Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 112 of 145
Found at i:37480638 original size:21 final size:20
Alignment explanation
Indices: 37480484--37480638 Score: 118
Period size: 21 Copynumber: 7.5 Consensus size: 20
37480474 ATAATAATAA
37480484 ACAACTAAAAACCAAAAACA-T
1 ACAACTAAAAA-CAAAAA-AGT
* * *
37480505 ACAATTAAATGATAAAAAAGT
1 ACAACTAAA-AACAAAAAAGT
*
37480526 ACAACTAAAAAGAAAAAAGTT
1 ACAACTAAAAACAAAAAAG-T
* *
37480547 ACAACTAAATGA-TAAAAAGT
1 ACAACTAAA-AACAAAAAAGT
*
37480567 ACAAGTAAAAAC-AAAAAGTT
1 ACAACTAAAAACAAAAAAG-T
*
37480587 ACAACTAAATGACTAAAAAAGT
1 ACAACTAAA-AAC-AAAAAAGT
*
37480609 ACAAATAAAAACAAAAAAGTT
1 ACAACTAAAAACAAAAAAG-T
*
37480630 ATAACTAAA
1 ACAACTAAA
37480639 TGTTGAAAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
19 7 0.06
20 34 0.31
21 50 0.46
22 11 0.10
23 6 0.06
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.17
Consensus pattern (20 bp):
ACAACTAAAAACAAAAAAGT
Found at i:37486331 original size:70 final size:71
Alignment explanation
Indices: 37486218--37486366 Score: 266
Period size: 70 Copynumber: 2.1 Consensus size: 71
37486208 TGTTGGTCAA
37486218 ATTTTATATTTTCGTATATAAATTATAATAATTTCGTAAATTAGTTTTGTAGAATGTTCGT-TTT
1 ATTTTATATTTTCGTATATAAATTATAATAATTTCGTAAATTAGTTTTGTAGAATGTTCGTGTTT
37486282 TCTTAT
66 TCTTAT
37486288 ATTTTATATTTTCGTATATAAATTATAA-ATATTTCGTAAATTAGTTTTGTAGAATGTTCGTGTT
1 ATTTTATATTTTCGTATATAAATTATAATA-ATTTCGTAAATTAGTTTTGTAGAATGTTCGTGTT
37486352 TTCTTAT
65 TTCTTAT
37486359 ATTATTAT
1 ATT-TTAT
37486367 TTGCGTAATA
Statistics
Matches: 76, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
69 1 0.01
70 59 0.78
71 12 0.16
72 4 0.05
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.54
Consensus pattern (71 bp):
ATTTTATATTTTCGTATATAAATTATAATAATTTCGTAAATTAGTTTTGTAGAATGTTCGTGTTT
TCTTAT
Found at i:37493480 original size:3 final size:3
Alignment explanation
Indices: 37493468--37493506 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
37493458 AAAGAGGAGG
* *
37493468 AGA AGG AGA AGA AGA AGA AGA AGA AGA AGA AGG AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
37493507 GGAAAAATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:37493480 original size:9 final size:9
Alignment explanation
Indices: 37493462--37493506 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
37493452 AAAGAAAAAG
*
37493462 AGGAGGAGA
1 AGGAGAAGA
37493471 AGGAGAAGA
1 AGGAGAAGA
*
37493480 AGAAGAAGA
1 AGGAGAAGA
*
37493489 AGAAGAAGA
1 AGGAGAAGA
37493498 AGGAGAAGA
1 AGGAGAAGA
37493507 GGAAAAATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (9 bp):
AGGAGAAGA
Found at i:37493916 original size:16 final size:16
Alignment explanation
Indices: 37493895--37493925 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37493885 TTACTTATGT
37493895 TGGTATACATGGCTAC
1 TGGTATACATGGCTAC
*
37493911 TGGTATACATTGCTA
1 TGGTATACATGGCTA
37493926 ACCAGCTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (16 bp):
TGGTATACATGGCTAC
Found at i:37497105 original size:6 final size:6
Alignment explanation
Indices: 37497090--37497219 Score: 98
Period size: 6 Copynumber: 20.7 Consensus size: 6
37497080 AACCAAACTG
* * * * **
37497090 AAATCA AAATCT AAATCA AAATCT AAATCG AGATCA AAATTG AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* ** *
37497138 AAATCA AAATCA GAATCA GTGAGTGTTTCA AAATCA AAATCG AAATCA
1 AAATCA AAATCA AAATCA ---A---AATCA AAATCA AAATCA AAATCA
* *
37497186 AAATCA AAATCA AAATCA GAATCG AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
37497220 TGAAATCGAA
Statistics
Matches: 95, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
6 91 0.96
9 1 0.01
12 3 0.03
ACGTcount: A:0.55, C:0.15, G:0.08, T:0.22
Consensus pattern (6 bp):
AAATCA
Found at i:37497128 original size:30 final size:30
Alignment explanation
Indices: 37497089--37497219 Score: 126
Period size: 30 Copynumber: 4.4 Consensus size: 30
37497079 TAACCAAACT
*
37497089 GAAATCAAAATCTAAATCAAAATCTAAATC
1 GAAATCAAAATCTAAATCAAAATCAAAATC
*
37497119 GAGATCAAAAT-TGAAATCAAAATCAAAATC
1 GAAATCAAAATCT-AAATCAAAATCAAAATC
* * * *
37497149 -AGAATCAGTGAGTGT--TTCAAAATCAAAATC
1 GA-AATCA--AAATCTAAATCAAAATCAAAATC
* *
37497179 GAAATCAAAATCAAAATCAAAATCAGAATC
1 GAAATCAAAATCTAAATCAAAATCAAAATC
37497209 GAAATCAAAAT
1 GAAATCAAAAT
37497220 TGAAATCGAA
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.02
29 2 0.02
30 73 0.90
31 1 0.01
32 2 0.02
33 1 0.01
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (30 bp):
GAAATCAAAATCTAAATCAAAATCAAAATC
Found at i:37497225 original size:6 final size:6
Alignment explanation
Indices: 37497168--37497231 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
37497158 GAGTGTTTCA
* * * * *
37497168 AAATCA AAATCG AAATCA AAATCA AAATCA AAATC- AGAATCG AAATCA
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG A-AATCG AAATCG
*
37497216 AAATTG AAATCG AAAT
1 AAATCG AAATCG AAAT
37497232 AACCCTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
5 1 0.02
6 48 0.96
7 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (6 bp):
AAATCG
Found at i:37497724 original size:21 final size:21
Alignment explanation
Indices: 37497698--37497737 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37497688 AACGTGGCAA
37497698 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
*
37497719 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
37497738 GGTCCAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:37499375 original size:6 final size:6
Alignment explanation
Indices: 37499366--37499423 Score: 107
Period size: 6 Copynumber: 9.7 Consensus size: 6
37499356 ATAGGAATAG
37499366 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
37499414 GCATAT GTAT
1 GTATAT GTAT
37499424 CCATATACAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (6 bp):
GTATAT
Found at i:37500587 original size:28 final size:28
Alignment explanation
Indices: 37500555--37500615 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
37500545 GTCTGGATGC
*
37500555 GGTACTTACCAAAATAGATTAATCTCGT
1 GGTACTTACCAAAATAGATTAATCTCAT
*
37500583 GGTACTTACCAAAATAGATTAATTTCAT
1 GGTACTTACCAAAATAGATTAATCTCAT
37500611 GGTAC
1 GGTAC
37500616 GGGTTATCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (28 bp):
GGTACTTACCAAAATAGATTAATCTCAT
Found at i:37500822 original size:63 final size:63
Alignment explanation
Indices: 37500743--37500868 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
37500733 GCAAGTCCAT
37500743 AACCTGAAACTTCCAGATATTTAGTTGGACTCATGTTATTGAAGTAGTTCCGTGAAATAGGAC
1 AACCTGAAACTTCCAGATATTTAGTTGGACTCATGTTATTGAAGTAGTTCCGTGAAATAGGAC
37500806 AACCTGAAACTTCCAGATATTTAGTTGGACTCATGTTATTGAAGTAGTTCCGTGAAATAGGAC
1 AACCTGAAACTTCCAGATATTTAGTTGGACTCATGTTATTGAAGTAGTTCCGTGAAATAGGAC
37500869 TAGTATGGGA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (63 bp):
AACCTGAAACTTCCAGATATTTAGTTGGACTCATGTTATTGAAGTAGTTCCGTGAAATAGGAC
Found at i:37504608 original size:7 final size:7
Alignment explanation
Indices: 37504596--37504642 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
37504586 TAGTCGATTG
37504596 GTATTTA
1 GTATTTA
37504603 GTATTTA
1 GTATTTA
37504610 GTATTTA
1 GTATTTA
37504617 GTATTTA
1 GTATTTA
37504624 GTATTTA
1 GTATTTA
37504631 GTATTTA
1 GTATTTA
37504638 GTATT
1 GTATT
37504643 ATGTATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:37505205 original size:30 final size:30
Alignment explanation
Indices: 37505139--37505212 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
37505129 GATGACAACG
37505139 CAGGCCCATCAACAAGGCCCAGAAATTCAC
1 CAGGCCCATCAACAAGGCCCAGAAATTCAC
* * * * *
37505169 CTGGCCCATCATC-AGCGCCCATAACTTCAT
1 CAGGCCCATCAACAAG-GCCCAGAAATTCAC
*
37505199 CAGGCCCAGCAACA
1 CAGGCCCATCAACA
37505213 GTACCGACAC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.31, C:0.39, G:0.16, T:0.14
Consensus pattern (30 bp):
CAGGCCCATCAACAAGGCCCAGAAATTCAC
Found at i:37505322 original size:17 final size:19
Alignment explanation
Indices: 37505290--37505332 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
37505280 TGTCAGGTGC
*
37505290 GTATCCTAGCCCCTTA-AT
1 GTATCCTAGACCCTTATAT
37505308 GTATCCTA-ACCCTTATAT
1 GTATCCTAGACCCTTATAT
*
37505326 GTTTCCT
1 GTATCCT
37505333 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (19 bp):
GTATCCTAGACCCTTATAT
Found at i:37505801 original size:7 final size:7
Alignment explanation
Indices: 37505781--37505821 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
37505771 ATAAAATAGA
37505781 AATTTAT
1 AATTTAT
37505788 AAATTTAT
1 -AATTTAT
37505796 AATTTAT
1 AATTTAT
37505803 AA-TTA-
1 AATTTAT
37505808 AATTTAT
1 AATTTAT
37505815 AATTTAT
1 AATTTAT
37505822 TTGACAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.06
6 6 0.19
7 16 0.52
8 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTAT
Found at i:37505874 original size:21 final size:21
Alignment explanation
Indices: 37505846--37505937 Score: 139
Period size: 21 Copynumber: 4.3 Consensus size: 21
37505836 CAAAAACCCT
*
37505846 AACCCTAACCGTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
37505867 AACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
37505889 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
37505910 AACCCCAACCCTTAACATAAA
1 AACCCTAACCCTTAACTTAAA
37505931 AACCCTA
1 AACCCTA
37505938 TAACCCTAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 45 0.70
22 19 0.30
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.21
