Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 55 of 210
Found at i:19333732 original size:3 final size:3
Alignment explanation
Indices: 19333724--19333813 Score: 87
Period size: 3 Copynumber: 30.3 Consensus size: 3
19333714 TTCTGTAATT
* * * *
19333724 TTA TTA TTA TTA TTA TTA TT- TTG TTA TTA TTA TTT TTA TCA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
19333771 TTA TTA TT- TATA TTA TTG TTA CTTA TCA -TA TTA TTA TTA TTA T
1 TTA TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T
19333814 ATAGTAGCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.06
3 63 0.89
4 4 0.06
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19333752 original size:14 final size:14
Alignment explanation
Indices: 19333733--19333759 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19333723 TTTATTATTA
19333733 TTATTATTATTTTG
1 TTATTATTATTTTG
19333747 TTATTATTATTTT
1 TTATTATTATTTT
19333760 TATCATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (14 bp):
TTATTATTATTTTG
Found at i:19340120 original size:22 final size:22
Alignment explanation
Indices: 19340094--19340148 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
19340084 TTTTTAAATA
19340094 AAATTTTAAAACATATA-AATGT
1 AAATTTTAAAA-ATATATAATGT
* *
19340116 AAATTTTAAAAATTTATAATTT
1 AAATTTTAAAAATATATAATGT
*
19340138 AAAATTTAAAA
1 AAATTTTAAAA
19340149 TAATATACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTTTAAAAATATATAATGT
Found at i:19340428 original size:20 final size:20
Alignment explanation
Indices: 19340381--19340428 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
19340371 CAAGTTTTAA
*
19340381 CTTCAAACCAAAATTTTCTT
1 CTTCAAATCAAAATTTTCTT
19340401 CTTCAAATCAAAATTTTCTT
1 CTTCAAATCAAAATTTTCTT
*
19340421 TTTCAAAT
1 CTTCAAAT
19340429 GTAGCACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
CTTCAAATCAAAATTTTCTT
Found at i:19341513 original size:23 final size:23
Alignment explanation
Indices: 19341487--19341536 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
19341477 TGTCTCGACG
* * *
19341487 ACTAATTTAATATCCTAAAAATT
1 ACTAATATAATACCCCAAAAATT
* *
19341510 ACTACTATAATACCCCGAAAATT
1 ACTAATATAATACCCCAAAAATT
19341533 ACTA
1 ACTA
19341537 CAGTAAGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (23 bp):
ACTAATATAATACCCCAAAAATT
Found at i:19345917 original size:21 final size:21
Alignment explanation
Indices: 19345892--19345960 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
19345882 CAGCAACTTA
* *
19345892 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
** * **
19345913 AAGCAGAGGCTACAACGAGTC
1 AAGCAGAGGCCGCAGCGAGAG
19345934 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
19345955 AAGCAG
1 AAGCAG
19345961 TGAGAGAAGC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.35, C:0.22, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:19345965 original size:12 final size:12
Alignment explanation
Indices: 19345945--19345984 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
19345935 AGCAGAGGCC
19345945 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
19345957 GCAGTGAGAGAA
1 GCAGCGAGAGAA
* *
19345969 GCAGCAATAGAA
1 GCAGCGAGAGAA
19345981 GCAG
1 GCAG
19345985 AGGTTCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.38, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:19346738 original size:42 final size:42
Alignment explanation
Indices: 19346406--19346740 Score: 471
Period size: 42 Copynumber: 8.0 Consensus size: 42
19346396 GTTTGTGAAA
* **
19346406 TAAGCGCCGCTAAATAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TTC
*
19346449 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
19346490 TAGGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
19346532 TAGGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
19346573 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTC
* * *
19346616 AAAGCGCCGCTAAAAAACATGATCTTTAGCGGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
19346658 AAAGTGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
19346700 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
19346741 ATGTAAGCGC
Statistics
Matches: 270, Mismatches: 17, Indels: 11
0.91 0.06 0.04
Matches are distributed among these distances:
41 35 0.13
42 204 0.76
43 31 0.11
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:19346846 original size:22 final size:22
Alignment explanation
Indices: 19346815--19346857 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19346805 TAGTGGCATT
* *
19346815 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
19346837 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
19346858 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:19346935 original size:14 final size:14
Alignment explanation
Indices: 19346902--19346943 Score: 75
Period size: 15 Copynumber: 2.9 Consensus size: 14
19346892 GACATTAGCA
19346902 GTTTAGGGATTATG
1 GTTTAGGGATTATG
19346916 GTTTTAGGGATTATG
1 G-TTTAGGGATTATG
19346931 GTTTAGGGATTAT
1 GTTTAGGGATTAT
19346944 AATTTATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:19346949 original size:14 final size:14
Alignment explanation
Indices: 19346903--19346949 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
19346893 ACATTAGCAG
*
19346903 TTTAGGGATTATGGT
1 TTTAGGGATTAT-GA
*
19346918 TTTAGGGATTATGG
1 TTTAGGGATTATGA
*
19346932 TTTAGGGATTATAA
1 TTTAGGGATTATGA
19346946 TTTA
1 TTTA
19346950 TTGTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
TTTAGGGATTATGA
Found at i:19347038 original size:7 final size:7
Alignment explanation
Indices: 19347026--19347051 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19347016 ATTCAAGGTT
19347026 TAGGGGA
1 TAGGGGA
19347033 TAGGGGA
1 TAGGGGA
19347040 TAGGGGA
1 TAGGGGA
19347047 TAGGG
1 TAGGG
19347052 ATTATGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.58, T:0.15
Consensus pattern (7 bp):
TAGGGGA
Found at i:19347079 original size:34 final size:35
Alignment explanation
Indices: 19347040--19347117 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 35
19347030 GGATAGGGGA
* * *
19347040 TAGGGGATAGGGATTATGGTTTATGGTTTAAGG-T
1 TAGGGGATAGGGATTAGGGTTTATGATTCAAGGTT
* *
19347074 TAGGGGTTAGGGGTTAGGGTTTATGATTCAAGGTT
1 TAGGGGATAGGGATTAGGGTTTATGATTCAAGGTT
*
19347109 TAAGGGATA
1 TAGGGGATA
19347118 TAAGTTAGGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 28 0.78
35 8 0.22
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.36
Consensus pattern (35 bp):
TAGGGGATAGGGATTAGGGTTTATGATTCAAGGTT
Found at i:19347153 original size:7 final size:7
Alignment explanation
Indices: 19347047--19347230 Score: 83
Period size: 7 Copynumber: 26.3 Consensus size: 7
19347037 GGATAGGGGA
*
19347047 TAGGGAT
1 TAGGGTT
*
19347054 TATGGTT
1 TAGGGTT
*
19347061 TATGGTT
1 TAGGGTT
*
19347068 TAAGG-T
1 TAGGGTT
*
19347074 TAGGGGT
1 TAGGGTT
*
19347081 TAGGGGT
1 TAGGGTT
19347088 TAGGGTT
1 TAGGGTT
* *
19347095 TATGATT
1 TAGGGTT
* *
19347102 CAAGGTT
1 TAGGGTT
*
19347109 TAAGGGATA
1 T-AGGG-TT
*
19347118 TA-AG-T
1 TAGGGTT
19347123 TAGGGGTT
1 TA-GGGTT
*
19347131 TAGGGAT
1 TAGGGTT
*
19347138 TATGGTT
1 TAGGGTT
19347145 TAGGGTT
1 TAGGGTT
19347152 TAGGGTT
1 TAGGGTT
*
19347159 TAGTGTT
1 TAGGGTT
*
19347166 TAGGATT
1 TAGGGTT
*
19347173 TAAGGTT
1 TAGGGTT
* *
19347180 CAAGGTT
1 TAGGGTT
19347187 TAGGGTT
1 TAGGGTT
19347194 T-GTGGTT
1 TAG-GGTT
* *
19347201 TAAAGG-A
1 T-AGGGTT
19347208 TAGGAG-T
1 TAGG-GTT
19347215 TAGGGTT
1 TAGGGTT
19347222 TAGGGTT
1 TAGGGTT
19347229 TA
1 TA
19347231 AATTAATTAG
Statistics
Matches: 134, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
5 2 0.01
6 9 0.07
7 112 0.84
8 9 0.07
9 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.36, T:0.40
Consensus pattern (7 bp):
TAGGGTT
Found at i:19347478 original size:82 final size:85
Alignment explanation
Indices: 19347338--19347512 Score: 205
Period size: 82 Copynumber: 2.1 Consensus size: 85
19347328 AAGATATAAC
* * * *
19347338 GGCGTTTGGACCAAAAAATGCCGCAATTATGTATTAAAATTTCTTAAAACGGCACCGTTT-TACA
1 GGCGTTTTGACCAAAAAACGCCGCAACTATGTATTAAAATTTCTAAAAACGGCACCGTTTCTACA
19347402 -AG-AATTTAATTTTTTAGT
66 TAGAAATTTAATTTTTTAGT
* * ** * **
19347420 GGCGTTTTGTCCAAAAAACGCTGCAACTATGTATTTTAATTTCTAAAAATGG-AGCCGTTTCTGT
1 GGCGTTTTGACCAAAAAACGCCGCAACTATGTATTAAAATTTCTAAAAACGGCA-CCGTTTCTAC
19347484 ATAGAAATTTAATTTTTTAGT
65 ATAGAAATTTAATTTTTTAGT
*
19347505 GGCATTTT
1 GGCGTTTT
19347513 TCTTGAAAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 1 0.01
82 49 0.64
83 2 0.03
84 2 0.03
85 23 0.30
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (85 bp):
GGCGTTTTGACCAAAAAACGCCGCAACTATGTATTAAAATTTCTAAAAACGGCACCGTTTCTACA
TAGAAATTTAATTTTTTAGT
Found at i:19347655 original size:124 final size:125
Alignment explanation
Indices: 19347430--19347712 Score: 360
Period size: 124 Copynumber: 2.3 Consensus size: 125
19347420 GGCGTTTTGT
* * * *
19347430 CCAAAAAACGCTGCAACTATGTATTTTAATTTCTAAAAATGGAGCCGTTTCTGTATAGAAATTTA
1 CCAAAAAACGCCGCAACTATGTATTTAAATTTCTAAAAATGCAGCCGTTTCGGTATAGAAATTTA
* *
19347495 ATTTTTTAGTGGCATTTTTCTTGAAAACGCCACAAATGGT-ATGCAATAACGGCATTTGGA
66 AATTTTTAGTGGCATTTTTCTTGAAAACGCCACAAATGGTAAT-CAATAACAGCATTTGGA
* *
19347555 -GAAAAAACGCCGCAACTATGTATTTAAATTTCT-AAAA-GCAGCACCGTTTCGGTATAGGAATT
1 CCAAAAAACGCCGCAACTATGTATTTAAATTTCTAAAAATGCAG--CCGTTTCGGTATAGAAATT
* ** * * *
19347617 TAAATTTTTAGTGGCGTTTTTGC-TGAAAACGCTGCAAATGGTAATCAGTATCAGCGTTTGGA
64 TAAATTTTTAGTGGCATTTTT-CTTGAAAACGCCACAAATGGTAATCAATAACAGCATTTGGA
*
19347679 CCAAAAAACGCCGCAACTATGTATTAAAATTTCT
1 CCAAAAAACGCCGCAACTATGTATTTAAATTTCT
19347713 CAGAACGGTG
Statistics
Matches: 137, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
122 3 0.02
123 4 0.03
124 96 0.70
125 34 0.25
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (125 bp):
CCAAAAAACGCCGCAACTATGTATTTAAATTTCTAAAAATGCAGCCGTTTCGGTATAGAAATTTA
AATTTTTAGTGGCATTTTTCTTGAAAACGCCACAAATGGTAATCAATAACAGCATTTGGA
Found at i:19350818 original size:44 final size:43
Alignment explanation
Indices: 19350741--19350914 Score: 217
Period size: 43 Copynumber: 4.0 Consensus size: 43
19350731 CTTTTAGCAT
*
19350741 CGTTTGTGAATAAAA-CGTCGCTAAAGGTCATGTTATTTAGCGG
1 CGTTTGTG-ATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* * * *
19350784 CGTTTGTGATAAAAAGTGTCGCTAAATGCCATGTTCTTTAGCGA
1 CGTTTGTGAT-AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* * *
