Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 188 of 297
Found at i:63613234 original size:17 final size:17
Alignment explanation
Indices: 63613212--63613253 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
63613202 TACTCATATG
**
63613212 GGCCCACACGTCCGTGT
1 GGCCCACACACCCGTGT
63613229 GGCCCACACACCCGTGT
1 GGCCCACACACCCGTGT
63613246 GGCCCACA
1 GGCCCACA
63613254 TGGCCACACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.45, G:0.26, T:0.12
Consensus pattern (17 bp):
GGCCCACACACCCGTGT
Found at i:63623451 original size:27 final size:27
Alignment explanation
Indices: 63623413--63623466 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
63623403 GAAAATTGGT
*
63623413 AGTGTCTACCTAACAAGCAGCACCAAA
1 AGTGCCTACCTAACAAGCAGCACCAAA
* *
63623440 AGTGCCTACCTAACAGGCGGCACCAAA
1 AGTGCCTACCTAACAAGCAGCACCAAA
63623467 GGAAGCAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (27 bp):
AGTGCCTACCTAACAAGCAGCACCAAA
Found at i:63629515 original size:16 final size:16
Alignment explanation
Indices: 63629494--63629526 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
63629484 GATTTACAGG
*
63629494 TAAAATCTAAATATGA
1 TAAAATATAAATATGA
63629510 TAAAATATAAATATGA
1 TAAAATATAAATATGA
63629526 T
1 T
63629527 TTACAGGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAATATAAATATGA
Found at i:63630598 original size:27 final size:27
Alignment explanation
Indices: 63630568--63630622 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
63630558 CAGTATAAAC
63630568 ACATAGCATAATAGATACAAAGGTTGA
1 ACATAGCATAATAGATACAAAGGTTGA
63630595 ACATAGCATAATAGATACAAAGGTTGA
1 ACATAGCATAATAGATACAAAGGTTGA
63630622 A
1 A
63630623 TCTAACATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (27 bp):
ACATAGCATAATAGATACAAAGGTTGA
Found at i:63631487 original size:12 final size:11
Alignment explanation
Indices: 63631459--63631506 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
63631449 GGGTTAAGAG
*
63631459 AAAAACAAAAT
1 AAAAAGAAAAT
63631470 -AAAAGAAAAT
1 AAAAAGAAAAT
*
63631480 AGAAAAGAAAAG
1 A-AAAAGAAAAT
*
63631492 AAAAATAAAAT
1 AAAAAGAAAAT
63631503 AAAA
1 AAAA
63631507 TAAAAACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 9 0.29
11 12 0.39
12 10 0.32
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAGAAAAT
Found at i:63631488 original size:28 final size:27
Alignment explanation
Indices: 63631457--63631512 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
63631447 GTGGGTTAAG
63631457 AGAAAA-ACAAAATAAAAGAAAATAGAAA
1 AGAAAAGA-AAAATAAAAGAAAATA-AAA
*
63631485 AGAAAAGAAAAATAAAATAAAATAAAA
1 AGAAAAGAAAAATAAAAGAAAATAAAA
63631512 A
1 A
63631513 CAATCTGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 21 0.81
29 1 0.04
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (27 bp):
AGAAAAGAAAAATAAAAGAAAATAAAA
Found at i:63642502 original size:26 final size:27
Alignment explanation
Indices: 63642473--63642547 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
63642463 TTGTTAAAGC
63642473 AATT-GTTATCCTTC-AGTCTTTGATGT
1 AATTAGTT-TCCTTCTAGTCTTTGATGT
** *
63642499 AATTAGTTTGTTTCTAGTTTTTGATGT
1 AATTAGTTTCCTTCTAGTCTTTGATGT
**
63642526 AATTAGTTTGTTTCTAGT-TTTG
1 AATTAGTTTCCTTCTAGTCTTTG
63642548 TTTCTTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 12 0.27
27 32 0.73
ACGTcount: A:0.19, C:0.08, G:0.17, T:0.56
Consensus pattern (27 bp):
AATTAGTTTCCTTCTAGTCTTTGATGT
Found at i:63642521 original size:27 final size:27
Alignment explanation
Indices: 63642491--63642546 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
63642481 TCCTTCAGTC
63642491 TTTGATGTAATTAGTTTGTTTCTAGTT
1 TTTGATGTAATTAGTTTGTTTCTAGTT
63642518 TTTGATGTAATTAGTTTGTTTCTAGTT
1 TTTGATGTAATTAGTTTGTTTCTAGTT
63642545 TT
1 TT
63642547 GTTTCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.61
Consensus pattern (27 bp):
TTTGATGTAATTAGTTTGTTTCTAGTT
Found at i:63652418 original size:26 final size:26
Alignment explanation
Indices: 63652380--63652541 Score: 297
Period size: 26 Copynumber: 6.2 Consensus size: 26
63652370 CATGAAATTC
*
63652380 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
63652406 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
63652432 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
63652458 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
63652484 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
63652510 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
63652536 TTATCA
1 TTATCA
63652542 ATTTGTATCA
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 132 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:63655307 original size:22 final size:22
Alignment explanation
Indices: 63655279--63655320 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
63655269 TGAATAAACC
* *
63655279 AAATAAACTTTATTTCTGTAGA
1 AAATAAACTTAATATCTGTAGA
63655301 AAATAAACTTAATATCTGTA
1 AAATAAACTTAATATCTGTA
63655321 AACTGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATAAACTTAATATCTGTAGA
Found at i:63657860 original size:15 final size:15
Alignment explanation
Indices: 63657837--63657896 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
63657827 AACAATACTA
*
63657837 AAAAAATAAATAAAT
1 AAAATATAAATAAAT
* * *
63657852 AAATTATAAACATAT
1 AAAATATAAATAAAT
63657867 AAAATATAAATCAAAT
1 AAAATATAAAT-AAAT
*
63657883 AAAATAAAAATAAA
1 AAAATATAAATAAA
63657897 GATATTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
15 23 0.64
16 13 0.36
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATAAATAAAT
Found at i:63658262 original size:10 final size:10
Alignment explanation
Indices: 63658243--63658282 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
63658233 TGTATGTAAT
63658243 ATAATATATA
1 ATAATATATA
*
63658253 ATAATGTATA
1 ATAATATATA
63658263 ATAATATAATAA
1 ATAATAT-AT-A
63658275 ATAATATA
1 ATAATATA
63658283 CAAAGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
ATAATATATA
Found at i:63658273 original size:25 final size:25
Alignment explanation
Indices: 63658214--63658280 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
63658204 TAATATATAA
63658214 AATAATAT-ATATAGTAA-AATGTAT
1 AATAATATAATATA-TAATAATGTAT
*
63658238 -GTAATATAATATATAATAATGTAT
1 AATAATATAATATATAATAATGTAT
*
63658262 AATAATATAATAAATAATA
1 AATAATATAATATATAATA
63658281 TACAAAGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.24
24 12 0.32
25 16 0.43
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (25 bp):
AATAATATAATATATAATAATGTAT
Found at i:63663619 original size:26 final size:26
Alignment explanation
Indices: 63663582--63663845 Score: 494
Period size: 26 Copynumber: 10.2 Consensus size: 26
63663572 TGATACAAAT
*
63663582 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
63663608 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
63663634 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
63663660 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
63663686 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
63663712 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
63663738 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
63663764 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
63663790 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
63663816 TGATAAT-GGTTTAGGTAAATGTTCCA
1 TGATAATAGG-TTAGGTAAATGTTCCA
63663842 TGAT
1 TGAT
63663846 GGGCATTTCA
Statistics
Matches: 234, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
25 2 0.01
26 232 0.99
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:63668066 original size:60 final size:60
Alignment explanation
Indices: 63667973--63668092 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
63667963 TCATGCCAAG
63667973 ATAGAGATCTATTGCCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
1 ATAGAGATCTATTGCCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
*
63668033 ATAGAGATCTATTGTCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
1 ATAGAGATCTATTGCCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
63668093 GTTCCTGACT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (60 bp):
ATAGAGATCTATTGCCCACCAATCATTTGGGCTTCTTCCTTCTAAATAGAAGAGAAAAAT
Found at i:63670855 original size:19 final size:20
Alignment explanation
Indices: 63670811--63670855 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
63670801 ATATTTTTCA
*
63670811 TATTTTTAACATAATTTAGT
1 TATTTTTAACATAATTTAAT
63670831 TA-TTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
63670849 TATTTTT
1 TATTTTT
63670856 CGACAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:63671459 original size:20 final size:20
Alignment explanation
Indices: 63671426--63671464 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63671416 ATATTTTCAC
*
63671426 ATCGTAATTGAAAATAGAGT
1 ATCGTAATTGAAAACAGAGT
* *
63671446 ATCGTAGTTTAAAACAGAG
1 ATCGTAATTGAAAACAGAG
63671465 CTTTTCAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (20 bp):
ATCGTAATTGAAAACAGAGT
Found at i:63675468 original size:42 final size:43
Alignment explanation
Indices: 63675359--63675470 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
63675349 TTAATCTATT
* * *
63675359 CGAGCTTGTTGAGTGGTCCAAGTTCATGATATGTATGAGATTT
1 CGAGCTTGTTGAGTGGTCCAAGTTCATGAGATATATGAGATTC
* * * *
63675402 TGAACTTGTTGAGTGGCCCAAGTTCATGAGATATGTG-GCA-TC
1 CGAGCTTGTTGAGTGGTCCAAGTTCATGAGATATATGAG-ATTC
*
63675444 CGAGCTTGTTGAGTGGTCCGAGTTCAT
1 CGAGCTTGTTGAGTGGTCCAAGTTCAT
63675471 TATGGATGCG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.34
