Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 43
Found at i:5896753 original size:17 final size:16
Alignment explanation
Indices: 5896731--5896795 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
5896721 GGGTTTTGTA
5896731 ATATTAATAAATAATAT
1 ATATTAAT-AATAATAT
5896748 ATATTAATAATAATA-
1 ATATTAATAATAATAT
*
5896763 ATTATTATTATTATAAT-T
1 A-TATTA--ATAATAATAT
*
5896781 ATAATAATAATAATA
1 ATATTAATAATAATA
5896796 AATTTTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
15 8 0.20
16 12 0.30
17 12 0.30
18 8 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTAATAATAATAT
Found at i:5896758 original size:3 final size:3
Alignment explanation
Indices: 5896729--5896796 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
5896719 TTGGGTTTTG
* * * * * *
5896729 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TTA TTA TTA TTA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
5896776 TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
5896797 ATTTTTAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (3 bp):
TAA
Found at i:5897231 original size:123 final size:123
Alignment explanation
Indices: 5897017--5897242 Score: 328
Period size: 123 Copynumber: 1.8 Consensus size: 123
5897007 GACCTATTTC
* * * * * * * *
5897017 CTTCTGTGATAGAGTCATTCAAAGGTTGAATAAGTTCTTCTTATTTTGAACTTCTTCTTTCTTTT
1 CTTCTGTGATAGAATCATGCAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTTCCTCT
* * *
5897082 TCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGAAAGGTTTATGCTAATCTATCTG
66 TCAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAAGGTTTATGCTAATCTATCTG
*
5897140 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTC-TTCCTC
1 CTTCTGTGATAGAATCATGC-AAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTTCCTC
5897204 TTCAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAA
65 TTCAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAA
5897243 TGTTGATCCA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
123 57 0.63
124 33 0.37
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.43
Consensus pattern (123 bp):
CTTCTGTGATAGAATCATGCAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTTCCTCT
TCAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAAGGTTTATGCTAATCTATCTG
Found at i:5897373 original size:113 final size:112
Alignment explanation
Indices: 5897159--5897643 Score: 562
Period size: 113 Copynumber: 4.3 Consensus size: 112
5897149 TAGAATTATG
** * * * *
5897159 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCTTCAAAT-AAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAA-TTCTTCTCA
* * * * *
5897223 TTACGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAA
65 TTATGAACTCTATCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
* *
5897271 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAATTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCC-TCTTCAGATGAATTCTTCTCA
* * * *
5897336 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
65 TTATGAACTCTATCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
* *
5897384 CATAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTCTTTCAAGTAATGAGTTCTT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTT-TTCTTCCTC-TTC-AG--ATGAATTCTT
* *** * * **
5897448 CTCATTATGAACTCTACCTGGAAATTTTAATCCATCAAATGATGAATTCAAA
61 CTCATTATGAACTCTATCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
* * *
5897500 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCC-TCTTCAGATGAATTCTTCTCA
* * *
5897565 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT-AA
65 TTATGAACTCTATCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
*
5897612 GCAAAAGGTTGACCAAATTCTTCTCATTATGA
1 -CAAAAGGTTGAACAAATTCTTCTCATTATGA
5897644 TGACGAGTTC
Statistics
Matches: 318, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
112 46 0.14
113 172 0.54
114 4 0.01
115 1 0.00
116 90 0.28
117 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAATTCTTCTCAT
TATGAACTCTATCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
Found at i:5897522 original size:229 final size:225
Alignment explanation
Indices: 5897158--5897643 Score: 713
Period size: 229 Copynumber: 2.1 Consensus size: 225
5897148 ATAGAATTAT
** * *
5897158 GCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTTA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCA
* * * ** *
5897223 TTACGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGT
66 TTACGAACTTACTCTGGAAATGTTAATCCATCAAATGATGAATTCAAACAAAAGGTTAAACAAAT
5897288 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
*
5897353 AAAAGCTGATCCATCAAGTGATGGATTTGA
196 AAAAGCTGATCCATCAAGTGATGGATTTAA
* * *
5897383 GCATAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTTCAAGTAATGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTC-TTC-A--AATAAGTTCTT
* *
5897448 CTCATTATGAACTCTAC-CTGGAAATTTTAATCCATCAAATGATGAATTCAAACAAAAGGTTAAA
62 CTCATTACGAACT-TACTCTGGAAATGTTAATCCATCAAATGATGAATTCAAACAAAAGGTTAAA
* * ***
5897512 CAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTC
126 CAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGA
*
5897577 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTAA
191 ACTGGAAAAGCTGATCCATCAAGTGATGGATTTAA
*
5897612 GCAAAAGGTTGACCAAATTCTTCTCATTATGA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGA
5897644 TGACGAGTTC
Statistics
Matches: 232, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
225 41 0.18
226 3 0.01
227 1 0.00
229 185 0.80
230 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (225 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATAAGTTCTTCTCA
TTACGAACTTACTCTGGAAATGTTAATCCATCAAATGATGAATTCAAACAAAAGGTTAAACAAAT
TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTGG
AAAAGCTGATCCATCAAGTGATGGATTTAA
Found at i:5897716 original size:95 final size:95
Alignment explanation
Indices: 5897553--5897738 Score: 248
Period size: 95 Copynumber: 2.0 Consensus size: 95
5897543 TTCTTCATAT
* * * * * * * *
5897553 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAA
1 GAGTTCTTCTCATTATGAACTTACTCTAGAAAAGCTAATCCATCAAATAATGAATTCAAACAAAA
*
5897618 GGTTGACCAAATTCTTCTCATTATGATGAC
66 GGTTGAACAAATTCTTCTCATTATGATGAC
* * *
5897648 GAGTTCTTCTCATTATGAACTCTAC-CTAGCAATGTTAATCCATCAAATAATGAATTCAAACAAA
1 GAGTTCTTCTCATTATGAACT-TACTCTAGAAAAGCTAATCCATCAAATAATGAATTCAAACAAA
5897712 AGGTTGAACAAATTCTTCTCATTATGA
65 AGGTTGAACAAATTCTTCTCATTATGA
5897739 ACTTCTTCTT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 76 0.97
96 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (95 bp):
GAGTTCTTCTCATTATGAACTTACTCTAGAAAAGCTAATCCATCAAATAATGAATTCAAACAAAA
GGTTGAACAAATTCTTCTCATTATGATGAC
Found at i:5898765 original size:83 final size:83
Alignment explanation
Indices: 5898626--5898844 Score: 420
Period size: 83 Copynumber: 2.6 Consensus size: 83
5898616 CTGTGGTTCA
5898626 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
*
5898691 AAATTCAATGATTGATTT
66 AAATTCAATGATTGACTT
5898709 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
5898774 AAATTCAATGATTGACTT
66 AAATTCAATGATTGACTT
*
5898792 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
5898845 TATGGCATTT
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 134 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
AAATTCAATGATTGACTT
Found at i:5899725 original size:19 final size:17
Alignment explanation
Indices: 5899701--5899762 Score: 83
Period size: 16 Copynumber: 3.6 Consensus size: 17
5899691 TCCATAAAAG
*
5899701 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTCTC--A
5899720 AATAAATTGAA-TCTCA
1 AATAAATTGAATTCTCA
5899736 AATAAATTGAA-TCTCA
1 AATAAATTGAATTCTCA
5899752 AATAAATTGAA
1 AATAAATTGAA
5899763 CTTGAAATAG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
16 28 0.67
18 3 0.07
19 11 0.26
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (17 bp):
AATAAATTGAATTCTCA
Found at i:5899771 original size:16 final size:16
Alignment explanation
Indices: 5899719--5899762 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
5899709 GAATTTTCGA
5899719 AAATAAATTGAATCTC
1 AAATAAATTGAATCTC
5899735 AAATAAATTGAATCTC
1 AAATAAATTGAATCTC
5899751 AAATAAATTGAA
1 AAATAAATTGAA
5899763 CTTGAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.30
Consensus pattern (16 bp):
AAATAAATTGAATCTC
Found at i:5900108 original size:5 final size:5
Alignment explanation
Indices: 5900100--5900147 Score: 66
Period size: 5 Copynumber: 10.2 Consensus size: 5
5900090 ATTTTTTCTT
*
5900100 TTTTC TTTTC TTTTC TTTTC -TTTC TTTTT TTTTC -TTTC TTTT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
5900147 T
1 T
5900148 CTTCAAGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 12 0.32
5 26 0.68
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:5900115 original size:10 final size:10
Alignment explanation
Indices: 5900100--5900147 Score: 66
Period size: 9 Copynumber: 5.1 Consensus size: 10
5900090 ATTTTTTCTT
5900100 TTTTCTTTTC
1 TTTTCTTTTC
5900110 TTTTCTTTTC
1 TTTTCTTTTC
*
5900120 -TTTCTTTTT
1 TTTTCTTTTC
5900129 TTTTC-TTTC
1 TTTTCTTTTC
5900138 TTTT-TTTTC
1 TTTTCTTTTC
5900147 T
1 T
5900148 CTTCAAGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:5900123 original size:14 final size:13
Alignment explanation
Indices: 5900094--5900147 Score: 74
Period size: 13 Copynumber: 4.1 Consensus size: 13
5900084 GACCCCATTT
*
5900094 TTTCTTTTTTCT-
1 TTTCTTTTTTTTC
5900106 TTTCTTTTCTTTTC
1 TTTCTTTT-TTTTC
5900120 TTTCTTTTTTTTTC
1 TTTC-TTTTTTTTC
5900134 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
5900147 T
1 T
5900148 CTTCAAGCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
12 8 0.21
13 13 0.34
14 13 0.34
15 4 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:5907483 original size:15 final size:15
Alignment explanation
Indices: 5907460--5907491 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5907450 TGAAATGAAT
5907460 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
5907475 AATGCATGTATGCAA
1 AATGAATGTATGCAA
5907490 AA
1 AA
5907492 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:5911279 original size:16 final size:15
Alignment explanation
Indices: 5911255--5911284 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5911245 TCTATTATTA
5911255 AAAATTATTTAATTC
1 AAAATTATTTAATTC