19350828 CGATTGTGATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGG
1 CGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* *
19350871 CGTTTGTGATAAAAGTG-CTGCTAAACGTCATGTTCTTTAGCGG
1 CGTTTGTGATAAAAGCGTC-GCTAAAGGTCATGTTCTTTAGCGG
19350914 C
1 C
19350915 ATTTATGTGG
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 3 0.03
43 77 0.69
44 32 0.29
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
CGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
Found at i:19350867 original size:87 final size:86
Alignment explanation
Indices: 19350744--19350912 Score: 252
Period size: 87 Copynumber: 2.0 Consensus size: 86
19350734 TTAGCATCGT
* *
19350744 TTGTGAATAAAACGTCGCTAAAGGTCATGTTATTTAGCGGCGTTTGTGATAAAAAGTG-TCGCTA
1 TTGTGAATAAAACGCCGCTAAAGGTCATGATATTTAGCGGCGTTTGTGAT-AAAAGTGCT-GCTA
*
19350808 AATGCCATGTTCTTTAGCGACGA
64 AACGCCATGTTCTTTAGCGACGA
*
19350831 TTGTG-ATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGATAAAAGTGCTGCTAA
1 TTGTGAATAAAA-CGCCGCTAAAGGTCATGATATTTAGCGGCGTTTGTGATAAAAGTGCTGCTAA
*
19350895 ACGTCATGTTCTTTAGCG
65 ACGCCATGTTCTTTAGCG
19350913 GCATTTATGT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
86 34 0.45
87 41 0.55
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (86 bp):
TTGTGAATAAAACGCCGCTAAAGGTCATGATATTTAGCGGCGTTTGTGATAAAAGTGCTGCTAAA
CGCCATGTTCTTTAGCGACGA
Found at i:19354744 original size:19 final size:19
Alignment explanation
Indices: 19354722--19354774 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
19354712 TAAAACTGTA
19354722 ATTAAAATTAAAAAATCAC
1 ATTAAAATTAAAAAATCAC
*
19354741 ATT-AAATTAAAAAATTAC
1 ATTAAAATTAAAAAATCAC
* *
19354759 ATTAAACTAAAAAAAT
1 ATTAAAATTAAAAAAT
19354775 TTGTTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (19 bp):
ATTAAAATTAAAAAATCAC
Found at i:19354747 original size:18 final size:18
Alignment explanation
Indices: 19354726--19354772 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
19354716 ACTGTAATTA
19354726 AAATTAAAAAATCACATT
1 AAATTAAAAAATCACATT
*
19354744 AAATTAAAAAATTACATT
1 AAATTAAAAAATCACATT
*
19354762 AAACTAAAAAA
1 AAATTAAAAAA
19354773 ATTTGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATTAAAAAATCACATT
Found at i:19375495 original size:2 final size:2
Alignment explanation
Indices: 19375488--19375513 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19375478 GTAGAATTCA
19375488 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19375514 TAATGACCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19406900 original size:41 final size:40
Alignment explanation
Indices: 19406855--19406937 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 40
19406845 TAGTAAGTTC
19406855 ATAGGCTCACAATAAAATCTTACCAAAATTTCACTAACAAT
1 ATAGGCTCACAATAAAATCTTACCAAAA-TTCACTAACAAT
*
19406896 ATAGGCTCATAATAAAATCTTACCAAAATTCACTAACAAT
1 ATAGGCTCACAATAAAATCTTACCAAAATTCACTAACAAT
19406936 AT
1 AT
19406938 TAATAAACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 14 0.34
41 27 0.66
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (40 bp):
ATAGGCTCACAATAAAATCTTACCAAAATTCACTAACAAT
Found at i:19407216 original size:46 final size:46
Alignment explanation
Indices: 19407149--19407242 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
19407139 ACAATGCTAT
*
19407149 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
19407195 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
19407241 AA
1 AA
19407243 TTTACCATGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:19410845 original size:19 final size:18
Alignment explanation
Indices: 19410811--19410846 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19410801 ACTAGATAAA
*
19410811 TAAAAGAAAGAAAAGAAG
1 TAAAAGAAAAAAAAGAAG
19410829 TAAAAGAAACAAAAAGAA
1 TAAAAGAAA-AAAAAGAA
19410847 CAGCAGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (18 bp):
TAAAAGAAAAAAAAGAAG
Found at i:19414976 original size:349 final size:349
Alignment explanation
Indices: 19414337--19415034 Score: 1396
Period size: 349 Copynumber: 2.0 Consensus size: 349
19414327 CGTCACCATA
19414337 TCGCCCAAAAATGAATGGTGCAGTTGAGGCAGCTAATGAGAATATCAAGAGGATTGTAGGAAAAA
1 TCGCCCAAAAATGAATGGTGCAGTTGAGGCAGCTAATGAGAATATCAAGAGGATTGTAGGAAAAA
19414402 TGACTGAGACTTATAGAGATTGGCATGAGAAGTTACCATTTGCTCTTTATGCCAAACTGAGAAGG
66 TGACTGAGACTTATAGAGATTGGCATGAGAAGTTACCATTTGCTCTTTATGCCAAACTGAGAAGG
19414467 ACCTTATGTGGTAAAAAAGGCCTTTTCTGGAGGAGTATTGATATTAACCGAGATGGATGGCAAGA
131 ACCTTATGTGGTAAAAAAGGCCTTTTCTGGAGGAGTATTGATATTAACCGAGATGGATGGCAAGA
19414532 ACCTACCTAATCTAGTGAATTCAGGCTCCGTCAAGAAGTACTTCACCTAAAAAAGGAGAGGCCAA
196 ACCTACCTAATCTAGTGAATTCAGGCTCCGTCAAGAAGTACTTCACCTAAAAAAGGAGAGGCCAA
19414597 GGCGAAAACTTGTAAAAGATCACCTTGAGACCAAAAGGGTTTTGAATTGAAAACCCGTGAAAGGG
261 GGCGAAAACTTGTAAAAGATCACCTTGAGACCAAAAGGGTTTTGAATTGAAAACCCGTGAAAGGG
19414662 CAATTTAAATTTTGATCAAAGATG
326 CAATTTAAATTTTGATCAAAGATG
19414686 TCGCCCAAAAATGAATGGTGCAGTTGAGGCAGCTAATGAGAATATCAAGAGGATTGTAGGAAAAA
1 TCGCCCAAAAATGAATGGTGCAGTTGAGGCAGCTAATGAGAATATCAAGAGGATTGTAGGAAAAA
19414751 TGACTGAGACTTATAGAGATTGGCATGAGAAGTTACCATTTGCTCTTTATGCCAAACTGAGAAGG
66 TGACTGAGACTTATAGAGATTGGCATGAGAAGTTACCATTTGCTCTTTATGCCAAACTGAGAAGG
19414816 ACCTTATGTGGTAAAAAAGGCCTTTTCTGGAGGAGTATTGATATTAACCGAGATGGATGGCAAGA
131 ACCTTATGTGGTAAAAAAGGCCTTTTCTGGAGGAGTATTGATATTAACCGAGATGGATGGCAAGA
19414881 ACCTACCTAATCTAGTGAATTCAGGCTCCGTCAAGAAGTACTTCACCTAAAAAAGGAGAGGCCAA
196 ACCTACCTAATCTAGTGAATTCAGGCTCCGTCAAGAAGTACTTCACCTAAAAAAGGAGAGGCCAA
19414946 GGCGAAAACTTGTAAAAGATCACCTTGAGACCAAAAGGGTTTTGAATTGAAAACCCGTGAAAGGG
261 GGCGAAAACTTGTAAAAGATCACCTTGAGACCAAAAGGGTTTTGAATTGAAAACCCGTGAAAGGG
19415011 CAATTTAAATTTTGATCAAAGATG
326 CAATTTAAATTTTGATCAAAGATG
19415035 AGGCACACGG
Statistics
Matches: 349, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
349 349 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (349 bp):
TCGCCCAAAAATGAATGGTGCAGTTGAGGCAGCTAATGAGAATATCAAGAGGATTGTAGGAAAAA
TGACTGAGACTTATAGAGATTGGCATGAGAAGTTACCATTTGCTCTTTATGCCAAACTGAGAAGG
ACCTTATGTGGTAAAAAAGGCCTTTTCTGGAGGAGTATTGATATTAACCGAGATGGATGGCAAGA
ACCTACCTAATCTAGTGAATTCAGGCTCCGTCAAGAAGTACTTCACCTAAAAAAGGAGAGGCCAA
GGCGAAAACTTGTAAAAGATCACCTTGAGACCAAAAGGGTTTTGAATTGAAAACCCGTGAAAGGG
CAATTTAAATTTTGATCAAAGATG
Found at i:19416965 original size:56 final size:52
Alignment explanation
Indices: 19416869--19417066 Score: 206
Period size: 50 Copynumber: 3.8 Consensus size: 52
19416859 ATTTGGGTAA
* *
19416869 AGAGATCCCATGTAAGACCATGTCTGGGTCATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGATCA-G
* *
19416925 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATCAG
* * * * *
19416977 AG-GGACCC-TATAAGACCATGTCTGGGACATGACATGGGCACCGATAT--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATCAG
** * * *
19417025 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19417067 GTACATGAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
48 3 0.02
49 2 0.02
50 61 0.50
51 5 0.04
52 3 0.02
53 6 0.05
55 2 0.02
56 39 0.32
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATCAG
Found at i:19418636 original size:45 final size:45
Alignment explanation
Indices: 19418534--19419154 Score: 239
Period size: 45 Copynumber: 13.7 Consensus size: 45
19418524 AGACTGCAAA
* * * * ** *
19418534 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAG
* * * **
19418578 TCTTAACTACCTAAAGTTACAGTGGAGTGGACTGAAGATAGTAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAG
*
19418623 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAG-TAAG
* * * * *
19418668 TCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGTTA-T-GG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAG
* * * *
19418711 ATCTTATCTCCCTAAAGTTGCAGTGGAGTA-AATCGAAGATAGCAAA
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGATAGTAAG
* * * * * *
19418757 TCTTATCTCTCTGAAA-TTGCAGTAGAGCAGATTAAAGTTA-TAAA
1 TCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACTGAAGATAGTAAG
* ** * * * * *
19418801 CCTTATCTTGCTGAAGTTGCAGTGGAGTAGATTGAAGA-CGCGAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAG-TAAG
* * * * * * * * *
19418845 TCTTATTTCCCTGAGGTTGCAGTGGAACGGATTAAAGCTTAAAGTCACAAT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG---ATAGT---AAG
* *
19418896 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGATAACG-AA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT-A-GTAAG
* * * * * * *
19418941 TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCCATAAATTAGATA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG--AT--AGTA-A-G
* * * * ** * *
19418992 TTTTATCTCTCTGAAGTTGCAGT--AG-A-ACAGATCATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAG
* ** * *
19419033 CCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAG
* ** ** * * * *
19419077 TCTTATCGCCCTAAAGTCACAACGGAGCAGGCTGAATATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAG
* ***
19419122 TATTATCTCCCTGGTGTTGCAGTGGAGCAGACT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT
19419155 AAAACCCTCG
Statistics
Matches: 427, Mismatches: 116, Indels: 67
0.70 0.19 0.11
Matches are distributed among these distances:
41 20 0.05
42 1 0.00
43 8 0.02
44 154 0.36
45 168 0.39
46 9 0.02
47 6 0.01
48 6 0.01
49 3 0.01
50 3 0.01
51 49 0.11
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAG
Found at i:19418716 original size:89 final size:89
Alignment explanation
Indices: 19418623--19418973 Score: 375
Period size: 89 Copynumber: 3.9 Consensus size: 89
19418613 AGATAGTAAG
19418623 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGC
* **
19418688 AGTGGAACAGATTGAAGTTATGGA
66 AGTGGAACAGATTAAAGTTATAAA
* * * * *
19418712 TCTTATCTCCCTAAAGTTGCAGTGGAGTA-AATCGAAGATAGCAAATCTTATCTCTCTGAAA-TT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGATAGCGAATCTTATTTCCCT-AAAGTT
* *
19418775 GCAGTAGAGCAGATTAAAGTTATAAA
64 GCAGTGGAACAGATTAAAGTTATAAA
* ** * * * * * *
19418801 CCTTATCTTGCTGAAGTTGCAGTGGAGTAGATTGAAGA-CGCGAATCTTATTTCCCTGAGGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGC
*
19418865 AGTGGAACGGATTAAAGCTTAAAGTCACAA
66 AGTGGAACAGATTAAAG-TT--A-T-A-AA
* * * *
19418895 TTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTG
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTG
*
19418960 TAGTGGAACAGATT
65 CAGTGGAACAGATT
19418974 GAAGCCATAA
Statistics
Matches: 215, Mismatches: 35, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
87 1 0.00
88 34 0.16