Consensus pattern (43 bp):
CGAGCTTGTTGAGTGGTCCAAGTTCATGAGATATATGAGATTC
Found at i:63682170 original size:14 final size:14
Alignment explanation
Indices: 63682151--63682179 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
63682141 TTGTTTTTAG
63682151 TCTAATTTTTCTTT
1 TCTAATTTTTCTTT
63682165 TCTAATTTTTCTTT
1 TCTAATTTTTCTTT
63682179 T
1 T
63682180 GTCTGCCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
TCTAATTTTTCTTT
Found at i:63690546 original size:27 final size:28
Alignment explanation
Indices: 63690516--63690570 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
63690506 TTTCTAATTA
* *
63690516 AATTCAATTTTAATCCTTT-TATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
63690543 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
63690571 TATTAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:63690666 original size:24 final size:22
Alignment explanation
Indices: 63690637--63690684 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
63690627 GTCTATAAAT
*
63690637 TATATTATACTATATATTTTTTTA
1 TATATT-T-CTATATATATTTTTA
*
63690661 TATATTTCTTTATATATTTTTA
1 TATATTTCTATATATATTTTTA
63690683 TA
1 TA
63690685 AACTCGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 1 0.05
24 6 0.27
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TATATTTCTATATATATTTTTA
Found at i:63690676 original size:14 final size:12
Alignment explanation
Indices: 63690647--63690681 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
63690637 TATATTATAC
63690647 TATATATTTTTT
1 TATATATTTTTT
*
63690659 TATATATTTCTT
1 TATATATTTTTT
63690671 TATATATTTTT
1 TATATATTTTT
63690682 ATAAACTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TATATATTTTTT
Found at i:63692527 original size:27 final size:28
Alignment explanation
Indices: 63692497--63692551 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
63692487 TTTCTAATTA
* *
63692497 AATTCAATTTTAATCCTTT-TATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
63692524 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
63692552 TATTAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:63692647 original size:24 final size:22
Alignment explanation
Indices: 63692618--63692665 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
63692608 GTCTATAAAT
*
63692618 TATATTATACTATATATTTTTTTA
1 TATATT-T-CTATATATATTTTTA
*
63692642 TATATTTCTTTATATATTTTTA
1 TATATTTCTATATATATTTTTA
63692664 TA
1 TA
63692666 AACTCGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 1 0.05
24 6 0.27
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TATATTTCTATATATATTTTTA
Found at i:63692657 original size:14 final size:12
Alignment explanation
Indices: 63692628--63692662 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
63692618 TATATTATAC
63692628 TATATATTTTTT
1 TATATATTTTTT
*
63692640 TATATATTTCTT
1 TATATATTTTTT
63692652 TATATATTTTT
1 TATATATTTTT
63692663 ATAAACTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TATATATTTTTT
Found at i:63693001 original size:22 final size:22
Alignment explanation
Indices: 63692976--63693018 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
63692966 CTTTCTTATA
*
63692976 TTTTTATATATTATTTATTTTG
1 TTTTTATATACTATTTATTTTG
*
63692998 TTTTTTTATACTATTTATTTT
1 TTTTTATATACTATTTATTTT
63693019 ACTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATATACTATTTATTTTG
Found at i:63697996 original size:31 final size:31
Alignment explanation
Indices: 63697961--63698024 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
63697951 AATTTAAGAG
63697961 AAAGAATTTGGAACTTGAAAAGAAGATAGAA
1 AAAGAATTTGGAACTTGAAAAGAAGATAGAA
*
63697992 AAAGAATTTGGAGCTTGAAAAGAAGATAGAA
1 AAAGAATTTGGAACTTGAAAAGAAGATAGAA
63698023 AA
1 AA
63698025 GCTTGAGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.55, C:0.03, G:0.23, T:0.19
Consensus pattern (31 bp):
AAAGAATTTGGAACTTGAAAAGAAGATAGAA
Found at i:63702182 original size:40 final size:40
Alignment explanation
Indices: 63702145--63702329 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
63702135 GCTACTCGTT
*
63702145 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
63702185 GAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
63702225 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
63702264 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCT
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
63702305 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63702330 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:63710263 original size:40 final size:40
Alignment explanation
Indices: 63710226--63710409 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
63710216 GCTACTCGTT
*
63710226 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
63710266 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
* *
63710306 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * ** *
63710345 CAAATGCCTTC-GGATCTTAGTCCGGATATGGCCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
63710386 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
63710410 ACATCATTCG
Statistics
Matches: 121, Mismatches: 15, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
38 3 0.02
39 29 0.24
40 74 0.61
41 15 0.12
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:63710394 original size:79 final size:81
Alignment explanation
Indices: 63710226--63710410 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
63710216 GCTACTCGTT
* *
63710226 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* * *
63710290 GATTTAGTAACTCGCAC
65 GATATAGCAACTAGCAC
* ** *
63710307 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
63710369 GATATGGCCACTTAGCA-
65 GATATAGCAAC-TAGCAC
63710386 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
63710411 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGCAACTAGCAC
Found at i:63721560 original size:206 final size:207
Alignment explanation
Indices: 63721197--63722063 Score: 1338
Period size: 207 Copynumber: 4.3 Consensus size: 207
63721187 GCAGATCTAG
* * *
63721197 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAATTATAGTT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAATCATAGCT
* *
63721262 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
63721327 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
*
63721392 CAGATGTTTAGA
196 CAGATGTTTATA
*
63721404 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAATCATAGCT
* *
63721468 GATTTGGCTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTTAG
66 GATTTGGCTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
63721533 AGAACAAATTGAAGTTTAGCATCTCCATATTCGACGGAAAGCAGACACATAGCAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
63721598 CAGATGTTTATA
196 CAGATGTTTATA
*
63721610 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAATCATAGCT
*
63721675 GATTTGGCTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAG
66 GATTTGGCTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
63721740 AGAGCAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAACAGACACATAGTAGATCTAGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
63721805 CAGATGTTTATA
196 CAGATGTTTATA
*
63721817 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAAC
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ATCATAGC
* *
63721881 TAATTTGGC--TGA-A-G----C-A-G-A-C----CTAAGATGATTTGGCATCTCTGTATTGTCA
65 TGATTTGGCTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* * * * *
63721930 AAGAACAAATAGAAGTTTGGCGTCTCCATGTTTGACGGAGAGCAGACACATAACAGATCTGGCCT
130 GAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCT
*
63721995 TCAGATGTTTACA
195 TCAGATGTTTATA
*
63722008 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA
63722064 GACATAACTA
Statistics
Matches: 619, Mismatches: 39, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
191 152 0.25
195 1 0.00
196 1 0.00
197 1 0.00
198 1 0.00
199 1 0.00
203 1 0.00
204 1 0.00
205 2 0.00
206 193 0.31
207 264 0.43
208 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (207 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAATCATAGCT
GATTTGGCTTTCACATGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
CAGATGTTTATA
Found at i:63722023 original size:191 final size:190
Alignment explanation
Indices: 63721699--63722135 Score: 705
Period size: 191 Copynumber: 2.3 Consensus size: 190
63721689 ATGTTTACGA
* * *
63721699 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAGCAAATCGAAGTTTGGCGTCT
1 TGAAGCAGACCTAAGATGATTTGGCATCTCTGTATTGTAA-AGAACAAATCGAAGTTTGGCGTCT
** *
63721764 CCATATTCGACGGAGAACAGACACATAGTAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGAT
65 CCATATTCGACGGAGAACAGACACATAACAGATCTAGCCTTCAGATGTTTACACTGAAGCAAGAT
63721829 CCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTAATTTGGC
130 CCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTAATTTGGC
*
63721890 TGAAGCAGACCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATAGAAGTTTGGCGTCT
1 TGAAGCAGACCTAAGATGATTTGGCATCTCTGTATTGT-AAAGAACAAATCGAAGTTTGGCGTCT
* * * *
63721955 CCATGTTTGACGGAGAGCAGACACATAACAGATCTGGCCTTCAGATGTTTACACTGAAGCAAGAT
65 CCATATTCGACGGAGAACAGACACATAACAGATCTAGCCTTCAGATGTTTACACTGAAGCAAGAT
* *
63722020 CCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTAATTTGGG
130 CCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTAATTTGGC
*
63722081 TGAAGCAGACCTAAGATGATTTGGCATTTCTGTATTGTTAGAA-AACAAATCGAAG
1 TGAAGCAGACCTAAGATGATTTGGCATCTCTGTATTG-TA-AAGAACAAATCGAAG
63722136 AAGCAGATTT