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:37505895 original size:43 final size:42
Alignment explanation
Indices: 37505846--37505937 Score: 139
Period size: 43 Copynumber: 2.2 Consensus size: 42
37505836 CAAAAACCCT
* * *
37505846 AACCCTAACCGTTAACTTAAAAACACTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAAC-CCAAACCCTTAACATAAA
*
37505889 AACCCTAACCCTTAACTTAAAAACCCCAACCCTTAACATAAA
1 AACCCTAACCCTTAACTTAAAAACCCAAACCCTTAACATAAA
37505931 AACCCTA
1 AACCCTA
37505938 TAACCCTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 22 0.49
43 23 0.51
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.21
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTAAAAACCCAAACCCTTAACATAAA
Found at i:37508147 original size:19 final size:19
Alignment explanation
Indices: 37508123--37508160 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37508113 TAGATCTGGA
37508123 AACTCTAATGCATCATCTG
1 AACTCTAATGCATCATCTG
37508142 AACTCTAATGCATCATCTG
1 AACTCTAATGCATCATCTG
37508161 CAGACAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
AACTCTAATGCATCATCTG
Found at i:37512103 original size:22 final size:25
Alignment explanation
Indices: 37512049--37512106 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
37512039 GCTACATGTT
37512049 TAGAGACATTGATCAATATATTTACA
1 TAGAGACATTGATCAATATA-TTACA
*
37512075 TAAAGACATTGATCAATATA-T-C-
1 TAGAGACATTGATCAATATATTACA
37512097 TAGAGACATT
1 TAGAGACATT
37512107 TGAATGTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 9 0.30
23 1 0.03
24 1 0.03
26 19 0.63
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (25 bp):
TAGAGACATTGATCAATATATTACA
Found at i:37522194 original size:27 final size:27
Alignment explanation
Indices: 37522158--37522226 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
37522148 GGAGGGCCTG
* * *
37522158 CCACAGGCGGCACCAATGGTGGCAGTA
1 CCACAGGCGGCACCAAAGGTGCCACTA
* *
37522185 GCAGAGGCGGCACCAAAGGTGCCACTA
1 CCACAGGCGGCACCAAAGGTGCCACTA
37522212 CCACAGGCGGCACCA
1 CCACAGGCGGCACCA
37522227 GCCCTTATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.33, G:0.32, T:0.07
Consensus pattern (27 bp):
CCACAGGCGGCACCAAAGGTGCCACTA
Found at i:37522280 original size:13 final size:13
Alignment explanation
Indices: 37522262--37522288 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37522252 ATTCGACTGG
37522262 AGGAGAAGAAAGA
1 AGGAGAAGAAAGA
37522275 AGGAGAAGAAAGA
1 AGGAGAAGAAAGA
37522288 A
1 A
37522289 AAAGAAAGAA
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:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
AGGAGAAGAAAGA
Found at i:37522293 original size:10 final size:10
Alignment explanation
Indices: 37522280--37522336 Score: 78
Period size: 10 Copynumber: 5.7 Consensus size: 10
37522270 AAAGAAGGAG
37522280 AAGAAAGAAA
1 AAGAAAGAAA
37522290 AAGAAAGAAA
1 AAGAAAGAAA
* *
37522300 AGGAAAGGAA
1 AAGAAAGAAA
*
37522310 AAGAAAGGAA
1 AAGAAAGAAA
37522320 AAGAAAGAAA
1 AAGAAAGAAA
*
37522330 AGGAAAG
1 AAGAAAG
37522337 GAGAAGAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 42 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:37522306 original size:5 final size:5
Alignment explanation
Indices: 37522282--37522338 Score: 60
Period size: 5 Copynumber: 11.4 Consensus size: 5
37522272 AGAAGGAGAA
* * * * * *
37522282 GAAAG AAAAA GAAAG AAAAG GAAAG GAAAA GAAAG GAAAA GAAAG AAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
37522332 GAAAG GA
1 GAAAG GA
37522339 GAAGAAGAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:37522314 original size:30 final size:30
Alignment explanation
Indices: 37522274--37522344 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
37522264 GAGAAGAAAG
37522274 AAGGAGAAGAAAGAAAAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAAGAAAGAAAAGGA
* *
37522304 AAGGAAAAGAAAGGAAAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAAGAAAGAAAAGGA
37522334 AAGGAGAAGAA
1 AAGGAGAAGAA
37522345 GAAGAGGGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (30 bp):
AAGGAGAAGAAAGAAAAAGAAAGAAAAGGA
Found at i:37522337 original size:20 final size:19
Alignment explanation
Indices: 37522270--37522344 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 19
37522260 GGAGGAGAAG
*
37522270 AAAG-AAGGAGAAGAAAGAA
1 AAAGAAAGGAAAAGAAAG-A
37522289 AAAGAAA-GAAAAGGAAAGGA
1 AAAGAAAGGAAAA-GAAA-GA
37522309 AAAGAAAGGAAAAGAAAGA
1 AAAGAAAGGAAAAGAAAGA
*
37522328 AAAGGAAAGGAGAAGAA
1 AAA-GAAAGGAAAAGAA
37522345 GAAGAGGGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
19 13 0.27
20 30 0.61
21 6 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AAAGAAAGGAAAAGAAAGA
Found at i:37530261 original size:40 final size:40
Alignment explanation
Indices: 37530158--37530266 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 40
37530148 AGGGTTATCA
* * * *
37530158 AAGTACAAAC-GGAGCACGAATGTGTATTTAGGGGTATTG
1 AAGTACAAACAGGAGCACGTATGTGCATTCAGGGGTACTG
37530197 AAGTACAAA-AGGAGCACGTATGTGCATTCAGGGGTACTG
1 AAGTACAAACAGGAGCACGTATGTGCATTCAGGGGTACTG
37530236 AAGTACAAACAGGAGCACGTATGTGCATTCA
1 AAGTACAAACAGGAGCACGTATGTGCATTCA
37530267 TACAATAATT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 43 0.67
40 21 0.33
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (40 bp):
AAGTACAAACAGGAGCACGTATGTGCATTCAGGGGTACTG
Found at i:37535435 original size:9 final size:9
Alignment explanation
Indices: 37535417--37535451 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
37535407 TCCACTCTTC
37535417 TAAA-TTTT
1 TAAATTTTT
37535425 TAAATTTTT
1 TAAATTTTT
37535434 TAAATTTTT
1 TAAATTTTT
37535443 TAAATTTTT
1 TAAATTTTT
37535452 GTTGTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAAATTTTT
Found at i:37539675 original size:44 final size:45
Alignment explanation
Indices: 37539610--37539700 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
37539600 ACCTCTATTC
* * *
37539610 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
37539654 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
37539699 CA
1 CA
37539701 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:37539702 original size:16 final size:16
Alignment explanation
Indices: 37539681--37539732 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
37539671 GATTAGCTAT
37539681 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37539697 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
37539713 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
37539729 TACA
1 TACA
37539733 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:37544163 original size:430 final size:430
Alignment explanation
Indices: 37543363--37544222 Score: 1720
Period size: 430 Copynumber: 2.0 Consensus size: 430
37543353 ATGCACCCAC
37543363 AAATAATATATATATTTAAATTTTTTTATTACTTTAATTAGATCTAATGTTGTTGGAAAAATCTG
1 AAATAATATATATATTTAAATTTTTTTATTACTTTAATTAGATCTAATGTTGTTGGAAAAATCTG
37543428 ATTTAGAAAATGATTTTCAGTCACAGCGGAAATTTAAAATTTTGAAAACTAAGCTACTTTGTGAT
66 ATTTAGAAAATGATTTTCAGTCACAGCGGAAATTTAAAATTTTGAAAACTAAGCTACTTTGTGAT
37543493 ATCTATAGTAATAAACTTTTCCCGAAAAGTACATGTGTTTTGTGCGAGACGGATATGTATCATTC
131 ATCTATAGTAATAAACTTTTCCCGAAAAGTACATGTGTTTTGTGCGAGACGGATATGTATCATTC
37543558 CCTGCTTTCAATGGAACAACCTTATCCTTTATCCTCATACCTCGAATTGTGCTGAGTGTGAGCTA
196 CCTGCTTTCAATGGAACAACCTTATCCTTTATCCTCATACCTCGAATTGTGCTGAGTGTGAGCTA
37543623 AGTAATACAAACCAAACATAGACCAAGAAACGATTTAATTAATTTTAGTAAGATTCAAACATTGA
261 AGTAATACAAACCAAACATAGACCAAGAAACGATTTAATTAATTTTAGTAAGATTCAAACATTGA
37543688 ACAAGAAATGATTTAATTACTTTCAATAAGGACTGATTGGACATTTGTAATTAGGGCTCAAATGA
326 ACAAGAAATGATTTAATTACTTTCAATAAGGACTGATTGGACATTTGTAATTAGGGCTCAAATGA
37543753 TTTATAATTAAGTTCAAGCTTTTCGCCTATTAATTATAAA
391 TTTATAATTAAGTTCAAGCTTTTCGCCTATTAATTATAAA
37543793 AAATAATATATATATTTAAATTTTTTTATTACTTTAATTAGATCTAATGTTGTTGGAAAAATCTG
1 AAATAATATATATATTTAAATTTTTTTATTACTTTAATTAGATCTAATGTTGTTGGAAAAATCTG
37543858 ATTTAGAAAATGATTTTCAGTCACAGCGGAAATTTAAAATTTTGAAAACTAAGCTACTTTGTGAT
66 ATTTAGAAAATGATTTTCAGTCACAGCGGAAATTTAAAATTTTGAAAACTAAGCTACTTTGTGAT
37543923 ATCTATAGTAATAAACTTTTCCCGAAAAGTACATGTGTTTTGTGCGAGACGGATATGTATCATTC
131 ATCTATAGTAATAAACTTTTCCCGAAAAGTACATGTGTTTTGTGCGAGACGGATATGTATCATTC
37543988 CCTGCTTTCAATGGAACAACCTTATCCTTTATCCTCATACCTCGAATTGTGCTGAGTGTGAGCTA
196 CCTGCTTTCAATGGAACAACCTTATCCTTTATCCTCATACCTCGAATTGTGCTGAGTGTGAGCTA
37544053 AGTAATACAAACCAAACATAGACCAAGAAACGATTTAATTAATTTTAGTAAGATTCAAACATTGA
261 AGTAATACAAACCAAACATAGACCAAGAAACGATTTAATTAATTTTAGTAAGATTCAAACATTGA
37544118 ACAAGAAATGATTTAATTACTTTCAATAAGGACTGATTGGACATTTGTAATTAGGGCTCAAATGA
326 ACAAGAAATGATTTAATTACTTTCAATAAGGACTGATTGGACATTTGTAATTAGGGCTCAAATGA
37544183 TTTATAATTAAGTTCAAGCTTTTCGCCTATTAATTATAAA
391 TTTATAATTAAGTTCAAGCTTTTCGCCTATTAATTATAAA
37544223 CTCATTTAGT
Statistics
Matches: 430, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
430 430 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (430 bp):
AAATAATATATATATTTAAATTTTTTTATTACTTTAATTAGATCTAATGTTGTTGGAAAAATCTG
ATTTAGAAAATGATTTTCAGTCACAGCGGAAATTTAAAATTTTGAAAACTAAGCTACTTTGTGAT
ATCTATAGTAATAAACTTTTCCCGAAAAGTACATGTGTTTTGTGCGAGACGGATATGTATCATTC
CCTGCTTTCAATGGAACAACCTTATCCTTTATCCTCATACCTCGAATTGTGCTGAGTGTGAGCTA
AGTAATACAAACCAAACATAGACCAAGAAACGATTTAATTAATTTTAGTAAGATTCAAACATTGA
ACAAGAAATGATTTAATTACTTTCAATAAGGACTGATTGGACATTTGTAATTAGGGCTCAAATGA
TTTATAATTAAGTTCAAGCTTTTCGCCTATTAATTATAAA
Found at i:37546318 original size:31 final size:31