89 104 0.48
90 5 0.02
91 1 0.00
92 1 0.00
93 1 0.00
94 2 0.01
95 32 0.15
96 34 0.16
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGC
AGTGGAACAGATTAAAGTTATAAA
Found at i:19418730 original size:44 final size:44
Alignment explanation
Indices: 19418532--19419093 Score: 269
Period size: 44 Copynumber: 12.4 Consensus size: 44
19418522 ACAGACTGCA
* * * ** *
19418532 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCA-C
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTATG
* * * ** * *
19418575 AAGTCTTAACTACCTAAAGTTACAGTGGAGTGGACTGAAGATA-G
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTATG
* * *
19418619 TAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCG
1 -AA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA-TG
* *
19418666 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGTTATG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTATG
* * * * *
19418710 GATCTTATCTCCCTAAAGTTGCAGTGGAGTAAATCGAAGATA-G
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTATG
* * * *
19418753 CAAATCTTATCTCTCTGAAA-TTGCAGTAGAGCAGATTAAAGTTATA
1 --AATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGTTATG
* ** * * ****
19418799 AACCTTATCTTGCTGAAGTTGCAGTGGAGTAGATTGAAGACGCG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTATG
* * * * * * *
19418843 AATCTTATTTCCCTGAGGTTGCAGTGGAACGGATTAAAGCTTAAAGTCAC
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TT--A-T--G
* * * * *
19418893 AATTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGATAACG
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TTATG
* * * * *
19418939 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCCATAAATTAG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG---T-TA-T-G
* * * * * * *
19418989 ATATTTTATCTCTCTGAAGTTGCAGTAGAACAGA-TCATAG-CA--
1 A-ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGA-AGTTATG
* * *
19419031 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA-C
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTATG
*
19419074 AAGTCTTATCGCCCTAAAGT
1 AA-TCTTATCTCCCTAAAGT
19419094 CACAACGGAG
Statistics
Matches: 393, Mismatches: 99, Indels: 53
0.72 0.18 0.10
Matches are distributed among these distances:
41 27 0.07
42 4 0.01
43 7 0.02
44 139 0.35
45 136 0.35
46 8 0.02
47 3 0.01
48 2 0.01
49 1 0.00
50 6 0.02
51 60 0.15
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTATG
Found at i:19418998 original size:96 final size:95
Alignment explanation
Indices: 19418623--19419013 Score: 285
Period size: 89 Copynumber: 4.2 Consensus size: 95
19418613 AGATAGTAAG
* * * *
19418623 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGA-AACGAATCTTATTTCCCTGAAGTTGC
* * **
19418688 AGTGGAACAGATTGAAG--T-TA-T--GGA-
65 AGTGGAACAGATTAAAGCATAAAGTCACAAT
* * * * * * * * *
19418712 TCTTATCTCCCTAAAGTTGCAGTGGAGTA-AATCGAAGATAGCAAATCTTATCTCTCTGAAATTG
1 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACT-GAAGA-AACGAATCTTATTTCCCTGAAGTTG
* * *
19418776 CAGTAGAGCAGATTAAAG--T-TA-T-A-AA-
64 CAGTGGAACAGATTAAAGCATAAAGTCACAAT
* ** * * * ** *
19418801 CCTTATCTTGCTGAAGTTGCAGTGGAGTAGATTGAAGACGCGAATCTTATTTCCCTGAGGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGAAACGAATCTTATTTCCCTGAAGTTGCA
* *
19418866 GTGGAACGGATTAAAGCTTAAAGTCACAAT
66 GTGGAACAGATTAAAGCATAAAGTCACAAT
*
19418896 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGA-AACGAATCTTATTTCCCTGAAGTTGC
* * *
19418961 AGTGGAACAGATTGAAGCCATAAA-TTAGATAT
65 AGTGGAACAGATTAAAG-CATAAAGTCACA-AT
*
19418993 T-TTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
19419014 TAGAACAGAT
Statistics
Matches: 247, Mismatches: 42, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
88 36 0.15
89 104 0.42
90 3 0.01
91 1 0.00
92 1 0.00
93 1 0.00
94 2 0.01
95 32 0.13
96 59 0.24
97 8 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (95 bp):
TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGAAACGAATCTTATTTCCCTGAAGTTGCA
GTGGAACAGATTAAAGCATAAAGTCACAAT
Found at i:19419451 original size:17 final size:16
Alignment explanation
Indices: 19419416--19419456 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
19419406 TCCCGGGCCT
19419416 AAATAGAAACCCAAAAA
1 AAATA-AAACCCAAAAA
*
19419433 AAATAAAACCACAATAA
1 AAATAAAACC-CAAAAA
19419450 AAATAAA
1 AAATAAA
19419457 TAATAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.73, C:0.15, G:0.02, T:0.10
Consensus pattern (16 bp):
AAATAAAACCCAAAAA
Found at i:19420625 original size:14 final size:14
Alignment explanation
Indices: 19420601--19420633 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19420591 AATACATTTA
*
19420601 TTTTA-TTATATCG
1 TTTTATTTATATCC
19420614 TTTTATTTATATCC
1 TTTTATTTATATCC
19420628 TTTTAT
1 TTTTAT
19420634 ATAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTTATTTATATCC
Found at i:19420633 original size:27 final size:26
Alignment explanation
Indices: 19420601--19420728 Score: 65
Period size: 27 Copynumber: 4.9 Consensus size: 26
19420591 AATACATTTA
19420601 TTTTATTATATCGTTTTATTTATATCC
1 TTTTATTATATCGTTTTATTTATAT-C
* * *
19420628 TTTTA-TATAAT--TTTAAGCTTTATGTTT
1 TTTTATTAT-ATCGTTTTA--TTTAT-ATC
*
19420655 TTTTATT-TAT-TTTTTA-TTATA--
1 TTTTATTATATCGTTTTATTTATATC
* *
19420676 TTATATATATCATCGTTATTAATTATATC
1 TTTTAT-TAT-ATCGTT-TTATTTATATC
19420705 ATTTTATTATATCGTTTTATTTAT
1 -TTTTATTATATCGTTTTATTTAT
19420729 TTATATCCTT
Statistics
Matches: 77, Mismatches: 9, Indels: 30
0.66 0.08 0.26
Matches are distributed among these distances:
21 5 0.06
22 1 0.01
23 1 0.01
24 6 0.08
25 6 0.08
26 8 0.10
27 34 0.44
28 8 0.10
29 3 0.04
30 5 0.06
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTATTATATCGTTTTATTTATATC
Found at i:19420732 original size:18 final size:17
Alignment explanation
Indices: 19420707--19420742 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
19420697 ATTATATCAT
*
19420707 TTTATTATATCGTTTTA
1 TTTATTATATCCTTTTA
19420724 TTTATTTATATCCTTTTA
1 TTTA-TTATATCCTTTTA
19420742 T
1 T
19420743 ATGATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATTATATCCTTTTA
Found at i:19420801 original size:105 final size:104
Alignment explanation
Indices: 19420600--19420801 Score: 252
Period size: 105 Copynumber: 1.9 Consensus size: 104
19420590 AAATACATTT
* **
19420600 ATTTTATTATATCGTTTTATTTATATCCTTTTATATAATTTTAAGCTTTATGTTTTTTTATTTAT
1 ATTTTATTATATCGTTTTATTTATATCCTTTTATATAATTTTAAACTTTAAATTTTTTTATTTA-
* *
19420665 TTTTTATTATATTATATATATCATCGTTATTAATTATATC
65 TTATTATTATATTATATATATCATCATTATTAATTATATC
*
19420705 ATTTTATTATATCGTTTTATTTATTTATATCCTTTTATATGATTTTAAACTTTAAA--TTTTTA-
1 ATTTTATTATATCG---T-TTTATTTATATCCTTTTATATAATTTTAAACTTTAAATTTTTTTAT
19420767 TTATTA-TATTATTATTA-ATATCATCATCATTATTA
62 TTATTATTATTA-TATTATATAT-ATCATCATTATTA
19420802 TTGATATTAT
Statistics
Matches: 85, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
104 9 0.11
105 33 0.39
106 3 0.04
107 6 0.07
108 1 0.01
109 33 0.39
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (104 bp):
ATTTTATTATATCGTTTTATTTATATCCTTTTATATAATTTTAAACTTTAAATTTTTTTATTTAT
TATTATTATATTATATATATCATCATTATTAATTATATC
Found at i:19422540 original size:21 final size:21
Alignment explanation
Indices: 19422514--19422556 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
19422504 CAAACACGCC
19422514 AACAGAAGCTCTTGAGAGCTG
1 AACAGAAGCTCTTGAGAGCTG
19422535 AACAGAAGCTCTTGAGAGCTG
1 AACAGAAGCTCTTGAGAGCTG
19422556 A
1 A
19422557 TCAACCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCTTGAGAGCTG
Found at i:19426239 original size:6 final size:6
Alignment explanation
Indices: 19426227--19426261 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
19426217 TTATTTAATA
* *
19426227 TATTTT GATTTT GATTTT TATTTT TATTTT TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTT
19426262 ACAATAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:19429215 original size:21 final size:21
Alignment explanation
Indices: 19429190--19429235 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
19429180 GGGGGGGGGA
* *
19429190 TTTCGTTACTTTGCTTCGTGT
1 TTTCGTCACTTTGCTTCATGT
*
19429211 TTTCGTCGCTTTGCTTCATGT
1 TTTCGTCACTTTGCTTCATGT
19429232 TTTC
1 TTTC
19429236 ATCCTTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.22, G:0.17, T:0.57
Consensus pattern (21 bp):
TTTCGTCACTTTGCTTCATGT
Found at i:19430211 original size:25 final size:25
Alignment explanation
Indices: 19430183--19430232 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
19430173 TAAGGTTCGA
* * *
19430183 GTTCGGGCTCGGGCTTGGGTTTGGG
1 GTTCGAGCTCGGGCTCGGGCTTGGG
*
19430208 GTTCGAGTTCGGGCTCGGGCTTGGG
1 GTTCGAGCTCGGGCTCGGGCTTGGG
19430233 ATTTTGAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.02, C:0.18, G:0.50, T:0.30
Consensus pattern (25 bp):
GTTCGAGCTCGGGCTCGGGCTTGGG
Found at i:19434177 original size:14 final size:14
Alignment explanation
Indices: 19434158--19434184 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19434148 AATAAATAAA
19434158 ATATTTAATTTTTG
1 ATATTTAATTTTTG
19434172 ATATTTAATTTTT
1 ATATTTAATTTTT
19434185 ATCCAAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
ATATTTAATTTTTG
Found at i:19438988 original size:25 final size:25
Alignment explanation
Indices: 19438960--19439159 Score: 165
Period size: 25 Copynumber: 8.0 Consensus size: 25
19438950 TGAGTGTCCT
*
19438960 GATATTTGGCTCTCACGAGCTTCCC
1 GATATTTGGCTCTCATGAGCTTCCC
* * *
19438985 GATACTTGGCTCTCATGAGCTTTCT
1 GATATTTGGCTCTCATGAGCTTCCC
* *
19439010 GTTATTTAGCTCTCATGAGCTTCCC
1 GATATTTGGCTCTCATGAGCTTCCC
* * *
19439035 GAT-TAATGGCTCTCTTAAGCTTCCC
1 GATAT-TTGGCTCTCATGAGCTTCCC
* * * *
19439060 GTTATATGGCTCTCACGAGCTTCCT
1 GATATTTGGCTCTCATGAGCTTCCC
* *
19439085 GATATTTTGCTCGCATGAGCTTCCC
1 GATATTTGGCTCTCATGAGCTTCCC
*
19439110 -AT-TTATGGCTCGT-ATAAGCTTCCC
1 GATATT-TGGCTC-TCATGAGCTTCCC
* * * *
19439134 GATAATTAGCTCGCAAGAGCTTCCC
1 GATATTTGGCTCTCATGAGCTTCCC
19439159 G
1 G
19439160 TTATACAGCT
Statistics
Matches: 135, Mismatches: 33, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
23 2 0.01
24 18 0.13
25 113 0.84
26 2 0.01
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (25 bp):
GATATTTGGCTCTCATGAGCTTCCC
Found at i:19439024 original size:50 final size:49
Alignment explanation
Indices: 19438962--19439163 Score: 183
Period size: 50 Copynumber: 4.1 Consensus size: 49
19438952 AGTGTCCTGA
* *
19438962 TATTTGGCTCTCACGAGCTTCCCGATACTTGGCTCTCATGAGCTTTCTGT
