Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 33
Found at i:6092779 original size:35 final size:35
Alignment explanation
Indices: 6092728--6092795 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
6092718 ATCCTTAAAC
6092728 TACTAATATTCCAATCAACACTAATGGAATTCAAT
1 TACTAATATTCCAATCAACACTAATGGAATTCAAT
* **
6092763 TACTTATATTCCAATCAACTGTAATGGAATTCA
1 TACTAATATTCCAATCAACACTAATGGAATTCA
6092796 GTTAATCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (35 bp):
TACTAATATTCCAATCAACACTAATGGAATTCAAT
Found at i:6093578 original size:23 final size:20
Alignment explanation
Indices: 6093538--6093578 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
6093528 AGCTATTGTT
6093538 AACAACATTTCAAATCAAAG
1 AACAACATTTCAAATCAAAG
6093558 AACAATCATCTTCAAGATCAA
1 AACAA-CAT-TTCAA-ATCAA
6093579 TTTCTTAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 5 0.28
23 5 0.28
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (20 bp):
AACAACATTTCAAATCAAAG
Found at i:6095820 original size:27 final size:27
Alignment explanation
Indices: 6095788--6095879 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
6095778 GCCTAAATAT
6095788 TAGTAGCAATGGTGCAGTGGATGTTAA
1 TAGTAGCAATGGTGCAGTGGATGTTAA
* * *
6095815 TAGTAGTAATGTTGCAGAGGATGTTAA
1 TAGTAGCAATGGTGCAGTGGATGTTAA
* * *
6095842 TTGTAGCAA-GGTTGTAGTGGATGTAAA
1 TAGTAGCAATGG-TGCAGTGGATGTTAA
* *
6095869 TTGTAGTAATG
1 TAGTAGCAATG
6095880 ATGGTGTTGT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.34
Consensus pattern (27 bp):
TAGTAGCAATGGTGCAGTGGATGTTAA
Found at i:6111923 original size:124 final size:126
Alignment explanation
Indices: 6111679--6111929 Score: 461
Period size: 124 Copynumber: 2.0 Consensus size: 126
6111669 TGGATGTTCA
*
6111679 CCCTGGACCTCTTTCCTATTGGTTCTGTTTCGAAAATCCTGTGGCTATTAGAACAATTGAACAAC
1 CCCTGGACCTCTTTCCTATTGGTTCTGTTTCGAAAATCCTGTGGCTATTAGAACAAGTGAACAAC
6111744 ACAGTCTTGGCATGGCAATTTAGTCTATGCATGCAATTAGGCAGTCCTGTTCTAACACTCT
66 ACAGTCTTGGCATGGCAATTTAGTCTATGCATGCAATTAGGCAGTCCTGTTCTAACACTCT
*
6111805 CCCTGGACCTCTTTTCTATTGGTTCTGTTTCGAAAATCCTGTGGCTATTAGAACAAGTGAA-AA-
1 CCCTGGACCTCTTTCCTATTGGTTCTGTTTCGAAAATCCTGTGGCTATTAGAACAAGTGAACAAC
*
6111868 ACAGTCTTGGCATGGCAATTTAGTCTATGCATGCAATTAGGCATTCCTGTTCTAACACTCT
66 ACAGTCTTGGCATGGCAATTTAGTCTATGCATGCAATTAGGCAGTCCTGTTCTAACACTCT
6111929 C
1 C
6111930 AAGAGGAGTC
Statistics
Matches: 122, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
124 61 0.50
125 2 0.02
126 59 0.48
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (126 bp):
CCCTGGACCTCTTTCCTATTGGTTCTGTTTCGAAAATCCTGTGGCTATTAGAACAAGTGAACAAC
ACAGTCTTGGCATGGCAATTTAGTCTATGCATGCAATTAGGCAGTCCTGTTCTAACACTCT
Found at i:6119136 original size:30 final size:30
Alignment explanation
Indices: 6119072--6119145 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
6119062 AATTCACCAC
* * * * *
6119072 AAAATTTGGTTTCTAATTCTCCTCTTTCAT
1 AAAATATGGGTTCTAATTCTCCTCATTAAA
*
6119102 AAAATATGGGTTCTAATTCTCGTCATTAAA
1 AAAATATGGGTTCTAATTCTCCTCATTAAA
* *
6119132 AAAATCTGAGTTCT
1 AAAATATGGGTTCT
6119146 CTTGCTGAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (30 bp):
AAAATATGGGTTCTAATTCTCCTCATTAAA
Found at i:6119983 original size:36 final size:36
Alignment explanation
Indices: 6119904--6119990 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
6119894 TTATCCCATT
*
6119904 ATCATTTTTC-AACAAACATCTACCAAACTTTAAAA
1 ATCATTTTTCAAAGAAACATCTACCAAACTTTAAAA
* * * *
6119939 AACTATTTTTCAAAGAAACATTTACCAACCTTTGAAA
1 ATC-ATTTTTCAAAGAAACATCTACCAAACTTTAAAA
6119976 ATCATTTTTTCAAAG
1 ATCA-TTTTTCAAAG
6119991 TTGGTTGTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
35 2 0.05
36 8 0.19
37 33 0.77
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (36 bp):
ATCATTTTTCAAAGAAACATCTACCAAACTTTAAAA
Found at i:6121016 original size:35 final size:36
Alignment explanation
Indices: 6120976--6121091 Score: 137
Period size: 35 Copynumber: 3.2 Consensus size: 36
6120966 CCAACTTTAA
6120976 AAAAATGATTTTCAAAGTTTGATAAATGTTTTTTTG
1 AAAAATGATTTTCAAAGTTTGATAAATGTTTTTTTG
* * * *
6121012 -AAAATGGTTTTCAAAATTTGGTAAATGTTTCTTTG
1 AAAAATGATTTTCAAAGTTTGATAAATGTTTTTTTG
* * * *
6121047 AAAAATAGTTTTTCAAAGTTTGTTAGATG-TTTGTTG
1 AAAAAT-GATTTTCAAAGTTTGATAAATGTTTTTTTG
6121083 AAAAATGAT
1 AAAAATGAT
6121092 AATGGGATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
35 33 0.49
36 16 0.24
37 18 0.27
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.45
Consensus pattern (36 bp):
AAAAATGATTTTCAAAGTTTGATAAATGTTTTTTTG
Found at i:6124907 original size:35 final size:36
Alignment explanation
Indices: 6124861--6124982 Score: 144
Period size: 35 Copynumber: 3.4 Consensus size: 36
6124851 AACAACCAAC
6124861 TTTGAAGAAATGATTTTTAAAGTTTGGTAAATGTTTT
1 TTTGAA-AAATGATTTTTAAAGTTTGGTAAATGTTTT
*
6124898 TTTG-AAAATGGTTTTTAAAGTTTGGTAAAT-TTTT
1 TTTGAAAAATGATTTTTAAAGTTTGGTAAATGTTTT
* *
6124932 CTTTGAAAAAT-AGTTTTTCAAAGTTTGATAGATG-TTT
1 -TTTGAAAAATGA-TTTTT-AAAGTTTGGTAAATGTTTT
*
6124969 GTTGAAAAATGATT
1 TTTGAAAAATGATT
6124983 ATGGATAATC
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
34 4 0.05
35 28 0.38
36 22 0.30
37 20 0.27
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.48
Consensus pattern (36 bp):
TTTGAAAAATGATTTTTAAAGTTTGGTAAATGTTTT
