385 TGGGTTGCAATTTCTCGTTTACCCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGCCTTT
66 TGGGTTGCAATTTCTCGTTTACCCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGCCTTT
110710450 TGA
131 TGA
* *
110710453 GAATTCTTTAAAA-TAAAGGCGATGTGCGATA-TTCGGCAATTCGT-GGAATCGTGCCCTAACGT
1 GAATTCTTTAAAACGAAA-GCGATATGCGATACTT-GGCAATTCGTGGGAATCGTGCCCTAACGT
* ** *
110710515 GCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCATTCATG
64 GCTGGGTTGCAATTTCTCGTTTACCCAAAATAATCAAATATCCCTTCAAAATTTCACTCATG
110710577 TCTTCTAAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
132 79 0.71
133 33 0.29
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (133 bp):
GAATTCTTTAAAACGAAAGCGATATGCGATACTTGGCAATTCGTGGGAATCGTGCCCTAACGTGC
TGGGTTGCAATTTCTCGTTTACCCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGCCTTT
TGA
Found at i:110710625 original size:132 final size:132
Alignment explanation
Indices: 110710357--110710691 Score: 370
Period size: 132 Copynumber: 2.5 Consensus size: 132
110710347 GATACTTGGT
* * *
110710357 AATTCGTGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTACCCAAAATAATCGAAT
1 AATTCGT-GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAT
* * * * * *
110710422 ATCCCTTCAAAATTTCACTCATGCCTTTTGAGAATTCTTTAAAATAAAGGCGATGTGCGATATTC
65 ATCCCTTCAAAATTTCACTCATGCCTTCTGAAAAATCTTTAAAATAAAGGCAATATGCGACATTC
*
110710487 GGC
130 GAC
* *
110710490 AATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATA
1 AATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATA
* * * * *
110710555 TCCCTTCAAAATTTCATTCATGTCTTCT-AAAAATCGTTTAAAACTAAA-GCAATATTCGGCGTT
66 TCCCTTCAAAATTTCACTCATGCCTTCTGAAAAATC-TTTAAAA-TAAAGGCAATATGCGACATT
**
110710618 TTAC
129 CGAC
* * * ** * * *
110710622 AATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGCTCAAAACAATCGAATA
1 AATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATA
*
110710686 TTCCTT
66 TCCCTT
110710692 TAGGTTTTCC
Statistics
Matches: 170, Mismatches: 30, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
131 58 0.34
132 101 0.59
133 11 0.06
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (132 bp):
AATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATA
TCCCTTCAAAATTTCACTCATGCCTTCTGAAAAATCTTTAAAATAAAGGCAATATGCGACATTCG
AC
Found at i:110725806 original size:16 final size:16
Alignment explanation
Indices: 110725785--110725815 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110725775 CTGAGGTAAT
*
110725785 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
110725801 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
110725816 TCAAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:110725877 original size:89 final size:87
Alignment explanation
Indices: 110725712--110726141 Score: 524
Period size: 89 Copynumber: 5.0 Consensus size: 87
110725702 TATTCTGATG
*
110725712 TTTT-ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
110725776 TGAGGTAATTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
* * *
110725798 TTCTTCAATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TT-TT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
110725863 GCTGAGGTATTTTCAATTTCTGCT
64 GCTGAGGTAATTTCAATTTCTGTT
*
110725887 TTTTAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
110725952 GCTGAGGTAATTTCAATTTATGTT
64 GCTGAGGTAATTTCAATTTCTGTT
* * * * * *
110725976 TGTCAA-----------AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACAC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
110726030 TGAGGTATTTTCGATTTCTGCT
66 TGAGGTAATTTCAATTTCTGTT
** * * *
110726052 TTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
110726117 GCTGAGGTAATTTCAATTTCTGTT
64 GCTGAGGTAATTTCAATTTCTGTT
110726141 T
1 T
110726142 GTCAAAAATC
Statistics
Matches: 293, Mismatches: 33, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
76 66 0.23
86 2 0.01
87 14 0.05
88 2 0.01
89 209 0.71
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (87 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTT
Found at i:110725894 original size:14 final size:14
Alignment explanation
Indices: 110725872--110725906 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
110725862 CGCTGAGGTA
110725872 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
*
110725886 TTTTTAATTTCTGC
1 TTTTCAATTTCTGC
110725900 TTTTCAA
1 TTTTCAA
