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 203 of 207
Found at i:61055342 original size:22 final size:22
Alignment explanation
Indices: 61055314--61055358 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
61055304 TAACTTTAAA
61055314 GAGAAATTACAAAGAAACCAAG
1 GAGAAATTACAAAGAAACCAAG
*
61055336 GAGAAATTACAAAGAAACTAAG
1 GAGAAATTACAAAGAAACCAAG
61055358 G
1 G
61055359 CTAGTTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.11, G:0.20, T:0.11
Consensus pattern (22 bp):
GAGAAATTACAAAGAAACCAAG
Found at i:61055503 original size:22 final size:22
Alignment explanation
Indices: 61055475--61055517 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
61055465 TACTAACTTT
61055475 AAAGAGAAATTACAAAGAAACC
1 AAAGAGAAATTACAAAGAAACC
61055497 AAAGAGAAATTACAAAGAAAC
1 AAAGAGAAATTACAAAGAAAC
61055518 TAAGGCTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.65, C:0.12, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAGAGAAATTACAAAGAAACC
Found at i:61055527 original size:164 final size:164
Alignment explanation
Indices: 61055256--61055670 Score: 677
Period size: 164 Copynumber: 2.5 Consensus size: 164
61055246 GTTTAGCTTT
* * *
61055256 GTTTTATACAAGTTATTAGATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
1 GTTTTATTCAAGTCATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
*
61055321 TACAAAGAAACCAAGGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
66 TACAAAGAAACCAAAGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
61055386 CTAACCCTACCAACTTTGAAGATGTTTTATACAA
131 CTAACCCTACCAACTTTGAAGATGTTTTATACAA
61055420 GTTTTATTCAAGTCATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
1 GTTTTATTCAAGTCATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
61055485 TACAAAGAAACCAAAGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
66 TACAAAGAAACCAAAGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
61055550 CTAACCCTACCAACTTTGAAGATGTTTTATACAA
131 CTAACCCTACCAACTTTGAAGATGTTTTATACAA
61055584 GTTTTATACAAGTTTTATACAAGTCATTACATCAAATGTAAATCAACAACTAATCCTACTAACTT
1 G-TTT-T---A----T-T-CAAGTCATTACATCAAATGTAAATCAACAACTAATCCTACTAACTT
* *
61055649 TGAAGACAAATTACAAAGAAAC
55 TAAAGAGAAATTACAAAGAAAC
61055671 TAAGGTTAGT
Statistics
Matches: 234, Mismatches: 6, Indels: 11
0.93 0.02 0.04
Matches are distributed among these distances:
164 161 0.69
165 3 0.01
166 1 0.00
169 1 0.00
173 1 0.00
174 1 0.00
175 66 0.28
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.26
Consensus pattern (164 bp):
GTTTTATTCAAGTCATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
TACAAAGAAACCAAAGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
CTAACCCTACCAACTTTGAAGATGTTTTATACAA
Found at i:61055589 original size:11 final size:11
Alignment explanation
Indices: 61055573--61055607 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
61055563 CTTTGAAGAT
61055573 GTTTTATACAA
1 GTTTTATACAA
61055584 GTTTTATACAA
1 GTTTTATACAA
61055595 GTTTTATACAA
1 GTTTTATACAA
61055606 GT
1 GT
61055608 CATTACATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (11 bp):
GTTTTATACAA
Found at i:61065303 original size:16 final size:16
Alignment explanation
Indices: 61065270--61065303 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61065260 AGTTAATGTT
* *
61065270 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
61065286 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
61065302 AA
1 AA
61065304 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:61068124 original size:21 final size:21
Alignment explanation
Indices: 61068098--61068138 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61068088 AGACGAGCAA
* *
61068098 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
61068119 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
61068139 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:61070077 original size:16 final size:16
Alignment explanation
Indices: 61070044--61070077 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61070034 GGAGATTGTT
* *
61070044 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
61070060 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
61070076 AA
1 AA
61070078 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:61071603 original size:27 final size:27
Alignment explanation
Indices: 61071571--61071625 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
61071561 ATGTTGGAAA
61071571 TGAAACTCTCAATAGCCATCCAAATAT
1 TGAAACTCTCAATAGCCATCCAAATAT
*
61071598 TGAAACTGTCAATAGCCATCCAAATAT
1 TGAAACTCTCAATAGCCATCCAAATAT
61071625 T
1 T
61071626 CAAAAGCTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (27 bp):
TGAAACTCTCAATAGCCATCCAAATAT
Found at i:61084965 original size:3 final size:3
Alignment explanation
Indices: 61084957--61084982 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61084947 AATAAATAGG
61084957 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
61084983 GGACTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:61086450 original size:98 final size:98
Alignment explanation
Indices: 61086275--61086948 Score: 1060
Period size: 98 Copynumber: 6.9 Consensus size: 98
61086265 GCCGAGGAAA
* ** * * * * *
61086275 AGATTCGCCGTTGCGGCTTCAATCTGTTCCACTGCGTCACCTTGAAGTAAGATTCGCCGTTGTGG
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCC-AGAAGTAAGATTCGCCGTTGTGG
61086340 CTTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
65 CTTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
** * * *
61086374 AGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
* * *
61086439 TTCAATTTTTTAAATTTCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
** *
61086472 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCATCGTTGTAGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
61086537 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
*
61086570 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
61086635 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * *
61086668 AGATTCGCTGTTGTAACTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGCTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
61086733 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
*
61086766 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGCTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
* * *
61086831 TTCGATCCTTTAAATTGCAATATCGTGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * *
61086864 AGATTCGCTGTTGTAGCTTCAACCTGCTCCGTTGCATCGCCAGAAGTAAGATTCGCCGCTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
*
61086929 TTTGATCTTTTAAATTGCAA
66 TTCGATCTTTTAAATTGCAA
61086949 ACTATGGTTT
Statistics
Matches: 541, Mismatches: 34, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
98 505 0.93
99 36 0.07
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (98 bp):
AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
Found at i:61086947 original size:48 final size:48
Alignment explanation
Indices: 61086318--61086947 Score: 309
Period size: 50 Copynumber: 12.9 Consensus size: 48
61086308 GCGTCACCTT
**
61086318 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAAT-GTCGGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGC-ATCG-C-CA
* * * * * ** *
61086368 GAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCATCGCCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCATCGCCA
* * * * **
61086416 GAAGTAAGATTCACCGTTGTGGCTTCAATTTTTTAAATTTCAAT-GTCGGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGC-ATCG-C-CA
* * * * ** ****
61086466 GAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCATCGCCA
** * **
61086514 GAAGTAAGATTCATCGTTGTAGCTTCGATCTTTTAAATTGCAAT-GTCGGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGC-ATCG-C-CA
* * * * ** ****
61086564 GAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCATCGCCA
* **
61086612 GAAGTAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAAT-GTCGGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGC-ATCG-C-CA
* * ** * ** ** *
61086662 GAAGTGAGATTCGCTGTTGTAACTTCAATCTGCTCCACTGCATCGCCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCATCGCCA
* **
61086710 GAAGTAAGATTCGCCGCTGTGGCTTCGATCTTTTAAATTGCAAT-GTCGGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGC-ATCG-C-CA
* * * * ** ****
61086760 GAAGTGAGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCATCGCCA
* * **
61086808 GAAGTAAGATTCGCCGCTGTGGCTTCGATCCTTTAAATTGCAATATCG-TG
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGC---ATCGCCA
* * * * * ** ***
61086858 GAAGTGAGATTCGCTGTTGTAGCTTCAACCTGCTCCGTTGCATCGCCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCATCGCCA
* *
61086906 GAAGTAAGATTCGCCGCTGTGGCTTTGATCTTTTAAATTGCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCA
61086948 AACTATGGTT
Statistics
