Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 22
Found at i:2193276 original size:18 final size:18
Alignment explanation
Indices: 2193246--2193297 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
2193236 GCGCCATCTA
*
2193246 AAAAAT-TTGAAAATAA-
1 AAAAATATTAAAAATAAT
2193262 AAAAATGATTAAAAATTAAT
1 AAAAAT-ATTAAAAA-TAAT
*
2193282 AAATATATTAAAAATA
1 AAAAATATTAAAAATA
2193298 TTTGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 6 0.20
18 8 0.27
19 11 0.37
20 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAAAATATTAAAAATAAT
Found at i:2203831 original size:26 final size:26
Alignment explanation
Indices: 2203795--2203867 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 26
2203785 TCAAAAAGCA
*
2203795 TAAG-TTTGGTCACTTATTGTTTTAT
1 TAAGTTTTGGTCACTTATTATTTTAT
2203820 TAAGTTTTGGTCACTTACGTTATTATTTTAT
1 TAAGTTTTGGT--C--AC-TTATTATTTTAT
2203851 TAAGTTTTGGTCACTTA
1 TAAGTTTTGGTCACTTA
2203868 GACATTGAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
25 4 0.10
26 9 0.22
27 2 0.05
28 1 0.02
29 1 0.02
30 2 0.05
31 22 0.54
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.53
Consensus pattern (26 bp):
TAAGTTTTGGTCACTTATTATTTTAT
Found at i:2203849 original size:31 final size:31
Alignment explanation
Indices: 2203808--2203867 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
2203798 GTTTGGTCAC
*
2203808 TTATTGTTTTATTAAGTTTTGGTCACTTACG
1 TTATTATTTTATTAAGTTTTGGTCACTTACG
2203839 TTATTATTTTATTAAGTTTTGGTCACTTA
1 TTATTATTTTATTAAGTTTTGGTCACTTA
2203868 GACATTGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.08, G:0.13, T:0.57
Consensus pattern (31 bp):
TTATTATTTTATTAAGTTTTGGTCACTTACG
Found at i:2205105 original size:31 final size:31
Alignment explanation
Indices: 2205070--2205147 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
2205060 TTTACCGTCG
*
2205070 AAGTGACCAAAACTTAATAAAACGATAACGT
1 AAGTGACCAAAACTTAATAAAACGATAACAT
*
2205101 AAGTGACCAAAACTTAATAAAATGATAACAT
1 AAGTGACCAAAACTTAATAAAACGATAACAT
2205132 AAGTGACCAAAACTTA
1 AAGTGACCAAAACTTA
2205148 TATTTTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACGATAACAT
Found at i:2207267 original size:18 final size:18
Alignment explanation
Indices: 2207244--2207285 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2207234 AATTTTATTC
*
2207244 AATAAAAAT-ATTAAAGAT
1 AATAAAAATAAATAAA-AT
*
2207262 AATAAACATAAATAAAAT
1 AATAAAAATAAATAAAAT
2207280 AATAAA
1 AATAAA
2207286 CAATTGATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAAAAATAAATAAAAT
Found at i:2207762 original size:20 final size:20
Alignment explanation
Indices: 2207681--2207764 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
2207671 TTTTTGGCTC
*
2207681 AAAGGATCGATC-CCTTAGCA
1 AAAGGATCGATCTCC-TAGAA
* * ** *
2207701 AAAGGATCAATCTCTTTTACC
1 AAAGGATCGATCTCCTAGA-A
* * *
2207722 AAAGGATCCATCCCCTTGAA
1 AAAGGATCGATCTCCTAGAA
2207742 AAAGGATCGATCTCCTAGAA
1 AAAGGATCGATCTCCTAGAA
2207762 AAA
1 AAA
2207765 TAACCGATCC
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 32 0.67
21 16 0.33
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (20 bp):
AAAGGATCGATCTCCTAGAA
Found at i:2207889 original size:41 final size:41
Alignment explanation
Indices: 2207843--2207931 Score: 115
Period size: 41 Copynumber: 2.2 Consensus size: 41
2207833 TTAAGGATCA
* *
2207843 ATCCCTTTCTTGCAACGGGCGAATTATTCGAAAAAATATCG
1 ATCCCTTTCTTACAACAGGCGAATTATTCGAAAAAATATCG
* * * * *
2207884 ATCCCTTTCTTACAACAGTCTAATTATTTGAAAAATTATTG
1 ATCCCTTTCTTACAACAGGCGAATTATTCGAAAAAATATCG
2207925 ATCCCTT
1 ATCCCTT
2207932 GTGCATTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (41 bp):
ATCCCTTTCTTACAACAGGCGAATTATTCGAAAAAATATCG
Found at i:2213855 original size:16 final size:17
Alignment explanation
Indices: 2213834--2213867 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2213824 TGAAGGTTGT
*
2213834 GATTTT-AAAAATATAA
1 GATTTTGAAAAAAATAA
2213850 GATTTTGAAAAAAATAA
1 GATTTTGAAAAAAATAA
2213867 G
1 G
2213868 TCATATCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
GATTTTGAAAAAAATAA
Found at i:2216116 original size:18 final size:18
Alignment explanation
Indices: 2216093--2216184 Score: 121
Period size: 18 Copynumber: 4.9 Consensus size: 18
2216083 GTTCTTAAGG
2216093 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
2216111 AGTGGTCATTCGAGACAAAT
1 AGTGGTCCTTCGGGAC--AT
*
2216131 CAGTGGTCTTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
2216150 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACAT
2216168 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
2216185 AATATATAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
18 46 0.72
19 2 0.03
20 2 0.03
21 14 0.22
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2216602 original size:21 final size:21
Alignment explanation
Indices: 2216576--2216615 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2216566 AATTGAGGAA
2216576 AAAAGG-TATATAAATAAGTAT
1 AAAAGGATAT-TAAATAAGTAT
2216597 AAAAGGATATTAAATAAGT
1 AAAAGGATATTAAATAAGT
2216616 TGTGTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (21 bp):
AAAAGGATATTAAATAAGTAT
Found at i:2217612 original size:14 final size:14
Alignment explanation
Indices: 2217589--2217631 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
2217579 ACAACTATTA
*
2217589 CACACCATTTTTTT
1 CACACTATTTTTTT
2217603 CACACTATTTTTTT
1 CACACTATTTTTTT
2217617 CACACTATTTTTTT
1 CACACTATTTTTTT
2217631 C
1 C
2217632 CACCGTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (14 bp):
CACACTATTTTTTT
Found at i:2218160 original size:60 final size:60
Alignment explanation
Indices: 2218038--2218201 Score: 172
Period size: 60 Copynumber: 2.7 Consensus size: 60
2218028 TTTGGATGAA
* * * *
2218038 TTTGGGGATGAAATTGAAA-GATCTAAAAGTTTATGGACTAATTTAGAATGAGATTCATAG
1 TTTGGGGATGAAATTGAAATG-TTTAAAAGTTTAAGGAATAATTTAGAATGAGAATCATAG
* *
2218098 TTTGGGGATGAAATTTAAATGTTTAAAAGTTTAAGGAATGATTTAGAATGAGAATCGA-AG
1 TTTGGGGATGAAATTGAAATGTTTAAAAGTTTAAGGAATAATTTAGAATGAGAATC-ATAG
** * * * *
2218158 TTTAAGAAT-AGAATTGAAATGTTTAAAAATTTAAAGACTAATTT
1 TTTGGGGATGA-AATTGAAATGTTTAAAAGTTTAAGGAATAATTT
2218202 GAAATAAGTC
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
59 1 0.01
60 84 0.97
61 2 0.02
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (60 bp):
TTTGGGGATGAAATTGAAATGTTTAAAAGTTTAAGGAATAATTTAGAATGAGAATCATAG
Found at i:2222607 original size:20 final size:22
Alignment explanation
Indices: 2222582--2222634 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
2222572 ATAAATAAAT
*
2222582 AAATAA-C-CCACTACTTATTA
1 AAATAATCACCACTACATATTA
2222602 AAATAATCAAACCACTACATATTA
1 AAATAATC--ACCACTACATATTA
2222626 AAATAATCA
1 AAATAATCA
2222635 AACCTGTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.21
21 1 0.04
22 1 0.04
24 20 0.71
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATAATCACCACTACATATTA
Found at i:2222616 original size:24 final size:24
Alignment explanation
Indices: 2222589--2222638 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
2222579 AATAAATAAC
*
2222589 CCACTACTTATTAAAATAATCAAA
1 CCACTACATATTAAAATAATCAAA
2222613 CCACTACATATTAAAATAATCAAA
1 CCACTACATATTAAAATAATCAAA
2222637 CC
1 CC
2222639 TGTTAGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (24 bp):
CCACTACATATTAAAATAATCAAA
Found at i:2222935 original size:34 final size:32
Alignment explanation
Indices: 2222875--2222944 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
2222865 CCTTACAAAC
* * *
2222875 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGAGCTAAACTAGAACATT
*
2222907 TCCCTAGCTTTTACACGAGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGAGCTAAACTAGAACATT
2222941 TCCC
1 TCCC
2222945 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGAGCTAAACTAGAACATT
Found at i:2223184 original size:20 final size:22
Alignment explanation
Indices: 2223159--2223198 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2223149 AGTCGTATAT
2223159 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2223179 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2223199 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:2223250 original size:21 final size:21
Alignment explanation
Indices: 2223226--2223268 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2223216 CCCAGAATAG
*
2223226 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
2223247 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
2223268 A
1 A
2223269 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:2223384 original size:21 final size:21
Alignment explanation
Indices: 2223359--2223438 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
2223349 AAAACCTGCA
2223359 GGGGGTATCTGTACCCCCTGGG
1 GGGGGTATCTGTACCCCCT-GG
2223381 GGGGGTATCTGTA--CCC---
1 GGGGGTATCTGTACCCCCTGG
2223397 -GGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
* *
2223417 GGGGGAATCTATACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
2223438 G
1 G
2223439 CAATCTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
20 3 0.06
21 19 0.38
22 13 0.26
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:2223402 original size:15 final size:15
Alignment explanation
Indices: 2223382--2223411 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2223372 CCCCCTGGGG
2223382 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
2223397 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
2223412 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:2223432 original size:36 final size:37
Alignment explanation
Indices: 2223360--2223432 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
2223350 AAACCTGCAG
* *
2223360 GGGGTATCTGTACCCCCTGGGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
2223397 GGGGTATCTGTACCCCCT-GGGGGGGAATCTATACCC
1 GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
2223433 CCTGGGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 16 0.47
37 18 0.53
ACGTcount: A:0.14, C:0.27, G:0.36, T:0.23
Consensus pattern (37 bp):
GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
Found at i:2223560 original size:29 final size:31
Alignment explanation
Indices: 2223528--2223587 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
2223518 AAACTTTGAA
*
2223528 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2223557 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2223588 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:2223776 original size:22 final size:22
Alignment explanation
Indices: 2223745--2223791 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
2223735 AAGCTCCCCC
*
2223745 TTTTTCATTAAGAAATTGAATT
1 TTTTTCATTAAGAAATTAAATT
*
2223767 TTTTTTATTAAGAAATTAAATT
1 TTTTTCATTAAGAAATTAAATT
2223789 TTT
1 TTT
2223792 CAAACCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTTTCATTAAGAAATTAAATT
Found at i:2224890 original size:19 final size:19
Alignment explanation
Indices: 2224847--2224894 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
2224837 TCTAAATCCT
*
2224847 TTTTCAAAATTTCATTTTG
1 TTTTCAAAATCTCATTTTG
2224866 TCTTTCAAAATCT-ATTTTTG
1 T-TTTCAAAATCTCA-TTTTG
2224886 TTTTCAAAA
1 TTTTCAAAA
