Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 87 of 207
Found at i:25489840 original size:24 final size:24
Alignment explanation
Indices: 25489811--25489889 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
25489801 AAATAAATCT
25489811 AATAAACCTAAAACACATATGAAA
1 AATAAACCTAAAACACATATGAAA
* * * *
25489835 AATAAA-TTACAAAAAAAT-TAAAA
1 AATAAACCTA-AAACACATATGAAA
* *
25489858 CTAATAAACCTAAAACACACATGACA
1 --AATAAACCTAAAACACATATGAAA
25489884 AATAAA
1 AATAAA
25489890 TTACATAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
23 6 0.15
24 18 0.45
25 11 0.28
26 5 0.12
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.18
Consensus pattern (24 bp):
AATAAACCTAAAACACATATGAAA
Found at i:25491065 original size:16 final size:17
Alignment explanation
Indices: 25491037--25491070 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
25491027 TTAGAATTGG
*
25491037 ATTGAGAAAATTATTTT
1 ATTGAGAAAATTAATTT
25491054 ATTGAG-AAATTAATTT
1 ATTGAGAAAATTAATTT
25491070 A
1 A
25491071 GTTTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTGAGAAAATTAATTT
Found at i:25493000 original size:20 final size:17
Alignment explanation
Indices: 25492966--25493004 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25492956 TCAAATTAAC
25492966 TATTTTAAAAATAATAA
1 TATTTTAAAAATAATAA
*
25492983 TATTTTAATAAAT-TTAA
1 TATTTTAA-AAATAATAA
25493000 TATTT
1 TATTT
25493005 AATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTTAAAAATAATAA
Found at i:25493013 original size:17 final size:16
Alignment explanation
Indices: 25492980--25493022 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
25492970 TTAAAAATAA
25492980 TAATATTTTAATAAATT
1 TAATA-TTTAATAAATT
*
25492997 TAATATTTAATTTAATT
1 TAATATTTAA-TAAATT
25493014 TAATATTTA
1 TAATATTTA
25493023 TCTTGTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATATTTAATAAATT
Found at i:25495378 original size:20 final size:22
Alignment explanation
Indices: 25495341--25495389 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
25495331 AAGTAGTGAG
*
25495341 AATT-TATTTTTTTAGAA-TA-
1 AATTCTATTTTTTGAGAATTAC
*
25495360 AATTCTATTTTTTGGGAATTAC
1 AATTCTATTTTTTGAGAATTAC
25495382 AATTCTAT
1 AATTCTAT
25495390 AAGTTTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 2 0.08
22 8 0.32
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (22 bp):
AATTCTATTTTTTGAGAATTAC
Found at i:25501616 original size:16 final size:15
Alignment explanation
Indices: 25501595--25501625 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
25501585 TAATAGATTA
25501595 TTGGAAGCTCAATCAG
1 TTGGAAGCTC-ATCAG
25501611 TTGGAAGCTCATCAG
1 TTGGAAGCTCATCAG
25501626 GGACCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (15 bp):
TTGGAAGCTCATCAG
Found at i:25506002 original size:33 final size:33
Alignment explanation
Indices: 25505954--25506017 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
25505944 ATAAAATTAG
*
25505954 AGTGGCCGTTGTCCTTAACCCTAGTTCAGCTGC
1 AGTGGCCATTGTCCTTAACCCTAGTTCAGCTGC
*
25505987 AGTGGCCATTTTCCTTAACCCTAGTTCAGCT
1 AGTGGCCATTGTCCTTAACCCTAGTTCAGCT
25506018 ATGGTTCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (33 bp):
AGTGGCCATTGTCCTTAACCCTAGTTCAGCTGC
Found at i:25510202 original size:16 final size:17
Alignment explanation
Indices: 25510177--25510212 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25510167 GAATTTGGTC
25510177 GAGAAAAAAATTTAATT
1 GAGAAAAAAATTTAATT
25510194 GAGAAAAAAATTTAATT
1 GAGAAAAAAATTTAATT
25510211 GA
1 GA
25510213 AGTTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (17 bp):
GAGAAAAAAATTTAATT
Found at i:25512119 original size:68 final size:68
Alignment explanation
Indices: 25511930--25512328 Score: 429
Period size: 68 Copynumber: 5.9 Consensus size: 68
25511920 AGTTTAATGA
*** * * * **
25511930 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCAATAGGGCATTAAATATTTGGTTACAA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
*
25511995 AGT
66 GGT
* ** ** *
25511998 GTAAGACCATAGCTCGACTATGACAATAAAATAGAGTCCGCCAAAATGTTAAACATGGGGTTACA
1 GTAAGACCATAGCTCGACTATGGCAA-CCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACA
25512063 AGGT
65 AGGT
* ** *
25512067 GTAAGACCATAACTCGGTTATAGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
25512132 GGT
66 GGT
* * * ** * *
25512135 GTAAGTCCATAGCTCGATTATGGCAACTAATAGAGTCCTTCAGGAAGTTAAACATGAGGTTACAA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
25512200 GGT
66 GGT
* * ** * * * *
25512203 GTAAAACCATTGCTCGGTTATGGAAACCAATAAAGTCCTCCAGGATGTTAAACATGGGGTTACAA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
25512268 GGT
66 GGT
* * * * * *
25512271 GTAAGACCATAGCTCAACTCTGACAACCAATAGAGTTCGTCAGAACGTTAAACATGGG
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGG
25512329 TTCAAATTGT
Statistics
Matches: 272, Mismatches: 58, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
68 223 0.82
69 49 0.18
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (68 bp):
GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
GGT
Found at i:25513852 original size:30 final size:29
Alignment explanation
Indices: 25513818--25513880 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
25513808 CAATGGGTAT
*
25513818 TTTACTAAAAAAAGCCCATTTACAACATTA
1 TTTAC-AAAAAAAGCCCATTTAAAACATTA
* * *
25513848 TTTACGAAAATAGGCCATTTAAAACATTA
1 TTTACAAAAAAAGCCCATTTAAAACATTA
25513877 TTTA
1 TTTA
25513881 TCTGAATGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (29 bp):
TTTACAAAAAAAGCCCATTTAAAACATTA
Found at i:25514859 original size:32 final size:32
Alignment explanation
Indices: 25514818--25514879 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
25514808 CATCTATTTT
25514818 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
* *
25514850 CATTGTTCAACTCTTTGACTACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
25514880 ACCAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.31
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:25516446 original size:15 final size:15
Alignment explanation
Indices: 25516426--25516494 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
25516416 ATTATTTAAA
25516426 TTATTTTATTAAATT
1 TTATTTTATTAAATT
*
25516441 TTATTTTATTACAATA
1 TTATTTTATTA-AATT
* *
25516457 TCAATTT-TT-AATT
1 TTATTTTATTAAATT
* *
25516470 GTATTGTTATTAAGTT
1 TTATT-TTATTAAATT
25516486 TT-TTTTATT
1 TTATTTTATT
25516495 TTAAAATATT
Statistics
Matches: 41, Mismatches: 9, Indels: 9
0.69 0.15 0.15
Matches are distributed among these distances:
13 5 0.12
14 7 0.17
15 17 0.41
16 12 0.29
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (15 bp):
TTATTTTATTAAATT
Found at i:25517604 original size:14 final size:14
Alignment explanation
Indices: 25517587--25517625 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
25517577 TTAAAAGAAT
25517587 TTTTATGTTTTTCC
1 TTTTATGTTTTTCC
*
25517601 TTTTAT-TTTATCC
1 TTTTATGTTTTTCC
25517614 TTTGTATGTTTT
1 TTT-TATGTTTT
25517626 CTCTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 9 0.43
14 9 0.43
15 3 0.14
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (14 bp):
TTTTATGTTTTTCC
Found at i:25517738 original size:41 final size:37
Alignment explanation
Indices: 25517664--25517735 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
25517654 AAAGAACAAA
*
25517664 AAAAAAAGAGTGGTAAAGGTTATCTAAGTAAGAAACT
1 AAAAAAAGAGTGGTAAAGGTTATATAAGTAAGAAACT
25517701 AAAAAAAGAGTGGTAAAGGTTATATAAGTAAGAAA
1 AAAAAAAGAGTGGTAAAGGTTATATAAGTAAGAAA
25517736 GAACATGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.22, T:0.21
Consensus pattern (37 bp):
AAAAAAAGAGTGGTAAAGGTTATATAAGTAAGAAACT
Found at i:25521348 original size:54 final size:54
Alignment explanation
Indices: 25521239--25521381 Score: 128
Period size: 54 Copynumber: 2.6 Consensus size: 54
25521229 CGGTTTGCGG
* * * * ** * * * *
25521239 CACGGCCATGTGTATCAAGTTAGTGAGTCACACGGTCTGGCATATGATCTGCAA
1 CACGGCCATGTGTATCAAGTCAGAGAGTTACACGGCCTAACACACGACCTACAA
*
25521293 CACGGCCATGTGTATCAAGTCAGAGAGTTACACGGCCTAACACACGGCCTACAA
1 CACGGCCATGTGTATCAAGTCAGAGAGTTACACGGCCTAACACACGACCTACAA
* * *
25521347 CACGGTCGTGTG-ATCTAAGTCA-ATGTGTTACACGG
1 CACGGCCATGTGTATC-AAGTCAGA-GAGTTACACGG
25521382 TTTAAGACAT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
53 4 0.05
54 69 0.95
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (54 bp):
CACGGCCATGTGTATCAAGTCAGAGAGTTACACGGCCTAACACACGACCTACAA
Found at i:25524311 original size:801 final size:802
Alignment explanation
Indices: 25522740--25524338 Score: 2966
Period size: 801 Copynumber: 2.0 Consensus size: 802
25522730 TGAGATGCAA
25522740 ATTTTAGTGAGAAGATTCATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
1 ATTTTAGTGAGAAGATTCATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
* *
25522805 GGATTTCATTTGTCAACCCAAAGGTTGTAATGGCCTTGAAATGAGGAAATTAAGGGACCAAAATA
66 GGATTTCATTTGTCAACCCAAAGGTTGTAACGGCCTTGAAATGAGGAAATTAAAGGACCAAAATA
25522870 TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTCTATGGGTCCAAGTA
131 TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTCTATGGGTCCAAGTA
*
25522935 GTTAGGTCGAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATCGGGATAGGAGCTTCTT
196 GTTAGGTCGAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATCGGGATAGAAGCTTCTT
*
25523000 TCTTTGGAAATCTCTCACTAAGGTCTAGCCTTTATTAAATGAAAACTTAATTTGGTCTGTAGGCA
261 TCTTTGGAAATCTCTCACTAAGGTCTAGCCTTTATTAAATGAAAACTTAATCTGGTCTGTAGGCA
25523065 ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGTGGGGGGGTTTGATTAATCT
326 ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGTGGGGGGGTTTGATTAATCT
