Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 75 of 322
Found at i:23913663 original size:43 final size:43
Alignment explanation
Indices: 23913615--23913726 Score: 215
Period size: 43 Copynumber: 2.6 Consensus size: 43
23913605 CCGACATTAT
23913615 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
23913658 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
23913701 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
23913727 TAATACCAGC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.29, C:0.34, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:23913773 original size:38 final size:38
Alignment explanation
Indices: 23913719--23913802 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
23913709 GGCACGAAGG
* * * *
23913719 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
*
23913757 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
23913795 CCCGAATA
1 CCCGAATA
23913803 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:23920060 original size:37 final size:37
Alignment explanation
Indices: 23920010--23920088 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
23920000 TTATTACGAA
* *
23920010 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
23920047 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
23920084 GTCTT
1 GTCTT
23920089 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:23920285 original size:47 final size:47
Alignment explanation
Indices: 23920209--23920334 Score: 180
Period size: 47 Copynumber: 2.7 Consensus size: 47
23920199 CTTCGGGACT
* * * * *
23920209 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGCCC
* * *
23920256 TGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGCCC
23920303 TATCACATATATACACTTTCACATTCATCACA
1 TATCACATATATACACTTTCACATTCATCACA
23920335 ACATCTATCA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGCCC
Found at i:23923862 original size:16 final size:15
Alignment explanation
Indices: 23923824--23923866 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
23923814 ATTTAAAAAT
* *
23923824 ATAAATTATAATTTG
1 ATAAATAATAATATG
23923839 ATAGAATAATAATAATG
1 ATA-AATAATAAT-ATG
23923856 ATAAATAATAA
1 ATAAATAATAA
23923867 ATATCTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 16 0.67
17 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
ATAAATAATAATATG
Found at i:23924008 original size:25 final size:27
Alignment explanation
Indices: 23923974--23924035 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 27
23923964 TGGCTTTAAT
*
23923974 TTAATTTAATTCATAATATGATATTTATAA
1 TTAA-TTAATTAATAATAT-AT-TTTATAA
23924004 TTAATTAATTTAATAATATATTTTATAA
1 TTAATTAA-TTAATAATATATTTTATAA
23924032 TTAA
1 TTAA
23924036 ATTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.37
29 6 0.20
30 13 0.43
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TTAATTAATTAATAATATATTTTATAA
Found at i:23924046 original size:24 final size:23
Alignment explanation
Indices: 23924005--23924059 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
23923995 TATTTATAAT
* **
23924005 TAATTAATTTAATAATATATTTTA
1 TAATTAAATTAATAATAT-TTACA
23924029 TAATTAAATT-ATATATATTTACA
1 TAATTAAATTAATA-ATATTTACA
23924052 TAATTAAA
1 TAATTAAA
23924060 ATCTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATTAAATTAATAATATTTACA
Found at i:23926756 original size:24 final size:21
Alignment explanation
Indices: 23926705--23926746 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23926695 TGTATGAGTT
23926705 TATATGATCATTTATTATGTC
1 TATATGATCATTTATTATGTC
23926726 TATATGATCATTTATTATGTC
1 TATATGATCATTTATTATGTC
23926747 AAGTGTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (21 bp):
TATATGATCATTTATTATGTC
Found at i:23934932 original size:19 final size:19
Alignment explanation
Indices: 23934904--23934948 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
23934894 AACATAAAAG
23934904 AAAA-GAATTAAATTGCTC
1 AAAACGAATTAAATTGCTC
23934922 AAAACGAATTAAATTGCTC
1 AAAACGAATTAAATTGCTC
23934941 AAAACGAA
1 AAAACGAA
23934949 AAAAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.22
Consensus pattern (19 bp):
AAAACGAATTAAATTGCTC
Found at i:23934954 original size:19 final size:19
Alignment explanation
Indices: 23934913--23934955 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
23934903 GAAAAGAATT
**
23934913 AAATTGCTCAAAACGAATT
1 AAATTGCTCAAAACGAAAA
23934932 AAATTGCTCAAAACGAAAA
1 AAATTGCTCAAAACGAAAA
23934951 AAATT
1 AAATT
23934956 ATAGGGACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (19 bp):
AAATTGCTCAAAACGAAAA
Found at i:23935378 original size:41 final size:41
Alignment explanation
Indices: 23935332--23935477 Score: 116
Period size: 41 Copynumber: 3.5 Consensus size: 41
23935322 GGAGCAGTAT
23935332 TAGTGGCGTTTTTCCCATAAACATCGTAAAAGGTAAAGCAA
1 TAGTGGCGTTTTTCCCATAAACATCGTAAAAGGTAAAGCAA
* *** * * ***
23935373 TAGTGGCGTTTTT-GCATAAATGCCGCAAAAGTTTAGAAATTA
1 TAGTGGCGTTTTTCCCATAAACATCGTAAAAG-GTA-AAGCAA
* * *
23935415 TAATGGTGTTTTTCTCATAAACATCGCT-AAAGGTAAAGCAA
1 TAGTGGCGTTTTTCCCATAAACATCG-TAAAAGGTAAAGCAA
* * *
23935456 TAGCGGCATTTTGCCCATAAAC
1 TAGTGGCGTTTTTCCCATAAAC
23935478 GCTGCAAATA
Statistics
Matches: 75, Mismatches: 26, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
40 13 0.17
41 34 0.45
42 16 0.21
43 12 0.16
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (41 bp):
TAGTGGCGTTTTTCCCATAAACATCGTAAAAGGTAAAGCAA
Found at i:23936892 original size:25 final size:25
Alignment explanation
Indices: 23936862--23936913 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
23936852 ATGAAAAGTT
*
23936862 ATTAAATGACAAAGAAAACAATTTC
1 ATTAAATGAAAAAGAAAACAATTTC
*
23936887 ATTAAATGAAAAAGAAAACAGTTTC
1 ATTAAATGAAAAAGAAAACAATTTC
23936912 AT
1 AT
23936914 ATCATCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.25
Consensus pattern (25 bp):
ATTAAATGAAAAAGAAAACAATTTC
Found at i:23940549 original size:21 final size:21
Alignment explanation
Indices: 23940498--23940543 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
23940488 TTTATTATAT
23940498 AGATTGAGAAAAATGTGATTC
1 AGATTGAGAAAAATGTGATTC
*
23940519 GGATTGAGAAAAATGTGATTC
1 AGATTGAGAAAAATGTGATTC
23940540 AGAT
1 AGAT
23940544 CTAGAACGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.28
Consensus pattern (21 bp):
AGATTGAGAAAAATGTGATTC
Found at i:23940840 original size:42 final size:41
Alignment explanation
Indices: 23940790--23940946 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 41
23940780 GGATTACTGG
23940790 GATATGAGATTCGTGTAAGACCATATCTAGGACATTGGCATC
1 GATATGAGATTCGTGTAAGACCATATCT-GGACATTGGCATC
* *
23940832 -ATAATGAGATTCGTGTAAGTCCATGTCTGGGACATTGGCATC
1 GAT-ATGAGATTCGTGTAAGACCATATCT-GGACATTGGCATC
* *
23940874 GATATGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATC
1 GATATGAGATTCGTGTAAGACCATATCTGGAC-ATTGGCATC
* * *
23940916 GATAT-ACTATAACATGTAAGACCATATCTGG
1 GATATGA-GAT-TCGTGTAAGACCATATCTGG
23940947 GATATGGCAT
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 6 0.06
42 74 0.75
43 19 0.19
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (41 bp):
GATATGAGATTCGTGTAAGACCATATCTGGACATTGGCATC
Found at i:23940947 original size:43 final size:42
Alignment explanation
Indices: 23940790--23940964 Score: 146
Period size: 42 Copynumber: 4.2 Consensus size: 42
23940780 GGATTACTGG
* * *
23940790 GATATGAGATTCGTGTAAGACCATATCTAGGAC-ATTGGCATC
1 GATATGAGATACATGTAAGACCATATCT-GGGCTATTGGCATC
* * * *
23940832 -ATAATGAGATTCGTGTAAGTCCATGTCTGGGAC-ATTGGCATC
1 GAT-ATGAGATACATGTAAGACCATATCTGGG-CTATTGGCATC
* * *
23940874 GATATGAGATTCGTGTAAGACCATAGCTGGGCTATTGGCATC
1 GATATGAGATACATGTAAGACCATATCTGGGCTATTGGCATC
* * *
23940916 GATAT-ACTATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 GATATGA-GAT-ACATGTAAGACCATATCTGGGCTATTGGCATC
23940958 G-TATGAG
1 GATATGAG
23940965 TTATATGAGA
Statistics
Matches: 113, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
41 9 0.08
42 82 0.73
43 22 0.19
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GATATGAGATACATGTAAGACCATATCTGGGCTATTGGCATC
Found at i:23940955 original size:84 final size:84
Alignment explanation
Indices: 23940790--23940964 Score: 198
Period size: 84 Copynumber: 2.1 Consensus size: 84
23940780 GGATTACTGG
* * * *
23940790 GATATGAGATTCGTGTAAGACCATATCTAGGACATTGGCATCATAATGAGATTCGTGTAAGTCCA
1 GATATGAGATTCGTGTAAGACCATAGCTAGGACATTGGCATCATAATGAGATACATGTAAGACCA
*
23940855 TGTCTGGGACATTGGCATC
66 TATCTGGGACATTGGCATC
* *
23940874 GATATGAGATTCGTGTAAGACCATAGCT-GGGCTATTGGCATCGAT-AT-ACTATAACATGTAAG
1 GATATGAGATTCGTGTAAGACCATAGCTAGGAC-ATTGGCATC-ATAATGA-GAT-ACATGTAAG
* *
23940936 ACCATATCTGGGATA-TGGCATT
62 ACCATATCTGGGACATTGGCATC
23940958 G-TATGAG
1 GATATGAG
23940965 TTATATGAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
83 10 0.13
84 47 0.60
85 21 0.27
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (84 bp):
GATATGAGATTCGTGTAAGACCATAGCTAGGACATTGGCATCATAATGAGATACATGTAAGACCA
TATCTGGGACATTGGCATC
Found at i:23959861 original size:47 final size:47
Alignment explanation
Indices: 23959810--23959985 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
23959800 TTAGGATTCT
* * *
23959810 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
23959857 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
23959904 ATGTGAAGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
23959951 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
23959986 TCCCGAGGGG
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
46 1 0.01
47 112 0.99
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:23960154 original size:37 final size:37
Alignment explanation
Indices: 23960104--23960246 Score: 196
Period size: 37 Copynumber: 3.9 Consensus size: 37
23960094 CCGAGCTCTA
* *
23960104 AAGACCCGATGACTACGTGTGGAGATTACGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTCGTCCGGGT
* ** *
23960141 AAGACCCGATGACTACGTGTGGAGATTTTTTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTCGTCCGGGT
* *
23960178 AAGACCCGATAACTTCGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTCGTCCGGGT
**
23960215 AAGACCCGATAACTTTGTGTGGAGATTTCGTC