Statistics
Matches: 228, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
191 223 0.98
192 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (190 bp):
TGAAGCAGACCTAAGATGATTTGGCATCTCTGTATTGTAAAGAACAAATCGAAGTTTGGCGTCTC
CATATTCGACGGAGAACAGACACATAACAGATCTAGCCTTCAGATGTTTACACTGAAGCAAGATC
CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTAATTTGGC
Found at i:63723643 original size:28 final size:28
Alignment explanation
Indices: 63723612--63723667 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
63723602 TTTCTAATTA
* * *
63723612 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
63723640 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
63723668 TATTAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:63723758 original size:17 final size:17
Alignment explanation
Indices: 63723718--63723759 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
63723708 TTTTATCACA
63723718 TATTTTAT-CTATAAAT
1 TATTTTATACTATAAAT
* *
63723734 TATATTATACTATATAT
1 TATTTTATACTATAAAT
*
63723751 TTTTTTATA
1 TATTTTATA
63723760 TATTTCTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTATACTATAAAT
Found at i:63723763 original size:24 final size:22
Alignment explanation
Indices: 63723734--63723781 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
63723724 ATCTATAAAT
*
63723734 TATATTATACTATATATTTTTTTA
1 TATATT-T-CTATATATATTTTTA
*
63723758 TATATTTCTTTATATATTTTTA
1 TATATTTCTATATATATTTTTA
63723780 TA
1 TA
63723782 AAATTGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 1 0.05
24 6 0.27
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TATATTTCTATATATATTTTTA
Found at i:63723773 original size:14 final size:12
Alignment explanation
Indices: 63723744--63723778 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
63723734 TATATTATAC
63723744 TATATATTTTTT
1 TATATATTTTTT
*
63723756 TATATATTTCTT
1 TATATATTTTTT
63723768 TATATATTTTT
1 TATATATTTTT
63723779 ATAAAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TATATATTTTTT
Found at i:63724101 original size:22 final size:22
Alignment explanation
Indices: 63724076--63724118 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
63724066 CTTTCTTATA
*
63724076 TTTTTATATATTATTTATTTTG
1 TTTTTATATACTATTTATTTTG
*
63724098 TTTTTTTATACTATTTATTTT
1 TTTTTATATACTATTTATTTT
63724119 ACTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATATACTATTTATTTTG
Found at i:63724248 original size:23 final size:23
Alignment explanation
Indices: 63724222--63724274 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
63724212 TATTTTAAAC
63724222 ATTTTTTAATTTATATTGTAGGT
1 ATTTTTTAATTTATATTGTAGGT
*
63724245 A-TTTTTAATTTATATTTTAGGT
1 ATTTTTTAATTTATATTGTAGGT
63724267 ATTTTTTA
1 ATTTTTTA
63724275 TCAATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.64
Consensus pattern (23 bp):
ATTTTTTAATTTATATTGTAGGT
Found at i:63731791 original size:33 final size:33
Alignment explanation
Indices: 63731749--63731815 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
63731739 TTTAAGGAGA
63731749 AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
1 AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
63731782 AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
1 AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
63731815 A
1 A
63731816 TAGAAGTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (33 bp):
AAATATTAAAGGGGGAATGATCTAGTTTGAAGT
Found at i:63737621 original size:14 final size:14
Alignment explanation
Indices: 63737604--63737641 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
63737594 TATAGCAATA
63737604 AAAATATATGTAAT
1 AAAATATATGTAAT
*
63737618 AAAATATATATAAT
1 AAAATATATGTAAT
*
63737632 ACAATATATG
1 AAAATATATG
63737642 AAGAACGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (14 bp):
AAAATATATGTAAT
Found at i:63737829 original size:7 final size:7
Alignment explanation
Indices: 63737801--63737905 Score: 58
Period size: 7 Copynumber: 15.0 Consensus size: 7
63737791 TACTAAAAAC
63737801 ATATAAT
1 ATATAAT
63737808 ATA-AAT
1 ATATAAT
63737814 ATA-AAT
1 ATATAAT
63737820 ATATAAT
1 ATATAAT
63737827 ATATAAT
1 ATATAAT
*
63737834 AAAT-AT
1 ATATAAT
*
63737840 ATGATAAAA
1 AT-AT-AAT
*
63737849 ATTAAAAAT
1 A-T-ATAAT
*
63737858 GTATAAT
1 ATATAAT
63737865 AATATAAT
1 -ATATAAT
* *
63737873 AGATAAA
1 ATATAAT
*
63737880 ATATAGT
1 ATATAAT
63737887 A-A-AAT
1 ATATAAT
*
63737892 AAATAAT
1 ATATAAT
63737899 ATATAAT
1 ATATAAT
63737906 GAAAATACAT
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
5 3 0.04
6 17 0.23
7 41 0.55
8 7 0.09
9 4 0.05
10 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (7 bp):
ATATAAT
Found at i:63737882 original size:17 final size:16
Alignment explanation
Indices: 63737745--63737919 Score: 61
Period size: 15 Copynumber: 10.9 Consensus size: 16
63737735 TAAATTTATA
*
63737745 AATAAAAT-GTATAAT
1 AATAAAATAATATAAT
*
63737760 AATATGAATAATATAAT
1 AATA-AAATAATATAAT
* * *
63737777 TATAGAATAATAT-GT
1 AATAAAATAATATAAT
*
63737792 ACTAAAA-ACATATAAT
1 AATAAAATA-ATATAAT
63737808 -ATAAATATAA-ATATAT
1 AATAAA-ATAATATA-AT
63737824 AATATATAATAAATATATGAT
1 AATA-A-AAT-AATATA--AT
*
63737845 AA-AAATTAA-A-AAT
1 AATAAAATAATATAAT
* *
63737858 -GTATAATAATATAAT
1 AATAAAATAATATAAT
63737873 AGATAAAAT-ATAGTAA-
1 A-ATAAAATAATA-TAAT
63737889 AAT-AAATAATAT-AT
1 AATAAAATAATATAAT
63737903 AATGAAAATACATATAA
1 AAT-AAAATA-ATATAA
63737920 CATATAGTAA
Statistics
Matches: 119, Mismatches: 16, Indels: 47
0.65 0.09 0.26
Matches are distributed among these distances:
13 8 0.07
14 10 0.08
15 29 0.24
16 27 0.23
17 27 0.23
18 6 0.05
19 4 0.03
20 4 0.03
21 4 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATAAT
Found at i:63737891 original size:41 final size:41
Alignment explanation
Indices: 63737808--63737905 Score: 98
Period size: 41 Copynumber: 2.4 Consensus size: 41
63737798 AACATATAAT
*
63737808 ATAAAT-ATAAATATATAATATATAATAAATATATGATAAAA
1 ATAAATAATATATA-ATAATATATAATAAATATATGATAAAA
*
63737849 ATTAAA-AATGTATAATAATATAATAGATAAA-ATAT-AGT-AAA
1 A-TAAATAATATATAATAATAT-ATA-ATAAATATATGA-TAAAA
63737890 ATAAATAATATATAAT
1 ATAAATAATATATAAT
63737906 GAAAATACAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
40 4 0.08
41 22 0.46
42 17 0.35
43 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (41 bp):
ATAAATAATATATAATAATATATAATAAATATATGATAAAA
Found at i:63748215 original size:15 final size:16
Alignment explanation
Indices: 63748191--63748220 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63748181 TTTTTATTCT
63748191 TTTTACTTTTTTTGAC
1 TTTTACTTTTTTTGAC
63748207 TTTTA-TTTTTTTGA
1 TTTTACTTTTTTTGA
63748221 GAACAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTACTTTTTTTGAC
Found at i:63749247 original size:18 final size:18
Alignment explanation
Indices: 63749191--63749249 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
63749181 TGAAGAGAAA
* * *
63749191 AAAAATAAAACAACTAAA
1 AAAAATAAAAAAAATAAT
*
63749209 AAAAATTAAAAAGAAA-GAT
1 AAAAA-TAAAAA-AAATAAT
63749228 AAAAATAAAAAAAATAAT
1 AAAAATAAAAAAAATAAT
63749246 AAAA
1 AAAA
63749250 TAATAATAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 3 0.09
18 17 0.52
19 11 0.33
20 2 0.06
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAATAAAAAAAATAAT
Found at i:63749356 original size:22 final size:22
Alignment explanation
Indices: 63749308--63749367 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
63749298 ATGATAATAG
*
63749308 TAAAAAAATAGGAAAGAAAAAA
1 TAAAAAAATAGAAAAGAAAAAA
* *
63749330 GAAAAAAATAGAAATAG-CAAAA
1 TAAAAAAATAGAAA-AGAAAAAA
*
63749352 TAAAAATAATAAAAAA
1 TAAAAA-AATAGAAAA
63749368 TAATAAAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.12
Consensus pattern (22 bp):
TAAAAAAATAGAAAAGAAAAAA
Found at i:63749470 original size:15 final size:15
Alignment explanation
Indices: 63749440--63749468 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63749430 AATTAATTAC
63749440 TAAAATAAAAATAAA
1 TAAAATAAAAATAAA
63749455 TAAAAT-AAAATAAA
1 TAAAATAAAAATAAA
63749469 ATTGGGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAATAAAAATAAA
Found at i:63751249 original size:18 final size:18
Alignment explanation
Indices: 63751222--63751258 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
63751212 CATCTTCTTG
*
63751222 TCTCAGTTTTGGTTCATC
1 TCTCAATTTTGGTTCATC
63751240 TCTCAATTTTGGTTCATC
1 TCTCAATTTTGGTTCATC
63751258 T
1 T
63751259 TTAACTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (18 bp):
TCTCAATTTTGGTTCATC
Found at i:63755926 original size:18 final size:18
Alignment explanation
Indices: 63755905--63755953 Score: 84
Period size: 16 Copynumber: 2.8 Consensus size: 18
63755895 AAAGCAAAAT
63755905 AAAAATTAAAATATATAA
1 AAAAATTAAAATATATAA
63755923 AAAAATT-AAA-ATATAA
1 AAAAATTAAAATATATAA
63755939 AAAAATTAAAATATA
1 AAAAATTAAAATATA
63755954 AGTATAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.45
17 6 0.21
18 10 0.34
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATTAAAATATATAA
Found at i:63756031 original size:22 final size:20
Alignment explanation
Indices: 63755886--63756038 Score: 71
Period size: 20 Copynumber: 7.5 Consensus size: 20
63755876 AAAAAAGAAA
**
63755886 AAAATAAAAA-AAGCAAAAT
1 AAAATAAAAATAAATAAAAT
* *
63755905 AAAAATTAAAATATATAAAA-
1 -AAAATAAAAATAAATAAAAT
*
63755925 AAATTAAAATATAAA-AAAATT
1 AAAATAAAA-ATAAATAAAA-T
* * *
63755946 AAAATATAAGTATAAGAATAAT
1 AAAATAAAAATA-AATAA-AAT
* * * * *
63755968 AAATTAATTAATTAAT-TAGT
1 AAAATAA-AAATAAATAAAAT