Alignment explanation
Indices: 37546275--37546346 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
37546265 ATGGTGGGTG
*
37546275 GCCGGCGGCAACAAGAAGGTAGCAAATAGTT
1 GCCGACGGCAACAAGAAGGTAGCAAATAGTT
37546306 GCCGACGGCAACAAGAAGGTAGCAAATAGTT
1 GCCGACGGCAACAAGAAGGTAGCAAATAGTT
37546337 GCCGACGGCA
1 GCCGACGGCA
37546347 GTGGAGCAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.22, G:0.32, T:0.11
Consensus pattern (31 bp):
GCCGACGGCAACAAGAAGGTAGCAAATAGTT
Found at i:37550154 original size:20 final size:22
Alignment explanation
Indices: 37550112--37550154 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
37550102 CTTGGAAAAT
*
37550112 TTATTGTGTTGAATAGTAGTGG
1 TTATTGTGTTGAATAATAGTGG
*
37550134 TTATTGT-TTTAATAATA-TGG
1 TTATTGTGTTGAATAATAGTGG
37550154 T
1 T
37550155 ATGATGGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
TTATTGTGTTGAATAATAGTGG
Found at i:37554446 original size:16 final size:16
Alignment explanation
Indices: 37554425--37554457 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37554415 TTCGCTGTAT
37554425 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
37554441 TGGAATAGAGTCGTAA
1 TGGAATAGAGGCGTAA
37554457 T
1 T
37554458 AGTAAATCAA
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:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:37560135 original size:18 final size:18
Alignment explanation
Indices: 37560112--37560146 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37560102 GCCAGGTGCA
*
37560112 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
37560130 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
37560147 ATTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:37560153 original size:18 final size:18
Alignment explanation
Indices: 37560111--37560153 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
37560101 TGCCAGGTGC
*
37560111 ATATCCTAGCCCTTATAT
1 ATATCCTAACCCTTATAT
*
37560129 GTATCCTAACCCTTATAT
1 ATATCCTAACCCTTATAT
*
37560147 ATTTCCT
1 ATATCCT
37560154 TTTCCCAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATCCTAACCCTTATAT
Found at i:37562889 original size:36 final size:36
Alignment explanation
Indices: 37562837--37562920 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
37562827 ATATATAATT
* * * * * *
37562837 ATCACTTTTAAATATTACAATTATATCATTATGCCGA
1 ATCACTTAT-AATATTACAAATACATCAATAGGCCAA
37562874 ATCACTTATAATATTACAAATACATCAATAGGCCAA
1 ATCACTTATAATATTACAAATACATCAATAGGCCAA
37562910 ATCACTTATAA
1 ATCACTTATAA
37562921 GTTCAATTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 33 0.80
37 8 0.20
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.35
Consensus pattern (36 bp):
ATCACTTATAATATTACAAATACATCAATAGGCCAA
Found at i:37563190 original size:43 final size:43
Alignment explanation
Indices: 37563124--37563247 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
37563114 GGCTTGTACA
* * * * *
37563124 ATGCCAACGTCCCGGACGTGGTCTTACATGTAATCATATA-TTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-AGTCG
37563167 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAGTCG
*
37563210 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA
37563248 TATCGAAATC
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 4 0.06
43 63 0.90
44 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
Found at i:37567240 original size:125 final size:126
Alignment explanation
Indices: 37566925--37567696 Score: 1025
Period size: 126 Copynumber: 6.2 Consensus size: 126
37566915 TAAGGCTAAG
** * * *
37566925 CAGGAACTACTGTAGAAAAAGAGCACCCACGTGTGACCATTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCTTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * *
37566990 ATCCTGTTTGAAGCATTTTTGACACTATTTTTTCAAAAACGTCTTCTGAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* ** * * *
37567051 CAGGAACTACGGTAGAAAAAGAGCACCCACGTGTGACCATTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCTTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* ** *
37567116 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAAATGTCTTCTGAAAATTA-TTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * * *
37567176 CAAGAACTACTGTAGAAAAAGAGCTTTCACGTGGGAACTTTTTTTAGTAATTTTGTTGATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCTTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
37567241 ATTCTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTTTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
37567302 CAGGAACTACTGTAGAAAAAGAG-TGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAAAAGAGCT-TCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
* * * *
37567366 CATCTTGCTTGAAGCGTTTTTTACACTATTTTTT-AGAACCGTCTTTTCGAAATTA-TTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * *
37567426 CAGGAACTACTGTAGAAAAAGAG-TATCGACATGGGAGCTTTTTTCAATAATTTTGCTGATAGTG
1 CAGGAACTACTGTAGAAAAAGAGCT-TCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
* * *
37567490 CATCCTGCTTGAAACGTTTTTGACACTA-TTTTTCAGAACTGTCTTCTCTAAATTATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * *
37567551 CATGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCTTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * *
37567616 ATCCTGCTTGAAGCGTTTTTGACATTATCTTTTCCGAACCGTTTTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
37567677 CTGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
37567697 AAACAAAATT
Statistics
Matches: 578, Mismatches: 62, Indels: 12
0.89 0.10 0.02
Matches are distributed among these distances:
123 5 0.01
124 107 0.19
125 214 0.37
126 252 0.44
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCTTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:37567377 original size:251 final size:251
Alignment explanation
Indices: 37566928--37567696 Score: 1046
Period size: 251 Copynumber: 3.1 Consensus size: 251
37566918 GGCTAAGCAG
* * * * *
37566928 GAACTACTGTAGAAAAAGAGC-ACCCACGTGTGACCATTTTTCAGTAATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCTA-TCACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCAT
* * * * *
37566992 CCTGTTTGAAGCATTTTTGACACTATTTTTTCAAAAACGTCTTCTGAAAATTATTTTTTCAGGAA
65 CCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAA
* ** * * *
37567057 CTACGGTAGAAAAAGAGCACCCACGTGTGACCATTTTTCAGTAATTTTGCTGACAGTGCATCCTG
130 CTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTG
* **
37567122 CTTGAAGCGTTTTTGACACTATTTTTTCAAAAATGTCTTCTGAAAATTATTTTTCAA
195 CTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTGAAAATTATTTTTCAA
* * * *
37567179 GAACTACTGTAGAAAAAGAGCTTTCACGTGGGAACTTTTTTTAGTAATTTTGTTGATAGTGCATT
1 GAACTACTGTAGAAAAAGAGCTATCACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCATC
* *
37567244 CTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTTTCAAAATTATTTTTTCAGGAAC
66 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
* *
37567309 TACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCTTGC
131 TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * *
37567374 TTGAAGCGTTTTTTACACTATTTTTT-AGAACCGTCTTTTCG-AAATTATTTTTCAG
196 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCT-GAAAATTATTTTTCAA
* * *
37567429 GAACTACTGTAGAAAAAGAG-TATCGACATGGGAGCTTTTTTCAATAATTTTGCTGATAGTGCAT
1 GAACTACTGTAGAAAAAGAGCTATC-ACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCAT
* * * *
37567493 CCTGCTTGAAACGTTTTTGACACTA-TTTTTCAGAACTGTCTTCTCTAAATTATTTTTTCATGAA
65 CCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAA
* *
37567557 CTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTACATCCTG
130 CTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTG
* * * * * *
37567622 CTTGAAGCGTTTTTGACATTATCTTTTCCGAACCGTTTTCTCAAAATTAATTTTTC-T
195 CTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTGAAAATT-ATTTTTCAA
37567679 GAAACTACTGTAGAAAAA
1 G-AACTACTGTAGAAAAA
37567697 AAACAAAATT
Statistics
Matches: 456, Mismatches: 55, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
249 122 0.27
250 115 0.25
251 219 0.48
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (251 bp):
GAACTACTGTAGAAAAAGAGCTATCACGTGGGAACTTTTTTCAGTAATTTTGCTGATAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGGAAC
TACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTGAAAATTATTTTTCAA
Found at i:37567820 original size:33 final size:32
Alignment explanation
Indices: 37567782--37567886 Score: 113
Period size: 33 Copynumber: 3.2 Consensus size: 32
37567772 TAACACAAAA
*
37567782 TTATTTTTTTAAAAACATAAACCCTAATTTTAT
1 TTATTTTTTTAAAAACCTAAACCCTAA-TTTAT
* * ** *
37567815 TTATTTATTTAAAACCCCTAAAATCTAATTTAA
1 TTATTTTTTTAAAA-ACCTAAACCCTAATTTAT
*
37567848 TTAATTTTTTAAAAACTCTAAACCCTAATTTAT
1 TTATTTTTTTAAAAAC-CTAAACCCTAATTTAT
37567881 TT-TTTT
1 TTATTTT
37567887 AAAATTCCTA
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
32 4 0.07
33 44 0.77
34 9 0.16
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (32 bp):
TTATTTTTTTAAAAACCTAAACCCTAATTTAT
Found at i:37580320 original size:6 final size:6
Alignment explanation
Indices: 37580309--37580377 Score: 122
Period size: 6 Copynumber: 11.5 Consensus size: 6
37580299 GGAAACAATC
37580309 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT
37580358 TTTCTT TTTCTT TTT-TT TTT
1 TTTCTT TTTCTT TTTCTT TTT
37580378 GGGGGGGGGA
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.08
6 51 0.82
7 6 0.10
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTCTT
Found at i:37593850 original size:21 final size:21