2224895 GAAAATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTCAAAATCTCATTTTG
Found at i:2225805 original size:34 final size:32
Alignment explanation
Indices: 2225752--2225821 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2225742 CCTTACAAAC
*
2225752 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
2225784 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
2225818 TCCC
1 TCCC
2225822 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:2226061 original size:20 final size:22
Alignment explanation
Indices: 2226036--2226075 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2226026 AGTCGTATAT
2226036 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2226056 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2226076 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:2226126 original size:21 final size:21
Alignment explanation
Indices: 2226102--2226144 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2226092 CCCAGAATAG
*
2226102 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
2226123 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
2226144 A
1 A
2226145 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:2226206 original size:21 final size:21
Alignment explanation
Indices: 2226180--2226222 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2226170 CTGTTGAACA
2226180 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
2226201 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
2226222 G
1 G
2226223 ACATTCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.44, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:2226281 original size:21 final size:21
Alignment explanation
Indices: 2226256--2226335 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
2226246 AAAACCTGCA
2226256 GGGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
2226277 GGGGGTATCTGTA--CCC---
1 GGGGGTATCTGTACCCCCTGG
2226293 -GGGGTATCTGTACCCCCTGGG
1 GGGGGTATCTGTACCCCCT-GG
* *
2226314 GGGGGAATCTATACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
2226335 G
1 G
2226336 CAATCTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
19 3 0.06
21 16 0.32
22 16 0.32
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:2226298 original size:15 final size:15
Alignment explanation
Indices: 2226278--2226307 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2226268 ACCCCCTGGG
2226278 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
2226293 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
2226308 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:2226457 original size:29 final size:31
Alignment explanation
Indices: 2226425--2226484 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
2226415 AAACTTTGAA
*
2226425 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
2226454 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
2226485 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTG
Found at i:2226543 original size:2 final size:2
Alignment explanation
Indices: 2226536--2226568 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2226526 ACCTATTAAA
2226536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2226569 ACATAGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2226619 original size:10 final size:10
Alignment explanation
Indices: 2226588--2226636 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
2226578 TTAATAATGG
*
2226588 AAATAAATAA
1 AAATAAAAAA
*
2226598 AATTAAACAAA
1 AAATAAA-AAA
2226609 AAAT-AAAAA
1 AAATAAAAAA
2226618 AAATAAAAAA
1 AAATAAAAAA
2226628 AAATAAAAA
1 AAATAAAAA
2226637 TGTAATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 7 0.21
10 22 0.65
11 5 0.15
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:2227730 original size:17 final size:19
Alignment explanation
Indices: 2227697--2227731 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2227687 GTAATATGTA
2227697 ATATAATTATAATAATAAC
1 ATATAATTATAATAATAAC
2227716 ATAT-ATTAT-ATAATAA
1 ATATAATTATAATAATAA
2227732 TACTAATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATAATTATAATAATAAC
Found at i:2230967 original size:33 final size:32
Alignment explanation
Indices: 2230918--2231004 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 32
2230908 AAATTTGTCC
*
2230918 TCCTAAAATTTATAAGTTCAAGTTCGAC-CCA
1 TCCTGAAATTTATAAGTTCAAGTTCGACTCCA
* *
2230949 TTCCTGAAATTTGATAAGTTCTAGTTCGTCTCCA
1 -TCCTGAAATTT-ATAAGTTCAAGTTCGACTCCA
*
2230983 CCCTGAAATTTTATAAGTTCAA
1 TCCTGAAA-TTTATAAGTTCAA
2231005 ATTTACCCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
32 10 0.21
33 31 0.66
34 6 0.13
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (32 bp):
TCCTGAAATTTATAAGTTCAAGTTCGACTCCA
Found at i:2232986 original size:8 final size:8
Alignment explanation
Indices: 2232973--2233003 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
2232963 ATGAATGATC
2232973 AAATTGTA
1 AAATTGTA
2232981 AAATTGTA
1 AAATTGTA
2232989 AAATTGTA
1 AAATTGTA
2232997 AAGATTG
1 AA-ATTG
2233004 AAGTCGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (8 bp):
AAATTGTA
Found at i:2238792 original size:26 final size:26
Alignment explanation
Indices: 2238756--2238807 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2238746 AAATAAATGA
2238756 TAAGTATCACTCGAATAAAACAATAC
1 TAAGTATCACTCGAATAAAACAATAC
* *
2238782 TAAGTTTCACTCGAATAAAATAATAC
1 TAAGTATCACTCGAATAAAACAATAC
2238808 AACAACACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (26 bp):
TAAGTATCACTCGAATAAAACAATAC
Found at i:2244997 original size:2 final size:2
Alignment explanation
Indices: 2244990--2245037 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
2244980 GAGCATTAGG
*
2244990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
2245032 AT AT AT
1 AT AT AT
2245038 CAGAAACCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2246824 original size:17 final size:17
Alignment explanation
Indices: 2246804--2246837 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2246794 ATTTTAGAAA
2246804 ATTTTAATGTTTATTTT
1 ATTTTAATGTTTATTTT
* *
2246821 ATTTTTATTTTTATTTT
1 ATTTTAATGTTTATTTT
2246838 TATCATCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTAATGTTTATTTT
Found at i:2248714 original size:168 final size:168
Alignment explanation
Indices: 2248181--2250531 Score: 4008
Period size: 168 Copynumber: 14.0 Consensus size: 168
2248171 AATAAAATAC
* * ** *
2248181 ATCAAAATCATATTTAATACATACATTAATGTCATGCTAGTAAATATAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
*
2248246 CATCCACATATAATAAATATTAATAATATTTTTCTCTTGAAAAATAAGTTTATTAAGACCTGATG
66 CATCCACGTATAATAAATATTAATAATATTTTT-TCTTGAAAAATAAGTTTATTAAGACCTGATG
* ** *
2248311 TAATACATGAAATTTAAGAAAATATAAGTTTAATCCGAG
130 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
*
2248350 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTAAGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
* * *
2248415 CATTCACGTATAATAAATATTAATAATATTTTTTTATTGAAAAATAAGTCTATTAAGACCTGATG
66 CATCCACGTATAATAAATATTAATAATA-TTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
2248480 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
130 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
*
2248519 ATCAAAATCATATTTAATACGTACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
*
2248584 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
66 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
* *
2248649 AATATATGAAATCAAAGAAAAGATAAATTTAATCCGAG
131 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
* *
2248687 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTATGTAGAATTCTTTTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
2248752 CATCCACGTATAATAAATATTAATAATATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
66 CATCCACGTATAATAAATATTAATAATA-TTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
*
2248817 TAATATATGAAATCGAAGAAAAGACAAGTTTAATCCGAG
130 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
*
2248856 ATCAAAATCATA-TT--TACATACATTAATGTCCTACTAGTACTTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
*
2248918 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTCTATTAAGACCTGATGT
66 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
* *
2248983 AATATATGAAATCAAAGAAAAAAATAAGTTTAATCCGAG
131 AATATATGAAATCGAAG-AAAAGATAAGTTTAATCCGAG
2249022 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
* * * *
2249087 CATCTACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAATTTATTAATACCTGATGT
66 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
*
2249152 AATATATGAAATCAAAGAAAAGATAAGTTTAATCCGAG
131 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
*
2249190 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTTTTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
*
2249255 CATCCACATATAATAAATATTAATAATATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
66 CATCCACGTATAATAAATATTAATAATA-TTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
2249320 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
130 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
2249359 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
* *
2249424 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTCTATTAAGACCTAATGT
66 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
* *
2249489 AATATACGAAATCGAAG-AAAGA-AAG-TTAATCTGAG
131 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
2249524 ------ATCA-ATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
*
2249582 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
66 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
* *
2249647 AATATATGAAATCAAAGAAAATATAAGTTTAATCCGAG
131 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
* * *
2249685 ATCAAAATCATACTTAATACATACATTAATGTCCTACTAGTACGTAAAATTCTTTTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
2249750 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
66 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
2249815 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
131 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
2249853 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
* *
2249918 CATCTACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTCTATTAAGACCTGATGT
66 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
* * *
2249983 AATATATGAAATCAAAGAAATGATAAATTTAATCCGAG
131 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
* *
2250021 ATCAAAATCATACTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTTTTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
2250086 CATCCACGTATAATAAATATTAATAATATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
66 CATCCACGTATAATAAATATTAATAATA-TTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
2250151 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
130 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
*
2250190 ATCAAAATCATATTTAATACATACATTGATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
*
2250255 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTCTATTAAGACCTGATGT
66 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
