Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 146 of 295
Found at i:49817505 original size:37 final size:37
Alignment explanation
Indices: 49817463--49817549 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 37
49817453 TATCAGAACT
*
49817463 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* * * *
49817500 AGAATCAGAATCAGGATCAGTATTAGTATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
49817537 AGAATCAGAATCA
1 AGAATCAGAATCA
49817550 AAATGTGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:49818020 original size:27 final size:27
Alignment explanation
Indices: 49817990--49818233 Score: 326
Period size: 27 Copynumber: 9.0 Consensus size: 27
49817980 AACACCCTAG
*
49817990 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** *
49818017 GGGTAAAATAATAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
49818044 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
49818071 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** * *
49818098 GGGTAAAACAGTAATTCTGTAAAACGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
49818125 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
49818152 TGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
49818179 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
49818206 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
49818233 G
1 G
49818234 AGTACTTTGG
Statistics
Matches: 190, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:49818126 original size:81 final size:81
Alignment explanation
Indices: 49817990--49818233 Score: 371
Period size: 81 Copynumber: 3.0 Consensus size: 81
49817980 AACACCCTAG
* *
49817990 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAATGG
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
*
49818055 TAATTTTGTAAATCGA
66 TAATTCTGTAAATCGA
* * *
49818071 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAAACGAGGGTAAAATAG
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
*
49818136 TAATTCTGTAAATCAA
66 TAATTCTGTAAATCGA
* * * * *
49818152 TGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
*
49818217 TAATTCTATAAATCGA
66 TAATTCTGTAAATCGA
49818233 G
1 G
49818234 AGTACTTTGG
Statistics
Matches: 145, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 145 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
TAATTCTGTAAATCGA
Found at i:49818292 original size:26 final size:27
Alignment explanation
Indices: 49818239--49818301 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
49818229 TCGAGAGTAC
*
49818239 TTTGGCAATTTTACAAACCAGGGTTAT
1 TTTGGTAATTTTACAAACCAGGGTTAT
*
49818266 TTTGGTAATTTTA-TAACCAAGGG-TAT
1 TTTGGTAATTTTACAAACC-AGGGTTAT
49818292 TTTGGTAATT
1 TTTGGTAATT
49818302 CTACCCTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 17 0.52
27 16 0.48
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.43
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACCAGGGTTAT
Found at i:49818313 original size:27 final size:27
Alignment explanation
Indices: 49818283--49818365 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
49818273 ATTTTATAAC
**
49818283 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTAAGTAATTCTACCCTA
*
49818310 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTAAGTAATTCTACCCTA
* *
49818337 CAAGGGTATTTAAGTAATGCTAGCCTA
1 CAAGGGTATTTAAGTAATTCTACCCTA
49818364 CA
1 CA
49818366 GATATGAGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTAAGTAATTCTACCCTA
Found at i:49819503 original size:6 final size:6
Alignment explanation
Indices: 49819480--49819541 Score: 79
Period size: 6 Copynumber: 10.3 Consensus size: 6
49819470 ACTGAGTCCA
* * * *
49819480 TTTATC TTTATG TCTATT TTTATT TTTATT TTTATT TTTATT TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
49819528 TTTATG TTTATT TT
1 TTTATT TTTATT TT
49819542 GTTTTCCCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:49819507 original size:18 final size:18
Alignment explanation
Indices: 49819480--49819541 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
49819470 ACTGAGTCCA
* *
49819480 TTTATCTTTATGTCTATT
1 TTTATTTTTATGTTTATT
*
49819498 TTTATTTTTATTTTTATT
1 TTTATTTTTATGTTTATT
*
49819516 TTTATTTTTATGTTTATG
1 TTTATTTTTATGTTTATT
49819534 TTTATTTT
1 TTTATTTT
49819542 GTTTTCCCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTATTTTTATGTTTATT
Found at i:49826474 original size:44 final size:45
Alignment explanation
Indices: 49826402--49826492 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 45
49826392 GCTCAAGAAA
*
49826402 AGAGGAAATCGGATTTGGATCGAGGGAAATCCAAAGTTGTCAAAT
1 AGAGGAAATCAGATTTGGATCGAGGGAAATCCAAAGTTGTCAAAT
* * *
49826447 AGAGG-AATCAGATTTGGATTG-GAGGAAATCTAAAGTTGTCACAT
1 AGAGGAAATCAGATTTGGATCGAG-GGAAATCCAAAGTTGTCAAAT
49826491 AG
1 AG
49826493 TCGTTCCGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 35 0.85
45 5 0.12
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (45 bp):
AGAGGAAATCAGATTTGGATCGAGGGAAATCCAAAGTTGTCAAAT
Found at i:49834325 original size:6 final size:6
Alignment explanation
Indices: 49834304--49834357 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
49834294 TATTAGAACA
* * *
49834304 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
49834353 AGAAT
1 AGAAT
49834358 TAGGTGACAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 1 0.03
6 34 0.87
7 3 0.08
8 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:49834407 original size:25 final size:25
Alignment explanation
Indices: 49834316--49834401 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
49834306 AATCAAAATG
49834316 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
49834341 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * * *
49834366 AGAATCGGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
49834391 ATAATCAGAAT
1 AGAATCAGAAT
49834402 TAGTATATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:49834563 original size:27 final size:26
Alignment explanation
Indices: 49834525--49834632 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 26
49834515 AGCATGGCTG
* *
49834525 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
49834551 CCAGATACAGATATTGT-AGCAGAGCCA
1 CCAGA-ACAGATATTGTGA-CAGAGCCA
* *
49834578 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
49834605 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
49834632 C
1 C
49834633 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.18
27 52 0.73
28 6 0.08
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:49834616 original size:54 final size:53
Alignment explanation
Indices: 49834525--49834632 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 53
49834515 AGCATGGCTG
* * * *
49834525 CCAGAATAGATATTGTGACAGAGTCACCAGATACAGATATTGTAGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATAATGTAGCAAAGCCA
* * *
49834578 CCAGAACAGATATTTGTGGCATAGCCACCAGA-ATCAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGATA-CAGATAATGTAGCAAAGCCA
49834632 C
1 C
49834633 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATAATGTAGCAAAGCCA
Found at i:49834894 original size:20 final size:20
Alignment explanation
Indices: 49834865--49834905 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
49834855 CGGGTCTATA
*
49834865 ATCGACACGAAGTCCACAAT
1 ATCGACACGAAGCCCACAAT
*
49834885 ATCGATACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
49834905 A
1 A
49834906 ACAGCACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.29, G:0.15, T:0.15
Consensus pattern (20 bp):
ATCGACACGAAGCCCACAAT
Found at i:49835244 original size:27 final size:26
Alignment explanation
Indices: 49835214--49835337 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 26
49835204 TACCCCATGA
*
49835214 GGGTATCTCGATAATTCTATCCTACAG
1 GGGTAT-TCAATAATTCTATCCTACAG
*** *
49835241 GGGTATTTTGGTAATTCTA-CCTTATAG
1 GGGTA-TTCAATAATTCTATCC-TACAG
*
49835268 GGGTATTCCAGTAATTCTATCCTACAG
1 GGGTATT-CAATAATTCTATCCTACAG
* *
49835295 GGGTATTACAATAATTCTACCCTACAA
1 GGGTATT-CAATAATTCTATCCTACAG
49835322 GGGTATTTCAATAATT
1 GGGTA-TTCAATAATT
49835338 TTGTAAATCG
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
26 4 0.05
27 73 0.89
28 5 0.06
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (26 bp):
GGGTATTCAATAATTCTATCCTACAG
Found at i:49835326 original size:54 final size:54
Alignment explanation
Indices: 49835224--49835337 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
49835214 GGGTATCTCG
**** * * *
49835224 ATAATTCTATCCTACAGGGGTATTTTGGTAATTCTACCTTATAGGGGTATTCCA
1 ATAATTCTATCCTACAGGGGTATTACAATAATTCTACCCTACAAGGGTATTCCA
* *
49835278 GTAATTCTATCCTACAGGGGTATTACAATAATTCTACCCTACAAGGGTATTTCA
1 ATAATTCTATCCTACAGGGGTATTACAATAATTCTACCCTACAAGGGTATTCCA
49835332 ATAATT
1 ATAATT
49835338 TTGTAAATCG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (54 bp):
ATAATTCTATCCTACAGGGGTATTACAATAATTCTACCCTACAAGGGTATTCCA
Found at i:49835351 original size:27 final size:26
Alignment explanation
Indices: 49835321--49835559 Score: 110
Period size: 27 Copynumber: 8.9 Consensus size: 26
49835311 CTACCCTACA
*
49835321 AGGGTATTTCAATAATTTTGTAAATCG
1 AGGGTATTT-AGTAATTTTGTAAATCG
* *
49835348 AGGGTAAATTGGTAA-TTTGTAAATCG
1 AGGGT-ATTTAGTAATTTTGTAAATCG
* ** *
49835374 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTA-TTTAGTAATTTTGTAAATCG
* ** *
49835401 AGGGTATTTCAGTAATTTTATAGGTTG
1 AGGGTATTT-AGTAATTTTGTAAATCG
***
49835428 AGGGTATTTTAGTAATTTCACAAATC-
1 AGGGTA-TTTAGTAATTTTGTAAATCG
* ** *
49835454 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTA-TTTAGTAATTTTGTAAATCG
* ** *
49835481 AGGGATATTTTGGTAATTTTACAAA-CC
1 AGGG-TA-TTTAGTAATTTTGTAAATCG
*
49835508 AGGGTATTTTGGTAATTTTGCT-AATCG
1 AGGGTA-TTTAGTAATTTTG-TAAATCG
* *
49835535 TGGGTATTTCAGTAATTTGGTAAAT
1 AGGGTATTT-AGTAATTTTGTAAAT
49835560 TAAAGTATTC
Statistics
Matches: 175, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.01
26 52 0.30
27 116 0.66
28 6 0.03
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
AGGGTATTTAGTAATTTTGTAAATCG
Found at i:49835373 original size:26 final size:26
Alignment explanation
Indices: 49835337--49835406 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
49835327 TTTCAATAAT
49835337 TTTGTAAATCGAGGGTAAATTGGTAA
1 TTTGTAAATCGAGGGTAAATTGGTAA
**
49835363 TTTGTAAATCGAGGGTACTTTGGTAA
1 TTTGTAAATCGAGGGTAAATTGGTAA
49835389 TTT-TACAAGTCGAGGGTA
1 TTTGTA-AA-TCGAGGGTA
49835407 TTTCAGTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.05
26 29 0.73
27 9 0.22
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TTTGTAAATCGAGGGTAAATTGGTAA
Found at i:49835522 original size:26 final size:26
Alignment explanation
Indices: 49835346--49835526 Score: 159
Period size: 27 Copynumber: 6.8 Consensus size: 26
49835336 TTTTGTAAAT
** *
49835346 CGAGGGTAAATTGGTAATTTGTA-AAT
1 CGAGGGTATTTTGGTAATTT-TACAAA
* *
49835372 CGAGGGTACTTTGGTAATTTTACAAGT
1 CGAGGGTATTTTGGTAATTTTACAA-A