5911270 AAAATATATTTAATT
1 AAAAT-TATTTAATT
5911285 TATAATCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTATTTAATTC
Found at i:5912954 original size:3 final size:3
Alignment explanation
Indices: 5912925--5912995 Score: 79
Period size: 3 Copynumber: 23.0 Consensus size: 3
5912915 TTGGGTTTTG
* * * * *
5912925 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TTA TTA TTA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
5912972 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
5912996 ATTTTTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
3 54 0.90
4 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:5913863 original size:27 final size:27
Alignment explanation
Indices: 5913833--5913885 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
5913823 GTTGTGTAAG
5913833 TTAATCTCACAAGGAAGACTGGCTTTT
1 TTAATCTCACAAGGAAGACTGGCTTTT
5913860 TTAATCTCACAAGGAAGACTGGCTTT
1 TTAATCTCACAAGGAAGACTGGCTTT
5913886 CAGAAAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
TTAATCTCACAAGGAAGACTGGCTTTT
Found at i:5916438 original size:16 final size:16
Alignment explanation
Indices: 5916414--5916460 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
5916404 GGTCAATATC
5916414 AGATCGAGTTAATTTT
1 AGATCGAGTTAATTTT
* * *
5916430 AGGTCGAGTCAATATT
1 AGATCGAGTTAATTTT
*
5916446 AGATTGA-TTAATTTT
1 AGATCGAGTTAATTTT
5916461 TGGTTTCAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (16 bp):
AGATCGAGTTAATTTT
Found at i:5916475 original size:32 final size:32
Alignment explanation
Indices: 5916399--5916460 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
5916389 GTTGAATATG
5916399 AGGTCG-GTCAATATCAGATCGAGTTAATTTT
1 AGGTCGAGTCAATATCAGATCGAGTTAATTTT
* *
5916430 AGGTCGAGTCAATATTAGATTGA-TTAATTTT
1 AGGTCGAGTCAATATCAGATCGAGTTAATTTT
5916461 TGGTTTCAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (32 bp):
AGGTCGAGTCAATATCAGATCGAGTTAATTTT
Found at i:5917252 original size:16 final size:16
Alignment explanation
Indices: 5917233--5917267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5917223 CTGGCCCAAA
* *
5917233 ATTAATTCGATTTGAT
1 ATTAACTCGACTTGAT
5917249 ATTAACTCGACTTGAT
1 ATTAACTCGACTTGAT
5917265 ATT
1 ATT
5917268 CGACTAGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
ATTAACTCGACTTGAT
Found at i:5917552 original size:4 final size:4
Alignment explanation
Indices: 5917543--5917579 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
5917533 TTTCGTGAAG
* *
5917543 AATA AATA AATG ATTA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
5917580 TATGTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:5920656 original size:2 final size:2
Alignment explanation
Indices: 5920651--5920691 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5920641 TGTCTTCGAT
5920651 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
5920692 GTATGTATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5920851 original size:23 final size:23
Alignment explanation
Indices: 5920825--5920871 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5920815 GTTCTATTGG
5920825 ATTTATAATTTATACAAAAATAA
1 ATTTATAATTTATACAAAAATAA
5920848 ATTTATAATTTATACAAAAATAA
1 ATTTATAATTTATACAAAAATAA
5920871 A
1 A
5920872 ACTATAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTATAATTTATACAAAAATAA
Found at i:5920877 original size:23 final size:23
Alignment explanation
Indices: 5920828--5920878 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
5920818 CTATTGGATT
**
5920828 TATAATTTATACAAAAATAAATT
1 TATAATTTATACAAAAATAAAAC
5920851 TATAATTTATACAAAAATAAAAC
1 TATAATTTATACAAAAATAAAAC
5920874 TATAA
1 TATAA
5920879 ACTTCTCTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
TATAATTTATACAAAAATAAAAC
Found at i:5921287 original size:27 final size:27
Alignment explanation
Indices: 5921226--5921287 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
5921216 TCATTTAATA
* *
5921226 AATTAAATAAACTTATAAATTATTTTT
1 AATTAAATAAAATTATAAATTAATTTT
* *
5921253 AAAT-AATAAAATTAT-CATATAATTTT
1 AATTAAATAAAATTATAAAT-TAATTTT
5921279 AATTAAATA
1 AATTAAATA
5921288 CAATAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
25 2 0.07
26 19 0.68
27 7 0.25
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
AATTAAATAAAATTATAAATTAATTTT
Found at i:5924048 original size:20 final size:20
Alignment explanation
Indices: 5924023--5924064 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
5924013 AAGGAAGAGT
5924023 GGGAGTTAATACCGAGTTGG
1 GGGAGTTAATACCGAGTTGG
5924043 GGGAGTTAATACCGAGTTGG
1 GGGAGTTAATACCGAGTTGG
5924063 GG
1 GG
5924065 AAGTGAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.43, T:0.24
Consensus pattern (20 bp):
GGGAGTTAATACCGAGTTGG
Found at i:5926279 original size:28 final size:30
Alignment explanation
Indices: 5926204--5926282 Score: 76
Period size: 32 Copynumber: 2.6 Consensus size: 30
5926194 AATTTATTAC
* *
5926204 TTAATAATATATTTTATTTATTTAAAAGTA
1 TTAATAAAATATTTTATATATTTAAAAGTA
5926234 --AATAAAATTCATGATTTATATA-TTAAAA-TA
1 TTAATAAAA-T-AT--TTTATATATTTAAAAGTA
5926264 TTAATAAAATATTTTATAT
1 TTAATAAAATATTTTATAT
5926283 CCACGTGCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
28 13 0.32
29 1 0.02
30 6 0.15
31 7 0.17
32 14 0.34
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (30 bp):
TTAATAAAATATTTTATATATTTAAAAGTA
Found at i:5926573 original size:25 final size:26
Alignment explanation
Indices: 5926545--5926599 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
5926535 CAAATTGTAG
5926545 TTTTATACTGTATTTTCAAAAATTA-
1 TTTTATACTGTATTTTCAAAAATTAC
* * * *
5926570 TTTTCTACTTTATTTTTAAAATTTAC
1 TTTTATACTGTATTTTCAAAAATTAC
5926596 TTTT
1 TTTT
5926600 CAAAAGTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTATACTGTATTTTCAAAAATTAC
Found at i:5933342 original size:43 final size:43
Alignment explanation
Indices: 5933173--5933526 Score: 267
Period size: 43 Copynumber: 8.2 Consensus size: 43
5933163 AAATAAATAA
* * *
5933173 ATTGAAAAAACTAGGGGCCTCAATTATGAAGGTAGAAAGTGAG
1 ATTGAAAAAACTTGGGGCATCAATTATAAAGGTAGAAAGTGAG
* * *
5933216 ATTGAAAAAACTT-GGGTATTAATTATAAAGGTAAAAAGTGAG
1 ATTGAAAAAACTTGGGGCATCAATTATAAAGGTAGAAAGTGAG
* *
5933258 ATT-AAAAAA-TTAGGGGCCTCAACTATAAAGGTAGAAAGTGAG
1 ATTGAAAAAACTT-GGGGCATCAATTATAAAGGTAGAAAGTGAG
* *
5933300 ATTGACAAAACTTGGGGCATCAATTATAAAAGTA-AAATGTGAG
1 ATTGAAAAAACTTGGGGCATCAATTATAAAGGTAGAAA-GTGAG
* * * *
5933343 ATT-AAAAAAATTAGGGG-TTTAGACTATAAAGGTAGAAAGTGAG
1 ATTGAAAAAACTT-GGGGCATCA-ATTATAAAGGTAGAAAGTGAG
* * * * *
5933386 ATTGAAAAAAATATAGAGGCCTCAATTATAAAGGTAAAAAAATGAG
1 ATTGAAAAAACT-T-GGGGCATCAATTATAAAGGT-AGAAAGTGAG
** * * * *
5933432 ATTGAAAAAA-TTAATGGCTTCTATTATAAAGGTAAAAAAT-AG
1 ATTGAAAAAACTT-GGGGCATCAATTATAAAGGTAGAAAGTGAG
* *** * * * *
5933474 AATTGAAAAAATTTGATACTTCAATTATAAAGATAAAAAATGAG
1 -ATTGAAAAAACTTGGGGCATCAATTATAAAGGTAGAAAGTGAG
5933518 ATT-AAAAAA
1 ATTGAAAAAA
5933527 GTAAGACCTC
Statistics
Matches: 259, Mismatches: 37, Indels: 31
0.79 0.11 0.09
Matches are distributed among these distances:
40 2 0.01
41 6 0.02
42 74 0.29
43 106 0.41
44 35 0.14
45 16 0.06
46 20 0.08
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (43 bp):
ATTGAAAAAACTTGGGGCATCAATTATAAAGGTAGAAAGTGAG
Found at i:5933386 original size:86 final size:85
Alignment explanation
Indices: 5933177--5933553 Score: 368
Period size: 84 Copynumber: 4.4 Consensus size: 85
5933167 AAATAAATTG
* * * * *
5933177 AAAAAACTAGGGGCCTCAATTATGAAGGTAGAAAGTGAGATTGAAAAAACTT-GGGTATTAATTA
1 AAAAAATTAGGGGCCTCAACTATAAAGGTAGAAAGTGAGATTGAAAAAACTTGGGGCATCAATTA
5933241 TAAAGGTAAAAAGTGAGATT
66 TAAAGGTAAAAAGTGAGATT
*
5933261 AAAAAATTAGGGGCCTCAACTATAAAGGTAGAAAGTGAGATTGACAAAACTTGGGGCATCAATTA
1 AAAAAATTAGGGGCCTCAACTATAAAGGTAGAAAGTGAGATTGAAAAAACTTGGGGCATCAATTA
* *
5933326 TAAAAGTAAAATGTGAGATT
66 TAAAGGTAAAAAGTGAGATT
* * * * *
5933346 AAAAAAATTAGGGG-TTTAGACTATAAAGGTAGAAAGTGAGATTGAAAAAAATATAGAGGCCTCA
1 -AAAAAATTAGGGGCCTCA-ACTATAAAGGTAGAAAGTGAGATTGAAAAAACT-T-GGGGCATCA
*
5933410 ATTATAAAGGTAAAAAAATGAGATT
62 ATTATAAAGGT-AAAAAGTGAGATT
** * * * * * * *** *
5933435 GAAAAAATTAATGGCTTCTATTATAAAGGTAAAAAAT-AGAATTGAAAAAATTTGATACTTCAAT
1 -AAAAAATTAGGGGCCTCAACTATAAAGGTAGAAAGTGAG-ATTGAAAAAACTTGGGGCATCAAT
* *
5933499 TATAAAGATAAAAAATGAGATT
64 TATAAAGGTAAAAAGTGAGATT
* * * *
5933521 AAAAAAGTA-AGACCTCAATTATAAAGGTA-AAAG
1 AAAAAATTAGGGGCCTCAACTATAAAGGTAGAAAG
5933554 ATATAATTTA
Statistics
Matches: 249, Mismatches: 36, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
83 3 0.01
84 64 0.26
85 38 0.15
86 57 0.23
87 17 0.07
88 20 0.08
89 48 0.19
90 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (85 bp):
AAAAAATTAGGGGCCTCAACTATAAAGGTAGAAAGTGAGATTGAAAAAACTTGGGGCATCAATTA
TAAAGGTAAAAAGTGAGATT
Found at i:5933584 original size:84 final size:87
Alignment explanation
Indices: 5933367--5933597 Score: 233
Period size: 84 Copynumber: 2.7 Consensus size: 87
5933357 GGGTTTAGAC
* * *
5933367 TATAAAGGTAGAAAGT-GAGATTGAAAAAAATATAGAGGC-CTCAATTATAAAGGTAAAAAAATG
1 TATAAAGGTAAAAAATAGA-ATTG-AAAAAATATA-AGGCTCTCAATTATAAAGAT-AAAAAATG
* * * *
5933430 AGATTGAAAAAATTAATGGCTTCTAT
62 AGATTGAAAAAAGTAATGACCTCAAT
* * **
5933456 TATAAAGGTAAAAAATAGAATTGAAAAAATTTGATACT-TCAATTATAAAGATAAAAAATGAGAT
1 TATAAAGGTAAAAAATAGAATTGAAAAAATATAAGGCTCTCAATTATAAAGATAAAAAATGAGAT
5933520 T-AAAAAAGTAA-GACCTCAAT
66 TGAAAAAAGTAATGACCTCAAT
* * * *
5933540 TATAAAGGTAAAAGATATAATT-TAAAAATATAAGGCTCTAAATTATAAA-ATTAAAAAA
1 TATAAAGGTAAAAAATAGAATTGAAAAAATATAAGGCTCTCAATTATAAAGA-TAAAAAA
5933598 ATTGAAGACT
Statistics
Matches: 119, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
83 11 0.09
84 43 0.36
85 9 0.08
86 13 0.11
87 15 0.13
88 8 0.07
89 18 0.15
90 2 0.02
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.27
Consensus pattern (87 bp):
TATAAAGGTAAAAAATAGAATTGAAAAAATATAAGGCTCTCAATTATAAAGATAAAAAATGAGAT
TGAAAAAAGTAATGACCTCAAT
Found at i:5934386 original size:16 final size:16
Alignment explanation
Indices: 5934365--5934402 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
5934355 AATCGGCCTA
5934365 CAACCCGTCACCCAAC
1 CAACCCGTCACCCAAC
5934381 CAACCCGTCACCCAAC
1 CAACCCGTCACCCAAC
5934397 CAACCC
1 CAACCC
5934403 AATCATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.58, G:0.05, T:0.05
Consensus pattern (16 bp):
CAACCCGTCACCCAAC
