Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 37 of 210
Found at i:13132237 original size:10 final size:10
Alignment explanation
Indices: 13132192--13132254 Score: 64
Period size: 10 Copynumber: 6.8 Consensus size: 10
13132182 TTCATCTTGA
* *
13132192 TTTTTTCTTC
1 TTTTTTTTTG
13132202 TTTTTTTTTG
1 TTTTTTTTTG
*
13132212 --TTTTTCTG
1 TTTTTTTTTG
13132220 -TTTTTTTTG
1 TTTTTTTTTG
13132229 TTTTTTTTTG
1 TTTTTTTTTG
13132239 --TTTTTTTG
1 TTTTTTTTTG
13132247 TTTTTTTT
1 TTTTTTTT
13132255 AAGCATAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 15 0.33
9 7 0.16
10 23 0.51
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:13132252 original size:19 final size:18
Alignment explanation
Indices: 13132192--13132254 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
13132182 TTCATCTTGA
13132192 TTTTTTCTTCTTTTTTTTTG
1 TTTTTT-TT-TTTTTTTTTG
* *
13132212 -TTTTTCTGTTTTTTTTG
1 TTTTTTTTTTTTTTTTTG
*
13132229 TTTTTTTTTGTTTTTTTG
1 TTTTTTTTTTTTTTTTTG
13132247 TTTTTTTT
1 TTTTTTTT
13132255 AAGCATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 9 0.24
18 23 0.62
19 5 0.14
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTTTG
Found at i:13132252 original size:27 final size:27
Alignment explanation
Indices: 13132192--13132254 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
13132182 TTCATCTTGA
13132192 TTTTTTCTTCTTTTTTTTTGTTTTTCTG
1 TTTTTT-TTCTTTTTTTTTGTTTTTCTG
* *
13132220 TTTTTTTTGTTTTTTTTTGTTTTTTTG
1 TTTTTTTTCTTTTTTTTTGTTTTTCTG
13132247 TTTTTTTT
1 TTTTTTTT
13132255 AAGCATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (27 bp):
TTTTTTTTCTTTTTTTTTGTTTTTCTG
Found at i:13132253 original size:18 final size:17
Alignment explanation
Indices: 13132202--13132254 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
13132192 TTTTTTCTTC
*
13132202 TTTTTTTTTGTTTTTCT
1 TTTTTTTTTGTTTTTTT
*
13132219 GTTTTTTTTGTTTTTTT
1 TTTTTTTTTGTTTTTTT
13132236 TTGTTTTTTTGTTTTTTT
1 TT-TTTTTTTGTTTTTTT
13132254 T
1 T
13132255 AAGCATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTTT
Found at i:13157545 original size:14 final size:14
Alignment explanation
Indices: 13157526--13157555 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13157516 ACATAAAGCA
13157526 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
13157540 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
13157554 AC
1 AC
13157556 ACCTAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAACCTTTTCCC
Found at i:13158975 original size:16 final size:16
Alignment explanation
Indices: 13158951--13158984 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13158941 TAATACTAAT
*
13158951 TAATTTTTGATATTAA
1 TAATGTTTGATATTAA
*
13158967 TAATGTTTGATTTTAA
1 TAATGTTTGATATTAA
13158983 TA
1 TA
13158985 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAATGTTTGATATTAA
Found at i:13160232 original size:15 final size:16
Alignment explanation
Indices: 13160198--13160230 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13160188 GCGACATAAG
13160198 TTAAATATATGTAAAT
1 TTAAATATATGTAAAT
13160214 TTAATATATAT-TAAAT
1 TTAA-ATATATGTAAAT
13160230 T
1 T
13160231 AAAGGCACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAAATATATGTAAAT
Found at i:13166445 original size:24 final size:24
Alignment explanation
Indices: 13166418--13166464 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13166408 ATTGAAATGG
13166418 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
13166442 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
13166465 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:13187102 original size:17 final size:15
Alignment explanation
Indices: 13187080--13187120 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
13187070 CCCTAAACAT
13187080 GAAAAAGAAAAAAGAG
1 GAAAAAGAAAAAA-AG
*
13187096 AGAAAAAGAAAAGAAG
1 -GAAAAAGAAAAAAAG
13187112 GAAAAAGAA
1 GAAAAAGAA
13187121 GAGAAGGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 2 0.09
17 12 0.52
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAAAG
Found at i:13187109 original size:15 final size:15
Alignment explanation
Indices: 13187080--13187127 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
13187070 CCCTAAACAT
*
13187080 GAAAAAGAAAAAAGAG
1 GAAAAAGAAAAGA-AG
13187096 AGAAAAAGAAAAGAAG
1 -GAAAAAGAAAAGAAG
*
13187112 GAAAAAGAAGAGAAG
1 GAAAAAGAAAAGAAG
13187127 G
1 G
13187128 TGTCAGATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.52
16 2 0.07
17 12 0.41
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAGAAG
Found at i:13197928 original size:113 final size:113
Alignment explanation
Indices: 13197730--13197971 Score: 484
Period size: 113 Copynumber: 2.1 Consensus size: 113
13197720 GTACATTTTC
13197730 TTTAAGGGGCCAAAGTTACATTGTATATTTTTACAATAGTAAAAATGCGATTCCACCATTTTAAT
1 TTTAAGGGGCCAAAGTTACATTGTATATTTTTACAATAGTAAAAATGCGATTCCACCATTTTAAT
13197795 ATCTATATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCATT
66 ATCTATATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCATT
13197843 TTTAAGGGGCCAAAGTTACATTGTATATTTTTACAATAGTAAAAATGCGATTCCACCATTTTAAT
1 TTTAAGGGGCCAAAGTTACATTGTATATTTTTACAATAGTAAAAATGCGATTCCACCATTTTAAT
13197908 ATCTATATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCATT
66 ATCTATATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCATT
13197956 TTTAAGGGGCCAAAGT
1 TTTAAGGGGCCAAAGT
13197972 GCAATTTTAC
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 129 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (113 bp):
TTTAAGGGGCCAAAGTTACATTGTATATTTTTACAATAGTAAAAATGCGATTCCACCATTTTAAT
ATCTATATCTTTATAATTTTTAAAGGATTAAATCAAAATTTTATCATT
Found at i:13199076 original size:14 final size:14
Alignment explanation
Indices: 13199043--13199078 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
13199033 CCACCTTCTC
13199043 CCTTTCAGCCACTG
1 CCTTTCAGCCACTG
*
13199057 -CTTTCAGCCGCTG
1 CCTTTCAGCCACTG
13199070 CCTTTCAGC
1 CCTTTCAGC
13199079 TCTTGAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.11, C:0.42, G:0.17, T:0.31
Consensus pattern (14 bp):
CCTTTCAGCCACTG
Found at i:13209888 original size:59 final size:61
Alignment explanation
Indices: 13209775--13209900 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 61
13209765 ATCCTAAATA
* * * *
13209775 TAAAAAATTCAATAAATTTAGCTCTCAATGTTTACAAAATTAATCATTTCAGTTTTAATTC
1 TAAAAAAATCAATAAATTTAGCTCTCAATATTTAAAAAATTAATCATTTCAGTTTTAACTC
*
13209836 TAAAAAAAT-AATAAATTTGGC-CTCAATATTTAAAAAA-TATATCAATTT-AGTTTTAACTC
1 TAAAAAAATCAATAAATTTAGCTCTCAATATTTAAAAAATTA-ATC-ATTTCAGTTTTAACTC
13209895 TAAAAA
1 TAAAAA
13209901 TTAAAAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
58 2 0.03
59 33 0.57
60 15 0.26
61 8 0.14
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (61 bp):
TAAAAAAATCAATAAATTTAGCTCTCAATATTTAAAAAATTAATCATTTCAGTTTTAACTC
Found at i:13213012 original size:25 final size:25
Alignment explanation
Indices: 13212984--13213070 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
13212974 CAAGCATGTA
13212984 AACGGGAAGCTCTTTCGAGCTGAAT
1 AACGGGAAGCTCTTTCGAGCTGAAT
* *
13213009 AACGGAAAGCTCGTGT-GAGCT-AAGT
1 AACGGGAAGCTC-TTTCGAGCTGAA-T
* * * * *
13213034 AACGGGAAACTCATACGAGCCGTAT
1 AACGGGAAGCTCTTTCGAGCTGAAT
*
13213059 ATCGGGAAGCTC
1 AACGGGAAGCTC
13213071 ATGAGAGCCA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
24 2 0.04
25 42 0.89
26 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCTTTCGAGCTGAAT
Found at i:13213071 original size:25 final size:25
Alignment explanation
Indices: 13213015--13213103 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
13213005 GAATAACGGA
* * * *
13213015 AAGCTCGTGTGAGCTAAGTAACGGG
1 AAGCTCATGAGAGCCAAGTATCGGG
* *
13213040 AAACTCAT-ACGAGCCGTA-TATCGGG
1 AAGCTCATGA-GAGCC-AAGTATCGGG
13213065 AAGCTCATGAGAGCCAAGTATCGGG
1 AAGCTCATGAGAGCCAAGTATCGGG
*
13213090 AAGCTCAAGAGAGC
1 AAGCTCATGAGAGC
13213104 TGTGGTGTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
24 1 0.02
25 48 0.94
26 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (25 bp):
AAGCTCATGAGAGCCAAGTATCGGG
Found at i:13220777 original size:19 final size:20
Alignment explanation
Indices: 13220752--13220806 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
13220742 ATAGAAAATC
13220752 ATAAAAATTATAAAAAAATTT
1 ATAAAAA-TATAAAAAAATTT
* *
13220773 -TAAAAGT-TCAAAAAATTT
1 ATAAAAATATAAAAAAATTT
13220791 ATAAAAATATAGAAAA
1 ATAAAAATATA-AAAA
13220807 GTATAAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 6 0.22
21 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
ATAAAAATATAAAAAAATTT
Found at i:13220929 original size:10 final size:9
Alignment explanation
Indices: 13220915--13220974 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
13220905 AAAATGTTTC
13220915 AAAAATAATA
1 AAAAAT-ATA
*
13220925 TAAAAT-TA
1 AAAAATATA
13220933 CAAAAA-ATA
1 -AAAAATATA
*
13220942 AAAATTATA
1 AAAAATATA
*
13220951 AAAAATACA
1 AAAAATATA
13220960 AAAATATATA
1 AAAA-ATATA
13220970 AAAAA