** * **
49835399 CGAGGGTATTTCAGTAATTTTATAGGT
1 CGAGGGTATTTTGGTAATTTTACA-AA
* * *
49835426 TGAGGGTATTTTAGTAATTTCACAAA
1 CGAGGGTATTTTGGTAATTTTACAAA
49835452 TC-AGGGGTATTTTGGTAATTTTACAAA
1 -CGA-GGGTATTTTGGTAATTTTACAAA
*
49835479 CTAGGGATATTTTGGTAATTTTACAAA
1 CGAGGG-TATTTTGGTAATTTTACAAA
*
49835506 CCAGGGTATTTTGGTAATTTT
1 CGAGGGTATTTTGGTAATTTT
49835527 GCTAATCGTG
Statistics
Matches: 131, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
25 2 0.02
26 40 0.31
27 89 0.68
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
CGAGGGTATTTTGGTAATTTTACAAA
Found at i:49837553 original size:6 final size:6
Alignment explanation
Indices: 49837532--49837641 Score: 73
Period size: 6 Copynumber: 17.8 Consensus size: 6
49837522 TATTAGAACT
* * * *
49837532 AGAATC AAAATG AGAATC AGAATC AGAATC AGGTGAT- AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * *
49837581 AGAATC AGAATC AG-GTGAC AGAATC AAAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
49837631 AGAATT AGAAT
1 AGAATC AGAAT
49837642 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.06
6 64 0.79
7 8 0.10
8 4 0.05
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:49837582 original size:31 final size:31
Alignment explanation
Indices: 49837544--49837619 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
49837534 AATCAAAATG
* *
49837544 AGAATCAGAATCAGAATCAGGTGATAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
49837575 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
49837606 AAAATCAGTATCAG
1 AGAATCAGAATCAG
49837620 GTAACAGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:49837603 original size:25 final size:25
Alignment explanation
Indices: 49837575--49837641 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
49837565 TGATAGAATT
*
49837575 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
49837600 AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
49837625 AGAATCAGAATTAGAAT
1 AGAATCAGAATCAGAAT
49837642 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:49837634 original size:31 final size:29
Alignment explanation
Indices: 49837544--49837641 Score: 96
Period size: 31 Copynumber: 3.4 Consensus size: 29
49837534 AATCAAAATG
*
49837544 AGAATCAGAATCAGAATCAGGTGATAGAATT
1 AGAATCAGAATCAGAATCAGGT-A-AGAATC
49837575 AGAATCAGAATCAGAATCAGGT--G-A-C
1 AGAATCAGAATCAGAATCAGGTAAGAATC
* *
49837600 AGAATCAAAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGT-A-AGAATC
*
49837631 AGAATTAGAAT
1 AGAATCAGAAT
49837642 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 20 0.36
26 1 0.02
27 1 0.02
29 1 0.02
30 1 0.02
31 32 0.57
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (29 bp):
AGAATCAGAATCAGAATCAGGTAAGAATC
Found at i:49837797 original size:27 final size:27
Alignment explanation
Indices: 49837759--49837839 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
49837749 AGCATGTCTG
*
49837759 CCAGAAT-AGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGACAGAGCCA
*
49837785 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGACAGAGCCA
* * *
49837812 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATATTGTGACAGAGCCA
49837839 C
1 C
49837840 TTAATAGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.04
26 4 0.08
27 40 0.83
28 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGACAGAGCCA
Found at i:49838045 original size:22 final size:22
Alignment explanation
Indices: 49837997--49838055 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
49837987 GTAAATACAT
*
49837997 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACGGAGCCATAGTCAAG
* * *
49838019 ATGGCACGGAGCCATATTTAAG
1 TTGGCACGGAGCCATAGTCAAG
*
49838041 TTGGCACAGAGCCAT
1 TTGGCACGGAGCCAT
49838056 CGATAACGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (22 bp):
TTGGCACGGAGCCATAGTCAAG
Found at i:49838432 original size:27 final size:27
Alignment explanation
Indices: 49838402--49838468 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
49838392 AGGGGCAAAA
*
49838402 TGGTAATTTTACCCCAC-GAGGGTATCT
1 TGGTAATTCTACCCCACAG-GGGTATCT
* *
49838429 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCCACAGGGGTATCT
49838456 TGGTAATTCTACC
1 TGGTAATTCTACC
49838469 TGTAACACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCCACAGGGGTATCT
Found at i:49842075 original size:27 final size:27
Alignment explanation
Indices: 49842033--49842113 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
49842023 GGCTATTAAA
* *
49842033 CTACCTTACAAGGGTATTTCAGTAATT
1 CTACCCTACAAGGGTATTTCAATAATT
*
49842060 CTACCCTACAATGGTATTTCAATAATT
1 CTACCCTACAAGGGTATTTCAATAATT
*
49842087 CTACCCTACAGGGGTATTTCAATAATT
1 CTACCCTACAAGGGTATTTCAATAATT
49842114 TTTTAAATCG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (27 bp):
CTACCCTACAAGGGTATTTCAATAATT
Found at i:49842192 original size:27 final size:26
Alignment explanation
Indices: 49842114--49842329 Score: 177
Period size: 27 Copynumber: 8.1 Consensus size: 26
49842104 TTCAATAATT
***
49842114 TTTTA-AATCGAGGGTAAAATGGTAA
1 TTTTACAATCGAGGGTATTTTGGTAA
* *
49842139 TTCTGTA-AATTGAGGGTACTTTGGTAA
1 TT-T-TACAATCGAGGGTATTTTGGTAA
* *
49842166 TTTTATAAGTCGAGGGTATTTTAGTAA
1 TTTTACAA-TCGAGGGTATTTTGGTAA
* **
49842193 TTTTACAAGTCGAGGGTGTTTCAGTAA
1 TTTTACAA-TCGAGGGTATTTTGGTAA
49842220 TTTTACAAATC-AGGGGTATTTTGGTAA
1 TTTTAC-AATCGA-GGGTATTTTGGTAA
* *
49842247 TTTTACAAACTAGGGATATTTTGGTAA
1 TTTTACAATCGAGGG-TATTTTGGTAA
* * *
49842274 TTTTACAAACCAGAGTATTTTGGTAA
1 TTTTACAATCGAGGGTATTTTGGTAA
* **
49842300 TTTTGCTAATCGAGGGTATTTCAGTAA
1 TTTTAC-AATCGAGGGTATTTTGGTAA
49842327 TTT
1 TTT
49842330 GGTAAACTAA
Statistics
Matches: 160, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.03
26 27 0.17
27 127 0.79
28 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (26 bp):
TTTTACAATCGAGGGTATTTTGGTAA
Found at i:49844326 original size:31 final size:31
Alignment explanation
Indices: 49844276--49844340 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
49844266 TATTAGAACT
* *
49844276 AGAATCAAAATGAGAATCAGGTGACAGAATC
1 AGAATCAAAATCAGAATCAGGTAACAGAATC
* *
49844307 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAAAATCAGAATCAGGTAACAGAATC
49844338 AGA
1 AGA
49844341 CCAATTCAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.17
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGGTAACAGAATC
Found at i:49844479 original size:27 final size:25
Alignment explanation
Indices: 49844441--49844548 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 25
49844431 AGCATGGCTG
* *
49844441 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTG-CAGAGCCA
49844467 CCAGATACAGATATTGTTGCAGAGCCA
1 CCAGA-ACAGATATTG-TGCAGAGCCA
*
49844494 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGT-GCAGAGCCA
* *
49844521 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGT-GCAGAGCCA
49844548 C
1 C
49844549 TTAACAGAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.18
27 51 0.71
28 8 0.11
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (25 bp):
CCAGAACAGATATTGTGCAGAGCCA
Found at i:49844532 original size:54 final size:53
Alignment explanation
Indices: 49844441--49844548 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 53
49844431 AGCATGGCTG
* * * * *
49844441 CCAGAATAGATATTGTGACAGAGTCACCAGATACAGATATTGTTGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCA
* *
49844494 CCAGAACAGATATTTGTGGCATAGCCACCAGA-ATCAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGATA-CAGATAATGTGGCAAAGCCA
49844548 C
1 C
49844549 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCA
Found at i:49845151 original size:27 final size:27
Alignment explanation
Indices: 49845121--49845257 Score: 145
Period size: 27 Copynumber: 5.2 Consensus size: 27
49845111 GGTATCTCGA
* * **
49845121 TAATTATACCCTAGAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
49845148 TAATTCTACCTTACAGGGATATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
49845175 TAATTCTACCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
49845202 TAATTCT---CTACAAGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
49845226 TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
49845253 TAATT
1 TAATT
49845258 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
24 24 0.25
27 71 0.75
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:49845246 original size:51 final size:52
Alignment explanation
Indices: 49845109--49845257 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 52
49845099 TTACCCCATG
* * * * ***
49845109 AGGGTATCTCGATAATTATACCCTAGAGGGGTATTTTGGTAATTCTACCTTAC
1 AGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAATAATTCTA-CTTAC
* *
49845162 AGGGATATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTCT-C-TAC
1 AGGG-TATTTCAATAATTCTACCCTACAGGGGTATTTCAATAATTCTACTTAC
*
49845213 AAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCAATAATT
1 -AGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAATAATT
49845258 TTGTAAATCG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 40 0.49
52 5 0.06
53 4 0.05
54 33 0.40
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAATAATTCTACTTAC
Found at i:49845283 original size:27 final size:27
Alignment explanation
Indices: 49845253--49845327 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
49845243 GGTATTTCAA
49845253 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAATGG
* ***
49845280 TAATTCTGTAAATCGAGGGTACTTTGG
1 TAATTTTGTAAATCGAGGGTAAAATGG
** *
49845307 TAATTTTACAAGTCGAGGGTA
1 TAATTTTGTAAATCGAGGGTA
49845328 TTTCAGTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAATGG
Found at i:49845336 original size:27 final size:26
Alignment explanation
Indices: 49845263--49845473 Score: 174
Period size: 27 Copynumber: 7.9 Consensus size: 26
49845253 TAATTTTGTA
***
49845263 AATCGAGGGTAAAATGGTAATTCTGTA-
1 AATCGAGGGTATTTTGGTAATT-T-TAC
*
49845290 AATCGAGGGTACTTTGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
**
49845316 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AA-TCGAGGGTATTTTGGTAATTTTAC
* ** *
49845343 AGGTCGAGGGTATTTAAGTAATTTCAC
1 A-ATCGAGGGTATTTTGGTAATTTTAC
*
49845370 AAAT-TAGGGGTATTTTGGTAATTTTAC
1 -AATCGA-GGGTATTTTGGTAATTTTAC
* *
49845397 AAACTAGGGATATTTTGGTAATTTTAC
1 AATCGAGGG-TATTTTGGTAATTTTAC
* * *
49845424 AAACCAGGGTATTTTGGTAATTTTGC
1 AATCGAGGGTATTTTGGTAATTTTAC
**
49845450 TAATCGAGGGTATTTCAGTAATTT
1 -AATCGAGGGTATTTTGGTAATTT
49845474 AGTAAACTAA
Statistics
Matches: 155, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.01
26 25 0.16
27 127 0.82
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (26 bp):
AATCGAGGGTATTTTGGTAATTTTAC
Found at i:49847265 original size:16 final size:17
Alignment explanation
Indices: 49847236--49847267 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49847226 AAGGCCACTT
49847236 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