1 TATTTGGCTCTCACGAGCTTCCCGATA-TTGGCTCTCATGAGCTTCCCGT
* * * * *
19439012 TATTTAGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTAAGCTTCCCGT
1 TATTTGGCTCTCACGAGCTTCCCGA-TATTGGCTCTCATGAGCTTCCCGT
* * * * *
19439062 TATATGGCTCTCACGAGCTTCCTGATATTTTGCTCGCATGAGCTTCCCAT
1 TATTTGGCTCTCACGAGCTTCCCGATA-TTGGCTCTCATGAGCTTCCCGT
* ** * * *
19439112 T-TATGGCTCGT-ATAAGCTTCCCGATAATTAGCTCGCAAGAGCTTCCCGT
1 TATTTGGCTC-TCACGAGCTTCCCGAT-ATTGGCTCTCATGAGCTTCCCGT
19439161 TAT
1 TAT
19439164 ACAGCTCACA
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
49 41 0.33
50 81 0.65
51 2 0.02
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (49 bp):
TATTTGGCTCTCACGAGCTTCCCGATATTGGCTCTCATGAGCTTCCCGT
Found at i:19439072 original size:75 final size:74
Alignment explanation
Indices: 19438977--19439196 Score: 230
Period size: 74 Copynumber: 2.9 Consensus size: 74
19438967 GGCTCTCACG
* * *
19438977 AGCTTCCCGATACT-TGGCTCTCATGAGCTTTCTGTTATTTAGCTCTCATGAGCTTCCCGATTAA
1 AGCTTCCCGATA-TATGGCTCTCAAGAGCTTCCTGTTATTTAGCTCACATGAGCTTCCC-ATTAA
*
19439041 TGGCTC-TCTTA
64 TGGCTCGT-ATA
* * * * * *
19439052 AGCTTCCCGTTATATGGCTCTCACGAGCTTCCTGATATTTTGCTCGCATGAGCTTCCCATTTATG
1 AGCTTCCCGATATATGGCTCTCAAGAGCTTCCTGTTATTTAGCTCACATGAGCTTCCCATTAATG
19439117 GCTCGTATA
66 GCTCGTATA
* * * ** *
19439126 AGCTTCCCGATA-ATTAGCTCGCAAGAGCTTCCCGTTATACAGCTCACATGAGCTTTCCATTACA
1 AGCTTCCCGATATA-TGGCTCTCAAGAGCTTCCTGTTATTTAGCTCACATGAGCTTCCCATTA-A
19439190 TGGCTCG
64 TGGCTCG
19439197 GAAGAGCTTC
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
73 1 0.01
74 61 0.50
75 59 0.49
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.35
Consensus pattern (74 bp):
AGCTTCCCGATATATGGCTCTCAAGAGCTTCCTGTTATTTAGCTCACATGAGCTTCCCATTAATG
GCTCGTATA
Found at i:19439169 original size:25 final size:25
Alignment explanation
Indices: 19439141--19439207 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
19439131 CCCGATAATT
* *
19439141 AGCTCGCAAGAGCTTCCCGTTATAC
1 AGCTCGCAAGAGCTTCCCATTACAC
* * * *
19439166 AGCTCACATGAGCTTTCCATTACAT
1 AGCTCGCAAGAGCTTCCCATTACAC
* *
19439191 GGCTCGGAAGAGCTTCC
1 AGCTCGCAAGAGCTTCC
19439208 TAATTACATG
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (25 bp):
AGCTCGCAAGAGCTTCCCATTACAC
Found at i:19441929 original size:23 final size:20
Alignment explanation
Indices: 19441885--19441926 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
19441875 ATGATGCTGA
*
19441885 TTAATTTATTATATACTTTT
1 TTAATTTATTATAGACTTTT
19441905 TTAATTTATTATAGACTTTT
1 TTAATTTATTATAGACTTTT
19441925 TT
1 TT
19441927 TTTCTTGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (20 bp):
TTAATTTATTATAGACTTTT
Found at i:19444369 original size:17 final size:17
Alignment explanation
Indices: 19444347--19444444 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
19444337 AATTCAAGAC
19444347 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
19444364 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
19444383 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
19444401 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
19444420 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
19444438 TTATGTA
1 TTATGTA
19444445 GTGATTCAAA
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 24 0.43
18 8 0.14
19 8 0.14
20 16 0.29
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:19444389 original size:20 final size:20
Alignment explanation
Indices: 19444364--19444461 Score: 82
Period size: 20 Copynumber: 5.2 Consensus size: 20
19444354 ATGTTTTTAA
19444364 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
19444384 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTCAAAGAC
19444401 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
19444421 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTCAAAGAC
19444438 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
19444458 TTAT
1 TTAT
19444462 TTAATATTTT
Statistics
Matches: 56, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
17 16 0.29
18 10 0.18
19 10 0.18
20 20 0.36
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAC
Found at i:19444392 original size:37 final size:37
Alignment explanation
Indices: 19444322--19444524 Score: 338
Period size: 37 Copynumber: 5.5 Consensus size: 37
19444312 AATACTTATA
* *
19444322 TTTTAATTATGT-GTTAATTC-AAGACTTATGTAATGT
1 TTTTAATTATGTAG-TGATTCAAAGACTTATGTAATAT
19444358 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
19444395 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
*
19444432 TTTTAATTATGTAGTGATTCAAAGACTTATTTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
* *
19444469 TTTTAATTATGTAGTGATTCAAATATTTATGTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
19444506 TTTTAATTATGTAGTGATT
1 TTTTAATTATGTAGTGATT
19444525 TAATTCGGGT
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
36 17 0.11
37 142 0.89
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (37 bp):
TTTTAATTATGTAGTGATTCAAAGACTTATGTAATAT
Found at i:19444723 original size:29 final size:26
Alignment explanation
Indices: 19444655--19444726 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 26
19444645 TTTTTTTAAA
*
19444655 TTCGGTTCGGTTAACGGTTAAAAATT
1 TTCGGGTCGGTTAACGGTTAAAAATT
19444681 TTCGAAGGTCGGTTAATTCGGTTATACAAA-T
1 TTCG--GGTCGGTTAA--CGGTTA-A-AAATT
19444712 TTCGGGTCGGTTAAC
1 TTCGGGTCGGTTAAC
19444727 CGAATGAGCA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
26 4 0.10
27 1 0.03
28 9 0.23
29 10 0.26
30 6 0.15
31 6 0.15
32 3 0.08
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (26 bp):
TTCGGGTCGGTTAACGGTTAAAAATT
Found at i:19453964 original size:23 final size:23
Alignment explanation
Indices: 19453915--19453964 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
19453905 ACCCTGTTTG
* ** *
19453915 GACAGCCCTTATACATCAATTTG
1 GACAGCCCTTATACACCAAACTA
*
19453938 GACAGCCCTTATATACCAAACTA
1 GACAGCCCTTATACACCAAACTA
19453961 GACA
1 GACA
19453965 ACATTTTCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (23 bp):
GACAGCCCTTATACACCAAACTA
Found at i:19454031 original size:25 final size:24
Alignment explanation
Indices: 19453979--19454102 Score: 144
Period size: 23 Copynumber: 5.2 Consensus size: 24
19453969 TTTCACACCA
*
19453979 AAATTTGGACAGCATATATACAAC
1 AAATTTGGGCAGCATATATACAAC
19454003 -AATTTGGGCAGCATATATACAAC
1 AAATTTGGGCAGCATATATACAAC
* * * * *
19454026 AAAATTGAGCAGCATTTTTACACC
1 AAATTTGGGCAGCATATATACAAC
*
19454050 AAATATTGGACAGCATATATACAAC
1 AAAT-TTGGGCAGCATATATACAAC
* *
19454075 AAA-TTGGGCAGCATATATATACC
1 AAATTTGGGCAGCATATATACAAC
19454098 AAATT
1 AAATT
19454103 GAATATATCC
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
23 42 0.51
24 22 0.27
25 18 0.22
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (24 bp):
AAATTTGGGCAGCATATATACAAC
Found at i:19454284 original size:23 final size:23
Alignment explanation
Indices: 19454261--19454451 Score: 154
Period size: 23 Copynumber: 8.1 Consensus size: 23
19454251 ACACCAAAAT
*
19454261 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
*
19454284 TTGGGCAGCATATATACAACAAAA
1 TTGGACAGCATATATACAAC-AAA
* * *
19454308 TT-GAGCAGCATTTTTACACCAAATA
1 TTGGA-CAGCATATATACAAC-AA-A
19454333 TTGGACAGCATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * *
19454356 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCATATATACAACAAA
* * * *
19454379 TT-GAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
* *
19454403 TTGGACAGCATATATACAATAAT
1 TTGGACAGCATATATACAACAAA
* *
19454426 TTAGG-CAGCATATATATACCAAA
1 TT-GGACAGCATATATACAACAAA
19454449 TTG
1 TTG
19454452 AGCAACATTT
Statistics
Matches: 132, Mismatches: 28, Indels: 17
0.75 0.16 0.10
Matches are distributed among these distances:
22 2 0.02
23 73 0.55
24 38 0.29
25 17 0.13
26 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (23 bp):
TTGGACAGCATATATACAACAAA
Found at i:19454324 original size:278 final size:278
Alignment explanation
Indices: 19453827--19454382 Score: 1096
Period size: 278 Copynumber: 2.0 Consensus size: 278
19453817 TAAATCAAGC
19453827 ATATATCCAAACATTTATTTGTACACATATTTCATTTCAATTTACTAACTATACTACATATTACA
1 ATATATCCAAACATTTATTTGTACACATATTTCATTTCAATTTACTAACTATACTACATATTACA
19453892 ACATAGGTAATCTACCCTGTTTGGACAGCCCTTATACATCAATTTGGACAGCCCTTATATACCAA
66 ACATAGGTAATCTACCCTGTTTGGACAGCCCTTATACATCAATTTGGACAGCCCTTATATACCAA
19453957 ACTAGACAACATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGGCAGCATATATA
131 ACTAGACAACATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGGCAGCATATATA
19454022 CAACAAAATTGAGCAGCATTTTTACACCAAATATTGGACAGCATATATACAACAAATTGGGCAGC
196 CAACAAAATTGAGCAGCATTTTTACACCAAATATTGGACAGCATATATACAACAAATTGGGCAGC
19454087 ATATATATACCAAATTGA
261 ATATATATACCAAATTGA
19454105 ATATATCCAAACATTTATTTGTACACATATTTCATTTCAATTTACTAACTATACTACATATTACA
1 ATATATCCAAACATTTATTTGTACACATATTTCATTTCAATTTACTAACTATACTACATATTACA
19454170 ACATAGGTAATCTACCCTGTTTGGACCAGCCCTT-TACATCAATTTGGACAGCCCTTATATACCA
66 ACATAGGTAATCTACCCTGTTTGGA-CAGCCCTTATACATCAATTTGGACAGCCCTTATATACCA
19454234 AACTAGACAACATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGGCAGCATATAT
130 AACTAGACAACATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGGCAGCATATAT
19454299 ACAACAAAATTGAGCAGCATTTTTACACCAAATATTGGACAGCATATATACAACAAATTGGGCAG
195 ACAACAAAATTGAGCAGCATTTTTACACCAAATATTGGACAGCATATATACAACAAATTGGGCAG
19454364 CATATATATACCAAATTGA
260 CATATATATACCAAATTGA
19454383 GCAACATTTT
Statistics
Matches: 277, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
278 269 0.97
279 8 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (278 bp):
ATATATCCAAACATTTATTTGTACACATATTTCATTTCAATTTACTAACTATACTACATATTACA
ACATAGGTAATCTACCCTGTTTGGACAGCCCTTATACATCAATTTGGACAGCCCTTATATACCAA
ACTAGACAACATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGGCAGCATATATA
CAACAAAATTGAGCAGCATTTTTACACCAAATATTGGACAGCATATATACAACAAATTGGGCAGC
ATATATATACCAAATTGA
Found at i:19454339 original size:72 final size:70
Alignment explanation
Indices: 19454225--19454473 Score: 365
Period size: 70 Copynumber: 3.5 Consensus size: 70
19454215 GGACAGCCCT
* *
19454225 TATATACCAAACT-AGACAACATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGG
1 TATATACCAAATTGAG-CAACATTTTTACACCAAAA-TTGGACAGCATATATACAACAATTTGGG
19454289 CAGCATA
64 CAGCATA
* * * *
19454296 TATACAACAAAATTGAGCAGCATTTTTACACCAAATATTGGACAGCATATATACAACAAATTGGG