110725907 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:110726013 original size:165 final size:162
Alignment explanation
Indices: 110725801--110726213 Score: 655
Period size: 165 Copynumber: 2.5 Consensus size: 162
110725791 TTCTGTTTTC
* *
110725801 TTCAATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
** *
110725866 GAGGTATTTTCAATTTCTGCTTTTTAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAG
66 GAGGTATTTTCAATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAG
110725931 GTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
131 GTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
*
110725963 TTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCAC
1 TTCAATTTATGTTTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
* * *
110726028 ACTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGTGA
63 GCTGAGGTATTTTCAATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGA
110726093 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
128 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * **
110726128 TTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGCTCACATG
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC--G
*
110726193 CTGAGGTCTTTTCAATTTCTG
64 CTGAGGTATTTTCAATTTCTG
110726214 TTCGTCAAAA
Statistics
Matches: 229, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
162 57 0.25
164 19 0.08
165 153 0.67
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (162 bp):
TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTATTTTCAATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
Found at i:110726016 original size:76 final size:73
Alignment explanation
Indices: 110725907--110726049 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 73
110725897 TGCTTTTCAA
* *
110725907 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
110725972 TGTTTGTC
66 TGTTTGTC
* * * *
110725980 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCGAT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
110726045 TTCTG
63 TTCTG
110726050 CTTTCCAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTGTC
Found at i:110726176 original size:73 final size:73
Alignment explanation
Indices: 110726072--110726281 Score: 316
Period size: 73 Copynumber: 2.9 Consensus size: 73
110726062 TGCTCTTCAA
* *
110726072 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
110726137 TGTTTGTC
66 TGTTCGTC
* * * *
110726145 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAATT
110726210 TCTGTTCGTC
64 TCTGTTCGTC
110726220 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG-CACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATT
110726282 AATGTTTTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
72 19 0.15
73 38 0.31
74 36 0.29
75 30 0.24
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTCGTC
Found at i:110726249 original size:74 final size:72
Alignment explanation
Indices: 110726072--110726281 Score: 298
Period size: 74 Copynumber: 2.9 Consensus size: 72
110726062 TGCTCTTCAA
* * *
110726072 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA-GCTGAGGTATTTTCAATTTC
*
110726137 TGTTTGTC
65 TGTTCGTC
* *
110726145 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACA-GCTGAGGTATTTTCAATT
110726210 TCTGTTCGTC
63 TCTGTTCGTC
110726220 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCAC-GCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-GCACAGCTGAGGTATTTTCAATT
110726282 AATGTTTTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
72 17 0.14
73 38 0.31
74 39 0.31
75 29 0.23
76 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAGCTGAGGTATTTTCAATTTCT
GTTCGTC
Found at i:110726394 original size:88 final size:87
Alignment explanation
Indices: 110726220--110726431 Score: 268
Period size: 88 Copynumber: 2.4 Consensus size: 87
110726210 TCTGTTCGTC
** *
110726220 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTCAATTAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCCAAGGTATTTCCAA-TAAT
* ** *
110726285 GTTTTTTCAATTTATGCTTTTCA
65 CTTTTGGCAAATTATGCTTTTCA
*
110726308 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCG-GGTCACATGCCAAGGTATTTCCAA-A
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG-CAC--GCCAAGGTATTTCCAATA
*
110726371 ATCTGTTTGGCAAATTCTG-TTTTCA
63 ATCT-TTTGGCAAATTATGCTTTTCA
*
110726396 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
110726432 TTGCTCACGT
