Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 86 of 345
Found at i:23483041 original size:2 final size:2
Alignment explanation
Indices: 23483004--23483033 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23482994 TACATATAAT
23483004 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23483034 CGTATATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23485175 original size:12 final size:12
Alignment explanation
Indices: 23485158--23485190 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
23485148 CAAATTGATT
23485158 GTAGAAGTAAGA
1 GTAGAAGTAAGA
23485170 GTAGAAGTAAGA
1 GTAGAAGTAAGA
23485182 GTAGAAGTA
1 GTAGAAGTA
23485191 GAAAGATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.18
Consensus pattern (12 bp):
GTAGAAGTAAGA
Found at i:23488188 original size:32 final size:32
Alignment explanation
Indices: 23488147--23488209 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
23488137 TCATAAACTT
* *
23488147 ATAAATTAATTACT-TGAATTTGATAATTCATG
1 ATAAATTAATTAATCT-AATTTGATAACTCATG
23488179 ATAAATTAATTAATCTAATTTGATAACTCAT
1 ATAAATTAATTAATCTAATTTGATAACTCAT
23488210 TCTGATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATCTAATTTGATAACTCATG
Found at i:23488471 original size:2 final size:2
Alignment explanation
Indices: 23488464--23488513 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
23488454 TCATGTATGT
23488464 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23488506 TA TA TA TA
1 TA TA TA TA
23488514 CCTTAGTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23500523 original size:53 final size:54
Alignment explanation
Indices: 23500442--23500592 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 54
23500432 CTTACACGGT
* *
23500442 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
*
23500497 TCACATTATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
** *
23500550 TCACATTGCACCGATGCCATAGCCCA-ACTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGG
23500593 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
Found at i:23508816 original size:35 final size:35
Alignment explanation
Indices: 23508777--23508846 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
23508767 CTGTCACTTC
*
23508777 AGGTTTTCGACTTTCAAAATCATTCTATTATTGGT
1 AGGTTTTCGACTTTCAAAATCATCCTATTATTGGT
*
23508812 AGGTTTTCGACTTTCAAAGTCATCCTATTATTGGT
1 AGGTTTTCGACTTTCAAAATCATCCTATTATTGGT
23508847 GATATTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (35 bp):
AGGTTTTCGACTTTCAAAATCATCCTATTATTGGT
Found at i:23511793 original size:321 final size:321
Alignment explanation
Indices: 23511211--23511851 Score: 1219
Period size: 321 Copynumber: 2.0 Consensus size: 321
23511201 AATACTGGGA
*
23511211 AAGCCTACGCCTCCTACCTCAACAAAAAAGAAGTTGATTCCAAGCGATTTCATCAGCATTCAGCT
1 AAGCCTACGCCTCCTACCTCAACAAAAAAGAAGTTGATTCCAAGCAATTTCATCAGCATTCAGCT
23511276 ACTCTTTATCAAGAAATAAAGATATGGCGATGATCCCAAGTTTGTTTGGCAATCGTAGGGGCAGC
66 ACTCTTTATCAAGAAATAAAGATATGGCGATGATCCCAAGTTTGTTTGGCAATCGTAGGGGCAGC
23511341 AGCATCTTGGATCCCTTCTCTCTGGACCTTTGGGATCCTTTCAAGGACTTCCCATTCCCTTCTTC
131 AGCATCTTGGATCCCTTCTCTCTGGACCTTTGGGATCCTTTCAAGGACTTCCCATTCCCTTCTTC
23511406 ACTCACAACTCGTAACGCGGAAAGCTCGGCTTTTGTGAGCGCCCGGATGGACTGGAAAGAAACCC
196 ACTCACAACTCGTAACGCGGAAAGCTCGGCTTTTGTGAGCGCCCGGATGGACTGGAAAGAAACCC
*
23511471 CTGAAGCCCATGTGTTCAAGGCTGACCTCCCTGGCCTTAAGAAAAAGGAAGTGAAAGTGGC
261 CTGAAGCCCATGTGTTCAAGGCTGACCTCCCTGGCCTCAAGAAAAAGGAAGTGAAAGTGGC
23511532 AAGCCTACGCCTCCTACCTCAACAAAAAAGAAGTTGATTCCAAGCAATTTCATCAGCATTCAGCT
1 AAGCCTACGCCTCCTACCTCAACAAAAAAGAAGTTGATTCCAAGCAATTTCATCAGCATTCAGCT
*
23511597 ACTCTTTATCAAGAAATAAAGATATGGCGATGATCCCAAGTTTGTTTGGCAATCGTAGGGGCTGC
66 ACTCTTTATCAAGAAATAAAGATATGGCGATGATCCCAAGTTTGTTTGGCAATCGTAGGGGCAGC
* *
23511662 AGCATCTTGGATCCCTTCTCTCTGGACCTTTGGGATCCTTTCAAGGAGTTCCCATTCCTTTCTTC
131 AGCATCTTGGATCCCTTCTCTCTGGACCTTTGGGATCCTTTCAAGGACTTCCCATTCCCTTCTTC
*
23511727 ACTCACAACTCGTAACGCGGAAAGCTCGGCTTTTTTGAGCGCCCGGATGGACTGGAAAGAAACCC
196 ACTCACAACTCGTAACGCGGAAAGCTCGGCTTTTGTGAGCGCCCGGATGGACTGGAAAGAAACCC
*
23511792 CTGAAGCCCATGTGTTCAAGGCTGACCTCCCTGGCCTCAAGAAAGAGGAAGTGAAAGTGG
261 CTGAAGCCCATGTGTTCAAGGCTGACCTCCCTGGCCTCAAGAAAAAGGAAGTGAAAGTGG
23511852 AGATTGAAGA
Statistics
Matches: 313, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
321 313 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (321 bp):
AAGCCTACGCCTCCTACCTCAACAAAAAAGAAGTTGATTCCAAGCAATTTCATCAGCATTCAGCT
ACTCTTTATCAAGAAATAAAGATATGGCGATGATCCCAAGTTTGTTTGGCAATCGTAGGGGCAGC
AGCATCTTGGATCCCTTCTCTCTGGACCTTTGGGATCCTTTCAAGGACTTCCCATTCCCTTCTTC
ACTCACAACTCGTAACGCGGAAAGCTCGGCTTTTGTGAGCGCCCGGATGGACTGGAAAGAAACCC
CTGAAGCCCATGTGTTCAAGGCTGACCTCCCTGGCCTCAAGAAAAAGGAAGTGAAAGTGGC
Found at i:23516336 original size:29 final size:30
Alignment explanation
Indices: 23516273--23516337 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
23516263 CGACAAGAAT
23516273 ACCA-TTTTTTTCATAATATTACTAAATTA
1 ACCATTTTTTTTCATAATATTACTAAATTA
23516302 ACCATTTTTTTTCATAATATTACTAAATTA
1 ACCATTTTTTTTCATAATATTACTAAATTA
23516332 A-CATTT
1 ACCATTT
23516338 AAAAATAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (30 bp):
ACCATTTTTTTTCATAATATTACTAAATTA
Found at i:23517861 original size:17 final size:18
Alignment explanation
Indices: 23517839--23517872 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23517829 AATATGTATA
23517839 TTATAAGTG-TGATTTAT
1 TTATAAGTGTTGATTTAT
*
23517856 TTATAATTGTTGATTTA
1 TTATAAGTGTTGATTTA
23517873 CAAAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (18 bp):
TTATAAGTGTTGATTTAT
Found at i:23521464 original size:20 final size:20
Alignment explanation
Indices: 23521419--23521465 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23521409 ACTAAATTAT
*
23521419 ATAA-TTTAGATTTGCTATA
1 ATAATTTTAGATTTCCTATA
*
23521438 GTAATTTTAGATTTCCTATA
1 ATAATTTTAGATTTCCTATA
*
23521458 ATTATTTT
1 ATAATTTT
23521466 TAATAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (20 bp):
ATAATTTTAGATTTCCTATA
Found at i:23522402 original size:17 final size:17
Alignment explanation
Indices: 23522376--23522410 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23522366 TTAGGTTTAT
*
23522376 AAATTCTCTCTTAAAAA
1 AAATTATCTCTTAAAAA
23522393 AAATTATCTCTTAAAAA
1 AAATTATCTCTTAAAAA
23522410 A
1 A
23522411 TTCAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTATCTCTTAAAAA
Found at i:23523872 original size:66 final size:68
Alignment explanation
Indices: 23523773--23523899 Score: 197
Period size: 66 Copynumber: 1.9 Consensus size: 68
23523763 ATTTTATTAT
* *
23523773 ATAATTATATAATTATTAATTTATTTATATAAATAAAGGAGTTATTAATTAAAAATATTTTTAAG
1 ATAATTATATAATTATTAATTTATTTATATAAATAAAAGAGTTATTAATTAAAAAAATTTTTAAG
23523838 ATA
66 ATA
*
23523841 ATAATATATATAA-TA-TATTTTA-TTATATAAATAAAAGAGTTATTAATTAAAAAAATTTT
1 ATAAT-TATATAATTATTAATTTATTTATATAAATAAAAGAGTTATTAATTAAAAAAATTTT
23523900 AAAAACTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
66 35 0.64
67 6 0.11
68 7 0.13
69 7 0.13
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (68 bp):
ATAATTATATAATTATTAATTTATTTATATAAATAAAAGAGTTATTAATTAAAAAAATTTTTAAG
ATA
Found at i:23525254 original size:21 final size:21
Alignment explanation
Indices: 23525201--23525254 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
23525191 ATAACACTGC
* *
23525201 ATAAACATATACATATATATA
1 ATAAACATATATACATATATA
* *
23525222 TTAAAGATATATACATATATA
1 ATAAACATATATACATATATA
23525243 ATAAACATATAT
1 ATAAACATATAT
23525255 TAATAATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAAACATATATACATATATA
Found at i:23525493 original size:11 final size:10
Alignment explanation
Indices: 23525472--23525515 Score: 65
Period size: 9 Copynumber: 4.5 Consensus size: 10
23525462 ATAAAAATAG
23525472 ATATAATAAT
1 ATATAATAAT
23525482 ATATACATAAT
1 ATATA-ATAAT
23525493 ATATAA-AAT
1 ATATAATAAT
23525502 ATAT-ATAAT
1 ATATAATAAT
23525511 ATATA
1 ATATA
23525516 CATATGTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 1 0.03