1 AAGACCCGATAACTACGTGTGGAGATTTCGTC
23960247 TGAGCTAAAG
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTTCGTCCGGGT
Found at i:23961723 original size:28 final size:28
Alignment explanation
Indices: 23961688--23961753 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
23961678 CGTGTCTATG
23961688 GCCCGTGTCCCTCACACGGCCATGACAC
1 GCCCGTGTCCCTCACACGGCCATGACAC
* *
23961716 GCCTGTGTCGCTCACACGGCCATGACAC
1 GCCCGTGTCCCTCACACGGCCATGACAC
23961744 GCCCGTGTCC
1 GCCCGTGTCC
23961754 TAGCCCGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.15, C:0.44, G:0.24, T:0.17
Consensus pattern (28 bp):
GCCCGTGTCCCTCACACGGCCATGACAC
Found at i:23963030 original size:46 final size:47
Alignment explanation
Indices: 23962849--23963106 Score: 153
Period size: 46 Copynumber: 5.5 Consensus size: 47
23962839 CGACGCTATA
* * *
23962849 TCCTAGACATGGTCTTACTCTGGCTCTCACATCTC-CGTG-TCGATGCCATG
1 TCCTAGAAAT-GTCTTACACTGGCTCT-ACATCTCAAG-GCT-GATG-CATG
* * *
23962899 TCCCAGAAATGGTCTTACACT-G-AC-ACATCTCATA-GCCGATGCATG
1 TCCTAGAAAT-GTCTTACACTGGCTCTACATCTCA-AGGCTGATGCATG
* *
23962944 TCCTAGACATGTCTTACACTGGCT-TACATCTCGAGGCTGATGCATG
1 TCCTAGAAATGTCTTACACTGGCTCTACATCTCAAGGCTGATGCATG
* ** **
23962990 TCCTAGAAATGTCTTACACTAGCTCT-TGTCTCAATTCTGATGCCATG
1 TCCTAGAAATGTCTTACACTGGCTCTACATCTCAAGGCTGATG-CATG
* ** **
23963037 TTCC-A-AACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCAATGCATG
1 -TCCTAGAA-AT-GTCTTACACTGGCTCTACAT-CTCAAGGCTGATGCATG
*
23963084 TCCTAGACATGTCTTACACTGGC
1 TCCTAGAAATGTCTTACACTGGC
23963107 GCACAAATGA
Statistics
Matches: 164, Mismatches: 29, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
44 10 0.06
45 14 0.09
46 80 0.49
47 15 0.09
48 25 0.15
49 2 0.01
50 18 0.11
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (47 bp):
TCCTAGAAATGTCTTACACTGGCTCTACATCTCAAGGCTGATGCATG
Found at i:23967041 original size:40 final size:40
Alignment explanation
Indices: 23967004--23967227 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
23966994 GCTACTCGTT
*
23967004 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
23967044 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
23967084 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
23967123 CAAATGCCTTTGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23967162 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23967203 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23967228 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 69 0.43
40 78 0.48
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23971417 original size:30 final size:31
Alignment explanation
Indices: 23971368--23971429 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
23971358 AAATAGAAAC
23971368 TAAAAATCAAACAAAAAAACCCACAAATCAT
1 TAAAAATCAAACAAAAAAACCCACAAATCAT
*
23971399 TAAAAATCAAAC-AAAAAACCCATAAATCAT
1 TAAAAATCAAACAAAAAAACCCACAAATCAT
23971429 T
1 T
23971430 CAAGAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 18 0.60
31 12 0.40
ACGTcount: A:0.63, C:0.21, G:0.00, T:0.16
Consensus pattern (31 bp):
TAAAAATCAAACAAAAAAACCCACAAATCAT
Found at i:23973776 original size:11 final size:10
Alignment explanation
Indices: 23973735--23973780 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
23973725 GATATTGTAG
23973735 AAAAA-TATT
1 AAAAATTATT
*
23973744 -AAACTTATT
1 AAAAATTATT
*
23973753 AAAAATTAAT
1 AAAAATTATT
23973763 AAAAATTATT
1 AAAAATTATT
*
23973773 TAAAATTA
1 AAAAATTA
23973781 AAATAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
8 3 0.10
9 4 0.13
10 23 0.77
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTATT
Found at i:23973788 original size:20 final size:21
Alignment explanation
Indices: 23973738--23973788 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
23973728 ATTGTAGAAA
*
23973738 AATATTAAACTTATTAAAAATT
1 AATAATAAA-TTATTAAAAATT
*
23973760 AATAA-AAATTATTTAAAATT
1 AATAATAAATTATTAAAAATT
23973780 AA-AATAAAT
1 AATAATAAAT
23973789 ATTCAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 17 0.65
21 3 0.12
22 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATAAATTATTAAAAATT
Found at i:23974790 original size:21 final size:21
Alignment explanation
Indices: 23974746--23974790 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
23974736 AAAAAAACAC
*
23974746 AAACTTAAAATTAAAATTCTA
1 AAACTTAAAATTAAAATTCAA
*
23974767 AAAC-TAAAATTTAAATTTCAA
1 AAACTTAAAA-TTAAAATTCAA
23974788 AAA
1 AAA
23974791 ATACAAGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (21 bp):
AAACTTAAAATTAAAATTCAA
Found at i:23984280 original size:3 final size:3
Alignment explanation
Indices: 23984274--23984307 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
23984264 GTTTATTATT
*
23984274 ATC ATC ATC ATC ATC ATC ATC ATC ACC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
23984308 CCATATCTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (3 bp):
ATC
Found at i:23984308 original size:9 final size:9
Alignment explanation
Indices: 23984274--23984311 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
23984264 GTTTATTATT
*
23984274 ATCATCATC
1 ATCATCACC
*
23984283 ATCATCATC
1 ATCATCACC
23984292 ATCATCACC
1 ATCATCACC
23984301 ATCATCACC
1 ATCATCACC
23984310 AT
1 AT
23984312 ATCTGCGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (9 bp):
ATCATCACC
Found at i:23993559 original size:49 final size:49
Alignment explanation
Indices: 23993502--23994417 Score: 1723
Period size: 49 Copynumber: 18.8 Consensus size: 49
23993492 CGTAATGGCT
23993502 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993551 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993600 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993649 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993698 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993747 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993796 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993845 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993894 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993943 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23993992 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23994041 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23994090 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23994139 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23994188 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23994237 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
23994286 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
* * * * * *
23994335 GATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGTCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
* * *
23994382 AACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
23994418 TCCCGAAGGG
Statistics
Matches: 854, Mismatches: 11, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
47 46 0.05
48 1 0.00
49 807 0.94
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.30
Consensus pattern (49 bp):
GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCC
Found at i:23995845 original size:45 final size:45
Alignment explanation
Indices: 23995742--23996195 Score: 718
Period size: 45 Copynumber: 10.2 Consensus size: 45
23995732 CCGAATTCAT
* *
23995742 TCACCGGCATT-TTGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATA
*
23995784 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
* *
23995829 TCACCGGCATTATAGCCTGCTAGGCTCAAATGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
*
23995874 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
* *
23995919 TCACCGGCATTATAGCCTGCTAGGCTCAAATGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
*
23995964 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
* *
23996009 TCACCGGCATTATAGCCTGCTAGGCTCAAATGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
* *
23996054 TCACCGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGTATG
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
* *
23996099 TCACCGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGTATG
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
* *
23996144 TCACCGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGTATG
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
23996189 TCACCGG
1 TCACCGG
23996196 AAAGGCCCGA
Statistics
Matches: 387, Mismatches: 21, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
42 11 0.03
43 17 0.04
44 5 0.01
45 353 0.91
46 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
Found at i:23996200 original size:25 final size:25
Alignment explanation
Indices: 23996172--23996220 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
23996162 GCTAGGCTTG
*
23996172 AAGGCCCGAATAGTATGTCACCGGA
1 AAGGCCCGAATAGTATATCACCGGA
23996197 AAGGCCCGAATAGTATATCACCGG
1 AAGGCCCGAATAGTATATCACCGG
23996221 CATTATAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.16
Consensus pattern (25 bp):
AAGGCCCGAATAGTATATCACCGGA
Found at i:23997101 original size:25 final size:25
Alignment explanation
Indices: 23997073--23997168 Score: 124
Period size: 25 Copynumber: 3.8 Consensus size: 25
23997063 GTAACTTATT
*
23997073 CGGAAATGA-TAAGGGAAAATTTAAC
1 CGGAAAT-ATTAAGAGAAAATTTAAC
23997098 CGGAAATATTAAGAGAAAATTTAAC
1 CGGAAATATTAAGAGAAAATTTAAC
* *
23997123 CGGAATTATTAAGAGCAAATTTAAC
1 CGGAAATATTAAGAGAAAATTTAAC
*
23997148 C-GAAATTATTAAGAGCAAATT
1 CGGAAA-TATTAAGAGAAAATT
23997169 ATCAAGCTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
24 4 0.06
25 61 0.94
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (25 bp):
CGGAAATATTAAGAGAAAATTTAAC
Found at i:23997169 original size:14 final size:14
Alignment explanation
Indices: 23997126--23997170 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
23997116 ATTTAACCGG
23997126 AATTATTAAGAGCA
1 AATTATTAAGAGCA
**
23997140 AA-T-TTAACCG-A
1 AATTATTAAGAGCA
23997151 AATTATTAAGAGCA
1 AATTATTAAGAGCA
23997165 AATTAT
1 AATTAT
23997171 CAAGCTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 3 0.12
12 6 0.25
13 6 0.25
14 9 0.38
