Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 26
Found at i:6719931 original size:11 final size:11
Alignment explanation
Indices: 6719911--6719993 Score: 58
Period size: 11 Copynumber: 6.9 Consensus size: 11
6719901 GGCTAGAGAA
6719911 AGAGGAGGAGG
1 AGAGGAGGAGG
*
6719922 AGAGGGGGAGG
1 AGAGGAGGAGG
*
6719933 AGGAGGAGAAGG
1 A-GAGGAGGAGG
*
6719945 AGAAGAGGCTAGAG
1 AGAGGAGG--AG-G
6719959 AAAGAGGAGGAGG
1 --AGAGGAGGAGG
* *
6719972 AGAGGAGAAGT
1 AGAGGAGGAGG
6719983 AGGAGGAGGAG
1 A-GAGGAGGAG
6719994 AAGTAGTGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
11 26 0.46
12 17 0.30
13 3 0.05
14 3 0.05
16 7 0.12
ACGTcount: A:0.40, C:0.01, G:0.57, T:0.02
Consensus pattern (11 bp):
AGAGGAGGAGG
Found at i:6719964 original size:50 final size:53
Alignment explanation
Indices: 6719886--6719996 Score: 174
Period size: 50 Copynumber: 2.1 Consensus size: 53
6719876 CATGAGATGG
*
6719886 GGAGGAGGAGAAGGAGGCTAGAGAAAGAGGAGGAGGAGAGG-G-GGAGGAGGA
1 GGAGAAGGAGAAGGAGGCTAGAGAAAGAGGAGGAGGAGAGGAGAGGAGGAGGA
*
6719937 GGAGAAGGAGAA-GAGGCTAGAGAAAGAGGAGGAGGAGAGGAGAAGTAGGAGGA
1 GGAGAAGGAGAAGGAGGCTAGAGAAAGAGGAGGAGGAGAGGAG-AGGAGGAGGA
6719990 GGAGAAG
1 GGAGAAG
6719997 TAGTGAACAC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
50 28 0.51
51 12 0.22
53 15 0.27
ACGTcount: A:0.41, C:0.02, G:0.55, T:0.03
Consensus pattern (53 bp):
GGAGAAGGAGAAGGAGGCTAGAGAAAGAGGAGGAGGAGAGGAGAGGAGGAGGA
Found at i:6719991 original size:15 final size:14
Alignment explanation
Indices: 6719969--6719999 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
6719959 AAAGAGGAGG
6719969 AGGAGAGGAGAAGT
1 AGGAGAGGAGAAGT
6719983 AGGAGGAGGAGAAGT
1 AGGA-GAGGAGAAGT
6719998 AG
1 AG
6720000 TGAACACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.52, T:0.06
Consensus pattern (14 bp):
AGGAGAGGAGAAGT
Found at i:6722924 original size:25 final size:25
Alignment explanation
Indices: 6722896--6722944 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
6722886 ATGAAATGTG
6722896 TCATTTTGGAAAAATGATCCACTAA
1 TCATTTTGGAAAAATGATCCACTAA
6722921 TCATTTTGGAAAAATGATCCACTA
1 TCATTTTGGAAAAATGATCCACTA
6722945 TAACAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (25 bp):
TCATTTTGGAAAAATGATCCACTAA
Found at i:6741680 original size:3 final size:3
Alignment explanation
Indices: 6741668--6741769 Score: 117
Period size: 3 Copynumber: 36.0 Consensus size: 3
6741658 GTGTATTACA
* *
6741668 AGG A-G AGG AGG AGG AGG AGG AAG AGG AGG A-G AGG AAG AGG AGG A-G
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
* * *
6741713 AGG AAG AGG AGG A-G AGG AAG AGG AGG A-G AGG AAG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
6741759 AGG A-G AGG AGG
1 AGG AGG AGG AGG
6741770 TGGTATTAGC
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
2 12 0.14
3 71 0.86
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:6741769 original size:14 final size:14
Alignment explanation
Indices: 6741675--6741768 Score: 154
Period size: 14 Copynumber: 6.6 Consensus size: 14
6741665 ACAAGGAGAG
6741675 GAGGAGGAGGAGGAA
1 GAGGAGGA-GAGGAA
6741690 GAGGAGGAGAGGAA
1 GAGGAGGAGAGGAA
6741704 GAGGAGGAGAGGAA
1 GAGGAGGAGAGGAA
6741718 GAGGAGGAGAGGAA
1 GAGGAGGAGAGGAA
6741732 GAGGAGGAGAGGAA
1 GAGGAGGAGAGGAA
*
6741746 GAGGAGGAGGAGGAG
1 GAGGAGGA-GAGGAA
6741761 GA-GAGGAG
1 GAGGAGGAG
6741769 GTGGTATTAG
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
13 1 0.01
14 61 0.79
15 15 0.19
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (14 bp):
GAGGAGGAGAGGAA
Found at i:6743611 original size:20 final size:21
Alignment explanation
Indices: 6743576--6743617 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
6743566 TGTTTCTAAT
*
6743576 CTAGGTCCCAGAGTATCGATA
1 CTAGGGCCCAGAGTATCGATA
6743597 CTAGGGCCC-GAGTATCGATA
1 CTAGGGCCCAGAGTATCGATA
6743617 C
1 C
6743618 CACCTGAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (21 bp):
CTAGGGCCCAGAGTATCGATA
Found at i:6749422 original size:20 final size:21
Alignment explanation
Indices: 6749379--6749423 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6749369 CCCCCTTTGA
*
6749379 AGGGGAACCGATTCCCCCCAT
1 AGGGGAACCGATACCCCCCAT
*
6749400 AGGGGAATCGATACCCCCC-T
1 AGGGGAACCGATACCCCCCAT
6749420 AGGG
1 AGGG
6749424 TTCTGGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.13
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAT
Found at i:6756001 original size:164 final size:164
Alignment explanation
Indices: 6755715--6756048 Score: 510
Period size: 164 Copynumber: 2.0 Consensus size: 164
6755705 CCCAATATAT
*
6755715 CAACAATACCATAATTACCACTTAAACCAATAACTTTCTCAATATTTACCATTTTGTAATTAAAC
1 CAACAATAACATAATTACCACTTAAACCAATAACTTTCTCAATATTTACCATTTTGTAATTAAAC
* ** * *
6755780 TTTGCCAACTTTGCAAAATGACTTAATTTCACATTCTAACTTTGATTTCATCCCTCAAATAGTAA
66 TTTGCCAACTTTCCAAAATGACTTAATTTCACATTCTAACTTCAATTTCAGCCCTCAAACAGTAA
* *
6755845 TTTCCAGCAATGTACATCAATTATTGAGTAATTA
131 TTTCCAGCAAAGTACATCAATTATTAAGTAATTA
* * * *
6755879 CAACAATAACATAATTACCCCTTAAGCCACTAACTTTCTCAATATTTACCATTTTGTACTTAAAC
1 CAACAATAACATAATTACCACTTAAACCAATAACTTTCTCAATATTTACCATTTTGTAATTAAAC
*
6755944 TTTGCCAACTTTCCAAAAT-AGCTTAATTTCACATTCTAACTTCAATTTTAGCCCTCAAACAGTA
66 TTTGCCAACTTTCCAAAATGA-CTTAATTTCACATTCTAACTTCAATTTCAGCCCTCAAACAGTA
* *
6756008 ATTTCTAGCAAAGTACATTAATTATTAAGTAATTA
130 ATTTCCAGCAAAGTACATCAATTATTAAGTAATTA
6756043 C-ACAAT
1 CAACAAT
6756049 TAGTCCATAA
Statistics
Matches: 154, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
163 6 0.04
164 148 0.96
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.36
Consensus pattern (164 bp):
CAACAATAACATAATTACCACTTAAACCAATAACTTTCTCAATATTTACCATTTTGTAATTAAAC
TTTGCCAACTTTCCAAAATGACTTAATTTCACATTCTAACTTCAATTTCAGCCCTCAAACAGTAA
TTTCCAGCAAAGTACATCAATTATTAAGTAATTA
Found at i:6759909 original size:2 final size:2
Alignment explanation
Indices: 6759902--6759944 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6759892 GAATCACCAG
6759902 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
6759944 A
1 A
6759945 AATGATTAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6760071 original size:70 final size:69
Alignment explanation
Indices: 6759997--6760162 Score: 181
Period size: 69 Copynumber: 2.4 Consensus size: 69
6759987 ACTCATGTAC
* * *
6759997 GAGTCACTCGAAAATAAATATGATTAGATACTCCAATATCAGTCATTCTAATTATTTGGGGCTCC
1 GAGTCAC-CGAAAATAAATATGATTAGATACTCCAATATCAGTCACTATAATCATTTGGGGCTCC
6760062 CGTGT
65 CGTGT
* * * * ** * * *
6760067 GAGTCACACG-AAATAAATATAACTAGGTGCTCCTGTGTGAGTCACTATAATCCTTTGGGGCTCC
1 GAGTCAC-CGAAAATAAATATGATTAGATACTCCAATATCAGTCACTATAATCATTTGGGGCTCC
6760131 CGTGT
65 CGTGT
*
6760136 GAGTCACCCATAAATAAATATGATTAG
1 GAGTCACCGA-AAATAAATATGATTAG
6760163 GTGCTCCCGT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
68 1 0.01
69 54 0.69
70 23 0.29
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (69 bp):
GAGTCACCGAAAATAAATATGATTAGATACTCCAATATCAGTCACTATAATCATTTGGGGCTCCC
GTGT
Found at i:6760179 original size:70 final size:69
Alignment explanation
Indices: 6759946--6760295 Score: 284
Period size: 70 Copynumber: 5.1 Consensus size: 69
6759936 ATATATATAA
* * * * ** * *
6759946 ATGATTAGGTGCACCCGTGTAAGTCACTCTAATCTTTTGGGACTCATGTACGAGTCACTCGAAAA
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTGCGAGTCAC-CCAAAA
6760011 TAAAT
65 TAAAT
* * ** * * * ** * * *
6760016 ATGATTAGATACTCCAATATCAGTCATTCTAATTATTTGGGGCTCCCGTGTGAGTCACACGAAAT
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTGCGAGTCACCCAAAAT
6760081 AAAT
66 AAAT
* * * * *
6760085 ATAACTAGGTGCTCCTGTGTGAGTCACTATAATCCTTTGGGGCTCCCGTGTGAGTCACCCATAAA
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTGCGAGTCACCCA-AAA
6760150 TAAAT
65 TAAAT
* * * *
6760155 ATGATTAGGTGCTCCCGTATGAGTCACTCTAATCC--T-----T-CGGTGCAAGTCACCTAGAAA
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTGCGAGTCACCCA-AAA
*
6760212 TATAT
65 TAAAT
* * ** * *
6760217 ATGATTAAGTGTTCTTGTGTGAGTCACTCTAATCCTTCGGGGCTCCCATGCGAGTCACCCAAAAT
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTGCGAGTCACCCAAAA-
6760282 TAAAT
65 TAAAT
6760287 ATGATTAGG
1 ATGATTAGG
6760296 CGTTATCGTG
Statistics
Matches: 215, Mismatches: 55, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
62 49 0.23
63 1 0.00
68 1 0.00
69 59 0.27
70 105 0.49
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (69 bp):
ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTGCGAGTCACCCAAAAT
AAAT
Found at i:6760240 original size:62 final size:62
Alignment explanation
Indices: 6760137--6760256 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
6760127 CTCCCGTGTG
* *
6760137 AGTCACCCATAAATAAATATGATTAGGTGCTCCCGTATGAGTCACTCTAATCCTTCGGTGCA
1 AGTCACCCAGAAATAAATATGATTAAGTGCTCCCGTATGAGTCACTCTAATCCTTCGGTGCA
* * * ** *
6760199 AGTCACCTAGAAATATATATGATTAAGTGTTCTTGTGTGAGTCACTCTAATCCTTCGG
1 AGTCACCCAGAAATAAATATGATTAAGTGCTCCCGTATGAGTCACTCTAATCCTTCGG
6760257 GGCTCCCATG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (62 bp):
AGTCACCCAGAAATAAATATGATTAAGTGCTCCCGTATGAGTCACTCTAATCCTTCGGTGCA
Found at i:6762577 original size:42 final size:43
Alignment explanation
Indices: 6762430--6762831 Score: 455
Period size: 42 Copynumber: 9.7 Consensus size: 43
6762420 AATACTATAC
* * *
6762430 TTTAGTGGCGTTTGT-ATA-AAAACGCCGCTAAAGA-ATCGTA-A
1 TTTAGTGGCGTTT-TAATACCAAACGCCGCTATAGACA-CGTACT
* * * * *
6762471 TGTAGTGGCATTTTTATA-CAAACACCGCTATAAACTA-GTA-T
1 TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAC-ACGTACT
* * *
6762512 TTTAGTGGTGTTTTTATA-CAAACGCTGCTATAGACACGTACT
1 TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACT
*
6762554 TTTA-TGGCGTTTTAATACCAAACGCCGCTATAGACTCGTAC-
1 TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACT
*
6762595 TTTAGTGGCATTTT--TACACAAACGCCGCTATAGACACGTACT
1 TTTAGTGGCGTTTTAATAC-CAAACGCCGCTATAGACACGTACT
*
6762637 TTT-GTGGCATTTTAATACCAAACGCCGCTATAGACACGTACT
1 TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACT
* **
6762679 TTT-GTGGTGTTTTAATACCAAACGCCGCTATAGATTCGTAC-
1 TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACT
6762720 TTTAGTGGCGTTTT--TACACAAACGCCGCTATAGACACGTACT
1 TTTAGTGGCGTTTTAATAC-CAAACGCCGCTATAGACACGTACT
* *
6762762 TTT-GTGGTGTTTTAATACCAAACGCCGCTATAGACTCGTAC-
1 TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACT
6762803 TTTAGTGGCGTTTTAATACCAAACGCCGC
1 TTTAGTGGCGTTTTAATACCAAACGCCGC
6762832 AATTGTCATA
Statistics
Matches: 315, Mismatches: 29, Indels: 33
0.84 0.08 0.09
Matches are distributed among these distances:
40 8 0.03
41 144 0.46
42 156 0.50
43 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (43 bp):
TTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACT
Found at i:6762599 original size:83 final size:83
Alignment explanation
Indices: 6762427--6762831 Score: 489
Period size: 83 Copynumber: 4.9 Consensus size: 83
6762417 CAAAATACTA
* * * * * * * *
6762427 TACTTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGA-ATCGTAATGTAGTGGCATTTTTATA-C
1 TACTTTAGTGGTGTTTTTATACAAACGCCGCTATAGACA-CGTACTTTAGTGGCGTTTTAATACC