Matches: 405, Mismatches: 154, Indels: 44
0.67 0.26 0.07
Matches are distributed among these distances:
47 4 0.01
48 184 0.45
49 27 0.07
50 186 0.46
51 4 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (48 bp):
GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCATCGCCA
Found at i:61087755 original size:25 final size:25
Alignment explanation
Indices: 61087721--61087768 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
61087711 AACTCCATTT
61087721 GCTTGAACATTCAGTTCATTAATTA
1 GCTTGAACATTCAGTTCATTAATTA
61087746 GCTTGAACATTCAGTTCATTAAT
1 GCTTGAACATTCAGTTCATTAAT
61087769 AGTTATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (25 bp):
GCTTGAACATTCAGTTCATTAATTA
Found at i:61088324 original size:15 final size:15
Alignment explanation
Indices: 61088306--61088341 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
61088296 TTTTGTTTTT
*
61088306 TTTTTTGAGTGCCCC
1 TTTTTTGAATGCCCC
61088321 TTTTTTGAATGCCCC
1 TTTTTTGAATGCCCC
61088336 TTTTTT
1 TTTTTT
61088342 CAAGTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.22, G:0.14, T:0.56
Consensus pattern (15 bp):
TTTTTTGAATGCCCC
Found at i:61103597 original size:20 final size:20
Alignment explanation
Indices: 61103572--61103616 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
61103562 GAACCAGACT
*
61103572 GAACCGGGCAGTCAGACTGG
1 GAACCGGGCAGTCAGACCGG
* *
61103592 GAACCGGGCGGTCGGACCGG
1 GAACCGGGCAGTCAGACCGG
61103612 GAACC
1 GAACC
61103617 AGCCAGGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.42, T:0.07
Consensus pattern (20 bp):
GAACCGGGCAGTCAGACCGG
Found at i:61116469 original size:31 final size:31
Alignment explanation
Indices: 61116433--61116500 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
61116423 CAACATAGTT
* *
61116433 ATTGAATT-TTTCGAATTTTTTTATTTAAGTC
1 ATTGAATTATTT-GAAATTTTTCATTTAAGTC
61116464 ATTGAATTATTTGAAATTTTTCATTTAAGTC
1 ATTGAATTATTTGAAATTTTTCATTTAAGTC
61116495 ATTGAA
1 ATTGAA
61116501 CTGTTAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (31 bp):
ATTGAATTATTTGAAATTTTTCATTTAAGTC
Found at i:61116899 original size:24 final size:24
Alignment explanation
Indices: 61116867--61116915 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
61116857 TTGAATGACC
61116867 AAACCAAAAACTTACTGATAATTT
1 AAACCAAAAACTTACTGATAATTT
61116891 AAACCAAAAACTTACTGATAATTT
1 AAACCAAAAACTTACTGATAATTT
61116915 A
1 A
61116916 GTGACATTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (24 bp):
AAACCAAAAACTTACTGATAATTT
Found at i:61118153 original size:16 final size:16
Alignment explanation
Indices: 61118110--61118166 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
61118100 TTTTTTAAAA
61118110 TATTTATATTATATTATT
1 TATTTAT-TTATATT-TT
61118128 TAATAATTATTTATATTTT
1 T-AT--TTATTTATATTTT
*
61118147 TATTTATTTAAAGTTTT
1 TATTTATTTATA-TTTT
61118164 TAT
1 TAT
61118167 ATAGTTATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
16 8 0.24
17 7 0.21
18 3 0.09
19 5 0.15
20 7 0.21
21 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTTATTTATATTTT
Found at i:61118153 original size:27 final size:24
Alignment explanation
Indices: 61118098--61118168 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
61118088 TAATTTTTAA
*
61118098 ATTTTTTTAAAATATTTATATTAT
1 ATTTATTTAAAATATTTATATTAT
*
61118122 A-TTATTTAATAATTATTTATATTTTT
1 ATTTATTTAA-AA-TATTTATA-TTAT
* *
61118148 ATTTATTTAAAGTTTTTATAT
1 ATTTATTTAAAATATTTATAT
61118169 AGTTATCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 7 0.18
24 4 0.10
25 15 0.38
26 5 0.13
27 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (24 bp):
ATTTATTTAAAATATTTATATTAT
Found at i:61118174 original size:25 final size:27
Alignment explanation
Indices: 61118114--61118174 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
61118104 TTAAAATATT
61118114 TATATTATATTATTTAATAATTATTTA
1 TATATTATATTATTTAATAATTATTTA
* *
61118141 TAT-TTTTATTTATTTAA-AGTT-TTTA
1 TATATTATA-TTATTTAATAATTATTTA
61118166 TATAGTTAT
1 TATA-TTAT
61118175 CTTAACATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 7 0.25
26 7 0.25
27 14 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TATATTATATTATTTAATAATTATTTA
Found at i:61129779 original size:21 final size:21
Alignment explanation
Indices: 61129729--61129780 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
61129719 AGGAGGCTTC
* *
61129729 AAAGAAGGAAGAATAGACGTG
1 AAAGAAGGGAGAAGAGACGTG
61129750 AAAGAAGGGAGAAGAGACGTG
1 AAAGAAGGGAGAAGAGACGTG
*
61129771 AACGAAGGGA
1 AAAGAAGGGA
61129781 CATAATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.38, T:0.06
Consensus pattern (21 bp):
AAAGAAGGGAGAAGAGACGTG
Found at i:61130986 original size:22 final size:22
Alignment explanation
Indices: 61130960--61131008 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
61130950 AAATTTGGGG
* **
61130960 TTTTATAGGGAATTACTTAAGT
1 TTTTATAGGAAAAAACTTAAGT
61130982 TTTTATAGGAAAAAACTTAAGT
1 TTTTATAGGAAAAAACTTAAGT
61131004 TTTTA
1 TTTTA
61131009 CATAAAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (22 bp):
TTTTATAGGAAAAAACTTAAGT
Found at i:61133568 original size:24 final size:24
Alignment explanation
Indices: 61133537--61133585 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
61133527 ACTCCACTAA
61133537 TCTCTTTTTAGGAATACAATAATC
1 TCTCTTTTTAGGAATACAATAATC
61133561 TCTCTTTTTAGGAATACAATAATC
1 TCTCTTTTTAGGAATACAATAATC
61133585 T
1 T
61133586 TCAGGATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (24 bp):
TCTCTTTTTAGGAATACAATAATC
Found at i:61141031 original size:22 final size:21
Alignment explanation
Indices: 61141002--61141042 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
61140992 GTGACACCCA
* *
61141002 TTTCCCAATGTCGCGACATCT
1 TTTCCCAACGTCGCAACATCT
61141023 TTTCTCCAACGTCGCAACAT
1 TTTC-CCAACGTCGCAACAT
61141043 TGACCCTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (21 bp):
TTTCCCAACGTCGCAACATCT
Found at i:61142695 original size:22 final size:25
Alignment explanation
Indices: 61142670--61142724 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 25
61142660 TAAAAAATGA
*
61142670 AAGAAAAAAATAGAA-G-AAGA-AG
1 AAGAAAAAAATAGAACGAAACAGAG
* *
61142692 AAGAACAAAGTAGAACGAAACAGAG
1 AAGAAAAAAATAGAACGAAACAGAG
61142717 AAGAAAAA
1 AAGAAAAA
61142725 GAGAGAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 13 0.50
23 1 0.04
24 3 0.12
25 9 0.35
ACGTcount: A:0.69, C:0.05, G:0.22, T:0.04
Consensus pattern (25 bp):
AAGAAAAAAATAGAACGAAACAGAG
Found at i:61148260 original size:29 final size:30
Alignment explanation
Indices: 61148213--61148269 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
61148203 TTGATTTAAT
* *
61148213 GTGCAATTGTATACATG-AACTTTAATTTG
1 GTGCAATTGTACACATGAAACTCTAATTTG
*
61148242 GTGCAATTGTACACGTGAAACTCTAATT
1 GTGCAATTGTACACATGAAACTCTAATT
61148270 GTTGTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (30 bp):
GTGCAATTGTACACATGAAACTCTAATTTG
Found at i:61148477 original size:30 final size:29
Alignment explanation
Indices: 61148443--61148522 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
61148433 GAATCGAATC
* *
61148443 AAATCAAAATTTCATTTATAAAATTGCACA
1 AAATC-AAAGTTCATGTATAAAATTGCACA
*
61148473 AAATCAAAGTTCATGTATACAATTGCACA
1 AAATCAAAGTTCATGTATAAAATTGCACA
* *
61148502 TTAAACCATAGTTCATGTATA
1 --AAATCAAAGTTCATGTATA
61148523 GTTTTGAGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.49
30 5 0.12
31 17 0.40
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATCAAAGTTCATGTATAAAATTGCACA
Found at i:61149405 original size:13 final size:13
Alignment explanation
Indices: 61149387--61149411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61149377 ATTTACAAGA
61149387 TTACATAATCAAT
1 TTACATAATCAAT
61149400 TTACATAATCAA
1 TTACATAATCAA
61149412 ATCTAATCTA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:61158005 original size:20 final size:20
Alignment explanation
Indices: 61157980--61158019 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
61157970 TCTTTCAATT
* *
61157980 TTAAAATGAAATTTTTAAAA
1 TTAAAAAGAAATATTTAAAA
*
61158000 TTAAAAAGATATATTTAAAA
1 TTAAAAAGAAATATTTAAAA
61158020 GATCATGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAAAAGAAATATTTAAAA
Found at i:61167940 original size:21 final size:23
Alignment explanation
Indices: 61167910--61167951 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
61167900 ATTTAAAAAA
61167910 TTTTATAAAATACATA-AATATT
1 TTTTATAAAATACATATAATATT
*
61167932 TTTTA-AAAATATATATAATA
1 TTTTATAAAATACATATAATA
61167952 ATAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTTATAAAATACATATAATATT
Found at i:61167969 original size:25 final size:24
Alignment explanation
Indices: 61167941--61168012 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
61167931 TTTTTAAAAA
