Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 35 of 427
Found at i:8879652 original size:17 final size:15
Alignment explanation
Indices: 8879622--8879680 Score: 75
Period size: 14 Copynumber: 3.9 Consensus size: 15
8879612 TTTACAAATA
*
8879622 AAAATATGTAATAAT
1 AAAATATATAATAAT
8879637 ATAAATCATATAATAAT
1 A-AAAT-ATATAATAAT
*
8879654 AAAATATAT-GTAAT
1 AAAATATATAATAAT
8879668 AAAATATATAATA
1 AAAATATATAATA
8879681 TAATATAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.34
15 7 0.18
16 8 0.21
17 10 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATATATAATAAT
Found at i:8879668 original size:34 final size:33
Alignment explanation
Indices: 8879618--8879685 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
8879608 ATAATTTACA
* *
8879618 AATAAAAATATGTAATAATATAAATCATATAAT
1 AATAAAAATATGTAATAAAATAAATAATATAAT
*
8879651 AATAAAATATATGTAATAAAATATATAATATAAT
1 AATAAAA-ATATGTAATAAAATAAATAATATAAT
8879685 A
1 A
8879686 TAAGAAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 24 0.77
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (33 bp):
AATAAAAATATGTAATAAAATAAATAATATAAT
Found at i:8879679 original size:12 final size:12
Alignment explanation
Indices: 8879644--8879687 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
8879634 AATATAAATC
8879644 ATATAATAATAAA
1 ATAT-ATAATAAA
8879657 ATATATGTAATAAA
1 ATATA--TAATAAA
*
8879671 ATATATAATATA
1 ATATATAATAAA
8879683 ATATA
1 ATATA
8879688 AGAAGAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.43
13 4 0.14
14 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:8879822 original size:17 final size:17
Alignment explanation
Indices: 8879800--8879898 Score: 57
Period size: 17 Copynumber: 5.8 Consensus size: 17
8879790 TAAATAAAAT
8879800 ATATAATAATATGAATA
1 ATATAATAATATGAATA
8879817 ATATAAT-ATAT-AATA
1 ATATAATAATATGAATA
* *
8879832 TATAAAAATAATATGTACTA
1 -AT-ATAATAATATG-AATA
* * *
8879852 AAACATATAATATAAAT-
1 ATATA-ATAATATGAATA
8879869 ATA-AATAATAT-ATATA
1 ATATAATAATATGA-ATA
8879885 TATATAAT-ATATGA
1 -ATATAATAATATGA
8879899 TAAAAATTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
14 1 0.02
15 13 0.20
16 7 0.11
17 20 0.31
18 12 0.19
19 8 0.12
20 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (17 bp):
ATATAATAATATGAATA
Found at i:8879843 original size:37 final size:35
Alignment explanation
Indices: 8879788--8879964 Score: 104
Period size: 37 Copynumber: 5.0 Consensus size: 35
8879778 TTACTAACTT
8879788 TATAA-ATAAAATATATAATAATATGAATAATATAATA
1 TATAATATAAAA-A-ATAATAATAT-AATAATATAATA
* *
8879825 TATAATATATAAAAATAATATGTACTAAAACATATAATA
1 TATAATATA-AAAAATAATA-ATA-TAATA-ATATAATA
*
8879864 TA-AATATAAATAAT-AT-ATAT-AT-ATATAATA
1 TATAATATAAAAAATAATAATATAATAATATAATA
* *
8879894 TATGATA-AAAATTAAAAAT-ATATAATAATATAATAGA
1 TATAATATAAAA--AATAATAATATAATAATATAAT--A
* *
8879931 TAAAATATAGTAAAATCAATAATAT-AT-ATATAAT
1 TATAATATA-AAAAAT-AATAATATAATAATATAAT
8879965 GAAAATACAT
Statistics
Matches: 111, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
30 13 0.12
31 3 0.03
32 3 0.03
33 7 0.06
34 4 0.04
35 7 0.06
36 2 0.02
37 31 0.28
38 21 0.19
39 20 0.18
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (35 bp):
TATAATATAAAAAATAATAATATAATAATATAATA
Found at i:8879978 original size:26 final size:26
Alignment explanation
Indices: 8879942--8879998 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
8879932 AAAATATAGT
* *
8879942 AAAAT-CAATAATATATA-TATAATG
1 AAAATACAATAACATATAGTAAAATG
8879966 AAAATACATATAACATATAGTAAAATG
1 AAAATACA-ATAACATATAGTAAAATG
*
8879993 CAAATA
1 AAAATA
8879999 TAACAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 2 0.07
26 9 0.33
27 11 0.41
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (26 bp):
AAAATACAATAACATATAGTAAAATG
Found at i:8879984 original size:45 final size:41
Alignment explanation
Indices: 8879865--8880026 Score: 121
Period size: 44 Copynumber: 3.8 Consensus size: 41
8879855 CATATAATAT
* * * *
8879865 AAATATA-AATAATATATATATATATAATATATGATAAAAATTAA
1 AAATATATAATAATA-AAATACATAAAATATA-G-T-AAAATCAA
* *
8879909 AAATATATAATAATATAATAGATAAAATATAGTAAAATCAA
1 AAATATATAATAATAAAATACATAAAATATAGTAAAATCAA
*
8879950 TAATATATATATAATGAAAATACATATAACATATAGTAAAATGCAA
1 AAATATATA-ATAAT-AAAATACATA-AA-ATATAGTAAAAT-CAA
* * * *
8879996 ATATAACAAAATAA-AAAATATATAAAATATA
1 AAAT-ATATAATAATAAAATACATAAAATATA
8880027 TGACAAAAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
41 15 0.15
42 11 0.11
43 11 0.11
44 30 0.31
45 19 0.19
46 9 0.09
47 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (41 bp):
AAATATATAATAATAAAATACATAAAATATAGTAAAATCAA
Found at i:8880059 original size:25 final size:25
Alignment explanation
Indices: 8879994--8880059 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
8879984 AGTAAAATGC
**
8879994 AAATATAACAAAATAAAAAATATATA
1 AAATATATGAAAA-AAAAAATATATA
*
8880020 AAATATATGACAAAAAAACAATATATT
1 AAATATATGA-AAAAAAA-AATATATA
*
8880047 AGATA-ATGAAAAA
1 AAATATATGAAAAA
8880060 TATATACTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.12
26 16 0.47
27 14 0.41
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (25 bp):
AAATATATGAAAAAAAAAATATATA
Found at i:8882174 original size:289 final size:289
Alignment explanation
Indices: 8881681--8883035 Score: 2408
Period size: 289 Copynumber: 4.7 Consensus size: 289
8881671 CTAATGCAGG
* * * * * ** **
8881681 GATGCAAAATCATCTTAGATTTGCTTCAGCGTAAGCACG-CAAAAGCCAAATCAATTATGCCTTC
1 GATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAA-CCAAATCAGCTATGGTTTC
** * *
8881745 GATTTACTCCTTGTAAGCACAAGGATACCAAATCATCTTAGATTTGTTTGAGAACATCTGAGAGT
65 GATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGT
*
8881810 CAAATCTGCTATGTCCTCGATTTGTTCCTTTTAAACACAAGAATGCCAAATCATCTTGGATCT-C
130 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC
* * * *
8881874 TTTCGGTATAAACATCTGAAGGTTAGATCTGCTACGTGTCTGCCTTCCGTCGAATATAGAGACGC
195 -TTCAGTATAAACATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCGTCGAATATGGAGACGC
8881939 CAAACTTCGATTTGTTCTCTGACAATACAGA
259 CAAACTTCGATTTGTTCTCTGACAATACAGA
* *
8881970 GATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTCA
1 GATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTCG
8882035 ATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGTC
66 ATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGTC
8882100 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
131 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
*
8882165 TCAGTATAAACATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCATCGAATATGGAGACGCCA
196 TCAGTATAAACATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCGTCGAATATGGAGACGCCA
*
8882230 AACTTCAATTTGTTCTCTGACAATACAGA
261 AACTTCGATTTGTTCTCTGACAATACAGA
8882259 GATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTCG
1 GATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTCG
*
8882324 ATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTAGATTTGTTTGAGAACATCTGAGAGTC
66 ATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGTC
*
8882389 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTAGATCTGCT
131 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
* *
8882454 TCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCA
196 TCAGTATAAACATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCGTCGAATATGGAGACGCCA
8882519 AACTTCGATTTGTTCTCTGACAATACAGA
261 AACTTCGATTTGTTCTCTGACAATACAGA
* *
8882548 GATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTTG
1 GATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTCG
8882613 ATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGTC
66 ATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGTC
8882678 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
131 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
8882743 TCAGTATAAACATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCGTCGAATATGGAGACGCCA
196 TCAGTATAAACATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCGTCGAATATGGAGACGCCA
8882808 AACTTCGATTTGTTCTCTGACAATACAGA
261 AACTTCGATTTGTTCTCTGACAATACAGA
8882837 GATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTCG
1 GATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTCG
*
8882902 ATTTGTTCCTTGTAAACACAATGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGTC
66 ATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGTC
*
8882967 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTAGATCTGCT
131 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
8883032 TCAG
196 TCAG
8883036 CCAGATCTGT
Statistics
Matches: 1025, Mismatches: 39, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
289 1020 1.00
290 5 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (289 bp):
GATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAACCAAATCAGCTATGGTTTCG
ATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATTTGTTTGAGAACATCTGAGAGTC
AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCT
TCAGTATAAACATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCGTCGAATATGGAGACGCCA
AACTTCGATTTGTTCTCTGACAATACAGA
Found at i:8894742 original size:22 final size:23
Alignment explanation
Indices: 8894712--8894755 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
8894702 AATATATATA
8894712 TATATATAAATTA-TATTATAAGG
1 TATATATAAATTAGTA-TATAAGG
*
8894735 TATA-ATAACTTAGTATATAAG
1 TATATATAAATTAGTATATAAG
8894756 AAAAATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (23 bp):