2250320 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
131 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
* *
2250358 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAATAAGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
* * * * *
2250423 CAACCACGTATAATAAATATTAATAATATTTTTTTCTTGAAAGATAAGTCTATTAAGGCCCGATG
66 CATCCACGTATAATAAATATTAATAATA-TTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
* *
2250488 TAATATATGAAATCGAAGAAAAGATAGGTTTAATCCGAT
130 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
2250527 ATCAA
1 ATCAA
2250532 TTGAAAGTAG
Statistics
Matches: 2070, Mismatches: 93, Indels: 38
0.94 0.04 0.02
Matches are distributed among these distances:
158 131 0.06
159 8 0.00
160 3 0.00
161 9 0.00
165 61 0.03
166 107 0.05
167 11 0.01
168 888 0.43
169 847 0.41
170 5 0.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (168 bp):
ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAG
Found at i:2248797 original size:337 final size:337
Alignment explanation
Indices: 2248181--2250531 Score: 4050
Period size: 337 Copynumber: 7.0 Consensus size: 337
2248171 AATAAAATAC
* * ** *
2248181 ATCAAAATCATATTTAATACATACATTAATGTCATGCTAGTAAATATAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
2248246 CATCCACATATAATAAATATTAATAATATTTTTCTCTTGAAAAATAAGTTTATTAAGACCTGATG
66 CATCCACATATAATAAATATTAATAATATTTTT-TCTTGAAAAATAAGTTTATTAAGACCTGATG
* ** *
2248311 TAATACATGAAATTTAAGAAAATATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACAT
130 TAATATATGAAATCAAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACAT
* *
2248376 TAATGTCCTACTAGTAAGTAGAATTCTATTCATAATAGACATTCACGTATAATAAATATTAATAA
195 TAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAA
* *
2248441 TATTTTTTTATTGAAAAATAAGTCTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATA
260 TATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATA
2248506 AGTTTAATCCGAG
325 AGTTTAATCCGAG
*
2248519 ATCAAAATCATATTTAATACGTACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
2248584 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
66 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
*
2248649 AATATATGAAATCAAAGAAAAGATAAATTTAATCCGAGATCAAAATCATATTTAATACATACATT
131 AATATATGAAATCAAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACATT
* *
2248714 AATGTCCTACTAGTATGTAGAATTCTTTTCATAATAGACATCCACGTATAATAAATATTAATAAT
196 AATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAAT
*
2248779 ATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGACAA
261 ATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATAA
2248844 GTTTAATCCGAG
326 GTTTAATCCGAG
*
2248856 ATCAAAATCATA-TT--TACATACATTAATGTCCTACTAGTACTTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
* *
2248918 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTCTATTAAGACCTGATGT
66 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
*
2248983 AATATATGAAATCAAAGAAAAAAATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACAT
131 AATATATGAAATCAAAG-AAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACAT
* *
2249048 TAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCTACATATAATAAATATTAATAA
195 TAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAA
* * *
2249113 TA-TTTTTTCTTGAAAAATAAATTTATTAATACCTGATGTAATATATGAAATCAAAGAAAAGATA
260 TATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATA
2249177 AGTTTAATCCGAG
325 AGTTTAATCCGAG
*
2249190 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTTTTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
2249255 CATCCACATATAATAAATATTAATAATATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
66 CATCCACATATAATAAATATTAATAATA-TTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATG
*
2249320 TAATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACAT
130 TAATATATGAAATCAAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACAT
2249385 TAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAA
195 TAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAA
* * *
2249450 TA-TTTTTTCTTGAAAAATAAGTCTATTAAGACCTAATGTAATATACGAAATCGAAG-AAAGA-A
260 TATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATA
*
2249512 AG-TTAATCTGAG
325 AGTTTAATCCGAG
2249524 ------ATCA-ATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
2249582 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
66 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
* *
2249647 AATATATGAAATCAAAGAAAATATAAGTTTAATCCGAGATCAAAATCATACTTAATACATACATT
131 AATATATGAAATCAAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACATT
* *
2249712 AATGTCCTACTAGTACGTAAAATTCTTTTCATAATAGACATCCACGTATAATAAATATTAATAAT
196 AATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAAT
2249777 A-TTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATAA
261 ATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATAA
2249841 GTTTAATCCGAG
326 GTTTAATCCGAG
2249853 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
* * *
2249918 CATCTACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTCTATTAAGACCTGATGT
66 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
* * *
2249983 AATATATGAAATCAAAGAAATGATAAATTTAATCCGAGATCAAAATCATACTTAATACATACATT
131 AATATATGAAATCAAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACATT
*
2250048 AATGTCCTACTAGTACGTAGAATTCTTTTCATAATAGACATCCACGTATAATAAATATTAATAAT
196 AATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAAT
2250113 ATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATAA
261 ATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATAA
2250178 GTTTAATCCGAG
326 GTTTAATCCGAG
*
2250190 ATCAAAATCATATTTAATACATACATTGATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
1 ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
* *
2250255 CATCCACGTATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTCTATTAAGACCTGATGT
66 CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
*
2250320 AATATATGAAATCGAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACATT
131 AATATATGAAATCAAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACATT
* * *
2250385 AATGTCCTACTAATAAGTAGAATTCTATTCATAATAGACAACCACGTATAATAAATATTAATAAT
196 AATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAAT
* * * * *
2250450 ATTTTTTTCTTGAAAGATAAGTCTATTAAGGCCCGATGTAATATATGAAATCGAAGAAAAGATAG
261 ATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATAA
*
2250515 GTTTAATCCGAT
326 GTTTAATCCGAG
2250527 ATCAA
1 ATCAA
2250532 TTGAAAGTAG
Statistics
Matches: 1918, Mismatches: 79, Indels: 33
0.94 0.04 0.02
Matches are distributed among these distances:
326 214 0.11
327 86 0.04
328 7 0.00
329 9 0.00
334 218 0.11
335 117 0.06
336 250 0.13
337 873 0.46
338 144 0.08
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (337 bp):
ATCAAAATCATATTTAATACATACATTAATGTCCTACTAGTACGTAGAATTCTATTCATAATAGA
CATCCACATATAATAAATATTAATAATATTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGT
AATATATGAAATCAAAGAAAAGATAAGTTTAATCCGAGATCAAAATCATATTTAATACATACATT
AATGTCCTACTAGTACGTAGAATTCTATTCATAATAGACATCCACGTATAATAAATATTAATAAT
ATTTTTTTCTTGAAAAATAAGTTTATTAAGACCTGATGTAATATATGAAATCGAAGAAAAGATAA
GTTTAATCCGAG
Found at i:2251379 original size:2 final size:2
Alignment explanation
Indices: 2251372--2251399 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2251362 ATCGACGATA
2251372 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
2251400 TAACTTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2252490 original size:22 final size:22
Alignment explanation
Indices: 2252465--2252506 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2252455 TTAACACAAT
* *
2252465 TAATTGCACTGAATTCGGTGCA
1 TAATTCCACCGAATTCGGTGCA
2252487 TAATTCCACCGAATTCGGTG
1 TAATTCCACCGAATTCGGTG
2252507 GCCTCCCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (22 bp):
TAATTCCACCGAATTCGGTGCA
Found at i:2255481 original size:23 final size:24
Alignment explanation
Indices: 2255455--2255523 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 24
2255445 CACCACAACT
*
2255455 CGTATAAATGCACCGAAGTGCCA-
1 CGTAGAAATGCACCGAAGTGCCAG
* *
2255478 CGTAGAATTGCACCGTAGTG-CAG
1 CGTAGAAATGCACCGAAGTGCCAG
2255501 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2255524 TATAAGGTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 2 0.05
23 35 0.90
24 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.17
Consensus pattern (24 bp):
CGTAGAAATGCACCGAAGTGCCAG
Found at i:2256019 original size:2 final size:2
Alignment explanation
Indices: 2256014--2256064 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
2256004 TACCTTATTC
2256014 AT AT AT AT AT AT AT AT AT AT AT -T 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
2256055 AT AT AT AT AT
1 AT AT AT AT AT
2256065 GTAAATACTG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2260651 original size:23 final size:23
Alignment explanation
Indices: 2260617--2260685 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
2260607 CACCACAGCT
*
2260617 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
2260640 CGTAGAATTGCACCGTAGTGTCA
1 CGTAGAAATGCACCGAAGTGCCA
2260663 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2260686 TATAAGGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:2263884 original size:15 final size:15
Alignment explanation
Indices: 2263864--2263895 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2263854 ATAATCTTTC
*
2263864 TTTCCCATTCTTGAT
1 TTTCCCATTCTGGAT
2263879 TTTCCCATTCTGGAT
1 TTTCCCATTCTGGAT
2263894 TT
1 TT
2263896 AGATCTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.53
Consensus pattern (15 bp):
TTTCCCATTCTGGAT
Found at i:2274142 original size:7 final size:7
Alignment explanation
Indices: 2274132--2274158 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2274122 TATTACTTAT
2274132 ACATATC
1 ACATATC
2274139 ACATATC
1 ACATATC
2274146 ACATATC
1 ACATATC
2274153 ACATAT
1 ACATAT
2274159 ACCTTTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (7 bp):
ACATATC
Found at i:2274345 original size:18 final size:18
Alignment explanation
Indices: 2274314--2274436 Score: 149
Period size: 18 Copynumber: 6.9 Consensus size: 18
2274304 GCGCGTAATT
*
2274314 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
** *
2274332 TGTATCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
* * *
2274350 TTTCCCGAAGGAACATTA
1 TGTCCCGAAGGACCACTA
*
2274368 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
2274386 TGTCCCAAAGGACCATTA
1 TGTCCCGAAGGACCACTA
2274404 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2274422 TG-CCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
2274437 GTAAACCCTC
Statistics
Matches: 88, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
17 13 0.15
18 75 0.85
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2278620 original size:18 final size:18
Alignment explanation
Indices: 2278597--2278681 Score: 125
Period size: 18 Copynumber: 4.7 Consensus size: 18
2278587 GCGTAGAATT
*
2278597 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
2278615 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
2278633 TGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
