Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 308 of 333
Found at i:101013464 original size:20 final size:20
Alignment explanation
Indices: 101013416--101013464 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
101013406 CTGTAAACAA
*
101013416 TTTTAATTTTTATTTCTGGT
1 TTTTAATTTATATTTCTGGT
*
101013436 TTATAATTTATATTT-TGGT
1 TTTTAATTTATATTTCTGGT
101013455 TTTTATATTT
1 TTTTA-ATTT
101013465 GGTTTATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTAATTTATATTTCTGGT
Found at i:101014124 original size:44 final size:44
Alignment explanation
Indices: 101014059--101014479 Score: 192
Period size: 44 Copynumber: 9.5 Consensus size: 44
101014049 AGACAATATC
* *
101014059 TACAATCTTCAGTCTGTTCCCTTGCTACCTCAGGAAGATAAGAT
1 TACAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGAT
* **
101014103 TACAATCTTCAACCTGCTCCCTTGCTACCTCAAGG-AGATAAGGC
1 TACAATCTTCAATCTGCTCCCTTGCTACCTC-AGGAAGATAAGAT
**** ** * * *
101014147 TAGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAA-ATTT
1 TACAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGA--T
* ** * * * * * *
101014192 TGCCGTCTTCGATCTGCTCCAC-TACTATCTTGAGG-AGACAAAAT
1 TACAATCTTCAATCTGCTCC-CTTGCTA-CCTCAGGAAGATAAGAT
* * *
101014236 CTACAATCTTTAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGAC
1 -TACAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGAT
** * * **
101014281 TACAATCTTCAGCCTGTTCCCTTGCTACCTCAGAAAGATAAGGC
1 TACAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGAT
***** ** * *
101014325 TGGTGGCTAAAAATCTACTCCC-TGCTGCCTCCA-GAAGATAAGAT
1 TACAATCT-TCAATCTGCTCCCTTGCTACCT-CAGGAAGATAAGAT
* * * * * * * *
101014369 TCGCTATCCTCGATCTGC-CCATTGCTATCTCGAGG-AGACAAAAT
1 T-ACAATCTTCAATCTGCTCCCTTGCTACCTC-AGGAAGATAAGAT
* * * *
101014413 CTACAATCTTCAGTCTGCTCCATTGCTACCTCAGGAAGATAAAAC
1 -TACAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGAT
**
101014458 TACAATCTTCAGCCTGCTCCCT
1 TACAATCTTCAATCTGCTCCCT
101014480 CAGAGAGATA
Statistics
Matches: 273, Mismatches: 85, Indels: 38
0.69 0.21 0.10
Matches are distributed among these distances:
43 5 0.02
44 181 0.66
45 81 0.30
46 6 0.02
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (44 bp):
TACAATCTTCAATCTGCTCCCTTGCTACCTCAGGAAGATAAGAT
Found at i:101014240 original size:178 final size:176
Alignment explanation
Indices: 101013933--101014555 Score: 735
Period size: 178 Copynumber: 3.6 Consensus size: 176
101013923 ATCAGCATCA
* * * * * *
101013933 TCAATCTGCTCCCTTGCTACCTCAGGAAGATAAAGCTAGGGGCTAAAATATGCTCCCCTGATACC
1 TCAACCTGCTCCCTTGCTACCTCAGG-AGATAAGGCTAGTGGCTAAAATCTACTCCCCTGCTACC
* * * * * *
101013998 TCGGGAAGATAAGATTCACCG-CTTTCGATCTACCTCACTACTATCTCAAAGAGACAATATCTAC
65 TCGAGAAGATAAGATTCGCCGTC-TTCGATCTGCC-CACTACTATCTCGAGGAGACAAAATCTAC
* *
101014062 AATCTTCAGTCTGTTCCCTTGCTACCTCAGGAAGATAAGATTACAATCT
128 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
101014111 TCAACCTGCTCCCTTGCTACCTCAAGGAGATAAGGCTAGTGGCTAAAATCTACTCCCCTGCTACC
1 TCAACCTGCTCCCTTGCTACCTC-AGGAGATAAGGCTAGTGGCTAAAATCTACTCCCCTGCTACC
* * *
101014176 TCGGGAAGATAA-ATTTTGCCGTCTTCGATCTGCTCCACTACTATCTTGAGGAGACAAAATCTAC
65 TCGAGAAGATAAGA-TTCGCCGTCTTCGATCTGC-CCACTACTATCTCGAGGAGACAAAATCTAC
*
101014240 AATCTTTAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
128 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
* * * * *
101014289 TCAGCCTGTTCCCTTGCTACCTCAGAAAGATAAGGCTGGTGGCTAAAAATCTACT-CCCTGCTGC
1 TCAACCTGCTCCCTTGCTACCTCAG-GAGATAAGGCTAGTGGCT-AAAATCTACTCCCCTGCTAC
* ** * * *
101014353 CTCCAGAAGATAAGATTCGCTATCCTCGATCTGCCCATTGCTATCTCGAGGAGACAAAATCTACA
64 CTCGAGAAGATAAGATTCGCCGTCTTCGATCTGCCCACTACTATCTCGAGGAGACAAAATCTACA
* *
101014418 ATCTTCAGTCTGCTCCATTGCTACCTCAGGAAGATAAAACTACAATCT
129 ATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
* * * * * * *
101014466 TCAGCCTGCTCCC-T-C-A---GA-GAGATAAGGCTGGTGGCTAAAATCTGCTCCTCTACTAACT
1 TCAACCTGCTCCCTTGCTACCTCAGGAGATAAGGCTAGTGGCTAAAATCTACTCCCCTGCTACCT
* * *
101014524 CGAGAAGATAAGATTTGTCGTCTTTGATCTGC
66 CGAGAAGATAAGATTCGCCGTCTTCGATCTGC
101014556 TCCATCGCTA
Statistics
Matches: 389, Mismatches: 48, Indels: 25
0.84 0.10 0.05
Matches are distributed among these distances:
168 9 0.02
169 49 0.13
171 1 0.00
174 1 0.00
175 1 0.00
176 1 0.00
177 88 0.23
178 223 0.57
179 16 0.04
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (176 bp):
TCAACCTGCTCCCTTGCTACCTCAGGAGATAAGGCTAGTGGCTAAAATCTACTCCCCTGCTACCT
CGAGAAGATAAGATTCGCCGTCTTCGATCTGCCCACTACTATCTCGAGGAGACAAAATCTACAAT
CTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
Found at i:101015502 original size:16 final size:16
Alignment explanation
Indices: 101015481--101015514 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
101015471 AATTGATTGG
101015481 GAAAAAATATTTCAAA
1 GAAAAAATATTTCAAA
101015497 GAAAAAATATTTCAAA
1 GAAAAAATATTTCAAA
101015513 GA
1 GA
101015515 TAGCCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.24
Consensus pattern (16 bp):
GAAAAAATATTTCAAA
Found at i:101015896 original size:50 final size:51
Alignment explanation
Indices: 101015841--101015942 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 51
101015831 TATATAGAGA
* *
101015841 GTCTCAATGAGCCCTTTGCGGGTTTTCACATTGGCCTCTTTT-TTTTTAAG
1 GTCTCAAAGAGCCCTTTGCAGGTTTTCACATTGGCCTCTTTTCTTTTTAAG
* * *
101015891 GTCTCAAAGCGCTCTTTGCAGGTTTTCACTTTGGCCTCTTTTCCTTTTTAAG
1 GTCTCAAAGAGCCCTTTGCAGGTTTTCACATTGGCCTCTTTT-CTTTTTAAG
101015943 TATACTACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 37 0.82
52 8 0.18
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (51 bp):
GTCTCAAAGAGCCCTTTGCAGGTTTTCACATTGGCCTCTTTTCTTTTTAAG
Found at i:101021528 original size:55 final size:55
Alignment explanation
Indices: 101021414--101021530 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
101021404 TGCAATATGG
* * * * * *
101021414 CCGTGGTCGAGCCAGCTAAAACAACACGGGCGTGCAACATGCCCATGTGGAAGAA
1 CCGTGGTCGAACCAGCCAAAACAACACGAGCGTGCAACACGCCCATGTGAAACAA
* * * * *
101021469 CCGTGGTCGAACCTGCCAAAACAACACGAGCGTTCGACACGCCCGTGTGAAACAC
1 CCGTGGTCGAACCAGCCAAAACAACACGAGCGTGCAACACGCCCATGTGAAACAA
101021524 CCGTGGT
1 CCGTGGT
101021531 TGACTCAAGG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.28, C:0.31, G:0.27, T:0.14
Consensus pattern (55 bp):
CCGTGGTCGAACCAGCCAAAACAACACGAGCGTGCAACACGCCCATGTGAAACAA
Found at i:101023075 original size:12 final size:13
Alignment explanation
Indices: 101023047--101023084 Score: 69
Period size: 12 Copynumber: 3.0 Consensus size: 13
101023037 TGAAACTACT
101023047 TTTTATTTTTTAG
1 TTTTATTTTTTAG
101023060 TTTTATTTTTTA-
1 TTTTATTTTTTAG
101023072 TTTTATTTTTTAG
1 TTTTATTTTTTAG
101023085 CGAATTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTTAG
Found at i:101030149 original size:51 final size:49
Alignment explanation
Indices: 101030047--101030234 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
101030037 TGAGGTCATG
* *
101030047 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACA
* *
101030096 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GGTCACA
* * * *
101030147 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACA
* * *
101030196 TGTGTAATACTAACTACAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
101030235 GCTTTGGCTA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
49 75 0.61
50 4 0.03
51 43 0.35
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACA
Found at i:101030220 original size:100 final size:100
Alignment explanation
Indices: 101030047--101030234 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
101030037 TGAGGTCATG
* * * * *
101030047 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCACATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAATACTAACTA
*
101030112 CAGGCTACTATGCGTACCCGATAACTTCGATCACA
66 CAGGCTACTATGCGTACCAGATAACTTCGATCACA
* *
101030147 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAATACTAACTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAATACTAACTA
101030212 CAGGCTACTATGCGTACCAGATA
66 CAGGCTACTATGCGTACCAGATA
101030235 GCTTTGGCTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAATACTAACTA
CAGGCTACTATGCGTACCAGATAACTTCGATCACA
Found at i:101035277 original size:49 final size:49
Alignment explanation
Indices: 101035209--101035440 Score: 239
Period size: 49 Copynumber: 4.7 Consensus size: 49
101035199 TCTATTGTGA
* * * *
101035209 GGTCACATGTGTAGTACTAAATGCAAGCTACTACGTGTACCGGATTATT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * * *
101035258 GGTTGCATGTGTAATACTAAGTGCAGGCAACTATGCGTACCCGATAACTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
101035308 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
101035358 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
101035408 GGTCGCATGTGTAGTGCTAAGTACATGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
101035441 TGCATACCAG
Statistics
Matches: 148, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
49 65 0.44
50 48 0.32
51 35 0.24
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:101035345 original size:28 final size:28
Alignment explanation
Indices: 101035313--101035396 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
101035303 AACTTCGATC
101035313 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
101035341 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
101035363 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
101035391 ACGTGT
1 ACGTGT
101035397 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:101035483 original size:150 final size:150
Alignment explanation
Indices: 101035208--101035486 Score: 344
Period size: 150 Copynumber: 1.9 Consensus size: 150
101035198 ATCTATTGTG
* *
101035208 AGGTCACATGTGTAGTACTAAATGCAAGCTACTACGTGTACCGGATTATTGGTTGCATGTGTAAT
1 AGGTCACATGTGTAGTACTAAATGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAAT
* * * ** ** *
101035273 ACTAAGTGCAGGCAACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTACAGGCAACTATGCATACCAGATAACTTCGATCACAAGTGTAAAAATAAGTGCAGGCT
101035338 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
* * * *