TATATATAAATTAGTATATAAGG
Found at i:8894907 original size:17 final size:15
Alignment explanation
Indices: 8894877--8894968 Score: 82
Period size: 14 Copynumber: 6.0 Consensus size: 15
8894867 TTTACAAATA
*
8894877 AAAATATGTAATAAT
1 AAAATATATAATAAT
8894892 ATAAATCATATAATAAT
1 A-AAAT-ATATAATAAT
*
8894909 AAAATATAT-GTAAT
1 AAAATATATAATAAT
8894923 AAAATATATAAT-AT
1 AAAATATATAATAAT
* *
8894937 AATATAATAAGAATATAT
1 AAAAT-AT-ATAATA-AT
8894955 AAAATA-ATAATAAT
1 AAAATATATAATAAT
8894969 CTAATGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
14 21 0.33
15 13 0.21
16 12 0.19
17 11 0.17
18 6 0.10
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATATATAATAAT
Found at i:8894923 original size:34 final size:36
Alignment explanation
Indices: 8894873--8894963 Score: 107
Period size: 34 Copynumber: 2.6 Consensus size: 36
8894863 ATAATTTACA
*
8894873 AATAAAA-ATATGTAATAATATAAATCATAT-A-AT
1 AATAAAATATATGTAATAATATAAATAATATAATAT
* *
8894906 AATAAAATATATGTAATAAAATATATAATATAATAT
1 AATAAAATATATGTAATAATATAAATAATATAATAT
**
8894942 AATAAGAATATATAAAATAATA
1 AATAA-AATATATGTAATAATA
8894964 ATAATCTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 7 0.15
34 20 0.42
35 1 0.02
36 7 0.15
37 13 0.27
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (36 bp):
AATAAAATATATGTAATAATATAAATAATATAATAT
Found at i:8895099 original size:13 final size:13
Alignment explanation
Indices: 8895081--8895160 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 13
8895071 AATATGATAT
8895081 ATAATATATAAAA
1 ATAATATATAAAA
* **
8895094 ATAATATGTACTA
1 ATAATATATAAAA
* *
8895107 A-AACATAT-AAT
1 ATAATATATAAAA
8895118 ATAA-ATATAAATA
1 ATAATATATAAA-A
8895131 ATATATATATAAAA
1 ATA-ATATATAAAA
8895145 A-ATATATGATAAAA
1 ATA-ATAT-ATAAAA
8895159 AT
1 AT
8895161 TAAAAATATA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
11 5 0.10
12 9 0.18
13 20 0.39
14 10 0.20
15 7 0.14
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (13 bp):
ATAATATATAAAA
Found at i:8895114 original size:25 final size:25
Alignment explanation
Indices: 8895068--8895116 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8895058 TAATAATATG
* *
8895068 AATAATATGATATATAATATATAAA
1 AATAATATGATATAAAACATATAAA
8895093 AATAATATG-TACTAAAACATATAA
1 AATAATATGATA-TAAAACATATAA
8895117 TATAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAATATGATATAAAACATATAAA
Found at i:8895115 original size:34 final size:34
Alignment explanation
Indices: 8895043--8895260 Score: 99
Period size: 37 Copynumber: 6.0 Consensus size: 34
8895033 TTACTAACTT
*
8895043 TATAAATA-AAAT-ATATAATAATATGAATAATATGATA
1 TATAAATATAAATAATAT-AT-ATAT-AA-AAAAT-ATA
* *
8895080 TATAATATATAAA-AATAATATGTACTAAAACATATAA
1 TATAA-ATATAAATAAT-ATATATA-TAAAAAATAT-A
8895117 TATAAATATAAATAATATATATATAAAAAATATA
1 TATAAATATAAATAATATATATATAAAAAATATA
* * * *
8895151 TGATAAAAATTAAA-AATATAGTAAAATCAATAATATA
1 T-ATAAATA-TAAATAATATA-T-ATATAAAAAATATA
* * *
8895188 TATATAATGA-AAATACATATAACATATAGTAAAATGCAAA
1 TATA-AAT-ATAAATA-ATAT-ATATATA-AAAAAT--ATA
* *
8895228 TATAAA-A-AAATAAAATATATATATAAAATATA
1 TATAAATATAAATAATATATATATAAAAAATATA
8895260 T
1 T
8895261 GACAAAAAAA
Statistics
Matches: 144, Mismatches: 18, Indels: 43
0.70 0.09 0.21
Matches are distributed among these distances:
32 3 0.02
34 8 0.06
35 27 0.19
36 29 0.20
37 42 0.29
38 16 0.11
39 11 0.08
40 8 0.06
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (34 bp):
TATAAATATAAATAATATATATATAAAAAATATA
Found at i:8895133 original size:15 final size:15
Alignment explanation
Indices: 8895113--8895150 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8895103 ACTAAAACAT
8895113 ATAATATAAATATAA
1 ATAATATAAATATAA
*
8895128 ATAATATATATATAA
1 ATAATATAAATATAA
*
8895143 AAAATATA
1 ATAATATA
8895151 TGATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATATAAATATAA
Found at i:8897364 original size:24 final size:24
Alignment explanation
Indices: 8897336--8897387 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
8897326 TTTTTAAAAG
* *
8897336 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
8897360 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
8897384 ATTT
1 ATTT
8897388 GACGTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:8897916 original size:20 final size:20
Alignment explanation
Indices: 8897891--8897928 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8897881 GACCGCTACT
8897891 ACATTATGGGCAAAGCTGCA
1 ACATTATGGGCAAAGCTGCA
*
8897911 ACATTATGGGTAAAGCTG
1 ACATTATGGGCAAAGCTG
8897929 TAGCATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (20 bp):
ACATTATGGGCAAAGCTGCA
Found at i:8900027 original size:2 final size:2
Alignment explanation
Indices: 8900020--8900045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8900010 GTGGCTAAAG
8900020 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
8900046 GTAAATCAAG
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:8904924 original size:38 final size:38
Alignment explanation
Indices: 8904868--8904977 Score: 141
Period size: 38 Copynumber: 2.9 Consensus size: 38
8904858 TATAAGTAGT
8904868 AGGCTT-AGTGCCGGTGTTATTTAGGCTTAGTGCCTAGC
1 AGGCTTCA-TGCCGGTGTTATTTAGGCTTAGTGCCTAGC
* * * *
8904906 AGGCTTCATGCTGTTGTTATTTAAGCTTAGTGCCTAGT
1 AGGCTTCATGCCGGTGTTATTTAGGCTTAGTGCCTAGC
* * *
8904944 AGGCTTCGTGCCGGTGTTATTCAGGTTTAGTGCC
1 AGGCTTCATGCCGGTGTTATTTAGGCTTAGTGCC
8904978 GATGAGTTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
38 60 0.98
39 1 0.02
ACGTcount: A:0.15, C:0.18, G:0.29, T:0.37
Consensus pattern (38 bp):
AGGCTTCATGCCGGTGTTATTTAGGCTTAGTGCCTAGC
Found at i:8904996 original size:62 final size:62
Alignment explanation
Indices: 8904921--8905165 Score: 301
Period size: 62 Copynumber: 3.9 Consensus size: 62
8904911 TCATGCTGTT
* * *
8904921 GTTATTTAAGCTTAGTGCCTAGTAGGCTTCGTGCCGGTGTTATTCAGGTTTAGTGCCGATGA
1 GTTATTCAAGCTTAGTGCCTAGCAGGCTTCGTGCCGGTGTTATTCAGGCTTAGTGCCGATGA
* * * *
8904983 GTTATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGATGTTATTCAAGCTTAGTGCCGATGA
1 GTTATTCAAGCTTAGTGCCTAGCAGGCTTCGTGCCGGTGTTATTCAGGCTTAGTGCCGATGA
* * * * * *
8905045 GTTATTCAAGCTTGGTGCCTAGCAGGCTTTGTGCCGGAGTTATTCAGGCTTCGTGCCGGTGT
1 GTTATTCAAGCTTAGTGCCTAGCAGGCTTCGTGCCGGTGTTATTCAGGCTTAGTGCCGATGA
* * * ** *
8905107 GTTATTCAGGCTTAGTGCCTAGAAGGCTTTGACCCGGTGTGATATACAGGCTTAGTGCC
1 GTTATTCAAGCTTAGTGCCTAGCAGGCTTCGTGCCGGTGT--TATTCAGGCTTAGTGCC
8905166 TAGCAGGCTT
Statistics
Matches: 156, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
62 141 0.90
64 15 0.10
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (62 bp):
GTTATTCAAGCTTAGTGCCTAGCAGGCTTCGTGCCGGTGTTATTCAGGCTTAGTGCCGATGA
Found at i:8905085 original size:100 final size:98
Alignment explanation
Indices: 8904868--8905101 Score: 249
Period size: 100 Copynumber: 2.3 Consensus size: 98
8904858 TATAAGTAGT
* * * * *
8904868 AGGCTTAGTGCCGGTGTTATTTAGGCTTAGTGCCTAGCAGGCTTCATGCTGTTGTTATTTAAGCT
1 AGGCTTTGTGCCGGAGTTATTCAGGCTTAGTGCCTAGCAGGCTTCATGCTGATGTTATTCAAGCT
* * ** * *
8904933 TAGTGCCTAGTAGGCTTCGTGCCGGTGTTATTC
66 TAGTGCCGAGTAGGATTCAAGCCGGTGCTATGC
*
8904966 AGG-TTTAGTGCCGATGAGTTATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGATGTTATTCAA
1 AGGCTTT-GTGCCG--GAGTTATTCAGGCTTAGTGCCTAGCAGGCTTCATGCTGATGTTATTCAA
* *
8905030 GCTTAGTGCCGA-TGAGTTATTCAAGCTTGGTGCCTA-GC
63 GCTTAGTGCCGAGT-AG-GATTCAAGC-CGGTG-CTATGC
*
8905068 AGGCTTTGTGCCGGAGTTATTCAGGCTTCGTGCC
1 AGGCTTTGTGCCGGAGTTATTCAGGCTTAGTGCC
8905102 GGTGTGTTAT
Statistics
Matches: 113, Mismatches: 15, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
97 2 0.02
98 9 0.08
99 1 0.01
100 77 0.68
101 5 0.04
102 14 0.12
103 5 0.04
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (98 bp):
AGGCTTTGTGCCGGAGTTATTCAGGCTTAGTGCCTAGCAGGCTTCATGCTGATGTTATTCAAGCT
TAGTGCCGAGTAGGATTCAAGCCGGTGCTATGC
Found at i:8905115 original size:24 final size:22
Alignment explanation
Indices: 8904944--8905125 Score: 93
Period size: 24 Copynumber: 8.5 Consensus size: 22
8904934 AGTGCCTAGT
* *
8904944 AGGCTTCGTGCCGGTGTTATTC
1 AGGCTTAGTGCCGGAGTTATTC
*
8904966 AGGTTTAGTGCCGATGAGTTATTC
1 AGGCTTAGTGCCG--GAGTTATTC
*
8904990 AGGCTTAGTGCC-----TA-GC
1 AGGCTTAGTGCCGGAGTTATTC
* *
8905006 AGGCTTCGTG-CTGATGTTATTC
1 AGGCTTAGTGCCGGA-GTTATTC
*
8905028 AAGCTTAGTGCCGATGAGTTATTC
1 AGGCTTAGTGCCG--GAGTTATTC
* * *
8905052 AAGCTTGGTGCC-----TA-GC
1 AGGCTTAGTGCCGGAGTTATTC
*
8905068 AGGCTTTGTGCCGGAGTTATTC
1 AGGCTTAGTGCCGGAGTTATTC
* *
8905090 AGGCTTCGTGCCGGTGTGTTATTC
1 AGGCTTAGTGCC-G-GAGTTATTC
8905114 AGGCTTAGTGCC
1 AGGCTTAGTGCC
8905126 TAGAAGGCTT
Statistics
Matches: 122, Mismatches: 18, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
15 1 0.01
16 21 0.17
17 4 0.03
21 4 0.03
22 32 0.26
23 2 0.02
24 56 0.46
25 2 0.02
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (22 bp):
AGGCTTAGTGCCGGAGTTATTC
Found at i:8905134 original size:40 final size:40
Alignment explanation
Indices: 8905090--8905186 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
8905080 GGAGTTATTC
* * *
8905090 AGGCTTCGTGCCGGTGTGTTATTCAGGCTTAGTGCCTAGA
1 AGGCTTCGAGCCGGTGTGATATACAGGCTTAGTGCCTAGA
* * *
8905130 AGGCTTTGACCCGGTGTGATATACAGGCTTAGTGCCTAGC
1 AGGCTTCGAGCCGGTGTGATATACAGGCTTAGTGCCTAGA
*
8905170 AGGCTTCAAGCCGGTGT
1 AGGCTTCGAGCCGGTGT
8905187 ATCAAATGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.29
Consensus pattern (40 bp):
AGGCTTCGAGCCGGTGTGATATACAGGCTTAGTGCCTAGA
Found at i:8908394 original size:24 final size:24
Alignment explanation