**
63755988 AAAATAAAAATAAATACTAT
1 AAAATAAAAATAAATAAAAT
63756008 AACAATTAAAAATAAATAAAAT
1 AA-AA-TAAAAATAAATAAAAT
63756030 AAAATAAAA
1 AAAATAAAA
63756039 TTGGGGTAAT
Statistics
Matches: 96, Mismatches: 26, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
19 17 0.18
20 31 0.32
21 18 0.19
22 26 0.27
23 4 0.04
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAATAAAAATAAATAAAAT
Found at i:63769648 original size:15 final size:15
Alignment explanation
Indices: 63769628--63769657 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63769618 AAAAAAATAG
*
63769628 GCGTCCCTAACATCT
1 GCGTCCCCAACATCT
63769643 GCGTCCCCAACATCT
1 GCGTCCCCAACATCT
63769658 TTCATCCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.43, G:0.13, T:0.23
Consensus pattern (15 bp):
GCGTCCCCAACATCT
Found at i:63769773 original size:14 final size:16
Alignment explanation
Indices: 63769740--63769776 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
63769730 TGCCATTGAC
63769740 ATATAGAACTAGAAAT
1 ATATAGAACTAGAAAT
63769756 ATATAGAACTAGAAAT
1 ATATAGAACTAGAAAT
63769772 ATATA
1 ATATA
63769777 CTTACTCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (16 bp):
ATATAGAACTAGAAAT
Found at i:63797634 original size:127 final size:127
Alignment explanation
Indices: 63797408--63797663 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 127
63797398 TTCGATACAG
63797408 AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
1 AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
63797473 TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCCA
66 TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCCA
63797535 AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
1 AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
*
63797600 TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTGTGTGTACGAGATTCCCA
66 TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCCA
63797662 AG
1 AG
63797664 TATCCTTTAG
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (127 bp):
AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCCA
Found at i:63809122 original size:75 final size:75
Alignment explanation
Indices: 63809026--63809165 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 75
63809016 TTGGCCGCTG
63809026 TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTAC-GATGAGAAGTGCACCATCTACACTGA
1 TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACAG-TGAGAAGTGCACCATCTACACTGA
63809090 TAAAAAAGCCT
65 TAAAAAAGCCT
** * * *
63809101 TAGTTTTCGTTTTGAAAATCTGGAGGCACTACCTGTACAGTGAGAAGTGTACTATCTACACTGAT
1 TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACAGTGAGAAGTGCACCATCTACACTGAT
63809166 CACGAAAGTC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 58 0.98
76 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (75 bp):
TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACAGTGAGAAGTGCACCATCTACACTGAT
AAAAAAGCCT
Found at i:63823682 original size:15 final size:16
Alignment explanation
Indices: 63823656--63823685 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63823646 TTCTATTCTC
63823656 AAAATAAAAATAAATT
1 AAAATAAAAATAAATT
63823672 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
63823686 ATTTTAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAAAAATAAATT
Found at i:63826552 original size:22 final size:22
Alignment explanation
Indices: 63826527--63826568 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
63826517 ATCTTTAAAA
*
63826527 TAATTAAAATT-TATAAAATAGT
1 TAATAAAAATTCTA-AAAATAGT
63826549 TAATAAAAATTCTAAAAATA
1 TAATAAAAATTCTAAAAATA
63826569 TTCTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TAATAAAAATTCTAAAAATAGT
Found at i:63826564 original size:9 final size:9
Alignment explanation
Indices: 63826531--63826634 Score: 54
Period size: 10 Copynumber: 11.1 Consensus size: 9
63826521 TTAAAATAAT
*
63826531 TAAAATTTA
1 TAAAAATTA
63826540 TAAAATAGTTAA
1 TAAAA-A-TT-A
*
63826552 TAAAAATTC
1 TAAAAATTA
*
63826561 TAAAAATATTC
1 T-AAAA-ATTA
63826572 TAAAAA-TA
1 TAAAAATTA
63826580 TAAAAATTA
1 TAAAAATTA
63826589 TAAACAATT-
1 TAAA-AATTA
* *
63826598 TCCAAAATAA
1 T-AAAAATTA
*
63826608 TAAAAATATT
1 TAAAAAT-TA
63826618 TAAAAA-TA
1 TAAAAATTA
63826626 T-AAAATTA
1 TAAAAATTA
63826634 T
1 T
63826635 TAGTAAACGA
Statistics
Matches: 75, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
7 4 0.05
8 12 0.16
9 22 0.29
10 23 0.31
11 8 0.11
12 6 0.08
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:63826583 original size:28 final size:28
Alignment explanation
Indices: 63826549--63826626 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
63826539 ATAAAATAGT
*
63826549 TAATAAAAATTCTAAAAATATTCTAAAAA
1 TAATAAAAATTATAAAAATATTC-AAAAA
*
63826578 T-ATAAAAATTATAAACAAT-TTCCAAAA
1 TAATAAAAATTATAAA-AATATTCAAAAA
*
63826605 TAATAAAAATATTTAAAAATAT
1 TAATAAAAAT-TATAAAAATAT
63826627 AAAATTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
27 5 0.12
28 27 0.64
29 10 0.24
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATAAAAATTATAAAAATATTCAAAAA
Found at i:63826628 original size:18 final size:18
Alignment explanation
Indices: 63826572--63826635 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
63826562 AAAAATATTC
63826572 TAAAAATA--TAAAAATTA
1 TAAAAATATTTAAAAA-TA
**
63826589 TAAACAAT-TTCCAAAATAA
1 TAAA-AATATTTAAAAAT-A
63826608 TAAAAATATTTAAAAATA
1 TAAAAATATTTAAAAATA
*
63826626 TAAAATTATT
1 TAAAAATATT
63826636 AGTAAACGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
17 4 0.11
18 17 0.46
19 16 0.43
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATATTTAAAAATA
Found at i:63827768 original size:23 final size:24
Alignment explanation
Indices: 63827737--63827783 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
63827727 CATTAGTTAC
*
63827737 ATATGTGTCGTATGC-CAAATATT
1 ATATGTGTCATATGCTCAAATATT
*
63827760 ATATTTGTCATATGCTCAAATATT
1 ATATGTGTCATATGCTCAAATATT
63827784 TTGTTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (24 bp):
ATATGTGTCATATGCTCAAATATT
Found at i:63833981 original size:49 final size:48
Alignment explanation
Indices: 63833876--63834051 Score: 167
Period size: 49 Copynumber: 3.6 Consensus size: 48
63833866 TGATGTGTGT
** *
63833876 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCAATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCG-GCCCAAGAGATGAGA
* * * * *
63833925 GCCAGTGTAAGACCTATCTGGGACACGGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCC-CAAGAGATG-AGA
* *
63833974 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-AGATAAGTGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCCAAGA-GA-TGAGA
* * * *
63834023 GCCAATGCAAGACCTGTCTAGGACATGGC
1 GCTAGTGTAAGACCTGTCTGGGACATGGC
63834052 GTCAGCCTCG
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
47 3 0.03
48 4 0.04
49 97 0.92
50 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (48 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCCAAGAGATGAGA
Found at i:63834047 original size:98 final size:98
Alignment explanation
Indices: 63833876--63834103 Score: 275
Period size: 98 Copynumber: 2.3 Consensus size: 98
63833866 TGATGTGTGT
* *
63833876 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCAATAGATGAGAGCCAGTGTAAGACCTA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCAATAGATGAGAGCCAATGCAAGACCTA
* *
63833941 TCTGGGACACGGCATCGGCCTCGA-GATATGCAA
66 TCTAGGACACGGCATCAGCCTCGATG-TATGCAA
**
63833974 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCA-CAGATA-AGTGAGAGCCAATGCAAGACC
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCA-ATAGA-TGAGAGCCAATGCAAGACC
* * * *
63834037 TGTCTAGGACATGGCGTCAGCCTCGATGTATGGAA
64 TATCTAGGACACGGCATCAGCCTCGATGTATGCAA
* **
63834072 G-TCAGTGTAAGACCTATCTCAGACATGGCATC
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATC
63834104 AACTTAGATG
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
97 4 0.04
98 108 0.96
99 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (98 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCAATAGATGAGAGCCAATGCAAGACCTA
TCTAGGACACGGCATCAGCCTCGATGTATGCAA
Found at i:63834084 original size:49 final size:47
Alignment explanation
Indices: 63833927--63834103 Score: 144
Period size: 49 Copynumber: 3.6 Consensus size: 47
63833917 AGATGAGAGC
* * *
63833927 CAGTGTAAGACCTATCTGGGACACGGCATCGGCCTCGAGATATGCAAG
1 CAGTGTAAGACCTATCTAGGACATGGCATC-GCCTCGAGATATGGAAG
* * * * *
63833975 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-AGATAAGTGAGAG
1 C-AGTGTAAGACCTATCTAGGACATGGCATCGCCTCGAGATATG-GA-AG
* * * *
63834024 CCAATGCAAGACCTGTCTAGGACATGGCGTCAGCCTCGATG-TATGGAAG
1 -CAGTGTAAGACCTATCTAGGACATGGCATC-GCCTCGA-GATATGGAAG
63834073 TCAGTGTAAGACCTATCTCA-GACATGGCATC
1 -CAGTGTAAGACCTATCT-AGGACATGGCATC
63834104 AACTTAGATG
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
47 6 0.06
48 5 0.05
49 80 0.78
50 7 0.07
51 4 0.04
52 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (47 bp):
CAGTGTAAGACCTATCTAGGACATGGCATCGCCTCGAGATATGGAAG
Found at i:63835617 original size:26 final size:26
Alignment explanation
Indices: 63835570--63835630 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
63835560 ATATTTTTCA
63835570 CAAAATTTTATCAAGGGAAAAATCGT
1 CAAAATTTTATCAAGGGAAAAATCGT
* * *
63835596 TAAATTTTTAT-AATGGGTAAAATCGT
1 CAAAATTTTATCAA-GGGAAAAATCGT
63835622 CAAAATTTT
1 CAAAATTTT
63835631 GTTGAGGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (26 bp):
CAAAATTTTATCAAGGGAAAAATCGT
Found at i:63841240 original size:16 final size:16