9 14 0.45
10 6 0.19
11 10 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATAATAAT
Found at i:23525631 original size:23 final size:22
Alignment explanation
Indices: 23525605--23525767 Score: 73
Period size: 23 Copynumber: 7.5 Consensus size: 22
23525595 TGGTGTTAGA
23525605 ATATACAATATAGTATTAGAAAT
1 ATATACAATATAGTATTA-AAAT
* *
23525628 ATATATACA-ATAGTATAAAAGAT
1 ATATACA-ATATAGTATTAAA-AT
23525651 ATATAACTAATA-A-TATTAAAAT
1 ATAT-AC-AATATAGTATTAAAAT
*
23525673 ATATAC-ATAATAATATATAAAA-
1 ATATACAAT-ATAGTAT-TAAAAT
*
23525695 ATAT--AATAT--TA-AAAATAT
1 ATATACAATATAGTATTAAA-AT
* *
23525713 ATATACATAACATA-TATGAAAAT
1 ATATAC--AATATAGTATTAAAAT
*
23525736 ATATA-TATATAGTATT-AAAT
1 ATATACAATATAGTATTAAAAT
*
23525756 ATTTACAATATA
1 ATATACAATATA
23525768 TACATATTAG
Statistics
Matches: 108, Mismatches: 12, Indels: 42
0.67 0.07 0.26
Matches are distributed among these distances:
16 3 0.03
17 1 0.01
18 6 0.06
19 2 0.02
20 15 0.14
21 13 0.12
22 19 0.18
23 40 0.37
24 7 0.06
25 2 0.02
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATACAATATAGTATTAAAAT
Found at i:23525633 original size:25 final size:24
Alignment explanation
Indices: 23525605--23525699 Score: 76
Period size: 24 Copynumber: 4.0 Consensus size: 24
23525595 TGGTGTTAGA
23525605 ATATACAATATAGTATTAGAAATAT
1 ATATACAATATAGTATTA-AAATAT
*
23525630 ATATAC-A-ATAGTA-TAAAAGAT
1 ATATACAATATAGTATTAAAATAT
23525651 ATATAACTAATA-A-TATTAAAATAT
1 ATAT-AC-AATATAGTATTAAAATAT
* * *
23525675 ATACATAATAATA-TATAAAAATAT
1 ATATACAAT-ATAGTATTAAAATAT
23525699 A
1 A
23525700 ATATTAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
21 9 0.16
22 7 0.12
23 10 0.17
24 25 0.43
25 7 0.12
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATACAATATAGTATTAAAATAT
Found at i:23525677 original size:22 final size:22
Alignment explanation
Indices: 23525618--23525700 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 22
23525608 TACAATATAG
*
23525618 TATTAGAAATATATATAC-AATAG
1 TATTA-AAATATATA-ACTAATAA
*
23525641 TATAAAAGATATATAACTAATAA
1 TATTAAA-ATATATAACTAATAA
23525664 TATTAAAATATAT-ACATAATAA
1 TATTAAAATATATAAC-TAATAA
23525686 TATATAAAA-ATATAA
1 TAT-TAAAATATATAA
23525701 TATTAAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.04
22 23 0.44
23 27 0.52
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (22 bp):
TATTAAAATATATAACTAATAA
Found at i:23525701 original size:37 final size:38
Alignment explanation
Indices: 23525642--23525743 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 38
23525632 ATACAATAGT
* * *
23525642 ATAAAAGATATATAACTAATAATATT-AAA-ATATATAC
1 ATAAAATATATAAAAAT-ATAATATTAAAATATATATAC
23525679 ATAATAATATATAAAAATATAATATTAAAAATATATATAC
1 ATAA-AATATATAAAAATATAATATT-AAAATATATATAC
* *
23525719 ATAACATATATGAAAATATATATAT
1 ATAAAATATATAAAAATATA-ATAT
23525744 ATAGTATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
37 12 0.22
38 10 0.18
39 17 0.31
40 16 0.29
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (38 bp):
ATAAAATATATAAAAATATAATATTAAAATATATATAC
Found at i:23525702 original size:15 final size:15
Alignment explanation
Indices: 23525682--23525717 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
23525672 TATATACATA
23525682 ATAATATATAAAAAT
1 ATAATATATAAAAAT
23525697 ATAATAT-TAAAAAT
1 ATAATATATAAAAAT
23525711 AT-ATATA
1 ATAATATA
23525718 CATAACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 9 0.45
15 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATATAAAAAT
Found at i:23525799 original size:3 final size:3
Alignment explanation
Indices: 23525793--23525876 Score: 80
Period size: 3 Copynumber: 26.7 Consensus size: 3
23525783 AAAAAACGAC
* * *
23525793 TAA TAA TAA TAC TACA TAAA TATA TACA TAA TAA -AA CATA TAC TAA
1 TAA TAA TAA TAA TA-A T-AA TA-A TA-A TAA TAA TAA TA-A TAA TAA
*
23525839 TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23525877 TAAATAATGG
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 2 0.03
3 54 0.79
4 11 0.16
5 1 0.01
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23525882 original size:15 final size:15
Alignment explanation
Indices: 23525793--23525908 Score: 75
Period size: 15 Copynumber: 7.8 Consensus size: 15
23525783 AAAAAACGAC
*
23525793 TAATAATAATACTACA
1 TAATAATAATA-TAAA
*
23525809 T-A-AAT-ATATACA
1 TAATAATAATATAAA
*
23525821 TAATAAAACATATACTAA
1 TAATAATA-ATATA--AA
*
23525839 TAATAATAATATTAA
1 TAATAATAATATAAA
23525854 TAATAAT-A-AT-AA
1 TAATAATAATATAAA
23525866 TAATAATAATATAAA
1 TAATAATAATATAAA
**
23525881 TAATGGTAA-ATACAA
1 TAATAATAATATA-AA
23525896 TAATAAGTAATAT
1 TAATAA-TAATAT
23525909 TTAAAAAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
12 14 0.17
13 7 0.09
14 11 0.14
15 25 0.31
16 9 0.11
17 6 0.08
18 8 0.10
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (15 bp):
TAATAATAATATAAA
Found at i:23528241 original size:28 final size:28
Alignment explanation
Indices: 23528209--23528268 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
23528199 CATATTAATA
23528209 GGGTATAGGAAAAGTCTCATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
* * *
23528237 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAGTCTCATAACTTATG
23528265 GGGT
1 GGGT
23528269 TGATAATGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGTATAGGAAAAGTCTCATAACTTATG
Found at i:23529293 original size:32 final size:32
Alignment explanation
Indices: 23529252--23529313 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
23529242 CTTCCCGAGG
23529252 ACGGAAAGGGTCTTTACTTGGATCAAGTGAGA
1 ACGGAAAGGGTCTTTACTTGGATCAAGTGAGA
23529284 ACGGAAAGGGTCTTTACTTGGATCAAGTGA
1 ACGGAAAGGGTCTTTACTTGGATCAAGTGA
23529314 TCTTACAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (32 bp):
ACGGAAAGGGTCTTTACTTGGATCAAGTGAGA
Found at i:23531444 original size:21 final size:21
Alignment explanation
Indices: 23531415--23531462 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23531405 TGGGGAGACT
*
23531415 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
23531436 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
23531457 ACTCCA
1 ACTCCA
23531463 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:23533228 original size:26 final size:26
Alignment explanation
Indices: 23533192--23533301 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
23533182 CATGAATTTC
*
23533192 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
23533218 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
23533244 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
23533270 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23533296 TTATCA
1 TTATCA
23533302 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23538600 original size:136 final size:136
Alignment explanation
Indices: 23538356--23538640 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
23538346 CATTGGGCCT
** *
23538356 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
23538421 AGCCTCTTATTCAGATAACAGTATGGTCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
23538486 ATATGC
131 ATATGC
23538492 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
23538557 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
23538622 ATATGC
131 ATATGC
23538628 AAGCCCATTTGGG
1 AAGCCCATTTGGG
23538641 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:23538676 original size:21 final size:21
Alignment explanation
Indices: 23538647--23538694 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23538637 TGGGGAGACT
*
23538647 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
23538668 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
23538689 ACTCCA
1 ACTCCA
23538695 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:23540463 original size:26 final size:26
Alignment explanation
Indices: 23540427--23540536 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
23540417 CATGAATTTC
*
23540427 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
23540453 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