49847253 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
49847268 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:49847580 original size:42 final size:42
Alignment explanation
Indices: 49847418--49847583 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
49847408 AGTAAGATGC
* * **
49847418 CAATGCCATATCCCAAATATGGTCTTACATGGGATCACATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATAT
* * * ** *
49847460 CGATGCCGATAGCCCAGCTATGGTCTTACACGATGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCACATAT
* * *
49847503 CGATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATAT
* *
49847545 CAATGCCATATCCCAGATATGGTCTTACTCAAAATCACA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCACA
49847584 CATAACCCTA
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 68 0.67
43 34 0.33
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATAT
Found at i:49849717 original size:49 final size:47
Alignment explanation
Indices: 49849648--49849957 Score: 455
Period size: 47 Copynumber: 6.6 Consensus size: 47
49849638 GATAATTGTG
* *
49849648 ATGTG-AA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49849693 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49849742 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49849791 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49849838 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
49849885 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
49849932 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
49849958 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 13, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
45 5 0.02
46 4 0.02
47 141 0.57
48 2 0.01
49 94 0.38
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49855401 original size:13 final size:13
Alignment explanation
Indices: 49855379--49855409 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49855369 AGGGGACACA
*
49855379 TGGCCGTGTAACG
1 TGGCCATGTAACG
49855392 TGGCCATGTAACG
1 TGGCCATGTAACG
49855405 TGGCC
1 TGGCC
49855410 GTGTGTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (13 bp):
TGGCCATGTAACG
Found at i:49857646 original size:47 final size:45
Alignment explanation
Indices: 49857488--49857748 Score: 172
Period size: 47 Copynumber: 5.6 Consensus size: 45
49857478 TTGCCGATGC
* * * * **
49857488 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTG--GGCCAATG
* * * * * *
49857537 CATGTCTCAGACATGTCTTACACTAGCATAACTCT-T-AGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGGGCCAATG
* *
49857581 CGTGTCCCAAACATGTCTTACACTGGCTATCTCTGTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCTGT-G-GGCCAATG
* * *
49857628 CATGTCCTAGACATGTCTTACTCTGGCACTCATCTCTGT--GCCGATG
1 CATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTGGGCCAATG
* * * *
49857674 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGAA-G
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTGGGCCAATG
49857722 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
49857749 ACACAACTCA
Statistics
Matches: 170, Mismatches: 28, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
43 6 0.04
44 29 0.17
45 2 0.01
46 22 0.13
47 58 0.34
48 26 0.15
49 19 0.11
50 8 0.05
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGGGCCAATG
Found at i:49857725 original size:94 final size:92
Alignment explanation
Indices: 49857478--49857750 Score: 290
Period size: 94 Copynumber: 2.9 Consensus size: 92
49857468 ATGGGATAAA
* *
49857478 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATGCT-GATGCATGT
1 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATG--TGGTCGAAGCATGT
*
49857542 -CTCAGACATGTCTTACACTAGCA-TAACTC
63 CCT-AGACATGTCTTACACTGGCACTAACTC
* * * * * * *
49857571 TTAGCCGAT-ACGTGTCCCAAACAT-GTCTTACACTGGCTATC-T-CTGTCGAGGCCAATGCATG
1 TT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G-GTCGAA-GCATG
* *
49857632 TCCTAGACATGTCTTACTCTGGCACTCATCTC
62 TCCTAGACATGTCTTACACTGGCACT-AACTC
49857664 TGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGAAGCATGTCC
1 T-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGAAGCATGTCC
*
49857729 CAGACATGTCTTACACTGGCAC
65 TAGACATGTCTTACACTGGCAC
49857751 ACAACTCACT
Statistics
Matches: 146, Mismatches: 21, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
87 1 0.01
88 1 0.01
89 2 0.01
90 1 0.01
91 25 0.17
92 19 0.13
93 25 0.17
94 47 0.32
95 20 0.14
96 2 0.01
97 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (92 bp):
TTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGAAGCATGTCCT
AGACATGTCTTACACTGGCACTAACTC
Found at i:49863475 original size:42 final size:42
Alignment explanation
Indices: 49863428--49863553 Score: 114
Period size: 43 Copynumber: 3.0 Consensus size: 42
49863418 TAAGATGCCA
49863428 ATGCCATATCCCAGATATGGTCTTACATAGGATCACATATCG
1 ATGCCATATCCCAGATATGGTCTTACATAGGATCACATATCG
* * * * *
49863470 ATGCCAATAGCCCAGCTATGGTCTTACACATTG-TCTCATAAT-G
1 ATGCC-ATATCCCAGATATGGTCTTACATA-GGATCACAT-ATCG
* * * *
49863513 ACGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATC
1 ATGCCATATCCCAGATATGGTCTTACA-TAGGATCACATATC
49863554 AACGCCAATG
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 32 0.50
44 3 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATAGGATCACATATCG
Found at i:49865665 original size:31 final size:29
Alignment explanation
Indices: 49865630--49865687 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
49865620 TAATTTCATA
*
49865630 TTTTACATACTTCAACTTCA-CATTTATATTC
1 TTTTACA-ACTT-AA-TTCAGCATATATATTC
49865661 TTTTACAACTTAATTCAGCATATATAT
1 TTTTACAACTTAATTCAGCATATATAT
49865688 ATAATGCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTTACAACTTAATTCAGCATATATATTC
Found at i:49870979 original size:6 final size:6
Alignment explanation
Indices: 49870961--49871042 Score: 80
Period size: 6 Copynumber: 13.3 Consensus size: 6
49870951 AAGAAACATT
49870961 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGGA GA-CAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCA-GA -ATCAGA ATCAGA ATCAGA
* *
49871010 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
49871043 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
5 4 0.06
6 50 0.78
7 8 0.12
8 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:49871005 original size:31 final size:31
Alignment explanation
Indices: 49870970--49871042 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
49870960 TATCAGAACT
49870970 AGAATCAGAATCAGAATCAGG-AGACAGAATC
1 AGAATCAGAATCAGAATCAGGTA-ACAGAATC
*
49871001 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
49871032 AAAATCAGAAT
1 AGAATCAGAAT
49871043 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.16
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:49871215 original size:27 final size:27
Alignment explanation
Indices: 49871185--49871249 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
49871175 AGTAAGTTGA
* *
49871185 GGCAAAACCTCCAGAA-CAGATATTTGT
1 GGCAAAACCACCAGAATCAGATA-ATGT
* *
49871212 GGCATAGCCACCAGAATCAGATAATGT
1 GGCAAAACCACCAGAATCAGATAATGT
*
49871239 GGCAAAGCCAC
1 GGCAAAACCAC
49871250 TTAACAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 26 0.81
28 6 0.19
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (27 bp):
GGCAAAACCACCAGAATCAGATAATGT
Found at i:49871825 original size:27 final size:27
Alignment explanation
Indices: 49871795--49872848 Score: 1253
Period size: 27 Copynumber: 39.3 Consensus size: 27
49871785 GGGGCAAAAT
* * * *
49871795 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49871822 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
49871849 AGTAATTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49871876 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
49871903 GGTAATTCTACCTTACAAGGGTATATA
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
49871930 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
49871957 AGTAATTCTATCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49871984 AGTAATTCTACCCTACATGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872010 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
49872037 GGTAATTCTATTCTACAGAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872064 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
49872091 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49872118 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
49872145 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
49872172 GGTAATTCTACCCCATAGGTGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49872199 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872226 AGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872253 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
49872280 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
49872307 GGTAATTCTACCCTACAGGGG-----C
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
49872329 GGTAATCCTATCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
49872356 AGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49872383 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872410 GATAATTCTAGCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
49872437 GATAATTCTACCATATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
49872464 AATAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872491 GGTAATTCTACCCTGCAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872518 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** * *
49872545 GGTAATTTTACCCTTTAGGAGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49872572 AGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
49872598 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * *
49872626 AGTATTTCTTCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872653 GGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872680 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872707 GATAATTCTACCCTATAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
49872733 TGGTAATTTTACCCTATAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
49872761 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
49872788 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
49872814 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
49872842 GATAATT
1 GGTAATT
49872849 TTGTAAATCG
Statistics
Matches: 880, Mismatches: 135, Indels: 24
0.85 0.13 0.02
Matches are distributed among these distances:
22 18 0.02
26 31 0.04
27 822 0.93
28 9 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:49872863 original size:27 final size:27
Alignment explanation
Indices: 49872833--49873191 Score: 68
Period size: 27 Copynumber: 13.3 Consensus size: 27
49872823 TACCCTACAG
*
49872833 GGGTATTTCGATAATTTTGTAAATCGA
1 GGGTATTTCGATAATTTTGTAAATCAA
*** ** *
49872860 GGGTAAAACGGCAATTCTGTAAATCAA
1 GGGTATTTCGATAATTTTGTAAATCAA