1 AAAAA
13220975 ATATTTACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 6 0.15
9 21 0.52
10 13 0.32
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAATATA
Found at i:13220947 original size:16 final size:17
Alignment explanation
Indices: 13220916--13220962 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
13220906 AAATGTTTCA
*
13220916 AAAATAATATAAAATTAC
1 AAAA-AATACAAAATTAC
*
13220934 AAAAAATA-AAAATTAT
1 AAAAAATACAAAATTAC
13220950 AAAAAATACAAAA
1 AAAAAATACAAAA
13220963 ATATATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 15 0.56
17 8 0.30
18 4 0.15
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATACAAAATTAC
Found at i:13220955 original size:26 final size:26
Alignment explanation
Indices: 13220915--13220977 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
13220905 AAAATGTTTC
*
13220915 AAAAATAATATAAAATTACAAAAA-AT
1 AAAAATAATA-AAAAATACAAAAATAT
*
13220941 AAAAATTATAAAAAATACAAAAATAT
1 AAAAATAATAAAAAATACAAAAATAT
*
13220967 ATAAAAAAATA
1 A-AAAATAATA
13220978 TTTACAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 12 0.39
26 12 0.39
27 7 0.23
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (26 bp):
AAAAATAATAAAAAATACAAAAATAT
Found at i:13222403 original size:13 final size:12
Alignment explanation
Indices: 13222381--13222428 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
13222371 AACAAGTTAA
13222381 TTTTTATTTTAT
1 TTTTTATTTTAT
13222393 TTTTTATTTTTAT
1 TTTTTA-TTTTAT
* **
13222406 TTCTTATAATAT
1 TTTTTATTTTAT
13222418 TTTATTATTTT
1 TTT-TTATTTT
13222429 TAATACTCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:13222501 original size:18 final size:17
Alignment explanation
Indices: 13222480--13222521 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
13222470 TATATTTTTA
*
13222480 ATATTTTTTTCATAATTT
1 ATATTTTTTT-ATAAATT
*
13222498 ATATTTTTTTGTAAATT
1 ATATTTTTTTATAAATT
13222515 ATATTTT
1 ATATTTT
13222522 ATTTTTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
ATATTTTTTTATAAATT
Found at i:13222638 original size:19 final size:20
Alignment explanation
Indices: 13222614--13222684 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 20
13222604 ATTTTTGCAC
13222614 TTTAAT-ATTTTTTATATTT
1 TTTAATGATTTTTTATATTT
* * *
13222633 TTTAAT-AATTTTGATGTATT
1 TTTAATGATTTTTTATAT-TT
*
13222653 TTT-ATGATTTTCTATAAATTT
1 TTTAATGATTTT-T-TATATTT
13222674 TTTAATGATTT
1 TTTAATGATTT
13222685 GAGTAGTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 16 0.40
20 9 0.22
21 6 0.15
22 9 0.22
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTAATGATTTTTTATATTT
Found at i:13223576 original size:36 final size:36
Alignment explanation
Indices: 13223529--13223600 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
13223519 AATAGATGAA
* *
13223529 ATTATTCGGAATAACTTATGGATATGATAGTCAAGT
1 ATTATTCGGAATAACTTACGAATATGATAGTCAAGT
13223565 ATTATTCGGAATAACTTACGAATATGATAGTCAAGT
1 ATTATTCGGAATAACTTACGAATATGATAGTCAAGT
13223601 TTTGAGCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.35
Consensus pattern (36 bp):
ATTATTCGGAATAACTTACGAATATGATAGTCAAGT
Found at i:13232110 original size:3 final size:3
Alignment explanation
Indices: 13232102--13232129 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13232092 ATAAATAAAA
13232102 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
13232130 TAAGAGTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13232671 original size:5 final size:5
Alignment explanation
Indices: 13232661--13232686 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13232651 TTTTTTACCT
13232661 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
13232687 CTTGCTGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:13246839 original size:6 final size:6
Alignment explanation
Indices: 13246828--13246862 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
13246818 GATGAATATG
*
13246828 GAGATT GAGATT GAGATT GAGATT GAGATG GAGAT
1 GAGATT GAGATT GAGATT GAGATT GAGATT GAGAT
13246863 GAAGATGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (6 bp):
GAGATT
Found at i:13247247 original size:52 final size:52
Alignment explanation
Indices: 13247190--13247293 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
13247180 TAAGATTTTG
*
13247190 AATTATCCACTAGTTTTAAAATTAGTCAACATAATATTAAAATAGATTACAT
1 AATTATCCAATAGTTTTAAAATTAGTCAACATAATATTAAAATAGATTACAT
* * * * *
13247242 AATTATCCAATATTTTTAAAATTCGTTAACATAATATTAGAGTAGATTACAT
1 AATTATCCAATAGTTTTAAAATTAGTCAACATAATATTAAAATAGATTACAT
13247294 GTCTATGATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (52 bp):
AATTATCCAATAGTTTTAAAATTAGTCAACATAATATTAAAATAGATTACAT
Found at i:13260950 original size:17 final size:17
Alignment explanation
Indices: 13260920--13260963 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
13260910 TATAATTGTA
13260920 AAAAAATTATAAATATT-T
1 AAAAAA-TA-AAATATTAT
13260938 AATAAAATAAAATATTAT
1 AA-AAAATAAAATATTAT
13260956 AAAAAATA
1 AAAAAATA
13260964 TATATATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 13 0.54
18 7 0.29
19 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAAATAAAATATTAT
Found at i:13271541 original size:27 final size:28
Alignment explanation
Indices: 13271469--13271541 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
13271459 AATAAAAAAA
*
13271469 TTACCAAAATGT-TATACATTTTTTTTAT
1 TTACCAAAATATATA-ACATTTTTTTTAT
*
13271497 TTATCAAAATATATATA-ACTTTTTTTTAT
1 TTACCAAAATATATA-ACA-TTTTTTTTAT
13271526 TTACCAAAATATATAA
1 TTACCAAAATATATAA
13271542 AAAAAACAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 12 0.30
29 28 0.70
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATAACATTTTTTTTAT
Found at i:13275670 original size:27 final size:27
Alignment explanation
Indices: 13275632--13275709 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
13275622 NNNNNNNNNG
13275632 TGGTGCCGCCAACAGGGAAT-CCTTGTT
1 TGGTGCCGCCAACAGGG-ATCCCTTGTT
* *
13275659 TGGTGCCGCCAACAAGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGATCCCTTGTT
* *
13275686 TGGTGCCGCCAACAGTGTTCCCTT
1 TGGTGCCGCCAACAGGGATCCCTT
13275710 CACCCAGGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGATCCCTTGTT
Found at i:13275815 original size:27 final size:27
Alignment explanation
Indices: 13275759--13275827 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
13275749 TGTTTTTTTG
*
13275759 ATATATTTTGGTAAATAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATAT
* *
13275786 ATATTTTTTGGTAAATAAAAAAAATGT
1 ATATATTTTGGTAAATAAAAAAAATAT
*
13275813 ATAACATTTTGGTAA
1 AT-ATATTTTGGTAA
13275828 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 26 0.72
28 10 0.28
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAATAT
Found at i:13275822 original size:28 final size:27
Alignment explanation
Indices: 13275763--13275827 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
13275753 TTTTTGATAT
*
13275763 ATTTTGGTAAATAAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAAATTATATAC
*
13275790 TTTTTGGTAAATAAAAAAAATGTATA-AC
1 ATTTTGGTAAAT-AAAAAAAT-TATATAC
13275818 ATTTTGGTAA
1 ATTTTGGTAA
13275828 TTTTTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 11 0.33
28 18 0.55
29 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (27 bp):
ATTTTGGTAAATAAAAAAATTATATAC
Found at i:13277310 original size:15 final size:15
Alignment explanation
Indices: 13277287--13277317 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13277277 AAATATCATA
*
13277287 AGCCTGGCCCGGCCC
1 AGCCCGGCCCGGCCC
13277302 AGCCCGGCCCGGCCC
1 AGCCCGGCCCGGCCC
13277317 A
1 A
13277318 TTTTTAATAA
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:0.10, C:0.55, G:0.32, T:0.03
Consensus pattern (15 bp):
AGCCCGGCCCGGCCC
Found at i:13277373 original size:29 final size:30
Alignment explanation
Indices: 13277340--13277396 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13277330 ACCAAAAATT
13277340 TATTTTAAAA-ATAAAAAAATAAAAAAAAG
1 TATTTTAAAATATAAAAAAATAAAAAAAAG
** *
13277369 TATTTTAAAATATTGAAAAATTAAAAAA
1 TATTTTAAAATATAAAAAAATAAAAAAA
13277397 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (30 bp):
TATTTTAAAATATAAAAAAATAAAAAAAAG
Found at i:13279323 original size:7 final size:8
Alignment explanation
Indices: 13279306--13279386 Score: 63
Period size: 8 Copynumber: 9.5 Consensus size: 8
13279296 AATATATTTT
13279306 AAAAATAA
1 AAAAATAA
13279314 AAAAATAA
1 AAAAATAA
**
13279322 AAATATATTTT
1 AAA-A-A-TAA
**
13279333 AAAAATTT
1 AAAAATAA
13279341 AAAAATAA
1 AAAAATAA
13279349 AAAAATAA
1 AAAAATAA
*
13279357 AAAAATATTT
1 AAAAATA--A
*
13279367 TAAAATAA
1 AAAAATAA
13279375 AAAAATAA
1 AAAAATAA
13279383 AAAA
1 AAAA
13279387 TATTTATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
8 46 0.77
9 2 0.03
10 8 0.13
11 4 0.07
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAATAA
Found at i:13279331 original size:27 final size:27
Alignment explanation
Indices: 13279293--13279391 Score: 103
Period size: 35 Copynumber: 3.4 Consensus size: 27
