Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 54
Found at i:10556118 original size:11 final size:11
Alignment explanation
Indices: 10556095--10556214 Score: 54
Period size: 11 Copynumber: 10.6 Consensus size: 11
10556085 TATATATATA
*
10556095 TTATTCTTATT
1 TTATTTTTATT
10556106 TTA-TTTTATTT
1 TTATTTTTA-TT
10556117 TTATTTGTT-TGT
1 TTATTT-TTAT-T
* *
10556129 TCTCTTTTTGTT
1 T-TATTTTTATT
10556141 TTATTTTTATT
1 TTATTTTTATT
10556152 CTTATTTTTA-T
1 -TTATTTTTATT
*
10556163 TCATTTTTTATT
1 TTA-TTTTTATT
* *
10556175 CTA-TTTAATGT
1 TTATTTTTAT-T
10556186 TTA--TTTATT
1 TTATTTTTATT
*
10556195 TTACCATTTTATT
1 TTA--TTTTTATT
10556208 TTATTTT
1 TTATTTT
10556215 CCTATCTATT
Statistics
Matches: 84, Mismatches: 11, Indels: 28
0.68 0.09 0.23
Matches are distributed among these distances:
9 4 0.05
10 15 0.18
11 30 0.36
12 19 0.23
13 16 0.19
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:10556191 original size:23 final size:23
Alignment explanation
Indices: 10556087--10556191 Score: 56
Period size: 23 Copynumber: 4.5 Consensus size: 23
10556077 TGTGTATATA
*
10556087 TATATATATTATTCTTATT-TTATTT
1 TATATTTATT-TT-TTATTCTTA-TT
* * *
10556112 TATTTTTATTTGTTTGTTCTCTTTT
1 TATATTTATTT-TTTATTCT-TATT
*
10556137 TGT-TTTA-TTTTTATTCTTATT
1 TATATTTATTTTTTATTCTTATT
* *
10556158 TTTATTCATTTTTTATTC-TATT
1 TATATTTATTTTTTATTCTTATT
*
10556180 TAATGTTTATTT
1 T-ATATTTATTT
10556192 ATTTTACCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
21 5 0.08
22 15 0.24
23 18 0.29
24 9 0.15
25 14 0.23
26 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.72
Consensus pattern (23 bp):
TATATTTATTTTTTATTCTTATT
Found at i:10556217 original size:196 final size:197
Alignment explanation
Indices: 10555993--10556416 Score: 737
Period size: 202 Copynumber: 2.1 Consensus size: 197
10555983 TTATTCCCTT
*
10555993 TTTATTTTACTCA-TTT-TTATATTTTTCCTATCTATTTTCGGTTTGTCTTTTTAGTTGTTTTCC
1 TTTATTTTAC-CATTTTATTTTA-TTTTCCTATCTATTTTCGGTTTGTCTTTTTAGTTGTTTTCC
*
10556056 ATACATCTCATTATATGTGTGTG-TGTATATATATATATATTATTCTTATTTTATTTTATTTTTA
64 ATACATCTCATTATATGTGTGTGATATATATATATATATATTATTCTTATTTTATTTTATTTTTA
*
10556120 TTTGTTTGTTCTCTTTTTGTTTTATTTTTATTCTTATTTTTATTCATTTTTTATTCTATTTAATG
129 TTTGTTTGTTCTCTTTTTGTTTTATTTTTATTCTTATTTTTATTCATTTTTTATTATATTTAATG
10556185 TTTA
194 TTTA
10556189 TTTATTTTACCATTTTATTTTATTTTCCTATCTATTTTCGGTTTGTCTTTTTAGTTGTTTTCCAT
1 TTTATTTTACCATTTTATTTTATTTTCCTATCTATTTTCGGTTTGTCTTTTTAGTTGTTTTCCAT
10556254 ACATCTCATTATATGTGTGTGTATATATATATATATATATATATTATTCTTATTTTATTTTATTT
66 ACATCTCATTATATGTGTGTG-----ATATATATATATATATATTATTCTTATTTTATTTTATTT
10556319 TTATTTGTTTGTTCTCTTTTTGTTTTATTTTTATTCTTATTTTTATTCATTTTTTATTATATTTA
126 TTATTTGTTTGTTCTCTTTTTGTTTTATTTTTATTCTTATTTTTATTCATTTTTTATTATATTTA
10556384 ATGTTTA
191 ATGTTTA
10556391 TTTATTTTACCATTTTATTTTATTTT
1 TTTATTTTACCATTTTATTTTATTTT
10556417 TTTTATTTTA
Statistics
Matches: 217, Mismatches: 3, Indels: 10
0.94 0.01 0.04
Matches are distributed among these distances:
195 2 0.01
196 77 0.35
197 4 0.02
202 134 0.62
ACGTcount: A:0.19, C:0.09, G:0.06, T:0.66
Consensus pattern (197 bp):
TTTATTTTACCATTTTATTTTATTTTCCTATCTATTTTCGGTTTGTCTTTTTAGTTGTTTTCCAT
ACATCTCATTATATGTGTGTGATATATATATATATATATTATTCTTATTTTATTTTATTTTTATT
TGTTTGTTCTCTTTTTGTTTTATTTTTATTCTTATTTTTATTCATTTTTTATTATATTTAATGTT
TA
Found at i:10556313 original size:5 final size:5
Alignment explanation
Indices: 10556297--10556462 Score: 81
Period size: 5 Copynumber: 31.0 Consensus size: 5
10556287 TATATATATA
* * *
10556297 TTATT CTTATT TTATT TTATTT TTATT TGTTTGT TCTCTTT TTGTT TTATTT
1 TTATT -TTATT TTATT TTA-TT TTATT T-TAT-T T-T-ATT TTATT TTA-TT
* *
10556349 TTATT CTTATTT TTATT CATT-TT TTATT ATATT TAATGT TTA-T TTATT
1 TTATT -TTA-TT TTATT --TTATT TTATT TTATT TTAT-T TTATT TTATT
* *
10556397 TTACCATT TTATT TTATT TT-TT TTATT TTATT TTATT AT-TT TTATCC
1 TT---ATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTAT-T
*
10556444 TTATG TTA-T TTATT TTATT
1 TTATT TTATT TTATT TTATT
10556463 ATTTTTCTCT
Statistics
Matches: 128, Mismatches: 13, Indels: 39
0.71 0.07 0.22
Matches are distributed among these distances:
4 16 0.12
5 63 0.49
6 33 0.26
7 9 0.07
8 7 0.05
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:10556399 original size:9 final size:9
Alignment explanation
Indices: 10556359--10556467 Score: 64
Period size: 9 Copynumber: 11.4 Consensus size: 9
10556349 TTATTCTTAT
*
10556359 TTTTATTCA
1 TTTTATTTA
10556368 -TTT-TTTA
1 TTTTATTTA
*
10556375 TTATATTTAA
1 TTTTATTT-A
10556385 TGTTTATTTA
1 T-TTTATTTA
10556395 TTTTACCATTTTA
1 TTTT---A-TTTA
*
10556408 TTTTATTTT
1 TTTTATTTA
10556417 TTTTATTTTA
1 TTTTA-TTTA
10556427 TTTTA-TTA
1 TTTTATTTA
10556435 TTTTTATCCTTA
1 -TTTTAT--TTA
*
10556447 TGTTATTTA
1 TTTTATTTA
10556456 TTTTA-TTA
1 TTTTATTTA
10556464 TTTT
1 TTTT
10556468 TCTCTTTGTA
Statistics
Matches: 80, Mismatches: 7, Indels: 27
0.70 0.06 0.24
Matches are distributed among these distances:
7 3 0.04
8 15 0.19
9 26 0.32
10 13 0.16
11 11 0.14
12 4 0.05
13 8 0.10
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:10556407 original size:33 final size:32
Alignment explanation
Indices: 10556370--10556431 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
10556360 TTTATTCATT
10556370 TTTTATTATATTTAATGTTTA-TTTATTTTACCA
1 TTTTATTATATTT--TGTTTATTTTATTTTACCA
* *
10556403 TTTTATTTTATTTTTTTTATTTTATTTTA
1 TTTTATTATATTTTGTTTATTTTATTTTA
10556432 TTATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 5 0.19
32 9 0.35
33 12 0.46
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (32 bp):
TTTTATTATATTTTGTTTATTTTATTTTACCA
Found at i:10556421 original size:27 final size:27
Alignment explanation
Indices: 10556347--10556426 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
10556337 TTTGTTTTAT
* **
10556347 TTTTATTCTTATTTTTATTCATTTT-TTA
1 TTTTATT-TTATTTTT-TTTATTTTACCA
* * *
10556375 TTATATTTAATGTTTATTTATTTTACCA
1 TTTTATTTTAT-TTTTTTTATTTTACCA
10556403 TTTTATTTTATTTTTTTTATTTTA
1 TTTTATTTTATTTTTTTTATTTTA
10556427 TTTTATTATT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.72
Consensus pattern (27 bp):
TTTTATTTTATTTTTTTTATTTTACCA
Found at i:10557031 original size:16 final size:16
Alignment explanation
Indices: 10557010--10557042 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10557000 CTTACTTTTG
10557010 ATTATTTTTTTCAAAT
1 ATTATTTTTTTCAAAT
10557026 ATTATTTTTTTCAAAT
1 ATTATTTTTTTCAAAT
10557042 A
1 A
10557043 AATAGTTGTA
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:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTTTTTTCAAAT
Found at i:10562070 original size:34 final size:32
Alignment explanation
Indices: 10562008--10562077 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
10561998 ACCTTACAAC
* *
10562008 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
10562040 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
10562074 TCCC
1 TCCC
10562078 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:10562386 original size:21 final size:21
Alignment explanation
Indices: 10562360--10562401 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10562350 CCAGAATGGG
10562360 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
10562381 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
10562402 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:10562583 original size:20 final size:20
Alignment explanation
Indices: 10562512--10562584 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
10562502 CAAACCATGC
*
10562512 AGGGGGAATCTGTACCCCCT
1 AGGGGGAATCTGTTCCCCCT
*
10562532 GGAGGGGAATCTGTT--CCC-
1 AG-GGGGAATCTGTTCCCCCT
*
10562550 A--GAGAATC-GATTCCCCCT
1 AGGGGGAATCTG-TTCCCCCT
10562568 AGGGGGAATCTGTTCCC
1 AGGGGGAATCTGTTCCC
10562585 TCTGGGCAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
14 1 0.03
15 8 0.20
17 3 0.08
18 1 0.03
19 3 0.08
20 12 0.30
21 12 0.30
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.22
Consensus pattern (20 bp):
AGGGGGAATCTGTTCCCCCT
Found at i:10565526 original size:20 final size:20
Alignment explanation
Indices: 10565453--10565533 Score: 81
Period size: 20 Copynumber: 3.9 Consensus size: 20
10565443 AGAACCCGTG
* *
10565453 GGGGGTATCGATTCCCTCAA
1 GGGGGAATCGATTCCCTTAA
*
10565473 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGATTCCC-TT--AA
*
10565497 GGGGGAATCGATTCCCTTAT
1 GGGGGAATCGATTCCCTTAA
*
10565517 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
10565534 CTGCCCTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 19 0.37
21 12 0.24
22 3 0.06
23 13 0.25
24 4 0.08
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTTAA
Found at i:10569312 original size:21 final size:21
Alignment explanation
Indices: 10569286--10569327 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10569276 ATTTGAATAT
10569286 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTATCGATTCCC
10569307 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTATCGATTCCC
10569328 CCCATTCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TATGAAGGGGTATCGATTCCC
Found at i:10569389 original size:21 final size:21
Alignment explanation
Indices: 10569356--10569395 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
10569346 TTTTTGTAGA
*
10569356 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
10569378 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
10569396 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:10577020 original size:12 final size:12
Alignment explanation
Indices: 10577003--10577036 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
10576993 GTTTGCTTAC
10577003 CGAACTTCGATG
1 CGAACTTCGATG
10577015 CGAACTTCGATG
1 CGAACTTCGATG
10577027 CGAACTTCGA
1 CGAACTTCGA
10577037 CTAGGGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (12 bp):
CGAACTTCGATG
Found at i:10577533 original size:7 final size:6
Alignment explanation
Indices: 10577500--10577540 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
10577490 TCCTAAGTCA
10577500 AAAAAG AAAAAG -AAAAG AAAATA- AAAAAGG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAA-AG AAAAA-G AAAAAG AAAAA
10577541 TGTTTAGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 6 0.19
6 19 0.61
7 6 0.19
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:10578528 original size:65 final size:65
Alignment explanation
Indices: 10578424--10578664 Score: 323
Period size: 65 Copynumber: 3.8 Consensus size: 65
10578414 GAGACACCAT
10578424 TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC
1 TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC
10578489 TTACTCAAGATT-GAGTTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAA
1 TTACTCAAGATTGGA-TTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAA
10578553 C
65 C
* * ** * * * *
10578554 TTACTCAAGATTTGATTTCAACTTCACGATAAATGTTATCCAACTCAAAACAAATTTGGTGAAAC
1 TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC
* * * *
10578619 --AATC---CTTGGATTTTAACTTTACAACGAAGGATATCCAACTCAAAGC
1 TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
10578665 TTAACTTCAC
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
60 32 0.21
63 3 0.02
64 2 0.01
65 117 0.75
66 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (65 bp):
TTACTCAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAAC
Found at i:10580641 original size:17 final size:17
Alignment explanation
Indices: 10580566--10580642 Score: 59
Period size: 17 Copynumber: 4.4 Consensus size: 17
10580556 TCAATTTGAC
*
10580566 ATTTTATTTA-TATATATA
1 ATTTT-TTTATTAT-TATT
10580584 ATTTTTTTAGTTATT-TT
1 ATTTTTTTA-TTATTATT
*
10580601 ATTTTATTTATTCTTTATT
1 ATTTT-TTTATT-ATTATT
*
10580620 CTTTTTTTATTATTATT
1 ATTTTTTTATTATTATT
*
10580637 GTTTTT
1 ATTTTT
10580643 CCAACATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
17 22 0.45
18 18 0.37
19 9 0.18
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (17 bp):
ATTTTTTTATTATTATT
Found at i:10580777 original size:2 final size:2
Alignment explanation
Indices: 10580770--10580828 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
10580760 TACATCTCAT
10580770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10580812 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
10580829 TATTCTTATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10580843 original size:12 final size:11
Alignment explanation
Indices: 10580828--10580921 Score: 72
Period size: 11 Copynumber: 8.5 Consensus size: 11
10580818 TATATATATA
*
10580828 TTATTCTTATT
1 TTATTTTTATT
10580839 CTTATTTTTATT
1 -TTATTTTTATT
10580851 TTATTTTTA--
1 TTATTTTTATT
*
10580860 TT-TTTTTGTT
1 TTATTTTTATT
10580870 TTATTTTTTATT
1 TTA-TTTTTATT
10580882 CTTATTTTTTATT
1 -TTA-TTTTTATT
* *
10580895 GT-TTTTTGTT
1 TTATTTTTATT
10580905 TTATTTTT-TGT
1 TTATTTTTAT-T
10580916 TTATTT
1 TTATTT
10580922 ATTTTTACCA
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
8 5 0.07
9 2 0.03
10 11 0.16
11 21 0.30
12 18 0.26
13 12 0.17
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.80
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:10580871 original size:13 final size:13
Alignment explanation
Indices: 10580855--10580926 Score: 50
Period size: 13 Copynumber: 5.9 Consensus size: 13
10580845 TTTATTTTAT
10580855 TTTTATTTTTTTG
1 TTTTATTTTTTTG
10580868 TTTTATTTTTTAT-
1 TTTTATTTTTT-TG
*
10580881 TCTTA--TTTTT-
1 TTTTATTTTTTTG
* *
10580891 TATT-GTTTTTTG
1 TTTTATTTTTTTG
10580903 TTTTA-TTTTTTG
1 TTTTATTTTTTTG
10580915 -TTTATTTATTTT
1 TTTTATTT-TTTT
10580927 TACCATTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
10 4 0.08
11 13 0.27
12 12 0.24
13 19 0.39
14 1 0.02
ACGTcount: A:0.11, C:0.01, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:10580888 original size:43 final size:46
Alignment explanation
Indices: 10580834--10580921 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
10580824 TATATTATTC
10580834 TTATTCTTA-TTTTTATT-TTATTT-TTAT-TTTTTTGTTTTATTTT
1 TTATTCTTATTTTTTATTGTTATTTGTTATATTTTTTG-TTTATTTT
* *
10580877 TTATTCTTATTTTTTATTGTTTTTTGTTTTATTTTTTGTTTATTT
1 TTATTCTTATTTTTTATTGTTATTTGTTATATTTTTTGTTTATTT
10580922 ATTTTTACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 9 0.23
44 8 0.21
45 5 0.13
46 10 0.26
47 7 0.18
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (46 bp):
TTATTCTTATTTTTTATTGTTATTTGTTATATTTTTTGTTTATTTT
Found at i:10580923 original size:43 final size:43
Alignment explanation
Indices: 10580834--10580924 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
10580824 TATATTATTC
* *
10580834 TTATTCTTATTTTTATTTTATTTTTATTTTTTTGTTTTATTTT
1 TTATTCTTATTTTTATTGTATTTTTATTTTATTGTTTTATTTT
* *
10580877 TTATTCTTATTTTTTATTGT-TTTTTGTTTTATT-TTTTGTTTAT
1 TTATTCTTA-TTTTTATTGTATTTTTATTTTATTGTTTTATTT-T
10580920 TTATT
1 TTATT
10580925 TTTACCATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 7 0.17
43 26 0.62
44 9 0.21
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (43 bp):
TTATTCTTATTTTTATTGTATTTTTATTTTATTGTTTTATTTT
Found at i:10580926 original size:26 final size:22
Alignment explanation
Indices: 10580834--10580927 Score: 73
Period size: 23 Copynumber: 4.0 Consensus size: 22
10580824 TATATTATTC
10580834 TTATTCTTATTTTTATTTTATTTTT
1 TTATT-TT-TTTTTATTTT-TTTTT
*
10580859 ATT-TTTTTGTTTTATTTTTTATTC
1 -TTATTTTT-TTTTATTTTTT-TTT
* * *
10580883 TTATTTTTTATTGTTTTTTGTT
1 TTATTTTTTTTTATTTTTTTTT
*
10580905 TTATTTTTTGTTTATTTATTTTT
1 TTATTTTTT-TTTATTTTTTTTT
10580928 ACCATTTTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
22 10 0.18
23 23 0.42
24 18 0.33
25 2 0.04
26 2 0.04
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (22 bp):
TTATTTTTTTTTATTTTTTTTT
Found at i:10580928 original size:6 final size:6
Alignment explanation
Indices: 10580828--10580921 Score: 66
Period size: 6 Copynumber: 15.0 Consensus size: 6
10580818 TATATATATA
* * *
10580828 TTATTC TTATTC TTATTT TTA-TT TTATTT TTATTT TTTTGTT TTATTTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTA-TTT
* * *
10580877 TTATTC TTATTTT TTATTGTT TTTTGTT TTATTT TT-TGT TTATTT
1 TTATTT TTA-TTT TTA-T-TT TTAT-TT TTATTT TTATTT TTATTT
10580922 ATTTTTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
5 9 0.12
6 36 0.49
7 23 0.32
8 5 0.07
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:10580963 original size:26 final size:22
Alignment explanation
Indices: 10580915--10580969 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 22
10580905 TTATTTTTTG
*
10580915 TTTATTTATTTTTACCATTTTA
1 TTTATTTATTTTTACCATGTTA
10580937 TTTATTTATTTATTATCCTTATGTTA
1 TTTATTTATTT-TTA-CC--ATGTTA
10580963 TTTATTT
1 TTTATTT
10580970 TATTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 11 0.39
23 3 0.11
24 2 0.07
26 12 0.43
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTATTTATTTTTACCATGTTA
Found at i:10581544 original size:11 final size:12
Alignment explanation
Indices: 10581516--10581546 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10581506 TTGTGATATG
10581516 ATTTTTTAAATA
1 ATTTTTTAAATA
*
10581528 ATTTTTTAATTA
1 ATTTTTTAAATA
10581540 ATTTTTT
1 ATTTTTT
10581547 GAAAATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTTTAAATA
Found at i:10585237 original size:28 final size:30
Alignment explanation
Indices: 10585206--10585273 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
10585196 ATGTATATTA
10585206 ATTTTATTA-G-TT-TTCGAATTTAGTCACT
1 ATTTTATTATGTTTATTC-AATTTAGTCACT
*
10585234 A-TTT-TTATGTTTATTCATTTTAGTCACT
1 ATTTTATTATGTTTATTCAATTTAGTCACT
10585262 ATTTTGATTATG
1 ATTTT-ATTATG
10585274 CTTCTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
26 3 0.09
27 4 0.12
28 15 0.45
29 6 0.18
31 5 0.15
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (30 bp):
ATTTTATTATGTTTATTCAATTTAGTCACT
Found at i:10588233 original size:22 final size:22
Alignment explanation
Indices: 10588190--10588233 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10588180 TCATTTTGCA
* *
10588190 TTTGCATAAGCATATTTTCATC
1 TTTGCATAAGCATATATACATC
* *
10588212 TTTGCATTAGCATCTATACATC
1 TTTGCATAAGCATATATACATC
10588234 GTACATTACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.43
Consensus pattern (22 bp):
TTTGCATAAGCATATATACATC
Found at i:10589607 original size:20 final size:18
Alignment explanation
Indices: 10589584--10589690 Score: 81
Period size: 20 Copynumber: 5.6 Consensus size: 18
10589574 TAAAAGATAT
10589584 AGAAAAAAAACACATAAAAA
1 AGAAAAAAAACA-A-AAAAA
10589604 AGAAAGCAAAAACAAAAAAA
1 AGAAA--AAAAACAAAAAAA
* **
10589624 AG-AAAATAGGAAAAAAA
1 AGAAAAAAAACAAAAAAA
*
10589641 AGAAAAAAAATAAAAAAAA
1 AGAAAAAAAA-CAAAAAAA
* *
10589660 ATGAGAAAAAACAGTAGAAAA
1 A-GAAAAAAAACA--AAAAAA
10589681 AGAAAAAAAA
1 AGAAAAAAAA
10589691 TAGACAGATC
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
17 12 0.17
18 5 0.07
19 11 0.16
20 28 0.40
21 7 0.10
22 7 0.10
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (18 bp):
AGAAAAAAAACAAAAAAA
Found at i:10589639 original size:10 final size:9
Alignment explanation
Indices: 10589584--10589690 Score: 72
Period size: 9 Copynumber: 11.1 Consensus size: 9
10589574 TAAAAGATAT
10589584 AGAAAAAAA
1 AGAAAAAAA
*
10589593 ACACATAAAAA
1 AGA-A-AAAAA
10589604 AGAAAGCAAAA
1 AGAAA--AAAA
*
10589615 ACAAAAAAA
1 AGAAAAAAA
*
10589624 AG-AAAATA
1 AGAAAAAAA
*
10589632 GGAAAAAAA
1 AGAAAAAAA
10589641 AGAAAAAAA
1 AGAAAAAAA
*
10589650 ATAAAAAAAA
1 A-GAAAAAAA
10589660 ATGAGAAAAAA
1 A-GA-AAAAAA
* *
10589671 CAGTAGAAAA
1 -AGAAAAAAA
10589681 AGAAAAAAA
1 AGAAAAAAA
10589690 A
1 A
10589691 TAGACAGATC
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
8 6 0.08
9 30 0.39
10 17 0.22
11 22 0.29
12 1 0.01
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:10589668 original size:31 final size:30
Alignment explanation
Indices: 10589600--10589693 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 30
10589590 AAAACACATA
10589600 AAAAAGAAAGCAAAAACAAAAAAAAGAAAATAGG
1 AAAAA-AAAG-AAAAA-AAAAAAAA-AAAATAGG
10589634 AAAAAAAAGAAAAAAAATAAAAAAAAAT-GAG
1 AAAAAAAAGAAAAAAAA-AAAAAAAAATAG-G
* * * *
10589665 AAAAAACAGTAGAAAAAGAAAAAAAATAG
1 AAAAAAAAGAAAAAAAAAAAAAAAAATAG
10589694 ACAGATCCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
30 10 0.19
31 24 0.45
32 10 0.19
33 4 0.08
34 5 0.09
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (30 bp):
AAAAAAAAGAAAAAAAAAAAAAAAAATAGG
Found at i:10590361 original size:28 final size:29
Alignment explanation
Indices: 10590336--10590391 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
10590326 TTGTTTCCTC
10590336 AAATTAA-CTGGAAACACATTA-CTTCCCT
1 AAATTAACCT-GAAACACATTACCTTCCCT
*
10590364 TAATTAACCTGAAACACATTACCTTCCC
1 AAATTAACCTGAAACACATTACCTTCCC
10590392 AAGGAATCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (29 bp):
AAATTAACCTGAAACACATTACCTTCCCT
Found at i:10591756 original size:54 final size:55
Alignment explanation
Indices: 10591679--10592263 Score: 641
Period size: 54 Copynumber: 10.8 Consensus size: 55
10591669 TTTTTTTATT
*
10591679 AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTCAAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
** * **
10591734 AGTTTTT-TTGAAACTAATTCTGATTTTTGGAAGTTTCTTGATC-ATTTT-AAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGA-CGATTTTCAAATG
* * *
10591787 AGTTTTTAAAGAAACTAAGTCTTATTTTCTGAAGTTTCTTGACGATTTTCAAGTG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
* * * *
10591842 AGTTTTTAAAGAAACTAAGTCTGGTTTTCAAAAGTTTCTTGATGA-TTTCAAATA
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
* * * * *
10591896 AGTTTTCAATGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTTCAAGTG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
* * *
10591951 AGTTTTTAAAGAAACTAAGTCTGGTTTTCAGAAGTTTCTTGATGA-TTTCAAATA
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
* * * *
10592005 AGTTTTCAACGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGA-TTTCAAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
* *
10592059 AGTTTTTAAAGAAACTAAGTCTGATTTTTAGAAGTTTCTTGACGCTTTTCAAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
* * * **
10592114 TG-TTTTAAAGAAACAAAGTCTGATTTTCGGAAGTTTCTTGA-TTTTTCTCAAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTT-TCAAATG
*** * * * * ** *
10592168 AACGTTCAAAGAAATTAAG-CTTAATTTTTAGGGGTTTCTTGATG-TTTTCAAATG
1 AGTTTTTAAAGAAACTAAGTC-TGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
* * * * **
10592222 AATTTTTAAAGAAATTAAGCCTGGTTTTCAGGGGTTTCTTGA
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGA
10592264 TTTTTTTTTG
Statistics
Matches: 451, Mismatches: 68, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