Indices: 8908348--8908400 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8908338 TTTAGTATTC
* *
8908348 ATTAGTATAATATATTAAGCATTT
1 ATTAGCATAATATATTAAGCATTG
*
8908372 ATTAGCATAATATATT-TGACATTG
1 ATTAGCATAATATATTAAG-CATTG
8908396 ATTAG
1 ATTAG
8908401 AATTAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (24 bp):
ATTAGCATAATATATTAAGCATTG
Found at i:8909100 original size:2 final size:2
Alignment explanation
Indices: 8909093--8909118 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8909083 ATGGAAAGAA
8909093 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
8909119 GCAACCACCA
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:8911635 original size:560 final size:560
Alignment explanation
Indices: 8910571--8912810 Score: 3626
Period size: 560 Copynumber: 4.0 Consensus size: 560
8910561 TGGTTTAGTG
* *
8910571 GGGATTTGGTTTTAATCCATATCTCTTTTCTCAAAAGTCTCTCTATCTTTCTAACGTCTATTTTT
1 GGGATTTGGTTTTAATCCATATCTTTTTTCTCAAAAGTCTCTCTATCTTTCTGACGTCTATTTTT
*
8910636 CACCCTCTTGCCGAATTTTTCTTGTTTCCTTCCTCTACTCTCTTGGTTTCCGTTTTACCTCCTTC
66 CACCCTCTTGCCGAATTTTCCTTGTTTCCTTCCTCTACTCTCTTGGTTTCCGTTTTACCTCCTTC
* * *
8910701 TTATTTAATGATTGGATTCGCTCGTTCGGTAAGTAATGTTTTATCTCTATTTTGTCATTCCATAG
131 TTGTTCAATGATTGGATTCGCTCGTTCGGTAAGTAATGTTTTATCTCTATTTTGTCGTTCCATAG
* * *
8910766 TTGGTTTTATGATAGAGGGCTATTGTTGGTTCTTTCAGATTAGGTGAAGATCTAGCAACGACTAG
196 TTGGTTTTCTAATAGAGGGCTATTGTTGGTTCTTTCGGATTAGGTGAAGATCTAGCAACGACTAG
* *
8910831 TGCTTCTGCGGAGATTTGAACGTTAGGGATTCATTTTGTTGTAGTAAGTGACCGAGTTCACTTTT
261 TGCTTCTGCGGAGATTTGAACGTTAGGGATTCATTTCGTTGTGGTAAGTGACCGAGTTCACTTTT
* * * *
8910896 TGACGTTCTAAGGTTTCGTTGGGGAAATATTTCTAGTTTAGTTTTCATTTGTCTTACTGAATTCG
326 TGACGTTCTAAGGTTTCGTTGGGGAAATATTTCTGGTTTAGTTTTCGTTTGTGTTACTAAATTCG
* * *
8910961 GGCTTTGGTAATGTCGATTATAGGTTTTGGTGATCTTGAGGTTGCAATATCAGCGAATAGATATC
391 GGCTTTGGTAATGTCGATTATAGGTTTTGGTGATCTCGGGGTTGCAATATCAGCGAATCGATATC
8911026 AGGTGTGTATTCGATTGCACAGAAAATGAGGTTTCAACGAAAGCCAAAAACCTCACTGTCGACGC
456 AGGTGTGTATTCGATTGCACAGAAAATGAGGTTTCAACGAAAGCCAAAAACCTCACTGTCGACGC
* * *
8911091 CGCATGGGCGTGTGGTCACCTATGTGGTAGGCCATGTGAT
521 CGCACGGGCGTGTGGTCGCCTATGTGGTAGGCCGTGTGAT
*
8911131 GGGATTTGGTTTTAATCCATATCTTTTTTCTCAAAAGTCTCACTATCTTTCTGACGTCTATTTTT
1 GGGATTTGGTTTTAATCCATATCTTTTTTCTCAAAAGTCTCTCTATCTTTCTGACGTCTATTTTT
* * * *
8911196 CACCTTCTTGCCGAATTTTCCTTGTTTCCTTCCTCTACTCTCTCGGTTTACATTTTACCTCCTTC
66 CACCCTCTTGCCGAATTTTCCTTGTTTCCTTCCTCTACTCTCTTGGTTTCCGTTTTACCTCCTTC
* * *
8911261 TTGTTTAATGATTGGATTCGCTCATTCGTTAAGTAATGTTTTATCTCTATTTTGTCGTTCCATAG
131 TTGTTCAATGATTGGATTCGCTCGTTCGGTAAGTAATGTTTTATCTCTATTTTGTCGTTCCATAG
8911326 TTGGTTTTCTAATAGAGGGCTATTGTTGGTTCTTTCGGATTAGGTGAAGATCTAGCAACGACTAG
196 TTGGTTTTCTAATAGAGGGCTATTGTTGGTTCTTTCGGATTAGGTGAAGATCTAGCAACGACTAG
* * *
8911391 TGCTTCTACGGAGATTTGAACGTTAGGGATTCATTTCGTTATGGTAAGTGACTGAGTTCACTTTT
261 TGCTTCTGCGGAGATTTGAACGTTAGGGATTCATTTCGTTGTGGTAAGTGACCGAGTTCACTTTT
* * * * *
8911456 TGACGTTCTAAGGTTTCGTTGGGGAATTATTTCTTGTTTAGTTTTTGTTTGTGTTACTGAATTCA
326 TGACGTTCTAAGGTTTCGTTGGGGAAATATTTCTGGTTTAGTTTTCGTTTGTGTTACTAAATTCG
* *
8911521 GGCTTTGGTAATGTCGATTATAGGTTTTGGTGATCTCGGGGTTACAATATCAGCGAATTGATATC
391 GGCTTTGGTAATGTCGATTATAGGTTTTGGTGATCTCGGGGTTGCAATATCAGCGAATCGATATC
* * **
8911586 AGGTGTGTATTCGGTTGCACAGAAAATGAGGTTTCAACGAAAACCAAAAACCTCACTGTCGATTC
456 AGGTGTGTATTCGATTGCACAGAAAATGAGGTTTCAACGAAAGCCAAAAACCTCACTGTCGACGC
* *
8911651 CGCACGGGCGTGTGGTCGCCTGTGTGGTAGGCCGTATGAT
521 CGCACGGGCGTGTGGTCGCCTATGTGGTAGGCCGTGTGAT
*
8911691 GGGATTTGGTTTTAATCCATATCTTTTTTCTCAAAAGTCTCTCTATCTTTCTGACGTTTATTTTT
1 GGGATTTGGTTTTAATCCATATCTTTTTTCTCAAAAGTCTCTCTATCTTTCTGACGTCTATTTTT
* *
8911756 CACCCACTTGCCGAATTTTCCTTGTTTCCTTCCTC-ACTCTCTTGGTTTCCGTTTTACCTCTTTC
66 CACCCTCTTGCCGAATTTTCCTTGTTTCCTTCCTCTACTCTCTTGGTTTCCGTTTTACCTCCTTC
* *
8911820 TTGTTCAATGATTAGATTCGCTCGTTCGGTAAGTAATGTTTTATCTGTATTTTGTCGTTCCATAG
131 TTGTTCAATGATTGGATTCGCTCGTTCGGTAAGTAATGTTTTATCTCTATTTTGTCGTTCCATAG
* *
8911885 TTGGTTTTCTAATAAAGGGCTATTGTTGGTTCTTTTGGATTAGGTGAAGATCTAG---CGACTAG
196 TTGGTTTTCTAATAGAGGGCTATTGTTGGTTCTTTCGGATTAGGTGAAGATCTAGCAACGACTAG
* * *
8911947 TGCTTCTGTGGAGATTTGAACATTAGGGATTCATTTCGTTGTTGTAAGTGACCGAGTTCACTTTT
261 TGCTTCTGCGGAGATTTGAACGTTAGGGATTCATTTCGTTGTGGTAAGTGACCGAGTTCACTTTT
* *
8912012 TGACGTTCTAAGGTTTCATTGGGGAAATATTTCTGGTTTAGTTTTTGTTTGTGTTACTAAATTCG
326 TGACGTTCTAAGGTTTCGTTGGGGAAATATTTCTGGTTTAGTTTTCGTTTGTGTTACTAAATTCG
* * *
8912077 GGCTCTGGTAATGTCGATTATAGGTTTTGGTGATCTCAGGGTTGCAATATCAGCGAATCGATATT
391 GGCTTTGGTAATGTCGATTATAGGTTTTGGTGATCTCGGGGTTGCAATATCAGCGAATCGATATC
*
8912142 AGGTGTGTATTCGATTGCACAGGAAATGAGGTTTCAACGAAAGCCAAAAACCTCACTGTCGACGC
456 AGGTGTGTATTCGATTGCACAGAAAATGAGGTTTCAACGAAAGCCAAAAACCTCACTGTCGACGC
* * * *
8912207 CGCACGGGCATGTTGTCGGCC-GTGTGGTAGGCCGTGTGAG
521 CGCACGGGCGTGTGGTC-GCCTATGTGGTAGGCCGTGTGAT
* * *
8912247 GGGAATTGGTTTTAATCCATATCTTTTTTCTCAAAAGTCTCTCTATTTTTCTGATGTCTATTTTT
1 GGGATTTGGTTTTAATCCATATCTTTTTTCTCAAAAGTCTCTCTATCTTTCTGACGTCTATTTTT
*
8912312 CACCCTCTTGCTGAATTTTCCTTGTTTCCTTCCTCTACTCTCTTGGTTTCCGTTTTACCTCCTTC
66 CACCCTCTTGCCGAATTTTCCTTGTTTCCTTCCTCTACTCTCTTGGTTTCCGTTTTACCTCCTTC
* * *
8912377 TTGTTCAATGATTGAATTCGCTCTTTCGGTAAGGAATGTTTTATCTCTATTTTGTCGTTCCATAG
131 TTGTTCAATGATTGGATTCGCTCGTTCGGTAAGTAATGTTTTATCTCTATTTTGTCGTTCCATAG
* * *
8912442 TTGGTTTTCTGATAGAGGGCTATTATTGGTTCTTTCGAATTAGGTGAAGATCTAGCAACGACTAG
196 TTGGTTTTCTAATAGAGGGCTATTGTTGGTTCTTTCGGATTAGGTGAAGATCTAGCAACGACTAG
* *
8912507 TGCTTCTGCAGAGATTTGAACGTTAGGGATTCATTTCGTTGTGGTAAGTGACCGAATTCACTTTT
261 TGCTTCTGCGGAGATTTGAACGTTAGGGATTCATTTCGTTGTGGTAAGTGACCGAGTTCACTTTT
* * * * * *
8912572 TGACATTCTAAGGTTTTGTTAGGGAAATATTTCTGGTTTAATTTTCGTTTTTGTTACTAAATTCC
326 TGACGTTCTAAGGTTTCGTTGGGGAAATATTTCTGGTTTAGTTTTCGTTTGTGTTACTAAATTCG
*
8912637 GGCTTTGGTAATGTCAATTATAGGTTTTGGTGATCTCGGGGTTGCAATATCAGCGAATCGATATC
391 GGCTTTGGTAATGTCGATTATAGGTTTTGGTGATCTCGGGGTTGCAATATCAGCGAATCGATATC
* * * *
8912702 AGGTGTGTATTTGATTGCACAGAAAATGAGGTTTCAACGAAAGCCAAAAACCTCATTGTTGACGT
456 AGGTGTGTATTCGATTGCACAGAAAATGAGGTTTCAACGAAAGCCAAAAACCTCACTGTCGACGC
* *
8912767 CGCACGGGCGTGTGGTCGCCCATGTGGTAGGCCGTGTGAC
521 CGCACGGGCGTGTGGTCGCCTATGTGGTAGGCCGTGTGAT
8912807 GGGA
1 GGGA
8912811 CACGGGCGTG
Statistics
Matches: 1552, Mismatches: 122, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
556 372 0.24
557 141 0.09
559 141 0.09
560 898 0.58
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (560 bp):
GGGATTTGGTTTTAATCCATATCTTTTTTCTCAAAAGTCTCTCTATCTTTCTGACGTCTATTTTT
CACCCTCTTGCCGAATTTTCCTTGTTTCCTTCCTCTACTCTCTTGGTTTCCGTTTTACCTCCTTC
TTGTTCAATGATTGGATTCGCTCGTTCGGTAAGTAATGTTTTATCTCTATTTTGTCGTTCCATAG
TTGGTTTTCTAATAGAGGGCTATTGTTGGTTCTTTCGGATTAGGTGAAGATCTAGCAACGACTAG
TGCTTCTGCGGAGATTTGAACGTTAGGGATTCATTTCGTTGTGGTAAGTGACCGAGTTCACTTTT
TGACGTTCTAAGGTTTCGTTGGGGAAATATTTCTGGTTTAGTTTTCGTTTGTGTTACTAAATTCG
GGCTTTGGTAATGTCGATTATAGGTTTTGGTGATCTCGGGGTTGCAATATCAGCGAATCGATATC
AGGTGTGTATTCGATTGCACAGAAAATGAGGTTTCAACGAAAGCCAAAAACCTCACTGTCGACGC
CGCACGGGCGTGTGGTCGCCTATGTGGTAGGCCGTGTGAT
Found at i:8914383 original size:3 final size:3
Alignment explanation
Indices: 8914375--8914409 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
8914365 TAATAAAGTC
*
8914375 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8914410 ATATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8914414 original size:2 final size:2
Alignment explanation
Indices: 8914407--8914436 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8914397 TTATTATTAT
8914407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8914437 AAGTAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8916646 original size:46 final size:46
Alignment explanation
Indices: 8916590--8916911 Score: 527
Period size: 46 Copynumber: 7.0 Consensus size: 46
8916580 AGTGTGCTCT
8916590 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
8916636 TTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
8916682 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
8916728 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
8916774 CTGCTATGAAATGTGTAACACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
8916820 CTGCTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
8916866 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
8916912 ATGACAGAAA
Statistics
Matches: 257, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 257 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:8916917 original size:46 final size:46
Alignment explanation
Indices: 8916590--8916959 Score: 494
Period size: 46 Copynumber: 8.0 Consensus size: 46
8916580 AGTGTGCTCT
*
8916590 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
8916636 TTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
8916682 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
8916728 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
8916774 CTG-CTATGAAATGTGTAACACCATGGTTGAAAGATACCATGGAAAC
1 CTGAC-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
8916820 CTG-CTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGAC-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
8916866 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
8916912 ATGACA-GAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATG--T--GTAAGACCATGGTTGAAAGATACCATGGCA
8916960 TCATGTCAAA
Statistics
Matches: 293, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.00
46 265 0.90
47 1 0.00
50 26 0.09
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:8920532 original size:68 final size:68
