Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 45 of 328
Found at i:13046253 original size:46 final size:46
Alignment explanation
Indices: 13046181--13046268 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
13046171 AAATAGTTGA
**
13046181 GTGACCATTTTGTAACATTTCATAGTTGGGTGACCAAAAAAGTTAG
1 GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAGTTAG
* *
13046227 GTGATCATTTTGTAACATTTCATAGTTGAATGACTAAAAAAG
1 GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAG
13046269 AAATTTACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (46 bp):
GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAGTTAG
Found at i:13051247 original size:14 final size:14
Alignment explanation
Indices: 13051211--13051249 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
13051201 TTCTTTCACT
*
13051211 GAAAATGACTTCCA
1 GAAAATGATTTCCA
*
13051225 GAAAATGATTTCTA
1 GAAAATGATTTCCA
13051239 GAAAATGATTT
1 GAAAATGATTT
13051250 ATATTTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:13051736 original size:15 final size:15
Alignment explanation
Indices: 13051716--13051767 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
13051706 ACTACAAAAC
13051716 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
13051731 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
13051750 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
13051765 ATT
1 ATT
13051768 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:13051831 original size:16 final size:16
Alignment explanation
Indices: 13051800--13051836 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
13051790 ATGTGAATAA
13051800 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
13051816 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
13051832 TATTA
1 TATTA
13051837 AAATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:13054553 original size:71 final size:71
Alignment explanation
Indices: 13054465--13054606 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
13054455 TTTGCAGTAC
13054465 CATAGAATTGAATATATGCAACATGAACTTGTATTAGCAGCAAAAGATTCCGGCATCTTCGTATA
1 CATAGAATTGAATATATGCAACATGAACTTGTATTAGCAGCAAAAGATTCCGGCATCTTCGTATA
13054530 TACCGT
66 TACCGT
13054536 CATAGAATTGAATATATGCAACATGAACTTGTATTAGCAGCAAAAGATTCCGGCATCTTCGTATA
1 CATAGAATTGAATATATGCAACATGAACTTGTATTAGCAGCAAAAGATTCCGGCATCTTCGTATA
13054601 TACCGT
66 TACCGT
13054607 TGAGACAGCC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (71 bp):
CATAGAATTGAATATATGCAACATGAACTTGTATTAGCAGCAAAAGATTCCGGCATCTTCGTATA
TACCGT
Found at i:13056884 original size:41 final size:41
Alignment explanation
Indices: 13056839--13056921 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
13056829 AATTCTTTTT
* * *
13056839 TGACTTCACCCCTAGAGGAGGCCAACCAGAACTTTGTGGAA
1 TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
* *
13056880 TGACTTCACCCCTAGAAGAGGCCTACGAAAACTTTGTAGAA
1 TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
13056921 T
1 T
13056922 TTCTCCAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
Found at i:13058082 original size:18 final size:19
Alignment explanation
Indices: 13058059--13058094 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13058049 TCATTAAAAT
13058059 TTAAATATG-TAATTTTTG
1 TTAAATATGATAATTTTTG
*
13058077 TTAAATTTGATAATTTTT
1 TTAAATATGATAATTTTT
13058095 AATTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTAAATATGATAATTTTTG
Found at i:13058761 original size:12 final size:12
Alignment explanation
Indices: 13058744--13058781 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
13058734 CCGCCTGTAT
13058744 TAATTTTTTATA
1 TAATTTTTTATA
13058756 TAATTTTTTATA
1 TAATTTTTTATA
*
13058768 TAATTTTATATA
1 TAATTTTTTATA
13058780 TA
1 TA
13058782 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:13058824 original size:8 final size:9
Alignment explanation
Indices: 13058787--13058822 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
13058777 ATATATATAT
*
13058787 ATATAAAAA
1 ATATTAAAA
13058796 ATATTAAAA
1 ATATTAAAA
13058805 ATATTAAAA
1 ATATTAAAA
13058814 ATATTAAAA
1 ATATTAAAA
13058823 TAAATATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATATTAAAA
Found at i:13059951 original size:6 final size:6
Alignment explanation
Indices: 13059942--13059988 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
13059932 GTGGTGGTGG
* * *
13059942 AAGAAA AAGAACA AA-AAG AAGAAA AAGAAA ATGAAA AAGAAG AAGAA
1 AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAA
13059989 GAAGCACATC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
5 2 0.06
6 29 0.85
7 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:13059984 original size:24 final size:24
Alignment explanation
Indices: 13059942--13059988 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13059932 GTGGTGGTGG
13059942 AAGAAAAAGAACAAAAAGAAGAAA
1 AAGAAAAAGAACAAAAAGAAGAAA
*
13059966 AAGAAAATGAA-AAAGAAGAAGAA
1 AAGAAAAAGAACAAA-AAGAAGAA
13059989 GAAGCACATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (24 bp):
AAGAAAAAGAACAAAAAGAAGAAA
Found at i:13059992 original size:9 final size:9
Alignment explanation
Indices: 13059941--13059992 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
13059931 GGTGGTGGTG
13059941 GAAGAAAAA
1 GAAGAAAAA
*
13059950 GAACAAAAA
1 GAAGAAAAA
13059959 GAAGAAAAA
1 GAAGAAAAA
13059968 GAAAATGAAAAA
1 G--AA-GAAAAA
*
13059980 GAAGAAGAA
1 GAAGAAAAA
13059989 GAAG
1 GAAG
13059993 CACATCCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 26 0.70
10 2 0.05
11 2 0.05
12 7 0.19
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (9 bp):
GAAGAAAAA
Found at i:13069956 original size:17 final size:17
Alignment explanation
Indices: 13069903--13069957 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 17
13069893 AATTTATTTA
*
13069903 AATCACAATATTAAAAT
1 AATCACAAAATTAAAAT
*
13069920 AATCAAAAAGTTATTTAAAAT
1 AATCACAAA---A-TTAAAAT
13069941 AATCACAAAATTAAAAT
1 AATCACAAAATTAAAAT
13069958 TAAAAAGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 14 0.45
18 1 0.03
20 1 0.03
21 15 0.48
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (17 bp):
AATCACAAAATTAAAAT
Found at i:13069969 original size:38 final size:39
Alignment explanation
Indices: 13069903--13069979 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
13069893 AATTTATTTA
*
13069903 AATCACAATATTAAAATAATCAAAAAGTTA-TTT-AAAAT
1 AATCACAAAATTAAAATAA-CAAAAAGTTACTTTGAAAAT
13069941 AATCACAAAATTAAAATTAA-AAAGAAGTTACTTTGAAAA
1 AATCACAAAATTAAAA-TAACAAA-AAGTTACTTTGAAAA
13069980 CTTATTACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 3 0.09
38 21 0.62
39 6 0.18
40 4 0.12
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (39 bp):
AATCACAAAATTAAAATAACAAAAAGTTACTTTGAAAAT
Found at i:13071221 original size:6 final size:6
Alignment explanation
Indices: 13071199--13071239 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
13071189 TTCCGAAAGA
13071199 TTTCAT TTCTCCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
13071240 GGAAAAAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 26 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:13071257 original size:21 final size:21
Alignment explanation
Indices: 13071233--13071280 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
13071223 ATTTTCATTT
13071233 TCATTTTGGA-AAAAGTCATAA
1 TCATTTTGGAGAAAA-TCATAA
13071254 TCATTTTGGAGAAAATCATAA
1 TCATTTTGGAGAAAATCATAA
13071275 TCATTT
1 TCATTT
13071281 CCAAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
TCATTTTGGAGAAAATCATAA
Found at i:13073875 original size:85 final size:85
Alignment explanation
Indices: 13073740--13073899 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 85
13073730 TTCACCATAA
* * * * **
13073740 GTAAGATAATGTTAGAGATCATGTTAGAATCCAATTTTGGATGATCCTATGACATACCGACAACA
1 GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTTTAAATGATCCTATGACATACCGACAACA
13073805 ACACAAGTATTTCAAAATAC