23540479 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
23540505 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23540531 TTATCA
1 TTATCA
23540537 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23544156 original size:28 final size:28
Alignment explanation
Indices: 23544125--23544187 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
23544115 TCCCATATTA
23544125 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
23544153 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
23544181 ATGGGGT
1 ATGGGGT
23544188 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:23548578 original size:15 final size:15
Alignment explanation
Indices: 23548536--23548579 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23548526 TGCTGCTTTG
* *
23548536 GGAGGAGGTGCAGCA
1 GGAGGAGGTGCTGGA
*
23548551 GGAGGTGGTGCTGGA
1 GGAGGAGGTGCTGGA
*
23548566 GGAGGAGGAGCTGG
1 GGAGGAGGTGCTGG
23548580 TCTTCCAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.09, G:0.59, T:0.11
Consensus pattern (15 bp):
GGAGGAGGTGCTGGA
Found at i:23549034 original size:9 final size:9
Alignment explanation
Indices: 23549020--23549047 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
23549010 TGAGACTCTT
23549020 CTTTTTACC
1 CTTTTTACC
23549029 CTTTTTACC
1 CTTTTTACC
23549038 CTTTTTACC
1 CTTTTTACC
23549047 C
1 C
23549048 GGTGAATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.36, G:0.00, T:0.54
Consensus pattern (9 bp):
CTTTTTACC
Found at i:23553697 original size:12 final size:12
Alignment explanation
Indices: 23553680--23553704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23553670 AATTTCTGCC
23553680 TCATTCTTCAAA
1 TCATTCTTCAAA
23553692 TCATTCTTCAAA
1 TCATTCTTCAAA
23553704 T
1 T
23553705 GCTTCAGGCT
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:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
TCATTCTTCAAA
Found at i:23558716 original size:49 final size:50
Alignment explanation
Indices: 23558641--23558736 Score: 133
Period size: 49 Copynumber: 1.9 Consensus size: 50
23558631 CATAAAATAT
* *
23558641 TAGTGTCACCCATCTCTCTCCTTCCA-CC-TAAAAAAATATTTTTTATAC
1 TAGTGCCACCCATCTCTCTCCCTCCACCCTTAAAAAAATATTTTTTATAC
* *
23558689 TAGTGCCACTCCATCTCTCTCCCTCCACCCTTAGAAAATTATTTTTTA
1 TAGTGCCAC-CCATCTCTCTCCCTCCACCCTTAAAAAAATATTTTTTA
23558737 AAAAAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
48 8 0.20
49 16 0.39
50 2 0.05
51 15 0.37
ACGTcount: A:0.26, C:0.31, G:0.05, T:0.38
Consensus pattern (50 bp):
TAGTGCCACCCATCTCTCTCCCTCCACCCTTAAAAAAATATTTTTTATAC
Found at i:23560776 original size:96 final size:96
Alignment explanation
Indices: 23560666--23560851 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 96
23560656 ACAGGGGGCA
* * * **
23560666 TTTTCCTCTGACATGTCAAACAT-ATGGCTTGAAAACGCATCCTGTAGGAAGTGTTTTCACTGCC
1 TTTTCCTCTGACATGTCAAACATGA-GCCTTGAAAACACATCCTGTAAGAAGCATTTTCACTGCC
* *
23560730 ATGTCAAATGAAAATGCCCTATGCAATGAGTG
65 ATGTCAAATGAAAACGCCCCATGCAATGAGTG
* * *
23560762 TTTTCCTTTGACATGTCAAACATGAGCCTTGAAAATACATCCTGTAAGAAGCATTTTCACTGTCA
1 TTTTCCTCTGACATGTCAAACATGAGCCTTGAAAACACATCCTGTAAGAAGCATTTTCACTGCCA
*
23560827 TGTCAGATGAAAACGCCCCATGCAA
66 TGTCAAATGAAAACGCCCCATGCAA
23560852 GAAGCATTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 77 0.99
97 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (96 bp):
TTTTCCTCTGACATGTCAAACATGAGCCTTGAAAACACATCCTGTAAGAAGCATTTTCACTGCCA
TGTCAAATGAAAACGCCCCATGCAATGAGTG
Found at i:23564227 original size:27 final size:28
Alignment explanation
Indices: 23564193--23564255 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
23564183 TTTTAAATAC
*
23564193 ATATATTTTTAT-AATT-TATAATTTATT
1 ATATATTTTAATAAATTATATAATTT-TT
*
23564220 TTATA-TTTAATAAATTATATAATTTTT
1 ATATATTTTAATAAATTATATAATTTTT
23564247 ATATATTTT
1 ATATATTTT
23564256 CTTTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.17
27 14 0.47
28 11 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATATTTTAATAAATTATATAATTTTT
Found at i:23564232 original size:19 final size:19
Alignment explanation
Indices: 23564199--23564237 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23564189 ATACATATAT
*
23564199 TTTTATAATTTATAATTTA
1 TTTTATAATTTATAAATTA
23564218 TTTTAT-ATTTAATAAATTA
1 TTTTATAATTT-ATAAATTA
23564237 T
1 T
23564238 ATAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTATAAATTA
Found at i:23568837 original size:20 final size:20
Alignment explanation
Indices: 23568799--23568837 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23568789 TACAAAATAC
*
23568799 AAAATTGAGTTTCAAAAGTT
1 AAAATTGAGTTCCAAAAGTT
23568819 AAAATTGAG-TCCAATAAGT
1 AAAATTGAGTTCCAA-AAGT
23568838 AGTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAATTGAGTTCCAAAAGTT
Found at i:23569121 original size:17 final size:18
Alignment explanation
Indices: 23569099--23569133 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23569089 AAATATAACA
23569099 TTTTTG-AATAAAACTTG
1 TTTTTGAAATAAAACTTG
*
23569116 TTTTTGAAATTAAACTTG
1 TTTTTGAAATAAAACTTG
23569134 ATTTCAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTTTGAAATAAAACTTG
Found at i:23573512 original size:46 final size:45
Alignment explanation
Indices: 23573453--23573628 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
23573443 TATTTGGGCA
*
23573453 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
23573499 TCGGAACTCGTTGAGTTGAGTCGGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
23573546 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
23573592 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23573629 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.61
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:23573608 original size:93 final size:93
Alignment explanation
Indices: 23573449--23573621 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
23573439 AGGATATTTG
* * * * *
23573449 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCGGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
*
23573514 TTGAGTCGGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
23573542 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
23573607 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
23573622 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:23575757 original size:14 final size:14
Alignment explanation
Indices: 23575738--23575770 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23575728 CTTATTAAGG
23575738 TTACACA-TACAAAA
1 TTACACATTA-AAAA
23575752 TTACACATTAAAAA
1 TTACACATTAAAAA
23575766 TTACA
1 TTACA
23575771 GCCTCCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (14 bp):
TTACACATTAAAAA
Found at i:23577554 original size:17 final size:18
Alignment explanation
Indices: 23577528--23577565 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
23577518 GTTCCCCCTA
23577528 TTTACTTTCCCTCAAAA-T
1 TTTACTTTCCC-CAAAACT
23577546 TTTAC-TTCCCCAAAACT
1 TTTACTTTCCCCAAAACT
23577563 TTT
1 TTT
23577566 TATTCCCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 9 0.47
18 5 0.26
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTACTTTCCCCAAAACT
Found at i:23578021 original size:19 final size:19
Alignment explanation
Indices: 23577997--23578034 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
23577987 AAAGTTAATA
23577997 ACAAAT-TTAATTACGGTGG
1 ACAAATCTT-ATTACGGTGG
23578016 ACAAATCTTATTACGGTGG
1 ACAAATCTTATTACGGTGG
23578035 GTGACAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (19 bp):
ACAAATCTTATTACGGTGG
Found at i:23579988 original size:30 final size:30
Alignment explanation
Indices: 23579952--23580025 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
23579942 TTCCGGAGCC
*
23579952 GGAGATGCAGATGGCGGAGAGGAAGGAGAA
1 GGAGATGCCGATGGCGGAGAGGAAGGAGAA
23579982 GGAGATGCCGATGGCGGAGAGGAAGGAGAA
1 GGAGATGCCGATGGCGGAGAGGAAGGAGAA
23580012 GGAGATGCCGATGG
1 GGAGATGCCGATGG
23580026 TGGCGTAGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.32, C:0.09, G:0.50, T:0.08