Alignment explanation
Indices: 8920453--8920588 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
8920443 AAATGTAGCC
*
8920453 AACTCTAAAAGTACAACGCATAAGTAAGCTCACAAGGAATCACGAGGGAAGTTAAAAAGTAATGA
1 AACTCTAAAAGTACAACACATAAGTAAGCTCACAAGGAATCACGAGGGAAGTTAAAAAGTAATGA
8920518 ACT
66 ACT
8920521 AACTCTAAAAGTACAACACATAAGTAAGCTCACAAGGAATCACGAGGGAAGTTAAAAAGTAATGA
1 AACTCTAAAAGTACAACACATAAGTAAGCTCACAAGGAATCACGAGGGAAGTTAAAAAGTAATGA
8920586 ACT
66 ACT
8920589 CTAAAGTAAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (68 bp):
AACTCTAAAAGTACAACACATAAGTAAGCTCACAAGGAATCACGAGGGAAGTTAAAAAGTAATGA
ACT
Found at i:8921050 original size:26 final size:26
Alignment explanation
Indices: 8921013--8921096 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
8921003 TGATACAAAT
* *
8921013 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8921039 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8921065 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8921091 TGATAA
1 TGATAA
8921097 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:8926956 original size:25 final size:25
Alignment explanation
Indices: 8926929--8926980 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
8926919 TATGTTAGAT
8926929 AAAATATCCAACCAA-TTCTTCTATTA
1 AAAAT-TCC-ACCAATTTCTTCTATTA
*
8926955 AAAATTCCATCAATTTCTTCTATTA
1 AAAATTCCACCAATTTCTTCTATTA
8926980 A
1 A
8926981 GTGATGATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 15 0.62
26 5 0.21
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATTCCACCAATTTCTTCTATTA
Found at i:8927862 original size:2 final size:2
Alignment explanation
Indices: 8927855--8927883 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8927845 GGAGAACTTT
8927855 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 T
8927884 GTGCGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8931274 original size:28 final size:28
Alignment explanation
Indices: 8931195--8931274 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
8931185 GTCTTTGTAA
*
8931195 CTATCTTTGTTAAAGGACGCCTTTGTGG
1 CTATCTTTATTAAAGGACGCCTTTGTGG
* * **
8931223 CAAGTCTCTA--AAAGGAAAACCTTTGTGG
1 CTA-TCTTTATTAAAGG-ACGCCTTTGTGG
*
8931251 CTATCTTTATTAAAGGACGTCTTT
1 CTATCTTTATTAAAGGACGCCTTT
8931275 TAGCGAGTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
27 10 0.26
28 19 0.50
29 9 0.24
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (28 bp):
CTATCTTTATTAAAGGACGCCTTTGTGG
Found at i:8931306 original size:55 final size:56
Alignment explanation
Indices: 8931195--8931311 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 56
8931185 GTCTTTGTAA
* *
8931195 CTATCTTTGTTAAAGGACGCCTTTGTGGCAAGTCTCTAAAAGGAAAACCTTTGTGG
1 CTATCTTTATTAAAGGACGCCTTTGTAGCAAGTCTCTAAAAGGAAAACCTTTGTGG
* * * * * *
8931251 CTATCTTTATTAAAGGACGTCTTT-TAGCGAGTTTTTGAAAGGAAAGCCTTTGTGG
1 CTATCTTTATTAAAGGACGCCTTTGTAGCAAGTCTCTAAAAGGAAAACCTTTGTGG
8931306 CTATCT
1 CTATCT
8931312 ATGTTCAAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 31 0.58
56 22 0.42
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (56 bp):
CTATCTTTATTAAAGGACGCCTTTGTAGCAAGTCTCTAAAAGGAAAACCTTTGTGG
Found at i:8931366 original size:27 final size:27
Alignment explanation
Indices: 8931284--8931377 Score: 68
Period size: 27 Copynumber: 3.4 Consensus size: 27
8931274 TTAGCGAGTT
8931284 TTTGA-AAGGAAAGCCTTTGTGGCTATC
1 TTTGATAA-GAAAGCCTTTGTGGCTATC
* * * * *
8931311 TATGTTCAAGAATGCCTCTAAGT-G-AATC
1 TTTGAT-AAGAAAGCCT-T-TGTGGCTATC
8931339 TTTGATAAGAAAGCCTTTGTGGCTATC
1 TTTGATAAGAAAGCCTTTGTGGCTATC
* *
8931366 TCTGATAGGAAA
1 TTTGATAAGAAA
8931378 CATCTTCATG
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 25 0.51
28 14 0.29
29 4 0.08
30 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (27 bp):
TTTGATAAGAAAGCCTTTGTGGCTATC
Found at i:8935993 original size:2 final size:2
Alignment explanation
Indices: 8935986--8936026 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
8935976 AGTGGAGAAT
* * *
8935986 AC AC AC AC AC AA AC AC AC AG AC AC AC AC AC AC AT AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
8936027 GATATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.41, G:0.02, T:0.02
Consensus pattern (2 bp):
AC
Found at i:8936033 original size:2 final size:2
Alignment explanation
Indices: 8936028--8936072 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
8936018 ATACACACAG
8936028 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
8936070 AT A
1 AT A
8936073 AGAAACTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8937697 original size:38 final size:38
Alignment explanation
Indices: 8937655--8937978 Score: 206
Period size: 38 Copynumber: 8.2 Consensus size: 38
8937645 TATAAGTAGA
* *
8937655 AGGCTTCGTGCCTGTGTTATTTAGACTTAGTGCCTAGC
1 AGGCTTCGTGCCTGTGTTATTCAGGCTTAGTGCCTAGC
* *
8937693 AGGCTTCATGCCGGTGTTATTCAGGCTTAGTGCCTAGC
1 AGGCTTCGTGCCTGTGTTATTCAGGCTTAGTGCCTAGC
* * * *
8937731 AAGCTTCGTGCCAGAGTTATTCAGGCTTAGTGCCAATG-
1 AGGCTTCGTGCCTGTGTTATTCAGGCTTAGTGCCTA-GC
** * * *
8937769 AGTTATTCAG-GCTTAGTGTCTA-GCAGGCTTCGTG-CTGATGTTATTC
1 AG-GCTTC-GTGCCT-GTGT-TATTCAGGCTTAGTGCCT-A-G-----C
* * * *
8937815 AAGCTTAGTGCCGATGAGTTATTCAGGTTTAGTGCCTAGC
1 AGGCTTCGTGCC--TGTGTTATTCAGGCTTAGTGCCTAGC
* * * *
8937855 AGGCTTCGTGCCAGAGTTATTTAGACTTAGTGCCTAGC
1 AGGCTTCGTGCCTGTGTTATTCAGGCTTAGTGCCTAGC
* *
8937893 AGGCTTCGTGCCGGTGTGTTATTCAGCCTTAGTGCCTAGA
1 AGGCTTCGTGCC--TGTGTTATTCAGGCTTAGTGCCTAGC
* * * * *
8937933 AGGCTTTGTGTCGATGTGATATTCAAGCTTAGTGCCTAGT
1 AGGCTTCGTG-C-CTGTGTTATTCAGGCTTAGTGCCTAGC
8937973 AGGCTT
1 AGGCTT
8937979 TGAGCCGGTG
Statistics
Matches: 221, Mismatches: 44, Indels: 40
0.72 0.14 0.13
Matches are distributed among these distances:
38 100 0.45
39 7 0.03
40 86 0.39
41 3 0.01
44 1 0.00
45 7 0.03
46 14 0.06
47 3 0.01
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
AGGCTTCGTGCCTGTGTTATTCAGGCTTAGTGCCTAGC
Found at i:8937782 original size:62 final size:62
Alignment explanation
Indices: 8937708--8937888 Score: 274
Period size: 62 Copynumber: 2.9 Consensus size: 62
8937698 TCATGCCGGT
*
8937708 GTTATTCAGGCTTAGTGCCTAGCAAGCTTCGTGCCAGAGTTATTCAGGCTTAGTGCCAATGA
1 GTTATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCCAGAGTTATTCAGGCTTAGTGCCAATGA
* * * *
8937770 GTTATTCAGGCTTAGTGTCTAGCAGGCTTCGTG-CTGATGTTATTCAAGCTTAGTGCCGATGA
1 GTTATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCCAGA-GTTATTCAGGCTTAGTGCCAATGA
* * *
8937832 GTTATTCAGGTTTAGTGCCTAGCAGGCTTCGTGCCAGAGTTATTTAGACTTAGTGCC
1 GTTATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCCAGAGTTATTCAGGCTTAGTGCC
8937889 TAGCAGGCTT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
61 3 0.03
62 100 0.94
63 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (62 bp):
GTTATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCCAGAGTTATTCAGGCTTAGTGCCAATGA
Found at i:8937825 original size:22 final size:23
Alignment explanation
Indices: 8937795--8937850 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
8937785 TGTCTAGCAG
* *
8937795 GCTTCGTGCTGAT-GTTATTCAA
1 GCTTAGTGCCGATAGTTATTCAA
*
8937817 GCTTAGTGCCGATGAGTTATTCAG
1 GCTTAGTGCCGAT-AGTTATTCAA
*
8937841 GTTTAGTGCC
1 GCTTAGTGCC
8937851 TAGCAGGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 11 0.39
24 17 0.61
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (23 bp):
GCTTAGTGCCGATAGTTATTCAA
Found at i:8937925 original size:40 final size:39
Alignment explanation
Indices: 8937817--8937978 Score: 175
Period size: 40 Copynumber: 4.1 Consensus size: 39
8937807 TGTTATTCAA
* * *
8937817 GCTTAGTGCCGATGAGTTATTCAGGTTTAGTGCCTAGCAG
1 GCTTCGTGCCGATGTGTTATTCA-GCTTAGTGCCTAGCAG
* *
8937857 GCTTCGTGCC-A-GAGTTATTTAGACTTAGTGCCTAGCAG
1 GCTTCGTGCCGATGTGTTATTCAG-CTTAGTGCCTAGCAG
* *
8937895 GCTTCGTGCCGGTGTGTTATTCAGCCTTAGTGCCTAGAAG
1 GCTTCGTGCCGATGTGTTATTCAG-CTTAGTGCCTAGCAG
* * * *
8937935 GCTTTGTGTCGATGTGATATTCAAGCTTAGTGCCTAGTAG
1 GCTTCGTGCCGATGTGTTATTC-AGCTTAGTGCCTAGCAG
8937975 GCTT
1 GCTT
8937979 TGAGCCGGTG
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
37 1 0.01
38 33 0.31
39 1 0.01
40 68 0.65
41 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (39 bp):
GCTTCGTGCCGATGTGTTATTCAGCTTAGTGCCTAGCAG
Found at i:8947921 original size:24 final size:24
Alignment explanation
Indices: 8947879--8947973 Score: 104
Period size: 24 Copynumber: 4.0 Consensus size: 24
8947869 AACCCAATCT
*
8947879 TTATTTTTATTTTTATTTTTATTTA
1 TTATTTTTATTTCT-TTTTTATTTA
*
8947904 TTATTTTTCTTTCTTTTTTATTTA
1 TTATTTTTATTTCTTTTTTATTTA
* * *
8947928 TTATTTTTCTTACTTTTCT-TTTA
1 TTATTTTTATTTCTTTTTTATTTA
*
8947951 TTATTTATTATTT-TATTTTATTT
1 TTATTT-TTATTTCTTTTTTATTT
8947974 TATTTTAGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.23
24 34 0.57
25 12 0.20
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (24 bp):
TTATTTTTATTTCTTTTTTATTTA
Found at i:8947951 original size:20 final size:19
Alignment explanation
Indices: 8947883--8947974 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 19
8947873 CAATCTTTAT
8947883 TTTTATTTTTATTTTTATT-
1 TTTTA-TTTTATTTTTATTA
* * *
8947902 TATTATTTT-TCTTTCTT-
1 TTTTATTTTATTTTTATTA
*
8947919 TTTTATTTATTATTTTTCTTA
1 TTTTA-TT-TTATTTTTATTA
*
8947940 CTTTTCTTTTATTATTTATTA
1 -TTTTATTTTATT-TTTATTA
8947961 TTTTATTTTATTTT
1 TTTTATTTTATTTT
8947975 ATTTTAGTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
17 10 0.17
18 6 0.10
19 8 0.14
20 23 0.39
21 8 0.14
22 4 0.07
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTTATTTTTATTA
Found at i:8947980 original size:10 final size:10
Alignment explanation
Indices: 8947878--8947980 Score: 52
Period size: 10 Copynumber: 9.9 Consensus size: 10
8947868 CAACCCAATC
8947878 TTTATTTTTATT
1 TTTA-TTTTA-T
8947890 TTTATTTT-T
1 TTTATTTTAT
*
8947899 ATTTATTAT-T
1 -TTTATTTTAT
* *
8947909 TTTCTTTCTTT
1 TTTATTT-TAT
8947920 TTTATTTATTAT
1 TTTA-TT-TTAT
*
8947932 TTT-TCTTACT
1 TTTATTTTA-T
*
8947942 TTTCTTTTAT
1 TTTATTTTAT
*
8947952 TATT-TATTAT
1 T-TTATTTTAT
8947962 TTTATTTTAT
1 TTTATTTTAT
8947972 TTTATTTTA
1 TTTATTTTA
8947981 GTTAAATATT
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
9 11 0.15
10 36 0.49
11 14 0.19
12 11 0.15
13 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:8947980 original size:30 final size:31
Alignment explanation
Indices: 8947878--8947980 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 31
8947868 CAACCCAATC
* *
8947878 TTTATTTTTATTTTTATT-TTTATT-TATTAT
1 TTTACTTTTA-TTTTATTATTTATTATTTTAT
* *
8947908 TTTTC-TTTCTTTT-TTATTTATTATTTT-T
1 TTTACTTTTATTTTATTATTTATTATTTTAT
* *
8947936 CTTACTTTTCTTTTATTATTTATTATTTTAT
1 TTTACTTTTATTTTATTATTTATTATTTTAT
8947967 TTTA-TTTTATTTTA
1 TTTACTTTTATTTTA
8947981 GTTAAATATT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
27 2 0.03
28 14 0.23
29 14 0.23
30 26 0.43
31 4 0.07
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (31 bp):
TTTACTTTTATTTTATTATTTATTATTTTAT
Found at i:8949108 original size:118 final size:118
Alignment explanation
Indices: 8948896--8949126 Score: 435
Period size: 118 Copynumber: 2.0 Consensus size: 118
8948886 TGTTTTCCAT
*
8948896 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATT
* *
8948961 TTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
66 CTACTTCGCGTCAAAAGGTTGTGTAACGTGACAAGTAAAACTCCGCTAGCCAA
8949014 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATT
8949079 CTACTTCGCGTCAAAAGGTTGTGTAACGTGACAAGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTAACGTGACAAGTAAAACTCCGCTA
8949127 ACCGAAATAA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (118 bp):
GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTAACGTGACAAGTAAAACTCCGCTAGCCAA
Found at i:8949213 original size:115 final size:115
Alignment explanation
Indices: 8948905--8949213 Score: 385
Period size: 118 Copynumber: 2.7 Consensus size: 115
8948895 TGGTTATGAG
* *
8948905 TACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTTTACTTCGC
1 TACAGCTTAGATCATGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGC
* * * *
8948970 GTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAAGGTTATGAG
66 GTCAAAAGGTTGTGTAACGTGACAAGTAAAACTCCGCTAACCAA-G--ATAAA
* *
8949023 TACAGCTTAGATCGTGACTGACTGAGTAACCGGAGTAGGGTGCTTGGGTTGTCATTCTACTTCGC
1 TACAGCTTAGATCATGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGC
8949088 GTCAAAAGGTTGTGTAACGTGACAAGTAAAACTCCGCTAACCGAA-ATAAA
66 GTCAAAAGGTTGTGTAACGTGACAAGTAAAACTCCGCTAACC-AAGATAAA
** * * *
8949138 TA-ATTTTAGGAGT-ATG-TTGGGCTGAGTAACCGGGGTGGGGTGCTTGGGTTGTCATCTCT-CT
1 TACAGCTTA-GA-TCATGACT-GACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCAT-TCTACT
*
8949199 TCGCATCAAAAGGTT
62 TCGCGTCAAAAGGTT
8949214 TAATATATTC
Statistics
Matches: 172, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
114 5 0.03
115 58 0.34
116 4 0.02
118 103 0.60
119 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (115 bp):
TACAGCTTAGATCATGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTCGC
GTCAAAAGGTTGTGTAACGTGACAAGTAAAACTCCGCTAACCAAGATAAA
Found at i:8949281 original size:11 final size:12
Alignment explanation
Indices: 8949260--8949296 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
8949250 TAAAAAAATC
8949260 AAAA-AAGAAAA
1 AAAAGAAGAAAA
*
8949271 AAAGGAA-AAAA
1 AAAAGAAGAAAA
8949282 AAAAGAAGAAAA
1 AAAAGAAGAAAA
8949294 AAA
1 AAA
8949297 TAAGTACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAAA
Found at i:8951287 original size:27 final size:27
Alignment explanation
Indices: 8951254--8951310 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
8951244 AGAGAAAAAC
8951254 TGTTCATCTCCTCTCTGTTTTCCACTT
1 TGTTCATCTCCTCTCTGTTTTCCACTT
8951281 TGTTCATCTCCTCTCTGTTTTCCACTT
1 TGTTCATCTCCTCTCTGTTTTCCACTT
8951308 TGT
1 TGT
8951311 CCTTTTTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.07, C:0.32, G:0.09, T:0.53
Consensus pattern (27 bp):
TGTTCATCTCCTCTCTGTTTTCCACTT
Found at i:8952406 original size:40 final size:40
Alignment explanation
Indices: 8952351--8952428 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
8952341 TGCAGTACCT
*
8952351 TATGGTGTGTAGGGATAGATGGGTCGATTTTATCCCCATA
1 TATGGTGTGCAGGGATAGATGGGTCGATTTTATCCCCATA
*
8952391 TATGGTGTGCAGGGATAGGTGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGGGATAGATGGGTCGATTTTATCCCCA
8952429 CAGGGTGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.33
Consensus pattern (40 bp):
TATGGTGTGCAGGGATAGATGGGTCGATTTTATCCCCATA
Found at i:8954062 original size:55 final size:56
Alignment explanation
Indices: 8953942--8954071 Score: 156
Period size: 55 Copynumber: 2.3 Consensus size: 56
8953932 TGTAAAATGA
* * * * *
8953942 AAAGCCTTTGTAACTATCTTTGTTAAAGGATGCCTTTGTGGCGAGTCTCTGAAAGG
1 AAAGCCTTTGTAGCTATCTTTATTAAAGGATGCCATTGTAGCGAGTCTATGAAAGG
* * * *
8953998 AAAACCTTTGTGGCTATCTTTATTAAAGG-TCGTCATT-TAGCGAGTTTATGAAAGG
1 AAAGCCTTTGTAGCTATCTTTATTAAAGGAT-GCCATTGTAGCGAGTCTATGAAAGG
8954053 AAAGCCTTTGTAGCTATCT
1 AAAGCCTTTGTAGCTATCT
8954072 CTGATAGGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
55 33 0.53
56 29 0.47
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (56 bp):
AAAGCCTTTGTAGCTATCTTTATTAAAGGATGCCATTGTAGCGAGTCTATGAAAGG
Found at i:8955832 original size:21 final size:21
Alignment explanation
Indices: 8955808--8955859 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
8955798 TTTAGGGGTA
*
8955808 TGTCGCGACACCCTTAGTCTG
1 TGTCACGACACCCTTAGTCTG
*
8955829 TGTCACGACACCCTTATTCTG
1 TGTCACGACACCCTTAGTCTG
8955850 TGTCACGACA
1 TGTCACGACA
8955860 TCAAAAGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (21 bp):
TGTCACGACACCCTTAGTCTG
Found at i:8958752 original size:2 final size:2
Alignment explanation
Indices: 8958745--8958771 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8958735 TGGAGAACAC
8958745 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 A
8958772 ATAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8960134 original size:19 final size:19
Alignment explanation
Indices: 8960110--8960207 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
8960100 AATCTTTAAG
8960110 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
8960129 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8960148 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8960165 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8960184 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
8960205 GAT
1 GAT
8960208 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:8960139 original size:36 final size:35
Alignment explanation
Indices: 8960099--8960218 Score: 109
Period size: 36 Copynumber: 3.2 Consensus size: 35
8960089 TATGGAAATA
8960099 TAATCTTTAAGGATATGCAATCTTAGATATGATATG
1 TAATCTTTAA-GATATGCAATCTTAGATATGATATG
8960135 TAATC-TT-AGATATGATACAATCTTAGATATGATATG
1 TAATCTTTAAGATATG---CAATCTTAGATATGATATG
* * *
8960171 CAATCTTAGATATGATATGCAATCTTGAAGATATGATCTTG
1 TAATCTT---TAAGATATGCAATCTT--AGATATGAT-ATG
8960212 TAATCTT
1 TAATCTT
8960219 GGAGATTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
33 6 0.09
34 1 0.01
35 2 0.03
36 28 0.41
37 1 0.01
38 7 0.10
40 10 0.14
41 14 0.20
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (35 bp):
TAATCTTTAAGATATGCAATCTTAGATATGATATG
Found at i:8960727 original size:26 final size:23
Alignment explanation
Indices: 8960689--8960739 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 23
8960679 GCATAGTTTC
8960689 ATTTTTTTATATGCTATGTTTAATT
1 ATTTTTTTATATGCTAT-TTT-ATT
8960714 ATTTCTTTTATATGCTATTTTATT
1 ATTT-TTTTATATGCTATTTTATT
8960738 AT
1 AT
8960740 ATATATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.20
25 7 0.28
26 13 0.52
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (23 bp):
ATTTTTTTATATGCTATTTTATT
Found at i:8962220 original size:5 final size:5
Alignment explanation
Indices: 8962210--8962257 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
8962200 TTTTTCATTA
*
8962210 TTTAT TTTAT TTTA- TTT-T TTTAT TTTAT GTTA- TTTA- TTTAT TATTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT
8962257 T
1 T
8962258 AACTTTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
4 13 0.35
5 19 0.51
6 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:8962222 original size:18 final size:18
Alignment explanation
Indices: 8962207--8962257 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
8962197 CTTTTTTTCA
8962207 TTATTTATTTTATTTTAT
1 TTATTTATTTTATTTTAT
* *
8962225 TTTTTTATTTTATGTTAT
1 TTATTTATTTTATTTTAT
8962243 TTATTTATTATTATT
1 TTATTTATT-TTATT
8962258 AACTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTTATTTTATTTTAT
Found at i:8962224 original size:14 final size:14
Alignment explanation
Indices: 8962207--8962248 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
8962197 CTTTTTTTCA
8962207 TTATTTATTTTATT
1 TTATTTATTTTATT
8962221 TTATTT-TTTTATT
1 TTATTTATTTTATT
8962234 TTATGTTA-TTTATT
1 TTAT-TTATTTTATT
8962248 T
1 T
8962249 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (14 bp):
TTATTTATTTTATT