* ** * *
49872887 GGGTACTTT-GGTAATTTTACAAGTCTA
1 GGGTA-TTTCGATAATTTTGTAAATCAA
* ** ** *
49872914 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTCGATAATTTTGTAAATCAA
* ***
49872941 GGGTATTT-TAGTAATTTCACAAATC-A
1 GGGTATTTCGA-TAATTTTGTAAATCAA
* * ** *
49872967 GGGATATTTTGCTAATTTTACAAA-CTAG
1 GGG-TATTTCGATAATTTTGTAAATC-AA
* **
49872995 GGGTATTTTGATAATTTTACAAA-CTAA
1 GGGTATTTCGATAATTTTGTAAATC-AA
* * * ** * *
49873022 GAGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCGATAATTTTGTAAATCAA
* * * *
49873049 GGGTATTTTGGTAATTTTATAAATAAA
1 GGGTATTTCGATAATTTTGTAAATCAA
* ** *
49873076 GGGTATTT-TAGTAATTTTACAAA-CTAG
1 GGGTATTTCGA-TAATTTTGTAAATC-AA
* * *
49873103 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGATAATTTTGTAAATCAA
* * ** *
49873130 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTCGATAATTTTGTAAATC-AA
* * * * *
49873157 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTCGATAATTTTGTAAATCAA
49873184 GGGTATTT
1 GGGTATTT
49873192 TAGTAATTTT
Statistics
Matches: 264, Mismatches: 54, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
26 10 0.04
27 248 0.94
28 6 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTGTAAATCAA
Found at i:49873192 original size:27 final size:27
Alignment explanation
Indices: 49872884--49873227 Score: 357
Period size: 27 Copynumber: 12.7 Consensus size: 27
49872874 TTCTGTAAAT
* **
49872884 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** ***
49872911 CTAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
49872938 CGAGGGTATTTTAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
49872965 C-AGGGATATTTTGCTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
* * *
49872992 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
49873019 TAAGAGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
49873046 CAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
49873073 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
49873100 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
49873127 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
49873154 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
49873181 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
49873208 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
49873228 GGTAAACTAA
Statistics
Matches: 263, Mismatches: 52, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
26 4 0.02
27 256 0.97
28 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:49873234 original size:27 final size:27
Alignment explanation
Indices: 49872941--49873227 Score: 358
Period size: 27 Copynumber: 10.6 Consensus size: 27
49872931 TACAGGTCGA
* * *
49872941 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
49872968 GGATATTTTGCTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
49872995 GGGTATTTTGATAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
49873022 GAGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
49873049 GGGTATTTTGGTAATTTTATAAATAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
49873076 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
49873103 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
49873130 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
49873157 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
49873184 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
49873211 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
49873228 GGTAAACTAA
Statistics
Matches: 219, Mismatches: 41, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 219 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:49873234 original size:54 final size:54
Alignment explanation
Indices: 49872887--49873227 Score: 400
Period size: 54 Copynumber: 6.3 Consensus size: 54
49872877 TGTAAATCAA
* * ** * * * ** *
49872887 GGGTACTTTGGTAATTTTACAAGTCTAGGGTATTTCAATAATTTTAC-AGGTCG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * * *
49872940 AGGGTATTTTAGTAATTTCACAAATC-AGGGATATTTT-GCTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGG-TATTTTAG-TAATTTTACAAACTAG
* * * * * *
49872995 GGGTATTTTGATAATTTTACAAACTAAGAGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
**
49873049 GGGTATTTTGGTAATTTTATAAATAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
49873103 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
49873157 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
49873211 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
49873228 GGTAAACTAA
Statistics
Matches: 250, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
53 4 0.02
54 239 0.96
55 7 0.03
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
Found at i:49873236 original size:81 final size:81
Alignment explanation
Indices: 49872887--49873227 Score: 400
Period size: 81 Copynumber: 4.2 Consensus size: 81
49872877 TGTAAATCAA
* * *** ** *
49872887 GGGTACTTTGGTAATTTTACAAGTCTA-GGGTATTTCAATAATTTTAC-AGGTCGAGGGTATTTT
1 GGGTATTTTGGTAATTTTACAA-ACTAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTT
* *
49872950 AGTAATTTCACAAATCAG
64 AGTAATTTTACAAACCAG
* * * * *
49872968 GGATATTTTGCTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAAGAGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAG
49873033 TAATTTTACAAACCAG
66 TAATTTTACAAACCAG
* * * * *
49873049 GGGTATTTTGGTAATTTTATAAA-TAAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTA
** *
49873113 GTAATTTTGTAAACCAA
65 GTAATTTTACAAACCAG
* * *
49873130 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAG
49873195 TAATTTTACAAACCAG
66 TAATTTTACAAACCAG
49873211 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
49873228 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
80 4 0.02
81 214 0.97
82 3 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAG
TAATTTTACAAACCAG
Found at i:49893582 original size:27 final size:27
Alignment explanation
Indices: 49893552--49893837 Score: 367
Period size: 27 Copynumber: 10.6 Consensus size: 27
49893542 TTAGTTTACC
*
49893552 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
49893579 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
49893606 AAATCACCAAAATACCCCT-GTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
49893632 AAATTACTAAAATACCCCTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
49893659 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
49893686 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
49893713 AAATTACCAAAATACCCCTGGCTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
49893740 AAATTACAAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
49893767 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
49893794 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
49893821 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
49893838 TCGACAAGTA
Statistics
Matches: 225, Mismatches: 33, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
26 23 0.10
27 202 0.90
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:49893745 original size:81 final size:80
Alignment explanation
Indices: 49893552--49893894 Score: 391
Period size: 81 Copynumber: 4.2 Consensus size: 80
49893542 TTAGTTTACC
* * * * *
49893552 AAATTACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTACTAAA
*
49893617 ATACCCCTGTTTGTA
66 ATACCCTTGTTTGTA
* * * *
49893632 AAATTACTAAAATACCCCTTGTTTATAAAATTACAAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTACTAAA
*
49893697 ATACCCTTTGTTTATA
66 ATACCC-TTGTTTGTA
*
49893713 AAATTACCAAAATACCCCTGGCTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTA-TCAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTACT-AA
*
49893777 AATACCCCTAGTTTGTA
65 AATA-CCCTTGTTTGTA
** * ** * **** * *
49893794 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACAAGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTACTAAA
* *
49893859 ATACCCTCGACTTGTA
66 ATACCCTTG-TTTGTA
*
49893875 AAATTACCAAAGTACCCCTG
1 AAATTACCAAAATACCCCTG
49893895 ATTTACAGAA
Statistics
Matches: 224, Mismatches: 34, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
80 68 0.30
81 152 0.68
82 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCTTGGTTTGTAAAATTACTAAA
ATACCCTTGTTTGTA
Found at i:49893890 original size:27 final size:27
Alignment explanation
Indices: 49893552--49893891 Score: 289
Period size: 27 Copynumber: 12.6 Consensus size: 27
49893542 TTAGTTTACC
49893552 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
49893579 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
* *
49893606 AAATCACCAAAATACCC-CTGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * *
49893632 AAATTACTAAAATACCC-CTTGTTTATA
1 AAATTACCAAAATACCCTC-GGTTTGTA
*
49893659 AAATTACAAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* ** *
49893686 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
49893713 AAATTACCAAAATACCC-CTGGCTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
49893740 AAATTACAAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* *
49893767 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
** *
49893794 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GGTTTGTA
** ****
49893821 AAATTACTGAAATACCCTCGACAAGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*** **
49893848 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
49893875 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
49893892 CTGATTTACA
Statistics
Matches: 261, Mismatches: 45, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.08
27 235 0.90
28 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:49893958 original size:27 final size:27
Alignment explanation
Indices: 49893928--49894152 Score: 272
Period size: 27 Copynumber: 8.3 Consensus size: 27
49893918 CTCAATTTAC
*
49893928 AAAATTACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
49893955 AAAAATACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
49893982 AAAAATACCAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* **
49894009 AAAAATATTGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* **
49894036 AGAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
49894063 AAAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
49894090 AGAAA-TATCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* * * *
49894117 AGAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
49894144 AAAATTACC
1 AAAATTACC
49894153 ATTTTACCCC
Statistics
Matches: 174, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 169 0.97
28 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:49894161 original size:81 final size:80
Alignment explanation
Indices: 49893936--49894153 Score: 301
Period size: 81 Copynumber: 2.7 Consensus size: 80
49893926 ACAAAATTAC
* * * *
49893936 CGAAATACCCTTGTAGGGTAAAAATACCGAAATACCCTTGTAGGGTAAAAATACCAAAATACCCC
1 CGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACC-AAATACCCC