53 16 0.04
54 293 0.65
55 142 0.31
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (55 bp):
AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATG
Found at i:10591863 original size:163 final size:162
Alignment explanation
Indices: 10591679--10592154 Score: 652
Period size: 163 Copynumber: 2.9 Consensus size: 162
10591669 TTTTTTTATT
* *
10591679 AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTCAAATGAGTTTTTTTG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGATGA-TTTCAAATGAGTTTTTATG
* *
10591744 AAACTAATTCTGATTTTTGGAAGTTTCTTGATCATTTT-AAATGAGTTTTTAAAGAAACTAAGTC
65 AAACTAAGTCTGATTTTTAGAAGTTTCTTGATCATTTTCAAATGAGTTTTTAAAGAAACTAAGTC
* * * *
10591808 TTATTTTCTGAAGTTTCTTGACGATTTTCAAGTG
130 TGATTTTCAGAAGTTTCTTGACGA-TTTCAAATA
* * *
10591842 AGTTTTTAAAGAAACTAAGTCTGGTTTTCAAAAGTTTCTTGATGATTTCAAATAAGTTTTCAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGATGATTTCAAATGAGTTTT-TATG
* * * *
10591907 AAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTTCAAGTGAGTTTTTAAAGAAACTAAGTC
65 AAACTAAGTCTGATTTTTAGAAGTTTCTTGATCATTTTCAAATGAGTTTTTAAAGAAACTAAGTC
* *
10591972 TGGTTTTCAGAAGTTTCTTGATGATTTCAAATA
130 TGATTTTCAGAAGTTTCTTGACGATTTCAAATA
* * * * *
10592005 AGTTTTCAACGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAATGAGTTTTTAAAG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGATGATTTCAAATGAGTTTTT-ATG
* * *
10592070 AAACTAAGTCTGATTTTTAGAAGTTTCTTGA-CGCTTTTCAAATGTG-TTTTAAAGAAACAAAGT
65 AAACTAAGTCTGATTTTTAGAAGTTTCTTGATC-ATTTTCAAATGAGTTTTTAAAGAAACTAAGT
*
10592133 CTGATTTTCGGAAGTTTCTTGA
129 CTGATTTTCAGAAGTTTCTTGA
10592155 TTTTTCTCAA
Statistics
Matches: 275, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
162 50 0.18
163 180 0.65
164 45 0.16
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (162 bp):
AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGATGATTTCAAATGAGTTTTTATGA
AACTAAGTCTGATTTTTAGAAGTTTCTTGATCATTTTCAAATGAGTTTTTAAAGAAACTAAGTCT
GATTTTCAGAAGTTTCTTGACGATTTCAAATA
Found at i:10591916 original size:109 final size:109
Alignment explanation
Indices: 10591679--10592263 Score: 651
Period size: 109 Copynumber: 5.4 Consensus size: 109
10591669 TTTTTTTATT
* * **
10591679 AGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTCAAATGAGTTTTT-TT
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAA
* ** * * *
10591743 GAAACTAATTCTGATTTTTGGAAGTTTCTTGATCATTTTAAATG
66 GAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
* * * *
10591787 AGTTTTTAAAGAAACTAAGTCTTATTTTCTGAAGTTTCTTGACGATTTTCAAGTGAGTTTTTAAA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAA
* *
10591852 GAAACTAAGTCTGGTTTTCAAAAGTTTCTTGATGATTTCAAATA
66 GAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
* * * *
10591896 AGTTTTCAATGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTTCAAGTGAGTTTTTAAA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAA
*
10591961 GAAACTAAGTCTGGTTTTCAGAAGTTTCTTGATGATTTCAAATA
66 GAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
* * *
10592005 AGTTTTCAACGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGA-TTTCAAATGAGTTTTTAAA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAA
* * * *
10592069 GAAACTAAGTCTGATTTTTAGAAGTTTCTTGACGCTTTTCAAATG
66 GAAACTAAGTCTGATTTTCAGAAGTTTCTTGATG-ATTTCAAATA
* * * ** *** *
10592114 TGTTTT-AAAGAAACAAAGTCTGATTTTCGGAAGTTTCTTGA-TTTTTCTCAAATGAACGTTCAA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTT-TCAAATGAGTTTTTAA
* * * ** *
10592177 AGAAATTAAG-CTTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGA
65 AGAAACTAAGTC-TGATTTTCAGAAGTTTCTTGATGATTTCAAAT-A
* * * * **
10592223 A-TTTTTAAAGAAATTAAGCCTGGTTTTCAGGGGTTTCTTGA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGA
10592264 TTTTTTTTTG
Statistics
Matches: 417, Mismatches: 53, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
108 154 0.37
109 263 0.63
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (109 bp):
AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAA
GAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
Found at i:10592205 original size:55 final size:54
Alignment explanation
Indices: 10592146--10592316 Score: 168
Period size: 54 Copynumber: 3.2 Consensus size: 54
10592136 ATTTTCGGAA
* *
10592146 GTTTCTTGATTTTTCTCAAATGAACGTTCAAAGAAATTAAGCTTAATTTTTAGGG
1 GTTTCTTGATTTTT-TCAAATGAACGTTCAAAGAAATTAAGCCTAATTTTCAGGG
* ** * **
10592201 GTTTCTTGATGTTTTCAAATGAATTTTTAAAGAAATTAAGCCTGGTTTTCAGGG
1 GTTTCTTGATTTTTTCAAATGAACGTTCAAAGAAATTAAGCCTAATTTTCAGGG
** ** * **
10592255 GTTTCTTGATTTTTT--TTTGAATTTTTGAAAGAAGCTAAGCCTAATTTT-AGGG
1 GTTTCTTGATTTTTTCAAATGAA-CGTTCAAAGAAATTAAGCCTAATTTTCAGGG
10592307 GTTTCTTGAT
1 GTTTCTTGAT
10592317 AACTGTAAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
52 18 0.18
53 21 0.21
54 47 0.47
55 13 0.13
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (54 bp):
GTTTCTTGATTTTTTCAAATGAACGTTCAAAGAAATTAAGCCTAATTTTCAGGG
Found at i:10592219 original size:163 final size:162
Alignment explanation
Indices: 10591686--10592263 Score: 632
Period size: 163 Copynumber: 3.5 Consensus size: 162
10591676 ATTAGTTTTT
* * **
10591686 AAAGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTCAAATGAGTTTTT-TTGAAACTA
1 AAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGA-TTTCAAATGAGTTTTTAAAGAAACTA
* ** *
10591750 ATTCTGATTTTTGGAAGTTTCTTGATC-ATTTT-AAATGAGTTTTTAAAGAAACTAAGTCTTATT
65 AGTCTGATTTTCAGAAGTTTCTTGA-CGATTTTCAAATGAGTTTTTAAAGAAACTAAGTCTGATT
* * * *
10591813 TTCTGAAGTTTCTTGACGATTTTCAAGTG-AGTTTTT
129 TTCAGAAGTTTCTTGA-TATTTTCAAATGAAG--TTC
* * * * *
10591849 AAAGAAACTAAGTCTGGTTTTCAAAAGTTTCTTGATGATTTCAAATAAGTTTTCAATGAAACTAA
1 AAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATGAGTTTTTAAAGAAACTAA
* * * *
10591914 GTCTGATTTTCAGAAGTTTCATGATGATTTTCAAGTGAGTTTTTAAAGAAACTAAGTCTGGTTTT
66 GTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAGAAACTAAGTCTGATTTT
10591979 CAGAAGTTTCTTGATGA-TTTCAAAT-AAGTTTTC
131 CAGAAGTTTCTTGAT-ATTTTCAAATGAAG--TTC
* *
10592012 AACGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAATGAGTTTTTAAAGAAACTAA
1 AAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATGAGTTTTTAAAGAAACTAA
* * * *
10592077 GTCTGATTTTTAGAAGTTTCTTGACGCTTTTCAAATGTG-TTTTAAAGAAACAAAGTCTGATTTT
66 GTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAGAAACTAAGTCTGATTTT
* *
10592141 CGGAAGTTTCTTGATTTTTCTCAAATGAACGTTC
131 CAGAAGTTTCTTGATATTT-TCAAATGAA-GTTC
* * * ** * * *
10592175 AAAGAAATTAAG-CTTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTTAAAGAAATTA
1 AAAGAAACTAAGTC-TGATTTTCAGAAGTTTCTTGATGATTTCAAATGAGTTTTTAAAGAAACTA
* * **
10592239 AGCCTGGTTTTCAGGGGTTTCTTGA
65 AGTCTGATTTTCAGAAGTTTCTTGA
10592264 TTTTTTTTTG
Statistics
Matches: 356, Mismatches: 49, Indels: 20
0.84 0.12 0.05
Matches are distributed among these distances:
162 54 0.15
163 255 0.72
164 46 0.13
165 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (162 bp):
AAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATGAGTTTTTAAAGAAACTAA
GTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAGAAACTAAGTCTGATTTT
CAGAAGTTTCTTGATATTTTCAAATGAAGTTC
Found at i:10593357 original size:136 final size:136
Alignment explanation
Indices: 10593062--10593832 Score: 699
Period size: 136 Copynumber: 5.6 Consensus size: 136
10593052 TAAACCAATC
* * **
10593062 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-TGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTTCATAA
* * * * *
10593126 TGAGAAGAACTTATTC-AACT-TTAGC-TCGATTCATC-ACATATGGAGTTGAATCAGAAACACC
66 TGAGAAGAACTTGTTCGACCTATCA-CTTC-ATTCA-CGACAT-T----TCGAATCAGCAACACC
*
10593187 TCACTCGAGGG-AT
123 TCACTTGAGGGAAT
* *
10593200 CAACATTTCCAGTGGAAAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCATA
1 -AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTTCATA
* * * ** ** * *
10593265 ATGAGAAGAACTTGTTCGACTTATCACTTGATTCACGGCATTTCGAATCAGTGATGCCTCGCTTA
65 ATGAGAAGAACTTGTTCGACCTATCACTTCATTCACGACATTTCGAATCAGCAACACCTCACTTG
10593330 AGGGAAT
130 AGGGAAT
* * * **
10593337 GACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCCGA-TGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTTCATAA
* * * * *
10593401 TGAGAAGAACTTGTTCAACCT-T-AGC-TCGTTTCATCGTATATGGAGTT-GAATCAACAATACC
66 TGAGAAGAACTTGTTCGACCTATCA-CTTC-ATTCA-CG-ACAT----TTCGAATCAGCAACACC
** *
10593462 TCACACGAGGG-TT
123 TCACTTGAGGGAAT
10593475 CAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTTCATA
1 -AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTTCATA
** * * * ** *
10593540 ATGAGAAGAGTTTGTTCGACCTATCACTTGATTCATGACATTTTGAATCAGTGACGCCTCACTTG
65 ATGAGAAGAACTTGTTCGACCTATCACTTCATTCACGACATTTCGAATCAGCAACACCTCACTTG
10593605 AGGGAAT
130 AGGGAAT
* * * * *
10593612 GACATTT-CAGATGGAGAGTTCATAATGAGAAGAACTCATCTAATAGAGGGAGAAGAAGTTTATA
1 AACATTTCCAG-TGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTTCATA
* * ** * * * *
10593676 ATGAGAAGAGCTTGTTTGACCTATTGC-TCAGTTCACAACACTTCGAGTCAGCAACACCTCGCTT
65 ATGAGAAGAACTTGTTCGACCTATCACTTCA-TTCACGACATTTCGAATCAGCAACACCTCACTT
*
10593740 GAGGGATT
129 GAGGGAAT
* * * *
10593748 AACATTTTCAGTAGAGAGTTCGTAATGAGAAGAACTCATCTGATAAA-GGAGAAGAAGTTCATAA
1 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTTCATAA
* *
10593812 TGAGAATAACTTGTTCAACCT
66 TGAGAAGAACTTGTTCGACCT
10593833 TAGTTTTTTT
Statistics
Matches: 520, Mismatches: 88, Indels: 52
0.79 0.13 0.08
Matches are distributed among these distances:
133 2 0.00
134 6 0.01
135 80 0.15
136 226 0.43
137 6 0.01
138 1 0.00
139 101 0.19
140 76 0.15
141 17 0.03
142 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (136 bp):
AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCGACCTATCACTTCATTCACGACATTTCGAATCAGCAACACCTCACTTGA
GGGAAT
Found at i:10593557 original size:275 final size:272
Alignment explanation
Indices: 10593063--10593832 Score: 1034
Period size: 275 Copynumber: 2.8 Consensus size: 272
10593053 AAACCAATCA
*
10593063 ACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATG
1 ACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATG
* *
10593128 AGAAGAACTTATTCAACTTTAGCTCGATTCATCACATATGGAGTTGAATCAGA-AACACCTCACT
66 AGAAGAACTTGTTCAACCTTAGCTCG-TTCAT--CATATGGAGTTGAATCA-ACAACACCTCACT
* * *
10593192 CGAGGGATCAACATTTCCAGTGGAAAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGA
127 CGAGGGTTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGA
* * *
10593257 AGTTCATAATGAGAAGAACTTGTTCGACTTATCACTTGATTCACGGCATTTCGAATCAGTGATGC
192 AGTTCATAATGAGAAGAACTTGTTCGACCTATCACTTGATTCACGACATTTCGAATCAGTGACGC
*
10593322 CTCGCTTAAGGGAATG
257 CTCACTTAAGGGAATG
*
10593338 ACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCCGATGAGGGAGAAGAAGTTCATAATG
1 ACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATG
* *
10593403 AGAAGAACTTGTTCAACCTTAGCTCGTTTCATCGTATATGGAGTTGAATCAACAATACCTCACAC
66 AGAAGAACTTGTTCAACCTTAGCTCG-TTCATC--ATATGGAGTTGAATCAACAACACCTCACTC
10593468 GAGGGTTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAA
128 GAGGGTTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAA
** * *
10593533 GTTCATAATGAGAAGAGTTTGTTCGACCTATCACTTGATTCATGACATTTTGAATCAGTGACGCC
193 GTTCATAATGAGAAGAACTTGTTCGACCTATCACTTGATTCACGACATTTCGAATCAGTGACGCC
*
10593598 TCACTTGAGGGAATG
258 TCACTTAAGGGAATG
** *
10593613 ACATTT-CAGATGGAGAGTTCATAATGAGAAGAACTCATCTAATAGAGGGAGAAGAAGTTTATAA