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
87 2 0.02
88 84 0.77
89 10 0.09
90 13 0.12
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (87 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCCAAGGTATTTCCAATAATC
TTTTGGCAAATTATGCTTTTCA
Found at i:110726453 original size:88 final size:85
Alignment explanation
Indices: 110726202--110726518 Score: 264
Period size: 88 Copynumber: 3.6 Consensus size: 85
110726192 GCTGAGGTCT
* * * *
110726202 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGAGGCAC-
1 TTTCAAATTCTGTT-TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTCG-GTCACT
* *
110726264 GCTGAGGTATTTTCAATTAATGTTT
64 GCTGAGGTATTTTCAA--AAT-CTG
* * * *
110726289 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC-TCGGGTCACA
1 TTTCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTC-GGTCAC-
** *
110726353 TGCCAAGGTATTTCCAAAATCTG
63 TGCTGAGGTATTTTCAAAATCTG
* *
110726376 TTTGGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACG
1 TTT--CAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTCGGTCAC-
* **
110726441 TGCTGAGCTATTTTTCAATTTCTG
63 TGCTGAGGTA-TTTTCAAAATCTG
** * * * *
110726465 TTTTTAATGTCTAGTTTTTAAAAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTCAAAT-TCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
110726519 TCAGGATCAC
Statistics
Matches: 191, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
87 20 0.10
88 99 0.52
89 59 0.31
90 13 0.07
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (85 bp):
TTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTCGGTCACTGC
TGAGGTATTTTCAAAATCTG
Found at i:110733498 original size:24 final size:24
Alignment explanation
Indices: 110733466--110733515 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
110733456 TTATAAACTG
110733466 TTCTCATCAAATTCACAAAATATT
1 TTCTCATCAAATTCACAAAATATT
110733490 TTCTCATCAAATTCACAAAATATT
1 TTCTCATCAAATTCACAAAATATT
110733514 TT
1 TT
110733516 TACTTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (24 bp):
TTCTCATCAAATTCACAAAATATT
Found at i:110738426 original size:26 final size:26
Alignment explanation
Indices: 110738397--110738484 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 26
110738387 ATATGAGGTG
110738397 ATATGGCTATAAAGTATATGGGTGAC
1 ATATGGCTATAAAGTATATGGGTGAC
* *
110738423 ATAT-GATAAAATAATAATACGATATGAGGTG--
1 ATATGGCT---ATAA-AGT---ATATG-GGTGAC
110738454 ATATGGCTATAAAGTATATGGGTGAC
1 ATATGGCTATAAAGTATATGGGTGAC
110738480 ATATG
1 ATATG
110738485 ATAAAATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 22
0.64 0.05 0.30
Matches are distributed among these distances:
24 4 0.09
25 7 0.15
26 9 0.19
28 6 0.13
29 6 0.13
31 4 0.09
32 7 0.15
33 4 0.09
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.31
Consensus pattern (26 bp):
ATATGGCTATAAAGTATATGGGTGAC
Found at i:110738441 original size:57 final size:57
Alignment explanation
Indices: 110738378--110738491 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
110738368 TTGTTAGATC
110738378 AATAATACGATATGAGGTGATATGGCTATAAAGTATATGGGTGACATATGATAAAAT
1 AATAATACGATATGAGGTGATATGGCTATAAAGTATATGGGTGACATATGATAAAAT
110738435 AATAATACGATATGAGGTGATATGGCTATAAAGTATATGGGTGACATATGATAAAAT
1 AATAATACGATATGAGGTGATATGGCTATAAAGTATATGGGTGACATATGATAAAAT
110738492 TAAAAATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (57 bp):
AATAATACGATATGAGGTGATATGGCTATAAAGTATATGGGTGACATATGATAAAAT
Found at i:110739878 original size:23 final size:23
Alignment explanation
Indices: 110739841--110739972 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
110739831 CCTTTTTTGT
110739841 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
110739864 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
110739886 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
110739909 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
110739936 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
110739961 TATTATTTATAT
1 TATTATATATAT
110739973 ATATATATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:110739936 original size:27 final size:27
Alignment explanation
Indices: 110739906--110740025 Score: 70
Period size: 27 Copynumber: 4.5 Consensus size: 27
110739896 ATTTTAAATT
110739906 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
110739933 CTATTTTATGTATATATCTTTAATATTATA
1 CTATATTACGTATATA--TAT-ATTTTATA
* *