49894001 TGTAGGGTAAAAATAT
65 TGTAGGGTAAAAATAT
* ** * * *
49894017 TGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAAAATTACTGAAATACCCT
1 CGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTAC-CAAATACCCC
*
49894082 TGTAGGGTAGAAATAT
65 TGTAGGGTAAAAATAT
* *
49894098 CGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 CGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
49894154 TTTTACCCCT
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 117 0.99
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (80 bp):
CGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCAAATACCCCT
GTAGGGTAAAAATAT
Found at i:49894514 original size:71 final size:66
Alignment explanation
Indices: 49894378--49894518 Score: 174
Period size: 71 Copynumber: 2.1 Consensus size: 66
49894368 GAGGAAGCGT
* * * **
49894378 TCTGGTAGCCTCGCTGCAATCTGGTGGCCTGCCACATATATCTGTTCTGGTGACTTCGTGACAAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTGCCACATATATCTGTTCTGGTGACCTAGCCACAAT
49894443 A
66 A
* *
49894444 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATCTGTTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCT-GCCAC----ATATATCTGTTCTGGTGACCTAGCC
49894509 ACAATA
61 ACAATA
49894515 TCTG
1 TCTG
49894519 TATCTGGTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
66 28 0.44
67 5 0.08
71 30 0.48
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.31
Consensus pattern (66 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTGCCACATATATCTGTTCTGGTGACCTAGCCACAAT
A
Found at i:49894515 original size:26 final size:27
Alignment explanation
Indices: 49894486--49894545 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
49894476 CCACATATAT
*
49894486 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
49894512 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
49894539 ATATCTG
1 ATATCTG
49894546 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:49894690 original size:19 final size:18
Alignment explanation
Indices: 49894663--49894711 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
49894653 TTGCATTCAC
49894663 ATTCTGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
*
49894681 -TTGCCTGATTCTGATTCTG
1 ATT--CTGATTTTGATTCTG
49894700 ATTCTGATTTTG
1 ATTCTGATTTTG
49894712 TCACCTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.08
18 8 0.31
19 14 0.54
20 2 0.08
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.53
Consensus pattern (18 bp):
ATTCTGATTTTGATTCTG
Found at i:49894694 original size:6 final size:6
Alignment explanation
Indices: 49894663--49894744 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
49894653 TTGCATTCAC
* *
49894663 ATTCTG ATTTTG ATTCTG -TTGCCTG ATTCTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
49894712 -TCACCTG ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
49894745 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
5 4 0.07
6 48 0.79
7 6 0.10
8 3 0.05
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:49894698 original size:31 final size:31
Alignment explanation
Indices: 49894663--49894735 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
49894653 TTGCATTCAC
* **
49894663 ATTCTGATTTTGATTCTGTTGCCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
*
49894694 ATTCTGATTCTGATTTTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
*
49894725 ATTCTAATTCT
1 ATTCTGATTCT
49894736 AGTTCTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTG
Found at i:49895836 original size:37 final size:37
Alignment explanation
Indices: 49895777--49895885 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
49895767 AGCTCAGACG
* *
49895777 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
49895814 AAATCTCCACAAGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49895851 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49895886 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49896157 original size:48 final size:48
Alignment explanation
Indices: 49896031--49896215 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
49896021 GCACATCGCC
*
49896031 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
49896081 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
49896129 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
49896177 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
49896216 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 81 0.65
49 2 0.02
50 41 0.33
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:49896220 original size:98 final size:98
Alignment explanation
Indices: 49896031--49896214 Score: 302
Period size: 98 Copynumber: 1.9 Consensus size: 98
49896021 GCACATCGCC
*
49896031 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
49896096 GACCATTCAGCTTTACCACATATGCATATCTCA
66 GACCATTCAGCTTTACCACATATGCATATCTCA
* *
49896129 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACAT-T-TTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
*
49896192 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCAGCTTTACCACATAT
49896215 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.36
97 1 0.01
98 50 0.62
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
GACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:49896264 original size:47 final size:47
Alignment explanation
Indices: 49896137--49896378 Score: 299
Period size: 47 Copynumber: 5.1 Consensus size: 47
49896127 CATACATATT
* * * * **
49896137 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * *
49896185 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
49896232 CCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
49896279 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
49896326 TCACATTGGCCATTCGGCCTTATCTCATATATGCATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
49896373 TCACAT
1 TCACAT
49896379 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
47 137 0.79
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:49896305 original size:22 final size:22
Alignment explanation
Indices: 49896278--49896349 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
49896268 GCTCACATTC
49896278 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
49896300 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
49896324 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
49896347 ATC
1 ATC
49896350 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:49896379 original size:25 final size:25
Alignment explanation
Indices: 49896300--49896379 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
49896290 ATTCGGCCTT
*
49896300 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * * *
49896325 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
*
49896347 ATCTCATATATGCATATTCACATTC
1 ATCACATATATGCATATTCACATTC
49896372 ATCACATA
1 ATCACATA
49896380 AAATCCTAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
22 9 0.23
23 6 0.15
24 6 0.15
25 18 0.46
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (25 bp):
ATCACATATATGCATATTCACATTC
Found at i:49903653 original size:41 final size:41
Alignment explanation
Indices: 49903608--49903715 Score: 103
Period size: 41 Copynumber: 2.7 Consensus size: 41
49903598 ATGGTGAATT
*
49903608 AAATCAGGCTTTATGCCTAGTAGGCTTATTGCCAGTGTATA
1 AAATCAGGCTTTATGCCTAGTAGGCTTAGTGCCAGTGTATA
* * * * * * *
49903649 AAATCAGACTTTGA-GTCTAGCAGGCCTCGTGCCAGTGTGTG
1 AAATCAGGCTTT-ATGCCTAGTAGGCTTAGTGCCAGTGTATA
* *
49903690 ATA-CGGGCTTTATGCCTAGTAGGCTT
1 AAATCAGGCTTTATGCCTAGTAGGCTT
49903716 TATGCCGGTG
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
39 1 0.02
40 16 0.31
41 33 0.65
42 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
AAATCAGGCTTTATGCCTAGTAGGCTTAGTGCCAGTGTATA
Found at i:49905831 original size:40 final size:40
Alignment explanation
Indices: 49905770--49905938 Score: 270
Period size: 40 Copynumber: 4.2 Consensus size: 40
49905760 CCTTCGGAGT
*
49905770 TTAG-CCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
49905809 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
49905849 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
49905889 TTAGCCCGG-AATTAGTCACTAGCACCAATGCCTTCGGGAC
1 TTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGAC
49905929 TTAGCCCGGT
1 TTAGCCCGGT
49905939 CATCAATCCG
Statistics
Matches: 122, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 5 0.04
40 117 0.96
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:49912239 original size:41 final size:42
Alignment explanation
Indices: 49912180--49912272 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 42
49912170 GCGAATTGAA
** *
49912180 ATAGCTTCGGTTTTATGTG-GCACTAAGTGTGCGATACCGAG
1 ATAGCTTTAGTTTAATGTGAGCACTAAGTGTGCGATACCGAG
* * *
49912221 ATAGCTTTAGTTTAATGTGATAGCACTAAGTGTGTGATATCGAT
1 ATAGCTTTAGTTTAATGTG--AGCACTAAGTGTGCGATACCGAG
49912265 ATAGCTTT
1 ATAGCTTT
49912273 GGCTGAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
41 16 0.37
44 27 0.63
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (42 bp):
ATAGCTTTAGTTTAATGTGAGCACTAAGTGTGCGATACCGAG
Found at i:49912291 original size:44 final size:44
Alignment explanation
Indices: 49912199--49912301 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
49912189 GTTTTATGTG
* *
49912199 GCACTAAGTGTGCGATACCGAGATAGCTTTAGTTTAATGTGATA
1 GCACTAAGTGTGCGATACCGAGATAGCTTTAGCTGAATGTGATA
* * * * * *
49912243 GCACTAAGTGTGTGATATCGATATAGCTTTGGCTGAATAT-TTA
1 GCACTAAGTGTGCGATACCGAGATAGCTTTAGCTGAATGTGATA
49912286 TGCACTAAGTGTGCGA
1 -GCACTAAGTGTGCGA
49912302 GTTCTTAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.04
44 47 0.96
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (44 bp):
GCACTAAGTGTGCGATACCGAGATAGCTTTAGCTGAATGTGATA
Found at i:49917420 original size:46 final size:47
Alignment explanation
Indices: 49917310--49917424 Score: 144
Period size: 47 Copynumber: 2.5 Consensus size: 47
49917300 AATCAATATG
* * * * * *
49917310 TACCTATACCACGGCCCGTAGCCAAATCATGGTGACTTATCTCAGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAGGGTAACTTATCTAAAAA
49917357 TACCTATACCATGGCCCGTAGCCAAATCAGGGTAACTCT-TC-AAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAGGGTAACT-TATCTAAAAA
*
49917403 TACCTATATCATGGCCCGTAGC
1 TACCTATACCATGGCCCGTAGC
49917425 TAGATCAAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 23 0.38
47 36 0.60
48 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAGGGTAACTTATCTAAAAA
Found at i:49921097 original size:13 final size:13
Alignment explanation
Indices: 49921079--49921116 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
49921069 TTTTACTCAT
49921079 AAACACATATCGG
1 AAACACATATCGG
49921092 AAACACATATCGG
1 AAACACATATCGG
*
49921105 AATCACATATCG
1 AAACACATATCG
49921117 ATGCCATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.24, G:0.13, T:0.18
Consensus pattern (13 bp):
