Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 3 of 228
Found at i:788723 original size:18 final size:18
Alignment explanation
Indices: 788697--788738 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
788687 GACTCGGAAA
* *
788697 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
788715 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
788733 AGGAAA
1 AGGAAA
788739 TGCACCTGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.29, T:0.17
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:789610 original size:20 final size:20
Alignment explanation
Indices: 789573--789610 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
789563 TTTATTTTTA
*
789573 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
789593 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
789611 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:790366 original size:22 final size:22
Alignment explanation
Indices: 790333--790375 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
790323 CAGACTTTTA
*
790333 TAAAAAATAATAAATTAATAAT
1 TAAAAAATAATAAATAAATAAT
*
790355 TAAAGAAA-AATACATAAATAA
1 TAAA-AAATAATAAATAAATAA
790376 AAAATTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAAAAATAATAAATAAATAAT
Found at i:790655 original size:23 final size:23
Alignment explanation
Indices: 790605--790655 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
790595 GATTAAATAT
790605 GAATTCGAGAGAAATTTTGAAGA
1 GAATTCGAGAGAAATTTTGAAGA
*
790628 AAATT-GAGAGGAAA-TTTGAGAGA
1 GAATTCGAGA-GAAATTTTGA-AGA
790651 GAATT
1 GAATT
790656 AGTTTGTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.25
Consensus pattern (23 bp):
GAATTCGAGAGAAATTTTGAAGA
Found at i:795895 original size:25 final size:26
Alignment explanation
Indices: 795858--795912 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
795848 AGACTATAAA
*
795858 AAAATATATAAATGTATG-A-ATTAT
1 AAAATATAGAAATGTATGAATATTAT
795882 AAAATATAGGAAATGTATGAATATTAT
1 AAAATATA-GAAATGTATGAATATTAT
795909 AAAA
1 AAAA
795913 CATAAACGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 9 0.33
26 1 0.04
27 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (26 bp):
AAAATATAGAAATGTATGAATATTAT
Found at i:797127 original size:79 final size:79
Alignment explanation
Indices: 796993--797143 Score: 293
Period size: 79 Copynumber: 1.9 Consensus size: 79
796983 GGGTTCAGTT
*
796993 TTTTTTTTCTGCTGAAACTGTTCCATAGCTTGGGCTGTAATTTGGACTAATAGATGGGCTTGTAA
1 TTTTTTTTCTGCTGAAACTGTTCCATAGCTTGGGCTGTAATTTGGACTAACAGATGGGCTTGTAA
797058 CTTGAGTCCGGGCC
66 CTTGAGTCCGGGCC
797072 TTTTTTTTCTGCTGAAACTGTTCCATAGCTTGGGCTGTAATTTGGACTAACAGATGGGCTTGTAA
1 TTTTTTTTCTGCTGAAACTGTTCCATAGCTTGGGCTGTAATTTGGACTAACAGATGGGCTTGTAA
797137 CTTGAGT
66 CTTGAGT
797144 TTAGGCCTTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.39
Consensus pattern (79 bp):
TTTTTTTTCTGCTGAAACTGTTCCATAGCTTGGGCTGTAATTTGGACTAACAGATGGGCTTGTAA
CTTGAGTCCGGGCC
Found at i:809904 original size:102 final size:99
Alignment explanation
Indices: 809728--809908 Score: 227
Period size: 102 Copynumber: 1.8 Consensus size: 99
809718 GCATAATATA
* * ** * * ****
809728 ACTTACCATTACAGTCAATTGCATGTCTGTTTTATTGTTCATGAAGAGTAATCTTTTGGGGGTTA
1 ACTTACCATTACACTCAATTGCATGTCCGTTTTACGGTCCACGAAGAGTAATCTTTTCAAAGTTA
809793 TGATCGGTTCTCTCGATAATATCGTTGTAGTCTG
66 TGATCGGTTCTCTCGATAATATCGTTGTAGTCTG
*
809827 ACTTACTATTACACTCAATTGCTTTATGTCCGTTTTACGGTCCACGAAGAGTAATCTTTTCAAAG
1 ACTTACCATTACACTCAATTGC---ATGTCCGTTTTACGGTCCACGAAGAGTAATCTTTTCAAAG
*
809892 TTATGATTGGTTCTCTC
63 TTATGATCGGTTCTCTC
809909 TACAATATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
99 20 0.30
102 47 0.70
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (99 bp):
ACTTACCATTACACTCAATTGCATGTCCGTTTTACGGTCCACGAAGAGTAATCTTTTCAAAGTTA
TGATCGGTTCTCTCGATAATATCGTTGTAGTCTG
Found at i:810402 original size:36 final size:36
Alignment explanation
Indices: 810355--810429 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
810345 TATGATTTGC
* *
810355 GATTATAGTACTTGTTGTCAATGCATCATACCTTGT
1 GATTATAGTACTTATTGTCAATGCATCATACCATGT
810391 GATTATAGTACTTATTGTCAATGCATCATACCATGT
1 GATTATAGTACTTATTGTCAATGCATCATACCATGT
810427 GAT
1 GAT
810430 CTCTCATATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (36 bp):
GATTATAGTACTTATTGTCAATGCATCATACCATGT
Found at i:812536 original size:23 final size:22
Alignment explanation
Indices: 812509--812558 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
812499 TTTTTTAATT
812509 ATATTCACTATTTTAAAT-ATAAA
1 ATATTCAC--TTTTAAATCATAAA
* *
812532 ATATTTACTTTTATATCATAAA
1 ATATTCACTTTTAAATCATAAA
812554 ATATT
1 ATATT
812559 AAAATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 10 0.42
23 7 0.29
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTCACTTTTAAATCATAAA
Found at i:816438 original size:14 final size:14
Alignment explanation
Indices: 816419--816452 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
816409 AAATTTAAAC
816419 ATTAACCATTAGAG
1 ATTAACCATTAGAG
816433 ATTAACCATTAGAG
1 ATTAACCATTAGAG
816447 ATTAAC
1 ATTAAC
816453 AAAATTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (14 bp):
ATTAACCATTAGAG
Found at i:816781 original size:13 final size:14
Alignment explanation
Indices: 816763--816809 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
816753 TTACTACTGG
*
816763 AAAAAGAAAAT-AC
1 AAAAAGAAAATAAA
*
816776 AAAAAGAAGATAAA
1 AAAAAGAAAATAAA
816790 AAAAAGAAAA-AGAA
1 AAAAAGAAAATA-AA
816804 AAAAAG
1 AAAAAG
816810 GAAACCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (14 bp):
AAAAAGAAAATAAA
Found at i:817186 original size:36 final size:36
Alignment explanation
Indices: 817144--817219 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
817134 CAGGTTTAAG
*
817144 GTTACTACTGCTAAATTTTTTTTGTTAAATTTGTTA
1 GTTACTACTGCTAAATTTTTTTTATTAAATTTGTTA
817180 GTTACTACTGCTAAATTTTTTTTATTAAATTTGTTA
1 GTTACTACTGCTAAATTTTTTTTATTAAATTTGTTA
817216 GTTA
1 GTTA
817220 GGAATTGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (36 bp):
GTTACTACTGCTAAATTTTTTTTATTAAATTTGTTA
Found at i:837967 original size:45 final size:46
Alignment explanation
Indices: 837900--838023 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
837890 CATATGACCT
*
837900 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
837943 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
837989 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
838024 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:838006 original size:46 final size:45
Alignment explanation
Indices: 837900--838134 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
837890 CATATGACCT
*
837900 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
837943 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
837989 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
838026 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
838063 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
838100 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
838135 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:838027 original size:37 final size:37
Alignment explanation
Indices: 837985--838161 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
837975 AGCTGAAGCT
* **
837985 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
838022 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
838059 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
838096 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
838133 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
838162 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:845662 original size:45 final size:46
Alignment explanation
Indices: 845595--845718 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
845585 CATATGACCT
*
845595 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
845638 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
845684 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
845719 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:845701 original size:46 final size:45
Alignment explanation
Indices: 845595--845829 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
845585 CATATGACCT
*
845595 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
845638 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
845684 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
845721 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
845758 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
845795 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
845830 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:845722 original size:37 final size:37
Alignment explanation
Indices: 845680--845856 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