Alignment explanation
Indices: 37593826--37593866 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37593816 TCCAATTCAT
37593826 TATCA-ATACACATATATCTAA
1 TATCATATA-ACATATATCTAA
*
37593847 TATCATATAACATATTTCTA
1 TATCATATAACATATATCTA
37593867 TCCATTGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
TATCATATAACATATATCTAA
Found at i:37596780 original size:55 final size:55
Alignment explanation
Indices: 37596720--37596831 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
37596710 TTAGTTAATC
* *
37596720 TTAAATTTATCATTAATAGAAATCATCATCAAAATCTACTAAATACTATTCTAAA
1 TTAAATTTATCATTAATAGAAATCATCACCAAAATATACTAAATACTATTCTAAA
37596775 TTAAATTTATCATTAATAGAAATCATCACCAAAATATACTAAATACTATTCTAAA
1 TTAAATTTATCATTAATAGAAATCATCACCAAAATATACTAAATACTATTCTAAA
37596830 TT
1 TT
37596832 GGTTTATTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (55 bp):
TTAAATTTATCATTAATAGAAATCATCACCAAAATATACTAAATACTATTCTAAA
Found at i:37600541 original size:28 final size:28
Alignment explanation
Indices: 37600488--37600541 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
37600478 GAGAAAATAA
* * *
37600488 TTTAATTAAGTGAATTAATTAAATTTAT
1 TTTAATTAAGTCAAATAAATAAATTTAT
37600516 TTTAATTAA-TCAAATAAATAATATTT
1 TTTAATTAAGTCAAATAAATAA-ATTT
37600542 TGAGAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (28 bp):
TTTAATTAAGTCAAATAAATAAATTTAT
Found at i:37600703 original size:87 final size:88
Alignment explanation
Indices: 37600583--37600755 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 88
37600573 AAATTATATG
*
37600583 AATTAATTTAAAGACTAGATAACACATATTAATACATAATACTAAATTAGTTTAAAGACTAGATA
1 AATTAATTTAAAGACTAGATAACACATATTAATACACAATACTAAATTAGTTTAAAGACTAGATA
37600648 ACACATATTAATACACAATACTA
66 ACACATATTAATACACAATACTA
*
37600671 AATTAGTTTAAAGACTA-ATAACACATATTAATACACAATACTAAATTAGTTTAAAGACTAGATA
1 AATTAATTTAAAGACTAGATAACACATATTAATACACAATACTAAATTAGTTTAAAGACTAGATA
37600735 ACACATATTAATACACAATAC
66 ACACATATTAATACACAATAC
37600756 ATGAAAGATC
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 67 0.81
88 16 0.19
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (88 bp):
AATTAATTTAAAGACTAGATAACACATATTAATACACAATACTAAATTAGTTTAAAGACTAGATA
ACACATATTAATACACAATACTA
Found at i:37600706 original size:43 final size:44
Alignment explanation
Indices: 37600583--37600755 Score: 321
Period size: 44 Copynumber: 4.0 Consensus size: 44
37600573 AAATTATATG
* *
37600583 AATTAATTTAAAGACTAGATAACACATATTAATACATAATACTA
1 AATTAGTTTAAAGACTAGATAACACATATTAATACACAATACTA
37600627 AATTAGTTTAAAGACTAGATAACACATATTAATACACAATACTA
1 AATTAGTTTAAAGACTAGATAACACATATTAATACACAATACTA
37600671 AATTAGTTTAAAGACTA-ATAACACATATTAATACACAATACTA
1 AATTAGTTTAAAGACTAGATAACACATATTAATACACAATACTA
37600714 AATTAGTTTAAAGACTAGATAACACATATTAATACACAATAC
1 AATTAGTTTAAAGACTAGATAACACATATTAATACACAATAC
37600756 ATGAAAGATC
Statistics
Matches: 126, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
43 43 0.34
44 83 0.66
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (44 bp):
AATTAGTTTAAAGACTAGATAACACATATTAATACACAATACTA
Found at i:37604530 original size:20 final size:20
Alignment explanation
Indices: 37604507--37604546 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37604497 GATTAATAAA
37604507 GAGT-TGGATATTTTAATTTT
1 GAGTATGGATA-TTTAATTTT
*
37604527 GAGTATGTATATTTAATTTT
1 GAGTATGGATATTTAATTTT
37604547 TTTTTTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (20 bp):
GAGTATGGATATTTAATTTT
Found at i:37605353 original size:23 final size:21
Alignment explanation
Indices: 37605314--37605358 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
37605304 CCAAAAAAAA
*
37605314 TATTAATGTAAAATTATATAT
1 TATTAATATAAAATTATATAT
37605335 TATTAATATATAAATT-TAT-T
1 TATTAATATA-AAATTATATAT
37605355 TATT
1 TATT
37605359 CATTCTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTAATATAAAATTATATAT
Found at i:37607334 original size:43 final size:43
Alignment explanation
Indices: 37607287--37607391 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
37607277 CATTTATTTG
* * *
37607287 AAAAAATGCCGTTATAGAACAT-AGCCTTTAGCAGCGCTTTTAT
1 AAAAAACGCCGCTAAAGAACATGA-CCTTTAGCAGCGCTTTTAT
* * *
37607330 AAAAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC-TTTACC
1 AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTA-T
* *
37607373 CACAAACGCCGCTAAAGAA
1 AAAAAACGCCGCTAAAGAA
37607392 ACGGTTCTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 4 0.08
43 46 0.90
44 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTAT
Found at i:37607590 original size:21 final size:20
Alignment explanation
Indices: 37607566--37607628 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 20
37607556 TAACTGAAGT
37607566 ATAATTCAAAATATTCTTACA
1 ATAATT-AAAATATTCTTACA
*
37607587 ATAATGTTAAA-A-T-TTACA
1 ATAAT-TAAAATATTCTTACA
*
37607605 AT-GTTAAAAATATTCTTACA
1 ATAATT-AAAATATTCTTACA
37607625 ATAA
1 ATAA
37607629 GAAAACAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 8 0.25
19 2 0.06
20 8 0.25
21 8 0.25
22 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAATTAAAATATTCTTACA
Found at i:37613679 original size:14 final size:14
Alignment explanation
Indices: 37613649--37613696 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
37613639 AACCCGAGCC
*
37613649 CTAAATTCCTAAACT
1 CTAAATCCCT-AACT
37613664 CTAAATCCCTAACT
1 CTAAATCCCTAACT
* *
37613678 CTTAACCCCTAACAT
1 CTAAATCCCTAAC-T
37613693 CTAA
1 CTAA
37613697 CCCCTAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (14 bp):
CTAAATCCCTAACT
Found at i:37613697 original size:14 final size:14
Alignment explanation
Indices: 37613660--37613703 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
37613650 TAAATTCCTA
* *
37613660 AACTCTAAATCCCT
1 AACTCTTAACCCCT
37613674 AACTCTTAACCCCT
1 AACTCTTAACCCCT
37613688 AACATC-TAACCCCT
1 AAC-TCTTAACCCCT
37613702 AA
1 AA
37613704 ACCCCTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 25 0.93
15 2 0.07
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (14 bp):
AACTCTTAACCCCT
Found at i:37613733 original size:21 final size:20
Alignment explanation
Indices: 37613703--37613743 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
37613693 CTAACCCCTA
*
37613703 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
37613724 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
37613744 TAATCCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:37614015 original size:22 final size:22
Alignment explanation
Indices: 37613970--37614031 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
37613960 TCTAACTCTT
** *
37613970 AACCCCTAATGTCTAACCCCTA
1 AACCCCTAACCTCTAAACCCTA
*
37613992 AACCCCTAACCTCTAAACCTTA
1 AACCCCTAACCTCTAAACCCTA
*
37614014 AATCCC-AACC-CTTAAACC
1 AACCCCTAACCTC-TAAACC
37614032 ATAATCCCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.03
21 10 0.29
22 23 0.68
ACGTcount: A:0.35, C:0.42, G:0.02, T:0.21
Consensus pattern (22 bp):
AACCCCTAACCTCTAAACCCTA
Found at i:37614059 original size:15 final size:15
Alignment explanation
Indices: 37614032--37614072 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
37614022 CCCTTAAACC
37614032 ATAATCCCT-AATCA
1 ATAATCCCTAAATCA
*
37614046 ATAATCCCTAAATCC
1 ATAATCCCTAAATCA
*
37614061 ATACTCCCTAAA
1 ATAATCCCTAAA
37614073 CCTTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAATCCCTAAATCA
Found at i:37614520 original size:41 final size:41
Alignment explanation
Indices: 37614419--37614618 Score: 192
Period size: 41 Copynumber: 4.9 Consensus size: 41
37614409 TAAAATGTTT
* * *
37614419 TTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCCAG--
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * *
37614458 TTAGCGACGCTTTTT-ATAAAACGCCGCTAAAACACCAAGCA
1 TTAGCGGCGCTTTTTCA-AAAACGCCGCTAAAACCCCGAGCA
* * *
37614499 TTAGTGGCGCTTTTTCAAAAACGCCGCGAAAACCCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * * *
37614540 TTAGCGTCGCATTTTCAAAAATGCCGCAAAAACCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
** * * *
37614581 TTAGCAACGCTTTCTT-GAAACCGCCGCTAAAGCCCCGA
1 TTAGCGGCGCTTT-TTCAAAAACGCCGCTAAAACCCCGA
37614619 AAGGTAAGCA
Statistics
Matches: 131, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
41 95 0.73
42 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
Found at i:37614581 original size:82 final size:80
Alignment explanation
Indices: 37614419--37614585 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 80
37614409 TAAAATGTTT
* * * *
37614419 TTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCCAGTTAGCGACGCTTTTTATAAAACGCCG
1 TTAGCGGCGCTTTTTCAAAAACGCCGCGAAAACCCCCAGTTAGCGACGCTTTTCATAAAACGCCG
*
37614484 CTAAAACACCAAGCA
66 CAAAAACACCAAGCA
* ** * *
37614499 TTAGTGGCGCTTTTTCAAAAACGCCGCGAAAACCCTGAGCATTAGCGTCGCATTTTCA-AAAATG
1 TTAGCGGCGCTTTTTCAAAAACGCCGCGAAAACCCCCAG--TTAGCGACGC-TTTTCATAAAACG
* *
37614563 CCGCAAAAACCCCGAGCA
63 CCGCAAAAACACCAAGCA
37614581 TTAGC
1 TTAGC
37614586 AACGCTTTCT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
80 33 0.46
82 33 0.46
83 5 0.07
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (80 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCGAAAACCCCCAGTTAGCGACGCTTTTCATAAAACGCCG
CAAAAACACCAAGCA
Found at i:37615552 original size:14 final size:15
Alignment explanation
Indices: 37615524--37615553 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37615514 GATATTATTT
37615524 TATATTAATTAAAAA
1 TATATTAATTAAAAA