AAACACATATCGG
Found at i:49923795 original size:25 final size:25
Alignment explanation
Indices: 49923764--49923826 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
49923754 CAGCCCGTAT
* *
49923764 GAGCTTACCGATTTGCATCTCGTGA
1 GAGCTTACCGATTTGCAGCTCATGA
49923789 GAGCTTACCGATTTGCAGCTCATGA
1 GAGCTTACCGATTTGCAGCTCATGA
49923814 GAGCTTACCGATT
1 GAGCTTACCGATT
49923827 CTTAGCTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (25 bp):
GAGCTTACCGATTTGCAGCTCATGA
Found at i:49923843 original size:50 final size:50
Alignment explanation
Indices: 49923789--49923892 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 50
49923779 CATCTCGTGA
* * *
49923789 GAGCTTACCGATTTGCAGCTCATGAGAGCTTACCGATTCTTAGCTCATAT
1 GAGCTTACCAATTTGCAGCTCATGAGAGCATACCGATTCATAGCTCATAT
* ** * * * *
49923839 GAGCTTACTAATTTTTAGTTCGTGAGAGCATACTGATTCATAGCTCGTAT
1 GAGCTTACCAATTTGCAGCTCATGAGAGCATACCGATTCATAGCTCATAT
49923889 GAGC
1 GAGC
49923893 ATACATGTAC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (50 bp):
GAGCTTACCAATTTGCAGCTCATGAGAGCATACCGATTCATAGCTCATAT
Found at i:49923886 original size:25 final size:25
Alignment explanation
Indices: 49923764--49923886 Score: 90
Period size: 25 Copynumber: 4.9 Consensus size: 25
49923754 CAGCCCGTAT
* *
49923764 GAGCTTACCGATT-TGCATCTCGTGA
1 GAGCTTACCGATTCT-TAGCTCGTGA
* *
49923789 GAGCTTACCGATT-TGCAGCTCATGA
1 GAGCTTACCGATTCT-TAGCTCGTGA
*
49923814 GAGCTTACCGATTCTTAGCTCAT-A
1 GAGCTTACCGATTCTTAGCTCGTGA
** * *
49923838 TGAGCTTACTAATTTTTAGTTCGTGA
1 -GAGCTTACCGATTCTTAGCTCGTGA
* * *
49923864 GAGCATACTGATTCATAGCTCGT
1 GAGCTTACCGATTCTTAGCTCGT
49923887 ATGAGCATAC
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.01
25 79 0.96
26 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTTACCGATTCTTAGCTCGTGA
Found at i:49923892 original size:25 final size:25
Alignment explanation
Indices: 49923814--49923896 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
49923804 CAGCTCATGA
* * *
49923814 GAGCTTACCGATTCTTAGCTCATAT
1 GAGCATACTGATTCTTAGCTCGTAT
* * * *
49923839 GAGCTTACTAATTTTTAGTTCGTGA-
1 GAGCATACTGATTCTTAGCTCGT-AT
*
49923864 GAGCATACTGATTCATAGCTCGTAT
1 GAGCATACTGATTCTTAGCTCGTAT
49923889 GAGCATAC
1 GAGCATAC
49923897 ATGTACAGGA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.96
26 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (25 bp):
GAGCATACTGATTCTTAGCTCGTAT
Found at i:49924083 original size:30 final size:30
Alignment explanation
Indices: 49924044--49924105 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
49924034 TACATGAAAT
49924044 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
49924075 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
49924104 AC
1 AC
49924106 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:49928180 original size:12 final size:12
Alignment explanation
Indices: 49928163--49928187 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49928153 ACTAGAAAAA
49928163 TGACGAGACATG
1 TGACGAGACATG
49928175 TGACGAGACATG
1 TGACGAGACATG
49928187 T
1 T
49928188 CAACGCACAA
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:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (12 bp):
TGACGAGACATG
Found at i:49932135 original size:170 final size:170
Alignment explanation
Indices: 49931853--49932199 Score: 685
Period size: 170 Copynumber: 2.0 Consensus size: 170
49931843 GACAGATAAA
49931853 ATAAAAATGCTACTAAGAAGTGAATTCAACATGATTGTCAAGTGCTATGGTTTGTATGGTTAGAC
1 ATAAAAATGCTACTAAGAAGTGAATTCAACATGATTGTCAAGTGCTATGGTTTGTATGGTTAGAC
49931918 CACATCCCCGCTGCCCAAACTTACTACACAGCCTGTGGGTGCAAATTACAGCAGTAAAACCCCTC
66 CACATCCCCGCTGCCCAAACTTACTACACAGCCTGTGGGTGCAAATTACAGCAGTAAAACCCCTC
49931983 AAGCAAAATCAAACATGTCAAGGATCATTTCCAGTTGAGT
131 AAGCAAAATCAAACATGTCAAGGATCATTTCCAGTTGAGT
49932023 ATAAAAATGCTACTAAGAAGTGAATTCAACATGATTGTCAAGTGCTATGGTTTGTATGGTTAGAC
1 ATAAAAATGCTACTAAGAAGTGAATTCAACATGATTGTCAAGTGCTATGGTTTGTATGGTTAGAC
49932088 CACATCCCCGCTGCCCAAACTTACTACACAGCCTGTGGGTGCAAATTACAGCAGTAAAACCCCTC
66 CACATCCCCGCTGCCCAAACTTACTACACAGCCTGTGGGTGCAAATTACAGCAGTAAAACCCCTC
49932153 AAGCAAAATCAAACATGTCAAGGATCATTTCCAGTTGAGT
131 AAGCAAAATCAAACATGTCAAGGATCATTTCCAGTTGAGT
*
49932193 ATTAAAA
1 ATAAAAA
49932200 GCTTGGAAAC
Statistics
Matches: 176, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 176 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (170 bp):
ATAAAAATGCTACTAAGAAGTGAATTCAACATGATTGTCAAGTGCTATGGTTTGTATGGTTAGAC
CACATCCCCGCTGCCCAAACTTACTACACAGCCTGTGGGTGCAAATTACAGCAGTAAAACCCCTC
AAGCAAAATCAAACATGTCAAGGATCATTTCCAGTTGAGT
Found at i:49936282 original size:30 final size:30
Alignment explanation
Indices: 49936246--49936306 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
49936236 GTGTTTCATG
49936246 AAAGGACGAAACACATACAGATAGACTGTC
1 AAAGGACGAAACACATACAGATAGACTGTC
49936276 AAAGGACGAAACACATACAGATAGACTGTC
1 AAAGGACGAAACACATACAGATAGACTGTC
49936306 A
1 A
49936307 CTTTGTCAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.13
Consensus pattern (30 bp):
AAAGGACGAAACACATACAGATAGACTGTC
Found at i:49938519 original size:15 final size:16
Alignment explanation
Indices: 49938485--49938526 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
49938475 ATCAACCGTT
49938485 TCTTTTCTTCTCTTTC
1 TCTTTTCTTCTCTTTC
49938501 TCTTTTCTT-T-TTCTC
1 TCTTTTCTTCTCTT-TC
49938516 TCTTTTCTTCT
1 TCTTTTCTTCT
49938527 TAAATTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTTCTTCTCTTTC
Found at i:49938522 original size:22 final size:21
Alignment explanation
Indices: 49938483--49938524 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
49938473 CCATCAACCG
49938483 TTTCTTTTCTTCTCTTTCTCT
1 TTTCTTTTCTTCTCTTTCTCT
49938504 TTTCTTTT-TCTCTCTTT-TCT
1 TTTCTTTTCT-TCTCTTTCTCT
49938524 T
1 T
49938525 CTTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCTTTTCTTCTCTTTCTCT
Found at i:49943957 original size:48 final size:48
Alignment explanation
Indices: 49943847--49944065 Score: 236
Period size: 48 Copynumber: 4.7 Consensus size: 48
49943837 ACGAGATCCC
* * * *
49943847 GTGTAAGACCATGTTTGGGACATGGCATCGGCATCCG-TGATGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGT-TGAT-ATGAGAGCTA
*
49943896 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGAGGGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGAGAGCTA
* * * *
49943944 GTGTATGACCATGTCTGGGACATGGCATCGGCGTTGATATGCGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGAGAGCTA
* ** *
49943992 GTGTAAGACCATATCTGGG--AT---AT-GACGTTGATATGAGATTTC
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGAGAGCTA
* *
49944034 GTTTAAGACCATGTTTGGGACATGGCATCGAC
1 GTGTAAGACCATGTCTGGGACATGGCATCGAC
49944066 ACTGACATGA
Statistics
Matches: 143, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
42 29 0.20
43 2 0.01
44 2 0.01
46 2 0.01
47 2 0.01
48 74 0.52
49 32 0.22
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGAGAGCTA
Found at i:49944053 original size:90 final size:94
Alignment explanation
Indices: 49943847--49944063 Score: 255
Period size: 90 Copynumber: 2.3 Consensus size: 94
49943837 ACGAGATCCC
*
49943847 GTGTAAGACCATGTTTGGGACATGGCATCGGCATCCGTGATGAGAGCTAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTTTGGGACATGGCATCGGCATCCGTGATGAGAGCTAGTGTAAGACCATATCT
*
49943912 GGGACATGGCATCGACGTTGATATGAGGGCTA
66 GGGA-AT-G-ATCGACGTTGATATGAGAGCTA
* * * * * *
49943944 GTGTATGACCATGTCTGGGACATGGCATCGGCGT-TGAT-ATGCGTGCTAGTGTAAGACCATATC
1 GTGTAAGACCATGTTTGGGACATGGCATCGGCATCCG-TGATGAGAGCTAGTGTAAGACCATATC
** *
49944007 TGGG-AT-AT-GACGTTGATATGAGATTTC
65 TGGGAATGATCGACGTTGATATGAGAGCTA
*
49944034 GTTTAAGACCATGTTTGGGACATGGCATCG
1 GTGTAAGACCATGTTTGGGACATGGCATCG
49944064 ACACTGACAT
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
90 42 0.40
91 2 0.02
94 2 0.02
96 27 0.26
97 32 0.30
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (94 bp):
GTGTAAGACCATGTTTGGGACATGGCATCGGCATCCGTGATGAGAGCTAGTGTAAGACCATATCT
GGGAATGATCGACGTTGATATGAGAGCTA
Found at i:49949209 original size:85 final size:85
Alignment explanation
Indices: 49949112--49949278 Score: 325
Period size: 85 Copynumber: 2.0 Consensus size: 85
49949102 ATCATCATAC
*
49949112 TCATAGTACTAAAGTAGGCATAAGCACAACTTACTCATGAATAACTAATGCAATTCACATAGCAT
1 TCATAGTACTAAAGTAGGCATAAGCACAACTTACTCATCAATAACTAATGCAATTCACATAGCAT
49949177 ATATATATTGAGCTCACGTT
66 ATATATATTGAGCTCACGTT
49949197 TCATAGTACTAAAGTAGGCATAAGCACAACTTACTCATCAATAACTAATGCAATTCACATAGCAT
1 TCATAGTACTAAAGTAGGCATAAGCACAACTTACTCATCAATAACTAATGCAATTCACATAGCAT
49949262 ATATATATTGAGCTCAC
66 ATATATATTGAGCTCAC
49949279 TTCAAATAGG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (85 bp):
TCATAGTACTAAAGTAGGCATAAGCACAACTTACTCATCAATAACTAATGCAATTCACATAGCAT
ATATATATTGAGCTCACGTT
Found at i:49949532 original size:47 final size:46
Alignment explanation
Indices: 49949408--49949534 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 46
49949398 AAGGTGTAAT
* *
49949408 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATTAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACTCATCCATCAA
* * * *
49949455 GTCGATGCCAAGTCCCAGACATGATTTTACACTGACT-ATCGAGATCAA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGACTCATC--CATCAA
49949503 GGCCGATG-CATGTCCCAGACATGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGTCTTACACT
49949535 AGCTCTCGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
46 4 0.06
47 39 0.58
48 18 0.27
49 6 0.09
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGACTCATCCATCAA
Found at i:49953589 original size:46 final size:46
Alignment explanation
Indices: 49953459--49953723 Score: 214
Period size: 46 Copynumber: 5.7 Consensus size: 46
49953449 GTGTCGATAC
* *** * *
49953459 CATGTCCCAGACATGGTCTTACATTGGCTCATACCTCAAGTC-GATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCACGTCTCGAGGCTGATG
* * *
49953505 CCATGTCCCAGGCATGGTCTTACACTGACT-ATCATCTCGTA-GCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCA-CGTCTCG-AGGCTGATG
* * *
49953553 CATGTCCCAAACATGTCTAACACTGGCTTACGTCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACGTCTCGAGGCTGATG
* * * * * *
49953599 CATGTCCTAGACATGTCTTACACTAGCTCCCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACGTCTCGAGGCTGATG
* * * *
49953645 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCACGT-CTCGAGGCTGATG
* *
49953693 CAAGTCCCAGACATGTCTTACACTAGCTCAC
1 CATGTCCCAGACATGTCTTACACTGGCTCAC
49953724 ATTCAAATGA
Statistics
Matches: 177, Mismatches: 33, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 78 0.44
47 70 0.40
48 27 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACGTCTCGAGGCTGATG
Found at i:49961810 original size:47 final size:47
Alignment explanation
Indices: 49961703--49962368 Score: 1062
Period size: 47 Copynumber: 14.1 Consensus size: 47
49961693 GAAATGATAG
49961703 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
49961752 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