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (14 bp):
AATTATTAAGAGCA
Found at i:24003647 original size:45 final size:45
Alignment explanation
Indices: 24003549--24003814 Score: 351
Period size: 45 Copynumber: 6.0 Consensus size: 45
24003539 CCGAATTTAT
* * * *
24003549 TCACCGACATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATA
** *
24003591 TCACCGGCATTATAGCCTGCTAGGCTTGAAGGCCCGAATAGTATG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
* *
24003636 TCACCGGCATTATAGCCTGCTAGGCTCAAATGCCTGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
* * * *
24003681 TCACCGTCATTATAGCCTGCTAGGCTCGAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
*
24003726 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
* *
24003771 TCACTGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
24003815 TGTATGATAT
Statistics
Matches: 199, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
42 10 0.05
43 16 0.08
44 5 0.03
45 167 0.84
46 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
Found at i:24004662 original size:25 final size:25
Alignment explanation
Indices: 24004633--24004728 Score: 124
Period size: 25 Copynumber: 3.8 Consensus size: 25
24004623 GTAACTTATT
*
24004633 CGGAAATGA-TAAGGGCAAATTTAAC
1 CGGAAAT-ATTAAGAGCAAATTTAAC
* *
24004658 TGGAAATATTAAGAGAAAATTTAAC
1 CGGAAATATTAAGAGCAAATTTAAC
*
24004683 CGGAATTATTAAGAGCAAATTTAAC
1 CGGAAATATTAAGAGCAAATTTAAC
24004708 C-GAAATTATTAAGAGCAAATT
1 CGGAAA-TATTAAGAGCAAATT
24004729 ATCAAGCTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
24 4 0.06
25 58 0.94
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (25 bp):
CGGAAATATTAAGAGCAAATTTAAC
Found at i:24004729 original size:14 final size:14
Alignment explanation
Indices: 24004686--24004730 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
24004676 ATTTAACCGG
24004686 AATTATTAAGAGCA
1 AATTATTAAGAGCA
**
24004700 AA-T-TTAACCG-A
1 AATTATTAAGAGCA
24004711 AATTATTAAGAGCA
1 AATTATTAAGAGCA
24004725 AATTAT
1 AATTAT
24004731 CAAGCTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 3 0.12
12 6 0.25
13 6 0.25
14 9 0.38
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (14 bp):
AATTATTAAGAGCA
Found at i:24007069 original size:46 final size:48
Alignment explanation
Indices: 24006965--24007280 Score: 239
Period size: 46 Copynumber: 6.7 Consensus size: 48
24006955 ACATTATAAG
* * * * *
24006965 AGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGATG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTAGAGATGTA
* *
24007012 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTAGGGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTAGAGATGTA
*
24007059 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTA-GAGATGTA
* * * *
24007104 -GCCAGTGTAAGACCAAGTCTGGGACATGGCATCGGCACGTATAGAGGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACCTAGAGATGTA
* * * * *
24007152 -GTCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCT-CA-ATTTCGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTAGAGATGT--A
* * * * *
24007199 TAGTCAGTGTAAGACCATGTTTGGGACATGCCATTGA-CTTGATGGATG--
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTAGA--GATGTA
*
24007247 AGCCCGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
24007281 AACATTATAC
Statistics
Matches: 219, Mismatches: 33, Indels: 33
0.77 0.12 0.12
Matches are distributed among these distances:
44 14 0.06
45 18 0.08
46 57 0.26
47 44 0.20
48 48 0.22
49 36 0.16
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTAGAGATGTA
Found at i:24007216 original size:49 final size:47
Alignment explanation
Indices: 24007017--24007279 Score: 166
Period size: 48 Copynumber: 5.6 Consensus size: 47
24007007 GATGAGAGCT
* * ** *
24007017 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-CTAGGGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACTCAATCGATG--AGTC
* * * *
24007063 AGTGTAAGA-CATGTCTGGGACAT-GCA-TCAGCTACGA--GATGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGA-CT-CAATCGATGAGTC
* * * * * * * *
24007107 AGTGTAAGACCAAGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACTC-AATCGATGAGTC
*
24007155 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCAATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATT-GACTCAA--TCGATGAGTC
* * ** * *
24007204 AGTGTAAGACCATGTTTGGGACATGCCATTGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGACTCAATCGATGAGTC
*
24007251 CGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
24007280 CAACATTATA
Statistics
Matches: 174, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
44 12 0.07
45 15 0.09
46 40 0.23
47 29 0.17
48 41 0.24
49 34 0.20
50 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGACTCAATCGATGAGTC
Found at i:24009874 original size:44 final size:41
Alignment explanation
Indices: 24009805--24009949 Score: 130
Period size: 42 Copynumber: 3.4 Consensus size: 41
24009795 TGTGATTTCG
* * ** *
24009805 TGTAAGACCACGTCTGGGATGTTGGCATCGACTTCTGTTTTACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGA-TT-TG-TTTACA
24009849 TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTT-CA
1 TGTAAGACCATGTCTAGGACATTGGCATCG-ATTTG-TTTACA
* * * * *
24009891 TGTAAGACCCTGTTTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCGA--TTTGTTTACA
24009934 TGTAAGACCATGTCTA
1 TGTAAGACCATGTCTA
24009950 AGAAAATGAA
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.35
43 24 0.29
44 28 0.34
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATTTGTTTACA
Found at i:24009911 original size:42 final size:42
Alignment explanation
Indices: 24009797--24009948 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
24009787 TTCCGTTATG
* **
24009797 TGATTTCGTGTAAGACCAC-GTCTGGGATGTTGGCATCG-ACTT
1 TGATTTCATGTAAGACC-CTGTCTGGGACATTGGCATCGTA-TT
* * * *
24009839 CTGTTTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
1 -TGATTT-CATGTAAGACCCTGTCTGGGACATTGGCATCGTATT
* * *
24009883 TGATTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGATGTT
1 TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCG-TATT
* *
24009926 TGATTACATGTAAGACCATGTCT
1 TGATTTCATGTAAGACCCTGTCT
24009949 AAGAAAATGA
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 27 0.30
43 33 0.37
44 29 0.32
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (42 bp):
TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCGTATT
Found at i:24009941 original size:43 final size:42
Alignment explanation
Indices: 24009844--24009949 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
24009834 GACTTCTGTT
* *
24009844 TTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGA
* * * * *
24009886 TTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGATGTTTGA
1 TTACATGTAAGACCATGTCTAGGACAGTGGCATCG-TATTTGA
24009929 TTACATGTAAGACCATGTCTA
1 TTACATGTAAGACCATGTCTA
24009950 AGAAAATGAA
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 29 0.56
43 23 0.44
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGA
Found at i:24010553 original size:23 final size:22
Alignment explanation
Indices: 24010522--24010565 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
24010512 TGAATCATAT
*
24010522 GTTTAGGTATGATTTTAGTTTAA
1 GTTTAGGTATGAATTTA-TTTAA
*
24010545 GTTTTGGTATGAATTTATTTA
1 GTTTAGGTATGAATTTATTTA
24010566 TGAATTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (22 bp):
GTTTAGGTATGAATTTATTTAA
Found at i:24018269 original size:43 final size:41
Alignment explanation
Indices: 24018157--24018306 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 41
24018147 CAATGCCAAC
* * *
24018157 GTCCCAGACGTGGTCTTACA-TGTAATCAAATATCGATGCCATT
1 GTCCCAGACATGGTCTTACACT-AAATCAAATA-CGATG-CAAT
* * * *
24018200 GTCCCAGATAGGGTCTTACACGAAATCAAATACGATGTCGAT
1 GTCCCAGACATGGTCTTACACTAAATCAAATACGATG-CAAT
* *
24018242 GTCTCAGACATGGTCTTACACATAAATCATAGGT-CGATGCCAAT
1 GTCCCAGACATGGTCTTACAC-TAAATCA-A-ATACGATG-CAAT
*
24018286 ATCCCAGACATGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
24018307 GAAAACACAT
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
42 25 0.29
43 32 0.37
44 28 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACTAAATCAAATACGATGCAAT
Found at i:24018840 original size:29 final size:27
Alignment explanation
Indices: 24018807--24018861 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
24018797 ATTTCATTTA
* *
24018807 TTTCATATTTTAGTCCCATAATTTCTCAT
1 TTTCATAGTTTAG-CCCA-AATTACTCAT
24018836 TTTCATAGTTTAGCCCAAATTACTCA
1 TTTCATAGTTTAGCCCAAATTACTCA
24018862 AATTCATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 4 0.17
29 12 0.50
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTCATAGTTTAGCCCAAATTACTCAT
Found at i:24018867 original size:27 final size:29
Alignment explanation
Indices: 24018808--24018868 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
24018798 TTTCATTTAT
* * **
24018808 TTCATATTTTAGTCCCATAATTTCTCATT
1 TTCATAGTTTAGTCCCATAATTACTCAAA
24018837 TTCATAGTTTAG-CCCA-AATTACTCAAA
1 TTCATAGTTTAGTCCCATAATTACTCAAA
24018864 TTCAT
1 TTCAT
24018869 CAAAAATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 13 0.46
28 4 0.14
29 11 0.39
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (29 bp):
TTCATAGTTTAGTCCCATAATTACTCAAA
Found at i:24027000 original size:20 final size:20
Alignment explanation
Indices: 24026963--24027000 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24026953 GATTTCTATA
*
24026963 AAAATTAATTTTGACAAAGT
1 AAAATTAATATTGACAAAGT
24026983 AAAATTAA-ATTGATCAAA
1 AAAATTAATATTGA-CAAA
24027001 TTAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (20 bp):
AAAATTAATATTGACAAAGT
Found at i:24027495 original size:24 final size:24
Alignment explanation
Indices: 24027468--24027534 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 24
24027458 TTAATATTAA
24027468 ATTAAATTTAATATTTATCTAGAT
1 ATTAAATTTAATATTTATCTAGAT
* * *
24027492 ATT-AATATGAGA--TAT-TA-A-
1 ATTAAATTTAATATTTATCTAGAT
24027510 ATTAAATTTAATATTTATCTAGAT
1 ATTAAATTTAATATTTATCTAGAT
24027534 A
1 A
24027535 ATATTTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
18 3 0.10
19 7 0.23
20 2 0.06
21 6 0.19