1 TATA-TACCAAATTGAGCAACATTTTTACACCAAA-ATTGGACAGCATATATACAACAATTTGGG
19454361 CAGCATA
64 CAGCATA
* * *
19454368 TATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAATAATTTAGGCA
1 TATATACCAAATTGAGCAACATTTTTACACCAAAATTGGACAGCATATATACAACAATTTGGGCA
19454433 GCATA
66 GCATA
*
19454438 TATATACCAAATTGAGCAACATTTTTACATCAAAAT
1 TATATACCAAATTGAGCAACATTTTTACACCAAAAT
19454474 AACATGAACA
Statistics
Matches: 162, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
70 69 0.43
71 30 0.19
72 60 0.37
73 3 0.02
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (70 bp):
TATATACCAAATTGAGCAACATTTTTACACCAAAATTGGACAGCATATATACAACAATTTGGGCA
GCATA
Found at i:19454473 original size:70 final size:70
Alignment explanation
Indices: 19453924--19454104 Score: 222
Period size: 72 Copynumber: 2.5 Consensus size: 70
19453914 GGACAGCCCT
* * * * *
19453924 TATACATCAATTTGGACAGCCCT-TATATACCAAACT-AGACAACATTTTCACACCAAAATTTGG
1 TATACAACAATTTGGGCAG-CATATATATACCAAATTGAG-CAACATTTTTACACCAAAA-TTGG
19453987 ACAGCATA
63 ACAGCATA
* * *
19453995 TATACAACAATTTGGGCAGCATATATACAACAAAATTGAGCAGCATTTTTACACCAAATATTGGA
1 TATACAACAATTTGGGCAGCATATATA-TACCAAATTGAGCAACATTTTTACACCAAA-ATTGGA
19454060 CAGCATA
64 CAGCATA
*
19454067 TATACAACAAATTGGGCAGCATATATATACCAAATTGA
1 TATACAACAATTTGGGCAGCATATATATACCAAATTGA
19454105 ATATATCCAA
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
70 2 0.02
71 30 0.32
72 60 0.63
73 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (70 bp):
TATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAACATTTTTACACCAAAATTGGACA
GCATA
Found at i:19455185 original size:24 final size:25
Alignment explanation
Indices: 19455157--19455238 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 25
19455147 TTCGAAAATA
*
19455157 TTTAATAAGCTCGCACACTTAGTGC
1 TTTAATAAACTCGCACACTTAGTGC
*
19455182 TTAATAATCAATCTCGCACACTTAGTGC
1 TT--TAAT-AAACTCGCACACTTAGTGC
19455210 TTTACAATTAAACTCGCACACTTAGTGC
1 TTT--AA-TAAACTCGCACACTTAGTGC
19455238 T
1 T
19455239 AATCTCATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.04
26 1 0.02
27 4 0.08
28 41 0.84
29 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (25 bp):
TTTAATAAACTCGCACACTTAGTGC
Found at i:19455198 original size:28 final size:28
Alignment explanation
Indices: 19455166--19455238 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
19455156 ATTTAATAAG
* *
19455166 CTCGCACACTTAGTGCTTAATAATCAAT
1 CTCGCACACTTAGTGCTTAACAATCAAA
* *
19455194 CTCGCACACTTAGTGCTTTACAATTAAA
1 CTCGCACACTTAGTGCTTAACAATCAAA
19455222 CTCGCACACTTAGTGCT
1 CTCGCACACTTAGTGCT
19455239 AATCTCATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTTAACAATCAAA
Found at i:19457549 original size:27 final size:27
Alignment explanation
Indices: 19457519--19457572 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19457509 ATAGAAAATG
19457519 AAAGGTTGATGTTAGATAAACAACTTT
1 AAAGGTTGATGTTAGATAAACAACTTT
*
19457546 AAAGGTTGGTGTTAGATAAACAACTTT
1 AAAGGTTGATGTTAGATAAACAACTTT
19457573 TGTAAAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (27 bp):
AAAGGTTGATGTTAGATAAACAACTTT
Found at i:19458180 original size:25 final size:25
Alignment explanation
Indices: 19458152--19458290 Score: 138
Period size: 25 Copynumber: 5.6 Consensus size: 25
19458142 GACACACCAC
* *
19458152 AGCTCTCATGAGCTTCCCGATATTT
1 AGCTCGCATGAGCTTCTCGATATTT
19458177 AGCTCGCATGAGCTTCTC-A-ATTT
1 AGCTCGCATGAGCTTCTCGATATTT
** **
19458200 CAGCTCTTATGAGCTTCTCGATATAC
1 -AGCTCGCATGAGCTTCTCGATATTT
*
19458226 AGCTCGCATGAGCTTCTCGTTATTT
1 AGCTCGCATGAGCTTCTCGATATTT
* * * *
19458251 AGCTCACATGAGCTTCCCGTTATAT
1 AGCTCGCATGAGCTTCTCGATATTT
* *
19458276 AGCTCGGAAGAGCTT
1 AGCTCGCATGAGCTT
19458291 ATTGTTTACA
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
23 4 0.04
24 17 0.18
25 71 0.76
26 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCTCGATATTT
Found at i:19458212 original size:49 final size:50
Alignment explanation
Indices: 19458151--19458290 Score: 176
Period size: 49 Copynumber: 2.8 Consensus size: 50
19458141 AGACACACCA
*
19458151 CAGCTCTCATGAGCTTCCCGATATTTAGCTCGCATGAGCTTCTC-AATTT
1 CAGCTCTCATGAGCTTCCCGATATATAGCTCGCATGAGCTTCTCGAATTT
* * * *
19458200 CAGCTCTTATGAGCTTCTCGATATACAGCTCGCATGAGCTTCTCGTTATTT
1 CAGCTCTCATGAGCTTCCCGATATATAGCTCGCATGAGCTTCTCG-AATTT
* * * *
19458251 -AGCTCACATGAGCTTCCCGTTATATAGCTCGGAAGAGCTT
1 CAGCTCTCATGAGCTTCCCGATATATAGCTCGCATGAGCTT
19458291 ATTGTTTACA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 40 0.52
50 33 0.43
51 4 0.05
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (50 bp):
CAGCTCTCATGAGCTTCCCGATATATAGCTCGCATGAGCTTCTCGAATTT
Found at i:19458704 original size:17 final size:17
Alignment explanation
Indices: 19458682--19458723 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
19458672 ATGTTATACG
*
19458682 AACTTATTAAGCTTAAA
1 AACTTACTAAGCTTAAA
19458699 AACTTACTAAGCTTAAA
1 AACTTACTAAGCTTAAA
*
19458716 AGCTTACT
1 AACTTACT
19458724 CTGTGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (17 bp):
AACTTACTAAGCTTAAA
Found at i:19460171 original size:23 final size:23
Alignment explanation
Indices: 19460142--19460240 Score: 117
Period size: 23 Copynumber: 4.3 Consensus size: 23
19460132 AGTGTTATTG
19460142 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * * *
19460165 ATTAGTGGTAGTTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * * *
19460188 TTCAATGGTAGCTACGACTACGT
1 ATCAGTGGTAGCTACGGCTACAT
*
19460211 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
19460234 ATCAGTG
1 ATCAGTG
19460241 TGGCACTTAT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:19461113 original size:352 final size:352
Alignment explanation
Indices: 19460467--19461175 Score: 1319
Period size: 352 Copynumber: 2.0 Consensus size: 352
19460457 ATGACTTTGA
* *
19460467 AAAATCACCAAAAATGGTGGAAATTGAATTAGAGAGTGAATAAGATATGAAATGAAATTTTAATG
1 AAAATCACCAAAAATGGTGGAAATCGAATTAGAGAGTGAATAAGATATGAAATGAAAGTTTAATG
* * *
19460532 TGTCTATTTTTACATAAAAGAAATAGAGTAAGCAAAAGAGTTATATATTTTGAGATATTATAAGT
66 AGTCTATTTTTACATAAAAGAAACAGAGTAAGCAAAAGAGTTATATATTTTGAGATATTACAAGT
19460597 TTAGTGAGACAGGGTCATAATGAATTTGGAATCCCATATTCTAACTCTGGAAAATTGTTAAAAAT
131 TTAGTGAGACAGGGTCATAATGAATTTGGAATCCCATATTCTAACTCTGGAAAATTGTTAAAAAT
19460662 TGTACAAAAATAATTACGAGCTAAAATTTATATGTTTAGAACCTTGAATGAGTCTATTTTCAACT
196 TGTACAAAAATAATTACGAGCTAAAATTTATATGTTTAGAACCTTGAATGAGTCTATTTTCAACT
*
19460727 GAAATAAACATAAGTACCATCTGAATTCTGTACAGTGAGATAATTAATTTTTAGTGAAGAGAGGT
261 GAAATAAACATAAGTACCATCTGAATTATGTACAGTGAGATAATTAATTTTTAGTGAAGAGAGGT
* *
19460792 CATAACTATTAAGCAATGCAATAGGGG
326 CATAACTATTAAGCAATGAAATAGGAG
19460819 AAAATCACCAAAAATGGTGGAAATCGAATTAGAGAGTGAATAAGATATGAAATGAAAGTTTAATG
1 AAAATCACCAAAAATGGTGGAAATCGAATTAGAGAGTGAATAAGATATGAAATGAAAGTTTAATG
19460884 AGTCTATTTTTACATAAAAGAAACAGAGTAAGCAAAAGAGTTATATATTTTGAGATATTACAAGT
66 AGTCTATTTTTACATAAAAGAAACAGAGTAAGCAAAAGAGTTATATATTTTGAGATATTACAAGT
*
19460949 TTAGTGAGACAGGGTCATAATGAATTTGGAATCCCGTATTCTAACTCTGGAAAATTGTTAAAAAT
131 TTAGTGAGACAGGGTCATAATGAATTTGGAATCCCATATTCTAACTCTGGAAAATTGTTAAAAAT
*
19461014 TGTACAAAAATAATTACGAGCTAAACTTTATATGTTTAGAACCTTGAATGAGTCTATTTTCAACT
196 TGTACAAAAATAATTACGAGCTAAAATTTATATGTTTAGAACCTTGAATGAGTCTATTTTCAACT
19461079 GAAATAAACATAAGTACCATCTGAATTATGTACAGTGAGATAATTAATTTTTAGTGAAGAGAGGT
261 GAAATAAACATAAGTACCATCTGAATTATGTACAGTGAGATAATTAATTTTTAGTGAAGAGAGGT
*
19461144 CATAACTATTGAGCAATGAAATAGGAG
326 CATAACTATTAAGCAATGAAATAGGAG
19461171 AAAAT
1 AAAAT
19461176 TTAGTGAAGA
Statistics
Matches: 346, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
352 346 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (352 bp):
AAAATCACCAAAAATGGTGGAAATCGAATTAGAGAGTGAATAAGATATGAAATGAAAGTTTAATG
AGTCTATTTTTACATAAAAGAAACAGAGTAAGCAAAAGAGTTATATATTTTGAGATATTACAAGT
TTAGTGAGACAGGGTCATAATGAATTTGGAATCCCATATTCTAACTCTGGAAAATTGTTAAAAAT
TGTACAAAAATAATTACGAGCTAAAATTTATATGTTTAGAACCTTGAATGAGTCTATTTTCAACT
GAAATAAACATAAGTACCATCTGAATTATGTACAGTGAGATAATTAATTTTTAGTGAAGAGAGGT
CATAACTATTAAGCAATGAAATAGGAG
Found at i:19461163 original size:27 final size:27
Alignment explanation
Indices: 19461133--19461210 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 27
19461123 TAATTTTTAG
19461133 TGAAGAGAGGTCATAACTATTGAGCAA
1 TGAAGAGAGGTCATAACTATTGAGCAA
* * * *
19461160 TGAA-ATAGG--AGAA-AATTTAG---
1 TGAAGAGAGGTCATAACTATTGAGCAA
*
19461180 TGAAGAGCGGTCATAACTATTGAGCAA
1 TGAAGAGAGGTCATAACTATTGAGCAA
19461207 TGAA
1 TGAA
19461211 ATAGGCTAAG
Statistics
Matches: 35, Mismatches: 9, Indels: 14
0.60 0.16 0.24
Matches are distributed among these distances:
20 4 0.11
21 3 0.09
23 8 0.23
24 8 0.23
26 4 0.11
27 8 0.23
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (27 bp):
TGAAGAGAGGTCATAACTATTGAGCAA
Found at i:19462063 original size:21 final size:21
Alignment explanation
Indices: 19462037--19462076 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19462027 CATATTTATG
* *
19462037 AAATGATATATGAAGTTAAGT
1 AAATGATACATGAAATTAAGT
19462058 AAATGATACATGAAATTAA
1 AAATGATACATGAAATTAA
19462077 TATGAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (21 bp):
AAATGATACATGAAATTAAGT
Found at i:19470565 original size:9 final size:9
Alignment explanation
Indices: 19470551--19470587 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19470541 TATAGTTTGA
19470551 TATTCGAAT
1 TATTCGAAT
19470560 TATTCGAAT
1 TATTCGAAT
*
19470569 TATTCGAGT
1 TATTCGAAT
19470578 TATTCGAAT
1 TATTCGAAT
19470587 T
1 T
19470588 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19470658 original size:9 final size:9
Alignment explanation
Indices: 19470641--19470671 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19470631 TCGAGTTGAT
19470641 TCGAATAAC
1 TCGAATAAC
*
19470650 TCGATTAAC
1 TCGAATAAC
19470659 TCGAATAAC
1 TCGAATAAC
19470668 TCGA
1 TCGA
19470672 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19476422 original size:20 final size:20
Alignment explanation
Indices: 19476388--19476429 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19476378 AACTATTTAA
** *
19476388 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
19476408 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
19476428 AT
1 AT
19476430 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:19489601 original size:34 final size:35
Alignment explanation
Indices: 19489545--19489611 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