1 ACATTTCCAG-TGGAGAGTTCATAATGAGAAGAACTCATCCGAT-GAGGGAGAAGAAGTTCATAA
* ** * * * * * *
10593677 TGAGAAGAGCTTGTTTGACCTATTGCTCAGTTCA-CA-A--CACTTCGAGTCAGCAACACCTCGC
64 TGAGAAGAACTTGTTCAACCT-TAGCTC-GTTCATCATATGGAGTT-GAATCAACAACACCTCAC
* * * * *
10593738 TTGAGGGATT-AACATTTTCAGTAGAGAGTTCGTAATGAGAAGAACTCATCTGATAAA-GGAGAA
126 TCGAGGG-TTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAA
* *
10593801 GAAGTTCATAATGAGAATAACTTGTTCAACCT
190 GAAGTTCATAATGAGAAGAACTTGTTCGACCT
10593833 TAGTTTTTTT
Statistics
Matches: 443, Mismatches: 43, Indels: 22
0.87 0.08 0.04
Matches are distributed among these distances:
271 37 0.08
272 62 0.14
273 4 0.01
274 5 0.01
275 287 0.65
276 38 0.09
277 9 0.02
278 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (272 bp):
ACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTAGCTCGTTCATCATATGGAGTTGAATCAACAACACCTCACTCGAG
GGTTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAAAGGGAGAAGAAGTT
CATAATGAGAAGAACTTGTTCGACCTATCACTTGATTCACGACATTTCGAATCAGTGACGCCTCA
CTTAAGGGAATG
Found at i:10594022 original size:116 final size:114
Alignment explanation
Indices: 10593743--10594132 Score: 412
Period size: 116 Copynumber: 3.4 Consensus size: 114
10593733 CTCGCTTGAG
* * * * * *
10593743 GGATTAACATTTTCAGTAGAGAGTTCGTAATGAGAAGAACTCATCTGATAAAGGAGAAGAAGTTC
1 GGATCAACATTTCCAATAAAGAGTTCATAATGAGAAGAACTCATCCGAT-AAGGAGAAGAAGTTC
* * * ** *
10593808 ATAATGAGAATAACTTGTTCAACCTTAGTTTTTTTCCATCATAGAAGGAAGT
65 ATAATAAGAAGAACTTGTTCAA-CTTTGTTTGATTCCATCACAGAA-GAAGT
* * * * *
10593860 GGACCAACATTT-CAATGAAAGGGTTCATAATGAGAATAAC-CAATCCGATGAGCGAGAACAAGT
1 GGATCAACATTTCCAAT-AAAGAGTTCATAATGAGAAGAACTC-ATCCGATAAG-GAGAAGAAGT
10593923 TCATAATAAGAAGAACTTGTTCAACTTTGTTTGATGT-CATCACAGAAGAAGGT
63 TCATAATAAGAAGAACTTGTTCAACTTTGTTTGAT-TCCATCACAGAAGAA-GT
* * **
10593976 AGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTC
1 GGATCAACATTTCCAATAAAGAGTTCATAATGAGAAGAACTCATCCGATAA-GGAGAAGAAGTTC
* *
10594041 ATAATAAGAAGAACTTGTTCAACCTTG-GTGATTCCATCACAGAAGAAAGT
65 ATAATAAGAAGAACTTGTTCAACTTTGTTTGATTCCATCACAGAAG-AAGT
** *
10594091 GGATTGACA-TCCCTAATAAAGAGTTCATAATGAGAAGAACTC
1 GGATCAACATTTCC-AATAAAGAGTTCATAATGAGAAGAACTC
10594133 GCCCGATCAG
Statistics
Matches: 228, Mismatches: 34, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
114 4 0.02
115 51 0.22
116 101 0.44
117 72 0.32
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (114 bp):
GGATCAACATTTCCAATAAAGAGTTCATAATGAGAAGAACTCATCCGATAAGGAGAAGAAGTTCA
TAATAAGAAGAACTTGTTCAACTTTGTTTGATTCCATCACAGAAGAAGT
Found at i:10597712 original size:31 final size:31
Alignment explanation
Indices: 10597671--10597737 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
10597661 TCATTTAAGC
*
10597671 TAATTTCACCATATTTCGTATTTAACTTATA
1 TAATATCACCATATTTCGTATTTAACTTATA
*
10597702 TAATATCACCATATTTTGTATTTAACTTATA
1 TAATATCACCATATTTCGTATTTAACTTATA
10597733 TAATA
1 TAATA
10597738 ATATCAACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.48
Consensus pattern (31 bp):
TAATATCACCATATTTCGTATTTAACTTATA
Found at i:10598032 original size:46 final size:48
Alignment explanation
Indices: 10597981--10598087 Score: 118
Period size: 46 Copynumber: 2.3 Consensus size: 48
10597971 TCTAAAAAGT
*
10597981 ATATTTATAATATTATG-AA-AATACTTAATTAATT-TTTAAAATCATA
1 ATATTTATAATATTATGAAATAATA-TTAATTAATTATTTAAAATAATA
* * *
10598027 TTATTTAT-ATATT-TGAAATAATATTAATTATTTATTTGAAATAATA
1 ATATTTATAATATTATGAAATAATATTAATTAATTATTTAAAATAATA
*
10598073 ATATTTTTAA-ATTAT
1 ATATTTATAATATTAT
10598088 TTATTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
44 2 0.04
45 16 0.32
46 30 0.60
47 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (48 bp):
ATATTTATAATATTATGAAATAATATTAATTAATTATTTAAAATAATA
Found at i:10598045 original size:23 final size:23
Alignment explanation
Indices: 10598019--10598078 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
10598009 TTAATTTTTA
*
10598019 AAATCATATTATTTATATATTTG
1 AAATAATATTATTTATATATTTG
* *
10598042 AAATAATATTAATTATTTATTTG
1 AAATAATATTATTTATATATTTG
*
10598065 AAATAATAATATTT
1 AAATAATATTATTT
10598079 TTAAATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
AAATAATATTATTTATATATTTG
Found at i:10599622 original size:2 final size:2
Alignment explanation
Indices: 10599615--10599639 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10599605 CTTGTTGTTT
10599615 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10599640 GGGAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10601257 original size:3 final size:3
Alignment explanation
Indices: 10601249--10601329 Score: 130
Period size: 3 Copynumber: 27.7 Consensus size: 3
10601239 TGTTCCTATA
10601249 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
10601297 TAT TA- TAT TAC TAT TAC TAT TA- TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10601330 CAAATAAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 4 0.06
3 68 0.94
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10606625 original size:3 final size:3
Alignment explanation
Indices: 10606619--10606663 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
10606609 TTTAAAAAAA
* *
10606619 TAT TAT TAT TAT TAT T-T TAT TAT TAA TAT TTT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10606664 GCAGGTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:10612192 original size:110 final size:110
Alignment explanation
Indices: 10612037--10612275 Score: 369
Period size: 110 Copynumber: 2.2 Consensus size: 110
10612027 GCTTCCCAAT
*
10612037 TTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACCCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACCCAAGACAACACAAGCTCAACTTCA
*
10612102 CGATGAAGGGGCGGCTGATTGTCAACAAATAACTTTTCAATTTCA
66 CGACGAAGGGGCGGCTGATTGTCAACAAATAACTTTTCAATTTCA
* * *
10612147 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACCCAAGACAACACAAGCTCAACTTCA
* * * *
10612212 CGACGAAGGGGCGGCTGATTGTCAACAAACAA-TTTCCTAGTTC-
66 CGACGAAGGGGCGGCTGATTGTCAACAAATAACTTTTCAATTTCA
10612255 --CAGAGCCAATTTCAACTTCAC
1 TTCAGAGCCAATTTCAACTTCAC
10612276 GGCGGATGAT
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
106 20 0.17
109 8 0.07
110 91 0.76
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACCCAAGACAACACAAGCTCAACTTCA
CGACGAAGGGGCGGCTGATTGTCAACAAATAACTTTTCAATTTCA
Found at i:10612592 original size:252 final size:252
Alignment explanation
Indices: 10612231--10612910 Score: 980
Period size: 252 Copynumber: 2.7 Consensus size: 252
10612221 GGCGGCTGAT
* * * * *
10612231 TGTCAACAAACAATTTCCTAGTTCCAGAGCCAATTTCAACTTCACGGCGGATGATATTGGACTCG
1 TGTCAACAAAC---TTCCCAGTTTCAGAACCAATTTCAACTTCACGACGGAGGATATTGGACTCG
* * * *
10612296 GAGCAATACAACTTACTTGGATTTCAACTTCACGATGAAGGATATCCAATTCCAGGCTCAACTTC
63 AAACAATACAACTTACTTGGATTTTAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTC
* *
10612361 ACGACAAAGGGGCCACCCACGGTTTCAACTTCACAACGAAGGGAATCGTGCACACAAGCAGCATC
128 ACGACGAAGGGGCCACCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCAGCATC
*
10612426 CATCTCCAGATTGAATTTCAACTTCACGGCGGAGGATATCCAACTCAAAGAATGAGTGTC
193 CATCTCCAGATTGAATTTCAACTTCACGGCGGAGGATATCCAACTCAAAGAAGGAGTGTC
* *
10612486 TGTCAATAAACTTCCCAGTTTCAGAACCAATTTCAACTTCACGACGGAGGATATTAGACTCGAAA
1 TGTCAACAAACTTCCCAGTTTCAGAACCAATTTCAACTTCACGACGGAGGATATTGGACTCGAAA
*
10612551 CAATACAACTTACTTGGATTTTAACTTCACGACGAAGGATATCCAATTCCTGGCTCAACTTCACG
66 CAATACAACTTACTTGGATTTTAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACG
* *
10612616 GCGAAGGGGCCACCCACGGTTTCAACTTCACGACGAAGGGAATCGTACACACAAGCAGCATCCAT
131 ACGAAGGGGCCACCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCAGCATCCAT
* * *
10612681 CTCCATATTGAATTTCAACTTCACGGCGGAGGATATCTAACTCAGAGAAGGAGTGTC
196 CTCCAGATTGAATTTCAACTTCACGGCGGAGGATATCCAACTCAAAGAAGGAGTGTC
** * * *
10612738 TGTCAACAAACTTTTCAGTTTC-GAAGTCAATTTCAACTTCAC-AGCGAAGGATATTGGCCTCGA
1 TGTCAACAAACTTCCCAGTTTCAGAA-CCAATTTCAACTTCACGA-CGGAGGATATTGGACTCGA
*
10612801 AAC-A-AC-A--TAC-TGGATTTTAACTTCACGACGAAGGATATCCAATTCTAAGGCTCAACTTC
64 AACAATACAACTTACTTGGATTTTAACTTCACGACGAAGGATATCCAATTC-CAGGCTCAACTTC
* * * *
10612860 ACAACGAAGGGGCCATCCACGGTTTCAACTTCACGGCGAAGGGAATTGTGC
128 ACGACGAAGGGGCCACCCACGGTTTCAACTTCACGACGAAGGGAATCGTGC
10612911 TCACCATTAT
Statistics
Matches: 387, Mismatches: 35, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
246 35 0.09
247 59 0.15
249 1 0.00
250 2 0.01
251 5 0.01
252 275 0.71
255 10 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (252 bp):
TGTCAACAAACTTCCCAGTTTCAGAACCAATTTCAACTTCACGACGGAGGATATTGGACTCGAAA
CAATACAACTTACTTGGATTTTAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACG
ACGAAGGGGCCACCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCAGCATCCAT
CTCCAGATTGAATTTCAACTTCACGGCGGAGGATATCCAACTCAAAGAAGGAGTGTC
Found at i:10613029 original size:36 final size:37
Alignment explanation
Indices: 10612945--10613086 Score: 250
Period size: 37 Copynumber: 3.9 Consensus size: 37
10612935 TTTCCAAGTT
10612945 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
* *
10612982 TTGTCTCTCTTGTGACAGTTTCCCTTGAAAC-AAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
10613018 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
*
10613055 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
10613087 CAAAAAACCC
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 34 0.34
37 65 0.66
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
Found at i:10613062 original size:73 final size:73
Alignment explanation
Indices: 10612943--10613086 Score: 270
Period size: 73 Copynumber: 2.0 Consensus size: 73
10612933 AGTTTCCAAG
*
10612943 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTCTTGTGACAGTTTCCCTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGACAGTTTCCCTT
10613008 GAAACAAA
66 GAAACAAA
*
10613016 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGACAGTTTCCCTT
10613081 GAAACA
66 GAAACA
10613087 CAAAAAACCC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (73 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGACAGTTTCCCTT
GAAACAAA
Found at i:10615323 original size:16 final size:16
Alignment explanation
Indices: 10615283--10615323 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
10615273 TATGAGGTGA
* *
10615283 AAAATAATATTATTGT
1 AAAATAATATAATTAT
10615299 -AAA-AATATAATTAT
1 AAAATAATATAATTAT
10615313 AAAATAATATA
1 AAAATAATATA
10615324 TAACTTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 9 0.43
15 6 0.29
16 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAATAATATAATTAT
Found at i:10615803 original size:31 final size:31
Alignment explanation
Indices: 10615733--10615810 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
10615723 CTTTTAAAAC
** * **
10615733 TTGCAATACAATCCCCCAATATTTAGTCTGT
1 TTGCAATATGATCCCCCAACATTTAGTCCAT
10615764 TTGCAATATGATCCCCCAACATTTAGTCCAT
1 TTGCAATATGATCCCCCAACATTTAGTCCAT
*
10615795 TTGCAATATGGTCCCC
1 TTGCAATATGATCCCC
10615811 TGACGTAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (31 bp):
TTGCAATATGATCCCCCAACATTTAGTCCAT
Found at i:10625448 original size:22 final size:22
Alignment explanation
Indices: 10625423--10625468 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
10625413 ATCGGTACTA
*
10625423 CCCTACAAGGGTATCGATACCT