Found at i:8962294 original size:22 final size:22
Alignment explanation
Indices: 8962269--8962336 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 22
8962259 ACTTTAAAAA
8962269 ATTTGAAATATATA-TTTGAAAT
1 ATTT-AAATATATATTTTGAAAT
*
8962291 ATTTTATTAATATATATTTTTTAAAT
1 A-TTTA--AATATATA-TTTTGAAAT
8962317 -TTTAAATATATATTTTGAAA
1 ATTTAAATATATATTTTGAAA
8962337 GTACTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 7 0.18
22 10 0.26
23 3 0.08
24 12 0.31
26 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTAAATATATATTTTGAAAT
Found at i:8962352 original size:21 final size:21
Alignment explanation
Indices: 8962328--8962380 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
8962318 TTAAATATAT
*
8962328 ATTTTGAA-AGTACTTTTTTAA
1 ATTTTAAATAGTA-TTTTTTAA
*
8962349 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATAGTATTTTTTAA
8962370 ATATTTAAATA
1 AT-TTTAAATA
8962381 TTTTAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
ATTTTAAATAGTATTTTTTAA
Found at i:8962376 original size:22 final size:21
Alignment explanation
Indices: 8962341--8962382 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8962331 TTGAAAGTAC
8962341 TTTTTTAAATTTTAAATATTA
1 TTTTTTAAATTTTAAATATTA
8962362 TTTTTTAAATATTTAAATATT
1 TTTTTTAAAT-TTTAAATATT
8962383 TTAAACTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTAAATTTTAAATATTA
Found at i:8962630 original size:20 final size:20
Alignment explanation
Indices: 8962602--8962645 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8962592 ATACTGTAAG
*
8962602 TTTTTTTTAAACTTTTATTA
1 TTTTATTTAAACTTTTATTA
***
8962622 TTTTATTTAGTTTTTTATTA
1 TTTTATTTAAACTTTTATTA
8962642 TTTT
1 TTTT
8962646 TGTCTTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTAAACTTTTATTA
Found at i:8962683 original size:48 final size:47
Alignment explanation
Indices: 8962602--8962692 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 47
8962592 ATACTGTAAG
*
8962602 TTTTTTTTAAACTTTTATTATTTTATTTAGTTTTTTATTATTTTTGTC
1 TTTTTTTTAAACTTTTATTATTTTATTTAGTTTTATATT-TTTTTGTC
*
8962650 TTTTTCTTTAAACTTTT-TTCTTTT-TTTAAGTTTTATATTTTTT
1 TTTTT-TTTAAACTTTTATTATTTTATTT-AGTTTTATATTTTTT
8962693 CTTATTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
47 7 0.18
48 21 0.54
49 11 0.28
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (47 bp):
TTTTTTTTAAACTTTTATTATTTTATTTAGTTTTATATTTTTTTGTC
Found at i:8962732 original size:21 final size:21
Alignment explanation
Indices: 8962698--8962738 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8962688 TTTTTCTTAT
*
8962698 TTTATTTTGTTTATTTATTTA
1 TTTATTTTGTTTATTAATTTA
8962719 TTTATTTT-TGTTATTAATTT
1 TTTATTTTGT-TTATTAATTT
8962739 TAAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTATTTTGTTTATTAATTTA
Found at i:8962837 original size:21 final size:20
Alignment explanation
Indices: 8962804--8962864 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
8962794 TTTAAATATT
8962804 ATTTTAA-ATTATTTTTAAA
1 ATTTTAATATTATTTTTAAA
8962823 ATTTTGAATATTATTTTTAAA
1 ATTTT-AATATTATTTTTAAA
* *
8962844 ACATTAAATATATATTTTTAA
1 A-TTTTAATAT-TATTTTTAA
8962865 TTTTTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 18 0.50
22 11 0.31
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTTAATATTATTTTTAAA
Found at i:8962859 original size:22 final size:21
Alignment explanation
Indices: 8962811--8962864 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
8962801 ATTATTTTAA
** *
8962811 ATTATTTTTAAAATTTTGAAT
1 ATTATTTTTAAAACATTAAAT
8962832 ATTATTTTTAAAACATTAAAT
1 ATTATTTTTAAAACATTAAAT
8962853 ATATATTTTTAA
1 AT-TATTTTTAA
8962865 TTTTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTATTTTTAAAACATTAAAT
Found at i:8962881 original size:41 final size:40
Alignment explanation
Indices: 8962831--8962923 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 40
8962821 AAATTTTGAA
8962831 TATTA-TTTTTAAAACATTAAATATATATTTTTAATTTTTT
1 TATTATTTTTTAAAACATTAAATATAT-TTTTTAATTTTTT
*
8962871 TATTATTTTTTTAAACATTAAATATATTTTTTAATTTTTT
1 TATTATTTTTTAAAACATTAAATATATTTTTTAATTTTTT
*
8962911 TAATTTTTTTTTA
1 T-ATTATTTTTTA
8962924 CTTTTTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
40 19 0.40
41 29 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (40 bp):
TATTATTTTTTAAAACATTAAATATATTTTTTAATTTTTT
Found at i:8962898 original size:21 final size:21
Alignment explanation
Indices: 8962830--8962902 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 21
8962820 AAAATTTTGA
8962830 ATATTATTTTTAAAACATTAAAT
1 ATATT-TTTTT-AAACATTAAAT
* *** **
8962853 ATATATTTTTAATTTTTTTAT
1 ATATTTTTTTAAACATTAAAT
8962874 -TATTTTTTTAAACATTAAAT
1 ATATTTTTTTAAACATTAAAT
8962894 ATATTTTTT
1 ATATTTTTT
8962903 AATTTTTTTA
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
20 14 0.38
21 14 0.38
22 5 0.14
23 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTTTTTTAAACATTAAAT
Found at i:8962902 original size:40 final size:41
Alignment explanation
Indices: 8962831--8962923 Score: 147
Period size: 40 Copynumber: 2.3 Consensus size: 41
8962821 AAATTTTGAA
*
8962831 TATTA-TTTTTAAAACATTAAATATATATTTTTAATTTTTT
1 TATTATTTTTTTAAACATTAAATATATATTTTTAATTTTTT
8962871 TATTATTTTTTTAAACATTAAATATAT-TTTTTAATTTTTT
1 TATTATTTTTTTAAACATTAAATATATATTTTTAATTTTTT
8962911 TAATT-TTTTTTTA
1 T-ATTATTTTTTTA
8962924 CTTTTTTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
40 27 0.54
41 23 0.46
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (41 bp):
TATTATTTTTTTAAACATTAAATATATATTTTTAATTTTTT
Found at i:8962948 original size:11 final size:11
Alignment explanation
Indices: 8962897--8962950 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
8962887 ATTAAATATA
8962897 TTTTTTAA--T
1 TTTTTTAACTT
8962906 TTTTTTAA-TT
1 TTTTTTAACTT
*
8962916 TTTTTTTACTT
1 TTTTTTAACTT
*
8962927 TTTTTTTACTT
1 TTTTTTAACTT
8962938 TTTTTTAACTT
1 TTTTTTAACTT
8962949 TT
1 TT
8962951 GTCATTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
9 8 0.20
10 8 0.20
11 25 0.61
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTAACTT
Found at i:8963212 original size:17 final size:16
Alignment explanation
Indices: 8963162--8963230 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 16
8963152 ATTAAATAAT
*
8963162 ATTTAAATTATTATAAA
1 ATTTAAAATATT-TAAA
8963179 ATTAATAACAA-ATTTAAA
1 ATT--TAA-AATATTTAAA
8963197 AGTTTAAAATATTTAAA
1 A-TTTAAAATATTTAAA
8963214 TATTTAAAAT-TTTAAA
1 -ATTTAAAATATTTAAA
8963230 A
1 A
8963231 ATAATTTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
15 1 0.02
16 8 0.18
17 21 0.47
18 6 0.13
19 8 0.18
20 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (16 bp):
ATTTAAAATATTTAAA
Found at i:8963213 original size:9 final size:9
Alignment explanation
Indices: 8963131--8963245 Score: 60
Period size: 9 Copynumber: 12.2 Consensus size: 9
8963121 AAAAATCATA
8963131 ATTTAAAAT
1 ATTTAAAAT
*
8963140 ATTATAAAACAA
1 ATT-T-AAA-AT
*
8963152 ATTAAATAAT
1 ATTTAA-AAT
*
8963162 ATTTAAATT
1 ATTTAAAAT
8963171 ATTATAAAAT
1 ATT-TAAAAT
*
8963181 -TAATAACAA-
1 AT-TTAA-AAT
8963190 ATTTAAAA-
1 ATTTAAAAT
*
8963198 GTTTAAAAT
1 ATTTAAAAT
8963207 ATTT-AAAT
1 ATTTAAAAT
8963215 ATTTAAAAT
1 ATTTAAAAT
8963224 -TTTAAAAAT
1 ATTT-AAAAT
8963233 AATTTTAAAAT
1 -A-TTTAAAAT
8963244 AT
1 AT
8963246 ATATTTAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 28
0.68 0.08 0.23
Matches are distributed among these distances:
8 20 0.24
9 28 0.34
10 18 0.22
11 9 0.11
12 7 0.09
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:8963259 original size:20 final size:20
Alignment explanation
Indices: 8963236--8963273 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8963226 TAAAAATAAT
8963236 TTTAAAATATATAT-TTAAAA
1 TTTAAAA-ATATATGTTAAAA
8963256 TTTAAAAATATATGTTAA
1 TTTAAAAATATATGTTAA
8963274 TGAAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTAAAAATATATGTTAAAA
Found at i:8963282 original size:32 final size:31
Alignment explanation
Indices: 8963210--8963288 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
8963200 TTAAAATATT
*
8963210 TAAATATTTAAAATTTTAAAAATAATTTTAAAA
1 TAAATATTTAAAA-TTTAAAAATAATGTT-AAA
*
8963243 TATATATTTAAAATTTAAAAATATATGTT-AA
1 TAAATATTTAAAATTTAAAAATA-ATGTTAAA
*
8963274 TGAAATATTTCAAAT
1 T-AAATATTTAAAAT
8963289 ATATAATTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 3 0.08
32 21 0.52
33 16 0.40
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (31 bp):
TAAATATTTAAAATTTAAAAATAATGTTAAA
Found at i:8964475 original size:35 final size:35
Alignment explanation
Indices: 8964411--8964477 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
8964401 GATTTAATAA
** * *
8964411 TTTAAAATTGAATAACTTAATGATTAATTTATATT
1 TTTAAAATTGAATAACAAAATAATAAATTTATATT
*
8964446 TTTAAAATTGAATGACAAAATAATAAATTTAT
1 TTTAAAATTGAATAACAAAATAATAAATTTAT
8964478 TAATAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (35 bp):
TTTAAAATTGAATAACAAAATAATAAATTTATATT
Found at i:8976621 original size:19 final size:20
Alignment explanation
Indices: 8976597--8976635 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8976587 GGTTAGTTTA
*
8976597 TAATTAATT-ATAATTAACT
1 TAATTAATTAACAATTAACT
8976616 TAATTAATTAACAATTAACT
1 TAATTAATTAACAATTAACT
8976636 AATATAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATTAATTAACAATTAACT
Found at i:8982106 original size:18 final size:19
Alignment explanation
Indices: 8982076--8982114 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
8982066 TATAAGATCG
8982076 AAATCTAAATTAAATT-AA
1 AAATCTAAATTAAATTGAA