25523130 TATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAGGAT
391 TATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAGGAT
25523195 TGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGTGTT
456 TGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGTGTT
* *
25523260 CCCCCCACCCTTCTGAGGGGACTGACATAATAGCTTGGTGTGATACTTCGATAGTGGCTTTTTCA
521 CCCCCCACCCCTCTGAGGGGACTGACAGAATAGCTTGGTGTGATACTTCGATAGTGGCTTTTTCA
*
25523325 GTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTGCAGTACAGATGATGACAAATGGAAATG
586 GTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTACAGTACAGATGATGACAAATGGAAATG
* *
25523390 TGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGACAAAAATTT
651 TGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGAAAAAAACTT
**
25523455 CTTAGCAATGCAGAAAGAGTTACACGGGGATTAGTGGTTGATCATTCTTTTCCTATTTGTGGATA
716 CTTAGCAATGCAGAAAGAGTTACACGGGGATTAGCAGTTGATCATTCTTTTCCTATTTGTGGATA
25523520 TGACTTGGAAGATACCCTACAT
781 TGACTTGGAAGATACCCTACAT
25523542 ATTTTAGTGAGAAGATTCATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
1 ATTTTAGTGAGAAGATTCATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
* *
25523607 GGATTTCATTTGTCAACCCAAAGGTTGTAGCGGCCTTGAAATTAGGAAATTAAAGGACCAAAATA
66 GGATTTCATTTGTCAACCCAAAGGTTGTAACGGCCTTGAAATGAGGAAATTAAAGGACCAAAATA
*
25523672 TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTTTATGGGTCCAAGTA
131 TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTCTATGGGTCCAAGTA
*
25523737 GTTAGGTCGAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATTGGGATAGAAGCTTCTT
196 GTTAGGTCGAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATCGGGATAGAAGCTTCTT
*
25523802 TCTTTGGAAATCTCTCGCTAAGGTCTAGCCTTTATTAAATGAAAACTTAATCTGGTCTGTAGGCA
261 TCTTTGGAAATCTCTCACTAAGGTCTAGCCTTTATTAAATGAAAACTTAATCTGGTCTGTAGGCA
25523867 ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGT-GGGGGGTTTGATTAATCT
326 ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGTGGGGGGGTTTGATTAATCT
25523931 TATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAGGAT
391 TATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAGGAT
25523996 TGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGTGTT
456 TGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGTGTT
* * *
25524061 CCCCCCACCCCTCTGAGGGGACTGATAGAGTAGCTTGGTGTGATACTTCGATAGTGGCTTTTTCG
521 CCCCCCACCCCTCTGAGGGGACTGACAGAATAGCTTGGTGTGATACTTCGATAGTGGCTTTTTCA
*
25524126 GTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTACAGTGCAGATGATGACAAATGGAAATG
586 GTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTACAGTACAGATGATGACAAATGGAAATG
25524191 TGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGAAAAAAACTT
651 TGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGAAAAAAACTT
* * * *
25524256 CTTAGTAATGCGGAAAGAGTTAGACGGGGATTAGCAGTTGATCCTTCTTTTCCTATTTGTGGATA
716 CTTAGCAATGCAGAAAGAGTTACACGGGGATTAGCAGTTGATCATTCTTTTCCTATTTGTGGATA
*
25524321 TGACTTTGAAGATACCCT
781 TGACTTGGAAGATACCCT
25524339 GTGTATTATC
Statistics
Matches: 772, Mismatches: 25, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
801 410 0.53
802 362 0.47
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (802 bp):
ATTTTAGTGAGAAGATTCATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
GGATTTCATTTGTCAACCCAAAGGTTGTAACGGCCTTGAAATGAGGAAATTAAAGGACCAAAATA
TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTCTATGGGTCCAAGTA
GTTAGGTCGAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATCGGGATAGAAGCTTCTT
TCTTTGGAAATCTCTCACTAAGGTCTAGCCTTTATTAAATGAAAACTTAATCTGGTCTGTAGGCA
ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGTGGGGGGGTTTGATTAATCT
TATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAGGAT
TGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGTGTT
CCCCCCACCCCTCTGAGGGGACTGACAGAATAGCTTGGTGTGATACTTCGATAGTGGCTTTTTCA
GTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTACAGTACAGATGATGACAAATGGAAATG
TGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGAAAAAAACTT
CTTAGCAATGCAGAAAGAGTTACACGGGGATTAGCAGTTGATCATTCTTTTCCTATTTGTGGATA
TGACTTGGAAGATACCCTACAT
Found at i:25554102 original size:37 final size:37
Alignment explanation
Indices: 25554033--25554104 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
25554023 GTGTAATTTG
*
25554033 ATATATAAAACTTTTATTATGGTTCAGATATATATAT
1 ATATATAAAACTTTTATTATGATTCAGATATATATAT
*
25554070 ATATATAAAAC-TTTACTTTTGATTCA-AT-TATATAT
1 ATATATAAAACTTTTA-TTATGATTCAGATATATATAT
25554105 GATTAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 7 0.22
36 6 0.19
37 19 0.59
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (37 bp):
ATATATAAAACTTTTATTATGATTCAGATATATATAT
Found at i:25554900 original size:33 final size:33
Alignment explanation
Indices: 25554858--25554920 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
25554848 TTTATATTTA
25554858 AAATAATTAAAGA-ATTATAAAAATTATAAATAT
1 AAATAATTAAA-ATATTATAAAAATTATAAATAT
* * *
25554891 AAATTATTAAAATATTTTTAAAATTATAAA
1 AAATAATTAAAATATTATAAAAATTATAAA
25554921 AAAAATTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (33 bp):
AAATAATTAAAATATTATAAAAATTATAAATAT
Found at i:25554956 original size:24 final size:24
Alignment explanation
Indices: 25554910--25554958 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
25554900 AAATATTTTT
* *
25554910 AAAATTATAAAAAAAATTTGCAAA
1 AAAATTATAAAAAAAACTAGCAAA
*
25554934 AAAATTATAAAAGAAACTAGCAAA
1 AAAATTATAAAAAAAACTAGCAAA
25554958 A
1 A
25554959 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.20
Consensus pattern (24 bp):
AAAATTATAAAAAAAACTAGCAAA
Found at i:25555012 original size:26 final size:27
Alignment explanation
Indices: 25554955--25555011 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
25554945 AGAAACTAGC
25554955 AAAATAAAAAATTATATAAATTAAGAA
1 AAAATAAAAAATTATATAAATTAAGAA
* *
25554982 AAAATAAAAAATTGTA-AATATTATGAA
1 AAAATAAAAAATTATATAA-ATTAAGAA
25555009 AAA
1 AAA
25555012 TGTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAATAAAAAATTATATAAATTAAGAA
Found at i:25563492 original size:28 final size:28
Alignment explanation
Indices: 25563457--25563546 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 28
25563447 ATTGGGTTTA
*
25563457 ATTTATTTAATTTTGAATTTTGTTTTTT
1 ATTTATTTAATTTTGAATTTTGATTTTT
*
25563485 ATTTATTT--TTTACT-ATTATTTGATTTTT
1 ATTTATTTAATTT--TGAAT-TTTGATTTTT
*
25563513 ATTTATTTAATTTTGAATTAT-ATTTTT
1 ATTTATTTAATTTTGAATTTTGATTTTT
25563540 ATTTATT
1 ATTTATT
25563547 GCTTACTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
26 3 0.06
27 15 0.29
28 29 0.56
29 2 0.04
30 3 0.06
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.70
Consensus pattern (28 bp):
ATTTATTTAATTTTGAATTTTGATTTTT
Found at i:25563515 original size:14 final size:15
Alignment explanation
Indices: 25563482--25563546 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
25563472 AATTTTGTTT
*
25563482 TTTATTTATTTTTTA
1 TTTATTTAATTTTTA
*
25563497 CTATTATTTGATTTTTA
1 -T-TTATTTAATTTTTA
*
25563514 TTTATTTAATTTTGA
1 TTTATTTAATTTTTA
*
25563529 ATTA--T-ATTTTTA
1 TTTATTTAATTTTTA
25563541 TTTATT
1 TTTATT
25563547 GCTTACTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
12 9 0.23
13 1 0.03
15 15 0.38
16 2 0.05
17 12 0.31
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTATTTAATTTTTA
Found at i:25563562 original size:55 final size:56
Alignment explanation
Indices: 25563457--25563580 Score: 187
Period size: 55 Copynumber: 2.2 Consensus size: 56
25563447 ATTGGGTTTA
* * **
25563457 ATTTATTTAATTTTGAATTTTGTTTTTTATTTATTTTTTACTATTATTTGATTTTT
1 ATTTATTTAATTTTGAATTATGATTTTTATTTATTGCTTACTATTATTTGATTTTT
*
25563513 ATTTATTTAATTTTGAATTAT-ATTTTTATTTATTGCTTACTATTCTTTGATTTTT
1 ATTTATTTAATTTTGAATTATGATTTTTATTTATTGCTTACTATTATTTGATTTTT
*
25563568 ATATATTTAATTT
1 ATTTATTTAATTT
25563581 CGTATTACTT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 42 0.68
56 20 0.32
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (56 bp):
ATTTATTTAATTTTGAATTATGATTTTTATTTATTGCTTACTATTATTTGATTTTT
Found at i:25563566 original size:28 final size:26
Alignment explanation
Indices: 25563475--25563575 Score: 80
Period size: 28 Copynumber: 3.7 Consensus size: 26
25563465 AATTTTGAAT
*
25563475 TTTGTTTTTTATTTATTTTTTACTATTA
1 TTTGATTTTTATTTA--TTTTACTATTA
* *
25563503 TTTGATTTTTATTTA-TTTAATTTTGAA
1 TTTGATTTTTATTTATTTTACTATT--A
*
25563530 TTAT-ATTTTTATTTATTGCTTACTATTC
1 TT-TGATTTTTATTTATT--TTACTATTA
*
25563558 TTTGATTTTTATATATTT
1 TTTGATTTTTATTTATTT
25563576 AATTTCGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
25 7 0.12
26 1 0.02
27 15 0.25
28 30 0.51
30 6 0.10
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.69
Consensus pattern (26 bp):
TTTGATTTTTATTTATTTTACTATTA
Found at i:25571765 original size:8 final size:9
Alignment explanation
Indices: 25571737--25571765 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
25571727 GTGAGGGACT
25571737 AAATTGTAA
1 AAATTGTAA
25571746 AAATTGTAA
1 AAATTGTAA
25571755 AAATTGTAA
1 AAATTGTAA
25571764 AA
1 AA
25571766 GTTAGGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (9 bp):
AAATTGTAA
Found at i:25572356 original size:100 final size:100
Alignment explanation
Indices: 25572166--25572345 Score: 252
Period size: 100 Copynumber: 1.8 Consensus size: 100
25572156 ATGTTTATAT
* * * **
25572166 GTAAGATCATAGCTGGGCTATGACATTTTAATAAAAAGACCATAACTGGGTTATGGCACTTTAAA
1 GTAAGACCATAGCTAGGCTATGACATTCTAATAAAAAGACCATAACTGGGTTATGGCACTACAAA
*
25572231 CGTAAGACCATGGTTAGACCATGGCAGTATGCATA
66 CGTAAGACCATGGCTAGACCATGGCAGTATGCATA
* * * * *
25572266 GTAAGACCATAGCTAGGCTATGACATTCTGATGATACGACCATAACTGGGTTATGGCACTACGAA