Found at i:6130124 original size:19 final size:19
Alignment explanation
Indices: 6130102--6130138 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6130092 TAGTGTTCAA
*
6130102 GTATTTGAATTATGTTTTG
1 GTATTTGAACTATGTTTTG
6130121 GTATTTGAACTATGTTTT
1 GTATTTGAACTATGTTTT
6130139 CTTATGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.57
Consensus pattern (19 bp):
GTATTTGAACTATGTTTTG
Found at i:6132027 original size:12 final size:12
Alignment explanation
Indices: 6132010--6132044 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
6132000 TTGAACCCAA
6132010 AATTAATCGAAT
1 AATTAATCGAAT
6132022 AATTAATCGAAT
1 AATTAATCGAAT
6132034 AATTAATCGAA
1 AATTAATCGAA
6132045 AAAAATCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (12 bp):
AATTAATCGAAT
Found at i:6138835 original size:235 final size:227
Alignment explanation
Indices: 6138423--6138887 Score: 801
Period size: 235 Copynumber: 2.0 Consensus size: 227
6138413 TTCACTAATA
6138423 CAACCTATCTTACTATAGCCTAATTCGTTTCTAAACATATCAAGGAAAACATGCATGAGTTTTAG
1 CAACCTATCTTACTATAGCCTAATTCGTTTCTAAACATATCAAGGAAAACATGCATGAGTTTTAG
6138488 TGATTGTATATAATGATGTTACCCTACAATAAATGTTCCAAATTATACTGTTTAACAAAGAAAAT
66 TGATTGTATATAATGATGTTACCCTACAATAAATGTTCCAAATTATACTGTTTAACAAAGAAAAT
6138553 CATATAGATATGGTATTTTTTTTTTATAATTAAGTCTATTTGAAAGAAAAGTTTCCCTACGT-AA
131 CATATAGATATGGTATTTTTTTTTTATAATTAAGTCTATTTGAAAGAAAAGTTTCCCTACGTAAA
6138617 CACAGTTTTTTCCCTTC-TAATCTTCTTTCTT
196 CACAGTTTTTTCCCTTCTTAATCTTCTTTCTT
6138648 CAACACTATCTTACTATAGCCTAATTCGTTTCTCTAAACATATCAAGGAAAACATGCATGAGTTT
1 CAAC-CTATCTTACTATAGCCTAATTCG-TT-TCTAAACATATCAAGGAAAACATGCATGAGTTT
6138713 TAGTGATTGTATATAATGAATGTTACCCTACAATAGAATGTTCCAAATTATTACTGTTTAACAAA
63 TAGTGATTGTATATAATG-ATGTTACCCTACAATA-AATGTTCCAAATTA-TACTGTTTAAC-AA
6138778 GATTGAAAATCATATAGATATGGTATTTTTTTTTT-TAAATTAAGTCTATTTGAAAGAAAAGTTT
124 -A--GAAAATCATATAGATATGGTATTTTTTTTTTAT-AATTAAGTCTATTTGAAAGAAAAGTTT
6138842 CCCTACGTACAACACAGTTTTTTCCCTTCTTAATCTTCTTTCTT
185 CCCTACGTA-AACACAGTTTTTTCCCTTCTTAATCTTCTTTCTT
6138886 CA
1 CA
6138888 TTTAGTTTCA
Statistics
Matches: 226, Mismatches: 0, Indels: 15
0.94 0.00 0.06
Matches are distributed among these distances:
225 4 0.02
226 23 0.10
227 2 0.01
228 51 0.23
229 16 0.07
230 14 0.06
231 11 0.05
232 2 0.01
233 1 0.00
234 1 0.00
235 66 0.29
237 19 0.08
238 16 0.07
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (227 bp):
CAACCTATCTTACTATAGCCTAATTCGTTTCTAAACATATCAAGGAAAACATGCATGAGTTTTAG
TGATTGTATATAATGATGTTACCCTACAATAAATGTTCCAAATTATACTGTTTAACAAAGAAAAT
CATATAGATATGGTATTTTTTTTTTATAATTAAGTCTATTTGAAAGAAAAGTTTCCCTACGTAAA
CACAGTTTTTTCCCTTCTTAATCTTCTTTCTT
Found at i:6141064 original size:29 final size:29
Alignment explanation
Indices: 6141019--6141076 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
6141009 GTGTTGGTCG
* *
6141019 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATACCTTCCCGGCGACCTAC
* *
6141048 TAGGTCGCCATATCTTCCCGGCGAGCTAC
1 TAGGTCGCCATACCTTCCCGGCGACCTAC
6141077 AAGATTGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATACCTTCCCGGCGACCTAC
Found at i:6141285 original size:12 final size:12
Alignment explanation
Indices: 6141268--6141292 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6141258 TGCCATGCAA
6141268 CACGTTCATTCT
1 CACGTTCATTCT
6141280 CACGTTCATTCT
1 CACGTTCATTCT
6141292 C
1 C
6141293 TCTGTTTGAG
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:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (12 bp):
CACGTTCATTCT
Found at i:6141707 original size:28 final size:27
Alignment explanation
Indices: 6141676--6141738 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
6141666 AAAAATTTAA
*
6141676 TATTTTTAATTT-TAATAATTTATCTTTT
1 TATTTTTAATTTGTAATAATTT-T-ATTT
*
6141704 TATTTTATAATTTGTGATAATTTTATTT
1 TATTTT-TAATTTGTAATAATTTTATTT
6141732 TATTTTT
1 TATTTTT
6141739 TGAAAAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 1 0.03
28 15 0.48
29 7 0.23
30 8 0.26
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (27 bp):
TATTTTTAATTTGTAATAATTTTATTT
Found at i:6147654 original size:31 final size:31
Alignment explanation
Indices: 6147613--6147719 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 31
6147603 ATAGTCCCGA
* *
6147613 AGAACCTAGGTAAATTGTCCATATGTTCCTT
1 AGAACATAGGTAAATTGTCCATATGTTCCAT
* * *
6147644 AGAACATAGGTATATTGTCC-TATGTCTCAAA
1 AGAACATAGGTAAATTGTCCATATGT-TCCAT
* *
6147675 AG-ACATAGGTAATTCTGTCCATATGTTCCGT
1 AGAACATAGGTAAAT-TGTCCATATGTTCCAT
6147706 AGAACATAGGTAAA
1 AGAACATAGGTAAA
6147720 CCCTCGACTC
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
30 15 0.25
31 31 0.51
32 15 0.25
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (31 bp):
AGAACATAGGTAAATTGTCCATATGTTCCAT
Found at i:6148923 original size:48 final size:50
Alignment explanation
Indices: 6148853--6148949 Score: 180
Period size: 48 Copynumber: 2.0 Consensus size: 50
6148843 CAAAATTCCA
6148853 TTTTTTCTTTAGGGGGAATCGATACCCCCCCA-GGGGAA-TTGTACCCCT
1 TTTTTTCTTTAGGGGGAATCGATACCCCCCCAGGGGGAATTTGTACCCCT
6148901 TTTTTTCTTTAGGGGGAATCGATACCCCCCCAGGGGGAATTTGTACCCC
1 TTTTTTCTTTAGGGGGAATCGATACCCCCCCAGGGGGAATTTGTACCCC
6148950 CTGCGTAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 32 0.68
49 6 0.13
50 9 0.19