110739963 TTAT-TTA--TATATATATATTTTCTA
1 CTATATTACGTATATATATATTTTATA
* * * *
110739987 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
110740013 CTATATTATGTAT
1 CTATATTACGTAT
110740026 GTATTTTTAA
Statistics
Matches: 70, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
23 2 0.03
24 9 0.13
25 2 0.03
26 5 0.07
27 37 0.53
29 5 0.07
30 10 0.14
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.55
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:110739946 original size:25 final size:25
Alignment explanation
Indices: 110739855--110740062 Score: 79
Period size: 25 Copynumber: 8.2 Consensus size: 25
110739845 ATTATATTTC
* * *
110739855 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
110739879 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
110739900 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* * *
110739927 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
110739952 TTAATATTATATTATTTATATATAT
1 TTAATACTATATTATGTATATATAT
* * * * *
110739977 ATATTTTCTACATGTTATCTTATGTATATAT
1 TTA-ATACT--ATATTAT-GTA--TATATAT
* *
110740008 CTT-A-ACTATATTATGTATGTATTT
1 -TTAATACTATATTATGTATATATAT
* * *
110740032 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
110740057 TTAATA
1 TTAATA
110740063 TTATCACGTA
Statistics
Matches: 135, Mismatches: 34, Indels: 29
0.68 0.17 0.15
Matches are distributed among these distances:
21 2 0.01
22 15 0.11
23 10 0.07
24 8 0.06
25 59 0.44
26 5 0.04
27 17 0.13
28 6 0.04
29 5 0.04
31 7 0.05
32 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:110739948 original size:29 final size:28
Alignment explanation
Indices: 110739906--110740048 Score: 88
Period size: 25 Copynumber: 5.4 Consensus size: 28
110739896 ATTTTAAATT
*
110739906 CTATATTACG-TATATATATATTTTATA
1 CTATATTATGTTATATATATATTTTATA
* * *
110739933 CTATTTTATG---TATATATCTTTAATA
1 CTATATTATGTTATATATATATTTTATA
* * *
110739958 TTATATTATTTATATATATATATTTTCTA
1 CTATATTATGT-TATATATATATTTTATA
* * * *
110739987 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTATGTTATATATATATTTTATA
* * *
110740013 CTATATTATG-TATGTAT-T-TTTAACA
1 CTATATTATGTTATATATATATTTTATA
110740038 CTATATTATGT
1 CTATATTATGT
110740049 ACATATTTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
24 3 0.03
25 32 0.36
26 9 0.10
27 26 0.29
28 7 0.08
29 12 0.13
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.55
Consensus pattern (28 bp):
CTATATTATGTTATATATATATTTTATA
Found at i:110740065 original size:20 final size:20
Alignment explanation
Indices: 110740040--110740098 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
110740030 TTTTAACACT
110740040 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
110740060 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
110740083 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
110740099 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:110740239 original size:16 final size:15
Alignment explanation
Indices: 110740215--110740262 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
110740205 TAATTATTAT
*
110740215 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
110740231 TATTTTAATATTTTA
1 TATTTTAATATTTTA
110740246 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
110740262 T
1 T
110740263 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:110740250 original size:7 final size:8
Alignment explanation
Indices: 110740215--110740266 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
110740205 TAATTATTAT
*
110740215 TATTCTAA
1 TATTTTAA
*
110740223 TATTTTGA
1 TATTTTAA
110740231 TATTTTAA
1 TATTTTAA
110740239 TATTTT-A
1 TATTTTAA
110740246 TATTTTATA
1 TATTTTA-A
*
110740255 TATTTTAT
1 TATTTTAA
110740263 TATT
1 TATT
110740267 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:110741022 original size:25 final size:25
Alignment explanation
Indices: 110740971--110741023 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
110740961 ATATTTTTTA
* * *
110740971 TAATATTTTTTAATTTTCAATATTT
1 TAATATTTTTTAATGTTCAAAAGTT
110740996 TAATATTTTTTACA-GTTCAAAAGTT
1 TAATATTTTTTA-ATGTTCAAAAGTT
110741021 TAA
1 TAA
110741024 AACTTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TAATATTTTTTAATGTTCAAAAGTT
Found at i:110742415 original size:19 final size:19
Alignment explanation
Indices: 110742391--110742437 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
