Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 116 of 167
Found at i:38709756 original size:126 final size:126
Alignment explanation
Indices: 38709521--38709764 Score: 425
Period size: 126 Copynumber: 1.9 Consensus size: 126
38709511 CATTGATTTT
* *
38709521 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
38709586 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
* *
38709647 CTCTAAAAAATTTTCAAAATAAAGGCAATTTTCAGTATTTAAAGAATTCGAAGATTCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* * *
38709712 ACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTTGAATATTCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
38709765 AGGCTTAAAC
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:38714853 original size:22 final size:21
Alignment explanation
Indices: 38714825--38714874 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
38714815 CAACATAAAA
38714825 TTTAAAAGAGTAATT-AGAATT
1 TTTAAAA-AGTAATTAAGAATT
* *
38714846 TTCTAAAAATTGATTAAGAATT
1 TT-TAAAAAGTAATTAAGAATT
38714868 TTTAAAA
1 TTTAAAA
38714875 TATTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTAAAAAGTAATTAAGAATT
Found at i:38715247 original size:17 final size:18
Alignment explanation
Indices: 38715218--38715252 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38715208 TTTGTTTCTA
*
38715218 ATTTTATAATTATTATTT
1 ATTTTATAATTATAATTT
38715236 ATTTTA-AATTATAATTT
1 ATTTTATAATTATAATTT
38715253 TTTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATAATTATAATTT
Found at i:38716266 original size:23 final size:22
Alignment explanation
Indices: 38716232--38716292 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 22
38716222 GGCGCGACTC
38716232 ATTTTTTTAATAATA-TAGTTTT
1 ATTTTTTTAATAATATTA-TTTT
*
38716254 ATTTTTTTAAATATTATTATTTT
1 ATTTTTTT-AATAATATTATTTT
38716277 ATTATATTTTAATAAT
1 ATT-T-TTTTAATAAT
38716293 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 8 0.24
23 13 0.39
24 8 0.24
25 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTTTTTAATAATATTATTTT
Found at i:38717082 original size:11 final size:11
Alignment explanation
Indices: 38717068--38717095 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
38717058 ACATTATATC
38717068 AAAATTACATT
1 AAAATTACATT
38717079 AAAATTACATT
1 AAAATTACATT
38717090 AAAATT
1 AAAATT
38717096 TCTTACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTACATT
Found at i:38726236 original size:3 final size:3
Alignment explanation
Indices: 38726230--38726280 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
38726220 CCTCCTCCTC
38726230 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT CTCT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T
38726278 CTT
1 CTT
38726281 TGCTGCTGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:38726542 original size:24 final size:22
Alignment explanation
Indices: 38726502--38726563 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 22
38726492 AAATTTAAAA
38726502 ATTATTAAAATATAATAAAATAATAAT
1 ATTATTAAAA-A-AATAAAAT--T-AT
38726529 ATT-TTAAAAAAATAAAATTAT
1 ATTATTAAAAAAATAAAATTAT
38726550 ATTATTAAAAAAAT
1 ATTATTAAAAAAAT
38726564 GGGTCGCGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.15
22 11 0.32
24 8 0.24
25 1 0.03
26 6 0.18
27 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTATTAAAAAAATAAAATTAT
Found at i:38747445 original size:31 final size:31
Alignment explanation
Indices: 38747396--38747459 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
38747386 CATTTACCAT
**
38747396 AAGTACCAATTTGGACCAAAAAG-TCAAGTTC
1 AAGTACCAATTTAAACCAAAAAGCT-AAGTTC
*
38747427 AAGTACCAATTTAAACCAACAAGCTAAGTTC
1 AAGTACCAATTTAAACCAAAAAGCTAAGTTC
38747458 AA
1 AA
38747460 TCACCTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.22
Consensus pattern (31 bp):
AAGTACCAATTTAAACCAAAAAGCTAAGTTC
Found at i:38754802 original size:17 final size:17
Alignment explanation
Indices: 38754782--38754834 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
38754772 TTTTTAATCT
38754782 TATTTTTATATTATATA
1 TATTTTTATATTATATA
38754799 TATTATTT-TA-TATAT-
1 TATT-TTTATATTATATA
*
38754814 TATTGTTAT-TTATTATA
1 TATTTTTATATTA-TATA
38754831 TATT
1 TATT
38754835 ACTTTTCACA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
14 2 0.07
15 7 0.23
16 8 0.27
17 10 0.33
18 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTTTTATATTATATA
Found at i:38754805 original size:12 final size:12
Alignment explanation
Indices: 38754790--38754833 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
38754780 CTTATTTTTA
38754790 TATTATATATAT
1 TATTATATATAT
*
38754802 TATTTTATATAT
1 TATTATATATAT
*
38754814 TATTGT-TAT-T
1 TATTATATATAT
38754824 TATTATATAT
1 TATTATATAT
38754834 TACTTTTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 6 0.21
11 6 0.21
12 16 0.57
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (12 bp):
TATTATATATAT
Found at i:38754817 original size:32 final size:32
Alignment explanation
Indices: 38754773--38754840 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
38754763 TTTGTTTTAT
* *
38754773 TTTTAATCTTATTTTTATATTA-TATATATTA-
1 TTTTAATATTATTGTTAT-TTATTATATATTAC
38754804 TTTTATATATTATTGTTATTTATTATATATTAC
1 TTTTA-ATATTATTGTTATTTATTATATATTAC
38754837 TTTT
1 TTTT
38754841 CACAAAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 8 0.25
32 20 0.62
33 4 0.12
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (32 bp):
TTTTAATATTATTGTTATTTATTATATATTAC
Found at i:38754888 original size:11 final size:11
Alignment explanation
Indices: 38754874--38754976 Score: 52
Period size: 11 Copynumber: 8.6 Consensus size: 11
38754864 TTTTATTTAC
38754874 ATATTATTATT
1 ATATTATTATT
38754885 ATATT-TTACTT
1 ATATTATTA-TT
*
38754896 GTATTATATATT
1 ATATTAT-TATT
38754908 -TATTAATTATTT
1 ATATT-ATTA-TT
38754920 ATATATATTATAT
1 ATAT-TATTAT-T
*
38754933 ACATATATACTT-TC
1 --ATAT-TA-TTATT
38754947 ATATTATATATT
1 ATATTAT-TATT
38754959 ATAATTATT-TT
1 AT-ATTATTATT
38754970 ATATTAT
1 ATATTAT
38754977 GTCATTTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 29
0.70 0.03 0.27
Matches are distributed among these distances:
10 9 0.12
11 24 0.32
12 16 0.21
13 15 0.20
14 1 0.01
15 8 0.11
16 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (11 bp):
ATATTATTATT
Found at i:38754973 original size:23 final size:23
Alignment explanation
Indices: 38754897--38754976 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
38754887 ATTTTACTTG
38754897 TATTATATATTTATTAATTA-TTTA
1 TATTATATA-TTA-TAATTATTTTA
38754921 TA-TATAT-TATATACATATATACTTTCA
1 TATTATATAT-TATA-AT-TAT--TTT-A
38754948 TATTATATATTATAATTATTTTA
1 TATTATATATTATAATTATTTTA
38754971 TATTAT
1 TATTAT
38754977 GTCATTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
21 3 0.06
22 4 0.09
23 14 0.30
24 5 0.11
26 6 0.13
27 5 0.11
28 9 0.19
29 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTATATATTATAATTATTTTA
Found at i:38755010 original size:17 final size:19
Alignment explanation
Indices: 38754971--38755010 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
38754961 AATTATTTTA
38754971 TATTATGTCATTTTTTATAC
1 TATTATGT-ATTTTTTATAC
38754991 TATTATGT-TTTTTTAT-C
1 TATTATGTATTTTTTATAC
38755008 TAT
1 TAT
38755011 ATATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
20 8 0.40
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (19 bp):
TATTATGTATTTTTTATAC
Found at i:38755309 original size:23 final size:22
Alignment explanation
Indices: 38755267--38755310 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
38755257 CTAAACCAAT
*
38755267 ATTTTTTATTATTCTTTTATAA
1 ATTTTTTATTATTCTATTATAA
38755289 ATTTTTGTCATTA-TCTATTATA
1 ATTTTT-T-ATTATTCTATTATA
38755311 TATTGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTTTTATTATTCTATTATAA
Found at i:38755448 original size:24 final size:26
Alignment explanation
Indices: 38755400--38755448 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
38755390 GCTCATTTAA
* *
38755400 TTTTATATTTATATGTATATTAATCC
1 TTTTATATGTATATGTATATAAATCC
38755426 TTTTATATGT-TAT-TATATAAATC
1 TTTTATATGTATATGTATATAAATC
38755449 ATTAGGTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 3 0.14
26 9 0.43
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTATATGTATATGTATATAAATCC
Found at i:38756929 original size:30 final size:30
Alignment explanation
Indices: 38756895--38756951 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
38756885 CCATTTTCCC
38756895 TTCTTTTTCCCTATTTTACTTCTTCCCAAT
1 TTCTTTTTCCCTATTTTACTTCTTCCCAAT
** * *
38756925 TTCTTTTTCTTTTTTTTTCTTCTTCCC
1 TTCTTTTTCCCTATTTTACTTCTTCCC
38756952 TGAATGAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (30 bp):
TTCTTTTTCCCTATTTTACTTCTTCCCAAT
Found at i:38765193 original size:18 final size:18
Alignment explanation
Indices: 38765182--38765216 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
38765172 AGAAGAGAGG
38765182 GAGAAGAAAGAAAGAAAA
1 GAGAAGAAAGAAAGAAAA
38765200 GAGAAGAAAGAAAGAAA