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (50 bp):
TTTTTTCTTTAGGGGGAATCGATACCCCCCCAGGGGGAATTTGTACCCCT
Found at i:6150825 original size:19 final size:20
Alignment explanation
Indices: 6150803--6150840 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6150793 TGACTAAAAT
6150803 ATGAGCAAA-TAAAAATTTA
1 ATGAGCAAATTAAAAATTTA
*
6150822 ATGAGTAAATTAAAAATTT
1 ATGAGCAAATTAAAAATTT
6150841 CAAACTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (20 bp):
ATGAGCAAATTAAAAATTTA
Found at i:6151106 original size:19 final size:19
Alignment explanation
Indices: 6151084--6151124 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6151074 ATAAAAAAAA
6151084 TTAAAATTATTATATATTT
1 TTAAAATTATTATATATTT
* * *
6151103 TTAAATTTTTTATGTATTT
1 TTAAAATTATTATATATTT
6151122 TTA
1 TTA
6151125 TTGATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTAAAATTATTATATATTT
Found at i:6159380 original size:17 final size:17
Alignment explanation
Indices: 6159328--6159444 Score: 130
Period size: 17 Copynumber: 6.9 Consensus size: 17
6159318 ACTGCAAAAC
*
6159328 ATCTGATATCTGTAAAT
1 ATCTGATAACTGTAAAT
* *
6159345 ATCTAATAACTAT-AAT
1 ATCTGATAACTGTAAAT
*
6159361 ATCTGATATCTGTAAAT
1 ATCTGATAACTGTAAAT
*
6159378 ATCTTATAACTGT-AAT
1 ATCTGATAACTGTAAAT
* **
6159394 CATTTGATATTTGTAAAT
1 -ATCTGATAACTGTAAAT
*
6159412 ATCTGATAACTGAAAAT
1 ATCTGATAACTGTAAAT
6159429 ATCTGATAACTGTAAA
1 ATCTGATAACTGTAAA
6159445 CATTTAGAAT
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
16 16 0.20
17 61 0.76
18 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.39
Consensus pattern (17 bp):
ATCTGATAACTGTAAAT
Found at i:6159409 original size:34 final size:33
Alignment explanation
Indices: 6159328--6159444 Score: 153
Period size: 34 Copynumber: 3.5 Consensus size: 33
6159318 ACTGCAAAAC
*
6159328 ATCTGATATCTGTAAATATCTAATAACTATAAT
1 ATCTGATATCTGTAAATATCTAATAACTGTAAT
*
6159361 ATCTGATATCTGTAAATATCTTATAACTGTAAT
1 ATCTGATATCTGTAAATATCTAATAACTGTAAT
* * * *
6159394 CATTTGATATTTGTAAATATCTGATAACTGAAAAT
1 -ATCTGATATCTGTAAATATCTAATAACTG-TAAT
*
6159429 ATCTGATAACTGTAAA
1 ATCTGATATCTGTAAA
6159445 CATTTAGAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
33 31 0.42
34 39 0.53
35 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.39
Consensus pattern (33 bp):
ATCTGATATCTGTAAATATCTAATAACTGTAAT
Found at i:6165520 original size:32 final size:32
Alignment explanation
Indices: 6165464--6165541 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
6165454 CTATATGTTT
*
6165464 CGAAGAACATAGGT-A-ACTGTCCATATGTCC
1 CGAAGGACATAGGTAATACTGTCCATATGTCC
*
6165494 CGAAGGACATATGTAATACTGTCCATATGTCC
1 CGAAGGACATAGGTAATACTGTCCATATGTCC
6165526 CGAAGGACATAGGTAA
1 CGAAGGACATAGGTAA
6165542 CCCTCGACTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 12 0.28
31 1 0.02
32 30 0.70
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (32 bp):
CGAAGGACATAGGTAATACTGTCCATATGTCC
Found at i:6165672 original size:8 final size:8
Alignment explanation
Indices: 6165659--6165687 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6165649 TACTCTCATA
6165659 TCACATGT
1 TCACATGT
6165667 TCACATGT
1 TCACATGT
6165675 TCACATG-
1 TCACATGT
6165682 TCACAT
1 TCACAT
6165688 AGGCACATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (8 bp):
TCACATGT
Found at i:6166506 original size:20 final size:20
Alignment explanation
Indices: 6166481--6166554 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 20
6166471 CCTTTGAAGA
6166481 GGTATCGGTACCCACTATAG
1 GGTATCGGTACCCACTATAG
6166501 GGTATCGGTACTACC-CTAGCTGAG
1 GGTATCGGTAC--CCACTA--T-AG
* *
6166525 GGTATCGATACCTAC-AT-G
1 GGTATCGGTACCCACTATAG
6166543 GGTATCGGTACC
1 GGTATCGGTACC
6166555 AAAATTTCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
18 12 0.27
20 12 0.27
21 3 0.07
22 4 0.09
23 2 0.04
24 12 0.27
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (20 bp):
GGTATCGGTACCCACTATAG
Found at i:6170052 original size:18 final size:19
Alignment explanation
Indices: 6170026--6170061 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6170016 AATTTCGGTT
6170026 AAATAAAAGGAAA-AAGGA
1 AAATAAAAGGAAAGAAGGA
*
6170044 AAATGAAAGGAAAGAAGG
1 AAATAAAAGGAAAGAAGG
6170062 GGTGTTTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.06
Consensus pattern (19 bp):
AAATAAAAGGAAAGAAGGA
Found at i:6181784 original size:3 final size:3
Alignment explanation
Indices: 6181776--6181800 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6181766 CCCCATCCAT
6181776 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
6181801 CCCATTCCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6189168 original size:30 final size:28
Alignment explanation
Indices: 6189123--6189179 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
6189113 CTGTTTTATA
6189123 ACAAAAAATAAAATAAA-AAATTACTAAG
1 ACAAAAAATAAAATAAACAAA-TACTAAG
6189151 ACAATAAAATAGAAATAAACAAATACTAA
1 ACAA-AAAATA-AAATAAACAAATACTAA
6189180 ATAAACGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 4 0.15
29 6 0.23
30 13 0.50
31 3 0.12
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.18
Consensus pattern (28 bp):
ACAAAAAATAAAATAAACAAATACTAAG
Found at i:6189516 original size:21 final size:22
Alignment explanation
Indices: 6189477--6189517 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6189467 GCGATGGCCG