* *
2278651 TGTCCCGAATGACCATTA
1 TGTCCCGAAGGACCACTA
2278669 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
2278682 AATGTAGACC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2279426 original size:19 final size:19
Alignment explanation
Indices: 2279348--2279429 Score: 85
Period size: 19 Copynumber: 4.1 Consensus size: 19
2279338 CATTAGACAA
2279348 GGGGGAAT-TAGTACCCCCT
1 GGGGGAATCT-GTACCCCCT
* *
2279367 GGGGGGAATCTGTTCCCCTTGGT
1 -GGGGGAATCTGTACCCC---CT
*
2279390 GGGGGAATCGGTACCCCCT
1 GGGGGAATCTGTACCCCCT
2279409 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
2279428 GG
1 GG
2279430 ACATTCTGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 21 0.40
20 14 0.27
21 1 0.02
22 15 0.29
23 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.22
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCCT
Found at i:2279427 original size:42 final size:42
Alignment explanation
Indices: 2279348--2279427 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
2279338 CATTAGACAA
* *
2279348 GGGGGAATTAGTACCCCCTGGGGGGAATCTGTTCCCCTTGGT
1 GGGGGAATCAGTACCCCCTGGGGGGAATCTGTCCCCCTTGGT
*
2279390 GGGGGAATCGGTACCCCCT-GGGGGAATCTGTACCCCCT
1 GGGGGAATCAGTACCCCCTGGGGGGAATCTGT-CCCCCT
2279428 GGACATTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 12 0.35
42 22 0.65
ACGTcount: A:0.15, C:0.28, G:0.35, T:0.23
Consensus pattern (42 bp):
GGGGGAATCAGTACCCCCTGGGGGGAATCTGTCCCCCTTGGT
Found at i:2281645 original size:21 final size:21
Alignment explanation
Indices: 2281620--2281661 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2281610 CCGTTAGACA
*
2281620 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCGATACCCCCTGG
*
2281641 GGGGGAATCTATACCCCCTGG
1 GGGGGAATCGATACCCCCTGG
2281662 ACATTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.29, G:0.38, T:0.17
Consensus pattern (21 bp):
GGGGGAATCGATACCCCCTGG
Found at i:2289721 original size:32 final size:32
Alignment explanation
Indices: 2289650--2289728 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
2289640 GTGAAACATG
* * *
2289650 TTATATCATT-ATTTTAATTATATAACATATA
1 TTATATCATTAATTTAAATGACATAACATATA
* * * *
2289681 TCACATCATTAATTTAAATGACATGATATATA
1 TTATATCATTAATTTAAATGACATAACATATA
2289713 TTATATCATTAATTTA
1 TTATATCATTAATTTA
2289729 GTATATATAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 8 0.21
32 30 0.79
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.47
Consensus pattern (32 bp):
TTATATCATTAATTTAAATGACATAACATATA
Found at i:2290393 original size:2 final size:2
Alignment explanation
Indices: 2290386--2290413 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2290376 AGTGAAGAAA
2290386 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
2290414 TTCTGGCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2293711 original size:93 final size:93
Alignment explanation
Indices: 2293534--2293718 Score: 313
Period size: 92 Copynumber: 2.0 Consensus size: 93
2293524 GGAACATTCC
*
2293534 ACTTGCCATCTTTTGCTCCCCAAATTCGTTTTTTTTGTCTATTTTTAATTAATAAATTAATTTTG
1 ACTTGCCATCTTTTGCTCCCCAAATTCGTTTTTTTTGTCTATTTTTAATTAATAAATTAATTTTA
* *
2293599 ATCATTTAATTTCATAAAAAAAATAGAA
66 ACCATTTAATTACATAAAAAAAATAGAA
*
2293627 ACTTGCCTTCTTTTGCTCCCCAAATTCG-TTTTTTTGTCTATTTTTAATTAATAAATTAATTTTA
1 ACTTGCCATCTTTTGCTCCCCAAATTCGTTTTTTTTGTCTATTTTTAATTAATAAATTAATTTTA
2293691 ACCATTTAATTACAT--AAAAAATAGAA
66 ACCATTTAATTACATAAAAAAAATAGAA
2293717 AC
1 AC
2293719 ATCTAGACTT
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
90 13 0.15
92 48 0.55
93 27 0.31
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (93 bp):
ACTTGCCATCTTTTGCTCCCCAAATTCGTTTTTTTTGTCTATTTTTAATTAATAAATTAATTTTA
ACCATTTAATTACATAAAAAAAATAGAA
Found at i:2293884 original size:21 final size:21
Alignment explanation
Indices: 2293833--2293884 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
2293823 ATGATACAAT
* *
2293833 TTATTAAA-ATATAATTCAAT
1 TTATTAAATTTATAATTCAAA
*
2293853 TTATTATATTTATAATATCAAA
1 TTATTAAATTTATAAT-TCAAA
2293875 TT-TTAAATTT
1 TTATTAAATTT
2293885 TATTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 7 0.27
21 13 0.50
22 6 0.23
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTAAATTTATAATTCAAA
Found at i:2296773 original size:21 final size:21
Alignment explanation
Indices: 2296747--2296985 Score: 190
Period size: 21 Copynumber: 11.5 Consensus size: 21
2296737 GTTTTCAGAT
* *
2296747 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
2296768 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
2296789 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
2296810 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
2296830 TCGCAATGCGATAGTCGG-CTA
1 TCGCAATGCGA-ACTTGGACTA
* *
2296851 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
2296871 TCGCAATGCGATAGTCGG-CTA
1 TCGCAATGCGA-ACTTGGACTA
* *
2296892 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
2296912 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
**
2296933 TTACAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
2296954 TCGTAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
2296975 TCGCATTGCGA
1 TCGCAATGCGA
2296986 TTTACATATT
Statistics
Matches: 174, Mismatches: 30, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
19 2 0.01
20 44 0.25
21 126 0.72
22 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:2296834 original size:20 final size:20
Alignment explanation
Indices: 2296809--2296922 Score: 124
Period size: 20 Copynumber: 5.6 Consensus size: 20
2296799 AACTTGGACT
2296809 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
***
2296829 ATCGCAATGCG-ATAGTCGGCT
1 ATCGCAATGCGAATA-T-GTAA
2296850 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
***
2296870 ATCGCAATGCG-ATAGTCGGCT
1 ATCGCAATGCGAATA-T-GTAA
2296891 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
2296911 ATCGCAATGCGA
1 ATCGCAATGCGA
2296923 TAGTCGACTA
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.08
20 38 0.50
21 26 0.34
22 6 0.08
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:2296852 original size:41 final size:41
Alignment explanation
Indices: 2296765--2296944 Score: 256
Period size: 41 Copynumber: 4.4 Consensus size: 41
2296755 CGAACTTCGA
* * * *
2296765 CTATCGCAATGCGAACT-TGGACTATCGCAATGCGA-ACTTGG
1 CTATCGCAATGCGAA-TATGTA-AATCGCAATGCGATAGTCGG
2296806 ACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGG
1 -CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGG
2296848 CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGG
1 CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGG
*
2296889 CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGA
1 CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGG
**
2296930 CTATTACAATGCGAA
1 CTATCGCAATGCGAA
2296945 CTTGGACTAT
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
41 107 0.83
42 22 0.17
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (41 bp):
CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGG
Found at i:2296895 original size:62 final size:62
Alignment explanation
Indices: 2296765--2296903 Score: 151
Period size: 62 Copynumber: 2.2 Consensus size: 62
2296755 CGAACTTCGA
* * *
2296765 CTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGT
1 CTATCGCAATGCGAACTCGGACTATCGCAATGCGAACTTGGACAATCGCAATGCGAATATGG
** * *
2296827 AAATCGCAATGCGATAGTCGG-CTATCGCAATGCGAA-TATGTA-AATCGCAATGCG-ATAGTCG
1 CTATCGCAATGCGA-ACTCGGACTATCGCAATGCGAACT-TGGACAATCGCAATGCGAATA-T-G
2296888 G
62 G
2296889 CTATCGCAATGCGAA
1 CTATCGCAATGCGAA
2296904 TATGTAAATC
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
60 3 0.05
61 14 0.22
62 43 0.67
63 4 0.06
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (62 bp):
CTATCGCAATGCGAACTCGGACTATCGCAATGCGAACTTGGACAATCGCAATGCGAATATGG
Found at i:2296898 original size:82 final size:83
Alignment explanation
Indices: 2296761--2296985 Score: 305
Period size: 82 Copynumber: 2.7 Consensus size: 83
2296751 AACGCGAACT
* *
2296761 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATG
1 TCGACTATCGCAATGCGAACTTGGACAATCGCAATGCGAACTCGGACTATCGCAATGCGAATATG
2296826 TAAATCGCAATGCGATAG
66 TAAATCGCAATGCGATAG
* * *
2296844 TCGGCTATCGCAATGCGAA-TATGTA-AATCGCAATGCGATAGTCGG-CTATCGCAATGCGAATA
1 TCGACTATCGCAATGCGAACT-TGGACAATCGCAATGCGA-ACTCGGACTATCGCAATGCGAATA
2296906 TGTAAATCGCAATGCGATAG
64 TGTAAATCGCAATGCGATAG
** * * *
2296926 TCGACTATTACAATGCGAACTTGGACTATCGTAATGCGAACTTC-GACTATCGCATTGCGA
1 TCGACTATCGCAATGCGAACTTGGACAATCGCAATGCGAAC-TCGGACTATCGCAATGCGA
2296986 TTTACATATT
Statistics
Matches: 123, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
82 71 0.58
83 52 0.42
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (83 bp):
TCGACTATCGCAATGCGAACTTGGACAATCGCAATGCGAACTCGGACTATCGCAATGCGAATATG
TAAATCGCAATGCGATAG
Found at i:2297114 original size:6 final size:6
Alignment explanation
Indices: 2297103--2297140 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
2297093 GACACGTATT
*
2297103 ACCACG ACCACG ACTACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
2297141 CAAGACGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.32, C:0.50, G:0.16, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:2297736 original size:21 final size:21
Alignment explanation
Indices: 2297706--2297778 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
2297696 AATATGTAAA
*
2297706 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
2297727 TCGCATTGCGAT-TTAC-ATA-T
1 TCGCATTGCGATAGT-CGA-AGT
2297747 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
2297768 TCGCGTTGCGA
1 TCGCATTGCGA
2297779 ATCTGGAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:2298533 original size:2 final size:2
Alignment explanation
Indices: 2298526--2298596 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
2298516 CTGGATCCTC
2298526 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
2298568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2298597 GGGTAGATAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2301989 original size:22 final size:23
Alignment explanation
Indices: 2301944--2301989 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
2301934 ATGGATTTTT
*
2301944 TAAACAGAATTAAAGATTTGAAA
1 TAAACAGAATTAAAGATTTAAAA
* *
2301967 TAAATAGAA-TAATGATTTAAAA
1 TAAACAGAATTAAAGATTTAAAA
2301989 T
1 T
2301990 TAAAGAGACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (23 bp):
TAAACAGAATTAAAGATTTAAAA
Found at i:2301993 original size:23 final size:24
Alignment explanation
Indices: 2301943--2301993 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
2301933 AATGGATTTT
*
2301943 TTAAACAGAATTAAAGATTTGAAA
1 TTAAACAGAATTAAAGATTTAAAA
* *
2301967 -TAAATAGAA-TAATGATTTAAAA
1 TTAAACAGAATTAAAGATTTAAAA
2301989 TTAAA
1 TTAAA
2301994 GAGACAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (24 bp):
TTAAACAGAATTAAAGATTTAAAA
Found at i:2304958 original size:16 final size:17
Alignment explanation
Indices: 2304937--2304994 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
2304927 AAGATATATT
2304937 AAAATAAAATAA-AATA
1 AAAATAAAATAATAATA
*
2304953 AAAATAATATAATAATA
1 AAAATAAAATAATAATA