* *
6762490 AAACACCGCTATAAACTA-G
65 AAACGCCGCTATAGAC-ACG
* *
6762509 TATTTTAGTGGTGTTTTTATACAAACGCTGCTATAGACACGTACTTTTA-TGGCGTTTTAATACC
1 TACTTTAGTGGTGTTTTTATACAAACGCCGCTATAGACACGTAC-TTTAGTGGCGTTTTAATACC
*
6762573 AAACGCCGCTATAGACTCG
65 AAACGCCGCTATAGACACG
** * * *
6762592 TACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACCA
1 TACTTTAGTGGTGTTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCA
6762657 AACGCCGCTATAGACACG
66 AACGCCGCTATAGACACG
* * **
6762675 TACTTTTGTGGTGTTTTAATACCAAACGCCGCTATAGATTCGTACTTTAGTGGCGTTTT--TACA
1 TACTTTAGTGGTGTTTTTATA-CAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATAC-
6762738 CAAACGCCGCTATAGACACG
64 CAAACGCCGCTATAGACACG
* * *
6762758 TACTTTTGTGGTGTTTTAATACCAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTAATACC
1 TACTTTAGTGGTGTTTTTATA-CAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACC
6762823 AAACGCCGC
65 AAACGCCGC
6762832 AATTGTCATA
Statistics
Matches: 283, Mismatches: 31, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
82 52 0.18
83 185 0.65
84 43 0.15
85 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (83 bp):
TACTTTAGTGGTGTTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCA
AACGCCGCTATAGACACG
Found at i:6762704 original size:125 final size:125
Alignment explanation
Indices: 6762427--6762831 Score: 577
Period size: 125 Copynumber: 3.3 Consensus size: 125
6762417 CAAAATACTA
* * * * * *
6762427 TACTTTAGTGGCGTTTGT-ATA-AAAACGCCGCTAAAGAATCGTAATGTAGTGGCATTTTTATAC
1 TACTTTTGTGGCGTTT-TAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACAC
* * * *
6762490 AAACACCGCTATAAACTA-GTA-TTTTAGTGGTGTTTTTATA-CAAACGCTGCTATAGACACG
65 AAACGCCGCTATAGAC-ACGTACTTTT-GTGGTGTTTTAATACCAAACGCCGCTATAGACACG
* *
6762550 TACTTTTATGGCGTTTTAATACCAAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTACACA
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACA
**
6762615 AACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACCAAACGCCGCTATAGACACG
66 AACGCCGCTATAGACACGTACTTTTGTGGTGTTTTAATACCAAACGCCGCTATAGACACG
* * *
6762675 TACTTTTGTGGTGTTTTAATACCAAACGCCGCTATAGATTCGTACTTTAGTGGCGTTTTTACACA
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACA
*
6762740 AACGCCGCTATAGACACGTACTTTTGTGGTGTTTTAATACCAAACGCCGCTATAGACTCG
66 AACGCCGCTATAGACACGTACTTTTGTGGTGTTTTAATACCAAACGCCGCTATAGACACG
*
6762800 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTTGTGGCGTTTTAATACCAAACGCCGC
6762832 AATTGTCATA
Statistics
Matches: 254, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
122 1 0.00
123 18 0.07
124 64 0.25
125 171 0.67
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (125 bp):
TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACA
AACGCCGCTATAGACACGTACTTTTGTGGTGTTTTAATACCAAACGCCGCTATAGACACG
Found at i:6762974 original size:58 final size:58
Alignment explanation
Indices: 6762884--6762994 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 58
6762874 TTTTATTTGT
6762884 GGTACGACTGTAAATAATGCGAATGCTGTGGTTAACAATTGAATAAGTAGGGTGAGAG
1 GGTACGACTGTAAATAATGCGAATGCTGTGGTTAACAATTGAATAAGTAGGGTGAGAG
* *
6762942 GGTACGACTGTAAATAATGCGAATGTTGTGGTTAACAATTGAATGAGTAGGGT
1 GGTACGACTGTAAATAATGCGAATGCTGTGGTTAACAATTGAATAAGTAGGGT
6762995 TTTGCTTTAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (58 bp):
GGTACGACTGTAAATAATGCGAATGCTGTGGTTAACAATTGAATAAGTAGGGTGAGAG
Found at i:6766486 original size:43 final size:43
Alignment explanation
Indices: 6766424--6766745 Score: 273
Period size: 43 Copynumber: 7.5 Consensus size: 43
6766414 AAGGTAATTA
* ** *
6766424 GCGGCGTTTGTATAAAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
*
6766467 GCGGCGTTTGTGTTCAAAAACGCCGTTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
* * *
6766510 GCAGTGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
*
6766553 GCGGCG-TT-TGTTCTAAAAACACCAG-TATAGGTCTG-CTCTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCC-GCTATAGGTCTGAC-CTTTT
* ** * *
6766595 GCGGCGTTTGTATAAAAAAACGCTGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * * ** * *
6766638 GCGGCATTTTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGC-GTTTGTGTTC-AAAAACGCCGCTATAGGTC-TGACCTTTT
* * * *
6766684 GCGGCGTTTGT-TCCAAAAAACGCCGCTATTA-ATATTGACATTTT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCTA-TAGGT-CTGACCTTTT
6766728 GCGGCG-TT-TGTTCAAAAA
1 GCGGCGTTTGTGTTCAAAAA
6766746 ATGTCGTAAT
Statistics
Matches: 228, Mismatches: 38, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
41 5 0.02
42 38 0.17
43 114 0.50
44 37 0.16
45 22 0.10
46 12 0.05
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (43 bp):
GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
Found at i:6766595 original size:128 final size:132
Alignment explanation
Indices: 6766424--6766746 Score: 322
Period size: 128 Copynumber: 2.5 Consensus size: 132
6766414 AAGGTAATTA
* * * **
6766424 GCGGCGTTTG-TATAAAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAAC
1 GCGGCGTTTGTTCTAAAAAAACGCAGCTATAGGTCTGACTTTTTGCGGCGTTTGTATAAAAAAAC
* * * *
6766488 GCCGTTATAGGTCTGACCTTTTGCAG-TGTTTGTGTCCAAAAACGCCGCTATAGGTC-TGACCTT
66 GCCGCTATAGATCTGACCTTTTGCAGATGTTTGTGTCCAAAAACGCCGCTATAGATCATAACCTT
6766551 TT
131 TT
*
6766553 GCGGCGTTTGTTCTAAAAACAC-CAG-TATAGGTCTG-CTCTTTTGCGGCGTTTGTATAAAAAAA
1 GCGGCGTTTGTTCTAAAAAAACGCAGCTATAGGTCTGACT-TTTTGCGGCGTTTGTATAAAAAAA
* * * * * * * * *
6766615 CGCTGCTATAGATCTGACCTTTTGCGGCATTTTTTTTTCTAGAAACGCCGCTATATATCATAACT
65 CGCCGCTATAGATCTGACCTTTTGCAG-ATGTTTGTGTCCAAAAACGCCGCTATAGATCATAACC
6766680 TTTT
129 TTTT
* * * * * *
6766684 GCGGCGTTTGTTC-CAAAAAACGCCGCTATTA-ATATTGACATTTTGCGGCGTTTGT-TCAAAAA
1 GCGGCGTTTGTTCTAAAAAAACGCAGCTA-TAGGT-CTGACTTTTTGCGGCGTTTGTATAAAAAA
6766746 A
64 A
6766747 TGTCGTAATA
Statistics
Matches: 158, Mismatches: 26, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
127 2 0.01
128 54 0.34
129 12 0.08
130 38 0.24
131 22 0.14
132 10 0.06
133 19 0.12
134 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (132 bp):
GCGGCGTTTGTTCTAAAAAAACGCAGCTATAGGTCTGACTTTTTGCGGCGTTTGTATAAAAAAAC
GCCGCTATAGATCTGACCTTTTGCAGATGTTTGTGTCCAAAAACGCCGCTATAGATCATAACCTT
TT
Found at i:6766623 original size:85 final size:86
Alignment explanation
Indices: 6766424--6766642 Score: 302
Period size: 85 Copynumber: 2.6 Consensus size: 86
6766414 AAGGTAATTA
* *
6766424 GCGGCGTTTGTATAAAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAACG
1 GCGGCGTTTGTATAAAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTCAAAAACA
6766489 CCGTTATAGGTCTGACCTTTT
66 CCGTTATAGGTCTGACCTTTT
* * * **
6766510 GCAGTGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCG-TT-TGTTCTAAAAAC
1 GCGGCGTTTGTATAAAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTC-AAAAAC
6766573 ACCAG-TATAGGTCTG-CTCTTTT
65 ACC-GTTATAGGTCTGAC-CTTTT
* *
6766595 GCGGCGTTTGTATAAAAAAACGCTGCTATAGATCTGACCTTTTGCGGC
1 GCGGCGTTTGTATAAAAAAACGCCGCTATAGGTCTGACCTTTTGCGGC
6766643 ATTTTTTTTT
Statistics
Matches: 116, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
84 6 0.05
85 66 0.57
86 44 0.38
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (86 bp):
GCGGCGTTTGTATAAAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTCAAAAACA
CCGTTATAGGTCTGACCTTTT
Found at i:6766762 original size:43 final size:44
Alignment explanation
Indices: 6766680--6766779 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 44
6766670 TATCATAACT
*
6766680 TTTTGCGGCGTTTGTTCCAAAAAACGCCGCTATTAATATTGACA
1 TTTTGCGGCGTTTGTTCCAAAAAACGCCGCTAATAATATTGACA
* * *
6766724 TTTTGCGGCGTTTGTT-CAAAAAATGTCG-TAATAGATATTGACC
1 TTTTGCGGCGTTTGTTCCAAAAAACGCCGCTAATA-ATATTGACA
*
6766767 TATTGCGGCGTTT
1 TTTTGCGGCGTTT
6766780 TTTGTTCTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 4 0.08
43 30 0.60
44 16 0.32
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (44 bp):
TTTTGCGGCGTTTGTTCCAAAAAACGCCGCTAATAATATTGACA
Found at i:6769476 original size:68 final size:68
Alignment explanation
Indices: 6769367--6769502 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
6769357 AGAAGGCACA
6769367 TGGTGCTCCGCTTTAATTTGTTGACATGTTAGGAACTTAAAAAAATTCGGTGATATCTCTTTTCA
1 TGGTGCTCCGCTTTAATTTGTTGACATGTTAGGAACTTAAAAAAATTCGGTGATATCTCTTTTCA
6769432 TGC
66 TGC
6769435 TGGTGCTCCGCTTTAATTTGTTGACATGTTAGGAACTTAAAAAAATTCGGTGATATCTCTTTTCA
1 TGGTGCTCCGCTTTAATTTGTTGACATGTTAGGAACTTAAAAAAATTCGGTGATATCTCTTTTCA
6769500 TGC
66 TGC
6769503 CTGGCCATCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (68 bp):
TGGTGCTCCGCTTTAATTTGTTGACATGTTAGGAACTTAAAAAAATTCGGTGATATCTCTTTTCA
TGC
Found at i:6782786 original size:23 final size:23
Alignment explanation
Indices: 6782758--6782814 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
6782748 TGGCTTTACC
6782758 TTTCTTTTTGTTTGAAAATTCTT
1 TTTCTTTTTGTTTGAAAATTCTT
* ***
6782781 TTTCTTCCTT-TTTGATTTTTCTT
1 TTTCTT-TTTGTTTGAAAATTCTT
6782804 TTTCTTTTTGT
1 TTTCTTTTTGT
6782815 ATTCCTTTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 2 0.07
23 23 0.85
24 2 0.07
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTCTTTTTGTTTGAAAATTCTT
Found at i:6785687 original size:17 final size:16
Alignment explanation
Indices: 6785656--6785689 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6785646 CACGTGAGGA
6785656 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
6785672 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
6785689 T
1 T
6785690 ACTATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:6786247 original size:2 final size:2
Alignment explanation
Indices: 6786240--6786264 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6786230 TTTCTTAAGT
6786240 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 T
6786265 TCATCAATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6788775 original size:18 final size:17
Alignment explanation
Indices: 6788754--6788787 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6788744 ATTCCTATGA
6788754 AAATATCATTTTTGGGAT
1 AAAT-TCATTTTTGGGAT
*
6788772 AAATTTATTTTTGGGA
1 AAATTCATTTTTGGGA
6788788 AATTACCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (17 bp):
AAATTCATTTTTGGGAT
Found at i:6788903 original size:3 final size:3
Alignment explanation
Indices: 6788891--6788968 Score: 81
Period size: 3 Copynumber: 27.0 Consensus size: 3
6788881 GTGTATAACA
** * * *
6788891 AGG A-G AGG AGG AGG AGG AGG ATT ATG AAG AGG AGG AAG AGG AGG A-G
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
*
6788937 AGG AAG AGG AGG AGG AGG AGG AGG A-G AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
6788969 TGGTATTAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
2 6 0.10
3 57 0.90
ACGTcount: A:0.38, C:0.00, G:0.58, T:0.04
Consensus pattern (3 bp):
AGG
Found at i:6790737 original size:20 final size:21
Alignment explanation
Indices: 6790702--6790743 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6790692 TGTTTCTAAT
* *
6790702 CTAGGTCCCTGAGTATCGATA
1 CTAGGGCCCTGAGTATCAATA
6790723 CTAGGGCCC-GAGTATCAATA