Alignment explanation
Indices: 63841213--63841250 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
63841203 CTAATCGAGA
63841213 AAGAAG-AAAACGAAG
1 AAGAAGAAAAACGAAG
*
63841228 GAGAAGAAAAACGAAG
1 AAGAAGAAAAACGAAG
63841244 AAGAAGA
1 AAGAAGA
63841251 GAAGTTCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.66, C:0.05, G:0.29, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAAACGAAG
Found at i:63842050 original size:63 final size:63
Alignment explanation
Indices: 63841951--63842076 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
63841941 AACATGCGTA
* *
63841951 GGATCAGAGCGGTAGCGTCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
1 GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
* *
63842014 GGATCAGAGCAGTAGCATCTCAACATTGAGACGTGGAACACATCATGTATCCGGTCTAACTCT
1 GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
63842077 AGAGGTAGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (63 bp):
GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
Found at i:63849608 original size:13 final size:14
Alignment explanation
Indices: 63849570--63849623 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 14
63849560 ACAACTAATC
63849570 GAAAAAGAAGAAAA
1 GAAAAAGAAGAAAA
**
63849584 TGAAGGAGAAGAAAA
1 -GAAAAAGAAGAAAA
* *
63849599 G-CAAAGAAGAAGA
1 GAAAAAGAAGAAAA
63849612 GAAAAAGAAGAA
1 GAAAAAGAAGAA
63849624 GAAAAGTTCG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 9 0.29
14 10 0.32
15 12 0.39
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.02
Consensus pattern (14 bp):
GAAAAAGAAGAAAA
Found at i:63855715 original size:9 final size:9
Alignment explanation
Indices: 63855697--63855728 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
63855687 AAATTTAGAG
*
63855697 TTCTTTTAT
1 TTCTTCTAT
63855706 TTCTTCTAT
1 TTCTTCTAT
63855715 TTCTTCTAT
1 TTCTTCTAT
63855724 TTCTT
1 TTCTT
63855729 TGTTCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (9 bp):
TTCTTCTAT
Found at i:63867924 original size:30 final size:30
Alignment explanation
Indices: 63867888--63867950 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
63867878 ACTTAACGAG
63867888 CAAATGCCTCTAAAATAATAA-AAAATTTAA
1 CAAATGCCTCTAAAATAATAACAAAA-TTAA
*
63867918 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
63867948 CAA
1 CAA
63867951 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:63869859 original size:40 final size:40
Alignment explanation
Indices: 63869786--63870008 Score: 351
Period size: 40 Copynumber: 5.6 Consensus size: 40
63869776 ACCCAAGTAT
* * *
63869786 CTTCGAAATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
63869825 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
63869865 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
63869905 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
63869945 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
63869985 CTCCGGGACTTAGCCCGGGTATAG
1 CTTCGAGACTTAGCCCGGATATAG
63870009 CAACTACTCG
Statistics
Matches: 172, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 9 0.05
40 162 0.94
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:63873330 original size:43 final size:43
Alignment explanation
Indices: 63873278--63873366 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
63873268 TTATTTAGTG
63873278 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
1 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
63873321 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
1 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
63873364 ATT
1 ATT
63873367 CGAACCTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (43 bp):
ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
Found at i:63873773 original size:46 final size:46
Alignment explanation
Indices: 63873621--63873828 Score: 222
Period size: 46 Copynumber: 4.5 Consensus size: 46
63873611 GGGTTAATGT
* * * **
63873621 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
* * *
63873667 GAGCCCGTGTAAGACCATGTCTGGGACATTGCATCGGCATCGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCAAGATGA
* * * *
63873715 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-A
*
63873762 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGA
* *
63873807 TAGTCAGTGTAAGACCATGTCT
1 GAGCCAGTGTAAGA-CATGTCT
63873829 AAGACATGGC
Statistics
Matches: 135, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
45 3 0.02
46 74 0.55
47 34 0.25
48 24 0.18
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
Found at i:63873851 original size:47 final size:48
Alignment explanation
Indices: 63873762--63873888 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 48
63873752 TCAAGACGTA
* **
63873762 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGAT-ATG
* * *
63873808 AGTCAGTGTAAGACCATGTCTAAGACATGGCATCAACT-TGAGATATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGATATG
* *
63873855 AGCCAATATAAGACCATGTCTAGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATC
63873889 GGCACCTTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 14 0.21
47 47 0.69
48 7 0.10
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGATATG
Found at i:63873881 original size:140 final size:140
Alignment explanation
Indices: 63873626--63873883 Score: 317
Period size: 140 Copynumber: 1.8 Consensus size: 140
63873616 AATGTGAGCT
* * **
63873626 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGAGAGCCCGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATGATGAGAGCCAGTGTAAGACCATGTCTAA
* ** * * * * *
63873691 GACATTGCATCGGCATCGAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAA
66 GACATGGCATCAACATCGAGATGAGAGCCAATATAAGACATGTCTAGGACATGCATTGGCCTCAA
63873756 GACGTAAGCC
131 GACGTAAGCC
* *
63873766 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGA-GATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGGC-AC-ATGATGAGAGCCAGTGTAAGACCATGTCT
*
63873829 AAGACATGGCATCAAC-TTGAGAT-ATGAGCCAATATAAGACCATGTCTAGGACATG
64 AAGACATGGCATCAACATCGAGATGA-GAGCCAATATAAGA-CATGTCTAGGACATG
63873884 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
138 1 0.01
139 19 0.19
140 78 0.79
141 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGGCACATGATGAGAGCCAGTGTAAGACCATGTCTAA
GACATGGCATCAACATCGAGATGAGAGCCAATATAAGACATGTCTAGGACATGCATTGGCCTCAA
GACGTAAGCC
Found at i:63875453 original size:14 final size:14
Alignment explanation
Indices: 63875434--63875465 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
63875424 AGGTCATTTA
63875434 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
63875448 GCCCAACCAAACTG
1 GCCCAACCAAACGG
63875462 GCCC
1 GCCC
63875466 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:63876033 original size:43 final size:44
Alignment explanation
Indices: 63875966--63876094 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 44
63875956 TGACACTAGG
* * * *
63875966 ATGTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGT
1 ATGTGCAGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
* * ** *
63876010 AT-TGCAGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCG-
1 ATGTGCAGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
*
63876051 ATGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
1 ATGTGCAGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
63876095 CGTGCGGGGG
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.03
42 31 0.46
43 32 0.48
44 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.18
Consensus pattern (44 bp):
ATGTGCAGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
Found at i:63878285 original size:5 final size:5
Alignment explanation
Indices: 63878275--63878346 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
63878265 TGTTAAAAAA
* *
63878275 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
63878321 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
63878347 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:63878328 original size:19 final size:19
Alignment explanation
Indices: 63878304--63878346 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
63878294 ATTATGTTTT
63878304 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
63878323 TATATTATATTATATTATA
1 TATATTATATTATATTATA
63878342 TATAT
1 TATAT
63878347 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:63878378 original size:17 final size:17
Alignment explanation
Indices: 63878356--63878389 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63878346 TACATAAAAC
*
63878356 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
63878373 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
63878390 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:63878385 original size:9 final size:9
Alignment explanation
Indices: 63878356--63878389 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
63878346 TACATAAAAC
63878356 AAAAGAAAG
1 AAAAGAAAG
*
63878365 AATAGAAA-
1 AAAAGAAAG
63878373 AAAAGAAAG
1 AAAAGAAAG
63878382 AAAAGAAA
1 AAAAGAAA
63878390 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:63878939 original size:42 final size:43
Alignment explanation
Indices: 63878866--63878982 Score: 155
Period size: 43 Copynumber: 2.7 Consensus size: 43
63878856 ATAAGNGCAG
* *
63878866 CATCGGCACCTCGGTGGCTAGGAGGTGCGGGAGCCTCGGACA-C
1 CATCGGCACCTTGGT-GCTAGGATGTGCGGGAGCCTCGGACACC
* * *
63878909 CATCGGCAACTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACC
1 CATCGGCACCTTGGTGCTAGGATGTGCGGGAGCCTCGGACACC
*
63878952 CATCGGCACCTTGGTGCCTGGGATGTGCGGG