1 GTAAGACCATAGCTAGGCTATGACATTCTAATAAAAAGACCATAACTGGGTTATGGCACTACAAA
*
25572331 TGTAAGACCATGGCT
66 CGTAAGACCATGGCT
25572346 GGCTCATGGC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 68 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (100 bp):
GTAAGACCATAGCTAGGCTATGACATTCTAATAAAAAGACCATAACTGGGTTATGGCACTACAAA
CGTAAGACCATGGCTAGACCATGGCAGTATGCATA
Found at i:25579618 original size:33 final size:33
Alignment explanation
Indices: 25579571--25579724 Score: 116
Period size: 33 Copynumber: 4.6 Consensus size: 33
25579561 GTTTATATGT
25579571 AAGACCATAGCTGGGCTATGGCATTTTAATGAA
1 AAGACCATAGCTGGGCTATGGCATTTTAATGAA
* * * *
25579604 AAGACCATAACTGGGTTATGGCACTTTGAATG-T
1 AAGACCATAGCTGGGCTATGGCA-TTTTAATGAA
* * * *
25579637 AAGACCATGGTTGGACCATGGCAATATTT-AT-AA
1 AAGACCATAGCTGGGCTATGGC-AT-TTTAATGAA
* * * *
25579670 GTAAGACCATAGCTAGGCTATGGCATTCTGATGAT
1 --AAGACCATAGCTGGGCTATGGCATTTTAATGAA
* *
25579705 AAGACCATAACTGGGTTATG
1 AAGACCATAGCTGGGCTATG
25579725 ACACTACGAA
Statistics
Matches: 91, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
33 59 0.65
34 14 0.15
35 18 0.20
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (33 bp):
AAGACCATAGCTGGGCTATGGCATTTTAATGAA
Found at i:25579720 original size:101 final size:101
Alignment explanation
Indices: 25579545--25579762 Score: 319
Period size: 101 Copynumber: 2.2 Consensus size: 101
25579535 GGATAAGACT
* * * * *
25579545 GTTGGACCATGGAAATGTTTATATGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAGACC
1 GTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACC
* **
25579610 ATAACTGGGTTATGGCACTTTGAATGTAAGACCATG
66 ATAACTGGGTTATGACACTACGAATGTAAGACCATG
* *
25579646 GTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTAGGCTATGGCATTCTGATGATAAGACC
1 GTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACC
*
25579711 ATAACTGGGTTATGACACTACGAATGTAAGACCTTG
66 ATAACTGGGTTATGACACTACGAATGTAAGACCATG
* *
25579747 GCTGGGCCATGGCAAT
1 GTTGGACCATGGCAAT
25579763 GCATGTGTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
GTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACC
ATAACTGGGTTATGACACTACGAATGTAAGACCATG
Found at i:25580105 original size:215 final size:217
Alignment explanation
Indices: 25579732--25580170 Score: 756
Period size: 215 Copynumber: 2.0 Consensus size: 217
25579722 ATGACACTAC
* *
25579732 GAATGTAAGACCTTGGCTGGGCCATGGCAATGCATGTGTAAGACCATAGTTGGATTATGGCACAA
1 GAATGTAAGACCATGGCTGGGCCATGGCAATGCATGTGTAAGACCATAGTTGGACTATGGCACAA
**
25579797 AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTTGATTCAGTAAGAATTGGTAAAAGACCTA
66 AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTCAATTCAGTAAGAATTGGTAAAAGACCTA
*
25579862 TGTGAATGAATTGAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTCTGTTCATTGA
131 TGTGAATGAATTAAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTCTGTTCATTGA
* *
25579927 CTTATGTTGTATTTGACAGGGA
196 CATATGTTGTATTTGACAGCGA
* *
25579949 GAATGTAAGACCATGGCTGGGTCATGGCAATGC-TGTGTAAGACCATAGTTGGACTATGGC-CCA
1 GAATGTAAGACCATGGCTGGGCCATGGCAATGCATGTGTAAGACCATAGTTGGACTATGGCACAA
* *
25580012 AAAAAAATGATGTACTCATACCCGTAAGTCGTTCCTCAATTCAGTAAGAATTGGTAAAAGATCTA
66 AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTCAATTCAGTAAGAATTGGTAAAAGACCTA
*
25580077 TGTGAATGAATTAAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTTTGTTCATTGA
131 TGTGAATGAATTAAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTCTGTTCATTGA
25580142 CATATGTTGTATTTGACAGCGA
196 CATATGTTGTATTTGACAGCGA
25580164 GAATGTA
1 GAATGTA
25580171 TGATTTATTT
Statistics
Matches: 210, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
215 153 0.73
216 26 0.12
217 31 0.15
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (217 bp):
GAATGTAAGACCATGGCTGGGCCATGGCAATGCATGTGTAAGACCATAGTTGGACTATGGCACAA
AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTCAATTCAGTAAGAATTGGTAAAAGACCTA
TGTGAATGAATTAAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTCTGTTCATTGA
CATATGTTGTATTTGACAGCGA
Found at i:25584122 original size:42 final size:42
Alignment explanation
Indices: 25584070--25584169 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
25584060 GCTCTCGGTA
*
25584070 TCGCACACTTAGTGCCCGTTATACAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
* * *
25584112 TCGCACACTTAGTACCCATTATCCAACATCATTATTTTAATT
1 TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
25584154 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
25584170 GTTCATATAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
Found at i:25585067 original size:16 final size:17
Alignment explanation
Indices: 25585034--25585067 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25585024 TATAAAGTTA
*
25585034 ATATTTACCTTATTACT
1 ATATTAACCTTATTACT
25585051 ATATTAACCTT-TTACT
1 ATATTAACCTTATTACT
25585067 A
1 A
25585068 ATAATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAACCTTATTACT
Found at i:25586474 original size:41 final size:41
Alignment explanation
Indices: 25586417--25586511 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
25586407 ATATTCATCG
* *
25586417 GCACTTAGTCTGCTAGGCTTATAGCCTGATTCAGATCACCA
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCA
* *
25586458 GCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCA
25586499 GCACTTAGCCTGC
1 GCACTTAGCCTGC
25586512 CAGACTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCA
Found at i:25586692 original size:41 final size:41
Alignment explanation
Indices: 25586493--25586678 Score: 248
Period size: 41 Copynumber: 4.5 Consensus size: 41
25586483 CTGATTCAGA
* * * *
25586493 TCACCGGCACTT-AGCCTGCCAGACTTAAAGTCTGAATTATT
1 TCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAATAAT
* * * * *
25586534 TCACCGGCCTTAAGCCTGCTAGACTTAAAGTCCGAATTATT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
*
25586575 TCACCGGCCTTAAGCCTGCTAGACATAAAGTCTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
*
25586616 TCACCGGCATTAAGCTTGCTAGACATAAAGTCTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
*
25586657 TCACCGGCATTAACCCTGCTAG
1 TCACCGGCATTAAGCCTGCTAG
25586679 GCATCGAGCC
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 2 0.02
41 131 0.98
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
Found at i:25590039 original size:15 final size:17
Alignment explanation
Indices: 25590014--25590045 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25590004 GAAGGAGAAA
25590014 CTTTGTGTTTAT-TTTT
1 CTTTGTGTTTATATTTT
25590030 CTTT-TGTTTATATTTT
1 CTTTGTGTTTATATTTT
25590046 TAATTGCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.75
Consensus pattern (17 bp):
CTTTGTGTTTATATTTT
Found at i:25595082 original size:23 final size:23
Alignment explanation
Indices: 25595038--25595082 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
25595028 AAATTTATTA
***
25595038 AAAATAAAAAGAAATTGTATAAC
1 AAAATAAAAAGAAATAAAATAAC
*
25595061 AAAATAAAAAGAAGTAAAATAA
1 AAAATAAAAAGAAATAAAATAA
25595083 AGCAGGCATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAATAAAAAGAAATAAAATAAC
Found at i:25596725 original size:38 final size:38
Alignment explanation
Indices: 25596678--25596756 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
25596668 TTTGGTTTTG
* * * *
25596678 ATACAAAATTGAATATTGAAATTAAATTTAGGTATCAA
1 ATACAAAATTGAACATTAAAATTAAATTTAAGTATAAA
*
25596716 ATACTAAATTGAACATTAAAATTAAATTTAAGTATAAA
1 ATACAAAATTGAACATTAAAATTAAATTTAAGTATAAA
25596754 ATA
1 ATA
25596757 ATATATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (38 bp):
ATACAAAATTGAACATTAAAATTAAATTTAAGTATAAA
Found at i:25596753 original size:18 final size:18
Alignment explanation
Indices: 25596696--25596755 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
25596686 TTGAATATTG
*
25596696 AAATTAAATTTAGGTATCA
1 AAATTAAATTTAAGTAT-A
* * *
25596715 AATACTAAATTGAA-CATTA
1 AA-ATTAAATTTAAGTA-TA
25596734 AAATTAAATTTAAGTATA
1 AAATTAAATTTAAGTATA
25596752 AAAT
1 AAAT
25596756 AATATATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
18 15 0.48
19 7 0.23
20 9 0.29
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (18 bp):
AAATTAAATTTAAGTATA
Found at i:25610531 original size:20 final size:20
Alignment explanation
Indices: 25610506--25610543 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25610496 ATGTTATATA
25610506 TTATAAAAAAATACATTTAT
1 TTATAAAAAAATACATTTAT
*
25610526 TTATAAAAAAATATATTT
1 TTATAAAAAAATACATTT
25610544 TTTGCCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTATAAAAAAATACATTTAT
Found at i:25612259 original size:25 final size:25
Alignment explanation
Indices: 25612229--25612286 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
25612219 GCTCTCTCTC
*
25612229 GAGCCATATAATGGGAAACTCATGT-
1 GAGCCATATAACGGGAAACTCAT-TA
* *
25612254 GAGCCATGTAACGGGAAGCTCATTA
1 GAGCCATATAACGGGAAACTCATTA
25612279 GAGCCATA
1 GAGCCATA
25612287 ATTAGGAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACGGGAAACTCATTA
Found at i:25612342 original size:25 final size:25
Alignment explanation
Indices: 25612302--25612397 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 25
25612292 GAAGTTAATC
* *
25612302 GAGCCA-T-ATCAGGAAGCTCTGGA
1 GAGCCATTAATCAAGAAGCTCTAGA
*
25612325 GAGCCATTAATCAAGAAGCTCATAAAA
1 GAGCCATTAATCAAGAAGCTC-T-AGA
* ***
25612352 GAGCCTTTAATTGGGAAGCTCTAGA
1 GAGCCATTAATCAAGAAGCTCTAGA
*
25612377 GAGCCATTAATCGAGAAGCTC
1 GAGCCATTAATCAAGAAGCTC
25612398 ATGAAAGAGC
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
23 6 0.10
24 1 0.02
25 31 0.53
26 2 0.03
27 18 0.31
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
GAGCCATTAATCAAGAAGCTCTAGA