49961799 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
49961846 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
49961893 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
49961940 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
49961987 TACGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
49962034 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
49962083 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
49962130 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
49962177 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
49962224 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
49962271 TAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
49962318 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
49962365 TAAG
1 TAAG
49962369 TCCCGAAGGG
Statistics
Matches: 590, Mismatches: 25, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 508 0.86
49 82 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:49964122 original size:55 final size:55
Alignment explanation
Indices: 49964038--49964177 Score: 167
Period size: 55 Copynumber: 2.5 Consensus size: 55
49964028 TGCGATATGG
** *
49964038 CCGTGGTC-AAGCCTGCCAAAACAACACGGGCGTACGACACGCCCGTGTGGAAGAA
1 CCGTGGTCGAA-CCTGTTAAAACAACACGGGCGTACGACACGCCCGTGTGGAACAA
* * * *
49964093 CCGTGGGT-GAACCTGTTAAAACAACACGGGCGTGCGACATGCCCTTGTGGAACAC
1 CCGT-GGTCGAACCTGTTAAAACAACACGGGCGTACGACACGCCCGTGTGGAACAA
**
49964148 CCGTGGTCGAACCTGTTAAATTAACACGGG
1 CCGTGGTCGAACCTGTTAAAACAACACGGG
49964178 TGTAAGGCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
54 3 0.04
55 65 0.89
56 5 0.07
ACGTcount: A:0.27, C:0.28, G:0.29, T:0.16
Consensus pattern (55 bp):
CCGTGGTCGAACCTGTTAAAACAACACGGGCGTACGACACGCCCGTGTGGAACAA
Found at i:49970688 original size:42 final size:43
Alignment explanation
Indices: 49970608--49970693 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 43
49970598 AAGTTGTATA
**
49970608 ATGCCAATGTCCCAGATGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAATGTCCCAGATGTGGTCTTACATGTAAACACATATCG
* *
49970651 ATGCCACTGT-CCAGATAG-GGTCTTAC-TCGTAAACACATCTCG
1 ATGCCAATGTCCCAGAT-GTGGTCTTACAT-GTAAACACATATCG
49970693 A
1 A
49970694 AATCACATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.03
42 26 0.70
43 10 0.27
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATGTGGTCTTACATGTAAACACATATCG
Found at i:49975323 original size:42 final size:42
Alignment explanation
Indices: 49975264--49975353 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
49975254 TTCTGAATAC
* *
49975264 TAATGTCTCACACACATAAGAATGAGTAGAACTAGGATCAAT
1 TAATGTCTCACACACATAAGAATAAGTAGAACCAGGATCAAT
49975306 TAATGTCTCACACACATAAGAATAAGTAGAACCAGGATCAAT
1 TAATGTCTCACACACATAAGAATAAGTAGAACCAGGATCAAT
*
49975348 CAATGT
1 TAATGT
49975354 AATTACATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (42 bp):
TAATGTCTCACACACATAAGAATAAGTAGAACCAGGATCAAT
Found at i:49986953 original size:48 final size:48
Alignment explanation
Indices: 49986831--49987000 Score: 159
Period size: 48 Copynumber: 3.5 Consensus size: 48
49986821 ATGAGATCCC
* * * * * *
49986831 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCTGAGATGAGAGCCA
1 GTGTAAGACCATATCTAGGATATGGCATCGGCATCTGATATGA-TGCTA
* *
49986880 GTGTAAGACCATGTCT-GAGAAATGGCATCGGCAT-TGATATGCATGCTA
1 GTGTAAGACCATATCTAG-GATATGGCATCGGCATCTGATATG-ATGCTA
* * * *
49986928 GTGTAAGACCGTATCTAGGATATGGCATCAGCATCAGTATATGAT-TTCA
1 GTGTAAGACCATATCTAGGATATGGCATCGGCATCTG-ATATGATGCT-A
49986977 -TGTAAGACCATATCTAGGATATGG
1 GTGTAAGACCATATCTAGGATATGG
49987001 TGTCGATGTG
Statistics
Matches: 104, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
48 62 0.60
49 37 0.36
50 5 0.05
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATATCTAGGATATGGCATCGGCATCTGATATGATGCTA
Found at i:50007155 original size:93 final size:93
Alignment explanation
Indices: 50006982--50007161 Score: 245
Period size: 93 Copynumber: 1.9 Consensus size: 93
50006972 CCTAATTAGC
* * * *
50006982 AACTCAACTGGTGAACCCTAGCTTGCCAAACCAACTGGTGAACACAACTTGCAATCAATTTGGCA
1 AACTCAACTAGCGAACCCTAGCTCGCCAAACCAACTGGTGAACACAACTTCCAATCAATTTGGCA
* *
50007047 AACCCCTTTACTGATATTCTTTTGGCGA
66 AACCCCTTCACTGATATCCTTTTGGCGA
* * **
50007075 AACTCAACTAGCGAACCCTAGCTCGCCAAACCAACTGGTGAACACAATTTCCAATGAATTTGGTG
1 AACTCAACTAGCGAACCCTAGCTCGCCAAACCAACTGGTGAACACAACTTCCAATCAATTTGGCA
*
50007140 AA-CCCTCTCATTGATATCCTTT
66 AACCCCT-TCACTGATATCCTTT
50007162 CGATGAACCC
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (93 bp):
AACTCAACTAGCGAACCCTAGCTCGCCAAACCAACTGGTGAACACAACTTCCAATCAATTTGGCA
AACCCCTTCACTGATATCCTTTTGGCGA
Found at i:50016773 original size:41 final size:41
Alignment explanation
Indices: 50016667--50016827 Score: 160
Period size: 41 Copynumber: 3.9 Consensus size: 41
50016657 AACACCGCAT
* * * * ***
50016667 AAGGTAAGGCAATAGCGGTGTTTCTCTCATAAACGCCATAA
1 AAGGTAAGGCAATAGTGGCGTTTTTCCCATAAACGCTGCAA
* * *
50016708 AAGGTAAGGCAATAATGACATTTTTCCCATAAACGCTGCAA
1 AAGGTAAGGCAATAGTGGCGTTTTTCCCATAAACGCTGCAA
* * **
50016749 AAGGTAAGGCAATAGTGGCGTTTTTACTATAAACATTGCAA
1 AAGGTAAGGCAATAGTGGCGTTTTTCCCATAAACGCTGCAA
* * * *
50016790 AAAGTAAAGCAATAGTAGCGTCTTTCCCATAAACGCTG
1 AAGGTAAGGCAATAGTGGCGTTTTTCCCATAAACGCTG
50016828 TGAACTTTTA
Statistics
Matches: 95, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (41 bp):
AAGGTAAGGCAATAGTGGCGTTTTTCCCATAAACGCTGCAA
Found at i:50017348 original size:49 final size:50
Alignment explanation
Indices: 50017294--50017394 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
50017284 TTTAGTTATT
50017294 TTAGTTTAATTAATTAAGTT-GCTTTAATTGTCTTTAATTGCTTAAATAA
1 TTAGTTTAATTAATTAAGTTAGCTTTAATTGTCTTTAATTGCTTAAATAA
** * * *
50017343 TTAGTTTAATTAATTAAGTTATTTTTCATTTTCTTTAGTTGCTTAAATAA
1 TTAGTTTAATTAATTAAGTTAGCTTTAATTGTCTTTAATTGCTTAAATAA
50017393 TT
1 TT
50017395 TCGGCAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 20 0.43
50 26 0.57
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (50 bp):
TTAGTTTAATTAATTAAGTTAGCTTTAATTGTCTTTAATTGCTTAAATAA
Found at i:50017459 original size:17 final size:17
Alignment explanation
Indices: 50017437--50017469 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50017427 TTGCTACAAT
50017437 CATTTAACTTGTTTAAA
1 CATTTAACTTGTTTAAA
50017454 CATTTAACTTGTTTAA
1 CATTTAACTTGTTTAA
50017470 TTGTGCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (17 bp):
CATTTAACTTGTTTAAA
Found at i:50021569 original size:29 final size:29
Alignment explanation
Indices: 50021532--50021608 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
50021522 ATTCATATTC
*
50021532 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
50021561 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
50021590 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
50021609 GTCACATTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:50027659 original size:37 final size:37
Alignment explanation
Indices: 50027600--50027701 Score: 159
Period size: 37 Copynumber: 2.8 Consensus size: 37
50027590 AGCTCAGACG
* * *
50027600 AAATCTTCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
50027637 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
50027674 TACTCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
50027702 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:50027898 original size:47 final size:47
Alignment explanation
Indices: 50027820--50028029 Score: 321
Period size: 47 Copynumber: 4.5 Consensus size: 47
50027810 CCCTTCGGGA
* * * * * *
50027820 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50027867 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50027914 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50027961 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50028008 CTTAACACATATATACACTTTC
1 CTTATCACATATATACACTTTC
50028030 CAATGAATAA
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 150 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50029745 original size:33 final size:32
Alignment explanation
Indices: 50029681--50029742 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
50029671 TTCTATGAAC
50029681 TTTTTATATTTTTAATTTTAATTTTGATTTTAT
1 TTTTTATATTTTTAATTTTAATTTT-ATTTTAT
*
50029714 TTTTTAT-TTTTATAATTTTAA-ATTATTTT
1 TTTTTATATTTT-TAATTTTAATTTTATTTT
50029743 TTAATGTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 5 0.19
32 6 0.22
33 16 0.59
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (32 bp):
TTTTTATATTTTTAATTTTAATTTTATTTTAT
Found at i:50029808 original size:14 final size:15
Alignment explanation
Indices: 50029769--50029809 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
50029759 TATTATGTTA
50029769 AATTAT-ATTTTTAT
1 AATTATAATTTTTAT
50029783 AATTATATATTTTTAT
1 AATTATA-ATTTTTAT
*
50029799 -TTTATAATTTT
1 AATTATAATTTT
50029810 AAATTTAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
15 5 0.21
16 8 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTATAATTTTTAT
Found at i:50030846 original size:18 final size:19
Alignment explanation
Indices: 50030815--50030859 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
50030805 AATAAAACAT
*
50030815 AATATAATATTTATCATAGA
1 AATA-AATATTTATCATAAA
50030835 AATAAATA-TTATCATAAA
1 AATAAATATTTATCATAAA
50030853 AATAAAT
1 AATAAAT
50030860 TGATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 16 0.67
19 4 0.17
20 4 0.17
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
AATAAATATTTATCATAAA
Found at i:50036197 original size:27 final size:26
Alignment explanation
Indices: 50036138--50036205 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
50036128 GGGGCATTTC
* *
50036138 AGTCATCTTACCACATAAGGGCAAAA
1 AGTCATTTTACCACATAAGGGAAAAA
* *
50036164 TGATCATTTTATCACATAAGGGAAAAAA
1 AG-TCATTTTACCACATAAGGG-AAAAA
50036192 AGTCATTTTACCAC
1 AGTCATTTTACCAC
50036206 CAATCAGGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.03
27 28 0.82
28 5 0.15
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.26
Consensus pattern (26 bp):
AGTCATTTTACCACATAAGGGAAAAA
Found at i:50051629 original size:23 final size:21
Alignment explanation
Indices: 50051603--50051677 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
50051593 AGGCACTTTA
*
50051603 TGTGTCGTATTTCAGTCACCTCG
1 TGTGTCGTA-TT-AGGCACCTCG
* *
50051626 TGTGCCGTATTAGGCACCTTG
1 TGTGTCGTATTAGGCACCTCG
* * * **
50051647 TGTGTCATTTTAGGCACTTTA
1 TGTGTCGTATTAGGCACCTCG
50051668 TGTGTCGTAT
1 TGTGTCGTAT
50051678 ACCGATCAGG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
21 32 0.76
22 2 0.05
23 8 0.19
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (21 bp):
TGTGTCGTATTAGGCACCTCG
Found at i:50070701 original size:13 final size:13
Alignment explanation
Indices: 50070683--50070709 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50070673 CCATGTGGGC
50070683 CCACACGGGCGTG
