Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 71 of 133
Found at i:14034280 original size:27 final size:27
Alignment explanation
Indices: 14034205--14034283 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
14034195 TGCCATTGGT
*
14034205 AAAAATGTAAATATTGATGCATGTGAC
1 AAAAATGTAAATAATGATGCATGTGAC
* *
14034232 AAATAA--CAAA-AATG--CCAT-TGAC
1 AAA-AATGTAAATAATGATGCATGTGAC
14034254 AAAAATGTAAATAATGATGCATGTGAC
1 AAAAATGTAAATAATGATGCATGTGAC
14034281 AAA
1 AAA
14034284 TAACAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
21 2 0.05
22 7 0.17
23 6 0.15
24 4 0.10
25 3 0.08
26 6 0.15
27 10 0.25
28 2 0.05
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (27 bp):
AAAAATGTAAATAATGATGCATGTGAC
Found at i:14037956 original size:115 final size:117
Alignment explanation
Indices: 14037778--14038033 Score: 324
Period size: 115 Copynumber: 2.2 Consensus size: 117
14037768 TTTGTACAAG
* * * * *
14037778 GAAATTTGATACTTTCAACTTTTCCCTAAAATGTTTTTCTGAAACTTGAATTTCGAGGAAAATTA
1 GAAAATTGATACTTTCAACTTTTCCCGAAAATATTTTTCAGAAACTTGAATTTCAAGGAAAATTA
* *
14037843 ATACTTTCAACTTTTCCTT-AAAA-ACCTTTTTTAGAA-AATTATTTTCAAA
66 ATACTTTCAACTTTTCCTTAAAAATACATTTTTTAGAAGAATTATTCTCAAA
* *
14037892 GAAAATTGATACTTTCAACTTTTCTTCGAAAATAATTTTT-AGAAAACTT-ATTTTCAAGGAAAA
1 GAAAATTGATACTTTCAACTTTTC-CCGAAAAT-ATTTTTCAG-AAACTTGAATTTCAAGGAAAA
* * * * *
14037955 TTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTGAAGACTTATTCTCAAG
63 TTAATACTTTCAACTTTTCCTTAAAAATACATTTTTTAGAAGAATTATTCTCAAA
14038010 GAAAATTGATACTTTCAACTTTTC
1 GAAAATTGATACTTTCAACTTTTC
14038034 ATTAAGAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
114 23 0.19
115 40 0.33
116 15 0.12
117 10 0.08
118 34 0.28
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (117 bp):
GAAAATTGATACTTTCAACTTTTCCCGAAAATATTTTTCAGAAACTTGAATTTCAAGGAAAATTA
ATACTTTCAACTTTTCCTTAAAAATACATTTTTTAGAAGAATTATTCTCAAA
Found at i:14038020 original size:60 final size:58
Alignment explanation
Indices: 14037774--14038053 Score: 320
Period size: 57 Copynumber: 4.8 Consensus size: 58
14037764 TGCTTTTGTA
* * * * *
14037774 CAAGGAAATTTGATACTTTCAACTTTTCCCT-AAA-ATGTTTTTCTGAAACTTGAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATATATTTTTTTGAAACTT-ATTTT
* * ** * *
14037831 CGAGGAAAATTAATACTTTCAACTTTTCCTTAAAA-ACCTTTTTTAGAAAATTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATATATTTTTTTGAAACTTATTTT
* *
14037888 CAAAGAAAATTGATACTTTCAACTTTT-CTTCGAAAATA-A-TTTTTAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTT--AAAATATATTTTTTTG-AAACTTATTTT
*
14037946 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTGAAGACTTATTCT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTT-AAAATATATTTTTTTGAA-ACTTATTTT
*
14038006 CAAGGAAAATTGATACTTTCAACTTTTCATTAAGAATATATTTTTTTG
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAA-AATATATTTTTTTG
14038054 GAATTTTATT
Statistics
Matches: 193, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
56 3 0.02
57 62 0.32
58 61 0.32
59 9 0.05
60 58 0.30
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATATATTTTTTTGAAACTTATTTT
Found at i:14038073 original size:118 final size:115
Alignment explanation
Indices: 14037835--14038051 Score: 290
Period size: 118 Copynumber: 1.8 Consensus size: 115
14037825 GAATTTCGAG
* *
14037835 GAAAATTAATACTTTCAACTTTTCCTTAAAAACCTTTTTTAGAAAATTATTTTCAAAGAAAATTG
1 GAAAATTAATACTTTCAACTTTTCCTTAAAAACATTTTTTAGAAAATTATTCTCAAAGAAAATTG
* *