*
61167941 TATATATAATAATAAATTAAAAT-TT
1 TATAT-TAATAATAAA-TAAAATAAT
*
61167966 TATATTAATACTAAATAAATATAAT
1 TATATTAATAATAAATAAA-ATAAT
61167991 TATATTAAT-ATAAATAAAATAA
1 TATATTAATAATAAATAAAATAA
61168013 AAATCCTCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.19
24 19 0.45
25 15 0.36
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATTAATAATAAATAAAATAAT
Found at i:61171705 original size:251 final size:244
Alignment explanation
Indices: 61171363--61171865 Score: 615
Period size: 251 Copynumber: 2.0 Consensus size: 244
61171353 AAAAAAAGAG
* * *
61171363 AAAAACGTAATTAAAGAAGAAAAAAAAGGAAGTAATAAAATGAAAATGAAAAATCTTACTTAAAC
1 AAAAACATAATTAAAG-AGAAAAAAAAGCAAGTAATAAAATGAAAAAGAAAAATCTTACTTAAAC
*
61171428 TCGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAATATAAACCTTAAACAAATGCATT
65 TCGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAAT--A--
* * * *
61171493 TGATAGCTTCCAAGCATAAAT-TGCT-GAATACCAAGCTAAGTACTAAATTACTTAAGTAACTCA
126 T-AT---TT--AAACA-AAATCTGCTAG-ATACCAAGCTAAGTACTAAACTACTCAAGTAACTAA
* *
61171556 TATTTTAGGGGA-AAAA-TAATTCAGCAATTAGATTTCAAAATCAAAGAAATCTATCAAACA
183 CATTTTAGGGGACAAAAGTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
* *
61171616 CAAAAACATAATTAAAG-GGAAAAAAA-CAAGTAATAAATTGAAAAAGAAAAATCTTA-TATAAA
1 -AAAAACATAATTAAAGAGAAAAAAAAGCAAGTAATAAAATGAAAAAGAAAAATCTTACT-TAAA
* * * * * *
61171678 CTCGGATATATGTTAGCCATTTTTTCTTAGCAACCAAACAGACGATAAACCTTAACCAAATATAT
64 CTCGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATATAT
* * **
61171743 TTAAACAAAATCTGGTAGTTGTCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAGGGG
129 TTAAACAAAATCTGCTAGATACCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAGGGG
61171808 ACAAAAGTTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
194 ACAAAAG-TAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
61171860 AAAAAC
1 AAAAAC
61171866 CAAGACGTAA
Statistics
Matches: 221, Mismatches: 22, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
240 4 0.02
241 48 0.22
242 5 0.02
243 8 0.04
244 43 0.19
246 2 0.01
247 1 0.00
249 1 0.00
250 1 0.00
251 85 0.38
252 8 0.04
254 15 0.07
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (244 bp):
AAAAACATAATTAAAGAGAAAAAAAAGCAAGTAATAAAATGAAAAAGAAAAATCTTACTTAAACT
CGAATATATCTCAGCCATATTTTCTTAGCAACCAAACAGAAGATAAACCTTAAACAAATATATTT
AAACAAAATCTGCTAGATACCAAGCTAAGTACTAAACTACTCAAGTAACTAACATTTTAGGGGAC
AAAAGTAATTCAGCAATTAGATTACAAAATCAAAGAAATCTATCAAACA
Found at i:61172525 original size:28 final size:26
Alignment explanation
Indices: 61172454--61172526 Score: 65
Period size: 28 Copynumber: 2.7 Consensus size: 26
61172444 CGATTTTTAC
*
61172454 ATTTTTTTTAATTTGTAATTTAAATTA
1 ATTTTTTTAAATTT-TAATTTAAATTA
** ** *
61172481 ATTTTTTTCCACATTAATTCTAGAATTT
1 ATTTTTTTAAATTTTAATT-TA-AATTA
61172509 ATTTTTTTAAATTTTAAT
1 ATTTTTTTAAATTTTAAT
61172527 CTTTAAAATT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
26 5 0.14
27 12 0.34
28 18 0.51
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTTTTTTAAATTTTAATTTAAATTA
Found at i:61177927 original size:91 final size:91
Alignment explanation
Indices: 61177650--61177908 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
61177640 TTAAATGTAT
61177650 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
61177715 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
61177741 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
61177806 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
61177832 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
61177897 GAAAATTTATTA
66 GAAAATTTATTA
61177909 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:61178270 original size:39 final size:40
Alignment explanation
Indices: 61178227--61178331 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
61178217 TTCTATTATG
61178227 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
61178266 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
61178311 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
61178332 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:61178325 original size:45 final size:44
Alignment explanation
Indices: 61178225--61178334 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
61178215 TTTTCTATTA
61178225 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
61178264 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
61178309 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
61178335 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:61178334 original size:16 final size:16
Alignment explanation
Indices: 61178313--61178350 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
61178303 TTGATTTGCT
*
61178313 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
61178329 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
61178345 AATACA
1 ATTACA
61178351 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:61183197 original size:19 final size:19
Alignment explanation
Indices: 61183166--61183211 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
61183156 GGTCTGGTTA
*
61183166 AAAAATT-ATTAAAATTTC
1 AAAAATTAATAAAAATTTC
61183184 AAAAATATAATAAAAATTTC
1 AAAAAT-TAATAAAAATTTC
61183204 AATAAATT
1 AA-AAATT
61183212 CTGGTTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 1 0.04
20 13 0.54
21 4 0.17
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTAATAAAAATTTC
Found at i:61188030 original size:29 final size:31
Alignment explanation
Indices: 61187993--61188053 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
61187983 TATGTTATAA
61187993 AATTATTATAT-TAATTATA-TATATTAAAT
1 AATTATTATATATAATTATACTATATTAAAT
*
61188022 AATTATTATATATATTTATACTTATATTAAAT
1 AATTATTATATATAATTATAC-TATATTAAAT
61188054 CACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.39
30 7 0.25
32 10 0.36
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
AATTATTATATATAATTATACTATATTAAAT
Found at i:61188050 original size:24 final size:21
Alignment explanation
Indices: 61187997--61188037 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
61187987 TTATAAAATT
61187997 ATTATATTAATTATATATATTA
1 ATTATATT-ATTATATATATTA
*
61188019 AATA-ATTATTATATATATT
1 ATTATATTATTATATATATT
61188038 TATACTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 3 0.17
22 3 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATATTATTATATATATTA
Found at i:61196031 original size:11 final size:11
Alignment explanation
Indices: 61196012--61196042 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
61196002 TAATTAGTTT
61196012 AATATAATAAC
1 AATATAATAAC
*
61196023 AATAAAATAAC
1 AATATAATAAC
61196034 AATATAATA
1 AATATAATA
61196043 TTACTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (11 bp):
AATATAATAAC
Found at i:61196181 original size:14 final size:13
Alignment explanation
Indices: 61196155--61196205 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
61196145 ATTTATTTGA
61196155 AATATAATAATAT
1 AATATAATAATAT
61196168 AATATAATTAATAT
1 AATATAA-TAATAT
* *
61196182 AAT-TTACAATAT
1 AATATAATAATAT
*
61196194 AATAAAATAATA
1 AATATAATAATA
61196206 ATATACTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:61215401 original size:31 final size:32
Alignment explanation
Indices: 61215352--61215419 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
61215342 CGCGTGAACA
* * *
61215352 ATAGTAAAAGGATCAAAGTGAGAA-TTTCATT
1 ATAGTAAAAGGATAAAAGTGAAAATTTTCACT
* *
61215383 ATAGTACAAGGGTAAAAGTGAAAATTTTCACT
1 ATAGTAAAAGGATAAAAGTGAAAATTTTCACT
61215415 ATAGT
1 ATAGT
61215420 GTATATCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 20 0.65
32 11 0.35
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.29
Consensus pattern (32 bp):
ATAGTAAAAGGATAAAAGTGAAAATTTTCACT
Found at i:61218520 original size:26 final size:26
Alignment explanation
Indices: 61218466--61218521 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
61218456 TTTTGTCGAG
*
61218466 AATT-CAAATGCTTAAAAAGACAACG
1 AATTACAAATGCTTAAAAAGACAACA
* * *
61218491 AATTACAAATGCTTGAAAAGATAATA
1 AATTACAAATGCTTAAAAAGACAACA
61218517 AATTA
1 AATTA
61218522 TAAAATAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (26 bp):
AATTACAAATGCTTAAAAAGACAACA
Found at i:61224182 original size:2 final size:2
Alignment explanation
Indices: 61224175--61224219 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
61224165 ATAAATTTAG
61224175 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
61224217 CT C
1 CT C
61224220 ACATTTAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:61244721 original size:195 final size:194
Alignment explanation
Indices: 61244470--61244844 Score: 515
Period size: 195 Copynumber: 1.9 Consensus size: 194
61244460 TGGGAAAAAA
* * **
61244470 AAAACAATGTAATTAATTGCTTAATTTTCCTGCAGTTTCTTTTCTCAGTAACCAAACACAAATTG