101035358 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACATGTGTAGTACTAAATGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAAT
* * * * * * * *
101035423 GCTAAGTACATGCTACTATGCATACCAGATAGCTTTG-GCTATAAGTGTAAAAATATGTGCAGGC
66 ACTAAGTACAGGCAACTATGCATACCAGATAACTTCGATC-ACAAGTGTAAAAATAAGTGCAGGC
101035487 AACTGAGTAT
Statistics
Matches: 106, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
149 1 0.01
150 105 0.99
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (150 bp):
AGGTCACATGTGTAGTACTAAATGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAAT
ACTAAGTACAGGCAACTATGCATACCAGATAACTTCGATCACAAGTGTAAAAATAAGTGCAGGCT
ACTACGTGTATCAGATGGTT
Found at i:101036927 original size:18 final size:18
Alignment explanation
Indices: 101036904--101036939 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
101036894 GTAGATATTT
101036904 TTGATGATTCATCCATGG
1 TTGATGATTCATCCATGG
101036922 TTGATGATTCATCCATGG
1 TTGATGATTCATCCATGG
101036940 AAAATGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (18 bp):
TTGATGATTCATCCATGG
Found at i:101036946 original size:18 final size:18
Alignment explanation
Indices: 101036907--101036946 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
101036897 GATATTTTTG
***
101036907 ATGATTCATCCATGGTTG
1 ATGATTCATCCATGGAAA
101036925 ATGATTCATCCATGGAAA
1 ATGATTCATCCATGGAAA
101036943 ATGA
1 ATGA
101036947 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (18 bp):
ATGATTCATCCATGGAAA
Found at i:101038070 original size:25 final size:24
Alignment explanation
Indices: 101038028--101038085 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
101038018 CACAAACACA
*
101038028 GCTCTTTATGACCATCCTGATATAG
1 GCTCTTTATGAACATCCTGATAT-G
* *
101038053 GCTCTTTTTGAACTTCCTGATATG
1 GCTCTTTATGAACATCCTGATATG
101038077 GCTCGTTTA
1 GCTC-TTTA
101038086 AACTTTCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (24 bp):
GCTCTTTATGAACATCCTGATATG
Found at i:101047762 original size:3 final size:3
Alignment explanation
Indices: 101047756--101047789 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
101047746 CGTGTCTTTT
101047756 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101047790 GTCATTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:101050828 original size:13 final size:14
Alignment explanation
Indices: 101050810--101050838 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
101050800 AAATAGATCA
101050810 TAATTTTT-AAATT
1 TAATTTTTAAAATT
101050823 TAATTTTTAAAATT
1 TAATTTTTAAAATT
101050837 TA
1 TA
101050839 CAAATACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTTTAAAATT
Found at i:101051294 original size:5 final size:5
Alignment explanation
Indices: 101051286--101051310 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
101051276 TTCACATTTC
101051286 CCCTG CCCTG CCCTG CCCTG CCCTG
1 CCCTG CCCTG CCCTG CCCTG CCCTG
101051311 GTATCTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.20, T:0.20
Consensus pattern (5 bp):
CCCTG
Found at i:101055516 original size:22 final size:20
Alignment explanation
Indices: 101055457--101055505 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 20
101055447 AAATTAAAAG
101055457 AAATATATAATAATAAGTATTTTA
1 AAAT-TATAATAATAA--A-TTTA
101055481 AAATTATAATAATAAATTTA
1 AAATTATAATAATAAATTTA
101055501 AAATT
1 AAATT
101055506 TTATATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.36
21 1 0.04
23 11 0.44
24 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATTATAATAATAAATTTA
Found at i:101055535 original size:25 final size:25
Alignment explanation
Indices: 101055514--101055560 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
101055504 TTTTATATTA
101055514 ATATTAATATTAAATAAATATAATT
1 ATATTAATATTAAATAAATATAATT
*
101055539 ATATTAATATTTAATAAA-ATAA
1 ATATTAATATTAAATAAATATAA
101055561 AAATCTCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTAATATTAAATAAATATAATT
Found at i:101058025 original size:21 final size:20
Alignment explanation
Indices: 101057973--101058025 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
101057963 CTTGTAGTTA
101057973 TAAAAAAGAAAAAGCTTAAT
1 TAAAAAAGAAAAAGCTTAAT
* *
101057993 TATAATAGAAAATAGCTTAAT
1 TAAAAAAGAAAA-AGCTTAAT
*
101058014 TAAAAAATAAAA
1 TAAAAAAGAAAA
101058026 GAAAAATGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (20 bp):
TAAAAAAGAAAAAGCTTAAT
Found at i:101067118 original size:15 final size:15
Alignment explanation
Indices: 101067098--101067153 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
101067088 ATTCAATATT
101067098 AATATTTTAATAATA
1 AATATTTTAATAATA
*
101067113 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
101067132 AATATATTAATAATA
1 AATATTTTAATAATA
101067147 AATATTT
1 AATATTT
101067154 GGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:101072311 original size:134 final size:131
Alignment explanation
Indices: 101072006--101072454 Score: 393
Period size: 134 Copynumber: 3.4 Consensus size: 131
101071996 TTCCGAAGAG
* * * * * * * *
101072006 ATATTCGATTATTTTGAACAAAAGGGAGATTGCAACCCAGCACGATAAGGCATTATTCCCTGAAT
1 ATATTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCATAATT-CTTGAAT
** * * ** *
101072071 TGCCAAACACTGAACATTTCTTTCGTTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCTGAAG
65 TGCCAAACACTGAACATGCCTTTCGTTTTAAAGAGTTTTTAAAAAACATGAGTGAAAACCTAAAG
*
101072136 GG
130 GA
* * * * * *
101072138 ATCTTCGATCGTTTCGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACAATTCTTGAATT
1 ATATTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCATAATTCTTGAATT
*
101072203 GCCAAACA-TCGAACATCGCCTTT-GTTTTAAAGGGTTTTCTTAAAAAAACATGAGTGAAAACCT
66 GCCAAACACT-GAACAT-GCCTTTCGTTTTAAAGAG-TTT-TT-AAAAAACATGAGTGAAAACCT
101072266 AAAGGA
126 AAAGGA
* * * *
101072272 ATATTCGATTGTTTTGAACAAATGAGAAATCACAGCCCAGCACGATAGGGCATGATTCTCGAATT
1 ATATTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCATAATTCTTGAATT
* * * * * * * *** *
101072337 GTCAAACACCGAGTCTTGCC-TTCGTTTTAAAG-GATTTTTAGAAGACCTGAGTGAAATTTTGAA
66 GCCAAACACTGA-ACATGCCTTTCGTTTTAAAGAG-TTTTTAAAAAACATGAGTGAAAACCTAAA
*
101072400 GGG
129 GGA
* * * * * *
101072403 ATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCA
1 ATATTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCA
101072455 CGATTCCGCG
Statistics
Matches: 255, Mismatches: 54, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
130 1 0.00
131 94 0.37
132 53 0.21
133 8 0.03
134 97 0.38
135 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (131 bp):
ATATTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCATAATTCTTGAATT
GCCAAACACTGAACATGCCTTTCGTTTTAAAGAGTTTTTAAAAAACATGAGTGAAAACCTAAAGG
A
Found at i:101072460 original size:131 final size:131
Alignment explanation
Indices: 101071977--101072508 Score: 485
Period size: 132 Copynumber: 4.0 Consensus size: 131
101071967 TTGCCTCACC
* * * * * * * *
101071977 TTAGAAAATACGAGTGAAATTCCGAAGAGATATTCGATTATTTTGAACAAAAGGGAGATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAATGAGAAATCGCAAC
* ** * * ** *
101072042 CCAGCACGATAAGGCATTATTCCCTGAATTGCCAAACACTGAACATTTCTTTCGTTTTAAA-GAG
66 CCAGCACGATAGGGCACGATTCTC-GAATTGCCAAACACCGAACATCGCCTTCGTTTTAAAGGA-
101072106 TTT
129 TTT
* * ** * * *
101072109 TTAGAAAACGTGAGTGAAATTCTGAAGGGATCTTCGATCGTTTCGAACAAATGAAAAAGCGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAATGAGAAATCGCAAC
* * * * *
101072174 CCAGCACGATAGGGCACAATTCTTGAATTGCCAAACATCGAACATCGCCTTTGTTTTAAAGGGTT
66 CCAGCACGATAGGGCACGATTCTCGAATTGCCAAACACCGAACATCGCCTTCGTTTTAAA-GGAT
101072239 TT
130 TT
* ** * * * *
101072241 CTTAAAAAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAATGAGAAATCACA
1 -TT-AGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAATGAGAAATCGCA
* * * * *
101072306 GCCCAGCACGATAGGGCATGATTCTCGAATTGTCAAACACCGAGTC-TTGCCTTCGTTTTAAAGG
64 ACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAACACCGA-ACATCGCCTTCGTTTTAAAGG
101072370 ATTT
128 ATTT
* * * * * * *
101072374 TTAGAAGACCTGAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAATGAGAAATCGCAAC
* * * * * * *
101072439 CCAGCACGTTAGGGCACGATTCCGCGAATTACCAAATATCAAATC-TCGCCTTCGTTTTAAAGAA
66 CCAGCACGATAGGGCACGATT-CTCGAATTGCCAAACACCGAA-CATCGCCTTCGTTTTAAAGGA
101072503 TTT
129 TTT
101072506 TTA
1 TTA
101072509 AATGAATAAT
Statistics
Matches: 318, Mismatches: 75, Indels: 14
0.78 0.18 0.03
Matches are distributed among these distances:
131 97 0.31
132 112 0.35
133 8 0.03
134 100 0.31
135 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (131 bp):
TTAGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAATGAGAAATCGCAAC
CCAGCACGATAGGGCACGATTCTCGAATTGCCAAACACCGAACATCGCCTTCGTTTTAAAGGATT
T
Found at i:101074305 original size:25 final size:30
Alignment explanation
Indices: 101074242--101074308 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 30
101074232 AAGAGCCTAT
*
101074242 TCAGCCGAACCCTAGCCTCCATTCTTCTTC
1 TCAGCCGAACCCTAGCCTCCATTCTTCTGC
101074272 TCAGCCGAACCCTA-CC-CC-TT-TT-TGC
1 TCAGCCGAACCCTAGCCTCCATTCTTCTGC
101074297 TCAGCCGAACCC
1 TCAGCCGAACCC
101074309 CAAAGGCTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 14 0.39
26 2 0.06
27 2 0.06
28 2 0.06
29 2 0.06
30 14 0.39
ACGTcount: A:0.18, C:0.45, G:0.12, T:0.25
Consensus pattern (30 bp):
TCAGCCGAACCCTAGCCTCCATTCTTCTGC
Found at i:101075632 original size:168 final size:168
Alignment explanation
Indices: 101075292--101075737 Score: 698
Period size: 168 Copynumber: 2.7 Consensus size: 168
101075282 TGTGACTTCG
* * * ** *
101075292 ATCTGCTCCACTGGAGATGAGATCTGTGACCTTCAGCCTACTCCATTAGAACTTTAGGGAGATAG
1 ATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTACAACTTTAGGGAGATAG
** * * *
101075357 GGTGGTGGATT-AATCTGCTTCACTGCAATTTC-GAAAGACAGGATTTTACAATCTTCAGCCTGT
66 GACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCAGCCTGT
* *
101075420 TGCCCTACTACTGAGGAGGTTAAGGCTTGCCTTCTTTG
131 TGCCCTACTACTGAGGAGGTTAAGGCTTGCATTCTTTA
101075458 ATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTACAACTTTAGGGAGATAG
1 ATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTACAACTTTAGGGAGATAG
*
101075523 GACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCGGCCTGT
66 GACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCAGCCTGT
* *
101075588 TGCCCTACTACTTAGGGGGTTAAGGCTTGCATTCTTTA
131 TGCCCTACTACTGAGGAGGTTAAGGCTTGCATTCTTTA
* *
101075626 ATCTGCTCCACTGGATACGAGATCTGCGATCTTCAGCCTACTCCGCTACAACTTTAGGGAAATAG
1 ATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTACAACTTTAGGGAGATAG
* *
101075691 GACGGTGGCTTAAATCTGCTTCAGTGCAACTTCAGGAAGACATGATT
66 GACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATT
101075738 CGCCGTTTTC
Statistics
Matches: 258, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
166 67 0.26
167 20 0.08
168 171 0.66
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (168 bp):
ATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTACAACTTTAGGGAGATAG
GACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCAGCCTGT
TGCCCTACTACTGAGGAGGTTAAGGCTTGCATTCTTTA
Found at i:101075886 original size:133 final size:133
Alignment explanation
Indices: 101075645--101075913 Score: 349
Period size: 133 Copynumber: 2.0 Consensus size: 133
101075635 ACTGGATACG
* * * **
101075645 AGATCTGCGATCTTCAGCCTACTCCGCTACAACTTTAGGGAAATAGGACGGTGGCTTAAATCTGC
1 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAAATAGGACGGTAACTTAAATCTGC
* * * *
101075710 TTCAGTGCAACTTCAGGAAGACATGATTCGCCGTTTTCGATCTGCTCCACTGCAACTTCAGGGAA
66 TTCACTGCAACTTCAGGAAAACAAGATTCGCCGTTTTCGATCTGCTCCACTGCAACTTCAAGGAA
101075775 ACA
131 ACA
* * ** * * *
101075778 AGATCTACAATCTTCAGCTTACTCTACTACAACTTTAGGGAGCTAGGATGGTAATTTAAATTTGC
1 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAAATAGGACGGTAACTTAAATCTGC
* ** * *
101075843 TTCACTGCAACTTCAGGAAAACAAGATTCGTCGTTTTTTATCTGCTCCACTGCAGCTTCAAGGAG
66 TTCACTGCAACTTCAGGAAAACAAGATTCGCCGTTTTCGATCTGCTCCACTGCAACTTCAAGGAA
101075908 ACA
131 ACA
101075911 AGA
1 AGA
101075914 CCTGTAGAAT
Statistics
Matches: 115, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
133 115 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (133 bp):
AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAAATAGGACGGTAACTTAAATCTGC
TTCACTGCAACTTCAGGAAAACAAGATTCGCCGTTTTCGATCTGCTCCACTGCAACTTCAAGGAA
ACA
Found at i:101087934 original size:131 final size:130
Alignment explanation
Indices: 101087451--101087934 Score: 450
Period size: 131 Copynumber: 3.7 Consensus size: 130
101087441 TTGCCTCACC
* * ** * * * *
101087451 TTAGAAAATACGAGTGAAATTCCAAAGAGATATTCGATTATTTTGAACAAAAGGGAGATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* ** * * * *
101087516 CCAGCACGATAGGGTATTATTCCTCGAATTGCCAAACACTGAACATTTCTTTCGTTTTAAA-GAG
66 CCAGCACGATAGGGCACGATT-CTCGAATTGCCAAACAC-GAACATTGCCTTAGTTTTAAAGGAT
101087580 TT
129 TT
* * * ** * * * *
101087582 TTAGAAAACGTGAGTGAAATTCCGAAGGGATCTTCGATCGTTTCGAACAAATGAAAAAGTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* ** * *
101087647 CCAGCACGATAGGGCACAATTCTCGAATTGCCAAACATCGAACAACGCCTTTGTTTTAAACGGTT
66 CCAGCACGATAGGGCACGATTCTCGAATTGCCAAACA-CGAACATTGCCTTAGTTTTAAA-GGAT
101087712 TT
129 TT
* ** * * * **
101087714 CTTAAAAAAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCAC
1 -TT--AGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGC
* * *
101087779 AACCCAGCACGATAGGGCATGATTCTCGAATTGTCAAACACCAAGTC-TTGCCTTAGTTTTAAAG
63 AACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAACACGAA--CATTGCCTTAGTTTTAAAG
101087843 GATTT
126 GATTT
* * * * * *
101087848 TTAGAAGACCTCAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
*
101087913 CCAGCACGTTAGGGCACGATTC
66 CCAGCACGATAGGGCACGATTC
101087935 CGGGAATTAC
Statistics
Matches: 282, Mismatches: 63, Indels: 16
0.78 0.17 0.04
Matches are distributed among these distances:
130 32 0.11
131 139 0.49
132 3 0.01
133 4 0.01
134 8 0.03
135 95 0.34
136 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (130 bp):
TTAGAAAACATGAGTGAAATTCTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGATTCTCGAATTGCCAAACACGAACATTGCCTTAGTTTTAAAGGATTT
Found at i:101089750 original size:30 final size:25
Alignment explanation
Indices: 101089714--101089780 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
101089704 AAGGGCCTAT
*
101089714 TCAGCCGAACCCTAGCCTCCATTCTTCTTC
1 TCAGCCGAACCCTA-CC-CC-TT-TT-TGC
*
101089744 TCAGCCGAATCCTACCCCTTTTTGC
1 TCAGCCGAACCCTACCCCTTTTTGC
101089769 TCAGCCGAACCC
1 TCAGCCGAACCC
101089781 CGAAGGCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 13 0.38
26 2 0.06
27 2 0.06
28 2 0.06
29 2 0.06
30 13 0.38
ACGTcount: A:0.18, C:0.43, G:0.12, T:0.27
Consensus pattern (25 bp):
TCAGCCGAACCCTACCCCTTTTTGC
Found at i:101091081 original size:168 final size:168
Alignment explanation
Indices: 101090763--101091210 Score: 729
Period size: 168 Copynumber: 2.7 Consensus size: 168
101090753 TTGTGACTTC
* * *
101090763 GATCTGCTCCACTGGAGACGAGATCTGTGACCTTCAGCCTATTCCACTACAACTTTAGGGAGATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTACAACTTTAGGGAGATA
* * * * * *
101090828 GTG-TGGTGGATT-AATCTGCTTCACTACAATTTCAGGAAGACAGGATTTTTCAATCTTCAGCCT
66 G-GACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTTGCAATCTTCAGCCT
101090891 GTTGCCCTACTACTTAGGGGGTTAAGGCTTGCCTTCTTT
130 GTTGCCCTACTACTTAGGGGGTTAAGGCTTGCCTTCTTT
101090930 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTACAACTTTAGGGAGATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTACAACTTTAGGGAGATA
101090995 GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTTGCAATCTTCAGCCTG
66 GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTTGCAATCTTCAGCCTG
**
101091060 TTGCCCTACTACTTAGGGGGTTAAGGCTTGTTTTCTTT
131 TTGCCCTACTACTTAGGGGGTTAAGGCTTGCCTTCTTT
* * * * *
101091098 GATTTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTAAAATTTTAGGGAGATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTACAACTTTAGGGAGATA
101091163 GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATT
66 GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATT
101091211 CGACGTTTTC
Statistics
Matches: 263, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
166 1 0.00
167 70 0.27
168 192 0.73
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (168 bp):
GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTACAACTTTAGGGAGATA
GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTTGCAATCTTCAGCCTG
TTGCCCTACTACTTAGGGGGTTAAGGCTTGCCTTCTTT
Found at i:101091267 original size:45 final size:45
Alignment explanation
Indices: 101091176--101091386 Score: 151
Period size: 45 Copynumber: 4.7 Consensus size: 45
101091166 CGGTGGCTTA
* * *
101091176 AATCTGCTTCACTGCAACTTCAGGAAGACATGATTCGACGTTTTC
1 AATCTGCTCCACTGCAACTTCAGGAAGACAAGATTCGACGTCTTC
* *
101091221 AATCTGCTCCACTGTAACTTCAGGGAA-ACAAGA-TCTACGATCTTC
1 AATCTGCTCCACTGCAACTTCA-GGAAGACAAGATTCGACG-TCTTC
* * * * * * ** * * ** *
101091266 AACCTACTCCACTACAATTTTAGGGAGTTAGGA-TGGTGGT-TTA
1 AATCTGCTCCACTGCAACTTCAGGAAGACAAGATTCGACGTCTTC
* * * *
101091309 AATTTGCTTCACTGCAACTTCAGGAAGACAAGATTCGTCGTTTTC
1 AATCTGCTCCACTGCAACTTCAGGAAGACAAGATTCGACGTCTTC
* * *
101091354 GATCTGTTCCACTGCAACTTCAGGGAGACAAGA
1 AATCTGCTCCACTGCAACTTCAGGAAGACAAGA
101091387 CCTGTAGAAT
Statistics
Matches: 122, Mismatches: 39, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
43 24 0.20
44 14 0.11
45 80 0.66
46 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGAAGACAAGATTCGACGTCTTC
Found at i:101091278 original size:168 final size:167
Alignment explanation
Indices: 101090769--101091278 Score: 469
Period size: 168 Copynumber: 3.0 Consensus size: 167
101090759 CTTCGATCTG
* * * * *
101090769 CTCCACTGGAGACGAGATCTGTGACCTTCAGCCTATTCCACTACAACTTTAGGGAGATAGTG-TG
1 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTAAAACTTTAGGGAGATAG-GACG
* * * * ** * *
101090833 GTGGATT-AATCTGCTTCACTACAATTTCAGGAAGACAGGATTTTTCAATCTTCAGCCTGTTGCC
65 GTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTCGCAATCTTCAACCTGCTGCC
**** * ** * *
101090897 CTACTACTTAGGGGGTTAAGGCTTGCCT-TCTTTGATCTG
130 CTACTACTTAGGGAAACAAGGC-T-CGTATCTTCAACCTA
*
101090936 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTACAACTTTAGGGAGATAGGACGG
1 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTAAAACTTTAGGGAGATAGGACGG
* * *
101091001 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTTGCAATCTTCAGCCTGTTGCCC
66 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTCGCAATCTTCAACCTGCTGCCC
**** * * ** ** *
101091066 TACTACTTAGGGGGTTAAGGCTTGTTTTCTTTGATTTG
131 TACTACTTAGGGAAACAAGGCTCG-TATCTTCAACCTA
* * *
101091104 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTAAAATTTTAGGGAGATAGGACGG
1 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTAAAACTTTAGGGAGATAGGACGG
* * *
101091169 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGA-TTCG-ACGTTTTCAATCTGCT-CC
66 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTCGCA-ATCTTCAACCTGCTGCC
* *
101091231 ACT-GTAACTTCAGGGAAACAAGATCTACG-ATCTTCAACCTA
130 -CTACT-ACTT-AGGGAAACAAG-GCT-CGTATCTTCAACCTA
101091272 CTCCACT
1 CTCCACT
101091279 ACAATTTTAG
Statistics
Matches: 298, Mismatches: 35, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
166 5 0.02
167 84 0.28
168 206 0.69
169 2 0.01
170 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (167 bp):
CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTAAAACTTTAGGGAGATAGGACGG
TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTTCGCAATCTTCAACCTGCTGCCC
TACTACTTAGGGAAACAAGGCTCGTATCTTCAACCTA
Found at i:101091359 original size:133 final size:133
Alignment explanation
Indices: 101091118--101091386 Score: 412
Period size: 133 Copynumber: 2.0 Consensus size: 133
101091108 ACTGGAGACG
* * *
101091118 AGATCTGCGATCTTCAGCCTACTCCGCTAAAATTTTAGGGAGATAGGACGGTGGCTTAAATCTGC
1 AGATCTACGATCTTCAACCTACTCCACTAAAATTTTAGGGAGATAGGACGGTGGCTTAAATCTGC
* *
101091183 TTCACTGCAACTTCAGGAAGACATGATTCGACGTTTTCAATCTGCTCCACTGTAACTTCAGGGAA
66 TTCACTGCAACTTCAGGAAGACAAGATTCGACGTTTTCAATCTGCTCCACTGCAACTTCAGGGAA
101091248 ACA
131 ACA
* * * * *
101091251 AGATCTACGATCTTCAACCTACTCCACTACAATTTTAGGGAGTTAGGATGGTGGTTTAAATTTGC
1 AGATCTACGATCTTCAACCTACTCCACTAAAATTTTAGGGAGATAGGACGGTGGCTTAAATCTGC
* * * *
101091316 TTCACTGCAACTTCAGGAAGACAAGATTCGTCGTTTTCGATCTGTTCCACTGCAACTTCAGGGAG