Found at i:5936590 original size:131 final size:131
Alignment explanation
Indices: 5936361--5936665 Score: 364
Period size: 131 Copynumber: 2.3 Consensus size: 131
5936351 AGACATGAGA
* * * * **
5936361 ATTTATTCTCGATTAGAAATAATTAGATGTTA-CTATTTTTCTCTAGAATTAAGATTGCTTTTTA
1 ATTTATTCTCAATTGGAAATAATTAGATATTATC-A-TTTTCTCTAGAATCAAGATTGAATTTTA
* * * * *
5936425 AGACGGAATATTAATATATCTTCATTTCGGTTGGGGTAATAAAT-TATTGCTTTAAGGCATGAGG
64 AGACGAAATAGTAATATATCTTCATTTCGATTGGGGTAAT-AATGGATTGCTTTAAGGCATGAGA
5936489 GGTC
128 GGTC
* * * *
5936493 ATTTATTTTCAATTGGAAATCATTAGATATTATCATTTTCTCTCGAATCAATATTGAATTTTAAG
1 ATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCTCTAGAATCAAGATTGAATTTTAAG
* * * *
5936558 ATGAAATAGTGATATCTCTTTC-TTTCGATTGGGGTAATAATGGATTGGTTTAAGGCATGAGAGG
66 ACGAAATAGTAATATATC-TTCATTTCGATTGGGGTAATAATGGATTGCTTTAAGGCATGAGAGG
*
5936622 TT
130 TC
*
5936624 ATTTATTCTCAATTGGAAATAATTAGATATTATCGTTTTCTC
1 ATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCTC
5936666 CCTTAGATTT
Statistics
Matches: 147, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
130 3 0.02
131 112 0.76
132 31 0.21
133 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (131 bp):
ATTTATTCTCAATTGGAAATAATTAGATATTATCATTTTCTCTAGAATCAAGATTGAATTTTAAG
ACGAAATAGTAATATATCTTCATTTCGATTGGGGTAATAATGGATTGCTTTAAGGCATGAGAGGT
C
Found at i:5943269 original size:25 final size:23
Alignment explanation
Indices: 5943233--5943282 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
5943223 GACTAATTAA
* *
5943233 AAACCTAATTTTTCTAAACTATT
1 AAACCTAATTTTTATAAAATATT
5943256 AAACCTAGAGTTTTTATAAAATATT
1 AAACCTA-A-TTTTTATAAAATATT
5943281 AA
1 AA
5943283 TTATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 1 0.04
25 15 0.65
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (23 bp):
AAACCTAATTTTTATAAAATATT
Found at i:5945319 original size:90 final size:91
Alignment explanation
Indices: 5945181--5945537 Score: 486
Period size: 91 Copynumber: 3.9 Consensus size: 91
5945171 ATCGAACAAA
* * *
5945181 GTTGAACAAGTTCTTCTCATTATGAACTTCTT-TTCCTCGTCAGATTAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTAGATGAGTTCTTCTCATTATGAA
* *
5945245 CTCTTCACTGGAAATTTTGAGTCAAG
66 CTCTCCACTGGAAATGTTGAGTCAAG
* * * * * *
5945271 GTTGAACAAG-TCTTCTCATTATGAACTTTTTCTCCCTCGTTGGTTTAGTTCATCTCATTATAAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTAGATGAGTTCTTCTCATTATGAA
* * *
5945335 CTCTCCACTGGAAATATTAAGCCAAG
66 CTCTCCACTGGAAATGTTGAGTCAAG
* * * *
5945361 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTTAAATGAGTTATTCTCATTATGAT
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTAGATGAGTTCTTCTCATTATGAA
*
5945426 CTCTCCACTGGAACTGTTGAGAT-AAG
66 CTCTCCACTGGAAATGTTGAG-TCAAG
* *
5945452 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTGGTTGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTAGATGAGTTCTTCTCATTATGAA
*
5945517 CACTCCACTGGAAATGTTGAG
66 CTCTCCACTGGAAATGTTGAG
5945538 CCACCTCCTT
Statistics
Matches: 232, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
89 20 0.09
90 68 0.29
91 144 0.62
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (91 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTAGATGAGTTCTTCTCATTATGAA
CTCTCCACTGGAAATGTTGAGTCAAG
Found at i:5945719 original size:91 final size:91
Alignment explanation
Indices: 5945559--5945779 Score: 266
Period size: 91 Copynumber: 2.4 Consensus size: 91
5945549 TGTGATGAAA
* * * * *
5945559 TTGAACCAAGTTTGA-ACAAGTTCTTCTCATTATTAATTTCTACTCCCTCGTTAGATGAGTTTTT
1 TTGAGCCAAGGTTGATA-AAGTTCTTCTCATTATAAACTTCTACTCCCTCGTTAGATGAGTTCTT
* *
5945623 CTCATTATGAACTCTACACTGGAACTG
65 CTCATTATGAAATCTACACTGGAAATG
* * *
5945650 TTGATCCAAGGTTTATAAAGTTCTTCTCATTATAAACTTCTTA-TCCCTCGTTGGATGAGTTCTT
1 TTGAGCCAAGGTTGATAAAGTTCTTCTCATTATAAACTTC-TACTCCCTCGTTAGATGAGTTCTT
*
5945714 CTCATTATGAAATCTCCACTGGAAATG
65 CTCATTATGAAATCTACACTGGAAATG
* * * * *
5945741 TTGAGGCAATGTTGATCAAGTTTTTCTCATTATGAACTT
1 TTGAGCCAAGGTTGATAAAGTTCTTCTCATTATAAACTT
5945780 TCCATGTTAA
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
91 108 0.97
92 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (91 bp):
TTGAGCCAAGGTTGATAAAGTTCTTCTCATTATAAACTTCTACTCCCTCGTTAGATGAGTTCTTC
TCATTATGAAATCTACACTGGAAATG
Found at i:5945720 original size:208 final size:208
Alignment explanation
Indices: 5945356--5945745 Score: 604
Period size: 208 Copynumber: 1.9 Consensus size: 208
5945346 AAATATTAAG
* *
5945356 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTTAAATGAGTTATTCTCATT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTACTCCCTCGTTAAATGAGTTATTCTCATT
* * * * *
5945421 ATGATCTCTCCACTGGAACTGTTGAGATAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
66 ATGAACTCTACACTGGAACTGTTGAGACAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTAT
*
5945486 CCCTGGTTGGATGAGTTCTTCTCATTATGAACA-CTCCACTGGAAATGTTGAGCCACCTCCTTAT
131 CCCTCGTTGGATGAGTTCTTCTCATTATGAA-ATCTCCACTGGAAATGTTGAGCCACCTCCTTAT
5945550 GTGATGAAATTGAA
195 GTGATGAAATTGAA
* * * * *
5945564 CCAAGTTTGAACAAGTTCTTCTCATTATTAATTTCTACTCCCTCGTTAGATGAGTTTTTCTCATT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTACTCCCTCGTTAAATGAGTTATTCTCATT
** *
5945629 ATGAACTCTACACTGGAACTGTTGATCCAAGGTTTATA-AAGTTCTTCTCATTATAAACTTCTTA
66 ATGAACTCTACACTGGAACTGTTGAGACAAGGTTGA-ACAAGTTCTTCTCATTATAAACTTCTTA
5945693 TCCCTCGTTGGATGAGTTCTTCTCATTATGAAATCTCCACTGGAAATGTTGAG
130 TCCCTCGTTGGATGAGTTCTTCTCATTATGAAATCTCCACTGGAAATGTTGAG
5945746 GCAATGTTGA
Statistics
Matches: 164, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
207 1 0.01
208 162 0.99
209 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (208 bp):
CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTACTCCCTCGTTAAATGAGTTATTCTCATT
ATGAACTCTACACTGGAACTGTTGAGACAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTAT
CCCTCGTTGGATGAGTTCTTCTCATTATGAAATCTCCACTGGAAATGTTGAGCCACCTCCTTATG
TGATGAAATTGAA
Found at i:5946730 original size:54 final size:55
Alignment explanation
Indices: 5946697--5946989 Score: 300
Period size: 54 Copynumber: 5.4 Consensus size: 55
5946687 AAATTAGCCC
5946697 TAGCTTCTTTCAAAAATTCATTTAAAGACATCAAGAAACCCCTGAAAATCAGGCT
1 TAGCTTCTTTCAAAAATTCATTTAAAGACATCAAGAAACCCCTGAAAATCAGGCT
* * *
5946752 TAGATTCATTT-AAAAAAT-ATTTGGAGATA-ATCATCAAGAAACCCCTGAAAATCAAGG-A
1 TAGCTTC-TTTCAAAAATTCATTT--A-A-AGA-CATCAAGAAACCCCTGAAAATC-AGGCT
* * * * *
5946810 TAGTTTCTTTCAAAAATTC-GTTAAAAACATCAAGAAACTCTTGAAAATCAGGCT
1 TAGCTTCTTTCAAAAATTCATTTAAAGACATCAAGAAACCCCTGAAAATCAGGCT
* * * * *
5946864 TAGCTCCTCTC-AAAATTCATTTGAAGACATCAAGAAACCCCTAAAAATCAGACT
1 TAGCTTCTTTCAAAAATTCATTTAAAGACATCAAGAAACCCCTGAAAATCAGGCT
* * * *
5946918 TAACTTCTTT-AAAAATTCATTTGAAGACATCAAGAGACCCATG--AATCAGGCT
1 TAGCTTCTTTCAAAAATTCATTTAAAGACATCAAGAAACCCCTGAAAATCAGGCT
5946970 TAGCTTCTTTC-AAAATTCAT
1 TAGCTTCTTTCAAAAATTCAT
5946990 ATGAAAACAT
Statistics
Matches: 197, Mismatches: 27, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
52 26 0.13
53 10 0.05
54 97 0.49
55 14 0.07
56 5 0.03
57 5 0.03
58 37 0.19
59 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (55 bp):
TAGCTTCTTTCAAAAATTCATTTAAAGACATCAAGAAACCCCTGAAAATCAGGCT
Found at i:5948879 original size:24 final size:23
Alignment explanation
Indices: 5948851--5948906 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
5948841 ATATATTTTC
5948851 TTTCTTCTTTCTTTC-GTCTCTCTT
1 TTTCTTCTTT-TTTCTGTCT-TCTT
*
5948875 TTTCTGACTTTTTTCTGTCTTCTT
1 TTTCT-TCTTTTTTCTGTCTTCTT
*
5948899 TTTTTTCT
1 TTTCTTCT
5948907 GTTATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 2 0.07
24 17 0.63
25 8 0.30
ACGTcount: A:0.02, C:0.23, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTCTTCTTTTTTCTGTCTTCTT
Found at i:5948962 original size:21 final size:20
Alignment explanation
Indices: 5948938--5948979 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
5948928 GATCTCTTTC
5948938 TATTTT-TTTCCTTTTTATCTT
1 TATTTTCTTT-CTTTTT-TCTT
5948959 TATTTTCTTTCTTTTTTCTT
1 TATTTTCTTTCTTTTTTCTT
5948979 T
1 T
5948980 TCTATCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (20 bp):
TATTTTCTTTCTTTTTTCTT
Found at i:5949270 original size:2 final size:2
Alignment explanation
Indices: 5949263--5949354 Score: 184
Period size: 2 Copynumber: 46.0 Consensus size: 2
5949253 GGACAACAAG
5949263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5949305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5949347 AT AT AT AT
1 AT AT AT AT
5949355 GAAAGGATAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 90 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5953106 original size:33 final size:31
Alignment explanation
Indices: 5953029--5953110 Score: 74
Period size: 33 Copynumber: 2.5 Consensus size: 31
5953019 TGCTAAAATG
** *
5953029 AATAAACATAAAAATTAGTGACTAAATTTGAACA
1 AATAAA-AT-AAAA-TAGTGACTAAATTAAAAAA
*
5953063 AATGAGAATAATAATAGTGACTAAATTAAAATAA
1 AAT-AAAATAA-AATAGTGACTAAATTAAAA-AA
5953097 AATAAAATAAAATA
1 AATAAAATAAAATA
5953111 AAGTGATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
32 4 0.10
33 23 0.57
34 11 0.28
35 2 0.05
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.26
Consensus pattern (31 bp):
AATAAAATAAAATAGTGACTAAATTAAAAAA
Found at i:5955897 original size:2 final size:2
Alignment explanation
Indices: 5955890--5955952 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
5955880 CATTCTTTAT
5955890 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5955932 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
5955953 TTCATTCTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5956000 original size:6 final size:6
Alignment explanation
Indices: 5955985--5956015 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5955975 TAGATTCTAT
*
5955985 TGTATG TGTATA TGTATA TGTATA TGTATA T
1 TGTATA TGTATA TGTATA TGTATA TGTATA T
5956016 ATATCCTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (6 bp):
TGTATA
Found at i:5959469 original size:27 final size:27
Alignment explanation
Indices: 5959414--5959489 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 27
5959404 AAAGCAAAAT
*
5959414 AAAAAATAAAAGGAAAAGGAAAAGGAA
1 AAAAAATAAAAGGAAAAGAAAAAGGAA
* *
5959441 AAAAAATAAAA-TAAAATAAAAAGGAA
1 AAAAAATAAAAGGAAAAGAAAAAGGAA
**
5959467 AAAAAGGAAAAGGAAAAGAAAAA
1 AAAAAATAAAAGGAAAAGAAAAA