1 AAAACAATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAAG
* *
61244535 AATCAAACAAATCTAAG-AACAAGAAA-CCATCCTTTCCA-CACCAATTACTAG-AAAACCAAAT
66 AA--AAACAAATCTAAGAAACAA-AAAGCCATCCTTACCACCA-CAATAACTAGCAAAACCAAAT
61244596 TATGCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCA
127 TATGCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCA
61244661 GTT
192 GTT
* *
61244664 AAAACTAATGTAATTAATTGATTAATTTTCCTGGAGTTCCTTTTCTCAGTGACCAAACACAAAAA
1 AAAAC-AATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAA
* * * *
61244729 GAAAAACAAATTTGAGAAACAAAAAGCCATTCTTACCACCACAATAACTAGCAAAACCAAATTCT
65 GAAAAACAAATCTAAGAAACAAAAAGCCATCCTTACCACCACAATAACTAGCAAAACCAAATTAT
** * * **
61244794 GCATTTAGTATTTCATTATCCAACGAAAAATTTTAACTTTCAAAATATAAA
130 GCATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAA
61244845 ACAAATAAAA
Statistics
Matches: 158, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
193 14 0.09
194 29 0.18
195 115 0.73
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (194 bp):
AAAACAATGTAATTAATTGATTAATTTTCCTGCAGTTCCTTTTCTCAGTAACCAAACACAAAAAG
AAAAACAAATCTAAGAAACAAAAAGCCATCCTTACCACCACAATAACTAGCAAAACCAAATTATG
CATTTAACACTTCATTATCCAACCAAAAATTGGAACTTTCAAAATATAAAGTCATAAATCAGTT
Found at i:61247727 original size:29 final size:29
Alignment explanation
Indices: 61247695--61247756 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
61247685 ATTAAAATGT
*
61247695 TATAAAAAATAAATTATTTATCGAAATAA
1 TATAAAAAATAAATTATTTATCAAAATAA
**** *
61247724 TATAACTCTTAAATTATTTATCAAAATAT
1 TATAAAAAATAAATTATTTATCAAAATAA
61247753 TATA
1 TATA
61247757 TTTTTGATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (29 bp):
TATAAAAAATAAATTATTTATCAAAATAA
Found at i:61249235 original size:79 final size:79
Alignment explanation
Indices: 61249127--61249282 Score: 217
Period size: 79 Copynumber: 2.0 Consensus size: 79
61249117 GCTTACATTT
* * *
61249127 TCACTTTTATTATTATTATTTTCTTGAAATAATGTGTTTGGTTGCCGAGAAACTGAAGTGAACAG
1 TCACGTTTATTATTATTATTTTCTTGAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAACAG
61249192 TTTAAAAGAGAATC
66 TTTAAAAGAGAATC
* * * *
61249206 TCACGTTTATTTTTATT-TTTAT-TTGGAAATACTGTGTTTGGTTGCATAGAAACTGAAGTAAAT
1 TCACGTTTATTATTATTATTT-TCTT-GAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAAC
61249269 AGTTTAAAAGAGAA
64 AGTTTAAAAGAGAA
61249283 AATGAATACT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 5 0.07
79 63 0.93
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (79 bp):
TCACGTTTATTATTATTATTTTCTTGAAATAATGTGTTTGGTTGCAGAGAAACTGAAGTAAACAG
TTTAAAAGAGAATC
Found at i:61260228 original size:57 final size:57
Alignment explanation
Indices: 61260153--61260317 Score: 231
Period size: 57 Copynumber: 2.9 Consensus size: 57
61260143 GCCTGGAATA
* *
61260153 AAAAAAAGTTCAGTCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGATG
1 AAAAAAA-TTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
* *
61260211 AAACAAATTCAGGCCCCAATATGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
1 AAAAAAATTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
* * * * *
61260268 AAAAAAATTCAGGCCCCAATGTAGGGAAAGTTGCCAAGTTCAGGCCCTAA
1 AAAAAAATTCAGGCCCCAATGT-GAGAAAATTGCTAAGTTTAGGACCTAA
61260318 AAAGTAATTT
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
57 67 0.71
58 28 0.29
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (57 bp):
AAAAAAATTCAGGCCCCAATGTGAGAAAATTGCTAAGTTTAGGACCTAACTTGGACG
Found at i:61267962 original size:24 final size:23
Alignment explanation
Indices: 61267917--61267962 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
61267907 CTTCCTTTTT
* *
61267917 TTTTTATTTGCTTCTTTTTGGTA
1 TTTTTATTTGCTTCATTGTGGTA
*
61267940 TTTTTGTTTGCTTTCATTGTGGT
1 TTTTTATTTGC-TTCATTGTGGT
61267963 TGTGGTGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.07, C:0.09, G:0.17, T:0.67
Consensus pattern (23 bp):
TTTTTATTTGCTTCATTGTGGTA
Found at i:61275802 original size:28 final size:27
Alignment explanation
Indices: 61275744--61275815 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 27
61275734 AAAAAATAGA
*
61275744 ATCAATAATGTTATAAATCATATTATTAT
1 ATCAAT-ATGATATAAA-CATATTATTAT
61275773 ATCAATATGATATAAA-ATATTATATAAT
1 ATCAATATGATATAAACATATTAT-T-AT
*
61275801 ATGAATATGAATATA
1 ATCAATATG-ATATA
61275816 TTATACAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 7 0.18
27 1 0.03
28 19 0.50
29 11 0.29
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (27 bp):
ATCAATATGATATAAACATATTATTAT
Found at i:61276473 original size:10 final size:11
Alignment explanation
Indices: 61276446--61276471 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61276436 AAAAATCAGA
61276446 AAAAATATTTT
1 AAAAATATTTT
61276457 AAAAATATTTT
1 AAAAATATTTT
61276468 AAAA
1 AAAA
61276472 TAATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:61283307 original size:22 final size:22
Alignment explanation
Indices: 61283279--61283323 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
61283269 ATGAAGTTTG
61283279 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
61283301 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
61283323 T
1 T
61283324 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:61287085 original size:22 final size:22
Alignment explanation
Indices: 61287057--61287101 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
61287047 AGGGGGAGTG
61287057 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
61287079 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
61287101 T
1 T
61287102 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:61297065 original size:11 final size:11
Alignment explanation
Indices: 61297049--61297073 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61297039 TATTTATAAA
61297049 AAATTAATTTT
1 AAATTAATTTT
61297060 AAATTAATTTT
1 AAATTAATTTT
61297071 AAA
1 AAA
61297074 ACCGATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTAATTTT
Found at i:61300148 original size:33 final size:32
Alignment explanation
Indices: 61300077--61300148 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
61300067 ATTAATTCAA
**
61300077 ATTTATTAGATATTAAATATTAAATATTTTTT
1 ATTTATTAGATATTAAATATTAAATATTTAAT
*
61300109 CATTTATTAGAATTTTAAATATATAAATATTTAAT
1 -ATTTATTAG-ATATTAAATAT-TAAATATTTAAT
61300144 -TTTAT
1 ATTTAT
61300149 ATAATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 14 0.41
34 10 0.29
35 10 0.29
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (32 bp):
ATTTATTAGATATTAAATATTAAATATTTAAT
Found at i:61300699 original size:16 final size:17
Alignment explanation
Indices: 61300678--61300709 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
61300668 TCTTTCACTT
61300678 TATTTATTT-ATCCATA
1 TATTTATTTAATCCATA
61300694 TATTTATTTAATCCAT
1 TATTTATTTAATCCAT
61300710 CCCCCCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTATTTAATCCATA
Found at i:61301645 original size:233 final size:235
Alignment explanation
Indices: 61301102--61301813 Score: 993
Period size: 233 Copynumber: 3.0 Consensus size: 235
61301092 GGTCACTTGA
* *
61301102 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTTCTCGGAATTTCTGCATTTCCTCGTCTGGG
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGT-TGGG
* ** * * * *
61301167 TCATCTCCAATTTTTGATAGCTTTTATGTTTTGTTTTTCGTTCATAATGAGTTCTCTTCTACTCC
65 TCATCTCCAATATTTGATATATTTTATG---T-TTTTT--TTCAT--TG-GCTATATTCTGCTCC
* * * *
61301232 TTTGTTTTGTTT-AATCATTAATTTTGATATTTTGTTTAAGATGATTG-ATTTTCTAATTAAATT
121 TTTGTTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATT
* * *
61301295 GGCTACACTGCATTTGATAATTCACTCTGATTTACTTGTTTATTATTACT
186 GGCTACACTGCATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
* *
61301345 GATTTTCTCTGTTTTTTCTTATCTCTTGTTTGTTTCCTTGGAATTTCTGCATTTTCTCGTTGGGT
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
61301410 CATCTCCAATATTTGATATATTTTATGTTTTTTTTCATTGGCT-TATTCTGCTCCTTTGTTTTTT
66 CATCTCCAATATTTGATATATTTTATGTTTTTTTTCATTGGCTATATTCTGCTCCTTTGTTTTTT
* *
61301474 TTAAATCATTAATTTGGATATGTTGTTTAAGATTACTGAATTTTCTAATTAAATTGGCTACATTG
131 TTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTGGCTACACTG
61301539 CATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
196 CATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
61301579 GATTTTCTCTG-TTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
1 GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
61301643 CATCTCCAATATTTGATATATTTTAAT-TTTTTTTTCATTGGCTATATTCTGCTCCTTTGGTTTG
66 CATCTCCAATATTTGATATATTTT-ATGTTTTTTTTCATTGGCTATATTCTGCTCC-----TTTG
*
61301707 TTTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTAGC
125 -TTTTTTTTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTGGC
* ** * **
61301772 TATACTGTGTTTGATAATTTGCTCTGATTTATAAGTTTATGA