* * *
2304970 AATAT-TAATAGTAATA
1 AAAATAAAATAATAATA
*
2304986 AATATAAAA
1 AAAATAAAA
2304995 AGAGATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 24 0.71
17 10 0.29
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAATAAAATAATAATA
Found at i:2305060 original size:21 final size:22
Alignment explanation
Indices: 2305027--2305067 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2305017 GGTTAAAATA
2305027 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
2305049 AAAAA-AATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
2305068 CAAATTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:2305556 original size:12 final size:12
Alignment explanation
Indices: 2305541--2305570 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2305531 AAAAGTATGC
2305541 GAAAAATAGAGA
1 GAAAAATAGAGA
*
2305553 GAAAACTAGAGA
1 GAAAAATAGAGA
2305565 GAAAAA
1 GAAAAA
2305571 GAAGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:2305792 original size:64 final size:64
Alignment explanation
Indices: 2305667--2305861 Score: 191
Period size: 64 Copynumber: 2.9 Consensus size: 64
2305657 TAAAACATCT
* *
2305667 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAA-A-AATAATATAATAT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATA-C-AAAGATAA-AATAAAATAT
*
2305729 -TA
62 AAA
2305731 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAA-ATAAAATAT--A
2305796 AA
63 AA
2305798 TAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 TAA-AT-C-----C-TAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAATA
2305862 TAATGTTTAA
Statistics
Matches: 112, Mismatches: 3, Indels: 21
0.82 0.02 0.15
Matches are distributed among these distances:
62 3 0.03
63 8 0.07
64 45 0.40
67 4 0.04
68 2 0.02
69 1 0.01
74 1 0.01
75 16 0.14
76 32 0.29
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (64 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATAAAATATAAA
Found at i:2305850 original size:76 final size:75
Alignment explanation
Indices: 2305738--2305885 Score: 235
Period size: 76 Copynumber: 2.0 Consensus size: 75
2305728 TTATAAATCC
2305738 TAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAAT-ATAAAAATAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAA-ATAAAATGATAAAAATAAT
2305802 ATCCTAAAACT
65 ATCCTAAAACT
* * * *
2305813 TAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAAAATATT
1 TAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAATAAAATGATAAAAATAAT
2305878 ATCCTAAA
65 ATCCTAAA
2305886 TTTGAGTTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
75 19 0.28
76 48 0.72
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (75 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATAAAATGATAAAAATAATA
TCCTAAAACT
Found at i:2307741 original size:5 final size:5
Alignment explanation
Indices: 2307731--2307773 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
2307721 ATTTCGCTAA
2307731 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA- AATAA- AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AAAA
2307774 ACAAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:2307780 original size:7 final size:7
Alignment explanation
Indices: 2307728--2307774 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
2307718 TAAATTTCGC
2307728 TAAAAAA
1 TAAAAAA
2307735 T--AAAA
1 TAAAAAA
2307740 TAAAATAA
1 TAAAA-AA
2307748 -AATAAAA
1 TAA-AAAA
2307755 TAAAAAA
1 TAAAAAA
2307762 TAAAAAA
1 TAAAAAA
2307769 TAAAAA
1 TAAAAA
2307775 CAAAAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.14
7 24 0.69
8 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:2307780 original size:14 final size:13
Alignment explanation
Indices: 2307729--2307785 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 13
2307719 AAATTTCGCT
*
2307729 AAAAAATAAAATA
1 AAAAAAAAAAATA
2307742 AAATAAAATAAAATA
1 AAA-AAAA-AAAATA
2307757 AAAAATAAAAAATA
1 AAAAA-AAAAAATA
*
2307771 AAAACAAAAATATA
1 AAAA-AAAAAAATA
2307785 A
1 A
2307786 CGAAATGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.08
14 23 0.61
15 12 0.32
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAAAAAATA
Found at i:2312443 original size:22 final size:23
Alignment explanation
Indices: 2312413--2312461 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
2312403 AATTAATTTC
*
2312413 TATTTGGGTGCTA-TTTGTGT-AA
1 TATTCGGGTGCTAGTTTG-GTAAA
*
2312435 TATTCGGGTGTTAGTTTGGTAAA
1 TATTCGGGTGCTAGTTTGGTAAA
2312458 TATT
1 TATT
2312462 TACAGAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (23 bp):
TATTCGGGTGCTAGTTTGGTAAA
Found at i:2314718 original size:23 final size:22
Alignment explanation
Indices: 2314692--2314739 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
2314682 TATTCTGGTC
2314692 ATATCTGAACACTTTCCTGAGGT
1 ATAT-TGAACACTTTCCTGAGGT
*
2314715 ATA-TGAATACTTTCCTGAGGT
1 ATATTGAACACTTTCCTGAGGT
2314736 ATAT
1 ATAT
2314740 GAATCATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 20 0.87
23 3 0.13
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (22 bp):
ATATTGAACACTTTCCTGAGGT
Found at i:2314743 original size:21 final size:21
Alignment explanation
Indices: 2314697--2314743 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
2314687 TGGTCATATC
*
2314697 TGAACACTTTCCTGAGGTATA
1 TGAATACTTTCCTGAGGTATA
2314718 TGAATACTTTCCTGAGGTATA
1 TGAATACTTTCCTGAGGTATA
2314739 TGAAT
1 TGAAT
2314744 CATAAAGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (21 bp):
TGAATACTTTCCTGAGGTATA
Found at i:2317061 original size:22 final size:22
Alignment explanation
Indices: 2317036--2317083 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
2317026 AAGTTGTGGT
*
2317036 TAAAATAAAAAAAATAATTAAA
1 TAAAAGAAAAAAAATAATTAAA
*
2317058 TAAAAGAAAAATAATAATTAAA
1 TAAAAGAAAAAAAATAATTAAA
2317080 TAAA
1 TAAA
2317084 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (22 bp):
TAAAAGAAAAAAAATAATTAAA
Found at i:2317767 original size:19 final size:19
Alignment explanation
Indices: 2317711--2317773 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
2317701 CTATTTAAAC
**
2317711 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
2317731 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
2317751 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
2317770 TAAA
1 TAAA
2317774 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:2317818 original size:75 final size:76
Alignment explanation
Indices: 2317731--2317895 Score: 235
Period size: 76 Copynumber: 2.2 Consensus size: 76
2317721 AAAAAATAAT
* *
2317731 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAAACTATTTAAACTAAAATACAAAGATAAA-AT
2317795 AAAAT-ATAAAA
65 AAAATGATAAAA
* *
2317806 ATAATATCCTAAAACTTAATTAAAATACTAAAAAACTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAAACTATTTAAACTAAAATACAAAGATAAAATA
* * *
2317871 TAATGTTTAAA
66 AAATGATAAAA
*
2317882 ATATTATCCTAAAT
1 ATAATATCCTAAAT
2317896 TTGAATTTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 32 0.41
76 47 0.59
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAAACTATTTAAACTAAAATACAAAGATAAAATA
AAATGATAAAA
Found at i:2320134 original size:12 final size:12
Alignment explanation
Indices: 2320076--2320153 Score: 77
Period size: 12 Copynumber: 6.5 Consensus size: 12
2320066 TAGCAACCCT
*
2320076 CTCAGCAGCACA
1 CTCAGCAGCACC
* * *
2320088 ATCAACAACACC
1 CTCAGCAGCACC
*
2320100 CTCAGCAGCAAC
1 CTCAGCAGCACC
*
2320112 CTCACCAGCACC
1 CTCAGCAGCACC
2320124 CTCA-CTAGCACC
1 CTCAGC-AGCACC
*
2320136 CTTAGCAGCACC
1 CTCAGCAGCACC
2320148 CTCAGC
1 CTCAGC
2320154 GGTAGTTATT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
11 1 0.02
12 50 0.96
13 1 0.02
ACGTcount: A:0.31, C:0.46, G:0.12, T:0.12
Consensus pattern (12 bp):
CTCAGCAGCACC
Found at i:2322173 original size:9 final size:9
Alignment explanation
Indices: 2322159--2322191 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
2322149 TATTAAAAAT
2322159 AAAAAATAA
1 AAAAAATAA
2322168 AAAAAAT-A
1 AAAAAATAA
2322176 AAAAAATAA
1 AAAAAATAA
2322185 TAAAAAA
1 -AAAAAA
2322192 ATATCAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 8 0.36
10 6 0.27
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:2322179 original size:17 final size:17
Alignment explanation
Indices: 2322153--2322191 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
2322143 CAGACTTATT
2322153 AAAAATAAAAAATAA-A
1 AAAAATAAAAAATAATA
2322169 AAAAATAAAAAAATAATA
1 AAAAAT-AAAAAATAATA
2322187 AAAAA
1 AAAAA
2322192 ATATCAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.29
17 9 0.43
18 6 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (17 bp):
AAAAATAAAAAATAATA
Found at i:2322193 original size:11 final size:11
Alignment explanation
Indices: 2322166--2322194 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2322156 AATAAAAAAT
2322166 AAAAAA-AATA
1 AAAAAATAATA
2322176 AAAAAATAATA
1 AAAAAATAATA
2322187 AAAAAATA
1 AAAAAATA
2322195 TCAATGATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:2322194 original size:8 final size:8
Alignment explanation
Indices: 2322153--2322190 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
2322143 CAGACTTATT
2322153 AAAAAT-A
1 AAAAATAA
2322160 AAAAATAAA
1 AAAAAT-AA
2322169 AAAAATAA
1 AAAAATAA
2322177 AAAAATAA
1 AAAAATAA
2322185 TAAAAA
1 -AAAAA
2322191 AATATCAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.21
8 10 0.36
9 12 0.43
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:2322836 original size:23 final size:23
Alignment explanation
Indices: 2322780--2322836 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
2322770 TATCATTTTT
* *
2322780 GAACATATAAACAAACATATTCGT
1 GAACAT-TAAACAAAAATATTCGC
2322804 GAACGA-TAAACAAAAATATTCGC
1 GAAC-ATTAAACAAAAATATTCGC
*
2322827 GGACATTAAA
1 GAACATTAAA
2322837 TGGACATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 1 0.04
23 22 0.79
24 4 0.14
25 1 0.04
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (23 bp):
GAACATTAAACAAAAATATTCGC
Found at i:2323960 original size:455 final size:455
Alignment explanation
Indices: 2323109--2324906 Score: 3395
Period size: 455 Copynumber: 3.9 Consensus size: 455
2323099 ATTTATATAC
*
2323109 AATATTATTAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
1 AATATTATAAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
2323174 CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAACTTTTTTTTCTACTTCAATTTTAGC
66 CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAACTTTTTTTTCTACTTCAATTTTAGC
2323239 TAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTAAAATTTATTTTTG
131 TAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTAAAATTTATTTTTG
*
2323304 ACAGAAAAACAGTTAATTTTATTTAGTAAAAAATATTCAAAATTACAATAAGAGCTTACAATTAG
196 ACAGAAAAACAGTTAATTTTATTTAGTAAAAAATATTCAAAATTACAATGAGAGCTTACAATTAG
*
2323369 AATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAACTTAAGATCGTATAA
261 AATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAAATTAAGATCGTATAA
2323434 GAACCATACAATGAAAAGGTGAAAACCCGATTCAAAAAACCTCGAACAACAGGTAGATACAAACA
326 GAACCATACAATGAAAAGGTGAAAACCCGATTCAAAAAACCTCGAACAACAGGTAGATACAAACA
*
2323499 TATTTAGCTGCTACAGTAAACGAACCACAACATGAGATTAAAAGGCGTTGTGTTTTACATGTAAA