66 ACACAAGTATTTCAAAATAC
* * *
13073825 GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTTTAAATGATTCTATGACGTACCTACAACA
1 GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTTTAAATGATCCTATGACATACCGACAACA
*
13073890 ACATAAGTAT
66 ACACAAGTAT
13073900 GTGTAGCGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (85 bp):
GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTTTAAATGATCCTATGACATACCGACAACA
ACACAAGTATTTCAAAATAC
Found at i:13077719 original size:46 final size:46
Alignment explanation
Indices: 13077667--13078024 Score: 500
Period size: 46 Copynumber: 8.0 Consensus size: 46
13077657 AGTGTGCTCT
13077667 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13077713 CTGATATGAAGTGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
13077759 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
13077805 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
13077843 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13077889 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
13077935 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATGCCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
13077981 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
13078025 TCACGTCAAA
Statistics
Matches: 282, Mismatches: 21, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
38 36 0.13
41 2 0.01
43 2 0.01
45 1 0.00
46 241 0.85
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13077911 original size:130 final size:131
Alignment explanation
Indices: 13077677--13078024 Score: 502
Period size: 130 Copynumber: 2.6 Consensus size: 131
13077667 CTGATATGAA
*
13077677 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAGTGTGTAAGACCATAGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATAGTTG
13077742 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
66 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
13077807 G
131 G
*
13077808 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATAGTTG
* **
13077872 AAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGT
66 AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
13077937 G
131 G
* * * * *
13077938 ACATGAAAAGAATAAGACCATGGTTGAAAGATGCCATGGCAACATGACA-GAAAATGAGTAAGAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGAC
* *
13078002 CATAGTTGAAAGACACTATGGCA
58 CATAGTTGAAAGATACCATGGCA
13078025 TCACGTCAAA
Statistics
Matches: 195, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
130 125 0.64
133 2 0.01
136 1 0.01
137 1 0.01
138 66 0.34
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (131 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATAGTTG
AAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
G
Found at i:13078330 original size:23 final size:25
Alignment explanation
Indices: 13078285--13078331 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13078275 AATAAATATA
*
13078285 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
13078310 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
13078332 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:13084113 original size:8 final size:8
Alignment explanation
Indices: 13084102--13084135 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
13084092 GTTAAAATGT
13084102 AAAAAAAG
1 AAAAAAAG
13084110 AAAAAAAG
1 AAAAAAAG
*
13084118 AAAAGAAG
1 AAAAAAAG
13084126 AAAAAAAG
1 AAAAAAAG
13084134 AA
1 AA
13084136 GTGAGCCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13088127 original size:31 final size:31
Alignment explanation
Indices: 13088092--13088153 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
13088082 AAAAAAACTT
*
13088092 AATAGCTCT-GTGACTTAAATGAAAAGTTTTA
1 AATAG-TCTAGTGACTTAAATGAAAACTTTTA
* *
13088123 AATAGTTTAGTGATTTAAATGAAAACTTTTA
1 AATAGTCTAGTGACTTAAATGAAAACTTTTA
13088154 GTAATCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (31 bp):
AATAGTCTAGTGACTTAAATGAAAACTTTTA
Found at i:13090499 original size:6 final size:6
Alignment explanation
Indices: 13090488--13090528 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
13090478 ATTCTAAATT
*
13090488 AATAAA AATAAA AAT--A AATAAA AATAAA TAATAAA ACTAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA -AATAAA AATAAA
13090529 TAAAACAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
4 4 0.13
6 21 0.68
7 6 0.19
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:13090502 original size:16 final size:16
Alignment explanation
Indices: 13090483--13090522 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
13090473 AGCCTATTCT
*
13090483 AAATTAATAAAAATAA
1 AAATAAATAAAAATAA
13090499 AAATAAATAAAAATAA
1 AAATAAATAAAAATAA
13090515 ATAATAAA
1 A-AATAAA
13090523 ACTAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAATAAAAATAA
Found at i:13090528 original size:23 final size:23
Alignment explanation
Indices: 13090488--13090543 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
13090478 ATTCTAAATT
13090488 AATAAA-AATAAAAATAAATAAA
1 AATAAATAATAAAAATAAATAAA
*
13090510 AATAAATAATAAAACTAAATAAA
1 AATAAATAATAAAAATAAATAAA
13090533 ACA-AAATAATA
1 A-ATAAATAATA
13090544 TCTTCTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 6 0.19
23 24 0.77
24 1 0.03
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
AATAAATAATAAAAATAAATAAA
Found at i:13090534 original size:10 final size:10
Alignment explanation
Indices: 13090493--13090533 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
13090483 AAATTAATAA
13090493 AAATAAAAAT
1 AAATAAAAAT
13090503 AAATAAAAAT
1 AAATAAAAAT
13090513 AAATAATAAAACT
1 AAAT-A-AAAA-T
13090526 AAATAAAA
1 AAATAAAA
13090534 CAAAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 14 0.50
11 4 0.14
12 5 0.18
13 5 0.18
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:13091952 original size:14 final size:15
Alignment explanation
Indices: 13091932--13092002 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
13091922 TAATATTAAA
13091932 AAATATTTCAAT-AT
1 AAATATTTCAATAAT
* *
13091946 TAATATTTTAATAAT
1 AAATATTTCAATAAT
*
13091961 AAATATTTATTACAATTAT
1 AAATA--T-TT-CAATAAT
*
13091980 AAATATATCAATAAT
1 AAATATTTCAATAAT
*
13091995 AATTATTT
1 AAATATTT
13092003 TGTAGTATAA
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
14 10 0.23
15 18 0.42
16 1 0.02
17 2 0.05
18 2 0.05
19 10 0.23
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATATTTCAATAAT
Found at i:13092942 original size:16 final size:16
Alignment explanation
Indices: 13092928--13092959 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
13092918 ATAATATTTT
13092928 ATAATAAATATATTTAA
1 ATAA-AAATATATTTAA
13092945 ATAAAAATATATTTA
1 ATAAAAATATATTTA
13092960 TGTTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAAAATATATTTAA
Found at i:13093647 original size:24 final size:26
Alignment explanation
Indices: 13093603--13093652 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
13093593 ATCTCAAGTA
13093603 TCTTTTTTTTTCCTTCGATTT-TTGTC
1 TCTTTTTTTTT-CTTCGATTTATTGTC
13093629 TCTTTTTTTTT-TT-GAATTTATTGT
1 TCTTTTTTTTTCTTCG-ATTTATTGT
13093653 TTCTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
23 1 0.05
24 6 0.27
25 4 0.18
26 11 0.50
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (26 bp):
TCTTTTTTTTTCTTCGATTTATTGTC
Found at i:13110780 original size:45 final size:46
Alignment explanation
Indices: 13110693--13110787 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 46
13110683 TTTCACGTAC
*
13110693 CTATTAGCTTCCAAAATAACAACTTTTAACTTTTAACATTTTTATG
1 CTATTAGCTTCCAAAATAACAACTTTTAACTTTTAACATTTTTACG
* * *
13110739 CTATTAGCTTCTATAATAACAA-TTTTAACTTTTAACTTTTTTACG
1 CTATTAGCTTCCAAAATAACAACTTTTAACTTTTAACATTTTTACG
13110784 CTAT
1 CTAT
13110788 GTTAATTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 25 0.56
46 20 0.44
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (46 bp):
CTATTAGCTTCCAAAATAACAACTTTTAACTTTTAACATTTTTACG
Found at i:13130566 original size:188 final size:189
