Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 65 of 121
Found at i:11168213 original size:20 final size:19
Alignment explanation
Indices: 11168141--11168207 Score: 100
Period size: 19 Copynumber: 3.5 Consensus size: 19
11168131 CTTTTTCCAC
* *
11168141 TTTTTCCTTTTTCTTTTTT
1 TTTTTCTTTTTTTTTTTTT
11168160 TTTTTCTTTTTTTTCTTTTT
1 TTTTTCTTTTTTTT-TTTTT
11168180 TTTTTCTTTTTTTTTTTTT
1 TTTTTCTTTTTTTTTTTTT
11168199 TTTTT-TTTT
1 TTTTTCTTTT
11168208 GCTTTTCTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
18 4 0.09
19 22 0.49
20 19 0.42
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTTTT
Found at i:11168278 original size:27 final size:27
Alignment explanation
Indices: 11168234--11168287 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
11168224 TGTTCTTTTC
* * *
11168234 ATTTTTTTTAATTTTTTCCCTTTTCTT
1 ATTTTTTTTAATTCTTTCACATTTCTT
**
11168261 ATTTTTTTTTCTTCTTTCACATTTCTT
1 ATTTTTTTTAATTCTTTCACATTTCTT
11168288 TTTCTTTCCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (27 bp):
ATTTTTTTTAATTCTTTCACATTTCTT
Found at i:11168753 original size:26 final size:25
Alignment explanation
Indices: 11168717--11168804 Score: 83
Period size: 26 Copynumber: 3.6 Consensus size: 25
11168707 ACATTTTTCC
*
11168717 TCTTTTTTTTTTTTTTTCTTTTTTT
1 TCTTTTCTTTTTTTTTTCTTTTTTT
* *
11168742 TCTTTTCATTTTTTTATTAC-TTTTCT
1 TCTTTTC-TTTTTTT-TTTCTTTTTTT
* * *
11168768 TCTTTTCTCTTTTTCTT-TTCTTTT
1 TCTTTTCTTTTTTTTTTCTTTTTTT
11168792 TCTTTT-TTTTTTT
1 TCTTTTCTTTTTTT
11168805 GCATGCTCCC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
23 6 0.12
24 11 0.22
25 12 0.24
26 19 0.37
27 3 0.06
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (25 bp):
TCTTTTCTTTTTTTTTTCTTTTTTT
Found at i:11176170 original size:12 final size:12
Alignment explanation
Indices: 11176153--11176177 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11176143 ACGTGTCAAC
11176153 TTTTTTTTTTGT
1 TTTTTTTTTTGT
11176165 TTTTTTTTTTGT
1 TTTTTTTTTTGT
11176177 T
1 T
11176178 CCACTATAAA
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:11180082 original size:15 final size:15
Alignment explanation
Indices: 11180062--11180093 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11180052 GATAATATTA
11180062 TAAATATAATTATAT
1 TAAATATAATTATAT
*
11180077 TAAATATTATTATAT
1 TAAATATAATTATAT
11180092 TA
1 TA
11180094 TCTTATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATATAATTATAT
Found at i:11180158 original size:17 final size:18
Alignment explanation
Indices: 11180130--11180178 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
11180120 AAAATAAGAT
* *
11180130 AATTTATTTATTTATTAC
1 AATTTATATATTTATTAA
11180148 AA-TTATATATTT-TTAA
1 AATTTATATATTTATTAA
11180164 AATTTATATAATTTA
1 AATTTATAT-ATTTA
11180179 AATTATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTATATATTTATTAA
Found at i:11181775 original size:6 final size:6
Alignment explanation
Indices: 11181764--11181789 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11181754 CATGGCGCTT
11181764 CTTCTC CTTCTC CTTCTC CTTCTC CT
1 CTTCTC CTTCTC CTTCTC CTTCTC CT
11181790 CTCGCTCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTCTC
Found at i:11189065 original size:32 final size:32
Alignment explanation
Indices: 11189029--11189093 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
11189019 ATATACAATT
11189029 TGTATCTTAAATTTTTAAATAGTATATTATTC
1 TGTATCTTAAATTTTTAAATAGTATATTATTC
11189061 TGTATCTTAAATTTTTAAATAGTATATTATTC
1 TGTATCTTAAATTTTTAAATAGTATATTATTC
11189093 T
1 T
11189094 AACTCAAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (32 bp):
TGTATCTTAAATTTTTAAATAGTATATTATTC
Found at i:11189720 original size:6 final size:6
Alignment explanation
Indices: 11189709--11189753 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
11189699 TTTATTTGTT
* *
11189709 TAATTA TAATTA TAATTA TAATTTA TAACTA TATATTA AAATTA T
1 TAATTA TAATTA TAATTA TAA-TTA TAATTA TA-ATTA TAATTA T
11189754 CTTTTAAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 23 0.70
7 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
TAATTA
Found at i:11189736 original size:19 final size:20
Alignment explanation
Indices: 11189712--11189751 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11189702 ATTTGTTTAA
* *
11189712 TTATAATTATA-ATTATAAT
1 TTATAACTATATATTAAAAT
11189731 TTATAACTATATATTAAAAT
1 TTATAACTATATATTAAAAT
11189751 T
1 T
11189752 ATCTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATAACTATATATTAAAAT
Found at i:11191044 original size:12 final size:12
Alignment explanation
Indices: 11191027--11191088 Score: 74
Period size: 12 Copynumber: 5.2 Consensus size: 12
11191017 ACAAAATATG
11191027 AAATACAAAAAA
1 AAATACAAAAAA
*
11191039 AAATACCAAAAA
1 AAATACAAAAAA
* *
11191051 TAATACAAAATAC
1 AAATACAAAA-AA
11191064 AAA-A-AAAAAA
1 AAATACAAAAAA
11191074 AAATACAAAAAA
1 AAATACAAAAAA
11191086 AAA
1 AAA
11191089 GAGAACAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 4 0.10
11 5 0.12
12 29 0.71
13 3 0.07
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (12 bp):
AAATACAAAAAA
Found at i:11191088 original size:38 final size:40
Alignment explanation
Indices: 11190986--11191088 Score: 92
Period size: 38 Copynumber: 2.7 Consensus size: 40
11190976 ATTTTTGTCC
* * * *
11190986 CAAAATAAAATAAAATA-AAAACAATAATATTACAAAATAT
1 CAAAACAAAAAAAAATACAAAA-AAAAATAATACAAAATAT
* *
11191026 GAAATACAAAAAAAAATAC---CAAAAATAATACAAAATA-
1 CAAA-ACAAAAAAAAATACAAAAAAAAATAATACAAAATAT
11191063 CAAAA-AAAAAAAAATACAAAAAAAAA
1 CAAAACAAAAAAAAATACAAAAAAAAA
11191089 GAGAACAGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
35 12 0.24
36 1 0.02
37 3 0.06
38 20 0.40
40 3 0.06
41 11 0.22
ACGTcount: A:0.76, C:0.09, G:0.01, T:0.15
Consensus pattern (40 bp):
CAAAACAAAAAAAAATACAAAAAAAAATAATACAAAATAT
Found at i:11192492 original size:16 final size:15
Alignment explanation
Indices: 11192463--11192506 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
11192453 TTAAAAAACG
*
11192463 AAACCCCTAAAAATTC
1 AAACCCCT-TAAATTC
*
11192479 AAAATCCCTTAAATTC
1 -AAACCCCTTAAATTC
11192495 AAACCCCTTAAA
1 AAACCCCTTAAA
11192507 ATCTAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 6 0.25
17 7 0.29
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (15 bp):
AAACCCCTTAAATTC
Found at i:11192508 original size:16 final size:16
Alignment explanation
Indices: 11192463--11192518 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
11192453 TTAAAAAACG
*
11192463 AAACCCCTAAAAATTC
1 AAACCCCTTAAAATTC
*
11192479 AAAATCCCTT-AAATTC
1 -AAACCCCTTAAAATTC
*
11192495 AAACCCCTTAAAATCTA
1 AAACCCCTTAAAAT-TC
11192512 AAACCCC
1 AAACCCC
11192519 CAAAATCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.24
16 10 0.30
17 15 0.45
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACCCCTTAAAATTC
Found at i:11197047 original size:6 final size:6
Alignment explanation
Indices: 11197036--11197062 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11197026 CACTCCTGCC
11197036 TCAGGT TCAGGT TCAGGT TCAGGT TCA
1 TCAGGT TCAGGT TCAGGT TCAGGT TCA
11197063 AGTTTCTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (6 bp):
TCAGGT
Found at i:11204091 original size:9 final size:9
Alignment explanation
Indices: 11204079--11204138 Score: 79
Period size: 9 Copynumber: 6.8 Consensus size: 9
11204069 AAATATATAA
*
11204079 AAAAAAATT
1 AAAAAAATG
*
11204088 AAAAAAAGG
1 AAAAAAATG
11204097 AAAAAAATGG
1 AAAAAAAT-G
11204107 AAAAAAATG
1 AAAAAAATG
11204116 AAAAAAATG
1 AAAAAAATG
11204125 -AAAAAA-G
1 AAAAAAATG
11204132 AAAAAAA
1 AAAAAAA
11204139 ATGAGAAAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
7 1 0.02
8 12 0.26
9 24 0.52
10 9 0.20
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
AAAAAAATG
Found at i:11204100 original size:19 final size:17
Alignment explanation
Indices: 11204079--11204138 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 17
11204069 AAATATATAA
11204079 AAAAAAATTAAAAAAAGG
1 AAAAAAATTAAAAAAA-G
*
11204097 AAAAAAATGGAAAAAAATG
1 AAAAAAAT-TAAAAAAA-G
*
11204116 AAAAAAA-TGAAAAAAG
1 AAAAAAATTAAAAAAAG
11204132 AAAAAAA
1 AAAAAAA
11204139 ATGAGAAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.22
17 6 0.16
18 8 0.22
19 15 0.41
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (17 bp):
AAAAAAATTAAAAAAAG
Found at i:11204146 original size:19 final size:18
Alignment explanation
Indices: 11204078--11204146 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
11204068 AAAATATATA
**
11204078 AAAAAAAATTAAAAAAAG
1 AAAAAAAATGGAAAAAAG
*
11204096 GAAAAAAATGGAAAAAA-
1 AAAAAAAATGGAAAAAAG
11204113 ATGAAAAAAAT-GAAAAAAG
1 A--AAAAAAATGGAAAAAAG
11204132 AAAAAAAATGAGAAA
1 AAAAAAAATG-GAAA
11204147 GGAAGTGATT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 8 0.19
18 21 0.50
19 13 0.31
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (18 bp):
AAAAAAAATGGAAAAAAG
Found at i:11204771 original size:17 final size:17
Alignment explanation
Indices: 11204741--11204774 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11204731 GATTACTAAC
*
11204741 GATAAAGAGGAAAAAAA
1 GATAAAGAGAAAAAAAA
*
11204758 GATAAAGATAAAAAAAA
1 GATAAAGAGAAAAAAAA
11204775 AAGAGAAAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (17 bp):
GATAAAGAGAAAAAAAA
Found at i:11205331 original size:73 final size:73
Alignment explanation
Indices: 11205186--11205678 Score: 451
Period size: 69 Copynumber: 6.9 Consensus size: 73
11205176 TCTTATATAG
* * * * * *
11205186 TTTCCCGACTTGCGG-TCAGTCTCAGTCATCTTT-ATCTTTTAGCTCGTGGTTTAATCTCGAGTC
1 TTTCCTGACTTACGGTTCAGTCCCAATCATCTTTAATCTTTGA-CTCGTGGTTTAATCCCGA-TC
11205249 ATTTCATTAA
64 ATTTCATTAA
* * * *