1 CTAGGGCCCTGAGTATCAATA
6790743 C
1 C
6790744 CACCCGAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (21 bp):
CTAGGGCCCTGAGTATCAATA
Found at i:6793121 original size:90 final size:90
Alignment explanation
Indices: 6792968--6793143 Score: 325
Period size: 90 Copynumber: 2.0 Consensus size: 90
6792958 ATCGATAGCT
6792968 ATCATACACCAAGTATGCCAATTACATACATAGTCCTTCAGTACACAAAGTACTACTACAATACC
1 ATCATACACCAAGTATGCCAATTACATACATAGTCCTTCAGTACACAAAGTACTACTACAATACC
6793033 ACCTTATTTATGGTATTACAAAACC
66 ACCTTATTTATGGTATTACAAAACC
* * *
6793058 ATCATACACCATGTATGTCAATTACATACATAGTGCTTCAGTACACAAAGTACTACTACAATACC
1 ATCATACACCAAGTATGCCAATTACATACATAGTCCTTCAGTACACAAAGTACTACTACAATACC
6793123 ACCTTATTTATGGTATTACAA
66 ACCTTATTTATGGTATTACAA
6793144 TTGTACCTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.30
Consensus pattern (90 bp):
ATCATACACCAAGTATGCCAATTACATACATAGTCCTTCAGTACACAAAGTACTACTACAATACC
ACCTTATTTATGGTATTACAAAACC
Found at i:6794005 original size:164 final size:164
Alignment explanation
Indices: 6793719--6794052 Score: 492
Period size: 164 Copynumber: 2.0 Consensus size: 164
6793709 CCCAATATAT
* * *
6793719 CAACAATACCATAATTACCACTTTAAACCACTAACTTCTCAATATTTACCATTTTGTAATTAAAC
1 CAACAATAACATAATTACCACCTTAAACCACTAACTTCTCAATATTTACCAATTTGTAATTAAAC
* * ** * *
6793784 TTTGCCAACTTTGCAAAATGACTTAATTTCACATTCTAACTTTGATTTCATCCCTCAAATAGTAA
66 TTTGACAACTTTCCAAAATGACTTAATTTCACATTCTAACTTCAATTTCAGCCCTCAAACAGTAA
*
6793849 TTTCCAGCAATGTACATCAATTATTGAGTAATTA
131 TTTCCAGCAAAGTACATCAATTATTGAGTAATTA
* *
6793883 CAACAATAACATAATTACC-CCTTAAGCCACTAACTTTCTCAATATTTACCAATTTGTACTTAAA
1 CAACAATAACATAATTACCACCTTAAACCACTAAC-TTCTCAATATTTACCAATTTGTAATTAAA
* * *
6793947 CTTTGACAACTTTCCAAAATGGCTTAATTTCATATTCTAACTTCAATTTTAGCCCTCAAACAGTA
65 CTTTGACAACTTTCCAAAATGACTTAATTTCACATTCTAACTTCAATTTCAGCCCTCAAACAGTA
* *
6794012 ATTTCTAGCAAAGTACATTAATTATTGAGTAATTA
130 ATTTCCAGCAAAGTACATCAATTATTGAGTAATTA
6794047 C-ACAAT
1 CAACAAT
6794053 TAGTCCATAA
Statistics
Matches: 152, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
163 18 0.12
164 134 0.88
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.36
Consensus pattern (164 bp):
CAACAATAACATAATTACCACCTTAAACCACTAACTTCTCAATATTTACCAATTTGTAATTAAAC
TTTGACAACTTTCCAAAATGACTTAATTTCACATTCTAACTTCAATTTCAGCCCTCAAACAGTAA
TTTCCAGCAAAGTACATCAATTATTGAGTAATTA
Found at i:6794463 original size:72 final size:72
Alignment explanation
Indices: 6794346--6794490 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
6794336 GCCAAAACTT
6794346 ATATTAACATATGTAGCCATATATAGTTGATTTTAATCATCAATCATGTTTGGAAATAATTTTAC
1 ATATTAACATATGTAGCCATATATAGTTGATTTTAATCATCAATCATGTTTGGAAATAATTTTAC
6794411 AACCTCA
66 AACCTCA
6794418 ATATTAACATATGTAGCCATATATAGTTGATTTTAATCATCAATCATGTTTGGAAATAATTTTAC
1 ATATTAACATATGTAGCCATATATAGTTGATTTTAATCATCAATCATGTTTGGAAATAATTTTAC
6794483 AACCTCA
66 AACCTCA
6794490 A
1 A
6794491 AAACATCTAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (72 bp):
ATATTAACATATGTAGCCATATATAGTTGATTTTAATCATCAATCATGTTTGGAAATAATTTTAC
AACCTCA
Found at i:6798191 original size:68 final size:70
Alignment explanation
Indices: 6798101--6798258 Score: 194
Period size: 68 Copynumber: 2.3 Consensus size: 70
6798091 GATACTCTCA
* * ** * *
6798101 TATGAGTCATTCTAATTATTTGGGGCTCCCGTGTGAGTCGCAC-GAAATAAATAT-AACAGGTGC
1 TATGAGTCACTATAATCCTTTGGGGCTCCCGTATGAGTCACACAGAAATAAATATGAACAGGTGC
6798164 TCCCG
66 TCCCG
* * * **
6798169 TGTGAGTCACTATAATCCTTTGGGGCTCCCGTATGAGTCACCCATAAATAAATATGATTAGGTGC
1 TATGAGTCACTATAATCCTTTGGGGCTCCCGTATGAGTCACACAGAAATAAATATGAACAGGTGC
6798234 TCCCG
66 TCCCG
*
6798239 TATGAGTCACTCTAATCCTT
1 TATGAGTCACTATAATCCTT
6798259 CGGTGCAAGT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
68 35 0.47
69 10 0.13
70 30 0.40
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (70 bp):
TATGAGTCACTATAATCCTTTGGGGCTCCCGTATGAGTCACACAGAAATAAATATGAACAGGTGC
TCCCG
Found at i:6798256 original size:70 final size:70
Alignment explanation
Indices: 6798014--6798362 Score: 270
Period size: 70 Copynumber: 5.1 Consensus size: 70
6798004 ATATATATAA
* * * * ** * *
6798014 ATGATTAGGTGCACCCGTGTAAGTCACTCTAAT-CTTTCAGGACTCATGTACGAGTCACTCGAAA
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTT-GGGGCTCCCGTACGAGTCACCCAAAA
6798078 ATAAAT
65 ATAAAT
* * * * * * ** ** * * *
6798084 ATGATTAGATACTCTCATATGAGTCATTCTAATTATTTGGGGCTCCCGTGTGAGTCGCAC-GAAA
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTACGAGTCACCCAAAAA
6798148 TAAAT
66 TAAAT
** * * *
6798153 AT-AACAGGTGCTCCCGTGTGAGTCACTATAATCCTTTGGGGCTCCCGTATGAGTCACCCATAAA
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTACGAGTCACCCAAAAA
6798217 TAAAT
66 TAAAT
* * * *
6798222 ATGATTAGGTGCTCCCGTATGAGTCACTCTAATCC-TT-CGG-T---G--CAAGTCACCTAAAAA
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTACGAGTCACCCAAAAA
*
6798279 TATAT
66 TAAAT
* * * * * * *
6798284 ATGATTAAGTGTTCTCGTGTGAGTCACTCTAATCCTTCGGGGCTCCCATGCGAGTCTCCCAAAAA
1 ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTACGAGTCACCCAAAAA
6798349 TAAAT
66 TAAAT
6798354 ATGATTAGG
1 ATGATTAGG
6798363 CGTTGTCGTG
Statistics
Matches: 213, Mismatches: 55, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
62 46 0.22
63 1 0.00
64 3 0.01
65 1 0.00
67 1 0.00
68 45 0.21
69 22 0.10
70 91 0.43
71 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (70 bp):
ATGATTAGGTGCTCCCGTGTGAGTCACTCTAATCCTTTGGGGCTCCCGTACGAGTCACCCAAAAA
TAAAT
Found at i:6798307 original size:62 final size:62
Alignment explanation
Indices: 6798204--6798323 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
6798194 CTCCCGTATG
* *
6798204 AGTCACCCATAAATAAATATGATTAGGTGCTCCCGTATGAGTCACTCTAATCCTTCGGTGCA
1 AGTCACCCAAAAATAAATATGATTAAGTGCTCCCGTATGAGTCACTCTAATCCTTCGGTGCA
* * * * *
6798266 AGTCACCTAAAAATATATATGATTAAGTGTTCTCGTGTGAGTCACTCTAATCCTTCGG
1 AGTCACCCAAAAATAAATATGATTAAGTGCTCCCGTATGAGTCACTCTAATCCTTCGG
6798324 GGCTCCCATG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (62 bp):
AGTCACCCAAAAATAAATATGATTAAGTGCTCCCGTATGAGTCACTCTAATCCTTCGGTGCA
Found at i:6804031 original size:17 final size:17
Alignment explanation
Indices: 6804006--6804040 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6803996 TATCAATTAA
6804006 CACTACCAAAAATTGGT
1 CACTACCAAAAATTGGT
*
6804023 CACTGCCAAAAATTGGT
1 CACTACCAAAAATTGGT
6804040 C
1 C
6804041 TAAATAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (17 bp):
CACTACCAAAAATTGGT
Found at i:6812653 original size:33 final size:33
Alignment explanation
Indices: 6812611--6812681 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
6812601 GTTGGCATGA
*
6812611 AATTTTAGATTAATTTCATGCTAATTTAGTTTT
1 AATTTTAGATTAATTTCATGCTAATTTAGCTTT
*
6812644 AATTTTAGATTAATTTCATTCTAATTTAGCTTT
1 AATTTTAGATTAATTTCATGCTAATTTAGCTTT
6812677 AATTT
1 AATTT
6812682 AAGCTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (33 bp):
AATTTTAGATTAATTTCATGCTAATTTAGCTTT
Found at i:6816312 original size:61 final size:61
Alignment explanation
Indices: 6816237--6816390 Score: 182
Period size: 61 Copynumber: 2.5 Consensus size: 61
6816227 GTGCTAAACA
* * **
6816237 TGCACTAAGCTTACACTCTAGTGCTAATTTGGATATGACAAATAAAGTTGTGCCCTCCACC
1 TGCACTAGGTTTACACTCTAGTGCTAATCCGGATATGACAAATAAAGTTGTGCCCTCCACC
* * * * *
6816298 TGCACTAGGTTTACATTCTATTGCTAATCCGGATATGACACATAAGGTTGTGCCCTTCACC
1 TGCACTAGGTTTACACTCTAGTGCTAATCCGGATATGACAAATAAAGTTGTGCCCTCCACC
*
6816359 TGCACTTAGTGTCCTTACACACTAGTGCTAAT
1 TGCAC-TAG-GT--TTACACTCTAGTGCTAAT
6816391 ATAAATCTGC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
61 57 0.74
62 3 0.04
63 2 0.03
65 15 0.19
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (61 bp):
TGCACTAGGTTTACACTCTAGTGCTAATCCGGATATGACAAATAAAGTTGTGCCCTCCACC
Found at i:6825925 original size:19 final size:18
Alignment explanation
Indices: 6825901--6825951 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
6825891 AAAATTATAA
6825901 TATATATATAA-TATAAGTT
1 TATATATATAACTAT--GTT
6825920 TATATATA-AACTATGTT
1 TATATATATAACTATGTT
6825937 TATAT-TATAAACTAT
1 TATATATAT-AACTAT
6825952 ATAATTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 8 0.28
18 8 0.28
19 11 0.38
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (18 bp):
TATATATATAACTATGTT
Found at i:6825947 original size:18 final size:17
Alignment explanation
Indices: 6825903--6825951 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
6825893 AATTATAATA
*
6825903 TATATATAATA-TAAGTT
1 TATATATAA-ACTATGTT
6825920 TATATATAAACTATGTT
1 TATATATAAACTATGTT
6825937 TATATTATAAACTAT
1 TATA-TATAAACTAT
6825952 ATAATTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 1 0.03
17 18 0.62
18 10 0.34
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (17 bp):
TATATATAAACTATGTT
Found at i:6825958 original size:15 final size:16
Alignment explanation
Indices: 6825942--6826005 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 16
6825932 ATGTTTATAT
6825942 TATAAACTATATAAT-
1 TATAAACTATATAATG
6825957 TATTATAAGCTATATAAACTATG
1 TA-TA-AA-CTATAT-AA---TG
6825980 TATAAACTATAT-ATG
1 TATAAACTATATAATG
6825995 TATAAACTATA
1 TATAAACTATA
6826006 AAAAGTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
15 15 0.37
16 2 0.05
17 2 0.05
18 7 0.17
19 2 0.05
20 6 0.15
21 2 0.05
22 3 0.07
23 2 0.05
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (16 bp):
TATAAACTATATAATG
Found at i:6825959 original size:20 final size:19
Alignment explanation
Indices: 6825920--6825992 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 19
6825910 AATATAAGTT
* *
6825920 TATA-TATAAACTATGT-T
1 TATATTATAAACTATATAA
6825937 TATATTATAAACTATATAA
1 TATATTATAAACTATATAA
*
6825956 T-TATTATAAGCTATATAA
1 TATATTATAAACTATATAA
6825974 -ACTATGTATAAACTATATA
1 TA-TAT-TATAAACTATATA
6825993 TGTATAAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 4 0.09
18 27 0.57
19 4 0.09
20 12 0.26
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (19 bp):
TATATTATAAACTATATAA
Found at i:6825972 original size:9 final size:9
Alignment explanation
Indices: 6825942--6825992 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
6825932 ATGTTTATAT
6825942 TATAAACTA
1 TATAAACTA
*
6825951 TAT-AATTA
1 TATAAACTA
*
6825959 TTATAAGCTA
1 -TATAAACTA
6825969 TATAAACTA
1 TATAAACTA
6825978 TGTATAAACTA
1 --TATAAACTA
6825989 TATA
1 TATA
6825993 TGTATAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 4 0.12
9 18 0.53
10 3 0.09
11 9 0.26
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (9 bp):
TATAAACTA
Found at i:6826024 original size:40 final size:40
Alignment explanation
Indices: 6825980--6826117 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 40
6825970 ATAAACTATG
6825980 TATAAACTATATATGTATAAACTATA-AAAAGTATATAGTT
1 TATAAACTATATATGTATAAACTATATAAAA-TATATAGTT
* * *
6826020 TATAAAATATA-ATTTATATTAA-TATAGTATATATATATATGTATGTA
1 TATAAACTATATATGTATA--AACTATA-TA-A-A-ATATA--TA-GTT
6826067 TATAAACTATATATGTATAAACTATATAAAATATATAGTT
1 TATAAACTATATATGTATAAACTATATAAAATATATAGTT
*
6826107 TATAAATTATA