6189477 AAGCTTGTTACCTTAGCAGTTA
1 AAGCTTGTTACCTTAGCAGTTA
* *
6189499 AAGCTT-TTACTTTGGCAGT
1 AAGCTTGTTACCTTAGCAGT
6189518 CACTAAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (22 bp):
AAGCTTGTTACCTTAGCAGTTA
Found at i:6193682 original size:32 final size:31
Alignment explanation
Indices: 6193646--6193722 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
6193636 CGGGGCCATG
*
6193646 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
6193678 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
6193709 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
6193723 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:6194604 original size:7 final size:7
Alignment explanation
Indices: 6194592--6194622 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6194582 ATCAAAGGAA
6194592 GTCAACG
1 GTCAACG
6194599 GTCAACG
1 GTCAACG
6194606 GTCAACG
1 GTCAACG
6194613 GTCAACG
1 GTCAACG
6194620 GTC
1 GTC
6194623 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:6194634 original size:17 final size:17
Alignment explanation
Indices: 6194612--6194671 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
6194602 AACGGTCAAC
*
6194612 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
6194629 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
**
6194646 GGTCGGGTCAGTCGGGTCG
1 GGTC--AACAGTCGGGTCG
6194665 GGTCAAC
1 GGTCAAC
6194672 CCGGTTCAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 21 0.58
19 15 0.42
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:6194647 original size:22 final size:19
Alignment explanation
Indices: 6194619--6194668 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
6194609 AACGGTCAAC
6194619 GGTCGGGTCGGGTCAACAGTCG
1 GGTCGGGTCGGGT---CAGTCG
6194641 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
6194660 GGTCGGGTC
1 GGTCGGGTC
6194669 AACCCGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.54
22 13 0.46
ACGTcount: A:0.08, C:0.22, G:0.50, T:0.20
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGTCG
Found at i:6194661 original size:14 final size:14
Alignment explanation
Indices: 6194642--6194669 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6194632 CAACAGTCGG
6194642 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
6194656 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
6194670 ACCCGGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:6194687 original size:19 final size:19
Alignment explanation
Indices: 6194665--6194735 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
6194655 AGTCGGGTCG
*
6194665 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
6194684 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* * *
6194703 GGTCAAACCGATTCAAAACT
1 GGTCAAACCGGTTC-AGACC
6194723 GGTCAAACCGGTT
1 GGTCAAACCGGTT
6194736 TTCCAGCAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 31 0.67
20 15 0.33
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:6194695 original size:9 final size:9
Alignment explanation
Indices: 6194665--6194734 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
6194655 AGTCGGGTCG
*
6194665 GGTCAACCC
1 GGTCAAACC
*
6194674 GGTTCAGACC
1 GG-TCAAACC
6194684 GGTCAAACC
1 GGTCAAACC
*
6194693 GGTTCAGACC
1 GG-TCAAACC
6194703 GGTCAAACC
1 GGTCAAACC
* *
6194712 GATTCAAAACT
1 G-GTC-AAACC
6194723 GGTCAAACC
1 GGTCAAACC
6194732 GGT
1 GGT
6194735 TTTCCAGCAG
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
9 24 0.50
10 19 0.40
11 5 0.10
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:6194703 original size:10 final size:10
Alignment explanation
Indices: 6194672--6194705 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
6194662 TCGGGTCAAC
6194672 CCGGTTCAGA
1 CCGGTTCAGA
*
6194682 CCGG-TCAAA
1 CCGGTTCAGA
6194691 CCGGTTCAGA
1 CCGGTTCAGA
6194701 CCGGT
1 CCGGT
6194706 CAAACCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (10 bp):
CCGGTTCAGA
Found at i:6194774 original size:9 final size:9
Alignment explanation
Indices: 6194760--6194784 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6194750 TCTCCCTGCG
6194760 GCGGCGCTT
1 GCGGCGCTT
6194769 GCGGCGCTT
1 GCGGCGCTT
6194778 GCGGCGC
1 GCGGCGC
6194785 GTGAACAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.36, G:0.48, T:0.16
Consensus pattern (9 bp):
GCGGCGCTT
Found at i:6201023 original size:32 final size:31
Alignment explanation
Indices: 6200987--6201063 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
6200977 CGGGGCCGTG
*
6200987 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
6201019 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
6201050 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
6201064 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:6201046 original size:63 final size:63
Alignment explanation
Indices: 6200940--6201063 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
6200930 CCCTAAGGGA
* * ** *
6200940 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
6201003 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAGA
6201064 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:6201945 original size:7 final size:7
Alignment explanation
Indices: 6201933--6201963 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6201923 ATCAAAGGAA