19489535 CAAACAGTAG
* *
19489545 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
19489580 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19489612 TATTTTATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19490167 original size:42 final size:42
Alignment explanation
Indices: 19490103--19490182 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
19490093 TAAAGATTCT
* *
19490103 CCATTTTAAGTGCAGATAAGCAATGATTATTATTTCTTAATA
1 CCATGTTAAGTGCAGATAAGCAATGATTATTACTTCTTAATA
*
19490145 CCATGTTAAGTGCATATAAGCAATGATTATTACTTCTT
1 CCATGTTAAGTGCAGATAAGCAATGATTATTACTTCTT
19490183 CTTCTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (42 bp):
CCATGTTAAGTGCAGATAAGCAATGATTATTACTTCTTAATA
Found at i:19504343 original size:33 final size:33
Alignment explanation
Indices: 19504279--19504370 Score: 80
Period size: 33 Copynumber: 2.7 Consensus size: 33
19504269 ATGTTCAAGG
* * *
19504279 TGCCATAACCCAATTATGGTCTTTTCATTAAA-A-
1 TGCCAT-AGCCAACTATGGTC-TTACATTAAACAT
19504312 TGCCATAGCCTAACTATGGTCTTACATTTAAACAT
1 TGCCATAGCC-AACTATGGTCTTACA-TTAAACAT
* *
19504347 TGCCATGGTCCAACCATGGTCTTA
1 TGCCATAG-CCAACTATGGTCTTA
19504371 TCCGTCAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
32 7 0.14
33 20 0.41
34 1 0.02
35 19 0.39
36 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (33 bp):
TGCCATAGCCAACTATGGTCTTACATTAAACAT
Found at i:19505205 original size:51 final size:50
Alignment explanation
Indices: 19505147--19505284 Score: 188
Period size: 50 Copynumber: 2.7 Consensus size: 50
19505137 ATGTTTGGTT
*
19505147 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAAC-TATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACAT-TCCGGTA
* * * *
19505198 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTCCGGTA
* *
19505248 CACGTAGTAGCCTGCACACAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
19505285 NNNNNNNNNN
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
50 43 0.56
51 34 0.44
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTCCGGTA
Found at i:19511155 original size:13 final size:13
Alignment explanation
Indices: 19511121--19511158 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
19511111 ACCTAATTAA
19511121 TTTCCC-TCTTTT
1 TTTCCCTTCTTTT
**
19511133 TTTCTGTTCTTTT
1 TTTCCCTTCTTTT
19511146 TTTCCCTTCTTTT
1 TTTCCCTTCTTTT
19511159 GTTGTTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTCCCTTCTTTT
Found at i:19517094 original size:15 final size:17
Alignment explanation
Indices: 19517074--19517108 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
19517064 TTGTTTACAC
19517074 AAATTATA-TTAT-TTA
1 AAATTATATTTATATTA
19517089 AAATTATATTTATATTA
1 AAATTATATTTATATTA
19517106 AAA
1 AAA
19517109 ATAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 4 0.22
17 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTATATTTATATTA
Found at i:19520440 original size:44 final size:42
Alignment explanation
Indices: 19520372--19520534 Score: 134
Period size: 43 Copynumber: 3.8 Consensus size: 42
19520362 TTGAAATGTG
* *
19520372 TTATCGTGTAATACCATGTTTGGGACATTGGCATCGATTTGAGA
1 TTAT-GTGTAAGACCATGTCTGGGACATTGGCATCGATTT-AGA
* * *
19520416 TATATGTGTAAGACCATGTCTGGGAGATTGGCGTCG-TATATGA
1 T-TATGTGTAAGACCATGTCTGGGACATTGGCATCGATTTA-GA
* * *
19520459 TT-TCGTGTAAGACCTTGTCTGGGACAGTGGCATCTATATTTA-A
1 TTAT-GTGTAAGACCATGTCTGGGACATTGGCATC--GATTTAGA
** * *
19520502 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTATGTGTAAGACCATGTCTGGGACATTGGCAT
19520535 TGTACAAGCT
Statistics
Matches: 95, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 32 0.34
44 28 0.29
45 6 0.06
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (42 bp):
TTATGTGTAAGACCATGTCTGGGACATTGGCATCGATTTAGA
Found at i:19525164 original size:21 final size:21
Alignment explanation
Indices: 19525130--19525175 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19525120 CTAAGATATG
*
19525130 AATTGGATTGAATTGAATG-TA
1 AATTGGATTAAATTG-ATGTTA
*
19525151 AATTGTATTAAATTGATGTTA
1 AATTGGATTAAATTGATGTTA
19525172 AATT
1 AATT
19525176 CATTCATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (21 bp):
AATTGGATTAAATTGATGTTA
Found at i:19525650 original size:26 final size:25
Alignment explanation
Indices: 19525603--19525651 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
19525593 GGACACACCG
* *
19525603 TAGCTCTTTTGAGCGTCTCGATATA
1 TAGCTCTTTCGAGCGTCCCGATATA
*
19525628 TAGCTCTTTGCGAGCTTCCCGATA
1 TAGCTCTTT-CGAGCGTCCCGATA
19525652 ATGACTTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.37
Consensus pattern (25 bp):
TAGCTCTTTCGAGCGTCCCGATATA
Found at i:19525699 original size:24 final size:24
Alignment explanation
Indices: 19525639--19525719 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
19525629 AGCTCTTTGC
* * * *
19525639 GAGCTTCCCGATAATGACTTGCTT
1 GAGCTTCCCGATACTGGCTCGCAT
*
19525663 GAACCTTCCCGATACTGGCTCGCAT
1 G-AGCTTCCCGATACTGGCTCGCAT
**
19525688 GAGCTTCCCGATTAC-GGCTCTTAT
1 GAGCTTCCCGA-TACTGGCTCGCAT
19525712 GAGCTTCC
1 GAGCTTCC
19525720 TGTTATATGG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
24 25 0.53
25 22 0.47
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.30
Consensus pattern (24 bp):
GAGCTTCCCGATACTGGCTCGCAT
Found at i:19528137 original size:25 final size:25
Alignment explanation
Indices: 19528103--19528248 Score: 77
Period size: 25 Copynumber: 5.8 Consensus size: 25
19528093 GAGACAATAA
*
19528103 CGGGTAGCTCCGAAGAGCCATTAAT
1 CGGGAAGCTCCGAAGAGCCATTAAT
* *
19528128 CGGGAAGCTCCGGATAGCCA-TATAT
1 CGGGAAGCTCCGAAGAGCCATTA-AT
* * * *
19528153 CAGAAAG-TTC-AAGCGAGCCAAT-AT
1 CGGGAAGCTCCGAA--GAGCCATTAAT
* * *
19528177 CAGGAAGCTCTGGAGAGCCATTAA-
1 CGGGAAGCTCCGAAGAGCCATTAAT
* * ** *
19528201 CGAGAAGGTCATAAAGAGCCTTTAAT
1 CGGGAAGCTC-CGAAGAGCCATTAAT
19528227 CGGGAAGCTCACGAAGAGCCAT
1 CGGGAAGCTC-CGAAGAGCCAT
19528249 ATATCGGAAC
Statistics
Matches: 88, Mismatches: 24, Indels: 17
0.68 0.19 0.13
Matches are distributed among these distances:
23 1 0.01
24 26 0.30
25 42 0.48
26 19 0.22
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCCGAAGAGCCATTAAT
Found at i:19531016 original size:15 final size:16
Alignment explanation
Indices: 19531001--19531036 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19530991 TAAAATATAA
19531001 TTTCTTAACACTTAAT
1 TTTCTTAACACTTAAT
* *
19531017 TTTTTTAACACTTATT
1 TTTCTTAACACTTAAT
19531033 TTTC
1 TTTC
19531037 AATTTATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTCTTAACACTTAAT
Found at i:19531938 original size:17 final size:17
Alignment explanation
Indices: 19531912--19531945 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19531902 AACCCAATAC
19531912 CCCGAACCCAATTACAA
1 CCCGAACCCAATTACAA
*
19531929 CCCGAGCCCAATTACAA
1 CCCGAACCCAATTACAA
19531946 TGCACAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.41, G:0.09, T:0.12
Consensus pattern (17 bp):
CCCGAACCCAATTACAA
Found at i:19534556 original size:64 final size:63
Alignment explanation
Indices: 19534453--19534577 Score: 137
Period size: 64 Copynumber: 2.0 Consensus size: 63
19534443 AATTCACATA
* * *
19534453 TACATATATATATTTTCCTATATTTTACAACTTACATATA-TATCTATATATATATATATATATC
1 TACATACATATATTTTCCTATACTTTACAACTTACATATACTA-C-ATATATACATATATATATC
** * *
19534517 TACATACATATATTTTTTTATACTTTATAATTGTA-ATATACGTACATATATACATATATAT
1 TACATACATATATTTTCCTATACTTTACAACT-TACATATAC-TACATATATACATATATAT
19534578 TTTTTATAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
64 46 0.90
65 3 0.06
66 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (63 bp):
TACATACATATATTTTCCTATACTTTACAACTTACATATACTACATATATACATATATATATC
Found at i:19536761 original size:22 final size:23
Alignment explanation
Indices: 19536726--19536768 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
19536716 TTATTAAATA
19536726 ATAATTAAACTTATATATTTATG
1 ATAATTAAACTTATATATTTATG
*
19536749 ATAA-TAAATTTATATATTTA
1 ATAATTAAACTTATATATTTA
19536769 ATATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAATTAAACTTATATATTTATG
Found at i:19542298 original size:19 final size:20
Alignment explanation
Indices: 19542261--19542308 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
19542251 AATTGTTGGA
19542261 CATTAAAAATATTTAAAAAAT
1 CATTAAAAATA-TTAAAAAAT
19542282 CATTAAAAATA-TAAAAAAT
1 CATTAAAAATATTAAAAAAT
19542301 CA-TAAAAA
1 CATTAAAAA
19542309 AATATGGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
21 11 0.41
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
CATTAAAAATATTAAAAAAT
Found at i:19542309 original size:19 final size:19
Alignment explanation
Indices: 19542264--19542309 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
19542254 TGTTGGACAT
*
19542264 TAAAAATATTTAAAAAATCA
1 TAAAAA-ATATAAAAAATCA
*
19542284 TTAAAAATATAAAAAATCA
1 TAAAAAATATAAAAAATCA
19542303 TAAAAAA
1 TAAAAAA
19542310 ATATGGACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAAAATATAAAAAATCA
Found at i:19543188 original size:20 final size:19
Alignment explanation
Indices: 19543139--19543219 Score: 74
Period size: 20 Copynumber: 4.2 Consensus size: 19
19543129 ATTTTCCAAG
*
19543139 TTTTAAATATTTTAA-TTTT
1 TTTTAAA-ATTTTAAGATTT
* *
19543158 TTTTTAGATTTTAAAGATTT
1 TTTTAAAATTTT-AAGATTT
**
19543178 TTTTAAAATTTTCTGATATT
1 TTTTAAAATTTTAAGAT-TT
*
19543198 TTTTAAAAATTTAAGATTT
1 TTTTAAAATTTTAAGATTT
19543217 TTT
1 TTT
19543220 ACTTTTAATT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
18 5 0.10
19 15 0.31
20 29 0.59
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTAAAATTTTAAGATTT
Found at i:19566238 original size:28 final size:28
Alignment explanation
Indices: 19566206--19566300 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 28
19566196 AATAAGTTCA
* * *
19566206 CACACTTAGTGCTTAATAATCAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
*
19566234 CACACTTAGTGCTTTACCATTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
19566262 CACA-TTAAGTGCTTTACAATTAAACT--
1 CACACTT-AGTGCTTTACAATTAAACTCG
19566288 CACACTTAGTGCT
1 CACACTTAGTGCT
19566301 AATCTCATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 10 0.17
27 4 0.07
28 46 0.77
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
CACACTTAGTGCTTTACAATTAAACTCG
Found at i:19577012 original size:25 final size:25
Alignment explanation
Indices: 19576978--19577028 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