*
37615539 TATATTATTTAAAAA
1 TATATTAATTAAAAA
37615554 ATTAATTGAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATATTAATTAAAAA
Found at i:37619160 original size:41 final size:41
Alignment explanation
Indices: 37619110--37619213 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 41
37619100 GGTTTAAAAC
*
37619110 CTAGCAGGCTTAAGGCTGGTGAAATAATTCGAACTTTAAGT
1 CTAGCAGGCTTAAGGCCGGTGAAATAATTCGAACTTTAAGT
*
37619151 CTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTTTAAGT
1 CTAGCAGGCTTAAGGCCGGTGAAATAATTCGAACTTTAAGT
37619192 CTAGCAGGC-TAAGTGCCGGTGA
1 CTAGCAGGCTTAAG-GCCGGTGA
37619214 TCTGAATCAG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 4 0.07
41 56 0.93
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTTAAGGCCGGTGAAATAATTCGAACTTTAAGT
Found at i:37619237 original size:41 final size:41
Alignment explanation
Indices: 37619192--37619288 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 41
37619182 GACTTTAAGT
*
37619192 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
37619233 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
37619274 CTAGCAGGCTAAGTG
1 CTAGCAGGCTAAGTG
37619289 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:37634598 original size:28 final size:30
Alignment explanation
Indices: 37634567--37634624 Score: 102
Period size: 28 Copynumber: 2.0 Consensus size: 30
37634557 AATTTGAAAA
37634567 AAAAATATTATTATTT-AA-TATTTTTGCT
1 AAAAATATTATTATTTAAATTATTTTTGCT
37634595 AAAAATATTATTATTTAAATTATTTTTGCT
1 AAAAATATTATTATTTAAATTATTTTTGCT
37634625 GATGTGAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 16 0.57
29 2 0.07
30 10 0.36
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
AAAAATATTATTATTTAAATTATTTTTGCT
Found at i:37638615 original size:14 final size:16
Alignment explanation
Indices: 37638591--37638628 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
37638581 TAAAATTAAA
37638591 ATTTATTTAAAAT-TT
1 ATTTATTTAAAATATT
37638606 ATTT-TTTAAAATATT
1 ATTTATTTAAAATATT
37638621 ATTTATTT
1 ATTTATTT
37638629 TTATATATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 10 0.48
16 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTATTTAAAATATT
Found at i:37638873 original size:23 final size:23
Alignment explanation
Indices: 37638830--37638878 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
37638820 TAATTTTTAA
*
37638830 TTTTTTTAAACTTTATTTAATAT
1 TTTTTTTAAACTTTATCTAATAT
* *
37638853 TTTTTTATAAATTTTA-CTAATGT
1 TTTTTT-TAAACTTTATCTAATAT
37638876 TTT
1 TTT
37638879 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTTTAAACTTTATCTAATAT
Found at i:37641531 original size:26 final size:26
Alignment explanation
Indices: 37641502--37641653 Score: 162
Period size: 26 Copynumber: 5.8 Consensus size: 26
37641492 GGAAAAACAA
* * *
37641502 GCCTTGAGCTGGTGGTTATGTAGTAG
1 GCCTTGAGCCGGTGGTTATTTAGCAG
37641528 GCCTTGAGCCGGTGGTTATTTAGCAG
1 GCCTTGAGCCGGTGGTTATTTAGCAG
* * * *
37641554 GCCTCGAGCCAGTGTTTATTTAGCAA
1 GCCTTGAGCCGGTGGTTATTTAGCAG
* * *
37641580 GCATTGAGCCGGTGTTTATTTAGCAA
1 GCCTTGAGCCGGTGGTTATTTAGCAG
**
37641606 GCCTTGAGTTGGTGGTTATTTAGCAG
1 GCCTTGAGCCGGTGGTTATTTAGCAG
* *
37641632 GCTTTGAGCTGGT-GTATATTTA
1 GCCTTGAGCCGGTGGT-TATTTA
37641654 TCAAGTATTA
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
25 2 0.02
26 106 0.98
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (26 bp):
GCCTTGAGCCGGTGGTTATTTAGCAG
Found at i:37641625 original size:52 final size:52
Alignment explanation
Indices: 37641499--37641658 Score: 185
Period size: 52 Copynumber: 3.1 Consensus size: 52
37641489 ATTGGAAAAA
* * * *
37641499 CAAGCCTTGAGCTGGTGGTTATGTAGTAGGCCTTGAGCCGGTGGTTATTTAG
1 CAAGCCTTGAGCTGGTGGTTATTTAGCAGGCATTGAGCCGGTGTTTATTTAG
* * ** * *
37641551 CAGGCCTCGAGCCAGTGTTTATTTAGCAAGCATTGAGCCGGTGTTTATTTAG
1 CAAGCCTTGAGCTGGTGGTTATTTAGCAGGCATTGAGCCGGTGTTTATTTAG
* * * * *
37641603 CAAGCCTTGAGTTGGTGGTTATTTAGCAGGCTTTGAGCTGGTGTATATTTAT
1 CAAGCCTTGAGCTGGTGGTTATTTAGCAGGCATTGAGCCGGTGTTTATTTAG
37641655 CAAG
1 CAAG
37641659 TATTATGTAT
Statistics
Matches: 87, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 87 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (52 bp):
CAAGCCTTGAGCTGGTGGTTATTTAGCAGGCATTGAGCCGGTGTTTATTTAG
Found at i:37641652 original size:78 final size:78
Alignment explanation
Indices: 37641499--37641658 Score: 194
Period size: 78 Copynumber: 2.1 Consensus size: 78
37641489 ATTGGAAAAA
* * * *
37641499 CAAGCCTTGAGCTGGTGGTTATGTAGTAGGCCTTGAGCCGGTGGTTATTTAGCAGGCCTCGAGCC
1 CAAGCATTGAGCCGGTGGTTATGTAGCAAGCCTTGAGCCGGTGGTTATTTAGCAGGCCTCGAGCC
*
37641564 AGTGTTTATTTAG
66 AGTGTATATTTAG
* * ** * * *
37641577 CAAGCATTGAGCCGGTGTTTATTTAGCAAGCCTTGAGTTGGTGGTTATTTAGCAGGCTTTGAGCT
1 CAAGCATTGAGCCGGTGGTTATGTAGCAAGCCTTGAGCCGGTGGTTATTTAGCAGGCCTCGAGCC
* *
37641642 GGTGTATATTTAT
66 AGTGTATATTTAG
37641655 CAAG
1 CAAG
37641659 TATTATGTAT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (78 bp):
CAAGCATTGAGCCGGTGGTTATGTAGCAAGCCTTGAGCCGGTGGTTATTTAGCAGGCCTCGAGCC
AGTGTATATTTAG
Found at i:37642813 original size:29 final size:29
Alignment explanation
Indices: 37642781--37642858 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
37642771 GTCACACGGT
*
37642781 CGTGTACCACACACGGTCTCCCACATGAC
1 CGTGTGCCACACACGGTCTCCCACATGAC
* * * * *
37642810 CGTGTGCCACATATGGTTTCCTACATGGC
1 CGTGTGCCACACACGGTCTCCCACATGAC
*
37642839 CGTGTGCAACACACGGTCTC
1 CGTGTGCCACACACGGTCTC
37642859 TCATACGGCC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.21, C:0.35, G:0.22, T:0.23
Consensus pattern (29 bp):
CGTGTGCCACACACGGTCTCCCACATGAC
Found at i:37649776 original size:21 final size:21
Alignment explanation
Indices: 37649752--37649794 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
37649742 CATGAGATTA
*
37649752 TAGGATTTCAACAATTCATTG
1 TAGGATTTCAAAAATTCATTG
37649773 TAGGATTTCAAAAATTCATTG
1 TAGGATTTCAAAAATTCATTG
37649794 T
1 T
37649795 GTTTCTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (21 bp):
TAGGATTTCAAAAATTCATTG
Found at i:37652538 original size:23 final size:23
Alignment explanation
Indices: 37652505--37652548 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37652495 CACAATATGT
*
37652505 TTATCCACTTCAGCGGTGTTCAA
1 TTATCCACTTCAGCGATGTTCAA
* *
37652528 TTATCCGCTTCGGCGATGTTC
1 TTATCCACTTCAGCGATGTTC
37652549 CATTTTGTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.36
Consensus pattern (23 bp):
TTATCCACTTCAGCGATGTTCAA
Found at i:37669023 original size:171 final size:172
Alignment explanation
Indices: 37668738--37669080 Score: 679
Period size: 171 Copynumber: 2.0 Consensus size: 172
37668728 AATATGTCAA
37668738 CAATATACCTTTGAAGGTATTGATTAAAATCCTAAGAAAGTTACATTATCATGTTTGTTTCACTA
1 CAATATACCTTTGAAGGTATTGATTAAAATCCTAAGAAAGTTACATTATCATGTTTGTTTCACTA
37668803 AATATTTCCCAAGAATGTAATGATAATTTGCAAATTTACCCTTATTAAGTAAAAGATAATATTCA
66 AATATTTCCCAAGAATGTAATGATAATTTGCAAATTTACCCTTATTAAGTAAAAGATAATATTCA
37668868 TGTATTTAATTTTTATAATAAAATTTATTA-TAAAAAATATT
131 TGTATTTAATTTTTATAATAAAATTTATTATTAAAAAATATT
37668909 CAATATACCTTTGAAGGTATTGATTAAAATCCTAAGAAAGTTACATTATCATGTTTGTTTCACTA
1 CAATATACCTTTGAAGGTATTGATTAAAATCCTAAGAAAGTTACATTATCATGTTTGTTTCACTA
37668974 AATATTTCCCAAGAATGTAATGATAATTTGCAAATTTACCCTTATTAAGTAAAAGATAATATTCA
66 AATATTTCCCAAGAATGTAATGATAATTTGCAAATTTACCCTTATTAAGTAAAAGATAATATTCA
37669039 TGTATTTAATTTTTATAATAAAATTTATTATTAAAAAATATT
131 TGTATTTAATTTTTATAATAAAATTTATTATTAAAAAATATT
37669081 TGGATTACAT
Statistics
Matches: 171, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 160 0.94
172 11 0.06
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (172 bp):
CAATATACCTTTGAAGGTATTGATTAAAATCCTAAGAAAGTTACATTATCATGTTTGTTTCACTA
AATATTTCCCAAGAATGTAATGATAATTTGCAAATTTACCCTTATTAAGTAAAAGATAATATTCA
TGTATTTAATTTTTATAATAAAATTTATTATTAAAAAATATT
Found at i:37684662 original size:26 final size:27
Alignment explanation
Indices: 37684613--37684667 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
37684603 TTTAATTTAA
**
37684613 AAAATAAAAAAATATTTTTTGAAAATG
1 AAAATAAAAAAATATTTTCAGAAAATG
* *
37684640 AAAAT-AAAAAATGTTTTCAGAAATTG
1 AAAATAAAAAAATATTTTCAGAAAATG
37684666 AA
1 AA
37684668 CAAAGCATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATAAAAAAATATTTTCAGAAAATG
Found at i:37693391 original size:19 final size:20
Alignment explanation
Indices: 37693367--37693404 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
37693357 AGGTGCTTAC
37693367 ATGTGTAGTT-AATCAATAG
1 ATGTGTAGTTAAATCAATAG
37693386 ATGTGTAGTTAAATCAATA
1 ATGTGTAGTTAAATCAATA
37693405 CCCAAGTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (20 bp):
ATGTGTAGTTAAATCAATAG
Found at i:37699533 original size:44 final size:44
Alignment explanation
Indices: 37699463--37699570 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
37699453 CTAAAGTTCC
* * * *
37699463 TTTCCCAC-AAATGCCGCTAAAGAACATGACATTTAGTGGCGCT
1 TTTCCCACAAAACGCCGCTAAACAACATGACATTTAGCGGCACT
*
37699506 TTTCCCACAAAACGCCGCTAAACAACATGACCTTTAGCGGCACT
1 TTTCCCACAAAACGCCGCTAAACAACATGACATTTAGCGGCACT
*
37699550 TTTACCA-AAAACGCCGCTAAA
1 TTTCCCACAAAACGCCGCTAAA
37699571 GGTCATATTC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 22 0.38
44 36 0.62
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (44 bp):
TTTCCCACAAAACGCCGCTAAACAACATGACATTTAGCGGCACT
Found at i:37703599 original size:18 final size:20
Alignment explanation