13279283 AATAAACACC
13279293 AAAAATATATTTTAAAAATAAAAAAAT
1 AAAAATATATTTTAAAAATAAAAAAAT
13279320 AAAAATATATTTTAAAAATTTAAAAATAAAAAAAT
1 AAAAATATA---T-----TTTAAAAATAAAAAAAT
*
13279355 AAAAAAATATTTT-AAAATAAAAAAAT
1 AAAAATATATTTTAAAAATAAAAAAAT
13279381 AAAAA-ATATTT
1 AAAAATATATTT
13279392 ATTATATATT
Statistics
Matches: 63, Mismatches: 1, Indels: 18
0.77 0.01 0.22
Matches are distributed among these distances:
25 6 0.10
26 18 0.29
27 12 0.19
30 1 0.02
32 1 0.02
35 25 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAAATATATTTTAAAAATAAAAAAAT
Found at i:13279343 original size:35 final size:34
Alignment explanation
Indices: 13279303--13279386 Score: 132
Period size: 35 Copynumber: 2.4 Consensus size: 34
13279293 AAAAATATAT
*
13279303 TTTAAAAATAAAAAAATAAAAATATATTTTAAAAA
1 TTTAAAAATAAAAAAATAAAAAAATATTTT-AAAA
13279338 TTTAAAAATAAAAAAATAAAAAAATATTTTAAAA
1 TTTAAAAATAAAAAAATAAAAAAATATTTTAAAA
**
13279372 TAAAAAAATAAAAAA
1 TTTAAAAATAAAAAA
13279387 TATTTATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 17 0.37
35 29 0.63
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (34 bp):
TTTAAAAATAAAAAAATAAAAAAATATTTTAAAA
Found at i:13279366 original size:26 final size:25
Alignment explanation
Indices: 13279333--13279392 Score: 95
Period size: 26 Copynumber: 2.4 Consensus size: 25
13279323 AATATATTTT
13279333 AAAA-ATTTAAAAATAAAAAAATAAA
1 AAAATATTTAAAAATAAAAAAAT-AA
*
13279358 AAAATATTTTAAAATAAAAAAATAA
1 AAAATATTTAAAAATAAAAAAATAA
13279383 AAAATATTTA
1 AAAATATTTA
13279393 TTATATATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 15 0.47
26 17 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAATATTTAAAAATAAAAAAATAA
Found at i:13280047 original size:9 final size:9
Alignment explanation
Indices: 13280030--13280066 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13280020 NNNNNNNNNN
*
13280030 TATTTGAAT
1 TATTCGAAT
13280039 TATTCGAAT
1 TATTCGAAT
*
13280048 TATTCGAGT
1 TATTCGAAT
13280057 TATTCGAAT
1 TATTCGAAT
13280066 T
1 T
13280067 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13280137 original size:9 final size:9
Alignment explanation
Indices: 13280120--13280150 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13280110 TCGAGTTGAT
13280120 TCGAATAAC
1 TCGAATAAC
*
13280129 TCGATTAAC
1 TCGAATAAC
13280138 TCGAATAAC
1 TCGAATAAC
13280147 TCGA
1 TCGA
13280151 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:13281374 original size:51 final size:50
Alignment explanation
Indices: 13281319--13281581 Score: 203
Period size: 51 Copynumber: 5.2 Consensus size: 50
13281309 TGTGTAGGTC
* *
13281319 ACTACGTGTAAGTGAAAGTGTTGGTCACGTGTGTAGTACTATGTGTAGGTT
1 ACTACGTGTAAGTGAAAGT-TTGGTCACGTGTGTAGTACTATGTGCAGGCT
* * *** * * *
13281370 ACTACGTGT-ACTGGAATGAAAGGTCACATATGCAGTACTATGTGCAGGCT
1 ACTACGTGTAAGT-GAAAGTTTGGTCACGTGTGTAGTACTATGTGCAGGCT
* * * * * *
13281420 ACTATGCGTACCG-GATAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCT
1 ACTACGTGTA-AGTGAAAG-TTTGGTCACGTGTGTAGTACTATGTGCAGGCT
* ** *
13281471 GCTACGTGTATCTGATA-TTAATGGTCACGTGTGTAGTACTATGTGCAGGCT
1 ACTACGTGTAAGTGAAAGTT--TGGTCACGTGTGTAGTACTATGTGCAGGCT
* * * *
13281522 ACTACGTG-AACCG-GAAAGTTTGATCACGTGTGTAGTACTATATGAATGCT
1 ACTACGTGTAA--GTGAAAGTTTGGTCACGTGTGTAGTACTATGTGCAGGCT
13281572 ACTACGTGTA
1 ACTACGTGTA
13281582 TCGAATGATA
Statistics
Matches: 163, Mismatches: 38, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
49 2 0.01
50 71 0.44
51 88 0.54
52 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
ACTACGTGTAAGTGAAAGTTTGGTCACGTGTGTAGTACTATGTGCAGGCT
Found at i:13281478 original size:101 final size:99
Alignment explanation
Indices: 13281343--13281589 Score: 298
Period size: 101 Copynumber: 2.5 Consensus size: 99
13281333 AAAGTGTTGG
* *
13281343 TCACGTGTGTAGTACTATGTGTAGGTTACTACGTGTACTGGAATGAAAGGTCACATATGCAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACT-GAATGAAAGGTCACATATGCAGTAC
* * *
13281408 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 TATGTGCAGGCTACTACGCGAACCGGAAAG-TTCGA
* * * * * * *
13281444 TCACGTGTGTAGTACTATGTGCAGGCTGCTACGTGTATCTGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CTGA-ATGAAAGGTCACATATGCAGTA
* *
13281509 CTATGTGCAGGCTACTACGTGAACCGGAAAGTTTGA
64 CTATGTGCAGGCTACTACGCGAACCGGAAAGTTCGA
* *
13281545 TCACGTGTGTAGTACTATATGAATGCTACTACGTGTA-TCGAATGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACT-GAATGA
13281590 TAATAGTTAA
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
99 4 0.03
100 2 0.02
101 73 0.58
102 46 0.37
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (99 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACTGAATGAAAGGTCACATATGCAGTACT
ATGTGCAGGCTACTACGCGAACCGGAAAGTTCGA
Found at i:13281611 original size:101 final size:102
Alignment explanation
Indices: 13281343--13281618 Score: 269
Period size: 101 Copynumber: 2.7 Consensus size: 102
13281333 AAAGTGTTGG
* * * * * *
13281343 TCACGTGTGTAGTACTATGTGTAGGTTACTACGTGTA-CTGGA-ATGAA-AGGTCACAT-ATGCA
1 TCACGTGTGTAGTACTATATGAAGGCTACTACGTGTATCT-GATATTAATA-GTCAAATGA-GTA
* * *
13281404 GTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
63 GTACTATGTGCAGGCTACTACGCGAACCGGAAAGCTTCGA
* * * * ** *
13281444 TCACGTGTGTAGTACTATGTGCAGGCTGCTACGTGTATCTGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATATGAAGGCTACTACGTGTATCTGATATTAATAGTCAAATGAGTAGTA
* *
13281509 CTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGA
66 CTATGTGCAGGCTACTACGCGAACCGGAAAGCTTCGA
* * *
13281545 TCACGTGTGTAGTACTATATGAATGCTACTACGTGTATC-GA-ATGATAATAGTTAAATGAGTGG
1 TCACGTGTGTAGTACTATATGAAGGCTACTACGTGTATCTGATAT--TAATAGTCAAATGAGTAG
13281608 TACTATGTGCA
64 TACTATGTGCA
13281619 AACCACCGAA
Statistics
Matches: 146, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
99 2 0.01
100 2 0.01
101 98 0.67
102 44 0.30
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATATGAAGGCTACTACGTGTATCTGATATTAATAGTCAAATGAGTAGTA
CTATGTGCAGGCTACTACGCGAACCGGAAAGCTTCGA
Found at i:13283465 original size:85 final size:85
Alignment explanation
Indices: 13283322--13283492 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
13283312 AGTGTGAATG
* *
13283322 ATTTCCTGACTTTGTCCAAGTTTCGAACTGGCTGATGTCACTATAATCAAGGGAAAATACAAATG
1 ATTTCCTGACTTTGTCCAAGTTTCGAACTGGCTGATATCACTATAATCAAGGGAAAATACAAACG
13283387 AGTAAGCATATAGCTTAGTA
66 AGTAAGCATATAGCTTAGTA
13283407 ATTTCCTGACTTTGTCCAAGTTTCGAACTGGCTGATATCACTATAATCAAGGGAAAATACAAACG
1 ATTTCCTGACTTTGTCCAAGTTTCGAACTGGCTGATATCACTATAATCAAGGGAAAATACAAACG
13283472 AGTAAGCATATAGCTTAGTA
66 AGTAAGCATATAGCTTAGTA
13283492 A
1 A
13283493 GTAAACATAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (85 bp):
ATTTCCTGACTTTGTCCAAGTTTCGAACTGGCTGATATCACTATAATCAAGGGAAAATACAAACG
AGTAAGCATATAGCTTAGTA
Found at i:13299637 original size:24 final size:26
Alignment explanation
Indices: 13299610--13299660 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
13299600 CTTTAAAAAT
13299610 ATATTT-AT-ATTATTTTTTAATTTA
1 ATATTTAATAATTATTTTTTAATTTA
*
13299634 ATATTTAATAAATTATTTTTTTATTTA
1 ATATTTAAT-AATTATTTTTTAATTTA
13299661 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 2 0.09
27 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
ATATTTAATAATTATTTTTTAATTTA
Found at i:13301057 original size:2 final size:2
Alignment explanation
Indices: 13301050--13301076 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13301040 CAAAGCCTTC
13301050 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
13301077 TTCTAACATT
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:13305081 original size:2 final size:2
Alignment explanation
Indices: 13305039--13305069 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13305029 GTAAAGGATA
13305039 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
13305070 GAAACCTATA
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:13313611 original size:20 final size:20
Alignment explanation
Indices: 13313586--13313624 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13313576 ATAGTTGAAC
13313586 AGAGAAAAAGAAAAAGAAAA
1 AGAGAAAAAGAAAAAGAAAA
* *
13313606 AGAGAAAAATAAAATGAAA
1 AGAGAAAAAGAAAAAGAAA
13313625 TCCCCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (20 bp):
AGAGAAAAAGAAAAAGAAAA
Found at i:13319136 original size:22 final size:22
Alignment explanation
Indices: 13319106--13319148 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13319096 ACACCAAAAC
*
13319106 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
13319128 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
13319149 AGCGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:13319309 original size:42 final size:43
Alignment explanation
Indices: 13319218--13319310 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
13319208 TGTTGGTCTA
*
13319218 TAGCGGCGCTTATAACAAAAACGCCGCTGAAGAATAGGAGCTT
1 TAGCGGCGCTTATAACAAAAACGCCGCTGAAGAATAAGAGCTT
* * * * * *
13319261 TTGCGGCGCTT-TAATAGAAGCGCCGCTGAAGACTAATA-CATT