1 CCCTACAAGGGTATCAATACCT
*
10625445 CCCTAGAAGGGTATCAATACCT
1 CCCTACAAGGGTATCAATACCT
10625467 CC
1 CC
10625469 TTATGGTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (22 bp):
CCCTACAAGGGTATCAATACCT
Found at i:10625509 original size:53 final size:53
Alignment explanation
Indices: 10625451--10625590 Score: 158
Period size: 53 Copynumber: 2.6 Consensus size: 53
10625441 ACCTCCCTAG
*
10625451 AAGGGTATCAATACCTCCTTATGGTACCGATACAAAAATAGCATTCGATG-ATC
1 AAGGGTATCGATACCTCCTTA-GGTACCGATACAAAAATAGCATTCGATGTATC
* * ** * *
10625504 AAGGGTATCGATACCTCCTCAAGGTACCGATACCAATCTGGCATTCGATGTTTC
1 AAGGGTATCGATACCTCCT-TAGGTACCGATACAAAAATAGCATTCGATGTATC
*
10625558 AA-GGTATCGATACCATCCTTCAGGTATCGATAC
1 AAGGGTATCGATACC-TCCTT-AGGTACCGATAC
10625591 TACCCCTTAC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 54 0.73
54 20 0.27
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (53 bp):
AAGGGTATCGATACCTCCTTAGGTACCGATACAAAAATAGCATTCGATGTATC
Found at i:10625584 original size:20 final size:22
Alignment explanation
Indices: 10625559--10625612 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
10625549 CGATGTTTCA
*
10625559 AGGTATCGATACCA-TCCTT-C
1 AGGTATCGATACCACCCCTTAC
*
10625579 AGGTATCGATACTACCCCTTAC
1 AGGTATCGATACCACCCCTTAC
10625601 A-GTATCGATACC
1 AGGTATCGATACC
10625613 TCTTCAACGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.45
21 14 0.48
22 2 0.07
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (22 bp):
AGGTATCGATACCACCCCTTAC
Found at i:10630273 original size:22 final size:22
Alignment explanation
Indices: 10630223--10630275 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
10630213 AATATACGGT
* *
10630223 ATGAACATTAATGAACAGTACC
1 ATGAACAGTAATGAACAATACC
* *
10630245 ATAAACAGTAATGAACAATATC
1 ATGAACAGTAATGAACAATACC
10630267 ATGAACAGT
1 ATGAACAGT
10630276 GCTACAGTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (22 bp):
ATGAACAGTAATGAACAATACC
Found at i:10630299 original size:21 final size:20
Alignment explanation
Indices: 10630275--10630337 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 20
10630265 TCATGAACAG
10630275 TGCTACAGTGTATCGATGCAC
1 TGCTACAGTGTA-CGATGCAC
10630296 TGCTACAGTGTACTGATGCAC
1 TGCTACAGTGTAC-GATGCAC
10630317 TGCTACAGTGTACCGATGCAC
1 TGCTACAGTGTA-CGATGCAC
10630338 AAAAACATCG
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (20 bp):
TGCTACAGTGTACGATGCAC
Found at i:10639387 original size:22 final size:23
Alignment explanation
Indices: 10639362--10639410 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
10639352 CACCACAGCT
*
10639362 CATAA-TTTACACCGAAGTGCTA
1 CATAATTTTACACCGAAGTGCCA
*
10639384 CATAATTTTGCACCGAAGTGCCA
1 CATAATTTTACACCGAAGTGCCA
10639407 CATA
1 CATA
10639411 TTTGTCCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (23 bp):
CATAATTTTACACCGAAGTGCCA
Found at i:10639428 original size:21 final size:21
Alignment explanation
Indices: 10639404--10639452 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
10639394 CACCGAAGTG
*
10639404 CCACATATTTGTCCCAAAGGA
1 CCACATATTTCTCCCAAAGGA
10639425 CCACATATTTCTCCCAAAGGA
1 CCACATATTTCTCCCAAAGGA
10639446 CCACATA
1 CCACATA
10639453 AGACCCTCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.33, G:0.10, T:0.22
Consensus pattern (21 bp):
CCACATATTTCTCCCAAAGGA
Found at i:10640006 original size:22 final size:22
Alignment explanation
Indices: 10639981--10640026 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
10639971 AGTACTACCC
*
10639981 TACAAGGGTATCGATACCTCCT
1 TACAAGGGTATCAATACCTCCT
10640003 TACAAGGGTATCAATACCTCCT
1 TACAAGGGTATCAATACCTCCT
10640025 TA
1 TA
10640027 TGATACCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (22 bp):
TACAAGGGTATCAATACCTCCT
Found at i:10644318 original size:2 final size:2
Alignment explanation
Indices: 10644311--10644367 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
10644301 TATATTTTTC
10644311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10644353 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
10644368 GTTTCAAGTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10645601 original size:13 final size:13
Alignment explanation
Indices: 10645583--10645609 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10645573 CATAGATTAA
10645583 CAGTCTTCATATG
1 CAGTCTTCATATG
10645596 CAGTCTTCATATG
1 CAGTCTTCATATG
10645609 C
1 C
10645610 GCGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:10646167 original size:9 final size:9
Alignment explanation
Indices: 10646153--10646177 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10646143 ATAAGATTAA
10646153 ATAAAAAAT
1 ATAAAAAAT
10646162 ATAAAAAAT
1 ATAAAAAAT
10646171 ATAAAAA
1 ATAAAAA
10646178 TTAGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:10646191 original size:17 final size:17
Alignment explanation
Indices: 10646151--10646187 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10646141 TTATAAGATT
10646151 AAATA-AAAAATATAAA
1 AAATATAAAAATATAAA
*
10646167 AAATATAAAAAT-TAGA
1 AAATATAAAAATATAAA
10646183 AAATA
1 AAATA
10646188 ATAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATATAAAAATATAAA
Found at i:10647983 original size:84 final size:84
Alignment explanation
Indices: 10647753--10649099 Score: 1784
Period size: 84 Copynumber: 16.0 Consensus size: 84
10647743 AGCTTAATGA
* * * * * * *
10647753 AATCGAACTCGTTA-GT-TTTTGCTGACAGATAGCCCTTCTCGTCTTGAGATATGCTGTAAATTT
1 AATCGAACTCG-AAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAA--T
* * * *
10647816 GATATGCCTCTGAGTTGAATGT
63 GATGTGCCTTTGAGCTGAGTGT
* * * * *
10647838 AATCGAACTCGAAGGTC-TTTGATT-ACAGATAATCATTCTCGCCTTGAGTTATGCTACAAATGA
1 AATCGAACTCGAAGGTCTTTTG-TTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGA
* *
10647901 TATGCCTTTGAGCTGAGGGT
65 TGTGCCTTTGAGCTGAGTGT
* * *
10647921 AATCGAACTCGAAGGTATTTTGTTGGCAGATAGCCCTTTTCGCCTTGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
10647986 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * ** *
10648005 AATCGAACTCGAAGGTCTTTTGATGACAGATAACCCTTCTCGCCTTGAGTTATGCTATAAATTAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
*
10648070 GTGCATTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* **
10648089 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCTATTCTCGCCTTGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
10648154 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * * *
10648173 AATCGAACTCAAAGGTATTTTGATGACAGATAACCCTTCTCGCCTTGAGTTATGCTACAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
10648238 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * *
10648257 AATCAAACTCGAAGGTCTTTTGATGACAGATAACCCTTCTCGCCTTGAGCTATGATGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
*
10648322 GTGCCTTTGATCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* *
10648341 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCTTTCTCGCCTTGATCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
10648406 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * *
10648425 AATAGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
10648490 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * * *
10648509 AATCGAACTCAAAGGTCTTTTGTTCGTAGATAACCCTTATTGCCTTAAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
* *
10648574 GTGCGTTTGAGTTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * * *
10648593 AATCGAACTCGAAGGTCTTTTGATGACAGATAACCCTTCTCACATTGAGTTATGCTACAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
*
10648658 GTGCCTTTGAGTTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * *
10648677 AATCGAACTCAAAGGTCTTTTGTTGGCAGATAGCTCTTCTCGCATTGAGCTATGCTGTAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
* * *
10648742 TTACCTTTGAGCTGAGTAT
66 GTGCCTTTGAGCTGAGTGT
* * * * **
10648761 AATCGAATTAGAAGGTTTTTTATTGGCAGATAACCCTTCTTACCTTGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
10648826 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * *
10648845 AATCGAACTAGAAGGTCTTTTGTTGGCATATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
* * *
10648910 GTGTCTTTAAGCTGAATGT
66 GTGCCTTTGAGCTGAGTGT
* * * *
10648929 AATCGAACTCGAAGCTCTTTTGATGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
*
10648994 GTGTCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * *
10649013 AATGGAACTCGAAGGTCTTTTGTTTGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
*
10649078 GTGTCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
10649097 AAT
1 AAT
10649100 TGTAACACCC
Statistics
Matches: 1109, Mismatches: 148, Indels: 11
0.87 0.12 0.01
Matches are distributed among these distances:
83 37 0.03
84 1025 0.92
85 46 0.04
86 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
GTGCCTTTGAGCTGAGTGT
Found at i:10649808 original size:23 final size:23
Alignment explanation
Indices: 10649782--10649842 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
10649772 CTCATATAAA
10649782 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
10649805 TGCACC-ATAGTGCCGCGTAGAAT
1 TGCACCGA-AGTGCCACATAGAAT
*
10649828 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
10649843 TATAATAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:10649976 original size:18 final size:18
Alignment explanation
Indices: 10649953--10649988 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10649943 GAATACATAT
10649953 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10649971 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10649989 TATCATTCCT
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:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:10650005 original size:121 final size:120
Alignment explanation
Indices: 10649849--10650226 Score: 631
Period size: 121 Copynumber: 3.2 Consensus size: 120
10649839 GCCATATAAT
** * *
10649849 AATGTCCATAAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGC
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTA-GGATCAAGTATGT
10649914 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
65 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* *
10649970 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATGC-CA-A-T--GATCAAGTATGTG
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGATCAAGTATGTG
10650030 TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* *
10650085 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATAT-ACTAGGATCAAGTATGT
10650150 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
65 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
10650206 AATGTCCCGAAGGACCACATA
1 AATGTCCCGAAGGACCACATA
10650227 GACCCTCGAC
Statistics
Matches: 241, Mismatches: 10, Indels: 12
0.92 0.04 0.05
Matches are distributed among these distances:
115 109 0.45
116 1 0.00
118 1 0.00
119 1 0.00
120 1 0.00
121 128 0.53
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (120 bp):
AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
Found at i:10650091 original size:18 final size:18
Alignment explanation
Indices: 10650068--10650103 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10650058 GAATACATAT
10650068 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10650086 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10650104 TATCATTCCT