Indices: 37703568--37703605 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
37703558 CAAATTAGAA
37703568 ATAAATAAATAAACAAAAAT
1 ATAAATAAATAAACAAAAAT
37703588 ATAAAT-AA-AAACAAAAAT
1 ATAAATAAATAAACAAAAAT
37703606 TATTAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
ATAAATAAATAAACAAAAAT
Found at i:37708711 original size:22 final size:23
Alignment explanation
Indices: 37708677--37708721 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
37708667 TTAAGGTTTT
**
37708677 AAAATTAATTAAATCAATTATTA
1 AAAATTAATTAAAAAAATTATTA
*
37708700 AAAATTTA-TAAAAAAATTATTA
1 AAAATTAATTAAAAAAATTATTA
37708722 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTAATTAAAAAAATTATTA
Found at i:37711787 original size:15 final size:15
Alignment explanation
Indices: 37711763--37711804 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
37711753 ACTTTGTTAA
* *
37711763 AATTTTTTTTATCTG
1 AATTTATTTTATATG
37711778 AATTTATTTT-TATG
1 AATTTATTTTATATG
*
37711792 GATTTATTTTATA
1 AATTTATTTTATA
37711805 ATTATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.64
Consensus pattern (15 bp):
AATTTATTTTATATG
Found at i:37712207 original size:23 final size:21
Alignment explanation
Indices: 37712174--37712216 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
37712164 TTGAAGTATG
37712174 GAAAAAAATAAAAATTAAAAT
1 GAAAAAAATAAAAATTAAAAT
*
37712195 GAAAAAATGATAAAAGTTAAAA
1 GAAAAAA--ATAAAAATTAAAA
37712217 CAATACATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (21 bp):
GAAAAAAATAAAAATTAAAAT
Found at i:37720069 original size:17 final size:17
Alignment explanation
Indices: 37720018--37720058 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
37720008 AATTTATATA
37720018 TTATATATTAA-ATTAT
1 TTATATATTAATATTAT
**
37720034 CAATATATTAATATTAT
1 TTATATATTAATATTAT
37720051 TTATATAT
1 TTATATAT
37720059 AATGTTAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATATATTAATATTAT
Found at i:37725064 original size:70 final size:72
Alignment explanation
Indices: 37724985--37725128 Score: 256
Period size: 70 Copynumber: 2.0 Consensus size: 72
37724975 AAAGAGTAGT
* *
37724985 AAGAATTATAACATATTTTAATCCATAAATATCTTAAAATGAAAATAATTTTAATTC-TTA-TAA
1 AAGAATTATAACATATTTTAATCCATAAATATCTTAAAATGAAAATAATTTTAAATCATAATTAA
37725048 AATATAC
66 AATATAC
37725055 AAGAATTATAACATATTTTAATCCATAAATATCTTAAAATGAAAATAATTTTAAATCATAATTAA
1 AAGAATTATAACATATTTTAATCCATAAATATCTTAAAATGAAAATAATTTTAAATCATAATTAA
37725120 AATATAC
66 AATATAC
37725127 AA
1 AA
37725129 TAATGAAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
70 56 0.80
71 2 0.03
72 12 0.17
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (72 bp):
AAGAATTATAACATATTTTAATCCATAAATATCTTAAAATGAAAATAATTTTAAATCATAATTAA
AATATAC
Found at i:37725115 original size:33 final size:33
Alignment explanation
Indices: 37724999--37725108 Score: 118
Period size: 33 Copynumber: 3.2 Consensus size: 33
37724989 ATTATAACAT
37724999 ATTTTAATCCATAAATATCTTAAAATGAAAATA
1 ATTTTAATCCATAAATATCTTAAAATGAAAATA
* *
37725032 ATTTTAATTCTTATAAAATATAC--AAGAATTATAACAT-
1 ATTTTAA-TC-CAT-AAATAT-CTTAA-AATGA-AA-ATA
37725069 ATTTTAATCCATAAATATCTTAAAATGAAAATA
1 ATTTTAATCCATAAATATCTTAAAATGAAAATA
37725102 ATTTTAA
1 ATTTTAA
37725109 ATCATAATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
32 2 0.03
33 17 0.27
34 12 0.19
35 8 0.13
36 12 0.19
37 10 0.16
38 2 0.03
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (33 bp):
ATTTTAATCCATAAATATCTTAAAATGAAAATA
Found at i:37725793 original size:20 final size:20
Alignment explanation
Indices: 37725768--37725809 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
37725758 AAGTTTAGTA
37725768 TTTACT-TTTTTATTAAAATG
1 TTTACTATTTTT-TTAAAATG
37725788 TTTACTCATTTTTTTAAAATG
1 TTTACT-ATTTTTTTAAAATG
37725809 T
1 T
37725810 AATTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTACTATTTTTTTAAAATG
Found at i:37726135 original size:63 final size:63
Alignment explanation
Indices: 37725954--37726138 Score: 217
Period size: 63 Copynumber: 2.9 Consensus size: 63
37725944 TGGTACTGTT
* * * ** * * *
37725954 AATATAAAGTACCTTAATAAAACACATATTGATAGTTTAAGTACGACATTGGATAATTTGTGAA
1 AATATAAA-TACCATAATAAAACACATATTGATAGTTCAAGTACCACATTAAACATTTTATGAA
* * ** * * *
37726018 CATACAAATACCATAATAAAATGCATATTAATAGTTCAGGTACCAAATTAAACATTTTATGAA
1 AATATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCACATTAAACATTTTATGAA
*
37726081 AATATAAATACCATAATAAAACACATATTGATAGTTCAAATACCACATTAAACATTTT
1 AATATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCACATTAAACATTTT
37726139 CAATACTACA
Statistics
Matches: 98, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
63 92 0.94
64 6 0.06
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (63 bp):
AATATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCACATTAAACATTTTATGAA
Found at i:37753304 original size:18 final size:19
Alignment explanation
Indices: 37753267--37753304 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
37753257 GGGTTTTTTT
37753267 TGTTTTTTTTAGTTATAAA
1 TGTTTTTTTTAGTTATAAA
*
37753286 TGTTTTTTTTTGTTA-AAA
1 TGTTTTTTTTAGTTATAAA
37753304 T
1 T
37753305 TTAGTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.66
Consensus pattern (19 bp):
TGTTTTTTTTAGTTATAAA
Found at i:37753696 original size:3 final size:3
Alignment explanation
Indices: 37753688--37753734 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
37753678 CACGATTTTC
*
37753688 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TATT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
37753733 TA
1 TA
37753735 CTATATTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:37753710 original size:14 final size:14
Alignment explanation
Indices: 37753691--37753728 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
37753681 GATTTTCTAT
37753691 TATTATTATTATTA
1 TATTATTATTATTA
37753705 TATTATTATTATTA
1 TATTATTATTATTA
37753719 T-TTATTATTA
1 TATTATTATTA
37753729 CTATTACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:37753741 original size:21 final size:21
Alignment explanation
Indices: 37753687--37753742 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
37753677 CCACGATTTT
*
37753687 CTATTATTATTA-TTATTATA
1 CTATTACTATTATTTATTATA
* *
37753707 TTATTATTATTATTTATTATTA
1 CTATTACTATTATTTATTA-TA
37753729 CTATTACTA-TATTT
1 CTATTACTATTATTT
37753743 TCTATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.35
21 11 0.35
22 9 0.29
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
CTATTACTATTATTTATTATA
Found at i:37753865 original size:18 final size:17
Alignment explanation
Indices: 37753844--37753877 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37753834 TTTTTATAGT
37753844 TTTTTAATTTTCACATAC
1 TTTTTAA-TTTCACATAC
*
37753862 TTTTTTATTTCACATA
1 TTTTTAATTTCACATA
37753878 TATACCTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTAATTTCACATAC
Found at i:37759370 original size:144 final size:144
Alignment explanation
Indices: 37759108--37759409 Score: 471
Period size: 144 Copynumber: 2.1 Consensus size: 144
37759098 CATGGAAGTT
* *
37759108 GGGATTGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTGCCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTACCCAAGTTAGTCAAGTTTCCTAT
* * *
37759173 GGAATCAGGGATGAGACCAGTGAGATTATTGTCCGATAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAATCAGGGATGACACCAGTGAGATTATTGTACGATAACTGAAAGTCGAAAAGAGATTTGAGCA
37759238 TCCCTATCTCACTG
131 TCCCTATCTCACTG
* *
37759252 GGGATAGAACCAGAAAGCCCATTAAAATTAAGCACAAGATTATCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTACCCAAGTTAGTCAAGTTTCCTAT
* * * *
37759317 GGAATGAGGGATGACACCAGTGAGATTATTGTACGCTAACTGAAACG-CTAAAAGCGATTTGAGC
66 GGAATCAGGGATGACACCAGTGAGATTATTGTACGATAACTGAAA-GTCGAAAAGAGATTTGAGC
* *
37759381 ATTCCTATCTCATTG
130 ATCCCTATCTCACTG
37759396 GGGATAGAACCAGA
1 GGGATAGAACCAGA
37759410 GAGATTATTA
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 143 0.99
145 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTACCCAAGTTAGTCAAGTTTCCTAT
GGAATCAGGGATGACACCAGTGAGATTATTGTACGATAACTGAAAGTCGAAAAGAGATTTGAGCA
TCCCTATCTCACTG
Found at i:37762597 original size:24 final size:23
Alignment explanation
Indices: 37762570--37762618 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
37762560 TAGTATTTTG
* *
37762570 ATATCTAATATTTTTAAACAATTA
1 ATATATAATATTTGTAAA-AATTA
*
37762594 ATATATATTATTTGTAAAAATTA
1 ATATATAATATTTGTAAAAATTA
37762617 AT
1 AT
37762619 TTGAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATATAATATTTGTAAAAATTA
Found at i:37765027 original size:21 final size:21
Alignment explanation
Indices: 37764955--37765027 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
37764945 TGACAGGAGT
* *
37764955 ACACGCCCGTGT-GTCTGGGGG
1 ACACGCCCGTGTGGT-TGAGAG
* * * *
37764976 ACACACCCATGTGATTGAGAT
1 ACACGCCCGTGTGGTTGAGAG
* *
37764997 ACATGGCCGTGTGGTTGAGAG
1 ACACGCCCGTGTGGTTGAGAG
37765018 ACACGCCCGT
1 ACACGCCCGT
37765028 ATGACTGAGG
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.21
Consensus pattern (21 bp):
ACACGCCCGTGTGGTTGAGAG
Found at i:37775513 original size:158 final size:159
Alignment explanation
Indices: 37775223--37775538 Score: 476
Period size: 158 Copynumber: 2.0 Consensus size: 159
37775213 ATATACCATC
* *
37775223 CTTTTTTGGCTTCTAGTTCTTGTACTCGTACTAGACTGAGACAAAAAAAATCACAACCCCAAATT
1 CTTTTTTAGCTTCTAGTTCTTGTACTCATACTAGACTGAGACAAAAAAAATCACAACCCCAAATT
* * * * * * *
37775288 AGATTTAAATATTTTGAAATTTGATAGTAAAAAAGTGTTTACGATATAACTGTGATCTAGTTGTG