8982094 AAAT-TAAATTTAAATTGAA
1 AAATCTAAA-TTAAATTGAA
8982113 AA
1 AA
8982115 CTTTAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATCTAAATTAAATTGAA
Found at i:8983207 original size:27 final size:29
Alignment explanation
Indices: 8983174--8983239 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
8983164 ATTTTTTAGA
* *
8983174 TATATATTTTTATAC-TTTATA-ATTTCTT
1 TATATATTTTAAGACATTTATATATTT-TT
8983202 T-TATATTTTAAGACATTTATATATTTTT
1 TATATATTTTAAGACATTTATATATTTTT
8983230 TATATATTTT
1 TATATATTTT
8983240 CTTTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 11 0.33
28 10 0.30
29 12 0.36
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (29 bp):
TATATATTTTAAGACATTTATATATTTTT
Found at i:8983207 original size:29 final size:28
Alignment explanation
Indices: 8983174--8983239 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
8983164 ATTTTTTAGA
* *
8983174 TATATATTTTTATAC-TTTATA-ATTTCT
1 TATATATTTTAAGACATTTATATATTT-T
*
8983201 TTTATATTTTAAGACATTTATATATTTTT
1 TATATATTTTAAGACATTTATATA-TTTT
8983230 TATATATTTT
1 TATATATTTT
8983240 CTTTTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 12 0.38
28 6 0.19
29 11 0.34
30 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (28 bp):
TATATATTTTAAGACATTTATATATTTT
Found at i:8983317 original size:13 final size:13
Alignment explanation
Indices: 8983299--8983325 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8983289 GTCACGTGTC
8983299 ACAACCTAAGAGT
1 ACAACCTAAGAGT
8983312 ACAACCTAAGAGT
1 ACAACCTAAGAGT
8983325 A
1 A
8983326 TCATATGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (13 bp):
ACAACCTAAGAGT
Found at i:8984266 original size:16 final size:17
Alignment explanation
Indices: 8984235--8984269 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8984225 TTTAAGAATA
*
8984235 TTTAAATATTTTATATT
1 TTTAAATATATTATATT
8984252 TTTAAATA-ATTATATT
1 TTTAAATATATTATATT
8984268 TT
1 TT
8984270 AATTTTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAAATATATTATATT
Found at i:8984328 original size:39 final size:36
Alignment explanation
Indices: 8984285--8984367 Score: 89
Period size: 39 Copynumber: 2.2 Consensus size: 36
8984275 TCTGAACTCT
*
8984285 TATAATT-A-ATTTTAATTTAAAAATTAACTATTTTTATAA
1 TATAATTAATATTTTAAATT-AAAA--AACTA-TTTT-TAA
8984324 TATAATTTAATATTTTAAATTAAAAAACTATTTTTAA
1 TATAA-TTAATATTTTAAATTAAAAAACTATTTTTAA
8984361 TATAATT
1 TATAATT
8984368 TTAAAATGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
36 2 0.05
37 8 0.20
38 4 0.10
39 10 0.25
40 2 0.05
41 5 0.12
42 9 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (36 bp):
TATAATTAATATTTTAAATTAAAAAACTATTTTTAA
Found at i:8984545 original size:2 final size:2
Alignment explanation
Indices: 8984538--8984574 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8984528 GTCAACAACA
8984538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8984575 AACGTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8990274 original size:35 final size:35
Alignment explanation
Indices: 8990228--8990296 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
8990218 TTTATAGAAG
8990228 GGTTCTCATTGATTAGAGCACCATTGACTAAGTTA
1 GGTTCTCATTGATTAGAGCACCATTGACTAAGTTA
*
8990263 GGTTCTCATTGATTAGAGCACCGTTGACTAAGTT
1 GGTTCTCATTGATTAGAGCACCATTGACTAAGTT
8990297 GTTGCATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (35 bp):
GGTTCTCATTGATTAGAGCACCATTGACTAAGTTA
Found at i:8994996 original size:18 final size:19
Alignment explanation
Indices: 8994961--8994998 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8994951 TAATGTGCTC
*
8994961 TAAATTACATATATATAAA
1 TAAATAACATATATATAAA
8994980 TAAATAACATA-ATATAAA
1 TAAATAACATATATATAAA
8994998 T
1 T
8994999 TATTATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATAACATATATATAAA
Found at i:8999140 original size:21 final size:21
Alignment explanation
Indices: 8999114--8999154 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8999104 AGACGAGCGA
* *
8999114 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8999135 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8999155 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9003230 original size:2 final size:2
Alignment explanation
Indices: 9003211--9003250 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
9003201 TTAACCAAAT
*
9003211 TA TA TCA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9003251 TAATAAAGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9006799 original size:18 final size:19
Alignment explanation
Indices: 9006776--9006811 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9006766 TTTAAGAATA
*
9006776 TTTAAAT-ATTTTATTTTT
1 TTTAAATAATTATATTTTT
9006794 TTTAAATAATTATATTTT
1 TTTAAATAATTATATTTT
9006812 AATTTTCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTAAATAATTATATTTTT
Found at i:9011141 original size:12 final size:11
Alignment explanation
Indices: 9011124--9011156 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
9011114 AAGTAAATAT
9011124 AATATTATTTTA
1 AATA-TATTTTA
9011136 AATAT-TTTTA
1 AATATATTTTA
9011146 AATATATTTTA
1 AATATATTTTA
9011157 TAATTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATATATTTTA
Found at i:9011328 original size:13 final size:13
Alignment explanation
Indices: 9011310--9011336 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9011300 CCAGACTCTC
9011310 ATTACTAAATTAA
1 ATTACTAAATTAA
9011323 ATTACTAAATTAA
1 ATTACTAAATTAA
9011336 A
1 A
9011337 GGCAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTACTAAATTAA
Found at i:9012887 original size:11 final size:11
Alignment explanation
Indices: 9012873--9012899 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9012863 AATATTAAAA
9012873 ATATATAGAAC
1 ATATATAGAAC
9012884 ATATATAGAAC
1 ATATATAGAAC
9012895 ATATA
1 ATATA
9012900 CAATACATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:9013012 original size:23 final size:23
Alignment explanation
Indices: 9012986--9013102 Score: 91
Period size: 23 Copynumber: 5.2 Consensus size: 23
9012976 ATATATATAT
**
9012986 ATATATAAATAATAGTATTATCA
1 ATATATAAATAATAGTATTAGAA
* *
9013009 ATATA-CAATACTA-TATTAGAA
1 ATATATAAATAATAGTATTAGAA
* * * *
9013030 ATATACATATAACAGTATAAGAA
1 ATATATAAATAATAGTATTAGAA
* *
9013053 ATATATAACTAATAATATTA-AA
1 ATATATAAATAATAGTATTAGAA
9013075 ATATATATAATAATA-TATATA-AA
1 ATATATA-AATAATAGTAT-TAGAA
9013098 ATATA
1 ATATA
9013103 ATATTAAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
21 11 0.15
22 22 0.30
23 41 0.55
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.35
Consensus pattern (23 bp):
ATATATAAATAATAGTATTAGAA
Found at i:9013106 original size:12 final size:12
Alignment explanation
Indices: 9013063--9013111 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
9013053 ATATATAACT
9013063 AATA-ATATTAA
1 AATATATATTAA
9013074 AATATATA-TAA
1 AATATATATTAA
9013085 TAATATATA-TAA
1 -AATATATATTAA
9013097 AATATAATATTAA
1 AATAT-ATATTAA
9013110 AA
1 AA
9013112 ATTTATTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.35
12 17 0.50
13 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATTAA
Found at i:9013113 original size:14 final size:11
Alignment explanation
Indices: 9013053--9013102 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
9013043 AGTATAAGAA
9013053 ATATATAACTAAT
1 ATATATAA--AAT
9013066 A-ATATTAAAAT
1 ATATA-TAAAAT
9013077 ATATATAATAAT
1 ATATATAA-AAT
9013089 ATATATAAAAT
1 ATATATAAAAT
9013100 ATA
1 ATA
9013103 ATATTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
11 13 0.38
12 17 0.50
13 4 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATATAAAAT
Found at i:9013175 original size:24 final size:24
Alignment explanation
Indices: 9013097--9013175 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 24
9013087 ATATATATAA
*
9013097 AATATAATATTAAAAATTTATTTACAT
1 AATATAATATT-AAAA--CATTTACAT
* * *
9013124 AACAT-ATATGAAAAACA--TATAT
1 AATATAATAT-TAAAACATTTACAT
9013146 AATATAATATTAAAACATTTACAT
1 AATATAATATTAAAACATTTACAT
9013170 AATATA
1 AATATA
9013176 CACATATGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
22 14 0.34
23 4 0.10
24 11 0.27
26 8 0.20
27 4 0.10
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (24 bp):
AATATAATATTAAAACATTTACAT
Found at i:9013369 original size:3 final size:3
Alignment explanation
Indices: 9013361--9013447 Score: 147
Period size: 3 Copynumber: 29.0 Consensus size: 3
9013351 ATGTACTACG
9013361 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** *
9013409 ATA ATA ATA ATA ATA ATA ATA ATA AGG ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9013448 TTGATATATA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9013507 original size:22 final size:22
Alignment explanation
Indices: 9013472--9013515 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9013462 CAAATATAGC
*
9013472 ATTAAAACATTAAAATA-AAATA
1 ATTAAAACACT-AAATACAAATA
*
9013494 ATTAAAAGACTAAATACAAATA
1 ATTAAAACACTAAATACAAATA
9013516 CATACATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (22 bp):
ATTAAAACACTAAATACAAATA
Found at i:9014678 original size:20 final size:21
Alignment explanation
Indices: 9014647--9014699 Score: 90
Period size: 20 Copynumber: 2.5 Consensus size: 21
9014637 TGTCAAACGC
9014647 TTGGGGGCGTGGTGGCCAAGG
1 TTGGGGGCGTGGTGGCCAAGG
9014668 TTGGGGG-GTGGTGGCCAAGG
1 TTGGGGGCGTGGTGGCCAAGG
9014688 TTGAGGGGCGTG
1 TTG-GGGGCGTG
9014700 CTGCGGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.53
21 11 0.37
22 3 0.10