1 TAGCGGCGCTTATAACAAAAACGCCGCTGAAGAATAAGAGC-TT
13319303 TAGCGGCG
1 TAGCGGCG
13319311 TTTTTNNNNN
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.02
42 30 0.73
43 10 0.24
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (43 bp):
TAGCGGCGCTTATAACAAAAACGCCGCTGAAGAATAAGAGCTT
Found at i:13334933 original size:82 final size:82
Alignment explanation
Indices: 13334343--13334929 Score: 1147
Period size: 82 Copynumber: 7.2 Consensus size: 82
13334333 CAGTAAACCC
13334343 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
1 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
13334408 ATATTTGCGGCGTTTTA
66 ATATTTGCGGCGTTTTA
13334425 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
1 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
13334490 ATATTTGCGGCGTTTTA
66 ATATTTGCGGCGTTTTA
13334507 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
1 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
13334572 ATATTTGCGGCGTTTTA
66 ATATTTGCGGCGTTTTA
13334589 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
1 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
13334654 ATATTTGCGGCGTTTTA
66 ATATTTGCGGCGTTTTA
13334671 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
1 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
13334736 ATATTTGCGGCGTTTTA
66 ATATTTGCGGCGTTTTA
13334753 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
1 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
13334818 ATATTTGCGGCGTTTTA
66 ATATTTGCGGCGTTTTA
* *
13334835 CCTTAAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGAC
1 CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
*
13334900 ATATTTGCGGCGTTTTC
66 ATATTTGCGGCGTTTTA
13334917 CCTTAAAACGCCA
1 CCTTAAAACGCCA
13334930 CTAATAGAGT
Statistics
Matches: 502, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 502 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (82 bp):
CCTTAAAACGCCATTAAATTTTCAATTACAGAAAGAAACAGTGACGTTTTCACAAAATTGTAGAC
ATATTTGCGGCGTTTTA
Found at i:13335157 original size:41 final size:40
Alignment explanation
Indices: 13335073--13335185 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
13335063 AACACGAACT
*
13335073 TTAGCGGCGCTTAGAAAAAATGCCGCTAAAGAACAGAGAA
1 TTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACAGAGAA
* * * * *
13335113 TTAGTGGCGCTCAGATAAAAACGCCACTAATGATAC-GAGTA
1 TTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGA-ACAGAGAA
13335154 TTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTAGA-AAAAACGCCGCTAAAG
13335186 GTTTAAAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 13 0.22
41 45 0.75
42 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (40 bp):
TTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACAGAGAA
Found at i:13336577 original size:75 final size:75
Alignment explanation
Indices: 13336454--13336603 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
13336444 GGTTACCCTA
13336454 CTAAATAAATAAATGCGATGATGATGGTAAATAGTAGCTTAGTTAGGAAGAAGATTAGAGTGTGT
1 CTAAATAAATAAATGCGATGATGATGGTAAATAGTAGCTTAGTTAGGAAGAAGATTAGAGTGTGT
13336519 GTGTGTGTAT
66 GTGTGTGTAT
*
13336529 CTAAATAAATAAATGCGATGATGATGGTAAATAGTAGCTTAGTTAGGAAGAAGATTAGTGTGTGT
1 CTAAATAAATAAATGCGATGATGATGGTAAATAGTAGCTTAGTTAGGAAGAAGATTAGAGTGTGT
13336594 GTGTGTGTAT
66 GTGTGTGTAT
13336604 AAAATAATGG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (75 bp):
CTAAATAAATAAATGCGATGATGATGGTAAATAGTAGCTTAGTTAGGAAGAAGATTAGAGTGTGT
GTGTGTGTAT
Found at i:13340881 original size:36 final size:35
Alignment explanation
Indices: 13340841--13340912 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 35
13340831 CATCTCCGGA
13340841 GCTTGGCAAATA-AGGAAAGTGATCTTTTGAAGATAT
1 GCTTGGCAAATATA-GAAAGTGATCTTTTG-AGATAT
*
13340877 GCTTGGCAAATATAGAATGTGATCTTTTGAGATAT
1 GCTTGGCAAATATAGAAAGTGATCTTTTGAGATAT
13340912 G
1 G
13340913 TGATCCTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 7 0.21
36 26 0.76
37 1 0.03
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (35 bp):
GCTTGGCAAATATAGAAAGTGATCTTTTGAGATAT
Found at i:13341281 original size:48 final size:48
Alignment explanation
Indices: 13341210--13341304 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
13341200 TAAGGGAATT
**
13341210 CTGTTGAATCCTTTATTGTTGCAAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
*
13341258 CTGTTGAATCCTTTATTACTGCAAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTT
13341305 GAGCAAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:13346125 original size:61 final size:61
Alignment explanation
Indices: 13346057--13346181 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
13346047 ATCTATCCTG
*
13346057 TGTAGAAAATCTTTATGGTCATTCAGTGGGCATACAGCCCTCCCTGCATGCTAACTTTACC
1 TGTAGAAAATCTTTATGGTCACTCAGTGGGCATACAGCCCTCCCTGCATGCTAACTTTACC
13346118 TGTAGAAAATCTTTATGGTCACTCAGTGGGCATACAGCCCTCCCTGCATGCTAACTTTACC
1 TGTAGAAAATCTTTATGGTCACTCAGTGGGCATACAGCCCTCCCTGCATGCTAACTTTACC
13346179 TGT
1 TGT
13346182 GCTCATCAGC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (61 bp):
TGTAGAAAATCTTTATGGTCACTCAGTGGGCATACAGCCCTCCCTGCATGCTAACTTTACC
Found at i:13350912 original size:3 final size:3
Alignment explanation
Indices: 13350904--13350952 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
13350894 CCCGGCGAGT
13350904 GAA GAA GAA GAA -AGA GAA -AGA GAA GAA -AA GAA G-A GAA GAA GAA
1 GAA GAA GAA GAA GA-A GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA
13350947 GAA GAA
1 GAA GAA
13350953 TGAGAAGGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
2 6 0.15
3 32 0.80
4 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13362126 original size:36 final size:36
Alignment explanation
Indices: 13362068--13362154 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
13362058 GGGGACATCC
* * * * *
13362068 AGGATATCCACCACATGGAGGACATCTTACTCCTGG
1 AGGATATCCCCCTCATGGAGGACACCATACACCTGG
* * *
13362104 AGGGTATCCCCCTCATGTAGGACACCATCCACCTGG
1 AGGATATCCCCCTCATGGAGGACACCATACACCTGG
13362140 AGGATATCCCCCTCA
1 AGGATATCCCCCTCA
13362155 GGGTTATCCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
AGGATATCCCCCTCATGGAGGACACCATACACCTGG
Found at i:13364154 original size:32 final size:32
Alignment explanation
Indices: 13364110--13364170 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
13364100 AAACAATTTA
*
13364110 ACAGAAATTGATTATA-GCACACCTCACTTATC
1 ACAGAAAATGATTA-AGGCACACCTCACTTATC
*
13364142 ACAGAAAATGATTAAGGCACGCCTCACTT
1 ACAGAAAATGATTAAGGCACACCTCACTT
13364171 TGTCACGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (32 bp):
ACAGAAAATGATTAAGGCACACCTCACTTATC
Found at i:13370316 original size:6 final size:6
Alignment explanation
Indices: 13370305--13370352 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
13370295 TTGAAACTCG
* * *
13370305 GTCACT GTCACT GTCACT GTCACA GTCACA GTCACC GTCACT GTCACT
1 GTCACT GTCACT GTCACT GTCACT GTCACT GTCACT GTCACT GTCACT
13370353 CTCTCTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.27
Consensus pattern (6 bp):
GTCACT
Found at i:13383553 original size:15 final size:14
Alignment explanation
Indices: 13383506--13383558 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
13383496 TTATTGATAA
13383506 ATTAAAAAATTAAGT
1 ATTAAAAAA-TAAGT
* *
13383521 ACTAAAAATATAAAT
1 ATTAAAAA-ATAAGT
13383536 ATTAGAAAAATAAGT
1 ATTA-AAAAATAAGT
13383551 ATTGAAAA
1 ATT-AAAA
13383559 GTTAAGTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 25 0.81
16 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (14 bp):
ATTAAAAAATAAGT
Found at i:13385461 original size:14 final size:15
Alignment explanation
Indices: 13385434--13385464 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
13385424 AAAGGGGAGG
13385434 AAGAAATGAAAAATA
1 AAGAAATGAAAAATA
13385449 AAGAAAT-AAAAATA
1 AAGAAATGAAAAATA
13385463 AA
1 AA
13385465 AAAGATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AAGAAATGAAAAATA
Found at i:13389811 original size:19 final size:20
Alignment explanation
Indices: 13389787--13389839 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
13389777 AATTTAAGTT
*
13389787 TATTTTAAATATTATA-TTA
1 TATTTTAAATATTATACTGA
*
13389806 TATTTTTAAT-TTATACTGA
1 TATTTTAAATATTATACTGA
*
13389825 TAATTTTAAAAATTA
1 T-ATTTTAAATATTA
13389840 AACATTGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.19
19 12 0.44
20 7 0.26
21 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTTTAAATATTATACTGA
Found at i:13390553 original size:130 final size:131
Alignment explanation
Indices: 13390408--13390669 Score: 517
Period size: 130 Copynumber: 2.0 Consensus size: 131
13390398 CGGGCCGGGT
13390408 CGAGCTGGGTTGGGCCCGGGCCAAAAAAGTGGTACTCGAGGCCCGGCCTATTTTCCTAAACAGGC
1 CGAGCTGGGTTGGGCCCGGGCCAAAAAAGTGGTACTCGAGGCCCGGCCTATTTTCCTAAACAGGC
13390473 CTCGTTTTTTTGCACAAACCCATATTTTGGGCCTATATTTTTACCTAAACCCTCCC-TATTTTGG
66 CTCGTTTTTTTGCACAAACCCATATTTTGGGCCTATATTTTTACCTAAACCCTCCCATATTTTGG
13390537 A
131 A
13390538 CGAGCTGGGTTGGGCCCGGGCCAAAAAAGTGGTACTCGAGGCCCGGCCTATTTTCCTAAACAGGC