5959490 ATGAAAATGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (27 bp):
AAAAAATAAAAGGAAAAGAAAAAGGAA
Found at i:5959490 original size:7 final size:7
Alignment explanation
Indices: 5959486--5959648 Score: 269
Period size: 7 Copynumber: 23.4 Consensus size: 7
5959476 AAGGAAAAGA
5959486 AAAAATG
1 AAAAATG
5959493 -AAAATG
1 AAAAATG
5959499 AAAAAATG
1 -AAAAATG
*
5959507 AAAAAAG
1 AAAAATG
5959514 -AAAA-G
1 AAAAATG
5959519 AAAAATG
1 AAAAATG
5959526 AAAAATG
1 AAAAATG
5959533 AAAAATG
1 AAAAATG
5959540 AAAAATG
1 AAAAATG
5959547 AAAAATG
1 AAAAATG
5959554 AAAAATG
1 AAAAATG
5959561 AAAAATG
1 AAAAATG
5959568 AAAAATG
1 AAAAATG
5959575 AAAAATG
1 AAAAATG
5959582 AAAAATG
1 AAAAATG
5959589 AAAAATG
1 AAAAATG
5959596 AAAAATG
1 AAAAATG
5959603 AAAAATG
1 AAAAATG
5959610 AAAAATG
1 AAAAATG
5959617 AAAAATG
1 AAAAATG
5959624 AAAAATG
1 AAAAATG
5959631 AAAAATG
1 AAAAATG
*
5959638 AGAAAAAG
1 A-AAAATG
5959646 AAA
1 AAA
5959649 GAAAAAGAAA
Statistics
Matches: 149, Mismatches: 2, Indels: 10
0.93 0.01 0.06
Matches are distributed among these distances:
5 1 0.01
6 14 0.09
7 122 0.82
8 12 0.08
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:5959657 original size:16 final size:17
Alignment explanation
Indices: 5959475--5959659 Score: 83
Period size: 21 Copynumber: 9.8 Consensus size: 17
5959465 AAAAAAAGGA
*
5959475 AAAGGAAAAGAAAAAATG
1 AAAGAAAAAG-AAAAATG
*
5959493 AAAATGAAAAAATGAAAAAAG
1 -AAA-G-AAAAA-GAAAAATG
5959514 AAAAGAAAAATGAAAAATG
1 -AAAGAAAAA-GAAAAATG
5959533 AAAAATGAAAAATGAAAAATG
1 --AAA-GAAAAA-GAAAAATG
5959554 AAAAATGAAAAATGAAAAATG
1 --AAA-GAAAAA-GAAAAATG
5959575 AAAAATGAAAAATGAAAAATG
1 --AAA-GAAAAA-GAAAAATG
5959596 AAAAATGAAAAATGAAAAATG
1 --AAA-GAAAAA-GAAAAATG
*
5959617 --A-AAAATGAAAAATG
1 AAAGAAAAAGAAAAATG
**
5959631 AAA-AATGAGAAAAA-G
1 AAAGAAAAAGAAAAATG
5959646 AAAGAAAAAGAAAA
1 AAAGAAAAAGAAAA
5959660 GATAATAAAA
Statistics
Matches: 149, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
14 8 0.05
15 8 0.05
16 17 0.11
17 1 0.01
19 16 0.11
20 6 0.04
21 92 0.62
22 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (17 bp):
AAAGAAAAAGAAAAATG
Found at i:5959669 original size:26 final size:25
Alignment explanation
Indices: 5959485--5959674 Score: 121
Period size: 28 Copynumber: 7.3 Consensus size: 25
5959475 AAAGGAAAAG
*
5959485 AAAAAATG-AAAATGAAAAAATGAA-A
1 AAAAAAAGAAAAATG-AAAAAT-AAGA
5959510 AAAGAAAAGAAAAATGAAAAATGAA-A
1 AAA-AAAAGAAAAATGAAAAAT-AAGA
5959536 AATGAAAAATGAAAAATGAAAAATGAA-A
1 AA--AAAAA-GAAAAATGAAAAAT-AAGA
5959564 AATGAAAAATGAAAAATGAAAAATGAA-A
1 AA--AAAAA-GAAAAATGAAAAAT-AAGA
5959592 AATGAAAAATGAAAAATGAAAAAT--G-
1 AA--AAAAA-GAAAAATGAAAAATAAGA
* *
5959617 -AAAAATGAAAAATGAAAAATGAGA
1 AAAAAAAGAAAAATGAAAAATAAGA
*
5959641 AAAAGAAAGAAAAA-GAAAAGATAATA
1 AAAA-AAAGAAAAATGAAAA-ATAAGA
5959667 AAAAAAAG
1 AAAAAAAG
5959675 GGTTTCAAGA
Statistics
Matches: 148, Mismatches: 5, Indels: 24
0.84 0.03 0.14
Matches are distributed among these distances:
21 14 0.09
22 4 0.03
23 1 0.01
24 1 0.01
25 15 0.10
26 32 0.22
27 10 0.07
28 71 0.48
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (25 bp):
AAAAAAAGAAAAATGAAAAATAAGA
Found at i:5961256 original size:136 final size:135
Alignment explanation
Indices: 5960949--5961257 Score: 433
Period size: 135 Copynumber: 2.3 Consensus size: 135
5960939 CAAATAACAA
* * * * * * * *
5960949 AACAGATCCCATGTCATTCTAGATTTGATATTTCCTGAGTAGTAGTGGAACAAGTTTGCCTCGAT
1 AACAGATCCCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAGTAGTAGAACAAGTCTGCCTCGAT
* * * *
5961014 TCAATTTTCCTTGAAGAACAGTGAAATGAATCAACGTCTTCAGATCTGATTTTCCATGAAGAATC
66 TCAATCTTCCTCGAAGAACAGTGAAATGAATCAACGTCTTCAAATCTGATTTTCCATGAAGAAAC
5961079 AGCGG
131 AGCGG
*
5961084 AACAGATCCCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAGTAGTAGAACAAGTCTGCCTTGAT
1 AACAGATCCCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAGTAGTAGAACAAGTCTGCCTCGAT
* *
5961149 TCAATCTT-CTCGAAAGAACAGTGGAATGAATCAACGTC-TCAAATAACTGATTTTCCCTGAAGA
66 TCAATCTTCCTCG-AAGAACAGTGAAATGAATCAACGTCTTCAAAT--CTGATTTTCCATGAAGA
5961212 AACAGCGG
128 AACAGCGG
*
5961220 AACATATCCCCTCTCTTTCCAGATTTGATCTTCCCTGA
1 AACAGATCCCCTCTCTTTCCAGATTTGATCTTCCCTGA
5961258 AGAATAGTGG
Statistics
Matches: 155, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
134 8 0.05
135 87 0.56
136 60 0.39
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (135 bp):
AACAGATCCCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAGTAGTAGAACAAGTCTGCCTCGAT
TCAATCTTCCTCGAAGAACAGTGAAATGAATCAACGTCTTCAAATCTGATTTTCCATGAAGAAAC
AGCGG
Found at i:5963737 original size:24 final size:24
Alignment explanation
Indices: 5963709--5963763 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
5963699 AGAGGTCATT
5963709 TATTATCGATTGGAAATCATTAGA
1 TATTATCGATTGGAAATCATTAGA
5963733 TATTATCGATTGGAAATCATTAGA
1 TATTATCGATTGGAAATCATTAGA
5963757 TATTATC
1 TATTATC
5963764 ATTTTCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (24 bp):
TATTATCGATTGGAAATCATTAGA
Found at i:5963760 original size:131 final size:130
Alignment explanation
Indices: 5963511--5963760 Score: 315
Period size: 131 Copynumber: 1.9 Consensus size: 130
5963501 ATCGATATTG
* *
5963511 AAAATAGTAATATATTTTCATTTCGGTTGGAGTAATAAATGATTGTTTCAAGGCATGAGAGGTAA
1 AAAATAGTAATATATCTTCATTTCGGTTGGAGTAATAAATGATTCTTTCAAGGCATGAGAGGTAA
* ** *****
5963576 TTTATTCTCGATTAGAAATCATTAGATATTACTTTTTTTTCTCGAATTAATATTGGTTTTTAAGA
66 TTTATTATCGATTAGAAATCATTAGATATTACGATTGGAAATC-AATTAATATTGGTTTTTAAGA
5963641 C
130 C
* * * *
5963642 AAAATAGTGATATCTCTTCATTTCGGTTGGGGTAATAAATGGATTCTTT-AAGGCATGAGAGGTC
1 AAAATAGTAATATATCTTCATTTCGGTTGGAGTAATAAAT-GATTCTTTCAAGGCATGAGAGGTA
*
5963706 ATTTATTATCGATTGGAAATCATTAGATATTATCGATTGGAAATC-ATTAGATATT
65 ATTTATTATCGATTAGAAATCATTAGATATTA-CGATTGGAAATCAATTA-ATATT
5963761 ATCATTTTCT
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
130 4 0.04
131 85 0.84
132 12 0.12
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (130 bp):
AAAATAGTAATATATCTTCATTTCGGTTGGAGTAATAAATGATTCTTTCAAGGCATGAGAGGTAA
TTTATTATCGATTAGAAATCATTAGATATTACGATTGGAAATCAATTAATATTGGTTTTTAAGAC
Found at i:5963865 original size:155 final size:155
Alignment explanation
Indices: 5963578--5963891 Score: 407
Period size: 155 Copynumber: 2.0 Consensus size: 155
5963568 AGAGGTAATT
* * * * **
5963578 TATTCTCGATTAGAAATCATTAGATATTACTTTTTTTTCTCGAATTAATATTGGTTTTTAAGACA
1 TATTATCGATTAGAAATCATTAGATATTACTATTTTCTCTCGAATCAATATTGAATTTTAAGACA
* ** * * *
5963643 AAATAGTGATATCTCTTCATTTCGGTTGGGGTAATAAATGGATTCTTTAAGGCATGAGAGGTCAT
66 AAATAGTGATATCTCTTCACTTCAATTGGAGTAATAAATGGATGCTTTAAGGAATGAGAGGTCAT
* *
5963708 TTATTATCGATTGGAAATCATTAGA
131 TTATTATCGATTAGAAATAATTAGA
* *
5963733 TATTATCGATTGGAAATCATTAGATATTA-TCATTTTCTCTTGAATCAATATTGAATTTTAAGAC
1 TATTATCGATTAGAAATCATTAGATATTACT-ATTTTCTCTCGAATCAATATTGAATTTTAAGAC
* * **
5963797 GAAATAGTGATATCTCTTCCCTTCAATTGGAGTAAT-AATTTACTGCTTTAAGGAATGAGAGGTC
65 AAAATAGTGATATCTCTTCACTTCAATTGGAGTAATAAATGGA-TGCTTTAAGGAATGAGAGGTC
*
5963861 ATTTATTCTCGATTAGAAATAATTAGA
129 ATTTATTATCGATTAGAAATAATTAGA
5963888 TATT
1 TATT
5963892 GTTGTTTTCT
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
154 5 0.04
155 131 0.96
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (155 bp):
TATTATCGATTAGAAATCATTAGATATTACTATTTTCTCTCGAATCAATATTGAATTTTAAGACA
AAATAGTGATATCTCTTCACTTCAATTGGAGTAATAAATGGATGCTTTAAGGAATGAGAGGTCAT
TTATTATCGATTAGAAATAATTAGA
Found at i:5966152 original size:21 final size:20
Alignment explanation
Indices: 5966110--5966183 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
5966100 GGAATCCAAC
* *
5966110 GGATAAATCCTTT-TCAAGG
1 GGATCAATCCTTTGTCAAAG
5966129 GGATGC-ATCCTTTAGTCAAAG
1 GGAT-CAATCCTTT-GTCAAAG
* *
5966150 GGATCAATCTTTTGGTTAAAG
1 GGATCAATCCTTT-GTCAAAG
*
5966171 GGATCGATCCTTT
1 GGATCAATCCTTT
5966184 TCTAATTGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 11 0.25
20 1 0.02
21 32 0.73
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (20 bp):
GGATCAATCCTTTGTCAAAG
Found at i:5966773 original size:7 final size:7
Alignment explanation
Indices: 5966737--5966783 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
5966727 CCAAAGTCAT
5966737 AATATCCA
1 AATA-CCA
*
5966745 AATA-AA
1 AATACCA
*
5966751 AATATCA
1 AATACCA
5966758 AAGTACCA
1 AA-TACCA
5966766 AATACCA
1 AATACCA
5966773 AATACCA
1 AATACCA
5966780 AATA
1 AATA
5966784 AAAACATAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
6 5 0.15
7 19 0.56
8 10 0.29
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (7 bp):
AATACCA
Found at i:5967475 original size:59 final size:59
Alignment explanation
Indices: 5967383--5967501 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
5967373 TATTGGATAC
5967383 AATACATCCACCAATAGTCACTATCGCTAACTATCAAGAATTTTGTGCCATAATCTCGA
1 AATACATCCACCAATAGTCACTATCGCTAACTATCAAGAATTTTGTGCCATAATCTCGA
5967442 AATACATCCACCAATAGTCACTATCGCTAACTATCAAGAATTTTGTGCCATAATCTCGA
1 AATACATCCACCAATAGTCACTATCGCTAACTATCAAGAATTTTGTGCCATAATCTCGA
5967501 A
1 A
5967502 TAACATGGGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (59 bp):
AATACATCCACCAATAGTCACTATCGCTAACTATCAAGAATTTTGTGCCATAATCTCGA
Found at i:5968636 original size:22 final size:21
Alignment explanation
Indices: 5968590--5968629 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5968580 ATCCATAGTA
*
5968590 AAAAGAGATCGATTATTTTAT
1 AAAAGAGATCAATTATTTTAT
*
5968611 AAAATAGATCAATTATTTT
1 AAAAGAGATCAATTATTTT
5968630 TCTAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (21 bp):
AAAAGAGATCAATTATTTTAT
Found at i:5969983 original size:23 final size:22
Alignment explanation
Indices: 5969916--5969985 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 22
5969906 CATATATAAT
*
5969916 ATATCATAATATATGTATGAAAA
1 ATATCATAATATAT-TAAGAAAA
* *
5969939 ATAATCTCTAATAT-TT-A-TAAA
1 AT-ATC-ATAATATATTAAGAAAA
5969960 ATATCATAATATATATAAGAAAA
1 ATATCATAATATAT-TAAGAAAA
5969983 ATA
1 ATA
5969986 ATGTTAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
19 6 0.17
20 4 0.11
21 6 0.17
22 1 0.03
23 9 0.25
24 4 0.11
25 6 0.17
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATCATAATATATTAAGAAAA
Found at i:5977371 original size:12 final size:12
Alignment explanation
Indices: 5977344--5977387 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
5977334 GAGTTAGCAT