1 GAGAAGAAAGAAAGAAA
38765217 GAAAAGGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAGAAGAAAGAAAGAAAA
Found at i:38765194 original size:4 final size:4
Alignment explanation
Indices: 38765185--38765220 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
38765175 AGAGAGGGAG
38765185 AAGA AAGA AAGAA AAGA GAAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA AAGA AA
38765221 AGGTATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 22 0.73
5 8 0.27
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:38767842 original size:24 final size:24
Alignment explanation
Indices: 38767808--38767951 Score: 80
Period size: 24 Copynumber: 6.0 Consensus size: 24
38767798 AGCTCCCGTT
* *
38767808 ATATTGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCA
* * * *
38767832 ATATGGTTCTTTGTAAACTTCCTA
1 ATATGGCTCTTTGTGAGCTTCCCA
* **
38767856 ATTATGGCTC-TTATGAGCTTCTCGTT
1 A-TATGGCTCTTTGTGAGCTTC-C-CA
* * *
38767882 ATATAGC-C-TGGATAAGCTTCCCA
1 ATATGGCTCTTTG-TGAGCTTCCCA
* *
38767905 ATA-GGCTCTTTATGAGCTTCCCC
1 ATATGGCTCTTTGTGAGCTTCCCA
* *
38767928 ATATGGTTCTTTGTGAACTTCCCA
1 ATATGGCTCTTTGTGAGCTTCCCA
38767952 TAGTAAGGCT
Statistics
Matches: 87, Mismatches: 26, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
22 2 0.02
23 16 0.18
24 47 0.54
25 20 0.23
26 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (24 bp):
ATATGGCTCTTTGTGAGCTTCCCA
Found at i:38769285 original size:85 final size:85
Alignment explanation
Indices: 38769137--38769312 Score: 266
Period size: 85 Copynumber: 2.1 Consensus size: 85
38769127 GGGACACGGT
*
38769137 CATGTGCCTTACATCGAATGCCCACACGACCTAGGACACTGACGTGTCATTTGACCGTGTGAGTC
1 CATGTGCCTTACATCGAATGCCCACACGACCTAGGACACTGACGTGTCATTTGACCGTCTGAGTC
*
38769202 ACACGGCCTACCCACACAGC
66 ACACGACCTACCCACACAGC
*
38769222 CATGTGCCTTACATCGAATGCCCACAC-AGCCTAGGACAC-GAGCGTGTCATTTGATCGTCTGAG
1 CATGTGCCTTACATCGAATGCCCACACGA-CCTAGGACACTGA-CGTGTCATTTGACCGTCTGAG
* * *
38769285 TCACACGACTTACCCACACGGG
64 TCACACGACCTACCCACACAGC
38769307 CATGTG
1 CATGTG
38769313 ACCCCTGTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
84 3 0.04
85 80 0.96
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.21
Consensus pattern (85 bp):
CATGTGCCTTACATCGAATGCCCACACGACCTAGGACACTGACGTGTCATTTGACCGTCTGAGTC
ACACGACCTACCCACACAGC
Found at i:38771334 original size:13 final size:13
Alignment explanation
Indices: 38771316--38771341 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38771306 ACGAGTCCGT
38771316 AAATATTTATTAA
1 AAATATTTATTAA
38771329 AAATATTTATTAA
1 AAATATTTATTAA
38771342 GTTAGTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:38771771 original size:20 final size:21
Alignment explanation
Indices: 38771743--38771783 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
38771733 ATTAGTTAAG
* *
38771743 TAAATAAAATGAAATAAAGAA
1 TAAATAAAAAGAAAGAAAGAA
38771764 TAAA-AAAAAGAAAGAAAGAA
1 TAAATAAAAAGAAAGAAAGAA
38771784 AAACAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (21 bp):
TAAATAAAAAGAAAGAAAGAA
Found at i:38773248 original size:13 final size:13
Alignment explanation
Indices: 38773212--38773248 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
38773202 TGATAGTTTG
*
38773212 GTATGAATTTATAT
1 GTATG-ATTTGTAT
38773226 GTATGATTTGTAT
1 GTATGATTTGTAT
38773239 GTATGATTTG
1 GTATGATTTG
38773249 CATATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:38778895 original size:13 final size:13
Alignment explanation
Indices: 38778877--38778902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38778867 ACGAGTCCGT
38778877 AAATATTTATTAA
1 AAATATTTATTAA
38778890 AAATATTTATTAA
1 AAATATTTATTAA
38778903 GTTAGTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:38779165 original size:3 final size:3
Alignment explanation
Indices: 38779157--38779193 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
38779147 AGATATTTAC
38779157 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
38779194 ATTGAGATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:38780814 original size:13 final size:13
Alignment explanation
Indices: 38780778--38780814 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
38780768 TGATAGTTTG
*
38780778 GTATGAATTTATAT
1 GTATG-ATTTGTAT
38780792 GTATGATTTGTAT
1 GTATGATTTGTAT
38780805 GTATGATTTG
1 GTATGATTTG
38780815 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:38781329 original size:20 final size:20
Alignment explanation
Indices: 38781304--38781364 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
38781294 TGCCCATGGG
* *
38781304 CAGGCCACATGGGCATGTTC
1 CAGGCCACACGGGCATGTGC
*
38781324 CAGGCCACACGGGCGTGTGC
1 CAGGCCACACGGGCATGTGC
* *
38781344 TAGGCCATACGGGCATGTGC
1 CAGGCCACACGGGCATGTGC
38781364 C
1 C
38781365 CCTATCTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.18, C:0.31, G:0.34, T:0.16
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTGC
Found at i:38782917 original size:33 final size:33
Alignment explanation
Indices: 38782880--38782976 Score: 117
Period size: 33 Copynumber: 2.9 Consensus size: 33
38782870 ACTCGAGCTA
*
38782880 GGAGGAGTGCTGTACTGCGATGGATAC-GACCTG
1 GGAGGAGTGATGTACTGCGATGGATACGGACC-G
* * *
38782913 GGAGGAGTGAAGTAATGCGATGGATACGGGCCG
1 GGAGGAGTGATGTACTGCGATGGATACGGACCG
*
38782946 GGAGGAGTGTTGTACTGCGATGG-TACTGGAC
1 GGAGGAGTGATGTACTGCGATGGATAC-GGAC
38782977 TGATGATATC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
32 3 0.06
33 48 0.89
34 3 0.06
ACGTcount: A:0.23, C:0.14, G:0.42, T:0.21
Consensus pattern (33 bp):
GGAGGAGTGATGTACTGCGATGGATACGGACCG
Found at i:38785391 original size:16 final size:16
Alignment explanation
Indices: 38785372--38785443 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 16
38785362 ATAACATGCC
38785372 AAATAAATTACATAAA
1 AAATAAATTACATAAA
38785388 AAATAAATCTA-ATAAA
1 AAATAAAT-TACATAAA
* * *
38785404 CCTAAA-ACA-CACATAAC
1 ---AAATAAATTACATAAA
*
38785421 AAATAAATTACATTAA
1 AAATAAATTACATAAA
38785437 AAATAAA
1 AAATAAA
38785444 ACATTCTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
14 3 0.07
15 2 0.05
16 26 0.62
17 6 0.14
18 2 0.05
19 3 0.07
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:38785532 original size:16 final size:16
Alignment explanation
Indices: 38785511--38785550 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
38785501 GTTTGGTTCA
*
38785511 CTGTAATTGAATAAAT
1 CTGTAATTGAATAAAG
*
38785527 CTGTAATTGAATAGAG
1 CTGTAATTGAATAAAG
38785543 CTGTAATT
1 CTGTAATT
38785551 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (16 bp):
CTGTAATTGAATAAAG
Found at i:38785613 original size:44 final size:46
Alignment explanation
Indices: 38785537--38785623 Score: 135
Period size: 44 Copynumber: 1.9 Consensus size: 46
38785527 CTGTAATTGA
38785537 ATAGAGCTGTAATTAGTAATTCAATTGTTTGGTTGAATGGAATGGG
1 ATAGAGCTGTAATTAGTAATTCAATTGTTTGGTTGAATGGAATGGG
*
38785583 ATAGAGCTGTAA-TAG-AATTC-TTGTGTTTGGTTGAATGGAAT
1 ATAGAGCTGTAATTAGTAATTCAAT-TGTTTGGTTGAATGGAAT
38785624 AAATGTTGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.03
44 23 0.59
45 3 0.08
46 12 0.31
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.38
Consensus pattern (46 bp):
ATAGAGCTGTAATTAGTAATTCAATTGTTTGGTTGAATGGAATGGG
Found at i:38785754 original size:26 final size:25
Alignment explanation
Indices: 38785705--38785755 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
38785695 ATGATTATTG
*
38785705 TTATTGTTATTAAATTTTAATAAAA
1 TTATTGTTAATAAATTTTAATAAAA
* *
38785730 TTATTGTTAAATATATTTTATTAAAA
1 TTATTGTT-AATAAATTTTAATAAAA
38785756 ATAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
TTATTGTTAATAAATTTTAATAAAA
Found at i:38785830 original size:15 final size:15
Alignment explanation
Indices: 38785793--38785830 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
38785783 CATAATTATT
38785793 ATTAAATATAATTTA
1 ATTAAATATAATTTA
*
38785808 ATAAAATATAATTTA
1 ATTAAATATAATTTA
*
38785823 ATTTAATA
1 ATTAAATA
38785831 ACATTCTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATATAATTTA
Found at i:38785846 original size:58 final size:57
Alignment explanation
Indices: 38785718--38785854 Score: 159
Period size: 58 Copynumber: 2.4 Consensus size: 57
38785708 TTGTTATTAA
* * * * * *
38785718 ATTTTAATAAAATTATTGTTAAATATATTTTATTAAAAATAATAAATAATTTAACGAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAT-AATAATTTAACAAC
* * *
38785776 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATATAAT-TTAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAA-ATAATAATAATTTAACAAC
38785833 ATTCTTAATATAATTATTATTA
1 ATT-TTAATATAATTATTATTA
38785855 TATGAATTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 12 0.18
58 50 0.75
59 5 0.07
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAATAATTTAACAAC
Found at i:38800552 original size:16 final size:17
Alignment explanation
Indices: 38800531--38800569 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
38800521 CTTTCATTAA
38800531 GTTTTTAAGATTCAATT