1 CGAGCTGGGTTGGGCCCGGGCCAAAAAAGTGGTACTCGAGGCCCGGCCTATTTTCCTAAACAGGC
13390603 CTCGTTTTTTTGCACAAACCCATATTTTGGGCCTATATTTTTACCTAAACCCTCCCATATTTTGG
66 CTCGTTTTTTTGCACAAACCCATATTTTGGGCCTATATTTTTACCTAAACCCTCCCATATTTTGG
13390668 A
131 A
13390669 C
1 C
13390670 CAGGCCGGGC
Statistics
Matches: 131, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 121 0.92
131 10 0.08
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (131 bp):
CGAGCTGGGTTGGGCCCGGGCCAAAAAAGTGGTACTCGAGGCCCGGCCTATTTTCCTAAACAGGC
CTCGTTTTTTTGCACAAACCCATATTTTGGGCCTATATTTTTACCTAAACCCTCCCATATTTTGG
A
Found at i:13390991 original size:6 final size:6
Alignment explanation
Indices: 13390980--13391011 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
13390970 AATGCCCAAT
13390980 CCTAAG CCTAAG CCTAAG CCTAAG CCTAAG CC
1 CCTAAG CCTAAG CCTAAG CCTAAG CCTAAG CC
13391012 ATTTCCTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.38, G:0.16, T:0.16
Consensus pattern (6 bp):
CCTAAG
Found at i:13395695 original size:17 final size:19
Alignment explanation
Indices: 13395659--13395698 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
13395649 GTAAAAAACA
*
13395659 TTTACTTCATCTTTTTTAT
1 TTTACTTCATCTTTTCTAT
13395678 TTTA-TTCAT-TTTTCTAT
1 TTTACTTCATCTTTTCTAT
13395695 TTTA
1 TTTA
13395699 ATTAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTACTTCATCTTTTCTAT
Found at i:13396268 original size:38 final size:38
Alignment explanation
Indices: 13396217--13396326 Score: 186
Period size: 38 Copynumber: 2.9 Consensus size: 38
13396207 TCTATTATTA
*
13396217 GACCCTATACTTTATGTAAGTTGTGAATTTAGTAATTT
1 GACCCTATACTTTATGTAAGTTGTGGATTTAGTAATTT
13396255 GACCCTATACTTTACT-TAAGTTGTGGATTTAGTAATTT
1 GACCCTATACTTTA-TGTAAGTTGTGGATTTAGTAATTT
*
13396293 GACCCTATACTTTACGTAAGTTGTGGATTTAGTA
1 GACCCTATACTTTATGTAAGTTGTGGATTTAGTA
13396327 TCTGTATTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 67 0.99
39 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (38 bp):
GACCCTATACTTTATGTAAGTTGTGGATTTAGTAATTT
Found at i:13397185 original size:14 final size:16
Alignment explanation
Indices: 13397141--13397199 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
13397131 NNNNNNNNNN
13397141 AAAAATT-AA-AT-AT
1 AAAAATTAAAGATAAT
*
13397154 AAAAATTGAAGATAAT
1 AAAAATTAAAGATAAT
13397170 AAAAA-TAAAG-TAAT
1 AAAAATTAAAGATAAT
*
13397184 AACTAATTAAAGATAA
1 AA-AAATTAAAGATAA
13397200 AATATTTCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 7 0.18
14 8 0.21
15 8 0.21
16 12 0.32
17 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (16 bp):
AAAAATTAAAGATAAT
Found at i:13397368 original size:58 final size:60
Alignment explanation
Indices: 13397296--13397413 Score: 213
Period size: 58 Copynumber: 2.0 Consensus size: 60
13397286 TAGAGAGTAA
13397296 GTGATTTTTATTTATTTATAAAATCTTGTTTTTAATACTTAACAAATGAAATTCAAAAGG
1 GTGATTTTTATTTATTTATAAAATCTTGTTTTTAATACTTAACAAATGAAATTCAAAAGG
*
13397356 GTGA-TTTT-TTTATTTATAAAATCTTGTTTTTCATACTTAACAAATGAAATTCAAAAGG
1 GTGATTTTTATTTATTTATAAAATCTTGTTTTTAATACTTAACAAATGAAATTCAAAAGG
13397414 TAATATTTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 49 0.86
59 4 0.07
60 4 0.07
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (60 bp):
GTGATTTTTATTTATTTATAAAATCTTGTTTTTAATACTTAACAAATGAAATTCAAAAGG
Found at i:13401827 original size:21 final size:21
Alignment explanation
Indices: 13401803--13401846 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
13401793 AAATTAAGTT
*
13401803 ATATGATATTTAAATAATTTA
1 ATATAATATTTAAATAATTTA
* * *
13401824 ATATAATTTTTATATATTTTA
1 ATATAATATTTAAATAATTTA
13401845 AT
1 AT
13401847 TTAAATCTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATATAATATTTAAATAATTTA
Found at i:13414459 original size:2 final size:2
Alignment explanation
Indices: 13414454--13414479 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13414444 ATCATTTTTA
13414454 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
13414480 TTAACAACTA
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:13414802 original size:15 final size:16
Alignment explanation
Indices: 13414782--13414811 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13414772 GTAATTTCTC
13414782 TATTTTTT-TATTTTT
1 TATTTTTTGTATTTTT
13414797 TATTTTTTGTATTTT
1 TATTTTTTGTATTTT
13414812 AGATCATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TATTTTTTGTATTTTT
Found at i:13422462 original size:40 final size:40
Alignment explanation
Indices: 13422364--13422532 Score: 279
Period size: 40 Copynumber: 4.2 Consensus size: 40
13422354 ATCACCAGCA
13422364 CTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGC
1 CTGCTAGGTTTATAACCTGATTCAGATCACCGGCAC-TAGC
*
13422405 CAGCTAGGTTTATAACCTGATTCAGATCACCGGCACTA-C
1 CTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTAGC
13422444 CTTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTAGC
1 C-TGCTAGGTTTATAACCTGATTCAGATCACCGGCACTAGC
13422485 CTGCTAGGTTTATAACCTGATTTC-GATCACCGGCACTTAGC
1 CTGCTAGGTTTATAACCTGA-TTCAGATCACCGGCAC-TAGC
13422526 CTGCTAG
1 CTGCTAG
13422533 ACATAAAGTC
Statistics
Matches: 122, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
39 2 0.02
40 69 0.57
41 51 0.42
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (40 bp):
CTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTAGC
Found at i:13422479 original size:81 final size:80
Alignment explanation
Indices: 13422365--13422521 Score: 280
Period size: 81 Copynumber: 1.9 Consensus size: 80
13422355 TCACCAGCAC
13422365 TGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCAGCTAGGTTTATAACCTGA-TTCA
1 TGCTAGGTTTATAACCTGATTCAGATCACCGGCAC-TAGCCAGCTAGGTTTATAACCTGATTTC-
13422429 GATCACCGGCACTACCT
64 GATCACCGGCACTACCT
*
13422446 TGCTAGGTTTATAACCTGATTCAGATCACCGGCACTAGCCTGCTAGGTTTATAACCTGATTTCGA
1 TGCTAGGTTTATAACCTGATTCAGATCACCGGCACTAGCCAGCTAGGTTTATAACCTGATTTCGA
13422511 TCACCGGCACT
66 TCACCGGCACT
13422522 TAGCCTGCTA
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
80 36 0.49
81 38 0.51
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (80 bp):
TGCTAGGTTTATAACCTGATTCAGATCACCGGCACTAGCCAGCTAGGTTTATAACCTGATTTCGA
TCACCGGCACTACCT
Found at i:13426923 original size:42 final size:43
Alignment explanation
Indices: 13426781--13426931 Score: 134
Period size: 42 Copynumber: 3.6 Consensus size: 43
13426771 TATTCATTAC
* * * *
13426781 TCGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAAT
* * * *
13426823 ACGG-GGAATCAACACATAGCAACC-CCTTTCACAATCAA-AGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCTTT-AAAATCAATA-AT
* * *
13426865 AT-GGTGGAGTCAGCACTTAGCAACCACCTTTAGAGTCAATAAT
1 -TCGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAAT
13426908 TCGG-GGAATCAGCACTTAGCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
13426932 CTTCGGGGAA
Statistics
Matches: 86, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
40 2 0.02
41 19 0.22
42 32 0.37
43 27 0.31
44 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
TCGGTGGAATCAGCACTTAGCAACCACCTTTAAAATCAATAAT
Found at i:13426936 original size:26 final size:26
Alignment explanation
Indices: 13426907--13426958 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
13426897 GAGTCAATAA
13426907 TTCGGGGAATCAGCACTTAGCAACCC
1 TTCGGGGAATCAGCACTTAGCAACCC
** *
13426933 TTCGGGGAATTTGCACTTAGCGACCC
1 TTCGGGGAATCAGCACTTAGCAACCC
13426959 CTTTTTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (26 bp):
TTCGGGGAATCAGCACTTAGCAACCC
Found at i:13443915 original size:13 final size:13
Alignment explanation
Indices: 13443897--13443921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13443887 CAATCAAATG
13443897 CACACAAAATAAA
1 CACACAAAATAAA
13443910 CACACAAAATAA
1 CACACAAAATAA
13443922 TATTAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:13446074 original size:76 final size:76
Alignment explanation
Indices: 13445945--13446089 Score: 245
Period size: 76 Copynumber: 1.9 Consensus size: 76
13445935 AATATAGGCA
*
13445945 TTTATGCTTTGTTTTTAATTAATTCAGTATTCATAAATAATAGAATAAATTTGATGCATATTGTA
1 TTTATGCTTTATTTTTAATTAATTCAGTATTCATAAATAATAGAATAAATTTGATGCATATTGTA
13446010 ATTGTCTTGGC
66 ATTGTCTTGGC
* * * *
13446021 TTTATGCTTTATTTTTAATTAATTCAGTGTTCATCAATAATAGAATAACTTTGATGTATATTGTA
1 TTTATGCTTTATTTTTAATTAATTCAGTATTCATAAATAATAGAATAAATTTGATGCATATTGTA
13446086 ATTG
66 ATTG
13446090 CCAAGGGTGG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (76 bp):
TTTATGCTTTATTTTTAATTAATTCAGTATTCATAAATAATAGAATAAATTTGATGCATATTGTA
ATTGTCTTGGC
Found at i:13458121 original size:84 final size:84
Alignment explanation
Indices: 13458019--13458189 Score: 315
Period size: 84 Copynumber: 2.0 Consensus size: 84
13458009 ATAACCATAA
* * *
13458019 AACACGCTATATGAGCATAATATATAGTACCAGGTCCAGAAGAGAATGAGCTGGTTTAACAATTT
1 AACACACTATATGAGCATAAAATATAGTACCAGGTCCAGAAGAGAATAAGCTGGTTTAACAATTT
13458084 ATGAGTTCATTCTTCTTTT
66 ATGAGTTCATTCTTCTTTT
13458103 AACACACTATATGAGCATAAAATATAGTACCAGGTCCAGAAGAGAATAAGCTGGTTTAACAATTT