22 2 0.06
23 7 0.23
24 4 0.13
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (24 bp):
ATTAAATTTAATATTTATCTAGAT
Found at i:24029604 original size:42 final size:41
Alignment explanation
Indices: 24029501--24029607 Score: 99
Period size: 42 Copynumber: 2.6 Consensus size: 41
24029491 ACATCGATTT
* * * * * **
24029501 CATATCCTAGATATGGTCTTATACGAATTCTCATTTTGACC
1 CATATCCCAGAGATGGTCTTACACGAAATCTCATATCAACC
* *
24029542 CTATGTCCCAGACG-TAGTCTTACACGAAATCTCATATCAACGC
1 C-ATATCCCAGA-GATGGTCTTACACGAAATCTCATATCAAC-C
24029585 CATATCCCAGAGATGGTCTTACA
1 CATATCCCAGAGATGGTCTTACA
24029608 TGATAACTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.04
42 47 0.92
43 2 0.04
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (41 bp):
CATATCCCAGAGATGGTCTTACACGAAATCTCATATCAACC
Found at i:24039384 original size:28 final size:28
Alignment explanation
Indices: 24039300--24039413 Score: 122
Period size: 28 Copynumber: 4.0 Consensus size: 28
24039290 TACCTGTATC
* * *
24039300 TGGCCCATTAAGCGCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* **
24039328 TGGCCCATTAGACCCAAATCACCGGT-ATA
1 TGGCCCATTAGGCCC-AATCA-CATTCATA
*
24039357 TGGCCCATTAGGCCCAATCACATTTATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
24039385 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
24039413 T
1 T
24039414 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 2 0.03
28 46 0.65
29 22 0.31
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:24039643 original size:8 final size:8
Alignment explanation
Indices: 24039626--24039666 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
24039616 AGCCAAACTG
*
24039626 TCGGCTTT
1 TCGGCATT
24039634 TCGGCATT
1 TCGGCATT
24039642 TCGGCATT
1 TCGGCATT
**
24039650 TTAGCATT
1 TCGGCATT
24039658 TCGGCATT
1 TCGGCATT
24039666 T
1 T
24039667 TGGCTTTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (8 bp):
TCGGCATT
Found at i:24039656 original size:16 final size:16
Alignment explanation
Indices: 24039637--24039667 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24039627 CGGCTTTTCG
24039637 GCATTTCGGCATTTTA
1 GCATTTCGGCATTTTA
24039653 GCATTTCGGCATTTT
1 GCATTTCGGCATTTT
24039668 GGCTTTTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (16 bp):
GCATTTCGGCATTTTA
Found at i:24048838 original size:40 final size:40
Alignment explanation
Indices: 24048781--24048878 Score: 151
Period size: 40 Copynumber: 2.5 Consensus size: 40
24048771 ATATATGTGC
* * *
24048781 AAGGCATTCGTGTGGGTTATTAGAGCTGGGTTAAGTCCCG
1 AAGGCATTCGTGCGGGTTATTAGAACCGGGTTAAGTCCCG
*
24048821 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGGGTTATTAGAACCGGGTTAAGTCCCG
*
24048861 AAGGCATTCGTGCTGGTT
1 AAGGCATTCGTGCGGGTT
24048879 GTTATATCCG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (40 bp):
AAGGCATTCGTGCGGGTTATTAGAACCGGGTTAAGTCCCG
Found at i:24051101 original size:21 final size:21
Alignment explanation
Indices: 24051077--24051121 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
24051067 ATTGAAACCA
24051077 TTACTGACTGAGGCACCGATT
1 TTACTGACTGAGGCACCGATT
24051098 TTACTGACTGAGGCACCGATT
1 TTACTGACTGAGGCACCGATT
24051119 TTA
1 TTA
24051122 GTACAATCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (21 bp):
TTACTGACTGAGGCACCGATT
Found at i:24053465 original size:30 final size:30
Alignment explanation
Indices: 24053420--24053479 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24053410 ATTTAATACG
* *
24053420 AACTTTAGCAAAATTACATTTTTTCCCCTA
1 AACTTTAGCAAAATTACACTTTTACCCCTA
* *
24053450 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTAGCAAAATTACACTTTTACCCCTA
24053480 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (30 bp):
AACTTTAGCAAAATTACACTTTTACCCCTA
Found at i:24059579 original size:69 final size:69
Alignment explanation
Indices: 24059493--24059700 Score: 407
Period size: 69 Copynumber: 3.0 Consensus size: 69
24059483 TGTTTTATGA
24059493 AGAAGGTATAATCAATATTACTTTGTTGATAGCCAAAATATATCATGCCTTTTCTAAATTTGCCA
1 AGAAGGTATAATCAATATTACTTTGTTGATAGCCAAAATATATCATGCCTTTTCTAAATTTGCCA
24059558 AACC
66 AACC
24059562 AGAAGGTATAATCAATATTACTTTGTTGATAGCCAAAATATATCATGCCTTTTCTAAATTTGCCA
1 AGAAGGTATAATCAATATTACTTTGTTGATAGCCAAAATATATCATGCCTTTTCTAAATTTGCCA
24059627 AACC
66 AACC
*
24059631 AGAAGGTATAATCAATATTACTTTGTTGATAACCAAAATATATCATGCCTTTTCTAAATTTGCCA
1 AGAAGGTATAATCAATATTACTTTGTTGATAGCCAAAATATATCATGCCTTTTCTAAATTTGCCA
24059696 AACC
66 AACC
24059700 A
1 A
24059701 TGCTCCAAGA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 138 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (69 bp):
AGAAGGTATAATCAATATTACTTTGTTGATAGCCAAAATATATCATGCCTTTTCTAAATTTGCCA
AACC
Found at i:24061862 original size:17 final size:16
Alignment explanation
Indices: 24061832--24061885 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
24061822 TTATGAAAAG
*
24061832 TTTTTTATTCAGTTTAA
1 TTTTTAATT-AGTTTAA
*
24061849 TTTTTCAATTAGTTTAG
1 TTTTT-AATTAGTTTAA
*
24061866 TTTTTACTTAGTTTCAA
1 TTTTTAATTAGTTT-AA
24061883 TTT
1 TTT
24061886 CCCTTTCAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.26
17 20 0.65
18 3 0.10
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (16 bp):
TTTTTAATTAGTTTAA
Found at i:24064052 original size:42 final size:42
Alignment explanation
Indices: 24064005--24064158 Score: 134
Period size: 42 Copynumber: 3.6 Consensus size: 42
24063995 TAAGATTACG
* * *
24064005 TGTAAGACCATATCGGGGATATGGCATCAATATGAGGCTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAAGCTTCA
** * * * *
24064047 TGTAAGACTGTATTTGGGATATGACATTGATATGATA-CTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGA-AGCTTCA
* * *
24064089 TGTAAGACCATAGT-TGGGCTATTGGCATCGATA-CAAGATTACA
1 TGTAAGACCATA-TCTGGGATA-TGGCATCGATATGAAGCTT-CA
*
24064132 TGTAAGACCATATCTGGGTTATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
24064159 TGGTATGGTA
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 58 0.66
43 29 0.33
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAAGCTTCA
Found at i:24069063 original size:44 final size:42
Alignment explanation
Indices: 24068996--24069139 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 42
24068986 CAATATGTTT
* * ** *
24068996 TTTCGTGTAAGACCACGTCTGGGATGTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCATGTTTGGGACATCGGCATCGTA-TT-TGA
*
24069039 TTTATGTGTAAGACCATGTTTGGGACATCGGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTTTGGGACATCGGCATCGTATTTGA
* *
24069082 TTTCCTGTAAGACCCTGTTTGGGACAGT-GGCATCGATATTTGA
1 TTTCGTGTAAGACCATGTTTGGGACA-TCGGCATCG-TATTTGA
*
24069125 TTACAG-GTAAGACCA
1 TTTC-GTGTAAGACCA
24069140 CATCTAGGAT
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
42 27 0.32
43 28 0.33
44 28 0.33
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTTTGGGACATCGGCATCGTATTTGA
Found at i:24069101 original size:42 final size:43
Alignment explanation
Indices: 24069045--24069126 Score: 132
Period size: 42 Copynumber: 1.9 Consensus size: 43
24069035 ATGATTTATG
24069045 TGTAAGACCATGTTTGGGACA-TCGGCATCG-TATTTGATTTCC
1 TGTAAGACCATGTTTGGGACAGT-GGCATCGATATTTGATTTCC
*
24069087 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGATT
1 TGTAAGACCATGTTTGGGACAGTGGCATCGATATTTGATT
24069127 ACAGGTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 27 0.73
43 10 0.27
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACAGTGGCATCGATATTTGATTTCC
Found at i:24069136 original size:43 final size:42
Alignment explanation
Indices: 24069046--24069139 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
24069036 TGATTTATGT
* **
24069046 GTAAGACCATGTTTGGGACATCGGCATCGTATTTGATTTCCT
1 GTAAGACCATGTTTGGGACATCGGCATCGTATTTGATTACAG
*
24069088 GTAAGACCCTGTTTGGGACAGT-GGCATCGATATTTGATTACAG
1 GTAAGACCATGTTTGGGACA-TCGGCATCG-TATTTGATTACAG
24069131 GTAAGACCA
1 GTAAGACCA
24069140 CATCTAGGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 26 0.58
43 19 0.42
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
GTAAGACCATGTTTGGGACATCGGCATCGTATTTGATTACAG
Found at i:24069373 original size:21 final size:19
Alignment explanation
Indices: 24069332--24069374 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
24069322 CATATGAATT
* *
24069332 ATGTTTGTATTATGTGGAA
1 ATGTTTGTATTATGAGAAA
24069351 ATGTGTTGTATATATGAGAAA
1 ATGT-TTGTAT-TATGAGAAA
24069372 ATG
1 ATG
24069375 GTTATGAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
ATGTTTGTATTATGAGAAA
Found at i:24073588 original size:48 final size:48
Alignment explanation
Indices: 24073517--24073649 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 48
24073507 ACTAGGGTTT
* * *
24073517 TATGTGAACCAGTGTAAGACCATGTCTGGGACATGGCATCAGCT-TCGA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-GCTATCGA
* * *
24073565 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTATTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGCTATCGA
* * *
24073613 TTTATGAGCTAGTGTAAGACCATGTTTGGAACATGGC
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGC
24073650 CTCGACATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
47 2 0.03
48 73 0.97
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (48 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGCTATCGA
Found at i:24078349 original size:13 final size:13
Alignment explanation
Indices: 24078331--24078356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24078321 CAAAATCATA
24078331 ATTATAATAATTT
1 ATTATAATAATTT
24078344 ATTATAATAATTT
1 ATTATAATAATTT
24078357 CAGTAAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:24080562 original size:40 final size:40
Alignment explanation
Indices: 24080507--24080724 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
24080497 CGGATGATAA
*
24080507 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* *
24080547 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
24080587 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* * *
24080627 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
24080667 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
*
24080707 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24080725 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 17 0.11