391 TATTTAGCTGCTACAGTAAACGAACCACAACATGGGATTAAAAGGCGTTGTGTTTTACATGTAAA
2323564 AATATTATAAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
1 AATATTATAAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
2323629 CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAACTTTTTTTTTTCTACTTCAATTTTA
66 CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAAC--TTTTTTTTCTACTTCAATTTTA
2323694 GCTAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTAAAATTTATTTT
129 GCTAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTAAAATTTATTTT
*
2323759 TGACAGAAAAACAGTTAA-TTTATTTAGT-AAAAATATTCAAAATTGCAATGAGAGCTTACAATT
194 TGACAGAAAAACAGTTAATTTTATTTAGTAAAAAATATTCAAAATTACAATGAGAGCTTACAATT
2323822 AGAATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAAATTAAGATCGTAT
259 AGAATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAAATTAAGATCGTAT
2323887 AAGAACCATACAATGAAAAGGTGAAAACCCGATTCAAAAAACCTCGAACAACAGGTAGATACAAA
324 AAGAACCATACAATGAAAAGGTGAAAACCCGATTCAAAAAACCTCGAACAACAGGTAGATACAAA
2323952 CATATTTAGCTGCTACAGTAAACGAACCACAACATGGGATTAAAAGGCGTTGTGTTTTACATGTA
389 CATATTTAGCTGCTACAGTAAACGAACCACAACATGGGATTAAAAGGCGTTGTGTTTTACATGTA
2324017 AA
454 AA
*
2324019 AATATTATTAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
1 AATATTATAAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
2324084 CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAACTTTTTTTTTTCTACTTCAATTTTA
66 CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAAC--TTTTTTTTCTACTTCAATTTTA
2324149 GCTAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTAAAATTTATTTT
129 GCTAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTAAAATTTATTTT
*
2324214 TGACAGAAAAACAGTTAATTTTATTTAGTAAAAAATATTCAAAATTGCAATGAGAGCTTACAATT
194 TGACAGAAAAACAGTTAATTTTATTTAGTAAAAAATATTCAAAATTACAATGAGAGCTTACAATT
2324279 AGAATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAAATTAAGATCGTAT
259 AGAATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAAATTAAGATCGTAT
2324344 AAGAACCATACAATGAAAAGGTGAAAACCCGATTCAAAAAACCTCGAACAACAGGTAGATACAAA
324 AAGAACCATACAATGAAAAGGTGAAAACCCGATTCAAAAAACCTCGAACAACAGGTAGATACAAA
2324409 CATATTTAGCTGCTACAGTAAACGAACCACAACATGGGATTAAAAGGCGTTGTGTTTTACATGTA
389 CATATTTAGCTGCTACAGTAAACGAACCACAACATGGGATTAAAAGGCGTTGTGTTTTACATGTA
2324474 AA
454 AA
2324476 AATATTATAAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
1 AATATTATAAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
2324541 CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAACTTTTTTTTCTACTTCAATTTTAGC
66 CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAACTTTTTTTTCTACTTCAATTTTAGC
*
2324606 TAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTTAAATTTATTTTTG
131 TAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTAAAATTTATTTTTG
* *
2324671 ACAAAAAAACATTTAATTTTATTTAGT-AAAAATATTCAAAATTACAATGAGAGCTTACAATTAG
196 ACAGAAAAACAGTTAATTTTATTTAGTAAAAAATATTCAAAATTACAATGAGAGCTTACAATTAG
*
2324735 AATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAACTTAAGATCGTATAA
261 AATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAAATTAAGATCGTATAA
* *
2324800 GAACCATATAATGAAAAGGTGAAAACCCGATTCCAAAAACCTCGAACAACAGGTAGATACAAACA
326 GAACCATACAATGAAAAGGTGAAAACCCGATTCAAAAAACCTCGAACAACAGGTAGATACAAACA
* * *
2324865 TATTTGGTTGATACAGTAAACGAACCACAACATGGGATTAAA
391 TATTTAGCTGCTACAGTAAACGAACCACAACATGGGATTAAA
2324907 CTATTGAAAG
Statistics
Matches: 1322, Mismatches: 17, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
454 202 0.15
455 658 0.50
456 20 0.02
457 442 0.33
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (455 bp):
AATATTATAAATGAAGATAATCATCCATTTTAAAAGGCGTTGTGTTTTACATGTAAAAATAGGAG
CCATGCACCAAAAACTCCTAAAGTTGTGTTAGAGGATCAACTTTTTTTTCTACTTCAATTTTAGC
TAAAATTATGTCTGTGTGCATTTATTTTATATATTTTAATTATTATTTTTTAAAATTTATTTTTG
ACAGAAAAACAGTTAATTTTATTTAGTAAAAAATATTCAAAATTACAATGAGAGCTTACAATTAG
AATCGTAAACTAAATATATAATTAAGATTGTTAAGATAAAAAACTAACAAATTAAGATCGTATAA
GAACCATACAATGAAAAGGTGAAAACCCGATTCAAAAAACCTCGAACAACAGGTAGATACAAACA
TATTTAGCTGCTACAGTAAACGAACCACAACATGGGATTAAAAGGCGTTGTGTTTTACATGTAAA
Found at i:2333462 original size:222 final size:222
Alignment explanation
Indices: 2333073--2333507 Score: 720
Period size: 222 Copynumber: 2.0 Consensus size: 222
2333063 TTATCTATCC
* *
2333073 TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGTTAATA
1 TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATCATTAGTTAATA
**
2333138 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
66 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGT
2333203 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTTGAAAC
131 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AA-ACTATTAAATAAA-TTGAAAC
2333267 ATAAATTACATAACTTTCAAAAAAGTATATA
193 ATAAATTACATAACTTT-AAAAAAGTATATA
*
2333298 TTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTAT-ATTGGTTAAT
1 TTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATCATTAGTTAAT
2333362 A-TGTTAAATTT-AAATGCTAAATAATA-TTTATAAAATATCAAAACAATC-AATAAAATTTTGT
65 ATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGT
*
2333423 GTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACTATTAAATAAATTGAAACA
129 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACTATTAAATAAATTGAAACA
2333488 TAAATTACATAACTTTAAAA
194 TAAATTACATAACTTTAAAA
2333508 GCAGTTTTAA
Statistics
Matches: 201, Mismatches: 6, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
219 4 0.02
220 33 0.16
221 5 0.02
222 52 0.26
223 26 0.13
224 20 0.10
225 41 0.20
226 20 0.10
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (222 bp):
TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATCATTAGTTAATA
TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGT
AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACTATTAAATAAATTGAAACATA
AATTACATAACTTTAAAAAAGTATATA
Found at i:2335934 original size:33 final size:33
Alignment explanation
Indices: 2335892--2335957 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2335882 AAATAGATGG
*
2335892 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
2335925 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2335958 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2337747 original size:19 final size:19
Alignment explanation
Indices: 2337723--2337761 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2337713 AATGTCGAGT
2337723 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2337742 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
2337761 T
1 T
2337762 TTTTTATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2338241 original size:193 final size:196
Alignment explanation
Indices: 2337843--2338553 Score: 1205
Period size: 194 Copynumber: 3.7 Consensus size: 196
2337833 TTAAGGGTCA
*
2337843 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
2337908 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCC--ATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
2337973 GTAATATGTAATTTTTTAATCTAACCGGTACATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
129 GTAATCTGTAATTTTTCAATCTAACCGGTACATTATA-CGGTTTTATGAGAGAATAAGTCTAAAT
2338038 AA--
193 AATG
*
2338040 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAG-ATGAATT-AAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* *
2338103 AATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGT
66 CATAAAGTGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2338167 AATCTGTAATTTTTCAATCTAA-CGGTACAATTATACGGTTTTATGAGAGAATAAGTCTAAATAA
131 AATCTGTAATTTTTCAATCTAACCGGTAC-ATTATACGGTTTTATGAGAGAATAAGTCTAAATAA
2338231 TG
195 TG
2338233 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCA-C
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
2338297 CATAAAGTGTCGATCCATATAAAAAAGTGGCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 CATAAAGTGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2338362 AATCTGTAATTTTTCAATCTAACCCGGTACATTA-CCGGTTTTATGAGAGAAT-AGTCTAAATAA
131 AATCTGTAATTTTTCAATCTAA-CCGGTACATTATACGGTTTTATGAGAGAATAAGTCTAAATAA
2338425 TG
195 TG
2338427 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAG-ATGAATT-AAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
2338490 CCATAAAGTGTCGATCCATATAAAAAAG-GTCGATCCCAAAATCATCGAACCCAAAAG-ATAATG
65 CCATAAAGTGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
2338553 T
130 T
2338554 TAAAGTGTCG
Statistics
Matches: 493, Mismatches: 11, Indels: 25
0.93 0.02 0.05
Matches are distributed among these distances:
191 35 0.07
192 45 0.09
193 117 0.24
194 134 0.27
195 105 0.21
196 11 0.02
197 46 0.09
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (196 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATCTGTAATTTTTCAATCTAACCGGTACATTATACGGTTTTATGAGAGAATAAGTCTAAATAAT
G
Found at i:2338595 original size:64 final size:62
Alignment explanation
Indices: 2338493--2338618 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 62
2338483 GGTGCACCCA
2338493 TAAAGTGTCGATCCATATAAAAAAGGTCGATCCCAAAATCATCGAACCCAAAAG-ATAATGT
1 TAAAGTGTCGATCCATATAAAAAAGGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2338554 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
1 TAAAGTGTCGATCC--ATATAAAAAAG-GTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2338619 AAATGTAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
61 14 0.23
63 11 0.18
64 29 0.48
65 7 0.11
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (62 bp):
TAAAGTGTCGATCCATATAAAAAAGGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
Found at i:2339251 original size:201 final size:200
Alignment explanation
Indices: 2338554--2339508 Score: 1755
Period size: 199 Copynumber: 4.8 Consensus size: 200
2338544 AAGATAATGT
2338554 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
1 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2338619 AA-ATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT-AATA
66 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
*
2338681 ATGTGTCGACACTAATATATTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
131 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
2338746 ACCCA
196 ACCCA
2338751 TAAAGTGTCGATCCATATATAAAAAAGTGTCGAT--C-AAATCATCGAACCCAAAAGTATAATGT
1 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2338813 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
66 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2338878 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
131 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
* *
2338943 ATCAA
196 ACCCA
2338948 TAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
1 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2339012 AATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
66 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2339077 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATTAAAAACAAGGTG
131 ATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTAAAAACAAGGTG
2339142 CACCCA
195 CACCCA
2339148 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
1 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2339213 AATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