14037900 ATACTTTCAACTTTTCTTCGAAAATAATTTTTAGAAAACTTATTTTCAAG
66 ATACTTTCAACTTTTCTTAGAAAATAATTTTTAGAAAACTTATTTTCAAA
* * * * *
14037950 GAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTGAAGACTTATTCTCAAGGAAAA
1 GAAAATTAATACTTTCAACTTTTCCTT-AAAA-ACATTTTTTAGAA-AATTATTCTCAAAGAAAA
* *
14038015 TTGATACTTTCAACTTTTCATTAAGAATATATTTTTT
63 TTGATACTTTCAACTTTTC-TT-AGAAAATAATTTTT
14038052 TGGAATTTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
115 26 0.30
116 4 0.05
117 10 0.11
118 34 0.39
119 2 0.02
120 11 0.13
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.43
Consensus pattern (115 bp):
GAAAATTAATACTTTCAACTTTTCCTTAAAAACATTTTTTAGAAAATTATTCTCAAAGAAAATTG
ATACTTTCAACTTTTCTTAGAAAATAATTTTTAGAAAACTTATTTTCAAA
Found at i:14038077 original size:5 final size:5
Alignment explanation
Indices: 14038069--14038133 Score: 53
Period size: 5 Copynumber: 12.4 Consensus size: 5
14038059 TTATTTAAAG
*
14038069 AAAAT -AAA- AAAAT AAAAAT AAAAATT AAAAAA AAAAT AAAGAT AAAAT
1 AAAAT AAAAT AAAAT -AAAAT -AAAA-T -AAAAT AAAAT AAA-AT AAAAT
*
14038117 AGAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AA
14038134 GAAATACTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
4 6 0.12
5 24 0.47
6 15 0.29
7 6 0.12
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:14038085 original size:6 final size:6
Alignment explanation
Indices: 14038076--14038139 Score: 57
Period size: 5 Copynumber: 11.2 Consensus size: 6
14038066 AAGAAAATAA
* *
14038076 AAAAAT AAAAAT AAAAATT AAAAA- AAAAAT AAAGAT -AAAAT -AGAAT
1 AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
14038122 -AAAAT -AAAAT AAGAAAT A
1 AAAAAT AAAAAT AA-AAAT A
14038140 CTAAATAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
5 22 0.44
6 17 0.34
7 11 0.22
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:14038136 original size:16 final size:16
Alignment explanation
Indices: 14038069--14038139 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 16
14038059 TTATTTAAAG
14038069 AAAAT-AAA-AAAATA
1 AAAATAAAATAAAATA
*
14038083 AAAATAAAAATTAAAAAA
1 AAAAT-AAAA-TAAAATA
14038101 AAAATAAAGATAAAAT-
1 AAAATAAA-ATAAAATA
*
14038117 AGAATAAAATAAAATA
1 AAAATAAAATAAAATA
14038133 AGAAATA
1 A-AAATA
14038140 CTAAATAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 5 0.11
15 7 0.15
16 11 0.24
17 12 0.26
18 11 0.24
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:14039098 original size:9 final size:9
Alignment explanation
Indices: 14039065--14039100 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
14039055 AAAAGTAAGC
14039065 AGAAAAAGAA
1 AGAAAAA-AA
*
14039075 AGAAAGAAA
1 AGAAAAAAA
14039084 AGAAAAAAA
1 AGAAAAAAA
14039093 AGAAAAAA
1 AGAAAAAA
14039101 TATTAATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:14039166 original size:33 final size:32
Alignment explanation
Indices: 14039124--14039208 Score: 118
Period size: 33 Copynumber: 2.7 Consensus size: 32
14039114 ATAATAACAA
* *
14039124 TAATAGATAAATATTAATAAAGTATATATATAT
1 TAATAGATAAATAATAATAAA-AATATATATAT
14039157 TAATAGATAAATAATAATAAAAATATATATAT
1 TAATAGATAAATAATAATAAAAATATATATAT
* *
14039189 TAATAAAT-AGTAATAATAAA
1 TAATAGATAAATAATAATAAA
14039209 TAAATAAGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 11 0.23
32 17 0.35
33 20 0.42
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (32 bp):
TAATAGATAAATAATAATAAAAATATATATAT
Found at i:14039204 original size:10 final size:10
Alignment explanation
Indices: 14039104--14039248 Score: 71