66 TTCACTGCAACTTCAGGAAGACAAGATTCGACGTTTTCAATCTGCTCCACTGCAACTTCAGGGAA
101091381 ACA
131 ACA
101091384 AGA
1 AGA
101091387 CCTGTAGAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 122 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (133 bp):
AGATCTACGATCTTCAACCTACTCCACTAAAATTTTAGGGAGATAGGACGGTGGCTTAAATCTGC
TTCACTGCAACTTCAGGAAGACAAGATTCGACGTTTTCAATCTGCTCCACTGCAACTTCAGGGAA
ACA
Found at i:101091557 original size:14 final size:14
Alignment explanation
Indices: 101091538--101091576 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
101091528 ATGTCAAATA
101091538 ATTAGAATGCTATG
1 ATTAGAATGCTATG
101091552 ATTAGAATGCTATG
1 ATTAGAATGCTATG
101091566 ATTAGAATGCT
1 ATTAGAATGCT
101091577 TATGTCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (14 bp):
ATTAGAATGCTATG
Found at i:101092551 original size:24 final size:25
Alignment explanation
Indices: 101092496--101092545 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
101092486 GTTTGGAAAG
*
101092496 AAAATAAAAGACGTGATCATTTTTT
1 AAAATAAAAAACGTGATCATTTTTT
*
101092521 AAAATAAAAAATGTGAT-ATTTTTT
1 AAAATAAAAAACGTGATCATTTTTT
101092545 A
1 A
101092546 TCATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (25 bp):
AAAATAAAAAACGTGATCATTTTTT
Found at i:101100826 original size:10 final size:10
Alignment explanation
Indices: 101100810--101100853 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
101100800 TGATAAATAC
101100810 AAATAAAGAT
1 AAATAAAGAT
*
101100820 AATTAAAGAT
1 AAATAAAGAT
101100830 AAATAAAGAT
1 AAATAAAGAT
101100840 AAATGAAA-AT
1 AAAT-AAAGAT
101100850 AAAT
1 AAAT
101100854 CTTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 28 0.90
11 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (10 bp):
AAATAAAGAT
Found at i:101100851 original size:20 final size:20
Alignment explanation
Indices: 101100796--101100853 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
101100786 AATTAAATAC
101100796 TAAATGATAAATACAAATAAAGA
1 TAAATGA-AAAT--AAATAAAGA
*
101100819 T-AATTAAAGATAAATAAAGA
1 TAAATGAAA-ATAAATAAAGA
101100839 TAAATGAAAATAAAT
1 TAAATGAAAATAAAT
101100854 CTTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 16 0.52
21 8 0.26
22 6 0.19
23 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.24
Consensus pattern (20 bp):
TAAATGAAAATAAATAAAGA
Found at i:101102486 original size:23 final size:24
Alignment explanation
Indices: 101102447--101102511 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
101102437 TTTTTATTAT
101102447 TAATAAAATAA-ATAAAATTATAAA
1 TAATAAAATAATA-AAAATTATAAA
*
101102471 TAAT-AAATAATAAAAATAATAAA
1 TAATAAAATAATAAAAATTATAAA
*
101102494 -AATAAAACAATAAAAATT
1 TAATAAAATAATAAAAATT
101102512 GGGTTACCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.08
23 28 0.78
24 5 0.14
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
TAATAAAATAATAAAAATTATAAA
Found at i:101102487 original size:16 final size:15
Alignment explanation
Indices: 101102451--101102510 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
101102441 TATTATTAAT
*
101102451 AAAATAAATAAAATTA
1 AAAAT-AATAAAAATA
*
101102467 TAAATAATAAATAATA
1 AAAATAATAAA-AATA
101102483 AAAATAATAAAAAT-
1 AAAATAATAAAAATA
*
101102497 AAAACAATAAAAAT
1 AAAATAATAAAAAT
101102511 TGGGTTACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.33
15 9 0.23
16 17 0.44
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAATAAAAATA
Found at i:101102509 original size:9 final size:9
Alignment explanation
Indices: 101102447--101102498 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 9
101102437 TTTTTATTAT
101102447 TAAT-AAAA
1 TAATAAAAA
101102455 TAAATAAAATTA
1 T-AATAAAA--A
101102467 TAAATAATAAA
1 T-AATAA-AAA
101102478 TAATAAAAA
1 TAATAAAAA
101102487 TAATAAAAA
1 TAATAAAAA
101102496 TAA
1 TAA
101102499 AACAATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 1 0.03
9 18 0.46
10 8 0.21
11 2 0.05
12 8 0.21
13 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
TAATAAAAA
Found at i:101108948 original size:10 final size:10
Alignment explanation
Indices: 101108932--101108975 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
101108922 TGATAAATAC
101108932 AAATAAAGAT
1 AAATAAAGAT
*
101108942 AATTAAAGAT
1 AAATAAAGAT
101108952 AAATAAAGAT
1 AAATAAAGAT
101108962 AAATGAAA-AT
1 AAAT-AAAGAT
101108972 AAAT
1 AAAT
101108976 CCTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 28 0.90
11 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (10 bp):
AAATAAAGAT
Found at i:101108973 original size:20 final size:20
Alignment explanation
Indices: 101108918--101108975 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
101108908 AATTAAATAC
101108918 TAAATGATAAATACAAATAAAGA
1 TAAATGA-AAAT--AAATAAAGA
*
101108941 T-AATTAAAGATAAATAAAGA
1 TAAATGAAA-ATAAATAAAGA
101108961 TAAATGAAAATAAAT
1 TAAATGAAAATAAAT
101108976 CCTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 16 0.52
21 8 0.26
22 6 0.19
23 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.24
Consensus pattern (20 bp):
TAAATGAAAATAAATAAAGA
Found at i:101113763 original size:23 final size:23
Alignment explanation
Indices: 101113723--101113766 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
101113713 AGTCTATATA
101113723 TTTTTAATTTTAAGAATTTAATT
1 TTTTTAATTTTAAGAATTTAATT
101113746 TTTTTATATTTTAA-AATTTAA
1 TTTTTA-ATTTTAAGAATTTAA
101113767 ATCAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTAATTTTAAGAATTTAATT
Found at i:101113809 original size:21 final size:23
Alignment explanation
Indices: 101113785--101113830 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
101113775 TATTAATTTT
* *
101113785 TTTTAAATTAT-TAG-TATAATA
1 TTTTAAAATATCTAGATAAAATA
101113806 TTTTAAAATATCTAGATAAAATA
1 TTTTAAAATATCTAGATAAAATA
101113829 TT
1 TT
101113831 ATAATATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 3 0.14
23 8 0.38
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
TTTTAAAATATCTAGATAAAATA
Found at i:101114303 original size:22 final size:21
Alignment explanation
Indices: 101114258--101114299 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
101114248 ATTGTATTTT
*
101114258 TTTTTATTTTTAAAATCTTAA
1 TTTTTATTTTCAAAATCTTAA
101114279 TTTTTATATTTCAAAAT-TTAA
1 TTTTTAT-TTTCAAAATCTTAA
101114300 ATTTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTATTTTCAAAATCTTAA
Found at i:101119793 original size:9 final size:9
Alignment explanation
Indices: 101119779--101119837 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
101119769 GATGGAGCCC
101119779 CCTCCTCCA
1 CCTCCTCCA
*
101119788 CCTCCTCCT
1 CCTCCTCCA
* *
101119797 CCGCCTCCG
1 CCTCCTCCA
*
101119806 CCTCCCCCA
1 CCTCCTCCA
*
101119815 CCTCC-GC-
1 CCTCCTCCA
101119822 CC-CCTCCA
1 CCTCCTCCA
101119830 CCTCCTCC
1 CCTCCTCC
101119838 GGCACTTGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
8 3 0.08
9 31 0.79
ACGTcount: A:0.05, C:0.71, G:0.05, T:0.19
Consensus pattern (9 bp):
CCTCCTCCA
Found at i:101119809 original size:15 final size:15
Alignment explanation
Indices: 101119779--101119834 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
101119769 GATGGAGCCC
101119779 CCTCCTCCACCT---
1 CCTCCTCCACCTCCG
*
101119791 CCTCCTCCGCCTCCG
1 CCTCCTCCACCTCCG
*
101119806 CCTCCCCCACCTCCG
1 CCTCCTCCACCTCCG
*
101119821 CCCCCTCCACCTCC
1 CCTCCTCCACCTCC
101119835 TCCGGCACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 11 0.31
15 25 0.69
ACGTcount: A:0.05, C:0.71, G:0.05, T:0.18
Consensus pattern (15 bp):
CCTCCTCCACCTCCG
Found at i:101129231 original size:24 final size:25
Alignment explanation
Indices: 101129182--101129232 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
101129172 TTTTTGAATT
*
101129182 TATTTATTTTTAAAATTATAATTAA
1 TATTTATTTTTAAAATAATAATTAA
101129207 TATTTATTTTTAAAATAATAA-TAA
1 TATTTATTTTTAAAATAATAATTAA
101129231 TA
1 TA
101129233 ATAATAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTATTTTTAAAATAATAATTAA
Found at i:101131291 original size:351 final size:351
Alignment explanation
Indices: 101130648--101131338 Score: 1292
Period size: 351 Copynumber: 2.0 Consensus size: 351
101130638 TGACATTTGC
101130648 AATATTGCGTAAAACAAGAAAGAGGAAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
1 AATATTGCGTAAAACAAGAAAGAGGAAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
*
101130713 TACACTAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
66 TACACAAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
* **
101130778 CACCAGGCTCAGGTATGTTGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
131 CACCAGGCTCAGGTACGGCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
*
101130843 ACTGTATGATAAGTCGATTAAAGTGATCGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
196 ACTGTATGATAAGTCGATTAAAGTGATAGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
* *
101130908 TTAATTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGATCAGCTCCTAT
261 TTAACTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTCCTAT
101130973 AATTTAATTCTTTGAGTAGCTCCTAT
326 AATTTAATTCTTTGAGTAGCTCCTAT
*
101130999 AATATTGCGTAAAACAAGAAAGAGGCAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
1 AATATTGCGTAAAACAAGAAAGAGGAAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
101131064 TACACAAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
66 TACACAAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
*
101131129 CTCCAGGCTCAGGTACGGCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
131 CACCAGGCTCAGGTACGGCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
*
101131194 ACTGTATGATAAGTCGATTAAAGTGATATGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
196 ACTGTATGATAAGTCGATTAAAGTGATAGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
101131259 TTAACTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTCCTAT
261 TTAACTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTCCTAT
101131324 AATTTAATTCTTTGA
326 AATTTAATTCTTTGA
101131339 CAGCCTTACG
Statistics
Matches: 330, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
351 330 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (351 bp):