Consensus pattern (30 bp):
GGAGATGCCGATGGCGGAGAGGAAGGAGAA
Found at i:23584892 original size:13 final size:14
Alignment explanation
Indices: 23584852--23584897 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 14
23584842 GTATGATAAA
23584852 ATAATAATATACAT
1 ATAATAATATACAT
*
23584866 AATATATAAAATACAT
1 -ATA-ATAATATACAT
23584882 ATAAT-ATATACAT
1 ATAATAATATACAT
23584895 ATA
1 ATA
23584898 CTAGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 10 0.36
14 2 0.07
15 6 0.21
16 10 0.36
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAATATACAT
Found at i:23585021 original size:21 final size:19
Alignment explanation
Indices: 23584991--23585034 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
23584981 AGAAATACTT
*
23584991 AATATATA-ATAAT-TTAA
1 AATATATACATAATATAAA
23585008 AATATATACATAATATAAA
1 AATATATACATAATATAAA
23585027 AATATATA
1 AATATATA
23585035 GAACGTAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATACATAATATAAA
Found at i:23585139 original size:2 final size:2
Alignment explanation
Indices: 23585134--23585197 Score: 57
Period size: 2 Copynumber: 34.5 Consensus size: 2
23585124 TATATAAAAA
* * *
23585134 AT AT AT A- AT AT AT AT AC A- AT AT AT AC AT AT CT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
23585172 AT A- AT AA AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23585198 AAACTATTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
1 5 0.10
2 45 0.90
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:23585413 original size:3 final size:3
Alignment explanation
Indices: 23585405--23585462 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
23585395 ATGAAAACAC
*
23585405 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23585453 ATA ATA ATA A
1 ATA ATA ATA A
23585463 AATTAAAGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23587681 original size:96 final size:95
Alignment explanation
Indices: 23587539--23587787 Score: 287
Period size: 90 Copynumber: 2.6 Consensus size: 95
23587529 AAGCAGATTT
* * *
23587539 TGAAAATACCTC-GACATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TGAAAATACCTCAG-C-GGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTCT
* * * **
23587603 ATTTTTTGAAAAATATAAATTGAAAAATAGGAAC
63 -TTTTTTGAAAAACAGAAATTGAAAAACAAAAAC
23587637 TGAAAATACCTCAGC-GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----CTTT
1 TGAAAATACCTCAGCGGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTT
* *
23587696 TTTTGAAAAGCAGAAATTGAAAAACAAAAAT
65 TTTTGAAAAACAGAAATTGAAAAACAAAAAC
* *
23587727 TGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TGAAAATACCTCAGCG-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
23587788 GGAAAAGTAG
Statistics
Matches: 131, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
90 41 0.31
91 1 0.01
92 35 0.27
93 2 0.02
95 2 0.02
96 36 0.27
98 13 0.10
99 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (95 bp):
TGAAAATACCTCAGCGGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTTT
TTTGAAAAACAGAAATTGAAAAACAAAAAC
Found at i:23587717 original size:14 final size:14
Alignment explanation
Indices: 23587698--23587732 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23587688 TTGACTTTTT
* *
23587698 TTGAAAAGCAGAAA
1 TTGAAAAACAAAAA
23587712 TTGAAAAACAAAAA
1 TTGAAAAACAAAAA
23587726 TTGAAAA
1 TTGAAAA
23587733 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:23587823 original size:14 final size:14
Alignment explanation
Indices: 23587806--23587832 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23587796 AGAAATTAAA
23587806 AACAGAATTTGAAC
1 AACAGAATTTGAAC
23587820 AACAGAATTTGAA
1 AACAGAATTTGAA
23587833 AATATCTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (14 bp):
AACAGAATTTGAAC
Found at i:23587882 original size:102 final size:103
Alignment explanation
Indices: 23587701--23587899 Score: 274
Period size: 102 Copynumber: 1.9 Consensus size: 103
23587691 ACTTTTTTTG
* * *
23587701 AAAAGCAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACC
1 AAAAACAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACC
23587766 TCTCGCAATATGAGTTGA-TTTTGGAAAAGTAGAAATT
66 TCTCGCAATATGAGTTGATTTTTGGAAAAGTAGAAATT
* * * * * * **
23587803 AAAAACAGAATTTGAACAACAGAATTTGAAAATATCTCGGCATGTGACCCGGGGCTCAACTCACC
1 AAAAACAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACC
* *
23587868 TCTCGCCATATGAGTTGATTTTTTGAAAAGTA
66 TCTCGCAATATGAGTTGATTTTTGGAAAAGTA
23587900 TAAAAACTGA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
102 71 0.86
103 12 0.14
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (103 bp):
AAAAACAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTGGAAAAGTAGAAATT
Found at i:23588044 original size:88 final size:90
Alignment explanation
Indices: 23587932--23588144 Score: 276
Period size: 88 Copynumber: 2.4 Consensus size: 90
23587922 ATGTGAGCCA
* * *
23587932 AGGCACAACCCACCTCTCGCAATATGAGTTGATTTTTTTG-CAAAACA-GAGA-TTGAAAAGCA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC-AAACAGGA-ATTTGAAAAACAG
* *
23587993 AAAATGAAAATTCCTCAACGTGCCCTG
64 AAAATGAAAATACCTCAACGTGCCCCG
*
23588020 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAGGAATTTGAAAAACAGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGGAATTTGAAAAACAGAA
** *
23588083 TTTGAAAATACCTCAGCGTGCCCCG
66 AATGAAAATACCTCAACGTGCCCCG
*
23588108 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
23588145 AAAAAATAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
86 12 0.11
87 12 0.11
88 82 0.75
90 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (90 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGGAATTTGAAAAACAGAA
AATGAAAATACCTCAACGTGCCCCG
Found at i:23588088 original size:14 final size:15
Alignment explanation
Indices: 23588053--23588090 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
23588043 ATGAGTTGAT
*
23588053 TTTTGACAAACAGGA
1 TTTTGAAAAACAGGA
*
23588068 ATTTGAAAAACA-GA
1 TTTTGAAAAACAGGA
23588082 TTTTGAAAA
1 TTTTGAAAA
23588091 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (15 bp):
TTTTGAAAAACAGGA
Found at i:23592393 original size:45 final size:46
Alignment explanation
Indices: 23592329--23592439 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 46
23592319 GGGTGTTACA
23592329 GTTTTCACCTTGATCTTTTTTTGTTA-ATCAAGATGCCC-TTTTCGG
1 GTTTTCACCTTGATCTTTTTTT-TTATATCAAGATGCCCTTTTTCGG
* * *
23592374 GTTTTCACCTTGATCTTTTTTTTTATTTTATGATGCCCTTTTTCGG
1 GTTTTCACCTTGATCTTTTTTTTTATATCAAGATGCCCTTTTTCGG
* *
23592420 GTTTTTATCTTGAT-TTTTTT
1 GTTTTCACCTTGATCTTTTTT
23592440 CAAGCATAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 3 0.05
45 37 0.63
46 19 0.32
ACGTcount: A:0.13, C:0.16, G:0.14, T:0.58
Consensus pattern (46 bp):
GTTTTCACCTTGATCTTTTTTTTTATATCAAGATGCCCTTTTTCGG
Found at i:23599435 original size:46 final size:45
Alignment explanation
Indices: 23599375--23599640 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
23599365 CTTGACATGA
* * * * * *
23599375 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
23599421 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
23599467 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
23599513 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
23599559 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
23599597 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
23599641 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:23599604 original size:38 final size:38
Alignment explanation
Indices: 23599553--23599628 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23599543 ACATTTTATA
23599553 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
23599591 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
23599629 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:23601789 original size:11 final size:11
Alignment explanation
Indices: 23601773--23601824 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
23601763 TATACTAAAT
23601773 AAATAATAATA