11205259 TTTCCTGACTTACGATTTAGTCCCAATCATCTTTAATCTTTAACTCGTGATTTAATCCCGATCAT
1 TTTCCTGACTTACGGTTCAGTCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
11205324 TTCATTAA
66 TTCATTAA
* * * * * * *
11205332 -TTCTCTGACTTATGGTTCATTCCCAATCGTCTTTAATCTTTGAGTCGTGGTTTAATCTCGGTTA
1 TTTC-CTGACTTACGGTTCAGTCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
11205396 TTTCA-T--
65 TTTCATTAA
* * * * *
11205402 TCT-CTGACTTACGGTTCAATCCCAGTCATCTTTAATATTTGACTCGTGGTTTAATCTCAGA-CA
1 TTTCCTGACTTACGGTTCAGTCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATC-CCGATCA
11205465 TTTCA-T--
65 TTTCATTAA
* * * * *
11205471 TCT-CTGACTTACGGTTCCA-TTCCAGTCAT-TTTAAATCTTTGACTCGTGGTTTAATTCTGATC
1 TTTCCTGACTTACGGTT-CAGTCCCAATCATCTTT-AATCTTTGACTCGTGGTTTAATCCCGATC
11205533 ATTTCATTAA
64 ATTTCATTAA
* * * *
11205543 TTTCTTGACTTGC-GTTTAGTCCCAATCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGATCAT
1 TTTCCTGACTTACGGTTCAGTCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
11205607 TTCATTAA
66 TTCATTAA
* * * * * * * *
11205615 -TTCTCTCGACTTACGGTTCAGTCCTAGTCATCGTTAGTATTTGATTTGTGGTTTAATCTCGATC
1 TTTC-CT-GACTTACGGTTCAGTCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
11205679 TTCTTATTCT
Statistics
Matches: 347, Mismatches: 56, Indels: 33
0.80 0.13 0.08
Matches are distributed among these distances:
68 6 0.02
69 107 0.31
70 4 0.01
71 5 0.01
72 54 0.16
73 94 0.27
74 70 0.20
75 7 0.02
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (73 bp):
TTTCCTGACTTACGGTTCAGTCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
TTCATTAA
Found at i:11205479 original size:34 final size:34
Alignment explanation
Indices: 11205376--11205540 Score: 91
Period size: 35 Copynumber: 4.8 Consensus size: 34
11205366 AATCTTTGAG
* *
11205376 TCGTGGTTTAATCTCGGTTATTTCATTCTCTGAC
1 TCGTGGTTTAATCTCAGTCATTTCATTCTCTGAC
*** * * * * * *
11205410 TTACGGTTCAATCCCAGTCATCTTTAATATTTGAC
1 TCGTGGTTTAATCTCAGTCAT-TTCATTCTCTGAC
*
11205445 TCGTGGTTTAATCTCAGACATTTCATTCTCTGAC
1 TCGTGGTTTAATCTCAGTCATTTCATTCTCTGAC
*** ** * * *
11205479 TTACGGTTCCAT-TCCAGTCATTTTAAATCTTTGAC
1 TCGTGGTTTAATCT-CAGTCA-TTTCATTCTCTGAC
*
11205514 TCGTGGTTTAAT-TCTGATCATTTCATT
1 TCGTGGTTTAATCTCAG-TCATTTCATT
11205541 AATTTCTTGA
Statistics
Matches: 89, Mismatches: 38, Indels: 8
0.66 0.28 0.06
Matches are distributed among these distances:
33 1 0.01
34 42 0.47
35 46 0.52
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (34 bp):
TCGTGGTTTAATCTCAGTCATTTCATTCTCTGAC
Found at i:11206120 original size:28 final size:27
Alignment explanation
Indices: 11206083--11206178 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 27
11206073 AAATAAAATA
*
11206083 AAATAAAAAAAGAATATTACAAAATACG
1 AAATAAAAAAAAAATA-TACAAAATACG
* *
11206111 AAATACAAAAAAAATATACAAAATAATACA
1 AAATAAAAAAAAAATATAC--AA-AATACG
*
11206141 AAATACAAAACAAAAAAATACAAAAATAC-
1 AAATA-AAAA-AAAAATATAC-AAAATACG
11206170 AAA-AAAAAA
1 AAATAAAAAA
11206179 GAACAAAAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
26 1 0.02
27 7 0.12
28 15 0.26
29 5 0.09
30 15 0.26
31 6 0.10
32 9 0.16
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (27 bp):
AAATAAAAAAAAAATATACAAAATACG
Found at i:11206130 original size:27 final size:28
Alignment explanation
Indices: 11206083--11206135 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
11206073 AAATAAAATA
11206083 AAATAAAAAAAGAATATTACAAAATACG
1 AAATAAAAAAAGAATATTACAAAATACG
11206111 AAATACAAAAAA-AATA-TACAAAATA
1 AAATA-AAAAAAGAATATTACAAAATA
11206136 ATACAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 9 0.38
28 9 0.38
29 6 0.25
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.17
Consensus pattern (28 bp):
AAATAAAAAAAGAATATTACAAAATACG
Found at i:11206134 original size:20 final size:20
Alignment explanation
Indices: 11206106--11206198 Score: 67
Period size: 20 Copynumber: 5.0 Consensus size: 20
11206096 ATATTACAAA
*
11206106 ATACGAAATACAAAAAAAAT
1 ATACAAAATACAAAAAAAAT
* *
11206126 ATACAAAAT--AATACAAA-
1 ATACAAAATACAAAAAAAAT
11206143 ATAC-AAA-AC-AAAAAAAT
1 ATACAAAATACAAAAAAAAT
*
11206160 ACA-AAAATACAAAAAAAA-
1 ATACAAAATACAAAAAAAAT
* *
11206178 AGAACAAAAGACAAAAAAAAT
1 A-TACAAAATACAAAAAAAAT
11206199 CAAGGATGGC
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
16 8 0.14
17 9 0.16
18 9 0.16
19 8 0.14
20 22 0.39
ACGTcount: A:0.75, C:0.11, G:0.03, T:0.11
Consensus pattern (20 bp):
ATACAAAATACAAAAAAAAT
Found at i:11206139 original size:30 final size:32
Alignment explanation
Indices: 11206105--11206173 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 32
11206095 AATATTACAA
* *
11206105 AATACGAAATAC-AAA-AAAAATATACAAAAT
1 AATACAAAATACAAAACAAAAAAATACAAAAT
11206135 AATACAAAATACAAAACAAAAAAATAC-AAA-
1 AATACAAAATACAAAACAAAAAAATACAAAAT
11206165 AATACAAAA
1 AATACAAAA
11206174 AAAAAGAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 20 0.57
31 6 0.17
32 9 0.26
ACGTcount: A:0.74, C:0.12, G:0.01, T:0.13
Consensus pattern (32 bp):
AATACAAAATACAAAACAAAAAAATACAAAAT
Found at i:11206147 original size:7 final size:7
Alignment explanation
Indices: 11206100--11206173 Score: 53
Period size: 7 Copynumber: 10.0 Consensus size: 7
11206090 AAAAGAATAT
11206100 TACAAAA
1 TACAAAA
*
11206107 TACGAAA
1 TACAAAA
11206114 TACAAAA
1 TACAAAA
11206121 -A-AAATA
1 TACAAA-A
11206127 TACAAAATAA
1 TAC--AA-AA
11206137 TACAAAA
1 TACAAAA
11206144 TACAAAA
1 TACAAAA
* *
11206151 CAAAAAAA
1 -TACAAAA
11206159 TACAAAAA
1 TAC-AAAA
11206167 TACAAAA
1 TACAAAA
11206174 AAAAAGAACA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
5 3 0.06
6 2 0.04
7 27 0.51
8 14 0.26
10 6 0.11
11 1 0.02
ACGTcount: A:0.73, C:0.12, G:0.01, T:0.14
Consensus pattern (7 bp):
TACAAAA
Found at i:11206153 original size:22 final size:21
Alignment explanation
Indices: 11206130--11206198 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 21
11206120 AAAAATATAC
11206130 AAAATAATACAAAATACAAAA
1 AAAATAATACAAAATACAAAA
*
11206151 CAAAAAAATACAAAAATACAAAA
1 -AAAATAATAC-AAAATACAAAA
*
11206174 AAAA-AGA-ACAAAAGACAAAA
1 AAAATA-ATACAAAATACAAAA
11206194 AAAAT
1 AAAAT
11206199 CAAGGATGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 14 0.33
21 3 0.07
22 14 0.33
23 11 0.26
ACGTcount: A:0.78, C:0.10, G:0.03, T:0.09
Consensus pattern (21 bp):
AAAATAATACAAAATACAAAA
Found at i:11206165 original size:8 final size:8
Alignment explanation
Indices: 11206121--11206174 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
11206111 AAATACAAAA
11206121 AAAATATAC
1 AAAA-ATAC
11206130 AAAATAATAC
1 -AAA-AATAC
11206140 -AAAATAC
1 AAAAATAC
11206147 AAAACA-A-
1 AAAA-ATAC
11206154 AAAAATAC
1 AAAAATAC
11206162 AAAAATAC
1 AAAAATAC
11206170 AAAAA
1 AAAAA
11206175 AAAAGAACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 1 0.03
7 10 0.26
8 19 0.49
9 1 0.03
10 7 0.18
11 1 0.03
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATAC
Found at i:11206167 original size:23 final size:23
Alignment explanation
Indices: 11206111--11206186 Score: 81
Period size: 22 Copynumber: 3.4 Consensus size: 23
11206101 ACAAAATACG
11206111 AAATACAAAAA-A-AATATACAAAA
1 AAATACAAAAATACAA-A-ACAAAA
*
11206134 TAATAC-AAAATACAAAACAAAA
1 AAATACAAAAATACAAAACAAAA
11206156 AAATACAAAAATACAAAA-AAAA
1 AAATACAAAAATACAAAACAAAA
*
11206178 AGA-ACAAAA
1 AAATACAAAA
11206187 GACAAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 6 0.13
22 21 0.45
23 18 0.38
24 2 0.04
ACGTcount: A:0.78, C:0.11, G:0.01, T:0.11
Consensus pattern (23 bp):
AAATACAAAAATACAAAACAAAA
Found at i:11206175 original size:10 final size:10
Alignment explanation
Indices: 11206119--11206196 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
11206109 CGAAATACAA
11206119 AAAAAATATAC
1 AAAAAA-ATAC
*
11206130 AAAATAATAC
1 AAAAAAATAC
*
11206140 AAAATACAAAAC
1 AAAA-A-AATAC
11206152 AAAAAAATAC
1 AAAAAAATAC
11206162 --AAAAATAC
1 AAAAAAATAC
* *
11206170 AAAAAAAAAG
1 AAAAAAATAC
* *
11206180 AACAAAAGAC
1 AAAAAAATAC
11206190 AAAAAAA
1 AAAAAAA
11206197 ATCAAGGATG
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
8 8 0.15
10 31 0.58
11 6 0.11
12 8 0.15
ACGTcount: A:0.78, C:0.10, G:0.03, T:0.09
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:11207578 original size:16 final size:15
Alignment explanation
Indices: 11207559--11207618 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
11207549 AAACCCCTAA
11207559 AAATCCAAAATCCCTT
1 AAATCCAAAA-CCCTT
* *
11207575 AAATTCAAACCCCTT
1 AAATCCAAAACCCTT
* **
11207590 AAAATCCGAAACCCCA
1 -AAATCCAAAACCCTT
11207606 AAATCCAAAACCC
1 AAATCCAAAACCC
11207619 CAAAATCTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 17 0.49
16 18 0.51
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.17
Consensus pattern (15 bp):
AAATCCAAAACCCTT
Found at i:11207608 original size:15 final size:15
Alignment explanation
Indices: 11207590--11207630 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
11207580 CAAACCCCTT
11207590 AAAATCCGAAACCCC
1 AAAATCCGAAACCCC
*
11207605 AAAATCCAAAACCCC
1 AAAATCCGAAACCCC
*
11207620 AAAATCTGAAA
1 AAAATCCGAAA
11207631 TCCTAAACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.54, C:0.32, G:0.05, T:0.10
Consensus pattern (15 bp):
AAAATCCGAAACCCC
Found at i:11207617 original size:32 final size:32
Alignment explanation
Indices: 11207549--11207623 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
11207539 TTAAAAAATG
** *
11207549 AAACCCCTAAAAATCCAAAATCCCTTAAATTC
1 AAACCCCTAAAAATCCAAAATCCCCAAAATCC
* *
11207581 AAACCCCTTAAAATCCGAAA-CCCCAAAATCC
1 AAACCCCTAAAAATCCAAAATCCCCAAAATCC
11207612 AAAACCCC-AAAA
1 -AAACCCCTAAAA
11207624 TCTGAAATCC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 11 0.31