AATATTGCGTAAAACAAGAAAGAGGAAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
TACACAAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
CACCAGGCTCAGGTACGGCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
ACTGTATGATAAGTCGATTAAAGTGATAGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
TTAACTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTCCTAT
AATTTAATTCTTTGAGTAGCTCCTAT
Found at i:101135510 original size:21 final size:21
Alignment explanation
Indices: 101135484--101135526 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
101135474 CTATAATGTA
101135484 ACTTAATATTAGTTAAACTTT
1 ACTTAATATTAGTTAAACTTT
101135505 ACTTAATATTAGTTAAACTTT
1 ACTTAATATTAGTTAAACTTT
101135526 A
1 A
101135527 GGTAACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (21 bp):
ACTTAATATTAGTTAAACTTT
Found at i:101135618 original size:25 final size:27
Alignment explanation
Indices: 101135589--101135644 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
101135579 ACATAAAAAT
*
101135589 AATAATAATAA-CA-TTTATTTATTTC
1 AATAATAATAATCAGTTTAATTATTTC
*
101135614 TAT-A-AATAATCAGTTTAATTATTTC
1 AATAATAATAATCAGTTTAATTATTTC
101135639 AATAAT
1 AATAAT
101135645 TTATCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
23 5 0.21
24 3 0.12
25 15 0.62
26 1 0.04
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (27 bp):
AATAATAATAATCAGTTTAATTATTTC
Found at i:101138755 original size:21 final size:22
Alignment explanation
Indices: 101138724--101138766 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
101138714 ATATTCAGAC
* *
101138724 GAGTGATACTCCACAGCAGGTG
1 GAGTGATACTCCAAAACAGGTG
101138746 GAGTG-TACTCCAAAACAGGTG
1 GAGTGATACTCCAAAACAGGTG
101138767 AAGTTTGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (22 bp):
GAGTGATACTCCAAAACAGGTG
Found at i:101142374 original size:20 final size:20
Alignment explanation
Indices: 101142349--101142388 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
101142339 TAAGTTAAAA
101142349 AGCAATGGTTGTAGGTTGAG
1 AGCAATGGTTGTAGGTTGAG
101142369 AGCAATGGTTGTAGGTTGAG
1 AGCAATGGTTGTAGGTTGAG
101142389 TGTCCTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.40, T:0.30
Consensus pattern (20 bp):
AGCAATGGTTGTAGGTTGAG
Found at i:101155775 original size:23 final size:22
Alignment explanation
Indices: 101155742--101155814 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 22
101155732 AATTATAGTA
*
101155742 TTGCACCGAAGTGTCACTTTCAT
1 TTGCA-CGAAGTGCCACTTTCAT
*
101155765 TTGCACAGAAGTGCCACATTTCAA
1 TTGCAC-GAAGTGCCAC-TTTCAT
*
101155789 TTGCATCGAAGTGCCGCTTTCAT
1 TTGCA-CGAAGTGCCACTTTCAT
101155812 TTG
1 TTG
101155815 TGCGCATAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.02
23 22 0.51
24 19 0.44
25 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (22 bp):
TTGCACGAAGTGCCACTTTCAT
Found at i:101159473 original size:5 final size:5
Alignment explanation
Indices: 101159450--101159526 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
101159440 ATAAATAAAT
* * * *
101159450 AAAAG AAATG AAATA- AAAAG AAAAG AAACG AAACG AAACAA AGAAAG
1 AAAAG AAAAG AAA-AG AAAAG AAAAG AAAAG AAAAG AAA-AG A-AAAG
*
101159497 AATAG -AAAG AAAAG AGAAAG AGAAAG AAAA
1 AAAAG AAAAG AAAAG A-AAAG A-AAAG AAAA
101159527 AGGGGAAAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
4 4 0.07
5 38 0.66
6 14 0.24
7 2 0.03
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:101160550 original size:19 final size:19
Alignment explanation
Indices: 101160521--101160570 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
101160511 TGTCATGATT
101160521 GATATTGAATAGTGAAATGA
1 GATA-TGAATAGTGAAATGA
101160541 GATATGAATAGTGAAATGA
1 GATATGAATAGTGAAATGA
*
101160560 GATATGGATAG
1 GATATGAATAG
101160571 AGATACATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 25 0.86
20 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (19 bp):
GATATGAATAGTGAAATGA
Found at i:101165158 original size:19 final size:20
Alignment explanation
Indices: 101165121--101165161 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
101165111 TACAACACAA
*
101165121 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
101165141 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
101165160 TT
1 TT
101165162 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:101165595 original size:12 final size:12
Alignment explanation
Indices: 101165580--101165647 Score: 59
Period size: 12 Copynumber: 5.5 Consensus size: 12
101165570 GCTTCTTTCC
101165580 TTCTTTCTCTTT
1 TTCTTTCTCTTT
101165592 TTCTTTCT-TTCT
1 TTCTTTCTCTT-T
101165604 TTCTTT-TCTTT
1 TTCTTTCTCTTT
* *
101165615 CTTATTTTTGCTTT
1 -TTCTTTCT-CTTT
*
101165629 TGTCTTTCTCTAT
1 T-TCTTTCTCTTT
101165642 TTCTTT
1 TTCTTT
101165648 TACTTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.09
12 27 0.59
13 6 0.13
14 9 0.20
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (12 bp):
TTCTTTCTCTTT
Found at i:101165597 original size:20 final size:21
Alignment explanation
Indices: 101165572--101165617 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
101165562 GTGCGTCTGC
101165572 TTCTTTCCTTCTTTCTCTT-T
1 TTCTTTCCTTCTTTCTCTTCT
* *
101165592 TTCTTTCTTTCTTTCTTTTCT
1 TTCTTTCCTTCTTTCTCTTCT
101165613 TTCTT
1 TTCTT
101165618 ATTTTTGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTCCTTCTTTCTCTTCT
Found at i:101165598 original size:4 final size:4
Alignment explanation
Indices: 101165572--101165617 Score: 58
Period size: 4 Copynumber: 11.2 Consensus size: 4
101165562 GTGCGTCTGC
*
101165572 TTCT TTCC TTCT TTCT CTT-T TTCT TTCT TTCT TTCTT TTCT TTCT T
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTC-T TTCT TTCT T
101165618 ATTTTTGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 2 0.05
4 29 0.78
5 6 0.16
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:101165634 original size:21 final size:19
Alignment explanation
Indices: 101165572--101165643 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 19
101165562 GTGCGTCTGC
* *
101165572 TTCTTTCCTTCTTTCTCTTT
1 TTCTTT-CTTATTTTTCTTT
*
101165592 TTCTTTCTT-TCTTTC-TT
1 TTCTTTCTTATTTTTCTTT
101165609 TTCTTTCTTATTTTTGCTTT
1 TTCTTTCTTATTTTT-CTTT
101165629 TGTCTTTCTCTATTT
1 T-TCTTTCT-TATTT
101165644 CTTTTACTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
17 11 0.25
18 8 0.18
19 4 0.09
20 9 0.20
21 7 0.16
22 5 0.11
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (19 bp):
TTCTTTCTTATTTTTCTTT
Found at i:101167455 original size:21 final size:20
Alignment explanation
Indices: 101167431--101167480 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
101167421 AATCTTAGAC
*
101167431 TAAAATTTATTAGAAAATCTA
1 TAAAATTTATTAAAAAATC-A
* *
101167452 TAAAAATAATTAAAAAATCA
1 TAAAATTTATTAAAAAATCA
*
101167472 TAAATTTTA
1 TAAAATTTA
101167481 AAAACTATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAATTTATTAAAAAATCA
Found at i:101173600 original size:49 final size:49
Alignment explanation
Indices: 101173542--101173637 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
101173532 AATCAATAAC
*
101173542 AGTAAAATTACTTTTTATCCTTCCAAAAATGATAAGAAATTAATTTAAT
1 AGTAAAATTACTTTTTATCCTTCCAAAAATAATAAGAAATTAATTTAAT
* *
101173591 AGTAAAATTACTTTTTGTCCTTTCAAAAATAATAAGAAATTAATTTA
1 AGTAAAATTACTTTTTATCCTTCCAAAAATAATAAGAAATTAATTTA
101173638 CTCCTTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (49 bp):
AGTAAAATTACTTTTTATCCTTCCAAAAATAATAAGAAATTAATTTAAT
Found at i:101175699 original size:23 final size:23
Alignment explanation
Indices: 101175665--101175710 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
101175655 AAACAAACAC
*
101175665 TGGAAAATCAGGAAAATATTTTT
1 TGGAAAACCAGGAAAATATTTTT
101175688 TGGAAAACCAGGAAAATATTTTT
1 TGGAAAACCAGGAAAATATTTTT
101175711 CGTAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (23 bp):
TGGAAAACCAGGAAAATATTTTT
Found at i:101175717 original size:23 final size:23
Alignment explanation
Indices: 101175666--101175717 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
101175656 AACAAACACT
* *
101175666 GGAAAATCAGGAAAATATTTTTT
1 GGAAAACCAGGAAAATATTTTTC
101175689 GGAAAACCAGGAAAATATTTTTC
1 GGAAAACCAGGAAAATATTTTTC
*
101175712 GTAAAA
1 GGAAAA
101175718 TATTTTCCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (23 bp):
GGAAAACCAGGAAAATATTTTTC
Found at i:101182441 original size:22 final size:24
Alignment explanation
Indices: 101182416--101182462 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
101182406 GAGTGCCAAG
101182416 TGTGTGATAAA-AATA-AAATACA
1 TGTGTGATAAATAATATAAATACA
*
101182438 TGTGTGATAAATAATATACATACA
1 TGTGTGATAAATAATATAAATACA
101182462 T
1 T
101182463 TTGTAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (24 bp):
TGTGTGATAAATAATATAAATACA
Found at i:101182449 original size:20 final size:21
Alignment explanation
Indices: 101182416--101182458 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
101182406 GAGTGCCAAG
101182416 TGTGTGATAAAAATAAAATACA
1 TGTGTGAT-AAAATAAAATACA
*
101182438 TGTGTGAT-AAATAATATACA
1 TGTGTGATAAAATAAAATACA
101182458 T
1 T
101182459 ACATTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
TGTGTGATAAAATAAAATACA
Found at i:101184055 original size:53 final size:53
Alignment explanation
Indices: 101183994--101184114 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
101183984 TACTGTTAAC
* * *
101183994 GTTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTTCTCTGTGTACCGTACT
1 GTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTATGTACCGTACT
* *
101184047 GTTACTGTTACCGTTCCGGATTTGTTCTGATGAGGTACTCTATGTACCGTACT
1 GTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTATGTACCGTACT
*
101184100 GCTACTGTTACTGTT
1 GTTACTGTTACTGTT
101184115 ACTGTTCCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (53 bp):
GTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTATGTACCGTACT
Found at i:101184057 original size:59 final size:59
Alignment explanation
Indices: 101183984--101184123 Score: 177
Period size: 53 Copynumber: 2.5 Consensus size: 59
101183974 CGGATATTGT
* * *