19576968 ACATTTATCT
*
19576978 AATTAATTAATTAAAAATATCACAA
1 AATTAATTAATTAAAAACATCACAA
19577003 AATTAATTAATTAAAAACATCACAA
1 AATTAATTAATTAAAAACATCACAA
19577028 A
1 A
19577029 CATCATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (25 bp):
AATTAATTAATTAAAAACATCACAA
Found at i:19577411 original size:23 final size:23
Alignment explanation
Indices: 19577384--19577456 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
19577374 ACCTACTTCC
*
19577384 TTACTGTAGTAATTTTTAGGGTA
1 TTACTGTAGTAATTTTCAGGGTA
19577407 TTACTGTAGTAATTTTCAGGGTA
1 TTACTGTAGTAATTTTCAGGGTA
**
19577430 TTACAATAGTAATTTTC-GGGATA
1 TTACTGTAGTAATTTTCAGGG-TA
19577453 TTAC
1 TTAC
19577457 ACTGTTGATG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 3 0.07
23 43 0.93
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (23 bp):
TTACTGTAGTAATTTTCAGGGTA
Found at i:19580324 original size:23 final size:22
Alignment explanation
Indices: 19580296--19580497 Score: 133
Period size: 24 Copynumber: 8.7 Consensus size: 22
19580286 ATGAGTTGAA
*
19580296 CCAATTTATTACATATATGCTGT
1 CCAATTT-TTACATAAATGCTGT
* *
19580319 CAAATTTTGATGCATAAATGCTG-
1 CCAATTTT--TACATAAATGCTGT
19580342 CCAAATTTGTTACAT-AATGCTGT
1 CC-AATTT-TTACATAAATGCTGT
* * *
19580365 CCAATTTTGATGCTTAAATGCTGC
1 CCAATTTT--TACATAAATGCTGT
*
19580389 CCAATTTATTACATATATGCTGT
1 CCAATTT-TTACATAAATGCTGT
* *
19580412 CCAATTTTGATGCATAAAAGCTG-
1 CCAATTTT--TACATAAATGCTGT
19580435 CCATATTTGTTACAT-AATGCTGT
1 CCA-ATTT-TTACATAAATGCTGT
* * *
19580458 CCAATTTTGATGCATAAAAGCTGC
1 CCAATTTT--TACATAAATGCTGT
19580482 CCAATTTGTTACATAA
1 CCAATTT-TTACATAA
19580498 TGNNNNNNNN
Statistics
Matches: 140, Mismatches: 21, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
21 2 0.01
22 24 0.17
23 53 0.38
24 57 0.41
25 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (22 bp):
CCAATTTTTACATAAATGCTGT
Found at i:19580435 original size:47 final size:46
Alignment explanation
Indices: 19580296--19580499 Score: 311
Period size: 46 Copynumber: 4.4 Consensus size: 46
19580286 ATGAGTTGAA
* * *
19580296 CCAATTTATTACATATATGCTGTCAAATTTTGATGCATAAATGCTGC
1 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCATAAAAGCTGC
* * *
19580343 CAAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCATAAAAGCTGC
*
19580389 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTG-
1 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCATAAAAGCTGC
19580435 CCATATTTGTTACATAATGCTGTCCAATTTTGATGCATAAAAGCTGC
1 CCA-ATTTGTTACATAATGCTGTCCAATTTTGATGCATAAAAGCTGC
19580482 CCAATTTGTTACATAATG
1 CCAATTTGTTACATAATG
19580500 NNNNNNNNNN
Statistics
Matches: 145, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
46 90 0.62
47 55 0.38
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (46 bp):
CCAATTTGTTACATAATGCTGTCCAATTTTGATGCATAAAAGCTGC
Found at i:19580455 original size:93 final size:93
Alignment explanation
Indices: 19580296--19580496 Score: 348
Period size: 93 Copynumber: 2.2 Consensus size: 93
19580286 ATGAGTTGAA
*
19580296 CCAATTTATTACATATATGCTGTCAAATTTTGATGCATAAATGCTGCCAAATTTGTTACATAATG
1 CCAATTTATTACATATATGCTGTCAAATTTTGATGCATAAAAGCTGCCAAATTTGTTACATAATG
* *
19580361 CTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCATAAAAGCTGC
* *
19580389 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCATATTTGTTACATAATG
1 CCAATTTATTACATATATGCTGTCAAATTTTGATGCATAAAAGCTGCCAAATTTGTTACATAATG
19580454 CTGTCCAATTTTGATGCATAAAAGCTGC
66 CTGTCCAATTTTGATGCATAAAAGCTGC
*
19580482 CCAATTTGTTACATA
1 CCAATTTATTACATA
19580497 ATGNNNNNNN
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 102 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (93 bp):
CCAATTTATTACATATATGCTGTCAAATTTTGATGCATAAAAGCTGCCAAATTTGTTACATAATG
CTGTCCAATTTTGATGCATAAAAGCTGC
Found at i:19581711 original size:30 final size:29
Alignment explanation
Indices: 19581677--19581744 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
19581667 ATGTGTCTAC
* *
19581677 ATTTGTATCTGAATT-TGAATATGCATCTG
1 ATTTGTATCTG-ATTATGAAAATACATCTG
19581706 TATTTGTATCTGATTATGAAAATACATCTG
1 -ATTTGTATCTGATTATGAAAATACATCTG
19581736 ATTTTGTAT
1 A-TTTGTAT
19581745 ACCAGAATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (29 bp):
ATTTGTATCTGATTATGAAAATACATCTG
Found at i:19583973 original size:38 final size:38
Alignment explanation
Indices: 19583931--19584057 Score: 130
Period size: 38 Copynumber: 3.1 Consensus size: 38
19583921 TTATGTGTCT
19583931 TGATTTTCTAAGTGTGATCCTTTATGAGTCGTTTTTCA
1 TGATTTTCTAAGTGTGATCCTTTATGAGTCGTTTTTCA
* * *
19583969 TGATTTTCTAAGTGTGAT-CTTTATGGGTGTGATCCTTTTATGTGTCT
1 TGATTTTCTAAGTGTGATCCTTTA----TGAG-T-C-GTT-T-T-TCA
19584016 TGATTTTCTAAGTGTGATCCTTTATGAGTCGTTTTTCA
1 TGATTTTCTAAGTGTGATCCTTTATGAGTCGTTTTTCA
19584054 TGAT
1 TGAT
19584058 ATATTTAAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
37 5 0.07
38 24 0.33
39 1 0.01
40 1 0.01
41 5 0.07
42 2 0.03
43 2 0.03
44 5 0.07
45 1 0.01
46 1 0.01
47 20 0.28
48 5 0.07
ACGTcount: A:0.17, C:0.12, G:0.20, T:0.50
Consensus pattern (38 bp):
TGATTTTCTAAGTGTGATCCTTTATGAGTCGTTTTTCA
Found at i:19585404 original size:2 final size:2
Alignment explanation
Indices: 19585399--19585424 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19585389 TTTTCCCTTT
19585399 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
19585425 AGAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19599197 original size:25 final size:24
Alignment explanation
Indices: 19599167--19599228 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
19599157 CGTGACATTT
*
19599167 TTAAATTAAAATT-AATTTTAAAAAA
1 TTAAATT-AAATTAAATTAT-AAAAA
19599192 TTAAATTAAATTAAATTATAAAAA
1 TTAAATTAAATTAAATTATAAAAA
19599216 TTCAAATTTAAAT
1 TT-AAA-TTAAAT
19599229 AAAAACTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 12 0.36
25 15 0.45
26 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAAATTAAATTAAATTATAAAAA
Found at i:19604521 original size:12 final size:12
Alignment explanation
Indices: 19604504--19604531 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19604494 CTGGGGTTTA
19604504 TTTTTCTTTATT
1 TTTTTCTTTATT
19604516 TTTTTCTTTATT
1 TTTTTCTTTATT
19604528 TTTT
1 TTTT
19604532 CATATTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTCTTTATT
Found at i:19604529 original size:11 final size:11
Alignment explanation
Indices: 19604500--19604532 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
19604490 CCTCCTGGGG
19604500 TTTA-TTTTTC
1 TTTATTTTTTC
19604510 TTTATTTTTTTC
1 TTTA-TTTTTTC
19604522 TTTATTTTTTC
1 TTTATTTTTTC
19604533 ATATTACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 7 0.33
12 10 0.48
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTTTTC
Found at i:19611311 original size:2 final size:2
Alignment explanation
Indices: 19611304--19611330 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19611294 ACCAGTAGCT
19611304 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19611331 TGTTATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19624285 original size:18 final size:19
Alignment explanation
Indices: 19624264--19624306 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19624254 AAATTTTGAA
*
19624264 AATTTTATAAA-TATTATG
1 AATTTTAAAAATTATTATG
*
19624282 AATTTTAAAAATTATTTTG
1 AATTTTAAAAATTATTATG
19624301 AATTTT
1 AATTTT
19624307 TTGTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTTTAAAAATTATTATG
Found at i:19626183 original size:14 final size:14
Alignment explanation
Indices: 19626161--19626199 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
19626151 CCAAAAAAGT
19626161 AAGTCATTTTTCAGA
1 AAGTCATTTTTCA-A
*
19626176 AA-TCATTTTTTAA
1 AAGTCATTTTTCAA
19626189 AAGTCATTTTT
1 AAGTCATTTTT
19626200 AATGAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 17 0.77
15 2 0.09
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (14 bp):
AAGTCATTTTTCAA
Found at i:19637497 original size:18 final size:17
Alignment explanation
Indices: 19637469--19637503 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19637459 ATTATTAAGA
*
19637469 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19637486 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19637504 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19640162 original size:16 final size:16
Alignment explanation
Indices: 19640141--19640172 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19640131 GAAATATTTT
19640141 AGGACTATTTTGTTAA
1 AGGACTATTTTGTTAA
19640157 AGGACTATTTTGTTAA
1 AGGACTATTTTGTTAA
19640173 GTGAATTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
AGGACTATTTTGTTAA
Found at i:19642743 original size:24 final size:24
Alignment explanation
Indices: 19642683--19642850 Score: 101
Period size: 24 Copynumber: 6.9 Consensus size: 24
19642673 CTAGGCTTAA
* *
19642683 TAACGGGAAGCTCACAAAGAGCCCA
1 TAACGGGAAGCTC-CAAAGAGCACT
* * * *
19642708 TATCAGGTAGCTCCGAAGAGCACT
1 TAACGGGAAGCTCCAAAGAGCACT
19642732 TAACGGGAAGCTCCAAAGAGCACT
1 TAACGGGAAGCTCCAAAGAGCACT
* * * * * *
19642756 CAATCAGAAAGCACCAGATAGTCA-T
1 TAA-CGGGAAGCTCCAAAGAG-CACT
* *
19642781 ATAACGAGAAG-TTCAAGAGAGCAC-
1 -TAACGGGAAGCTCCAA-AGAGCACT
* *
19642805 TAACGGGAAGCTCCGAGGAGC-CTT
1 TAACGGGAAGCTCCAAAGAGCAC-T
19642829 TAACGGGAAGCTCACAAAGAGC
1 TAACGGGAAGCTC-CAAAGAGC
19642851 CTACAAACAG
Statistics
Matches: 104, Mismatches: 30, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
22 1 0.01
23 13 0.12
24 50 0.48
25 36 0.35
26 4 0.04
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.14
Consensus pattern (24 bp):
TAACGGGAAGCTCCAAAGAGCACT
Found at i:19644895 original size:42 final size:42
Alignment explanation
Indices: 19644813--19644956 Score: 116
Period size: 42 Copynumber: 3.5 Consensus size: 42
19644803 CACAGAAACA
* * * * *
19644813 CATAAGTGCTAAACGGAAA-CCTTAAGGGTTAAA-TGGAAGCT
1 CATAAGAGCTGAATGGAAACCCATAAGGGTTAAACT-AAAGCT
*
19644854 TATAAGAGCTGAATGGAAACCCATAAGGGTTAAACTAAAGCT
1 CATAAGAGCTGAATGGAAACCCATAAGGGTTAAACTAAAGCT
* * * * *
19644896 CAAAAGAGCTGAACT-AAAACCTCATATGAGTT-AACTCAAGCT
1 CATAAGAGCTGAA-TGGAAACC-CATAAGGGTTAAACTAAAGCT
* *
19644938 CATGAGAGCTAAATGGAAA
1 CATAAGAGCTGAATGGAAA
19644957 GCAAACACGA
Statistics
Matches: 82, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 16 0.20
42 56 0.68
43 10 0.12
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (42 bp):
CATAAGAGCTGAATGGAAACCCATAAGGGTTAAACTAAAGCT