1 GTTTTTAAGATTCAATT
*
38800548 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCAATT
38800565 GTTTT
1 GTTTT
38800570 CCTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGATTCAATT
Found at i:38804241 original size:21 final size:21
Alignment explanation
Indices: 38804201--38804241 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38804191 TCATTTAGGC
* *
38804201 ACAATTTGCTTTGTTGGTTTT
1 ACAATTTGCTTTGCTAGTTTT
38804222 ACAATTTGCTTTGCTAGTTT
1 ACAATTTGCTTTGCTAGTTT
38804242 ATATCCAAAT
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:0.17, C:0.12, G:0.17, T:0.54
Consensus pattern (21 bp):
ACAATTTGCTTTGCTAGTTTT
Found at i:38804753 original size:17 final size:17
Alignment explanation
Indices: 38804733--38804769 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
38804723 GAATGAAAAT
38804733 ATAAAATAAATACAAAC
1 ATAAAATAAATACAAAC
38804750 ATAAAATAAATACAAAC
1 ATAAAATAAATACAAAC
38804767 ATA
1 ATA
38804770 CCTCAATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (17 bp):
ATAAAATAAATACAAAC
Found at i:38804895 original size:11 final size:12
Alignment explanation
Indices: 38804877--38804901 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38804867 TTATTTATAA
38804877 CAAAAAAATTAC
1 CAAAAAAATTAC
38804889 CAAAAAAATTAC
1 CAAAAAAATTAC
38804901 C
1 C
38804902 TTTTATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (12 bp):
CAAAAAAATTAC
Found at i:38806167 original size:28 final size:28
Alignment explanation
Indices: 38806114--38806183 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
38806104 AATTTCTACA
*
38806114 GTATCT-AAAAAATAAATTAGAGAAGAT
1 GTATCTGAAAAAATAAATTAGAAAAGAT
* *
38806141 GTATCTGAAAAAATAATTTTGAAAAGAT
1 GTATCTGAAAAAATAAATTAGAAAAGAT
* *
38806169 GTTTCTGAACAAATA
1 GTATCTGAAAAAATA
38806184 GTGTCAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 6 0.16
28 31 0.84
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30
Consensus pattern (28 bp):
GTATCTGAAAAAATAAATTAGAAAAGAT
Found at i:38806286 original size:126 final size:125
Alignment explanation
Indices: 38806146--38806874 Score: 653
Period size: 125 Copynumber: 6.0 Consensus size: 125
38806136 AAGATGTATC
* * *
38806146 TGAAAAAATAATTTTGAAAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAACCAAGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* *
38806211 ACTGTCAGCAAAAGTACTAAAAAAAGCTTCCACTTGGACGCT-TTTTTCTATAGTAGTTTT
66 ACTGTCAGCAAAAGTACTAAAAAAAGC-TCCACGTGGACGCTCTTTTTCTACAGTAGTTTT
* * * *
38806271 TGAAAAAAATAATTTTGAGAAGATATTTTTAAACAAATAGTGTCAAAAACGCTTTAAGCAGGATG
1 TG-AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATG
* * * * *
38806336 TACTATCAACAAAAGTACTAAAAAAAGCTCTCACGTGGATGCTCTTTTTCTACAGTAATTTT
65 CACTGTCAGCAAAAGTACTAAAAAAAGCTC-CACGTGGACGCTCTTTTTCTACAGTAGTTTT
38806398 TG-AAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTT--A-C--G-T--
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * **** * **** ** * * ** *
38806454 ACT-T-A-AAAAAGCTCCCATGTGGACA-CTCTTTTTCTACAG-TC-GTTTCTAAAAAAATATTT
66 ACTGTCAGCAAAAG-T-AC-TAAAAAAAGCTCCACGTGGAC-GCTCTTTTTCTACAGTAGT-TTT
* * * * ** *
38806513 T-------T------GAGAAGATATTTTTGAACAAATAGTTTCAGAATTGCTTCAAGTAGGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * *
38806565 ACTGTCAGCAAAAGTACTGAAAAAAGCTCCAGCGTGGAC-TTTTTTTTCTACAGTAGTTTC
66 ACTGTCAGCAAAAGTACTAAAAAAAGCTCCA-CGTGGACGCTCTTTTTCTACAGTAGTTTT
*
38806625 T-AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTTAAGCAGGA-GC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * *
38806688 ACTGTCAGCAAAAGTACTGAAAAAAA-CTCCTACATGGGCGCTCTTTTTCTACAGTAGTTTC
66 ACTGTCAGCAAAAGTACT-AAAAAAAGCTCC-ACGTGGACGCTCTTTTTCTACAGTAGTTTT
* *
38806749 TGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* *
38806814 ACTGTCAGCAAAAGTACT-GAAAAAGCTCCCACGTGGACGCTCTTTTTCTATAGTAGTTTT
66 ACTGTCAGCAAAAGTACTAAAAAAAGCT-CCACGTGGACGCTCTTTTTCTACAGTAGTTTT
38806874 T
1 T
38806875 CAGGACGCTC
Statistics
Matches: 480, Mismatches: 82, Indels: 84
0.74 0.13 0.13
Matches are distributed among these distances:
103 32 0.07
105 1 0.00
108 1 0.00
109 2 0.00
111 7 0.01
112 9 0.02
113 14 0.03
114 20 0.04
115 10 0.02
116 6 0.01
117 6 0.01
118 1 0.00
119 1 0.00
120 1 0.00
122 1 0.00
123 30 0.06
124 71 0.15
125 137 0.29
126 112 0.23
127 18 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (125 bp):
TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
ACTGTCAGCAAAAGTACTAAAAAAAGCTCCACGTGGACGCTCTTTTTCTACAGTAGTTTT
Found at i:38806467 original size:102 final size:103
Alignment explanation
Indices: 38806350--38806539 Score: 265
Period size: 102 Copynumber: 1.9 Consensus size: 103
38806340 ATCAACAAAA
* ** **
38806350 GTACTAAAAAAAGCTCTCACGTGGATGCTCTTTTTCTACAGTAATTT-TTGAAAAATAATTTTGA
1 GTACTAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAATTTCTAAAAAAATAATTTTGA
*
38806414 GAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTAC
66 GAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTAC
* * ** *
38806452 GTACTTAAAAAAGCTCCCATGTGGACACTCTTTTTCTACAGTCGTTTCTAAAAAAATATTTTTGA
1 GTACTAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAATTTCTAAAAAAATAATTTTGA
*
38806517 GAAGATATTTTTGAACAAATAGT
66 GAAGATATTTCTGAACAAATAGT
38806540 TTCAGAATTG
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
102 40 0.53
103 35 0.47
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (103 bp):
GTACTAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAATTTCTAAAAAAATAATTTTGA
GAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTAC
Found at i:38806794 original size:352 final size:353
Alignment explanation
Indices: 38806148--38806801 Score: 967
Period size: 352 Copynumber: 1.9 Consensus size: 353
38806138 GATGTATCTG
*
38806148 AAAAAATAATTTTGAAAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAACCAAGATGCAC
1 AAAAAATAATTTTGAAAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAACCAAGATGCAC
* * *
38806213 TGTCAGCAAAAGTACTAAAAAAAGCTTCCACTTGGACGCTTTTTTCTATAGTAGTTTTTGAAAAA
66 TGTCAGCAAAAGTACTAAAAAAAGCTTCCACGTGGACGCTTTTTTCTACAGTAGTTTCT-AAAAA
* *
38806278 AATAATTTTGAGAAGATATTTTTAAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGTACTATC
130 AATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCACTATC
* * *
38806343 AACAAAAGTACTAAAAAAAGCTCTCACGTGGATGCTCTTTTTCTACAGTAATTTTTGAAAAATAA
195 AACAAAAGTACTAAAAAAAGCTCTCACATGGACGCTCTTTTTCTACAGTAATTTCTGAAAAATAA
*
38806408 TTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTACGTACTTAAAAAAGCTCCCATG
260 TTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTACGTACTTAAAAAAGCTCCCATG
38806473 TGGACACTCTTTTTCTACAGTCGTTTCTA
325 TGGACACTCTTTTTCTACAGTCGTTTCTA
* * * * * ** ** *
38806502 AAAAAATATTTTTGAGAAGATATTTTTGAACAAATAGTTTCAGAATTGCTTCAAGTAGGATGCAC
1 AAAAAATAATTTTGAAAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAACCAAGATGCAC
* **
38806567 TGTCAGCAAAAGTACTGAAAAAAGC-TCCAGCGTGGACTTTTTTTTCTACAGTAGTTTCT-AAAA
66 TGTCAGCAAAAGTACTAAAAAAAGCTTCCA-CGTGGACGCTTTTTTCTACAGTAGTTTCTAAAAA
* * *
38806630 AATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTTAAGCAGGA-GCACTGTC
130 AATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCACTATC
* * *
38806694 AGCAAAAGTACTGAAAAAAA-CTC-CTACATGGGCGCTCTTTTTCTACAGTAGTTTCTGAAAAAA
195 AACAAAAGTACT-AAAAAAAGCTCTC-ACATGGACGCTCTTTTTCTACAGTAATTTCTG-AAAAA
38806757 TAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTT
257 TAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTT
38806802 CAAGTAGGAT
Statistics
Matches: 267, Mismatches: 29, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
350 1 0.00
351 47 0.18
352 113 0.42
353 4 0.01
354 102 0.38
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (353 bp):
AAAAAATAATTTTGAAAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAACCAAGATGCAC
TGTCAGCAAAAGTACTAAAAAAAGCTTCCACGTGGACGCTTTTTTCTACAGTAGTTTCTAAAAAA
ATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGCTTTAAGCAGGATGCACTATCA
ACAAAAGTACTAAAAAAAGCTCTCACATGGACGCTCTTTTTCTACAGTAATTTCTGAAAAATAAT
TTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTACGTACTTAAAAAAGCTCCCATGT
GGACACTCTTTTTCTACAGTCGTTTCTA
Found at i:38806912 original size:154 final size:155
Alignment explanation
Indices: 38806726--38807027 Score: 498
Period size: 154 Copynumber: 2.0 Consensus size: 155
38806716 CCTACATGGG
38806726 CGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGT
1 CGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGT
* * *
38806791 CAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAAGTACT-GAAAAAGCTCCCACGTGGACGCT
66 CAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACT
*
38806855 CTTTTTCTATAGTAGTTTTTCAGGA
131 CTTTTTCTACAGTAGTTTTTCAGGA
* *
38806880 CGCTCTTTTTCTATAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGT
1 CGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGT
* * *
38806945 CAAAAACGTTTCAAGCAGGATGCACTGTCAGCAAACGTACTAAAAAAAGCTCCCATGTGGACACT
66 CAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACT
* *
38807010 TTTTTTCTACAGTCGTTT
131 CTTTTTCTACAGTAGTTT
38807028 CTAAAAAAAT
Statistics
Matches: 136, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
154 101 0.74
155 35 0.26
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (155 bp):
CGCTCTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGT
CAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACT
CTTTTTCTACAGTAGTTTTTCAGGA
Found at i:38807035 original size:126 final size:126
Alignment explanation
Indices: 38806877--38807152 Score: 408
Period size: 126 Copynumber: 2.2 Consensus size: 126
38806867 TAGTTTTTCA
* * *
38806877 GGACGCTCTTTTTCTATAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAG
1 GGACACTCTTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAG
* *
38806942 TGTCAAAAACGTTTCAAGCAGGATGCACTGTCAGCAAACGTACTAAAAAAAGCTCCCATGT
66 TGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAACGTACTAAAAAAAGCTCCCACGT
* *
38807003 GGACACTTTTTTTCTACAGTCGTTTCTAAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAG
1 GGACACTCTTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAG
* ** * * * *
38807068 TTTCAAAATTGCTTCAAGTAGGATGCACTGTCAGCAAATGTACTGAAAAAAGCTCCTACGT
66 TGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAACGTACTAAAAAAAGCTCCCACGT
* *
38807129 GGACGCTCTTTTACTACAGTAGTT
1 GGACACTCTTTTTCTACAGTAGTT
38807153 CCTATTTGGC
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 132 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (126 bp):
GGACACTCTTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAG
TGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAACGTACTAAAAAAAGCTCCCACGT
Found at i:38807056 original size:154 final size:154
Alignment explanation
Indices: 38806740--38807066 Score: 417
Period size: 154 Copynumber: 2.1 Consensus size: 154
38806730 CTTTTTCTAC
38806740 AGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAA
1 AGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAA
* * * *
38806805 GTAGGATGCACTGTCAGCAAAAGTACTGAAAAAGCTCCCACGTGGACGCTCTTTTTCTATAGTAG
66 GCAGGATGCACTGTCAGCAAAAGTACTAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAG
* ** *** ** * *
38806870 TTTTTCAGGACGCTCTTTTTCTAT
131 TTTCTCAAAAAAATAATTTTCGAA
* *
38806894 AGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGTTTCAA
1 AGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAA
* * * *
38806959 GCAGGATGCACTGTCAGCAAACGTACTAAAAAAAGCTCCCATGTGGACACTTTTTTTCTACAGTC
66 GCAGGATGCACTGTCAGCAAAAGTACT-AAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTA
38807024 GTTTCT-AAAAAAATAATTTT-GAGA
130 GTTTCTCAAAAAAATAATTTTCGA-A
*
38807048 AG-ATGTTTCTGAACAAATA
1 AGTA-GTTTCTGAAAAAATA
38807067 GTTTCAAAAT
Statistics
Matches: 149, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
153 2 0.01
154 111 0.74
155 36 0.24
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (154 bp):
AGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAA
GCAGGATGCACTGTCAGCAAAAGTACTAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAG
TTTCTCAAAAAAATAATTTTCGAA
Found at i:38807804 original size:24 final size:24
Alignment explanation
Indices: 38807772--38807821 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
38807762 TTTGATGCTG
*
38807772 AAATACGTACTAGG-AAATGACATC
1 AAATACGTAAT-GGAAAATGACATC
38807796 AAATACGTAATGGAAAATGACATC
1 AAATACGTAATGGAAAATGACATC
38807820 AA
1 AA
38807822 CTTCTAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (24 bp):
AAATACGTAATGGAAAATGACATC
Found at i:38810760 original size:18 final size:18
Alignment explanation
Indices: 38810734--38810777 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
38810724 GACTGGGACA
* * *
38810734 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
38810752 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
38810770 AGGATACA
1 AGGATACA
38810778 CAACTAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.27, T:0.18
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:38810871 original size:30 final size:30
Alignment explanation
Indices: 38810830--38810927 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 30
38810820 GTTGAAGTGT
*
38810830 TGGGCCCGGTGACTGTGTGGGAACTGTTGA
1 TGGGCCCGGTGATTGTGTGGGAACTGTTGA
*** * **
38810860 TGGGTTTGGTGATTGTATGGGCGCTGTTGA
1 TGGGCCCGGTGATTGTGTGGGAACTGTTGA
*
38810890 TGGGCCCGGTGATTGTGTGGGTACTGTTGA
1 TGGGCCCGGTGATTGTGTGGGAACTGTTGA
*
38810920 TGAGCCCG
1 TGGGCCCG
38810928 CGTCGTCATC
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.11, C:0.14, G:0.43, T:0.32
Consensus pattern (30 bp):
TGGGCCCGGTGATTGTGTGGGAACTGTTGA
Found at i:38811434 original size:7 final size:7
Alignment explanation
Indices: 38811424--38811449 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38811414 TTATATACAT
38811424 AATACTA
1 AATACTA
38811431 AATACTA
1 AATACTA
38811438 AATACTA
1 AATACTA
38811445 AATAC
1 AATAC
38811450 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:38816365 original size:24 final size:24
Alignment explanation
Indices: 38816338--38816385 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
38816328 CTATTTTCTC
38816338 AGGCTCTCTCTTTTTTTTTTTTTT
1 AGGCTCTCTCTTTTTTTTTTTTTT
*
38816362 AGGCTCTCTTTTTTTTTTTTTTTT
1 AGGCTCTCTCTTTTTTTTTTTTTT
38816386 TTGTATATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.15, G:0.08, T:0.73
Consensus pattern (24 bp):
AGGCTCTCTCTTTTTTTTTTTTTT
Found at i:38823924 original size:19 final size:21
Alignment explanation
Indices: 38823894--38823933 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
38823884 TTTATTTATA
38823894 AAATTATTATTTTA-ATAAAT
1 AAATTATTATTTTAGATAAAT
38823914 AAATT-TTATTTTAGATAAAT
1 AAATTATTATTTTAGATAAAT
38823934 GAGAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
AAATTATTATTTTAGATAAAT
Found at i:38828429 original size:42 final size:42
Alignment explanation
Indices: 38828382--38828499 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
38828372 TATTGTTTCA
* **
38828382 ATGCCATATCCCCGATATGGTCTTACATGAAAT-ATCATATTG
1 ATGCCATATCCCCGATATGGTCTTACACGAAATCA-CATACCG
* * * *
38828424 ATGCCATGTCCTCGACATGGTCTTATACGAAATCACATACCG
1 ATGCCATATCCCCGATATGGTCTTACACGAAATCACATACCG
* * * *
38828466 AGGCCATATCTCAGATATGGTCTTATACGAAATC
1 ATGCCATATCCCCGATATGGTCTTACACGAAATC
38828500 CTAATAACCT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCCGATATGGTCTTACACGAAATCACATACCG
Found at i:38835602 original size:35 final size:35
Alignment explanation
Indices: 38835512--38835642 Score: 101
Period size: 35 Copynumber: 3.8 Consensus size: 35
38835502 ACCTATAGTT
* *
38835512 CAAATTCAATA-GAACATCACATATAGCCGAATATG
1 CAAATTCAATATAAACATCACATATA-CCGAATATA
* * *
38835547 CACATTCAAGT-T-AACTTCACATATGACCGAATACA
1 CAAATTCAA-TATAAACATCACATAT-ACCGAATATA
* * *
38835582 CAAATTCAATATAAAC-TCACATGTAATCGAATATT
1 CAAATTCAATATAAACATCACATAT-ACCGAATATA
* *
38835617 CAAGTTCAATATAAGC-TCACATATAC
1 CAAATTCAATATAAACATCACATATAC
38835643 TTACCTATGT
Statistics
Matches: 77, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
34 2 0.03
35 70 0.91
36 5 0.06
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (35 bp):
CAAATTCAATATAAACATCACATATACCGAATATA
Found at i:38838699 original size:16 final size:16
Alignment explanation
Indices: 38838678--38838712 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
38838668 GAATCCATTT
38838678 AATACTTTTATTATTC
1 AATACTTTTATTATTC
38838694 AATACTTTTATTATTC
1 AATACTTTTATTATTC
38838710 AAT
1 AAT
38838713 TCAGTCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (16 bp):
AATACTTTTATTATTC
Found at i:38841710 original size:10 final size:10
Alignment explanation
Indices: 38841695--38841762 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
38841685 GGCTCCCCTC
38841695 TTTTATTTTA
1 TTTTATTTTA
38841705 TTTTATTTTA
1 TTTTATTTTA
38841715 -TTTATTATTTA
1 TTTTA-T-TTTA
38841726 TTATTATTTT-
1 TT-TTATTTTA
*
38841736 TGTTATTGTTA
1 TTTTATT-TTA
38841747 TTTT-TTTCT-
1 TTTTATTT-TA
38841756 TTTTATT
1 TTTTATT
38841763 ATTCTTCTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
9 14 0.29
10 19 0.40
11 10 0.21
12 2 0.04
13 3 0.06
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:38841741 original size:22 final size:21
Alignment explanation
Indices: 38841707--38841765 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
38841697 TTATTTTATT
38841707 TTATTTTATTTATTATTTATT
1 TTATTTTATTTATTATTTATT
*
38841728 ATTATTTT-TGTTATT-GTTATT
1 -TTATTTTAT-TTATTATTTATT
*
38841749 TT-TTTCTTTTTATTATT
1 TTATTT-TATTTATTATT
38841766 CTTCTTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.10
20 8 0.26
21 8 0.26
22 12 0.39
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (21 bp):
TTATTTTATTTATTATTTATT
Found at i:38841963 original size:19 final size:21
Alignment explanation
Indices: 38841920--38841964 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38841910 TATTAGTAGA
* *
38841920 GTTTTTGTTTTATTCTGTTTC
1 GTTTTTGTTTTATCCTGTGTC
38841941 GTTTTTGTTTT-TCCT-TGTC
1 GTTTTTGTTTTATCCTGTGTC