1 TATAAACTATA
6826118 ATTATATTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
39 6 0.08
40 26 0.33
41 4 0.05
42 1 0.01
43 6 0.08
44 6 0.08
45 2 0.03
46 6 0.08
47 16 0.20
48 6 0.08
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (40 bp):
TATAAACTATATATGTATAAACTATATAAAATATATAGTT
Found at i:6826054 original size:2 final size:2
Alignment explanation
Indices: 6826041--6826201 Score: 83
Period size: 2 Copynumber: 82.5 Consensus size: 2
6826031 ATTTATATTA
* * * *
6826041 AT AT AGT AT AT AT AT AT AT GT AT GT AT AT AA ACT AT AT AT GT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * *
6826085 AA ACT AT AT A- AA AT AT AT AGT TT AT AA AT -T AT A- AT -T AT AT
1 AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* *
6826125 -T A- AT AT AGT AT AT AT AT GT AT GT AT A- ACT A- AT AT A- AGT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T
*
6826163 A- AT AT AT AG A- 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
6826202 GTTTATAGAA
Statistics
Matches: 121, Mismatches: 20, Indels: 36
0.68 0.11 0.20
Matches are distributed among these distances:
1 11 0.09
2 101 0.83
3 9 0.07
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (2 bp):
AT
Found at i:6826068 original size:14 final size:13
Alignment explanation
Indices: 6826041--6826201 Score: 71
Period size: 13 Copynumber: 11.8 Consensus size: 13
6826031 ATTTATATTA
6826041 ATATAGTATATAT
1 ATATAGTATATAT
*
6826054 ATATATGTATGTAT
1 ATATA-GTATATAT
* *
6826068 ATAAACTATATATGT
1 ATATAGTATATA--T
* *
6826083 ATAAACTATATAAAAT
1 ATATAGTATAT---AT
* *
6826099 ATATAGTTTATAA
1 ATATAGTATATAT
*
6826112 ATTATAAT-TATATT
1 A-TATAGTATATA-T
6826126 AATATAGTATATAT
1 -ATATAGTATATAT
*
6826140 ATGTATGTATA-ACT
1 ATATA-GTATATA-T
6826154 AATATAAGTA-ATAT
1 -ATAT-AGTATATAT
* *
6826168 ATAGAATATATAT
1 ATATAGTATATAT
6826181 ATATA-TATATAT
1 ATATAGTATATAT
6826193 ATATA-TATA
1 ATATAGTATA
6826202 GTTTATAGAA
Statistics
Matches: 116, Mismatches: 16, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
12 19 0.16
13 32 0.28
14 30 0.26
15 24 0.21
16 10 0.09
18 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.43
Consensus pattern (13 bp):
ATATAGTATATAT
Found at i:6826089 original size:87 final size:86
Alignment explanation
Indices: 6825980--6826149 Score: 297
Period size: 87 Copynumber: 2.0 Consensus size: 86
6825970 ATAAACTATG
6825980 TATAAACTATATATGTATAAACTATA-AAAAGTATATAGTTTATAAAATATAATTTATATTAATA
1 TATAAACTATATATGTATAAACTATATAAAA-TATATAGTTTATAAAATATAA-TTATATTAATA
6826044 TAGTATATATATATATGTATGTA
64 TAGTATATATATATATGTATGTA
*
6826067 TATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTATATTAATATA
1 TATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTATATTAATATA
*
6826132 GTATATATATGTATGTAT
66 GTATATATATATATGTAT
6826150 AACTAATATA
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
86 30 0.38
87 46 0.57
88 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (86 bp):
TATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTATATTAATATA
GTATATATATATATGTATGTA
Found at i:6826151 original size:40 final size:40
Alignment explanation
Indices: 6826024--6826201 Score: 110
Period size: 45 Copynumber: 4.2 Consensus size: 40
6826014 ATAGTTTATA
*
6826024 AAATATAATTTATATTAATATAGTATATATATATATGTAT
1 AAATATAACTTATATTAATATAGTATATATATATATGTAT
** * * *
6826064 GTATATAAACTATATATGTATAAACTA-TATAAAATATATAGTTTAT
1 AAATAT-AACT-TATAT-TA-ATA-TAGTAT-ATATATATA-TGTAT
*
6826110 AAATTATAA-TTATATTAATATAGTATATATATGTATGTAT
1 AAA-TATAACTTATATTAATATAGTATATATATATATGTAT
* * *
6826150 AACTAATATAAGTAATATATAGAATATA-TATATATATATATATAT
1 -A--AATATAACT--TATAT-TAATATAGTATATATATATATGTAT
*
6826195 ATATATA
1 AAATATA
6826202 GTTTATAGAA
Statistics
Matches: 106, Mismatches: 16, Indels: 30
0.70 0.11 0.20
Matches are distributed among these distances:
40 8 0.08
41 13 0.12
42 20 0.19
43 7 0.07
44 11 0.10
45 31 0.29
46 13 0.12
47 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.44
Consensus pattern (40 bp):
AAATATAACTTATATTAATATAGTATATATATATATGTAT
Found at i:6826183 original size:80 final size:83
Alignment explanation
Indices: 6825976--6826181 Score: 248
Period size: 87 Copynumber: 2.5 Consensus size: 83
6825966 CTATATAAAC
*
6825976 TATG-TATAAACTATATATGTATAAACTATA-AAAAGTATATAGTTTATAAAATATAATTTATAT
1 TATGATATAAACTATATAAGTATAAACTATAGAAAA-TATATAGTTTATAAAATATAATTTATAT
6826039 TAATATAGTATATATATATATG
65 TAATATAG---ATATATATATG
* * *
6826061 TATGTATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAA-TTATAT
1 TATG-ATATAAACTATATAAGTATAAACTATAGAAAATATATAGTTTATAAAATATAATTTATAT
6826125 TAATATAG-TATATATATG
65 TAATATAGATATATATATG
* *
6826143 TATG-TAT-AACTAATATAAGTA-ATA-TATAGAATATATATA
1 TATGATATAAACT-ATATAAGTATAAACTATAGAAAATATATA
6826182 TATATATATA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
78 13 0.12
79 6 0.05
80 11 0.10
82 14 0.12
85 4 0.04
86 14 0.12
87 46 0.41
88 4 0.04
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (83 bp):
TATGATATAAACTATATAAGTATAAACTATAGAAAATATATAGTTTATAAAATATAATTTATATT
AATATAGATATATATATG
Found at i:6826272 original size:7 final size:6
Alignment explanation
Indices: 6826259--6826315 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 6
6826249 AATTTATAAA
* *
6826259 AACCCT ACACCCT ACACCCT AACCCCT AATCTCT AAACCCT AACCCT ACCCCT
1 AACCCT A-ACCCT A-ACCCT AA-CCCT AA-CCCT -AACCCT AACCCT AACCCT
6826312 AACC
1 AACC
6826316 ATAAATCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 16 0.37
7 25 0.58
8 2 0.05
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.18
Consensus pattern (6 bp):
AACCCT
Found at i:6826286 original size:21 final size:20
Alignment explanation
Indices: 6826259--6826313 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
6826249 AATTTATAAA
*
6826259 AACCCTACACCCTACACCCT
1 AACCCTACACCCTAAACCCT
*
6826279 AACCCCTA-ATCTCTAAACCCT
1 AA-CCCTACA-CCCTAAACCCT
6826300 AACCCTAC-CCCTAA
1 AACCCTACACCCTAA
6826314 CCATAAATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 5 0.17
20 8 0.28
21 16 0.55
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (20 bp):
AACCCTACACCCTAAACCCT
Found at i:6827703 original size:12 final size:11
Alignment explanation
Indices: 6827675--6827714 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
6827665 TTTAATTAAC
6827675 TCAAATGTTAT
1 TCAAATGTTAT
*
6827686 TCAAATTTTAT
1 TCAAATGTTAT
6827697 ATCAAATGTTAT
1 -TCAAATGTTAT
*
6827709 TTAAAT
1 TCAAAT
6827715 TATCATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (11 bp):
TCAAATGTTAT
Found at i:6827996 original size:23 final size:24
Alignment explanation
Indices: 6827965--6828018 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
6827955 ATTATTTTTC
6827965 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
*
6827988 TTTATATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
6828012 TTTACAT
1 TTTACAT
6828019 TTAATCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:6829589 original size:75 final size:75
Alignment explanation
Indices: 6829504--6829653 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
6829494 TTTTTATTTG
6829504 ATAGATAATAGTTTTTAATATCCCAAAATTTTGGCTAGTGATCAAAATGTAAATTTTGAAAGTTT
1 ATAGATAATAGTTTTTAATATCCCAAAATTTTGGCTAGTGATCAAAATGTAAATTTTGAAAGTTT
6829569 AGTGGCCAAA
66 AGTGGCCAAA
6829579 ATAGATAATAGTTTTTAATATCCCAAAATTTTGGCTAGTGATCAAAATGTAAATTTTGAAAGTTT
1 ATAGATAATAGTTTTTAATATCCCAAAATTTTGGCTAGTGATCAAAATGTAAATTTTGAAAGTTT
6829644 AGTGGCCAAA
66 AGTGGCCAAA
6829654 GAATAAACTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (75 bp):
ATAGATAATAGTTTTTAATATCCCAAAATTTTGGCTAGTGATCAAAATGTAAATTTTGAAAGTTT
AGTGGCCAAA
Found at i:6845497 original size:21 final size:21
Alignment explanation
Indices: 6845471--6845527 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
6845461 GAAGCTACGA
6845471 GTTTATATGAATATGTGATAT
1 GTTTATATGAATATGTGATAT
6845492 GTTTATATGAATATGTGATAT
1 GTTTATATGAATATGTGATAT
* *
6845513 ATTTACATGAATATG
1 GTTTATATGAATATG
6845528 GAAAAAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.46
Consensus pattern (21 bp):
GTTTATATGAATATGTGATAT
Found at i:6846280 original size:12 final size:12
Alignment explanation
Indices: 6846263--6846294 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
6846253 CGTAGGTTAC
6846263 AGAAGCGAGAAG
1 AGAAGCGAGAAG
6846275 AGAAGCGAGAAG
1 AGAAGCGAGAAG
6846287 AGAAGCGA
1 AGAAGCGA
6846295 AAAAGAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.41, T:0.00
Consensus pattern (12 bp):
AGAAGCGAGAAG
Found at i:6850267 original size:23 final size:23
Alignment explanation
Indices: 6850236--6850301 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
6850226 TCTTATATGG
6850236 CACTACGGTGCATTTCTACGCGA
1 CACTACGGTGCATTTCTACGCGA
* * * *
6850259 CACTTCGGTGCAATTCTACGTGG
1 CACTACGGTGCATTTCTACGCGA
* *
6850282 CACTCCGGTGCATTTATACG
1 CACTACGGTGCATTTCTACG
6850302 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.29
Consensus pattern (23 bp):
CACTACGGTGCATTTCTACGCGA
Found at i:6850606 original size:2 final size:2
Alignment explanation
Indices: 6850599--6850633 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6850589 ATGTACCTGG
6850599 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 T
6850634 GTTTGGTTTG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6854560 original size:2 final size:2
Alignment explanation
Indices: 6854553--6854578 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6854543 AAATTAAGTA
6854553 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
6854579 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6855402 original size:23 final size:23
Alignment explanation
Indices: 6855343--6855404 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
6855333 GACATCTTAT
* *
6855343 ATGGCACTATGGTGCATTTCTAC
1 ATGGCACTAAGGTGCAATTCTAC
** ** *
6855366 GCGGCACTTCGGTGCAATTCTGC
1 ATGGCACTAAGGTGCAATTCTAC
6855389 ATGGCACTAAGGTGCA
1 ATGGCACTAAGGTGCA
6855405 TTTATACAAG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
ATGGCACTAAGGTGCAATTCTAC
Found at i:6860468 original size:23 final size:23
Alignment explanation
Indices: 6860442--6860501 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6860432 ATGGCACTAT
*
6860442 GGTGCATTTCTACGCGACACTTC
1 GGTGCATTTCTACGCGACACTCC
* * *
6860465 GGTGCAATTCTACGTGGCACTCC
1 GGTGCATTTCTACGCGACACTCC
*
6860488 GGTGCATTTATACG
1 GGTGCATTTCTACG
6860502 AGCTGTGGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (23 bp):
GGTGCATTTCTACGCGACACTCC
Found at i:6864357 original size:2 final size:2
Alignment explanation
Indices: 6864350--6864385 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6864340 CACTAAAGAG
6864350 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
6864386 GTTTACAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6866878 original size:24 final size:21
Alignment explanation
Indices: 6866822--6866870 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
6866812 TTTAAATATT
6866822 GATACTTAATATATTATTATC