845670 AGCTGAAGCT
* **
845680 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
845717 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
845754 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
845791 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
845828 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
845857 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:849276 original size:46 final size:46
Alignment explanation
Indices: 849224--849492 Score: 299
Period size: 46 Copynumber: 5.6 Consensus size: 46
849214 TTTGAGTACT
* **
849224 TCTGATCAAATGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
849270 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAATGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
849322 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
849368 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAATGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
**
849420 TCTGATCAAGA-GACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAA-ATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
849466 TCTGATCAAGA-GACAAAGTGATAAGTG
1 TCTGATCAA-ATGACAAAGTGATAAGTG
849493 GCTACACTTG
Statistics
Matches: 197, Mismatches: 13, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
46 113 0.57
52 84 0.43
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:849345 original size:98 final size:98
Alignment explanation
Indices: 849224--849492 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
849214 TTTGAGTACT
* *
849224 TCTGATCAAATGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
849289 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
849322 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
849387 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
849420 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
849485 GATAAGTG
65 GAAAAGTG
849493 GCTACACTTG
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:849500 original size:37 final size:37
Alignment explanation
Indices: 849456--849601 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
849446 GATAGCTTTA
*
849456 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
849493 GCTACACTTGTCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
849530 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
849567 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
849602 ATCACACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:864709 original size:27 final size:27
Alignment explanation
Indices: 864679--864754 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
864669 ACCAATTAGT
864679 ATTTTGTATGAATATTGTAATTTTATA
1 ATTTTGTATGAATATTGTAATTTTATA
*
864706 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTATA
864733 ATTTTGTATGAATATTGTAATT
1 ATTTTGTATGAATATTGTAATT
864755 ATTTTATAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (27 bp):
ATTTTGTATGAATATTGTAATTTTATA
Found at i:864733 original size:8 final size:8
Alignment explanation
Indices: 864693--864740 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
864683 TGTATGAATA
864693 TTGTAATT
1 TTGTAATT
*
864701 TTATAATT
1 TTGTAATT
*
864709 TTGTATGAATA
1 TTG--T-AATT
864720 TTGTAATT
1 TTGTAATT
864728 TTGTAATT
1 TTGTAATT
864736 TTGTA
1 TTGTA
864741 TGAATATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 25 0.76
9 1 0.03
10 1 0.03
11 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (8 bp):
TTGTAATT
Found at i:864825 original size:80 final size:83
Alignment explanation
Indices: 864706--864918 Score: 315
Period size: 80 Copynumber: 2.5 Consensus size: 83
864696 TAATTTTATA
*
864706 ATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTT
1 ATTTTGTATGAATATTGTAA-----TAATGTTGTATGAATATTGTAATTATTTTATAATTAATTT
**
864771 TGTATTTATAGTTTTTTATTAGT
61 TGTATTTATAGTTTTGGATTAGT
864794 ATTTTGTATGAATA-T-T-ATAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTAT
1 ATTTTGTATGAATATTGTAATAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTAT
864856 TTATAGTTTTGGATTAGT
66 TTATAGTTTTGGATTAGT
*
864874 ATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATT
1 ATTTTGTATGAATATTGTAATAATG-TTGTATGAATATTGTAATT
864919 TTGTATGAAT
Statistics
Matches: 117, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
80 74 0.63
81 1 0.01
82 1 0.01
83 5 0.04
84 19 0.16
85 1 0.01
86 1 0.01
87 1 0.01
88 14 0.12
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (83 bp):
ATTTTGTATGAATATTGTAATAATGTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTAT
TTATAGTTTTGGATTAGT
Found at i:864923 original size:19 final size:19
Alignment explanation
Indices: 864794--864939 Score: 102
Period size: 19 Copynumber: 7.3 Consensus size: 19
864784 TTTTATTAGT
*
864794 ATTTTGTATGAATATTATA
1 ATTTTGTATGAATATTGTA
*
864813 ATGTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
864832 ATTATTTTAT-AATTAATTTTGT-
1 ATT-TTGTATGAA-T-A--TTGTA
* * *
864854 ATTTATAGTTTTGGAT-TAGT-
1 ATTT-T-G-TATGAATATTGTA
864874 ATTTTGTATGAATATTGTAA
1 ATTTTGTATGAATATTGT-A
864894 TATTGTTTGTATGAATATTGTA
1 -A-T-TTTGTATGAATATTGTA
864916 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
864935 ATTTT
1 ATTTT
864940 TTGATAATTA
Statistics
Matches: 101, Mismatches: 11, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
17 5 0.05
18 4 0.04
19 44 0.44
20 14 0.14
21 4 0.04
22 6 0.06
23 20 0.20
24 3 0.03
25 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:864939 original size:61 final size:60
Alignment explanation
Indices: 864787--864939 Score: 143
Period size: 61 Copynumber: 2.5 Consensus size: 60
864777 TATAGTTTTT
* * *
864787 TATTAGTATTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTTATAATTAA
1 TATT-GTATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATGAA
* * * * *
864848 TTTTGTATTTATAGTTTTGGAT-TAGT-ATTTTGTATGAATATTGTAA-TATTGTT-TGTATGAA
1 TATTGTATTT-T-G-TATGAATATTGTAATTTTGTATGAATATTGTAATTATT-TTAT-AATGAA
864909 TATTGTAATTTTGTATGAATATTGTAATTTT
1 TATTGT-ATTTTGTATGAATATTGTAATTTT
864940 TTGATAATTA
Statistics
Matches: 72, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
59 5 0.07
60 15 0.21
61 40 0.56
62 7 0.10
63 5 0.07
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (60 bp):
TATTGTATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATGAA
Found at i:864995 original size:60 final size:60
Alignment explanation
Indices: 864930--865051 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
864920 TGTATGAATA
* * * * * *
864930 TTGTAATTTTTTGATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTT-AAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
864990 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
865050 TT
1 TT
865052 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 3 0.05
60 52 0.95
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:865186 original size:16 final size:16
Alignment explanation
Indices: 865165--865202 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
865155 TTAACTCATT
865165 TAATTTTTATATAATG
1 TAATTTTTATATAATG
* *
865181 TAA-TTTTATTTTATG
1 TAATTTTTATATAATG
865196 TAATTTT
1 TAATTTT
865203 ATTTGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (16 bp):
TAATTTTTATATAATG
Found at i:865189 original size:15 final size:15
Alignment explanation
Indices: 865169--865204 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
865159 CTCATTTAAT
865169 TTTTATATAATGTAA
1 TTTTATATAATGTAA
* *
865184 TTTTATTTTATGTAA
1 TTTTATATAATGTAA
865199 TTTTAT
1 TTTTAT
865205 TTGATTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTATATAATGTAA
Found at i:865205 original size:15 final size:15
Alignment explanation
Indices: 865178--865206 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
865168 TTTTTATATA
865178 ATGTAATTTTATTTT
1 ATGTAATTTTATTTT
865193 ATGTAATTTTATTT
1 ATGTAATTTTATTT
865207 GATTTTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
ATGTAATTTTATTTT
Found at i:865206 original size:20 final size:20
Alignment explanation
Indices: 865169--865212 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
865159 CTCATTTAAT
*
865169 TTTTATATAATGTAATTTTA
1 TTTTATATAATGTAATTTGA
* * *
865189 TTTTATGTAATTTTATTTGA
1 TTTTATATAATGTAATTTGA
865209 TTTT
1 TTTT
865213 GTATTTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTATATAATGTAATTTGA
Found at i:865304 original size:27 final size:27
Alignment explanation
Indices: 865269--865323 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
865259 ATAAAATAAT
865269 ACCATTGGCGCCTCTCAGATAGGCACC
1 ACCATTGGCGCCTCTCAGATAGGCACC
865296 ACCATTGGCGCCTCTCAGATAGGCACC
1 ACCATTGGCGCCTCTCAGATAGGCACC
865323 A
1 A
865324 ATACTATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.18
Consensus pattern (27 bp):
ACCATTGGCGCCTCTCAGATAGGCACC
Found at i:869741 original size:142 final size:142