189 TACACTGCATTTGATAATTTACTCTGATTTATTTGTTTATGA
61301814 ATGGATTGCT
Statistics
Matches: 430, Mismatches: 29, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
232 20 0.05
233 125 0.29
234 88 0.20
236 5 0.01
238 5 0.01
239 5 0.01
240 97 0.23
242 29 0.07
243 56 0.13
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.54
Consensus pattern (235 bp):
GATTTTCTCTGATTTTTCTTATCTCTTGTTTGTTTCCTCGGAATTTCTGCATTTTCTCGTTGGGT
CATCTCCAATATTTGATATATTTTATGTTTTTTTTCATTGGCTATATTCTGCTCCTTTGTTTTTT
TTAAATCATTAATTTGGATATGTTGTTTAAGATTATTGAATTTTCTAATTAAATTGGCTACACTG
CATTTGATAATTTACTCTGATTTATTTGTTTATGATTACT
Found at i:61303175 original size:18 final size:18
Alignment explanation
Indices: 61303152--61303187 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
61303142 AGAAAGTGTG
61303152 GTTATTATACAAGGAAAT
1 GTTATTATACAAGGAAAT
61303170 GTTATTATACAAGGAAAT
1 GTTATTATACAAGGAAAT
61303188 TTCAGACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (18 bp):
GTTATTATACAAGGAAAT
Found at i:61307815 original size:104 final size:104
Alignment explanation
Indices: 61307426--61308039 Score: 521
Period size: 104 Copynumber: 5.8 Consensus size: 104
61307416 TCATTAACTT
* * *
61307426 TTTTGGCATGTCAAAATTCGTAGTATCT-ATATAGTAGTTGATGATTTCATTTGAACTATAGTTT
1 TTTTGGCATGTCGAAATTCATAGTAT-TGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTT
* * * * *
61307490 GATTTGTAAAAGCTGAA-CAATGTATACACGAATTATTAAA
65 GATTCGTAAAACCTGAATC-ATGGATACATGAATTAGTAAA
61307530 TTTTGGCAT-TCCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTT
1 TTTTGGCATGT-CGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTT
* ** * * *
61307594 GGTTCGTAAAACCTCG-ATCATGGATATTTTG-CTTGGTAAC
65 GATTCGTAAAACCT-GAATCATGGATA-CATGAATTAGTAAA
** * * * * * ** * *
61307634 TTTTCCTCCTAT-TAAGGCAAACTACA-A-TATTGGTTTAATAGTAGATGATTTGGTTTCAACTG
1 TTTT--GGC-ATGT--CG-AAA-TTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTA
* * * *
61307696 TAGTTTGATTTGTAAAACCTGAATCATGGATACACGAATCATTAAA
59 TAGTTTGATTCGTAAAACCTGAATCATGGATACATGAATTAGTAAA
*
61307742 TTTTGGCATGTTGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTG
1 TTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTG
* * ** *** **
61307807 GTTCGTAAAACCTCAATCATGGATATTTTTCTCGGTAACTA
66 ATTCGTAAAACCTGAATCATGGATACATGAATTAGTAA--A
* * * * * ** *
61307848 TTCCT-CCTAT-TACGCAAATT-ACAGTATTGGTTTAGTAGTTGGTGATTTGGTTTGAACTGTAG
1 TT-TTGGC-ATGT-CG-AAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAG
*
61307910 TTTGATTCGTAAAACCTGAATCATGGATACATGAATTACTAAA
62 TTTGATTCGTAAAACCTGAATCATGGATACATGAATTAGTAAA
* * *
61307953 TTTTGGCATGTCGAAATTTATAGCATTGGTATAGAAGTTGATGATTTCATTTGAACTATAGTTTG
1 TTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTG
*
61308018 GTTCGTAAAACCTGAATCATGG
66 ATTCGTAAAACCTGAATCATGG
61308040 TTATTTTGCT
Statistics
Matches: 397, Mismatches: 88, Indels: 50
0.74 0.16 0.09
Matches are distributed among these distances:
102 3 0.01
103 11 0.03
104 211 0.53
105 10 0.03
106 8 0.02
107 77 0.19
108 70 0.18
109 4 0.01
110 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (104 bp):
TTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACTATAGTTTG
ATTCGTAAAACCTGAATCATGGATACATGAATTAGTAAA
Found at i:61307832 original size:212 final size:212
Alignment explanation
Indices: 61307457--61308148 Score: 1009
Period size: 211 Copynumber: 3.3 Consensus size: 212
61307447 AGTATCTATA
* * * *
61307457 TAGTAGTTGATGATTTCATTTGAACTATAGTTTGATTTGTAAAAGCTGAA-CAATGTATACACGA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATC-ATGGATACACGA
61307521 ATTATTAAATTTTGGCAT-TCCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAA
65 ATTATTAAATTTTGGCATGT-CGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAA
* *
61307585 CTATAGTTTGGTTCGTAAAACCTCGATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAAG
129 CTATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAAC
* *
61307650 GCAAACTACAATATTGGTT
194 GCAAATTACAGTATTGGTT
* * * * * *
61307669 TAATAGTAGATGATTTGGTTTCAACTGTAGTTTGATTTGTAAAACCTGAATCATGGATACACGAA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
* *
61307734 TCATTAAATTTTGGCATGTTGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
66 TTATTAAATTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
* * *
61307799 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTTCTCGGTAACTATTCCTCCTATT-ACGC
131 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
61307863 AAATTACAGTATTGGTT
196 AAATTACAGTATTGGTT
* * * *
61307880 TAGTAGTTGGTGATTTGGTTTGAACTGTAGTTTGATTCGTAAAACCTGAATCATGGATACATGAA
1 TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
* * * *
61307945 TTACTAAATTTTGGCATGTCGAAATTTATAGCATTGGTATAGAAGTTGATGATTTCATTTGAACT
66 TTATTAAATTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
* * *
61308010 ATAGTTTGGTTCGTAAAACCTGAATCATGGTTATTTTGCTTGGTAACTTTT-CTCCTATTAACTC
131 ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
* *
61308074 AAATTACAGTATAGGTA
196 AAATTACAGTATTGGTT
* *
61308091 TAGTAGTTGATGATTTCGTTT--ACTTATAGTTTGGTTCATAAAACCTGAATCATGGATA
1 TAGTAGTTGATGATTTCGTTTGAAC-TATAGTTTGATTCGTAAAACCTGAATCATGGATA
61308149 GTTACTCAGT
Statistics
Matches: 434, Mismatches: 42, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
209 2 0.00
210 39 0.09
211 219 0.50
212 172 0.40
213 2 0.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (212 bp):
TAGTAGTTGATGATTTCGTTTGAACTATAGTTTGATTCGTAAAACCTGAATCATGGATACACGAA
TTATTAAATTTTGGCATGTCGAAATTCATAGTATTGGTATAGTAGTTGATGATTTCATTTGAACT
ATAGTTTGGTTCGTAAAACCTCAATCATGGATATTTTGCTTGGTAACTTTTCCTCCTATTAACGC
AAATTACAGTATTGGTT
Found at i:61309959 original size:30 final size:31
Alignment explanation
Indices: 61309900--61309959 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
61309890 GTCAAACAAG
*
61309900 GACCAAAATCTTTTGAAAGTGCTTGAATAAC
1 GACCAAAATCTTTTGAAAGTGCTTAAATAAC
*
61309931 GACCAAATAT-TTTTG-AAGTGTTTAAATAA
1 GACCAAA-ATCTTTTGAAAGTGCTTAAATAA
61309960 AGGCTTCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 12 0.46
31 12 0.46
32 2 0.08
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (31 bp):
GACCAAAATCTTTTGAAAGTGCTTAAATAAC
Found at i:61311213 original size:4 final size:4
Alignment explanation
Indices: 61311204--61311243 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
61311194 TGAACATACC
61311204 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
61311244 ATTAATAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:61312622 original size:7 final size:7
Alignment explanation
Indices: 61312610--61312651 Score: 75
Period size: 7 Copynumber: 5.9 Consensus size: 7
61312600 TGAACCCTAA
61312610 AAAAAAT
1 AAAAAAT
61312617 AAAAAAT
1 AAAAAAT
61312624 AAAAAAAT
1 -AAAAAAT
61312632 AAAAAAT
1 AAAAAAT
61312639 AAAAAAT
1 AAAAAAT
61312646 AAAAAA
1 AAAAAA
61312652 AATGTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:61312635 original size:22 final size:22
Alignment explanation
Indices: 61312610--61312652 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
61312600 TGAACCCTAA
61312610 AAAAAATAAAAAATAAAAAAAT
1 AAAAAATAAAAAATAAAAAAAT
61312632 AAAAAATAAAAAATAAAAAAA
1 AAAAAATAAAAAATAAAAAAA
61312653 ATGTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (22 bp):
AAAAAATAAAAAATAAAAAAAT
Found at i:61312652 original size:15 final size:15
Alignment explanation
Indices: 61312609--61312651 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
61312599 CTGAACCCTA
61312609 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
61312624 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
61312639 -AAAAAATAAAAAA
1 AAAAAAATAAAAAA
61312652 AATGTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:61324836 original size:23 final size:23
Alignment explanation
Indices: 61324810--61324853 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
61324800 GTAATTATAA
61324810 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
61324833 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
61324854 ATACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:61332863 original size:23 final size:23
Alignment explanation
Indices: 61332830--61332873 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
61332820 GTAATTATAA
61332830 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
61332853 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
61332874 ATACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:61334662 original size:25 final size:25
Alignment explanation
Indices: 61334624--61334672 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
61334614 AAGAAATTTA
61334624 AATTATAAATAATTTTAAAAAAAAC
1 AATTATAAATAATTTTAAAAAAAAC
*
61334649 AATT-TAAATGAATTTTAAATAAAA
1 AATTATAAAT-AATTTTAAAAAAAA
61334673 TTTGTTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