1 AAATAATAATA
*
23601784 AAATAAT-ATT
1 AAATAATAATA
* *
23601794 AAATATCTCATA
1 AAATA-ATAATA
*
23601806 AAATATTAATA
1 AAATAATAATA
23601817 AAATAATA
1 AAATAATA
23601825 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:23603424 original size:12 final size:12
Alignment explanation
Indices: 23603409--23603440 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
23603399 GCAATGAATG
23603409 AATGAATGCATA
1 AATGAATGCATA
23603421 AATGAATGCATA
1 AATGAATGCATA
23603433 AATGAATG
1 AATGAATG
23603441 TCAATCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (12 bp):
AATGAATGCATA
Found at i:23607620 original size:18 final size:18
Alignment explanation
Indices: 23607599--23607633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23607589 TGATAAAAAT
*
23607599 AATATACATAATATATAA
1 AATACACATAATATATAA
*
23607617 AATACATATAATATATA
1 AATACACATAATATATA
23607634 CATATACTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AATACACATAATATATAA
Found at i:23607763 original size:21 final size:19
Alignment explanation
Indices: 23607733--23607776 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
23607723 AGAAATACTT
*
23607733 AATATATA-ATAAT-TTAA
1 AATATATACATAATATAAA
23607750 AATATATACATAATATAAA
1 AATATATACATAATATAAA
23607769 AATATATA
1 AATATATA
23607777 GAACGTAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATACATAATATAAA
Found at i:23607888 original size:9 final size:9
Alignment explanation
Indices: 23607866--23607931 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
23607856 ACATACAATG
*
23607866 TATATAAAA
1 TATATATAA
*
23607875 AATATATAA
1 TATATATAA
23607884 TATATATACA
1 TATATATA-A
23607894 -ATATAT-A
1 TATATATAA
* *
23607901 CATATCTAA
1 TATATATAA
23607910 TATA-ATAA
1 TATATATAA
*
23607918 TAAATAT-A
1 TATATATAA
23607926 TATATA
1 TATATA
23607932 AAAAAACTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
7 1 0.02
8 17 0.38
9 26 0.58
10 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATATAA
Found at i:23607890 original size:11 final size:11
Alignment explanation
Indices: 23607866--23607931 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
23607856 ACATACAATG
* *
23607866 TATATAAAAAA
1 TATATAATATA
23607877 TATATAATATA
1 TATATAATATA
*
23607888 TATACAATATA
1 TATATAATATA
* *
23607899 TACAT-ATCTA
1 TATATAATATA
23607909 -ATATAATA-A
1 TATATAATATA
*
23607918 TAAAT-ATATA
1 TATATAATATA
23607928 TATA
1 TATA
23607932 AAAAAACTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
9 7 0.17
10 13 0.31
11 22 0.52
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TATATAATATA
Found at i:23608150 original size:3 final size:3
Alignment explanation
Indices: 23608142--23608223 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
23608132 ATGACAACAC
23608142 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23608190 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23608224 AGTAGAATAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23618429 original size:53 final size:54
Alignment explanation
Indices: 23618348--23618498 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 54
23618338 CTTACACGGT
* *
23618348 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
*
23618403 TCACATTATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
** *
23618456 TCACATTGCACCGATGCCATAGCCCA-ACTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGG
23618499 GCACACTTGT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
Found at i:23620557 original size:25 final size:22
Alignment explanation
Indices: 23620524--23620580 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
23620514 GATTTTTATT
23620524 TTAT-TTTATTTAATATTAATATAA
1 TTATATTTATTTAA-ATT--TATAA
*
23620548 TTATATTTATTTAAATTTATTA
1 TTATATTTATTTAAATTTATAA
23620570 TTATA-TTATTT
1 TTATATTTATTT
23620581 TTTAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 6 0.19
22 9 0.29
24 7 0.23
25 9 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATATTTATTTAAATTTATAA
Found at i:23623104 original size:2 final size:2
Alignment explanation
Indices: 23623097--23623152 Score: 55
Period size: 2 Copynumber: 29.0 Consensus size: 2
23623087 TTATTCTTTA
** *
23623097 AT AT AT AT AT AT AT AT AT AT AT GC AT AT AT -T TT A- AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
23623138 AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
23623153 TTTTTACATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
1 3 0.07
2 40 0.89
3 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23623140 original size:13 final size:13
Alignment explanation
Indices: 23623100--23623155 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
23623090 TTCTTTAATA
*
23623100 TATATATATATATA
1 TATATATATAT-TT
23623114 TATATGCATATATTT
1 TATAT--ATATATTT
*
23623129 TA-ATACTATATTA
1 TATATA-TATATTT
23623142 TATATATATATTT
1 TATATATATATTT
23623155 T
1 T
23623156 TTACATTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
12 1 0.03
13 15 0.43
14 10 0.29
15 3 0.09
16 6 0.17
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (13 bp):
TATATATATATTT
Found at i:23623163 original size:22 final size:22
Alignment explanation
Indices: 23623138--23623188 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
23623128 TTAATACTAT
* * *
23623138 ATTATATATATATATTTTTTAC
1 ATTATATATACATACTTTTAAC
**
23623160 ATTATGCATACATACTTTTAAC
1 ATTATATATACATACTTTTAAC
23623182 ATTATAT
1 ATTATAT
23623189 TTTATATGTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTATATATACATACTTTTAAC
Found at i:23623201 original size:27 final size:27
Alignment explanation
Indices: 23623171--23623222 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
23623161 TTATGCATAC
* * *
23623171 ATACTTTTAACATTATATTTTATATGT
1 ATACTCTTAACATCATATTATATATGT
23623198 ATACTCTTAACATCATATTATATAT
1 ATACTCTTAACATCATATTATATAT
23623223 ATATCTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (27 bp):
ATACTCTTAACATCATATTATATATGT
Found at i:23623343 original size:10 final size:10
Alignment explanation
Indices: 23623328--23623352 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23623318 CCATACTATA
23623328 TATATTTTAT
1 TATATTTTAT
23623338 TATATTTTAT
1 TATATTTTAT
23623348 TATAT
1 TATAT
23623353 AATTAGTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATATTTTAT
Found at i:23623930 original size:58 final size:58
Alignment explanation
Indices: 23623859--23623993 Score: 245
Period size: 58 Copynumber: 2.3 Consensus size: 58
23623849 TTTAATATTA
*
23623859 TTATTATTTACGCTTAATATCGCATGCATGGTTGTTGTTTTTAATATTATTATCATAT
1 TTATTATTTACGCTTAATATCACATGCATGGTTGTTGTTTTTAATATTATTATCATAT
23623917 TTATTATTTACGCTTAATATCACATGCATGGTTGTTGTTTTTAATATTATTATCATAT
1 TTATTATTTACGCTTAATATCACATGCATGGTTGTTGTTTTTAATATTATTATCATAT
*
23623975 TTATTATTTAC-TTTAATAT
1 TTATTATTTACGCTTAATAT
23623994 ATTTTTAGTT
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 7 0.09
58 68 0.91
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (58 bp):
TTATTATTTACGCTTAATATCACATGCATGGTTGTTGTTTTTAATATTATTATCATAT
Found at i:23623961 original size:27 final size:27
Alignment explanation
Indices: 23623872--23623963 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 27
23623862 TTATTTACGC
*
23623872 TTAATATCGCATGCATGGTTGTTGTTT
1 TTAATATCACATGCATGGTTGTTGTTT
* * ** * *
23623899 TTAATATTATTAT-CATATTTATTATTT
1 TTAATATCA-CATGCATGGTTGTTGTTT
23623926 ACGCTTAATATCACATGCATGGTTGTTGTTT
1 ----TTAATATCACATGCATGGTTGTTGTTT
23623957 TTAATAT
1 TTAATAT
23623964 TATTATCATA
Statistics
Matches: 46, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
27 24 0.52
28 2 0.04
30 2 0.04
31 18 0.39
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (27 bp):
TTAATATCACATGCATGGTTGTTGTTT
Found at i:23624985 original size:40 final size:40
Alignment explanation
Indices: 23624930--23625007 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
23624920 GCATTTGAGT
* * * *
23624930 GAAAATTGTATAATTTAGCTGGATGAAGTATGTATTAATA
1 GAAAACTGTATAATTTAACCGGATGAAGTATGCATTAATA