1 CCACACGGGCGTG
50070696 CCACACGGGCGTG
1 CCACACGGGCGTG
50070709 C
1 C
50070710 GATAATTCAA
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:0.15, C:0.41, G:0.37, T:0.07
Consensus pattern (13 bp):
CCACACGGGCGTG
Found at i:50075879 original size:45 final size:45
Alignment explanation
Indices: 50075704--50075873 Score: 272
Period size: 45 Copynumber: 3.8 Consensus size: 45
50075694 CCAAATTCAT
* * *
50075704 TCACCGGCATT-TCGTCTGCTAGGCTC-GAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
50075747 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
50075792 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
50075837 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
50075874 TTAGTAATGT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
43 11 0.09
44 12 0.10
45 95 0.81
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:50081712 original size:19 final size:20
Alignment explanation
Indices: 50081669--50081712 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
50081659 ATTGGGCCTT
*
50081669 GCCCATATTAATACATTTGG
1 GCCCATATTAATACAGTTGG
50081689 GCCCAT-TTCAATACAGTT-G
1 GCCCATATT-AATACAGTTGG
50081708 GCCCA
1 GCCCA
50081713 CAACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (20 bp):
GCCCATATTAATACAGTTGG
Found at i:50083685 original size:15 final size:15
Alignment explanation
Indices: 50083648--50083676 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50083638 TTTTCCTATC
50083648 TAATAATAATAATTA
1 TAATAATAATAATTA
50083663 TAATAATAATAATT
1 TAATAATAATAATT
50083677 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:50083811 original size:19 final size:18
Alignment explanation
Indices: 50083774--50083818 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
50083764 ATACATACAG
50083774 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
50083791 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
50083810 TACTAATTT
1 TAATAATTT
50083819 AAATTTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 15 0.62
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:50092388 original size:44 final size:44
Alignment explanation
Indices: 50092340--50092426 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
50092330 AGCCACCAAC
*
50092340 CTTA-TCTCTCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGT
1 CTTATTCTC-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* *
50092384 CTTATTTTCCTGAGGTAGCGAGGGAGCAGACTGAAGATTGTAG
1 CTTATTCTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
50092427 ATTTTGTCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 36 0.92
45 3 0.08
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (44 bp):
CTTATTCTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
Found at i:50092558 original size:178 final size:178
Alignment explanation
Indices: 50092247--50092575 Score: 471
Period size: 178 Copynumber: 1.8 Consensus size: 178
50092237 AGGTGAATTC
** * * * *
50092247 AGATTTTGTCTCCTTGAAATAGCAGTGGAGCAAATCGAAGATGACGAATCTTATCTGCTCGAGGT
1 AGATTTTGTCTCCTCCAAATAGCAGTGGAGCAAATCAAAAATGACAAATCTTATCTGCCCGAGGT
* *
50092312 AGCAGGGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTGAAGA
66 AGCAGGGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAGGGAGAAGGCTGAAGA
*
50092377 TTGTAGTCTTATTTTCCTGAGGTAGCGAGGGAGCAGACTGAAGATTGT
131 TTGTAGTCTTATCTTCCTGAGGTAGCGAGGGAGCAGACTGAAGATTGT
* * * * * *
50092425 AGATTTTGTCTCCTCCAGATAGTAGTGGGGCAGATCAAAAATGACAAATCTTATCTTCCCGATGT
1 AGATTTTGTCTCCTCCAAATAGCAGTGGAGCAAATCAAAAATGACAAATCTTATCTGCCCGAGGT
* * * *
50092490 AGCAGGGGAGCAGATTTTAACCACCAGCCTTATCTTTTTGAGGTAGTAAGGGAGAAGGCT-AGAG
66 AGCAGGGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAGGGAGAAGGCTGA-AG
50092554 ATTGTAGTCTTATCTTCCTGAG
130 ATTGTAGTCTTATCTTCCTGAG
50092576 AAAGATTGTA
Statistics
Matches: 131, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
177 1 0.01
178 130 0.99
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (178 bp):
AGATTTTGTCTCCTCCAAATAGCAGTGGAGCAAATCAAAAATGACAAATCTTATCTGCCCGAGGT
AGCAGGGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAGGGAGAAGGCTGAAGA
TTGTAGTCTTATCTTCCTGAGGTAGCGAGGGAGCAGACTGAAGATTGT
Found at i:50092628 original size:26 final size:26
Alignment explanation
Indices: 50092552--50092628 Score: 127
Period size: 26 Copynumber: 3.0 Consensus size: 26
50092542 AGAAGGCTAG
* *
50092552 AGATTGTAGTCTTATCTTCCTGAGAA
1 AGATTGTAGTCTTATCTTCATGAGGA
*
50092578 AGATTGTAGTCTTATCTTCTTGAGGA
1 AGATTGTAGTCTTATCTTCATGAGGA
50092604 AGATTGTAGTCTTATCTTCATGAGG
1 AGATTGTAGTCTTATCTTCATGAGG
50092629 TAGCAAGGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (26 bp):
AGATTGTAGTCTTATCTTCATGAGGA
Found at i:50092789 original size:230 final size:230
Alignment explanation
Indices: 50092372--50092805 Score: 699
Period size: 230 Copynumber: 1.9 Consensus size: 230
50092362 GGAGCAGGCT
* * *
50092372 GAAGATTGTAGTCTTATTTTCCTGAGGTAGCGAGGGAGCAGACTGAAGATTGTAGATTTTGTCTC
1 GAAGATTGTAGTCTTATCTTCATGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTGTCTC
* * * *
50092437 CTCCAGATAGTAGTGGGGCAGATCAAAAATGACAAATCTTATCTTCCCGATGTAGCAGGGGAGCA
66 CTCCAGATAGCAGTGGGACAGATAAAAAATGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCA
* * *
50092502 GATTTTAACCACCAGCCTTATCTTTTTGAGGTAGTAAGGGAGAAGGCTAGAGATTGTAGTCTTAT
131 GATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGAAGGCTAGAGATTGTAGTCTTAT
50092567 CTTCCTGAGAAAGATTGTAGTCTTATCTTCTTGAG
196 CTTCCTGAGAAAGATTGTAGTCTTATCTTCTTGAG
**
50092602 GAAGATTGTAGTCTTATCTTCATGAGGTAGCAAGGGAGCAGGTTGAAGATTGTAGATTTTGTCTC
1 GAAGATTGTAGTCTTATCTTCATGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTGTCTC
* *
50092667 CTCGAGATAGCAGTGGGACAGATAAAAAATGACAAATCTTATCTTCCCGAGGTAGTAGGGGAGCA
66 CTCCAGATAGCAGTGGGACAGATAAAAAATGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCA
* * *
50092732 GATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCT-GATGATTGTAGTCTTA
131 GATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGAAGGCTAGA-GATTGTAGTCTTA
50092796 TCTTCCTGAG
195 TCTTCCTGAG
50092806 GTAGCAAGGG
Statistics
Matches: 186, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
229 2 0.01
230 184 0.99
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (230 bp):
GAAGATTGTAGTCTTATCTTCATGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTGTCTC
CTCCAGATAGCAGTGGGACAGATAAAAAATGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCA
GATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGAAGGCTAGAGATTGTAGTCTTAT
CTTCCTGAGAAAGATTGTAGTCTTATCTTCTTGAG
Found at i:50092793 original size:44 final size:45
Alignment explanation
Indices: 50092745--50092845 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 45
50092735 TTTAGCCACC
** *
50092745 AGTCTTATCTCT-CTGAGGTAGCAAGGGAGCAGGCTGATGATTGT
1 AGTCTTATCTCTCCTGAGGTAGCAAGGGAGCAAACTGAAGATTGT
50092789 AGTCTTATCT-TCCTGAGGTAGCAAGGGAGCAAACTGAAGATTGT
1 AGTCTTATCTCTCCTGAGGTAGCAAGGGAGCAAACTGAAGATTGT
*
50092833 AGATTTTATCTCT
1 AG-TCTTATCTCT
50092846 TCGAGATAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 1 0.02
44 41 0.82
45 7 0.14
46 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (45 bp):
AGTCTTATCTCTCCTGAGGTAGCAAGGGAGCAAACTGAAGATTGT
Found at i:50092829 original size:178 final size:176
Alignment explanation
Indices: 50092602--50093018 Score: 602
Period size: 178 Copynumber: 2.4 Consensus size: 176
50092592 TCTTCTTGAG
* ** *
50092602 GAAGATTGTAGTCTTATCTTCATGAGGTAGCAAGGGAGCAGGTTGAAGATTGTAGATTTTGTCTC
1 GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTATCTC
*
50092667 CTCGAGATAGCAGT-GGGACAGATAAAAAATGACAAATCTTATCTTCCCGAGGTAGTAGGGGAGC
66 CTCGAGATAGCAGTAGGG-CAGATAAAAAATGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGC
* * **
50092731 AGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCT
130 AGATTTTAGCCACCAGCCTTATCT-T-TAAGGTAGCAAGAAAGCAGGCT
* *
50092780 GATGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAAACTGAAGATTGTAGATTTTATCTC
1 GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTATCTC
* * ** * *
50092845 TTCGAGATAGCAGTAGGGTAGATTGAAAATGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCA
66 CTCGAGATAGCAGTAGGGCAGATAAAAAATGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCA
* * *
50092910 GATTTTAGCCACTAGCCTTATCTTTAAGGTAGCAAGAAAGCTGGTT
131 GATTTTAGCCACCAGCCTTATCTTTAAGGTAGCAAGAAAGCAGGCT
* *
50092956 GAAGATTGTAGTCTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATC
1 GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTATC
50093019 CCCCTAAGCA
Statistics
Matches: 214, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
176 76 0.36
177 1 0.00
178 134 0.63
179 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (176 bp):
GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTATCTC
CTCGAGATAGCAGTAGGGCAGATAAAAAATGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCA
GATTTTAGCCACCAGCCTTATCTTTAAGGTAGCAAGAAAGCAGGCT
Found at i:50092987 original size:44 final size:43
Alignment explanation
Indices: 50092926--50093018 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 43
50092916 AGCCACTAGC
* **
50092926 CTTATCTTTAAGGTAGCAAGAAAGCTGGTTGAAGATTGTAG-T
1 CTTATCTTTAAGGTAGCAAGAAAGCAGACTGAAGATTGTAGAT
**
50092968 CTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
1 CTTATCTT--TAAGGTAGCAAGAAAGCAGACTGAAGATTGTAGAT
50093013 CTTATC
1 CTTATC
50093019 CCCCTAAGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 8 0.19
44 28 0.65
45 7 0.16
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (43 bp):
CTTATCTTTAAGGTAGCAAGAAAGCAGACTGAAGATTGTAGAT
Found at i:50094244 original size:11 final size:11
Alignment explanation
Indices: 50094228--50094259 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
50094218 GCCCGATGAC
50094228 CGAAGCTTGGT
1 CGAAGCTTGGT
50094239 CGAAGCTTGGT
1 CGAAGCTTGGT
50094250 CGAAGCTTGG
1 CGAAGCTTGG
50094260 AAGGCTGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.25
Consensus pattern (11 bp):
CGAAGCTTGGT
Found at i:50096973 original size:21 final size:21
Alignment explanation
Indices: 50096948--50097027 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
50096938 ATTTGAAGGC
*
50096948 CACACACGCCTGTGTGGAGGG
1 CACACACGCCCGTGTGGAGGG
* *
50096969 TACACATGCCCGT-TGGGAGGG
1 CACACACGCCCGTGT-GGAGGG
* *
50096990 CACACACGCCCATGTGGAGTG
1 CACACACGCCCGTGTGGAGGG
* * *
50097011 AACACATGCCCATGTGG
1 CACACACGCCCGTGTGG
50097028 GTAGCCCATT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.16
Consensus pattern (21 bp):
CACACACGCCCGTGTGGAGGG
Found at i:50108122 original size:7 final size:7
Alignment explanation
Indices: 50108112--50108137 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50108102 CATTTGTATT
50108112 AAAATTC
1 AAAATTC
50108119 AAAATTC
1 AAAATTC
50108126 AAAATTC
1 AAAATTC
50108133 AAAAT
1 AAAAT
50108138 ATATAGCGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTC
Done.