101183984 TACTGTTAAC-GTTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTTCTCTGTGTACCG
1 TACTGTT-ACTGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTATGTACCG
*
101184043 TACTGTTACTGTTAC-----C-GTTCCGGATTTGTTCTGATGAGGTACTCTATGTACCG
1 TACTGTTACTGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTATGTACCG
*
101184096 TACTGCTACTGTTACTGTTACTGTTCCG
1 TACTGTTACTGTTACTGTTACTGTTCCG
101184124 ACTTCGGCCG
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
53 47 0.68
54 1 0.01
58 3 0.04
59 18 0.26
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (59 bp):
TACTGTTACTGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTATGTACCG
Found at i:101184296 original size:18 final size:18
Alignment explanation
Indices: 101184236--101184396 Score: 94
Period size: 18 Copynumber: 8.5 Consensus size: 18
101184226 AAAGATCGAC
*
101184236 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
*
101184255 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAAT-TGAT
* *
101184273 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
101184291 TGTTACTGGATAACCGATCAATTGAT
1 TGTTACT-G---A---AT-AATTGAT
* *
101184317 TGATACTGAATAACTGAT
1 TGTTACTGAATAATTGAT
* *
101184335 TATTATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* *
101184353 TGTTACCGAATAACTG-T
1 TGTTACTGAATAATTGAT
* *
101184370 CTGTTACTGAATAAATAAT
1 -TGTTACTGAATAATTGAT
101184389 TGTT-CTGA
1 TGTTACTGA
101184397 TTGATTAATT
Statistics
Matches: 110, Mismatches: 20, Indels: 26
0.71 0.13 0.17
Matches are distributed among these distances:
17 6 0.05
18 71 0.65
19 16 0.15
22 2 0.02
25 3 0.03
26 12 0.11
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:101187561 original size:16 final size:16
Alignment explanation
Indices: 101187542--101187574 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
101187532 AATTTAAAGA
101187542 TATGCTAATTGGCTTT
1 TATGCTAATTGGCTTT
101187558 TATGCTAATTGGCTTT
1 TATGCTAATTGGCTTT
101187574 T
1 T
101187575 TTACTCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (16 bp):
TATGCTAATTGGCTTT
Found at i:101190463 original size:42 final size:42
Alignment explanation
Indices: 101190402--101190517 Score: 164
Period size: 42 Copynumber: 2.8 Consensus size: 42
101190392 CTTCGTTTTC
* *
101190402 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCCCATA-A
1 TCGATGCCATAGTCCAACTATGGTCTTACACATATT--CATATA
*
101190445 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGTCCAACTATGGTCTTACACATATTCATATA
*
101190486 TCGATGCCATAGTCCAGCTATGGTCTTACACA
1 TCGATGCCATAGTCCAACTATGGTCTTACACA
101190518 AATCACATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
40 4 0.06
41 2 0.03
42 59 0.89
43 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGTCCAACTATGGTCTTACACATATTCATATA
Found at i:101190670 original size:31 final size:31
Alignment explanation
Indices: 101190635--101190783 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
101190625 CTTGTCACTT
* *
101190635 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* * *
101190666 GTAGCCGAAACTACCACTTTTCACTGATTAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
101190697 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
101190728 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
101190759 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
101190784 TGTCATTTGT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:101196636 original size:9 final size:9
Alignment explanation
Indices: 101196618--101196665 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
101196608 TGTCAGGTTC
*
101196618 TTTTATTTT
1 TTTTACTTT
101196627 TTTTACTTT
1 TTTTACTTT
101196636 TTTTACTTT
1 TTTTACTTT
*
101196645 TTTAAC-TT
1 TTTTACTTT
101196653 TTTTACTTT
1 TTTTACTTT
101196662 TTTT
1 TTTT
101196666 CTTATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTACTTT
Found at i:101196750 original size:36 final size:36
Alignment explanation
Indices: 101196681--101196754 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
101196671 ATTTTGTCTC
*
101196681 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
101196718 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
101196754 T
1 T
101196755 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:101196759 original size:18 final size:17
Alignment explanation
Indices: 101196708--101196755 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
101196698 TTTTTTAAGT
*
101196708 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
101196726 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
101196744 TTTATATTATTA
1 TTTATATTATTA
101196756 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:101196893 original size:37 final size:37
Alignment explanation
Indices: 101196852--101196923 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
101196842 TTTATATATA
*
101196852 TATTTGTGAAATTAATTATTTATAAA-TTTTAAAAATG
1 TATTTGTCAAATTAATTATTTA-AAATTTTTAAAAATG
* *
101196889 TATTTTTCAAATTAATTTTTTAAAATTTTTAAAAA
1 TATTTGTCAAATTAATTATTTAAAATTTTTAAAAA
101196924 ATAATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 3 0.10
37 28 0.90
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
TATTTGTCAAATTAATTATTTAAAATTTTTAAAAATG
Found at i:101197612 original size:10 final size:9
Alignment explanation
Indices: 101197594--101197641 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
101197584 TAAAATTTAA
101197594 AAAATATTT
1 AAAATATTT
101197603 AAAATCATTT
1 AAAAT-ATTT
*
101197613 AAAATATTAA
1 AAAATATT-T
101197623 AAAATATTT
1 AAAATATTT
*
101197632 TAAATCATTT
1 AAAAT-ATTT
101197642 TACATGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 12 0.36
10 21 0.64
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:101197622 original size:29 final size:28
Alignment explanation
Indices: 101197584--101197641 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
101197574 AAATTCTATG
101197584 TAAAATTTAAAAAATATTTAAAATCATT
1 TAAAATTTAAAAAATATTTAAAATCATT
*
101197612 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAAT-TTAAAAAATATTTAAAATCATT
101197641 T
1 T
101197642 TACATGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAAATTTAAAAAATATTTAAAATCATT
Found at i:101197691 original size:19 final size:19
Alignment explanation
Indices: 101197667--101197703 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
101197657 TTTTATAATA
101197667 TTAAAAACAT-ATTTAAAAT
1 TTAAAAA-ATAATTTAAAAT
101197686 TTAAAAAATAATTTAAAA
1 TTAAAAAATAATTTAAAA
101197704 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAAAAAATAATTTAAAAT
Found at i:101201292 original size:30 final size:30
Alignment explanation
Indices: 101201204--101201296 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
101201194 GGTCAAATGG
* * * *
101201204 ACTCAAACCGCCTATATCCGGGTGATATGA
1 ACTCGAACCACCTATGTCCAGGTGATATGA
* *
101201234 ACTCGAACCACCCATGT-CTGAGTGATATGA
1 ACTCGAACCACCTATGTCCAG-GTGATATGA
*
101201264 ACTCGAACCACCTATGTCCAGGTTATATGA
1 ACTCGAACCACCTATGTCCAGGTGATATGA
101201294 ACT
1 ACT
101201297 GCTCTGGGAC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 2 0.04
30 49 0.92
31 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (30 bp):
ACTCGAACCACCTATGTCCAGGTGATATGA
Found at i:101204182 original size:27 final size:28
Alignment explanation
Indices: 101204144--101204203 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
101204134 GTCAAAATAA
* *
101204144 TAAAATATATATTTA-ATATATATTTTT
1 TAAAATATATATTTATATATAAATTTAT
* *
101204171 TAAAATTTATATTTATATTTAAATTTAT
1 TAAAATATATATTTATATATAAATTTAT
101204199 TAAAA
1 TAAAA
101204204 ATCACATCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAAATATATATTTATATATAAATTTAT
Found at i:101204194 original size:18 final size:18
Alignment explanation
Indices: 101204151--101204198 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
101204141 TAATAAAATA
*
101204151 TATATTT-AATATATATT
1 TATATTTAAATTTATATT
*
101204168 T-T-TTAAAATTTATATT
1 TATATTTAAATTTATATT
101204184 TATATTTAAATTTAT
1 TATATTTAAATTTAT
101204199 TAAAAATCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 11 0.44
17 2 0.08
18 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTAAATTTATATT
Found at i:101204378 original size:23 final size:24
Alignment explanation
Indices: 101204327--101204378 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
101204317 TTTAAAATTG
* * *
101204327 TAAAAAATATATTATAAAATATTT
1 TAAAATATACATTACAAAATATTT
101204351 T-AAATATACATTACAAAAT-TTT
1 TAAAATATACATTACAAAATATTT
101204373 TAAAAT
1 TAAAAT
101204379 TAATAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 19 0.79
24 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAATATACATTACAAAATATTT
Found at i:101204727 original size:11 final size:11
Alignment explanation
Indices: 101204687--101204729 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
101204677 AAAAAGAAAA
101204687 AATATATATTT
1 AATATATATTT
* **
101204698 AATATTTATAA
1 AATATATATTT
101204709 AATA-ATATTT
1 AATATATATTT
101204719 AATATATATTT
1 AATATATATTT
101204730 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AATATATATTT
Found at i:101204746 original size:18 final size:18
Alignment explanation
Indices: 101204713--101204761 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
101204703 TTATAAAATA
*
101204713 ATATTT-AATATATATTT
1 ATATTTAAATTTATATTT
*
101204730 -TTTTTAAAATTTATATTT
1 ATATTT-AAATTTATATTT
101204748 ATATTTAAATTTAT
1 ATATTTAAATTTAT
101204762 TAATAGTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.15
18 18 0.69
19 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTAAATTTATATTT
Found at i:101204764 original size:28 final size:27
Alignment explanation
Indices: 101204691--101204764 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
101204681 AGAAAAAATA
101204691 TATATTTAATATTTA-TAAAATAATATT
1 TATATTTAA-ATTTATTAAAATAATATT
* ** * *
101204718 TAATATATATTTTTTTTAAAATTTATATT
1 T-ATATTTAAATTTATTAAAA-TAATATT
101204747 TATATTTAAATTTATTAA
1 TATATTTAAATTTATTAA
101204765 TAGTCACATC
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
27 4 0.11
28 24 0.69