32 25 0.69
ACGTcount: A:0.49, C:0.35, G:0.01, T:0.15
Consensus pattern (32 bp):
AAACCCCTAAAAATCCAAAATCCCCAAAATCC
Found at i:11207738 original size:29 final size:28
Alignment explanation
Indices: 11207680--11207756 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 28
11207670 CCGAACACTT
* *
11207680 AAATTAAAACCCCAAACCTCAAATT-TT
1 AAATCAAAACCCCAAACCTCAAATTCTA
* *
11207707 AAATCGAAACCCCAAAATCTTCAAATTCTA
1 AAATCAAAACCCC-AAA-CCTCAAATTCTA
**
11207737 AAATCAAAACCTTAAACCTC
1 AAATCAAAACCCCAAACCTC
11207757 TCATATCCTA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
27 11 0.28
28 6 0.15
29 11 0.28
30 11 0.28
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.23
Consensus pattern (28 bp):
AAATCAAAACCCCAAACCTCAAATTCTA
Found at i:11211179 original size:22 final size:23
Alignment explanation
Indices: 11211131--11211195 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
11211121 TTGTGTAAAT
* *
11211131 AAAATGATTAATTTAAAATTTTA
1 AAAATTATTAATTTAAAATTTAA
*
11211154 AAAATTATT-ATTTATAATTTAA
1 AAAATTATTAATTTAAAATTTAA
* *
11211176 AAAATTCAATATTTTAAAAT
1 AAAATT-ATTAATTTAAAAT
11211196 AATTAATTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 17 0.50
23 10 0.29
24 7 0.21
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAATTATTAATTTAAAATTTAA
Found at i:11214710 original size:161 final size:162
Alignment explanation
Indices: 11214477--11214830 Score: 434
Period size: 161 Copynumber: 2.2 Consensus size: 162
11214467 CCAAAAGTTT
* * ** *
11214477 AATTTGTATTTTTGCC-ATTAAAAGACA-AAAATAGTCTCAAATAGATGTAAACGATAACTTTTT
1 AATTTGTATTTTTACCTATT-AACGACACAAAATAGTCTCAAATAGACATAAACAATAACTTTTT
* *
11214540 TACACATATCAATCGTAG-AAACCAAGTTCAAT-CATTCGGATAAGTTTAATATCATGTATTGAA
65 CACACATATCAACCGT-GCAAACCAAGTTCAATAC-TTCGGATAAGTTTAATATCATGTATTGAA
* * *
11214603 GCTATCCAAACCATTAAAATAGAACAATAAC-AAC
128 ACTATCAAAACCATTAAAACAGAACAATAACTAAC
11214637 AATTTTGTATTTTTACCTATTAACGACACAAAA-AGTC-CTAAATAGACATAAACAATAACTTTT
1 AA-TTTGTATTTTTACCTATTAACGACACAAAATAGTCTC-AAATAGACATAAACAATAACTTTT
* * *
11214700 TCATACATATCAACCGTGCAAACTAAGTTCAATACTTTGGATAAGTTTAATATCATGTATTGAAA
64 TCACACATATCAACCGTGCAAACCAAGTTCAATACTTCGGATAAGTTTAATATCATGTATTGAAA
* ***
11214765 CTATCAAAACTATTAAAACAGAACAATAACTGTT
129 CTATCAAAACCATTAAAACAGAACAATAACTAAC
* * *
11214799 AATTTATATTTTTACCTTTTAACAACACAAAA
1 AATTTGTATTTTTACCTATTAACGACACAAAA
11214831 CGTTCATTCA
Statistics
Matches: 167, Mismatches: 20, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
160 4 0.02
161 153 0.92
162 10 0.06
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (162 bp):
AATTTGTATTTTTACCTATTAACGACACAAAATAGTCTCAAATAGACATAAACAATAACTTTTTC
ACACATATCAACCGTGCAAACCAAGTTCAATACTTCGGATAAGTTTAATATCATGTATTGAAACT
ATCAAAACCATTAAAACAGAACAATAACTAAC
Found at i:11220351 original size:13 final size:13
Alignment explanation
Indices: 11220320--11220351 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11220310 AAGAAATAGT
11220320 ATAA-TAAAGTAA
1 ATAACTAAAGTAA
11220332 A-AACTAAAGTAA
1 ATAACTAAAGTAA
11220344 ATAACTAA
1 ATAACTAA
11220352 GGAATAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 10 0.56
13 6 0.33
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (13 bp):
ATAACTAAAGTAA
Found at i:11221952 original size:28 final size:28
Alignment explanation
Indices: 11221912--11221969 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
11221902 GTTTCTTTAT
*
11221912 CTCTATCATCGTCGTTGACCTTCAACAA
1 CTCTATCATCGTCGTCGACCTTCAACAA
*
11221940 CTCTATCATCGTCGTCGACCTTCAATAA
1 CTCTATCATCGTCGTCGACCTTCAACAA
11221968 CT
1 CT
11221970 TAACACTGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.33, G:0.10, T:0.33
Consensus pattern (28 bp):
CTCTATCATCGTCGTCGACCTTCAACAA
Found at i:11222219 original size:28 final size:28
Alignment explanation
Indices: 11222174--11222240 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
11222164 AAATATAGTG
*
11222174 GTTTGCTGAATGGTATTGTATGATATTA
1 GTTTACTGAATGGTATTGTATGATATTA
* *
11222202 TTTTACTGAATGGTATTGTATGATATTG
1 GTTTACTGAATGGTATTGTATGATATTA
11222230 GTTTACTGAAT
1 GTTTACTGAAT
11222241 AGTTTGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.04, G:0.22, T:0.48
Consensus pattern (28 bp):
GTTTACTGAATGGTATTGTATGATATTA
Found at i:11222268 original size:13 final size:13
Alignment explanation
Indices: 11222250--11222302 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
11222240 TAGTTTGTTA
*
11222250 AATGGTGTTTCTG
1 AATGGTGTTTTTG
11222263 AATGGTGTTTTTG
1 AATGGTGTTTTTG
* *
11222276 AATGAT-TTGTTG
1 AATGGTGTTTTTG
11222288 AATGGTGTTTTTG
1 AATGGTGTTTTTG
11222301 AA
1 AA
11222303 CACATTGCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
12 10 0.29
13 24 0.71
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (13 bp):
AATGGTGTTTTTG
Found at i:11223969 original size:52 final size:52
Alignment explanation
Indices: 11223891--11223994 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
11223881 AGCAGGGAAC
* * * *
11223891 CCAACCTCTGCTACCACTAATAAAGTATGATTTTGTTTATAAGTTTAATATT
1 CCAACCTCCGCCACCACCAATAAAGTATAATTTTGTTTATAAGTTTAATATT
11223943 CCAACCTCCGCCACCACCAATAAAGTATAATTTTGTTTATAAGTTTAATATT
1 CCAACCTCCGCCACCACCAATAAAGTATAATTTTGTTTATAAGTTTAATATT
11223995 TATTTGTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (52 bp):
CCAACCTCCGCCACCACCAATAAAGTATAATTTTGTTTATAAGTTTAATATT
Found at i:11225742 original size:64 final size:64
Alignment explanation
Indices: 11225666--11225846 Score: 156
Period size: 62 Copynumber: 2.9 Consensus size: 64
11225656 TTTTTTTATC
* *
11225666 AAAACTACCTTCAATAATCCCATATAAAATTTTATTGAGTGGATTATTGAAGGC-GTTTTGCATA
1 AAAAATACCTTCAATAATCCCATATAAAATTTTATTGAGTGGATTATTGAAGGCAGTTTTG-ACA
* * ** * * * *
11225730 AAAAATACCTTCAAGAAT-CCGT-TCCTACTTTT-TTGTA-TGGATTGTTGAAAGCATTTTTGAC
1 AAAAATACCTTCAATAATCCCATAT-AAAATTTTATTG-AGTGGATTATTGAAGGCAGTTTTGAC
*
11225791 C
64 A
* * * * *
11225792 AAAATTACCTTTAATAATCCCTTATAAAAATTTATTGAGTGGATTATTAAAGGCA
1 AAAAATACCTTCAATAATCCCATATAAAATTTTATTGAGTGGATTATTGAAGGCA
11225847 CTTTCAACCC
Statistics
Matches: 88, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
62 33 0.38
63 22 0.25
64 33 0.38
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (64 bp):
AAAAATACCTTCAATAATCCCATATAAAATTTTATTGAGTGGATTATTGAAGGCAGTTTTGACA
Found at i:11225888 original size:126 final size:126
Alignment explanation
Indices: 11225665--11225894 Score: 302
Period size: 126 Copynumber: 1.8 Consensus size: 126
11225655 GTTTTTTTAT
* * **
11225665 CAAAACTACCTTCAATAATCCCATATAAAATTTTATTGAGTGGATTATTGAAGGCGTTTTGCATA
1 CAAAACTACCTTCAATAATCCCATATAAAAATTTATTGAGTGGATTATTAAAGGCACTTTGCATA
* * * *
11225730 AAAAATACCTTCAAGAATCCGTTCCTACTTTTTTGTATGGATTGTTGAAAGCATTTTTGAC
66 AAAAACACCTTCAAGAATCCGTTCCAAATTTTTTCTATGGATTGTTGAAAGCATTTTTGAC
* * *
11225791 CAAAATTACCTTTAATAATCCCTTATAAAAATTTATTGAGTGGATTATTAAAGGCACTTT-CA-A
1 CAAAACTACCTTCAATAATCCCATATAAAAATTTATTGAGTGGATTATTAAAGGCACTTTGCATA
* * *
11225854 CCCAAAACACCTTCAAGAATTCGTTTCAAATTTTTTCTATG
66 --AAAAACACCTTCAAGAATCCGTTCCAAATTTTTTCTATG
11225895 AATTATTGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
124 1 0.01
125 2 0.02
126 85 0.97
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (126 bp):
CAAAACTACCTTCAATAATCCCATATAAAAATTTATTGAGTGGATTATTAAAGGCACTTTGCATA
AAAAACACCTTCAAGAATCCGTTCCAAATTTTTTCTATGGATTGTTGAAAGCATTTTTGAC
Found at i:11228432 original size:22 final size:22
Alignment explanation
Indices: 11228397--11228460 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
11228387 TTGTGTAAAT
* *
11228397 AAAATGATTAATTTAAAATTTTA
1 AAAATTATT-ATTTAAAATTTAA
* *
11228420 AAAATTATTATTTATAAGTTAA
1 AAAATTATTATTTAAAATTTAA
*
11228442 AAAATTCAATATTTAAAAT
1 AAAATT-ATTATTTAAAAT
11228461 AATTAATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (22 bp):
AAAATTATTATTTAAAATTTAA
Found at i:11228916 original size:17 final size:16
Alignment explanation
Indices: 11228885--11228926 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
11228875 AGTTTATGGA
11228885 AATTTAAATAAAAAACT
1 AATTTAAATAAAAAA-T
**
11228902 AATTTAAATTTAAAAT
1 AATTTAAATAAAAAAT
11228918 AA-TTAAATA
1 AATTTAAATA
11228927 GATAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 6 0.27
16 3 0.14
17 13 0.59
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTTAAATAAAAAAT
Found at i:11232138 original size:21 final size:20
Alignment explanation
Indices: 11232098--11232140 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11232088 TTTTTCCTAC
*
11232098 GTTTTTTATTATTGATTGTT
1 GTTTATTATTATTGATTGTT
*
11232118 GTTTATTATTTTTGTATTGTT
1 GTTTATTATTATTG-ATTGTT
11232139 GT
1 GT
11232141 GATTATTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.14, C:0.00, G:0.16, T:0.70
Consensus pattern (20 bp):
GTTTATTATTATTGATTGTT
Found at i:11232145 original size:20 final size:20
Alignment explanation
Indices: 11232103--11232147 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11232093 CCTACGTTTT
*
11232103 TTATTATTGATTGTTGTTTA
1 TTATTATTGATTGTTGTTGA
*
11232123 TTATTTTTGTATTGTTG-TGA
1 TTATTATTG-ATTGTTGTTGA
11232143 TTATT
1 TTATT
11232148 GCTTCTGGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.18, C:0.00, G:0.16, T:0.67
Consensus pattern (20 bp):
TTATTATTGATTGTTGTTGA
Found at i:11240190 original size:248 final size:248
Alignment explanation
Indices: 11239705--11240200 Score: 897
Period size: 247 Copynumber: 2.0 Consensus size: 248
11239695 CCATTTTGCC
* *
11239705 TTTTTCCCCAGACTTTGGCTACTGTTAGCCATGGTGCATAGAAAAGAGTCATTGTGTTTACTGCC
1 TTTTTCCCCAGACTTTGGCCACTGTTAGCCATGGTGCATAGAAAAGAGTCATTGTGTTTACTACC
11239770 TTCAATCACCTCCATTTTTTCTTCCATTCTTCTATGTACCACCAATTCAATTTTTGCATGGCCAC