Period size: 9 Copynumber: 15.0 Consensus size: 10
14039094 GAAAAAATAT
14039104 TAATAGATAAA
1 TAATA-ATAAA
*
14039115 TAATAA-CAA
1 TAATAATAAA
14039124 TAATAGATAAA
1 TAATA-ATAAA
*
14039135 TATTAATAAA
1 TAATAATAAA
*
14039145 GT-ATATATATAT
1 -TAATA-ATA-AA
14039157 TAATAGATAAA
1 TAATA-ATAAA
14039168 TAATAATAAA
1 TAATAATAAA
*
14039178 -AAT-ATATA
1 TAATAATAAA
*
14039186 TATTAATAAA
1 TAATAATAAA
*
14039196 TAGTAAT-AA
1 TAATAATAAA
14039205 T-A-AATAAA
1 TAATAATAAA
*
14039213 TAA-GATACAA
1 TAATAATA-AA
14039223 -AA-AATAAA
1 TAATAATAAA
*
14039231 -AATAAAAAA
1 TAATAATAAA
14039240 TAA-AATAAA
1 TAATAATAAA
14039249 ATAGAATGAA
Statistics
Matches: 105, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
7 3 0.03
8 11 0.10
9 34 0.32
10 28 0.27
11 22 0.21
12 7 0.07
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (10 bp):
TAATAATAAA
Found at i:14039244 original size:12 final size:13
Alignment explanation
Indices: 14039221--14039249 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14039211 AATAAGATAC
14039221 AAAAAATAAAAAT
1 AAAAAATAAAAAT
14039234 AAAAAAT-AAAAT
1 AAAAAATAAAAAT
14039246 AAAA
1 AAAA
14039250 TAGAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:14039571 original size:42 final size:42
Alignment explanation
Indices: 14039510--14039812 Score: 280
Period size: 42 Copynumber: 7.1 Consensus size: 42
14039500 ATAAACGAAG
*
14039510 GCTCCTCTAAGCAGAGGCTCAATGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAATT
* * * * * * **
14039552 GCTCCCCTAAATAAAGGCTCAA-CAATTTCAGAAAAATAAACAAA
1 GCTCCTCTAAACAGAGGCTCAATGACTTT-GGAAAAAT-AA-ATT
*
14039596 GCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAAATAAATAAA
1 GCTCCTCTAAACAGAGGCTCAATGACTTTGG-AAAAATAAAT--T
*
14039641 GCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAATT
* * * *
14039683 GCTCCTCTGAACAGAGGCTTAACGACTTTTGAAAAGA-AAATT
1 GCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAA-ATAAATT
* * *
14039725 GCTCCTCTAATCAGAGGTATCACA--ACTTT-GAAAAATAGATT
1 GCTCCTCTAAACAGAGG-CTCA-ATGACTTTGGAAAAATAAATT
*
14039766 GCTCCTCTAAACAGAGGCATCACA--AC-TTCGAAAAATAAATT
1 GCTCCTCTAAACAGAGGC-TCA-ATGACTTTGGAAAAATAAATT
14039807 GCTCCT
1 GCTCCT
14039813 TGACAATCAT
Statistics
Matches: 219, Mismatches: 29, Indels: 27
0.80 0.11 0.10
Matches are distributed among these distances:
40 3 0.01
41 53 0.24
42 82 0.37
43 6 0.03
44 34 0.16
45 41 0.19
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAATT
Found at i:14039717 original size:131 final size:125
Alignment explanation
Indices: 14039510--14039812 Score: 312
Period size: 131 Copynumber: 2.4 Consensus size: 125
14039500 ATAAACGAAG
* * * *
14039510 GCTCCTCTAAGCAGAGGCTCAATGACTTTGGAAAAATAAATTGCTCCCCTAAATAAAGGCTCAAC
1 GCTCCTCTAAACAGAGGCTCAATGACTTTCGAAAAATAAATTGCTCCTCTAAACAAAGGCTCAAC
* *
14039575 AATTTCAGAAAAATAAACAAAGCTCCTCTAAACAGAGG-CTCA-ATGACTTTGGAAAAAATAAAT
66 AATTTCAG-AAAAGAAA-AAAGCTCCTCTAAACAGAGGTATCACA--ACTTT-G-AAAAATAAAT
14039638 AAA
125 --A
* * * *
14039641 GCTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAATAAATTGCTCCTCTGAACAGAGGCTTAAC
1 GCTCCTCTAAACAGAGGCTCAATGACTTTCGAAAAATAAATTGCTCCTCTAAACAAAGGCTCAAC
* * ** * * *
14039706 GACTTT-TGAAAAGAAAATTGCTCCTCTAATCAGAGGTATCACAACTTTGAAAAATAGATT
66 -AATTTCAGAAAAGAAAAAAGCTCCTCTAAACAGAGGTATCACAACTTTGAAAAATAAATA
14039766 GCTCCTCTAAACAGAGGCATCACA--AC-TTCGAAAAATAAATTGCTCCT
1 GCTCCTCTAAACAGAGGC-TCA-ATGACTTTCGAAAAATAAATTGCTCCT
14039813 TGACAATCAT
Statistics
Matches: 150, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