29 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TATATTTAAATTTATTAAAATAATATT
Found at i:101204968 original size:13 final size:12
Alignment explanation
Indices: 101204936--101204975 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
101204926 TTATAAAACT
101204936 AATAATTTTAAA
1 AATAATTTTAAA
*
101204948 ACTAATTTTAAA
1 AATAATTTTAAA
*
101204960 AATACATTTTTAA
1 AATA-ATTTTAAA
101204973 AAT
1 AAT
101204976 TTATAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (12 bp):
AATAATTTTAAA
Found at i:101205063 original size:21 final size:23
Alignment explanation
Indices: 101205023--101205082 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
101205013 TAAAAAATAT
*
101205023 TTTTAAAAATAATA--ATTAAA-A
1 TTTTAAAAA-AATATTATAAAACA
101205044 TTTTAAAAAAATATTATAAAACA
1 TTTTAAAAAAATATTATAAAACA
* *
101205067 TTTTAAATATATATTA
1 TTTTAAAAAAATATTA
101205083 CAATTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 9 0.27
22 5 0.15
23 15 0.45
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTTAAAAAAATATTATAAAACA
Found at i:101205139 original size:36 final size:37
Alignment explanation
Indices: 101205099--101205172 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
101205089 TTTTAAAATT
*
101205099 AATAATAT-AAA-TTAAATAAGTAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
101205135 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
101205172 A
1 A
101205173 GAGAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:101205144 original size:18 final size:18
Alignment explanation
Indices: 101205094--101205145 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
101205084 AATTTTTTTA
*
101205094 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
101205112 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
101205130 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
101205146 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:101205179 original size:19 final size:18
Alignment explanation
Indices: 101205153--101205190 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
101205143 AAAACTTAAA
*
101205153 AAAGA-AAAAAATCTAAG
1 AAAGAGAAAAAATATAAG
101205170 AAAGAGAAAAAATATAAG
1 AAAGAGAAAAAATATAAG
101205188 AAA
1 AAA
101205191 AAAAGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.11
Consensus pattern (18 bp):
AAAGAGAAAAAATATAAG
Found at i:101205209 original size:18 final size:18
Alignment explanation
Indices: 101205150--101205212 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
101205140 TATAAAACTT
*
101205150 AAAAAAGAAAAAAATCTAA
1 AAAAAAG-AAAAAATATAA
* *
101205169 GAAAGAGAAAAAATATAAGA
1 AAAAAAGAAAAAATAT-A-A
101205189 AAAAAAGTAAAAAAT-TAA
1 AAAAAAG-AAAAAATATAA
101205207 AAAAAA
1 AAAAAA
101205213 CAAATAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 15 0.42
19 7 0.19
20 7 0.19
21 7 0.19
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.11
Consensus pattern (18 bp):
AAAAAAGAAAAAATATAA
Found at i:101214789 original size:18 final size:20
Alignment explanation
Indices: 101214729--101214790 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
101214719 ATTTATTTTT
*
101214729 TTAAATATTATTAAAAT-TC
1 TTAAATATAATTAAAATATC
* *
101214748 ATAAATATAATTAAAA-ATAG
1 TTAAATATAATTAAAATAT-C
101214768 TTAAA-A-AATTAAAATATC
1 TTAAATATAATTAAAATATC
101214786 TTAAA
1 TTAAA
101214791 CCGTTTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 13 0.37
19 18 0.51
20 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (20 bp):
TTAAATATAATTAAAATATC
Found at i:101217879 original size:3 final size:3
Alignment explanation
Indices: 101217871--101217905 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
101217861 GGCGCCCCAA
101217871 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
101217906 GACAATATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:101222064 original size:31 final size:31
Alignment explanation
Indices: 101222040--101222103 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
101222030 TAAAAGAGTA
101222040 AAACAACATAATTAAAAAGATTAAAAACAAC
1 AAACAACATAATTAAAAAGATTAAAAACAAC
101222071 AAACAACATAATTAAAAAGATTAAAAACAAC
1 AAACAACATAATTAAAAAGATTAAAAACAAC
101222102 AA
1 AA
101222104 TGTTCCTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.69, C:0.12, G:0.03, T:0.16
Consensus pattern (31 bp):
AAACAACATAATTAAAAAGATTAAAAACAAC
Found at i:101223105 original size:22 final size:21
Alignment explanation
Indices: 101223075--101223153 Score: 88
Period size: 22 Copynumber: 3.7 Consensus size: 21
101223065 TCCCTAAATA
101223075 ATTATACAGAGAATTTCAAACG
1 ATTATACAGA-AATTTCAAACG
* *
101223097 ATTACACAGAAATTT-AAACA
1 ATTATACAGAAATTTCAAACG
* *
101223117 ATTATACAAAGAATTTCATACG
1 ATTATACAGA-AATTTCAAACG
*
101223139 ATTAGACAGAAATTT
1 ATTATACAGAAATTT
101223154 AAGAAGGTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
20 12 0.26
21 15 0.32
22 20 0.43
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (21 bp):
ATTATACAGAAATTTCAAACG
Found at i:101223107 original size:20 final size:20
Alignment explanation
Indices: 101223079--101223149 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
101223069 TAAATAATTA
*
101223079 TACAGAGAATTTCAAACGAT
1 TACACAGAATTTCAAACGAT
*
101223099 TACACAGAAATTT-AAACAATT
1 TACACAG-AATTTCAAACGA-T
* *
101223120 ATACAAAGAATTTCATACGAT
1 -TACACAGAATTTCAAACGAT
*
101223141 TAGACAGAA
1 TACACAGAA
101223150 ATTTAAGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
20 18 0.45
21 12 0.30
22 10 0.25
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.25
Consensus pattern (20 bp):
TACACAGAATTTCAAACGAT
Found at i:101223133 original size:42 final size:42
Alignment explanation
Indices: 101223069--101223155 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
101223059 TCCATCTCCC
* *
101223069 TAAATAATTATACAGAGAATTTCAAACGATTACACAGAAATT
1 TAAACAATTATACAAAGAATTTCAAACGATTACACAGAAATT
* *
101223111 TAAACAATTATACAAAGAATTTCATACGATTAGACAGAAATT
1 TAAACAATTATACAAAGAATTTCAAACGATTACACAGAAATT
101223153 TAA
1 TAA
101223156 GAAGGTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (42 bp):
TAAACAATTATACAAAGAATTTCAAACGATTACACAGAAATT
Found at i:101224967 original size:13 final size:13
Alignment explanation
Indices: 101224949--101225012 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
101224939 AGTTTGGTAA
101224949 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
101224962 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
101224975 TGC-TATGAAAAAG
1 TGCTTTTG-AAAAG
* * *
101224988 TGTTTTTTAGAAG
1 TGCTTTTGAAAAG
101225001 TGCTTTTGAAAA
1 TGCTTTTGAAAA
101225013 ATTTGATTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 3 0.07
13 36 0.88
14 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:101237576 original size:18 final size:18
Alignment explanation
Indices: 101237521--101237577 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
101237511 CCCAACTACT
* *
101237521 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
* *
101237539 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
101237557 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
101237575 GTA
1 GTA
101237578 AACGGTCGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:101246047 original size:29 final size:29
Alignment explanation
Indices: 101245991--101246049 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
101245981 TGTTAACTAT
*
101245991 TTAAACTAATTAATAACATCATACAAATA
1 TTAAACTAATTAATAACATCATAAAAATA
101246020 TTAAACTAATTAATAACA-CTATAAAAATA
1 TTAAACTAATTAATAACATC-ATAAAAATA
101246049 T
1 T
101246050 AAAAAATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (29 bp):
TTAAACTAATTAATAACATCATAAAAATA
Found at i:101246063 original size:7 final size:7
Alignment explanation
Indices: 101246053--101246083 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
101246043 AAAATATAAA
101246053 AAATTAG
1 AAATTAG
101246060 AAATTAG
1 AAATTAG
101246067 AAATTAG
1 AAATTAG
101246074 AAATTA-
1 AAATTAG
101246080 AAAT
1 AAAT
101246084 ATAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (7 bp):
AAATTAG
Found at i:101246072 original size:14 final size:13
Alignment explanation
Indices: 101246052--101246096 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 13
101246042 AAAAATATAA
101246052 AAAATTAGAAATT
1 AAAATTAGAAATT
101246065 AGAAATTAGAAATT
1 A-AAATTAGAAATT
*
101246079 AAAA-TATAAATT
1 AAAATTAGAAATT
*
101246091 TAAATT
1 AAAATT
101246097 TAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 5 0.18
14 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
AAAATTAGAAATT
Found at i:101255357 original size:26 final size:24
Alignment explanation
Indices: 101255320--101255373 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
101255310 CGAATTTCAT
*
101255320 ATATTTTTAT-AAAATAATAATATA
1 ATATTTTTATAAAAATAA-AATAAA
101255344 ATATTTTATCATAAAAATAAAATAAA
1 ATATTTT-T-ATAAAAATAAAATAAA
101255370 ATAT
1 ATAT
101255374 CATGAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 1 0.04
26 11 0.42
27 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATTTTTATAAAAATAAAATAAA
Found at i:101262543 original size:53 final size:51
Alignment explanation
Indices: 101262402--101262556 Score: 177
Period size: 52 Copynumber: 3.0 Consensus size: 51
101262392 TGACGGAAAA
*
101262402 GATGTGATATATGTTCCTGTATAAGACCATAGT-TGGGCTATGGCATTAGTGC
1 GATGTGATATATGTTCC-GTATAAGACCATA-TCTGGGCTATGGCATCAGTGC
* * * * * *
101262454 AATATGATATGTGTTCCCGTATAAGACCATAACTGGGCTATGGCATCGGTGT
1 GATGTGATATATGTT-CCGTATAAGACCATATCTGGGCTATGGCATCAGTGC
* *
101262506 GATGTGATAACATGATTCCGTATAAGACCATATCTGGGATATGGCATCAGT
1 GATGTGAT-ATATG-TTCCGTATAAGACCATATCTGGGCTATGGCATCAGT
101262557 ATGATATGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
52 47 0.55
53 36 0.42
54 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (51 bp):
GATGTGATATATGTTCCGTATAAGACCATATCTGGGCTATGGCATCAGTGC
Found at i:101263936 original size:14 final size:14
Alignment explanation
Indices: 101263917--101263947 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
101263907 ATATAATAAC
*
101263917 ATAAAATAAAAGAA