6201933 GTCAACG
1 GTCAACG
6201940 GTCAACG
1 GTCAACG
6201947 GTCAACG
1 GTCAACG
6201954 GTCAACG
1 GTCAACG
6201961 GTC
1 GTC
6201964 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:6201975 original size:17 final size:17
Alignment explanation
Indices: 6201953--6202029 Score: 100
Period size: 17 Copynumber: 4.4 Consensus size: 17
6201943 AACGGTCAAC
*
6201953 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
6201970 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
*
6201987 GGTTAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
**
6202004 GGTCGGGTCAGTCGGGTCG
1 GGTC--AACAGTCGGGTCG
6202023 GGTCAAC
1 GGTCAAC
6202030 CCGGTTCAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
17 36 0.71
19 15 0.29
ACGTcount: A:0.14, C:0.22, G:0.44, T:0.19
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:6202019 original size:14 final size:14
Alignment explanation
Indices: 6202000--6202027 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6201990 TAACAGTCGG
6202000 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
6202014 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
6202028 ACCCGGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:6202045 original size:19 final size:19
Alignment explanation
Indices: 6202023--6202075 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
6202013 AGTCGGGTCG
*
6202023 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
6202042 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
6202061 GGTCAAACCGGTTCA
1 GGTCAAACCGGTTCA
6202076 AAACTGGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.26, T:0.17
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:6202053 original size:9 final size:9
Alignment explanation
Indices: 6202023--6202092 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
6202013 AGTCGGGTCG
*
6202023 GGTCAACCC
1 GGTCAAACC
*
6202032 GGTTCAGACC
1 GG-TCAAACC
6202042 GGTCAAACC
1 GGTCAAACC
*
6202051 GGTTCAGACC
1 GG-TCAAACC
6202061 GGTCAAACC
1 GGTCAAACC
*
6202070 GGTTCAAAACT
1 GG-TC-AAACC
*
6202081 GGTCAAATC
1 GGTCAAACC
6202090 GGT
1 GGT
6202093 TTTCCAGCAG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 24 0.49
10 19 0.39
11 6 0.12
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.19
Consensus pattern (9 bp):
GGTCAAACC
Found at i:6202061 original size:10 final size:10
Alignment explanation
Indices: 6202025--6202077 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
6202015 TCGGGTCGGG
*
6202025 TCAACCCGGT
1 TCAAACCGGT
*
6202035 TCAGACCGG-
1 TCAAACCGGT
6202044 TCAAACCGGT
1 TCAAACCGGT
*
6202054 TCAGACCGG-
1 TCAAACCGGT
6202063 TCAAACCGGT
1 TCAAACCGGT
6202073 TCAAA
1 TCAAA
6202078 ACTGGTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 16 0.44
10 20 0.56
ACGTcount: A:0.28, C:0.32, G:0.23, T:0.17
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:6208725 original size:21 final size:21
Alignment explanation
Indices: 6208701--6208746 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6208691 TTAAATAAAT
*
6208701 AAAT-AATAAATATGAACATTA
1 AAATAAAT-AATATGAACAATA
6208722 AAATAAATAATATGAACAATA
1 AAATAAATAATATGAACAATA
6208743 AAAT
1 AAAT
6208747 CAAACCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (21 bp):
AAATAAATAATATGAACAATA
Found at i:6213026 original size:2 final size:2
Alignment explanation
Indices: 6212983--6213007 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6212973 AGCATTCCCC
6212983 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
6213008 AGGCAAGAAA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6215188 original size:19 final size:20
Alignment explanation
Indices: 6215145--6215188 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6215135 ATCATTTTGG
6215145 TCATTTTATTATTCTTATAA
1 TCATTTTATTATTCTTATAA
* *
6215165 T-ATTTTTTTATTCTT-TCA
1 TCATTTTATTATTCTTATAA
6215183 TCATTT
1 TCATTT
6215189 AATTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 17 0.81
20 1 0.05
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (20 bp):
TCATTTTATTATTCTTATAA
Found at i:6215952 original size:28 final size:31
Alignment explanation
Indices: 6215865--6215951 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
6215855 TTGGATAATA
* * *
6215865 TAATAATTATTTTATAGT-ATTTAGATAAATT
1 TAATAATAATTTTATAATCTTTTA-ATAAATT
*
6215896 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAATAATTTTATAATCTTTTAATAAATT
* *
6215927 TAATAAGT-ATTTTATATTTTTTTAA
1 TAATAA-TAATTTTATAATCTTTTAA
6215952 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 42 0.89
32 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (31 bp):
TAATAATAATTTTATAATCTTTTAATAAATT
Found at i:6216709 original size:20 final size:21
Alignment explanation
Indices: 6216686--6216735 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
6216676 TATAAAATAC
6216686 TTATTAAATTTATTAA-AAGA
1 TTATTAAATTTATTAATAAGA
* *
6216706 TTA-TAAAATTATTAATAAGT
1 TTATTAAATTTATTAATAAGA
6216726 TTATCTAAAT
1 TTAT-TAAAT
6216736 ACTATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.46
20 9 0.38
22 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (21 bp):
TTATTAAATTTATTAATAAGA
Found at i:6216709 original size:31 final size:30
Alignment explanation