38841960 GTTTT
1 GTTTT
38841965 AGGAGTAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 3 0.14
21 11 0.50
ACGTcount: A:0.02, C:0.11, G:0.16, T:0.71
Consensus pattern (21 bp):
GTTTTTGTTTTATCCTGTGTC
Found at i:38845398 original size:25 final size:25
Alignment explanation
Indices: 38845342--38845402 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
38845332 TTCTCAGCTC
* * * *
38845342 TATGAGCTTATCGATTCATAGCTTG
1 TATGAGCATACCGATTCATAACTCG
38845367 TGA-GAGCATACCGATTCATAACTCG
1 T-ATGAGCATACCGATTCATAACTCG
38845392 TATGAGCATAC
1 TATGAGCATAC
38845403 ATGTATATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
TATGAGCATACCGATTCATAACTCG
Found at i:38864588 original size:49 final size:49
Alignment explanation
Indices: 38864526--38864629 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
38864516 TAGTTGTGGT
* *
38864526 AATCGTGTAAAGATAATTAAATGTGATGTGTTAGTAACTATAGAAGCAA
1 AATCATGTAAAGATAATTAAATGTGACGTGTTAGTAACTATAGAAGCAA
*
38864575 AATCATGTAAAGATAATTAAGTGTGACGTGTTAGTAACTATAGAAGCAA
1 AATCATGTAAAGATAATTAAATGTGACGTGTTAGTAACTATAGAAGCAA
38864624 AATCAT
1 AATCAT
38864630 CTCTTATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (49 bp):
AATCATGTAAAGATAATTAAATGTGACGTGTTAGTAACTATAGAAGCAA
Found at i:38871400 original size:51 final size:51
Alignment explanation
Indices: 38871301--38871433 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
38871291 CCATCAAATC
* * *
38871301 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
38871352 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
38871403 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
38871434 CATGTTTCCA
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:38872512 original size:96 final size:96
Alignment explanation
Indices: 38872322--38872515 Score: 271
Period size: 96 Copynumber: 2.0 Consensus size: 96
38872312 TCGCTTCTTT
* *
38872322 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTTTTGGGCTCCTT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
* * * * ** *
38872387 GTCTGCTCCATCGTTTCCTTTGATGACAGAC
66 ATCTGCTCCATCATTCCCATCAATAACAGAC
* * *
38872418 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCTTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
*
38872483 ATCTGCTCGATCATTCCCATCAATAACAGAC
66 ATCTGCTCCATCATTCCCATCAATAACAGAC
38872514 TT
1 TT
38872516 CCTCGGACAC
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 85 1.00
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
ATCTGCTCCATCATTCCCATCAATAACAGAC
Found at i:38872555 original size:43 final size:43
Alignment explanation
Indices: 38872494--38872579 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
38872484 TCTGCTCGAT
*
38872494 CATTCCCATCAATAACAGACTTCCTCGGACACTTCCGCAACCG
1 CATTCCAATCAATAACAGACTTCCTCGGACACTTCCGCAACCG
38872537 CATTCCAATCAATAACAGACTTCCTCGGACACTTCCGCAACCG
1 CATTCCAATCAATAACAGACTTCCTCGGACACTTCCGCAACCG
38872580 ATGCGGACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.21
Consensus pattern (43 bp):
CATTCCAATCAATAACAGACTTCCTCGGACACTTCCGCAACCG
Found at i:38874828 original size:31 final size:29
Alignment explanation
Indices: 38874790--38874863 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
38874780 TTAACAACTC
38874790 AGTGACTAAAATGTTACAACACGTT-AACATA
1 AGTGACTAAAATGTT--AACA-GTTAAACATA
* *
38874821 AGTGACTAAAACG-TAACATTTCAAACATA
1 AGTGACTAAAATGTTAACAGTT-AAACATA
38874850 AGTGACTAAAATGT
1 AGTGACTAAAATGT
38874864 AATATGAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 2 0.05
28 4 0.11
29 18 0.49
30 1 0.03
31 12 0.32
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTTAACAGTTAAACATA
Found at i:38886399 original size:11 final size:11
Alignment explanation
Indices: 38886385--38886420 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
38886375 ATATCCAAAT
*
38886385 AATAACAACAA
1 AATAATAACAA
38886396 AATAATAACAA
1 AATAATAACAA
*
38886407 TATAATAACAA
1 AATAATAACAA
38886418 AAT
1 AAT
38886421 GGTAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAATAACAA
Found at i:38886532 original size:30 final size:30
Alignment explanation
Indices: 38886498--38886554 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
38886488 AAAAAATTAT
*
38886498 TACTCGAGGCTCAGTTCATTTAGAAAATAG
1 TACTCGAGGCCCAGTTCATTTAGAAAATAG
38886528 TACTCGAGGCCCAGTTCATTTAGAAAA
1 TACTCGAGGCCCAGTTCATTTAGAAAA
38886555 CAGACATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (30 bp):
TACTCGAGGCCCAGTTCATTTAGAAAATAG
Found at i:38891321 original size:102 final size:101
Alignment explanation
Indices: 38891135--38891334 Score: 294
Period size: 102 Copynumber: 2.0 Consensus size: 101
38891125 TAAGCAACGC
* * *
38891135 TTATATATTCCAAAAAGCAAGAATTTCAAGAGCGATAACAACAATGATTGGATTTTGTTTATTTT
1 TTATATATTCCAAAAAGCAAGAATTTCAAGAACGACAACAACAATGATTGGATTTGGTTTATTTT
*
38891200 TTCAATCAAAGGCGATGTTTAAGAAGTAGTCGGTGT
66 TTCAATCAAAGGCGATGTTTAAGAAGAAGTCGGTGT
*
38891236 TTATATATTCCAAGAAAGTAAGAATTTCAAGAACGACAACAACAATGATTGGATTTGGTTTATTT
1 TTATATATTCCAA-AAAGCAAGAATTTCAAGAACGACAACAACAATGATTGGATTTGGTTTATTT
** * *
38891301 TTTCAATTGAAGTC-AGTGTTTAGGAAGAAGTCGG
65 TTTCAATCAAAGGCGA-TGTTTAAGAAGAAGTCGG
38891335 CGCACAAGGA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 14 0.16
102 74 0.84
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (101 bp):
TTATATATTCCAAAAAGCAAGAATTTCAAGAACGACAACAACAATGATTGGATTTGGTTTATTTT
TTCAATCAAAGGCGATGTTTAAGAAGAAGTCGGTGT
Found at i:38898826 original size:16 final size:17
Alignment explanation
Indices: 38898797--38898829 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38898787 TTTACTGCAA
38898797 TTTTGTTCTATTTTTCC
1 TTTTGTTCTATTTTTCC
*
38898814 TTTT-TTCTCTTTTTCC
1 TTTTGTTCTATTTTTCC
38898830 ATTTAGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTGTTCTATTTTTCC
Found at i:38901040 original size:18 final size:18
Alignment explanation
Indices: 38901017--38901121 Score: 68
Period size: 19 Copynumber: 5.5 Consensus size: 18
38901007 TAGCTCTGGT
38901017 GAGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* *
38901035 GAGCTTCCATTTAGCACTTAT
1 GAGCTT-CAGTTAGC-CTT-C
*
38901056 GTGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* *
38901074 GGGCTTTC-GTTTAGCACTTAT
1 GAGC-TTCAG-TTAGC-CTT-C
* *
38901095 GTGCTTCAGTTAGACTTC
1 GAGCTTCAGTTAGCCTTC
*
38901113 GGGCTTCAG
1 GAGCTTCAG
38901122 ATCACAATGT
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
18 18 0.26
19 21 0.31
20 20 0.29
21 9 0.13
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (18 bp):
GAGCTTCAGTTAGCCTTC
Found at i:38901062 original size:39 final size:39
Alignment explanation
Indices: 38901019--38901119 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
38901009 GCTCTGGTGA
*
38901019 GCTTCAGTTAGCCTTCGAGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
* *
38901058 GCTTCAGTTAGCCTTCGGGCTTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
*
38901097 GCTTCAGTTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
38901120 AGATCACAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
Found at i:38902777 original size:24 final size:26
Alignment explanation
Indices: 38902750--38902806 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
38902740 TGTTATTATC
*
38902750 ATTACTATTTTC-GTTATTATT-TTT
1 ATTACTATTTTCTGTTACTATTATTT
38902774 ATTACTA-TTTCTGTTACTATTATTT
1 ATTACTATTTTCTGTTACTATTATTT
38902799 -TTACTATT
1 ATTACTATT
38902807 ATTTTACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.14
24 21 0.72
25 4 0.14
ACGTcount: A:0.23, C:0.11, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTACTATTTTCTGTTACTATTATTT
Found at i:38902782 original size:12 final size:11
Alignment explanation
Indices: 38902751--38902816 Score: 60
Period size: 12 Copynumber: 5.6 Consensus size: 11
38902741 GTTATTATCA
*
38902751 TTACTATTTTCG
1 TTACTATTTT-T
*
38902763 TTATTATTTTT
1 TTACTATTTTT
*
38902774 ATTACTATTTCTG
1 -TTACTATTT-TT
38902787 TTACTATTATTT
1 TTACTATT-TTT
*
38902799 TTACTATTATT
1 TTACTATTTTT
38902810 TTACTAT
1 TTACTAT
38902817 CATTTTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
11 9 0.20
12 34 0.76
13 2 0.04
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.64
Consensus pattern (11 bp):
TTACTATTTTT
Found at i:38902813 original size:11 final size:11
Alignment explanation
Indices: 38902787--38902822 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
38902777 ACTATTTCTG
38902787 TTACTATTATTT
1 TTACTATTA-TT
38902799 TTACTATTATT
1 TTACTATTATT
*
38902810 TTACTATCATT
1 TTACTATTATT
38902821 TT
1 TT
38902823 TTTATATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (11 bp):
TTACTATTATT
Found at i:38902823 original size:12 final size:12
Alignment explanation
Indices: 38902764--38902823 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
38902754 CTATTTTCGT
*
38902764 TATTATTTTTAT
1 TATTATTTTTAC
*
38902776 TACTATTTCTGTTAC
1 TATTA-TT-T-TTAC
38902791 TATTATTTTTAC
1 TATTATTTTTAC
38902803 TATTA-TTTTAC
1 TATTATTTTTAC
*