66 TTCAATCACCTCCATTTTTTCTTCCATTCTTCTATGTACCACCAATTCAATTTTTGCATGGCCAC
* * * *
11239835 TCTCCTTAGAGTTTGTGTCATTTATGGCTTGGGTCCCTTAAAAAGACATGGTCCACCCCTTGTTA
131 TCTCCCTAGAGTTTGTGTCATTCACGGCTTGGGTCCCTTAAAAAGACATGGTCCACCCCTTATTA
*
11239900 ATTACCTTGTTTGCTTCACGTAAGTTAGGTACCATCTTTTTTTTTTTTTAATT
196 ATTACCCTGTTTGCTTCACGTAAGTTAGGTACCATCTTTTTTTTTTTTTAATT
11239953 TTTTTCCCCAGACTTTGGCCACTGTTAGCCATGGTGCATAGAAAAGAGTCATTGTGTTTACTACC
1 TTTTTCCCCAGACTTTGGCCACTGTTAGCCATGGTGCATAGAAAAGAGTCATTGTGTTTACTACC
* *
11240018 TTCGATCACCTCCATTTTTTCTTCCATTCTTCTATGTACCACC-ATTCAATTTTTGCGTGGCCAC
66 TTCAATCACCTCCATTTTTTCTTCCATTCTTCTATGTACCACCAATTCAATTTTTGCATGGCCAC
11240082 TCTCCCTAGAGTTTGTGTCATTCACGGCTTGGGTCCCTTAAAAAGACATGGTCCACCCCTTATTA
131 TCTCCCTAGAGTTTGTGTCATTCACGGCTTGGGTCCCTTAAAAAGACATGGTCCACCCCTTATTA
11240147 ATTACCCTGTTTGCTTCACGTAAGTTAGGTACCAT-TTTTTTTTTTTTTAATT
196 ATTACCCTGTTTGCTTCACGTAAGTTAGGTACCATCTTTTTTTTTTTTTAATT
11240199 TT
1 TT
11240201 GCATTACTTG
Statistics
Matches: 239, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
246 19 0.08
247 115 0.48
248 105 0.44
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (248 bp):
TTTTTCCCCAGACTTTGGCCACTGTTAGCCATGGTGCATAGAAAAGAGTCATTGTGTTTACTACC
TTCAATCACCTCCATTTTTTCTTCCATTCTTCTATGTACCACCAATTCAATTTTTGCATGGCCAC
TCTCCCTAGAGTTTGTGTCATTCACGGCTTGGGTCCCTTAAAAAGACATGGTCCACCCCTTATTA
ATTACCCTGTTTGCTTCACGTAAGTTAGGTACCATCTTTTTTTTTTTTTAATT
Found at i:11243510 original size:18 final size:18
Alignment explanation
Indices: 11243469--11243548 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
11243459 TTCAAGTTTT
*
11243469 ACAAAGATTTTCAAATTT
1 ACAAAGATTTTCAAATTC
*
11243487 GCAAAGATTTTCAAATTC
1 ACAAAGATTTTCAAATTC
* * * *
11243505 ATAAAG-GTTCCAAGTTC
1 ACAAAGATTTTCAAATTC
11243522 ACAAGAGA-TTT-AAATTC
1 ACAA-AGATTTTCAAATTC
11243539 AC-AAGATTTT
1 ACAAAGATTTT
11243549 TCATATTCGT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
15 3 0.06
16 4 0.08
17 18 0.37
18 24 0.49
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (18 bp):
ACAAAGATTTTCAAATTC
Found at i:11243796 original size:35 final size:34
Alignment explanation
Indices: 11243741--11243829 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 34
11243731 AATTTGCAAG
* *
11243741 AATTCATAAAAGTTTCAGATTTGC-AAGAATTGGAA
1 AATTCATAAAA-TTTTAGATTTCCTAAGAATT-GAA
*
11243776 AATTCGTAAAACTTTTAGA-TTCCTAAGAATTGAA
1 AATTCATAAAA-TTTTAGATTTCCTAAGAATTGAA
*
11243810 AATTCCTAAAATTTTGAGAT
1 AATTCATAAAATTTT-AGAT
11243830 AAAAGATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
33 4 0.09
34 19 0.41
35 23 0.50
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (34 bp):
AATTCATAAAATTTTAGATTTCCTAAGAATTGAA
Found at i:11244110 original size:46 final size:46
Alignment explanation
Indices: 11244060--11244271 Score: 164
Period size: 46 Copynumber: 4.7 Consensus size: 46
11244050 ACTTTAATAC
11244060 TTCACAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGAAT
1 TTCACAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGAAT
* * * *** * **
11244106 TTCACATCCAAAATTACAAAAATTCTCATCCAAAAAAATTTCAGGCT
1 TTCACAACCAAAATTTCAAAAATTCACAT-TTGAAAAATTTTAGAAT
*
11244153 TT--CAACCAAAATTTCAAATATTCACATTTGAAAAATTTTAGAGA-
1 TTCACAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGA-AT
* * * * * ** * **
11244197 TACACATCCAAAGTTTCGAAAGTTCTTATTCGAAAAATTCAAG-AT
1 TTCACAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGAAT
* *
11244242 TTCATAGCCAAAATTTCAAAAAATT-ACATT
1 TTCACAACCAAAATTTC-AAAAATTCACATT
11244272 AAAAGAATTA
Statistics
Matches: 122, Mismatches: 38, Indels: 13
0.71 0.22 0.08
Matches are distributed among these distances:
44 12 0.10
45 37 0.30
46 60 0.49
47 13 0.11
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (46 bp):
TTCACAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGAAT
Found at i:11244187 original size:45 final size:45
Alignment explanation
Indices: 11244064--11244187 Score: 142
Period size: 45 Copynumber: 2.7 Consensus size: 45
11244054 TAATACTTCA
*
11244064 CAACCAAAATTTCAAAAATTCACATTTG-AAAAATTTTAGAATTT
1 CAACCAAAATTTCAAAAATTCACATTTGAAAAAATTTCAGAATTT
* * *** **
11244108 CACATCCAAAATTACAAAAATTCTCATCCAAAAAAATTTCAGGCTTT
1 CA-A-CCAAAATTTCAAAAATTCACATTTGAAAAAATTTCAGAATTT
*
11244155 CAACCAAAATTTCAAATATTCACATTTGAAAAA
1 CAACCAAAATTTCAAAAATTCACATTTGAAAAA
11244188 TTTTAGAGAT
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
44 2 0.03
45 25 0.40
46 21 0.33
47 15 0.24
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (45 bp):
CAACCAAAATTTCAAAAATTCACATTTGAAAAAATTTCAGAATTT
Found at i:11244233 original size:91 final size:89
Alignment explanation
Indices: 11244064--11244271 Score: 249
Period size: 91 Copynumber: 2.3 Consensus size: 89
11244054 TAATACTTCA
*
11244064 CAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGAATTTCACATCCAAAATTACAAAAAT
1 CAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGAATTACACATCCAAAATTACAAAAAT
* *
11244129 TCTCATCCAAAAAAATTTCAGGCTTT
66 TCTCATCC-AAAAAA-TTCAAGATTT
* * * * *
11244155 CAACCAAAATTTCAAATATTCACATTTGAAAAATTTTAGAGA-TACACATCCAAAGTTTCGAAAG
1 CAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGA-ATTACACATCCAAAATTACAAAAA
* * *
11244219 TTCTTATTCGAAAAATTCAAGATTT
65 TTCTCATCCAAAAAATTCAAGATTT
11244244 CATAGCCAAAATTTCAAAAAATT-ACATT
1 CA-A-CCAAAATTTC-AAAAATTCACATT
11244272 AAAAGAATTA
Statistics
Matches: 101, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
89 10 0.10
90 6 0.06
91 78 0.77
92 7 0.07
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.31
Consensus pattern (89 bp):
CAACCAAAATTTCAAAAATTCACATTTGAAAAATTTTAGAATTACACATCCAAAATTACAAAAAT
TCTCATCCAAAAAATTCAAGATTT
Found at i:11246685 original size:14 final size:15
Alignment explanation
Indices: 11246657--11246685 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11246647 TTGGCTTACA
11246657 AAGAATTTTTCGAAC
1 AAGAATTTTTCGAAC
11246672 AAGAATTTTT-GAAC
1 AAGAATTTTTCGAAC
11246686 TTCATTGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (15 bp):
AAGAATTTTTCGAAC
Found at i:11248898 original size:17 final size:18
Alignment explanation
Indices: 11248876--11248909 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11248866 AGTTTGGTAG
11248876 AATTCAT-AAAAAATTTA
1 AATTCATGAAAAAATTTA
11248893 AATTCATGAAAAAATTT
1 AATTCATGAAAAAATTT
11248910 TAATAGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTCATGAAAAAATTTA
Found at i:11249094 original size:22 final size:22
Alignment explanation
Indices: 11249052--11249095 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11249042 TAATGAGTAA
* *
11249052 AATAATAATTAAAGATGAAAAT
1 AATAATAATAAAAGATAAAAAT
11249074 AATAATAATAATAAG-TAAAAAT
1 AATAATAATAA-AAGATAAAAAT
11249096 CTAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (22 bp):
AATAATAATAAAAGATAAAAAT
Found at i:11249118 original size:24 final size:23
Alignment explanation
Indices: 11249091--11249148 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
11249081 ATAATAAGTA
*
11249091 AAAATCTAAAAA-TAAAATGTAAAT
1 AAAATC-AAAAAGTAAAAT-AAAAT
*
11249115 AAAATAGAAAAAGTAAAATAAAAT
1 AAAAT-CAAAAAGTAAAATAAAAT
11249139 AAAATCAAAA
1 AAAATCAAAA
11249149 CAAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 19 0.66
25 6 0.21
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.19
Consensus pattern (23 bp):
AAAATCAAAAAGTAAAATAAAAT
Found at i:11249156 original size:19 final size:19
Alignment explanation
Indices: 11249134--11249181 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
11249124 AAAGTAAAAT
11249134 AAAATAAAATCAAAACAAA
1 AAAATAAAATCAAAACAAA
* * *
11249153 AAAATAGAAT-GAAAGAAA
1 AAAATAAAATCAAAACAAA
*
11249171 AAAAGAAAATC
1 AAAATAAAATC
11249182 TACAATCGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.10
Consensus pattern (19 bp):
AAAATAAAATCAAAACAAA
Found at i:11249156 original size:30 final size:30
Alignment explanation
Indices: 11249099--11249156 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11249089 TAAAAATCTA
* * *
11249099 AAAATAAAATGTAAATAAAATAGAAAAAGT
1 AAAATAAAATGAAAATAAAACAAAAAAAGT
11249129 AAAATAAAAT-AAAATCAAAACAAAAAAA
1 AAAATAAAATGAAAAT-AAAACAAAAAAA
11249157 TAGAATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (30 bp):
AAAATAAAATGAAAATAAAACAAAAAAAGT
Found at i:11249809 original size:19 final size:19
Alignment explanation
Indices: 11249762--11249800 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11249752 GACTTTTTTT
* *
11249762 TAAATAAGTAAAATTAAAA
1 TAAATAAATTAAATTAAAA
11249781 TAAATAAATTAAATTAAAA
1 TAAATAAATTAAATTAAAA
11249800 T
1 T
11249801 TGAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAATAAATTAAATTAAAA
Found at i:11250929 original size:265 final size:265
Alignment explanation
Indices: 11250423--11250956 Score: 971
Period size: 265 Copynumber: 2.0 Consensus size: 265
11250413 TTTAGTCGAA
*
11250423 TCACCCAATACCAACTCATATAAATCTTTGTAGTATAAATGATCTTCCATCATAGGTTTCTAAAT
1 TCACCCAATACCAACTCATATAAATCTTTGCAGTATAAATGATCTTCCATCATAGGTTTCTAAAT
* * *
11250488 TGAATAATTTGATACTATCAATTTTATCATAGAACCTGTATCATCCTTCATAATTTCAAATAGAA
66 TGAATAATTTGATACTATCAATTTTATCATAGAACATGTATCATCCTCCATAATTTCAAATAAAA
* * *
11250553 TTTACTTTTGTCATGGATTACTTTTGTGTCGATGTCTCAAAATAACCCTTGTTCTGATACCACTT
131 TTTACTTTTGTCATGAATTACTTTTATGTCGATGTCTCAAAATAACCCTTATTCTGATACCACTT
11250618 AGTAAGTCAAGATTTACATGAAAAACCTTTCAATGTAAAGAAAAAAAATCACAGATTACTAGAAA
196 AGTAAGTCAAGATTTACATGAAAAACCTTTCAATGTAAAGAAAAAAAATCACAGATTACTAGAAA
11250683 AATCT
261 AATCT
11250688 TCACCCAATACCAACTCATATAAATCTTTGCAGTATAAATGATCTTCCATCATAGGTTTCTAAAT
1 TCACCCAATACCAACTCATATAAATCTTTGCAGTATAAATGATCTTCCATCATAGGTTTCTAAAT
*
11250753 TGAATAATTTGATACTGTCAATTTTATCATAGAACATGTATCATCCTCCATAATTTCAAATAAAA