66 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2339278 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
131 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
2339343 ACCCA
196 ACCCA
2339348 TAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
1 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2339412 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
66 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
* *
2339477 ATGTGTCGATACTAATATATTTTGTGTCGATA
131 ATGTGTCGACACTAATATAGTTTGTGTCGATA
2339509 CAAATTTAAA
Statistics
Matches: 738, Mismatches: 12, Indels: 14
0.97 0.02 0.02
Matches are distributed among these distances:
194 29 0.04
195 12 0.02
196 57 0.08
197 125 0.17
198 1 0.00
199 259 0.35
200 114 0.15
201 141 0.19
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
ACCCA
Found at i:2339288 original size:400 final size:396
Alignment explanation
Indices: 2338554--2339508 Score: 1772
Period size: 400 Copynumber: 2.4 Consensus size: 396
2338544 AAGATAATGT
2338554 TAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
1 TAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2338619 AA-ATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT-AATA
65 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
2338681 ATGTGTCGACACTAATATATTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
130 ATGTGTCGACACTAATATATTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
2338746 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCAAATCATCGAACCCAAAAGTATAAT
195 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCAAATCATCGAACCCAAAAGTATAAT
*
2338811 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
260 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
2338876 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
325 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
*
2338941 GCATCAA
390 GCACCAA
2338948 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
1 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
* *
2339013 ATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAA
66 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAA
*
2339078 TGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
131 TGTGTCGACACTAATATATTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTAAAAACAAGGTGC
2339143 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
195 ACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGAT--C-AAATCATCGAACCCAAAAGTAT
*
2339208 AATGTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
257 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
2339273 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAA
322 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAA
*
2339338 GGTGCACCCA
387 GGTGCACCAA
2339348 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
1 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
2339413 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAA
66 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAA
*
2339478 TGTGTCGATACTAATATATTTTGTGTCGATA
131 TGTGTCGACACTAATATATTTTGTGTCGATA
2339509 CAAATTTAAA
Statistics
Matches: 543, Mismatches: 11, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
393 46 0.08
394 30 0.06
395 44 0.08
396 35 0.06
397 72 0.13
399 1 0.00
400 315 0.58
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (396 bp):
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAA
TGTGTCGACACTAATATATTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCA
CCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
CACCAA
Found at i:2340098 original size:38 final size:38
Alignment explanation
Indices: 2340047--2340123 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
2340037 CAAGATATTA
2340047 TCCCAACCTAGTTAGAGTCTTCTACAACAATGCTTCCT
1 TCCCAACCTAGTTAGAGTCTTCTACAACAATGCTTCCT
2340085 TCCCAACCTAGTTAGAGTCTTCTACAACAATGCTTCCT
1 TCCCAACCTAGTTAGAGTCTTCTACAACAATGCTTCCT
2340123 T
1 T
2340124 ACAGCACGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.32
Consensus pattern (38 bp):
TCCCAACCTAGTTAGAGTCTTCTACAACAATGCTTCCT
Found at i:2341013 original size:3 final size:3
Alignment explanation
Indices: 2340994--2341079 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
2340984 TGAAGCTGAC
* * * * ** *
2340994 GAT GA- GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
2341041 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2341080 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:2342977 original size:183 final size:184
Alignment explanation
Indices: 2342526--2343010 Score: 877
Period size: 183 Copynumber: 2.7 Consensus size: 184
2342516 CTTTCAACAT
**
2342526 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2342591 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC--ATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
2342654 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATTGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
2342708 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2342773 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
2342838 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTTATACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
2342891 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
2342956 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
2343011 CCATTTAAAA
Statistics
Matches: 293, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
182 115 0.39
183 150 0.51
184 28 0.10
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:2345586 original size:23 final size:23
Alignment explanation
Indices: 2345555--2345618 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2345545 ATAGGTAAAC
*
2345555 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2345578 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2345601 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2345619 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2345625 original size:23 final size:23
Alignment explanation
Indices: 2345555--2345627 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2345545 ATAGGTAAAC
* **
2345555 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2345578 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2345601 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2345624 ATAT
1 ATAT
2345628 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2346012 original size:23 final size:23
Alignment explanation
Indices: 2345986--2346043 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 23
2345976 AGGTAAACAT
2345986 ATGTAATAGGTAGCCCTTATATA
1 ATGTAATAGGTAGCCCTTATATA
* *
2346009 ATGTAATAGGTA-TCGTTATATA
1 ATGTAATAGGTAGCCCTTATATA
2346031 ATGTAATAGGTAG
1 ATGTAATAGGTAG
2346044 GGTTATATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (23 bp):
ATGTAATAGGTAGCCCTTATATA
Found at i:2346030 original size:22 final size:22
Alignment explanation
Indices: 2345986--2346051 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
2345976 AGGTAAACAT
*
2345986 ATGTAATAGGTAGCCCTTATATA
1 ATGTAATAGGTA-CCGTTATATA
*
2346009 ATGTAATAGGTATCGTTATATA
1 ATGTAATAGGTACCGTTATATA
**
2346031 ATGTAATAGGTAGGGTTATAT
1 ATGTAATAGGTACCGTTATAT
2346052 TGTAAAGTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 27 0.69
23 12 0.31
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (22 bp):
ATGTAATAGGTACCGTTATATA
Found at i:2346438 original size:23 final size:23
Alignment explanation
Indices: 2346407--2346470 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2346397 ATAGGTAAAC
*
2346407 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2346430 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2346453 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2346471 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2346477 original size:23 final size:23
Alignment explanation
Indices: 2346407--2346479 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2346397 ATAGGTAAAC
* **
2346407 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2346430 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2346453 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2346476 ATAT
1 ATAT
2346480 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:2346897 original size:23 final size:23
Alignment explanation
Indices: 2346834--2346898 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
2346824 ATAGGTAAAC
* *
2346834 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
2346857 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
2346880 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
2346899 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:2347122 original size:18 final size:18
Alignment explanation
Indices: 2347101--2347137 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2347091 GTAATTGGAG
2347101 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
2347119 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2347137 T
1 T
2347138 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2347145 original size:24 final size:24
Alignment explanation
Indices: 2347093--2347139 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2347083 TTTCATATGT
* *
2347093 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
2347117 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
2347140 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:2352918 original size:15 final size:15
Alignment explanation
Indices: 2352900--2352935 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2352890 TATATACGAC
2352900 ATGTATTTATAACAT
1 ATGTATTTATAACAT
2352915 ATGTATTTATAACAT
1 ATGTATTTATAACAT
*
2352930 AAGTAT
1 ATGTAT
2352936 CCCTTCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (15 bp):
ATGTATTTATAACAT
Found at i:2356051 original size:6 final size:6
Alignment explanation
Indices: 2356040--2356066 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2356030 GTCGTTTACT
2356040 CGTTTC CGTTTC CGTTTC CGTTTC CGT
1 CGTTTC CGTTTC CGTTTC CGTTTC CGT
2356067 AATGTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.19, T:0.48
Consensus pattern (6 bp):
CGTTTC
Found at i:2357315 original size:20 final size:18
Alignment explanation
Indices: 2357286--2357324 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
2357276 TACAGTTTAG
*
2357286 CATGTTTTTTTCTCTCTTTT
1 CATGTATTTTT-TCT-TTTT
2357306 CATGTATTTTTTCTTTTT
1 CATGTATTTTTTCTTTTT
2357324 C
1 C
2357325 CAGGACGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.08, C:0.18, G:0.05, T:0.69
Consensus pattern (18 bp):
CATGTATTTTTTCTTTTT
Found at i:2359101 original size:20 final size:20
Alignment explanation
Indices: 2359076--2359115 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2359066 GGGCTGTCGT
2359076 TTTGTTGACCCAACAGTAGA
1 TTTGTTGACCCAACAGTAGA
2359096 TTTGTTGACCCAACAGTAGA
1 TTTGTTGACCCAACAGTAGA
2359116 AGACGTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
TTTGTTGACCCAACAGTAGA
Found at i:2362837 original size:31 final size:31
Alignment explanation
Indices: 2362795--2362874 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