1 AACACACTATATGAGCATAAAATATAGTACCAGGTCCAGAAGAGAATAAGCTGGTTTAACAATTT
13458168 ATGAGTTCATTCTTCTTTT
66 ATGAGTTCATTCTTCTTTT
13458187 AAC
1 AAC
13458190 TTGGGGAAGC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (84 bp):
AACACACTATATGAGCATAAAATATAGTACCAGGTCCAGAAGAGAATAAGCTGGTTTAACAATTT
ATGAGTTCATTCTTCTTTT
Found at i:13458816 original size:18 final size:18
Alignment explanation
Indices: 13458795--13458834 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
13458785 AACACTAGGA
*
13458795 AAGACAATCAGTATAAGC
1 AAGACAATCAATATAAGC
13458813 AAGACAATCAATATAAGC
1 AAGACAATCAATATAAGC
13458831 AAGA
1 AAGA
13458835 GTTACCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (18 bp):
AAGACAATCAATATAAGC
Found at i:13466158 original size:12 final size:13
Alignment explanation
Indices: 13466131--13466163 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
13466121 TCAATTTCTA
*
13466131 ATAAAATACTATG
1 ATAAAATTCTATG
13466144 ATAAAATTC-ATG
1 ATAAAATTCTATG
13466156 ATAAAATT
1 ATAAAATT
13466164 TCATCACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (13 bp):
ATAAAATTCTATG
Found at i:13471730 original size:11 final size:11
Alignment explanation
Indices: 13471711--13471744 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13471701 TCAACATATA
13471711 ATACTAGAATT
1 ATACTAGAATT
*
13471722 ATTCTAGAATAT
1 ATACTAGAAT-T
13471734 ATACTAGAATT
1 ATACTAGAATT
13471745 TTGTCTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (11 bp):
ATACTAGAATT
Found at i:13471742 original size:12 final size:12
Alignment explanation
Indices: 13471706--13471743 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13471696 TTCCTTCAAC
13471706 ATATAATACTAGA
1 ATAT-ATACTAGA
*
13471719 AT-TATTCTAGA
1 ATATATACTAGA
13471730 ATATATACTAGA
1 ATATATACTAGA
13471742 AT
1 AT
13471744 TTTGTCTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 9 0.41
12 11 0.50
13 2 0.09
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (12 bp):
ATATATACTAGA
Found at i:13473716 original size:3 final size:3
Alignment explanation
Indices: 13473708--13473742 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
13473698 CTGAGGTGTT
13473708 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13473743 CTACAGAAAC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13474688 original size:6 final size:6
Alignment explanation
Indices: 13474677--13474706 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13474667 AGCAGACATT
13474677 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG
1 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG
13474707 AAGTTCGTTA
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:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (6 bp):
TTTTGG
Found at i:13483432 original size:41 final size:41
Alignment explanation
Indices: 13483330--13483435 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
13483320 ACTGGCAATT
* * *
13483330 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
13483371 AGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
13483412 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
13483436 TTATCTCATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:13484384 original size:41 final size:41
Alignment explanation
Indices: 13484282--13484387 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
13484272 ACTGGCAATT
* * *
13484282 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
13484323 AGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
13484364 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
13484388 TTATCTCATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:13484839 original size:929 final size:927
Alignment explanation
Indices: 13483042--13484918 Score: 3462
Period size: 929 Copynumber: 2.0 Consensus size: 927
13483032 ATATATCGAT
13483042 CATA-AACTTTTAACCTAACTCATATTTATGCCTATAACCGAATACATTCGCATTCAACTTTTAC
1 CATATAACTTTTAACCTAACTCATATTTATGCCTATAACCGAATACATTCGCATTCAACTTTTAC
13483106 TTATAAACAAATATTTACACATATATGTATTAGCAATTGCACATAAGATTACTCATCAGTTTCTT
66 TTATAAACAAATATTTACACATATATGTATTAGCAATTGCACATAAGATTACTCATCAGTTTCTT
13483171 ATACCAAATGCACCCATAAAAATATATATATCAACCACCTATGTCGAGTTTATGCACAACATCTT
131 ATACCAAATGCACCCATAAAAATATATATATCAACCACCTATGTCGAGTTTATGCACAACATCTT
13483236 CAAACACATAAATCTGAACAATTCACACAATTTCAACAGATTCACCGGCACTTAGCCTGCTAGGC
196 CAAACACATAAATCTGAACAATTCACACAATTTCAACAGATTCACCGGCACTTAGCCTGCTAGGC
13483301 TTAAAACCTGATTCAATACACTGGCAATTAGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGG
261 TTAAAACCTGATTCAATACACTGGCAATTAGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGG
13483366 CGTCAAGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCAAGCCTGCTAGACGTAAAGT
326 CGTCAAGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCAAGCCTGCTAGACGTAAAGT
13483431 CTGAATTATCTCATTGACAATAATCATTTTAGGCCCCAAGCTCAAACACTCAATTCACCCAAATA
391 CTGAATTATCTCATTGACAATAATCATTTTAGGCCCCAAGCTCAAACACTCAATTCACCCAAATA
13483496 TTACTCATTTTCGAACTATATAGGTATATAAATTCCATGCTTAAATATTCAGCTCGAAACTCAAA
456 TTACTCATTTTCGAACTATATAGGTATATAAATTCCATGCTTAAATATTCAGCTCGAAACTC--A
13483561 ATTTATATCATAGAAACACACGAATATATATATAAAACTCAACCACCAAATCCAATTTGACAATT
519 A--TATA-CAT------------ATATATATATAAAACTCAACCACCAAATCCAATTTGACAATT
13483626 CAATAAATCAACTGAACATATTTATGCATAACCTTATACTTCAAATCCTACTACAAATATAATAC
569 CAATAAATCAACTGAACATATTTATGCATAACCTTATACTTCAAATCCTACTACAAATATAATAC
*
13483691 TATTTAACTAAAAATATTCTTGAATAATATACACTTTACATTCCAACATATTAAAGTTTTACACA
634 TATTTAACTAAAAATATTCTTGAATAATATACACTTTACATTCCAACATATTAAAATTTTACACA
*
13483756 CATATATATACATGATCAAAACTAACATGTGCAAATATCATCTAATAACAAATTTCAAAACTAAA
699 CATATATATACATGATCAAAACTAACATATGCAAATATCATCTAATAACAAATTTCAAAACTAAA
13483821 TCTTATACATGCATACATATACACTCAAACCGCATATACTTTTATAATGACACATCTTAATTCGA
764 TCTTATACATGCATACATATACACTCAAACCGCATATACTTTTATAATGACACATCTTAATTCGA
13483886 TTCAAAAGTGTATATATACATGTATATTTACATGTTTAATAATAAAACTCTTATATCTATGTATA
829 TTCAAAAGTGTATATATACATGTATATTTACATGTTTAATAATAAAACTCTTATATCTATGTATA
13483951 TTTACGAATCTCTAAGTACACATATATACATATA
894 TTTACGAATCTCTAAGTACACATATATACATATA
13483985 CATATAACTTTTAACCTAACTCATATTTATGCCTATAACCGAATACATTCGCATTCAACTTTTAC
1 CATATAACTTTTAACCTAACTCATATTTATGCCTATAACCGAATACATTCGCATTCAACTTTTAC
13484050 TTATAAACAAATATTTACACATATATGTATTAGCAATTGCACATAAGATTACTCATCAGTTTCTT
66 TTATAAACAAATATTTACACATATATGTATTAGCAATTGCACATAAGATTACTCATCAGTTTCTT
13484115 ATACCAAATGCACCCATAAAAAAAAATATATATATATATCAACCACCTATGTCGAGTTTATGCAC
131 ATACCAAATGCACCCAT------AAA-A-ATATATATATCAACCACCTATGTCGAGTTTATGCAC
13484180 AACATCTTCAAACACATAAATCTGAACAATTCACACAATTTCAACAGATTCACCGGCACTTAGCC
188 AACATCTTCAAACACATAAATCTGAACAATTCACACAATTTCAACAGATTCACCGGCACTTAGCC
13484245 TGCTAGGCTTAAAACCTGATTCAATACACTGGCAATTAGCCTGCTAGACGTAAAGTCCGAAATAT
253 TGCTAGGCTTAAAACCTGATTCAATACACTGGCAATTAGCCTGCTAGACGTAAAGTCCGAAATAT
13484310 TTCACCGGCGTCAAGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCAAGCCTGCTAGA
318 TTCACCGGCGTCAAGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCAAGCCTGCTAGA
13484375 CGTAAAGTCTGAATTATCTCATTGACAATAATCATTTTAGGCCCCAAGCTCAAACACTCAATTCA
383 CGTAAAGTCTGAATTATCTCATTGACAATAATCATTTTAGGCCCCAAGCTCAAACACTCAATTCA
13484440 CCCAAATATTACTCATTTTCGAACTATATAGGTATATAAATTCCATGCTTAAATATTCAGCTCGA
448 CCCAAATATTACTCATTTTCGAACTATATAGGTATATAAATTCCATGCTTAAATATTCAGCTCGA
13484505 AACTC-A-A-A-AT-T-TATATATAAAACTCAACCACCAAATCCAATTTGACAATTCAATAAATC
513 AACTCAATATACATATATATATATAAAACTCAACCACCAAATCCAATTTGACAATTCAATAAATC
13484564 AACTGAACATATTTATGCATAACCTTATACTTCAAATCCTACTACAAATATAATACTATTTAACT
578 AACTGAACATATTTATGCATAACCTTATACTTCAAATCCTACTACAAATATAATACTATTTAACT
13484629 AAAAATATTCTTGAATAATATACACTTTACATTCCAACATATTAAAATTTTACACACATATATAT
643 AAAAATATTCTTGAATAATATACACTTTACATTCCAACATATTAAAATTTTACACACATATATAT
13484694 ACATGATCAAAACTAACATATGCAAATATCATCTAATAACAAATTTCAAAACTAAATCTTATACA
708 ACATGATCAAAACTAACATATGCAAATATCATCTAATAACAAATTTCAAAACTAAATCTTATACA
13484759 TGCATACATATACACTCAAACCGCATATACTTTTATAATGACACATCTTAATTCGATTCAAAAGT
773 TGCATACATATACACTCAAACCGCATATACTTTTATAATGACACATCTTAATTCGATTCAAAAGT
13484824 GTATATATACATGTATATTTACATGTTTAATAATAAAACTCTTATATCTATGTATATTTACGAAT
838 GTATATATACATGTATATTTACATGTTTAATAATAAAACTCTTATATCTATGTATATTTACGAAT
13484889 CTCTAAGTACACATATATACATATA
903 CTCTAAGTACACATATATACATATA
13484914 CATAT
1 CATAT
13484919 CTTTGATTAA
Statistics
Matches: 923, Mismatches: 2, Indels: 32
0.96 0.00 0.03
Matches are distributed among these distances:
929 401 0.43
930 1 0.00
943 6 0.01
944 142 0.15
945 1 0.00
946 1 0.00
949 1 0.00
950 3 0.00
951 1 0.00
952 366 0.40
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (927 bp):
CATATAACTTTTAACCTAACTCATATTTATGCCTATAACCGAATACATTCGCATTCAACTTTTAC
TTATAAACAAATATTTACACATATATGTATTAGCAATTGCACATAAGATTACTCATCAGTTTCTT
ATACCAAATGCACCCATAAAAATATATATATCAACCACCTATGTCGAGTTTATGCACAACATCTT
CAAACACATAAATCTGAACAATTCACACAATTTCAACAGATTCACCGGCACTTAGCCTGCTAGGC
TTAAAACCTGATTCAATACACTGGCAATTAGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGG
CGTCAAGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCAAGCCTGCTAGACGTAAAGT
CTGAATTATCTCATTGACAATAATCATTTTAGGCCCCAAGCTCAAACACTCAATTCACCCAAATA
TTACTCATTTTCGAACTATATAGGTATATAAATTCCATGCTTAAATATTCAGCTCGAAACTCAAT
ATACATATATATATATAAAACTCAACCACCAAATCCAATTTGACAATTCAATAAATCAACTGAAC
ATATTTATGCATAACCTTATACTTCAAATCCTACTACAAATATAATACTATTTAACTAAAAATAT
TCTTGAATAATATACACTTTACATTCCAACATATTAAAATTTTACACACATATATATACATGATC
AAAACTAACATATGCAAATATCATCTAATAACAAATTTCAAAACTAAATCTTATACATGCATACA
TATACACTCAAACCGCATATACTTTTATAATGACACATCTTAATTCGATTCAAAAGTGTATATAT
ACATGTATATTTACATGTTTAATAATAAAACTCTTATATCTATGTATATTTACGAATCTCTAAGT
ACACATATATACATATA
Found at i:13486939 original size:12 final size:12
Alignment explanation
Indices: 13486906--13486939 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13486896 CCGCTAACCC
*
13486906 TTGCCACGGCCA
1 TTGCCACTGCCA
13486918 TTGCCACTGCCA
1 TTGCCACTGCCA
*
13486930 TTGCCGCTGC
1 TTGCCACTGC
13486940 TCTACCTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.41, G:0.24, T:0.24
Consensus pattern (12 bp):
TTGCCACTGCCA
Found at i:13490709 original size:16 final size:17
Alignment explanation
Indices: 13490680--13490715 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
13490670 GGAAAGATGG
*
13490680 AAAATTGAAGGGGTAGA
1 AAAATAGAAGGGGTAGA
13490697 AAAATAGAA-GGGTAGA
1 AAAATAGAAGGGGTAGA
13490713 AAA
1 AAA
13490716 TATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.14
Consensus pattern (17 bp):
AAAATAGAAGGGGTAGA
Found at i:13493406 original size:21 final size:21
Alignment explanation
Indices: 13493380--13493421 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13493370 CTATTGCTGT
*
13493380 CCTTATTTTGAGGTCAGAATC
1 CCTTATTTTCAGGTCAGAATC
13493401 CCTTATTTTCAGGTCAGAATC
1 CCTTATTTTCAGGTCAGAATC
13493422 TTTTCTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (21 bp):
CCTTATTTTCAGGTCAGAATC
Found at i:13501396 original size:17 final size:17
Alignment explanation
Indices: 13501370--13501404 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13501360 TTAAACTAAA
*
13501370 TTTAATTTTTAAAAATT
1 TTTAAATTTTAAAAATT
*
13501387 TTTAAATTTTAATAATT
1 TTTAAATTTTAAAAATT
13501404 T
1 T
13501405 ATCCAATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTAAATTTTAAAAATT
Found at i:13509492 original size:30 final size:31
Alignment explanation
Indices: 13509451--13509510 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
13509441 TTAGTGACTT
13509451 AATTATTTAAAAATA-TTATTTAAATTATTA
1 AATTATTTAAAAATATTTATTTAAATTATTA
* *
13509481 AATTGTTTAAAAATATTTTTTTAAATTATT
1 AATTATTTAAAAATATTTATTTAAATTATT
13509511 GAGCTGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (31 bp):
AATTATTTAAAAATATTTATTTAAATTATTA
Found at i:13510814 original size:2 final size:2
Alignment explanation
Indices: 13510807--13510833 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13510797 GTAATAAAAG
13510807 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
13510834 TTGGATTTGA
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:13515996 original size:14 final size:14
Alignment explanation
Indices: 13515977--13516004 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13515967 GTGGAGTTAT
13515977 TGTCCTTACTGTAA
1 TGTCCTTACTGTAA
13515991 TGTCCTTACTGTAA
1 TGTCCTTACTGTAA
13516005 CTTGTTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
TGTCCTTACTGTAA
Found at i:13517262 original size:31 final size:31
Alignment explanation
Indices: 13517213--13517296 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
13517203 AAAATTTTTT
** *
13517213 TAAAAAAACTTAAA-AGTTTAATGACTTAAA
1 TAAAAAATTTTAAATAGTTTAATAACTTAAA
13517243 TAAAAAATTTTAAATAGTTTAATAACTTAAA
1 TAAAAAATTTTAAATAGTTTAATAACTTAAA
** *
13517274 TAAAATTTTTTAAATAATTTAAT
1 TAAAAAATTTTAAATAGTTTAAT
13517297 TATTTAACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 12 0.26
31 35 0.74
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (31 bp):
TAAAAAATTTTAAATAGTTTAATAACTTAAA
Found at i:13518312 original size:2 final size:2
Alignment explanation
Indices: 13518307--13518336 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13518297 TATATATACA
13518307 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
13518337 CATATGCTAT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:13522587 original size:29 final size:29
Alignment explanation
Indices: 13522554--13522614 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
13522544 AATAGTATTC
*
13522554 TTTAAAATTTATCTTGAAATTATCTTTGT
1 TTTAAAATTTATCTTGAAATTATCTTTAT
*
13522583 TTTAAAATTTATTTTGAAATTATCTTTAT
1 TTTAAAATTTATCTTGAAATTATCTTTAT
13522612 TTT
1 TTT
13522615 TACTCTTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTAAAATTTATCTTGAAATTATCTTTAT
Found at i:13522610 original size:17 final size:17
Alignment explanation
Indices: 13522561--13522614 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
13522551 TTCTTTAAAA
*
13522561 TTTATCTTGAAATTATC
1 TTTATTTTGAAATTATC
*
13522578 TTTGTTTT-AAA--A--
1 TTTATTTTGAAATTATC
13522590 TTTATTTTGAAATTATC
1 TTTATTTTGAAATTATC
13522607 TTTATTTT
1 TTTATTTT
13522615 TACTCTTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 1 0.03
15 1 0.03
16 3 0.10
17 14 0.48
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTATTTTGAAATTATC
Found at i:13527927 original size:21 final size:21
Alignment explanation
Indices: 13527903--13527944 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13527893 TAAAAGATAG
13527903 ACATTTACTTTCACAAAAAAA
1 ACATTTACTTTCACAAAAAAA
* *
13527924 ACATTTACTTTTACAATAAAA
1 ACATTTACTTTCACAAAAAAA
13527945 TAAACGAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (21 bp):
ACATTTACTTTCACAAAAAAA
Found at i:13533885 original size:36 final size:36
Alignment explanation
Indices: 13533845--13533915 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
13533835 AGAAGATATA
* * *
13533845 ATTATGGAATCTTATAATTCTAATTGTATATAGCTG
1 ATTATGGAAGCTTAGAATTCTAATTGTATACAGCTG
* *
13533881 ATTATGTAAGCTTAGAGTTCTAATTGTATACAGCT
1 ATTATGGAAGCTTAGAATTCTAATTGTATACAGCT
13533916 TTTAATTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (36 bp):
ATTATGGAAGCTTAGAATTCTAATTGTATACAGCTG
Found at i:13534215 original size:48 final size:48
Alignment explanation
Indices: 13534141--13534235 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
13534131 AAGGGAATTA
** *
13534141 TGTTGAATCCTTTATCGTTGCGAGTTAAGCTGACTTAGGCGTTTTTAC
1 TGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTAC
*
13534189 TGTTGAATCCTTTATCACTGCAAGTTAGGCTGACTTAGGCGTTTTTA
1 TGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
13534236 AGCAAAGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (48 bp):
TGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCGTTTTTAC
Found at i:13535415 original size:21 final size:21
Alignment explanation
Indices: 13535389--13535441 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
13535379 AGCTGTCGCA
*
13535389 CCCAAGCCCAATATTGGTGTT
1 CCCAAGCCCAATATTAGTGTT
13535410 CCCAAGCCCAATATTAGTGTT
1 CCCAAGCCCAATATTAGTGTT
*
13535431 CTCAAGCCCAA
1 CCCAAGCCCAA
13535442 GGAGTTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (21 bp):
CCCAAGCCCAATATTAGTGTT
Found at i:13539753 original size:36 final size:36
Alignment explanation
Indices: 13539713--13539783 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
13539703 AGAAGATATA
* * * *
13539713 ATTATGGAATCTTATAATTCTAATTTTATATAGCTG
1 ATTATGGAAGCTTAGAATTCTAATTGTATACAGCTG
* *
13539749 ATTATGTAAGCTTAGAGTTCTAATTGTATACAGCT
1 ATTATGGAAGCTTAGAATTCTAATTGTATACAGCT
13539784 TTTAATTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (36 bp):
ATTATGGAAGCTTAGAATTCTAATTGTATACAGCTG
Found at i:13540114 original size:48 final size:49
Alignment explanation
Indices: 13540022--13540115 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
13540012 GGGAATTCTG
* * * **
13540022 TTGATTCCTTTATCGTTGCGAGATTAGGCTGACTTAGGTGTTTTTACTA
1 TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTACTA
*
13540071 TTGAATCCGTTATCATTGTGAG-TTAGGCTGACTTAGGCATTTTTA
1 TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTA
13540116 AGCAAAGAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 21 0.54
49 18 0.46
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (49 bp):
TTGAATCCGTTATCATTGCGAGATTAGGCTGACTTAGGCATTTTTACTA
Found at i:13541058 original size:17 final size:19
Alignment explanation
Indices: 13541036--13541070 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
13541026 CTAAAACAAT
13541036 AACAAAT-TTA-ACAATAA
1 AACAAATGTTATACAATAA
13541053 AACAAATGTTATACAATA
1 AACAAATGTTATACAATA
13541071 TACATACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (19 bp):
AACAAATGTTATACAATAA
Found at i:13541802 original size:11 final size:11
Alignment explanation
Indices: 13541752--13541801 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
13541742 AATTTTAAAA
* *
13541752 AAAATAACAAT
1 AAAATAATAGT