124 20 0.13
125 20 0.13
126 3 0.02
127 10 0.07
128 1 0.01
129 22 0.15
130 10 0.07
131 60 0.40
132 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (125 bp):
GCTCCTCTAAACAGAGGCTCAATGACTTTCGAAAAATAAATTGCTCCTCTAAACAAAGGCTCAAC
AATTTCAGAAAAGAAAAAAGCTCCTCTAAACAGAGGTATCACAACTTTGAAAAATAAATA
Found at i:14039767 original size:41 final size:40
Alignment explanation
Indices: 14039668--14039812 Score: 177
Period size: 41 Copynumber: 3.5 Consensus size: 40
14039658 CTCAATGACT
* *
14039668 TTTGAAAAATAAATTGCTCCTCTGAACAGAGGCT-TAACGAC
1 TTTGAAAAATAAATTGCTCCTCT-AACAGAGG-TATCACAAC
14039709 TTTTGAAAAGA-AAATTGCTCCTCTAATCAGAGGTATCACAAC
1 -TTTGAAAA-ATAAATTGCTCCTCTAA-CAGAGGTATCACAAC
* *
14039751 TTTGAAAAATAGATTGCTCCTCTAAACAGAGGCATCACAAC
1 TTTGAAAAATAAATTGCTCCTCT-AACAGAGGTATCACAAC
*
14039792 TTCGAAAAATAAATTGCTCCT
1 TTTGAAAAATAAATTGCTCCT
14039813 TGACAATCAT
Statistics
Matches: 92, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
40 1 0.01
41 56 0.61
42 34 0.37
43 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (40 bp):
TTTGAAAAATAAATTGCTCCTCTAACAGAGGTATCACAAC
Found at i:14040866 original size:8 final size:8
Alignment explanation
Indices: 14040855--14040889 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
14040845 TTCTTTTCAT
14040855 TTTTTTTA
1 TTTTTTTA
14040863 TTTTTTTA
1 TTTTTTTA
14040871 TTTTTTTA
1 TTTTTTTA
*
14040879 TTTTTTCA
1 TTTTTTTA
14040887 TTT
1 TTT
14040890 CATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTA
Found at i:14051539 original size:58 final size:58
Alignment explanation
Indices: 14051340--14051554 Score: 290
Period size: 58 Copynumber: 3.7 Consensus size: 58
14051330 TTCGTACAAA
* * * * *
14051340 GAAATTTGATACTTTCAACTTTTCC-TCAAAA-ACTTTTTTTAGAAAATTATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTA-AAACTTATTTTCAAG
* **
14051397 GAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAGAAAACTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTAAAACTTATTTTCAAG
* * *
14051455 GAAAATTGATACTTTCATCTTTTCCTTAAAAATATTTTTTTTAAGACTTATTCTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTAAAACTTATTTTCAAG
**
14051513 GAAAATTGATACTTTCAACTTTTCCTTAGGAATATTTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTT
14051555 TGAATTTTAT
Statistics
Matches: 139, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.17
58 109 0.78
59 7 0.05
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTAAAACTTATTTTCAAG
Found at i:14051579 original size:5 final size:5
Alignment explanation
Indices: 14051571--14051627 Score: 73
Period size: 5 Copynumber: 11.4 Consensus size: 5
14051561 TTATTTAAAG
*
14051571 AAAAT AAAAT AAAA- ATAAT -AAAT AAAAT AAAGAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT -AAAAT AAAAT AAAAT
14051621 AAAAT AA
1 AAAAT AA
14051628 GAAATACTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
4 6 0.13
5 33 0.72
6 4 0.09
7 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:14051595 original size:18 final size:17
Alignment explanation
Indices: 14051571--14051624 Score: 83
Period size: 18 Copynumber: 3.2 Consensus size: 17
14051561 TTATTTAAAG
14051571 AAAATAAAATAAAAATA
1 AAAATAAAATAAAAATA
*
14051588 ATAAATAAAATAAAGATA
1 A-AAATAAAATAAAAATA
14051606 AAAATAAAAT-AAAATA
1 AAAATAAAATAAAAATA
14051622 AAA
1 AAA
14051625 TAAGAAATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 16 0.47
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:14052073 original size:56 final size:58