Indices: 6216667--6216753 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 30
6216657 TCAATAAAGT
6216667 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* * *
6216698 TTAAAAGATTATAAAATTATTAATAAGTTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
6216729 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
6216754 TATTATCGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 43 0.91
32 3 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:6217474 original size:29 final size:29
Alignment explanation
Indices: 6217441--6217499 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
6217431 GCCGAACCAA
**
6217441 TCACCCTTGGACCGAA-TCGGCTGAATCGG
1 TCACCCTTAAACCGAACT-GGCTGAATCGG
6217470 TCACCCTTAAACCGAACTGGCTGAATCGG
1 TCACCCTTAAACCGAACTGGCTGAATCGG
6217499 T
1 T
6217500 AATCCGATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (29 bp):
TCACCCTTAAACCGAACTGGCTGAATCGG
Found at i:6217532 original size:13 final size:13
Alignment explanation
Indices: 6217516--6217597 Score: 58
Period size: 13 Copynumber: 6.2 Consensus size: 13
6217506 ATCTGACCCG
6217516 TTGATCATTGACT
1 TTGATCATTGACT
* *
6217529 TTGATCGTTGATCG
1 TTGATCATTGA-CT
* *
6217543 TTGATCTTTTGACCA
1 TTGATC-ATTGA-CT
*
6217558 TTGA-CTTTGACT
1 TTGATCATTGACT
*
6217570 TTGACCATTGACT
1 TTGATCATTGACT
* *
6217583 TTGACCGTTGACT
1 TTGATCATTGACT
6217596 TT
1 TT
6217598 TTCCAAAACC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 5 0.09
13 36 0.62
14 8 0.14
15 9 0.16
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (13 bp):
TTGATCATTGACT
Found at i:6217574 original size:19 final size:19
Alignment explanation
Indices: 6217550--6217587 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6217540 TCGTTGATCT
6217550 TTTGACCATTGACTTTGAC
1 TTTGACCATTGACTTTGAC
6217569 TTTGACCATTGACTTTGAC
1 TTTGACCATTGACTTTGAC
6217588 CGTTGACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTGACCATTGACTTTGAC
Found at i:6218232 original size:30 final size:30
Alignment explanation
Indices: 6218172--6218366 Score: 218
Period size: 30 Copynumber: 6.5 Consensus size: 30
6218162 TGTATTTCTG
* * * *
6218172 ATCTGCATGGTATTAATT-CTCAATTATGAC
1 ATCTGCATGGGATTAGTTCCTC-GTTCTGAC
* * * *
6218202 ATCTACATGGGATTGGTTCCCCTTTCTGAC
1 ATCTGCATGGGATTAGTTCCTCGTTCTGAC
6218232 ATCTGCATGGGATTAGTTGACC-C-TTCTGAC
1 ATCTGCATGGGATTAGTT--CCTCGTTCTGAC
6218262 ATCTGCATGGGATTAGTTCCTCGTTCTGAC
1 ATCTGCATGGGATTAGTTCCTCGTTCTGAC
6218292 ATCTGCATGGGATTAGTT-CTCTGTTCTGAC
1 ATCTGCATGGGATTAGTTCCTC-GTTCTGAC
* * *
6218322 ATCTGCATGTGATTAATTCCTCGTTATGAC
1 ATCTGCATGGGATTAGTTCCTCGTTCTGAC
*
6218352 ATCTTCATGGGATTA
1 ATCTGCATGGGATTA
6218367 TATCCCCATT
Statistics
Matches: 144, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.01
29 4 0.03
30 130 0.90
31 6 0.04
32 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (30 bp):
ATCTGCATGGGATTAGTTCCTCGTTCTGAC
Found at i:6220746 original size:20 final size:20
Alignment explanation
Indices: 6220723--6220774 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
6220713 CTTTAGTAGG
6220723 AGTATCGATACTCCAGGGAT
1 AGTATCGATACTCCAGGGAT
6220743 AGTATCGATACTCCAGGGAT
1 AGTATCGATACTCCAGGGAT
6220763 AGTATCGATACT
1 AGTATCGATACT
6220775 TTCAGTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTCCAGGGAT
Found at i:6224550 original size:2 final size:2
Alignment explanation
Indices: 6224543--6224577 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6224533 ATTTTAGGTG
6224543 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 A
6224578 GGAAAAGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6226714 original size:18 final size:18
Alignment explanation
Indices: 6226687--6226721 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6226677 CTCACGTAGG
6226687 GGTTTCATTCAACAGCCT
1 GGTTTCATTCAACAGCCT
* *
6226705 GGTTTGATTCAGCAGCC
1 GGTTTCATTCAACAGCC
6226722 CTGAAATGTA
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:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (18 bp):
GGTTTCATTCAACAGCCT
Found at i:6227738 original size:50 final size:50
Alignment explanation
Indices: 6227684--6227782 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
6227674 TGTACCATAG
*
6227684 TCCCCCTTTGCTCTTGCGAATCAACTCACTGCTGATTTTTCTGCCATATA
1 TCCCCCTTTACTCTTGCGAATCAACTCACTGCTGATTTTTCTGCCATATA
*
6227734 TCCCCCTTTACTCTTGCGAATCAACTTACTGCTGATTTTTCTGCCATAT
1 TCCCCCTTTACTCTTGCGAATCAACTCACTGCTGATTTTTCTGCCATAT
6227783 GTAATTTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.18, C:0.31, G:0.11, T:0.39
Consensus pattern (50 bp):
TCCCCCTTTACTCTTGCGAATCAACTCACTGCTGATTTTTCTGCCATATA
Found at i:6229145 original size:12 final size:12
Alignment explanation
Indices: 6229121--6229166 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
6229111 AAAAAATTTC
*
6229121 AAAGAAGATTAA
1 AAAGAAAATTAA
*
6229133 AAATAAAATTAA
1 AAAGAAAATTAA
* *
6229145 AAAGAAAGTTTA
1 AAAGAAAATTAA
6229157 AAAGAAAATT
1 AAAGAAAATT
6229167 CAATATGGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (12 bp):
AAAGAAAATTAA
Found at i:6231570 original size:12 final size:12
Alignment explanation
Indices: 6231553--6231588 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6231543 CCGATTGGTG
*
6231553 AAAGAAAAAGAA
1 AAAGAAGAAGAA
6231565 AAAGAAGAAGAA