66 TGAATAATTTGATACTATCAATTTTATCATAGAACATGTATCATCCTCCATAATTTCAAATAAAA
11250818 TTTACTTTTGTCATGAATTACTTTTATGTCGATGTCTCAAAATAA-CCTTATTCTGATACCACTT
131 TTTACTTTTGTCATGAATTACTTTTATGTCGATGTCTCAAAATAACCCTTATTCTGATACCACTT
*
11250882 AGTAAGTCAAGATTTACATGAAAAACCTTTCAATGTAAAGAAAAAAAAATCACATATTACTAGAA
196 AGTAAGTCAAGATTTACATGAAAAACCTTTCAATGTAAAG-AAAAAAAATCACAGATTACTAGAA
11250947 AAATCT
260 AAATCT
11250953 TCAC
1 TCAC
11250957 TATCAAATAA
Statistics
Matches: 259, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
264 58 0.22
265 201 0.78
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (265 bp):
TCACCCAATACCAACTCATATAAATCTTTGCAGTATAAATGATCTTCCATCATAGGTTTCTAAAT
TGAATAATTTGATACTATCAATTTTATCATAGAACATGTATCATCCTCCATAATTTCAAATAAAA
TTTACTTTTGTCATGAATTACTTTTATGTCGATGTCTCAAAATAACCCTTATTCTGATACCACTT
AGTAAGTCAAGATTTACATGAAAAACCTTTCAATGTAAAGAAAAAAAATCACAGATTACTAGAAA
AATCT
Found at i:11253714 original size:76 final size:74
Alignment explanation
Indices: 11253588--11253739 Score: 250
Period size: 76 Copynumber: 2.0 Consensus size: 74
11253578 TGTGGGAACT
* *
11253588 TTGGTTGATGTAGGCTTAGATAAGGTATGTCCTTTCTTGTTGGAGTGTCTCTCACTTGAACCTGC
1 TTGGTTGATGTAGGCTTAGATAAGGTATGCCCTTTCTTGTTGAAGTG--TCTCACTTGAACCTGC
11253653 TGCCTGTATAA
64 TGCCTGTATAA
* *
11253664 TTGGTTGATGTATGTTTAGATAAGGTATGCCCTTTCTTGTTGAAGTGTCTCACTTGAACCTGCTG
1 TTGGTTGATGTAGGCTTAGATAAGGTATGCCCTTTCTTGTTGAAGTGTCTCACTTGAACCTGCTG
11253729 CCTGTATAA
66 CCTGTATAA
11253738 TT
1 TT
11253740 TCCTTTTTGT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 29 0.40
76 43 0.60
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (74 bp):
TTGGTTGATGTAGGCTTAGATAAGGTATGCCCTTTCTTGTTGAAGTGTCTCACTTGAACCTGCTG
CCTGTATAA
Found at i:11262590 original size:29 final size:29
Alignment explanation
Indices: 11262557--11262626 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
11262547 CAGAGCTAAT
*
11262557 TGTAACAAATAAGAACCTCAACTATAGAA
1 TGTAACAAATAAGAACCTCAACTACAGAA
* * *
11262586 TGTAACAAATAAGAACTTCAAGTACAGGA
1 TGTAACAAATAAGAACCTCAACTACAGAA
*
11262615 TGTATCAAATAA
1 TGTAACAAATAA
11262627 AAATTTTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
TGTAACAAATAAGAACCTCAACTACAGAA
Found at i:11264845 original size:21 final size:22
Alignment explanation
Indices: 11264817--11264857 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11264807 GGTATATATT
11264817 TTAGGGTTTAGGATTTAGGTTT
1 TTAGGGTTTAGGATTTAGGTTT
*
11264839 TTA-GGTTTAGGGTTTAGGT
1 TTAGGGTTTAGGATTTAGGT
11264858 AAAATGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (22 bp):
TTAGGGTTTAGGATTTAGGTTT
Found at i:11265538 original size:134 final size:134
Alignment explanation
Indices: 11265395--11265663 Score: 493
Period size: 134 Copynumber: 2.0 Consensus size: 134
11265385 ATATATATAT
11265395 ATATATGAACTTATAATTTAATCACCACAAAACAACTTTTAAAAGCAAGAAAAACATCGATAAAA
1 ATATATGAACTTATAATTTAATCACCACAAAACAACTTTTAAAAGCAAGAAAAACATCGATAAAA
* * *
11265460 GACCAAAAGAGGTTTGGCCATGGTGAAGCAAGGTTGGTCGAACCTCCAAAGGCCAAAAATGGTGG
66 GACCAAAAGAGGTTTGGCCATGGTGAAGCAAGGTTGGCCAAACCTCCAAAGGCAAAAAATGGTGG
11265525 ATTA
131 ATTA
*
11265529 ATATATGAACTTATAATTTAATCACCACAAAACAACTTTTAAAAGTAAGAAAAACATCGATAAAA
1 ATATATGAACTTATAATTTAATCACCACAAAACAACTTTTAAAAGCAAGAAAAACATCGATAAAA
*
11265594 GACCAAAAGAGGTTTGGCCTTGGTGAAGCAAGGTTGGCCAAACCTCCAAAGGCAAAAAATGGTGG
66 GACCAAAAGAGGTTTGGCCATGGTGAAGCAAGGTTGGCCAAACCTCCAAAGGCAAAAAATGGTGG
11265659 ATTA
131 ATTA
11265663 A
1 A
11265664 ATTTTTTTTT
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (134 bp):
ATATATGAACTTATAATTTAATCACCACAAAACAACTTTTAAAAGCAAGAAAAACATCGATAAAA
GACCAAAAGAGGTTTGGCCATGGTGAAGCAAGGTTGGCCAAACCTCCAAAGGCAAAAAATGGTGG
ATTA
Found at i:11269163 original size:12 final size:11
Alignment explanation
Indices: 11269146--11269187 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 11
11269136 AATGCCTCTA
11269146 CCTTTATTTATG
1 CCTTTATTT-TG
11269158 CCTTTACTTTTG
1 CCTTTA-TTTTG
11269170 CCTTTATTTTTG
1 CCTTTA-TTTTG
11269182 CCTTTA
1 CCTTTA
11269188 CTTGTATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 25 0.89
13 3 0.11
ACGTcount: A:0.12, C:0.21, G:0.07, T:0.60
Consensus pattern (11 bp):
CCTTTATTTTG
Found at i:11270298 original size:19 final size:19
Alignment explanation
Indices: 11270270--11270309 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11270260 TAACAACTTA
11270270 AATCACGATTCATATCTCT
1 AATCACGATTCATATCTCT
* *
11270289 AATCATGATTTATATCTCT
1 AATCACGATTCATATCTCT
11270308 AA
1 AA
11270310 ACCAAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (19 bp):
AATCACGATTCATATCTCT
Found at i:11272068 original size:10 final size:10
Alignment explanation
Indices: 11272053--11272082 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
11272043 TATCCGTACC
11272053 TTATATATAT
1 TTATATATAT
11272063 TTATATATAT
1 TTATATATAT
11272073 TTAGTATATA
1 TTA-TATATA
11272083 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
TTATATATAT
Found at i:11281349 original size:4 final size:4
Alignment explanation
Indices: 11281340--11281398 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
11281330 ATTGGTGGAT
* * * * *
11281340 ATAC ATAC ATAC ATAC ATAC ATAC GTAC GTAC GTAC GTAC GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
11281388 ATAC GTAC ATA
1 ATAC ATAC ATA
11281399 TGAGAGTGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:11281357 original size:12 final size:12
Alignment explanation
Indices: 11281340--11281398 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
11281330 ATTGGTGGAT
*
11281340 ATACATACATAC
1 ATACGTACATAC
*
11281352 ATACATACATAC
1 ATACGTACATAC
* *
11281364 GTACGTACGTAC
1 ATACGTACATAC
*
11281376 GTACGTACATAC
1 ATACGTACATAC
11281388 ATACGTACATA
1 ATACGTACATA
11281399 TGAGAGTGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (12 bp):
ATACGTACATAC
Found at i:11285880 original size:12 final size:13
Alignment explanation
Indices: 11285863--11285894 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11285853 GGTTTACAAG
11285863 AATAAATAAATA-
1 AATAAATAAATAC
11285875 AATAAAT-AATAC
1 AATAAATAAATAC
11285887 AATAAATA
1 AATAAATA
11285895 GAAAATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (13 bp):
AATAAATAAATAC
Found at i:11287083 original size:16 final size:16
Alignment explanation
Indices: 11287062--11287099 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
11287052 AGAGATAATT
* *
11287062 AAATAATTTTATTCAA
1 AAATAATTTTAATAAA
11287078 AAATAATTTTAATAAA
1 AAATAATTTTAATAAA
11287094 AAATAA
1 AAATAA
11287100 AAGGGATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATAATTTTAATAAA
Found at i:11287554 original size:18 final size:18
Alignment explanation
Indices: 11287527--11287581 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
11287517 ATAAAATATA
11287527 ATTTAATAATTTTAAATT
1 ATTTAATAATTTTAAATT
* *
11287545 ATTTATTAATTTTATAAAT
1 ATTTAATAATTTTA-AATT
* *
11287564 ATTAAATAATTTAAAATT
1 ATTTAATAATTTTAAATT
11287582 TTCTTTATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTAATAATTTTAAATT
Found at i:11287568 original size:27 final size:26
Alignment explanation
Indices: 11287525--11287576 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
11287515 ATATAAAATA
* *
11287525 TAATTTAATAATTTTAAATTATTTAT
1 TAATTTAATAATATTAAATAATTTAT
*
11287551 TAATTTTATAAATATTAAATAATTTA
1 TAATTTAAT-AATATTAAATAATTTA
11287577 AAATTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TAATTTAATAATATTAAATAATTTAT
Found at i:11288172 original size:22 final size:21
Alignment explanation
Indices: 11288147--11288188 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11288137 AATAACAATA
11288147 AAATATCA-AATATATATTTTTT
1 AAAT-TCATAATA-ATATTTTTT
*
11288169 AAATTGATAATAATATTTTT
1 AAATTCATAATAATATTTTT
11288189 GGACAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
AAATTCATAATAATATTTTTT
Found at i:11288407 original size:21 final size:20
Alignment explanation
Indices: 11288383--11288435 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
11288373 TTAAAAAAAG
11288383 TTTTAGAATTTATAAAACTCT
1 TTTTAGAATTT-TAAAACTCT
* *
11288404 TTTT-GAATTTTAAAATTTT
1 TTTTAGAATTTTAAAACTCT
11288423 TTTATAGAATTTT
1 TTT-TAGAATTTT
11288436 TTAAGAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.36
20 7 0.25
21 11 0.39
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTAGAATTTTAAAACTCT
Found at i:11288532 original size:19 final size:17
Alignment explanation
Indices: 11288491--11288535 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
11288481 AAAAATTTTT
11288491 TTTTTTAAATTTTTGAA
1 TTTTTTAAATTTTTGAA
**
11288508 AATTTTAAAGTTTTTTGAA
1 TTTTTTAAA--TTTTTGAA
11288527 TTTTTTAAA
1 TTTTTTAAA
11288536 ATTGTGTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
TTTTTTAAATTTTTGAA
Found at i:11288622 original size:7 final size:7
Alignment explanation
Indices: 11288612--11288649 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
11288602 TATTTTTTAT
11288612 TTTAAAA
1 TTTAAAA
11288619 TTTAAAA
1 TTTAAAA
11288626 TTTAAAA
1 TTTAAAA
11288633 TTTAAAA
1 TTTAAAA
11288640 TTTAAAA
1 TTTAAAA
11288647 TTT
1 TTT
11288650 TTCAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTTAAAA
Found at i:11288688 original size:20 final size:18
Alignment explanation
Indices: 11288636--11288698 Score: 72
Period size: 20 Copynumber: 3.3 Consensus size: 18
11288626 TTTAAAATTT
*
11288636 AAAATTTAAAATTTTTCA
1 AAAATTTAAAATTTTTTA
*
11288654 AAAATTTGCAGAATTTTTTA
1 AAAATTT--AAAATTTTTTA
11288674 GAAAATTTAAAAATTTTTTA
1 -AAAATTT-AAAATTTTTTA
11288694 AAAAT
1 AAAAT
11288699 CTGTTAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 7 0.18
19 5 0.13
20 19 0.50
21 7 0.18