Alignment explanation
Indices: 14051967--14052321 Score: 427
Period size: 57 Copynumber: 6.2 Consensus size: 58
14051957 TTTTTTCGTA
**
14051967 CAAA-AAAATTTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTAGAAAA-TTATTTT
1 CAAAGAAAA-TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
* *
14052024 CAAAGAAAATTGATACTTTCAA-TTTTCTTCGAAAATATTTTTTAGAAAATTTATTTT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
* *
14052081 CAAGGAAAATTGATACTTTCAACTTTT-CTCAAAAATATTTTGTA-AAAATTTATTTT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
* * * *
14052137 CAAGGAAAATTGGTACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTC
1 CAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
* * * * * * *
14052195 CAAGGAAAATTGATACTTTTAACTTTTCCTTAAAAATATTTTTTTTTGAAGACTTATTCT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTAGAAAATTTATTTT
* * * * *
14052255 CAAAGAAAATTGATACTTTAAACTTTTCCTTAAGAATACTTTTTTTGAAATTTTA-TTT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAATTTATTTT
14052313 -AAAGAAAAT
1 CAAAGAAAAT
14052322 AAAATAAATA
Statistics
Matches: 264, Mismatches: 27, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
56 61 0.23
57 84 0.32
58 55 0.21
59 13 0.05
60 51 0.19
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (58 bp):
CAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
Found at i:14052325 original size:5 final size:5
Alignment explanation
Indices: 14052317--14052367 Score: 68
Period size: 5 Copynumber: 9.8 Consensus size: 5
14052307 TTATTTAAAG
14052317 AAAAT AAAAT -AAAT AAAAAT AAAAT AAAGAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAA-AT -AAAAT AAAAT AAAAT
14052364 AAAA
1 AAAA
14052368 ATACGAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.10
5 27 0.64
6 8 0.19
7 3 0.07
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:14052338 original size:6 final size:6
Alignment explanation
Indices: 14052327--14052370 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
14052317 AAAATAAAAT
*
14052327 AAATAA AAAT-A AAATAA AGATAA AAAT-A AAAT-A AAATAA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATA
14052371 CGAAATAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:14052343 original size:11 final size:11
Alignment explanation
Indices: 14052317--14052370 Score: 69
Period size: 11 Copynumber: 5.1 Consensus size: 11
14052307 TTATTTAAAG
14052317 AAAAT-AAAAT
1 AAAATAAAAAT
14052327 -AAATAAAAAT
1 AAAATAAAAAT
*
14052337 AAAATAAAGAT
1 AAAATAAAAAT
14052348 AAAA-ATAAAAT
1 AAAATA-AAAAT
14052359 AAAATAAAAAT
1 AAAATAAAAAT
14052370 A
1 A
14052371 CGAAATAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 4 0.11
10 6 0.16
11 27 0.71
12 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:14052833 original size:60 final size:59
Alignment explanation
Indices: 14052702--14052886 Score: 198
Period size: 60 Copynumber: 3.2 Consensus size: 59
14052692 TGCTTTCGTA
* * * ** * *
14052702 CAAAGAAATTTGTTACTTTCAACTTTTCC-TCAAAA-ACCTTTTTTAGAAAATTATTTT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTGAAAATTATTCT
*
14052759 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTGAAGACTTATTCT
1 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTGAA-AATTATTCT
* * * * **
14052819 CAAGGACAATTGATACTTTCAACTTTTCCTTAAGAATATTTTTTTTTAGAATTTTATT-T
1 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTT-GAAAATTATTCT
14052878 -AAAGAAAAT
1 CAAAGAAAAT
14052887 AAAATAAATA