*
5977344 ATTTTCATTCTAC
1 ATTTGCATT-TAC
*
5977357 ATTTGTATTTAC
1 ATTTGCATTTAC
5977369 ATTTGCATTTAC
1 ATTTGCATTTAC
*
5977381 AATTGCA
1 ATTTGCA
5977388 CTTGCATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.50
Consensus pattern (12 bp):
ATTTGCATTTAC
Found at i:5986093 original size:20 final size:20
Alignment explanation
Indices: 5986070--5986114 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
5986060 AAAAGTATTA
5986070 ATACCATA-TAGAGGGTATCG
1 ATACCATAGTA-AGGGTATCG
*
5986090 ATACCCTAGGTAAGGGTATCG
1 ATACCATA-GTAAGGGTATCG
5986111 ATAC
1 ATAC
5986115 TCACCTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 13 0.59
22 2 0.09
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (20 bp):
ATACCATAGTAAGGGTATCG
Found at i:5988820 original size:20 final size:21
Alignment explanation
Indices: 5988791--5988841 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
5988781 ACTCATGGGA
*
5988791 GTATTAATA-CCTTGGTGAGG
1 GTATTAATACCCTTGGTAAGG
*
5988811 GTATTGATACCCTTGGTAAGG
1 GTATTAATACCCTTGGTAAGG
*
5988832 GTATCAATAC
1 GTATTAATAC
5988842 TTGACTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (21 bp):
GTATTAATACCCTTGGTAAGG
Found at i:5989593 original size:20 final size:19
Alignment explanation
Indices: 5989568--5989617 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
5989558 AAGAAGTAAG
5989568 ATAAAGACAATAAAGATAAA
1 ATAAAGACAATAAA-ATAAA
* *
5989588 ATAAAGATAATGAAATAAA
1 ATAAAGACAATAAAATAAA
**
5989607 ACGAAGACAAT
1 ATAAAGACAAT
5989618 GAATGTAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.66, C:0.06, G:0.12, T:0.16
Consensus pattern (19 bp):
ATAAAGACAATAAAATAAA
Found at i:5991236 original size:25 final size:25
Alignment explanation
Indices: 5991208--5991259 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
5991198 TGGATTTGAA
5991208 TTGAATAAAATAGTGAAGGACCATT
1 TTGAATAAAATAGTGAAGGACCATT
*
5991233 TTGAATAAAATGGTGAAGGACCATT
1 TTGAATAAAATAGTGAAGGACCATT
5991258 TT
1 TT
5991260 ATATTAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (25 bp):
TTGAATAAAATAGTGAAGGACCATT
Found at i:5992205 original size:12 final size:12
Alignment explanation
Indices: 5992188--5992212 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5992178 CTGACATAAT
5992188 TTTATAAAATCA
1 TTTATAAAATCA
5992200 TTTATAAAATCA
1 TTTATAAAATCA
5992212 T
1 T
5992213 GAGATATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTATAAAATCA
Found at i:5993641 original size:36 final size:38
Alignment explanation
Indices: 5993587--5993754 Score: 75
Period size: 38 Copynumber: 4.5 Consensus size: 38
5993577 TAAATTTTTT
* * * *
5993587 ATCTCGCTCAAGATAGTTTTCCT-TAAA-ACAAGTTTC
1 ATCTCACTCGAGACAGTTTTCCTATAAAGACAAATTTC
* *
5993623 ATCTCACTCGAGACAG-TTT-CTATCGAAATA-AATCTTTC
1 ATCTCACTCGAGACAGTTTTCCTAT--AAAGACAA-ATTTC
* ** * ** * *
5993661 ATCTTACTTTAGATAG-TTTCTCTCGAAAGAAAAATTTT
1 ATCTCACTCGAGACAGTTTTC-CTATAAAGACAAATTTC
* *
5993699 ATCTCACTTGAGATACA-TTTTCCT-TAAA-ACAATTTTC
1 ATCTCACTCGAG--ACAGTTTTCCTATAAAGACAAATTTC
5993736 ATCTCACTCGAGACAGTTT
1 ATCTCACTCGAGACAGTTT
5993755 CTCTCGAAAC
Statistics
Matches: 99, Mismatches: 21, Indels: 24
0.69 0.15 0.17
Matches are distributed among these distances:
34 2 0.02
35 7 0.07
36 16 0.16
37 22 0.22
38 40 0.40
39 4 0.04
40 8 0.08
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (38 bp):
ATCTCACTCGAGACAGTTTTCCTATAAAGACAAATTTC
Found at i:5993663 original size:38 final size:37
Alignment explanation
Indices: 5993619--5993786 Score: 151
Period size: 38 Copynumber: 4.5 Consensus size: 37
5993609 TTAAAACAAG
* * **
5993619 TTTCATCTCACTCGAGACAGTTTCTATCGAAATAAATC
1 TTTCATCTCACTTGAGACAGTTTCTCTCGAAA-AAAAA
* * *
5993657 TTTCATCTTACTTTAGATAGTTTCTCTCGAAAGAAAAA
1 TTTCATCTCACTTGAGACAGTTTCTCTCGAAA-AAAAA
* * * * *
5993695 TTTTATCTCACTTGAGATACATTTTC-CT-TAAAACAAT
1 TTTCATCTCACTTGAG--ACAGTTTCTCTCGAAAAAAAA
*
5993732 TTTCATCTCACTCGAGACAGTTTCTCTCGAAACAAAAA
1 TTTCATCTCACTTGAGACAGTTTCTCTCGAAA-AAAAA
*
5993770 TTTTATCTCACTTGAGA
1 TTTCATCTCACTTGAGA
5993787 AAATTTTCCT
Statistics
Matches: 101, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
35 7 0.07
36 2 0.02
37 20 0.20
38 64 0.63
39 2 0.02
40 6 0.06
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (37 bp):
TTTCATCTCACTTGAGACAGTTTCTCTCGAAAAAAAA
Found at i:5993675 original size:74 final size:73
Alignment explanation
Indices: 5993366--5993679 Score: 260
Period size: 73 Copynumber: 4.3 Consensus size: 73
5993356 ATAATAAAAA
* * * * * ** *
5993366 TTATCTCAGTTAAGATAGTTTTCTTTAAAACAAGTTTCGTCTCACTTGAGACAACTT-TCTGGAA
1 TTATCTCACTTTAGATAGTTTTCCTTAAAACAAGTTTCATCTCACTCGAGACAGTTTCTCTCGAA
5993430 ATAAAATTT
66 AT-AAATTT
* * * **
5993439 TTATCGCACTTGAGATAGTTTTCCTTAAAATAAGTTTCATCTCACTCGAGTTAGTTTCTCTC-AA
1 TTATCTCACTTTAGATAGTTTTCCTTAAAACAAGTTTCATCTCACTCGAGACAGTTTCTCTCGAA
* *
5993503 ACAAAAGTT
66 A-TAAATTT
* * * ** ** * * *
5993512 TTATCTC-GTTTGAGATTGTTTTCTCTT-GAA-ATTTTTTGTCTCACTTGAGATAGTTTCTCCCG
1 TTATCTCACTTT-AGATAGTTTTC-CTTAAAACAAGTTTCATCTCACTCGAGACAGTTTCTCTCG
5993574 AAATAAATTTT
64 AAATAAA-TTT
* ** *
5993585 TTATCTCGCTCAAGATAGTTTTCCTTAAAACAAGTTTCATCTCACTCGAGACAGTTTCTATCGAA
1 TTATCTCACTTTAGATAGTTTTCCTTAAAACAAGTTTCATCTCACTCGAGACAGTTTCTCTCGAA
5993650 ATAAATCTT
66 ATAAAT-TT
* *
5993659 TCATCTTACTTTAGATAGTTT
1 TTATCTCACTTTAGATAGTTT
5993680 CTCTCGAAAG
Statistics
Matches: 185, Mismatches: 46, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
72 32 0.17
73 97 0.52
74 56 0.30
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (73 bp):
TTATCTCACTTTAGATAGTTTTCCTTAAAACAAGTTTCATCTCACTCGAGACAGTTTCTCTCGAA
ATAAATTT
Found at i:5993747 original size:113 final size:112
Alignment explanation
Indices: 5993554--5993786 Score: 313
Period size: 113 Copynumber: 2.1 Consensus size: 112
5993544 TTTTTGTCTC
* ** * *
5993554 ACTTGAGATAGTTTCTCCCGAAATAAATTTTTTATCTCGCTCAAGATAGTTTTCCTTAAAACAAG
1 ACTTGAGATAGTTTCTCCCGAAAGAAAAATTTTATCTCACTCAAGATAATTTTCCTTAAAACAAG
5993619 TTTCATCTCACTCGAGACAGTTTCTATCGAAATAAATCTTTCATCTT
66 TTTCATCTCACTCGAGACAGTTTCTATCGAAATAAATCTTTCATCTT
* * **
5993666 ACTTTAGATAGTTTCTCTCGAAAGAAAAATTTTATCTCACTTGAGATACATTTTCCTTAAAACAA
1 ACTTGAGATAGTTTCTCCCGAAAGAAAAATTTTATCTCACTCAAGATA-ATTTTCCTTAAAACAA
* * * ** * *
5993731 TTTTCATCTCACTCGAGACAGTTTCTCTCGAAACAAAAATTTTATCTC
65 GTTTCATCTCACTCGAGACAGTTTCTATCGAAATAAATCTTTCATCTT
5993779 ACTTGAGA
1 ACTTGAGA
5993787 AAATTTTCCT
Statistics
Matches: 103, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
112 40 0.39
113 63 0.61
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (112 bp):
ACTTGAGATAGTTTCTCCCGAAAGAAAAATTTTATCTCACTCAAGATAATTTTCCTTAAAACAAG
TTTCATCTCACTCGAGACAGTTTCTATCGAAATAAATCTTTCATCTT
Found at i:5993808 original size:75 final size:75
Alignment explanation
Indices: 5993648--5993809 Score: 229
Period size: 75 Copynumber: 2.1 Consensus size: 75
5993638 GTTTCTATCG
* ** * *
5993648 AAATAAATCTTTCATCTTACTTTAGATAGTTTCTCTCGAAAGAAAAATTTTATCTCACTTGAGAT
1 AAATAAAT-TTTCATCTCACTCGAGACAGTTTCTCTCGAAACAAAAATTTTATCTCACTTGAGAT
*
5993713 ACATTTTCCTT
65 AAATTTTCCTT
5993724 AAA-ACAATTTTCATCTCACTCGAGACAGTTTCTCTCGAAACAAAAATTTTATCTCACTTGAGA-
1 AAATA-AATTTTCATCTCACTCGAGACAGTTTCTCTCGAAACAAAAATTTTATCTCACTTGAGAT
5993787 AAATTTTCCTT
65 AAATTTTCCTT
5993798 CAAATAAATTTT
1 -AAATAAATTTT
5993810 GTCTGACTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
74 10 0.13
75 60 0.78
76 7 0.09
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (75 bp):
AAATAAATTTTCATCTCACTCGAGACAGTTTCTCTCGAAACAAAAATTTTATCTCACTTGAGATA
AATTTTCCTT
Found at i:5994371 original size:272 final size:272
Alignment explanation
Indices: 5993894--5994399 Score: 626
Period size: 272 Copynumber: 1.9 Consensus size: 272
5993884 CATGGAGGAG
* * *** *
5993894 TTATTTTACTGCCAAGGTTTTCGAGTAAAATTTCAATTTTGTGGCAAAGAATATTCAACTCAAAG
1 TTATTTTACAGCCAAGGTTTTCGAGTAAAATTTCAACTTCACGGCAAAGAATATTCAACTCAAAA
* **
5993959 AACACCCAAAATTGACATAACTCATAATAGAGGATTCATCTGCAATCTAGCTTAACTCAATAGCA
66 AACACCCAAAATCGACATAACTCATAATAGAGGAGACATCTGCAATCTAGCTTAACTCAATAGCA
* * * * * * * * *
5994024 ATGAAAAATTTTCCAGTTAAAGTTTTTGAAGACTAATTTTAACTTTACATCGAAGGATATTGGAT
131 ATGAAAAATTTTCCAATCAAAGTCTTTGAAAACCAATTCTAACTTCACACCGAAGGATATTAGAT
*
5994089 TCGAAAGTAATTTCAAATTCAACTTAACTT-GTAATGGAGATATAGTCTGTAATTTTGTTTAACT
196 TCGAAAGTAATTTCAAAATCAACTTAA-TTGGTAATGGAGATATAGTCTGTAATTTTGTTTAACT
5994153 CTGCAGCGTGGAA
260 CTGCAGCGTGGAA
* * * ** * *
5994166 TTATTTTCCAGCCAAGGTTTTCGAGTTAAATTTTAACTTCACGGTGAAGGATATTCAACTTAAAA
1 TTATTTTACAGCCAAGGTTTTCGAGTAAAATTTCAACTTCACGGCAAAGAATATTCAACTCAAAA
* * * * *
5994231 AACACCTAAAATCGACCTAACTTGA-AATGGAGGAGACATCTGCAATCTAGTTTAACTC-A-A-C
66 AACACCCAAAATCGACATAAC-TCATAATAGAGGAGACATCTGCAATCTAGCTTAACTCAATAGC
*
5994292 AATGAGAAACTATTTTTCAATCAAAGTCTTTGAAAACCAATTCTAACTTCACACCGAAGGATATT
130 AATGA-AAA--ATTTTCCAATCAAAGTCTTTGAAAACCAATTCTAACTTCACACCGAAGGATATT
* *
5994357 AGATTCGGAAGTAATTTCAAAATCGACTTAATTGGTAATGGAG
192 AGATTCGAAAGTAATTTCAAAATCAACTTAATTGGTAATGGAG
5994400 GAGTTGTCTA
Statistics
Matches: 195, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
269 6 0.03
270 4 0.02
271 3 0.02
272 180 0.92
273 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (272 bp):
TTATTTTACAGCCAAGGTTTTCGAGTAAAATTTCAACTTCACGGCAAAGAATATTCAACTCAAAA
AACACCCAAAATCGACATAACTCATAATAGAGGAGACATCTGCAATCTAGCTTAACTCAATAGCA
ATGAAAAATTTTCCAATCAAAGTCTTTGAAAACCAATTCTAACTTCACACCGAAGGATATTAGAT
TCGAAAGTAATTTCAAAATCAACTTAATTGGTAATGGAGATATAGTCTGTAATTTTGTTTAACTC
TGCAGCGTGGAA
Found at i:5994488 original size:272 final size:272
Alignment explanation
Indices: 5993944--5994492 Score: 576
Period size: 272 Copynumber: 2.0 Consensus size: 272
5993934 GTGGCAAAGA
* * **
5993944 ATATTCAACTCAAAGAACACCCAAAATTGACATAACTCATAATAGAGGATTCATCTGCAATCTAG
1 ATATTCAACTCAAAAAACACCCAAAATCGACATAACTCATAATAGAGGAGACATCTGCAATCTAG
* * * * * * * *
5994009 CTTAACTCAATAGCAATGAAAAATTTTCCAGTTAAAGTTTTTGAAGACTAATTTTAACTTTACAT
66 CTTAACTCAATAGCAATGAAAAATTTTCCAATCAAAGTCTTTGAAAACCAATTCTAACTTCACAC
* * **
5994074 CGAAGGATATTGGATTCGAAAGTAATTTCAAATTCAACTTAACTTGTAATGGAGATATAGTCTGT
131 CGAAGGATATTAGATTCGAAAGTAATTTCAAAATCAACTTAACTTGTAATGGAGATATAGTCTAC
* * * ** * * * * *
5994139 AATTTTGTTTAACTCTGCAGCGTGGAATTATTTTCCAGCCAAGGTTTTCGAGTTAAATTTTAACT
196 AATCTAGCTTAACTCAACAACATGGAACTATTTTCCAGCCAAGGTTTTCGAGTCAAATTTCAACT