40 141 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:24080710 original size:80 final size:80
Alignment explanation
Indices: 24080503--24080691 Score: 369
Period size: 80 Copynumber: 2.4 Consensus size: 80
24080493 TATTCGGATG
24080503 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCA
24080568 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
24080583 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCA
24080648 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
24080663 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
24080692 AGCGAGTAGC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 107 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:24085364 original size:40 final size:40
Alignment explanation
Indices: 24085309--24085390 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
24085299 TATCCTTTTT
*
24085309 TATTTGGTCCCTGAACTGCACAAATTTGGACGTCGGGCCA
1 TATTTGGTCCCTGAACTGCACAAATTTGGACATCGGGCCA
*
24085349 TATTTGGTCCCTGAACTGCACGAATTTGGACATCGGGCCA
1 TATTTGGTCCCTGAACTGCACAAATTTGGACATCGGGCCA
24085389 TA
1 TA
24085391 CATATTGAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (40 bp):
TATTTGGTCCCTGAACTGCACAAATTTGGACATCGGGCCA
Found at i:24090537 original size:21 final size:21
Alignment explanation
Indices: 24090511--24090568 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
24090501 TTGATTTTAG
*
24090511 GGCTATGTCGCAACACCCTCT
1 GGCTATGTCGCGACACCCTCT
*
24090532 GGCTATGTCGCGACATCCTCT
1 GGCTATGTCGCGACACCCTCT
* *
24090553 GGTTGTGTCGCGACAC
1 GGCTATGTCGCGACAC
24090569 TGAAGGCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.33, G:0.26, T:0.26
Consensus pattern (21 bp):
GGCTATGTCGCGACACCCTCT
Found at i:24098700 original size:9 final size:9
Alignment explanation
Indices: 24098683--24098716 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
24098673 CCTAGCAGCC
*
24098683 CATTAATTT
1 CATTTATTT
24098692 CATTTATTT
1 CATTTATTT
24098701 CATTTATTT
1 CATTTATTT
24098710 CAATTTA
1 C-ATTTA
24098717 CAAATTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (9 bp):
CATTTATTT
Found at i:24106481 original size:13 final size:13
Alignment explanation
Indices: 24106463--24106487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24106453 ACAATCACGT
24106463 CACACGGGCATGG
1 CACACGGGCATGG
24106476 CACACGGGCATG
1 CACACGGGCATG
24106488 TCCCTTTTTC
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:0.24, C:0.32, G:0.36, T:0.08
Consensus pattern (13 bp):
CACACGGGCATGG
Found at i:24107339 original size:13 final size:13
Alignment explanation
Indices: 24107321--24107349 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24107311 TCTAGTTTAA
24107321 TTAGTTAATTAGT
1 TTAGTTAATTAGT
24107334 TTAGTTAATTAGT
1 TTAGTTAATTAGT
24107347 TTA
1 TTA
24107350 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:24107666 original size:19 final size:19
Alignment explanation
Indices: 24107642--24107680 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24107632 GCAATTTAAT
24107642 TTAATTTTA-TTATTATTTC
1 TTAA-TTTACTTATTATTTC
*
24107661 TTAATTTACTTATTCTTTC
1 TTAATTTACTTATTATTTC
24107680 T
1 T
24107681 CTTGGCAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
TTAATTTACTTATTATTTC
Found at i:24110311 original size:44 final size:44
Alignment explanation
Indices: 24110243--24110330 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
24110233 GGTGAGTAAT
*
24110243 CCCAGGTTCGGCACTTTTAAGGTAAACAACACCCGTTTAAAACC
1 CCCAAGTTCGGCACTTTTAAGGTAAACAACACCCGTTTAAAACC
* *
24110287 CCCAAGTTCGGTACTTTTAAGGTAAACAACACTCGTTTAAAACC
1 CCCAAGTTCGGCACTTTTAAGGTAAACAACACCCGTTTAAAACC
24110331 TTATTTTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (44 bp):
CCCAAGTTCGGCACTTTTAAGGTAAACAACACCCGTTTAAAACC
Found at i:24113195 original size:51 final size:50
Alignment explanation
Indices: 24113126--24113230 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 50
24113116 TTTTCACAAA
* *
24113126 CTCTCCAGCCTCGGAATCAAGCTCCGCATCCATATAACAGGGAGTTTCAC
1 CTCTCCAGCCTCAGAATCAAGCTCCGCATCCATATAACAGAGAGTTTCAC
24113176 CTCNTCCAGCCTCAGAATCAAGCTCCGCATCCATATAACAGAGAGTTTCAC
1 CTC-TCCAGCCTCAGAATCAAGCTCCGCATCCATATAACAGAGAGTTTCAC
24113227 CTCT
1 CTCT
24113231 TTCCCTCTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 4 0.08
51 48 0.92
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.23
Consensus pattern (50 bp):
CTCTCCAGCCTCAGAATCAAGCTCCGCATCCATATAACAGAGAGTTTCAC
Found at i:24116162 original size:17 final size:17
Alignment explanation
Indices: 24116142--24116197 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
24116132 CATACAACCA
24116142 ACATAATAATACCAATC
1 ACATAATAATACCAATC
*
24116159 ACATTAATCA-ACC-AT-
1 ACA-TAATAATACCAATC
*
24116174 TCATAATAATACCAATC
1 ACATAATAATACCAATC
*
24116191 ATATAAT
1 ACATAAT
24116198 CATTCAGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 4 0.13
17 11 0.37
18 5 0.17
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (17 bp):
ACATAATAATACCAATC
Found at i:24116192 original size:15 final size:15
Alignment explanation
Indices: 24116138--24116197 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
24116128 CATACATACA
24116138 ACCAA-CATAATAAT
1 ACCAATCATAATAAT
* *
24116152 ACCAATCACATTAAT
1 ACCAATCATAATAAT
*
24116167 CAACCATTCATAATAAT
1 --ACCAATCATAATAAT
24116184 ACCAATCAT-ATAAT
1 ACCAATCATAATAAT
24116198 CATTCAGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 10 0.27
15 15 0.41
17 12 0.32
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (15 bp):
ACCAATCATAATAAT
Found at i:24119755 original size:44 final size:43
Alignment explanation
Indices: 24119687--24119797 Score: 143
Period size: 44 Copynumber: 2.6 Consensus size: 43
24119677 CCGATATGTG
* * * *
24119687 TTATCGTGTAAGACCATGTTTGGGACGTTAGCATCGATTTTTGAT
1 TTAT-GTGTAAGACCATGTCTGGGACATTAGCATCG-TATATGAT
*
24119732 TTATGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGAT
1 TTATGTGTAAGACCATGTCTGGGACATTAGCATCGTATATGAT
*
24119775 TT-CGTGTAAGACCATGTCTGGGA
1 TTATGTGTAAGACCATGTCTGGGA
24119798 TAGTGGCATT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 20 0.33
43 8 0.13
44 28 0.47
45 4 0.07
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
TTATGTGTAAGACCATGTCTGGGACATTAGCATCGTATATGAT
Found at i:24119793 original size:42 final size:43
Alignment explanation
Indices: 24119690--24119849 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
24119680 ATATGTGTTA
* * * *
24119690 TCGTGTAAGACCATGTTTGGGACGTTAGCATCGATTTTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* *
24119733 TATGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * * * *
24119776 TCGTGTAAGACCATGTCTGGGATAGTGGCATTGATCTTTTATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * * *
24119819 ACATGTAAGACCACGTTTGGGACATTGGCAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCAT
24119850 TTTATGAGAT
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 28 0.29
43 40 0.42
44 28 0.29
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.36
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
Found at i:24129680 original size:43 final size:42
Alignment explanation
Indices: 24129598--24129704 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
24129588 TGTGATTTAT
* ** * *
24129598 GTGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTC
1 GTGTAAGACCATGTCTGGGACAACGACATCGTATATGATTAC
* *
24129640 GTGTAAGACCCTGTCTGGGACAACGACATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAACGACATCG-TATATGATTAC
* *
24129683 ATGTAAGACCAGGTCTGGGACA
1 GTGTAAGACCATGTCTGGGACA
24129705 TTGGCATTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 26 0.48
43 28 0.52
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACAACGACATCGTATATGATTAC
Found at i:24145089 original size:50 final size:50
Alignment explanation
Indices: 24144970--24145150 Score: 219
Period size: 49 Copynumber: 3.7 Consensus size: 50
24144960 GGTATAATGT
* *
24144970 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-AAATCAAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCACATATC-TGTGC
*
24145019 CGATGCCATGTCCCAAACATGGTCTTACACT-AGCTATCACATATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCACATATCTGTGC
* * * * *
24145069 CGATGCCATGTCCCAGACATGATCTTACACTGAC-ACCTC-TATATGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCACATATCTGTGC
* *
24145117 TGATGCCATGTCCCAGACATGGTATTACACTGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC
24145151 GCATCTCATA
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
48 39 0.34
49 40 0.34
50 36 0.31
51 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCACATATCTGTGC
Found at i:24150740 original size:11 final size:11
Alignment explanation
Indices: 24150724--24150758 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
24150714 ATTTTCACAT
24150724 GTTAATAGTTA
1 GTTAATAGTTA
24150735 GTTAATAGTTA
1 GTTAATAGTTA
24150746 GTT-A-AGTTA
1 GTTAATAGTTA
24150755 GTTA
1 GTTA
24150759 TTTGATGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 1 0.04
11 14 0.61
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (11 bp):
GTTAATAGTTA
Found at i:24161878 original size:108 final size:109
Alignment explanation
Indices: 24161726--24161926 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 109
24161716 ATCCTTTTGA
* * *
24161726 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACGC-ACC-A
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACACGATATCCTTGCCTTA-GAAAC-CTACCGA
24161788 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
64 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
24161834 AACTTATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCTTGCCTTAGAAACCTTACCGAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACACGATATCCTTGCCTTAGAAACC-TACCGAA
24161899 TGCCATGCCTTGGCATGGTCTTACATGG
65 TGCCATGCCTTGGCATGGTCTTACATGG
24161927 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 2 0.02
108 49 0.59
109 3 0.04
110 29 0.35
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACACGATATCCTTGCCTTAGAAACCTACCGAAT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:24161881 original size:55 final size:53