1 AAAGAAGAAGAA
6231577 AAAGAAGAAGAA
1 AAAGAAGAAGAA
6231589 GTATTGCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAGAA
Found at i:6231577 original size:18 final size:18
Alignment explanation
Indices: 6231554--6231589 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6231544 CGATTGGTGA
6231554 AAGAAAAAGAAAAAGAAG
1 AAGAAAAAGAAAAAGAAG
*
6231572 AAGAAAAAGAAGAAGAAG
1 AAGAAAAAGAAAAAGAAG
6231590 TATTGCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAAAGAAG
Found at i:6231589 original size:6 final size:6
Alignment explanation
Indices: 6231553--6231588 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
6231543 CCGATTGGTG
* *
6231553 AAAGAA AAAGAA AAAGAA GAAGAA AAAGAA GAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
6231589 GTATTGCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:6235768 original size:18 final size:18
Alignment explanation
Indices: 6235747--6235781 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6235737 AAAAACAAAT
*
6235747 AAAATATAATTACTAAAA
1 AAAAGATAATTACTAAAA
*
6235765 AAAAGATAATTCCTAAA
1 AAAAGATAATTACTAAA
6235782 GATAATTCTT
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:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAGATAATTACTAAAA
Found at i:6249132 original size:14 final size:14
Alignment explanation
Indices: 6249113--6249149 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6249103 AACAGACACC
*
6249113 AGAACCTATTGGTA
1 AGAACCTAATGGTA
*
6249127 AGAACCCAATGGTA
1 AGAACCTAATGGTA
6249141 AGAACCTAA
1 AGAACCTAA
6249150 GTTTCACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (14 bp):
AGAACCTAATGGTA
Found at i:6257641 original size:24 final size:24
Alignment explanation
Indices: 6257590--6257655 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
6257580 ATATCTTATA
*
6257590 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTACGGTGCAAATTCTACG
*
6257613 CGGCACTTA-GGTGCAAATTCTACG
1 TGGCAC-TACGGTGCAAATTCTACG
*
6257637 TGGCACTATGGTGCAAATT
1 TGGCACTACGGTGCAAATT
6257656 TATACGAGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.32
24 25 0.68
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (24 bp):
TGGCACTACGGTGCAAATTCTACG
Found at i:6258198 original size:13 final size:14
Alignment explanation
Indices: 6258180--6258208 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6258170 TTTTAAACGT
6258180 ATAAATGTA-AATG
1 ATAAATGTATAATG
6258193 ATAAATGTATAATG
1 ATAAATGTATAATG
6258207 AT
1 AT
6258209 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:6275078 original size:14 final size:14
Alignment explanation
Indices: 6275054--6275095 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
6275044 ACCGGTTTCG
6275054 GTTTGAAAAAAATCA
1 GTTT-AAAAAAATCA
6275069 GTTTAAAAAAA-CA
1 GTTTAAAAAAATCA
*
6275082 GATATAAAAAAATC
1 G-TTTAAAAAAATC
6275096 GATTTGTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.12
14 16 0.67
15 5 0.21
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.24
Consensus pattern (14 bp):
GTTTAAAAAAATCA
Found at i:6276042 original size:30 final size:30
Alignment explanation
Indices: 6276005--6276111 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 30
6275995 GGCTGCTGGA
*
6276005 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGGTTTTCAACCGGTTC-G
6276036 -ACCGGTTTGACCGG-TTTCAACCGGTTCG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCG
*
6276064 AACCGGTTCTGACCGG-TTT-GACCGGTTTC-
1 AACCGGTT-TGACCGGTTTTCAACCGG-TTCG
*
6276093 AACCGGTTCGAACCGGTTT
1 AACCGGTTTG-ACCGGTTT
6276112 GACCGGTCTG
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
28 2 0.03
29 38 0.56
30 28 0.41
ACGTcount: A:0.17, C:0.27, G:0.26, T:0.30
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTTCAACCGGTTCG
Found at i:6276050 original size:19 final size:19
Alignment explanation
Indices: 6276007--6276156 Score: 114
Period size: 19 Copynumber: 7.7 Consensus size: 19
6275997 CTGCTGGAAA
* * *
6276007 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
6276027 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
6276046 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
6276066 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
6276085 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
6276105 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
*
6276123 GACGGTTTGACCGG-TCTGA
1 -CCGGTTTGACCGGTTCTGA
*
6276142 GCCGGTTTGATCGGT
1 -CCGGTTTGACCGGT
6276157 CTAACCCGAC
Statistics
Matches: 109, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
18 5 0.05
19 65 0.60
20 30 0.28
21 9 0.08
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:6276068 original size:29 final size:29
Alignment explanation
Indices: 6276006--6276162 Score: 92
Period size: 29 Copynumber: 5.4 Consensus size: 29
6275996 GCTGCTGGAA
* *
6276006 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTAACCGGTTCTGAACCGGTT-TG
* * *
6276036 ACCGGTTTGACCGGTT-TCAACCGGTTCG
1 ACCGGTTTAACCGGTTCTGAACCGGTTTG
* *
6276064 AACCGGTTCTGACCGGTT-TG-ACCGGTTTCA
1 -ACCGGTT-TAACCGGTTCTGAACCGGTTT-G
* *
6276094 ACCGGTTCGAACCGGTT-TG-ACCGGTCTG
1 ACCGGTT-TAACCGGTTCTGAACCGGTTTG
* * *
6276122 AGACGGTTTGACCGG-TCTGAGCCGGTTTG
1 A-CCGGTTTAACCGGTTCTGAACCGGTTTG
* *
6276151 ATCGGTCTAACC
1 ACCGGTTTAACC
6276163 CGACCCGACC