Found at i:25612362 original size:27 final size:26
Alignment explanation
Indices: 25612324--25612414 Score: 103
Period size: 27 Copynumber: 3.5 Consensus size: 26
25612314 GAAGCTCTGG
*
25612324 AGAGCCATTAATCAAGAAGCTCATAAA
1 AGAGCCATTAATCGAGAAGCTCAT-AA
* * * *
25612351 AGAGCCTTTAATTGGGAAGCTC-TAG
1 AGAGCCATTAATCGAGAAGCTCATAA
25612376 AGAGCCATTAATCGAGAAGCTCATGAA
1 AGAGCCATTAATCGAGAAGCTCAT-AA
*
25612403 AGAGCCTTTAAT
1 AGAGCCATTAAT
25612415 TGGGAAGTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 20 0.38
26 2 0.04
27 30 0.58
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (26 bp):
AGAGCCATTAATCGAGAAGCTCATAA
Found at i:25612370 original size:52 final size:52
Alignment explanation
Indices: 25612313--25612421 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
25612303 AGCCATATCA
*
25612313 GGAAGCTCTGGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATTG
1 GGAAGCTCTAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATTG
* *
25612365 GGAAGCTCTAGAGAGCCATTAATCGAGAAGCTCATGAAAGAGCCTTTAATTG
1 GGAAGCTCTAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATTG
25612417 GGAAG
1 GGAAG
25612422 TTTCGAAGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (52 bp):
GGAAGCTCTAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATTG
Found at i:25612421 original size:27 final size:26
Alignment explanation
Indices: 25612339--25612421 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
25612329 CATTAATCAA
25612339 GAAGCTCATAAAAGAGCCTTTAATTGG
1 GAAGCTCAT-AAAGAGCCTTTAATTGG
* * * *
25612366 GAAGCTC-TAGAGAGCCATTAATCGA
1 GAAGCTCATAAAGAGCCTTTAATTGG
25612391 GAAGCTCATGAAAGAGCCTTTAATTGG
1 GAAGCTCAT-AAAGAGCCTTTAATTGG
25612418 GAAG
1 GAAG
25612422 TTTCGAAGAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 20 0.43
26 2 0.04
27 24 0.52
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (26 bp):
GAAGCTCATAAAGAGCCTTTAATTGG
Found at i:25612432 original size:52 final size:52
Alignment explanation
Indices: 25612313--25612453 Score: 180
Period size: 52 Copynumber: 2.7 Consensus size: 52
25612303 AGCCATATCA
25612313 GGAAGCTCTG-GAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATTG
1 GGAAGCTC-GAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATTG
* * *
25612365 GGAAGCTCTAGAGAGCCATTAATCGAGAAGCTCATGAAAGAGCCTTTAATTG
1 GGAAGCTCGAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATTG
* * *
25612417 GGAAGTTTCGA-AGAGCCA-TATATCTAGATGCTCATAA
1 GGAAG-CTCGAGAGAGCCATTA-ATCAAGAAGCTCATAA
25612454 GAGCTACGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
51 2 0.03
52 73 0.94
53 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (52 bp):
GGAAGCTCGAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATTG
Found at i:25612529 original size:24 final size:24
Alignment explanation
Indices: 25612496--25612579 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
25612486 CACAACCAAT
*
25612496 CGGGATGCTCTGAAGAGCTATTAA
1 CGGGAAGCTCTGAAGAGCTATTAA
*
25612520 CGGGAAGCTC-GCAAGAACTATATAA
1 CGGGAAGCTCTG-AAGAGCTAT-TAA
*
25612545 CGGGAAGCTCATG-AGAGCTAATAA
1 CGGGAAGCTC-TGAAGAGCTATTAA
*
25612569 CGGGACGCTCT
1 CGGGAAGCTCT
25612580 TTCAAGCTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.04
24 29 0.57
25 19 0.37
27 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCTGAAGAGCTATTAA
Found at i:25612551 original size:25 final size:24
Alignment explanation
Indices: 25612508--25612554 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
25612498 GGATGCTCTG
*
25612508 AAGAGCTATTAACGGGAAGCTCGC
1 AAGAACTATTAACGGGAAGCTCGC
25612532 AAGAACTATATAACGGGAAGCTC
1 AAGAACTAT-TAACGGGAAGCTC
25612555 ATGAGAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (24 bp):
AAGAACTATTAACGGGAAGCTCGC
Found at i:25612745 original size:22 final size:21
Alignment explanation
Indices: 25612720--25612774 Score: 51
Period size: 22 Copynumber: 2.5 Consensus size: 21
25612710 TATACATGGC
25612720 ATATACATAATTC-ACATATACA
1 ATATACA-AATTCAACATATA-A
*
25612742 ATATTC-AATTCAAACATATAA
1 ATATACAAATTC-AACATATAA
25612763 ATATACACAATT
1 ATATACA-AATT
25612775 TAGTTACACG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 5 0.19
21 6 0.22
22 12 0.44
23 4 0.15
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATACAAATTCAACATATAA
Found at i:25612751 original size:20 final size:20
Alignment explanation
Indices: 25612728--25612766 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
25612718 GCATATACAT
25612728 AATTC-ACATATACAATATTC
1 AATTCAACATATA-AATATTC
25612748 AATTCAAACATATAAATAT
1 AATTC-AACATATAAATAT
25612767 ACACAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCAACATATAAATATTC
Found at i:25616595 original size:47 final size:47
Alignment explanation
Indices: 25616428--25616918 Score: 685
Period size: 47 Copynumber: 10.3 Consensus size: 47
25616418 AGAGTGTATG
*
25616428 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTA
*
25616479 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTA
*
25616530 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
25616577 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
25616624 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
25616671 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
25616718 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
25616765 TATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
25616812 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * * * *
25616859 TATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
25616906 TAAATGTGATAAG
1 TATATGTGATAAG
25616919 TCCCGAAAGG
Statistics
Matches: 418, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 326 0.78
49 1 0.00
51 91 0.22
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:25617094 original size:37 final size:37
Alignment explanation
Indices: 25617037--25617115 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
25617027 CCGAGCTCTA
* * *
25617037 AAGACCCGATGACTATGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTATGTGTGGAGATTATGTCCGGGT
25617074 AAGACCCGATAACT-TCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTAT-GTGTGGAGATTATGTCCGGGT
25617111 AAGAC
1 AAGAC
25617116 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTATGTGTGGAGATTATGTCCGGGT
Found at i:25629733 original size:2 final size:2
Alignment explanation
Indices: 25629726--25629755 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25629716 CCGATTTTAA
25629726 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
25629756 TATGGTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25634334 original size:86 final size:86
Alignment explanation
Indices: 25634244--25634424 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
25634234 AATATAATTG
25634244 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
25634309 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
25634330 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
25634395 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
25634416 TAATT-TTAT
1 TAATTATTAT
25634425 GTGGAGAGAA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:25634565 original size:51 final size:51
Alignment explanation
Indices: 25634490--25634707 Score: 296
Period size: 51 Copynumber: 4.0 Consensus size: 51
25634480 ATATACGTAA
25634490 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
25634540 AATTATACATACACCAACAATGTTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATG-TTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
25634604 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
25634655 AATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAAC
25634706 AA
1 AA
25634708 GTAATTTTAG
Statistics
Matches: 153, Mismatches: 0, Indels: 29
0.84 0.00 0.16
Matches are distributed among these distances:
50 7 0.05
51 77 0.50
52 13 0.08
56 3 0.02
57 2 0.01
58 2 0.01
59 3 0.02
63 13 0.08
64 33 0.22
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:25634598 original size:12 final size:12
Alignment explanation
Indices: 25634581--25634608 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25634571 GGTAAATAAC
25634581 ATTAAACCAACA
1 ATTAAACCAACA
25634593 ATTAAACCAACA
1 ATTAAACCAACA
25634605 ATTA
1 ATTA
25634609 TACATACACC
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:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:25634608 original size:64 final size:63
Alignment explanation
Indices: 25634529--25634659 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
25634519 GGTAAATAAC
25634529 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATG-TTTTTTAGGGTAAATAACATTAAACCAACA
25634593 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
25634656 ATTA
1 ATTA
25634660 TACATACACC
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 34 0.51
64 33 0.49
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.28
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:25634716 original size:33 final size:34
Alignment explanation
Indices: 25634653--25634763 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
25634643 CATTAAACCA
* *
25634653 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
25634687 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
25634719 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
25634752 TCAATTATACAT
1 ACAATTATACAT
25634764 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:25638091 original size:120 final size:119
Alignment explanation
Indices: 25637786--25638408 Score: 1131
Period size: 120 Copynumber: 5.2 Consensus size: 119
25637776 TTTTCAAGTT
25637786 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