Alignment explanation
Indices: 13130248--13130652 Score: 496
Period size: 188 Copynumber: 2.1 Consensus size: 189
13130238 AGAAACTATG
* * * * *
13130248 AAAACAGTCACTATTTCGATCTTTTCTTTCCACTTTCTCAAATCCAGTGGAGAGAAAATAAAATC
1 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAG-GCAGAGAAAAGAAAATA
* *
13130313 ATCAACTAAATACCGATCTAAAAAGTTCAAAACACAGATAAAATCCATAGCCACAACACAAAATT
65 ATCAACCAAATACCGATCTAAAAAGTTCAAAACACAAATAAAATCCATAGCCACAACACAAAATT
* ** * * *
13130378 -C-AAAAACCTCGGTAAGAAGTGATACTATAT-AGATATATATACATGCAAGCAGGATTA
130 ACAAAAAAACTCAATAACAAGTGATACTATATCAGATATATATACATACAAGAAGGATTA
*
13130435 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCGAATCCA-GCA-AGTAAATAGAAAAT
1 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAGGCAGAG-AAA-AGAAAAT
* * * *
13130498 AAAATCAACCAAATACCGATCTAAAGAGTTCAAAACGCAAATAAATTCCGTAGCCACAACACAAA
64 --AATCAACCAAATACCGATCTAAAAAGTTCAAAACACAAATAAAATCCATAGCCACAACACAAA
*
13130563 ATTCGAAAGCAAAAAAACTCAATAACAAGTGATACTATATCGATATATATATACATACAAGAAGG
127 ATT----A-CAAAAAAACTCAATAACAAGTGATACTATATC-AGATATATATACATACAAGAAGG
13130628 ATTA
186 ATTA
*
13130632 AAAACAGTCGCTATTTTGATA
1 AAAACAGTCGCTATTTCGATA
13130653 GAAAAAAAAT
Statistics
Matches: 185, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
184 2 0.01
185 5 0.03
186 6 0.03
187 43 0.23
188 59 0.32
194 1 0.01
195 25 0.14
197 44 0.24
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (189 bp):
AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAGGCAGAGAAAAGAAAATAA
TCAACCAAATACCGATCTAAAAAGTTCAAAACACAAATAAAATCCATAGCCACAACACAAAATTA
CAAAAAAACTCAATAACAAGTGATACTATATCAGATATATATACATACAAGAAGGATTA
Found at i:13134137 original size:10 final size:11
Alignment explanation
Indices: 13134110--13134136 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13134100 ACTGTTAGAC
13134110 AAAAAATAATT
1 AAAAAATAATT
13134121 AAAAAATAATT
1 AAAAAATAATT
13134132 AAAAA
1 AAAAA
13134137 TTCATAAAAA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAATAATT
Found at i:13141395 original size:31 final size:31
Alignment explanation
Indices: 13141338--13141400 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
13141328 TACCAGTGAT
** *
13141338 TTAAATAAAAAATTTTGAATAGTTTAATGAC
1 TTAAATAAAAAATTTCAAATAATTTAATGAC
13141369 TTAAAT-AAAAATTATCAAATAATTTAATGAC
1 TTAAATAAAAAATT-TCAAATAATTTAATGAC
13141400 T
1 T
13141401 GTTTCGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (31 bp):
TTAAATAAAAAATTTCAAATAATTTAATGAC
Found at i:13154303 original size:2 final size:2
Alignment explanation
Indices: 13154296--13154325 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13154286 TGTAACTATC
13154296 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
13154326 CTTGGATCAC
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):
AT
Found at i:13154381 original size:18 final size:18
Alignment explanation
Indices: 13154358--13154397 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
13154348 ATACAAAAAG
13154358 AATGCCCTTATAATCTTT
1 AATGCCCTTATAATCTTT
13154376 AATGCCCTTATAATCTTT
1 AATGCCCTTATAATCTTT
13154394 AATG
1 AATG
13154398 TCGTTGCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.42
Consensus pattern (18 bp):
AATGCCCTTATAATCTTT
Found at i:13154573 original size:31 final size:31
Alignment explanation
Indices: 13154538--13154613 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
13154528 AAATTGATGA
13154538 AAGAAATTAATTAATACAATACCAATACTTT
1 AAGAAATTAATTAATACAATACCAATACTTT
* *
13154569 AAGAAATTAATTAATACAATACCGATATTTT
1 AAGAAATTAATTAATACAATACCAATACTTT
*
13154600 TA-AAATTCAATTAA
1 AAGAAATT-AATTAA
13154614 AAAGAACTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 5 0.12
31 36 0.88
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (31 bp):
AAGAAATTAATTAATACAATACCAATACTTT
Found at i:13156708 original size:3 final size:3
Alignment explanation
Indices: 13156702--13156740 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13156692 TTCAAAGCAA
13156702 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13156741 TGAGTATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13156845 original size:26 final size:25
Alignment explanation
Indices: 13156816--13156871 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
13156806 TTTAACTTTT
* *
13156816 ATATATATATTTATAAT-TTTTTAAA
1 ATATATAAATTT-GAATATTTTTAAA
13156841 A-ATATAAAATTTGAATATTTTTAAA
1 ATATAT-AAATTTGAATATTTTTAAA
13156866 ATATAT
1 ATATAT
13156872 TGATTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 7 0.27
25 15 0.58
26 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
ATATATAAATTTGAATATTTTTAAA
Found at i:13156877 original size:17 final size:18
Alignment explanation
Indices: 13156857--13156899 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
13156847 AAATTTGAAT
13156857 ATTTTTAAAA-TATATTG
1 ATTTTTAAAATTATATTG
*
13156874 ATTTTTGAAAATTATTTTG
1 ATTTTT-AAAATTATATTG
13156893 ATTTTTA
1 ATTTTTA
13156900 TTTTTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTTAAAATTATATTG
Found at i:13157259 original size:16 final size:16
Alignment explanation
Indices: 13157238--13157269 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13157228 ATACTAATAC
13157238 CAACCGATTTAAGACT
1 CAACCGATTTAAGACT
13157254 CAACCGATTTAAGACT
1 CAACCGATTTAAGACT
13157270 TAATCGACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
CAACCGATTTAAGACT
Found at i:13157471 original size:20 final size:20
Alignment explanation
Indices: 13157448--13157495 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
13157438 TTTATATTTA
**
13157448 TTATAAATTATAAA-TATTAT
1 TTATAAATT-TAAATTAAAAT
*
13157468 TTATATATTTAAATTAAAAT
1 TTATAAATTTAAATTAAAAT
13157488 TTATAAAT
1 TTATAAAT
13157496 AATTTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATAAATTTAAATTAAAAT
Found at i:13157478 original size:31 final size:30
Alignment explanation
Indices: 13157440--13157518 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 30
13157430 GTCCCCTATT
13157440 TATATTT-ATTATAAA-TTATAAATATTATTTA
1 TATATTTAATTA-AAATTTATAAATA--ATTTA
13157471 TATATTTAAATTAAAATTTATAAATAATTTA
1 TATATTT-AATTAAAATTTATAAATAATTTA
*
13157502 TATTAATTAATTAAAAT
1 TA-TATTTAATTAAAAT
13157519 GCATTTAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
31 23 0.53
32 7 0.16
33 13 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TATATTTAATTAAAATTTATAAATAATTTA
Found at i:13158603 original size:31 final size:31
Alignment explanation
Indices: 13158542--13158608 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 31
13158532 AGCCTTAATA
13158542 TTTAAAATATAATTTATATATTCAAATTAAAT
1 TTTAAAATATAATTTATATATT-AAATTAAAT
*
13158574 TTTAAAA-ATAATTTATATTAATT-ATTTAAAT
1 TTTAAAATATAATTTATA-T-ATTAAATTAAAT
13158605 TTTA
1 TTTA
13158609 TATTTTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 21 0.66
32 8 0.25
33 3 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTAAAATATAATTTATATATTAAATTAAAT
Found at i:13160375 original size:31 final size:31
Alignment explanation
Indices: 13160340--13160399 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
13160330 AAAAAAATTT
*
13160340 AATAACGTAGTAACTTAAATAAAAACTTTCC
1 AATAACGTAATAACTTAAATAAAAACTTTCC
** *
13160371 AATAATTTAATAACTTAAATGAAAACTTT
1 AATAACGTAATAACTTAAATAAAAACTTT
13160400 TAAATAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (31 bp):
AATAACGTAATAACTTAAATAAAAACTTTCC
Found at i:13160406 original size:31 final size:31
Alignment explanation
Indices: 13160350--13160416 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
13160340 AATAACGTAG
* *
13160350 TAACTTAAATAAAAACTTTCCAATAATTTAA
1 TAACTTAAATAAAAACTTTCAAATAATTCAA
* *
13160381 TAACTTAAATGAAAACTTTTAAATAATTCAA
1 TAACTTAAATAAAAACTTTCAAATAATTCAA
13160412 TAACT
1 TAACT
13160417 ATTTCTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (31 bp):
TAACTTAAATAAAAACTTTCAAATAATTCAA
Found at i:13164124 original size:26 final size:26