*
5994204 TCACGGTGAAGG
261 TCACGATGAAGG
* * * * *
5994216 ATATTCAACTTAAAAAACACCTAAAATCGACCTAACTTGA-AATGGAGGAGACATCTGCAATCTA
1 ATATTCAACTCAAAAAACACCCAAAATCGACATAAC-TCATAATAGAGGAGACATCTGCAATCTA
* *
5994280 GTTTAACTC-A-A-CAATGAGAAACTATTTTTCAATCAAAGTCTTTGAAAACCAATTCTAACTTC
65 GCTTAACTCAATAGCAATGA-AAA--ATTTTCCAATCAAAGTCTTTGAAAACCAATTCTAACTTC
* *
5994342 ACACCGAAGGATATTAGATTCGGAAGTAATTTCAAAATCGACTTAA-TTGGTAATGGAGGAGT-T
127 ACACCGAAGGATATTAGATTCGAAAGTAATTTCAAAATCAACTTAACTT-GTAATGGA-GA-TAT
* * * * *
5994405 -GTCTACAATCTAGCTTAACTCAACAACAAT-GAGCTATTTTTCAGTCTAGAGTTTT-TAGTCAA
189 AGTCTACAATCTAGCTTAACTCAACAAC-ATGGAACTATTTTCCAGCCAAG-GTTTTCGAGTCAA
*
5994467 ATTTCAACTTCATGATGAAGG
252 ATTTCAACTTCACGATGAAGG
5994488 ATATT
1 ATATT
5994493 TGGATTCAAA
Statistics
Matches: 226, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
269 6 0.03
270 4 0.02
271 3 0.01
272 201 0.89
273 11 0.05
274 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (272 bp):
ATATTCAACTCAAAAAACACCCAAAATCGACATAACTCATAATAGAGGAGACATCTGCAATCTAG
CTTAACTCAATAGCAATGAAAAATTTTCCAATCAAAGTCTTTGAAAACCAATTCTAACTTCACAC
CGAAGGATATTAGATTCGAAAGTAATTTCAAAATCAACTTAACTTGTAATGGAGATATAGTCTAC
AATCTAGCTTAACTCAACAACATGGAACTATTTTCCAGCCAAGGTTTTCGAGTCAAATTTCAACT
TCACGATGAAGG
Found at i:5994696 original size:34 final size:34
Alignment explanation
Indices: 5994658--5994746 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
5994648 CTCAAAGGGC
*
5994658 AGTCACCCACAACTTGACTTAACTCGCT-AAGAGG
1 AGTCAACCACAACTTGACTTAACTCG-TAAAGAGG
* *
5994692 AGTCATCCACTACTTGACTTAACTCGTAAAAGAGG
1 AGTCAACCACAACTTGACTTAACTCGT-AAAGAGG
* *
5994727 AGTCAACCTCAACTTCACTT
1 AGTCAACCACAACTTGACTT
5994747 TCTCGAATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.02
34 24 0.51
35 22 0.47
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (34 bp):
AGTCAACCACAACTTGACTTAACTCGTAAAGAGG
Found at i:6001054 original size:21 final size:21
Alignment explanation
Indices: 6001015--6001064 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
6001005 TAATCTACCC
* *
6001015 TTTAATTTTTTTTATTTTTCA
1 TTTAATTTTTCTTACTTTTCA
* *
6001036 TTTAATTTTTCTTCCTTTTGA
1 TTTAATTTTTCTTACTTTTCA
6001057 -TTAATTTT
1 TTTAATTTT
6001065 ATTTGATCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTAATTTTTCTTACTTTTCA
Found at i:6005138 original size:22 final size:22
Alignment explanation
Indices: 6005120--6005182 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
6005110 TTTAAATTTG
6005120 GATCCAAAATCCAGAAAATATA
1 GATCCAAAATCCAGAAAATATA
6005142 GATCCAAAATCCAGAAAATATA
1 GATCCAAAATCCAGAAAATATA
**
6005164 GATCCAAAATATAGAAAAT
1 GATCCAAAATCCAGAAAAT
6005183 GTAAATTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.56, C:0.16, G:0.10, T:0.19
Consensus pattern (22 bp):
GATCCAAAATCCAGAAAATATA
Found at i:6010611 original size:2 final size:2
Alignment explanation
Indices: 6010604--6010628 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6010594 TCAATCTACA
6010604 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 A
6010629 ATTTACGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6010808 original size:13 final size:13
Alignment explanation
Indices: 6010789--6010836 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
6010779 ACGCGCAATA
6010789 AGCGTCATAAATG
1 AGCGTCATAAATG
*
6010802 CGCGTCATAAATG
1 AGCGTCATAAATG
*
6010815 AGTGTCATAAATG
1 AGCGTCATAAATG
*
6010828 TGCGTCATA
1 AGCGTCATA
6010837 GATTTATGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (13 bp):
AGCGTCATAAATG
Found at i:6026996 original size:12 final size:14
Alignment explanation
Indices: 6026937--6027001 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 14
6026927 ATGAGAATAT
6026937 ATAATAAA-ATAAA
1 ATAATAAAGATAAA
* * *
6026950 ATAATTAA-TTAATT
1 ATAATAAAGATAA-A
*
6026964 ATAA-AAAGAAAAA
1 ATAATAAAGATAAA
6026977 ATAATAAA-ATAAA
1 ATAATAAAGATAAA
6026990 A-AATAAAGATAA
1 ATAATAAAGATAA
6027002 TGCTAAAGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
12 6 0.15
13 25 0.62
14 9 0.22
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
ATAATAAAGATAAA
Found at i:6027016 original size:40 final size:40
Alignment explanation
Indices: 6026937--6027017 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
6026927 ATGAGAATAT
* * *
6026937 ATAATAAAATAAAATAATTAATTAATTATAAAAAGAAAAA
1 ATAATAAAATAAAATAATAAAATAATGATAAAAAGAAAAA
* * *
6026977 ATAATAAAATAAAA-AATAAAGATAATGCTAAAGATAAAAA
1 ATAATAAAATAAAATAATAAA-ATAATGATAAAAAGAAAAA
6027017 A
1 A
6027018 GGGTTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 5 0.15
40 29 0.85
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.23
Consensus pattern (40 bp):
ATAATAAAATAAAATAATAAAATAATGATAAAAAGAAAAA
Found at i:6029691 original size:5 final size:5
Alignment explanation
Indices: 6029683--6029707 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6029673 TAAGCAGCTG
6029683 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
6029708 CGGAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:6037863 original size:45 final size:45
Alignment explanation
Indices: 6037794--6038108 Score: 386
Period size: 45 Copynumber: 7.0 Consensus size: 45
6037784 ACCTTGAGTG
* *
6037794 GCACCTTTTATGTCGTTAATGCACCGTTATGCATTTTCATTAGTA
1 GCACATTTTATGTCGATAATGCACCGTTATGCATTTTCATTAGTA
* * * * *
6037839 TCACATTTTATTTCGTTAATGCACCATTATGCATTTTCATTATTA
1 GCACATTTTATGTCGATAATGCACCGTTATGCATTTTCATTAGTA
* * ** *
6037884 GAACCTTTTATG-CTGATAATGCACCGTTAAACATTTTCATTAGTG
1 GCACATTTTATGTC-GATAATGCACCGTTATGCATTTTCATTAGTA
*
6037929 GCACATTTTATGACGATAATGCACCGTTATGCATTTTCATTAGT-
1 GCACATTTTATGTCGATAATGCACCGTTATGCATTTTCATTAGTA
* * * * *
6037973 GACACCTTTTATGCCGATAATACACTGTTATGCATTTTCATTAGTG
1 G-CACATTTTATGTCGATAATGCACCGTTATGCATTTTCATTAGTA
*
6038019 GCACATTTTATGTCGATAATGCACCGTTATACATTTTCATTAGT-
1 GCACATTTTATGTCGATAATGCACCGTTATGCATTTTCATTAGTA
*
6038063 GTCACATTTTATGCCGATAATGCACCGTTATG-ACTTTTCATTAGTA
1 G-CACATTTTATGTCGATAATGCACCGTTATGCA-TTTTCATTAGTA
6038109 TTTTTCCATT
Statistics
Matches: 233, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
44 4 0.02
45 227 0.97
46 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (45 bp):
GCACATTTTATGTCGATAATGCACCGTTATGCATTTTCATTAGTA
Found at i:6038037 original size:135 final size:135
Alignment explanation
Indices: 6037790--6038109 Score: 439
Period size: 135 Copynumber: 2.4 Consensus size: 135
6037780 GAATACCTTG
* * * ** *
6037790 AGTGGCACCTTTTATGTCGTTAATGCACCGTTATGCATTTTCATTAGTATCACATTTTATTTCGT
1 AGTGGCACATTTTATGACGATAATGCACCGTTATGCATTTTCATTAGTATCACATTTTATGCCGA
* * *
6037855 TAATGCACCATTATGCATTTTCATTATTAGAACCTTTTATGCTGATAATGCACCGTTAAACATTT
66 TAATACACCATTATGCATTTTCATTAGTAGAACATTTTATGCTGATAATGCACCGTTAAACATTT
6037920 TCATT
131 TCATT
*
6037925 AGTGGCACATTTTATGACGATAATGCACCGTTATGCATTTTCATTAGTGA-CACCTTTTATGCCG
1 AGTGGCACATTTTATGACGATAATGCACCGTTATGCATTTTCATTAGT-ATCACATTTTATGCCG
** * * *
6037989 ATAATACACTGTTATGCATTTTCATTAGTGGCACATTTTATG-TCGATAATGCACCGTTATACAT
65 ATAATACACCATTATGCATTTTCATTAGTAGAACATTTTATGCT-GATAATGCACCGTTAAACAT
6038053 TTTCATT
129 TTTCATT
* *
6038060 AGTGTCACATTTTATGCCGATAATGCACCGTTATG-ACTTTTCATTAGTAT
1 AGTGGCACATTTTATGACGATAATGCACCGTTATGCA-TTTTCATTAGTAT
6038110 TTTTCCATTC
Statistics
Matches: 164, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
134 3 0.02
135 160 0.98
136 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (135 bp):
AGTGGCACATTTTATGACGATAATGCACCGTTATGCATTTTCATTAGTATCACATTTTATGCCGA
TAATACACCATTATGCATTTTCATTAGTAGAACATTTTATGCTGATAATGCACCGTTAAACATTT
TCATT
Found at i:6046645 original size:23 final size:21
Alignment explanation
Indices: 6046593--6046653 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 21
6046583 TTTTGGTGCA
* *
6046593 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCATT
6046613 GAGGGAACCGATTCCCCCATT
1 GAGGGAACCGATTCCCCCATT
6046634 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
6046654 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCATT
Found at i:6046662 original size:21 final size:21
Alignment explanation
Indices: 6046636--6046675 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6046626 CCCCCATTGA
*
6046636 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
6046657 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
6046676 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:6053529 original size:3 final size:3
Alignment explanation
Indices: 6053521--6053554 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
6053511 TTTCTAGGAC
*
6053521 ATA ATA ATA ATA AAA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6053555 AGTTAGTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:6054398 original size:45 final size:45
Alignment explanation
Indices: 6054343--6054614 Score: 397
Period size: 45 Copynumber: 6.0 Consensus size: 45
6054333 GAATACCATG
*
6054343 AGTGGCACCTTTTATGTCGTTAATGCACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTCGATAATGCACCGTTATGCATTTTCATT
* * * *
6054388 AGTGGTACCTTTTATGTCGTTAATGCATCGTTATGCAATTTCATT
1 AGTGGCACCTTTTATGTCGATAATGCACCGTTATGCATTTTCATT
*
6054433 AGTGGTACCTTTTATG-CGGATAATGCACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTC-GATAATGCACCGTTATGCATTTTCATT
* * * *
6054478 AATGGCACAC-TTTATATCGATAATGAACCGTTATACATTTTCATT
1 AGTGGCAC-CTTTTATGTCGATAATGCACCGTTATGCATTTTCATT
6054523 AGTGGCACCTTTTATGTCGATAATGCACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTCGATAATGCACCGTTATGCATTTTCATT
*
6054568 AGTGGCACATTTTATG-CTGATAATGCACCGTTATGCATTTTCATT
1 AGTGGCACCTTTTATGTC-GATAATGCACCGTTATGCATTTTCATT
6054613 AG
1 AG
6054615 CGTTCATCCA
Statistics
Matches: 206, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
44 3 0.01
45 201 0.98
46 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (45 bp):
AGTGGCACCTTTTATGTCGATAATGCACCGTTATGCATTTTCATT
Found at i:6055696 original size:27 final size:27
Alignment explanation
Indices: 6055657--6055723 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
6055647 GATAATGGCT
6055657 CTGAATCATTCAGAATGTACTTTGATG
1 CTGAATCATTCAGAATGTACTTTGATG
* *
6055684 TTGAATAATTCAGAATGTACTTTGATG
1 CTGAATCATTCAGAATGTACTTTGATG
6055711 CTGAATCATTCAG
1 CTGAATCATTCAG
6055724 CACTGTTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTTGATG
Found at i:6056084 original size:8 final size:8