25637851 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAA
25637905 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
25637970 TAATATAAGAATATTAATTATTAAGAATTTTTTAAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTT-AAATTATATATTTTAATTAAA
25638025 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
25638090 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATATTTTAATTAAA
*
25638145 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
25638210 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTT-TTTAAATTATATATTTTAATTAAA
*
25638266 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
25638331 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATATTTTAATTAAA
25638386 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
25638409 TAAATATGAT
Statistics
Matches: 491, Mismatches: 6, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
119 100 0.20
120 273 0.56
121 116 0.24
122 2 0.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (119 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAA
Found at i:25638144 original size:18 final size:17
Alignment explanation
Indices: 25638116--25638150 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25638106 ATTATTAAGA
*
25638116 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25638133 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25638151 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:25638337 original size:241 final size:240
Alignment explanation
Indices: 25637786--25638408 Score: 1144
Period size: 241 Copynumber: 2.6 Consensus size: 240
25637776 TTTTCAAGTT
25637786 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
25637851 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
*
25637915 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
* *
25637980 ATATTAATTATTAAGAATTTTTTAAAATTATATAGTTTAATTAAA
196 ATATTAATAATTAAGAATTTATTAAAATTATATAGTTTAATTAAA
25638025 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
25638090 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
25638155 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
*
25638220 ATATT-ATCCAATTAAGAATTTCATT-AAATTATATATTTTAATTAAA
196 ATATTAAT--AATTAAGAATTT-ATTAAAATTATATAGTTTAATTAAA
*
25638266 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
25638331 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
25638396 TAATAATTATGTT
131 TAATAATTATGTT
25638409 TAAATATGAT
Statistics
Matches: 374, Mismatches: 6, Indels: 6
0.97 0.02 0.02
Matches are distributed among these distances:
239 98 0.26
240 101 0.27
241 173 0.46
242 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (240 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
ATATTAATAATTAAGAATTTATTAAAATTATATAGTTTAATTAAA
Found at i:25638385 original size:18 final size:17
Alignment explanation
Indices: 25638357--25638391 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25638347 ATTATTAAGA
*
25638357 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25638374 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25638392 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:25638621 original size:44 final size:45
Alignment explanation
Indices: 25638556--25638646 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
25638546 ACCTCTATTC
* * *
25638556 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
*** *
25638600 CATTCAACCAAACAGTGGATTAGTTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
25638645 CA
1 CA
25638647 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 19 0.49
45 20 0.51
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:25638648 original size:16 final size:16
Alignment explanation
Indices: 25638627--25638695 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
25638617 GATTAGTTAT
25638627 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25638643 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
25638660 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
25638676 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
25638692 TACA
1 TACA
25638696 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25638669 original size:33 final size:32
Alignment explanation
Indices: 25638627--25638695 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
25638617 GATTAGTTAT
25638627 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
25638660 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
25638692 TACA
1 TACA
25638696 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:25639168 original size:27 final size:27
Alignment explanation
Indices: 25639141--25639202 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
25639131 CTTATAAATT
*
25639141 ATAATATA-TATTTATTATTAAAATATTA
1 ATAATA-AGTATTT-TTAATAAAATATTA
25639169 ATAGA-AAGTATTTTTAATAAAATATTA
1 ATA-ATAAGTATTTTTAATAAAATATTA
25639196 ATAATAA
1 ATAATAA
25639203 AAAGTATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 1 0.03
27 19 0.63
28 9 0.30
29 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
ATAATAAGTATTTTTAATAAAATATTA
Found at i:25639187 original size:16 final size:15
Alignment explanation
Indices: 25639164--25639216 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
25639154 ATTATTAAAA
25639164 TATTAATAGAAAGTAT
1 TATTAATA-AAAGTAT
*
25639180 TTTTAATAAAA-TAT
1 TATTAATAAAAGTAT
*
25639194 TAATAATAAAAAGTAT
1 TATTAAT-AAAAGTAT
*
25639210 AATTAAT
1 TATTAAT
25639217 GTTAAAACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 8 0.27
15 7 0.23
16 15 0.50
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (15 bp):
TATTAATAAAAGTAT
Found at i:25639259 original size:16 final size:18
Alignment explanation
Indices: 25639226--25639266 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
25639216 TGTTAAAACT
25639226 TATTATTAAAATAAAATTG
1 TATTATTAAAAT-AAATTG
25639245 TATTATT-AAAT-AATTG
1 TATTATTAAAATAAATTG
*
25639261 AATTAT
1 TATTAT
25639267 AGTAATAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
TATTATTAAAATAAATTG
Found at i:25646491 original size:56 final size:56
Alignment explanation
Indices: 25646400--25646566 Score: 262
Period size: 56 Copynumber: 3.1 Consensus size: 56
25646390 ACAAGGGATG
25646400 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
25646456 ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAG-----AAT-A-AA--
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
25646503 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
25646559 ATGGGCAA
1 ATGGGCAA
25646567 TAAACTAATA
Statistics
Matches: 100, Mismatches: 2, Indels: 18
0.83 0.02 0.15
Matches are distributed among these distances:
47 40 0.40
49 2 0.02
50 1 0.01
51 3 0.03
52 3 0.03
53 1 0.01
54 2 0.02
56 48 0.48
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:25646510 original size:47 final size:47
Alignment explanation
Indices: 25646456--25646551 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
25646446 AATAAGAAGC
25646456 ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAGAATAAA
1 ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAGAATAAA
*
25646503 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAA
1 ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAGAATAAA
25646550 AT
1 AT
25646552 AAGAAGCATG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.26
Consensus pattern (47 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAGAATAAA
Found at i:25646654 original size:13 final size:13
Alignment explanation
Indices: 25646636--25646664 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25646626 ATGCATGTCC
25646636 AAAAAAAAAGAGA
1 AAAAAAAAAGAGA
25646649 AAAAAAAAAGAGA
1 AAAAAAAAAGAGA
25646662 AAA
1 AAA
25646665 GAAGAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAGA
Found at i:25647813 original size:39 final size:40
Alignment explanation
Indices: 25647712--25647932 Score: 253
Period size: 39 Copynumber: 5.7 Consensus size: 40
25647702 TCGAATGATG
* * *
25647712 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
25647751 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
25647792 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25647830 T-CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
25647868 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25647906 AGCCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25647933 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 12, Indels: 18
0.84 0.06 0.09
Matches are distributed among these distances:
37 36 0.22
38 3 0.02
39 65 0.41
40 46 0.29
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:25647851 original size:76 final size:78
Alignment explanation
Indices: 25647712--25647932 Score: 268
Period size: 76 Copynumber: 2.8 Consensus size: 78
25647702 TCGAATGATG
* * * * *
25647712 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAT-CGGGCTAAGACCCGAAGGCATT
*
25647776 TGTGCGAGTTACTAAT
63 TGTGCGAGTTACTAAA
* *
25647792 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA-ATCGGGCTAAG-CCCGAAGGCATTGGT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGACCCGAAGGCATTTGT
25647855 GCGAGTTACTAAA
66 GCGAGTTACTAAA
* * * * *
25647868 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAGCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATA-TCGGGCTAAGACCCGAAGGCATTTG
25647933 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
76 59 0.48
77 9 0.07
78 10 0.08
79 28 0.23
80 17 0.14
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGACCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:25647962 original size:79 final size:76