23624970 GAAAACTGTATAATTTAACCGGATGAAGTATGCATTAA
1 GAAAACTGTATAATTTAACCGGATGAAGTATGCATTAA
23625008 CAGATATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.33
Consensus pattern (40 bp):
GAAAACTGTATAATTTAACCGGATGAAGTATGCATTAATA
Found at i:23625726 original size:16 final size:16
Alignment explanation
Indices: 23625705--23625744 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
23625695 TGAATTATAT
23625705 ATTACAG-CTCTATTCA
1 ATTACAGTC-CTATTCA
*
23625721 ATTACAGTCCTATTCT
1 ATTACAGTCCTATTCA
23625737 ATTACAGT
1 ATTACAGT
23625745 GAACCAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGTCCTATTCA
Found at i:23626678 original size:25 final size:25
Alignment explanation
Indices: 23626631--23626678 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23626621 GTTTGCTATT
* *
23626631 TTTTTTTAAAAAAAAGTAACAAACA
1 TTTTTTCAAAAAAAAATAACAAACA
*
23626656 TTTTTTCAAAAAAAAATACCAAA
1 TTTTTTCAAAAAAAAATAACAAA
23626679 TATAATACAT
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:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (25 bp):
TTTTTTCAAAAAAAAATAACAAACA
Found at i:23627425 original size:3 final size:3
Alignment explanation
Indices: 23627419--23627460 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
23627409 AAAAATTACT
23627419 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23627461 AATCAAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23627505 original size:21 final size:21
Alignment explanation
Indices: 23627479--23627518 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23627469 TATATTAAAA
* *
23627479 ATTAAAAATTAAAGTATATGG
1 ATTAAAAAATAAAATATATGG
23627500 ATTAAAAAATAAAATATAT
1 ATTAAAAAATAAAATATAT
23627519 TTTTGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTAAAAAATAAAATATATGG
Found at i:23628004 original size:73 final size:71
Alignment explanation
Indices: 23627909--23628053 Score: 193
Period size: 73 Copynumber: 2.0 Consensus size: 71
23627899 TCTCGTTTTC
* * *
23627909 TTTTCTATAAAGTTGTTGTGCTCTTGCTTCTTTCTCATTTTTGTTATTATTTTTTAAA-AGAACA
1 TTTTCTATAAAGTTATTGTGCTCTTGCTTCTTTCTCATTCTT-TT-TT-TTTTTTAAATAAAACA
23627973 AAGAAAATG
63 AAGAAAATG
* * * *
23627982 TTTTCTTTATAGTTATTTTGCTCTTGCTTCTTTCTCATTCTTTTTTTTTTTTAAATAAAACGAAG
1 TTTTCTATAAAGTTATTGTGCTCTTGCTTCTTTCTCATTCTTTTTTTTTTTTAAATAAAACAAAG
23628047 AAAATG
66 AAAATG
23628053 T
1 T
23628054 GCTGCGTTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
70 9 0.14
71 16 0.25
72 2 0.03
73 37 0.58
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (71 bp):
TTTTCTATAAAGTTATTGTGCTCTTGCTTCTTTCTCATTCTTTTTTTTTTTTAAATAAAACAAAG
AAAATG
Found at i:23628356 original size:18 final size:19
Alignment explanation
Indices: 23628333--23628375 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
23628323 AATTAATTAT
23628333 TTTTTAA-AATATTAAAT-A
1 TTTTTAATAAT-TTAAATAA
*
23628351 TTTTTAATAATTTCAATAA
1 TTTTTAATAATTTAAATAA
23628370 TTTTTA
1 TTTTTA
23628376 TTTTTTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTAATAATTTAAATAA
Found at i:23631890 original size:3 final size:3
Alignment explanation
Indices: 23631882--23631906 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23631872 GACTATATTA
23631882 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
23631907 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:23643150 original size:15 final size:17
Alignment explanation
Indices: 23643130--23643167 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
23643120 AGAACAATTA
23643130 TATTTTTC-A-TCTTTC
1 TATTTTTCTACTCTTTC
23643145 TATTTTTCTACTCTTTC
1 TATTTTTCTACTCTTTC
*
23643162 AATTTT
1 TATTTT
23643168 CTTTTCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTTCTACTCTTTC
Found at i:23644475 original size:18 final size:18
Alignment explanation
Indices: 23644449--23644485 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23644439 CACGTTTGAA
*
23644449 CTTTTTTTCTTTTTCTTT
1 CTTTCTTTCTTTTTCTTT
*
23644467 CTTTCTTTCTTTTTTTTT
1 CTTTCTTTCTTTTTCTTT
23644485 C
1 C
23644486 ACTGGAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
CTTTCTTTCTTTTTCTTT
Found at i:23646045 original size:2 final size:2
Alignment explanation
Indices: 23646038--23646068 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23646028 GTTATTACAA
23646038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23646069 CCCATTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23648568 original size:12 final size:12
Alignment explanation
Indices: 23648551--23648576 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23648541 CTTATCTTTT
23648551 TTGTTTCCAAGC
1 TTGTTTCCAAGC
23648563 TTGTTTCCAAGC
1 TTGTTTCCAAGC
23648575 TT
1 TT
23648577 ACTTTCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (12 bp):
TTGTTTCCAAGC
Found at i:23650329 original size:42 final size:42
Alignment explanation
Indices: 23650282--23650363 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
23650272 TTAATTATGG
* *
23650282 GCACTTAGTGTGCGAAATCGAGATAGTTTCGGTTATATATTT
1 GCACTTAGTGTGCGAAATCGAGATAGCTTCGGCTATATATTT
* * *
23650324 GCACTTAGTGTGCTAGATTGAGATAGCTTCGGCTATATAT
1 GCACTTAGTGTGCGAAATCGAGATAGCTTCGGCTATATAT
23650364 ACACATTGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (42 bp):
GCACTTAGTGTGCGAAATCGAGATAGCTTCGGCTATATATTT
Found at i:23653780 original size:22 final size:23
Alignment explanation
Indices: 23653750--23653792 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23653740 CAACATGTGG
* *
23653750 CCACGTTCCAT-ATTTTATCAAT
1 CCACATTCCATAAATTTATCAAT
23653772 CCACATTCCATAAATTTATCA
1 CCACATTCCATAAATTTATCA
23653793 GTTTTGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (23 bp):
CCACATTCCATAAATTTATCAAT
Found at i:23653866 original size:37 final size:37
Alignment explanation
Indices: 23653816--23653943 Score: 134
Period size: 37 Copynumber: 3.3 Consensus size: 37
23653806 TTTTTAATTT
23653816 TTTTTCAAAATTTATCAGA-TCGTATTTTCTTAAAATA
1 TTTTTCAAAATTTATCA-ATTCGTATTTTCTTAAAATA
*
23653853 TTTTTCAAAATTTATCAATTCGTATTTTTTTAAAATA
1 TTTTTCAAAATTTATCAATTCGTATTTTCTTAAAATA
* * * *
23653890 TTTTTTTTTCAAAATTTATCTATTCATATCTTTTTTTAATATA
1 ----TTTTTCAAAATTTATCAATTCGTA--TTTTCTTAAAATA
23653933 TTTTT-AAAATT
1 TTTTTCAAAATT
23653944 GTATACGCAG
Statistics
Matches: 80, Mismatches: 4, Indels: 13
0.82 0.04 0.13
Matches are distributed among these distances:
36 1 0.01
37 34 0.43
38 6 0.08
39 5 0.06
41 22 0.28
43 12 0.15
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (37 bp):
TTTTTCAAAATTTATCAATTCGTATTTTCTTAAAATA
Found at i:23653931 original size:41 final size:41
Alignment explanation
Indices: 23653814--23653937 Score: 134
Period size: 41 Copynumber: 3.1 Consensus size: 41
23653804 TATTTTTAAT
* *
23653814 TTTTTTTCAAAATTTATCAGA-TCGTATTTTCTT-AAA-ATA
1 TTTTTTTCAAAATTTATCA-ATTCATATTTTTTTAAAATATA
* *
23653853 --TTTTTCAAAATTTATCAATTCGTATTTTTTTAAAATATT
1 TTTTTTTCAAAATTTATCAATTCATATTTTTTTAAAATATA
* *
23653892 TTTTTTTCAAAATTTATCTATTCATATCTTTTTT-TAATATA
1 TTTTTTTCAAAATTTATCAATTCATAT-TTTTTTAAAATATA
23653933 TTTTT
1 TTTTT
23653938 AAAATTGTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
36 1 0.01
37 28 0.38
38 3 0.04
39 2 0.03
41 33 0.45
42 6 0.08
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (41 bp):
TTTTTTTCAAAATTTATCAATTCATATTTTTTTAAAATATA
Found at i:23657040 original size:40 final size:35
Alignment explanation
Indices: 23656974--23657066 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 35
23656964 CATGGCAAAG
*
23656974 TGTGAAACGTAGGTATGGTATCATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
23657009 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
**
23657049 TAAGAAATGTAGGTATGG
1 TGTGAAATGTAGGTATGG
23657067 CATTTCCCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
35 17 0.35
38 4 0.08
40 28 0.57
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:23657077 original size:35 final size:36
Alignment explanation
Indices: 23657038--23657108 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