1 GATACTTAATATATTATTATC
6866843 GATACTTAATATATTATTATC
1 GATACTTAATATATTATTATC
6866864 GATACTT
1 GATACTT
6866871 TTAAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (21 bp):
GATACTTAATATATTATTATC
Found at i:6866972 original size:52 final size:51
Alignment explanation
Indices: 6866860--6866973 Score: 142
Period size: 52 Copynumber: 2.2 Consensus size: 51
6866850 AATATATTAT
* *
6866860 TATCGATACTTTTAAATATTAAAAAGTTAAAGATAAGATTAAAATTTAAAA
1 TATCGATACTTTTAAAAATTAAAAAGTTAAAGATAAGATCAAAATTTAAAA
* *
6866911 TATCAATACTTTTAAAAATTGAAAAAGTTGATAA-A-AAGATCGAAATTTAAAA
1 TATCGATACTTTTAAAAATT-AAAAAGTT-A-AAGATAAGATCAAAATTTAAAA
*
6866963 TATTGATACTT
1 TATCGATACTT
6866974 ATGTGATAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
51 18 0.33
52 32 0.59
53 2 0.04
54 2 0.04
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (51 bp):
TATCGATACTTTTAAAAATTAAAAAGTTAAAGATAAGATCAAAATTTAAAA
Found at i:6867051 original size:74 final size:73
Alignment explanation
Indices: 6866916--6867070 Score: 186
Period size: 74 Copynumber: 2.1 Consensus size: 73
6866906 TAAAATATCA
* * *
6866916 ATACTTTTAAAAATTGAAAAAGTTGATAAAAAGATCGAAATTTAAAATATTGATACTTATGTGAT
1 ATACTTTTAAAAATTGAAAAAGTTGATAAAAAGATCGAAAGTTAAAATATCGATACATATGTGAT
6866981 AATGA-TCG
66 AA-GATTCG
* * * * * * *
6866989 ATACTTTTAGATATTGAACAAGTTGATGAATATGATCGATAGTTAAAATATCGATACATATGTTA
1 ATACTTTTAAAAATTGAAAAAGTTGAT-AAAAAGATCGAAAGTTAAAATATCGATACATATGTGA
*
6867054 TGAGATTCG
65 TAAGATTCG
6867063 ATACTTTT
1 ATACTTTT
6867071 TATTTATATC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
73 26 0.38
74 43 0.62
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (73 bp):
ATACTTTTAAAAATTGAAAAAGTTGATAAAAAGATCGAAAGTTAAAATATCGATACATATGTGAT
AAGATTCG
Found at i:6867322 original size:83 final size:82
Alignment explanation
Indices: 6867210--6867366 Score: 201
Period size: 83 Copynumber: 1.9 Consensus size: 82
6867200 ACTTTTGAAT
* * * *
6867210 TAAAAAATGGAAAATCATATTTTACCTTTCAAA-TTATAAAGTATTAATACTTTTGAAAAAA-TA
1 TAAAAAATGGAAAATCATATTTTAACTTTCAAATTTA-AAAGAATCAATAC-TTTAAAAAAAGTA
6867273 TCGATACTTTTGAATTTAAA
64 TCGATA-TTTTGAATTTAAA
* * * *
6867293 TAAAATATGTAAAATGATATTTTAACTTTCAAATTTAAAAGAATCAATACTTTAAAAAAAGTATT
1 TAAAAAATGGAAAATCATATTTTAACTTTCAAATTTAAAAGAATCAATACTTTAAAAAAAGTATC
6867358 GATATTTTG
66 GATATTTTG
6867367 TACCCTTCTC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
82 14 0.22
83 47 0.73
84 3 0.05
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (82 bp):
TAAAAAATGGAAAATCATATTTTAACTTTCAAATTTAAAAGAATCAATACTTTAAAAAAAGTATC
GATATTTTGAATTTAAA
Found at i:6867449 original size:121 final size:123
Alignment explanation
Indices: 6867287--6867530 Score: 336
Period size: 121 Copynumber: 2.0 Consensus size: 123
6867277 TACTTTTGAA
*
6867287 TTTAAATAAAATATGTAAAATGATATTTTAACTTTCAAATTTAAAAG-AATCA-ATAC-TTTAAA
1 TTTAAATAAAATATGAAAAATGATATTTTAACTTTCAAATTTAAAAGTAA--AGATACTTTTAAA
* * * *
6867349 AAAAGTATTGATATTTTGTACCCTTCTCATTTTGCATGTTTCTATTTAAATTCGAAAGTAT
64 AAAA-TATCGATACTTTGCACCCTACTCATTTTGCATGTTTCTATTTAAATTCGAAAGTAT
* *
6867410 TTTAAA-AAAA-ATGAAAAATGATATTTTAACTTTCGAATTTAAAAGTAAAGATACTTTTGAAAA
1 TTTAAATAAAATATGAAAAATGATATTTTAACTTTCAAATTTAAAAGTAAAGATACTTTTAAAAA
* * *
6867473 AATATCGATACTTTGCACCCTACTCATTTTTCATGTTTTTCTTTAAATTCGAAAGTAT
66 AATATCGATACTTTGCACCCTACTCATTTTGCATGTTTCTATTTAAATTCGAAAGTAT
6867531 CGATACTTTT
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
120 1 0.01
121 86 0.80
122 15 0.14
123 6 0.06
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (123 bp):
TTTAAATAAAATATGAAAAATGATATTTTAACTTTCAAATTTAAAAGTAAAGATACTTTTAAAAA
AATATCGATACTTTGCACCCTACTCATTTTGCATGTTTCTATTTAAATTCGAAAGTAT
Found at i:6867838 original size:77 final size:77
Alignment explanation
Indices: 6867566--6868015 Score: 347
Period size: 77 Copynumber: 5.8 Consensus size: 77
6867556 CTTTCGAATT
* * * * *
6867566 TTTTA-TAATAGAAATATTAACATT-CACTATCACAACTTGTTTTCTTAATGAACCAT-AACATT
1 TTTTATTAATAAAAATATTAACATTCCA-GATCACAACCT-ATTTCTTAGTGAACCATGAA-ATT
* *
6867628 CTTGTTA-GCAACTCA
63 CTTG-GACACAACTCA
* ** * * * * **
6867643 TTTTATTAATAAAAATATTAACGTTCTGGATCGCAACATATCTCTTAGTGAATCATGACTTTTTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGTGAACCATGA----AAT
* *
6867708 TTTTGGAGA-AACTCA
62 TCTTGGACACAACTCA
* *
6867723 TTTTATTAATAAAAATATTAACATTCCAGATCATAACCTATTTCTTAATGAACCATGAAATTCTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGTGAACCATGAAATTCTT
6867788 GGACACAACTCA
66 GGACACAACTCA
* * * * * * **
6867800 TTTTATCAATAAAAATATTAACACTCCATATCACAACCTGACATATTTATTATTGAACTATGGCA
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAA-C---C-TATTTCTTAGTGAACCATGAAA
*** *
6867865 TTCTTGG-TGTAACCCA
61 TTCTTGGACACAACTCA
* * * * *
6867881 TTTTATTAATAAAAATATTAACATTCCAGATCACAAACTATTTTTTAGTGAAACATGACATTTTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGTGAACCATGAAATTCTT
*
6867946 GGCCACAA-TCTA
66 GGACACAACTC-A
* * **
6867958 TTTTATTAATAAAAATATTAATATTCCATATCACAATTTATTTCTTAGTGAACCATGA
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGTGAACCATGA
6868016 CATTTTTAAG
Statistics
Matches: 295, Mismatches: 62, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
76 32 0.11
77 112 0.38
78 27 0.09
80 56 0.19
81 44 0.15
82 24 0.08
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.38
Consensus pattern (77 bp):
TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGTGAACCATGAAATTCTT
GGACACAACTCA
Found at i:6869287 original size:46 final size:45
Alignment explanation
Indices: 6869186--6869287 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
6869176 ATTATAATAA
* * * *
6869186 TATATAGTA-ATTTTGAAAATATGTATACTTTTTTAAAAATATAT
1 TATATATTATATTTTGAAAACATATATAATTTTTTAAAAATATAT
* *
6869230 TATTTATTATATTTTGGAAACATATATAATTTTTT-AAAATATAT
1 TATATATTATATTTTGAAAACATATATAATTTTTTAAAAATATAT
6869274 TATAAATATTATAT
1 TAT--ATATTATAT
6869288 ATATATATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 19 0.40
45 21 0.44
46 8 0.17
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (45 bp):
TATATATTATATTTTGAAAACATATATAATTTTTTAAAAATATAT
Found at i:6869295 original size:13 final size:13
Alignment explanation
Indices: 6869269--6869312 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
6869259 TTTTTTAAAA
*
6869269 TATATTATAAATAT
1 TATA-TATATATAT
6869283 TATATATATATAT
1 TATATATATATAT
*
6869296 TATATCTATAT-T
1 TATATATATATAT
6869308 TATAT
1 TATAT
6869313 CATTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 6 0.21
13 18 0.64
14 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TATATATATATAT
Found at i:6869795 original size:43 final size:43
Alignment explanation
Indices: 6869747--6869832 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
6869737 TGTTTGGTTC
*
6869747 AAGTTTTCAAAGGGGGAATTGGAATCCAATTCCATCAAGGGAG
1 AAGTTTTCAAAAGGGGAATTGGAATCCAATTCCATCAAGGGAG
6869790 AAGTTTTCAAAAGGGGAATTGGAATCCAATTCCATCAAGGGAG
1 AAGTTTTCAAAAGGGGAATTGGAATCCAATTCCATCAAGGGAG
6869833 GAAAAGTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (43 bp):
AAGTTTTCAAAAGGGGAATTGGAATCCAATTCCATCAAGGGAG
Found at i:6869986 original size:30 final size:31
Alignment explanation
Indices: 6869929--6869996 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
6869919 CTTTTGGTAT
* *
6869929 TCGGGTTGGTTTTTTTTCAAAAAATTTCGGGA
1 TCGGGTAGGATTTTTTT-AAAAAATTTCGGGA
* *
6869961 TCGGGTAGGATTTTTTT-AAATATTTCGGGT
1 TCGGGTAGGATTTTTTTAAAAAATTTCGGGA
6869991 TCGGGT
1 TCGGGT
6869997 TGGGTCGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 17 0.53
32 15 0.47
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.44
Consensus pattern (31 bp):
TCGGGTAGGATTTTTTTAAAAAATTTCGGGA
Found at i:6870027 original size:33 final size:33
Alignment explanation
Indices: 6869990--6870071 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 33
6869980 ATATTTCGGG
**
6869990 TTCGGGTTGGGTCGGGTTTTTGAAAGTTTGATA
1 TTCGGGTTGGGTCGGGTTTTTGAAAGTGCGATA
*
6870023 TTC-----GGGTCGGGTTTTTGTAAGTGCGATA
1 TTCGGGTTGGGTCGGGTTTTTGAAAGTGCGATA
*
6870051 TTCGGGTTGGGTCGGATTTTT
1 TTCGGGTTGGGTCGGGTTTTT
6870072 TTTAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
28 25 0.62
33 15 0.38
ACGTcount: A:0.12, C:0.09, G:0.37, T:0.43
Consensus pattern (33 bp):
TTCGGGTTGGGTCGGGTTTTTGAAAGTGCGATA
Found at i:6870038 original size:28 final size:28
Alignment explanation
Indices: 6869998--6870062 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
6869988 GGTTCGGGTT
**
6869998 GGGTCGGGTTTTTGAAAGTTTGATATTC
1 GGGTCGGGTTTTTGAAAGTGCGATATTC
*
6870026 GGGTCGGGTTTTTGTAAGTGCGATATTC
1 GGGTCGGGTTTTTGAAAGTGCGATATTC
*
6870054 GGGTTGGGT
1 GGGTCGGGT
6870063 CGGATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.14, C:0.08, G:0.38, T:0.40
Consensus pattern (28 bp):
GGGTCGGGTTTTTGAAAGTGCGATATTC
Found at i:6870153 original size:27 final size:27
Alignment explanation
Indices: 6870091--6870158 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
6870081 AATTTCGGGT
*
6870091 TCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGG-TTTTTTAAGTGTGATAC
*** *
6870119 TATTGTCGGGTTTTTTAATTGTGATAC
1 TCGGGTCGGGTTTTTTAAGTGTGATAC
6870146 TCGGGTCGGGTTT
1 TCGGGTCGGGTTT
6870159 GGGTTTAGGG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 25 0.78
28 7 0.22
ACGTcount: A:0.13, C:0.09, G:0.31, T:0.47
Consensus pattern (27 bp):
TCGGGTCGGGTTTTTTAAGTGTGATAC
Found at i:6872027 original size:2 final size:2
Alignment explanation
Indices: 6872016--6872046 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6872006 TAAGGAACAA
6872016 AT AT -T 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
6872047 TTGGGTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6872367 original size:16 final size:16
Alignment explanation
Indices: 6872329--6872360 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6872319 TAATTTTTTC
6872329 TAAAA-AAAATTTAAA
1 TAAAATAAAATTTAAA
6872344 TAAAATAAAA-TTAAA
1 TAAAATAAAATTTAAA
6872359 TA
1 TA
6872361 TATATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAATAAAATTTAAA
Found at i:6872555 original size:23 final size:22
Alignment explanation
Indices: 6872489--6872555 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
6872479 GACTAAGATG
*
6872489 AAAA-TAATAAAAAAATAATAAT
1 AAAAGTAATAATAAAATAAT-AT
* *
6872511 GAAAGTAATAATTTAAAT-ATAT
1 AAAAGTAATAA-TAAAATAATAT
6872533 CAAAAGTAATAATAAAATAATAT
1 -AAAAGTAATAATAAAATAATAT
6872556 TGCAAATACA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
22 10 0.28
23 22 0.61
24 4 0.11
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAAGTAATAATAAAATAATAT
Found at i:6872614 original size:21 final size:20
Alignment explanation
Indices: 6872584--6872627 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
6872574 AAAATAAAAG
6872584 AAATTAAAAT-TATAAAATTA
1 AAATTAAAATATATAAAA-TA
*
6872604 AAATGTAAAATATATTAAATA
1 AAAT-TAAAATATATAAAATA
6872625 AAA
1 AAA
6872628 GTTATCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATTAAAATATATAAAATA
Found at i:6874432 original size:74 final size:73
Alignment explanation
Indices: 6874258--6874425 Score: 282
Period size: 74 Copynumber: 2.3 Consensus size: 73
6874248 GAGGTCTTAT
* * * *
6874258 CATCTTGCGCTGTAGGTCTTACATATGACCCGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTT
1 CATCCTGCACTGTAGGTCTTACAGATGACCCGAGGCTTTAAATATCAAAAACCTCCCGAAGGCTT
6874323 TTTGAAAA
66 TTTGAAAA
*
6874331 CATCCTGCACTGTAGGTCTTACAGATGACTCGGAGGCTTTAAATATCAAAAACCTCCCGAAGGCT
1 CATCCTGCACTGTAGGTCTTACAGATGAC-CCGAGGCTTTAAATATCAAAAACCTCCCGAAGGCT
6874396 TTTTGAAAA
65 TTTTGAAAA
6874405 CATCCTGCACTGTAGGTCTTA
1 CATCCTGCACTGTAGGTCTTA
6874426 TGGATGAACC
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
73 26 0.29
74 63 0.71
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (73 bp):
CATCCTGCACTGTAGGTCTTACAGATGACCCGAGGCTTTAAATATCAAAAACCTCCCGAAGGCTT
TTTGAAAA
Found at i:6874460 original size:45 final size:45
Alignment explanation
Indices: 6874386--6874724 Score: 500
Period size: 45 Copynumber: 7.5 Consensus size: 45
6874376 TCAAAAACCT
* * * **
6874386 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
6874433 ACCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
6874478 CCCGAAGGTTTTGAAAACATCATGCACTGAAGTGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
6874523 CCCGAAGGTTTTGAAAATATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
6874568 CCCGAAGGTTTTGAAAACAT-ATTGCACTAAAGGGCTTACAGATTA
1 CCCGAAGGTTTTGAAAACATCA-TGCACTGAAGGGCTTACAGATGA
* *
6874613 CCCGAAGGTTTTGAGAACATCATGCACTGAAGGGCTTACAGATTA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
6874658 CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
6874703 CCCGAAGGCTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
6874725 AAAAGCTCCC
Statistics
Matches: 268, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.00
45 260 0.97
46 1 0.00
47 6 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:6874748 original size:30 final size:30
Alignment explanation
Indices: 6874707--6874783 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
6874697 AGATGACCCG
*
6874707 AAGGC-TTTGAAAATATCAAAAAGCTCCCA
1 AAGGCTTTTGAAAACATCAAAAAGCTCCCA
* *
6874736 AAGGCTTTTGAAAACATGAAAAAGCTCCCG
1 AAGGCTTTTGAAAACATCAAAAAGCTCCCA
6874766 AAGGCTTTTGAAAACATC
1 AAGGCTTTTGAAAACATC
6874784 CTGCATTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 5 0.12
30 38 0.88
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (30 bp):
AAGGCTTTTGAAAACATCAAAAAGCTCCCA
Found at i:6875604 original size:22 final size:22
Alignment explanation
Indices: 6875579--6875627 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
6875569 AAACTTATCT
6875579 TTGAAAAGAGAATCTATCATCC
1 TTGAAAAGAGAATCTATCATCC
*
6875601 TTGAAAAGAGAATCTATCATCT
1 TTGAAAAGAGAATCTATCATCC
6875623 TTGAA
1 TTGAA
6875628 GAATGTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (22 bp):
TTGAAAAGAGAATCTATCATCC
Found at i:6876082 original size:54 final size:54
Alignment explanation
Indices: 6875996--6876156 Score: 252
Period size: 54 Copynumber: 3.0 Consensus size: 54
6875986 ATAATTATTA
*
6875996 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
* * *
6876050 GTTTGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTTTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
* * *
6876104 GTTCGTAAAACATTTGACAA-ACATTCATCCTTTTCTGTGGTTTCTGCATAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
6876157 TTCTGGTTAG
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 28 0.29
54 69 0.71
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCACAGAT
Found at i:6877176 original size:75 final size:74
Alignment explanation
Indices: 6877040--6877237 Score: 240
Period size: 75 Copynumber: 2.6 Consensus size: 74
6877030 GATATGGGTC
* * ** *
6877040 TTCAGCATGCCCCAACATTTGCTGATACAGACGTTCAAAATGCACCAACCTTCATGATTCTGATT
1 TTCAGCATGCCCCAACATTTGCTGATACAAACGTTTAAAATGCGTCAACATTCAT-ATTCTGATT
*
6877105 GAAAGGGGC-T
65 -AAAAGGGCTT
*
6877115 TTCAGCATGCCCCAACATTTGCTGATACAAACGTTTAAAATGCGTCAATATTCCA-ATTTCTGAT
1 TTCAGCATGCCCCAACATTTGCTGATACAAACGTTTAAAATGCGTCAACATT-CATA-TTCTGAT
*
6877179 TAAAATGGCTT
64 TAAAAGGGCTT
* *
6877190 TTCAGCTTGCCCCAACATTTGCTGATACAAA-TTTTCAAAATGCGTCAA
1 TTCAGCATGCCCCAACATTTGCTGATACAAACGTTT-AAAATGCGTCAA
6877238 AATTGTTCTT
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
74 10 0.09
75 97 0.89
76 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (74 bp):
TTCAGCATGCCCCAACATTTGCTGATACAAACGTTTAAAATGCGTCAACATTCATATTCTGATTA
AAAGGGCTT
Found at i:6884161 original size:2 final size:2
Alignment explanation
Indices: 6884154--6884205 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
6884144 ATTTAAACAA
6884154 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
6884196 AT AT AT AT AT
1 AT AT AT AT AT
6884206 GACTAAGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6884277 original size:11 final size:11
Alignment explanation
Indices: 6884217--6884298 Score: 60
Period size: 11 Copynumber: 7.1 Consensus size: 11
6884207 ACTAAGATGA
**
6884217 AAATAATAAAA
1 AAATAATAATG
6884228 AAATAATAATG
1 AAATAATAATG
*
6884239 AAAGTAATAATTT
1 AAA-TAATAA-TG
6884252 AAATATATCAA--
1 AAATA-AT-AATG
6884263 AAATAATAATG
1 AAATAATAATG
*
6884274 AAATAATATTG
1 AAATAATAATG
6884285 CAAATAAATAATG
1 -AAAT-AATAATG
6884298 A
1 A
6884299 TCAAAATAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
9 2 0.03
10 2 0.03
11 27 0.47
12 13 0.22
13 12 0.21
14 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.28
Consensus pattern (11 bp):
AAATAATAATG
Found at i:6884282 original size:23 final size:22
Alignment explanation
Indices: 6884216--6884282 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 22
6884206 GACTAAGATG
* *
6884216 AAAATAATAAAAAAATAATAATG
1 AAAATAATAATAAAATAAT-ATA
* *
6884239 AAAGTAATAATTTAAAT-ATATCA
1 AAAATAATAA-TAAAATAATAT-A
*
6884262 AAAATAATAATGAAATAATAT
1 AAAATAATAATAAAATAATAT
6884283 TGCAAATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 7 0.20
23 24 0.69
24 4 0.11
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAATAATAATAAAATAATATA
Found at i:6885689 original size:17 final size:16
Alignment explanation
Indices: 6885661--6885696 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
6885651 AATATTTATT
6885661 TAATAAATAATAATAA
1 TAATAAATAATAATAA
*
6885677 TAATAATATAATATTAA
1 TAATAA-ATAATAATAA
6885694 TAA
1 TAA
6885697 AAAGATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATAAATAATAATAA
Found at i:6895027 original size:30 final size:30
Alignment explanation
Indices: 6894991--6895068 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
6894981 AGATGAGTCA
*
6894991 AGCAACATCGA-TGTCTAAAGAGATAAGTAG
1 AGCAACATC-ACTGTCCAAAGAGATAAGTAG
* *
6895021 AGCAACATCACTGTCCAAAGAGATGAGTTG
1 AGCAACATCACTGTCCAAAGAGATAAGTAG
* * *
6895051 AGTAACATCTCTATCCAA
1 AGCAACATCACTGTCCAA
6895069 TATGGGTTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 1 0.02
30 40 0.98
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (30 bp):
AGCAACATCACTGTCCAAAGAGATAAGTAG
Found at i:6898861 original size:29 final size:29
Alignment explanation
Indices: 6898824--6898895 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
6898814 CCCAATTTTT
* *
6898824 TTTGTGACCAAAATAT-AAGTTTTGAAAG
1 TTTGTGACCAAAATATAAAGTTGTAAAAG
*
6898852 TTTGATGACCAAAGTATAAAGTTGTAAAAG
1 TTTG-TGACCAAAATATAAAGTTGTAAAAG
*
6898882 TTTTGGGACCAAAA
1 -TTTGTGACCAAAA
6898896 AAGTAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.11
29 11 0.31
30 17 0.47
31 4 0.11
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.32
Consensus pattern (29 bp):
TTTGTGACCAAAATATAAAGTTGTAAAAG
Found at i:6903214 original size:89 final size:86
Alignment explanation
Indices: 6903017--6903191 Score: 217
Period size: 89 Copynumber: 2.0 Consensus size: 86
6903007 TAAGGTAGCA
***
6903017 ATTGTAAATGCTATGGCAAACTAAATTGTAACAACTTAAAAATTCTAAAGCAAATTAAATTGAGA
1 ATTGTAAATGCTAAAACAAACTAAATTGTAACAACTTAAAAATTCTAAAGCAAATTAAATTGAGA
** *
6903082 ACGTAGAATGTGGTAAGGTAG
66 ACGTAGAATGTAATAAGATAG
*** *
6903103 CAATTGTAAATGCTATGGCAAACTAAATTTTAACAACTTAAAAAATTCTAAAGCAAATTAAATTG
1 --ATTGTAAATGCTAAAACAAACTAAATTGTAACAACTT-AAAAATTCTAAAGCAAATTAAATTG
6903168 AGAACGTAGGAATG-AATAAGATAG
63 AGAACGTA-GAATGTAATAAGATAG
6903192 TTGACAACCT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
88 36 0.44
89 40 0.49
90 5 0.06
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (86 bp):
ATTGTAAATGCTAAAACAAACTAAATTGTAACAACTTAAAAATTCTAAAGCAAATTAAATTGAGA
ACGTAGAATGTAATAAGATAG
Found at i:6909670 original size:45 final size:45
Alignment explanation
Indices: 6909621--6909930 Score: 361
Period size: 45 Copynumber: 6.7 Consensus size: 45
6909611 TATTCATTAT
6909621 TTTCATTTA-GAGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATG-GCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
6909666 TTTCATTTATGACATCCTTTCATGCCTTTAATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCC-TT--T--C----ATGCCTTTAATGCACCGTTATGCA
* * * * **
6909720 TTTTATTTATGGCATCTTTTCATGCCTATAATGTACCGTTACACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
6909765 TTTCATTTATGGCATCCTTTTCATGACTTTATTGCACTGTTATGCA
1 TTTCATTTATGGCATCC-TTTCATGCCTTTAATGCACCGTTATGCA
** *
6909811 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTATTAAGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
*
6909856 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
* * *
6909901 TTTCATTTATGGCAACTTTTCATGCATTTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTA
6909931 GTCTTTTATT
Statistics
Matches: 228, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
45 143 0.63
46 41 0.18
48 1 0.00
49 1 0.00
50 1 0.00
51 1 0.00
53 2 0.01
54 38 0.17
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
Found at i:6909811 original size:91 final size:90
Alignment explanation
Indices: 6909690--6909925 Score: 330
Period size: 91 Copynumber: 2.6 Consensus size: 90
6909680 TCCTTTCATG
* * * *
6909690 CCTTTAATGCCTTTAATGCACCGTTATGCATTTTATTTATGGCATCTTTTCATGCCTATAATGTA
1 CCTTTCATGACTTTAATGCACCGTTATGCATTTCATTTATGGCATCTTTTCATGCCTATAATGCA
*
6909755 CCGTTACA-CATTTCATTTATGGCAT
66 CCATTA-AGCATTTCATTTATGGCAT
* * * *
6909780 CCTTTTCATGACTTTATTGCACTGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGC
1 CC-TTTCATGACTTTAATGCACCGTTATGCATTTCATTTATGGCATCTTTTCATGCCTATAATGC
*
6909845 ACTATTAAGCATTTCATTTATGGCAT
65 ACCATTAAGCATTTCATTTATGGCAT
* * *
6909871 CCTTTCATGCCTTTAATGCACCATTATGCATTTCATTTATGGCAACTTTTCATGC
1 CCTTTCATGACTTTAATGCACCGTTATGCATTTCATTTATGGCATCTTTTCATGC
6909926 ATTTAGTCTT
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
90 50 0.39
91 78 0.61
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (90 bp):
CCTTTCATGACTTTAATGCACCGTTATGCATTTCATTTATGGCATCTTTTCATGCCTATAATGCA
CCATTAAGCATTTCATTTATGGCAT
Found at i:6910098 original size:56 final size:56
Alignment explanation
Indices: 6910012--6910199 Score: 225
Period size: 56 Copynumber: 3.4 Consensus size: 56
6910002 AACTCTATAG