66 AGACTTAAACATTTCGAAACTTGATAATAAAAAAGTGTTTACGATATAACCGTGATCCAGTTGTG
* *
37775353 TTAGGTTGAATGCATTG-TCTTCTGTTGTT
131 TTAGGTTGAAGGCA-TGATCTTATGTTGTT
*
37775382 CTTTTTATAGCTTCTAGTTCTTGTACTCATACTAGACT-A-AGAAAAAAAATCACAACCCCAAAT
1 CTTTTT-TAGCTTCTAGTTCTTGTACTCATACTAGACTGAGACAAAAAAAATCACAACCCCAAAT
*
37775445 TAGACTTAAACATTTCGAAACTTGATAATAAAAAAGTGTTTACGATATACCCGTGATCCAGTTGT
65 TAGACTTAAACATTTCGAAACTTGATAATAAAAAAGTGTTTACGATATAACCGTGATCCAGTTGT
37775510 GTTAGGTTGAAGGCATGATCTTATGTTGT
130 GTTAGGTTGAAGGCATGATCTTATGTTGT
37775539 AACCCTCACC
Statistics
Matches: 142, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
157 2 0.01
158 104 0.73
159 7 0.05
160 29 0.20
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (159 bp):
CTTTTTTAGCTTCTAGTTCTTGTACTCATACTAGACTGAGACAAAAAAAATCACAACCCCAAATT
AGACTTAAACATTTCGAAACTTGATAATAAAAAAGTGTTTACGATATAACCGTGATCCAGTTGTG
TTAGGTTGAAGGCATGATCTTATGTTGTT
Found at i:37776059 original size:15 final size:15
Alignment explanation
Indices: 37776039--37776069 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37776029 CTACATTACT
37776039 TCCTCTTATCCACTA
1 TCCTCTTATCCACTA
37776054 TCCTCTTATCCACTA
1 TCCTCTTATCCACTA
37776069 T
1 T
37776070 TCTGGTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.42
Consensus pattern (15 bp):
TCCTCTTATCCACTA
Found at i:37777075 original size:18 final size:18
Alignment explanation
Indices: 37777052--37777090 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
37777042 CAATTGTACT
37777052 CATCATGAAAACTTTTCA
1 CATCATGAAAACTTTTCA
*
37777070 CATCATGGAAACTTTTCA
1 CATCATGAAAACTTTTCA
37777088 CAT
1 CAT
37777091 GAATGCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (18 bp):
CATCATGAAAACTTTTCA
Found at i:37777354 original size:3 final size:3
Alignment explanation
Indices: 37777346--37777375 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37777336 CTTTTACAAG
37777346 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37777376 CATCATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37777629 original size:3 final size:3
Alignment explanation
Indices: 37777621--37777646 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37777611 TTCTTGAAGC
37777621 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
37777647 TAAAAAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:37778942 original size:28 final size:28
Alignment explanation
Indices: 37778866--37778986 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 28
37778856 AAAAAAAATA
*
37778866 TAAACAAAAA-CCTCCAAAATCAAAAACCC
1 TAAACAAAAATCC-CCAAACTC-AAAACCC
* *
37778895 TAAGCAAAAATCCCCAAAATCAAAACCCC
1 TAAACAAAAATCCCCAAACTCAAAA-CCC
* * * *
37778924 TAACCCAAAATCCCCAAATTCGACAA-CC
1 TAAACAAAAATCCCCAAACTC-AAAACCC
*
37778952 TAAACTAAAATCCCCAAACTCAAAATCCC
1 TAAACAAAAATCCCCAAACTCAAAA-CCC
37778981 TAAACA
1 TAAACA
37778987 TAAACCGAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
27 3 0.04
28 24 0.31
29 45 0.58
30 5 0.06
ACGTcount: A:0.51, C:0.34, G:0.02, T:0.13
Consensus pattern (28 bp):
TAAACAAAAATCCCCAAACTCAAAACCC
Found at i:37785061 original size:143 final size:143
Alignment explanation
Indices: 37784803--37785091 Score: 515
Period size: 143 Copynumber: 2.0 Consensus size: 143
37784793 ACTTGGAACT
* *
37784803 AAGGAAATGTGCAAGTGTACAAAATCGTATCAAGTAATAAAGTGACAACTAATGTCGAGCTATCG
1 AAGGAAATGTGCAAGTGTACAAAATCATACCAAGTAATAAAGTGACAACTAATGTCGAGCTATCG
* *
37784868 TATCCATAGGAACTGTGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGGAAA
66 TATCCATAGGAACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGAAAA
37784933 ATATGTTGATTTG
131 ATATGTTGATTTG
* *
37784946 AAGGAAATGTGCAAGTGTACAAAATCATACCAAGTAATAAAGTGACAAGTAATGTCGAGTTATCG
1 AAGGAAATGTGCAAGTGTACAAAATCATACCAAGTAATAAAGTGACAACTAATGTCGAGCTATCG
*
37785011 TATCCATAGGTACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGAAAA
66 TATCCATAGGAACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGAAAA
37785076 ATATGTTGATTTG
131 ATATGTTGATTTG
37785089 AAG
1 AAG
37785092 TGGTGATATA
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
143 139 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (143 bp):
AAGGAAATGTGCAAGTGTACAAAATCATACCAAGTAATAAAGTGACAACTAATGTCGAGCTATCG
TATCCATAGGAACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGAAAA
ATATGTTGATTTG
Found at i:37789453 original size:37 final size:37
Alignment explanation
Indices: 37789403--37789476 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
37789393 TAGACTCATG
37789403 AAGTCAAACATGTCCCAAAAGTGTAGCATAAAGCTAA
1 AAGTCAAACATGTCCCAAAAGTGTAGCATAAAGCTAA
37789440 AAGTCAAACATGTCCCAAAAGTGTAGCATAAAGCTAA
1 AAGTCAAACATGTCCCAAAAGTGTAGCATAAAGCTAA
37789477 CACTCTCCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (37 bp):
AAGTCAAACATGTCCCAAAAGTGTAGCATAAAGCTAA
Found at i:37789807 original size:82 final size:82
Alignment explanation
Indices: 37789670--37789828 Score: 318
Period size: 82 Copynumber: 1.9 Consensus size: 82
37789660 ATCAAACACT
37789670 TAACACTTACTGATTATCCGTACACTATCTCATGTTAGCATCTTTTGAAAAACACTACCACTATC
1 TAACACTTACTGATTATCCGTACACTATCTCATGTTAGCATCTTTTGAAAAACACTACCACTATC
37789735 ATATAACATATAACATA
66 ATATAACATATAACATA
37789752 TAACACTTACTGATTATCCGTACACTATCTCATGTTAGCATCTTTTGAAAAACACTACCACTATC
1 TAACACTTACTGATTATCCGTACACTATCTCATGTTAGCATCTTTTGAAAAACACTACCACTATC
37789817 ATATAACATATA
66 ATATAACATATA
37789829 TTTCATGTAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (82 bp):
TAACACTTACTGATTATCCGTACACTATCTCATGTTAGCATCTTTTGAAAAACACTACCACTATC
ATATAACATATAACATA
Found at i:37801262 original size:20 final size:20
Alignment explanation
Indices: 37801227--37801314 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
37801217 TTTTGAAACA
37801227 ATTTTAAAATCAAGTTAAAATG
1 ATTTT-AAA-CAAGTTAAAATG
*
37801249 ATTTTAACCAAGTTAAAATG
1 ATTTTAAACAAGTTAAAATG
*
37801269 ATTTTAAACAAGTCAAAATTG
1 ATTTTAAACAAGTTAAAA-TG
* * *
37801290 -TTTCAATCAAGTTAAAATC
1 ATTTTAAACAAGTTAAAATG
37801309 ATTTTA
1 ATTTTA
37801315 GCACATCAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.02
20 46 0.82
21 4 0.07
22 5 0.09
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (20 bp):
ATTTTAAACAAGTTAAAATG
Found at i:37801281 original size:40 final size:41
Alignment explanation
Indices: 37801227--37801314 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 41
37801217 TTTTGAAACA
* * *
37801227 ATTTTAAAATCAAGTTAAAA-TGATTTTAACCAAGTTAAAATG
1 ATTTT-AAATCAAGTCAAAATTG-TTTCAACCAAGTTAAAATC
*
37801269 ATTTTAAA-CAAGTCAAAATTGTTTCAATCAAGTTAAAATC
1 ATTTTAAATCAAGTCAAAATTGTTTCAACCAAGTTAAAATC
37801309 ATTTTA
1 ATTTTA
37801315 GCACATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 31 0.76
41 5 0.12
42 5 0.12
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (41 bp):
ATTTTAAATCAAGTCAAAATTGTTTCAACCAAGTTAAAATC
Found at i:37801301 original size:60 final size:60
Alignment explanation
Indices: 37801234--37801351 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
37801224 ACAATTTTAA
* * *
37801234 AATCAAGTTAAAATGATTTTAACCA-AGTTAAAATGATTTT-AAACAAGTCAAAATTGTTTC
1 AATCAAGTTAAAATCATTTT-ACCACA-TCAAAATCATTTTCAAACAAGTCAAAATTGTTTC
* *
37801294 AATCAAGTTAAAATCATTTTAGCACATCAAAATCATTTTCAAACAAGTCAGAATTGTT
1 AATCAAGTTAAAATCATTTTACCACATCAAAATCATTTTCAAACAAGTCAAAATTGTT
37801352 CCATGCTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
59 14 0.27
60 37 0.73
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (60 bp):
AATCAAGTTAAAATCATTTTACCACATCAAAATCATTTTCAAACAAGTCAAAATTGTTTC
Found at i:37801730 original size:42 final size:42
Alignment explanation
Indices: 37801671--37801755 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
37801661 TTGGGAATCA
37801671 ATTAGAGGGTATAAATACCATCTTCCAAAGACCTACAACAAT
1 ATTAGAGGGTATAAATACCATCTTCCAAAGACCTACAACAAT
*
37801713 ATTAGGGGGTATAAATACCATCTTCCAAAGACCTACAACAAT
1 ATTAGAGGGTATAAATACCATCTTCCAAAGACCTACAACAAT
37801755 A
1 A
37801756 AGAAAGCACT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (42 bp):
ATTAGAGGGTATAAATACCATCTTCCAAAGACCTACAACAAT
Found at i:37808693 original size:6 final size:6
Alignment explanation
Indices: 37808682--37808711 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
37808672 TGGAAGACCA
37808682 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
1 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
37808712 GTAGATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
TCTGAT
Found at i:37813609 original size:3 final size:3
Alignment explanation
Indices: 37813601--37813627 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37813591 AGTGCAAAAT
37813601 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
37813628 AACTTGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:37814082 original size:18 final size:19
Alignment explanation
Indices: 37814059--37814094 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37814049 TAAAAGATTA
*
37814059 TTTATATA-ATTTTTAGAG
1 TTTATATATATATTTAGAG
37814077 TTTATATATATATTTAGA
1 TTTATATATATATTTAGA
37814095 TTATTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTATATATATATTTAGAG
Found at i:37817840 original size:18 final size:18
Alignment explanation
Indices: 37817817--37817855 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
37817807 TGGATGAACA
*
37817817 TCTAATTCTGATTCTGAT
1 TCTAATGCTGATTCTGAT
*
37817835 TCTAATGCTGATTCTGGT
1 TCTAATGCTGATTCTGAT
37817853 TCT
1 TCT