Alignment explanation
Indices: 869480--869769 Score: 472
Period size: 142 Copynumber: 2.0 Consensus size: 142
869470 CCAGATAAAT
* * * *
869480 TAATTATAACTAATAGCTAATTATTGTGGTTTGCTTGTCTATGGAACCTAATGAACTTGGTTACG
1 TAATAATAACTAATAGCTAATTATTGTGGTTTGATTGTATATGGAACCTAATGAACTTGGTGACG
* * *
869545 CGGTTTAATGTTTGTTTGAATACTTAAGTTTCATTAATGATTAATTGTTTGATCTCTAAGGAGCT
66 CGGTTTAATGTTTGTTTGAATACTTAACTTTCATTAATGATTAACTGTTTGATCTCTAAGGAGAT
869610 CTTTGAGTTCCC
131 CTTTGAGTTCCC
* * * *
869622 TAATAATAACTAATAGGTAATTATTGTGGTTTGATTGTATGTGGAACCTAATGAGCTTGGTGATG
1 TAATAATAACTAATAGCTAATTATTGTGGTTTGATTGTATATGGAACCTAATGAACTTGGTGACG
*
869687 TGGTTTAATGTTTGTTTGAATACTTAACTTTCATTAATGATTAACTGTTTGATCTCTAAGGAGAT
66 CGGTTTAATGTTTGTTTGAATACTTAACTTTCATTAATGATTAACTGTTTGATCTCTAAGGAGAT
869752 CTTTGAGTTCCC
131 CTTTGAGTTCCC
869764 TAATAA
1 TAATAA
869770 GTGTAGTTGA
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 136 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (142 bp):
TAATAATAACTAATAGCTAATTATTGTGGTTTGATTGTATATGGAACCTAATGAACTTGGTGACG
CGGTTTAATGTTTGTTTGAATACTTAACTTTCATTAATGATTAACTGTTTGATCTCTAAGGAGAT
CTTTGAGTTCCC
Found at i:877018 original size:17 final size:18
Alignment explanation
Indices: 876996--877038 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
876986 GAATTGATTT
*
876996 TATAATTTT-TTATTTTA
1 TATAATTTTAATATTTTA
877013 TATAATTTTAATATTTTA
1 TATAATTTTAATATTTTA
*
877031 TTTAATTT
1 TATAATTT
877039 GAATTGGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATAATTTTAATATTTTA
Found at i:881680 original size:25 final size:25
Alignment explanation
Indices: 881641--881689 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
881631 ATTTTGGCTT
881641 TCAAAGACATAATTGGCTTACGTTG
1 TCAAAGACATAATTGGCTTACGTTG
881666 TCAAAGACA-AGATTGGCTTACGTT
1 TCAAAGACATA-ATTGGCTTACGTT
881690 TGCCTTACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (25 bp):
TCAAAGACATAATTGGCTTACGTTG
Found at i:881816 original size:43 final size:42
Alignment explanation
Indices: 881759--881886 Score: 195
Period size: 42 Copynumber: 3.0 Consensus size: 42
881749 TGCCCACTTG
881759 ATTGTTTCATTTTAATTTAATCTCACTTTAAATATTCTCACTA
1 ATTGTTTCATTTTAATTTAATCT-ACTTTAAATATTCTCACTA
*
881802 ATTGTTTCATTTTAATTT-ATCAAACTTTAAATATTCTCACTA
1 ATTGTTTCATTTTAATTTAATC-TACTTTAAATATTCTCACTA
* *
881844 ATTCTTTCATTTTAATTTAATCTACTTTATAATATGCTCACTA
1 ATTGTTTCATTTTAATTTAATCTACTTTA-AATATTCTCACTA
881887 CTTTGTCTTC
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
42 45 0.58
43 33 0.42
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (42 bp):
ATTGTTTCATTTTAATTTAATCTACTTTAAATATTCTCACTA
Found at i:881842 original size:42 final size:42
Alignment explanation
Indices: 881722--881886 Score: 188
Period size: 42 Copynumber: 3.8 Consensus size: 42
881712 CTCTATCTTC
* * * * * *
881722 CATTTTAATTCACTCACCTTTATAATATGCCCACTTGATTGTTT
1 CATTTTAATTTAATCAACTTTA-AATATTCTCAC-TAATTGTTT
*
881766 CATTTTAATTTAATCTCACTTTAAATATTCTCACTAATTGTTT
1 CATTTTAATTTAATC-AACTTTAAATATTCTCACTAATTGTTT
*
881809 CATTTTAATTT-ATCAAACTTTAAATATTCTCACTAATTCTTT
1 CATTTTAATTTAATC-AACTTTAAATATTCTCACTAATTGTTT
* *
881851 CATTTTAATTTAATCTACTTTATAATATGCTCACTA
1 CATTTTAATTTAATCAACTTTA-AATATTCTCACTA
881887 CTTTGTCTTC
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
42 45 0.42
43 34 0.32
44 22 0.21
45 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (42 bp):
CATTTTAATTTAATCAACTTTAAATATTCTCACTAATTGTTT
Found at i:883464 original size:16 final size:16
Alignment explanation
Indices: 883443--883478 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
883433 TAAGTTACTT
883443 ATTTGAATTA-ATTTAA
1 ATTTGAATTAGA-TTAA
883459 ATTTGAATTAGATTAA
1 ATTTGAATTAGATTAA
883475 ATTT
1 ATTT
883479 ATTTACGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (16 bp):
ATTTGAATTAGATTAA
Found at i:885040 original size:283 final size:282
Alignment explanation
Indices: 884233--885078 Score: 1662
Period size: 283 Copynumber: 3.0 Consensus size: 282
884223 GATAGGAGAT
884233 CGATTTTTTCGATAAAAGTTTTCGAAGTATTCTTAGTTCAGAGTTGATGGACACCTCAACCGGTC
1 CGATTTTTTCGATAAAAGTTTTCGAAGTATTCTTAGTTCAGAGTTGATGGACACCTCAACCGGTC
884298 TATAAAGAGTAAAAATATTATAGAGATATTAGATTGTATTTTCT-CCTTCACTC-AAAAAATAGA
66 TATAAAGAGTAAAAATATTATAGAGATATTAGATTGTATTTTCTCCCTTCACTCAAAAAAATAGA
884361 TAAATTACTTTATGTACATTAAATTAAAGAACAAATTAGTCCTTTTCTTTTTGTTAAAATTTGCT
131 TAAATTACTTTATGTACATTAAATTAAAGAACAAATTAGTCCTTTTCTTTTTGTTAAAATTTGCT
884426 AGAAAAGTTGGACCCTTCAATTTAGTATCACCGTTTACTCATTTTAATGACAATGTTGTTTG-AA
196 AGAAAAGTTGGACCCTTCAATTTAGTATCACCGTTTACTCATTTTAATGACAATGTTGTTTGAAA
884490 AAAAGGCATACCGAGTGATTCA
261 AAAAGGCATACCGAGTGATTCA
884512 CGATTTTTTCGATAAAAGTTTTCGAAGTATTCTTAGTTCAGAGTTGATGGACACCTCAACCGGTC
1 CGATTTTTTCGATAAAAGTTTTCGAAGTATTCTTAGTTCAGAGTTGATGGACACCTCAACCGGTC
884577 TATAAAGAGTAAAAATATTATAGAGATATTAGATTGTATTTTCTCCCTTCACTCAAAAAAATAGA
66 TATAAAGAGTAAAAATATTATAGAGATATTAGATTGTATTTTCTCCCTTCACTCAAAAAAATAGA
884642 TAAATTACTTTATGTACATTAAATTAAAGAACAAATTAGTCCTTTTCTTTTTGTTAAAATTTGCT
131 TAAATTACTTTATGTACATTAAATTAAAGAACAAATTAGTCCTTTTCTTTTTGTTAAAATTTGCT
884707 AGAAAAGTTGGACCCTTCAATTTAGTATCACCGTTTACTCATTTTAATGACAATGTTGTTTGAAA
196 AGAAAAGTTGGACCCTTCAATTTAGTATCACCGTTTACTCATTTTAATGACAATGTTGTTTGAAA
884772 AAAAGGCATACCGAGTGATTCA
261 AAAAGGCATACCGAGTGATTCA
884794 CGATTTTTTCGATAAAAGTTTTCGAAGTATTCTTAGTTCAGAGTTGATGGACACCTCAACCGGTC
1 CGATTTTTTCGATAAAAGTTTTCGAAGTATTCTTAGTTCAGAGTTGATGGACACCTCAACCGGTC
884859 TATAAAGAGTAAAAATATTATAGAGATATTAGATTGTATTTTTCTCCCTTCACTCAAAAAAATAG
66 TATAAAGAGTAAAAATATTATAGAGATATTAGATTGTA-TTTTCTCCCTTCACTCAAAAAAATAG
884924 ATAAATTACTTTATGTACATTAAATTAAAGAACAAATTAGTCCTTTTCTTTTTGTTAAAATTTGC
130 ATAAATTACTTTATGTACATTAAATTAAAGAACAAATTAGTCCTTTTCTTTTTGTTAAAATTTGC
884989 TAGAAAAGTTGGACCCTTCAATTTAGTATCACCGTTTACTCATTTTAATGACAATGTTGTTTGAA
195 TAGAAAAGTTGGACCCTTCAATTTAGTATCACCGTTTACTCATTTTAATGACAATGTTGTTTGAA
885054 AAAAAGGCATACCGAGTGATTCA
260 AAAAAGGCATACCGAGTGATTCA
885077 CG
1 CG
885079 TAAGGAGGAA
Statistics
Matches: 563, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
279 109 0.19
280 9 0.02
281 137 0.24
282 127 0.23
283 181 0.32
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (282 bp):
CGATTTTTTCGATAAAAGTTTTCGAAGTATTCTTAGTTCAGAGTTGATGGACACCTCAACCGGTC
TATAAAGAGTAAAAATATTATAGAGATATTAGATTGTATTTTCTCCCTTCACTCAAAAAAATAGA
TAAATTACTTTATGTACATTAAATTAAAGAACAAATTAGTCCTTTTCTTTTTGTTAAAATTTGCT
AGAAAAGTTGGACCCTTCAATTTAGTATCACCGTTTACTCATTTTAATGACAATGTTGTTTGAAA
AAAAGGCATACCGAGTGATTCA
Found at i:890571 original size:23 final size:23
Alignment explanation
Indices: 890526--890571 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
890516 ATTGACATGT
** *
890526 TTTTTTTAAAATATTTTTTTAAA
1 TTTTTTTAAAATATCCTTATAAA
*
890549 TTTTTTTATAATATCCTTATAAA
1 TTTTTTTAAAATATCCTTATAAA
890572 ATACTTATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTTTTAAAATATCCTTATAAA
Found at i:892642 original size:26 final size:27
Alignment explanation
Indices: 892583--892642 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
892573 ACAAAATATT
* *
892583 ATTTATGTATATTTAAAAGATAAAAAG
1 ATTTATATATATTTAAAAGATAAAAAA
*
892610 A-TCATATATA-TTAAAAGATAAAAAA
1 ATTTATATATATTTAAAAGATAAAAAA
892635 ATTTATAT
1 ATTTATAT
892643 TATCAAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 15 0.54
26 12 0.43
27 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.37
Consensus pattern (27 bp):
ATTTATATATATTTAAAAGATAAAAAA
Found at i:903712 original size:28 final size:28
Alignment explanation
Indices: 903678--903737 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
903668 TAAGGGCCTC
903678 CATGGTACTTTTATCATATATACATGTT
1 CATGGTACTTTTATCATATATACATGTT
903706 CATGGTACTTTTATCATATATACATGTT
1 CATGGTACTTTTATCATATATACATGTT
903734 CATG
1 CATG
903738 TGAGGAGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (28 bp):
CATGGTACTTTTATCATATATACATGTT
Found at i:917191 original size:29 final size:31
Alignment explanation
Indices: 917122--917180 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
917112 AGGAAATAAT
*
917122 TCAATTAAAACGATATTATTACTTTAAAAAC
1 TCAATTAAAACGATATTATAACTTTAAAAAC
*
917153 TCAATTAAAAC-ATATTA-AATTTTAAAAA
1 TCAATTAAAACGATATTATAACTTTAAAAA
917181 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 9 0.35
30 6 0.23
31 11 0.42
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.36
Consensus pattern (31 bp):
TCAATTAAAACGATATTATAACTTTAAAAAC
Found at i:921028 original size:7 final size:7
Alignment explanation
Indices: 921016--921044 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
921006 ATATATATTT
921016 ATTGTGA
1 ATTGTGA
921023 ATTGTGA
1 ATTGTGA
921030 ATTGTGA
1 ATTGTGA
921037 ATTGTGA
1 ATTGTGA
921044 A
1 A
921045 ACCAACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (7 bp):
ATTGTGA