1 CATCGGCACCTTGGTG-CTAGGATGTGCGGG
63878983 CTAAAGAAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 23 0.35
43 29 0.45
44 13 0.20
ACGTcount: A:0.14, C:0.28, G:0.39, T:0.19
Consensus pattern (43 bp):
CATCGGCACCTTGGTGCTAGGATGTGCGGGAGCCTCGGACACC
Found at i:63886987 original size:42 final size:42
Alignment explanation
Indices: 63886883--63887054 Score: 186
Period size: 42 Copynumber: 4.0 Consensus size: 42
63886873 GAGCCTCCAT
* *
63886883 CACCTTGGTGGCTTGGATGTGTGGGAGCCTC-AGACACCATCGG
1 CACCTTGGT-GCATGGATGTGCGGGAGCCTCGA-ACACCATCGG
* * *
63886926 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAACACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAACACCATCGG
* * *
63886969 CACCTTGGTGCATGGATGTGCGGGAGCATCGGACACCATTGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAACACCATCGG
* * * *
63887011 CACCTCGGTGTTAT-GATGTGCGGGAGCCTCGGACACTATCGG
1 CACCTTGGTG-CATGGATGTGCGGGAGCCTCGAACACCATCGG
63887053 CA
1 CA
63887055 ACCTAGGCCC
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
42 72 0.64
43 32 0.29
44 8 0.07
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.23
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAACACCATCGG
Found at i:63887052 original size:84 final size:86
Alignment explanation
Indices: 63886883--63887054 Score: 215
Period size: 84 Copynumber: 2.0 Consensus size: 86
63886873 GAGCCTCCAT
* * * *
63886883 CACCTTGGTGGCTTGGATGTGTGGGAGCCTCAGACACCATCGGTAACCTTGATGCTTGGATGTGC
1 CACCTTGGTGGCATGGATGTGCGGGAGCATCAGACACCATCGGTAACCTCGATGCTTGGATGTGC
63886948 GGGAGCCTCGAACACCATCGG
66 GGGAGCCTCGAACACCATCGG
* * * * *
63886969 CACCTTGGT-GCATGGATGTGCGGGAGCATCGGACACCATTGG-CACCTCGGTG-TTATGATGTG
1 CACCTTGGTGGCATGGATGTGCGGGAGCATCAGACACCATCGGTAACCTCGATGCTT-GGATGTG
* *
63887031 CGGGAGCCTCGGACACTATCGG
65 CGGGAGCCTCGAACACCATCGG
63887053 CA
1 CA
63887055 ACCTAGGCCC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
83 2 0.03
84 35 0.47
85 28 0.38
86 9 0.12
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.23
Consensus pattern (86 bp):
CACCTTGGTGGCATGGATGTGCGGGAGCATCAGACACCATCGGTAACCTCGATGCTTGGATGTGC
GGGAGCCTCGAACACCATCGG
Found at i:63887552 original size:17 final size:17
Alignment explanation
Indices: 63887530--63887563 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
63887520 TTGCGAATCT
63887530 ATAGGCTGCCGGATTTG
1 ATAGGCTGCCGGATTTG
63887547 ATAGGCTGCCGGATTTG
1 ATAGGCTGCCGGATTTG
63887564 GTCCTGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (17 bp):
ATAGGCTGCCGGATTTG
Found at i:63898620 original size:49 final size:49
Alignment explanation
Indices: 63898395--63898632 Score: 269
Period size: 49 Copynumber: 4.8 Consensus size: 49
63898385 TGAGGTCATG
* * *
63898395 TGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACA
* * * * * *
63898444 CGTGTAGTACTAAGTGCAAGCTACTATGTATACCTGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA--TTGGTCACA
* * * ** *
63898495 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGTCACA
* * *
63898545 TGTGTAGTACTAAGTGCTGGCTACTATGTCTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACA
* *
63898594 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
63898633 GCTTTGGCTA
Statistics
Matches: 154, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 76 0.49
50 40 0.26
51 38 0.25
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACA
Found at i:63900653 original size:22 final size:26
Alignment explanation
Indices: 63900623--63900671 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 26
63900613 TACATGTGTA
63900623 TATTCTTTATATA-GT-AT-TATTAT
1 TATTCTTTATATATGTCATATATTAT
63900646 TATT-TTTATATATGTCATATATTAT
1 TATTCTTTATATATGTCATATATTAT
63900671 T
1 T
63900672 GTACTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 6 0.26
24 2 0.09
25 7 0.30
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TATTCTTTATATATGTCATATATTAT
Found at i:63907017 original size:43 final size:43
Alignment explanation
Indices: 63906913--63907009 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
63906903 TGTGATTTCG
* * * *
63906913 TGTAAGACCATGTCTGGGACACTGGCATCAATGTGAGATTACA
1 TGTAAGACCATGTCTGGGACACAGGAATCAATATGAGATAACA
* * *
63906956 TGTAAGACCCTGTCTGGGACAGAGGAATCAATATGTGATAACA
1 TGTAAGACCATGTCTGGGACACAGGAATCAATATGAGATAACA
63906999 TGTAAGACCAT
1 TGTAAGACCAT
63907010 ATATGGGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGAATCAATATGAGATAACA
Found at i:63907825 original size:31 final size:31
Alignment explanation
Indices: 63907790--63907897 Score: 162
Period size: 31 Copynumber: 3.5 Consensus size: 31
63907780 CAGCATATAA
*
63907790 TGGGCCGAAGCCTTTGCATTATTCATATCAC
1 TGGGCCGAAGCCTTTTCATTATTCATATCAC
* *
63907821 TGGGCCGAAGACTTTTCATTATTCATATCTC
1 TGGGCCGAAGCCTTTTCATTATTCATATCAC
*
63907852 TGGGCCGAAGTCTTTTCATTATTCATATCAC
1 TGGGCCGAAGCCTTTTCATTATTCATATCAC
* *
63907883 TGGGTCAAAGCCTTT
1 TGGGCCGAAGCCTTT
63907898 ACTGTAACAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATTATTCATATCAC
Found at i:63908147 original size:50 final size:49
Alignment explanation
Indices: 63908104--63908210 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 49
63908094 CTGGAGGCCT
* *
63908104 AGCCTCTTTT-AAT-AACTGGGGTAAAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTAGGGCAAAGCCCTTTTCGGT-AACTGGGGCAA
**
63908153 AGCCCTTTTCGGTAAACTAGGGCAAAGCCCTTTTCGGTAACTGGGGCAA
1 AGCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTCGGTAACTGGGGCAA
63908202 AGCCCTTTT
1 AGCCCTTTT
63908211 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
48 5 0.10
49 25 0.48
50 22 0.42
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (49 bp):
AGCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTCGGTAACTGGGGCAA
Found at i:63908199 original size:24 final size:25
Alignment explanation
Indices: 63908117--63908210 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
63908107 CTCTTTTAAT
*
63908117 AACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
63908142 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
63908167 AACTAGGGCAAAGCCCTTTTCGGT-
1 AACTGGGGCAAAGCCCTTTTCGGTA
63908191 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
63908211 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
24 19 0.29
25 47 0.71
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:63908288 original size:11 final size:11
Alignment explanation
Indices: 63908257--63908294 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
63908247 AAATGAATAC
63908257 ATCATGTGCAT
1 ATCATGTGCAT
*
63908268 ATCA--TACAT
1 ATCATGTGCAT
63908277 ATCATGTGCAT
1 ATCATGTGCAT
63908288 ATCATGT
1 ATCATGT
63908295 CAATTCATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:63908369 original size:25 final size:25
Alignment explanation
Indices: 63908341--63908388 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63908331 ATAATTAAAC
* **
63908341 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
63908366 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
63908389 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:63911489 original size:46 final size:45
Alignment explanation
Indices: 63911439--63911611 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
63911429 TGGTTGAGCA
*
63911439 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
63911485 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAC--ATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATG-GA-T-GCGAAG
*
63911532 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
63911578 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
63911612 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 9, Indels: 22
0.78 0.07 0.16
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 62 0.58
47 32 0.30
48 1 0.01
49 5 0.05
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:63911595 original size:93 final size:93
Alignment explanation
Indices: 63911436--63911606 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
63911426 GGATGGTTGA
* * *
63911436 GCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
63911501 TGAGTCCGAGTTCGTGACATGTAACTAG
66 TGAGTCCGAGTTCGTGACATGTAACTAG
* *
63911529 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
63911594 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
63911607 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGACATGTAACTAG
Found at i:63914047 original size:35 final size:35
Alignment explanation
Indices: 63914001--63914070 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
63913991 AATGTGGGTC
63914001 CTAAATCTCAGAATACTTCTGCAGCCAGTGTAGGG
1 CTAAATCTCAGAATACTTCTGCAGCCAGTGTAGGG
*
63914036 CTAAATCTCAGAATACTTTTGCAGCCAGTGTAGGG
1 CTAAATCTCAGAATACTTCTGCAGCCAGTGTAGGG
63914071 AACTCAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (35 bp):
CTAAATCTCAGAATACTTCTGCAGCCAGTGTAGGG
Found at i:63920037 original size:47 final size:47
Alignment explanation
Indices: 63919985--63920198 Score: 320
Period size: 47 Copynumber: 4.6 Consensus size: 47
63919975 GATAATTGTG
* *
63919985 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
63920032 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
63920079 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
63920126 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
63920173 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
63920199 TCCCGAAGGG
Statistics
Matches: 151, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 151 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:63923559 original size:46 final size:46