2362785 ACAAATACTC
2362795 ATGTGCATTATATGAATGCAAACTTGACATA
1 ATGTGCATTATATGAATGCAAACTTGACATA
*
2362826 ATGTACATTATATGAATGCAAACTTGACATA
1 ATGTGCATTATATGAATGCAAACTTGACATA
*
2362857 ATGTGCATTATCTGAATG
1 ATGTGCATTATATGAATG
2362875 TAATCTGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (31 bp):
ATGTGCATTATATGAATGCAAACTTGACATA
Found at i:2365508 original size:25 final size:23
Alignment explanation
Indices: 2365479--2365530 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
2365469 CCGAAAAACA
2365479 CATAAAAATGATGAAGAAAACGTGT
1 CATAAAAAT-AT-AAGAAAACGTGT
* *
2365504 CATAAAAGTATATGAAAACGTGT
1 CATAAAAATATAAGAAAACGTGT
2365527 CATA
1 CATA
2365531 CATTCAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.60
24 2 0.08
25 8 0.32
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (23 bp):
CATAAAAATATAAGAAAACGTGT
Found at i:2366030 original size:24 final size:25
Alignment explanation
Indices: 2365988--2366045 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 25
2365978 GGGTTTGGGG
* *
2365988 TTTAGAGATTGAATTTTTTTGAGAT
1 TTTAGAGTTTGAATATTTTTGAGAT
2366013 TTTAGAGTTTGAA-ATTTTTGAGAT
1 TTTAGAGTTTGAATATTTTTGAGAT
2366037 TTTAGAGTT
1 TTTAGAGTT
2366046 CGAGATTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 19 0.61
25 12 0.39
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (25 bp):
TTTAGAGTTTGAATATTTTTGAGAT
Found at i:2366245 original size:2 final size:2
Alignment explanation
Indices: 2366238--2366264 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2366228 TGAATCTATC
2366238 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2366265 ATTTGCAAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2370157 original size:118 final size:116
Alignment explanation
Indices: 2369949--2370445 Score: 384
Period size: 118 Copynumber: 4.2 Consensus size: 116
2369939 ATGGCACTAT
* * * ** *
2369949 CTAAAATGATAAGGAAATCATACTAAATGTATGAATTTCCATAT-GGAGTA-TAGAGTGTCCTAA
1 CTAAAATGATAAGGAAATCATACT-AATATATGGATTTCCATATAGG-GCACTTTA-TGTGCTAA
* * *
2370012 AATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAGTGTG
63 AATGGTAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCACTGAG-GTG
* * *
2370067 CTAAAATGATAAGGAACTCATATTGAATATATGGATTTCCAGATAGGGCA-TTATATGTGCTAAA
1 CTAAAATGATAAGGAAATCATACT-AATATATGGATTTCCATATAGGGCACTT-TATGTGCTAAA
* * * * *
2370131 ATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGAAAAAACACTAAGGGTG
64 ATGGTAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCACTGA-GGTG
* * * * * *
2370185 CTACAAGGATAAGGAAATCATACTAACAATATGGATTTTCATATAGGGCACTTCATGTGTTAAAA
1 CTAAAATGATAAGGAAATCATACTAA-TATATGGATTTCCATATAGGGCACTTTATGTGCT-AAA
* * * * * * *
2370250 ATAGTAAAGG-GATCATACT-AATGGTATGGATTCTCGA-ATAGGGCACTTCAGGTG
64 ATGGT-AAGGAAATCATATTGAGT-GTATGGATT-TCCAGATAGAGCAC-TGAGGTG
* * * * *
2370304 CTAAAAATGATAAAGG-AATCATATTAATGGTATGGATTCTCGA-ATAAGGCACTTTGTGTGCTA
1 CT-AAAATGAT-AAGGAAATCATACTAAT-ATATGGATT-TCCATATAGGGCACTTTATGTGCTA
* *
2370367 AAATGAG-AAGGAAATCATATTAAGTATAT-GATATTCCAGATAGAGCACTGAGAGTG
62 AAATG-GTAAGGAAATCATATTGAGTGTATGGAT-TTCCAGATAGAGCACTGAG-GTG
* * *
2370423 CTAATATTATAAGGAAATTATAC
1 CTAAAATGATAAGGAAATCATAC
2370446 GGATTGTATA
Statistics
Matches: 298, Mismatches: 60, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
117 6 0.02
118 166 0.56
119 69 0.23
120 51 0.17
121 6 0.02
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (116 bp):
CTAAAATGATAAGGAAATCATACTAATATATGGATTTCCATATAGGGCACTTTATGTGCTAAAAT
GGTAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCACTGAGGTG
Found at i:2370186 original size:59 final size:59
Alignment explanation
Indices: 2369949--2370440 Score: 299
Period size: 59 Copynumber: 8.3 Consensus size: 59
2369939 ATGGCACTAT
* * * * * * * *
2369949 CTAAAATGATAAGGAAATCATACTAAATGTATGAATTTCCATATGGAGTA-TAGAGTGTC
1 CTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCACTA-AGTGTG
* * *
2370008 CTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCATATGGAGCACTGAGTGTG
1 CTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCACTAAGTGTG
* * * * *
2370067 CTAAAATGATAAGGAACTCATATTGAATATATGGATTTCCAGATAGGGCATTATA-TGTG
1 CTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCACTA-AGTGTG
* * * * * *
2370126 CTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAGAAAAAACACTAAGGGTG
1 CTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCACTAAGTGTG
* * * * *** * * * *
2370185 CTACAAGGATAAGGAAATCATACTAACAATATGGATTTTCATATAGGGCACTTCA-TGTG
1 CTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCAC-TAAGTGTG
* * * * * * *
2370244 TTAAAAAT-AGTAAAGG-GATCATACT-AATGGTATGGATTCTCGA-ATAGGGCACTTCAG-GTG
1 CT-AAAATGA-T-AAGGAAATCATATTGAGT-GTATGGATT-TCCAGATAGAGCAC-TAAGTGTG
* * **
2370304 CTAAAAATGATAAAGG-AATCATATT-AATGGTATGGATTCTCGA-ATA-AGGCACTTTGTGTG
1 CT-AAAATGAT-AAGGAAATCATATTGAGT-GTATGGATT-TCCAGATAGA-GCACTAAGTGTG
* * * * *
2370364 CTAAAATGAGAAGGAAATCATATTAAGTATAT-GATATTCCAGATAGAGCACTGAGAGTG
1 CTAAAATGATAAGGAAATCATATTGAGTGTATGGAT-TTCCAGATAGAGCACTAAGTGTG
* *
2370423 CTAATATTATAAGGAAAT
1 CTAAAATGATAAGGAAAT
2370441 TATACGGATT
Statistics
Matches: 347, Mismatches: 68, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
58 11 0.03
59 236 0.68
60 93 0.27
61 7 0.02
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (59 bp):
CTAAAATGATAAGGAAATCATATTGAGTGTATGGATTTCCAGATAGAGCACTAAGTGTG
Found at i:2370270 original size:60 final size:60
Alignment explanation
Indices: 2370195--2370357 Score: 177
Period size: 60 Copynumber: 2.7 Consensus size: 60
2370185 CTACAAGGAT
* * *
2370195 AAGGAAATCATACTAACAATATGGATTTTC-ATATAGGGCACTTCATGTGTTAAAAAT-AGTA
1 AAGG-AATCATACTAACAATATGGATTCTCGA-ATAGGGCACTTCAGGTGCTAAAAATGA-TA
* ***
2370256 AAGGGATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCAGGTGCTAAAAATGATA
1 AAGGAATCATACTAACAATATGGATTCTCGAATAGGGCACTTCAGGTGCTAAAAATGATA
* *** *
2370316 AAGGAATCATATTAATGGTATGGATTCTCGAATAAGGCACTT
1 AAGGAATCATACTAACAATATGGATTCTCGAATAGGGCACTT
2370358 TGTGTGCTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
60 84 0.93
61 6 0.07
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (60 bp):
AAGGAATCATACTAACAATATGGATTCTCGAATAGGGCACTTCAGGTGCTAAAAATGATA
Found at i:2370583 original size:43 final size:44
Alignment explanation
Indices: 2370522--2370959 Score: 614
Period size: 43 Copynumber: 10.0 Consensus size: 44
2370512 TCAGTGATGC
*
2370522 AAATTATAGTAAGTATATTGGT-AAATAAGCTTACAAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
2370565 AAATTATAGTAAGTATATTGGT-AAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
2370608 AAATTATAGTAAGTATATTGGT-AAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
2370651 AAATTATAGTAAGTATATTGGT-AAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* *
2370694 AAATTATAGTAAGTATATTGATAAAATAAGCTTACGAGCTTAGG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * *
2370738 GATTTAATGGTAAGTATATTGGTAAAATAAACTTACGAGTTTATG
1 AAATT-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
2370783 GAATAATGGTAAGTATATGGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
2370827 GAATAATGGTAAATATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * *
2370871 GAATAATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTAGG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * *
2370915 GATTTAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATT-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
2370960 GATTAAATGG
Statistics
Matches: 368, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
43 149 0.40
44 145 0.39
45 74 0.20
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.34
Consensus pattern (44 bp):
AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
Found at i:2370806 original size:44 final size:44
Alignment explanation
Indices: 2370530--2370980 Score: 622
Period size: 44 Copynumber: 10.3 Consensus size: 44
2370520 GCAAATTATA
* * * *
2370530 GTAAGTATATTGGT-AAATAAGCTTACAAGCTTATGAAATTATA
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
* * *
2370573 GTAAGTATATTGGT-AAATAAGCTTACGAGCTTATGAAATTATA
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
* * *
2370616 GTAAGTATATTGGT-AAATAAGCTTACGAGCTTATGAAATTATA
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
* * *
2370659 GTAAGTATATTGGT-AAATAAGCTTACGAGCTTATGAAATTATA
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
* * *
2370702 GTAAGTATATTGATAAAATAAGCTTACGAGCTTAGGGATTTAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGA-ATAATG
* *
2370747 GTAAGTATATTGGTAAAATAAACTTACGAGTTTATGGAATAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
*
2370791 GTAAGTATATGGGTAAAATAAGCTTACGAGCTTATGGAATAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
*
2370835 GTAAATATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
* * *
2370879 GTAAGTATATTGATAAAATAAGCTTACGAGCTTAGGGATTTAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGA-ATAATG
*
2370924 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATTAAATG
1 GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-AATG
*
2370969 GTATGTATATTG
1 GTAAGTATATTG
2370981 ATAAGAAATT
Statistics
Matches: 380, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
43 141 0.37
44 146 0.38
45 93 0.24
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (44 bp):
GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATG
Found at i:2370890 original size:177 final size:175
Alignment explanation
Indices: 2370522--2370978 Score: 668
Period size: 177 Copynumber: 2.6 Consensus size: 175
2370512 TCAGTGATGC
* * * * * * *
2370522 AAATTATAGTAAGTATATTGGT-AAATAAGCTTACAAGCTTATGAAATT-ATAGTAAGTATATTG
1 AAATAATAGTAAGTATATTGATAAAATAAGCTTACGAGCTTAGGGATTTAATGGTAAGTATATTG
* * * *
2370585 GT-AAATAAGCTTACGAGCTTATGAAATTATAGTAAGTATATTGGTAAATAAGCTTACGAGCTTA
66 GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATGGGTAAATAAGCTTACGAGCTTA
* *
2370649 TGAAATTATAGTAAGTATATTGGTAAATAAGCTTACGAGCTTATG
131 TGAAATAATAGTAAATATATTGGTAAATAAGCTTACGAGCTTATG
*
2370694 AAATTATAGTAAGTATATTGATAAAATAAGCTTACGAGCTTAGGGATTTAATGGTAAGTATATTG
1 AAATAATAGTAAGTATATTGATAAAATAAGCTTACGAGCTTAGGGATTTAATGGTAAGTATATTG
* *
2370759 GTAAAATAAACTTACGAGTTTATGGAATAATGGTAAGTATATGGGTAAAATAAGCTTACGAGCTT
66 GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATGGGT-AAATAAGCTTACGAGCTT
* *
2370824 ATGGAATAATGGTAAATATATTGGTAAAATAAGCTTACGAGCTTATG
130 ATGAAATAATAGTAAATATATTGGT-AAATAAGCTTACGAGCTTATG
* *
2370871 GAATAATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTAGGGATTTAATGGTAAGTATATTG
1 AAATAATAGTAAGTATATTGATAAAATAAGCTTACGAGCTTAGGGATTTAATGGTAAGTATATTG
* *
2370936 GTAAAATAAGCTTACGAGCTTATGGATTAAATGGTATGTATAT
66 GTAAAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATAT
2370979 TGATAAGAAA
Statistics
Matches: 256, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
172 21 0.08
173 22 0.09
174 16 0.06
175 37 0.14
176 39 0.15
177 108 0.42
178 13 0.05
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (175 bp):
AAATAATAGTAAGTATATTGATAAAATAAGCTTACGAGCTTAGGGATTTAATGGTAAGTATATTG
GTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATGGGTAAATAAGCTTACGAGCTTA
TGAAATAATAGTAAATATATTGGTAAATAAGCTTACGAGCTTATG
Done.