Alignment explanation
Indices: 25647765--25647965 Score: 217
Period size: 76 Copynumber: 2.6 Consensus size: 76
25647755 GGACTAAGAT
* ** * * *
25647765 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTGGTGCGAGTTACTAA
*
25647830 TCGGGCTAAGC
66 CCGGGCTAAGC
** *
25647841 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAT
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTGGTGCGAGTTACTA-
*
25647906 AGCCGGGCTATGTC
65 A-CCGGGCTAAG-C
* * *
25647920 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTT-AAGTCCGAAGG
25647966 TACGTGATTC
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
76 59 0.55
77 1 0.01
78 14 0.13
79 34 0.31
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (76 bp):
CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTGGTGCGAGTTACTAA
CCGGGCTAAGC
Found at i:25654500 original size:54 final size:56
Alignment explanation
Indices: 25654418--25654535 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 56
25654408 ACAAGGGATG
25654418 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AA-AAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
25654472 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
25654528 ATGGGCAA
1 ATGGGCAA
25654536 TAAACTAATA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
54 40 0.65
55 2 0.03
56 20 0.32
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:25655751 original size:40 final size:39
Alignment explanation
Indices: 25655707--25655888 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
25655697 AGTGACCATA
* * *
25655707 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTGGTGCGAGTTACTAAT
25655747 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAT
* * *
25655786 TTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAT
* * *
25655825 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAT
* *
25655864 AGCCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGT-CCGAAGGCATT
25655889 TGAATGAGTA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 71 0.57
40 53 0.43
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAT
Found at i:25655767 original size:39 final size:40
Alignment explanation
Indices: 25655667--25655890 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
25655657 TCGAATGATG
* * * *
25655667 TCCGGGCTAAGTCCCGAAGTC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
25655706 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
25655747 TCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
25655786 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25655825 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25655864 AGCCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25655891 AATGAGTAGC
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 71 0.45
40 78 0.49
41 9 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:25655921 original size:79 final size:79
Alignment explanation
Indices: 25655736--25655923 Score: 186
Period size: 79 Copynumber: 2.4 Consensus size: 79
25655726 GCATTTGTGT
* * * * **
25655736 GAGTTACTAATTCCGGGCT-AAGTCCGAAGGCATTGGTGCGAGTTACTAATTTCGGGCTAAGCCC
1 GAGTTACTAAATCCAGGTTAAATTCCGAAGGCATTGGTGCGAGTTACTAATGCCGGGCTAAGCCC
**
25655800 GAAGGCATTGGTGC
66 GAAGGCATTGGAAC
* * * *
25655814 GAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAGCCGGGCTATGTC
1 GAGTTACTAAATCCAGGTTAAATTCCGAAGGCATTGGTGCGAGTTACTAAT-GCCGGGCTAAG-C
* *
25655878 CCGAAGGCATTTGAAT
64 CCGAAGGCATTGGAAC
*
25655894 GAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 GAGTTA-CTAAATCCAGGTTAAATTCCGAAGG
25655924 TACGTGATTC
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
78 18 0.20
79 48 0.54
80 23 0.26
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
GAGTTACTAAATCCAGGTTAAATTCCGAAGGCATTGGTGCGAGTTACTAATGCCGGGCTAAGCCC
GAAGGCATTGGAAC
Found at i:25672703 original size:29 final size:27
Alignment explanation
Indices: 25672645--25672790 Score: 89
Period size: 28 Copynumber: 5.1 Consensus size: 27
25672635 AATTTTTGTA
* * *
25672645 AAAGTGAA-CCTTTGTGGATATCTTTGTT
1 AAAG-GAAGCCTTTGT-GCTATCTCTATT
25672673 AAAGGAAGCCTTTGTGTCTAATCTCTATT
1 AAAGGAAGCCTTTGTG-CT-ATCTCTATT
* * * *
25672702 AAATGAAGCTTTTGTGGTGATCTCTCTT
1 AAAGGAAGCCTTTGTGCT-ATCTCTATT
*
25672730 AAAGGAATCCCTTATG-GCTATCTCTATT
1 AAAGGAA-GCCTT-TGTGCTATCTCTATT
* * *
25672758 AAAAAGGATGCCCTTGTGGCTATCTCTGTT
1 --AAAGGAAGCCTTTGT-GCTATCTCTATT
25672788 AAA
1 AAA
25672791 AAGGATACAT
Statistics
Matches: 92, Mismatches: 17, Indels: 18
0.72 0.13 0.14
Matches are distributed among these distances:
27 4 0.04
28 40 0.43
29 29 0.32
30 19 0.21
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
AAAGGAAGCCTTTGTGCTATCTCTATT
Found at i:25672772 original size:30 final size:29
Alignment explanation
Indices: 25672730--25672823 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 29
25672720 GATCTCTCTT
25672730 AAAGGAATCCCTTATGGCTATCTCTATTAA
1 AAAGG-ATCCCTTATGGCTATCTCTATTAA
* *
25672760 AAAGGATGCCCTTGTGGCTATCTCTGTTAA
1 AAAGGAT-CCCTTATGGCTATCTCTATTAA
** *
25672790 AAAGGATACATTTATGACTATCTCTATTAA
1 AAAGGAT-CCCTTATGGCTATCTCTATTAA
25672820 AAAG
1 AAAG
25672824 ATACATTTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.04
30 53 0.96
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (29 bp):
AAAGGATCCCTTATGGCTATCTCTATTAA
Found at i:25672831 original size:29 final size:30
Alignment explanation
Indices: 25672741--25672847 Score: 135
Period size: 30 Copynumber: 3.6 Consensus size: 30
25672731 AAGGAATCCC
* **
25672741 TTATGGCTATCTCTATTAAAAAGGATGCCC
1 TTATGGCTATCTCTATTAAAAAGGATACAT
* *
25672771 TTGTGGCTATCTCTGTTAAAAAGGATACAT
1 TTATGGCTATCTCTATTAAAAAGGATACAT
*
25672801 TTATGACTATCTCTATTAAAAA-GATACAT
1 TTATGGCTATCTCTATTAAAAAGGATACAT
* *
25672830 TTGTGGCTATCTCAATTA
1 TTATGGCTATCTCTATTA
25672848 CATGAATTCC
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 22 0.33
30 44 0.67
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (30 bp):
TTATGGCTATCTCTATTAAAAAGGATACAT
Found at i:25675949 original size:8 final size:8
Alignment explanation
Indices: 25675932--25675971 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
25675922 TTAGAGTAGG
*
25675932 CCCATTAT
1 CCCATGAT
25675940 CCCATGAT
1 CCCATGAT
*
25675948 CCCATAAT
1 CCCATGAT
*
25675956 CTCATGAT
1 CCCATGAT
25675964 CCCATGAT
1 CCCATGAT
25675972 TTTTTCCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.30
Consensus pattern (8 bp):
CCCATGAT
Found at i:25682632 original size:17 final size:17
Alignment explanation
Indices: 25682602--25682634 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25682592 TGACCCTGTC
25682602 TCACTAAAATTAAAATA
1 TCACTAAAATTAAAATA
25682619 TCAC-AAAATATAAAAT
1 TCACTAAAAT-TAAAAT
25682635 TCTTTTGCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (17 bp):
TCACTAAAATTAAAATA
Found at i:25683215 original size:20 final size:20
Alignment explanation
Indices: 25683190--25683228 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
25683180 TACTTTCTTC
25683190 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
25683210 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
25683229 AAATAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:25683580 original size:50 final size:50
Alignment explanation
Indices: 25683526--25683621 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
25683516 AGTTTTCATA
* *
25683526 TCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATC
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATC
* * *
25683576 TCGGTGCCAACGCCATGTCCCAGACATTGTCTTATGTGGGACCTCT
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCT
25683622 CATAACCTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (50 bp):
TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATC
Found at i:25687943 original size:41 final size:41
Alignment explanation
Indices: 25687898--25687991 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
25687888 AATGATGCTT
*
25687898 AAATGTGATATG-TTATGTGA-TGTATATTGATATGACA-ATGA
1 AAATGTGATATGTTTA-G-GATTGAATA-TGATATGACACATGA
* * * *
25687939 AAATGTTATGTGTTTAGGATTGAATATGATATGAGACTTGA
1 AAATGTGATATGTTTAGGATTGAATATGATATGACACATGA
25687980 AAATGTGATATG
1 AAATGTGATATG
25687992 AACATGAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
40 11 0.26
41 29 0.67
42 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.38
Consensus pattern (41 bp):
AAATGTGATATGTTTAGGATTGAATATGATATGACACATGA
Found at i:25688087 original size:23 final size:23
Alignment explanation
Indices: 25688054--25688149 Score: 124
Period size: 23 Copynumber: 4.2 Consensus size: 23
25688044 TTTAAGAGGA
*
25688054 TGTGTTTGGAGGGTATATTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
*
25688077 TGTGTTGGGAGGCTATATTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
* *
25688100 TGTGTTTGGAGGGTAAATTAT--T
1 TGTGTTTGGAGGCTATATT-TGGT
*
25688122 TGTGTTTGGAGGCTATAATTGGT
1 TGTGTTTGGAGGCTATATTTGGT
25688145 TGTGT
1 TGTGT
25688150 GGGTGATAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
21 1 0.02
22 17 0.27
23 43 0.69
24 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (23 bp):
TGTGTTTGGAGGCTATATTTGGT
Found at i:25688136 original size:45 final size:45
Alignment explanation
Indices: 25688054--25688149 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
25688044 TTTAAGAGGA
* *
25688054 TGTGTTTGGAGGGTATATTTGGTTGTGTTGGGAGGCTATATTTGGT
1 TGTGTTTGGAGGGTAAATTT-GTTGTGTTGGGAGGCTATAATTGGT
*
25688100 TGTGTTTGGAGGGTAAATTAT-TTGTGTTTGGAGGCTATAATTGGT
1 TGTGTTTGGAGGGTAAATT-TGTTGTGTTGGGAGGCTATAATTGGT
25688145 TGTGT
1 TGTGT
25688150 GGGTGATAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 27 0.59