38902814 TATCATTTTT
1 TATTATTTTT
38902824 TTATATGCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 10 0.25
12 17 0.43
13 3 0.08
14 3 0.08
15 7 0.17
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (12 bp):
TATTATTTTTAC
Found at i:38903450 original size:125 final size:125
Alignment explanation
Indices: 38903193--38903491 Score: 375
Period size: 125 Copynumber: 2.4 Consensus size: 125
38903183 ATATTTCGTG
*
38903193 TTTGGAAGTTTGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTTTTTCATTCAACTAAAAT
1 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGA---TTTTTCATTCAACTAAAAT
** * * *
38903258 ATGGAATACCCTTGTGAAATTTCGTCCACGTTTTCTTAAATTAAAACGAGGCAATATTTTGTG
63 ACAGAATACCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGCAATATTCTGTA
* *
38903321 TTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGAC-AAAAGTAC
1 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCAACTAAAA-TAC
* * * * * *
38903385 ATAATATCCTTTTGAAATTTCATCTATGTTTTCTTAAATTAAAATGAGGCAATATTCTGTA
65 AGAATACCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGCAATATTCTGTA
** * * * *
38903446 TTTGGAAAATCGATAAATCGTGCCCAATCGTGCTAGGTTTCGATTT
1 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
38903492 ATCGTTTGGC
Statistics
Matches: 149, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
124 4 0.03
125 104 0.70
128 41 0.28
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (125 bp):
TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCAACTAAAATACA
GAATACCCTTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGCAATATTCTGTA
Found at i:38907835 original size:20 final size:20
Alignment explanation
Indices: 38907810--38907859 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
38907800 TGGCTTAAAA
38907810 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
38907830 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
38907847 GTGGTAGTGGATT
1 TTGGTAGTGGATT
38907860 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:38912474 original size:20 final size:20
Alignment explanation
Indices: 38912449--38912498 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
38912439 TGGCTTAAAA
38912449 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
38912469 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
38912486 GTGGTAGTGGATT
1 TTGGTAGTGGATT
38912499 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:38915950 original size:13 final size:13
Alignment explanation
Indices: 38915932--38915956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38915922 CACAGATGAT
38915932 AGATGTAAGTAAG
1 AGATGTAAGTAAG
38915945 AGATGTAAGTAA
1 AGATGTAAGTAA
38915957 TAATAGTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (13 bp):
AGATGTAAGTAAG
Found at i:38917686 original size:3 final size:3
Alignment explanation
Indices: 38917648--38917674 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38917638 ATATATTTCC
38917648 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
38917675 CGTCATATTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38919183 original size:52 final size:52
Alignment explanation
Indices: 38919028--38919186 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 52
38919018 GGACCACATG
* * *
38919028 TCATACCGATGCCATATCCCGGATATGGTCTTATACGGAATCACATAATCACA
1 TCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGT-ATCACA
* * * * *
38919081 TCACACTGATGCCATAGCCCAGCTATGGTCTTATACGAGGAT-ACGAATCACA
1 TCATACCGATGCCATAGCCCGGCTATGGTCTTATACG-GAATCACGTATCACA
** *
38919133 TGGTACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCATGTATCACA
1 TCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGTATCACA
38919185 TC
1 TC
38919187 TTTTCCGTCA
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
51 3 0.03
52 47 0.54
53 34 0.39
54 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (52 bp):
TCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGTATCACA
Found at i:38926674 original size:5 final size:6
Alignment explanation
Indices: 38926643--38926672 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
38926633 CCCTGGCGGT
*
38926643 AGAACA AGAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
38926673 GATGGTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:38933146 original size:44 final size:44
Alignment explanation
Indices: 38933098--38933192 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
38933088 AGCCACAGAT
38933098 CTTATCTCTCTGAAGTTGTAATAGAGCAGATTAAAACTATAAGC
1 CTTATCTCTCTGAAGTTGTAATAGAGCAGATTAAAACTATAAGC
* * * **
38933142 CTTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAGTTATAAGC
1 CTTATCTCTCTGAAGTTGTAATAGAGCAGATTAAAACTATAAGC
38933186 CTTATCT
1 CTTATCT
38933193 TCCTAAAGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTGTAATAGAGCAGATTAAAACTATAAGC
Found at i:38933398 original size:54 final size:54
Alignment explanation
Indices: 38933311--38933415 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
38933301 CAGATCGAAG
* * *
38933311 ATAGCGAATCTTATTTCCCTGACGTTGCAGTGGAATATATTAAAGCTACAAATT
1 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAAATTAAAGCTACAAATT
* * *
38933365 ATAGTGAATCTTATCTT-CCTAAAGTTGCAGTGGAGTAAATTGAAGCTACAA
1 ATAGCGAATCTTAT-TTCCCTAAAGTTGCAGTGGAATAAATTAAAGCTACAA
38933416 GTTGGGAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 42 0.95
55 2 0.05
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (54 bp):
ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAAATTAAAGCTACAAATT
Found at i:38933573 original size:96 final size:94
Alignment explanation
Indices: 38933371--38933637 Score: 240
Period size: 96 Copynumber: 2.9 Consensus size: 94
38933361 AATTATAGTG
* ** ** *
38933371 AATCTTATCTTCCTAAAGTTGCAGTGGAGTAAATTGAAGCTACAAGTTGGGAGTCTTATCTCCTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAAATTGAAGCT-CAAG-TCAGAACCTTATCTCCCT
* *** * **
38933436 GAAGTTGCAGCAAAGCAGACTGAAGGTAGGG
64 GAAGTTGTAGTGGAGCAGACTGAAGATAGAA
* *
38933467 AAT-TTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTGCAAGTCACGAACCTTATCTCCC
1 AATCTT-ATCTCCCTAAAGTTGCAGTGGAGTAAATTGAAGCT-CAAGTCA-GAACCTTATCTCCC
*
38933531 TGAAGTTGTAGTGGAGCAGACTGAATATAGAA
63 TGAAGTTGTAGTGGAGCAGACTGAAGATAGAA
* * * * * * *
38933563 AATCTTATCTCTCTAAAGTTGCAATAGAGCATATTAAAGCTC----CA-AACCTTATCTTCCTGA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAAATTGAAGCTCAAGTCAGAACCTTATCTCCCTGA
38933623 AGTTGTAGTGGAGCA
66 AGTTGTAGTGGAGCA
38933638 TATTGAAGCT
Statistics
Matches: 143, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
89 30 0.21
91 2 0.01
95 4 0.03
96 105 0.73
97 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (94 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGTAAATTGAAGCTCAAGTCAGAACCTTATCTCCCTGA
AGTTGTAGTGGAGCAGACTGAAGATAGAA
Found at i:38938483 original size:76 final size:76
Alignment explanation
Indices: 38938354--38938501 Score: 215
Period size: 76 Copynumber: 1.9 Consensus size: 76
38938344 TTTTTTAGTT
* *
38938354 AAGTGATTGGCCATAATGAAATTGAAAAGTTTATTACACACTCCAAAAAGAATTATATTTTGAGG
1 AAGTGATTGGCCATAATGAAATTGAAAAGTTTATTACACACTCCAAAAAGAATTATATCTAGAGG
38938419 ACACACTCAAG
66 ACACACTCAAG
* ** * * *
38938430 AAGTGATTGGTCATAATGAAATTGAGGAGTTTATTATACAGTCCAAAATGAATTATATCTAGAGG
1 AAGTGATTGGCCATAATGAAATTGAAAAGTTTATTACACACTCCAAAAAGAATTATATCTAGAGG
*
38938495 GCACACT
66 ACACACT
38938502 TAGGAATAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (76 bp):
AAGTGATTGGCCATAATGAAATTGAAAAGTTTATTACACACTCCAAAAAGAATTATATCTAGAGG
ACACACTCAAG
Found at i:38940696 original size:34 final size:34
Alignment explanation
Indices: 38940634--38940707 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
38940624 TCTAGGGAGA
* * *
38940634 TTGTTAGCTTGTTAGTAGTAGAAAGAAGCTAAGT
1 TTGTTAGCTTATTAGTAGGAGAAAGAAGCCAAGT
* * *
38940668 TTGTTAGCTTATTAGTAGGAGTAGGAAGCCGAGT
1 TTGTTAGCTTATTAGTAGGAGAAAGAAGCCAAGT
38940702 TTGTTA
1 TTGTTA
38940708 AAGTTTGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.36
Consensus pattern (34 bp):
TTGTTAGCTTATTAGTAGGAGAAAGAAGCCAAGT
Found at i:38947637 original size:17 final size:16
Alignment explanation
Indices: 38947617--38947657 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
38947607 AATTAAAATA
38947617 AAAATAAAAACAAAAGG
1 AAAATAAAAAC-AAAGG
* *
38947634 AAAAGAAAAACAAAGT
1 AAAATAAAAACAAAGG
38947650 AAAATAAA
1 AAAATAAA
38947658 TTGACTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (16 bp):
AAAATAAAAACAAAGG
Found at i:38950894 original size:24 final size:24
Alignment explanation
Indices: 38950843--38950894 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
38950833 AATTATTTTA
* *
38950843 ACAT-TTTTTATAATATTTTGTTT
1 ACATATTTTTATAATATATTGTGT
38950866 A-ATATTTTTATATATATATTG-GT
1 ACATATTTTTATA-ATATATTGTGT
38950889 ACATAT
1 ACATAT
38950895 GTATGGTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 11 0.46
24 11 0.46
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (24 bp):
ACATATTTTTATAATATATTGTGT
Found at i:38967071 original size:17 final size:18