Found at i:929431 original size:12 final size:12
Alignment explanation
Indices: 929414--929440 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
929404 ACAGATGAGG
929414 ATACTTGTAGTT
1 ATACTTGTAGTT
929426 ATACTTGTAGTT
1 ATACTTGTAGTT
929438 ATA
1 ATA
929441 ACAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (12 bp):
ATACTTGTAGTT
Found at i:934004 original size:21 final size:21
Alignment explanation
Indices: 933966--934005 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
933956 CTCTTTTGAC
*
933966 ATTTTTTTTCACTTTTAAAAT
1 ATTTTTTTTCACTATTAAAAT
933987 ATTTTTTATTCA-TATTAAA
1 ATTTTTT-TTCACTATTAAA
934006 CACTTGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTTTTCACTATTAAAAT
Found at i:934302 original size:34 final size:34
Alignment explanation
Indices: 934228--934302 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 34
934218 TCAAAAAAAT
** **
934228 TCAAGATTATAAACACAACCATTCCTAATTTCTT
1 TCAAGATTATAAACACAACCATTCCTAAACTCAA
* * * *
934262 TAAAGATTGTAAACACAATCATTCTTAAACTCAA
1 TCAAGATTATAAACACAACCATTCCTAAACTCAA
934296 TCAAGAT
1 TCAAGAT
934303 GTTAGGGATC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (34 bp):
TCAAGATTATAAACACAACCATTCCTAAACTCAA
Found at i:950857 original size:132 final size:130
Alignment explanation
Indices: 950607--951021 Score: 379
Period size: 132 Copynumber: 3.1 Consensus size: 130
950597 GGCTACTGTG
* * * * * *
950607 TTTATGAACATTAAAAAGCGGAGCAAACGTAGAAATTTGGACGGTGCGATGACTGAAAGAATCCC
1 TTTATGAACATTAAAGAGCAGAGCAAACGCAGAAACTTGGACGGTGCGATGACAGAAAGAAGCCC
* *
950672 TCAGGAGAATAAGGATGCAATGACTGAAAGAAGCCCTGAAGAGACTAAGAAGGAAAACTGCGATC
66 TCAGGAGAATAAGAATGCAATGACTGAAAGAAGCCCTCAAGAGACT-A-AAGGAAAACTGCGATC
950737 GT
129 GT
* * * **
950739 TTTATGAACGTTAAAGTGCAGAGCAAAGGCAGAAACTTGGTTGGTGCGATGACAGAAAGAAGCCC
1 TTTATGAACATTAAAGAGCAGAGCAAACGCAGAAACTTGGACGGTGCGATGACAGAAAGAAGCCC
** * * * * *
950804 TCAGGAGTGTGAGGAGAATGCGATGACTGAAAGTATCCCTCAGGAGACT-AAGGAAAACTGTGAT
66 TCAGGAGAAT-A--AGAATGCAATGACTGAAAGAAGCCCTCAAGAGACTAAAGGAAAACTGCGAT
*
950868 CTT
128 CGT
* * * * * * *
950871 TTTATGAACATTAAAGCGCAGAGCAAGCACAGGAATTTGGACAGTGCTATGA-ATGAAAGAAGCC
1 TTTATGAACATTAAAGAGCAGAGCAAACGCAGAAACTTGGACGGTGCGATGACA-GAAAGAAGCC
* * * * *
950935 CTCGGGAGACTAAGAAGGATGCAATGA-TCGAAAGAAACCCTCAGGAGACTAAAAAGGAAAATTG
65 CTCAGGAGAATAAG-A--ATGCAATGACT-GAAAGAAGCCCTCAAGAGACT--AAAGGAAAACTG
*
950999 CAATC-T
124 CGATCGT
951005 TTCTATGAACATTAAAG
1 TT-TATGAACATTAAAG
951022 CGAATTTGGA
Statistics
Matches: 230, Mismatches: 41, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
129 2 0.01
130 1 0.00
131 3 0.01
132 164 0.71
133 1 0.00
134 3 0.01
135 56 0.24
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (130 bp):
TTTATGAACATTAAAGAGCAGAGCAAACGCAGAAACTTGGACGGTGCGATGACAGAAAGAAGCCC
TCAGGAGAATAAGAATGCAATGACTGAAAGAAGCCCTCAAGAGACTAAAGGAAAACTGCGATCGT
Found at i:951242 original size:96 final size:96
Alignment explanation
Indices: 951024--951245 Score: 259
Period size: 96 Copynumber: 2.3 Consensus size: 96
951014 CATTAAAGCG
* * *
951024 AATTTGGACAGTGCTATGACTGAAAGAAGCCCTCAGGAGACTAAGAAGGAAAACTGCGATCTTTT
1 AATTTGGACAGTGCAATGACTGAAAGAAGCCCTCAGGAGACTAAGAAGAAAAACTGCGATCTTTC
*
951089 TATGAACACTAAAGCACGGAGCAAACATAGA
66 TATAAACACTAAAGCACGGAGCAAACATAGA
* * * ** * ** *
951120 AATCTGGACAGTGCGATAACCAAAAGAAGTCCTTGGGAGACTAAGAAGAAAAACTGTGATCTTTC
1 AATTTGGACAGTGCAATGACTGAAAGAAGCCCTCAGGAGACTAAGAAGAAAAACTGCGATCTTTC
* **
951185 TATAAACATTAAAGGGCGGAGCAAAGGCA-A-A
66 TATAAACACTAAAGCACGGAGCAAA--CATAGA
*
951216 AATTTGGACAGTGCAATGGCTGAAAGAAGC
1 AATTTGGACAGTGCAATGACTGAAAGAAGC
951246 GGCAATGATA
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
96 99 0.97
97 1 0.01
98 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.19
Consensus pattern (96 bp):
AATTTGGACAGTGCAATGACTGAAAGAAGCCCTCAGGAGACTAAGAAGAAAAACTGCGATCTTTC
TATAAACACTAAAGCACGGAGCAAACATAGA
Found at i:967592 original size:20 final size:20
Alignment explanation
Indices: 967567--967605 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
967557 AGAACTTTAT
967567 TAAAATTTT-CAAGAAAATAA
1 TAAAATTTTCCAA-AAAATAA
967587 TAAAATTTTCCAAAAAATA
1 TAAAATTTTCCAAAAAATA
967606 GGCCCCGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (20 bp):
TAAAATTTTCCAAAAAATAA
Found at i:971495 original size:17 final size:18
Alignment explanation
Indices: 971473--971509 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
971463 TATATTTTTA
971473 TTTTTTAAATTTT-AATT
1 TTTTTTAAATTTTAAATT
*
971490 TTTTTTAGATTTTAAATT
1 TTTTTTAAATTTTAAATT
971508 TT
1 TT
971510 AAATCTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTTTAAATTTTAAATT
Found at i:973297 original size:18 final size:20
Alignment explanation
Indices: 973263--973312 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
973253 TTTAAGATTC
*
973263 AAAGAAAG-AAAACATAAAG
1 AAAGAAAGAAAAAAATAAAG
*
973282 -AA-AAAGAAAAAAATAACG
1 AAAGAAAGAAAAAAATAAAG
973300 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
973313 TGAAATATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 11 0.42
19 2 0.08
20 9 0.35
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAGAAAGAAAAAAATAAAG
Found at i:973749 original size:10 final size:10
Alignment explanation
Indices: 973734--973759 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
973724 TAACCCTTTA
973734 ATATTTAATG
1 ATATTTAATG
973744 ATATTTAATG
1 ATATTTAATG
973754 ATATTT
1 ATATTT
973760 TTTCACCCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (10 bp):
ATATTTAATG
Found at i:973794 original size:21 final size:21
Alignment explanation
Indices: 973770--973814 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
973760 TTTCACCCTG
*
973770 AACCCCAAAACTTGACCCCCA
1 AACCCCAAAACTTGAACCCCA
** *
973791 AACCTTAAACCTTGAACCCCA
1 AACCCCAAAACTTGAACCCCA
973812 AAC
1 AAC
973815 TTCTAACATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.42, G:0.04, T:0.13
Consensus pattern (21 bp):
AACCCCAAAACTTGAACCCCA
Found at i:981579 original size:9 final size:9
Alignment explanation
Indices: 981565--981656 Score: 51
Period size: 9 Copynumber: 9.4 Consensus size: 9
981555 TTTTACATAC
981565 TTTTTAATT
1 TTTTTAATT
981574 TTTTTAA-T
1 TTTTTAATT
**
981582 TTTAAAATAT
1 TTTTTAAT-T
*
981592 TTTTAAAATACT
1 TTTT-TAAT--T
981604 TTTTTTAATT
1 -TTTTTAATT
981614 TTTTTAAATT
1 TTTTT-AATT
** *
981624 TTAAAATACTT
1 TT--TTTAATT
981635 TTTTTAATT
1 TTTTTAATT
981644 TTTTTAATT
1 TTTTTAATT
981653 TTTT
1 TTTT
981657 AAAAATATTA
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
8 6 0.09
9 29 0.45
10 11 0.17
11 9 0.14
12 5 0.08
13 4 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTAATT
Found at i:981594 original size:26 final size:24
Alignment explanation
Indices: 981536--981597 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
981526 CCGATATAAT
*
981536 AAATATTTTT-ATTTTTTATTTTT
1 AAATATTTTTAATTTTTTATTTTA
*
981559 ACATACTTTTTAATTTTTTTAATTTTA
1 AAATA-TTTTTAA-TTTTTT-ATTTTA
981586 AAATATTTTTAA
1 AAATATTTTTAA
981598 AATACTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 4 0.12
24 5 0.16
25 1 0.03
26 13 0.41
27 9 0.28
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (24 bp):
AAATATTTTTAATTTTTTATTTTA
Found at i:981647 original size:40 final size:39
Alignment explanation
Indices: 981565--981671 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 39
981555 TTTTACATAC
981565 TTTTTAATTTTTTT-AATTTTAAAATATTTTTAAAATACTT
1 TTTTTAATTTTTTTAAATTTTAAAATATTTTTAAAA-A-TT
**
981605 TTTTTAATTTTTTTAAATTTTAAAATACTTTTT-TTAATT
1 TTTTTAATTTTTTTAAATTTTAAAATA-TTTTTAAAAATT
* *
981644 TTTTTAATTTTTTAAAAATATTAAAATA
1 TTTTTAATTTTTT-TAAATTTTAAAATA
981672 AAAATGGGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
39 15 0.25
40 27 0.45
41 13 0.22
42 5 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTTAATTTTTTTAAATTTTAAAATATTTTTAAAAATT
Found at i:981657 original size:31 final size:31
Alignment explanation
Indices: 981572--981660 Score: 128
Period size: 30 Copynumber: 2.9 Consensus size: 31
981562 TACTTTTTAA
**
981572 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTTTAAT-TTTTTAAAATAC
*
981603 TTTTTTTAATTTTTTTAA-ATTTTAAAATAC
1 TTTTTTTAATTTTTTTAATTTTTTAAAATAC
981633 TTTTTTTAATTTTTTTAATTTTTTAAAA
1 TTTTTTTAATTTTTTTAATTTTTTAAAA
981661 ATATTAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
30 29 0.56
31 17 0.33
32 6 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (31 bp):
TTTTTTTAATTTTTTTAATTTTTTAAAATAC
Found at i:981658 original size:8 final size:9
Alignment explanation
Indices: 981603--981656 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
981593 TTTAAAATAC
981603 TTTTTTTAA
1 TTTTTTTAA
981612 TTTTTTTAAA
1 TTTTTTT-AA
** *
981622 TTTTAAAATAC
1 TTTT--TTTAA
981633 TTTTTTTAA
1 TTTTTTTAA
981642 TTTTTTTAA
1 TTTTTTTAA
981651 TTTTTT
1 TTTTTT