Alignment explanation
Indices: 13164072--13164124 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13164062 TTATATTTAA
* * *
13164072 AATTTTAAAATATTTTATGCATCATT
1 AATTTTAAAATAATTTATGAATAATT
13164098 AATTTTACAAATAATTTAT-AATAATT
1 AATTTTA-AAATAATTTATGAATAATT
13164124 A
1 A
13164125 TTTATACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (26 bp):
AATTTTAAAATAATTTATGAATAATT
Found at i:13166474 original size:24 final size:21
Alignment explanation
Indices: 13166430--13166491 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
13166420 AGTATACATG
*
13166430 TAATAGTATATAAAAAATATAA
1 TAATAATAT-TAAAAAATATAA
13166452 CTAATAATATTAAAAAATGTATAA
1 -TAATAATATTAAAAAA--TATAA
*
13166476 AATATAATA-TAAAAAA
1 TA-ATAATATTAAAAAA
13166492 CTTATATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 7 0.21
23 16 0.47
24 11 0.32
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (21 bp):
TAATAATATTAAAAAATATAA
Found at i:13166703 original size:13 final size:14
Alignment explanation
Indices: 13166685--13166715 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
13166675 ATGTATGAAT
13166685 ATATACATATA-TA
1 ATATACATATATTA
13166698 ATATACATATATTA
1 ATATACATATATTA
13166712 ATAT
1 ATAT
13166716 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:13166781 original size:21 final size:21
Alignment explanation
Indices: 13166755--13166798 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
13166745 AATCATTAGT
13166755 AATAA-TAATAC--TAA-AAA
1 AATAATTAATACATTAACAAA
13166772 AATAATTAATACATTAACAAA
1 AATAATTAATACATTAACAAA
13166793 AATAAT
1 AATAAT
13166799 AGTAACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
20 3 0.13
21 9 0.39
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAATTAATACATTAACAAA
Found at i:13167322 original size:20 final size:19
Alignment explanation
Indices: 13167275--13167323 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
13167265 AAAAAGGGAA
*
13167275 GAGGAGGGAGAGAAAAGAAG
1 GAGG-GGGAAAGAAAAGAAG
*
13167295 GAGCGGGGAAAGAAAAGAGGG
1 GAG-GGGGAAAGAAAAGA-AG
13167316 GAGGGGGA
1 GAGGGGGA
13167324 GCTGGGGCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.55, T:0.00
Consensus pattern (19 bp):
GAGGGGGAAAGAAAAGAAG
Found at i:13168334 original size:71 final size:71
Alignment explanation
Indices: 13168229--13168360 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 71
13168219 ATTTAATAGG
* * *
13168229 AATTGAAATTACCTCAGCGTGCTCCGAGGTTCAACTCA-CTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAATTACCTCAACGTGCTCCGAGGCTCAACTCACCTT-TCGCAATATGAGCTGATTTTTG
13168293 AAACATA
65 AAACATA
*
13168300 AATTGAAATTACCTCAACGTG-TCTTGAGGCTCAACTCACCTTTCGCAATATGAGCTGATTT
1 AATTGAAATTACCTCAACGTGCTC-CGAGGCTCAACTCACCTTTCGCAATATGAGCTGATTT
13168361 CCTTGGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
70 2 0.04
71 50 0.91
72 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (71 bp):
AATTGAAATTACCTCAACGTGCTCCGAGGCTCAACTCACCTTTCGCAATATGAGCTGATTTTTGA
AACATA
Found at i:13168525 original size:160 final size:160
Alignment explanation
Indices: 13168229--13168932 Score: 1268
Period size: 160 Copynumber: 4.4 Consensus size: 160
13168219 ATTTAATAGG
* **
13168229 AATTGAAATTACCTCAGCGTGCTCC-GAGG-TTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTGGGCGTGC-CCTGAGGCTT-AACTCACTTCTCGCAATATGAGTTGATTTTT
* *
13168292 GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTTTCGCAATATGAGCTG
64 GAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCG
*
13168357 ATTTCCTTGGAAAACATGAATTAAAAAACAGA
129 ATTTCCTTGGAAAACATGAATTAAAAAGCAGA
*
13168389 AATTGACAATACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
13168454 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
13168519 TTCCTTGGAAAACATGAATTAAAAAGCAGA
131 TTCCTTGGAAAACATGAATTAAAAAGCAGA
*
13168549 AATTGAAATTACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGA
13168614 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
13168679 TTCCTTGGAAAACATGAATTAAAAAGCAGA
131 TTCCTTGGAAAACATGAATTAAAAAGCAGA
13168709 AATTGAAAATACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGA
13168774 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
*
13168839 TTCCTTGGAAAACATAAATTAAAAAGCAGA
131 TTCCTTGGAAAACATGAATTAAAAAGCAGA
* *
13168869 AATTGAAAATACCTGGGCGTGCCCTGAGGCTTAACTTATTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTG
13168933 GAGAAAACAA
Statistics
Matches: 529, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
159 2 0.00
160 525 0.99
161 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGAT
TTCCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:13168680 original size:71 final size:71
Alignment explanation
Indices: 13168548--13168680 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
13168538 TAAAAAGCAG
*** * * **
13168548 AAATTGAAATTACCTGGGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTTG
13168613 AAACAT
66 AAACAT
* *
13168619 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTT
1 AAATTGAAATTACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTT
13168681 CCTTGGAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (71 bp):
AAATTGAAATTACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCCGATTTTTG
AAACAT
Found at i:13181346 original size:24 final size:21
Alignment explanation
Indices: 13181302--13181363 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
13181292 AGTATACATG
*
13181302 TAATAGTATATAAAAAATATAA
1 TAATAATAT-TAAAAAATATAA
13181324 CTAATAATATTAAAAAATGTATAA
1 -TAATAATATTAAAAAA--TATAA
*
13181348 AATATAATA-TAAAAAA
1 TA-ATAATATTAAAAAA
13181364 CTTATATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 7 0.21
23 16 0.47
24 11 0.32
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (21 bp):
TAATAATATTAAAAAATATAA
Found at i:13181575 original size:13 final size:14
Alignment explanation
Indices: 13181557--13181587 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
13181547 ATGTATGAAT
13181557 ATATACATATA-TA
1 ATATACATATATTA
13181570 ATATACATATATTA
1 ATATACATATATTA
13181584 ATAT
1 ATAT
13181588 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:13190526 original size:31 final size:30
Alignment explanation
Indices: 13190491--13190560 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
13190481 AAGAAACAAT
*
13190491 AATTTAACT-CTTTTTAAAATGTTAATAGTCA
1 AATTTAACTCCTTTATAAAA-GTTAAT-GTCA
* * *
13190522 AATTTGACTCCTTTATAAAAGTTAGTGTTA
1 AATTTAACTCCTTTATAAAAGTTAATGTCA
13190552 AATTTAACT
1 AATTTAACT
13190561 TAAAAAAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 11 0.33
31 13 0.39
32 9 0.27
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (30 bp):
AATTTAACTCCTTTATAAAAGTTAATGTCA
Found at i:13207255 original size:17 final size:18
Alignment explanation
Indices: 13207218--13207257 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
13207208 ATTGCTTTAA
**
13207218 AAAATATTATGAAAATTT
1 AAAATATTATGAAAAACT
13207236 AAAATATT-TGAAAAACT
1 AAAATATTATGAAAAACT
13207253 AAAAT
1 AAAAT
13207258 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATATTATGAAAAACT
Found at i:13208301 original size:20 final size:20
Alignment explanation
Indices: 13208278--13208329 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
13208268 AAATACAAAT
*
13208278 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAAGA
13208298 TAAAAT-CATGAAATTCAAGA
1 TAAAATAC-TGAAATTCAAGA
13208318 TAAGAATACTGA
1 TAA-AATACTGA
13208330 TGTGGCATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 20 0.71
21 6 0.21
22 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAAGA
Found at i:13211700 original size:47 final size:47
Alignment explanation
Indices: 13211646--13211738 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
13211636 ATCTAACACT
*
13211646 AATATTCTTAAAAAAAAAAAAATCAATAGTGAATTTTTTTACTTTTC
1 AATATTCTCAAAAAAAAAAAAATCAATAGTGAATTTTTTTACTTTTC
13211693 AATATTCTCAAAAAAAAAAAAATCAATAGTGAATTTTTTTACTTTT