** * * *
6910012 TTTGCACACGTAGTTCCCATACGGAAATTCATAAACTTTTTATGAATTTCTTAGTA
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTTTTATAAATTTCTTAGTT
*
6910068 TTTGCACACACAGTGCCTATACGGAAATTCATAAA-TTTATTATAAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTT-TTATAAATTTCTTAGTT
* * * * **
6910124 TTTGCACACACAGTACCCAAATGAAAATTCATAAACTCATTATAAATTTCTTAGTT
1 TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTTTTATAAATTTCTTAGTT
* * *
6910180 TTTTCACACAAAGTGTCCAT
1 TTTGCACACACAGTGCCCAT
6910200 TTGGTAATCA
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
55 3 0.03
56 108 0.96
57 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (56 bp):
TTTGCACACACAGTGCCCATACGGAAATTCATAAACTTTTTATAAATTTCTTAGTT
Found at i:6913253 original size:13 final size:14
Alignment explanation
Indices: 6913237--6913281 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
6913227 GGTCTGGTCT
6913237 ACTCAAC-AAGTCA
1 ACTCAACTAAGTCA
*
6913250 ACTCGACTAAGTCA
1 ACTCAACTAAGTCA
*
6913264 ACTC-ACTGAGTCA
1 ACTCAACTAAGTCA
6913277 ACTCA
1 ACTCA
6913282 TTGACTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.38, C:0.31, G:0.11, T:0.20
Consensus pattern (14 bp):
ACTCAACTAAGTCA
Found at i:6918341 original size:22 final size:24
Alignment explanation
Indices: 6918293--6918345 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
6918283 TTTTATAAAG
*
6918293 TTATTTTTTCTTTATTTACAAGAT
1 TTATTTTATCTTTATTTACAAGAT
* *
6918317 TTATTTTAT-TTTATTT-TAAGTT
1 TTATTTTATCTTTATTTACAAGAT
6918339 TTATTTT
1 TTATTTT
6918346 TAAACATGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 11 0.42
23 7 0.27
24 8 0.31
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (24 bp):
TTATTTTATCTTTATTTACAAGAT
Found at i:6918346 original size:23 final size:25
Alignment explanation
Indices: 6918293--6918347 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 25
6918283 TTTTATAAAG
6918293 TTATTTTT-TCTTTATTTACAAGAT
1 TTATTTTTATCTTTATTTACAAGAT
* *
6918317 TTA-TTTTAT-TTTATTT-TAAGTT
1 TTATTTTTATCTTTATTTACAAGAT
6918339 TTATTTTTA
1 TTATTTTTA
6918348 AACATGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (25 bp):
TTATTTTTATCTTTATTTACAAGAT
Found at i:6925966 original size:21 final size:21
Alignment explanation
Indices: 6925940--6926024 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 21
6925930 GTCGAGGGTC
6925940 TATGTGGTC-CTTCGG-GATAAT
1 TATGTGG-CACTTCGGTGA-AAT
*
6925961 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTG-AAA-T
*
6925984 TATGT-GCTCATTCGG-GACAAT
1 TATGTGGCAC-TTCGGTGA-AAT
6926005 TATGTGGCACTTCGGTGAAA
1 TATGTGGCACTTCGGTGAAA
6926025 ATTACTAGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
20 1 0.02
21 26 0.50
22 14 0.27
23 11 0.21
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (21 bp):
TATGTGGCACTTCGGTGAAAT
Found at i:6927866 original size:6 final size:6
Alignment explanation
Indices: 6927855--6927883 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6927845 TGCGCCAATG
6927855 AGAGGT AGAGGT AGAGGT AGAGGT AGAGG
1 AGAGGT AGAGGT AGAGGT AGAGGT AGAGG
6927884 AAAGAATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.52, T:0.14
Consensus pattern (6 bp):
AGAGGT
Found at i:6933403 original size:23 final size:25
Alignment explanation
Indices: 6933359--6933410 Score: 83
Period size: 23 Copynumber: 2.2 Consensus size: 25
6933349 TTTTATAAAC
6933359 TTTT-TTTTATTTTAAAGATTTTGT
1 TTTTATTTTATTTTAAAGATTTTGT
6933383 TTTTATTTTA-TTTAAAG-TTTTGT
1 TTTTATTTTATTTTAAAGATTTTGT
6933406 TTTTA
1 TTTTA
6933411 AACATGCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 11 0.41
24 11 0.41
25 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (25 bp):
TTTTATTTTATTTTAAAGATTTTGT
Found at i:6934171 original size:76 final size:71
Alignment explanation
Indices: 6934069--6934274 Score: 211
Period size: 76 Copynumber: 2.8 Consensus size: 71
6934059 TATTTTAAAC
* * *
6934069 ATTATATTTTATCTTTA--TATTTTAGTTTAAATAGGTTTTAATATTTTAATTAAGTTTTAGGAT
1 ATTAT-TTTTAT-TTTAGGTATTTTAGTTTAAATA-GTTTTAATATTTTAATTAAGATTTAGAAG
6934132 ATTACTTTTA
63 ATTA-TTTTA
* * *
6934142 TATTTTATTTTTATTTTAGGTATTTTAGTTTAAATATATTTTAGTATTTTAATTAGGATTTAGAA
1 -A--TTATTTTTATTTTAGGTATTTTAGTTTAAATA-GTTTTAATATTTTAATTAAGATTTAGAA
6934207 GATTATTTTA
62 GATTATTTTA
* * * * *
6934217 AATATTATT-TTTTAGGTATTTTATTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 ATTATTTTTATTTTAGGTATTTTAGTTTAAATAGTTTTAA-TATTTTAATTAAGATTTA
6934275 AGATGTTTTA
Statistics
Matches: 114, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
70 5 0.04
71 39 0.34
72 6 0.05
74 6 0.05
75 11 0.10
76 47 0.41
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.58
Consensus pattern (71 bp):
ATTATTTTTATTTTAGGTATTTTAGTTTAAATAGTTTTAATATTTTAATTAAGATTTAGAAGATT
ATTTTA
Found at i:6934265 original size:71 final size:75
Alignment explanation
Indices: 6934071--6934274 Score: 228
Period size: 71 Copynumber: 2.8 Consensus size: 75
6934061 TTTTAAACAT
* * * *
6934071 TATATT-TTATCTTTA--TATTTTAGTTTAAATAGGTTTTAA-TATTTTAATTAAGTTTTAGGAT
1 TATATTATTAT-TTTAGGTATTTTAGTTTAAATA-GTTTTAAGTATTTTAATTAGGATTTAGAAG
6934132 ATTACTTTTATA
64 ATTACTTTTATA
* * *
6934144 TTTTATTTTTATTTTAGGTATTTTAGTTTAAATA-TATTTTAGTATTTTAATTAGGATTTAGAAG
1 -TATATTATTATTTTAGGTATTTTAGTTTAAATAGT-TTTAAGTATTTTAATTAGGATTTAGAAG
6934208 ATTA-TTTTA-A
64 ATTACTTTTATA
* *
6934218 -ATATTATT-TTTTAGGTATTTTATTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 TATATTATTATTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTA
6934275 AGATGTTTTA
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
71 44 0.39
72 7 0.06
74 11 0.10
75 13 0.12
76 38 0.34
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.58
Consensus pattern (75 bp):
TATATTATTATTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTAGAAGAT
TACTTTTATA
Found at i:6939668 original size:75 final size:74
Alignment explanation
Indices: 6939585--6939732 Score: 194
Period size: 76 Copynumber: 2.0 Consensus size: 74
6939575 TAAACTCAAG
6939585 TTTAGGATAAT-ATTTTAAACATTATAT-TTTGTCTTT-GTATTTTAGTTTAAATAGGTTTTAGT
1 TTTAGGAT-ATGATTTT--ACATTATATCTTTGT-TTTAGTATTTTAGTTTAAATAGGTTTTAGT
6939647 ATTTTAATTAAGT
62 ATTTTAATTAAGT
* * *
6939660 TTTAGGATATGGCTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATAT-GATTTTACATTATATCTTTGTTTTA-GTATTTTAGTTTAAATAGGTTTTAGTAT
6939725 TTTAATTA
64 TTTAATTA
6939733 GGATTTAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
74 12 0.18
75 13 0.20
76 40 0.62
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.56
Consensus pattern (74 bp):
TTTAGGATATGATTTTACATTATATCTTTGTTTTAGTATTTTAGTTTAAATAGGTTTTAGTATTT
TAATTAAGT
Found at i:6940390 original size:17 final size:17
Alignment explanation
Indices: 6940365--6940398 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6940355 CTTTATCCCA
*
6940365 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
6940382 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
6940399 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:6940507 original size:31 final size:31
Alignment explanation
Indices: 6940444--6940514 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
6940434 CCCTTTCGTC
*
6940444 TTTATTACTATTTTTAATTCATTATTTATTAT
1 TTTATTA-TATTTTTAATTCATAATTTATTAT
* *
6940476 TTTATTATTTTTTTAATTTATAA-TTATTTAT
1 TTTATTATATTTTTAATTCATAATTTA-TTAT
6940507 TTT-TTATA
1 TTTATTATA
6940515 ACTTTTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 7 0.21
31 20 0.59
32 7 0.21
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (31 bp):
TTTATTATATTTTTAATTCATAATTTATTAT
Found at i:6955999 original size:342 final size:342
Alignment explanation
Indices: 6955374--6956059 Score: 1345
Period size: 342 Copynumber: 2.0 Consensus size: 342
6955364 TGGGATAAAG
6955374 AAGAAGAAGATGATTTGAAAATTTTAATTTTTAAGAAAATATGAAGTGGAAAATAATGTGATGTG
1 AAGAAGAAGATGATTTGAAAATTTTAATTTTTAAGAAAATATGAAGTGGAAAATAATGTGATGTG
* * *
6955439 TACTCATTTAATTGGTTAACGATCATGGATGAGGTGGTGGAAAGGGTTCATTTAATAATTTCTCC
66 TACTCATTTAATTGGTTAACGACCATGGATGAGGTGGTGGAAAGGGTTCATGTAATAATTTCCCC
6955504 AATATGACATAAGCACACCATACTACAAGGAACCAAAGGGACATACATGTATGACAAGCGTTGTT
131 AATATGACATAAGCACACCATACTACAAGGAACCAAAGGGACATACATGTATGACAAGCGTTGTT
6955569 TTCCTGTCAAATAAATTATCCTTAATCTCAAAAAATAATATAGGATAAGGGTCAATCCACAGGGA
196 TTCCTGTCAAATAAATTATCCTTAATCTCAAAAAATAATATAGGATAAGGGTCAATCCACAGGGA
6955634 CTCTGGAAATATTTGTTTATAATTTGATTTGATTCTAACCAAGAAACCTGTAAAAATAAATAAAA
261 CTCTGGAAATATTTGTTTATAATTTGATTTGATTCTAACCAAGAAACCTGTAAAAATAAATAAAA
6955699 AAGAAGGGGTTTAACTA
326 AAGAAGGGGTTTAACTA
6955716 AAGAAGAAGATGATTTGAAAATTTTAATTTTTAAGAAAATATGAAGTGGAAAATAATGTGATGTG
1 AAGAAGAAGATGATTTGAAAATTTTAATTTTTAAGAAAATATGAAGTGGAAAATAATGTGATGTG
6955781 TACTCATTTAATTGGTTAACGACCATGGATGAGGTGGTGGAAAGGGTTCATGTAATAATTTCCCC
66 TACTCATTTAATTGGTTAACGACCATGGATGAGGTGGTGGAAAGGGTTCATGTAATAATTTCCCC
6955846 AATATGACATAAGCACACCATACTACAAGGAACCAAAGGGACATACATGTATGACAAGCGTTGTT
131 AATATGACATAAGCACACCATACTACAAGGAACCAAAGGGACATACATGTATGACAAGCGTTGTT
6955911 TTCCTGTCAAATAAATTATCCTTAATCTCAAAAAATAATATAGGATAAGGGTCAATCCACAGGGA
196 TTCCTGTCAAATAAATTATCCTTAATCTCAAAAAATAATATAGGATAAGGGTCAATCCACAGGGA
6955976 CTCTGGAAATATTTGTTTATAATTTGATTTGATTCTAACCAAGAAACCTGTAAAAATAAATAAAA
261 CTCTGGAAATATTTGTTTATAATTTGATTTGATTCTAACCAAGAAACCTGTAAAAATAAATAAAA
6956041 AAGAAGGGGTTTAACTA
326 AAGAAGGGGTTTAACTA
6956058 AA
1 AA
6956060 ATTAAATAAC
Statistics
Matches: 341, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
342 341 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (342 bp):
AAGAAGAAGATGATTTGAAAATTTTAATTTTTAAGAAAATATGAAGTGGAAAATAATGTGATGTG
TACTCATTTAATTGGTTAACGACCATGGATGAGGTGGTGGAAAGGGTTCATGTAATAATTTCCCC
AATATGACATAAGCACACCATACTACAAGGAACCAAAGGGACATACATGTATGACAAGCGTTGTT
TTCCTGTCAAATAAATTATCCTTAATCTCAAAAAATAATATAGGATAAGGGTCAATCCACAGGGA
CTCTGGAAATATTTGTTTATAATTTGATTTGATTCTAACCAAGAAACCTGTAAAAATAAATAAAA
AAGAAGGGGTTTAACTA
Found at i:6962804 original size:44 final size:44
Alignment explanation
Indices: 6962756--6962850 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 44
6962746 AACTGAAATT
6962756 TATTTTATTTTATAACATGGCATC-AGTTAGTATTATTTTATTAA
1 TATTTTATTTTATAACATGGCATCTA-TTAGTATTATTTTATTAA
* ** *
6962800 TA--TT-TTTTATGATGTGGCATCTATTAGTATTATTTTATTGA
1 TATTTTATTTTATAACATGGCATCTATTAGTATTATTTTATTAA
6962841 TATTGTTATT
1 TATT-TTATT
6962851 ACATGAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
41 33 0.79
42 3 0.07
44 4 0.10
45 2 0.05
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (44 bp):
TATTTTATTTTATAACATGGCATCTATTAGTATTATTTTATTAA
Found at i:6962809 original size:41 final size:41
Alignment explanation
Indices: 6962763--6962844 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
6962753 ATTTATTTTA
6962763 TTTTATAACATGGCATC-AGTTAGTATTATTTTATTAATATT
1 TTTTATAACATGGCATCTA-TTAGTATTATTTTATTAATATT
* ** *
6962804 TTTTATGATGTGGCATCTATTAGTATTATTTTATTGATATT
1 TTTTATAACATGGCATCTATTAGTATTATTTTATTAATATT
6962845 GTTATTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (41 bp):
TTTTATAACATGGCATCTATTAGTATTATTTTATTAATATT