110742381 TTCATGGGAT
*
110742391 TTTTTTTATT-TTTATTTTA
1 TTTTTTTATTGTTTA-CTTA
110742410 TTTTTTTATTGTTTACTTA
1 TTTTTTTATTGTTTACTTA
*
110742429 TTTATTTAT
1 TTTTTTTAT
110742438 CTATTGCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTATTGTTTACTTA
Found at i:110743191 original size:19 final size:20
Alignment explanation
Indices: 110743167--110743204 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
110743157 TGTTCTTTAT
110743167 TTTG-AATACAAAAAAGAGA
1 TTTGAAATACAAAAAAGAGA
110743186 TTTGAAATACAAAAAAGAG
1 TTTGAAATACAAAAAAGAG
110743205 GTTACAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (20 bp):
TTTGAAATACAAAAAAGAGA
Found at i:110743215 original size:21 final size:21
Alignment explanation
Indices: 110743170--110743215 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
110743160 TCTTTATTTT
**
110743170 GAATACAAAAAAGAGATTTGA
1 GAATACAAAAAAGAGATTACA
*
110743191 -AATACAAAAAAGAGGTTACA
1 GAATACAAAAAAGAGATTACA
110743211 GAATA
1 GAATA
110743216 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
GAATACAAAAAAGAGATTACA
Found at i:110744199 original size:14 final size:14
Alignment explanation
Indices: 110744180--110744209 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
110744170 TTTTATTTAT
*
110744180 TTATATTATTATTA
1 TTATATTATTACTA
110744194 TTATATTATTACTA
1 TTATATTATTACTA
110744208 TT
1 TT
110744210 GCTATCATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATATTATTACTA
Found at i:110747209 original size:107 final size:108
Alignment explanation
Indices: 110747089--110747326 Score: 293
Period size: 108 Copynumber: 2.2 Consensus size: 108
110747079 ATATCTCAAT
** * * * *
110747089 GTTCAAATTAGGACCAACTTGACTTCCATGAGAT-GTGGCGGAACTTGATTTCCACCTTTTCCAG
1 GTTCAAACCAGGACCAACTTGACTTACATGAGATGGTGGCAGAACTTGATTTACACATTTTCCAG
*
110747153 GGGCAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCCC-AA
66 GGGAAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCCCGAA
* * * *
110747195 TGTTTAAACCAGGACCAACTTGACTTACTTGAGATGGTGGCAGAACTTGATTTATACATTTTCTA
1 -GTTCAAACCAGGACCAACTTGACTTACATGAGATGGTGGCAGAACTTGATTTACACATTTTCCA
* * * *
110747260 GGGGAAGATGGTGGAGTGGGCTCTCCCTTTGGTAATATCCCGAA
65 GGGGAAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCCCGAA
*
110747304 GTTCAAACC-GTGACTAACTTGAC
1 GTTCAAACCAG-GACCAACTTGAC
110747327 GTGGTGGTGG
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
107 30 0.27
108 79 0.71
109 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (108 bp):
GTTCAAACCAGGACCAACTTGACTTACATGAGATGGTGGCAGAACTTGATTTACACATTTTCCAG
GGGAAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCCCGAA
Found at i:110747549 original size:99 final size:99
Alignment explanation
Indices: 110747145--110749599 Score: 3448
Period size: 99 Copynumber: 24.7 Consensus size: 99
110747135 GATTTCCACC
* * * * * *
110747145 TTTTCCAGGGGCAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCCCAATGTTTAAACCAG-GA
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACC-GTGA
* * *
110747209 CCAACTTGACTTAC-TTGAGATGGTGGCAGAACTTGATTTATACA
65 CCAACTTGAC--GCGGTG-G-TGGTGGC-G----T-ATTTATACG
* * *
110747253 TTTTCTAGGGGAAGATGGTGGAGTGGGCTCTCCCTTTGGTAATATCCCGAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * * **
110747318 TAACTTGACGTGGTGGTGGCGGTATATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* **
110747352 TTTT-TCAGGGGCAAATAATGGAGTGGGCTCT-CCTTCGGTAATATCCCAAAGTTCACAAACCGT
1 TTTTCT-AGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTT--CAAACCGT
* * *
110747415 GACCAACTTGAAGCGATGATGGTGGCGTATTTATACG
63 GACCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * * *
110747452 TTTTCTAGAGGCAGATGGTGGAGTGGGCTCTCCCTTCGATAATATCCCAAAGCTCAAACCCTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * * *
110747517 CAATTTGACGCGGTGGTGGTGGCATATATATACA
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * ** *
110747551 TTTTCTAGGGGCAGATGGTAGAGTGGTCTCTCCCTTCAATAAGATCCCAAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* *
110747616 CAACTTGACACGGTGGTGGTGGCGTATTTATATG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
110747650 TTTT-TCAGGGGCAGATGGTGGAGTGGACTCTCCCTTCGGTAATATCTCAAAGTTCAAACTGTGA
1 TTTTCT-AGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
*
110747714 CCAACTTGACGCGGTGGTGGTGGTGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