Alignment explanation
Indices: 38967041--38967086 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
38967031 ATTTAAATTG
38967041 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
38967059 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
38967075 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
38967087 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:38976968 original size:90 final size:91
Alignment explanation
Indices: 38976778--38977014 Score: 239
Period size: 90 Copynumber: 2.6 Consensus size: 91
38976768 CACATTTGGT
** * * * * *
38976778 ACCTATACTTTCATAAAATATTTAATATTGTATTTGAACTATCCATTTGTATATTATTTGATAAT
1 ACCTATACTTT-A-AAAATATCCAATGTTATACTTGAACTATCAATTTGTGTATTATTTGATAAT
* *
38976843 TGTACTTTCATAAAATGTCCAATGTGAC
64 TATACTTTCATAAAATATCCAATGTGAC
* * * *
38976871 ACCTATACTTT-GAAATATCCAATG-TAGTACTTGAACTATTAATTTGTGTATTATTTGGTACTT
1 ACCTATACTTTAAAAATATCCAATGTTA-TACTTGAACTATCAATTTGTGTATTATTTGATAATT
*
38976934 ATACTTTCATAAAATATCCAATGT-AGT
65 ATACTTTCATAAAATATCCAATGTGA-C
* * **
38976961 ACTTATACTTTAAAAATGTTTAATGTTATACTTGAACTATCAATCTT-TGTATTA
1 ACCTATACTTTAAAAATATCCAATGTTATACTTGAACTATCAAT-TTGTGTATTA
38977015 CTAGAACATG
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
89 2 0.02
90 71 0.60
91 31 0.26
92 4 0.03
93 11 0.09
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (91 bp):
ACCTATACTTTAAAAATATCCAATGTTATACTTGAACTATCAATTTGTGTATTATTTGATAATTA
TACTTTCATAAAATATCCAATGTGAC
Found at i:38978181 original size:21 final size:22
Alignment explanation
Indices: 38978147--38978195 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
38978137 AGGACTAAAT
* *
38978147 CAAAAATTTTAAAATTTTT-TA
1 CAAAACTTTGAAAATTTTTCTA
38978168 CAAAACTTTGAAAATTTTTCTA
1 CAAAACTTTGAAAATTTTTCTA
*
38978190 CTAAAC
1 CAAAAC
38978196 AGGGGTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (22 bp):
CAAAACTTTGAAAATTTTTCTA
Found at i:38979430 original size:20 final size:20
Alignment explanation
Indices: 38979405--38979458 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
38979395 TGGAGGCGAT
38979405 GCACACGCCCGTGTGCATTG
1 GCACACGCCCGTGTGCATTG
*
38979425 GCACACGTCCGTGTGCATTG
1 GCACACGCCCGTGTGCATTG
*
38979445 GGACACGCCCGTGT
1 GCACACGCCCGTGT
38979459 TCCTTACCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.20
Consensus pattern (20 bp):
GCACACGCCCGTGTGCATTG
Found at i:38985222 original size:32 final size:34
Alignment explanation
Indices: 38985186--38985250 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
38985176 TAACAGTGGT
*
38985186 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
38985218 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
38985251 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:38985606 original size:26 final size:26
Alignment explanation
Indices: 38985577--38985655 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
38985567 AATTTAACCC
38985577 TAGGGGTATTTCAGTAATTTATCTCT
1 TAGGGGTATTTCAGTAATTTATCTCT
*** * * *
38985603 TAGGGGTAAAACTGTAAATTTTTCACTTT
1 TAGGGGTATTTCAGT-AATTTAT--CTCT
*
38985632 TAAGGGTATTTCAGTAATTTATCT
1 TAGGGGTATTTCAGTAATTTATCT
38985656 ATTTTAGGGT
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
26 13 0.34
27 6 0.16
28 6 0.16
29 13 0.34
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (26 bp):
TAGGGGTATTTCAGTAATTTATCTCT
Found at i:38988704 original size:30 final size:30
Alignment explanation
Indices: 38988657--38988720 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
38988647 ACTCCATTAC
*
38988657 TTCTCGTATAAGCCCAGGCCACCAGTACAG
1 TTCTCGTATAAGCCCAGGCCACCAGTACAA
*
38988687 TTCTCGCT-TAAGTCCAGGCCACCAGTACAA
1 TTCTCG-TATAAGCCCAGGCCACCAGTACAA
38988717 TTCT
1 TTCT
38988721 TGCAAGTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (30 bp):
TTCTCGTATAAGCCCAGGCCACCAGTACAA
Found at i:38992627 original size:26 final size:26
Alignment explanation
Indices: 38992598--38992650 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
38992588 TCAAACATGC
38992598 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
38992624 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
38992650 A
1 A
38992651 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:38997104 original size:43 final size:42
Alignment explanation
Indices: 38997038--38997194 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
38997028 AGCTCGTACA
* *
38997038 ATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAATA-CG
* * *
38997081 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACG
* * * *
38997123 ATGTCAATGTCCTAGACATGGTCTTACACGTAAATATCAAAT-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGT--A-ATCAAATACG
* * *
38997167 ATGTCAACGTTCCAGAC-GTGGTCTTACA
1 ATGCCAATGTCCCAGACAG-GGTCTTACA
38997195 CGAAATCACA
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
42 27 0.29
43 33 0.35
44 27 0.29
45 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACG
Found at i:38999244 original size:18 final size:17
Alignment explanation
Indices: 38999213--38999247 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38999203 CTTTCTTCCT
*
38999213 TTTATTATTTTTATTTA
1 TTTATTATTGTTATTTA
38999230 TTTATTTATTGTTATTTA
1 TTTA-TTATTGTTATTTA
38999248 GTTGCTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTATTGTTATTTA
Found at i:39004249 original size:42 final size:40
Alignment explanation
Indices: 39004136--39004291 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 40
39004126 TTCTGATATG
*
39004136 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATCGATT
*
39004177 TGAGATTTAAGTGTAAGACCATGTCTGGGACATCGGCATCGCATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACAT-GGCATCG-ATT
* *
39004222 TGATTTCGTATAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATCG--ATT
* ** *
39004265 TGATTACACGTAAGACCACGTCTGGGA
1 TGATTTCGTGTAAGACCATGTCTGGGA
39004292 TGTTGGCATT
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 36 0.38
44 28 0.29
45 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (40 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATGGCATCGATT
Found at i:39011862 original size:42 final size:43
Alignment explanation
Indices: 39011753--39011908 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
39011743 TCTGATATGG
* * * * * *
39011753 GATTTTGTGTAAGACCATGTTTGGGAC-GTTGACACCGAT-TTGA
1 GATTTCGTGTAAGACCATATCTGGGACAG-TGGCATCGATATT-T
* *
39011796 GATTTACGTGTAAGACCATGTCTGGGATA-TCGGCATCG-TATTT
1 GATTT-CGTGTAAGACCATATCTGGGACAGT-GGCATCGATATTT
*
39011839 GATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTT
1 GATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGATATTT
* * **
39011882 GATTACATGTAAGACCACGTCTGGGAC
1 GATTTCGTGTAAGACCATATCTGGGAC
39011909 GTTTGCATTG
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 27 0.29
43 40 0.43
44 26 0.28
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATATCTGGGACAGTGGCATCGATATTT
Found at i:39015642 original size:15 final size:15
Alignment explanation
Indices: 39015618--39015654 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
39015608 AGAAACAAAA
39015618 ATAA-AATAAATTAC
1 ATAATAATAAATTAC
*
39015632 ATAATAATAAATTCC
1 ATAATAATAAATTAC
39015647 ATAATAAT
1 ATAATAAT
39015655 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATAATAAATTAC
Found at i:39020597 original size:44 final size:45
Alignment explanation
Indices: 39020491--39020606 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 45
39020481 CCGGTATTTC
* *
39020491 GCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGT-ATCTCACCGGCATCATA
39020534 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGCATCATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGCATCATA
* *
39020579 GCCTGCTA-GCTCAAAGGCCTGAATAGTA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGTA
39020607 CCGTACGATA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
43 16 0.24
44 23 0.35
45 26 0.39
46 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGCATCATA
Found at i:39028782 original size:34 final size:35
Alignment explanation
Indices: 39028666--39028788 Score: 167
Period size: 35 Copynumber: 3.5 Consensus size: 35
39028656 AGTACATCGA
* **
39028666 TAATCCAACCGAAACACATTAGATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCA-ATGCTCATAAGAGC
* ** *
39028702 TAATCTATTTGGAACACACCAATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCAATGCTCATAAGAGC
39028737 TAATCCATCCGAAACACACCAATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCAATGCTCATAAGAGC
39028772 T-ATCCATCCGAAACACA
1 TAATCCATCCGAAACACA
39028789 ACAAAACAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
34 16 0.21
35 46 0.61
36 14 0.18
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (35 bp):
TAATCCATCCGAAACACACCAATGCTCATAAGAGC
Found at i:39031144 original size:60 final size:59
Alignment explanation
Indices: 39031024--39031160 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 59
39031014 CAGTGTTAAC
*