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (18 bp):
AAAATTTAAAATTTTTTA
Found at i:11288695 original size:11 final size:11
Alignment explanation
Indices: 11288679--11288771 Score: 50
Period size: 11 Copynumber: 8.6 Consensus size: 11
11288669 TTTTAGAAAA
11288679 TTTAAAAATTT
1 TTTAAAAATTT
*
11288690 TTTAAAAATCT
1 TTTAAAAATTT
* * *
11288701 GTT--AGATAT
1 TTTAAAAATTT
11288710 TTTAAAATATTT
1 TTTAAAA-ATTT
* *
11288722 TTT-GAAATAT
1 TTTAAAAATTT
*
11288732 TTTAAAAAATT
1 TTTAAAAATTT
*
11288743 TTT-AAAATAAT
1 TTTAAAAAT-TT
**
11288754 TTTAAAGTTTT
1 TTTAAAAATTT
11288765 TTTAAAA
1 TTTAAAA
11288772 GTTTCTTTTT
Statistics
Matches: 58, Mismatches: 18, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
9 6 0.10
10 10 0.17
11 33 0.57
12 9 0.16
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (11 bp):
TTTAAAAATTT
Found at i:11288713 original size:40 final size:38
Alignment explanation
Indices: 11288636--11288721 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 38
11288626 TTTAAAATTT
* *
11288636 AAAATTTAAAATTTTTCAAAAATTTGCAGAATTTTTTA
1 AAAATTTAAAATTTTTCAAAAATCTGCAGAATATTTTA
* *
11288674 GAAAATTTAAAAATTTTTTAAAAATCTGTTAG-ATATTTTA
1 -AAAATTT-AAAATTTTTCAAAAATCTG-CAGAATATTTTA
11288714 AAATATTT
1 AAA-ATTT
11288722 TTTGAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 10 0.25
40 28 0.70
41 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (38 bp):
AAAATTTAAAATTTTTCAAAAATCTGCAGAATATTTTA
Found at i:11288729 original size:12 final size:12
Alignment explanation
Indices: 11288709--11288771 Score: 55
Period size: 11 Copynumber: 5.7 Consensus size: 12
11288699 CTGTTAGATA
11288709 TTTTAAAATATT
1 TTTTAAAATATT
*
11288721 TTTTGAAATA--
1 TTTTAAAATATT
*
11288731 TTTTAAAA-AAT
1 TTTTAAAATATT
*
11288742 TTTTAAAATA-A
1 TTTTAAAATATT
*
11288753 TTTTAAAGT-TT
1 TTTTAAAATATT
11288764 TTTTAAAA
1 TTTTAAAA
11288772 GTTTCTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
9 1 0.02
10 7 0.17
11 23 0.56
12 10 0.24
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (12 bp):
TTTTAAAATATT
Found at i:11288731 original size:22 final size:22
Alignment explanation
Indices: 11288706--11288771 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
11288696 AATCTGTTAG
*
11288706 ATATTTTAAAATATTTTTTGAA
1 ATATTTTAAAATATTTTTTAAA
*
11288728 ATATTTTAAAA-AATTTTTAAA
1 ATATTTTAAAATATTTTTTAAA
*
11288749 ATAATTTTAAAGT-TTTTTTAAA
1 AT-ATTTTAAAATATTTTTTAAA
11288771 A
1 A
11288772 GTTTCTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.26
22 28 0.74
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
ATATTTTAAAATATTTTTTAAA
Found at i:11289164 original size:20 final size:19
Alignment explanation
Indices: 11289125--11289189 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
11289115 TTATTATATT
11289125 TTAATTAAATAAAATCAAA
1 TTAATTAAATAAAATCAAA
11289144 TTAATTGAAA-AAAACTCAAA
1 TTAATT-AAATAAAA-TCAAA
* *
11289164 -TAA-AAAATAAACT-AAA
1 TTAATTAAATAAAATCAAA
*
11289180 ATAATTAAAT
1 TTAATTAAAT
11289190 TAATTTCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
16 3 0.08
17 7 0.18
18 7 0.18
19 13 0.34
20 8 0.21
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.28
Consensus pattern (19 bp):
TTAATTAAATAAAATCAAA
Found at i:11299348 original size:17 final size:17
Alignment explanation
Indices: 11299314--11299365 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
11299304 CATCATTGTG
11299314 GTTATTTTTATGAATTGA
1 GTTATTTTT-TGAATTGA
11299332 GTTATTTTTT-AATTTGA
1 GTTATTTTTTGAA-TTGA
*
11299349 TTTATGTTTTTTGAATT
1 GTTA--TTTTTTGAATT
11299366 TTGTTAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.07
17 8 0.28
18 9 0.31
19 8 0.28
20 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.63
Consensus pattern (17 bp):
GTTATTTTTTGAATTGA
Found at i:11305884 original size:21 final size:20
Alignment explanation
Indices: 11305839--11305885 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
11305829 CCTTTTACAT
*
11305839 AAATTGTATAAAAAATCCTCT
1 AAATTGTATAAAAAAT-CTCA
11305860 AAATTGGTATAAAAATAT-TCA
1 AAATT-GTATAAAAA-ATCTCA
11305881 AAATT
1 AAATT
11305886 TTTTAATGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 12 0.52
22 9 0.39
23 2 0.09
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (20 bp):
AAATTGTATAAAAAATCTCA
Found at i:11306788 original size:19 final size:21
Alignment explanation
Indices: 11306750--11306789 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
11306740 AGTTTTATTG
*
11306750 TAATTAAACTCATAGCAACAA
1 TAATTAAACACATAGCAACAA
11306771 TAATT-AACACAT-GCAACAA
1 TAATTAAACACATAGCAACAA
11306790 AGTCTCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.23
Consensus pattern (21 bp):
TAATTAAACACATAGCAACAA
Found at i:11308231 original size:19 final size:19
Alignment explanation
Indices: 11308164--11308231 Score: 50
Period size: 18 Copynumber: 3.5 Consensus size: 19
11308154 TAAAATATTT
*
11308164 AAATATGTTTAAAC-ATAA
1 AAATATGTTTTAACTATAA
* ** *
11308182 ACATATGTAATAGCTAATAA
1 AAATATGTTTTAACT-ATAA
11308202 CAAATGA-GTTTTAACTATAA
1 -AAAT-ATGTTTTAACTATAA
11308222 AAATATGTTT
1 AAATATGTTT
11308232 AAACACTAGC
Statistics
Matches: 36, Mismatches: 9, Indels: 9
0.67 0.17 0.17
Matches are distributed among these distances:
18 10 0.28
19 8 0.22
20 8 0.22
21 9 0.25
22 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (19 bp):
AAATATGTTTTAACTATAA
Found at i:11308824 original size:83 final size:83
Alignment explanation
Indices: 11308731--11308897 Score: 248
Period size: 83 Copynumber: 2.0 Consensus size: 83
11308721 AATAGTAGCG
** * * *
11308731 AAATTTTAAAAATTTTCAACTCTCC-AAAGTCAAGATCAATTAAGAAGA-CTATGCAAACATGAG
1 AAATTTTAAAAATTTTCAACTC-CCTAAAACCAAGATCAATCAACAAGATC-ATGCAAACATGAA
11308794 AAGTAATTTCAGCTAGGAGC
64 AAGTAATTTCAGCTAGGAGC
11308814 AAATTTTAAAAATTTTCAACTCCCTAAAACCAAGATCAATCAACAAGATCATGCAAACATGAAAA
1 AAATTTTAAAAATTTTCAACTCCCTAAAACCAAGATCAATCAACAAGATCATGCAAACATGAAAA
*
11308879 GTAGTTTCAGCTAGGAGC
66 GTAATTTCAGCTAGGAGC
11308897 A
1 A
11308898 TATTACCTCT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
82 2 0.03
83 73 0.96
84 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (83 bp):
AAATTTTAAAAATTTTCAACTCCCTAAAACCAAGATCAATCAACAAGATCATGCAAACATGAAAA
GTAATTTCAGCTAGGAGC
Found at i:11313647 original size:17 final size:19
Alignment explanation
Indices: 11313614--11313653 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
11313604 AGGCTCTGAA
*
11313614 GGTTGGTTTTAGAGTTT-G
1 GGTTGGTTTAAGAGTTTAG
11313632 GGTTGGTTTAAG-GTTTAG
1 GGTTGGTTTAAGAGTTTAG
11313650 GGTT
1 GGTT
11313654 TAATATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.47
Consensus pattern (19 bp):
GGTTGGTTTAAGAGTTTAG
Found at i:11313648 original size:7 final size:7
Alignment explanation
Indices: 11313636--11313741 Score: 98
Period size: 7 Copynumber: 15.7 Consensus size: 7
11313626 AGTTTGGGTT
11313636 GGTTTAA
1 GGTTTAA
*
11313643 GGTTTAG
1 GGTTTAA
11313650 GGTTTAA
1 GGTTTAA
11313657 --TATTAA
1 GGT-TTAA
11313663 GGTTTAA
1 GGTTTAA
11313670 GGTTTAA
1 GGTTTAA
*
11313677 GG-TTAG
1 GGTTTAA
*
11313683 GGTTTAG
1 GGTTTAA
11313690 GGTTTAA
1 GGTTTAA
*
11313697 GGTTAAA
1 GGTTTAA
11313704 GGTTTAA
1 GGTTTAA
11313711 --TTT-A
1 GGTTTAA
11313715 GGATTTAA
1 GG-TTTAA
* *
11313723 GATTTGA
1 GGTTTAA
11313730 GGTTTAA
1 GGTTTAA
11313737 GGTTT
1 GGTTT
11313742 CGGGTTTCAT
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
4 1 0.01
5 4 0.05
6 9 0.11
7 64 0.79
8 3 0.04
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
GGTTTAA
Found at i:11313664 original size:20 final size:20
Alignment explanation
Indices: 11313639--11313709 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
11313629 TTGGGTTGGT
*
11313639 TTAAGGTTTAGGGTTTAATA
1 TTAAGGTTTAGGGTTTAAGA
* *
11313659 TTAAGGTTTAAGGTTTAAGG
1 TTAAGGTTTAGGGTTTAAGA
* *
11313679 TTAGGGTTTAGGGTTTAAGG
1 TTAAGGTTTAGGGTTTAAGA
11313699 TTAAAGGTTTA
1 TT-AAGGTTTA
11313710 ATTTAGGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 37 0.84
21 7 0.16
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (20 bp):
TTAAGGTTTAGGGTTTAAGA
Found at i:11313732 original size:26 final size:26
Alignment explanation
Indices: 11313685--11313736 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11313675 AAGGTTAGGG
* *
11313685 TTTAGGGTTTAAGGTTAAAGGTTTAA
1 TTTAGGATTTAAGATTAAAGGTTTAA
**
11313711 TTTAGGATTTAAGATTTGAGGTTTAA
1 TTTAGGATTTAAGATTAAAGGTTTAA
11313737 GGTTTCGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (26 bp):
TTTAGGATTTAAGATTAAAGGTTTAA
Found at i:11314773 original size:17 final size:18
Alignment explanation
Indices: 11314751--11314786 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
11314741 ACTACCAAGA
11314751 TTTTTTTTT-CTT-TCTT
1 TTTTTTTTTCCTTATCTT
11314767 TTTTTTTTTCCTTATCTT
1 TTTTTTTTTCCTTATCTT
11314785 TT
1 TT
11314787 CTTTCCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 3 0.17
18 6 0.33
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTCCTTATCTT
Found at i:11314816 original size:31 final size:32
Alignment explanation
Indices: 11314776--11314835 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 32
11314766 TTTTTTTTTT
*
11314776 CCTTATCTTTTCTTTCCTCTATTTTCTATTTC
1 CCTTATCTTTTCTCTCCTCTATTTTCTATTTC
11314808 CCTT-TCTTTTCTCTCCTCTATTTTCTAT
1 CCTTATCTTTTCTCTCCTCTATTTTCTAT
11314836 CTTTCCAGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (32 bp):
CCTTATCTTTTCTCTCCTCTATTTTCTATTTC
Found at i:11315882 original size:20 final size:20
Alignment explanation
Indices: 11315840--11315895 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
11315830 TGTGACTAAG
* **
11315840 TTTGACCAATTTTGACTTTA
1 TTTGACCAAGTTTGACTAGA
*
11315860 TTTGACCAAGTTTGGCTAGA