**
110747749 TTTTCCGGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* *
110747814 CAACTTGACGCTGTTGTGGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
110747848 TTTT-TTGAAGGCAGATGGTGGAGTGGGCTCTCCCTTTGGTAATATCCCAAAGTTCAAACCGTGA
1 TTTTCTAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
*
110747912 CCAACTTGACGCGGTGGTGGTGGCGTATTTTTACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
110747947 TTTTCT-GAGGGTAGATGGTGGAGTGGGCTCTCCCTTCGATAATATCCCAAAGTTCAAACCGTGA
1 TTTTCTAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
* *
110748011 CCAACTTGATGCGGTAGTGGTGGCGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
110748046 TTTT-TCGGGGACAGATGGTGGAGTGGGCTCTGCCTTCGGTAATATCCCAAAG-T-AAACATCGT
1 TTTTCTAGGGG-CAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAAC--CGT
*
110748108 GACTAACTTGACGCGGTGGTGGTGGCGTATTTATACG
63 GACCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
110748145 TTTTC-CGAGGGCACATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
1 TTTTCTAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
*
110748209 CCAACTTGACGCGGTGGTGGTAGCGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
*
110748244 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * *
110748309 AAACTTGAAGCGGTGGTGGTGACGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* ** * *
110748343 TTTTCCAACGGTAGATGGTAGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * *
110748408 CAACTTGAAGCAGTGGTGGTGGCATATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
110748442 TTTTCTAGGGGCAAATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAATCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
110748507 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
110748541 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * *
110748606 CAACTTGAAGCGGTGGCGGTGACGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * * *
110748640 TTTTCCAGGGGTAGATGGTAGAGTGGGCTCTCCCTTAGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* **
110748705 CAACTTGAAGCGGTGGTGGTGGCGTATTTATATA
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
110748739 TTTTCTAGGGGCAAATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCCTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
110748804 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
110748838 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCTTTCAGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
110748903 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
**
110748937 TTTTCCGGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
110749002 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
110749036 TTTT-TCGGGGGAAGATGGTGGAATGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
1 TTTTCT-AGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
* *
110749100 CCAACTTGACGCGGTAGTGGTGGTGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
110749135 TTTT-TCGGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCTTGA
1 TTTTCT-AGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
*
110749199 CCAACTTGACGCGGTGGTAGTGGCGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
110749234 TTTT-TCGAGGGTAGATGGTGAAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
1 TTTTCTAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
* * *
110749298 CCAACTTGACGCGGTGGTGGTAGTGTATTTATATG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * * ** *
110749333 TTTT-TCGGGGGTAGATGGTAGAGTGGGCTCTCCCTTCGAAAATATCCCAAAGTTCAAATCGTGA
1 TTTTCT-AGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
* * *
110749397 CCAACTTGACACGGTGGTGGTGGCGTATTTTTACA
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
110749432 TTTT-TCGAGGGTAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
1 TTTTCTAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
*
110749496 CCAACTTGATGCGGTGGTGGTGGCGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * * * * * **
110749531 TTTTCCAAGGGTAGATGGTGGAGTGGGTTCTCCTTTCGGTAATATCTCAAAGTTCAAACTATGAC
1 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
110749596 CAAC
66 CAAC
110749600 ATTACTCGAA
Statistics
Matches: 2120, Mismatches: 202, Indels: 59
0.89 0.08 0.02
Matches are distributed among these distances:
97 4 0.00
98 30 0.01
99 1920 0.91
100 70 0.03
101 25 0.01
105 5 0.00
106 1 0.00
107 3 0.00
108 62 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (99 bp):
TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
Found at i:110754817 original size:13 final size:13
Alignment explanation
Indices: 110754799--110754825 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
110754789 CATCCTTAGA
110754799 TGTCTACTAAAAT
1 TGTCTACTAAAAT
110754812 TGTCTACTAAAAT
1 TGTCTACTAAAAT
110754825 T
1 T
110754826 CAAGGGCATA
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TGTCTACTAAAAT
Found at i:110757810 original size:19 final size:18
Alignment explanation
Indices: 110757777--110757828 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
110757767 TTCATTCTAG
110757777 TTTTTTAAATATTTTT-ATGA
1 TTTTTT-AAT-TTTTTAAT-A
*
110757797 TTTTTTAATTTTTTAATT
1 TTTTTTAATTTTTTAATA
110757815 TTTTTATAATTTTT
1 TTTTT-TAATTTTT
110757829 AAATTATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.34
19 13 0.45
20 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTTAATTTTTTAATA
Found at i:110757818 original size:27 final size:28
Alignment explanation
Indices: 110757777--110757833 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
110757767 TTCATTCTAG
* *
110757777 TTTTTTAAATATTTTTATGATTTTTTAA
1 TTTTTTAAATATTTTTATAATTTTTAAA
*
110757805 TTTTTT-AATTTTTTTATAATTTTTAAA
1 TTTTTTAAATATTTTTATAATTTTTAAA
110757832 TT
1 TT
110757834 ATTTGTTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTTTTAAATATTTTTATAATTTTTAAA
Found at i:110757833 original size:19 final size:18
Alignment explanation
Indices: 110757797--110757833 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
110757787 ATTTTTATGA
*
110757797 TTTTTTAATTTTTTAATT
1 TTTTTTAATTTTTAAATT
110757815 TTTTTATAATTTTTAAATT
1 TTTTT-TAATTTTTAAATT
110757834 ATTTGTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTAATTTTTAAATT
Found at i:110760788 original size:18 final size:19
Alignment explanation
Indices: 110760752--110760791 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
110760742 TTTAACAATT
110760752 TTTTTTATCTCAAACAGTG
1 TTTTTTATCTCAAACAGTG
* *
110760771 TTTTTTGTCTTAAA-AGTG
1 TTTTTTATCTCAAACAGTG
110760789 TTT
1 TTT
110760792 CTTAAAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (19 bp):
TTTTTTATCTCAAACAGTG
Found at i:110762475 original size:43 final size:44
Alignment explanation
Indices: 110762393--110762479 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
110762383 GGTATGGTAG
110762393 GAAACATGAAACATGGCCAGAAAATACTAGGTTGTGTGTTTATC
1 GAAACATGAAACATGGCCAGAAAATACTAGGTTGTGTGTTTATC
*
110762437 GAAACATGAAACATGGCTAG-AAATACTAGGTTGTGTGTTTATC
1 GAAACATGAAACATGGCCAGAAAATACTAGGTTGTGTGTTTATC
110762480 TCAATTAGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 23 0.55
44 19 0.45
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (44 bp):
GAAACATGAAACATGGCCAGAAAATACTAGGTTGTGTGTTTATC
Found at i:110781407 original size:42 final size:42
Alignment explanation
Indices: 110781345--110781459 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
110781335 TTCGTTTTCC
* * *
110781345 CGATGCCATAGTTCAACTATGGTCTTACACATCTTCATATAAT
1 CGATGCCATAGTCCAGCTATGGTCTTACACATATTCATAT-AT
*
110781388 -GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATAT
1 CGATGCCATAGTCCAGCTATGGTCTTACACATATTCATATAT
* *
110781429 CAATGCTATAGTCCAGCTATGGTCTTACACA
1 CGATGCCATAGTCCAGCTATGGTCTTACACA
110781460 AATCACATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 62 0.97
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
CGATGCCATAGTCCAGCTATGGTCTTACACATATTCATATAT
Found at i:110781612 original size:31 final size:31
Alignment explanation
Indices: 110781577--110781663 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
110781567 CTTGTCACTT
*
110781577 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
110781608 GTAGCCGGAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
110781639 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
110781664 TGTCATTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:110787469 original size:12 final size:12
Alignment explanation
Indices: 110787452--110787487 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
110787442 AATTTGAAAG
110787452 TTTAATTTTTTA
1 TTTAATTTTTTA
110787464 TTTAATTATTTTTA
1 TTTAA-T-TTTTTA
110787478 TTTAATTTTT
1 TTTAATTTTT
110787488 ATAATGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 11 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTAATTTTTTA
Done.