Alignment explanation
Indices: 24161679--24161933 Score: 211
Period size: 55 Copynumber: 4.8 Consensus size: 53
24161669 ACGCGGGTAC
* * * * *
24161679 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAGAA
* *
24161728 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAGAA
** * *
24161781 CGCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCC-TTGCCTTATAG-AA
* * * * *
24161836 CTTATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-TATCCTTGCCTTATAGAA
* *
24161889 CCTTACCGATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-AATGCCATGCCTTGACATGGTCTTACAT-GTATCCTT
24161934 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 40 0.24
52 4 0.02
53 45 0.27
54 7 0.04
55 69 0.41
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGTATCCTTGCCTTATAGAA
Found at i:24163822 original size:48 final size:48
Alignment explanation
Indices: 24163751--24164026 Score: 243
Period size: 48 Copynumber: 5.8 Consensus size: 48
24163741 GGGTAAGATA
* * * *
24163751 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAACAATT
1 CTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAATG
* * *** *
24163799 CTGATGCAATGTTCCAAACATGGTCTTACACTTGCT-TACATATTGAGG
1 CTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-CATAACAATG
** * * * *
24163847 CTTTTGCTATG-TCTTAGACATGGTCTTACACTAGCTCTCATAACAATA
1 CTGATGCCATGTTC-CAAACATGGTCTTACACTAGCTCTCATAACAATG
* * * * * *** *
24163895 CTAATGTCATGTTCCAAACATGGT-TTGCACTGGCTCACATATTGAGG
1 CTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAATG
* * *
24163942 CCGATGCCATGTCCCAAACATGGTCATACACTAGCTCTCATAACAATG
1 CTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAATG
* *
24163990 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
1 CTGATGCCATGTTCCAAACATGGTCTTACACTAGCTC
24164027 ACATGTACCT
Statistics
Matches: 173, Mismatches: 50, Indels: 10
0.74 0.21 0.04
Matches are distributed among these distances:
47 38 0.22
48 132 0.76
49 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (48 bp):
CTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAATG
Found at i:24163981 original size:95 final size:95
Alignment explanation
Indices: 24163753--24164030 Score: 378
Period size: 95 Copynumber: 2.9 Consensus size: 95
24163743 GTAAGATACT
* *
24163753 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAACAATTCTGATGCAATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATACTGATGC-ATGTTCCAAAC
* * *
24163818 ATGGTCTTACACTTGCTTACATATTGAGGCT
65 ATGGTCTTACACTGGCTCACATATTGAGGCC
** * ** *
24163849 TTTGCTATGTCTTAGACATGGTCTTACACTAGCTCTCATAACAATACTAATGTCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATACTGATG-CATGTTCCAAAC
*
24163914 ATGGT-TTGCACTGGCTCACATATTGAGGCC
65 ATGGTCTTACACTGGCTCACATATTGAGGCC
* * * *
24163944 GATGCCATGTCCCAAACATGGTCATACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATACTGATG-CATGTTCCAAAC
24164009 ATGGTCTTACACTGGCTCACAT
65 ATGGTCTTACACTGGCTCACAT
24164031 GTACCTTAAC
Statistics
Matches: 156, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
95 80 0.51
96 75 0.48
97 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATACTGATGCATGTTCCAAACA
TGGTCTTACACTGGCTCACATATTGAGGCC
Found at i:24168110 original size:32 final size:33
Alignment explanation
Indices: 24168068--24168160 Score: 100
Period size: 32 Copynumber: 2.8 Consensus size: 33
24168058 CAAGCCCATC
*
24168068 GGGCCTAAGCCC-ATTCAGATAACAGTGATACT
1 GGGCCTAAGCCCTATTCAGATAACAGTGAAACT
* * * *
24168100 GGGCCAAAGCCCTTTTCAGATTACA-TTAAACT
1 GGGCCTAAGCCCTATTCAGATAACAGTGAAACT
*
24168132 GGGCCTTAGCCCCTTATTCAGATAACAGT
1 GGGCCTAAG-CCC-TATTCAGATAACAGT
24168161 ATGGCCCATA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
32 23 0.48
33 13 0.27
34 11 0.23
35 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (33 bp):
GGGCCTAAGCCCTATTCAGATAACAGTGAAACT
Found at i:24168508 original size:25 final size:27
Alignment explanation
Indices: 24168471--24168523 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
24168461 TCAGACATGC
24168471 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
24168497 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
24168523 A
1 A
24168524 AAACTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:24178663 original size:24 final size:25
Alignment explanation
Indices: 24178636--24178694 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
24178626 AAATGGTAAA
24178636 CTCCTCCGAGATGAATAAC-CAAAG
1 CTCCTCCGAGATGAATAACGCAAAG
* * **
24178660 CTCCTCTGAGCTGAATAACGGTAAG
1 CTCCTCCGAGATGAATAACGCAAAG
24178685 CTCCTCCGAG
1 CTCCTCCGAG
24178695 CTGAGTATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (25 bp):
CTCCTCCGAGATGAATAACGCAAAG
Found at i:24178689 original size:25 final size:25
Alignment explanation
Indices: 24178630--24178724 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
24178620 AGCTAGAAAT
* *
24178630 GGTAAACTCCTCCGAGATGAATAAC
1 GGTAAGCTCCTCCGAGCTGAATAAC
** *
24178655 -CAAAGCTCCTCTGAGCTGAATAAC
1 GGTAAGCTCCTCCGAGCTGAATAAC
* *
24178679 GGTAAGCTCCTCCGAGCTGAGTATC
1 GGTAAGCTCCTCCGAGCTGAATAAC
* * *
24178704 AGTAAGCTCATACGAGCTGAA
1 GGTAAGCTCCTCCGAGCTGAA
24178725 ATTGGTAACC
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 19 0.35
25 36 0.65
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (25 bp):
GGTAAGCTCCTCCGAGCTGAATAAC
Found at i:24178732 original size:49 final size:47
Alignment explanation
Indices: 24178611--24178732 Score: 104
Period size: 49 Copynumber: 2.5 Consensus size: 47
24178601 GAATCGGTAT
*
24178611 GCTCTTACGAGCTAGAAATGGTAAACTCCTCCGAGATGAATAACCAAA
1 GCTCATACGAGCT-GAAATGGTAAACTCCTCCGAGATGAATAACCAAA
* * * * * *
24178659 GCTCCT-CTGAGCTGAATAACGGTAAGCTCCTCCGAGCTGAGT-ATCAGTAA
1 GCTCATAC-GAGCTG-A-AATGGTAAACTCCTCCGAGATGAATAACCA--AA
24178709 GCTCATACGAGCTGAAATTGGTAA
1 GCTCATACGAGCTGAAA-TGGTAA
24178733 CCCTAATGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
47 2 0.03
48 16 0.27
49 27 0.46
50 13 0.22
51 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (47 bp):
GCTCATACGAGCTGAAATGGTAAACTCCTCCGAGATGAATAACCAAA
Found at i:24178909 original size:86 final size:86
Alignment explanation
Indices: 24178764--24178935 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
24178754 ATCCTATGAA
24178764 TTCCTAATGTTTAAACATGGCTCGATAATTATCGTACATCGTCAGATATGCAATCAGTATTTAAA
1 TTCCTAATGTTTAAACATGGCTCGATAATTATCGTACATCGTCAGATATGCAATCAGTATTTAAA
24178829 ATAATATACATCTAATCCAAT
66 ATAATATACATCTAATCCAAT
24178850 TTCCTAATGTTTAAACATGGCTCGATAATTATCGTACATCGTCAGATATGCAATCAGTATTTAAA
1 TTCCTAATGTTTAAACATGGCTCGATAATTATCGTACATCGTCAGATATGCAATCAGTATTTAAA
24178915 ATAATATACATCTAATCCAAT
66 ATAATATACATCTAATCCAAT
24178936 CAAAGAATAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (86 bp):
TTCCTAATGTTTAAACATGGCTCGATAATTATCGTACATCGTCAGATATGCAATCAGTATTTAAA
ATAATATACATCTAATCCAAT
Found at i:24180495 original size:54 final size:54
Alignment explanation
Indices: 24180431--24180539 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
24180421 AGCTCAAGAG
24180431 CATAGAGGGGCAAATTCGGATAAGAGAAAAAAGAAAGTAGTTGAATAGCCGATC
1 CATAGAGGGGCAAATTCGGATAAGAGAAAAAAGAAAGTAGTTGAATAGCCGATC
** *
24180485 CATAGAGGGGCAAATTCGGATAAGAGAAATGAGAATGTAGTTGAATAGCCGATC
1 CATAGAGGGGCAAATTCGGATAAGAGAAAAAAGAAAGTAGTTGAATAGCCGATC
24180539 C
1 C
24180540 GAGACTGTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.18
Consensus pattern (54 bp):
CATAGAGGGGCAAATTCGGATAAGAGAAAAAAGAAAGTAGTTGAATAGCCGATC
Found at i:24180945 original size:45 final size:45
Alignment explanation
Indices: 24180881--24181011 Score: 185
Period size: 45 Copynumber: 3.0 Consensus size: 45
24180871 TATTGTACAC
*
24180881 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
24180926 TACTATTCGAGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
24180971 CACTAATCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
24181012 ATGAATTCGG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 11 0.14
44 14 0.18
45 52 0.68
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:24187497 original size:45 final size:44
Alignment explanation
Indices: 24187424--24187593 Score: 161
Period size: 45 Copynumber: 3.9 Consensus size: 44
24187414 TGTACACTAC
* * *
24187424 TATTTGGGACTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATA
*
24187468 TTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACA
1 -TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATA
* * * *
24187513 CTAATCGGGCC-TCGAGCCTAGCAGGCGA-AATGCTGGTGA-ATGA
1 -TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-A
** * * *
24187556 -ATTCGGGTTTTTAAACCTAGCAGGCT-GAATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
24187594 TTTGATAAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
41 6 0.06
42 23 0.22
43 11 0.11
44 15 0.14
45 49 0.47
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (44 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATA
Found at i:24202977 original size:40 final size:40
Alignment explanation
Indices: 24202886--24203188 Score: 362
Period size: 40 Copynumber: 7.6 Consensus size: 40
24202876 TCCTCGTTCA
* * * * *
24202886 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24202925 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24202965 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24203005 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24203045 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
24203085 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
24203125 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24203165 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24203189 CAGCATTCAA
Statistics
Matches: 237, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
39 39 0.16
40 186 0.78
41 12 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24203197 original size:41 final size:41
Alignment explanation
Indices: 24203120--24203197 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
24203110 TTTGTATCTC
* * *
24203120 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