23657028 ATTATCAAAT
* *
23657038 CCATACTGAGTT-AAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAAATGTAGGTATGGCATTTC
*
23657073 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTTAAAAAAATGTAGGTATGGCATTTC
23657109 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (36 bp):
CCATACCGAGTTAAAAAAATGTAGGTATGGCATTTC
Found at i:23659162 original size:27 final size:25
Alignment explanation
Indices: 23659108--23659168 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
23659098 TTTTGTCTGT
*
23659108 TTTCTTTTTCTTTTTTTTTTCAATTG
1 TTTC-TTTTCTTTTTTTTTTCAACTG
*
23659134 TTTCTTTTCATTTTTTTATTTCACCTG
1 TTTCTTTTC-TTTTTTT-TTTCAACTG
*
23659161 TTTATTTT
1 TTTCTTTT
23659169 TTAAATTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 5 0.17
26 11 0.37
27 14 0.47
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (25 bp):
TTTCTTTTCTTTTTTTTTTCAACTG
Found at i:23668495 original size:29 final size:29
Alignment explanation
Indices: 23668453--23668512 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
23668443 TATAAGTGTG
23668453 TCTCACATATCTTTAGGATAGTAGTCTCT
1 TCTCACATATCTTTAGGATAGTAGTCTCT
23668482 TCTCACATATCTTTAGGATAGTAGTCTCT
1 TCTCACATATCTTTAGGATAGTAGTCTCT
23668511 TC
1 TC
23668513 ATATAGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (29 bp):
TCTCACATATCTTTAGGATAGTAGTCTCT
Found at i:23670284 original size:33 final size:34
Alignment explanation
Indices: 23670239--23670339 Score: 140
Period size: 33 Copynumber: 3.1 Consensus size: 34
23670229 CTTTTTTAGT
*
23670239 TCCTGTCCAGCAACCAAACT-CTCACATTCCAGC
1 TCCTGTCCAGCAACCAAACTACTCACACTCCAGC
*
23670272 TCTTGTCCAGCAACCAAA-TACTCACACTCCAGC
1 TCCTGTCCAGCAACCAAACTACTCACACTCCAGC
*
23670305 TCCTGTCCAGCAACCAAAC-ACTCCCAC-CCAG-
1 TCCTGTCCAGCAACCAAACTACTCACACTCCAGC
23670336 TCCT
1 TCCT
23670340 TGCCTACTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
31 4 0.06
32 5 0.08
33 53 0.85
ACGTcount: A:0.28, C:0.44, G:0.09, T:0.20
Consensus pattern (34 bp):
TCCTGTCCAGCAACCAAACTACTCACACTCCAGC
Found at i:23678084 original size:19 final size:19
Alignment explanation
Indices: 23678062--23678121 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
23678052 AAAAATTATA
*
23678062 AAAATTATTTAAATAAATT
1 AAAATTATTAAAATAAATT
* *
23678081 AAAATTATTAAAATTATTT
1 AAAATTATTAAAATAAATT
* * *
23678100 AAAAATATAAAAATAATTT
1 AAAATTATTAAAATAAATT
23678119 AAA
1 AAA
23678122 TTTTTTTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAAATAAATT
Found at i:23678112 original size:28 final size:28
Alignment explanation
Indices: 23678051--23678135 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
23678041 TTAAAATTTC
*
23678051 TAAAAATTATAAAAATTATTTAAATAAA
1 TAAAAATTATTAAAATTATTTAAATAAA
*
23678079 TTAAAATTATTAAAATTATTTAAA-AATA
1 TAAAAATTATTAAAATTATTTAAATAA-A
* * * *
23678107 TAAAAATAATTTAAATTTTTTTAATAAA
1 TAAAAATTATTAAAATTATTTAAATAAA
23678135 T
1 T
23678136 TGTTACAGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.04
28 44 0.92
29 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAAATTATTAAAATTATTTAAATAAA
Found at i:23682760 original size:19 final size:21
Alignment explanation
Indices: 23682722--23682767 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
23682712 TTTTTTTAAA
23682722 TTAAAACATTATAAAGATTATT
1 TTAAAACATTATAAAGATTA-T
23682744 TTAAAA-ATTA-AAA-ATTAT
1 TTAAAACATTATAAAGATTAT
23682762 TTAAAA
1 TTAAAA
23682768 GGTATGATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.29
19 4 0.17
20 3 0.12
21 4 0.17
22 6 0.25
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAACATTATAAAGATTAT
Found at i:23683729 original size:2 final size:2
Alignment explanation
Indices: 23683722--23683763 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
23683712 CTCCTTAACA
23683722 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23683764 GTTGGCACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23683867 original size:2 final size:2
Alignment explanation
Indices: 23683860--23683885 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23683850 CTTTAAAAGA
23683860 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23683886 TCACATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23685685 original size:28 final size:29
Alignment explanation
Indices: 23685653--23685707 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
23685643 GTAGACTCAG
*
23685653 TTTAAATT-CAATTTAAATAAAAAATATT
1 TTTAAATTAAAATTTAAATAAAAAATATT
* *
23685681 TTTAAATTAAAATTTAATTATAAAATA
1 TTTAAATTAAAATTTAAATAAAAAATA
23685708 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTAAATTAAAATTTAAATAAAAAATATT
Found at i:23691562 original size:20 final size:20
Alignment explanation
Indices: 23691537--23691576 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23691527 TTATTGTAGC
23691537 AATCAAACATTGACAATAAA
1 AATCAAACATTGACAATAAA
23691557 AATCAAACATTGACAATAAA
1 AATCAAACATTGACAATAAA
23691577 CTATGTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.15, G:0.05, T:0.20
Consensus pattern (20 bp):
AATCAAACATTGACAATAAA
Found at i:23696165 original size:19 final size:19
Alignment explanation
Indices: 23696141--23696194 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
23696131 GAGCTCGACT
23696141 TAATAAT-TAAACTTAAGGC
1 TAATAATATAAA-TTAAGGC
* *
23696160 TAATAATATATATTAAGGG
1 TAATAATATAAATTAAGGC
*
23696179 TAATAATATAATTTAA
1 TAATAATATAAATTAA
23696195 ATATGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 27 0.90
20 3 0.10
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (19 bp):
TAATAATATAAATTAAGGC
Found at i:23697559 original size:2 final size:2
Alignment explanation
Indices: 23697552--23697578 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23697542 CTTTTACTTC
23697552 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
23697579 TTGAAATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23707785 original size:6 final size:6
Alignment explanation
Indices: 23707774--23707801 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23707764 GTTCACATTC
23707774 GATGCA GATGCA GATGCA GATGCA GATG
1 GATGCA GATGCA GATGCA GATGCA GATG
23707802 TTGAAGCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.36, T:0.18
Consensus pattern (6 bp):
GATGCA
Found at i:23718830 original size:52 final size:52
Alignment explanation
Indices: 23718774--23718895 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
23718764 AGTAAAACGT
* * *
23718774 ATATAAGAAAAATAATAATGAAAATAATATTAG-TATATAAATAG-AAATAAAA
1 ATAT-AGATAAATAATAAT-AAAATAATAGTAGAAATATAAATAGAAAATAAAA
*
23718826 ATATA-ATAAATAGA-AATATAATAATAGTAGAAATATAAATAGATAAATAAAA
1 ATATAGATAAATA-ATAATAAAATAATAGTAGAAATATAAATAGA-AAATAAAA
23718878 AT-TAGATAAATAATAATA
1 ATATAGATAAATAATAATA
23718896 GTATTAGAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
49 11 0.18
50 19 0.32
51 5 0.08
52 25 0.42
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (52 bp):
ATATAGATAAATAATAATAAAATAATAGTAGAAATATAAATAGAAAATAAAA
Found at i:23718842 original size:15 final size:15
Alignment explanation
Indices: 23718818--23718863 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
23718808 ATATAAATAG
*
23718818 AAATAAAAATATAAT
1 AAATAGAAATATAAT
23718833 AAATAGAAATATAAT
1 AAATAGAAATATAAT
23718848 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
23718864 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:23718864 original size:29 final size:29
Alignment explanation
Indices: 23718831--23718947 Score: 85
Period size: 29 Copynumber: 4.0 Consensus size: 29
23718821 TAAAAATATA
*
23718831 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * * *
23718860 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * *
23718889 A-ATAATAGTATTAGAATAACAAAATAAAT
1 ATA-AATAGAAATATAATAATAATAGAAAT
* *
23718918 ATAAATAGAAACATAATAATAATAGCAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
23718947 A
1 A
23718948 ATATATTAAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
28 2 0.03
29 59 0.92