1 AATATTCTCAAAAAAAAAAAAATCAATAGTGAATTTTTTTACTTTT
13211739 TAAAATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (47 bp):
AATATTCTCAAAAAAAAAAAAATCAATAGTGAATTTTTTTACTTTTC
Found at i:13219851 original size:24 final size:24
Alignment explanation
Indices: 13219817--13219862 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
13219807 ATTACACATA
*
13219817 CCTGTATATTCTTCTTATCATCTT
1 CCTGTACATTCTTCTTATCATCTT
13219841 CCTGTACATTCTTCTTATCATC
1 CCTGTACATTCTTCTTATCATC
13219863 ATTTCCAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.28, G:0.04, T:0.50
Consensus pattern (24 bp):
CCTGTACATTCTTCTTATCATCTT
Found at i:13221244 original size:29 final size:29
Alignment explanation
Indices: 13221212--13221299 Score: 176
Period size: 29 Copynumber: 3.0 Consensus size: 29
13221202 TATGCTGATC
13221212 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
1 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
13221241 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
1 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
13221270 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
1 AGAATTGGGAAAGTTAAGAAAAAGGAAGA
13221299 A
1 A
13221300 ATAAAATAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.14
Consensus pattern (29 bp):
AGAATTGGGAAAGTTAAGAAAAAGGAAGA
Found at i:13224521 original size:14 final size:14
Alignment explanation
Indices: 13224502--13224535 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
13224492 GTTGCTCGTC
13224502 TTCTTTAATCTCAT
1 TTCTTTAATCTCAT
13224516 TTCTTTAATCTCAT
1 TTCTTTAATCTCAT
13224530 TTCTTT
1 TTCTTT
13224536 CAAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (14 bp):
TTCTTTAATCTCAT
Found at i:13226974 original size:15 final size:16
Alignment explanation
Indices: 13226944--13226976 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13226934 AAATAGTTAT
13226944 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
13226961 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
13226976 A
1 A
13226977 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:13229513 original size:18 final size:18
Alignment explanation
Indices: 13229490--13229524 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13229480 ATTTTTAATT
13229490 ATTTT-AAATATATTTATG
1 ATTTTAAAAT-TATTTATG
13229508 ATTTTAAAATTATTTAT
1 ATTTTAAAATTATTTAT
13229525 TCATTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTTAAAATTATTTATG
Found at i:13229580 original size:20 final size:20
Alignment explanation
Indices: 13229555--13229595 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
13229545 ATAGTGACAT
*
13229555 ATTAAAACAAAGTATAAATG
1 ATTAAAACAAAGTACAAATG
13229575 ATTAAAACAAAGTACAAATG
1 ATTAAAACAAAGTACAAATG
13229595 A
1 A
13229596 ACTGTCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (20 bp):
ATTAAAACAAAGTACAAATG
Found at i:13230932 original size:21 final size:21
Alignment explanation
Indices: 13230885--13230926 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
13230875 TGAGGACAAG
*
13230885 AATAAAATAA-AAATGAAATA
1 AATAAAATAATTAATGAAATA
13230905 AATAAAATAATTAATGAAATA
1 AATAAAATAATTAATGAAATA
13230926 A
1 A
13230927 CAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (21 bp):
AATAAAATAATTAATGAAATA
Found at i:13231045 original size:3 final size:3
Alignment explanation
Indices: 13231025--13231114 Score: 53
Period size: 3 Copynumber: 31.0 Consensus size: 3
13231015 AGATAACAAA
* * * * *
13231025 AAT AAT GAT AAT AA- AAT AAT ACT AAT AAT ACT -AT AAT AAT AAT GAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
13231071 AGT AGT GAT AA- AAT AAT AAT AAT AGT GGA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
13231115 TATTATTATT
Statistics
Matches: 64, Mismatches: 18, Indels: 10
0.70 0.20 0.11
Matches are distributed among these distances:
2 6 0.09
3 58 0.91
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13235811 original size:17 final size:17
Alignment explanation
Indices: 13235789--13235822 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13235779 CTGCAGTGGT
13235789 CCACCTTTTACTTGGCA
1 CCACCTTTTACTTGGCA
13235806 CCACCTTTTACTTGGCA
1 CCACCTTTTACTTGGCA
13235823 TAGGGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.12, T:0.35
Consensus pattern (17 bp):
CCACCTTTTACTTGGCA
Found at i:13237628 original size:71 final size:71
Alignment explanation
Indices: 13237540--13237703 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
13237530 CGATTTGTCT
13237540 CGTAGCTCTCTTGTCTACATGGTGTCCTTCAATTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCAATTGGAATCACGCATGCGACCTAGCTACATTTAT
13237605 CTTTCA
66 CTTTCA
*
13237611 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCAATTGGAATCACGCATGCGACCTAGCTACATTTAT
13237676 CTTTCA
66 CTTTCA
13237682 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
13237704 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCAATTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:13237741 original size:71 final size:70
Alignment explanation
Indices: 13237540--13237737 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
13237530 CGATTTGTCT
* * * * *
13237540 CGTAGCTCTCTTGTCTACATGGTGTCCTTCAATTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
13237605 CTTTCA
65 CTTTCA
* * * *
13237611 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
13237676 CTTTCA
65 CTTTCA
* *
13237682 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
13237738 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:13245197 original size:71 final size:71
Alignment explanation
Indices: 13245113--13245276 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
13245103 CGATTTGTCT
13245113 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
13245178 CTTTCA
66 CTTTCA
13245184 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
13245249 CTTTCA
66 CTTTCA
13245255 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
13245277 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:13245314 original size:71 final size:70
Alignment explanation
Indices: 13245113--13245310 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
13245103 CGATTTGTCT
* * * *
13245113 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
13245178 CTTTCA
65 CTTTCA
* * * *
13245184 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
13245249 CTTTCA
65 CTTTCA
* *
13245255 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
13245311 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:13247998 original size:18 final size:18
Alignment explanation
Indices: 13247735--13247999 Score: 169
Period size: 18 Copynumber: 14.3 Consensus size: 18
13247725 GAATAATTAT
* *
13247735 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
13247753 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
13247771 TTATTCAATAATAACCAA
1 TTATTCAGTAACAATCAA
* *
13247789 TTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAA
*
13247807 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
13247833 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
* *
13247851 -TATTCAGTAACTATTAA
1 TTATTCAGTAACAATCAA
* *
13247868 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAATCAA
* *
13247886 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
**
13247905 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* *
13247923 TTATTCAGTAATAGTCTAA
1 TTATTCAGTAACAATC-AA
*
13247942 -TATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* * *
13247959 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
13247977 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
13247995 TTATT
1 TTATT
13248000 TTATACCTTT
Statistics
Matches: 191, Mismatches: 40, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
17 19 0.10
18 139 0.73
19 17 0.09
20 1 0.01
24 1 0.01
25 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:13248297 original size:45 final size:45