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
57 27 0.25
58 12 0.11
59 11 0.10
60 55 0.51
61 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (59 bp):
CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTGAAAATTATTCT
Found at i:14052889 original size:9 final size:9
Alignment explanation
Indices: 14052883--14053043 Score: 77
Period size: 9 Copynumber: 16.9 Consensus size: 9
14052873 TATTTAAAGA
14052883 AAATAAAAT
1 AAATAAAAT
14052892 AAATAAAAT
1 AAATAAAAT
14052901 AAA-AATAA-
1 AAATAA-AAT
14052909 AAATAAAAAT
1 AAAT-AAAAT
14052919 AAAGATAAAAAT
1 -AA-AT-AAAAT
14052931 AGAATAAAAT
1 A-AATAAAAT
14052941 AAAATAAAAT
1 -AAATAAAAT
*
14052951 AAGA-AATACT
1 AA-ATAA-AAT
**
14052961 AAATAATTCT
1 AAATAA-AAT
*
14052971 AATCTAATCAAT
1 AA-ATAA--AAT
14052983 AAATAATAAT
1 AAATAA-AAT
14052993 -AATAACAAT
1 AAATAA-AAT
14053002 -AAT-AAAT
1 AAATAAAAT
14053009 AAA-ATAAAT
1 AAATA-AAAT
14053018 AAATAAAAT
1 AAATAAAAT
14053027 AAATGAAAA-
1 AAAT-AAAAT
14053036 AAATAAAA
1 AAATAAAA
14053044 AATCTTGGAA
Statistics
Matches: 125, Mismatches: 9, Indels: 37
0.73 0.05 0.22
Matches are distributed among these distances:
7 3 0.02
8 12 0.10
9 51 0.41
10 35 0.28
11 12 0.10
12 12 0.10
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:14052895 original size:4 final size:5
Alignment explanation
Indices: 14052882--14052952 Score: 81
Period size: 5 Copynumber: 13.4 Consensus size: 5
14052872 TTATTTAAAG
14052882 AAAAT AAAAT -AAAT AAAAT AAAAAT AAAAAT AAAAAT AAAGAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAAT AAA-AT -AAAAT
*
14052931 AGAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AA
14052953 GAAATACTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
4 4 0.07
5 32 0.53
6 21 0.35
7 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:14052907 original size:6 final size:6
Alignment explanation
Indices: 14052882--14052958 Score: 72
Period size: 6 Copynumber: 13.0 Consensus size: 6
14052872 TTATTTAAAG
* *
14052882 AAAATA AAATAAA TAAAATA AAAATA AAAATA AAAATA AAGATA AAAAT-
1 AAAATA AAA-ATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
14052931 AGAAT- AAAAT- AAAAT- AAAATA AGAAATA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA
14052959 CTAAATAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
5 18 0.30
6 31 0.51
7 9 0.15
8 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:14053009 original size:13 final size:12
Alignment explanation
Indices: 14052987--14053046 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 12
14052977 ATCAATAAAT
14052987 AATAAT-AATAA
1 AATAATAAATAA
14052998 CAATAATAAATAA
1 -AATAATAAATAA
14053011 AATAAATAAATAA
1 AAT-AATAAATAA
14053024 AATAAATGAAA-AA
1 AAT-AAT-AAATAA
*
14053037 AATAAAAAAT
1 AATAATAAAT
14053047 CTTGGAACAG
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
11 3 0.07
12 11 0.26
13 26 0.60
14 3 0.07
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (12 bp):
AATAATAAATAA
Found at i:14053027 original size:22 final size:22
Alignment explanation
Indices: 14052883--14053042 Score: 77
Period size: 22 Copynumber: 7.1 Consensus size: 22
14052873 TATTTAAAGA
14052883 AAATAAAATAAATAAAAT-AA-
1 AAATAAAATAAATAAAATAAAT
* *
14052903 AAATAAAA-ATA-AAAATAAAG
1 AAATAAAATAAATAAAATAAAT
*
14052923 ATA-AAAATAGAATAAAATAAAAT
1 AAATAAAATA-AATAAAAT-AAAT
* * *
14052946 AAA-ATAAGAAATACTAAATAATTCT
1 AAATAAAATAAATA--AAATAA--AT
*
14052971 AATCTAATCAATAAATAATAAT-AAT
1 AA-ATAA--AATAAATAA-AATAAAT
*
14052996 AACA-ATAATAAATAAAATAAAT