Alignment explanation
Indices: 6056067--6056098 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
6056057 AAATTTTAAA
6056067 TTCA-TCT
1 TTCATTCT
6056074 TTCATTCT
1 TTCATTCT
6056082 TTCATTCT
1 TTCATTCT
6056090 TTCATTCT
1 TTCATTCT
6056098 T
1 T
6056099 ACTAATTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.62
Consensus pattern (8 bp):
TTCATTCT
Found at i:6057185 original size:23 final size:23
Alignment explanation
Indices: 6057159--6057259 Score: 55
Period size: 23 Copynumber: 4.4 Consensus size: 23
6057149 CACCAAAGTG
6057159 CCACGTAGAAATGTCTCAAAGGA
1 CCACGTAGAAATGTCTCAAAGGA
** * * *
6057182 CCACACAGATATGT-TCCGAATGA
1 CCACGTAGAAATGTCT-CAAAGGA
* * *
6057205 CCACATAGATATGTC-CTGAAGGA
1 CCACGTAGAAATGTCTC-AAAGGA
** * *
6057228 CCGTGTAGAATTGTCCCAAAGGA
1 CCACGTAGAAATGTCTCAAAGGA
6057251 -CACGTAGAA
1 CCACGTAGAA
6057260 CTCTCGACTC
Statistics
Matches: 59, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
22 9 0.15
23 49 0.83
24 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (23 bp):
CCACGTAGAAATGTCTCAAAGGA
Found at i:6057429 original size:45 final size:44
Alignment explanation
Indices: 6057371--6057462 Score: 157
Period size: 45 Copynumber: 2.1 Consensus size: 44
6057361 ATCATGCCAC
*
6057371 ATAGCTTATATCACATTTTCATATAATCACGTAGTTCAATATCAT
1 ATAGCTTATATCACATTTTCATATAATCACATAGTT-AATATCAT
*
6057416 ATAGCTTATATCACATTTTCATATAATCACATAGTTTATATCAT
1 ATAGCTTATATCACATTTTCATATAATCACATAGTTAATATCAT
6057460 ATA
1 ATA
6057463 ACATAACTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 10 0.22
45 35 0.78
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.41
Consensus pattern (44 bp):
ATAGCTTATATCACATTTTCATATAATCACATAGTTAATATCAT
Found at i:6063006 original size:2 final size:2
Alignment explanation
Indices: 6063001--6063049 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6062991 TGTGTGTATG
6063001 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6063043 TA TA TA T
1 TA TA TA T
6063050 CATCGTGCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6063492 original size:16 final size:15
Alignment explanation
Indices: 6063423--6063493 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 15
6063413 CCATATATCT
6063423 TATATCACATTTTCA
1 TATATCACATTTTCA
* *
6063438 TATAATCACGTAGTTCA
1 TAT-ATCACAT-TTTCA
6063455 -ATATCACATTGTT--
1 TATATCACATT-TTCA
6063468 TATATCACATTTTCA
1 TATATCACATTTTCA
6063483 TATAATCACAT
1 TAT-ATCACAT
6063494 AGGTCAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
13 2 0.04
14 10 0.22
15 14 0.31
16 15 0.33
17 4 0.09
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.42
Consensus pattern (15 bp):
TATATCACATTTTCA
Found at i:6068736 original size:22 final size:22
Alignment explanation
Indices: 6068711--6068763 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
6068701 TGAGTGCATG
6068711 AGTTTGTTAGACAGCTGTTAAA
1 AGTTTGTTAGACAGCTGTTAAA
*
6068733 AGTTTGTTAGGCAGCTGTTAAA
1 AGTTTGTTAGACAGCTGTTAAA
6068755 AGTTTGTTA
1 AGTTTGTTA
6068764 AGTGTTTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.40
Consensus pattern (22 bp):
AGTTTGTTAGACAGCTGTTAAA
Found at i:6071215 original size:2 final size:2
Alignment explanation
Indices: 6071208--6071234 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6071198 ATAATAAGAG
6071208 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
6071235 CACTATAAAT
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:6071915 original size:40 final size:35
Alignment explanation
Indices: 6071834--6071945 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
6071824 AAAATAGTCC
* *
6071834 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
6071869 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
** * * *
6071904 TCAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
6071939 TCAATTT
1 TCAATTT
6071946 AAGGTTTAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:6072009 original size:35 final size:35
Alignment explanation
Indices: 6071941--6072015 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
6071931 AAAATACTTC
* * *
6071941 AATTTAAGGTTTAGAATGTAATTAAATTATTTTGG
1 AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
* * *
6071976 AATTTAGGGTTTAGAATGAAATTAAGGTGTTTTGA
1 AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
6072011 AATTT
1 AATTT
6072016 TGAACATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
Found at i:6075496 original size:3 final size:3
Alignment explanation
Indices: 6075490--6075570 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
6075480 CCTCCTCCTC
6075490 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
6075538 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
6075571 TCTCTTATTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:6076009 original size:43 final size:43
Alignment explanation
Indices: 6075825--6076012 Score: 205
Period size: 43 Copynumber: 4.4 Consensus size: 43
6075815 AGGTAACGAT
* * * *
6075825 ATTTAGCGACGTTTGTCTCACAAACGTCGCAATAGGTGTTGAT
1 ATTTAGCGGCGTTTTTCTCACAAACGCCGCAATAGGTGTTGAG
* * * * *
6075868 ATCTAGCGGCGTTTTTCCCATAAATGCCACAATAGGTGTTGAG
1 ATTTAGCGGCGTTTTTCTCACAAACGCCGCAATAGGTGTTGAG
* * * *
6075911 ATTTAGCGGCATTTTTATCACAAATGCCGCAATAAGTGTTGAG
1 ATTTAGCGGCGTTTTTCTCACAAACGCCGCAATAGGTGTTGAG
* * * *
6075954 ATTTAGCAGCGTTTTTCTCGCAAACGTCGCAATAGGTGCTGAG
1 ATTTAGCGGCGTTTTTCTCACAAACGCCGCAATAGGTGTTGAG
* *
6075997 ATTTTGCTGCGTTTTT
1 ATTTAGCGGCGTTTTT
6076013 TTGATACAAA
Statistics
Matches: 119, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 119 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (43 bp):
ATTTAGCGGCGTTTTTCTCACAAACGCCGCAATAGGTGTTGAG
Found at i:6076144 original size:44 final size:44
Alignment explanation
Indices: 6076005--6076137 Score: 194
Period size: 44 Copynumber: 3.0 Consensus size: 44
6075995 AGATTTTGCT
** * *
6076005 GCGTTTTTTTGATACAAACGTCGCTAAAGGAATGGTATATAGCG
1 GCGTTTTTAGGATACAAACGCCGCTAAAGGTATGGTATATAGCG
*
6076049 GCGTTTTTAGGATATAAACGCCGCTAAAGGTATGGTATATAGCG
1 GCGTTTTTAGGATACAAACGCCGCTAAAGGTATGGTATATAGCG
* * *
6076093 GCGTTTTTAGGATACAAACGCCGTTAAATGTATGGTATATTGCG
1 GCGTTTTTAGGATACAAACGCCGCTAAAGGTATGGTATATAGCG
6076137 G
1 G
6076138 TATTTTTTGT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 80 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (44 bp):
GCGTTTTTAGGATACAAACGCCGCTAAAGGTATGGTATATAGCG
Found at i:6076535 original size:23 final size:21
Alignment explanation
Indices: 6076482--6076530 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6076472 GTTGATATGT
* *
6076482 TGCTTCTCTCTGTGCTGCCAC
1 TGCTTCTCTCTATGCTACCAC
*
6076503 TGCTTCTCTCTATGCTACCGC
1 TGCTTCTCTCTATGCTACCAC
6076524 TGCTTCT
1 TGCTTCT
6076531 TTCTCTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.37, G:0.16, T:0.41
Consensus pattern (21 bp):
TGCTTCTCTCTATGCTACCAC
Found at i:6076548 original size:21 final size:21
Alignment explanation
Indices: 6076524--6076571 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
6076514 ATGCTACCGC
* * *
6076524 TGCTTCTTTCTCTATTTCCGT
1 TGCTTCTCTCTCTACTTCCCT
* *
6076545 TGCTGCTCTCTCTGCTTCCCT
1 TGCTTCTCTCTCTACTTCCCT
6076566 TGCTTC
1 TGCTTC
6076572 ATTTTCTGCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.35, G:0.12, T:0.50
Consensus pattern (21 bp):
TGCTTCTCTCTCTACTTCCCT
Found at i:6079970 original size:18 final size:18
Alignment explanation
Indices: 6079936--6079970 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6079926 GACAATAAAC
*
6079936 AGAATAAACAAATAAAAT
1 AGAATAAACAAAGAAAAT
*
6079954 AGAATAAACGAAGAAAA
1 AGAATAAACAAAGAAAA
6079971 CTGAAAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.11, T:0.11
Consensus pattern (18 bp):
AGAATAAACAAAGAAAAT
Found at i:6084256 original size:42 final size:42
Alignment explanation
Indices: 6084210--6084350 Score: 124
Period size: 42 Copynumber: 3.4 Consensus size: 42
6084200 TAAAGTATTA
* * * *
6084210 TCTATTGCGGCGTTTGAGGTATAAATGTCGCTAATTTATCAC
1 TCTATTGCGGCGTTTGAGGTATAAACGCCGCTAAATTACCAC
*** *
6084252 TCTATTATAGCGTTTGTGGTATAAACGCCGCTAAATTACCAC
1 TCTATTGCGGCGTTTGAGGTATAAACGCCGCTAAATTACCAC
* * * * * **
6084294 TATATTGCGGTGTTTG-GCCTA-AAACGCCGCAAAATTTCTTC
1 TCTATTGCGGCGTTTGAG-GTATAAACGCCGCTAAATTACCAC
6084335 TCTATTGCGGCGTTTG
1 TCTATTGCGGCGTTTG
6084351 TTGGAAAAAA
Statistics
Matches: 78, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
41 31 0.40
42 47 0.60
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (42 bp):
TCTATTGCGGCGTTTGAGGTATAAACGCCGCTAAATTACCAC
Found at i:6084849 original size:74 final size:74
Alignment explanation
Indices: 6084728--6084933 Score: 353
Period size: 74 Copynumber: 2.8 Consensus size: 74
6084718 TGTTGTAGTG
6084728 AATGGTGATTCT-GGTATTGTTTGTTTTCACAGTTTAGTATGTAAATTTGTATTTTTTTTTCAGT
1 AATGGTGATT-TGGGTATTGTTTGTTTTCACAGTTTAGTATGTAAATTTGTATTTTTTTTTCAGT
6084792 TTTTACTCCA
65 TTTTACTCCA
* *
6084802 AATGGTTATTTGGGTATTGTTTGTTTTCACAGTTTAGTATGTAAATTTG-ATTTATTTTTTTAGT
1 AATGGTGATTTGGGTATTGTTTGTTTTCACAGTTTAGTATGTAAATTTGTATTT-TTTTTTCAGT
6084866 TTTTACTCCA
65 TTTTACTCCA
*
6084876 AATGGTGATTTGGTTATTGTTTGTTTTCACAGTTTAGTATGTAAATTTGTATTTTTTT
1 AATGGTGATTTGGGTATTGTTTGTTTTCACAGTTTAGTATGTAAATTTGTATTTTTTT
6084934 AAGTTTTACT
Statistics
Matches: 125, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
73 5 0.04
74 116 0.93
75 4 0.03
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (74 bp):
AATGGTGATTTGGGTATTGTTTGTTTTCACAGTTTAGTATGTAAATTTGTATTTTTTTTTCAGTT
TTTACTCCA
Found at i:6086055 original size:2 final size:2
Alignment explanation
Indices: 6086048--6086088 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6086038 CATATTTAAC
6086048 AT AT AT AT AT 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 AT AT AT AT AT A
6086089 CTGTAAGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6086239 original size:13 final size:13
Alignment explanation
Indices: 6086217--6086264 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
6086207 TCTAGTAAAC
6086217 ACAT-TTTAATAA
1 ACATATTTAATAA
6086229 ACATATTTAATAATA
1 ACATATTTAAT-A-A
* *
6086244 AAATATTGAATAA
1 ACATATTTAATAA
6086257 ACATATTT
1 ACATATTT
6086265 TTAAATAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 4 0.14
13 13 0.45
14 2 0.07
15 10 0.34
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (13 bp):
ACATATTTAATAA