37817856 GATGTAGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (18 bp):
TCTAATGCTGATTCTGAT
Found at i:37820070 original size:29 final size:29
Alignment explanation
Indices: 37820037--37820094 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
37820027 TCAATTTATT
*
37820037 TTTGTTAATTTAGTAATCCAAAATAGAAA
1 TTTGTTAATTTAATAATCCAAAATAGAAA
37820066 TTTGTTAATTTAATAATCCAAAATAGAAA
1 TTTGTTAATTTAATAATCCAAAATAGAAA
37820095 CTGATCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTGTTAATTTAATAATCCAAAATAGAAA
Found at i:37820722 original size:16 final size:15
Alignment explanation
Indices: 37820680--37820723 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
37820670 AAAAATTATA
37820680 TAAAAATAATTTTTT
1 TAAAAATAATTTTTT
*
37820695 TAAATCATAATTATTTT
1 TAAA-AATAATT-TTTT
*
37820712 TAAAAAAAATTT
1 TAAAAATAATTT
37820724 ACGTTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 5 0.21
16 11 0.46
17 8 0.33
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAAATAATTTTTT
Found at i:37824156 original size:24 final size:24
Alignment explanation
Indices: 37824129--37824192 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 24
37824119 AATAAAACTT
37824129 ATTAAAAATAT-AAGAA-ATATATAA
1 ATTAAAAAT-TCAA-AATATATATAA
37824153 ATTATAAAACTTCAAAATATATATAA
1 ATTA-AAAA-TTCAAAATATATATAA
* *
37824179 ATTGAAAATGCAAA
1 ATTAAAAATTCAAA
37824193 TAAAAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 9 0.26
25 11 0.32
26 14 0.41
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (24 bp):
ATTAAAAATTCAAAATATATATAA
Found at i:37825337 original size:25 final size:25
Alignment explanation
Indices: 37825308--37825358 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
37825298 GTCAACAAGA
37825308 GAGTTTAGTTCCACTAGAACTACTT
1 GAGTTTAGTTCCACTAGAACTACTT
37825333 GAGTTTAGTTCCACTAGAACTACTT
1 GAGTTTAGTTCCACTAGAACTACTT
37825358 G
1 G
37825359 TTTAGATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (25 bp):
GAGTTTAGTTCCACTAGAACTACTT
Found at i:37827590 original size:19 final size:19
Alignment explanation
Indices: 37827562--37827615 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
37827552 AAAATTCAAT
37827562 AAAATATAAAAATTATTTTA
1 AAAAT-TAAAAATTATTTTA
*
37827582 AAAATT-AAAATTAATTTA
1 AAAATTAAAAATTATTTTA
*
37827600 AAAAGTATAAAATTAT
1 AAAATTA-AAAATTAT
37827616 AAAAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 16 0.55
19 1 0.03
20 12 0.41
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTAAAAATTATTTTA
Found at i:37827591 original size:18 final size:20
Alignment explanation
Indices: 37827570--37827615 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
37827560 ATAAAATATA
37827570 AAAATTATTTTAAAAA-T-T
1 AAAATTATTTTAAAAAGTAT
*
37827588 AAAATTAATTTAAAAAGTAT
1 AAAATTATTTTAAAAAGTAT
37827608 AAAATTAT
1 AAAATTAT
37827616 AAAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.62
19 1 0.04
20 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATTATTTTAAAAAGTAT
Found at i:37829534 original size:91 final size:91
Alignment explanation
Indices: 37829355--37829546 Score: 273
Period size: 91 Copynumber: 2.1 Consensus size: 91
37829345 GGCAATTTAT
*
37829355 CTACAAACACTGGTGGTTTATCCACAAACATACTGCCAACTTTTATTTGCAAACTCATTATGCAT
1 CTACAAACACTAGTGGTTTATCCACAAACATACTGCCAACTTTTATTTGCAAACTCATTATGCAT
*
37829420 TCACAACCTACTGGTAGCATATTAAC
66 TCACAACCTACTAGTAGCATATTAAC
* * * * * *
37829446 CTTCAAACACTAGTGGTTTATCCAC-AACTTTTACTGGCAACTTTTATTTGCAAACTCGTTGTGT
1 CTACAAACACTAGTGGTTTATCCACAAAC--ATACTGCCAACTTTTATTTGCAAACTCATTATGC
37829510 ATTCACAACC-ACTAGTAGCATATTAAC
64 ATTCACAACCTACTAGTAGCATATTAAC
37829537 CTAC-AACACT
1 CTACAAACACT
37829547 TGTAATTCAT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
90 9 0.10
91 42 0.47
92 39 0.43
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (91 bp):
CTACAAACACTAGTGGTTTATCCACAAACATACTGCCAACTTTTATTTGCAAACTCATTATGCAT
TCACAACCTACTAGTAGCATATTAAC
Found at i:37830251 original size:50 final size:49
Alignment explanation
Indices: 37830127--37830256 Score: 122
Period size: 49 Copynumber: 2.6 Consensus size: 49
37830117 GATAATAACA
* ** *
37830127 TGCCAAAGCCATGTCCTAGACATGGTCTTT-CATGGGATGTTTTTTGTAC
1 TGCCAATGCCATGTCCTAGACATGGT-TTTACATGGGATGTTTCATATAC
* * *
37830176 TGCCAATGCCATATCCCAGATATGGTTTTACATGGGA-GTTCTCATAT-C
1 TGCCAATGCCATGTCCTAGACATGGTTTTACATGGGATGTT-TCATATAC
* *
37830224 GGTGCCCATGCCATGTCCTAGACATGGTCTTAC
1 --TGCCAATGCCATGTCCTAGACATGGTTTTAC
37830257 GGGGGACCTC
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
48 7 0.11
49 32 0.49
50 26 0.40
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (49 bp):
TGCCAATGCCATGTCCTAGACATGGTTTTACATGGGATGTTTCATATAC
Found at i:37830354 original size:62 final size:61
Alignment explanation
Indices: 37830229--37830375 Score: 137
Period size: 62 Copynumber: 2.5 Consensus size: 61
37830219 ATATCGGTGC
* * * *** *
37830229 CCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCAACGCCATGTG
1 CCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTCAAGCAACGCCATATG
* *
37830290 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAAG-AATGCCA-ATG
1 CC-ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-AT-TCAAGCAACGCCATATG
37830352 CCATG---T-T-CCAGACATGGTCTTACA
1 CCATGCCATGTCCCAGACATGGTCTTACA
37830376 CTGGCTCACA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
56 17 0.23
57 1 0.01
58 1 0.01
61 5 0.07
62 41 0.55
63 7 0.09
64 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (61 bp):
CCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTCAAGCAACGCCATATG
Found at i:37834101 original size:229 final size:228
Alignment explanation
Indices: 37833680--37834133 Score: 517
Period size: 229 Copynumber: 2.0 Consensus size: 228
37833670 GACATCTTTT
* *
37833680 TCTGAAACAATAGTCCACCATTTCTTTCAAAAAGTTTTTGTTTAAGTTTTATGTACTTTCTTTTC
1 TCTGAAACAATAATCCACCATTTCTTTCAAAAAGTTTTTGTTTAAGTTTAATGTACTTTC--TTC
*
37833745 TGCAGTATCTTACAAAACCACCAAACCCCAGCAATTAGAAACAAGAGCCCTATACTTAAACCTGC
64 TGCAGTATCTTACAAAACCACCAAACCCCAGCAATTAGAAACAAGAGCCCTAAACTTAAACCTGC
** * * *
37833810 ATGAGATCAAAATAAATATGTCGATACCACTTATTTGATTAACTCCTAACATAGTCAATGTTACC
129 ATGAGATCAAAATAAATATGT--AT--CACTTAAATCATCAACTCCTAAAATAGTCAATGTTACC
* *
37833875 ATTTATGCTACCG-TTTG-AATAAAATTTAGATGGCCATA
190 ATTTAAGCTA-CGATTTGAAATAAAAATTAGATGGCCATA
* * * *
37833913 TCTGAACCAATAATCCACCATTTCTTTCGAAGAGTTTTTGTTTGAGTTTAATGTAC-TTC-TCTG
1 TCTGAAACAATAATCCACCATTTCTTTCAAAAAGTTTTTGTTTAAGTTTAATGTACTTTCTTCTG
* * * * * *
37833976 CAGTATTTTATAAAGCCACCATACCCC-GACAATTAGAAATAAGATCCCTAAACTTAACCCAACA
66 CAGTATCTTACAAAACCACCAAACCCCAG-CAATTAGAAACAAGAGCCCTAAACTT-A---AAC-
* * * *
37834040 TCTGCATGAGATCCAAATAAATATGT-T-ACTTAAATCATCAGCTCCTAAAATCGTTAATGTTAC
125 -CTGCATGAGATCAAAATAAATATGTATCACTTAAATCATCAACTCCTAAAATAGTCAATGTTAC
37834103 CATTTAAGCTACGATTTGAAATAAAAATTAG
189 CATTTAAGCTACGATTTGAAATAAAAATTAG
37834134 TTGGACATGT
Statistics
Matches: 188, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
228 3 0.02
229 92 0.49
230 12 0.06
232 4 0.02
233 53 0.28
235 24 0.13
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (228 bp):
TCTGAAACAATAATCCACCATTTCTTTCAAAAAGTTTTTGTTTAAGTTTAATGTACTTTCTTCTG
CAGTATCTTACAAAACCACCAAACCCCAGCAATTAGAAACAAGAGCCCTAAACTTAAACCTGCAT
GAGATCAAAATAAATATGTATCACTTAAATCATCAACTCCTAAAATAGTCAATGTTACCATTTAA
GCTACGATTTGAAATAAAAATTAGATGGCCATA
Found at i:37837784 original size:42 final size:42
Alignment explanation
Indices: 37837724--37837921 Score: 360
Period size: 42 Copynumber: 4.7 Consensus size: 42
37837714 GGCGGCGCTT
*
37837724 CGCCTCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAA
1 CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
*
37837766 GGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
1 CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
37837808 CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
1 CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
37837850 CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
1 CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
**
37837892 CGCAGCTAAAGACCATGTTCTTTAGCGGCG
1 CGCCTCTAAAGACCATGTTCTTTAGCGGCG
37837922 TTTATTCTTA
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 151 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (42 bp):
CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAA
Found at i:37837959 original size:84 final size:84
Alignment explanation
Indices: 37837729--37837966 Score: 260
Period size: 84 Copynumber: 2.8 Consensus size: 84
37837719 CGCTTCGCCT
* * * * ****
37837729 CTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAGGCCTCTAAAGACCATGTTCTTTAGCGG
1 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGAAAATTAGCGG
**
37837794 CGCTTAGAAAAAAACGCCT
66 CGCTTAGAAAAAAACGCAG
* * ****
37837813 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCTCTAAAGACCATGTTCTTTAGCGG
1 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGAAAATTAGCGG
37837878 CGCTTAGAAAAAAACGCAG
66 CGCTTAGAAAAAAACGCAG
* ***** *
37837897 CTAAAGACCATGTTCTTTAGCGGCGTTTATTCTTAAGCGCCGCTAAAGAACATGAAAATTAGCGG
1 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGAAAATTAGCGG
*
37837962 TGCTT
66 CGCTT
37837967 TTATACAAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 136 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (84 bp):
CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGAAAATTAGCGG
CGCTTAGAAAAAAACGCAG
Done.