ACGTcount: A:0.09, C:0.11, G:0.58, T:0.21
Consensus pattern (21 bp):
TTGGGGGCGTGGTGGCCAAGG
Found at i:9015619 original size:22 final size:22
Alignment explanation
Indices: 9015565--9015606 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9015555 TATTTAAATT
*
9015565 TAAA-TATATA-AGTATTAATA
1 TAAATTATATATATTATTAATA
9015585 TAAATTATATATATTATTAATA
1 TAAATTATATATATTATTAATA
9015607 AATATTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAATTATATATATTATTAATA
Found at i:9017192 original size:29 final size:29
Alignment explanation
Indices: 9017150--9017205 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
9017140 AAATAGAAGA
9017150 TATTTTTTTATTTAGTTTTATT-ATTTATT
1 TATTTTTTTATTTA-TTTTATTAATTTATT
9017179 TATTTTTATT-TTTATTTTATTAATTTA
1 TATTTTT-TTATTTATTTTATTAATTTA
9017206 GAATAGGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 7 0.28
29 16 0.64
30 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (29 bp):
TATTTTTTTATTTATTTTATTAATTTATT
Found at i:9017199 original size:17 final size:16
Alignment explanation
Indices: 9017154--9017195 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
9017144 AGAAGATATT
*
9017154 TTTTTATTTAGTTTTA
1 TTTTTATTTATTTTTA
9017170 TTATTTATTTATTTTTA
1 TT-TTTATTTATTTTTA
9017187 TTTTTATTT
1 TTTTTATTT
9017196 TATTAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTATTTATTTTTA
Found at i:9020346 original size:2 final size:2
Alignment explanation
Indices: 9020339--9020374 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9020329 TTTGTCTTAC
9020339 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
9020375 TTTTCTTTAA
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:9024064 original size:24 final size:24
Alignment explanation
Indices: 9024005--9024056 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
9023995 CTTGATTCAT
* * *
9024005 AGCTCCAGCAGCTGCTACATATTC
1 AGCTCTAGTAGCTACTACATATTC
*
9024029 AGCTCTAGTAGCTACTATATATTC
1 AGCTCTAGTAGCTACTACATATTC
9024053 AGCT
1 AGCT
9024057 TCATTAGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (24 bp):
AGCTCTAGTAGCTACTACATATTC
Found at i:9024069 original size:24 final size:24
Alignment explanation
Indices: 9024023--9024069 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9024013 CAGCTGCTAC
*
9024023 ATATTCAGCTCTAGTAGCTACTAT
1 ATATTCAGCTCTAGTAGCAACTAT
*
9024047 ATATTCAGCT-TCATTAGCAACTA
1 ATATTCAGCTCT-AGTAGCAACTA
9024070 CATTTTGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (24 bp):
ATATTCAGCTCTAGTAGCAACTAT
Found at i:9029513 original size:2 final size:2
Alignment explanation
Indices: 9029506--9029541 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9029496 AGAAATTATG
9029506 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
9029542 TAGTAGATAT
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:9030370 original size:16 final size:16
Alignment explanation
Indices: 9030332--9030386 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
9030322 TTATATTAAA
9030332 AAAT-TTAATATAAAAT
1 AAATATTAA-ATAAAAT
* *
9030348 AAGTATTAAATATAAT
1 AAATATTAAATAAAAT
9030364 AAATATTAAATAAAAT
1 AAATATTAAATAAAAT
*
9030380 ATATATT
1 AAATATT
9030387 TTATTAAGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 29 0.88
17 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAATATTAAATAAAAT
Found at i:9034160 original size:43 final size:43
Alignment explanation
Indices: 9034090--9034201 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
9034080 TTATAAGCGG
* * *
9034090 CGCTTTTTCCACAAACGCTGCTAAAAGATCAGGACCTTTAGCAA
1 CGCTTTTCCCACAAACGCCGCT-AAAGATCAAGACCTTTAGCAA
*
9034134 CGCTTTTCCCACAAACGCCGCTAAAGATCAAGACCTTTAGCAG
1 CGCTTTTCCCACAAACGCCGCTAAAGATCAAGACCTTTAGCAA
** *
9034177 CGCTTTTCTGAAAAACGCCGCTAAA
1 CGCTTTTCCCACAAACGCCGCTAAA
9034202 AATTATTACC
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
43 41 0.67
44 20 0.33
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
CGCTTTTCCCACAAACGCCGCTAAAGATCAAGACCTTTAGCAA
Found at i:9035673 original size:15 final size:16
Alignment explanation
Indices: 9035647--9035679 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9035637 TCTCTCTTGC
9035647 TTTTAGATCATATATA
1 TTTTAGATCATATATA
9035663 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
9035678 TT
1 TT
9035680 AAAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:9038790 original size:25 final size:25
Alignment explanation
Indices: 9038761--9038884 Score: 156
Period size: 25 Copynumber: 5.3 Consensus size: 25
9038751 TTTAGGGCGC
9038761 GCGATGGAGATGAGAAGAAGAGGGA
1 GCGATGGAGATGAGAAGAAGAGGGA
9038786 GCGATGGAGATGAGAAGAAGAGGGA
1 GCGATGGAGATGAGAAGAAGAGGGA
* *
9038811 --G-T-AAGATAAGAAGAAGAGGGA
1 GCGATGGAGATGAGAAGAAGAGGGA
9038832 GCGATGGAGATGAGAAGAAGAGGGA
1 GCGATGGAGATGAGAAGAAGAGGGA
* *
9038857 --G-T-AAGATAAGAAGAAGAGGGA
1 GCGATGGAGATGAGAAGAAGAGGGA
9038878 GCGATGG
1 GCGATGG
9038885 GTAACGAGCG
Statistics
Matches: 84, Mismatches: 7, Indels: 16
0.79 0.07 0.15
Matches are distributed among these distances:
21 34 0.40
22 2 0.02
23 4 0.05
24 2 0.02
25 42 0.50
ACGTcount: A:0.43, C:0.03, G:0.45, T:0.09
Consensus pattern (25 bp):
GCGATGGAGATGAGAAGAAGAGGGA
Found at i:9038822 original size:21 final size:21
Alignment explanation
Indices: 9038793--9038878 Score: 109
Period size: 21 Copynumber: 3.9 Consensus size: 21
9038783 GGAGCGATGG
*
9038793 AGATGAGAAGAAGAGGGAGTA
1 AGATAAGAAGAAGAGGGAGTA
*
9038814 AGATAAGAAGAAGAGGGAGCGATGG
1 AGATAAGAAGAAGAGGGA--G-T-A
*
9038839 AGATGAGAAGAAGAGGGAGTA
1 AGATAAGAAGAAGAGGGAGTA
9038860 AGATAAGAAGAAGAGGGAG
1 AGATAAGAAGAAGAGGGAG
9038879 CGATGGGTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
21 35 0.62
22 1 0.02
23 2 0.04
24 1 0.02
25 17 0.30
ACGTcount: A:0.48, C:0.01, G:0.43, T:0.08
Consensus pattern (21 bp):
AGATAAGAAGAAGAGGGAGTA
Found at i:9038839 original size:46 final size:46
Alignment explanation
Indices: 9038768--9038884 Score: 225
Period size: 46 Copynumber: 2.5 Consensus size: 46
9038758 CGCGCGATGG
*
9038768 AGATGAGAAGAAGAGGGAGCGATGGAGATGAGAAGAAGAGGGAGTA
1 AGATAAGAAGAAGAGGGAGCGATGGAGATGAGAAGAAGAGGGAGTA
9038814 AGATAAGAAGAAGAGGGAGCGATGGAGATGAGAAGAAGAGGGAGTA
1 AGATAAGAAGAAGAGGGAGCGATGGAGATGAGAAGAAGAGGGAGTA
9038860 AGATAAGAAGAAGAGGGAGCGATGG
1 AGATAAGAAGAAGAGGGAGCGATGG
9038885 GTAACGAGCG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.44, T:0.09
Consensus pattern (46 bp):
AGATAAGAAGAAGAGGGAGCGATGGAGATGAGAAGAAGAGGGAGTA
Found at i:9039043 original size:18 final size:20
Alignment explanation
Indices: 9039011--9039056 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
9039001 TATTACTTAA
9039011 TTTTAA-AT-TTTTTTTA-T
1 TTTTAATATATTTTTTTACT
9039028 TTTTAATATATTTTTTTACT
1 TTTTAATATATTTTTTTACT
9039048 TTTTAATAT
1 TTTTAATAT
9039057 GAAATATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.23
18 2 0.08
19 8 0.31
20 10 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTAATATATTTTTTTACT
Found at i:9039120 original size:15 final size:15
Alignment explanation
Indices: 9039101--9039134 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9039091 TAAGTTCGTT
*
9039101 ATTTTTT-ATTTTTA
1 ATTTTTTAATTTTAA
9039115 ATTTTTTAATTTTAA
1 ATTTTTTAATTTTAA
9039130 ATTTT
1 ATTTT
9039135 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTTAATTTTAA
Found at i:9051809 original size:104 final size:104
Alignment explanation
Indices: 9051625--9051894 Score: 351
Period size: 104 Copynumber: 2.6 Consensus size: 104
9051615 ATACAGGTAA
* * * * *
9051625 GGACATGGGCGTATGCCCAGACCGTGTGAGCCATACGAGCAAGGACATGGGCTTGTGTCCAGCCC
1 GGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCATGTGTCCAGCCC
* * **
9051690 GTATAACTCATTGTTTACGCTTTAAAACCACATGGCCAG
66 GTATAACTCAATGTTTACACTTTAAAACCACACAGCCAG
* * * * *
9051729 GGACATGGGCGTGTGCCCAGGCCATGTGAGTCACACGGGCAAGGACATAGGCATGTGTCTAGGCC
1 GGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCATGTGTCCAGCCC
* * *
9051794 GTGTAACTCAATGTTTACATTTTAGAACCACACAGCCAG
66 GTATAACTCAATGTTTACACTTTAAAACCACACAGCCAG
* * * *
9051833 GGACATGGGTGTGTGCCCAGGCCGTGCGAGCCACACGGGCAAGGACATGGGCGTGTGCCCAG
1 GGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCATGTGTCCAG
9051895 GCAGTGTGAG
Statistics
Matches: 141, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 141 1.00
ACGTcount: A:0.24, C:0.26, G:0.31, T:0.20
Consensus pattern (104 bp):
GGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCATGTGTCCAGCCC
GTATAACTCAATGTTTACACTTTAAAACCACACAGCCAG
Found at i:9051880 original size:42 final size:42
Alignment explanation
Indices: 9051833--9051931 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
9051823 ACACAGCCAG
* * *
9051833 GGACATGGGTGTGTGCCCAGGCCGTGCGAGCCACACGGGCAA
1 GGACATGGGCGTGTGCCCAGGCAGTGCGAGCCACACGAGCAA
*
9051875 GGACATGGGCGTGTGCCCAGGCAGTGTGAGCCACACGAGCAA
1 GGACATGGGCGTGTGCCCAGGCAGTGCGAGCCACACGAGCAA
*
9051917 GGACATGGGCATGTG
1 GGACATGGGCGTGTG
9051932 TCCAAGCTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.21, C:0.25, G:0.40, T:0.13
Consensus pattern (42 bp):
GGACATGGGCGTGTGCCCAGGCAGTGCGAGCCACACGAGCAA
Found at i:9054048 original size:18 final size:18
Alignment explanation
Indices: 9054022--9054065 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9054012 CCGTGTGGTA
9054022 GGCCATGTGCAAGAACAT
1 GGCCATGTGCAAGAACAT
* *
9054040 GGCCGTGTGCGAGAACAT
1 GGCCATGTGCAAGAACAT
9054058 GGCCATGT
1 GGCCATGT
9054066 AGTCGGCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.34, T:0.18
Consensus pattern (18 bp):
GGCCATGTGCAAGAACAT
Done.