Found at i:6966636 original size:38 final size:37
Alignment explanation
Indices: 6966594--6966706 Score: 113
Period size: 38 Copynumber: 3.0 Consensus size: 37
6966584 AGGCATAGTT
6966594 TGTTTTAAGAAAAATAATCTCAAGTGAGATAAATCTTC
1 TGTTTTAAGAAAAATAATCTCAAGTGAGATAAAT-TTC
** * * * * *
6966632 TGTTTCGAGTGAAACT-ATCTCAAGCGAGAAAAATAT-
1 TGTTTTAAG-AAAAATAATCTCAAGTGAGATAAATTTC
*
6966668 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATATTC
1 TGTTTTAAGAAAAATAATCTCAAGTGAGATAAAT-TTC
6966706 T
1 T
6966707 CTTTCGAGTG
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
35 3 0.05
36 23 0.41
37 2 0.04
38 24 0.43
39 4 0.07
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (37 bp):
TGTTTTAAGAAAAATAATCTCAAGTGAGATAAATTTC
Found at i:6966688 original size:36 final size:36
Alignment explanation
Indices: 6966593--6966704 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 36
6966583 GAGGCATAGT
* *
6966593 TTGTTTTAAGAAAAATAATCTCAAGTGAGATAAATCT
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-A
** ** * * *
6966630 TCTGTTTCGAGTGAAACTATCTCAAGCGAGAAAAATA
1 T-TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATA
6966667 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATA
6966703 TT
1 TT
6966705 CTCTTTCGAG
Statistics
Matches: 58, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
36 30 0.52
37 2 0.03
38 26 0.45
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (36 bp):
TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATA
Found at i:6966767 original size:39 final size:39
Alignment explanation
Indices: 6966610--6966983 Score: 417
Period size: 39 Copynumber: 9.8 Consensus size: 39
6966600 AAGAAAAATA
* *
6966610 ATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
* * ** *
6966648 ATCTCAAGCGAGA-AAAAT-AT-TGTTTTAAGAAAAACA
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
* * * *
6966684 ATCTCAAGTGAGAT-AAATATTCTCTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
* * * * *
6966722 AGCTCAAGCAAGATAATATCTTGTGTTTCAAGTGAAAAT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
* * * * *
6966761 GTCTCAAGCGATAAAAAATATTCCGTTTCGAA-TGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTC-AAGTGAAACT
6966800 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
*
6966839 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
*
6966878 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
* *
6966917 ATCTCAAG-GAAGAT-AAATCTTATGTTTCGAGTGAAACT
1 ATCTCAAGCG-AGATAAAATCTTCTGTTTCAAGTGAAACT
* *
6966955 ATCTCAAGCAAGAT-AAATCTT-TTTTTCAA
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAA
6966984 AAAAAATCTT
Statistics
Matches: 283, Mismatches: 44, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
36 27 0.10
37 8 0.03
38 82 0.29
39 164 0.58
40 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (39 bp):
ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACT
Found at i:6972785 original size:22 final size:24
Alignment explanation
Indices: 6972757--6972802 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
6972747 TCATGTCTTT
6972757 TTTTTCGAACAG-T-TTTTTTTTC
1 TTTTTCGAACAGCTATTTTTTTTC
*
6972779 TTTTTCGAACTGCTATTTTTTTTC
1 TTTTTCGAACAGCTATTTTTTTTC
6972803 AACATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 1 0.05
24 9 0.43
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.63
Consensus pattern (24 bp):
TTTTTCGAACAGCTATTTTTTTTC
Found at i:6985453 original size:13 final size:13
Alignment explanation
Indices: 6985435--6985459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6985425 ATAAATAGGA
6985435 AATAATTCTTAAT
1 AATAATTCTTAAT
6985448 AATAATTCTTAA
1 AATAATTCTTAA
6985460 AAGATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTCTTAAT
Found at i:6985467 original size:20 final size:20
Alignment explanation
Indices: 6985444--6985487 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6985434 AAATAATTCT
6985444 TAATA-ATAATTCTTAAAAGA
1 TAATATATAATTC-TAAAAGA
* *
6985464 TAATATATAGTTCTAAATGA
1 TAATATATAATTCTAAAAGA
6985484 TAAT
1 TAAT
6985488 TCCTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (20 bp):
TAATATATAATTCTAAAAGA
Found at i:6991430 original size:83 final size:83
Alignment explanation
Indices: 6991301--6991606 Score: 382
Period size: 83 Copynumber: 3.7 Consensus size: 83
6991291 TTTAATGGCA
* * * * *
6991301 TTTTTATACAAATACCATAATAGGGTTCATCTATAGTGGTATTTTTTCAACAAACACCACAACAG
1 TTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACAACAA
6991366 AGTAGTACTTTAGTAGTG
66 AGTAGTACTTTAGTAGTG
** * * * * *
6991384 TTTTTATACAAATGTCATAATATGGTTCATCTATAATGGCAGTTTTTCAATAAACGCCACGACAA
1 TTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACAACAA
*
6991449 AGTAGTACTTTAGCAGTG
66 AGTAGTACTTTAGTAGTG
* ** * * * *
6991467 TTTTTATATAAATGTCGTAATAGGGTTCATCTATAGTGGCA-TTTTTAAATAAACATCATAACAA
1 TTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACAACAA
*
6991531 AGTAGTACTTTAGCT-GTA
66 AGTAGTACTTTAG-TAGTG
* *
6991549 TTTTTATACAAACACCATAATAGGGTTCATATATAATGGCATTTTTTAAATAAACACC
1 TTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACC
6991607 CTAATATAAT
Statistics
Matches: 191, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
82 67 0.35
83 124 0.65
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (83 bp):
TTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACAACAA
AGTAGTACTTTAGTAGTG
Found at i:6991625 original size:165 final size:166
Alignment explanation
Indices: 6991318--6991627 Score: 403
Period size: 165 Copynumber: 1.9 Consensus size: 166
6991308 ACAAATACCA
* * *
6991318 TAATAGGGTTCATCTATAGTGGTATTTTTTCAACAAACACCACAACAGAGTAGTACTTTAGTAGT
1 TAATAGGGTTCATCTATAGTGGCATTTTTTAAACAAACACCACAACAAAGTAGTACTTTAGTAGT
* *** * * * *
6991383 GTTTTTATACAAATGTCATAATATGGTTCATCTATAATGGCAGTTTTTCAATAAACGCCACGACA
66 ATTTTTATACAAACACCATAATAGGGTTCATATATAATGGCAGTTTTTAAATAAACACCACGACA
* *
6991448 AAGTAGTACTTTAGCAGTGTTTTTATATAAATGTCG
131 AAATAATACTTTAGCAGTGTTTTTATATAAATGTCG
* * *
6991484 TAATAGGGTTCATCTATAGTGGCA-TTTTTAAATAAACATCATAACAAAGTAGTACTTTAGCT-G
1 TAATAGGGTTCATCTATAGTGGCATTTTTTAAACAAACACCACAACAAAGTAGTACTTTAG-TAG
* *
6991547 TATTTTTATACAAACACCATAATAGGGTTCATATATAATGGCATTTTTTAAATAAACACC-CTA-
65 TATTTTTATACAAACACCATAATAGGGTTCATATATAATGGCAGTTTTTAAATAAACACCACGAC
6991610 ATATAATAATACTTTAGC
130 A-A-AATAATACTTTAGC
6991628 GGCAATTTTA
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
163 1 0.01
164 3 0.02
165 95 0.77
166 24 0.20
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (166 bp):
TAATAGGGTTCATCTATAGTGGCATTTTTTAAACAAACACCACAACAAAGTAGTACTTTAGTAGT
ATTTTTATACAAACACCATAATAGGGTTCATATATAATGGCAGTTTTTAAATAAACACCACGACA
AAATAATACTTTAGCAGTGTTTTTATATAAATGTCG
Found at i:6991644 original size:83 final size:83
Alignment explanation
Indices: 6991300--6991643 Score: 356
Period size: 83 Copynumber: 4.2 Consensus size: 83
6991290 CTTTAATGGC
* * * *
6991300 ATTTTTATACAAATACCATAATAGGGTTCATCTATAGTGGTATTTTTTCAACAAACACCAC-AAC
1 ATTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACTAAC
* *
6991364 AGAGTAGTACTTTAGTAGT
66 A-AATAGTACTTTAGCAGT
* ** * * * * *
6991383 GTTTTTATACAAATGTCATAATATGGTTCATCTATAATGGCAGTTTTTCAATAAACGCCAC-GAC
1 ATTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACTAAC
6991447 AAAGTAGTACTTTAGCAGT
66 AAA-TAGTACTTTAGCAGT
* * ** * * *
6991466 GTTTTTATATAAATGTCGTAATAGGGTTCATCTATAGTGGCA-TTTTTAAATAAACATCA-TAAC
1 ATTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACTAAC
*
6991529 AAAGTAGTACTTTAGCTGT
66 AAA-TAGTACTTTAGCAGT
* * *
6991548 ATTTTTATACAAACACCATAATAGGGTTCATATATAATGGCATTTTTTAAATAAACACC-CTAAT
1 ATTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACTAAC
* * *
6991612 ATAATAATACTTTAGCGGC
66 A-AATAGTACTTTAGCAGT
*
6991631 AATTTTATACAAA
1 ATTTTTATACAAA
6991644 CGCCGCAATA
Statistics
Matches: 221, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
82 69 0.31
83 150 0.68
84 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (83 bp):
ATTTTTATACAAATACCATAATAGGGTTCATCTATAATGGCATTTTTTAAATAAACACCACTAAC
AAATAGTACTTTAGCAGT
Found at i:6995194 original size:43 final size:43
Alignment explanation
Indices: 6995049--6995355 Score: 348
Period size: 43 Copynumber: 7.1 Consensus size: 43
6995039 ATTATATTAG
* *
6995049 CACTAAAGACAAGAGAATTAGCGGCGTTTGTGGCAAAAAA-AC
1 CACTAAAGACAAGAGAATTAGCGGCGTTTGTGACAAAAAATGC
* * * *
6995091 CACTAAAGACAAGAGAATTAACGACGTTTGTGGCAAAAAAACGC
1 CACTAAAGACAAGAGAATTAGCGGCGTTTGTGAC-AAAAAATGC
* * * * * *
6995135 CACTAAAGACATGAGAATTAGCAGTGTTTGTTACTAAAGATGC
1 CACTAAAGACAAGAGAATTAGCGGCGTTTGTGACAAAAAATGC
* *
6995178 CACTAAAGACAAGAGAATTAGCGGCATTTGTGGCAAAAAAAATGC
1 CACTAAAGACAAGAGAATTAGCGGCGTTTGT-G-ACAAAAAATGC
* * *
6995223 CACTAAAGATAAGAGAATTAGCGGCGTTTGTAACAAAAAATTC
1 CACTAAAGACAAGAGAATTAGCGGCGTTTGTGACAAAAAATGC
* * * *
6995266 CACTAAAGACAAGAGGATTAGCGACGTTTGTGACTAAAAACGC
1 CACTAAAGACAAGAGAATTAGCGGCGTTTGTGACAAAAAATGC
* * *
6995309 CACTAAAGTCAAGAGAATTAGCGGCATTTGTGGA-TAAAAATGC
1 CACTAAAGACAAGAGAATTAGCGGCGTTTGT-GACAAAAAATGC
6995352 CACT
1 CACT
6995356 GTAAATTATA
Statistics
Matches: 222, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
42 32 0.14
43 123 0.55
44 30 0.14
45 37 0.17
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (43 bp):
CACTAAAGACAAGAGAATTAGCGGCGTTTGTGACAAAAAATGC
Found at i:6995302 original size:131 final size:131
Alignment explanation
Indices: 6995049--6995355 Score: 417
Period size: 131 Copynumber: 2.4 Consensus size: 131
6995039 ATTATATTAG
*
6995049 CACTAAAGACAAGAGAATTAGCGGCGTTTGTGGCAAAAAAA--CCACTAAAGACAAGAGAATTAA
1 CACTAAAGACAAGAGAATTAGCGGCATTTGTGGCAAAAAAATGCCACTAAAGACAAGAGAATTAA
** * * * * *
6995112 CGACGTTTGTGGCAAAAAAACGCCACTAAAGACATGAGAATTAGCAGTGTTTGTTACTAAAGATG
66 CGACGTTTGTAACAAAAAAACGCCACTAAAGACAAGAGAATTAGCAGCGTTTGTGACTAAAAACG
6995177 C
131 C
*
6995178 CACTAAAGACAAGAGAATTAGCGGCATTTGTGGCAAAAAAAATGCCACTAAAGATAAGAGAATTA
1 CACTAAAGACAAGAGAATTAGCGGCATTTGTGGC-AAAAAAATGCCACTAAAGACAAGAGAATTA
* * ** *
6995243 GCGGCGTTTGTAAC-AAAAAATTCCACTAAAGACAAGAGGATTAGC-GACGTTTGTGACTAAAAA
65 ACGACGTTTGTAACAAAAAAACGCCACTAAAGACAAGAGAATTAGCAG-CGTTTGTGACTAAAAA
6995306 CGC
129 CGC
* *
6995309 CACTAAAGTCAAGAGAATTAGCGGCATTTGTGG-ATAAAAATGCCACT
1 CACTAAAGACAAGAGAATTAGCGGCATTTGTGGCAAAAAAATGCCACT
6995356 GTAAATTATA
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
129 46 0.29
130 8 0.05
131 74 0.47
132 30 0.19
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (131 bp):
CACTAAAGACAAGAGAATTAGCGGCATTTGTGGCAAAAAAATGCCACTAAAGACAAGAGAATTAA
CGACGTTTGTAACAAAAAAACGCCACTAAAGACAAGAGAATTAGCAGCGTTTGTGACTAAAAACG
C
Found at i:7010947 original size:8 final size:8
Alignment explanation
Indices: 7010929--7010968 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
7010919 AGAGAGAGAA
*
7010929 GGAGAGAG
1 GGAGAGGG
7010937 GGAGAGGG
1 GGAGAGGG
7010945 GGAGAGGG
1 GGAGAGGG
7010953 GGAGAGGG
1 GGAGAGGG
7010961 GGAGAGGG
1 GGAGAGGG
7010969 AAAGAGAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (8 bp):
GGAGAGGG
Done.