1 ATAAAACAAAAGAA
101263931 ATAAAACAAAAGAA
1 ATAAAACAAAAGAA
101263945 ATA
1 ATA
101263948 GAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (14 bp):
ATAAAACAAAAGAA
Found at i:101264001 original size:6 final size:6
Alignment explanation
Indices: 101263990--101264018 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
101263980 AAGGGGAAAG
101263990 GAAAAA GAAAAA GAAAAA G-AAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
101264019 TTTAGGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:101264007 original size:12 final size:11
Alignment explanation
Indices: 101263985--101264018 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
101263975 CAAAAAAGGG
*
101263985 GAAAGGAAAAA
1 GAAAAGAAAAA
101263996 GAAAAAGAAAAA
1 G-AAAAGAAAAA
101264008 GAAAAGAAAAA
1 GAAAAGAAAAA
101264019 TTTAGGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:101271329 original size:14 final size:14
Alignment explanation
Indices: 101271310--101271337 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101271300 ATTTGATAAA
101271310 TCTGTATCTGATTT
1 TCTGTATCTGATTT
101271324 TCTGTATCTGATTT
1 TCTGTATCTGATTT
101271338 GGGGTGGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
TCTGTATCTGATTT
Found at i:101272196 original size:7 final size:7
Alignment explanation
Indices: 101272179--101272208 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
101272169 TTAAATTAAA
101272179 TTTTTATT
1 TTTTTA-T
101272187 TTTTTAT
1 TTTTTAT
101272194 TTTTTAT
1 TTTTTAT
101272201 TTTTTAT
1 TTTTTAT
101272208 T
1 T
101272209 AAAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:101274032 original size:10 final size:10
Alignment explanation
Indices: 101274017--101274060 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
101274007 GGGCTTACAC
101274017 CAAAATAAAA
1 CAAAATAAAA
101274027 CAAAATAAAAA
1 CAAAAT-AAAA
101274038 CAAAAT-AAA
1 CAAAATAAAA
*
101274047 -AAAATATAA
1 CAAAATAAAA
101274056 CAAAA
1 CAAAA
101274061 CCAAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 5 0.17
9 5 0.17
10 10 0.33
11 10 0.33
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (10 bp):
CAAAATAAAA
Found at i:101274039 original size:11 final size:11
Alignment explanation
Indices: 101274017--101274048 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
101274007 GGGCTTACAC
101274017 CAAAAT-AAAA
1 CAAAATAAAAA
101274027 CAAAATAAAAA
1 CAAAATAAAAA
101274038 CAAAATAAAAA
1 CAAAATAAAAA
101274049 AATATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (11 bp):
CAAAATAAAAA
Found at i:101280810 original size:18 final size:19
Alignment explanation
Indices: 101280787--101280830 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
101280777 GAGACCTTGA
101280787 AAAAAATAATCAAAA-AAT
1 AAAAAATAATCAAAAGAAT
* *
101280805 AAAAAAAAATTAAAAGAAT
1 AAAAAATAATCAAAAGAAT
*
101280824 TAAAAAT
1 AAAAAAT
101280831 TAAAAAAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAAATAATCAAAAGAAT
Found at i:101280810 original size:19 final size:20
Alignment explanation
Indices: 101280786--101280829 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
101280776 TGAGACCTTG
101280786 AAAAAAATAATCAAAA-AA-T
1 AAAAAAA-AATCAAAAGAATT
*
101280805 AAAAAAAAATTAAAAGAATT
1 AAAAAAAAATCAAAAGAATT
101280825 AAAAA
1 AAAAA
101280830 TTAAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 9 0.41
20 6 0.27
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAAAAAAATCAAAAGAATT
Found at i:101281999 original size:66 final size:64
Alignment explanation
Indices: 101281922--101282169 Score: 295
Period size: 64 Copynumber: 3.8 Consensus size: 64
101281912 TCATTCATAA
* * *
101281922 CACATTTAGTTAGATGCATTTGACTCATTTCGATCATAGTATCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGATGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCAT
* * * *
101281986 AACACATCCAGTTAGAAGCCTTTGATTCATTTCAATCATAGCATCCTAATTATTTGACA-CAAGC
1 --CACATCTAGTTAGATGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATC-AGC
101282050 AT
63 AT
* * * *
101282052 CACATTTAGTTAGGTGCATTTGATTCATGTT-GATCATAGCATTCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGATGCATTTGATTCAT-TTCGATCATAGCATCCTAATTATTTGACATCAGCAT
* * **
101282116 CATATCTAGTTAAGA-GCATTTGATTCATTTTGATCATAAAATCCTAATTATTTG
1 CACATCTAGTT-AGATGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTG
101282170 GCATAAACAT
Statistics
Matches: 156, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.01
64 94 0.60
65 5 0.03
66 55 0.35
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGATGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCAT
Found at i:101282922 original size:146 final size:145
Alignment explanation
Indices: 101282659--101282939 Score: 388
Period size: 146 Copynumber: 1.9 Consensus size: 145
101282649 GCAGATGGTG
* * * *
101282659 AATCTTATCTTCATGTATCAGCAATGGAGCAGATTTTACCACCAACATTATCTCTCTGAGGTAGC
1 AATCTTATCTCCATATATCAGCAATGGAGCAGATTTAACCACCAACATTATCTCTCTGAGGTAAC
* * *
101282724 AAGATGGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGCAGCAAGAAAGCAGACTGA-AGATTG
66 AAGATGGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGCAGCAAGAAAGCAGACTGAGA-ATTG
101282788 AAGATTGGAAAAGGCA
130 AAGATTGGAAAAGGCA
* * *
101282804 AATCTTATCTCCATATATCGGCAATGGAGCAGATTTAAGCC-CCAAGCCTTATTTCTCTGAGGTA
1 AATCTTATCTCCATATATCAGCAATGGAGCAGATTTAA-CCACCAA-CATTATCTCTCTGAGGTA
* * *
101282868 ACAAGA-GAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGGGAAT
64 ACAAGATG-GCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGCAGCAAGAAAGCAGACTGAGAAT
101282932 TGAAGATT
128 TGAAGATT
101282940 CTATCTCCCT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
145 39 0.33
146 79 0.66
147 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (145 bp):
AATCTTATCTCCATATATCAGCAATGGAGCAGATTTAACCACCAACATTATCTCTCTGAGGTAAC
AAGATGGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGCAGCAAGAAAGCAGACTGAGAATTGA
AGATTGGAAAAGGCA
Found at i:101283148 original size:181 final size:181
Alignment explanation
Indices: 101282804--101283469 Score: 948
Period size: 181 Copynumber: 3.7 Consensus size: 181
101282794 GGAAAAGGCA
* *
101282804 AATCTTATCTCCATATATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATTTCTCTGAGGTAA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGG-AA
* * *
101282869 -CAAGAGAGCAGGTTAAAGA--ATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGGGAA
65 GCAAGAGAGCAGGTTGAAGATGAT-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGGAAA
* *
101282931 TTGAAGATTCTATCTCCCTGAAGTTGCAGCGGAGTAGATCTTCACAGATGGCT
129 TTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGTAGATCTTCGCAGATGGCT
*** *
101282984 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCTTTAAGCCTTATTTCTCTGAGGAAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGAAG
*
101283049 CAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAATGAAGCAGACTGGAAATT
66 CAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGGAAATT
*
101283114 GAAGATTTTATCTCCCTAAAGTTGCAGCGGAGTAGATCTTCGCAGATGGCT
131 GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGTAGATCTTCGCAGATGGCT
* * * *
101283165 AATCTTATCTCCATGTATTGGCAGTGGGGCAGATTTAAGCCACC-AGCCTTATCTCTCTGAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC-CCAAGCCTTATCTCTCTGAGGAA
* * * *
101283229 GCAAGAGAGCAGGTTGTATATGATATTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA-TTGAGAA
65 GCAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGGA-AA
* * * *
101283293 TTGAATATTTTATCTCCTTGAAGTTACAGCGGAGCAGATCTTCGCAGATGGCT
129 TTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGTAGATCTTCGCAGATGGCT
* * * * *
101283346 AATCTTATCTCCATGTATTGGCAATGGGGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGAAG
* * *
101283411 CAAGAGAGCAGGTTGAAAATTGA-AGTCTTATCTTCCTGAAGTAGTAAGGAAGCAGACTG
66 CAAGAGAGCAGGTTGAAGA-TGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
101283470 AAGATTGCAA
Statistics
Matches: 440, Mismatches: 38, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
179 2 0.00
180 81 0.18
181 351 0.80
182 6 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (181 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGAAG
CAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGGAAATT
GAAGATTTTATCTCCCTGAAGTTGCAGCGGAGTAGATCTTCGCAGATGGCT
Found at i:101283532 original size:140 final size:138
Alignment explanation
Indices: 101283350--101283619 Score: 378
Period size: 140 Copynumber: 1.9 Consensus size: 138
101283340 ATGGCTAATC
* ** * *
101283350 TTATCTCCATGTATTGGCAATGGGGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGTAGCAAG
1 TTATCTCCAAGTACCGGAAATGGAGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGTAGCAAG
* **
101283415 AGAGCAGGTTGAAAATTGAAGTCTTATCTTCCTGAAGTAGTAAGGAAGCAGACTGAAGATTGCAA
66 AGAGCAGGCTGAAAATTG-AGTCTTATCTTCCTGAAGTAGTAAAAAAGCAGACTGAAGATTG-AA
101283480 GAGGCGAATT
129 GAGGCGAATT
* * *
101283490 TTATCTCCAAGTACCGGAAATGGAGCAGATTTAAGCCTCAAGCCTTATCTCTCTGAGGTAGCAAG
1 TTATCTCCAAGTACCGGAAATGGAGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGTAGCAAG
* ** * *
101283555 AGAGCAGGCTGAAGATTGAGTCTTATCTTTTTGATGTAGTAAAAAAGTAGACTGAAGATTGAAGA
66 AGAGCAGGCTGAAAATTGAGTCTTATCTTCCTGAAGTAGTAAAAAAGCAGACTGAAGATTGAAGA
101283620 TCTTATCTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
138 4 0.04
139 37 0.32
140 73 0.64
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (138 bp):
TTATCTCCAAGTACCGGAAATGGAGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGTAGCAAG
AGAGCAGGCTGAAAATTGAGTCTTATCTTCCTGAAGTAGTAAAAAAGCAGACTGAAGATTGAAGA
GGCGAATT
Found at i:101283892 original size:22 final size:20
Alignment explanation
Indices: 101283847--101283896 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
101283837 CCGGGCTTAC
*
101283847 ACCAAAAT-AAAACAAAAAA
1 ACCAAAATAAAAAAAAAAAA
101283866 A-CAAAATAAAAAAATAACAAA
1 ACCAAAATAAAAAAA-AA-AAA
101283887 ACCAAAATAA
1 ACCAAAATAA
101283897 TAAAGTCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 6 0.23
20 2 0.08
21 4 0.15
22 8 0.31
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (20 bp):
ACCAAAATAAAAAAAAAAAA
Done.