46 18 0.39
47 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (45 bp):
TGTGTTTGGAGGGTAAATTTGTTGTGTTGGGAGGCTATAATTGGT
Found at i:25688932 original size:135 final size:135
Alignment explanation
Indices: 25688690--25688961 Score: 526
Period size: 135 Copynumber: 2.0 Consensus size: 135
25688680 ACTAGCTTAT
*
25688690 ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTGTGAT
1 ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTATGAT
*
25688755 ACGTCTCTGACCGAATCCGACCTCCGAGCTCTTAACACTACAAAACAGGGGAAAAAGAAACAGGG
66 ACGTCTCTGACCGAATCCGACCTCCAAGCTCTTAACACTACAAAACAGGGGAAAAAGAAACAGGG
25688820 TAAGC
131 TAAGC
25688825 ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTATGAT
1 ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTATGAT
25688890 ACGTCTCTGACCGAATCCGACCTCCAAGCTCTTAACACTACAAAACAGGGGAAAAAGAAACAGGG
66 ACGTCTCTGACCGAATCCGACCTCCAAGCTCTTAACACTACAAAACAGGGGAAAAAGAAACAGGG
25688955 TAAGC
131 TAAGC
25688960 AC
1 AC
25688962 TTTGTGCTTA
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 135 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (135 bp):
ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTATGAT
ACGTCTCTGACCGAATCCGACCTCCAAGCTCTTAACACTACAAAACAGGGGAAAAAGAAACAGGG
TAAGC
Found at i:25692406 original size:19 final size:19
Alignment explanation
Indices: 25692383--25692424 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
25692373 TTTTCAAGTA
25692383 CTTTTTCTTCT-TATTTTT
1 CTTTTTCTTCTGTATTTTT
*
25692401 CTTTTTCTTTTGTATTTTT
1 CTTTTTCTTCTGTATTTTT
25692420 CTTTT
1 CTTTT
25692425 GCTTGGCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (19 bp):
CTTTTTCTTCTGTATTTTT
Found at i:25693331 original size:17 final size:17
Alignment explanation
Indices: 25693284--25693331 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
25693274 CCTATTCCTA
**
25693284 AAAAATAAAAATTGTCC
1 AAAAATAAAAATAATCC
* **
25693301 AAAATTAATTATAATCC
1 AAAAATAAAAATAATCC
25693318 AAAAATAAAAATAA
1 AAAAATAAAAATAA
25693332 AAAGTTTGGG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAATAAAAATAATCC
Found at i:25694549 original size:13 final size:13
Alignment explanation
Indices: 25694531--25694557 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25694521 TTTGATAAAA
25694531 AAAATTTAACTAG
1 AAAATTTAACTAG
25694544 AAAATTTAACTAG
1 AAAATTTAACTAG
25694557 A
1 A
25694558 TATCAAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AAAATTTAACTAG
Found at i:25716350 original size:16 final size:16
Alignment explanation
Indices: 25716331--25716376 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
25716321 GCTGTATTGG
25716331 AATAGAGGTGTAATGA
1 AATAGAGGTGTAATGA
*
25716347 AATAGAGGTGTAATGG
1 AATAGAGGTGTAATGA
*
25716363 ATTAGAGGTGTAAT
1 AATAGAGGTGTAAT
25716377 AACAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (16 bp):
AATAGAGGTGTAATGA
Found at i:25716627 original size:16 final size:16
Alignment explanation
Indices: 25716590--25716631 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25716580 TTAATCATAT
*
25716590 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25716606 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25716621 TTAAAATATAT
1 TTAAAATATAT
25716632 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25716638 original size:14 final size:15
Alignment explanation
Indices: 25716599--25716640 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25716589 TTTAAACATA
*
25716599 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25716614 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25716628 A-TATAATTTAATA
1 ATTATAATTAAATA
25716641 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25716738 original size:120 final size:120
Alignment explanation
Indices: 25716593--25717155 Score: 1027
Period size: 120 Copynumber: 4.7 Consensus size: 120
25716583 ATCATATTTA
*
25716593 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
25716658 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
25716713 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
25716778 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
25716833 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
25716898 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
25716953 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
25717018 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * * * *
25717073 AACATAATTATTATTAAATATATTATAATTAAAATATATTAGTTATTTAAATTCTTGATAATAAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
25717138 TTTTCTTATATGAATTTA
66 TATTCTTATATGAATTTA
25717156 TACAATTTAA
Statistics
Matches: 432, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 432 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:25716758 original size:14 final size:15
Alignment explanation
Indices: 25716709--25717000 Score: 68
Period size: 15 Copynumber: 19.6 Consensus size: 15
25716699 ATAAAATATA
25716709 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25716724 TATTAAATATATTAT
1 AATTAAATATATTAT
*
25716739 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
25716757 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
25716772 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* *
25716787 -ATT-AATTTACTCA-
1 AATTAAATATA-TTAT
* *
25716800 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
25716816 ACTATAAA-ATA-TA-
1 AAT-TAAATATATTAT
25716829 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25716844 TATTAAATATATTAT
1 AATTAAATATATTAT
*
25716859 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
25716877 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
25716892 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* *
25716907 -ATT-AATTTACTCA-
1 AATTAAATATA-TTAT
* *
25716920 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
25716936 ACTATAAA-ATA-TA-
1 AAT-TAAATATATTAT
25716949 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25716964 TATTAAATATATTAT
1 AATTAAATATATTAT
25716979 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25716992 AATTTAATA
1 AATTAAATA
25717001 AAATTCTTAA
Statistics
Matches: 204, Mismatches: 37, Indels: 73
0.65 0.12 0.23
Matches are distributed among these distances:
12 6 0.03
13 19 0.09
14 49 0.24
15 64 0.31
16 46 0.23
17 10 0.05
18 10 0.05
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25716913 original size:51 final size:51
Alignment explanation
Indices: 25716858--25717033 Score: 136
Period size: 54 Copynumber: 3.1 Consensus size: 51
25716848 AAATATATTA
25716858 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
1 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
* * * **
25716909 TAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATAT
1 TAA-TTA---AAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTT-A-ATAATTAATATT-CTTAT
25716974 ATT
50 A-T
25716977 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
1 -TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
*
25717029 GAATT
1 TAATT
25717034 TACTCAAATC
Statistics
Matches: 96, Mismatches: 11, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
51 7 0.07
52 4 0.04
53 4 0.04
54 11 0.11
55 5 0.05
56 4 0.04
57 3 0.03
58 3 0.03
59 9 0.09
61 9 0.09
62 3 0.03
63 3 0.03
64 4 0.04
65 5 0.05
66 11 0.11
67 4 0.04
68 4 0.04
69 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (51 bp):
TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
Found at i:25717097 original size:15 final size:15
Alignment explanation
Indices: 25717070--25717124 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
25717060 TAAAATATAA
25717070 ATTAACATA-ATTATT
1 ATTAA-ATATATTATT
*
25717085 ATTAAATATATTATA
1 ATTAAATATATTATT
25717100 ATTAAAATATATTAGTT
1 ATT-AAATATATTA-TT
25717117 ATTTAAAT
1 A-TTAAAT
25717125 TCTTGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 3 0.09
15 13 0.38
16 10 0.29
17 6 0.18
18 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
ATTAAATATATTATT
Found at i:25717172 original size:91 final size:92
Alignment explanation
Indices: 25717071--25717247 Score: 218
Period size: 91 Copynumber: 1.9 Consensus size: 92
25717061 AAAATATAAA
* * * * *
25717071 TTAACATAATTATTATTAAATAT-ATTATAATTAA-AATATATTAGTT-ATTTAAATTCTTGATA
1 TTAAAATAATTAATATTAAATATAATT-TAA-TAATAATATATAAGTTCA-TAAAATTCTTAATA
* *
25717133 AT-AAATTTTCTTATATGAATTTATACAAT
63 ATAAAATGTTCTTATACGAATTTATACAAT
* *
25717162 TTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATA
1 TTAAAATAATTAATATTAAATATAATTTAATAATAATATATAAGTTCATAAAATTCTTAATAATA
25717227 AAATGTTCTTATACGAATTTA
66 AAATGTTCTTATACGAATTTA
25717248 CTAAAATCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
90 3 0.04
91 47 0.64
92 23 0.32
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (92 bp):
TTAAAATAATTAATATTAAATATAATTTAATAATAATATATAAGTTCATAAAATTCTTAATAATA
AAATGTTCTTATACGAATTTATACAAT
Found at i:25718657 original size:11 final size:11
Alignment explanation
Indices: 25718643--25718669 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25718633 ACAGTACAAT
25718643 ACAAAAGTTTC
1 ACAAAAGTTTC
25718654 ACAAAAGTTTC
1 ACAAAAGTTTC
25718665 ACAAA
1 ACAAA
25718670 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:25722642 original size:22 final size:21
Alignment explanation
Indices: 25722613--25722654 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
25722603 AAAGGTGCAA
25722613 GAAATGAAACAGGAAGAGGCT
1 GAAATGAAACAGGAAGAGGCT
25722634 GAAAGTGAAACAGGAAGAGGC
1 GAAA-TGAAACAGGAAGAGGC
25722655 CGATGGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.48, C:0.10, G:0.36, T:0.07