981657 AAAAATATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 24 0.67
10 6 0.17
11 5 0.14
12 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:984574 original size:31 final size:31
Alignment explanation
Indices: 984536--984594 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
984526 AAATTAACCC
984536 AATGACTTAAATAAAAACTTTCAAATAGTTT
1 AATGACTTAAATAAAAACTTTCAAATAGTTT
* *
984567 AATGACTTAAATGAAAACTTTCGAATAG
1 AATGACTTAAATAAAAACTTTCAAATAG
984595 CTCAATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.32
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTCAAATAGTTT
Found at i:985584 original size:18 final size:17
Alignment explanation
Indices: 985558--985592 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
985548 TGCGTGTTAT
*
985558 AAATTACATAATATAAAA
1 AAATAACATAATA-AAAA
985576 AAATAACATAATAAAAA
1 AAATAACATAATAAAAA
985593 GTATTGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAACATAATAAAAA
Found at i:992580 original size:22 final size:22
Alignment explanation
Indices: 992554--992601 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
992544 TGACGGTTTA
992554 AAATTGC-TTTATTAAAAAAA-TT
1 AAATTGCATTTA--AAAAAAAGTT
*
992576 AAATTTCATTTAAAAAAAAGTT
1 AAATTGCATTTAAAAAAAAGTT
992598 AAAT
1 AAAT
992602 GTAGAATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATTGCATTTAAAAAAAAGTT
Found at i:997479 original size:11 final size:11
Alignment explanation
Indices: 997465--997491 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
997455 AAAATAAAAA
997465 TAAAAGTATTT
1 TAAAAGTATTT
997476 TAAAAGTATTT
1 TAAAAGTATTT
997487 TAAAA
1 TAAAA
997492 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
TAAAAGTATTT
Found at i:1001417 original size:51 final size:51
Alignment explanation
Indices: 1001311--1001422 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
1001301 TACCCTTAAA
* * * * *
1001311 ATTTACACATTTTGTCAATTTGGTCCTGATTTAACAAATTTGGCTTGTAAC
1 ATTTACACATTTGGTCAATTTGATCCTGATTTAACAAATTTAGCCTGCAAC
* * *
1001362 ATTTACACATTTGGTCAATTTTATTCTGATTTAACAAATTTAGCACT-CAAT
1 ATTTACACATTTGGTCAATTTGATCCTGATTTAACAAATTTAGC-CTGCAAC
*
1001413 ATTTATACAT
1 ATTTACACAT
1001423 ATCATGTCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (51 bp):
ATTTACACATTTGGTCAATTTGATCCTGATTTAACAAATTTAGCCTGCAAC
Found at i:1003751 original size:73 final size:73
Alignment explanation
Indices: 1003640--1003776 Score: 256
Period size: 73 Copynumber: 1.9 Consensus size: 73
1003630 TTAAAAAAGG
**
1003640 GGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCGTTTAAAACTTGAGA
1 GGATCATGCCCAGTAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACTTGAGA
1003705 AAAAAAAA
66 AAAAAAAA
1003713 GGATCATGCCCAGTAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACTTGAG
1 GGATCATGCCCAGTAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACTTGAG
1003777 TTTGAAATGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (73 bp):
GGATCATGCCCAGTAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACTTGAGA
AAAAAAAA
Found at i:1004540 original size:3 final size:3
Alignment explanation
Indices: 1004532--1004602 Score: 92
Period size: 3 Copynumber: 24.0 Consensus size: 3
1004522 AAAGGTATAC
**
1004532 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A GCA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
1004579 AGTA ATA ATA AT- ACA ATA ATA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA
1004603 GTAGCAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
2 2 0.03
3 56 0.93
4 2 0.03
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1004611 original size:23 final size:23
Alignment explanation
Indices: 1004585--1004628 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1004575 AGCAAGTAAT
* *
1004585 AATAATACAATAATAATAGTAGC
1 AATAATAAAAAAATAATAGTAGC
*
1004608 AATATTAAAAAAATAATAGTA
1 AATAATAAAAAAATAATAGTA
1004629 AAAATAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (23 bp):
AATAATAAAAAAATAATAGTAGC
Found at i:1007089 original size:18 final size:19
Alignment explanation
Indices: 1007033--1007089 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
1007023 ATTATTTTTT
1007033 TTATGTTATTATCATTATACCA
1 TTAT-TTATTATCATTAT--CA
*
1007055 TTATTTATTATTATTAT-A
1 TTATTTATTATCATTATCA
1007073 TTATTTATTATCATTAT
1 TTATTTATTATCATTAT
1007090 TTCTATATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.52
21 12 0.36
22 4 0.12
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATTTATTATCATTATCA
Found at i:1007143 original size:24 final size:24
Alignment explanation
Indices: 1007115--1007181 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
1007105 CACACATTGT
1007115 TTTTTTATATAATATATATATGCA
1 TTTTTTATATAATATATATATGCA
* * *
1007139 TTTTTTATAT-A-GTATACACGCA
1 TTTTTTATATAATATATATATGCA
1007161 TTGTTTT-TATAATATATATAT
1 TT-TTTTATATAATATATATAT
1007182 ATATATGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 13 0.38
23 6 0.18
24 15 0.44
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (24 bp):
TTTTTTATATAATATATATATGCA
Found at i:1007176 original size:29 final size:28
Alignment explanation
Indices: 1007144--1007214 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
1007134 ATGCATTTTT
1007144 TATATA-GTATACACGCATTGTTTTTATAA
1 TATATACGTATACACGCATT-TTTTTAT-A
** * *
1007173 TATATATATATATATGCATTTTTTTATA
1 TATATACGTATACACGCATTTTTTTATA
1007201 TAGTATACGTATAC
1 TA-TATACGTATAC
1007215 CTGTATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 3 0.09
29 21 0.62
30 10 0.29
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (28 bp):
TATATACGTATACACGCATTTTTTTATA
Found at i:1007180 original size:50 final size:53
Alignment explanation
Indices: 1007104--1007208 Score: 164
Period size: 53 Copynumber: 2.0 Consensus size: 53
1007094 ATATTCATAC
1007104 ACACACATTGTTTTTT--TATATAATATATATATGCA-TTTTTTATATAGTAT
1 ACACACATTGTTTTTTAATATATAATATATATATGCATTTTTTTATATAGTAT
*
1007154 ACACGCATTGTTTTTATAATATAT-ATATATATATGCATTTTTTTATATAGTAT
1 ACACACATTGTTTTT-TAATATATAATATATATATGCATTTTTTTATATAGTAT
1007207 AC
1 AC
1007209 GTATACCTGT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
50 14 0.28
51 1 0.02
52 13 0.26
53 22 0.44
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (53 bp):
ACACACATTGTTTTTTAATATATAATATATATATGCATTTTTTTATATAGTAT
Found at i:1007200 original size:24 final size:24
Alignment explanation
Indices: 1007114--1007207 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 24
1007104 ACACACATTG
1007114 TTTTTTTATATAATATATATATGCA
1 TTTTTTTATAT-ATATATATATGCA
* * *
1007139 -TTTTTTATATA-GTATACACGCA
1 TTTTTTTATATATATATATATGCA
1007161 TTGTTTTTATAATATATATATATATATGCA
1 ---TTTTT-T--TATATATATATATATGCA
1007191 TTTTTTTATATAGTATA
1 TTTTTTTATATA-TATA
1007208 CGTATACCTG
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
22 8 0.15
23 1 0.02
24 16 0.30
25 4 0.07
26 5 0.09
27 6 0.11
29 6 0.11
30 8 0.15
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.54
Consensus pattern (24 bp):
TTTTTTTATATATATATATATGCA
Found at i:1007244 original size:6 final size:6
Alignment explanation
Indices: 1007233--1007269 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
1007223 ATTTTATACA
1007233 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
1007270 CCTAACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:1007843 original size:13 final size:14
Alignment explanation
Indices: 1007825--1007861 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
1007815 TTTTCAAATT
1007825 TACTTATATAT-TG
1 TACTTATATATATG
1007838 TACTTATATATATG
1 TACTTATATATATG
1007852 TA--TATATATA
1 TACTTATATATA
1007862 CATATTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 11 0.48
14 4 0.17
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (14 bp):
TACTTATATATATG
Found at i:1009208 original size:16 final size:18
Alignment explanation
Indices: 1009167--1009202 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1009157 ATAGACAACA
*
1009167 AAAACTTCACCAAAAACCC
1 AAAATTTCACCAAAAA-CC
1009186 AAAATTTCACCAAAAAC
1 AAAATTTCACCAAAAAC
1009203 AAATTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 1 0.06
19 15 0.94
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAATTTCACCAAAAACC
Found at i:1015532 original size:6 final size:6
Alignment explanation
Indices: 1015521--1015546 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1015511 CTTCTCTCCT
1015521 TTCCCC TTCCCC TTCCCC TTCCCC TT
1 TTCCCC TTCCCC TTCCCC TTCCCC TT
1015547 GGGTTGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:1018181 original size:19 final size:18
Alignment explanation
Indices: 1018139--1018184 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
1018129 ATATAATTGT
*
1018139 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
1018157 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