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.01
28 17 0.16
29 61 0.59
30 25 0.24
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (29 bp):
ACCGGTTTAACCGGTTCTGAACCGGTTTG
Found at i:6276068 original size:39 final size:39
Alignment explanation
Indices: 6276006--6276118 Score: 187
Period size: 39 Copynumber: 2.9 Consensus size: 39
6275996 GCTGCTGGAA
6276006 ACCGGTTT-AACCGGTTTTC-AACCGGTTCTGACCGGTTTG
1 ACCGGTTTCAACCGG--TTCGAACCGGTTCTGACCGGTTTG
6276045 ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTTTG
1 ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTTTG
6276084 ACCGGTTTCAACCGGTTCGAACCGGTT-TGACCGGT
1 ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGT
6276119 CTGAGACGGT
Statistics
Matches: 72, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
38 11 0.15
39 55 0.76
40 6 0.08
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (39 bp):
ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTTTG
Found at i:6276129 original size:39 final size:38
Alignment explanation
Indices: 6276006--6276158 Score: 170
Period size: 39 Copynumber: 4.0 Consensus size: 38
6275996 GCTGCTGGAA
*
6276006 ACCGGTTTAACCGGTTTTC-AACCGGTTCTGACCGGTTTG
1 ACCGGTTTAACCGG--TTCGAACCGGTTCTGACCGGTCTG
*
6276045 ACCGGTTTCAACCGGTTCGAACCGGTTCTGACCGGTTTG
1 ACCGGTTT-AACCGGTTCGAACCGGTTCTGACCGGTCTG
6276084 ACCGGTTTCAACCGGTTCGAACCGGTT-TGACCGGTCTG
1 ACCGGTTT-AACCGGTTCGAACCGGTTCTGACCGGTCTG
* * * *
6276122 AGACGGTTTGACCGG-TCTGAGCCGGTT-TGATCGGTCT
1 A-CCGGTTTAACCGGTTC-GAACCGGTTCTGACCGGTCT
6276159 AACCCGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
37 2 0.02
38 36 0.34
39 61 0.58
40 6 0.06
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.29
Consensus pattern (38 bp):
ACCGGTTTAACCGGTTCGAACCGGTTCTGACCGGTCTG
Found at i:6276170 original size:5 final size:5
Alignment explanation
Indices: 6276160--6276211 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
6276150 GATCGGTCTA
* *
6276160 ACCCG ACCCG ACCGTTG ACCCG ACCCG ACCCG ACCGTTG ACCCG ACCCG
1 ACCCG ACCCG ACC--CG ACCCG ACCCG ACCCG ACC--CG ACCCG ACCCG
6276209 ACC
1 ACC
6276212 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 31 0.79
7 8 0.21
ACGTcount: A:0.19, C:0.52, G:0.21, T:0.08
Consensus pattern (5 bp):
ACCCG
Found at i:6276182 original size:17 final size:17
Alignment explanation
Indices: 6276181--6276218 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
6276171 CCGTTGACCC
6276181 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
6276198 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
6276215 GACC
1 GACC
6276219 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:6276188 original size:22 final size:22
Alignment explanation
Indices: 6276160--6276225 Score: 105
Period size: 22 Copynumber: 2.9 Consensus size: 22
6276150 GATCGGTCTA
6276160 ACCCGACCCGACCGTTGACCCG
1 ACCCGACCCGACCGTTGACCCG
6276182 ACCCGACCCGACCGTTGACCCG
1 ACCCGACCCGACCGTTGACCCG
*
6276204 ACCCGACCGTTGACCGTTGACC
1 ACCCGACC--CGACCGTTGACC
6276226 GTTAACCGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 30 0.73
24 11 0.27
ACGTcount: A:0.18, C:0.47, G:0.23, T:0.12
Consensus pattern (22 bp):
ACCCGACCCGACCGTTGACCCG
Found at i:6276218 original size:7 final size:7
Alignment explanation
Indices: 6276208--6276238 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6276198 GACCCGACCC
6276208 GACCGTT
1 GACCGTT
6276215 GACCGTT
1 GACCGTT
6276222 GACCGTT
1 GACCGTT
*
6276229 AACCGTT
1 GACCGTT
6276236 GAC
1 GAC
6276239 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:6283414 original size:19 final size:19
Alignment explanation
Indices: 6283391--6283442 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
6283381 ACCGATTTTC
6283391 AACCGGTTCTGACCGGTTCG
1 AACCGGTT-TGACCGGTTCG
*
6283411 -ACCGGTTTCAACCGGTTCG
1 AACCGGTTT-GACCGGTTCG
6283430 AACCGGTTTGACC
1 AACCGGTTTGACC
6283443 CGGTGACTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 1 0.04
19 19 0.68
20 8 0.29
ACGTcount: A:0.17, C:0.31, G:0.27, T:0.25
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:6283420 original size:29 final size:29
Alignment explanation
Indices: 6283387--6283442 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
6283377 TTTAACCGAT
6283387 TTTCAACCGGTTCTG-ACCGGTTCGACCGG
1 TTTCAACCGGTTC-GAACCGGTTCGACCGG
*
6283416 TTTCAACCGGTTCGAACCGGTTTGACC
1 TTTCAACCGGTTCGAACCGGTTCGACC
6283443 CGGTGACTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.16, C:0.30, G:0.25, T:0.29
Consensus pattern (29 bp):
TTTCAACCGGTTCGAACCGGTTCGACCGG
Found at i:6283471 original size:17 final size:17
Alignment explanation
Indices: 6283446--6283484 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
6283436 TTTGACCCGG
*
6283446 TGACTCGACCCGACCGT
1 TGACCCGACCCGACCGT
6283463 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
6283480 TGACC
1 TGACC
6283485 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:6283484 original size:7 final size:7
Alignment explanation
Indices: 6283474--6283504 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6283464 GACCCGACCC
6283474 GACCGTT
1 GACCGTT
6283481 GACCGTT
1 GACCGTT
6283488 GACCGTT
1 GACCGTT
*
6283495 AACCGTT
1 GACCGTT
6283502 GAC
1 GAC
6283505 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Done.