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:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:10650212 original size:18 final size:18
Alignment explanation
Indices: 10650189--10650224 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10650179 GAATACATAT
10650189 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10650207 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10650225 TAGACCCTCG
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:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:10651428 original size:21 final size:21
Alignment explanation
Indices: 10651402--10651445 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10651392 ATTTTATTCG
* *
10651402 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
10651423 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
10651444 CT
1 CT
10651446 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:10655222 original size:23 final size:23
Alignment explanation
Indices: 10655196--10655256 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
10655186 CTCATATAAA
*
10655196 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
10655219 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
10655242 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
10655257 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:10655388 original size:20 final size:18
Alignment explanation
Indices: 10655370--10655406 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10655360 TACATATATG
10655370 TCCCGAAGGACCACAATA
1 TCCCGAAGGACCACAATA
10655388 TCCCGAAGGACCAC-ATA
1 TCCCGAAGGACCACAATA
10655405 TC
1 TC
10655407 ATTCCTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.35, C:0.35, G:0.16, T:0.14
Consensus pattern (18 bp):
TCCCGAAGGACCACAATA
Found at i:10655438 original size:59 final size:59
Alignment explanation
Indices: 10655375--10655559 Score: 159
Period size: 59 Copynumber: 3.1 Consensus size: 59
10655365 ATATGTCCCG
*
10655375 AAGGACCACAATATCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCC
1 AAGGACCACAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCC
* * * * * *
10655434 AAGGATCA-AGTATGTGTCTCAC-CA-GACTTCACACAT-GTTCC-AAAGAATACATAT--ATGT
1 AAGGACCACA--A--TGTC-C-CGAAGGAC--CACATATCATTCCTTAAGAAT-CATATACATAT
*
10655492 CCC
57 GCC
10655495 GAAGGACCACAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCC
1 -AAGGACCACAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCC
10655555 AAGGA
1 AAGGA
10655560 TCAAGTATGT
Statistics
Matches: 94, Mismatches: 15, Indels: 34
0.66 0.10 0.24
Matches are distributed among these distances:
57 7 0.07
58 12 0.13
59 25 0.27
60 6 0.06
61 6 0.06
62 19 0.20
63 12 0.13
64 7 0.07
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (59 bp):
AAGGACCACAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCC
Found at i:10655486 original size:121 final size:121
Alignment explanation
Indices: 10655263--10655646 Score: 687
Period size: 121 Copynumber: 3.2 Consensus size: 121
10655253 GCCATATAAT
** * * * *
10655263 AATGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGC
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
10655328 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
*
10655384 AATATCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
10655449 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
10655505 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
* *
10655570 GTCTTACCAGACTTCACACATGTTCCAAAGAATACATATATGTCTCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
10655626 AATGTCCCGAAGGACCACATA
1 AATGTCCCGAAGGACCACATA
10655647 GACCCTCGAC
Statistics
Matches: 253, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 253 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (121 bp):
AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
Found at i:10655511 original size:18 final size:18
Alignment explanation
Indices: 10655488--10655523 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10655478 GAATACATAT
10655488 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10655506 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10655524 TATCATTCCT
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:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:10655636 original size:18 final size:18
Alignment explanation
Indices: 10655609--10655644 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10655599 GAATACATAT
*
10655609 ATGTCTCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10655627 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
10655645 TAGACCCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:10656848 original size:21 final size:21
Alignment explanation
Indices: 10656822--10656865 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10656812 ATTTTATTCG
* *
10656822 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
10656843 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
10656864 CT
1 CT
10656866 AGCCCAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:10657717 original size:84 final size:84
Alignment explanation
Indices: 10657576--10658105 Score: 758
Period size: 84 Copynumber: 6.3 Consensus size: 84
10657566 GGATGTTACA
* * * *
10657576 GTAATCGAACTCAAAGGTGTTTTGTTGGCAGATAGCCGTTCTTGCCTTGAGCTATGCTGCAAATG
1 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATG
10657641 ATGTGCCTTTGAGCTGAGT
66 ATGTGCCTTTGAGCTGAGT
* *
10657660 GTAATCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGTTATGCTGCAAATG
1 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATG
*
10657725 ATCTGCCTTTGAGCTGAGT
66 ATGTGCCTTTGAGCTGAGT
* * ** * * *
10657744 GTAATCGAACGCGAAGATCTTTT-TATGATAGATAACCCTTCTCGCCTTGAGTTATGGTGCAAAT
1 GTAATCGAACTCGAAGGTCTTTTGT-TGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAAT
10657808 GATGTGCCTTTGAGCTGAGT
65 GATGTGCCTTTGAGCTGAGT
** * * * ** *
10657828 GTAATCGAACTCGAATATCTTTTATTGGTAGATAGCCCTTCTCACCTTGAGCTATGCTACAAATG
1 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATG
10657893 ATGTGCCTTTGAGCTGAGT
66 ATGTGCCTTTGAGCTGAGT
* ** *
10657912 GTAATCAAACTCGAAGGTCTTTTGTTGGCAGATAGTCATTCTTGCCTTGAGCTATGCTGCAAATG
1 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATG
10657977 ATGTGCCTTTGAGCTGAGT
66 ATGTGCCTTTGAGCTGAGT
* *
10657996 GTAATCGAACTCGAA-GTCTTTTGTTGGCAGATAACCCTTTTTTCCTTGAGCTATGCTGCAAATG
1 GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATG
* *
10658060 ATGTGCATTTGAGCTAAGT
66 ATGTGCCTTTGAGCTGAGT
*
10658079 GTAATTGAACTCGAAGGTCTTTTGTTG
1 GTAATCGAACTCGAAGGTCTTTTGTTG
10658106 AAGGTGCTCT
Statistics
Matches: 401, Mismatches: 42, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
83 76 0.19
84 324 0.81
85 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (84 bp):
GTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATG
ATGTGCCTTTGAGCTGAGT
Found at i:10662560 original size:20 final size:20
Alignment explanation
Indices: 10662523--10662560 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10662513 AAAATCAAAC
*
10662523 AAAATATTAGATGGTAAAAT
1 AAAATATTAGATGCTAAAAT
10662543 AAAATATT-GAATGCTAAA
1 AAAATATTAG-ATGCTAAA
10662561 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAATATTAGATGCTAAAAT
Found at i:10670231 original size:20 final size:21
Alignment explanation
Indices: 10670208--10670246 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10670198 ATAAAAGTCA
10670208 TAATT-TTT-TAAAATAATATT
1 TAATTGTTTCTAAAA-AATATT
10670228 TAATTGTTTCTAAAAAATA
1 TAATTGTTTCTAAAAAATA
10670247 GTTATGATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
TAATTGTTTCTAAAAAATATT
Found at i:10673016 original size:15 final size:15
Alignment explanation
Indices: 10672996--10673091 Score: 89
Period size: 15 Copynumber: 6.7 Consensus size: 15
10672986 AGATCAAATC
10672996 AAAGCAAAGAGAAAA
1 AAAGCAAAGAGAAAA
10673011 AAAGCAAAGAGAAAA
1 AAAGCAAAGAGAAAA
* *
10673026 AAAACAAAAAGAAAAAA
1 AAAGC--AAAGAGAAAA
10673043 AAAGC-AA-AG-AAA
1 AAAGCAAAGAGAAAA
*
10673055 AAAGTAAAGA-AAAA
1 AAAGCAAAGAGAAAA
*
10673069 AGAGCAAA-AG--AA
1 AAAGCAAAGAGAAAA
10673081 AAAGCAAAGAG
1 AAAGCAAAGAG
10673092 CAAAGAGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
12 16 0.24
13 6 0.09
14 12 0.18
15 19 0.29
17 13 0.20
ACGTcount: A:0.75, C:0.06, G:0.18, T:0.01
Consensus pattern (15 bp):
AAAGCAAAGAGAAAA
Found at i:10673043 original size:32 final size:34
Alignment explanation
Indices: 10673001--10673097 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 34
10672991 AAATCAAAGC
* *
10673001 AAAGAGAAAAAAAGCAAAGAGAAAA-AAA-ACAA
1 AAAGAAAAAAAAAGCAAAGAGAAAAGAAAGAAAA
*
10673033 AAAGAAAAAAAAAGCAAAGAAAAAAGTAAAGAAAA
1 AAAGAAAAAAAAAGCAAAGAGAAAAG-AAAGAAAA
*
10673068 AAGAGCAAAAGAAAAAGCAAAGAGCAAAGA
1 AA-AG-AAAA-AAAAAGCAAAGAGAAAAGA
10673098 GCAAAAACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
32 23 0.43
34 3 0.06
35 5 0.09
36 2 0.04
37 5 0.09
38 16 0.30
ACGTcount: A:0.75, C:0.06, G:0.18, T:0.01
Consensus pattern (34 bp):
AAAGAAAAAAAAAGCAAAGAGAAAAGAAAGAAAA
Found at i:10673055 original size:12 final size:12
Alignment explanation
Indices: 10673008--10673090 Score: 70
Period size: 12 Copynumber: 7.1 Consensus size: 12
10672998 AGCAAAGAGA
10673008 AAAAAAGCAAAG
1 AAAAAAGCAAAG
10673020 AGAAAAA--AAA-
1 A-AAAAAGCAAAG
*
10673030 CAAAAAG-AAA-
1 AAAAAAGCAAAG
10673040 AAAAAAGCAAAG
1 AAAAAAGCAAAG
*
10673052 AAAAAAGTAAAG
1 AAAAAAGCAAAG
10673064 AAAAAAGAGCAAA-
1 -AAAAA-AGCAAAG
10673077 AGAAAAAGCAAAG
1 A-AAAAAGCAAAG
10673090 A
1 A
10673091 GCAAAGAGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
9 5 0.08
10 9 0.15
11 6 0.10
12 19 0.32
13 15 0.25
14 5 0.08
ACGTcount: A:0.77, C:0.06, G:0.16, T:0.01
Consensus pattern (12 bp):
AAAAAAGCAAAG
Found at i:10673055 original size:27 final size:27
Alignment explanation
Indices: 10673001--10673088 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
10672991 AAATCAAAGC
10673001 AAAGAGAAAAAAAGCAAAGAGAAAAAAAACAA
1 AAAGA-AAAAAAAGCAAA-AG---AAAAACAA
*
10673033 AAAGAAAAAAAAAGC-AAAGAAAAA-AGT
1 AAAG-AAAAAAAAGCAAAAGAAAAACA-A
*
10673060 AAAGAAAAAAGAGCAAAAGAAAAAGCAA
1 AAAGAAAAAAAAGCAAAAGAAAAA-CAA
10673088 A
1 A
10673089 GAGCAAAGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
26 10 0.21
27 18 0.38
28 1 0.02
29 1 0.02
30 2 0.04
31 2 0.04
32 13 0.27
33 1 0.02
ACGTcount: A:0.77, C:0.06, G:0.16, T:0.01
Consensus pattern (27 bp):
AAAGAAAAAAAAGCAAAAGAAAAACAA
Found at i:10673109 original size:26 final size:25
Alignment explanation
Indices: 10673016--10673109 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 25
10673006 GAAAAAAAGC
*
10673016 AAAGAG-AAAAAAAACA-AAAAGAAAA
1 AAAGAGCAAAAAAAA-AGCAAAG-AAA
* *
10673041 AAAAAGCAAAGAAAAAAGTAAAGAAA
1 AAAGAGCAAA-AAAAAAGCAAAGAAA
**
10673067 AAAGAGCAAAAGAAAAAGCAAAGAGC
1 AAAGAGCAAAA-AAAAAGCAAAGAAA
10673093 AAAGAGCAAAAACAAAA
1 AAAGAGCAAAAA-AAAA
10673110 CAAGAAGAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
25 7 0.12
26 42 0.72
27 9 0.16
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.01
Consensus pattern (25 bp):
AAAGAGCAAAAAAAAAGCAAAGAAA
Found at i:10674582 original size:136 final size:135
Alignment explanation
Indices: 10674353--10674816 Score: 596
Period size: 136 Copynumber: 3.4 Consensus size: 135
10674343 CAAAATTTAT
* * * * *
10674353 AATCTTTGAGTATGTTTCTCTTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTCTTGTGAAACA
1 AATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAATA
* * * * *
10674417 TCAACCTTCGAGAT-TGTTTCCCGTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTAA
66 -AAAACTTTGAG-TCTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTAA
10674481 ACAAAAA
129 ACAAAAA
*
10674488 CAATCTTTGAGTTTGTTTCCCATGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAAT
1 -AATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAAT
* * * *
10674553 AAAATCTTTGAGTCTGTTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGAGAGTTTCTCTTGAAA
65 AAAAACTTTGAGTCTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTAAA
10674618 C--AAA
130 CAAAAA
* * * * *
10674622 AGTTTTTGAGTTTGTTTCCCTCGAAACAAAGTTTTATCTCTCTTGAGACAATTTCTTTTGAAATA
1 AATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAAT-
* *
10674687 AAAAACTTTGAGTCTGTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACAATTTCTCTTGAAA
65 AAAAACTTTGAGTCTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT----
*
10674752 TAAAAAAAAA
126 TAAACAAAAA
* *
10674762 AATCTTTGAGTCTGTTTCCCTTGAAAC-AAGTTTTGTCTCTCCTGAGACAGTTTCT
1 AATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT
10674817 CTTAAAACAT
Statistics
Matches: 285, Mismatches: 34, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
133 58 0.20
134 59 0.21
135 1 0.00
136 82 0.29
137 31 0.11
138 3 0.01
139 25 0.09
140 26 0.09
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (135 bp):
AATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAATA
AAAACTTTGAGTCTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTAAAC
AAAAA
Found at i:10674595 original size:66 final size:66
Alignment explanation
Indices: 10674353--10674816 Score: 511
Period size: 67 Copynumber: 6.8 Consensus size: 66
10674343 CAAAATTTAT
* * * * *
10674353 AATCTTTGAGTATGTTTCTCTTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTCTTGTGAAACA
1 AATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAATA
*
10674417 TC
66 -A
* * * *
10674419 AACCTTCGAGAT-TGTTTCCCGTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTAAAC
1 AATCTTTGAG-TCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT-TTT-GA-
*
10674483 AAAAA
62 AATAA
* *
10674488 CAATCTTTGAGTTTGTTTCCCATGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAAT
1 -AATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAAT
10674553 AA
65 AA
* * * * *
10674555 AATCTTTGAGTCTGTTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGAGAGTTTCTCTTGAAACA
1 AATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAATA
10674620 A
66 A
* * * * *
10674621 AAGTTTTTGAGTTTGTTTCCCTCGAAACAAAGTTTTATCTCTCTTGAGACAATTTCTTTTGAAAT
1 AA-TCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAAT
10674686 AAA
65 -AA
* * * * *
10674689 AAACTTTGAGTCTGTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACAATTTCTCTTGAAATA
1 AATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAAT-
10674754 AAAAAAAA
65 ------AA
*
10674762 AATCTTTGAGTCTGTTTCCCTTGAAAC-AAGTTTTGTCTCTCCTGAGACAGTTTCT
1 AATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT
10674817 CTTAAAACAT
Statistics
Matches: 341, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
66 85 0.25
67 137 0.40
68 7 0.02
69 5 0.01
70 54 0.16
72 25 0.07
73 28 0.08
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (66 bp):
AATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTTTGAAATA
A
Found at i:10675202 original size:134 final size:131
Alignment explanation
Indices: 10674825--10675209 Score: 425
Period size: 131 Copynumber: 2.9 Consensus size: 131
10674815 CTCTTAAAAC
* * *
10674825 ATCATCCCTAAAGATGGCTTACCGTCCTCATCGCGTAGAAACCGTGTCATCCATCAACCAGATCT
1 ATCATCCCTAAAGATGGC-AACCGTCCTCATCACGTAGGAACCGTGTCATCCATCAACCAGATCT
* * * * *
10674890 CCTCATCACGTAGGAGTCATGTCACCCTTAAATAATCA-ATCATCCTCATCACGTAGGAACCATG
65 CCTCATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGAACATCTTCATCACGTAGGAACCATG
10674954 TT
130 TT
* * * * *
10674956 ATCATCCCTAAAGATGGCATATCGTCCTCATCACGTAGGAACCGTGTCATCTACCGACCAGACCT
1 ATCATCCCTAAAGATGGCA-ACCGTCCTCATCACGTAGGAACCGTGTCATCCATCAACCAGATCT
* * * * **
10675021 CCTCATCACGTAGGAGTGGTGTTACCCCTAGATAACCAG-CCATCTTCATCGTGTAGGAACCATG
65 CCTCATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGAACATCTTCATCACGTAGGAACCATG
10675085 TT
130 TT
* * * **
10675087 ACTACCCTTCCTAAAGATGGTCAACCGTCCTCATTACGTAGGAACTATGTCATCCATCAACCAGA
1 A-T--CATCCCTAAAGATGG-CAACCGTCCTCATCACGTAGGAACCGTGTCATCCATCAACCAGA
** * * **
10675152 TCTTTTCATCACGTAGGAGCCGTGTCATCCTTAGACGACCAGAAC-TCTTCATCACGTA
62 TCTCCTCATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGAACATCTTCATCACGTA
10675210 TGTGCAATGT
Statistics
Matches: 207, Mismatches: 40, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
131 112 0.54
132 1 0.00
134 91 0.44
135 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (131 bp):
ATCATCCCTAAAGATGGCAACCGTCCTCATCACGTAGGAACCGTGTCATCCATCAACCAGATCTC
CTCATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGAACATCTTCATCACGTAGGAACCATGT
T
Found at i:10676246 original size:2 final size:2
Alignment explanation
Indices: 10676239--10676265 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10676229 CCGATGAGAG
10676239 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
10676266 TTCTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10679855 original size:24 final size:23
Alignment explanation
Indices: 10679812--10679856 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10679802 TTTATTTTTA
*
10679812 TTTAAAAAACTTAATATTATAAT
1 TTTAAAAAACTCAATATTATAAT
*
10679835 TTTAAAAAACTCCAATTTTATA
1 TTTAAAAAACT-CAATATTATA
10679857 TCTTCCGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAAAAAACTCAATATTATAAT
Found at i:10681312 original size:38 final size:38
Alignment explanation
Indices: 10681256--10681329 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
10681246 TCTTGCAAAC
10681256 GCAGTTACTCGAACTCAAAATCTCAAAAGAACAACATT
1 GCAGTTACTCGAACTCAAAATCTCAAAAGAACAACATT
* ** *
10681294 GCAGTTGCTCGAGTTCAAAATCTCAAAAGAATAACA
1 GCAGTTACTCGAACTCAAAATCTCAAAAGAACAACA
10681330 ATAATTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.22
Consensus pattern (38 bp):
GCAGTTACTCGAACTCAAAATCTCAAAAGAACAACATT
Found at i:10681692 original size:137 final size:139
Alignment explanation
Indices: 10681532--10681815 Score: 446
Period size: 139 Copynumber: 2.1 Consensus size: 139
10681522 GGGTAAATTG
* *
10681532 TAACATTGATCATTTAATCATTTAATTATTTTATTTTAATAATTGA-TTTTTCAATTTTATTCAT
1 TAACATTGATCATTTAATCATTTAATTATTTTACTTTAATAATTGATTTTTTCAATTTTATCCAT
* *
10681596 CAGATCACCTAATTATTTAATTATATCTAATCAAGTCACTTACCATTAACATTTAACATAAGTGT
66 CAGATCACCTAATTATTTAATTATATATAATCAAGTCACTTACCATTAAAATTTAACATAAGTGT
*
10681661 TGATTC-TT
131 CGATTCTTT
* * * *
10681669 TAACATTGATCATTTAATTATTTAATTCTTTTACTTTAATCATTGATTTTTTTTAATTTTATCCA
1 TAACATTGATCATTTAATCATTTAATTATTTTACTTTAATAATTGA-TTTTTTCAATTTTATCCA
* *
10681734 TCAGATCACCTAATTATTTAATTATATATAATCAAGTCACTTGCCGTTAAAATTTAACATAAGTG
65 TCAGATCACCTAATTATTTAATTATATATAATCAAGTCACTTACCATTAAAATTTAACATAAGTG
10681799 TCGATTCTTT
130 TCGATTCTTT
10681809 TAACATT
1 TAACATT
10681816 CAAGATAAGT
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
137 42 0.32
139 82 0.62
140 9 0.07
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (139 bp):
TAACATTGATCATTTAATCATTTAATTATTTTACTTTAATAATTGATTTTTTCAATTTTATCCAT
CAGATCACCTAATTATTTAATTATATATAATCAAGTCACTTACCATTAAAATTTAACATAAGTGT
CGATTCTTT
Found at i:10681945 original size:31 final size:31
Alignment explanation
Indices: 10681907--10681965 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
10681897 TGAATCACTG
10681907 AACATTTAG-TCTGTTTGCAATATGGTCCCTC
1 AACATTTAGTTC-GTTTGCAATATGGTCCCTC
*
10681938 AACATTTAGTTCGTTTGTAATATGGTCC
1 AACATTTAGTTCGTTTGCAATATGGTCC
10681966 TCGACGTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (31 bp):
AACATTTAGTTCGTTTGCAATATGGTCCCTC
Found at i:10682491 original size:2 final size:2
Alignment explanation
Indices: 10682484--10682532 Score: 61
Period size: 2 Copynumber: 26.0 Consensus size: 2
10682474 ATAAATAAAT
10682484 TA TA TA TA TA TA TA TA TA T- TA TA -A TA TGA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
10682524 TA TA -A TA TA
1 TA TA TA TA TA
10682533 ACGTTTGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
1 4 0.10
2 36 0.86
3 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10682566 original size:39 final size:39
Alignment explanation
Indices: 10682523--10682600 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
10682513 TAATATATAT
* * *
10682523 ATATAATATAACGTTTGAGGACGAATTTGAGTGTTTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
10682562 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
10682601 GCTGCCCCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (39 bp):
ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
Found at i:10683240 original size:105 final size:105
Alignment explanation
Indices: 10683051--10683826 Score: 1266
Period size: 105 Copynumber: 7.4 Consensus size: 105
10683041 GTACTGTTCT
* * * * * * * * * **
10683051 GAGTCCAATATCCTCCGCTGTGAAGTTAAAACTGGTTCTGGAACTGGGAAATTCTTTACTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
*
10683116 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
10683157 GAATCCAATATCCTTCGTTTTGAAGTTGAAATTGGCTCTAAAATTGGGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
10683222 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
10683262 GAACCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
10683327 CAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTCGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
10683367 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
10683432 CAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
10683472 GAGTCCAATATCCTTCGTTGTGAAGTTGGAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
10683537 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10683577 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGATAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
10683642 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
10683682 GAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
10683747 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
10683787 GAGTCCAATATCC-TCTGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTG
10683827 GGTAAAACTT
Statistics
Matches: 632, Mismatches: 37, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
104 2 0.00
105 589 0.93
106 41 0.06
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:10694611 original size:2 final size:2
Alignment explanation
Indices: 10694604--10694667 Score: 98
Period size: 2 Copynumber: 33.0 Consensus size: 2
10694594 ATAAATAAAT
10694604 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
10694646 -A TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
10694668 ACGTTTGAGG
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.05
2 53 0.91
3 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10694705 original size:39 final size:39
Alignment explanation
Indices: 10694658--10694736 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
10694648 ATATATATAT
* *
10694658 ATATAATATAACGTTTGAGGACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
*
10694697 ATATAATATAACATTAGAGTACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
10694736 A
1 A
10694737 CTCCAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (39 bp):
ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
Found at i:10695420 original size:3 final size:3
Alignment explanation
Indices: 10695409--10695461 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
10695399 TACTCTTCTT
* * *
10695409 CTC CCC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTT CTC CCC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
10695457 CTC CT
1 CTC CT
10695462 TATTCTACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:10695875 original size:31 final size:31
Alignment explanation
Indices: 10695837--10695899 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
10695827 AATTACATCG
***
10695837 GGGACCATATTACAAATGGACTAAATGTTGA
1 GGGACCATATTACAAAAAAACTAAATGTTGA
*
10695868 GGGACCATATTGCAAAAAAACTAAATGTTGA
1 GGGACCATATTACAAAAAAACTAAATGTTGA
10695899 G
1 G
10695900 AGACTGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (31 bp):
GGGACCATATTACAAAAAAACTAAATGTTGA
Found at i:10697357 original size:14 final size:15
Alignment explanation
Indices: 10697334--10697366 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10697324 CGATACGATA
10697334 ATAATATAAATTA-T
1 ATAATATAAATTATT
*
10697348 ATAATTTAAATTATT
1 ATAATATAAATTATT
10697363 ATAA
1 ATAA
10697367 ATATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATAAATTATT
Found at i:10699933 original size:30 final size:30
Alignment explanation
Indices: 10699897--10699977 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
10699887 ACATCATTTT
*
10699897 TAATATTTTTGGAT-ATTTTTTAACGCCTAA
1 TAATATTTTCGG-TCATTTTTTAACGCCTAA
*
10699927 TAATATTTTCGGTCATTTTTTAATGCCTAA
1 TAATATTTTCGGTCATTTTTTAACGCCTAA
* *
10699957 TAATATTTCCGTTCATTTTTT
1 TAATATTTTCGGTCATTTTTT
10699978 TTAAAAATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 1 0.02
30 45 0.98
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (30 bp):
TAATATTTTCGGTCATTTTTTAACGCCTAA
Found at i:10703626 original size:20 final size:20
Alignment explanation
Indices: 10703600--10703649 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
10703590 TCCCAATTCA
10703600 CAATGCGAATAAGTAAATCG
1 CAATGCGAATAAGTAAATCG
*
10703620 TAATGCGAATAAGTAAATCG
1 CAATGCGAATAAGTAAATCG
*
10703640 CAATGTGAAT
1 CAATGCGAAT
10703650 TTGAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (20 bp):
CAATGCGAATAAGTAAATCG
Found at i:10703688 original size:20 final size:20
Alignment explanation
Indices: 10703660--10703811 Score: 155
Period size: 20 Copynumber: 7.5 Consensus size: 20
10703650 TTGAAAAATT
*
10703660 GCAATGCGATACTGA-TTATC
1 GCAACGCGATACTGACTT-TC
* **
10703680 GCAACGCGATAAT-ACAAAATC
1 GCAACGCGATACTGAC--TTTC
10703701 GCAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTTTC
*
10703721 GCAACGAGATACTGACTTTC
1 GCAACGCGATACTGACTTTC
* *
10703741 GCAATGCGATTCTGACTTTC
1 GCAACGCGATACTGACTTTC
*
10703761 GCAACGCGATTCTGACTTTC
1 GCAACGCGATACTGACTTTC
* * *
10703781 GCAACGAGATTCTGACTATC
1 GCAACGCGATACTGACTTTC
*
10703801 GCAACGAGATA
1 GCAACGCGATA
10703812 ATACAGAATC
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 96 0.85
21 14 0.12
22 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (20 bp):
GCAACGCGATACTGACTTTC
Found at i:10703699 original size:41 final size:41
Alignment explanation
Indices: 10703654--10703831 Score: 132
Period size: 40 Copynumber: 4.4 Consensus size: 41
10703644 GTGAATTTGA
* * *
10703654 AAAATTGCAATGCGATACTGA-TTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTT-TCGCAACGAGATAATAC
*
10703695 AAAATCGCAACGCGATACTGACTTTCGCAACGAGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGAGATAAT-AC
** * * * **
10703737 --TTTCGCAATGCGATTCTGACTTTCGCAACGCGATTCTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGAGATAAT-AC
** * * *
10703777 --TTTCGCAACGAGATTCTGACTATCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGAGATAATAC
* *
10703816 AGAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
10703832 TTTCAAAGTT
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 65 0.58
41 42 0.37
42 4 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGAGATAATAC
Found at i:10703756 original size:40 final size:40
Alignment explanation
Indices: 10703699--10703811 Score: 172
Period size: 40 Copynumber: 2.8 Consensus size: 40
10703689 TAATACAAAA
*
10703699 TCGCAACGCGATACTGACTTTCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTTTCGCAACGAGATACTGACTT
* * *
10703739 TCGCAATGCGATTCTGACTTTCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTTTCGCAACGAGATACTGACTT
* *
10703779 TCGCAACGAGATTCTGACTATCGCAACGAGATA
1 TCGCAACGCGATTCTGACTTTCGCAACGAGATA
10703812 ATACAGAATC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
TCGCAACGCGATTCTGACTTTCGCAACGAGATACTGACTT
Found at i:10704412 original size:20 final size:20
Alignment explanation
Indices: 10704357--10704405 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
10704347 CAACGGGGAA
10704357 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
10704377 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
10704397 ATCGCAACG
1 ATCGCAACG
10704406 ATAAAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:10704472 original size:19 final size:16
Alignment explanation
Indices: 10704431--10704482 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 16
10704421 GAAATGAAAA
10704431 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
10704447 TCG--TTGCGATTTTC
1 TCGCATTGCGATTTTC
*
10704461 ATTTCGCATTGCGATTCTC
1 ---TCGCATTGCGATTTTC
10704480 TCG
1 TCG
10704483 TTGCAATAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
14 11 0.37
16 6 0.20
17 3 0.10
19 10 0.33
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (16 bp):
TCGCATTGCGATTTTC
Found at i:10706098 original size:44 final size:42
Alignment explanation
Indices: 10706050--10706140 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
10706040 CCTCTTCAAC
* * *
10706050 GATGACAGTGGCCTCTTGAACGGTGGGGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAT--GGGAGGGGACTCTTGAGG
* *
10706094 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
10706136 GATGA
1 GATGA
10706141 AAGGTGAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 21 0.50
44 21 0.50
ACGTcount: A:0.20, C:0.14, G:0.44, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
Found at i:10706109 original size:21 final size:21
Alignment explanation
Indices: 10706080--10706140 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
10706070 CGGTGGGGGG
*
10706080 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
10706101 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
10706122 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
10706141 AAGGTGAGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:10706506 original size:20 final size:20
Alignment explanation
Indices: 10706481--10706519 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10706471 GAAGAATAGT
10706481 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
*
10706501 TTACTTTCGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
10706520 ATGACTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:10706533 original size:20 final size:20
Alignment explanation
Indices: 10706507--10706579 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
10706497 AAACTTACTT
*
10706507 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGGCTA
* *
10706527 TCACAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
*
10706547 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
*
10706567 TCGCAATGCGAAA
1 TCGCAACGCGAAA
10706580 TGAAAATCGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGGCTA
Found at i:10706601 original size:14 final size:14
Alignment explanation
Indices: 10706582--10706621 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
10706572 ATGCGAAATG
* *
10706582 AAAATCGTAATGAC
1 AAAATCGCAACGAC
10706596 AAAATCGCAACGAC
1 AAAATCGCAACGAC
10706610 AAAATCGCAACG
1 AAAATCGCAACG
10706622 CGAAACACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:10707207 original size:18 final size:18
Alignment explanation
Indices: 10707184--10707231 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
10707174 CGGGTCGATC
10707184 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
10707202 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
10707220 AGGTGATGGCTC
1 AGGTGATGGCTC
10707232 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:10708560 original size:20 final size:20
Alignment explanation
Indices: 10708512--10708570 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
10708502 AATAGTTTCT
* *
10708512 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
10708532 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
10708552 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
10708571 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:10709092 original size:20 final size:20
Alignment explanation
Indices: 10709064--10709177 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
10709054 GATTATGTAT
*
10709064 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
10709084 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
10709104 TATCGCGTTGCGAAAGTTAG
1 TATCGCGTTGCGAAAGTCAG
** *
10709124 TATCGCGTTGCGATTTTGT-AC
1 TATCGCGTTGCGA--AAGTCAG
*
10709145 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
10709165 TATCGCATTGCGA
1 TATCGCGTTGCGA
10709178 TTTTCCAAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.77
21 14 0.17
22 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:10709178 original size:20 final size:19
Alignment explanation
Indices: 10709044--10709178 Score: 117
Period size: 20 Copynumber: 6.7 Consensus size: 19
10709034 CGCTTTGAAA
* *
10709044 ATCGCATTGCGATTATGTATT
1 ATCGCGTTGCGA-TA-GTAGT
* *
10709065 ATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGT-AGT
*
10709085 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGT-AGT
*
10709105 ATCGCGTTGCGAAAGTTAGT
1 ATCGCGTTGCGATAG-TAGT
* *
10709125 ATCGCGTTGCGATTTTGTACT
1 ATCGCGTTGCGA--TAGTAGT
10709146 ATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATAGT-AGT
*
10709166 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
10709179 TTTCCAAATT
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
19 5 0.05
20 65 0.67
21 26 0.27
22 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATAGTAGT
Found at i:10709181 original size:41 final size:41
Alignment explanation
Indices: 10709044--10709179 Score: 168
Period size: 41 Copynumber: 3.3 Consensus size: 41
10709034 CGCTTTGAAA
* *
10709044 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTACTATCGCGTTGCGAAAGTCAGT
* * * *
10709085 ATCGCGTTGCGA--AAGTAAGTATCGCGTTGCGAAAGTTAGT
1 ATCGCATTGCGATTATGT-ACTATCGCGTTGCGAAAGTCAGT
* * *
10709125 ATCGCGTTGCGATTTTGTACTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTACTATCGCGTTGCGAAAGTCAGT
10709166 ATCGCATTGCGATT
1 ATCGCATTGCGATT
10709180 TTCCAAATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.04
40 32 0.40
41 44 0.54
42 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTACTATCGCGTTGCGAAAGTCAGT
Done.