1018176 AATAATTTT
1 AATAATTTT
1018185 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:1018322 original size:21 final size:21
Alignment explanation
Indices: 1018298--1018349 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
1018288 CGTTGTTTCT
* *
1018298 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
1018319 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
1018340 AATCTCACCG
1 AATCTCACCG
1018350 ACACCGCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:1025381 original size:38 final size:38
Alignment explanation
Indices: 1025259--1025391 Score: 101
Period size: 38 Copynumber: 3.4 Consensus size: 38
1025249 GACCTCGAGT
* * *
1025259 CGATGAGACATTGGGTGTCACTATTTTACTTCGAA-TAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGAACT--ATC
* * * *
1025300 CGATGAGATACTGGGTATC-ACTTTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGAACTA-TC
* *
1025337 CAATGAGACACTGGGTGTCAACTTTGCTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGAACTATC
* *
1025375 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
1025392 CCAATTTGGT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
36 1 0.01
37 16 0.22
38 36 0.50
39 3 0.04
41 16 0.22
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGAACTATC
Found at i:1032923 original size:4 final size:4
Alignment explanation
Indices: 1032914--1032946 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1032904 AACACACTCC
1032914 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1032947 CGAACGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:1041270 original size:37 final size:36
Alignment explanation
Indices: 1041208--1041292 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 36
1041198 ATCAATGACA
* *
1041208 AGTGATAAGTGGTAGTTTAGCTACACTTATCTGATC
1 AGTGATAAGTGATAGTTTAGCTACACTTATCTCATC
*
1041244 AGTGATAAGTGATAGCTTTAGCTACACTTATCTCATT
1 AGTGATAAGTGATAG-TTTAGCTACACTTATCTCATC
1041281 AGTGATAAGTGA
1 AGTGATAAGTGA
1041293 CAAGTGATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 14 0.31
37 31 0.69
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (36 bp):
AGTGATAAGTGATAGTTTAGCTACACTTATCTCATC
Found at i:1041323 original size:51 final size:44
Alignment explanation
Indices: 1041194--1041436 Score: 254
Period size: 44 Copynumber: 5.6 Consensus size: 44
1041184 TTTGAATATT
1041194 TCTGATCAA-TGACAAGTGATAAGTGGTAG-TTTAGCTACACTTA
1 TCTGAT-AAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
1041237 TCTG---A-T--C-AGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
1041274 TCTCATTAGTGATAAGTGACAAGTGATAAGTTGTAGCTTTAGCTGCACTTA
1 --TC-----TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
1041325 TCTGATCAGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTA
1 TCTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
** *
1041368 TCTGATCGGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTA
1 TCTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
1041412 TCTAATTAGTGACAAGTGACAAGTG
1 TCTGATAAGTGACAAGTGATAAGTG
1041437 ATAAATGTGA
Statistics
Matches: 171, Mismatches: 13, Indels: 31
0.80 0.06 0.14
Matches are distributed among these distances:
36 14 0.08
37 15 0.09
39 4 0.02
43 45 0.26
44 61 0.36
47 1 0.01
48 1 0.01
49 2 0.01
50 1 0.01
51 27 0.16
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (44 bp):
TCTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:1041405 original size:87 final size:90
Alignment explanation
Indices: 1041194--1041436 Score: 295
Period size: 87 Copynumber: 2.8 Consensus size: 90
1041184 TTTGAATATT
* * *
1041194 TCTGATCAATGACAAGTGATAAGTGGTAG-TTTAGCTACACTTATCTGATCAGTGATAAGTGAT-
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
* *
1041257 AGCT-TTAGCTACACTTATCTCATTA
66 AG-TGGTAGCTACACTTATCACATTA
* * *
1041282 -GTGATAAGTGACAAGTGATAAGTTGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
*
1041346 AGTGGTAGCTTA-GC-TA-CAC-TTA
66 AGTGGTAGC-TACACTTATCACATTA
* * * *
1041368 TCTGATCGGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTAATTAGTGACAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
1041433 AGTG
66 AGTG
1041437 ATAAATGTGA
Statistics
Matches: 134, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
86 3 0.02
87 87 0.65
88 35 0.26
89 7 0.05
90 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (90 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
AGTGGTAGCTACACTTATCACATTA
Found at i:1042288 original size:31 final size:30
Alignment explanation
Indices: 1042253--1042313 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
1042243 CAAAAAAAAG
1042253 TTCAAACCCCAATATAAAAAAAATTATCTAA
1 TTCAAACCCCAATATAAAAAAAATTA-CTAA
* *
1042284 TTCAATCCCCAATATAAAAACAATTACTAA
1 TTCAAACCCCAATATAAAAAAAATTACTAA
1042314 ATTTAGGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (30 bp):
TTCAAACCCCAATATAAAAAAAATTACTAA
Found at i:1043505 original size:30 final size:31
Alignment explanation
Indices: 1043442--1043507 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
1043432 TTAGCTATTG
*
1043442 AACTTAACAATTATTCCCATATTGGGGGCTA
1 AACTTAACAATTATTCCCATATTAGGGGCTA
* **
1043473 AACTT-ACAATTATTCTCATATTAGGGTTTA
1 AACTTAACAATTATTCCCATATTAGGGGCTA
1043503 AACTT
1 AACTT
1043508 TAGAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (31 bp):
AACTTAACAATTATTCCCATATTAGGGGCTA
Found at i:1048337 original size:19 final size:19
Alignment explanation
Indices: 1048297--1048348 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
1048287 AAAATTACAA
* * *
1048297 AAAAATT-AAAATATTTAT
1 AAAAATTCAAAAAATCTAG
1048315 AAAAATTCAAAAAATCTAG
1 AAAAATTCAAAAAATCTAG
1048334 -AAAATTCTAAAAAAT
1 AAAAATTC-AAAAAAT
1048349 ATTTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATTCAAAAAATCTAG
Found at i:1060026 original size:48 final size:48
Alignment explanation
Indices: 1059968--1060062 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
1059958 TCTCTTAATG
* *
1059968 TACTCACAGTGCCATTTTCCGAGCCTATTTCTTTCTTCTCCAACCCAA
1 TACTCACAGTGCCATTTTCCGAACCTATCTCTTTCTTCTCCAACCCAA
* *
1060016 TACTCGCAGTGCCATTTTCCGAACTTATCTCTTTCTTCTCCAACCCA
1 TACTCACAGTGCCATTTTCCGAACCTATCTCTTTCTTCTCCAACCCA
1060063 CAACATATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.20, C:0.36, G:0.08, T:0.36
Consensus pattern (48 bp):
TACTCACAGTGCCATTTTCCGAACCTATCTCTTTCTTCTCCAACCCAA
Found at i:1061944 original size:58 final size:58
Alignment explanation
Indices: 1061865--1061987 Score: 219
Period size: 58 Copynumber: 2.1 Consensus size: 58
1061855 CTTGAAATTG
1061865 ATAAAATTAGAAAACCACTATTAAAAAACCCTAAAAAACTTAAAATAGAATCAACACC
1 ATAAAATTAGAAAACCACTATTAAAAAACCCTAAAAAACTTAAAATAGAATCAACACC
* **
1061923 ATAAAATTCGAAAACTGCTATTAAAAAACCCTAAAAAACTTAAAATAGAATCAACACC
1 ATAAAATTAGAAAACCACTATTAAAAAACCCTAAAAAACTTAAAATAGAATCAACACC
1061981 ATAAAAT
1 ATAAAAT
1061988 CTTACAGCCA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.58, C:0.18, G:0.04, T:0.20
Consensus pattern (58 bp):
ATAAAATTAGAAAACCACTATTAAAAAACCCTAAAAAACTTAAAATAGAATCAACACC
Found at i:1081774 original size:53 final size:52
Alignment explanation
Indices: 1081716--1081815 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 52
1081706 GGATAATAAA
* * *
1081716 AAAAATAAATTAAATAGTTAATGGACCATTTTTTAACTTTTCATAATTCAATT
1 AAAAATAAATT-AATAATTAATGGACCATTTTATAAATTTTCATAATTCAATT
** * **
1081769 AAAAATTCATTAATAATTAATTGATGATTTTATAAATTTTCATAATT
1 AAAAATAAATTAATAATTAATGGACCATTTTATAAATTTTCATAATT
1081816 GAGTGACTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
52 30 0.77
53 9 0.23
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (52 bp):
AAAAATAAATTAATAATTAATGGACCATTTTATAAATTTTCATAATTCAATT
Found at i:1089736 original size:13 final size:13
Alignment explanation
Indices: 1089718--1089742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1089708 CTGTAAAAAA
1089718 AAAAAAAACAAAC
1 AAAAAAAACAAAC
1089731 AAAAAAAACAAA
1 AAAAAAAACAAA
1089743 TAATATATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:1092667 original size:31 final size:31
Alignment explanation
Indices: 1092632--1092697 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
1092622 AACAATCTAG
* *
1092632 TGACTTAAATAAAAACTT-TCGAATAGTTCAA
1 TGACTTAAATAAAAAATTCT-GAATAATTCAA
1092663 TGACTTAAATAAAAAATTCTGAATAATTCAA
1 TGACTTAAATAAAAAATTCTGAATAATTCAA
1092694 TGAC
1 TGAC
1092698 CATTTTGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (31 bp):
TGACTTAAATAAAAAATTCTGAATAATTCAA
Found at i:1096686 original size:165 final size:167
Alignment explanation
Indices: 1096471--1096799 Score: 488
Period size: 165 Copynumber: 2.0 Consensus size: 167
1096461 AGCCAAAGGG
* * *
1096471 TCCCTTGGCTAAATAGAAAATTTCTTTATGGCTCCTCCTCGAAATTAAAAAA-ATTCAATTTAGT
1 TCCCTTGGCTAAATAGAAAATTTCTTTATAGCCCCTCCTCAAAATTAAAAAAGA-TCAATTTAGT
* *
1096535 -CTTTTTTAACCCTTGATTAAATAAAAAATTATAA-TTTATCCCTTTTG-AAAATTAATAATTTA