Found at i:6086255 original size:15 final size:16
Alignment explanation
Indices: 6086223--6086256 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6086213 AAACACATTT
*
6086223 TAATAAACATATTTAA
1 TAATAAACATATTGAA
6086239 TAATAAA-ATATTGAA
1 TAATAAACATATTGAA
6086254 TAA
1 TAA
6086257 ACATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
TAATAAACATATTGAA
Found at i:6088356 original size:21 final size:23
Alignment explanation
Indices: 6088322--6088392 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 23
6088312 AGGTGGAATT
*
6088322 ATTATAATATTTTAAAATTAATA
1 ATTATAATATTTTAAAATAAATA
*
6088345 ATTA-AAT-TTTTATAATAAATA
1 ATTATAATATTTTAAAATAAATA
* * *
6088366 A-TATTAAT-TATTATATTAAATA
1 ATTA-TAATATTTTAAAATAAATA
6088388 ATTAT
1 ATTAT
6088393 CATAAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.05
21 13 0.32
22 20 0.49
23 6 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATAATATTTTAAAATAAATA
Found at i:6088379 original size:22 final size:21
Alignment explanation
Indices: 6088341--6088391 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
6088331 TTTTAAAATT
*
6088341 AATAATTAAATTTTTATAATA
1 AATAATTAAATTATTATAATA
* *
6088362 AATAATATTAATTATTATATTA
1 AATAAT-TAAATTATTATAATA
6088384 AATAATTA
1 AATAATTA
6088392 TCATAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATTAAATTATTATAATA
Found at i:6091804 original size:138 final size:138
Alignment explanation
Indices: 6091591--6092243 Score: 977
Period size: 138 Copynumber: 4.7 Consensus size: 138
6091581 TGTCAGTACC
* ** *
6091591 CAAAGTGGTGAAAACGCGTTCCCTAGGGCGCGCCTTCCATTATTTTTTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* * * * *
6091656 TTGCCCTATTATGCCACTCATATCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGATG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATATCAGTACCTATTATTTCTGAGG
6091721 GGACTTGG
131 GGACTTGG
* *
6091729 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCACATTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* * * * *
6091794 TTGTCCTATTATGTCACTCATATCCCCCGGTGAACTATTCATGTCAGCACCTATTATTTCTGAGG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATATCAGTACCTATTATTTCTGAGG
6091859 GGACTTGG
131 GGACTTGG
* * * * *
6091867 CAAAGTGGTGAAAGCACGTTCCCGAGGGCACGCCTTTCATTATTATGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* * * *
6091932 TTGCCCTATTATGCCACTCATGTCCCCCGGGGAACTATTTATATCAGTACCTATTATTTTTGAGG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATATCAGTACCTATTATTTCTGAGG
6091997 GGACTTGG
131 GGACTTGG
* *
6092005 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAAAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* *
6092070 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATATTAGTACCTATTATTTCTAAGG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATATCAGTACCTATTATTTCTGAGG
6092135 GGACTTGG
131 GGACTTGG
* * **
6092143 CAAAGTGGTGAAAGCGCGTT-CCGGGGG-GCGTCTTCTATTATTTTGTCAGAGAATATGTTATTG
1 CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* *
6092206 TTGCCCTATTATGTCACTCATGTTCCCCGGGGAACTAT
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTAT
6092244 AGATGGATGG
Statistics
Matches: 467, Mismatches: 48, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
136 66 0.14
137 7 0.01
138 394 0.84
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (138 bp):
CAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATATCAGTACCTATTATTTCTGAGG
GGACTTGG
Found at i:6092402 original size:23 final size:23
Alignment explanation
Indices: 6092376--6092478 Score: 78
Period size: 23 Copynumber: 4.7 Consensus size: 23
6092366 ATGTGAAGTT
6092376 TGAATAAATTGGATAAAATGTTA
1 TGAATAAATTGGATAAAATGTTA
* *
6092399 TGAATAAATTGAAT-AAATGTGAA
1 TGAATAAATTGGATAAAATGT-TA
*
6092422 GTG-ATCAATTGG-T----TGTT-
1 -TGAATAAATTGGATAAAATGTTA
*
6092439 TGAATATATTGGATAAAATGTTA
1 TGAATAAATTGGATAAAATGTTA
* *
6092462 TGGATAAATTGAATAAA
1 TGAATAAATTGGATAAA
6092479 TGTGAAGTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
16 2 0.03
17 7 0.11
18 1 0.02
19 3 0.05
22 11 0.18
23 35 0.57
24 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (23 bp):
TGAATAAATTGGATAAAATGTTA
Found at i:6092441 original size:63 final size:63
Alignment explanation
Indices: 6092373--6092500 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
6092363 GTTATGTGAA
6092373 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATCAA-TTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGAT-AAGTTGGTT
* *
6092436 GTTTGAATATATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
6092499 GT
1 GT
6092501 GACATTGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 2 0.03
63 60 0.97
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.38
Consensus pattern (63 bp):
GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
Found at i:6092585 original size:14 final size:14
Alignment explanation
Indices: 6092566--6092596 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6092556 TGATAAGTTA
6092566 GTTTTAATGTATAT
1 GTTTTAATGTATAT
*
6092580 GTTTTAATTTATAT
1 GTTTTAATGTATAT
6092594 GTT
1 GTT
6092597 AAGGATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:6092743 original size:34 final size:34
Alignment explanation
Indices: 6092704--6092776 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
6092694 TTAAGTTGAA
6092704 TTTAATGATAAATTTCGAATACCATAATTTGTAT
1 TTTAATGATAAATTTCGAATACCATAATTTGTAT
** *
6092738 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATGATAAATTTCGAATACCATAATTTGTAT
*
6092772 ATTAA
1 TTTAA
6092777 AAACAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (34 bp):
TTTAATGATAAATTTCGAATACCATAATTTGTAT
Found at i:6093338 original size:21 final size:21
Alignment explanation
Indices: 6093314--6093354 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6093304 GTAACTTGGC
6093314 GGGCAAGGAATGTAACCCTGA
1 GGGCAAGGAATGTAACCCTGA
*
6093335 GGGCTAGGAATGTAACCCTG
1 GGGCAAGGAATGTAACCCTG
6093355 CGGAGATGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.34, T:0.17
Consensus pattern (21 bp):
GGGCAAGGAATGTAACCCTGA
Found at i:6094554 original size:13 final size:14
Alignment explanation
Indices: 6094538--6094567 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6094528 TTATTATTTA
6094538 AAAATTTTAAA-AT
1 AAAATTTTAAATAT
6094551 AAAATTTTAAATAT
1 AAAATTTTAAATAT
6094565 AAA
1 AAA
6094568 TGAAGAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTTTAAATAT
Found at i:6100227 original size:29 final size:29
Alignment explanation
Indices: 6100193--6100251 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
6100183 CCTAAATTAA
*
6100193 TTTGATGTCATTGTTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
6100222 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
6100251 T
1 T
6100252 AGGTGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:6102588 original size:19 final size:18
Alignment explanation
Indices: 6102569--6102614 Score: 69
Period size: 16 Copynumber: 2.6 Consensus size: 18
6102559 GTTGTGGTTA
6102569 AAATAAAAAATAATAATT
1 AAATAAAAAATAATAATT
6102587 AAAT-AAAAA-AATAATT
1 AAATAAAAAATAATAATT
6102603 AAATAAACAAAT
1 AAATAAA-AAAT
6102615 TAAAGAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.44
17 7 0.28
18 7 0.28
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAAAAATAATAATT
Found at i:6103293 original size:19 final size:19
Alignment explanation
Indices: 6103237--6103299 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
6103227 CTATTTAAAC
**
6103237 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
6103257 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
6103277 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
6103296 TAAA
1 TAAA
6103300 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:6103344 original size:75 final size:76
Alignment explanation
Indices: 6103257--6103421 Score: 226
Period size: 76 Copynumber: 2.2 Consensus size: 76
6103247 AAAAAATAAT
* * *
6103257 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAAACTATTTAAACTAAAATAAAAAGATAAA-AT
6103321 AAAAT-ATAAAA
65 AAAATGATAAAA
* *
6103332 ATAATATCCTAAAACTTAATTAAAATACTAAAAAACTATTTAAACTAAAATAAAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAAACTATTTAAACTAAAATAAAAAGATAAAATA
* * *
6103397 TAATGTTTAAA
66 AAATGATAAAA
*
6103408 ATATTATCCTAAAT
1 ATAATATCCTAAAT
6103422 TTGAGTTTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 32 0.41
76 46 0.59
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAAACTATTTAAACTAAAATAAAAAGATAAAATA
AAATGATAAAA
Found at i:6105169 original size:11 final size:11
Alignment explanation
Indices: 6105153--6105194 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
6105143 AAATTTCGCT
6105153 AAAAAATAAAA
1 AAAAAATAAAA
6105164 AAAAAATAAAA
1 AAAAAATAAAA
*
6105175 CAAAAATAAAA
1 AAAAAATAAAA
6105186 ACAAAAATA
1 A-AAAAATA
6105195 TAACGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 21 0.75
12 7 0.25
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:6110450 original size:75 final size:76
Alignment explanation
Indices: 6110383--6110546 Score: 215
Period size: 76 Copynumber: 2.2 Consensus size: 76
6110373 AAAAAATAAT
* *
6110383 ATAATATTCTAAATCCTAATTAAAATAAT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATAATAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
6110447 AAAATATAAAA
66 AAAATATAAAA
* * **
6110458 ATAATATCCTAAAACTTAATTAAATTGCTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
1 ATAATATCCTAAAACCTAATTAAAATAATAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
* * *
6110522 ATAATGTTTAAA
66 AAAAT-ATAAAA
*
6110534 ATATTATCCTAAA
1 ATAATATCCTAAA
6110547 TTTGAGTTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 29 0.38
76 48 0.62
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATAATAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
AAAATATAAAA
Found at i:6111920 original size:29 final size:29
Alignment explanation
Indices: 6111886--6111944 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
6111876 CCTAAATTAA
6111886 TTTGATGCCATTGCTTACATCAATTTAGT
1 TTTGATGCCATTGCTTACATCAATTTAGT
*
6111915 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGCCATTGCTTACATCAATTTAGT
6111944 T
1 T
6111945 AGGTGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTGATGCCATTGCTTACATCAATTTAGT
Done.