Alignment explanation
Indices: 13248167--13248299 Score: 194
Period size: 45 Copynumber: 3.0 Consensus size: 45
13248157 ATCCAGAACA
* * * * *
13248167 GTAACAGTAACAGTATTCAACACACAAAGTACTGAATCGGCAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
13248212 GTAACAGTAACAATATTCGACACACAAAGTGCCAAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
* *
13248257 GTAATAGTAACAATATTCGACACACACAGTGCCGAATCGGTAA
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAA
13248300 TAGTAGCAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 79 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
Found at i:13249131 original size:21 final size:21
Alignment explanation
Indices: 13249106--13249166 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
13249096 TTTAATTTCA
13249106 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
13249127 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
13249148 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
13249167 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:13250412 original size:2 final size:2
Alignment explanation
Indices: 13250405--13250438 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13250395 TGTTTTACTT
13250405 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13250439 ATAACAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13254272 original size:16 final size:16
Alignment explanation
Indices: 13254253--13254287 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13254243 GAAATAAAAA
13254253 AATAAGACTAAATTCC
1 AATAAGACTAAATTCC
*
13254269 AATAAGACTAAATTTC
1 AATAAGACTAAATTCC
13254285 AAT
1 AAT
13254288 TGTACGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (16 bp):
AATAAGACTAAATTCC
Found at i:13255832 original size:24 final size:24
Alignment explanation
Indices: 13255805--13255881 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
13255795 ATAGAGGTTG
13255805 TTATAATAGATATTGGATTGTATT
1 TTATAATAGATATTGGATTGTATT
* ** *
13255829 TTATAAT---TTTTTTATTAGGT-TG
1 TTATAATAGATATTGGATT--GTATT
13255851 TTATAATAGATATTGGATTGTATT
1 TTATAATAGATATTGGATTGTATT
13255875 TTATAAT
1 TTATAAT
13255882 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
21 6 0.15
22 8 0.21
23 4 0.10
24 15 0.38
25 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (24 bp):
TTATAATAGATATTGGATTGTATT
Found at i:13255866 original size:46 final size:46
Alignment explanation
Indices: 13255799--13255890 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
13255789 AGTAAAATAG
13255799 AGGTTGTTATAATAGATATTGGATTGTATTTTATAATTTTTTTATT
1 AGGTTGTTATAATAGATATTGGATTGTATTTTATAATTTTTTTATT
13255845 AGGTTGTTATAATAGATATTGGATTGTATTTTATAATTTTTTTATT
1 AGGTTGTTATAATAGATATTGGATTGTATTTTATAATTTTTTTATT
13255891 TAAAAATAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (46 bp):
AGGTTGTTATAATAGATATTGGATTGTATTTTATAATTTTTTTATT
Found at i:13257267 original size:42 final size:42
Alignment explanation
Indices: 13257208--13257338 Score: 201
Period size: 42 Copynumber: 3.1 Consensus size: 42
13257198 TCCTCCAAAG
13257208 CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
* * * * *
13257250 CCACCGAAGCCACCGGTGGTGAAGCCACCGTATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
13257292 CCACCTAAGCCTCCGGTGGTGAAACCC-CCATATCACCCTAAA
1 CCACCTAAGCCTCCGGTGGT-AAACCCACCATATCACCCTAAA
13257334 CCACC
1 CCACC
13257339 AAAACATCCA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 74 0.95
43 4 0.05
ACGTcount: A:0.29, C:0.41, G:0.15, T:0.15
Consensus pattern (42 bp):
CCACCTAAGCCTCCGGTGGTAAACCCACCATATCACCCTAAA
Found at i:13257443 original size:69 final size:69
Alignment explanation
Indices: 13257370--13257572 Score: 298
Period size: 69 Copynumber: 2.9 Consensus size: 69
13257360 CAAGCCACCT
* ** * * *
13257370 GTTGTGAAGCCTCCATATATACCCAAGCCACCTATTGTAAAGCCTCCACCGTATACACCCAAACC
1 GTTGTGAAGCCTCCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
*
13257435 TCCG
66 GCCG
13257439 GTTGTGAAGCCTCCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
1 GTTGTGAAGCCTCCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
13257504 GCCG
66 GCCG
* *
13257508 GTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAA
1 GTTGTGAAGCCT---CCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAA
13257573 GCCACCTTAC
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
69 74 0.61
72 48 0.39
ACGTcount: A:0.28, C:0.36, G:0.16, T:0.20
Consensus pattern (69 bp):
GTTGTGAAGCCTCCATATATACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACC
GCCG
Found at i:13257449 original size:36 final size:36
Alignment explanation
Indices: 13257358--13257578 Score: 256
Period size: 36 Copynumber: 6.3 Consensus size: 36
13257348 ACCGCATCAT
* * *
13257358 CCCAAGCCACCTGTTGTGAAGCCT---CCATATATA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
* ** * *
13257391 CCCAAGCCACCTATTGTAAAGCCTCCACCGTATACA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
* *
13257427 CCCAAACCTCCGGTTGTGAAGCCT---CCATATATA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
*
13257460 CCCAAACCACCGGTTGTGAAGCCTCCGCCATATACA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
* *
13257496 CCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
* *
13257532 CCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACA
1 CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
*
13257568 CCCAAGCCACC
1 CCCAAACCACC
13257579 TTACTATCCA
Statistics
Matches: 166, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
33 52 0.31
36 114 0.69
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.19
Consensus pattern (36 bp):
CCCAAACCACCGGTTGTGAAGCCTCCACCATATACA
Found at i:13257688 original size:168 final size:168
Alignment explanation
Indices: 13257497--13257843 Score: 660
Period size: 168 Copynumber: 2.1 Consensus size: 168
13257487 CCATATACAC
13257497 CCAA-ACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
13257561 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
66 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
* *
13257626 AGCCACCAGTCTACCCCAGTCCACCAATAGTGAATCCA
131 AGCCACCAGTCCACCCCAGTCCACCAATAGTGAACCCA
13257664 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
*
13257729 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAATACTGCCTCCAA
66 ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
13257794 AGCCACCAGTCCACCCCAGTCCACCAATAGTGAACCCA
131 AGCCACCAGTCCACCCCAGTCCACCAATAGTGAACCCA
13257832 CCAACACCGCCG
1 CCAACACCGCCG
13257844 ATTCTACCAC
Statistics
Matches: 176, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
167 4 0.02
168 172 0.98
ACGTcount: A:0.28, C:0.42, G:0.14, T:0.16
Consensus pattern (168 bp):
CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCC
ATATACACCCAAGCCACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAA
AGCCACCAGTCCACCCCAGTCCACCAATAGTGAACCCA
Found at i:13257716 original size:36 final size:37
Alignment explanation
Indices: 13257664--13257740 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
13257654 AGTGAATCCA
13257664 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
13257701 CCAA-ACCGCCGGTTGTGAAGCCTCCGCCATATACAC
1 CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
13257737 CCAA
1 CCAA
13257741 GCCACCTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.26, C:0.40, G:0.18, T:0.16
Consensus pattern (37 bp):
CCAACACCGCCGGTTGTGAAGCCTCCGCCATATACAC
Found at i:13257880 original size:24 final size:24
Alignment explanation
Indices: 13257853--13257911 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
13257843 GATTCTACCA
*
13257853 CCACCATCACCACCTATTGTGAAG
1 CCACCATCACCACCTATCGTGAAG
* * *
13257877 CCACCAACGCCTCCTATCGTGAAG
1 CCACCATCACCACCTATCGTGAAG
*
13257901 CCACCTTCACC
1 CCACCATCACC
13257912 GGAAACACCG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.44, G:0.12, T:0.19
Consensus pattern (24 bp):
CCACCATCACCACCTATCGTGAAG
Found at i:13258904 original size:18 final size:18