39031024 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGTCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGTCCCTTACAG-ATCAGAGTATAT
* * *
39031085 TGGGCCTAGCCTATATCAGTATCAATCTGGGCCGTAG-CCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGTCCC--TTACAGA-TCAGAG-TATAT
* *
39031145 TAGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
39031161 TAACATAGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
59 7 0.11
60 47 0.72
61 11 0.17
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGTCCCTTACAGATCAGAGTATAT
Found at i:39032566 original size:28 final size:28
Alignment explanation
Indices: 39032515--39032568 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
39032505 AAGAGATGAG
*
39032515 AGAAGGAAAGAAAAGAATAGAAAATAGA
1 AGAAGGAAAGAAAAGAATACAAAATAGA
*
39032543 AGAAGGAAA-AAAATGAATTCAAAATA
1 AGAAGGAAAGAAAA-GAATACAAAATA
39032569 TACGGCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.11
Consensus pattern (28 bp):
AGAAGGAAAGAAAAGAATACAAAATAGA
Found at i:39033611 original size:19 final size:18
Alignment explanation
Indices: 39033574--39033617 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
39033564 ATACATGCAG
39033574 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
39033591 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
39033610 TACTAATT
1 TAATAATT
39033618 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:39036535 original size:27 final size:29
Alignment explanation
Indices: 39036499--39036555 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
39036489 AATATTAGGA
* *
39036499 TAAAATAATATT-TAGTTTTTAAATTTGG
1 TAAAATAATATTGTAATTATTAAATTTGG
*
39036527 TAAAA-AATATTGTAATTATTAATTTTGG
1 TAAAATAATATTGTAATTATTAAATTTGG
39036555 T
1 T
39036556 TAATAGATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (29 bp):
TAAAATAATATTGTAATTATTAAATTTGG
Found at i:39038252 original size:28 final size:28
Alignment explanation
Indices: 39038220--39038276 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
39038210 CAAAATCACA
39038220 AGATTCAAATATTTCAAGATATCAGTGG
1 AGATTCAAATATTTCAAGATATCAGTGG
39038248 AGATTCAAATATTTCAAGATATCAGTGG
1 AGATTCAAATATTTCAAGATATCAGTGG
39038276 A
1 A
39038277 TTTATGTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (28 bp):
AGATTCAAATATTTCAAGATATCAGTGG
Found at i:39044825 original size:26 final size:26
Alignment explanation
Indices: 39044765--39044826 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
39044755 TTTAAAAATT
**
39044765 ATTAGTTTAATAAAGCTTAATTTAAA
1 ATTAGTTTTTTAAAGCTTAATTTAAA
39044791 ATTAGTTTTTTAAAGCTTAATTTAAA
1 ATTAGTTTTTTAAAGCTTAATTTAAA
39044817 ATTAGTTTTT
1 ATTAGTTTTT
39044827 ATTATTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (26 bp):
ATTAGTTTTTTAAAGCTTAATTTAAA
Found at i:39050273 original size:28 final size:28
Alignment explanation
Indices: 39050211--39050276 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
39050201 TCAACAATTA
* *
39050211 ATTAAATTTTAAAATTTAAAAAATTATT
1 ATTAAAATTTAAAATATAAAAAATTATT
** *
39050239 AAAAAAATTTAAAATATATAAAATTATT
1 ATTAAAATTTAAAATATAAAAAATTATT
*
39050267 TTTAAAATTT
1 ATTAAAATTT
39050277 TTTAATTTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTAAAATTTAAAATATAAAAAATTATT
Found at i:39057839 original size:9 final size:9
Alignment explanation
Indices: 39057764--39057845 Score: 53
Period size: 9 Copynumber: 8.9 Consensus size: 9
39057754 TATATTTTAA
39057764 TTTT-TAAT
1 TTTTATAAT
* *
39057772 TTTTACATT
1 TTTTATAAT
39057781 TTTATATAAT
1 TTT-TATAAT
* *
39057791 TTTCAGAAT
1 TTTTATAAT
39057800 TTTGTATAAT
1 TTT-TATAAT
*
39057810 GCTTTT-TAGT
1 --TTTTATAAT
39057820 TTTTGAT-AT
1 TTTT-ATAAT
39057829 TTTTATAAT
1 TTTTATAAT
39057838 TTTTATAA
1 TTTTATAA
39057846 AATTTTGAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
8 10 0.18
9 27 0.48
10 15 0.27
11 1 0.02
12 3 0.05
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:39057850 original size:58 final size:55
Alignment explanation
Indices: 39057758--39057866 Score: 137
Period size: 58 Copynumber: 1.9 Consensus size: 55
39057748 TCAAAATATA
* * *
39057758 TTTTAATTTTTAATTTTTACATTTTTATATAATTTTCAGAATTTTGTATAATGCT
1 TTTTAATTTTTAATTTTTAAATTTTTATAAAATTTTCAAAATTTTGTATAATGCT
* * *
39057813 TTTTAGTTTTTGATATTTTTATAATTTTTATAAAATTTTGAAAATTTTTTATAA
1 TTTTAATTTTT-A-ATTTTTA-AATTTTTATAAAATTTTCAAAATTTTGTATAA
39057867 ATATTTTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
55 10 0.22
56 1 0.02
57 7 0.16
58 27 0.60
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (55 bp):
TTTTAATTTTTAATTTTTAAATTTTTATAAAATTTTCAAAATTTTGTATAATGCT
Found at i:39057863 original size:21 final size:21
Alignment explanation
Indices: 39057837--39057881 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
39057827 ATTTTTATAA
39057837 TTTTTATAAA-ATTTTGAAAAT
1 TTTTTATAAATATTTTG-AAAT
39057858 TTTTTATAAATATTTTGAAAT
1 TTTTTATAAATATTTTGAAAT
39057879 TTT
1 TTT
39057882 GAAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTTATAAATATTTTGAAAT
Found at i:39057864 original size:30 final size:30
Alignment explanation
Indices: 39057828--39057918 Score: 139
Period size: 30 Copynumber: 3.0 Consensus size: 30
39057818 GTTTTTGATA
* *
39057828 TTTTTAT-AATTTTTATAAAATTTTGAAAAT
1 TTTTTATAAATATTT-TGAAATTTTGAAAAT
*
39057858 TTTTTATAAATATTTTGAAATTTTGAAATT
1 TTTTTATAAATATTTTGAAATTTTGAAAAT
39057888 TTTTTATAAATATTTTGAAATTTTGAAAAT
1 TTTTTATAAATATTTTGAAATTTTGAAAAT
39057918 T
1 T
39057919 ATCTTATTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
30 50 0.89
31 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (30 bp):
TTTTTATAAATATTTTGAAATTTTGAAAAT
Found at i:39058365 original size:67 final size:67
Alignment explanation
Indices: 39058287--39058420 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
39058277 CCACTTTTAC
*
39058287 TCTTTCTCAGAAAAAGTTGAGTAACAAAGCTAATTACACAAAACAAAATTACTTTATCATTCTCA
1 TCTTTCCCAGAAAAAGTTGAGTAACAAAGCTAATTACACAAAACAAAATTACTTTATCATTCTCA
39058352 TA
66 TA
39058354 TCTTTCCCAGAAAAAGTTGAGTAACAAAGCTAATTACACAAAACAAAATTACTTTATCATTCTCA
1 TCTTTCCCAGAAAAAGTTGAGTAACAAAGCTAATTACACAAAACAAAATTACTTTATCATTCTCA
39058419 TA
66 TA
39058421 GAATTTGAGC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (67 bp):
TCTTTCCCAGAAAAAGTTGAGTAACAAAGCTAATTACACAAAACAAAATTACTTTATCATTCTCA
TA
Found at i:39059090 original size:30 final size:31
Alignment explanation
Indices: 39059022--39059097 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
39059012 TCAAAAAAAT
*
39059022 AAAAATAATT--AAATCTATAATAATTATTA
1 AAAAATAATTAAAAATCTATAATAATTATAA
*
39059051 AAAATTAATTAAAAATC-ATAA-AATTTATAA
1 AAAAATAATTAAAAATCTATAATAA-TTATAA
39059081 AAAAATAATTATAAAAT
1 AAAAATAATTA-AAAAT
39059098 TTTTATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 11 0.28
30 19 0.47
31 10 0.25
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAAATAATTAAAAATCTATAATAATTATAA
Found at i:39061507 original size:46 final size:44
Alignment explanation
Indices: 39061402--39061509 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
39061392 TGTCTTTGAC
** * * *
39061402 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
39061446 ATGGAATTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
39061492 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
39061510 TTTCTGTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 32 0.59
46 22 0.41
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:39063514 original size:24 final size:23
Alignment explanation
Indices: 39063486--39063581 Score: 59
Period size: 24 Copynumber: 4.0 Consensus size: 23
39063476 CCAAACCAAA
39063486 TAACAGAAAGCTCATGTGAGCTT
1 TAACAGAAAGCTCATGTGAGCTT
* * * *
39063509 GTAACAGGAAGATTAT-TCGGGCTT
1 -TAACAGAAAGCTCATGT-GAGCTT
* **
39063533 AATAACAAAAAGCTCATAAGAGCTT
1 --TAACAGAAAGCTCATGTGAGCTT
* *
39063558 AAATCAGAAAGCTCATGCGAGCTT
1 TAA-CAGAAAGCTCATGTGAGCTT
39063582 AATGGGTAAC
Statistics
Matches: 53, Mismatches: 15, Indels: 8
0.70 0.20 0.11
Matches are distributed among these distances:
23 3 0.06
24 34 0.64
25 16 0.30
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (23 bp):
TAACAGAAAGCTCATGTGAGCTT
Found at i:39063557 original size:25 final size:25
Alignment explanation
Indices: 39063529--39063584 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
39063519 GATTATTCGG
39063529 GCTTAATAACAAAAAGCTCATAAGA
1 GCTTAATAACAAAAAGCTCATAAGA
* * **
39063554 GCTTAA-ATCAGAAAGCTCATGCGA
1 GCTTAATAACAAAAAGCTCATAAGA
39063578 GCTTAAT
1 GCTTAAT
39063585 GGGTAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (25 bp):
GCTTAATAACAAAAAGCTCATAAGA
Found at i:39072792 original size:17 final size:17
Alignment explanation
Indices: 39072770--39072802 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39072760 GTGTTCGATG
*
39072770 AAGACATGGTCGTATGC
1 AAGACATGGCCGTATGC
39072787 AAGACATGGCCGTATG
1 AAGACATGGCCGTATG
39072803 GTGTAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.21
Consensus pattern (17 bp):
AAGACATGGCCGTATGC
Done.