Alignment explanation
Indices: 63923516--63924417 Score: 1650
Period size: 46 Copynumber: 19.6 Consensus size: 46
63923506 GCATCCGAAG
* * * * *
63923516 TCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
* * * *
63923562 TCGTTGAGTTGAGTCCGAGTTC-GTGA--CATG-TAACTAGGCATCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAAC---GC--CCGAGC
63923609 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63923655 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63923701 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63923747 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63923793 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63923839 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63923885 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63923931 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63923977 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924023 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924069 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924115 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924161 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924207 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924253 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924299 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924345 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
63924391 TCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCGTTGAGTTGAGTCCGAGTTCACTTA
63924418 GGGGCGGGTT
Statistics
Matches: 836, Mismatches: 11, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
42 2 0.00
43 3 0.00
45 3 0.00
46 789 0.94
47 28 0.03
48 4 0.00
50 4 0.00
51 3 0.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGC
Found at i:63930152 original size:31 final size:31
Alignment explanation
Indices: 63930104--63930187 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
63930094 TCAATCTCAG
*
63930104 CATAT-ACTGGGCTGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* **
63930134 CATATCACTAGGCCGAAGCCTTTTTATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
63930165 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
63930188 ACTGTAACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:63930489 original size:24 final size:25
Alignment explanation
Indices: 63930412--63930500 Score: 137
Period size: 25 Copynumber: 3.6 Consensus size: 25
63930402 TTAATCACTA
* *
63930412 GGGCAAAGCCCTTTTTGATAAACTG
1 GGGCAAAGCCCTTTTCGGTAAACTG
63930437 GGGCAAAGCCCTTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGGTAAACTG
63930462 GGGCAAAGCCCTTTTCGGT-AACTG
1 GGGCAAAGCCCTTTTCGGTAAACTG
63930486 GGGCATAA-CCCTTTT
1 GGGCA-AAGCCCTTTT
63930501 GCACTTCCTC
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
24 17 0.28
25 44 0.72
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGGTAAACTG
Found at i:63930578 original size:11 final size:11
Alignment explanation
Indices: 63930547--63930584 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
63930537 AAATGAATAC
63930547 ATCATGTGCAT
1 ATCATGTGCAT
*
63930558 ATCA--TACAT
1 ATCATGTGCAT
63930567 ATCATGTGCAT
1 ATCATGTGCAT
63930578 ATCATGT
1 ATCATGT
63930585 CAATTAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:63930659 original size:25 final size:25
Alignment explanation
Indices: 63930631--63930678 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
63930621 ATAATTAAAC
* **
63930631 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
*
63930656 CCTATGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
63930679 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:63932556 original size:46 final size:49
Alignment explanation
Indices: 63932467--63932571 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 49
63932457 TACGTGAATT
* *
63932467 ATTCCTGTCTCCAATGCCATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCA-ATATATATCTAATATGGACTTACATGGCTC
*
63932517 ATTCCTGTCTCCAAAGCC-ATATA-A-CTGATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCAATATATATCTAATATGGACTTACATGGCTC
*
63932563 ATTTCTGTC
1 ATTCCTGTC
63932572 CTGTCCTGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 28 0.55
47 1 0.02
48 5 0.10
50 17 0.33
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (49 bp):
ATTCCTGTCTCCAAAGCCAATATATATCTAATATGGACTTACATGGCTC
Found at i:63936899 original size:46 final size:49
Alignment explanation
Indices: 63936793--63936914 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
63936783 TGTCTTCGAC
** * *
63936793 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* *
63936843 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
*
63936889 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
63936915 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 28 0.44
47 1 0.02
48 5 0.08
50 30 0.47
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:63950891 original size:40 final size:40
Alignment explanation
Indices: 63950832--63951043 Score: 243
Period size: 40 Copynumber: 5.3 Consensus size: 40
63950822 CATTTGAATG
* *
63950832 ATATCCGGGAC-AAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGG-CTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
63950872 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
63950912 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
63950952 ATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
63950992 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
63951032 ATATCC-GGCTAA
1 ATATCCGGGCTAA
63951044 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 7 0.05
40 141 0.93
41 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:63954506 original size:46 final size:46
Alignment explanation
Indices: 63954374--63954732 Score: 204
Period size: 46 Copynumber: 7.6 Consensus size: 46
63954364 TGTGAGAGCT
* * * *
63954374 AGTGTAAGACCATTTCTGGGACATGGTATCAGC-ATGAGACG-AGGGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTAT-AGATGTA--GCC
* *
63954421 AGTGTAAGAACA-GTATGGGACAT-GCATCGGCCT-TAAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTAT-AGATGT-AGCC
* *
63954467 AGTGTAAGA-CATGTCTGGGGCAT-GCATCGGCTATGAGATGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTAT-AGATGTAGCC
* * *
63954511 AGTGTAAGACCATGTCTAGGACATGGCATCAGAACGTATAGATGTA-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GC-TATAGATGTAGCC
* * * * * *
63954559 AGTGTAAGACCATGTTTGGGGCATGGCATCAGCACGAATATG-TGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GC-TATA-GATG-TAGCC
* * ** *
63954609 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCA-ATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCT-ATA-GATG-TAGCC
* * * *
63954658 AGTGTAAGACCAT-TCTGGGACATGGAATCGACTTGATGGACG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-T-ATAGATGTAGCC
63954704 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
63954733 TGACATTATA
Statistics
Matches: 251, Mismatches: 41, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.04
45 21 0.08
46 71 0.28
47 28 0.11
48 66 0.26
49 25 0.10
50 29 0.12
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATAGATGTAGCC
Found at i:63954561 original size:48 final size:47
Alignment explanation
Indices: 63954466--63954732 Score: 176
Period size: 48 Copynumber: 5.6 Consensus size: 47
63954456 AGATGTAAGC
* * * *
63954466 CAGTGTAAGA-CATGTCTGGGGCAT-GCATC-GGC-TATGAGATGTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAGACGTAT-AGATGTAT
63954510 CAGTGTAAGACCATGTCTAGGACATGGCATCAGAACGTATAGATGTAT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAG-ACGTATAGATGTAT
* * * * * *
63954558 CAGTGTAAGACCATGTTTGGGGCATGGCATCAGCACGAATATG-TGAGAG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAG-ACGTATA-GATG-TAT
* **
63954607 CTAGTGTAAGACCATGTCTAGGACATGGCATCAG-CCTCA-ATTTTGATAGT
1 C-AGTGTAAGACCATGTCTAGGACATGGCATCAGACGT-ATA-GATG-TA-T
* * * * * *
63954657 CAGTGTAAGACCAT-TCTGGGACATGGAATC-GACTTGATGGACG-AGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAGACGT-ATAGATGTA-T
*
63954703 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACCATGTCTAGGACATGGCAT
63954733 TGACATTATA
Statistics
Matches: 180, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.06
45 12 0.07
46 21 0.12
47 16 0.09
48 67 0.37
49 24 0.13
50 30 0.17
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCAGACGTATAGATGTAT
Found at i:63954682 original size:98 final size:94
Alignment explanation
Indices: 63954374--63954732 Score: 255
Period size: 98 Copynumber: 3.8 Consensus size: 94
63954364 TGTGAGAGCT
* * *
63954374 AGTGTAAGACCATTTCTGGGACATGGTATC-AGCATGA--GACGAGGGCCAGTGTAAGAACA-GT
1 AGTGTAAGACCATGTCTGGGACATGGAATCGA-CATGATGGACGA--GCCAGTGTAAGACCATGT
* * * *
63954435 ATGGGACAT-GCATC-GGCCT-TAAGATGTAAGCC
63 CTAGGACATGGCATCAGACCTAT-AGATGT-A-TC
* * * * * *
63954467 AGTGTAAGA-CATGTCTGGGGCAT-GCATCGGC-T-ATGAGATGTGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGAATCGACATGATG-GACGAGCCAGTGTAAGACCATGTCT
*
63954528 AGGACATGGCATCAGAACGTATAGATGTATC
65 AGGACATGGCATCAG-ACCTATAGATGTATC
* * * *
63954559 AGTGTAAGACCATGTTTGGGGCATGGCATCAGCACGAAT-ATGTGA-GAGCTAGTGTAAGACCAT
1 AGTGTAAGACCATGTCTGGGACATGGAATC-G-AC--ATGATG-GACGAGCCAGTGTAAGACCAT
**
63954622 GTCTAGGACATGGCATCAG-CCTCA-ATTTTGATAGTC
61 GTCTAGGACATGGCATCAGACCT-ATA-GATG-TA-TC
* *
63954658 AGTGTAAGACCAT-TCTGGGACATGGAATCGACTTGATGGACGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGAATCGACATGATGGACGAGCCAGTGTAAGACCATGTCTA
63954722 GGACATGGCAT
66 GGACATGGCAT