24203161 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
24203198 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:24210435 original size:30 final size:30
Alignment explanation
Indices: 24210401--24210469 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
24210391 CCGTGTGCTA
**
24210401 GGCCGTGTCCCTCACATGGTTGAGACACAC
1 GGCCGTGTCCCTCACACAGTTGAGACACAC
*
24210431 GGCCGTGTCCCTTACACAGTTGAGACACAC
1 GGCCGTGTCCCTCACACAGTTGAGACACAC
* *
24210461 AGCCATGTC
1 GGCCGTGTC
24210470 TCTACCCGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.20
Consensus pattern (30 bp):
GGCCGTGTCCCTCACACAGTTGAGACACAC
Found at i:24211447 original size:46 final size:44
Alignment explanation
Indices: 24211356--24211561 Score: 161
Period size: 46 Copynumber: 4.5 Consensus size: 44
24211346 GTGTCGATTC
* * *
24211356 CATG-CCCTAGACATGGTCTTACACTGACA-CATCTCATAGCTGATG
1 CATGTCCC-AGACAT-GTCTTACACTGGCATAATCTCA-AGCCGATG
*
24211401 CATGTCCCAGACATGTCTTACACTGGCTTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCATA-ATCTCAA-GCCGATG
* * **
24211447 CATGTCCCAGACATGTCTTATACTAGCACTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCA-TAATCTCAA-GCCGATG
* *
24211493 CGATGTCCC-GACATGGTCTTACACTGGCTCTCATAATGT--AGCCAATG
1 C-ATGTCCCAGACAT-GTCTTACACTGG----CATAATCTCAAGCCGATG
*
24211540 CATGTCCCAAACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
24211562 TTAGCTCACA
Statistics
Matches: 132, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
44 12 0.09
45 11 0.08
46 74 0.56
47 29 0.22
48 1 0.01
50 3 0.02
51 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCATAATCTCAAGCCGATG
Found at i:24214017 original size:21 final size:21
Alignment explanation
Indices: 24213991--24214037 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
24213981 ATCGATGGCA
*
24213991 AGTTCGGATGATGGTAATTCT
1 AGTTCGAATGATGGTAATTCT
24214012 AGTTCGAATGATGGTAATTCT
1 AGTTCGAATGATGGTAATTCT
24214033 AGTTC
1 AGTTC
24214038 AGGCTAGCTT
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:0.26, C:0.11, G:0.26, T:0.38
Consensus pattern (21 bp):
AGTTCGAATGATGGTAATTCT
Found at i:24225230 original size:26 final size:26
Alignment explanation
Indices: 24225184--24225234 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
24225174 TAGCCATTCA
* *
24225184 AACATGCATTAATATATTATCAAAAT
1 AACATGCATCAATATAGTATCAAAAT
24225210 AACATGCATCAATA-AGGTATCAAAA
1 AACATGCATCAATATA-GTATCAAAA
24225235 GTACCAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (26 bp):
AACATGCATCAATATAGTATCAAAAT
Found at i:24229020 original size:50 final size:50
Alignment explanation
Indices: 24228948--24229445 Score: 502
Period size: 50 Copynumber: 9.9 Consensus size: 50
24228938 AAGACGGTTT
** * *
24228948 TAGGTCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * *
24228998 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAGTT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-A
* * ** * * *
24229049 TCGATCACGGGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * *
24229099 TAAGTCA-AGTGTGCAGTATTAAGTGCAGGCTACTACGTGTACTAGATTGA
1 TAGGTCACA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * *
24229149 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAGTT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-A
* * ** * * *
24229200 TCGATCACGGGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * *
24229250 TAAGTCA-AGTGTGCAGTATTAAGTGCAGGCTACTACGTGTACTAGATTGA
1 TAGGTCACA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * *
24229300 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * *
24229350 TAAGTCA-AGTGTGCAGTATTAAGTGCAGGCTACTACGTGTACTAGATTGA
1 TAGGTCACA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* *
24229400 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
24229446 GAGCTTCGGT
Statistics
Matches: 358, Mismatches: 78, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.00
50 277 0.77
51 80 0.22
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
Found at i:24229230 original size:151 final size:151
Alignment explanation
Indices: 24228951--24229434 Score: 706
Period size: 151 Copynumber: 3.2 Consensus size: 151
24228941 ACGGTTTTAG
* * * * * *
24228951 GTCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCAAGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
24229016 CTAAGTGCAGGCTACTATGCGTACTCGATAGTTTCGATCACGGGTGTAGTACTAAGTGCAGGCTA
66 CTAAGTGCAGGCTACTATGCGTACTCGATAGTTTCGATCACGGGTGTAGTACTAAGTGCAGGCTA
24229081 CTACGTGTATCAAATGGATAA
131 CTACGTGTATCAAATGGATAA
*
24229102 GTCAAGTGTGCAGTATTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
1 GTCAAGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
24229167 CTAAGTGCAGGCTACTATGCGTACTCGATAGTTTCGATCACGGGTGTAGTACTAAGTGCAGGCTA
66 CTAAGTGCAGGCTACTATGCGTACTCGATAGTTTCGATCACGGGTGTAGTACTAAGTGCAGGCTA
24229232 CTACGTGTATCAAATGGATAA
131 CTACGTGTATCAAATGGATAA
*
24229253 GTCAAGTGTGCAGTATTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
1 GTCAAGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
* * * * * ** * * * *
24229318 CTAAGTGCAGGCTACTACGTGTA-TCAAATGGATAAG-TCAAGTGTGCAGTATTAAGTGCAGGCT
66 CTAAGTGCAGGCTACTATGCGTACTC-GATAGTTTCGATCACGGGTGTAGTACTAAGTGCAGGCT
* * *
24229381 ACTACGTGTA-CTAGATTGATAG
130 ACTACGTGTATC-AAATGGATAA
*
24229403 GTCACA-TGTGTAGTACTAAGTGCAGGCTACTA
1 GTCA-AGTGTGCAGTACTAAGTGCAGGCTACTA
24229435 TGCGTACCAG
Statistics
Matches: 307, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
149 1 0.00
150 70 0.23
151 236 0.77
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (151 bp):
GTCAAGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACTCGATAGTTTCGATCACGGGTGTAGTACTAAGTGCAGGCTA
CTACGTGTATCAAATGGATAA
Found at i:24229342 original size:100 final size:100
Alignment explanation
Indices: 24228951--24229434 Score: 555
Period size: 100 Copynumber: 4.8 Consensus size: 100
24228941 ACGGTTTTAG
* * * * *
24228951 GTCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
* * * * * **
24229016 CTAAGTGCAGGCTACTATGCGTACTC-GATAGTTTC
66 CTAAGTGCAGGCTACTACGTGTA-TCAAATGGATAA
* * * * * *
24229051 GATCACGGGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAAATGGATAAGTCA-AGTGTGCA
1 G-TCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGATAGGTCACA-TGTGTA
* * * *
24229114 GTATTAAGTGCAGGCTACTACGTGTA-CTAGATTGATAG
63 GTACTAAGTGCAGGCTACTACGTGTATC-AAATGGATAA
* * * * * * * **
24229152 GTCACA-TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAGTTTCGATCACGGGTGTAG
1 GTCA-AGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTG-ATAGGTCACATGTGTAG
24229216 TACTAAGTGCAGGCTACTACGTGTATCAAATGGATAA
64 TACTAAGTGCAGGCTACTACGTGTATCAAATGGATAA
* *
24229253 GTCAAGTGTGCAGTATTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
1 GTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
24229318 CTAAGTGCAGGCTACTACGTGTATCAAATGGATAA
66 CTAAGTGCAGGCTACTACGTGTATCAAATGGATAA
* *
24229353 GTCAAGTGTGCAGTATTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
1 GTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
24229418 CTAAGTGCAGGCTACTA
66 CTAAGTGCAGGCTACTA
24229435 TGCGTACCAG
Statistics
Matches: 327, Mismatches: 46, Indels: 22
0.83 0.12 0.06
Matches are distributed among these distances:
99 1 0.00
100 169 0.52
101 156 0.48
102 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (100 bp):
GTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCACATGTGTAGTA
CTAAGTGCAGGCTACTACGTGTATCAAATGGATAA
Found at i:24230169 original size:180 final size:180
Alignment explanation
Indices: 24229910--24230247 Score: 505
Period size: 180 Copynumber: 1.9 Consensus size: 180
24229900 TCCAAGATCT
* * * *
24229910 GTACCATGAGATAAATAATTTTTCGTGAAGAAAGGTTGGAACTATCAGATAGTGAAATAGAGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGGTCGGAACTATCAGACAATGAAATAGAGGTA
** * *
24229975 TCTTTAACGAATAAAATATACTAATTGGCTAAACAAAAAATTCTTAAAACTTTATGGTAATAATA
66 AATTTAACGAATAAAATATACTAATTGGCTAAACAAAAAATTCTAAAAACTTTATGGTAAGAATA
24230040 TATATGAGTCTAGTTTCTGATAAAATTAGTTGTTCTTAATTTGGAGTCCC
131 TATATGAGTCTAGTTTCTGATAAAATTAGTTGTTCTTAATTTGGAGTCCC
* * ** *
24230090 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGAACTGTTGGACAATGAAATAGTGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGGTCGGAACTATCAGACAATGAAATAGAGGTA
* * * * *
24230155 AATTTAATGAATAAATTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATA
66 AATTTAACGAATAAAATATACTAATTGGCTAAACAAAAAATTCTAAAAACTTTATGGTAAGAATA
*
24230220 TATATGAGTCTAGTTTCTGGTAAAATTA
131 TATATGAGTCTAGTTTCTGATAAAATTA
24230248 ACAGATCTTA
Statistics
Matches: 139, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
180 139 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.34
Consensus pattern (180 bp):
GTACCATGAGATAAATAATTTTTAGTGAAGAAAGGTCGGAACTATCAGACAATGAAATAGAGGTA
AATTTAACGAATAAAATATACTAATTGGCTAAACAAAAAATTCTAAAAACTTTATGGTAAGAATA
TATATGAGTCTAGTTTCTGATAAAATTAGTTGTTCTTAATTTGGAGTCCC
Found at i:24233968 original size:24 final size:24
Alignment explanation
Indices: 24233940--24233986 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24233930 AGTATATACC
* *
24233940 AATTCAATCA-ATATAAATTCAATA
1 AATTC-ATCACATACAAAATCAATA
24233964 AATTCATCACATACAAAATCAAT
1 AATTCATCACATACAAAATCAAT
24233987 CCATTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (24 bp):
AATTCATCACATACAAAATCAATA
Found at i:24240792 original size:19 final size:19
Alignment explanation
Indices: 24240745--24240785 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24240735 TTTATTAAAT
*
24240745 ATTATAAAATATCATAGAAA
1 ATTATAAAA-GTCATAGAAA
*
24240765 ATTATAAAAGTCATGGAAA
1 ATTATAAAAGTCATAGAAA
24240784 AT
1 AT
24240786 GTTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (19 bp):
ATTATAAAAGTCATAGAAA
Found at i:24240996 original size:16 final size:16
Alignment explanation
Indices: 24240972--24241024 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
24240962 TGGTTCACTA
* *
24240972 TAATGGAATAGGGCTG
1 TAATTGAATAGAGCTG
24240988 TAATTGAATAGAGCTG
1 TAATTGAATAGAGCTG
*
24241004 TAATTGAATAGAGTTG
1 TAATTGAATAGAGCTG
24241020 TAATT
1 TAATT
24241025 AGTAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (16 bp):