Alignment explanation
Indices: 13258865--13258904 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13258855 AATTTTTTTC
* *
13258865 TTTTCTTTTATAATTTAG
1 TTTTCTTTTATAATATAA
*
13258883 TTTTTTTTTATAATATAA
1 TTTTCTTTTATAATATAA
13258901 TTTT
1 TTTT
13258905 AAACGTCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTCTTTTATAATATAA
Found at i:13259202 original size:46 final size:46
Alignment explanation
Indices: 13259135--13259226 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
13259125 ATAACTAAAA
*
13259135 CATAAATTTATTGATATTTTACTGATCTTGGGTGTAGTTTACCCTT
1 CATAAACTTATTGATATTTTACTGATCTTGGGTGTAGTTTACCCTT
*
13259181 CATAAACTTATTGATATTTTACTGATTTTGGGTGTAGTTTACCCTT
1 CATAAACTTATTGATATTTTACTGATCTTGGGTGTAGTTTACCCTT
13259227 TTTATACTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (46 bp):
CATAAACTTATTGATATTTTACTGATCTTGGGTGTAGTTTACCCTT
Found at i:13264929 original size:22 final size:22
Alignment explanation
Indices: 13264898--13264949 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 22
13264888 ATAATCAAAT
13264898 TATT-AATAAAATATTATAAAAA
1 TATTAAATAAAAT-TTATAAAAA
13264920 T-TTAAAT-AAATTTATAAAAA
1 TATTAAATAAAATTTATAAAAA
13264940 TAATTAAATA
1 T-ATTAAATA
13264950 CATTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 10 0.38
21 6 0.23
22 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTAAATAAAATTTATAAAAA
Found at i:13264963 original size:22 final size:22
Alignment explanation
Indices: 13264906--13264954 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
13264896 ATTATTAATA
13264906 AAATATTATAAAAAT--TTAAAT
1 AAAT-TTATAAAAATAATTAAAT
13264927 AAATTTATAAAAATAATTAAAT
1 AAATTTATAAAAATAATTAAAT
*
13264949 ACATTT
1 AAATTT
13264955 TAATTAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 4 0.16
22 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATTTATAAAAATAATTAAAT
Found at i:13269054 original size:21 final size:21
Alignment explanation
Indices: 13269034--13269074 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13269024 TACTTGAAAT
13269034 TTTAAAAAAT-ATATTTAAAA
1 TTTAAAAAATAATATTTAAAA
**
13269054 TTTATCAAATAATATTTAAAA
1 TTTAAAAAATAATATTTAAAA
13269075 ATCATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTAAAAAATAATATTTAAAA
Found at i:13270857 original size:2 final size:2
Alignment explanation
Indices: 13270852--13270891 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13270842 ACACACATAC
13270852 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
13270892 TGTACTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13271035 original size:27 final size:27
Alignment explanation
Indices: 13271004--13271058 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13270994 ATAAAGTCGG
*
13271004 TAAATGGTCCATTTATATCATGCATGT
1 TAAATGATCCATTTATATCATGCATGT
13271031 TAAATGATCCATTTATATCATGCATGT
1 TAAATGATCCATTTATATCATGCATGT
13271058 T
1 T
13271059 TTCAACAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (27 bp):
TAAATGATCCATTTATATCATGCATGT
Found at i:13276748 original size:29 final size:30
Alignment explanation
Indices: 13276704--13276766 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
13276694 TTTTTTAAAA
*
13276704 TTAAAAAATATTAAAAATTACTAAAA-TTAT
1 TTAAAAAACATT-AAAATTACTAAAATTTAT
**
13276734 TTAAAAAACA-TAAAATTTGTAAAATTTAT
1 TTAAAAAACATTAAAATTACTAAAATTTAT
13276763 TTAA
1 TTAA
13276767 TTATATTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 11 0.38
29 9 0.31
30 9 0.31
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (30 bp):
TTAAAAAACATTAAAATTACTAAAATTTAT
Found at i:13278055 original size:18 final size:17
Alignment explanation
Indices: 13278022--13278055 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13278012 TCCAAATTTG
*
13278022 AGCTCGATTAAGCTCTT
1 AGCTCGATAAAGCTCTT
13278039 AGCTCGATAAGAGCTCT
1 AGCTCGATAA-AGCTCT
13278056 CAGCATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (17 bp):
AGCTCGATAAAGCTCTT
Found at i:13285783 original size:28 final size:31
Alignment explanation
Indices: 13285751--13285827 Score: 79
Period size: 33 Copynumber: 2.5 Consensus size: 31
13285741 CTCAAATTTG
*
13285751 AAAAGTAGAGGGA-T-T-AATTCTTGAAAAT
1 AAAAGTAGAGGGACTATAAATTCTTAAAAAT
*
13285779 AAAAGTATAGGGACTAACTAAATTCTTAAAAAT
1 AAAAGTAGAGGGACT-A-TAAATTCTTAAAAAT
* *
13285812 AAAAGTATAAGGACTA
1 AAAAGTAGAGGGACTA
13285828 AATTCCAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.29
29 1 0.02
32 2 0.05
33 26 0.63
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (31 bp):
AAAAGTAGAGGGACTATAAATTCTTAAAAAT
Found at i:13285803 original size:33 final size:33
Alignment explanation
Indices: 13285766--13285828 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
13285756 TAGAGGGATT
* *
13285766 AATTCTTGAAAATAAAAGTATAGGGACTAACTA
1 AATTCTTAAAAATAAAAGTATAAGGACTAACTA
13285799 AATTCTTAAAAATAAAAGTATAAGGACTAA
1 AATTCTTAAAAATAAAAGTATAAGGACTAA
13285829 ATTCCAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (33 bp):
AATTCTTAAAAATAAAAGTATAAGGACTAACTA
Found at i:13286018 original size:13 final size:13
Alignment explanation
Indices: 13286000--13286025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13285990 ATAATATGTG
13286000 AAGATTATTATTT
1 AAGATTATTATTT
13286013 AAGATTATTATTT
1 AAGATTATTATTT
13286026 TTTAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAGATTATTATTT
Found at i:13286024 original size:16 final size:17
Alignment explanation
Indices: 13286003--13286042 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
13285993 ATATGTGAAG
*
13286003 ATTATTATTTAAGA-TT
1 ATTATTATTTAAAATTT
*
13286019 ATTATTTTTTAAAATTT
1 ATTATTATTTAAAATTT
13286036 ATTATTA
1 ATTATTA
13286043 AAATAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
ATTATTATTTAAAATTT
Found at i:13286128 original size:15 final size:15
Alignment explanation
Indices: 13286108--13286166 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
13286098 TGTATGTTTA
13286108 ATAATATTTTAAATT
1 ATAATATTTTAAATT
* *
13286123 ATAATAATTTATAATA
1 ATAATATTTTA-AATT
*
13286139 AT-ATATTAATAAATT
1 ATAATATT-TTAAATT
13286154 -TAGATATTTTAAA
1 ATA-ATATTTTAAA
13286167 AATAAAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.03
15 21 0.62
16 12 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
ATAATATTTTAAATT
Found at i:13288160 original size:25 final size:25
Alignment explanation
Indices: 13288126--13288338 Score: 122
Period size: 25 Copynumber: 8.6 Consensus size: 25
13288116 TGACTCGCAT
13288126 GAGCTTCCCGATTAATGGCTCTTCA
1 GAGCTTCCCGATTAATGGCTCTTCA
**
13288151 GAGCTTCCCGATTAATGGCTCTTTG
1 GAGCTTCCCGATTAATGGCTCTTCA
* * *
13288176 GAGCCTCTCGATTAATGGCTCTTCG
1 GAGCTTCCCGATTAATGGCTCTTCA
* * * *
13288201 GAGCTTCCTGA-TATTTGACTCTGT-T
1 GAGCTTCCCGATTA-ATGGCTCT-TCA
*
13288226 GAGCTTCCCG-TTTATGGCT-TGT-A
1 GAGCTTCCCGATTAATGGCTCT-TCA
** *
13288249 TGAGCTTCTTGA-TAATTGGCTC-GCAA
1 -GAGCTTCCCGATTAA-TGGCTCTTC-A
*
13288275 GAGCTTCCCG-TTATATGGCTC-ACA
1 GAGCTTCCCGATTA-ATGGCTCTTCA
***
13288299 TGAGCTTCCCG-TTATATGGCTCAAAA
1 -GAGCTTCCCGATTA-ATGGCTCTTCA
13288325 GAGCTTCCCGATTA
1 GAGCTTCCCGATTA
13288339 CATGCTTGTA
Statistics
Matches: 150, Mismatches: 24, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
23 3 0.02
24 17 0.11
25 122 0.81
26 8 0.05
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTTCA
Found at i:13292007 original size:19 final size:18
Alignment explanation
Indices: 13291979--13292014 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13291969 GATCAAGTAA
*
13291979 AATTAAATTAATCTAATC
1 AATTAAATTAATATAATC
13291997 AATTAAAATTAATATAAT
1 AATT-AAATTAATATAAT
13292015 ATTTTTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTAAATTAATATAATC
Found at i:13296806 original size:22 final size:24
Alignment explanation
Indices: 13296754--13296807 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
13296744 TTTTGGATGA
*
13296754 TTAAATTATTGTTATTAAATATCCT