AATTATAAATAATTTTAAAAAAAAC
Found at i:61335596 original size:2 final size:2
Alignment explanation
Indices: 61335589--61335617 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61335579 CATTACATGC
61335589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61335618 ACAAATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61338457 original size:14 final size:15
Alignment explanation
Indices: 61338440--61338478 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
61338430 AAAAATAATA
61338440 TAATAAACAAAA-CC
1 TAATAAACAAAAGCC
* *
61338454 TAATAAATAAAAGTC
1 TAATAAACAAAAGCC
61338469 TAATAAACAA
1 TAATAAACAA
61338479 TTCAGTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.64, C:0.13, G:0.03, T:0.21
Consensus pattern (15 bp):
TAATAAACAAAAGCC
Found at i:61344658 original size:83 final size:83
Alignment explanation
Indices: 61344571--61344728 Score: 271
Period size: 83 Copynumber: 1.9 Consensus size: 83
61344561 GACCCCGCAA
* * * *
61344571 AAAATGATAAAAATTTGATTTAATTCTTTAAAATTTATAAAGATATAGGCTATTAAAGTGGTAAA
1 AAAATGATAAAAATTTGATATAATTCTATAAAATTTATAAAGATATAGGCTATTAAAATAGTAAA
61344636 ATTATATTTTGGCCTCCC
66 ATTATATTTTGGCCTCCC
*
61344654 AAAATGATAAAAATTTGATATAATTCTATAAAATTTATAAAGATATAGTCTATTAAAATAGTAAA
1 AAAATGATAAAAATTTGATATAATTCTATAAAATTTATAAAGATATAGGCTATTAAAATAGTAAA
61344719 ATTATATTTT
66 ATTATATTTT
61344729 TACTATCATA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 70 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (83 bp):
AAAATGATAAAAATTTGATATAATTCTATAAAATTTATAAAGATATAGGCTATTAAAATAGTAAA
ATTATATTTTGGCCTCCC
Found at i:61348076 original size:21 final size:21
Alignment explanation
Indices: 61348050--61348090 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61348040 AGACGAGCAA
* *
61348050 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
61348071 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
61348091 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:61353472 original size:14 final size:15
Alignment explanation
Indices: 61353455--61353494 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
61353445 TAAATTCATT
61353455 CTAATAAACAAAA-C
1 CTAATAAACAAAAGC
* *
61353469 CTAATAAATAAAAGT
1 CTAATAAACAAAAGC
61353484 CTAATAAACAA
1 CTAATAAACAA
61353495 TTCAGTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.62, C:0.15, G:0.03, T:0.20
Consensus pattern (15 bp):
CTAATAAACAAAAGC
Found at i:61354848 original size:20 final size:20
Alignment explanation
Indices: 61354801--61354840 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
61354791 TTATATTATT
* *
61354801 TTTATGTATTATTTTATTTA
1 TTTATTTATTATTTCATTTA
*
61354821 TTTATTTATTATTTCCTTTA
1 TTTATTTATTATTTCATTTA
61354841 CTTTTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTATTTATTATTTCATTTA
Found at i:61354946 original size:4 final size:4
Alignment explanation
Indices: 61354926--61354967 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
61354916 CTTTATTATC
*
61354926 TTTA -TTA TTTCA TTTA TTTA TTTA TTTA TTTA TTTA TGTA TT
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
61354968 ACCCTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:61356086 original size:13 final size:14
Alignment explanation
Indices: 61356062--61356090 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61356052 CATGTTTACA
61356062 AAATATGTATATAT
1 AAATATGTATATAT
61356076 AAATATG-ATATAT
1 AAATATGTATATAT
61356089 AA
1 AA
61356091 GTGAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
AAATATGTATATAT
Found at i:61356307 original size:29 final size:30
Alignment explanation
Indices: 61356244--61356315 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
61356234 AAAAATATAA
61356244 ATACAATATA-TT-TGTAAATTATATAAAT
1 ATACAATATATTTATGTAAATTATATAAAT
*
61356272 ATA-AATATATTTATGTATA-TATA-AATAT
1 ATACAATATATTTATGTAAATTATATAA-AT
61356300 ATACAATATATTTATG
1 ATACAATATATTTATG
61356316 CTTCATCTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 8 0.21
28 14 0.36
29 17 0.44
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (30 bp):
ATACAATATATTTATGTAAATTATATAAAT
Found at i:61358966 original size:9 final size:9
Alignment explanation
Indices: 61358954--61358983 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
61358944 GATGAACATA
61358954 AAATTTAGT
1 AAATTTAGT
61358963 AAATTTAGT
1 AAATTTAGT
*
61358972 AAATTTACT
1 AAATTTAGT
61358981 AAA
1 AAA
61358984 CATAACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (9 bp):
AAATTTAGT
Found at i:61359421 original size:27 final size:27
Alignment explanation
Indices: 61359383--61359444 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
61359373 TTTTAGTCCT
**
61359383 GTGCCGCCTCTGGTAAAGGCACCTTTG
1 GTGCCGCCTCTGCCAAAGGCACCTTTG
*
61359410 GTGCCGCCTCTGCCACAGGCACCTTTG
1 GTGCCGCCTCTGCCAAAGGCACCTTTG
61359437 GTGCCGCC
1 GTGCCGCC
61359445 CGTGGCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.11, C:0.37, G:0.29, T:0.23
Consensus pattern (27 bp):
GTGCCGCCTCTGCCAAAGGCACCTTTG
Found at i:61359881 original size:32 final size:32
Alignment explanation
Indices: 61359847--61359910 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
61359837 GAATTATATA
* *
61359847 TTTTGATTTAAATTTATTATGATATTTTTTTAT
1 TTTTGACTTAAATTT-TTATGATAGTTTTTTAT
* *
61359880 TTTTTACTTGAATTTTTATGATAGTTTTTTA
1 TTTTGACTTAAATTTTTATGATAGTTTTTTA
61359911 CTTAGCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (32 bp):
TTTTGACTTAAATTTTTATGATAGTTTTTTAT
Found at i:61360630 original size:33 final size:33
Alignment explanation
Indices: 61360593--61360659 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
61360583 TGGTTGGGAC
61360593 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
1 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
*
61360626 TAAGGAAATAATTATCCAAATGTCCCTTCATGA
1 TAAGGAAATAATTATCCAAATGCCCCTTCATGA
61360659 T
1 T
61360660 CCATGTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
TAAGGAAATAATTATCCAAATGCCCCTTCATGA
Found at i:61367646 original size:29 final size:29
Alignment explanation
Indices: 61367595--61367671 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
61367585 TAAAATAAAA
* * *
61367595 AATATTTTATAAATTTT-ATAATAATTTT
1 AATATTTTTTAATTTTTAAAAATAATTTT
*
61367623 AATGA-TTTTTAATTTTTAAAAATAGTTTT
1 AAT-ATTTTTTAATTTTTAAAAATAATTTT
*
61367652 TATATTTTTTAATTTTTAAA
1 AATATTTTTTAATTTTTAAA
61367672 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 14 0.34
29 27 0.66
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
AATATTTTTTAATTTTTAAAAATAATTTT
Found at i:61372967 original size:28 final size:26
Alignment explanation
Indices: 61372934--61372985 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
61372924 AATATTTTTT
*
61372934 ATATTTTTAATAGTGTTTTTTAATATAA
1 ATATTTTTAAT-GT-ATTTTTAATATAA
61372962 ATATTTTTAATGTATTTTTAATAT
1 ATATTTTTAATGTATTTTTAATAT
61372986 GTTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.43
27 2 0.09
28 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (26 bp):
ATATTTTTAATGTATTTTTAATATAA
Found at i:61376334 original size:31 final size:31
Alignment explanation
Indices: 61376288--61376349 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
61376278 ATCAACTTAA
* *
61376288 GAAAAAGTGTCAAGTTTAGGTACTAAATTAG
1 GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
*
61376319 GAAAAATTGTAAAGTTTAGGTACCAAATTAG
1 GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
61376350 ACCAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (31 bp):
GAAAAAGTGTAAAGTTTAGGTACCAAATTAG
Found at i:61377968 original size:19 final size:20
Alignment explanation
Indices: 61377946--61377996 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
61377936 TTAATAAATA
61377946 TATTTTTATTTTA-TTTTTT
1 TATTTTTATTTTACTTTTTT
* *
61377965 TA-TTTTAATATACTTTTTT
1 TATTTTTATTTTACTTTTTT
61377984 TATTTTTTATTTT
1 TA-TTTTTATTTT
61377997 TAAAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
21 7 0.28
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
TATTTTTATTTTACTTTTTT
Found at i:61377990 original size:26 final size:28
Alignment explanation
Indices: 61377954--61378010 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
61377944 TATATTTTTA
* *
61377954 TTTTATTTTTTTA-TTTTAATATACTTT
1 TTTTATTTTTTTATTTTTAAAATAATTT
61377981 TTTTA-TTTTTTATTTTTAAAATAATTT
1 TTTTATTTTTTTATTTTTAAAATAATTT
61378008 TTT
1 TTT
61378011 GGTGTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTTATTTTTTTATTTTTAAAATAATTT
Found at i:61379594 original size:3 final size:3
Alignment explanation
Indices: 61379586--61379621 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
61379576 AAATTTTAGA