Found at i:19646827 original size:747 final size:748
Alignment explanation
Indices: 19645394--19646889 Score: 2985
Period size: 747 Copynumber: 2.0 Consensus size: 748
19645384 CAAATTTTAA
19645394 AATTACACAATTACCCTAACTTTTTTAATTTTTGTAATTTAGTCCATTACTAATTAGCCCATCAA
1 AATTACACAATTACCCTAACTTTTTTAATTTTTGTAATTTAGTCCATTACTAATTAGCCCATCAA
19645459 ATAAGCTAATTTTTCTCAAGTAACACTTTATCTAAATATTCTAAACTATTACACAGCCTTTAATA
66 ATAAGCTAATTTTTCTCAAGTAACACTTTATCTAAATATTCTAAACTATTACACAGCCTTTAATA
19645524 AACAAAATTTAATACCAAACCCTAAGATTTAATCTTTTTCACAATTTCTTCCTAAAATTAATTTC
131 AACAAAATTTAATACCAAACCCTAAGATTTAATCTTTTTCACAATTTCTTCCTAAAATTAATTTC
19645589 CCTTGAAATCACTTGATAAAATCATCATATGACAAAATTAAAGCTTCAAATCCATGTTAATTCAT
196 CCTTGAAATCACTTGATAAAATCATCATATGACAAAATTAAAGCTTCAAATCCATGTTAATTCAT
19645654 CATAAACATCCAGAACTCATCAATGGTAACTTTCAAGATTACTCATAAAATAAAAAACTAATGAA
261 CATAAACATCCAGAACTCATCAATGGTAACTTTCAAGATTACTCATAAAATAAAAAACTAATGAA
19645719 TTAGATAGTTGGACCTAATTGCAAAAGTCTTAAAAACACAAAAATGTCAAGAAAAGAGCAAGAAT
326 TTAGATAGTTGGACCTAATTGCAAAAGTCTTAAAAACACAAAAATGTCAAGAAAAGAGCAAGAAT
19645784 TGAACTCACATGTAGCAAAATATGAAAACCAGCTTCTTAAGGGTTCTTCAATGGTGTTTTTGGCT
391 TGAACTCACATGTAGCAAAATATGAAAACCAGCTTCTTAAGGGTTCTTCAATGGTGTTTTTGGCT
19645849 GAGAATTATGAAGAAATTCTCTAGAATCCTCTTTTTATTTCAATTTGTAAGCTAAAATTTTCAAC
456 GAGAATTATGAAGAAATTCTCTAGAATCCTCTTTTTATTTCAATTTGTAAGCTAAAATTTTCAAC
19645914 TTTTCCAATTTTGCCTTTATTTCACCTGATTCTTTGATTTTTCTCTGCCTATGTGGCCCAAGCCA
521 TTTTCCAATTTTGCCTTTATTTCACCTGATTCTTTGATTTTTCTCTGCCTATGTGGCCCAAGCCA
19645979 TCATCTTTGGGCGAATTTGCCTTTTAAGTCCTCCCTCATTTAACACTTGAGCTATTTAATCATTT
586 TCATCTTTGGGCGAATTTGCCTTTTAAGTCCTCCCTCATTTAACACTTGAGCTATTTAATCATTT
19646044 TATCAAGTTTTGCACCTTTTTCAATTTAGTCCTTTTTATTTAATTAACTATCAAAACGTTAAAAT
651 TATCAAGTTTTGCACCTTTTTCAATTTAGTCCTTTTTATTTAATTAACTATCAAAACGTTAAAAT
19646109 TTTCTGACGAAACTTTAATACT-ACTTAATGAC
716 TTTCTGACGAAACTTTAATACTAACTTAATGAC
19646141 AATTACACAATTACCCTAACTTTTTTAATTTTTGTAATTTAGTCCATTACTAATTAGCCCATCAA
1 AATTACACAATTACCCTAACTTTTTTAATTTTTGTAATTTAGTCCATTACTAATTAGCCCATCAA
19646206 ATAAGCTAATTTTTCTCAAGTAACACTTTATCTAAATATTCTAAACTATTACACAGCCTTTAATA
66 ATAAGCTAATTTTTCTCAAGTAACACTTTATCTAAATATTCTAAACTATTACACAGCCTTTAATA
19646271 AACAAAATTTAATACCAAACCCTAAGATTTAATCTTTTTCACAATTTCTTCCTAAAATTAATTTC
131 AACAAAATTTAATACCAAACCCTAAGATTTAATCTTTTTCACAATTTCTTCCTAAAATTAATTTC
19646336 CCTTGAAATCACTTGATAAAATCATCATATGACAAAATTAAAGCTTCAAATCCATGTTAATTCAT
196 CCTTGAAATCACTTGATAAAATCATCATATGACAAAATTAAAGCTTCAAATCCATGTTAATTCAT
19646401 CATAAACATCCAGAACTCATCAATGGTAACTTTCAAGATTACTCATAAAATAAAAAACTAATGAA
261 CATAAACATCCAGAACTCATCAATGGTAACTTTCAAGATTACTCATAAAATAAAAAACTAATGAA
19646466 TTAGATAGTTGGACCTAATTGCAAAAGTCTTAAAAACACAAAAATGTCAAGAAAAGAGCAAGAAT
326 TTAGATAGTTGGACCTAATTGCAAAAGTCTTAAAAACACAAAAATGTCAAGAAAAGAGCAAGAAT
19646531 TGAACTCACATGTAGCAAAATATGAAAACCAGCTTCTTAAGGGTTCTTCAATGGTGTTTTTGGCT
391 TGAACTCACATGTAGCAAAATATGAAAACCAGCTTCTTAAGGGTTCTTCAATGGTGTTTTTGGCT
19646596 GAGAATTATGAAGAAATTCTCTAGAATCCTCTTTTTATTTCAATTTGTAAGCTAAAATTTTCAAC
456 GAGAATTATGAAGAAATTCTCTAGAATCCTCTTTTTATTTCAATTTGTAAGCTAAAATTTTCAAC
19646661 TTTTCCAATTTTGCCTTTATTTCACCTGATTCTTTGATTTTTCTCTGCCTATGTGGCCCAAGCCA
521 TTTTCCAATTTTGCCTTTATTTCACCTGATTCTTTGATTTTTCTCTGCCTATGTGGCCCAAGCCA
19646726 TCATCTTTGGGCGAATTTGCCTTTTAAGTCCTCCCTCATTTAACACTTGAGCTATTTAATCATTT
586 TCATCTTTGGGCGAATTTGCCTTTTAAGTCCTCCCTCATTTAACACTTGAGCTATTTAATCATTT
19646791 TATCAAGTTTTGCACCTTTTTCAATTTAGTCCTTTTTATTTAATTAACTATCAAAACGTTAAAAT
651 TATCAAGTTTTGCACCTTTTTCAATTTAGTCCTTTTTATTTAATTAACTATCAAAACGTTAAAAT
19646856 TTTCTGACGAAACTTTAATACTAACTTAATGAC
716 TTTCTGACGAAACTTTAATACTAACTTAATGAC
19646889 A
1 A
19646890 CTCCGTAAAT
Statistics
Matches: 748, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
747 737 0.99
748 11 0.01
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (748 bp):
AATTACACAATTACCCTAACTTTTTTAATTTTTGTAATTTAGTCCATTACTAATTAGCCCATCAA
ATAAGCTAATTTTTCTCAAGTAACACTTTATCTAAATATTCTAAACTATTACACAGCCTTTAATA
AACAAAATTTAATACCAAACCCTAAGATTTAATCTTTTTCACAATTTCTTCCTAAAATTAATTTC
CCTTGAAATCACTTGATAAAATCATCATATGACAAAATTAAAGCTTCAAATCCATGTTAATTCAT
CATAAACATCCAGAACTCATCAATGGTAACTTTCAAGATTACTCATAAAATAAAAAACTAATGAA
TTAGATAGTTGGACCTAATTGCAAAAGTCTTAAAAACACAAAAATGTCAAGAAAAGAGCAAGAAT
TGAACTCACATGTAGCAAAATATGAAAACCAGCTTCTTAAGGGTTCTTCAATGGTGTTTTTGGCT
GAGAATTATGAAGAAATTCTCTAGAATCCTCTTTTTATTTCAATTTGTAAGCTAAAATTTTCAAC
TTTTCCAATTTTGCCTTTATTTCACCTGATTCTTTGATTTTTCTCTGCCTATGTGGCCCAAGCCA
TCATCTTTGGGCGAATTTGCCTTTTAAGTCCTCCCTCATTTAACACTTGAGCTATTTAATCATTT
TATCAAGTTTTGCACCTTTTTCAATTTAGTCCTTTTTATTTAATTAACTATCAAAACGTTAAAAT
TTTCTGACGAAACTTTAATACTAACTTAATGAC
Found at i:19652719 original size:24 final size:24
Alignment explanation
Indices: 19652673--19652719 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19652663 AATTAGTAAC
* *
19652673 TAATTTTATTTTTAATTATTCGAT
1 TAATTTTATTTTGAATTACTCGAT
19652697 TAATTTT-TTTTGAATTAACTCGA
1 TAATTTTATTTTGAATT-ACTCGA
19652720 CTTTAGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TAATTTTATTTTGAATTACTCGAT
Found at i:19654077 original size:6 final size:6
Alignment explanation
Indices: 19654066--19654092 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19654056 GGTAATGAGC
19654066 CCCCAG CCCCAG CCCCAG CCCCAG CCC
1 CCCCAG CCCCAG CCCCAG CCCCAG CCC
19654093 TCATGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.70, G:0.15, T:0.00
Consensus pattern (6 bp):
CCCCAG
Found at i:19663435 original size:24 final size:24
Alignment explanation
Indices: 19663389--19663435 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19663379 AATTAGTAAC
* *
19663389 TAATTTTATTTTTAATTATTCGAT
1 TAATTTTATTTTGAATTACTCGAT
19663413 TAATTTT-TTTTGAATTAACTCGA
1 TAATTTTATTTTGAATT-ACTCGA
19663436 CTTTAGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TAATTTTATTTTGAATTACTCGAT
Found at i:19664793 original size:6 final size:6
Alignment explanation
Indices: 19664782--19664808 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19664772 GGTAATGAGC
19664782 CCCCAG CCCCAG CCCCAG CCCCAG CCC
1 CCCCAG CCCCAG CCCCAG CCCCAG CCC
19664809 TCATGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.70, G:0.15, T:0.00
Consensus pattern (6 bp):
CCCCAG
Found at i:19692387 original size:3 final size:3
Alignment explanation
Indices: 19692379--19692403 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19692369 AGCCTCTTTA
19692379 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
19692404 GTAGACTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19697699 original size:6 final size:7
Alignment explanation
Indices: 19697680--19697710 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
19697670 TCGGGTAAAG
19697680 TAAAAAA
1 TAAAAAA
19697687 TAAAAAAA
1 T-AAAAAA
19697695 TAAAAAA
1 TAAAAAA
19697702 TAAAAAA
1 TAAAAAA
19697709 TA
1 TA
19697711 TTAGAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:19697700 original size:15 final size:15
Alignment explanation
Indices: 19697680--19697708 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19697670 TCGGGTAAAG
19697680 TAAAAAATAAAAAAA
1 TAAAAAATAAAAAAA
19697695 TAAAAAATAAAAAA
1 TAAAAAATAAAAAA
19697709 TATTAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
TAAAAAATAAAAAAA
Found at i:19699213 original size:2 final size:2
Alignment explanation
Indices: 19699170--19699194 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19699160 TTGAAAATTG
19699170 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19699195 ATTTTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19700732 original size:26 final size:26
Alignment explanation
Indices: 19700696--19700755 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
19700686 ACAACTCTTA
* *
19700696 TGAGCGTCCCG-TTATATGGCTATTCG
1 TGAGCTTCCCGATTA-AAGGCTATTCG
* *
19700722 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTATTCG
19700748 TGAGCTTC
1 TGAGCTTC
19700756 TTGATTAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTATTCG
Found at i:19700770 original size:26 final size:26
Alignment explanation
Indices: 19700721--19700770 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
19700711 ATGGCTATTC
*
19700721 GTGAGCTTCCCGATTAAAGGCTCTTT
1 GTGAGCTTCCCGATTAAAGACTCTTT
** *
19700747 GTGAGCTTCTTGATTAATGACTCT
1 GTGAGCTTCCCGATTAAAGACTCT
19700771 CCGGAGCTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGAGCTTCCCGATTAAAGACTCTTT
Found at i:19700865 original size:24 final size:24
Alignment explanation
Indices: 19700838--19700892 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
19700828 CCCGTTAATA
*
19700838 GCTCTTCGGAGCTACCC-ATTATTG
1 GCTCTTAGGAGCTACCCAATTA-TG
* * *
19700862 GCTCGTATGAGCTTCCCAATTATG
1 GCTCTTAGGAGCTACCCAATTATG
19700886 GCTCTTA
1 GCTCTTA
19700893 TGAGTTTCTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
GCTCTTAGGAGCTACCCAATTATG
Found at i:19700894 original size:24 final size:24
Alignment explanation
Indices: 19700846--19700896 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
19700836 TAGCTCTTCG
19700846 GAGCTACCCATTATTGGCTCGTAT
1 GAGCTACCCATTATTGGCTCGTAT
* *
19700870 GAGCTTCCCAATTA-TGGCTCTTAT
1 GAGCTACCC-ATTATTGGCTCGTAT
19700894 GAG
1 GAG
19700897 TTTCTCGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (24 bp):
GAGCTACCCATTATTGGCTCGTAT
Found at i:19703738 original size:29 final size:32
Alignment explanation
Indices: 19703682--19703749 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 32
19703672 AGTTGTTATA
*
19703682 AATTTAATAGAATTATAATTAGATTAAAAAAT
1 AATTTAATAGAATTATAATTAGAATAAAAAAT
* *
19703714 AATTTAATTGAA-TA-AATTA-AATAAATAAT
1 AATTTAATAGAATTATAATTAGAATAAAAAAT
*
19703743 ATTTTAA
1 AATTTAA
19703750 AAAATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 14 0.44
30 5 0.16
31 2 0.06
32 11 0.34
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (32 bp):
AATTTAATAGAATTATAATTAGAATAAAAAAT
Found at i:19709368 original size:20 final size:18
Alignment explanation
Indices: 19709322--19709373 Score: 86
Period size: 18 Copynumber: 2.8 Consensus size: 18
19709312 GTAATTATAT
19709322 AATTATATAATTTTAAAA
1 AATTATATAATTTTAAAA
19709340 AATTATATAATTTTAAAA
1 AATTATATAATTTTAAAA
19709358 AATTATCTATAATTTT
1 AATTA--TATAATTTT
19709374 GAGGAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 23 0.72
20 9 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTATATAATTTTAAAA
Done.