1 TTAAATTATTGTAATT-AATATCCT
* *
13296779 TGAAATTATTG-AATT-ATATCTT
1 TTAAATTATTGTAATTAATATCCT
13296801 TTAAATT
1 TTAAATT
13296808 GAATTTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 12 0.48
24 3 0.12
25 10 0.40
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (24 bp):
TTAAATTATTGTAATTAATATCCT
Found at i:13301730 original size:14 final size:15
Alignment explanation
Indices: 13301711--13301772 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 15
13301701 GCCACCCCCT
13301711 TTTATTTTA-TTTTA
1 TTTATTTTATTTTTA
13301725 TTTATTATTATTTTTA
1 TTTATT-TTATTTTTA
13301741 TATTA-TTTATTTTTA
1 T-TTATTTTATTTTTA
**
13301756 TTT-TACTATTTTTA
1 TTTATTTTATTTTTA
13301770 TTT
1 TTT
13301773 TACTTATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 19 0.45
15 13 0.31
16 7 0.17
17 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:13301833 original size:23 final size:21
Alignment explanation
Indices: 13301806--13301848 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13301796 TTTTTAAATT
13301806 TATTTTAATTTTTCTACTATTTC
1 TATTTT-ATTTTT-TACTATTTC
*
13301829 TATTTTATTTTTTAGTATTT
1 TATTTTATTTTTTACTATTT
13301849 ATTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (21 bp):
TATTTTATTTTTTACTATTTC
Found at i:13301910 original size:3 final size:3
Alignment explanation
Indices: 13301902--13301970 Score: 122
Period size: 3 Copynumber: 23.0 Consensus size: 3
13301892 CCAAGAGTTG
13301902 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13301950 ATT ATT ATT CATT ATT -TT ATT
1 ATT ATT ATT -ATT ATT ATT ATT
13301971 CTATTTATCT
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 59 0.92
4 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13309296 original size:3 final size:3
Alignment explanation
Indices: 13309288--13309324 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
13309278 TATTCCAATT
13309288 TTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
13309325 TCTTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:13310063 original size:6 final size:6
Alignment explanation
Indices: 13310052--13310088 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
13310042 TCGAAGCCGG
*
13310052 AACAGT AACAGT AATAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
13310089 CGGTACACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AACAGT
Found at i:13311192 original size:5 final size:5
Alignment explanation
Indices: 13311174--13311263 Score: 132
Period size: 5 Copynumber: 18.0 Consensus size: 5
13311164 GTTTCTTTAT
13311174 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
13311223 ATATAA TATATA ATATA ATATA ATATA ATAT- ATATA ATATA
1 ATAT-A -ATATA ATATA ATATA ATATA ATATA ATATA ATATA
13311264 CTTAATTATT
Statistics
Matches: 79, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.03
4 6 0.08
5 60 0.76
6 7 0.09
7 4 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:13316578 original size:21 final size:21
Alignment explanation
Indices: 13316554--13316597 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13316544 TATTCCAATT
13316554 TTATTTATTATTATTAT-TTTA
1 TTATTTATT-TTATTATATTTA
*
13316575 TTATTTATTTTATTTTATTTA
1 TTATTTATTTTATTATATTTA
13316596 TT
1 TT
13316598 TCTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTTATTTTATTATATTTA
Found at i:13316598 original size:18 final size:18
Alignment explanation
Indices: 13316551--13316603 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
13316541 AAGTATTCCA
13316551 ATTTTATTTA-TTATTATT
1 ATTTTATTTATTTATT-TT
13316569 ATTTTA-TTATTTATTTT
1 ATTTTATTTATTTATTTT
*
13316586 ATTTTATTTATTTCTTTT
1 ATTTTATTTATTTATTTT
13316604 TTATAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 11 0.34
18 21 0.66
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTATTTATTTATTTT
Found at i:13316604 original size:14 final size:14
Alignment explanation
Indices: 13316553--13316598 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
13316543 GTATTCCAAT
13316553 TTTA-TTTATTATTA
1 TTTATTTTATT-TTA
13316567 -TTATTTTA--TTA
1 TTTATTTTATTTTA
13316578 TTTATTTTATTTTA
1 TTTATTTTATTTTA
13316592 TTTATTT
1 TTTATTT
13316599 CTTTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.11
12 8 0.29
13 3 0.11
14 14 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:13316606 original size:25 final size:25
Alignment explanation
Indices: 13316552--13316607 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
13316542 AGTATTCCAA
13316552 TTTTA-TTTATTATTATTATTTTAT
1 TTTTATTTTATTATTATTATTTTAT
13316576 TATTTATTTTATT-TTATTTATTTCT-T
1 T-TTTATTTTATTATTA-TTATTT-TAT
13316602 TTTTAT
1 TTTTAT
13316608 AAATTTCGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
24 1 0.04
25 12 0.43
26 14 0.50
27 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTATTTTATTATTATTATTTTAT
Found at i:13317333 original size:6 final size:6
Alignment explanation
Indices: 13317324--13317358 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
13317314 GTCGAAGCCG
*
13317324 AACAGT AACAGT AATAGT AACAGT AACAGT AACAG
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAG
13317359 CACGGTACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (6 bp):
AACAGT
Found at i:13317406 original size:6 final size:6
Alignment explanation
Indices: 13317395--13317431 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
13317385 ACAAATCTGA
13317395 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
13317432 TTCGACACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:13317471 original size:12 final size:12
Alignment explanation
Indices: 13317454--13317478 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13317444 AGTGTCGAAT
13317454 CGGTAACAGTAA
1 CGGTAACAGTAA
13317466 CGGTAACAGTAA
1 CGGTAACAGTAA
13317478 C
1 C
13317479 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:13318569 original size:5 final size:5
Alignment explanation
Indices: 13318553--13318617 Score: 112
Period size: 5 Copynumber: 12.6 Consensus size: 5
13318543 CTTTTATATA
13318553 ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
13318604 ATATAT ATAAT ATA
1 ATA-AT ATAAT ATA
13318618 CTTAATTATT
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
5 48 0.83
6 10 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:13321676 original size:10 final size:10
Alignment explanation
Indices: 13321649--13321677 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
13321639 AGCTTATGGC
13321649 TTTAGCTCAT
1 TTTAGCTCAT
13321659 TTTA-CTCAT
1 TTTAGCTCAT
13321668 TTTAGCTCAT
1 TTTAGCTCAT
13321678 ATTTTCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTAGCTCAT
Found at i:13325460 original size:25 final size:25
Alignment explanation
Indices: 13325437--13325484 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13325427 AATTTATATT
* *
13325437 TATA-ATAAA-ATAATTATATAATA
1 TATATATAAATATAAGTATAAAATA
13325460 TATATATAAATATAAGTATAAAATA
1 TATATATAAATATAAGTATAAAATA
13325485 AGTAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 5 0.24
25 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
TATATATAAATATAAGTATAAAATA
Found at i:13326410 original size:16 final size:16
Alignment explanation
Indices: 13326389--13326439 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
13326379 ATTACAAGAT
13326389 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
13326405 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
13326424 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
13326440 ATATTCCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:13326422 original size:19 final size:21
Alignment explanation
Indices: 13326387--13326429 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
13326377 ATATTACAAG
13326387 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
13326408 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
13326427 ATC
1 ATC
13326430 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Done.