61379586 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61379622 AATATTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:61381701 original size:33 final size:35
Alignment explanation
Indices: 61381663--61381759 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
61381653 ATGGTTATAT
61381663 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
61381696 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
*
61381731 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAA--TATATTTTATATATT
61381760 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
32 7 0.14
33 25 0.49
34 5 0.10
35 11 0.22
36 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:61382291 original size:6 final size:7
Alignment explanation
Indices: 61382266--61382290 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61382256 ATAATAAATA
61382266 TTTTTAT
1 TTTTTAT
61382273 TTTTTAT
1 TTTTTAT
61382280 TTTTTAT
1 TTTTTAT
61382287 TTTT
1 TTTT
61382291 AAAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:61382302 original size:20 final size:20
Alignment explanation
Indices: 61382279--61382351 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
61382269 TTATTTTTTA
61382279 TTTTTTATTTTTAAAATAAT
1 TTTTTTATTTTTAAAATAAT
* *
61382299 TTTTTTAATTTTAAACT-AT
1 TTTTTTATTTTTAAAATAAT
*
61382318 TTTTAAATT-TTTTTAAAATACT
1 TTTT---TTATTTTTAAAATAAT
*
61382340 TTTTTAATTTTT
1 TTTTTTATTTTT
61382352 TTAATTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 7 0.17
20 20 0.48
21 8 0.19
22 7 0.17
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTTATTTTTAAAATAAT
Found at i:61382323 original size:11 final size:10
Alignment explanation
Indices: 61382307--61382413 Score: 51
Period size: 11 Copynumber: 10.4 Consensus size: 10
61382297 ATTTTTTTAA
61382307 TTTTAAACTAT
1 TTTTAAA-TAT
*
61382318 TTTTAAATTT
1 TTTTAAATAT
61382328 TTTTAAAATACT
1 TTTT-AAATA-T
*
61382340 TTTTTAAT-T
1 TTTTAAATAT
*
61382349 TTTT-TA-AT
1 TTTTAAATAT
*
61382357 TTTAAAATAT
1 TTTTAAATAT
61382367 TTTTAAAATACTT
1 TTTT-AAATA--T
* *
61382380 TTTTAATTTT
1 TTTTAAATAT
*
61382390 TGTTTTAAT-T
1 T-TTTAAATAT
*
61382400 TTTAAAATAT
1 TTTTAAATAT
61382410 TTTT
1 TTTT
61382414 TTGGTATTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
8 5 0.07
9 11 0.15
10 19 0.26
11 24 0.33
12 8 0.11
13 5 0.07
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:61382343 original size:39 final size:39
Alignment explanation
Indices: 61382284--61382389 Score: 133
Period size: 39 Copynumber: 2.7 Consensus size: 39
61382274 TTTTATTTTT
* *
61382284 TATTTTTAAAATAATTTTTTTAATTTTAAACT-ATTTTTAAA
1 TATTTTTAAAAT-ACTTTTTTAATTTT--ACTAATTTTAAAA
* **
61382325 TTTTTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAA
1 TATTTTTAAAATACTTTTTTAATTTTACTAATTTTAAAA
61382364 TATTTTTAAAATACTTTTTTAATTTT
1 TATTTTTAAAATACTTTTTTAATTTT
61382390 TGTTTTAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.02
39 33 0.57
40 13 0.22
41 11 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (39 bp):
TATTTTTAAAATACTTTTTTAATTTTACTAATTTTAAAA
Found at i:61382348 original size:22 final size:21
Alignment explanation
Indices: 61382286--61382355 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
61382276 TTATTTTTTA
61382286 TTTTTAAAATAATTTTTTTAA--
1 TTTTTAAAAT-A-TTTTTTAATT
* *
61382307 -TTTTAAACTATTTTTAAATT
1 TTTTTAAAATATTTTTTAATT
61382327 TTTTTAAAATACTTTTTTAATT
1 TTTTTAAAATA-TTTTTTAATT
61382349 TTTTTAA
1 TTTTTAA
61382356 TTTTAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.17
19 1 0.02
20 8 0.20
21 9 0.22
22 16 0.39
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTAAAATATTTTTTAATT
Found at i:61385844 original size:22 final size:24
Alignment explanation
Indices: 61385801--61385852 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
61385791 TCTGCTATTC
*
61385801 TCTTATTCATTCTTTCTTCTTCCT
1 TCTTATTCATTATTTCTTCTTCCT
*
61385825 TTTTATTC-TTATTT-TTCTTCCT
1 TCTTATTCATTATTTCTTCTTCCT
61385847 TCTTAT
1 TCTTAT
61385853 CTGCTGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.52
23 5 0.20
24 7 0.28
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTATTCATTATTTCTTCTTCCT
Found at i:61387852 original size:82 final size:83
Alignment explanation
Indices: 61387756--61387937 Score: 269
Period size: 82 Copynumber: 2.2 Consensus size: 83
61387746 ATAATTTTAA
* *
61387756 ATTAATAATAGTAAAATTACACTTTGACCT-CCAAAATGATAAAAATTTAATTTAATTCTTTAAA
1 ATTAA-AATAGTAAAATTACACTTTGACCTCCCAAAATGATAAAAATTTAATATAATCCTTTAAA
61387820 ATTTATAAAGATATAGGCT
65 ATTTATAAAGATATAGGCT
* * * *
61387839 ATTAAAATGGTAAAA-TGCACTTTGGCCTCCCAAAATGATAAAAATTTGATATAATCCTTTAAAA
1 ATTAAAATAGTAAAATTACACTTTGACCTCCCAAAATGATAAAAATTTAATATAATCCTTTAAAA
* *
61387903 TTTATAAAGATATTGTCT
66 TTTATAAAGATATAGGCT
61387921 ATTAAAATAGTAAAATT
1 ATTAAAATAGTAAAATT
61387938 GCATTCTTAC
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 11 0.12
82 71 0.81
83 6 0.07
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (83 bp):
ATTAAAATAGTAAAATTACACTTTGACCTCCCAAAATGATAAAAATTTAATATAATCCTTTAAAA
TTTATAAAGATATAGGCT
Found at i:61391206 original size:21 final size:21
Alignment explanation
Indices: 61391180--61391220 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61391170 ATCTGCTCAA
* *
61391180 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
61391201 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
61391221 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:61396175 original size:61 final size:60
Alignment explanation
Indices: 61396076--61396191 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 60
61396066 TTTGGGATCT
* * * ** * *
61396076 CTCATTGAGATCTCAATAAGAGAAATTTGAGGTTACCAAATATTAAGGGACCATTGGCAA
1 CTCATTGAAATCTAAAGAAGAGAAATTTGAGGCCACCAAAAATGAAGGGACCATTGGCAA
61396136 CTCATTGAAATCTAAAGAATGAGAAATTTGAGGCCACCAAAAATGAAGGGACCATT
1 CTCATTGAAATCTAAAGAA-GAGAAATTTGAGGCCACCAAAAATGAAGGGACCATT
61396192 CACAAACAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 16 0.33
61 32 0.67
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (60 bp):
CTCATTGAAATCTAAAGAAGAGAAATTTGAGGCCACCAAAAATGAAGGGACCATTGGCAA
Found at i:61397387 original size:19 final size:19
Alignment explanation
Indices: 61397365--61397403 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
61397355 AGACTAAAGG
61397365 TTTTCAATGACTTTAAATA
1 TTTTCAATGACTTTAAATA
* * *
61397384 TTTTCCATGATTTTTAATA
1 TTTTCAATGACTTTAAATA
61397403 T
1 T
61397404 GCTTTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTCAATGACTTTAAATA
Found at i:61398616 original size:19 final size:19
Alignment explanation
Indices: 61398586--61398649 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
61398576 CAACAAAAAT
61398586 AAAATAATTTTTAAAAATTC
1 AAAATAA-TTTTAAAAATTC
* * *
61398606 AAAATAATTTTTAAATTTA
1 AAAATAATTTTAAAAATTC
* * *
61398625 AAAATACTTATAAAAGTTCC
1 AAAATAATTTTAAAAATT-C
61398645 AAAAT
1 AAAAT
61398650 TTATACTTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 23 0.66
20 12 0.34
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTC
Found at i:61406705 original size:17 final size:17
Alignment explanation
Indices: 61406683--61406716 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
61406673 TTGGTATAGT
61406683 TGGAATATAT-AACACAA
1 TGGAATAT-TCAACACAA
61406700 TGGAATATTCAACACAA
1 TGGAATATTCAACACAA
61406717 ACAGCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (17 bp):
TGGAATATTCAACACAA
Found at i:61408373 original size:5 final size:5
Alignment explanation
Indices: 61408363--61408387 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61408353 AACATTATTC
61408363 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
61408388 GAAGTGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:61409661 original size:19 final size:19
Alignment explanation
Indices: 61409627--61409675 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
61409617 CTAAACAATT
61409627 TAATAATATAAA--TAATA
1 TAATAATATAAATTTAATA
*
61409644 TAA-AATATGAAATTTAATT
1 TAATAATAT-AAATTTAATA
61409663 TAATAATATAAAT
1 TAATAATATAAAT
61409676 AGTAGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
19 11 0.41
20 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATAATATAAATTTAATA
Found at i:61411396 original size:6 final size:6
Alignment explanation
Indices: 61411387--61411413 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
61411377 TCTTCCATTT
61411387 CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCC
61411414 CATCCTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTTC
Found at i:61414718 original size:26 final size:26
Alignment explanation
Indices: 61414683--61414732 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
61414673 AATGTGAAAG
*
61414683 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
61414709 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