65 AC-TTTTTAACCCTTGATTAAATAAAAAAATATAATTTTAGCCCTTTTGAAAAATTAATAATTTA
*
1096597 ATTTAAAGTATTTTTAATACAAGAATTTTAGCTTTGCCC
129 ATTTAAAGCATTTTTAATACAAGAATTTTAGCTTTGCCC
* *
1096636 TCCCTTGGCTAAATGGAAAATTTTCTTTATATCCCCTCC-CAAAATTAAAAAAGATCAATTTAGT
1 TCCCTTGGCTAAATAGAAAA-TTTCTTTATAGCCCCTCCTCAAAATTAAAAAAGATCAATTTAGT
* *
1096700 ACTTTTTAATCTTTGATTAAATAAAAAAATATAATTTTAGCCCTTTTGAAAAATTAATAATTTAA
65 ACTTTTTAACCCTTGATTAAATAAAAAAATATAATTTTAGCCCTTTTGAAAAATTAATAATTTAA
* *
1096765 TTTAAAGCATTTTTAATGCAAGATTTTTAGCTTTG
130 TTTAAAGCATTTTTAATACAAGAATTTTAGCTTTG
1096800 GTCCCCCAAA
Statistics
Matches: 147, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
165 70 0.48
166 29 0.20
167 48 0.33
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (167 bp):
TCCCTTGGCTAAATAGAAAATTTCTTTATAGCCCCTCCTCAAAATTAAAAAAGATCAATTTAGTA
CTTTTTAACCCTTGATTAAATAAAAAAATATAATTTTAGCCCTTTTGAAAAATTAATAATTTAAT
TTAAAGCATTTTTAATACAAGAATTTTAGCTTTGCCC
Found at i:1100313 original size:92 final size:92
Alignment explanation
Indices: 1100156--1100342 Score: 374
Period size: 92 Copynumber: 2.0 Consensus size: 92
1100146 AGTAAATTGG
1100156 TACTTTCTATTAAAAATTTCATCTATTTCTACTATTAAAAATTGGCGTGGCTAATGGAATAACCA
1 TACTTTCTATTAAAAATTTCATCTATTTCTACTATTAAAAATTGGCGTGGCTAATGGAATAACCA
1100221 AACAGTTACACACGTGCACATCATTTT
66 AACAGTTACACACGTGCACATCATTTT
1100248 TACTTTCTATTAAAAATTTCATCTATTTCTACTATTAAAAATTGGCGTGGCTAATGGAATAACCA
1 TACTTTCTATTAAAAATTTCATCTATTTCTACTATTAAAAATTGGCGTGGCTAATGGAATAACCA
1100313 AACAGTTACACACGTGCACATCATTTT
66 AACAGTTACACACGTGCACATCATTTT
1100340 TAC
1 TAC
1100343 GTACAAAGAC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 95 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (92 bp):
TACTTTCTATTAAAAATTTCATCTATTTCTACTATTAAAAATTGGCGTGGCTAATGGAATAACCA
AACAGTTACACACGTGCACATCATTTT
Found at i:1102564 original size:27 final size:26
Alignment explanation
Indices: 1102516--1102566 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
1102506 TAGAATTAAT
*
1102516 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTAATCATCATTTGCTTTGTATA
1102542 TTGTTAATCAATCATATTG-TTTGTA
1 TTGTTAATC-ATCAT-TTGCTTTGTA
1102567 AGAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (26 bp):
TTGTTAATCATCATTTGCTTTGTATA
Found at i:1104269 original size:25 final size:25
Alignment explanation
Indices: 1104235--1104292 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
1104225 TGATCTTTTA
1104235 TGTTAAAATTTTTATTCATTTCTAC
1 TGTTAAAATTTTTATTCATTTCTAC
1104260 TGTTAAAATTTTTATTCATTTCTAC
1 TGTTAAAATTTTTATTCATTTCTAC
*
1104285 TATTAAAA
1 TGTTAAAA
1104293 ACTTGCATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.53
Consensus pattern (25 bp):
TGTTAAAATTTTTATTCATTTCTAC
Found at i:1116705 original size:60 final size:59
Alignment explanation
Indices: 1116579--1116768 Score: 236
Period size: 59 Copynumber: 3.2 Consensus size: 59
1116569 ATAAATATAG
* * * *
1116579 GTACTAAATTGAACCTAAAAAGAAGCTTAGGTACCAAATTAGAAAAAATATGTCAAGTTCAG
1 GTACCAAATTGAGCC-AAAAA-AAGTTTAGGTACCAAATTAG-AAAAATATGTCAAGTTCAA
* * *
1116641 GTACCAAATTGGGCACAAAAAAAGTTTAGGTATCAAATTAGAAAAATGTGTCAAGTTCAA
1 GTACCAAATTGAGC-CAAAAAAAGTTTAGGTACCAAATTAGAAAAATATGTCAAGTTCAA
* * * *
1116701 GTACCAAAATGAGCCAAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGTCAAATTTAA
1 GTACCAAATTGAGCCAAAAAAAGTTTAGGTACCAAATTAGAAAAATATGTCAAGTTCAA
*
1116760 GTATCAAAT
1 GTACCAAAT
1116769 ATTATATTAA
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
59 47 0.42
60 29 0.26
61 18 0.16
62 16 0.14
63 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (59 bp):
GTACCAAATTGAGCCAAAAAAAGTTTAGGTACCAAATTAGAAAAATATGTCAAGTTCAA
Found at i:1118125 original size:22 final size:22
Alignment explanation
Indices: 1118100--1118143 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1118090 AATAGTTAAC
1118100 TATTTGGACTAACTAATAACAT
1 TATTTGGACTAACTAATAACAT
1118122 TATTTGGACTAACTAATAACAT
1 TATTTGGACTAACTAATAACAT
1118144 GGGATGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (22 bp):
TATTTGGACTAACTAATAACAT
Found at i:1119979 original size:17 final size:17
Alignment explanation
Indices: 1119953--1119997 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1119943 CGAAATTTTA
*
1119953 AAATTAAAATTGATTAT
1 AAATTAAAATTAATTAT
*
1119970 AAATTTAAATTAATTATT
1 AAATTAAAATTAATTA-T
*
1119988 TAATTAAAAT
1 AAATTAAAAT
1119998 ATTCTACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATTAAAATTAATTAT
Found at i:1130256 original size:4 final size:4
Alignment explanation
Indices: 1130247--1130275 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1130237 CCATGTGGTC
1130247 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1130276 ATTAGGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:1143112 original size:3 final size:3
Alignment explanation
Indices: 1143104--1143176 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
1143094 ACATCCCATT
1143104 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1143152 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
1143177 CTTATTATTC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1143333 original size:22 final size:21
Alignment explanation
Indices: 1143285--1143333 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
1143275 ATAAAATCTT
*
1143285 ATATATGCATATACATATATA
1 ATATATGCATATACATACATA
* *
1143306 AGTATATGCATGTATATACATA
1 A-TATATGCATATACATACATA
1143328 CATATA
1 -ATATA
1143334 ATGTTTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.91
23 1 0.04
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (21 bp):
ATATATGCATATACATACATA
Found at i:1144282 original size:7 final size:7
Alignment explanation
Indices: 1144270--1144308 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
1144260 TATAAACTAC
1144270 AATATAT
1 AATATAT
1144277 AATATAT
1 AATATAT
1144284 AATATAT
1 AATATAT
1144291 AATATAT
1 AATATAT
1144298 AATATAT
1 AATATAT
1144305 AATA
1 AATA
1144309 AAATTATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AATATAT
Found at i:1144283 original size:21 final size:21
Alignment explanation
Indices: 1144259--1144308 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1144249 ATTAAAAATA
1144259 ATATAA-ACTACAATATATAAT
1 ATATAATA-TACAATATATAAT
*
1144280 ATATAATATATAATATATAAT
1 ATATAATATACAATATATAAT
1144301 ATATAATA
1 ATATAATA
1144309 AAATTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATATACAATATATAAT
Found at i:1144322 original size:14 final size:13
Alignment explanation
Indices: 1144253--1144323 Score: 63
Period size: 14 Copynumber: 5.2 Consensus size: 13
1144243 AATACCATTA
1144253 AAAATAATATAAACT
1 AAAAT-ATATAAA-T
*
1144268 ACAATATATAATAT
1 AAAATATATAA-AT
*
1144282 ATAATATATAATAT
1 AAAATATATAA-AT
*
1144296 ATAATATAT-AAT
1 AAAATATATAAAT
1144308 AAAATTATATAAAT
1 AAAA-TATATAAAT
1144322 AA
1 AA
1144324 TATTTTTTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
12 5 0.10
13 6 0.12
14 34 0.68
15 5 0.10
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:1145273 original size:3 final size:3
Alignment explanation
Indices: 1145265--1145299 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1145255 TAGTTTATCC
1145265 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1145300 TAAAAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1147808 original size:25 final size:24
Alignment explanation
Indices: 1147772--1147819 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
1147762 ACAGCAACTT
*
1147772 CAAAAAATAAAACAATTAATAAAC
1 CAAAAAATAAAACAATAAATAAAC
* *
1147796 CAAAAACTAAAAATAATAAATAAA
1 CAAAAAAT-AAAACAATAAATAAA
1147820 TAATCAGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (24 bp):
CAAAAAATAAAACAATAAATAAAC
Found at i:1150509 original size:75 final size:75
Alignment explanation
Indices: 1150397--1151441 Score: 996
Period size: 75 Copynumber: 14.0 Consensus size: 75
1150387 AACCAAACAC
* * * ** * * ** * * *
1150397 CTAAATTTCCCGAACCTGAACCCCAAGCTATATCTTGTGAACCCACTGCAATTGACGTTTTTGGT
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
1150462 AAACAGGCTT
66 AAACAGGCTT
* * ** ** *
1150472 CTAAATTTCCCGAGCCTGAACCTCAAGTGATGCCTTGTGAACCTGGTGGAATCAACATGTTTGGT
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
*
1150537 AAGC-GGCCTT
66 AAACAGG-CTT
* * * *
1150547 CTAAGTTTCCTGAACCTGAAACTCAA-CCGATGACTTGTGAACCTACTGGAATCAACATGTTCGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCC-ATGCCTTGTGAACCTACTGGAATCAACATGTTTGG
1150611 GAAACAGGCTT
65 GAAACAGGCTT
* * * * * *
1150622 CTAAATTTGCTGAACCTGAACCTCAAGGCATGCCTTGTGAACCTGCTGAAATCCACATGTTCGGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
*
1150687 AAGCAGGCTT
66 AAACAGGCTT
* * * * * * *
1150697 CTAAATTTGCTGAACCTGAACCACAAGGCATGCCTTGTGAACCTGCTGAAATCCACATGTTCGGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