63954733 TGACATTATA
Statistics
Matches: 216, Mismatches: 28, Indels: 42
0.76 0.10 0.15
Matches are distributed among these distances:
89 1 0.00
90 14 0.06
91 14 0.06
92 30 0.14
93 24 0.11
94 16 0.07
95 37 0.17
96 6 0.03
97 4 0.02
98 49 0.23
99 21 0.10
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGGACATGGAATCGACATGATGGACGAGCCAGTGTAAGACCATGTCTA
GGACATGGCATCAGACCTATAGATGTATC
Found at i:63955941 original size:21 final size:21
Alignment explanation
Indices: 63955886--63955934 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
63955876 GTTATAATGA
*
63955886 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTACCCTT
*
63955907 CCACACGGGGGTGTTACCCTT
1 CCACACGGGCGTGTTACCCTT
63955928 CCACACG
1 CCACACG
63955935 ACCGTGTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.39, G:0.27, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTACCCTT
Found at i:63958176 original size:36 final size:36
Alignment explanation
Indices: 63958135--63958205 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
63958125 ATTAAGAGAA
63958135 GTTTTAAACTAAGACTAATTATCTAATTAACTAAGT
1 GTTTTAAACTAAGACTAATTATCTAATTAACTAAGT
63958171 GTTTTAAACTAAGACTAATTATCTAATTAACTAAG
1 GTTTTAAACTAAGACTAATTATCTAATTAACTAAG
63958206 ATTACGATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.38
Consensus pattern (36 bp):
GTTTTAAACTAAGACTAATTATCTAATTAACTAAGT
Found at i:63958960 original size:13 final size:13
Alignment explanation
Indices: 63958942--63958968 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63958932 TCGACAGGGA
63958942 CACGGCCGTATAG
1 CACGGCCGTATAG
63958955 CACGGCCGTATAG
1 CACGGCCGTATAG
63958968 C
1 C
63958969 GCTTATTTAT
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:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACGGCCGTATAG
Found at i:63961457 original size:27 final size:27
Alignment explanation
Indices: 63961419--63961473 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
63961409 ATAATCATAC
63961419 ATAGTACGAGGAGTAGGATCCTGATTT
1 ATAGTACGAGGAGTAGGATCCTGATTT
63961446 ATAGTACGAGGAGTAGGATCCTGATTT
1 ATAGTACGAGGAGTAGGATCCTGATTT
63961473 A
1 A
63961474 CTGGATTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (27 bp):
ATAGTACGAGGAGTAGGATCCTGATTT
Found at i:63966878 original size:30 final size:30
Alignment explanation
Indices: 63966844--63966928 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
63966834 TGATTTTTAG
*
63966844 GTCTAGGGGTAAAATAGTCATTTTGTGAAA
1 GTCTAAGGGTAAAATAGTCATTTTGTGAAA
63966874 GTCTAAGGGTAAAATAGTCATTTTGTGAAA
1 GTCTAAGGGTAAAATAGTCATTTTGTGAAA
* * * *
63966904 GTTTAAGGGCATAATGGTCATTTTG
1 GTCTAAGGGTAAAATAGTCATTTTG
63966929 CCCAAATCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (30 bp):
GTCTAAGGGTAAAATAGTCATTTTGTGAAA
Found at i:63967360 original size:46 final size:46
Alignment explanation
Indices: 63967259--63967390 Score: 151
Period size: 46 Copynumber: 2.8 Consensus size: 46
63967249 GGTCAGTTAT
* *
63967259 GAGAGCTAATGTAAGACAATGTCT-AGAACATGGCATCGGCATGGAGAC
1 GAGAGCCAGTGTAAGAC-ATGTCTAAG-ACAT-GCATCGGCATGGAGAC
* * *
63967307 GAGAGCCAGTGTAAGACATGTCTAAGACATGCATCGGCCTTGAGAT
1 GAGAGCCAGTGTAAGACATGTCTAAGACATGCATCGGCATGGAGAC
* *
63967353 GTA-AGCCAGTGTAAGGCATGTCTAGGACATGCATCGGC
1 G-AGAGCCAGTGTAAGACATGTCTAAGACATGCATCGGC
63967391 TACGAGATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
46 47 0.63
47 11 0.15
48 17 0.23
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTAAGACATGCATCGGCATGGAGAC
Found at i:63967398 original size:46 final size:45
Alignment explanation
Indices: 63967268--63967434 Score: 140
Period size: 46 Copynumber: 3.6 Consensus size: 45
63967258 TGAGAGCTAA
* * * * * *
63967268 TGTAAGACAATGTCTAGAACATGGCATCGGCATGGAGACGAGAGCCAG
1 TGTAAGGC-ATGTCTAGGACAT-GCATCGGCCTCGAGATG-TAGCCAG
* * *
63967316 TGTAAGACATGTCTAAGACATGCATCGGCCTTGAGATGTAAGCCAG
1 TGTAAGGCATGTCTAGGACATGCATCGGCCTCGAGATGT-AGCCAG
**
63967362 TGTAAGGCATGTCTAGGACATGCATCGG-CTACGAGATGT-GTTAG
1 TGTAAGGCATGTCTAGGACATGCATCGGCCT-CGAGATGTAGCCAG
* *
63967406 TGTAAGAGCATGTTTGGGACATGGCATCG
1 TGTAAG-GCATGTCTAGGACAT-GCATCG
63967435 ACACATATAG
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
44 9 0.09
45 15 0.15
46 59 0.58
47 11 0.11
48 8 0.08
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (45 bp):
TGTAAGGCATGTCTAGGACATGCATCGGCCTCGAGATGTAGCCAG
Found at i:63967459 original size:48 final size:48
Alignment explanation
Indices: 63967399--63967582 Score: 190
Period size: 48 Copynumber: 3.8 Consensus size: 48
63967389 GCTACGAGAT
* *
63967399 GTGTTAGTGTAAGAGCATGTTTGGGACATGGCATCGACACATATAGAG
1 GTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACATATAGTG
* * * *
63967447 GTGTTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAAATATGTG
1 GTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACATATA-GTG
* * ** * **
63967496 AGAGCTAGTGTAAGACCATGTTTGGGACATGGTGTCGAC-CTTGATTTTG
1 -GTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACAT-ATAGTG
* *
63967545 ATAGTTAGTGTAAGACCATGTTCGGGACATGGCATCGA
1 GT-GTTAGTGTAAGACCATGTTTGGGACATGGCATCGA
63967583 ATTAATGGAT
Statistics
Matches: 109, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
48 40 0.37
49 36 0.33
50 33 0.30
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (48 bp):
GTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACATATAGTG
Found at i:63970004 original size:28 final size:27
Alignment explanation
Indices: 63969972--63970104 Score: 76
Period size: 28 Copynumber: 5.2 Consensus size: 27
63969962 AACTGTGATC
63969972 ACGTGTGTAGTACTCAGTGCAGGCTACT
1 ACGTGTGTAGTACT-AGTGCAGGCTACT
* * *
63970000 ACGTGTATCAG-A-TGGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAGTGCAGGCTACT
63970022 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACT-AGTGCAGGCTACT
* * *
63970050 ACGTGT-TCCGGA-TAAT-C-GG-T-C-
1 ACGTGTGT-AGTACTAGTGCAGGCTACT
63970071 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACT-AGTGCAGGCTACT
63970099 ACGTGT
1 ACGTGT
63970105 ACCGGATAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 34
0.62 0.10 0.28
Matches are distributed among these distances:
21 10 0.13
22 11 0.14
23 5 0.07
24 6 0.08
25 9 0.12
26 6 0.08
27 5 0.07
28 22 0.29
29 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (27 bp):
ACGTGTGTAGTACTAGTGCAGGCTACT
Found at i:63970085 original size:49 final size:49
Alignment explanation
Indices: 63969924--63970148 Score: 263
Period size: 49 Copynumber: 4.5 Consensus size: 49
63969914 TGAGGTCGCA
* * * *
63969924 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA-AAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATC-G-G-TCACG
* * * ** *
63969975 TGTGTAGTACTCAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT-AATCGGTCACG
*
63970025 TGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCGGATAATCGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATCGGTCACG
* * *
63970074 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATCGGTCACG
* *
63970123 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
63970149 TGCGTACTAG
Statistics
Matches: 150, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 77 0.51
50 39 0.26
51 33 0.22
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATCGGTCACG
Found at i:63970100 original size:99 final size:100
Alignment explanation
Indices: 63969917--63970155 Score: 295
Period size: 99 Copynumber: 2.4 Consensus size: 100
63969907 TCTATTGTGA
* *
63969917 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* * **
63969982 TACTCAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
63970017 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCGGATAA-TCG-G-TCACGTGTGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACT-GTGATCACGTGTGT
*
63970079 AGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
64 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
63970116 GGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTAC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTAC
63970156 TAGATAGCTT
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
98 33 0.28
99 42 0.36
100 2 0.02
101 41 0.35
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:63972963 original size:77 final size:75
Alignment explanation
Indices: 63972845--63972988 Score: 168
Period size: 77 Copynumber: 1.9 Consensus size: 75
63972835 ATAAGTACCT
* * *
63972845 ATATCATGGCCCGAAGCCAAATCAAGGTAACTTATCTCTGAAGTACTGATATCATGGCCTGAAGC
1 ATATCATGGCCCGAAGCCAAATCAAGATAACTTATCTCTGAAATACT-ATATCATGGCCCGAAGC
63972910 CAAAATAGCCG
65 CAAAATAGCCG
* **
63972921 ATATGCATGGCTCGAAGCCAAATC-AGTATAACTTGCA-C-CTGAAATGGTATATCATGGCCCGA
1 ATAT-CATGGCCCGAAGCCAAATCAAG-ATAACTT--ATCTCTGAAATACTATATCATGGCCCGA
63972983 AGCCAA
62 AGCCAA
63972989 CTCAATGTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
76 25 0.43
77 31 0.53
78 1 0.02
79 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (75 bp):
ATATCATGGCCCGAAGCCAAATCAAGATAACTTATCTCTGAAATACTATATCATGGCCCGAAGCC
AAAATAGCCG
Found at i:63985005 original size:28 final size:28
Alignment explanation
Indices: 63984973--63985047 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
63984963 AATGAGATTG
**
63984973 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATACTA-A
* *
63985001 GCACTAAATGTGCGAGTTTGACTACTAA
1 GCACTAAGTGTGCGAGTTTGAATACTAA
63985029 GCACTAAGTGTGCGGAGTT
1 GCACTAAGTGTGC-GAGTT
63985048 ACTATATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 31 0.77
29 9 0.22
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATACTAA
Done.