61414733 AGTTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:61414847 original size:103 final size:101
Alignment explanation
Indices: 61414604--61414865 Score: 400
Period size: 103 Copynumber: 2.6 Consensus size: 101
61414594 GTTGTACATA
** *
61414604 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATT-CCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* *
61414669 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCC
65 CTGAAA-GTAAAAGGGGGTTGCTATGTGCTGATTCCCC
* *
61414707 GAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
61414772 CTGAAA-TAAAAGGGGGTTGCTATGTGCTGATTCCCC
65 CTGAAAGTAAAAGGGGGTTGCTATGTGCTGATTCCCC
* * *
61414808 AAGGGGTTGCTAAGTGCTGATTCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
61414866 AATAACGGTT
Statistics
Matches: 146, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
100 28 0.19
101 54 0.37
102 4 0.03
103 60 0.41
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (101 bp):
AAGGGGTTGCTAAGTGCTGATTCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTC
TGAAAGTAAAAGGGGGTTGCTATGTGCTGATTCCCC
Found at i:61417953 original size:16 final size:16
Alignment explanation
Indices: 61417934--61417966 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61417924 ACATAATTTA
61417934 TTTTCCTTCTTTT-TTT
1 TTTTCCTT-TTTTCTTT
61417950 TTTTCCTTTTTTCTTT
1 TTTTCCTTTTTTCTTT
61417966 T
1 T
61417967 CCATTGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCCTTTTTTCTTT
Found at i:61422660 original size:31 final size:30
Alignment explanation
Indices: 61422591--61422662 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
61422581 TAAAAAATTT
61422591 GACTAATTTGCTCTTTGATTTAACAAAAAG
1 GACTAATTTGCTCTTTGATTTAACAAAAAG
* * *
61422621 GACCAATTTGCTCTTTGATTTAACGTATAAG
1 GACTAATTTGCTCTTTGATTTAAC-AAAAAG
61422652 GACTAATTTGC
1 GACTAATTTGC
61422663 CCATTTTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 23 0.62
31 14 0.38
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (30 bp):
GACTAATTTGCTCTTTGATTTAACAAAAAG
Found at i:61448177 original size:4 final size:4
Alignment explanation
Indices: 61448168--61448199 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
61448158 GCAGGGGAGA
*
61448168 GTAT GTAT GTAT GTAT GCAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
61448200 CAGTGCAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:61451019 original size:21 final size:23
Alignment explanation
Indices: 61450989--61451047 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
61450979 AATAAAATTT
*
61450989 AAATATTAAA-TA-ATTTATTAA
1 AAATAATAAATTATATTTATTAA
61451010 AAATAATAAATTATATTTATT-A
1 AAATAATAAATTATATTTATTAA
* *
61451032 TATTAATAAATT-TATT
1 AAATAATAAATTATATT
61451048 ATATGACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 13 0.39
22 13 0.39
23 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATAATAAATTATATTTATTAA
Found at i:61451058 original size:17 final size:17
Alignment explanation
Indices: 61451024--61451059 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
61451014 AATAAATTAT
*
61451024 ATTTATTATATTAATAA
1 ATTTATTATATGAATAA
*
61451041 ATTTATTATATGACTAA
1 ATTTATTATATGAATAA
61451058 AT
1 AT
61451060 ATAAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTATTATATGAATAA
Found at i:61455866 original size:14 final size:14
Alignment explanation
Indices: 61455835--61455893 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
61455825 CTTTTAAAAC
* * *
61455835 AAATAAATTTTTAT
1 AAATATATTTATAA
61455849 AAATATATTTATAA
1 AAATATATTTATAA
*
61455863 AAAT-TCGATATA-AA
1 AAATAT--ATTTATAA
61455877 AAATATATTTATAA
1 AAATATATTTATAA
61455891 AAA
1 AAA
61455894 AAGTATTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 5 0.14
14 26 0.72
15 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (14 bp):
AAATATATTTATAA
Found at i:61455902 original size:15 final size:15
Alignment explanation
Indices: 61455849--61455894 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
61455839 AAATTTTTAT
61455849 AAATATATTTAT-AA
1 AAATATATTTATAAA
***
61455863 AAAT-TCGATATAAA
1 AAATATATTTATAAA
61455877 AAATATATTTATAAA
1 AAATATATTTATAAA
61455892 AAA
1 AAA
61455895 AGTATTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
13 4 0.17
14 10 0.42
15 10 0.42
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATATATTTATAAA
Found at i:61455904 original size:28 final size:28
Alignment explanation
Indices: 61455849--61455909 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
61455839 AAATTTTTAT
**
61455849 AAATATATTTATAAAAATTCGATATAAA
1 AAATATATTTATAAAAATAAGATATAAA
**
61455877 AAATATATTTATAAAAA-AAG-TATTTA
1 AAATATATTTATAAAAATAAGATATAAA
61455903 AAATATA
1 AAATATA
61455910 GATATTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.38
27 1 0.03
28 17 0.59
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (28 bp):
AAATATATTTATAAAAATAAGATATAAA
Found at i:61460173 original size:16 final size:15
Alignment explanation
Indices: 61460150--61460193 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
61460140 TTTCAATAAA
61460150 TAAAAATATTAAATT
1 TAAAAATATTAAATT
* *
61460165 TAAATAATATGAATTT
1 TAAA-AATATTAAATT
*
61460181 TAAAAAAATTAAA
1 TAAAAATATTAAA
61460194 AATAATATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
TAAAAATATTAAATT
Found at i:61465207 original size:2 final size:2
Alignment explanation
Indices: 61465200--61465225 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61465190 TAAAATCATG
61465200 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
61465226 AACCCAATAC
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:61465633 original size:2 final size:2
Alignment explanation
Indices: 61465626--61465658 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
61465616 ATTGAAATAA
61465626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61465659 AAGAGAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61466187 original size:21 final size:21
Alignment explanation
Indices: 61466163--61466232 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 21
61466153 AATACATGCA
*
61466163 TAAGGTATCGATACCTCGTAG
1 TAAGGTATCAATACCTCGTAG
**
61466184 TAA-GTATCAATACC-C-TCCC
1 TAAGGTATCAATACCTCGT-AG
61466203 TAAGGTATCAATACCTCGTAG
1 TAAGGTATCAATACCTCGTAG
*
61466224 CAAGGTATC
1 TAAGGTATC
61466233 GAAACTATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 1 0.03
19 4 0.10
20 21 0.54
21 12 0.31
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (21 bp):
TAAGGTATCAATACCTCGTAG
Found at i:61471327 original size:42 final size:42
Alignment explanation
Indices: 61471251--61471412 Score: 191
Period size: 42 Copynumber: 3.8 Consensus size: 42
61471241 ACATCGCTAA
* * * *
61471251 CTTTTGCGGCGCTTATAGAAAAAAATGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGC-T-TAGGAAAAAACGCCGCTAAAGATCATGAT
61471295 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCAT-ATT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGA-T
* * * *
61471337 CTTTAGCGGCGTTTGGGGAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGAT
* *
61471379 CTTTAGCGTCGCTTTGGAAGAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAA
61471413 AGTAGAGTTC
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 76 0.74
43 15 0.15
44 11 0.11
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGAT
Found at i:61471423 original size:43 final size:43
Alignment explanation
Indices: 61471251--61471436 Score: 177
Period size: 42 Copynumber: 4.3 Consensus size: 43
61471241 ACATCGCTAA
* * * * * * *
61471251 CTTTTGCGGCGCTTATAGAAAAAAATGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTT-TGGAAGAAAACGCCGCTAAAGATCAAGTT
*
61471295 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGATCATA-TT
1 CTTTAGCGGCGCTTTGGAAGAAAACGCCGCTAAAGATCA-AGTT
* *
61471337 CTTTAGCGGCG-TTTGG-GGAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTTGGAAG-AAAACGCCGCTAAAGATCAAGTT
*
61471379 CTTTAGCGTCGCTTTGGAAGAAAACGCCGCTAAA-AGT-AGAGTT
1 CTTTAGCGGCGCTTTGGAAGAAAACGCCGCTAAAGA-TCA-AGTT
*
61471422 CTTTAGTGGCGCTTT
1 CTTTAGCGGCGCTTT
61471437 TTTAAAAAAC
Statistics
Matches: 119, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
41 4 0.03
42 62 0.52
43 39 0.33
44 14 0.12
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTGGAAGAAAACGCCGCTAAAGATCAAGTT
Found at i:61471846 original size:12 final size:12
Alignment explanation
Indices: 61471829--61471868 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
61471819 TTTTGAACCT
61471829 CTGCTTCTATCG
1 CTGCTTCTATCG
* *
61471841 CTGCTTCTTTCA
1 CTGCTTCTATCG
*
61471853 CTGCTTCTCTCG
1 CTGCTTCTATCG
61471865 CTGC
1 CTGC
61471869 GGCCTTTGCT
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:0.05, C:0.38, G:0.15, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Done.