Consensus pattern (21 bp):
GAAATGAAACAGGAAGAGGCT
Found at i:25726864 original size:10 final size:10
Alignment explanation
Indices: 25726851--25726897 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
25726841 CCGAAAACAC
25726851 AAAAACAAAA
1 AAAAACAAAA
25726861 AAAAA-AGAACA
1 AAAAACA-AA-A
25726872 AAAGAGACAAAA
1 AAA-A-ACAAAA
25726884 AAAAACAAAA
1 AAAAACAAAA
25726894 AAAA
1 AAAA
25726898 CCTCTATTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 1 0.03
10 17 0.53
11 5 0.16
12 5 0.16
13 3 0.09
14 1 0.03
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:25727360 original size:12 final size:12
Alignment explanation
Indices: 25727332--25727369 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25727322 CTTCACTTGA
25727332 AAAAAAGAAACA-
1 AAAAAAGAAA-AG
*
25727344 CAAAAAGAAAAG
1 AAAAAAGAAAAG
25727356 AAAAAAGAAAAG
1 AAAAAAGAAAAG
25727368 AA
1 AA
25727370 GAACGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 1 0.04
12 22 0.96
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:25727377 original size:12 final size:12
Alignment explanation
Indices: 25727347--25727384 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25727337 AGAAACACAA
*
25727347 AAAGAAAAGAAA
1 AAAGAAAAGAAG
25727359 AAAGAAAAGAAG
1 AAAGAAAAGAAG
*
25727371 AACGAAAA-AAG
1 AAAGAAAAGAAG
25727382 AAA
1 AAA
25727385 AAGGAGAGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGAAG
Found at i:25727377 original size:24 final size:24
Alignment explanation
Indices: 25727331--25727387 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
25727321 ACTTCACTTG
25727331 AAAAAAAGAAACACAAAAAGAAAA
1 AAAAAAAGAAACACAAAAAGAAAA
* * *
25727355 GAAAAAAGAAA-AGAAGAACGAAAA
1 AAAAAAAGAAACACAA-AAAGAAAA
25727379 AAGAAAAAG
1 AA-AAAAAG
25727388 GAGAGGCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 18 0.67
25 6 0.22
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAAGAAACACAAAAAGAAAA
Found at i:25727379 original size:19 final size:17
Alignment explanation
Indices: 25727346--25727385 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 17
25727336 AAGAAACACA
25727346 AAAAGAAAAGAAAAAAG
1 AAAAGAAAAGAAAAAAG
25727363 AAAAGAAGAACGAAAAAAG
1 AAAAGAA-AA-GAAAAAAG
25727382 AAAA
1 AAAA
25727386 AGGAGAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 2 0.10
19 12 0.57
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAAAAAG
Found at i:25727903 original size:108 final size:108
Alignment explanation
Indices: 25727714--25727909 Score: 338
Period size: 108 Copynumber: 1.8 Consensus size: 108
25727704 TTTGTATTCT
*
25727714 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
25727779 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
** *
25727822 AGCAAAATTTGCTATCTTGATTAATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* *
25727887 GTCCATTTTGATAATCTTTTTCA
66 ATCCATTGTGATAATCTTTTTCA
25727910 AGCATTTTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 82 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:25728892 original size:17 final size:17
Alignment explanation
Indices: 25728863--25728901 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
25728853 AATTTGCTGG
25728863 CCCAAAAAAAAAATACAA
1 CCCAAAAAAAAAATA-AA
*
25728881 CCCAAAACAAAAATAAA
1 CCCAAAAAAAAAATAAA
25728898 CCCA
1 CCCA
25728902 CTACCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.67, C:0.28, G:0.00, T:0.05
Consensus pattern (17 bp):
CCCAAAAAAAAAATAAA
Found at i:25729299 original size:13 final size:13
Alignment explanation
Indices: 25729281--25729305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25729271 TTATCATTTA
25729281 TCATTTATTTATT
1 TCATTTATTTATT
25729294 TCATTTATTTAT
1 TCATTTATTTAT
25729306 CTACGTATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTATTTATT
Found at i:25730217 original size:15 final size:15
Alignment explanation
Indices: 25730199--25730233 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25730189 TGGTTTAAAT
25730199 TTATATATTATCATC
1 TTATATATTATCATC
*
25730214 TTATATATTATTATC
1 TTATATATTATCATC
25730229 -TATAT
1 TTATAT
25730234 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:25731090 original size:107 final size:107
Alignment explanation
Indices: 25730894--25731100 Score: 326
Period size: 107 Copynumber: 1.9 Consensus size: 107
25730884 AAAGGGAAAT
* * *
25730894 ATTTGAAAACGAGGCAGTGTTTTGCTTTTAGAAAATCGAGAAAATGTACCCTAACGTGCTGGGTT
1 ATTTCAAAACGAGGCAATGTTTTGCGTTTAGAAAATCGAGAAAATGTACCCTAACGTGCTGGGTT
25730959 TCGATTTATCGTTCGACCAAATAGCCAAATATCCTTTCAATA
66 TCGATTTATCGTTCGACCAAATAGCCAAATATCCTTTCAATA
* * *
25731001 ATTTCAAAATGAGGCAATGTTTTGCGTTT-GTAAATTCGAGAAAATGTGCCCTAACGTGCTGGGT
1 ATTTCAAAACGAGGCAATGTTTTGCGTTTAG-AAAATCGAGAAAATGTACCCTAACGTGCTGGGT
* *
25731065 TTCGATTTCTCGTTCGACTAAATAGCCAAATATCCT
65 TTCGATTTATCGTTCGACCAAATAGCCAAATATCCT
25731101 CTTAAAACTT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 1 0.01
107 90 0.99
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (107 bp):
ATTTCAAAACGAGGCAATGTTTTGCGTTTAGAAAATCGAGAAAATGTACCCTAACGTGCTGGGTT
TCGATTTATCGTTCGACCAAATAGCCAAATATCCTTTCAATA
Found at i:25732381 original size:31 final size:31
Alignment explanation
Indices: 25732344--25732405 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
25732334 AGATAATTTT
25732344 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
**
25732375 AAAGAGTTTTATTAGGATTTGATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
25732406 TAATTTGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:25733003 original size:27 final size:27
Alignment explanation
Indices: 25732943--25733002 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
25732933 TAGGCAACTT
25732943 TTTTTTTGCGCTTTTTGCTTCTTCTTC
1 TTTTTTTGCGCTTTTTGCTTCTTCTTC
25732970 TTTTTTTGCGCTTTTTGCTT-TT-TTC
1 TTTTTTTGCGCTTTTTGCTTCTTCTTC
25732995 TGTTTTTT
1 T-TTTTTT
25733003 TTAAAGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 4 0.12
26 8 0.25
27 20 0.62
ACGTcount: A:0.00, C:0.17, G:0.12, T:0.72
Consensus pattern (27 bp):
TTTTTTTGCGCTTTTTGCTTCTTCTTC
Found at i:25733577 original size:31 final size:31
Alignment explanation
Indices: 25733539--25733600 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
25733529 AGGCAAATTA
25733539 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25733570 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25733601 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:25738164 original size:12 final size:12
Alignment explanation
Indices: 25738147--25738171 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25738137 CTTACCACCA
25738147 AATCAATAAGCT
1 AATCAATAAGCT
25738159 AATCAATAAGCT
1 AATCAATAAGCT
25738171 A
1 A
25738172 CTTATGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AATCAATAAGCT
Found at i:25739934 original size:71 final size:71
Alignment explanation
Indices: 25739806--25739946 Score: 237
Period size: 71 Copynumber: 2.0 Consensus size: 71
25739796 TATACAACTT
25739806 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAAATTTCTATGGTGCTAAG
1 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAAATTTCTATGGTGCTAAG
25739871 AGAGCA
66 AGAGCA
* * ** *
25739877 TCATTACTCCATATGAAAACGCCCTAAATAGGGATGAAACCATGAAATTTTTTTATGGTGCTAAG
1 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAAATTTCTATGGTGCTAAG
25739942 AGAGC
66 AGAGC
25739947 TCGTCACAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (71 bp):
TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAAATTTCTATGGTGCTAAG
AGAGCA
Found at i:25742649 original size:6 final size:6
Alignment explanation
Indices: 25742642--25742677 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
25742632 GCTTTAGGTT
* *
25742642 TGGGTT TGGGTT TGGGTC TGGGTC TGGGTC TGGGTC
1 TGGGTC TGGGTC TGGGTC TGGGTC TGGGTC TGGGTC
25742678 AATCAATGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.39
Consensus pattern (6 bp):
TGGGTC
Found at i:25742655 original size:12 final size:12
Alignment explanation
Indices: 25742638--25742676 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
25742628 TTCAGCTTTA
*
25742638 GGTTTGGGTTTG
1 GGTTTGGGTCTG
25742650 GGTTTGGGTCTG
1 GGTTTGGGTCTG
*
25742662 GGTCTGGGTCTG
1 GGTTTGGGTCTG
25742674 GGT
1 GGT
25742677 CAATCAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.08, G:0.51, T:0.41
Consensus pattern (12 bp):
GGTTTGGGTCTG
Found at i:25744065 original size:5 final size:5
Alignment explanation
Indices: 25744007--25744064 Score: 107
Period size: 5 Copynumber: 11.6 Consensus size: 5
25743997 ACTGATATCT
25744007 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
*
25744057 ATAGA ATA
1 ATATA ATA
25744065 GGCTGGGATG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:25744378 original size:23 final size:19
Alignment explanation
Indices: 25744356--25744394 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25744346 TTACTGTCAC
*
25744356 TCACCGTAATCAAATTTGT
1 TCACTGTAATCAAATTTGT
25744375 TCACTGTAATCAAATTTGT
1 TCACTGTAATCAAATTTGT
25744394 T
1 T
25744395 ATTAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (19 bp):
TCACTGTAATCAAATTTGT
Found at i:25744442 original size:25 final size:26
Alignment explanation
Indices: 25744414--25744465 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
25744404 TATCCCCTCA
25744414 TAATTTATTTATTA-CTTTTATATAT
1 TAATTTATTTATTAGCTTTTATATAT
25744439 TAATTTATTTATTAGTCTTTTATATAT
1 TAATTTATTTATTAG-CTTTTATATAT
25744466 GTGTTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 14 0.56
27 11 0.44
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TAATTTATTTATTAGCTTTTATATAT
Done.