TAATTGAATAGAGCTG
Found at i:24241206 original size:25 final size:26
Alignment explanation
Indices: 24241178--24241228 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
24241168 ATAATTATTG
*
24241178 TTATTGTT-ATTAAATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
*
24241203 TTATTGTTAAATATATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
24241229 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAAA
Found at i:24247676 original size:13 final size:13
Alignment explanation
Indices: 24247658--24247684 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24247648 GTAAAATTTG
24247658 TAACAAATTTCAC
1 TAACAAATTTCAC
24247671 TAACAAATTTCAC
1 TAACAAATTTCAC
24247684 T
1 T
24247685 CTAGAGAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (13 bp):
TAACAAATTTCAC
Found at i:24253254 original size:40 final size:40
Alignment explanation
Indices: 24253209--24253404 Score: 189
Period size: 40 Copynumber: 4.9 Consensus size: 40
24253199 CGAATACACG
* * * *
24253209 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *** *
24253249 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
24253289 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
24253329 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGG
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT-A
* * *
24253370 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGA
24253405 CATCATTCAA
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
40 118 0.89
41 8 0.06
42 6 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:24253365 original size:80 final size:81
Alignment explanation
Indices: 24253222--24253404 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
24253212 CCAGCATGAT
* * * ***
24253222 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
24253287 T-ATCAC-TAGCACGAA
66 TGATCACTTAGCAC-AA
* * * *
24253302 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGAT
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAG-CACGGAT
*
24253366 ATGGTCACTTAGCACAA
65 ATGATCACTTAGCACAA
*
24253383 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
24253405 CATCATTCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 71 0.83
81 9 0.10
82 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
TGATCACTTAGCACAA
Found at i:24253749 original size:29 final size:29
Alignment explanation
Indices: 24253710--24253788 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
24253700 CTTAATAATC
*
24253710 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
24253740 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
24253769 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
24253789 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:24260496 original size:34 final size:34
Alignment explanation
Indices: 24260458--24260526 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
24260448 AAAAGTATGT
24260458 AGATATTTTGGTATGACTCATCCATGGAAAAATA
1 AGATATTTTGGTATGACTCATCCATGGAAAAATA
24260492 AGATATTTTGGTATGACTCATCCATGGAAAAATA
1 AGATATTTTGGTATGACTCATCCATGGAAAAATA
24260526 A
1 A
24260527 AAAAAGGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (34 bp):
AGATATTTTGGTATGACTCATCCATGGAAAAATA
Found at i:24262925 original size:11 final size:11
Alignment explanation
Indices: 24262909--24262934 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24262899 ACACGGGCAT
24262909 GTGTCTAGACC
1 GTGTCTAGACC
24262920 GTGTCTAGACC
1 GTGTCTAGACC
24262931 GTGT
1 GTGT
24262935 GTGACACACG
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:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (11 bp):
GTGTCTAGACC
Found at i:24266966 original size:20 final size:20
Alignment explanation
Indices: 24266938--24267078 Score: 67
Period size: 20 Copynumber: 7.1 Consensus size: 20
24266928 ATTCATTTTT
* *
24266938 ATTCGTATAAACTGTAATCC
1 ATTCATATAAACTGTAATTC
*
24266958 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACT-GTAATTC
* * * *
24266978 ATCCGTATAACCAGTAATTC
1 ATTCATATAAACTGTAATTC
*
24266998 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACT-GTAATTC
* * *
24267018 -TTCCGTATAACCAGTAATTC
1 ATT-CATATAAACTGTAATTC
* * *
24267038 A-TCAGTAT-ATCAGTAATTT
1 ATTCA-TATAAACTGTAATTC
* *
24267057 ATTCATATCAACAGTAATTC
1 ATTCATATAAACTGTAATTC
24267077 AT
1 AT
24267079 ATAATCTATA
Statistics
Matches: 90, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
19 22 0.24
20 64 0.71
21 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
ATTCATATAAACTGTAATTC
Found at i:24267001 original size:40 final size:40
Alignment explanation
Indices: 24266941--24267039 Score: 162
Period size: 40 Copynumber: 2.5 Consensus size: 40
24266931 CATTTTTATT
* * *
24266941 CGTATAAACTGTAATCCATTCATATAACTAGTAGTTCATC
1 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
*
24266981 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCTTC
1 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
24267021 CGTATAACCAGTAATTCAT
1 CGTATAACCAGTAATTCAT
24267040 CAGTATATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (40 bp):
CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
Found at i:24267269 original size:23 final size:23
Alignment explanation
Indices: 24267212--24267328 Score: 71
Period size: 23 Copynumber: 5.0 Consensus size: 23
24267202 GAGTCATGCT
**
24267212 CGGTAAGCTCCTCCTGAGCTGATAAA
1 CGGTAAGCT-CTAATGAGCTG--AAA
*
24267238 TGGTAAGCTCTAATGAGCTGAAA
1 CGGTAAGCTCTAATGAGCTGAAA
*
24267261 CGGTAAGCTCT-GTCGAGCTGAATA
1 CGGTAAGCTCTAAT-GAGCTGAA-A
* * *
24267285 --GTAAGCT-TATACGAGTTGAAT
1 CGGTAAGCTCTA-ATGAGCTGAAA
* *
24267306 TGGTAAGCACTAATGAGCTGAAA
1 CGGTAAGCTCTAATGAGCTGAAA
24267329 ACACTAAGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
21 1 0.01
22 15 0.21
23 35 0.49
24 3 0.04
25 9 0.13
26 8 0.11
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGTAAGCTCTAATGAGCTGAAA
Found at i:24279066 original size:29 final size:29
Alignment explanation
Indices: 24279031--24279104 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
24279021 GTTGTGAGAT
*
24279031 TGGCACTAAGTGTGCGGGCTTGAAA-TGA-A
1 TGGCACTAAGTGTGCGAG-TTGAAAGT-ACA
*
24279060 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
24279089 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24279105 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 6 0.15
29 35 0.85
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:24289030 original size:27 final size:27
Alignment explanation
Indices: 24288958--24289050 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
24288948 ATTATAATTA
*
24288958 GCACATAGCCATGGGTAAATATGATCG
1 GCACATAGCCATGGGTAAATATGATAG
** * * ***
24288985 ATACAGAGTCATCAATAAATATGATAG
1 GCACATAGCCATGGGTAAATATGATAG
* *
24289012 GCACATAGCCATGGGTAAATACGATTG
1 GCACATAGCCATGGGTAAATATGATAG
*
24289039 GCACAAAGCCAT
1 GCACATAGCCAT
24289051 AATCAAGATG
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (27 bp):
GCACATAGCCATGGGTAAATATGATAG
Found at i:24289065 original size:22 final size:22
Alignment explanation
Indices: 24289037--24289099 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
24289027 TAAATACGAT
24289037 TGGCACAAAGCCATAATCAAGA
1 TGGCACAAAGCCATAATCAAGA
* * * *
24289059 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAATCAAGA
*
24289081 TGGCACAGAGCCATAATCA
1 TGGCACAAAGCCATAATCA
24289100 GATTAAGCGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAATCAAGA
Found at i:24289483 original size:27 final size:27
Alignment explanation
Indices: 24289453--24289784 Score: 173
Period size: 27 Copynumber: 12.3 Consensus size: 27
24289443 CAAAACAGTC
* *
24289453 ATTTTACCCTACAAGGGTATTTCGGTG
1 ATTTTACACTACAAGGGTATTTCGGTA
*
24289480 ATTTTATACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* **
24289507 ATTTTACA-AATTGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * ** *
24289534 ACTTTACA-AATCGGGGGTATTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * *
24289561 ATTTTACAAT-CTGAGGGTATTTTGGTA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* * **
24289588 ATTTTACA-AATCGAGGGTATTTTAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* *
24289615 ATTTTACAAT-CTGAGGGTATTGT-GGTA
1 ATTTTACACTAC-AAGGGTATT-TCGGTA
* ** *
24289642 ATTTTACA-AACTGGGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* * *
24289669 ATTTTACAAT-CTGAGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* ** *
24289696 ATTTTACA-AATCGGGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* *
24289723 ATTTTACA-AACTAGAGGTATTTCGGTA
1 ATTTTACACTACAAG-GGTATTTCGGTA
* *
24289750 ATTTTACAAT-CTAAGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
24289777 ATTTTACA
1 ATTTTACA
24289785 AATCGAGGGC
Statistics
Matches: 256, Mismatches: 33, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.02
27 245 0.96
28 5 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:24289524 original size:54 final size:54
Alignment explanation
Indices: 24289466--24289793 Score: 386
Period size: 54 Copynumber: 6.1 Consensus size: 54
24289456 TTACCCTACA
* * * * *
24289466 AGGGTATTTCGGTGATTTTA-TACTACAAGGGTATTTCGGTAATTTTACAAAT-TG
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCGATAATTTTAC-AATCTG
* *
24289520 AGGGTATTTCGGTAACTTTACAAATCGGGGGTATTTC-AGTAATTTTACAATCTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCTG
* *
24289574 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT-TAGTAATTTTACAATCTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCTG
*
24289628 AGGGTATTGT-GGTAATTTTACAAA-CTGGGGGTATTTCGATAATTTTACAATCTG
1 AGGGTATT-TCGGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTACAATCTG
* * *
24289682 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCTG
*
24289735 AGAGGTATTTCGGTAATTTTAC-AATCTAAGGGTATTTCGATAATTTTACAAATC-G
1 AG-GGTATTTCGGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTAC-AATCTG
24289790 AGGG
1 AGGG
24289794 CCTTAACGAC
Statistics
Matches: 243, Mismatches: 18, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
53 11 0.05
54 222 0.91
55 10 0.04
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCTG
Done.