30 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:23718866 original size:44 final size:44
Alignment explanation
Indices: 23718812--23718898 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
23718802 ATTAGTATAT
23718812 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
23718856 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
23718899 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:23718883 original size:15 final size:14
Alignment explanation
Indices: 23718810--23718926 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
23718800 ATATTAGTAT
*
23718810 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
23718823 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
23718839 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
23718853 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
23718868 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
23718883 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
23718897 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
23718912 ATAAATATAAATAG
1 ATAAATAAAAATAG
23718926 A
1 A
23718927 AACATAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 22 0.27
15 35 0.43
16 6 0.07
17 7 0.09
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:23723477 original size:47 final size:47
Alignment explanation
Indices: 23723352--23723609 Score: 302
Period size: 47 Copynumber: 5.7 Consensus size: 47
23723342 GGAATGAAAA
* *
23723352 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGA-TACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGAGT-CAT-T
* *
23723400 AATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGAGTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGAGTCATT
* * *
23723447 AACGTGGTGCTAAGAGGATATACCATGGTTA-A-ACA-T--G----T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGAGTCATT
* * * *
23723485 AACGTGATGCTAAGTGAATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGAGTCATT
* *
23723532 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGAGTCATT
*
23723579 AATGTGGTGCTAAGTGGATATACCACGGTTA
1 AACGTGGTGCTAAGTGGATATACCACGGTTA
23723610 AACATGTAAC
Statistics
Matches: 180, Mismatches: 20, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
38 27 0.15
39 1 0.01
40 2 0.01
41 1 0.01
42 1 0.01
44 1 0.01
45 2 0.01
46 1 0.01
47 103 0.57
48 40 0.22
49 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGAGTCATT
Found at i:23723537 original size:85 final size:85
Alignment explanation
Indices: 23723394--23723562 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 85
23723384 ACATATTGAT
* * *
23723394 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTA
1 ACATGTAACGTGATGCTAAGTGAATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTA
*
23723459 AGAGGATATACCATGGTTAA
66 AGAGGATATACCACGGTTAA
*
23723479 ACATGTAACGTGATGCTAAGTGAATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGATGCTAAGTGAATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTA
* *
23723544 AGTGGATATGCCACGGTTA
66 AGAGGATATACCACGGTTA
23723563 CATATATTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGATGCTAAGTGAATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTA
AGAGGATATACCACGGTTAA
Found at i:23723562 original size:132 final size:133
Alignment explanation
Indices: 23723352--23723652 Score: 478
Period size: 132 Copynumber: 2.3 Consensus size: 133
23723342 GGAATGAAAA
* * *
23723352 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAATGTGGTGCTAAGTGG
1 AACGTGGTGCTAAGTGGATATGCCACGGTTACACATATTGATACATGTAACGTGGTGCTAAGTGG
*
23723417 ATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTAAGAGGATATACCATGGTTAAACA
66 ATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTAAGAGGATATACCACGGTTAAACA
23723482 TGT
131 TGT
* * * *
23723485 AACGTGATGCTAAGTGAATATGCCACGGTTACATATATTGATTCAT-TAACGTGGTGCTAAGTGG
1 AACGTGGTGCTAAGTGGATATGCCACGGTTACACATATTGATACATGTAACGTGGTGCTAAGTGG
* * *
23723549 ATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTAAACA
66 ATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTAAGAGGATATACCACGGTTAAACA
23723614 TGT
131 TGT
* *
23723617 AACGTGGTGCTAAGTGGATATGCCATGGTTATACAT
1 AACGTGGTGCTAAGTGGATATGCCACGGTTACACAT
23723653 GTTAATTTGA
Statistics
Matches: 152, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
132 112 0.74
133 40 0.26
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (133 bp):
AACGTGGTGCTAAGTGGATATGCCACGGTTACACATATTGATACATGTAACGTGGTGCTAAGTGG
ATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTAAGAGGATATACCACGGTTAAACA
TGT
Found at i:23725614 original size:25 final size:25
Alignment explanation
Indices: 23725545--23725624 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
23725535 TACTCGTTAT
***
23725545 TGGCTCACATGAGCTTCTTATTACA
1 TGGCTCACATGAGCTTCCCGTTACA
* ** *
23725570 TAGCTCGGATAAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTACA
*
23725595 TGGCTCACATGAGCTTCCCGTTATA
1 TGGCTCACATGAGCTTCCCGTTACA
23725620 TGGCT
1 TGGCT
23725625 TAAGAGAGAG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCGTTACA
Found at i:23729741 original size:23 final size:23
Alignment explanation
Indices: 23729727--23729772 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23729717 TATTACAATT
* *
23729727 TATAAATATTTTATACTATAAAA
1 TATAAATATTTTATAATACAAAA
23729750 TATAAATATTTTAATAATACAAA
1 TATAAATATTTT-ATAATACAAA
23729773 TATGACTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TATAAATATTTTATAATACAAAA
Found at i:23730711 original size:15 final size:15
Alignment explanation
Indices: 23730687--23730717 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23730677 ATTTTTAAAT
23730687 TTATGATATTTTATA
1 TTATGATATTTTATA
*
23730702 TTATGTTATTTTATA
1 TTATGATATTTTATA
23730717 T
1 T
23730718 ATTAATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATGATATTTTATA
Found at i:23741880 original size:3 final size:3
Alignment explanation
Indices: 23741872--23741906 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
23741862 TGGAACCACA
23741872 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23741907 CAACAACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23753248 original size:21 final size:21
Alignment explanation
Indices: 23753224--23753264 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23753214 GGCAACCAAG
23753224 ACATGCCATTTAATACACAAA
1 ACATGCCATTTAATACACAAA
* *
23753245 ACATGCCATTTTATTCACAA
1 ACATGCCATTTAATACACAA
23753265 CCATTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.29
Consensus pattern (21 bp):
ACATGCCATTTAATACACAAA
Found at i:23758924 original size:26 final size:26
Alignment explanation
Indices: 23758884--23758936 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
23758874 AATTCAGCAT
* *
23758884 TAAAATATTATGATTGCTTGACACTC
1 TAAAATATTACGATTGCGTGACACTC
*
23758910 TAAAATATTGCGATTGCGTGACACTC
1 TAAAATATTACGATTGCGTGACACTC
23758936 T
1 T
23758937 CTACTCCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (26 bp):
TAAAATATTACGATTGCGTGACACTC
Found at i:23764813 original size:15 final size:15
Alignment explanation
Indices: 23764793--23764821 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23764783 GCGAAATACA
23764793 CCTATTAAGCCAACC
1 CCTATTAAGCCAACC
23764808 CCTATTAAGCCAAC
1 CCTATTAAGCCAAC
23764822 TCCCAATACG
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:0.34, C:0.38, G:0.07, T:0.21
Consensus pattern (15 bp):
CCTATTAAGCCAACC
Found at i:23765340 original size:39 final size:40
Alignment explanation
Indices: 23765260--23765348 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 40
23765250 AAATATTATA
* * *
23765260 TTTAATACAATAAAATATTTATTATATTTAATTTTA-GTT
1 TTTAATATAATAAAACATTTATTATATTTAATGTTATGTT
*
23765299 TTTAATATAATAAAACATTTATTATATTT-ATGGTTATTTT
1 TTTAATATAATAAAACATTTATTATATTTAAT-GTTATGTT
23765339 TTTAATATAA
1 TTTAATATAA
23765349 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.05
39 30 0.68
40 12 0.27
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTATTATATTTAATGTTATGTT
Done.