*
1150762 AAGCAGGCTT
66 AAACAGGCTT
* * * * * * ** *
1150772 CTAAATTTGCTGAACCTGAACCTCGAGCCATACCTTGTGAACCCATTGGAATCGATGTGTTTGGA
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
1150837 AAACAGGCTT
66 AAACAGGCTT
* * * *
1150847 CTAAATTTCCCGAACCTGAACCTCTAGCCATGTAC-TGTGAACCTGCTGGAATCAACATGTTT-G
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATG-CCTTGTGAACCTACTGGAATCAACATGTTTGG
*
1150910 GAAAGCATGCTT
65 GAAA-CAGGCTT
* * * *
1150922 CTAAATTTCCTGAACCTGAAACTCAACCCATTCAC-TGTGAACCAACTGGAATCAACATGTTT-G
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGC-CTTGTGAACCTACTGGAATCAACATGTTTGG
1150985 GAAAGCAGGCTT
65 GAAA-CAGGCTT
* * *
1150997 CTAAATTTCCTGAACCTGAAACTCAACCCATGCAC-TGTGAACCAACTGGAATCAACAT-TTTCG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGC-CTTGTGAACCTACTGGAATCAACATGTTT-G
*
1151060 GGAAACAGGCTA
64 GGAAACAGGCTT
* * * * * *
1151072 CTAAATTTCCTGAACCCGAACCTCAAGCTATGCCTTGTGGACCAACAGGAATCAACATG-TTCGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
* *
1151136 AAAGCAGCCAT
66 AAA-CAGGCTT
* *
1151147 CTAAATTTCCTG-A-C----CCTCAAGCCATGCCTTGTGAATCC-ACTGGAATCAGCAAT-TTCG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAA-CCTACTGGAATCAAC-ATGTTTG
*
1151204 GGAAGCAGGCTT
64 GGAAACAGGCTT
* * * * **
1151216 CTAAATTTCCCGAACCTGAACTTCGAA-CCATGTCTTGCGAACCTACCAGAATCAACAT-TTTCG
1 CTAAATTTCCTGAACCTGAACCTC-AAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTT-G
*
1151279 GGAAACAAGCTT
64 GGAAACAGGCTT
* * * * *
1151291 CTAAATTTCCTGAACCTGAACCTCAAACTATACCTTGTGAACCCACTGGACTCAACATGTTTGGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
*
1151356 AAACAAGCTT
66 AAACAGGCTT
* * * * * *
1151366 CTAAGTTTCTTGAACCGGAACAC-CAAGCCATACCTTGTGAACCTACTGGACTCAACATGTTCGG
1 CTAAATTTCCTGAACCTGAAC-CTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGG
*
1151430 TAAACAGGCTT
65 GAAACAGGCTT
1151441 C
1 C
1151442 ATCTAGGCAA
Statistics
Matches: 820, Mismatches: 123, Indels: 54
0.82 0.12 0.05
Matches are distributed among these distances:
69 45 0.05
70 10 0.01
71 1 0.00
73 1 0.00
74 24 0.03
75 724 0.88
76 15 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (75 bp):
CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
AAACAGGCTT
Found at i:1158056 original size:30 final size:31
Alignment explanation
Indices: 1158002--1158059 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
1157992 ACTTTTACAT
*
1158002 TTATCGAATTCAAGGACCAAAATAAACTTAA
1 TTATCAAATTCAAGGACCAAAATAAACTTAA
* *
1158033 TTATCAAATTCAA-TACTAAAATAAACT
1 TTATCAAATTCAAGGACCAAAATAAACT
1158060 AAAATCAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (31 bp):
TTATCAAATTCAAGGACCAAAATAAACTTAA
Found at i:1158113 original size:76 final size:76
Alignment explanation
Indices: 1157987--1158140 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 76
1157977 GTATCACGTC
*
1157987 ATCAAACTTTTACATTTATCGAATTCAAGGACCAAAATAAACTTAATTATCAAATTCAATACTAA
1 ATCAAACTTTTACATTTATCGAATTCAAGGACCAAAATAAACCTAATTATCAAATTCAATACTAA
1158052 AATAAACTAAA
66 AATAAACTAAA
* *
1158063 ATCAAACTTTTACATTTGTCGAATTCAAGGACTAAAATAAACCTAATTATCAAATTCAATACTAA
1 ATCAAACTTTTACATTTATCGAATTCAAGGACCAAAATAAACCTAATTATCAAATTCAATACTAA
1158128 AATAAACTAAA
66 AATAAACTAAA
1158139 AT
1 AT
1158141 ATATATAGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.31
Consensus pattern (76 bp):
ATCAAACTTTTACATTTATCGAATTCAAGGACCAAAATAAACCTAATTATCAAATTCAATACTAA
AATAAACTAAA
Found at i:1160198 original size:9 final size:9
Alignment explanation
Indices: 1160169--1160205 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
1160159 TGAGTTTTTA
1160169 AATTCGAAT
1 AATTCGAAT
*
1160178 AACTCGAAT
1 AATTCGAAT
1160187 AATTCGAAT
1 AATTCGAAT
*
1160196 AATTCAAAT
1 AATTCGAAT
1160205 A
1 A
1160206 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:1160290 original size:29 final size:31
Alignment explanation
Indices: 1160257--1160314 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
1160247 CTTTTTTACT
1160257 TTTCT-CTCAAAACATTTACTCCT-TCCCAC
1 TTTCTCCTCAAAACATTTACTCCTCTCCCAC
*
1160286 TTTCTCCTCAAAACTTTTACTCCTCTCCC
1 TTTCTCCTCAAAACATTTACTCCTCTCCC
1160315 CTCCCCTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 17 0.65
31 4 0.15
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTCTCCTCAAAACATTTACTCCTCTCCCAC
Found at i:1163982 original size:174 final size:174
Alignment explanation
Indices: 1163670--1163985 Score: 392
Period size: 174 Copynumber: 1.8 Consensus size: 174
1163660 TCGTAATTTG
* *
1163670 CTTTGAATTGCTATTATTGCTTGCTTCTGCTTGACAAAACTCCTTCTTAACTGCCAACCACGGAA
1 CTTTGAATTACTATTATTGCTTGCTTCTGCTTGACAAAACTCCTTCTTAAATGCCAACCACGGAA
*
1163735 ATGACTTTGAATATTTGTTGCAGCAAATGTCTGATTTTGAAGAGATCTACAGACAAATTCCTTCT
66 ATGACTTTGAATATTTGTTGCAGCAAATGTCTGATTTTGAAGAGATCTACAAACAAATTCCTTCT
*
1163800 GAGCAATCTGAAAGGCCCGCCAACACTTCAGCCGTCGAAAATTA
131 CAGCAATCTGAAAGGCCCGCCAACACTTCAGCCGTCGAAAATTA
* * * * * * * *
1163844 CTTTGAATTATTATTATTTCTTGCTTCTGCTTTATAAAACTTC-TCTTCAAATGCCAAGCTCGGT
1 CTTTGAATTACTATTATTGCTTGCTTCTGCTTGACAAAACTCCTTCTT-AAATGCCAACCACGGA
* * * *
1163908 AATGGCTTTGAAT-TTTAGTTGCAGCATAA-GTCTG-TTTATGTAGATATCTGCAAACAAAGTT-
65 AATGACTTTGAATATTT-GTTGCAGCA-AATGTCTGATTT-TGAAGAGATCTACAAACAAA-TTC
1163969 CTTC-CATGCAATCTGAA
126 CTTCTCA-GCAATCTGAA
1163986 TCCTGCTTGC
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
173 11 0.09
174 105 0.88
175 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (174 bp):
CTTTGAATTACTATTATTGCTTGCTTCTGCTTGACAAAACTCCTTCTTAAATGCCAACCACGGAA
ATGACTTTGAATATTTGTTGCAGCAAATGTCTGATTTTGAAGAGATCTACAAACAAATTCCTTCT
CAGCAATCTGAAAGGCCCGCCAACACTTCAGCCGTCGAAAATTA
Found at i:1191124 original size:6 final size:6
Alignment explanation
Indices: 1191103--1191137 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1191093 TAGTTTCTAG
* *
1191103 TTCGGA TTCAGT TTCGGT TTCGGT TTCGGT TTCGG
1 TTCGGT TTCGGT TTCGGT TTCGGT TTCGGT TTCGG
1191138 AGTCTTCGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.06, C:0.17, G:0.31, T:0.46
Consensus pattern (6 bp):
TTCGGT
Found at i:1199422 original size:26 final size:27
Alignment explanation
Indices: 1199368--1199423 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
1199358 GTCAACAAAT
* *
1199368 AATTTAAAATTTATAAAAATATTTAAA
1 AATTCAAAATTCATAAAAATATTTAAA
1199395 AATTCAAAATTCA-AAAAATATTATAAA
1 AATTCAAAATTCATAAAAATATT-TAAA
1199422 AA
1 AA
1199424 AATTCATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (27 bp):
AATTCAAAATTCATAAAAATATTTAAA
Found at i:1199426 original size:22 final size:21
Alignment explanation
Indices: 1199400--1199445 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
1199390 TTAAAAATTC
1199400 AAAATTCAAAAAATATTATAAA
1 AAAATTCAAAAAATATTA-AAA
*
1199422 AAAATTCATAAAATATTAAAA
1 AAAATTCAAAAAATATTAAAA
1199443 AAA
1 AAA
1199446 TATAATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATTCAAAAAATATTAAAA
Found at i:1199447 original size:11 final size:11
Alignment explanation
Indices: 1199407--1199448 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1199397 TTCAAAATTC
1199407 AAAAAATATTA
1 AAAAAATATTA
*
1199418 TAAAAAA-ATTC
1 -AAAAAATATTA
*
1199429 ATAAAATATTA
1 AAAAAATATTA
1199440 AAAAAATAT
1 AAAAAATAT
1199449 AATATGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 5 0.20
11 14 0.56
12 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAAATATTA
Found at i:1216337 original size:11 final size:11
Alignment explanation
Indices: 1216321--1216346 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1216311 ATAATTTTTA
1216321 TTTTAAAATAC
1 TTTTAAAATAC
1216332 TTTTAAAATAC
1 TTTTAAAATAC
1216343 TTTT
1 TTTT
1216347 TTATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:1216366 original size:19 final size:19
Alignment explanation
Indices: 1216332--1216368 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1216322 TTTAAAATAC
**
1216332 TTTTAAAATACTTTTTTAT
1 TTTTAAAATAAATTTTTAT
1216351 TTTTAAAATAAATTTTTA
1 TTTTAAAATAAATTTTTA
1216369 GTGTTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAAATAAATTTTTAT
Found at i:1216375 original size:20 final size:19
Alignment explanation
Indices: 1216333--1216375 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1216323 TTAAAATACT
** *
1216333 TTTAAAATACTTTTTTATT
1 TTTAAAATAAATTTTTATG
1216352 TTTAAAATAAATTTTTAGTG
1 TTTAAAATAAATTTTTA-TG
1216372 TTTA
1 TTTA
1216376 TTAAAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTAAAATAAATTTTTATG
Found at i:1220374 original size:12 final size:12
Alignment explanation
Indices: 1220357--1220390 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1220347 CAGTCCGCCC
1220357 ATATTAATTTTT
1 ATATTAATTTTT
*
1220369 ATATTATTTTTT
1 ATATTAATTTTT
1220381 ATA-TAATTTT
1 ATATTAATTTT
1220391 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Done.