13541763 AAAATAATAGT
1 AAAATAATAGT
*
13541774 AATATAATAGT
1 AAAATAATAGT
*
13541785 AAAATAGTAGT
1 AAAATAATAGT
13541796 AAAATA
1 AAAATA
13541802 GGGAAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:13543916 original size:86 final size:85
Alignment explanation
Indices: 13543799--13544044 Score: 279
Period size: 84 Copynumber: 2.9 Consensus size: 85
13543789 TTCAAATGAG
* * * *
13543799 AAACAAAATCAAAATCA-AATAAAATCTGTTAAATGGCGGGAATAAATTCCAAAATAAATTTTAT
1 AAACAAAATCAAAAT-AGAATAAAATCTGTTAAACGACGAGAATAAATTCCGAAATAAATTTTAT
*
13543863 TTAATTTTTAATTCT-CATTCGA
65 TTAA-TTTTAATTCTGAATT-GA
* * *
13543885 AAACAAAATCAAAATGGAATAAAATCTGTTAAGCGTC-ATGAATAAATTCCGAAATAGAA--TTA
1 AAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGA-GAATAAATTCCGAAATA-AATTTTA
*
13543947 TTTAATTTTAATTCTGAATTGG
64 TTTAATTTTAATTCTGAATTGA
* * *
13543969 AAACAAAATCAAAATAGAATAAAATATATTAAACGACGAGAATAAA-TCCTGAAACAAATTTTAT
1 AAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAGAATAAATTCC-GAAATAAATTTTAT
*
13544033 TCAATTTTAATT
65 TTAATTTTAATT
13544045 TTTTATTCTC
Statistics
Matches: 137, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
83 5 0.04
84 55 0.40
85 27 0.20
86 48 0.35
87 2 0.01
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (85 bp):
AAACAAAATCAAAATAGAATAAAATCTGTTAAACGACGAGAATAAATTCCGAAATAAATTTTATT
TAATTTTAATTCTGAATTGA
Found at i:13543990 original size:84 final size:85
Alignment explanation
Indices: 13543798--13544003 Score: 249
Period size: 86 Copynumber: 2.4 Consensus size: 85
13543788 TTTCAAATGA
* *
13543798 GAAACAAAATCAAAATCA-AATAAAATCTGTTAAATGGCGGGAATAAATTCCAAAATAAATTTTA
1 GAAACAAAATCAAAAT-AGAATAAAATCTGTTAAACGGCAGGAATAAATTCCAAAATAAA-TTTA
*
13543862 TTTAATTTTTAATTCTCATTCG
64 TTTAATTTTTAATTCTAATTCG
* * * * * *
13543884 AAAACAAAATCAAAATGGAATAAAATCTGTTAAGCGTCATGAATAAATTCCGAAATAGAA-TTAT
1 GAAACAAAATCAAAATAGAATAAAATCTGTTAAACGGCAGGAATAAATTCCAAAATA-AATTTAT
13543948 TTAA-TTTTAATTCTGAATT-G
65 TTAATTTTTAATTCT-AATTCG
* *
13543968 GAAACAAAATCAAAATAGAATAAAATATATTAAACG
1 GAAACAAAATCAAAATAGAATAAAATCTGTTAAACG
13544004 ACGAGAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
84 42 0.41
85 11 0.11
86 48 0.47
87 2 0.02
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (85 bp):
GAAACAAAATCAAAATAGAATAAAATCTGTTAAACGGCAGGAATAAATTCCAAAATAAATTTATT
TAATTTTTAATTCTAATTCG
Found at i:13570462 original size:31 final size:32
Alignment explanation
Indices: 13570414--13570477 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 32
13570404 ATTCATATTA
13570414 ACTAATTAGAAAATCATATAACCACTT-AAAGT
1 ACTAATTAGAAAATCATATAACCA-TTGAAAGT
*
13570446 ACTAATTA-CAAATCATATAACCATTGAAAGT
1 ACTAATTAGAAAATCATATAACCATTGAAAGT
13570477 A
1 A
13570478 TACCCGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 2 0.07
31 20 0.67
32 8 0.27
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (32 bp):
ACTAATTAGAAAATCATATAACCATTGAAAGT
Found at i:13581886 original size:31 final size:31
Alignment explanation
Indices: 13581850--13581933 Score: 159
Period size: 31 Copynumber: 2.7 Consensus size: 31
13581840 ACAAAACGTT
*
13581850 AATGATCAAATCGTAACAAGAGTTAAATATC
1 AATGATTAAATCGTAACAAGAGTTAAATATC
13581881 AATGATTAAATCGTAACAAGAGTTAAATATC
1 AATGATTAAATCGTAACAAGAGTTAAATATC
13581912 AATGATTAAATCGTAACAAGAG
1 AATGATTAAATCGTAACAAGAG
13581934 GTTCAGATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (31 bp):
AATGATTAAATCGTAACAAGAGTTAAATATC
Found at i:13581891 original size:14 final size:14
Alignment explanation
Indices: 13581872--13581922 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
13581862 GTAACAAGAG
13581872 TTAAATATCAATGA
1 TTAAATATCAATGA
*
13581886 TTAAATCGTAACAA-GA
1 TTAAA---TATCAATGA
13581902 GTTAAATATCAATGA
1 -TTAAATATCAATGA
13581917 TTAAAT
1 TTAAAT
13581923 CGTAACAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 16 0.53
15 2 0.07
16 2 0.07
17 10 0.33
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (14 bp):
TTAAATATCAATGA
Found at i:13582136 original size:251 final size:251
Alignment explanation
Indices: 13581693--13582172 Score: 960
Period size: 251 Copynumber: 1.9 Consensus size: 251
13581683 ATAAAGTAAT
13581693 ATAAAAAAGTGAAAAAGGTTAAAAAATTTTAAAAGAAGTGTTCAGATTATGAGGACGGGACATGG
1 ATAAAAAAGTGAAAAAGGTTAAAAAATTTTAAAAGAAGTGTTCAGATTATGAGGACGGGACATGG
13581758 AAGTCACGTTGTATTTAACGATGTTATTTTATGCCACATCATACTTTTTGTAACACCTCTAATGT
66 AAGTCACGTTGTATTTAACGATGTTATTTTATGCCACATCATACTTTTTGTAACACCTCTAATGT
13581823 CAAATAACATCTCACTTACAAAACGTTAATGATCAAATCGTAACAAGAGTTAAATATCAATGATT
131 CAAATAACATCTCACTTACAAAACGTTAATGATCAAATCGTAACAAGAGTTAAATATCAATGATT
13581888 AAATCGTAACAAGAGTTAAATATCAATGATTAAATCGTAACAAGAGGTTCAGATTA
196 AAATCGTAACAAGAGTTAAATATCAATGATTAAATCGTAACAAGAGGTTCAGATTA
13581944 ATAAAAAAGTGAAAAAGGTTAAAAAATTTTAAAAGAAGTGTTCAGATTATGAGGACGGGACATGG
1 ATAAAAAAGTGAAAAAGGTTAAAAAATTTTAAAAGAAGTGTTCAGATTATGAGGACGGGACATGG
13582009 AAGTCACGTTGTATTTAACGATGTTATTTTATGCCACATCATACTTTTTGTAACACCTCTAATGT
66 AAGTCACGTTGTATTTAACGATGTTATTTTATGCCACATCATACTTTTTGTAACACCTCTAATGT
13582074 CAAATAACATCTCACTTACAAAACGTTAATGATCAAATCGTAACAAGAGTTAAATATCAATGATT
131 CAAATAACATCTCACTTACAAAACGTTAATGATCAAATCGTAACAAGAGTTAAATATCAATGATT
13582139 AAATCGTAACAAGAGTTAAATATCAATGATTAAA
196 AAATCGTAACAAGAGTTAAATATCAATGATTAAA
13582173 ATGTAAATTT
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
251 229 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (251 bp):
ATAAAAAAGTGAAAAAGGTTAAAAAATTTTAAAAGAAGTGTTCAGATTATGAGGACGGGACATGG
AAGTCACGTTGTATTTAACGATGTTATTTTATGCCACATCATACTTTTTGTAACACCTCTAATGT
CAAATAACATCTCACTTACAAAACGTTAATGATCAAATCGTAACAAGAGTTAAATATCAATGATT
AAATCGTAACAAGAGTTAAATATCAATGATTAAATCGTAACAAGAGGTTCAGATTA
Found at i:13582159 original size:17 final size:17
Alignment explanation
Indices: 13582108--13582159 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
13582098 GTTAATGATC
13582108 AAATCGTAACAAGAGTT
1 AAATCGTAACAAGAGTT
*
13582125 AAA---TATCAATGA-TT
1 AAATCGTAACAA-GAGTT
13582139 AAATCGTAACAAGAGTT
1 AAATCGTAACAAGAGTT
13582156 AAAT
1 AAAT
13582160 ATCAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 10 0.36
15 2 0.07
16 2 0.07
17 14 0.50
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (17 bp):
AAATCGTAACAAGAGTT
Found at i:13582169 original size:31 final size:31
Alignment explanation
Indices: 13582101--13582172 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
13582091 ACAAAACGTT
*
13582101 AATGATCAAATCGTAACAAGAGTTAAATATC
1 AATGATTAAATCGTAACAAGAGTTAAATATC
13582132 AATGATTAAATCGTAACAAGAGTTAAATATC
1 AATGATTAAATCGTAACAAGAGTTAAATATC
13582163 AATGATTAAA
1 AATGATTAAA
13582173 ATGTAAATTT
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:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (31 bp):
AATGATTAAATCGTAACAAGAGTTAAATATC
Found at i:13588929 original size:21 final size:22
Alignment explanation
Indices: 13588904--13588947 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13588894 CAAATATAAG
*
13588904 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
13588925 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
13588947 T
1 T
13588948 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:13589496 original size:12 final size:13
Alignment explanation
Indices: 13589465--13589496 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13589455 CTTATATTTT
13589465 TCAAAAACACTTC
1 TCAAAAACACTTC
*
13589478 TCAAAAACACTTG
1 TCAAAAACACTTC
13589491 TCAAAA
1 TCAAAA
13589497 GTAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (13 bp):
TCAAAAACACTTC
Found at i:13589879 original size:24 final size:24
Alignment explanation
Indices: 13589823--13589879 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
13589813 CCGTCATTTT
*
13589823 ATATAAATTTATTAAAACTTTCAC
1 ATATAATTTTATTAAAACTTTCAC
* * * *
13589847 GTACAAATTTTTTTAATACTTTCAC
1 ATA-TAATTTTATTAAAACTTTCAC
13589872 ATATAATT
1 ATATAATT
13589880 CATTGATAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (24 bp):
ATATAATTTTATTAAAACTTTCAC
Found at i:13601884 original size:23 final size:23
Alignment explanation
Indices: 13601843--13601887 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13601833 TTTCTTACTG
** *
13601843 TAGTAATTTTTGGGGTATTACAA
1 TAGTAATTTTCAGGATATTACAA
13601866 TAGTAATTTTCAGGATATTACA
1 TAGTAATTTTCAGGATATTACA
13601888 CCTTAAGCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (23 bp):
TAGTAATTTTCAGGATATTACAA
Found at i:13609345 original size:39 final size:39
Alignment explanation
Indices: 13609291--13609374 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
13609281 AGAGGAAAGA
13609291 ACTAAGAAAGGAAGAGAGGAGAAGAAGGGACTAGAAAAT
1 ACTAAGAAAGGAAGAGAGGAGAAGAAGGGACTAGAAAAT
* *
13609330 ACTAAGAAAGGAAGAGAGGAGGAGAAGGGACTAGAGAAT
1 ACTAAGAAAGGAAGAGAGGAGAAGAAGGGACTAGAAAAT
13609369 ACTAAG
1 ACTAAG
13609375 TTATCTGGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.51, C:0.06, G:0.35, T:0.08
Consensus pattern (39 bp):
ACTAAGAAAGGAAGAGAGGAGAAGAAGGGACTAGAAAAT
Done.