1 TTTGACCAAGTTTGACTAGA
*
11315880 TTTGATCAAG-TTGACT
1 TTTGACCAAGTTTGACT
11315896 TTAAGGCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
TTTGACCAAGTTTGACTAGA
Found at i:11316531 original size:31 final size:31
Alignment explanation
Indices: 11316344--11316561 Score: 91
Period size: 31 Copynumber: 7.0 Consensus size: 31
11316334 AAAAATCTTT
* * * *
11316344 TTTTGTGCTAGCT-AATCTAGGTTTAATTTTC
1 TTTTATGCTAGCTAAAT-TGGGCTTAATTCTC
* * * * *
11316375 CTTTATGCTAGGTAGATTGGGCTTAATTTTT
1 TTTTATGCTAGCTAAATTGGGCTTAATTCTC
* * * * *
11316406 TTTTGTGTTAGCTAGATTGAGCTTAAATCT-
1 TTTTATGCTAGCTAAATTGGGCTTAATTCTC
* * * * *
11316436 TTATAGCTGCCAGCTAAACTAGACTTAATTCT-
1 TTTTA--TGCTAGCTAAATTGGGCTTAATTCTC
* * * ** * *
11316468 TCTTAGTGCCAGCTAAACTAAGTTTAAATCTC
1 TTTTA-TGCTAGCTAAATTGGGCTTAATTCTC
*
11316500 TTTTATGCTAGCTAAATTGGGCTTATTTCTC
1 TTTTATGCTAGCTAAATTGGGCTTAATTCTC
* * * * *
11316531 TTTTGTGTTTGTTAGATTGGGCTTAATTCTC
1 TTTTATGCTAGCTAAATTGGGCTTAATTCTC
11316562 CTCAGTGCCA
Statistics
Matches: 138, Mismatches: 45, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
30 3 0.02
31 109 0.79
32 26 0.19
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.45
Consensus pattern (31 bp):
TTTTATGCTAGCTAAATTGGGCTTAATTCTC
Found at i:11316634 original size:125 final size:124
Alignment explanation
Indices: 11316342--11316638 Score: 321
Period size: 125 Copynumber: 2.4 Consensus size: 124
11316332 TTAAAAATCT
* * * * * *
11316342 TTTTTTGTGCTAGCTAATCTAGGTTTAATTTTCCTTTATGCTAGGTAGATTGGGCTTAATTTTTT
1 TTTTTTGTGCCAGCTAAACTAGGTTTAATTCTCC-TTATGCTAGCTAAATTGGGCTTAATTTTCT
* * *
11316407 TTTGTGTTAGCTAGATTGAGCTTAAATCTTTATAGCTGCCAGCTAAACTAGACTTAATTC
65 TTTGTGTTAGCTAGATTGAGCTTAAATCTCTACAGCTGCCAACTAAACTAGACTTAATTC
* * * * *
11316467 TTCTTAGTGCCAGCTAAACTAAGTTTAAATCTCTTTTATGCTAGCTAAATTGGGCTT-ATTTCTC
1 TTTTTTGTGCCAGCTAAACTAGGTTTAATTCTC-CTTATGCTAGCTAAATTGGGCTTAATTT-TC
* * * * * *
11316531 TTTTGTGTTTGTTAGATTGGGCTTAATTCTCCT-CAG-TGCCAATTAAACTAGGCTTAATTC
64 TTTTGTGTTAGCTAGATTGAGCTTAAATCT-CTACAGCTGCCAACTAAACTAGACTTAATTC
* *
11316591 TTTTTTGTGCCAGCAAAACTAGGTTTAATTCTCCATAGGTGCTAGCTA
1 TTTTTTGTGCCAGCTAAACTAGGTTTAATTCTCCTTA--TGCTAGCTA
11316639 GACTAGCTTA
Statistics
Matches: 140, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
123 2 0.01
124 53 0.38
125 84 0.60
126 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (124 bp):
TTTTTTGTGCCAGCTAAACTAGGTTTAATTCTCCTTATGCTAGCTAAATTGGGCTTAATTTTCTT
TTGTGTTAGCTAGATTGAGCTTAAATCTCTACAGCTGCCAACTAAACTAGACTTAATTC
Found at i:11316940 original size:11 final size:11
Alignment explanation
Indices: 11316920--11316953 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
11316910 TAGCATTCTC
*
11316920 TTTTCTTTTTT
1 TTTTCCTTTTT
11316931 TTTTCCTTTTT
1 TTTTCCTTTTT
11316942 TTTT-CTTTTT
1 TTTTCCTTTTT
11316952 TT
1 TT
11316954 GACACTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTCCTTTTT
Found at i:11320473 original size:37 final size:37
Alignment explanation
Indices: 11320362--11320560 Score: 161
Period size: 37 Copynumber: 5.4 Consensus size: 37
11320352 AAATTGACAC
* * * ** *
11320362 TATC-ATTAAGATATGCAATGTGATGAAATACATGTAC
1 TATCTATTAAGATATGC-ATGAGATGGAATGCACATAT
* * * * * *
11320399 TATCTATTAAGTTGTGCATGAAATAGAATACATATAT
1 TATCTATTAAGATATGCATGAGATGGAATGCACATAT
*
11320436 TATCTATTAAGATATGTATGAGATGGAATGCACATAT
1 TATCTATTAAGATATGCATGAGATGGAATGCACATAT
* * * *
11320473 TATCTATCAAGATGTGCATGA-ATGGAATGCTCATAC
1 TATCTATTAAGATATGCATGAGATGGAATGCACATAT
* * *
11320509 TATCTATCAAGATATGCATGAGA-GAGAGTGCATATAT
1 TATCTATTAAGATATGCATGAGATG-GAATGCACATAT
11320546 GTATCTTATTAAGAT
1 -TATC-TATTAAGAT
11320561 GTACATGACA
Statistics
Matches: 131, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
36 34 0.26
37 75 0.57
38 14 0.11
39 8 0.06
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (37 bp):
TATCTATTAAGATATGCATGAGATGGAATGCACATAT
Found at i:11320530 original size:73 final size:74
Alignment explanation
Indices: 11320399--11320574 Score: 196
Period size: 73 Copynumber: 2.4 Consensus size: 74
11320389 ATACATGTAC
* * * *
11320399 TATCTATTAAGTTGTGCATGAAATAGAATACATATATTATCTATTAAGATATGTATGAGATG-GA
1 TATCTATTAAGATGTGCATG-AATAGAATACATATACTATCTATCAAGATATGCATGAGA-GAGA
11320463 ATGCACATAT-
64 ATGCACATATG
* * * *
11320473 TATCTATCAAGATGTGCATGAATGGAATGC-TCATACTATCTATCAAGATATGCATGAGAGAGAG
1 TATCTATTAAGATGTGCATGAATAGAATACAT-ATACTATCTATCAAGATATGCATGAGAGAGAA
*
11320537 TGCATATATG
65 TGCACATATG
*
11320547 TATCTTATTAAGATGTACATGACATAGA
1 TATC-TATTAAGATGTGCATGA-ATAGA
11320575 GGCATGTACC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
72 2 0.02
73 42 0.49
74 22 0.26
75 15 0.18
76 4 0.05
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (74 bp):
TATCTATTAAGATGTGCATGAATAGAATACATATACTATCTATCAAGATATGCATGAGAGAGAAT
GCACATATG
Found at i:11320673 original size:43 final size:42
Alignment explanation
Indices: 11320626--11320734 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 42
11320616 AGGCTCACAA
* **
11320626 ACTTTGAAAAATAAATAAGGCTCCTCTAAACAGAGGTTTAATG
1 ACTTTGAAAAATAAATAAAGCTCCTCTAAACAGA-GACTAATG
* ** *
11320669 ACTTTTGAAAAATAAATAATGCTCCTCTAAGTAGAGACTCATG
1 AC-TTTGAAAAATAAATAAAGCTCCTCTAAACAGAGACTAATG
*
11320712 ACTTTAAAAAATAAATAAAGCTC
1 ACTTTGAAAAATAAATAAAGCTC
11320735 ATCGACAATC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 19 0.33
43 9 0.16
44 29 0.51
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (42 bp):
ACTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGACTAATG
Found at i:11329383 original size:25 final size:25
Alignment explanation
Indices: 11329355--11329462 Score: 116
Period size: 25 Copynumber: 4.5 Consensus size: 25
11329345 GCCTCTTAAT
11329355 CAGAACAAGGTTCTAGTCTACTAAA
1 CAGAACAAGGTTCTAGTCTACTAAA
* *
11329380 CAGAACAAGGGTCTAGTCTACTAAT
1 CAGAACAAGGTTCTAGTCTACTAAA
* * * *
11329405 CAGAACAAGG-GCTGGCCT-CCAAA
1 CAGAACAAGGTTCTAGTCTACTAAA
* *
11329428 -AGAA-TAGGTTCTAGTCTACTAAT
1 CAGAACAAGGTTCTAGTCTACTAAA
11329451 CAGAACAAGGTT
1 CAGAACAAGGTT
11329463 TGAGAGTTCG
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
21 3 0.05
22 9 0.14
23 6 0.09
24 9 0.14
25 38 0.58
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (25 bp):
CAGAACAAGGTTCTAGTCTACTAAA
Found at i:11333221 original size:27 final size:29
Alignment explanation
Indices: 11333161--11333222 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
11333151 ATATTTTAAC
* *
11333161 ATAATACTTGAATTTTGAAAATCTCTAAT
1 ATAATACTTGAATTATGAAAATATCTAAT
11333190 ATAATACTTGAATTAT-AAATATAT-TAAT
1 ATAATACTTGAATTATGAAA-ATATCTAAT
11333218 -TAATA
1 ATAATA
11333223 TGGTACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 7 0.23
29 18 0.60
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (29 bp):
ATAATACTTGAATTATGAAAATATCTAAT
Found at i:11334277 original size:28 final size:29
Alignment explanation
Indices: 11334246--11334317 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 29
11334236 AATTAATAAA
*
11334246 TTTATAATTTAAATATCACATTAGATA-T
1 TTTATAATTTAAATATCACATTAAATATT
* *
11334274 TTTA-AAGTTCAAGTATCACATTAAATATT
1 TTTATAA-TTTAAATATCACATTAAATATT
11334303 TCATTATAATTTAAA
1 T--TTATAATTTAAA
11334318 GATTATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 2 0.06
28 21 0.62
29 2 0.06
31 7 0.21
32 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (29 bp):
TTTATAATTTAAATATCACATTAAATATT
Found at i:11334774 original size:27 final size:27
Alignment explanation
Indices: 11334706--11334774 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
11334696 GTTTTGCTAG
11334706 TAATAAATAATA-TTTTAAAATTACTA
1 TAATAAATAATATTTTTAAAATTACTA
**
11334732 TAAT-AATTTTATTTTTTAAAATTACTA
1 TAATAAATAATA-TTTTTAAAATTACTA
11334759 TAATAAATAATATTTT
1 TAATAAATAATATTTT
11334775 CATTCAGTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 5 0.14
26 4 0.11
27 22 0.61
28 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
TAATAAATAATATTTTTAAAATTACTA
Found at i:11336512 original size:200 final size:200
Alignment explanation
Indices: 11336078--11336513 Score: 445
Period size: 200 Copynumber: 2.2 Consensus size: 200
11336068 TTATCATACT
* * * *
11336078 TCTAATAAATATCTAATTTTTTGTAGTCTTATATTCAAGTTAGGTCTCTACACTTACTACTAATT
1 TCTAATAAATATCTAATTTTTTATAGTCTTATATTCAAGTTAGGCCCCTACACTTAC-ACTAATA
* * * *
11336143 GGTTTTAGGTTGGATGTTTAATATGGTATTAGAGCTAAGATTGCCTTCCTGTTGCCCTTTTCAAA
65 GGTTTTAGGTTGGATGCTTAATATGATATTAGAGCTAAGATTGCCTTCCTGTTGACATTTTCAAA
* * * * *
11336208 TTTGTCACGTGATAGGTTTTCTTCATCTCCACCTACACGCGAGGGGGGCCTGCGAAAGTGGTAAT
130 TTTGTCACATGATAGCTTTTCTTCACCTCCACCTACACGCGAGAGGGG-CTACGAAAGTGGTAAT
11336273 ATCCACA
194 ATCCACA
* ** * **
11336280 TATAATAAATATCTAATTTTCAATAGTCTTATATTTAAGTTAGGCCCCTTTACTTAGC-C-AATA
1 TCTAATAAATATCTAATTTTTTATAGTCTTATATTCAAGTTAGGCCCCTACACTTA-CACTAATA
* * *
11336343 GGTTTTAGGTTGGATGCTTAATATGATATTAGAGCTAGGATTTCCTT-TTGTT-ACATTTTCCAA
65 GGTTTTAGGTTGGATGCTTAATATGATATTAGAGCTAAGATTGCCTTCCTGTTGACATTTT-CAA
* * * * * *
11336406 ATTTGTCTCATGATAAGCTTTT-TTCACCTCTACTTACACGTGATATGGG-TACGTTAAAAG-GG
129 ATTTGTCACATGAT-AGCTTTTCTTCACCTCCACCTACACGCGAGAGGGGCTACG---AAAGTGG
**
11336468 TGCTATTCCACA
190 TAATA-TCCACA
* * *
11336480 TCTAATAATTATCTAATTTTTTCTAATCTTATAT
1 TCTAATAAATATCTAATTTTTTATAGTCTTATAT
11336514 GAAAATTGGG
Statistics
Matches: 191, Mismatches: 36, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
197 3 0.02
198 5 0.03
199 44 0.23
200 90 0.47
201 1 0.01
202 47 0.25
203 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.41
Consensus pattern (200 bp):
TCTAATAAATATCTAATTTTTTATAGTCTTATATTCAAGTTAGGCCCCTACACTTACACTAATAG
GTTTTAGGTTGGATGCTTAATATGATATTAGAGCTAAGATTGCCTTCCTGTTGACATTTTCAAAT
TTGTCACATGATAGCTTTTCTTCACCTCCACCTACACGCGAGAGGGGCTACGAAAGTGGTAATAT
CCACA
Found at i:11338997 original size:61 final size:62
Alignment explanation
Indices: 11338917--11339040 Score: 155
Period size: 62 Copynumber: 2.0 Consensus size: 62
11338907 AATTTAAAGA
*
11338917 GATTATTGAATGTGTTTTTTACCT-G-AAACACCATCAATAATCCCCTCAT-AAAAATGGAAGG
1 GATTATTGAATGCGTTTTTT-CCTAGAAAACACCATCAATAATCCCCTCATAAAAAAT-GAAGG
** ** *
11338978 GATTATTGAATGCGTTTTTTTGTAGAAAACACTTTCAATAATCCTCTCATAAAAAATGAAGG
1 GATTATTGAATGCGTTTTTTCCTAGAAAACACCATCAATAATCCCCTCATAAAAAATGAAGG
11339040 G
1 G
11339041 GATTTTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
60 1 0.02
61 20 0.37
62 27 0.50
63 6 0.11
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (62 bp):
GATTATTGAATGCGTTTTTTCCTAGAAAACACCATCAATAATCCCCTCATAAAAAATGAAGG
Found at i:11339090 original size:136 final size:136
Alignment explanation
Indices: 11338950--11339196 Score: 297
Period size: 136 Copynumber: 1.8 Consensus size: 136
11338940 TGAAACACCA
* *
11338950 TCAATAATCCCCTCAT-AAAAATGGAAGG-GATTATTGAATGCGT-TTTTTTGT-AGAAAACACT
1 TCAATAAT-CCCTCATAAAAAATGGAAGGAGATTATTGAA-G-GTATTTTTTATCA-AAAACACC
* *
11339011 TTCAATAATC-CTCTCATAAAAAATGAAGGGGATTTTTTAAGGCTTTTTTTTTTTTTTTTTTTAC
62 TTCAATAATCTCT-TCATAAAAAATGAAGGGGATTATTAAAGGCTTTTTTTTTTTTTTTTTTTAC
11339075 AAAAAAGGCCT
126 AAAAAAGGCCT
** ** * *
11339086 TCAATAATCTTTTTTAAAAAATTGAAGGAGATTATTGAAGGTATTTTTTATCAAAAATACCTTCA
1 TCAATAATCCCTCATAAAAAATGGAAGGAGATTATTGAAGGTATTTTTTATCAAAAACACCTTCA
* * *
11339151 ATAATCTCTTCATCAAAATTTAAGGGGATTATTAAAGGCTTTTTTT
66 ATAATCTCTTCATAAAAAATGAAGGGGATTATTAAAGGCTTTTTTT
11339197 GCCTGAAATA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
135 5 0.05
136 75 0.81
137 13 0.14
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (136 bp):
TCAATAATCCCTCATAAAAAATGGAAGGAGATTATTGAAGGTATTTTTTATCAAAAACACCTTCA
ATAATCTCTTCATAAAAAATGAAGGGGATTATTAAAGGCTTTTTTTTTTTTTTTTTTTACAAAAA
AGGCCT
Found at i:11339169 original size:62 final size:60
Alignment explanation
Indices: 11339083--11339345 Score: 215
Period size: 62 Copynumber: 4.2 Consensus size: 60
11339073 ACAAAAAAGG
* ** * * *
11339083 CCTTCAATAATCTTTTTTAAAAAATTGAAGGAGATTATTGAAGGTATTTTTTATCAAAAATA
1 CCTTCAATAATCCTTCAT-AAAAATTGAAGGGGATTATTGAAGGTGTTTTTT-CCAAAAATA
* * * **
11339145 CCTTCAATAATCTCTTCATCAAAATTTAAGGGGATTATTAAAGGCT-TTTTTTGCCTGAAATA
1 CCTTCAATAATC-CTTCATAAAAATTGAAGGGGATTATTGAAGG-TGTTTTTT-CCAAAAATA
* * * * *
11339207 CCTTCAATAATCCTCTCATAAAAAATGAAGGGGATTATTGAATGCGTTTGTTGCAGAAAATA
1 CCTTCAATAATCCT-TCATAAAAATTGAAGGGGATTATTGAAGGTGTTTTTTCCA-AAAATA
* * * * ** *
11339269 CATTTAATAATCCCTTC-TAAAAAATTGAAGGGGATTATTGAATGTGTTTTTAGCCTGAAACA
1 CCTTCAATAAT-CCTTCAT-AAAAATTGAAGGGGATTATTGAAGGTGTTTTT-TCCAAAAATA
11339331 CCTTCAATAATCCTT
1 CCTTCAATAATCCTT
11339346 TTTTGTAAAT
Statistics
Matches: 160, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
61 8 0.05
62 144 0.90
63 8 0.05
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (60 bp):
CCTTCAATAATCCTTCATAAAAATTGAAGGGGATTATTGAAGGTGTTTTTTCCAAAAATA
Found at i:11339211 original size:124 final size:124
Alignment explanation
Indices: 11339083--11339349 Score: 308
Period size: 124 Copynumber: 2.2 Consensus size: 124
11339073 ACAAAAAAGG
* * *
11339083 CCTTCAATAAT-CTTTTTTAAAAAATTGAAGGAGATTATTGAAGGTATTTTTTATCA-AAAATAC
1 CCTTCAATAATCCTTTTTTAAAAAA-TGAAGGAGATTATTGAAGGCATTTGTT-GCAGAAAATAC
* * * * * *
11339146 CTTCAATAATCTCTTC-ATCAAAATTTAAGGGGATTATTAAAGGCT-TTTTTTGCCTGAAATA
64 ATTCAATAATCCCTTCTA-AAAAATTGAAGGGGATTATTAAAGG-TGTTTTTAGCCTGAAACA
* ** * * *
11339207 CCTTCAATAATCCTCTCATAAAAAATGAAGGGGATTATTGAATGCGTTTGTTGCAGAAAATACAT
1 CCTTCAATAATCCTTTTTTAAAAAATGAAGGAGATTATTGAAGGCATTTGTTGCAGAAAATACAT
* * *
11339272 TTAATAATCCCTTCTAAAAAATTGAAGGGGATTATTGAATGTGTTTTTAGCCTGAAACA
66 TCAATAATCCCTTCTAAAAAATTGAAGGGGATTATTAAAGGTGTTTTTAGCCTGAAACA
11339331 CCTTCAATAATCCTTTTTT
1 CCTTCAATAATCCTTTTTT
11339350 GTAAATAGTG
Statistics
Matches: 118, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
123 3 0.03
124 104 0.88
125 11 0.09
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (124 bp):
CCTTCAATAATCCTTTTTTAAAAAATGAAGGAGATTATTGAAGGCATTTGTTGCAGAAAATACAT
TCAATAATCCCTTCTAAAAAATTGAAGGGGATTATTAAAGGTGTTTTTAGCCTGAAACA
Found at i:11339215 original size:198 final size:198
Alignment explanation
Indices: 11338867--11339242 Score: 474
Period size: 198 Copynumber: 1.9 Consensus size: 198
11338857 TTATTGAAGG
* * * * * *
11338867 TTTTTTTGATAAAAAATGCCTTCAATAATCTCCTTATCAAAATTTAAAGAGATTATTGAATGTGT
1 TTTTTTTGACAAAAAAGGCCTTCAATAATCTCCTTATAAAAATTGAAAGAGATTATTGAAGGTAT
** * *
11338932 TTTTTACCTGAAACACCATCAATAATCCCCTCATAAAAATGGAAGGGATTATTGAATGCGTTTTT
66 TTTTTACCAAAAACACCATCAATAATCCCCTCATAAAAATGGAAGGGATTATTAAAGGCGTTTTT
11338997 TTGTAGAAAACACTTTCAATAATCCTCTCATAAAAAATGAAGGGGATTTTTTAAGGCTTTTTTTT
131 TTGTAGAAAACACTTTCAATAATCCTCTCATAAAAAATGAAGGGGATTTTTTAAGGCTTTTTTTT
11339062 TTT
196 TTT
* * * *
11339065 TTTTTTTTACAAAAAAGGCCTTCAATAATCT-TTTTTAAAAAATTGAAGGAGATTATTGAAGGTA
1 TTTTTTTGACAAAAAAGGCCTTCAATAATCTCCTTAT-AAAAATTGAAAGAGATTATTGAAGGTA
* * * * * * **
11339129 TTTTTTATCAAAAATACCTTCAATAATCTCTTCATCAAAATTTAAGGGGATTATTAAAGGC-TTT
65 TTTTTTACCAAAAACACCATCAATAATCCCCTCATAAAAATGGAA-GGGATTATTAAAGGCGTTT
11339193 TTTTGCCT-GAAATAC-C-TTCAATAATCCTCTCATAAAAAATGAAGGGGATT
129 TTTTG--TAGAAA-ACACTTTCAATAATCCTCTCATAAAAAATGAAGGGGATT
11339243 ATTGAATGCG
Statistics
Matches: 151, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
197 3 0.02
198 127 0.84
199 18 0.12
200 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (198 bp):
TTTTTTTGACAAAAAAGGCCTTCAATAATCTCCTTATAAAAATTGAAAGAGATTATTGAAGGTAT
TTTTTACCAAAAACACCATCAATAATCCCCTCATAAAAATGGAAGGGATTATTAAAGGCGTTTTT
TTGTAGAAAACACTTTCAATAATCCTCTCATAAAAAATGAAGGGGATTTTTTAAGGCTTTTTTTT
TTT
Found at i:11347833 original size:22 final size:22
Alignment explanation
Indices: 11347808--11347849 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11347798 TATATTCCAA
*
11347808 TTATATTTTATATAAATATAAT
1 TTATAATTTATATAAATATAAT
11347830 TTATAATTTATATAAATATA
1 TTATAATTTATATAAATATA
11347850 TAAGAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATTTATATAAATATAAT
Found at i:11349257 original size:20 final size:20
Alignment explanation
Indices: 11349214--11349257 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
11349204 AAATTTGGTC
** *
11349214 AAAATTAATCAAACTTTATC
1 AAAATTAATCAAACTCGATA
*
11349234 AAAATTAGTCAAACTCGATA
1 AAAATTAATCAAACTCGATA
11349254 AAAA
1 AAAA
11349258 CATATTGAAT
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:0.55, C:0.14, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAATTAATCAAACTCGATA
Found at i:11351637 original size:13 final size:12
Alignment explanation
Indices: 11351613--11351658 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
11351603 TTTGTGACAT
11351613 CCCAAATTAAAA
1 CCCAAATTAAAA
11351625 CCCAAACTTAAAA
1 CCCAAA-TTAAAA
*
11351638 TCCCAAATTGAAA
1 -CCCAAATTAAAA
11351651 CTCCAAAT
1 C-CCAAAT
11351659 GCAAGCCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.23
13 17 0.57
14 6 0.20
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (12 bp):
CCCAAATTAAAA
Found at i:11351696 original size:20 final size:19
Alignment explanation
Indices: 11351668--11351719 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
11351658 TGCAAGCCCT
*
11351668 AACCCTAAATCCC-AATTCTA
1 AACCTTAAA-CCCAAATTC-A
11351688 AACCTTAAACCCTAAATTCA
1 AACCTTAAACCC-AAATTCA
11351708 AACCTTAAACCC
1 AACCTTAAACCC
11351720 TAAACATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.10
20 21 0.72
21 5 0.17
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (19 bp):
AACCTTAAACCCAAATTCA
Found at i:11351716 original size:27 final size:26
Alignment explanation
Indices: 11351686--11351747 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
11351676 ATCCCAATTC
* *
11351686 TAAACCTTAAACCCTAAATTCAAACCT
1 TAAACCCTAAA-CATAAATTCAAACCT
*
11351713 TAAACCCTAAACATAAATTTAAACC-
1 TAAACCCTAAACATAAATTCAAACCT
*
11351738 CAAACCCTAA
1 TAAACCCTAA
11351748 CCTAAACCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 9 0.29
26 12 0.39
27 10 0.32
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (26 bp):
TAAACCCTAAACATAAATTCAAACCT
Found at i:11351720 original size:20 final size:21
Alignment explanation
Indices: 11351681--11351723 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
11351671 CCTAAATCCC
11351681 AATTCTAAACCTTAAACCCTA
1 AATTCTAAACCTTAAACCCTA
11351702 AATTC-AAACCTTAAACCCTA
1 AATTCTAAACCTTAAACCCTA
11351722 AA
1 AA
11351724 CATAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (21 bp):
AATTCTAAACCTTAAACCCTA
Found at i:11352234 original size:56 final size:58
Alignment explanation
Indices: 11352173--11352280 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
11352163 ACAAGTTTTA
11352173 TTTTAAATTTGATTT-TTTTTG-TTAAAAAAAAAGAAAAAAAAG-AAAGAAAAGTCTTG
1 TTTTAAATTTGATTTATTTTTGCTTAAAAAAAAA-AAAAAAAAGAAAAGAAAAGTCTTG
* *
11352229 TTTTAAATTTGATTTATTTTTGCTTTAAAAAAAAAAAGAAAAGAAAAGAAAA
1 TTTTAAATTTGATTTATTTTTGCTTAAAAAAAAAAAAAAAAAGAAAAGAAAA
11352281 AAATAAAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
56 15 0.32
57 14 0.30
58 18 0.38
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (58 bp):
TTTTAAATTTGATTTATTTTTGCTTAAAAAAAAAAAAAAAAAGAAAAGAAAAGTCTTG
Found at i:11352282 original size:18 final size:17
Alignment explanation
Indices: 11352255--11352288 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11352245 TTTTTGCTTT
11352255 AAAAAAAAAAAGAAAAG
1 AAAAAAAAAAAGAAAAG
*
11352272 AAAAGAAAAAAATAAAA
1 AAAA-AAAAAAAGAAAA
11352289 AGGAAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAAG
Done.