1 AA-ATAAAATAAATAAAATAAAT
14053018 AAATAAAATAAATGAAAA-AAAT
1 AAATAAAATAAAT-AAAATAAAT
14053040 AAA
1 AAA
14053043 AAATCTTGGA
Statistics
Matches: 106, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
18 5 0.05
19 8 0.08
20 11 0.10
21 5 0.05
22 38 0.36
23 15 0.14
24 5 0.05
25 6 0.06
27 3 0.03
28 3 0.03
29 7 0.07
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (22 bp):
AAATAAAATAAATAAAATAAAT
Found at i:14053799 original size:16 final size:16
Alignment explanation
Indices: 14053778--14053837 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 16
14053768 AAATAAAGAT
14053778 AATATTAATAGATAAA
1 AATATTAATAGATAAA
14053794 AATATTAATAGATAAAA
1 AATATTAATAGAT-AAA
*
14053811 AATAATAATA-ATAGATA
1 AATATTAATAGATA-A-A
14053828 AATATTAATA
1 AATATTAATA
14053838 AAGTATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
15 1 0.03
16 16 0.41
17 22 0.56
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AATATTAATAGATAAA
Found at i:14053838 original size:20 final size:20
Alignment explanation
Indices: 14053776--14053829 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
14053766 TAAAATAAAG
*
14053776 ATAATATTAATAGAT-AAAA
1 ATAATAATAATAGATAAAAA
14053795 AT-AT--TAATAGATAAAAA
1 ATAATAATAATAGATAAAAA
14053812 ATAATAATAATAGATAAA
1 ATAATAATAATAGATAAA
14053830 TATTAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.26
17 6 0.19
18 4 0.13
19 2 0.06
20 11 0.35
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAGATAAAAA
Found at i:14053860 original size:53 final size:52
Alignment explanation
Indices: 14053759--14053894 Score: 147
Period size: 53 Copynumber: 2.6 Consensus size: 52
14053749 GAAAGAAAAG
*
14053759 AAAAAATTAA-AATAA-AGAT-AATATTAAT--AGATAAAAATATTAATAGAT
1 AAAAAA-TAATAATAATAGATAAATATTAATAAAGATAAAAATATTAACAGAT
* *
14053807 AAAAAATAATAATAATAGATAAATATTAATAAAGTATATATATATTAACAGAT
1 AAAAAATAATAATAATAGATAAATATTAATAAAG-ATAAAAATATTAACAGAT
* * *
14053860 AAATAATAATAAAAATATATATATATATTAATAAA
1 AAAAAATAATAATAATAGATA-A-ATATTAATAAA
14053895 TAGTAATAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
47 3 0.04
48 11 0.15
49 4 0.05
50 9 0.12
52 2 0.03
53 33 0.45
54 1 0.01
55 11 0.15
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (52 bp):
AAAAAATAATAATAATAGATAAATATTAATAAAGATAAAAATATTAACAGAT
Found at i:14053865 original size:4 final size:4
Alignment explanation
Indices: 14053858--14053986 Score: 51
Period size: 4 Copynumber: 32.2 Consensus size: 4
14053848 ATATTAACAG
* * * * *
14053858 ATAA AT-A ATAA TAAAA ATAT ATAT ATAT ATTA ATAA ATAGTA AT-A ATAA
1 ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA
* *
14053907 ATAA ATAA ACAA A-AA ATAA ATAA GATACA AAAA AT-A A-AA ATACA A-AA
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATA-A ATAA ATAA ATAA ATA-A ATAA
14053954 TATAGA A-AA ATAA A-AA ATAA A-AA ATAAA ATAA A
1 -ATA-A ATAA ATAA ATAA ATAA ATAA AT-AA ATAA A
14053987 ATAGAATGAA
Statistics
Matches: 98, Mismatches: 9, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
3 22 0.22
4 55 0.56
5 16 0.16
6 5 0.05
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:14053915 original size:53 final size:53
Alignment explanation
Indices: 14053795--14053926 Score: 135
Period size: 53 Copynumber: 2.5 Consensus size: 53
14053785 ATAGATAAAA
* *
14053795 ATATTAATAGATAAAAAATAATAATAATAGATAAATATTAATAAAGTATATAT
1 ATATAAATAGATAAAAAATAATAAAAATAGATAAATATTAATAAAGTATATAT
* * * *
14053848 ATATTAACAGATAAATAATAATAAAAATATATATATATATTAATAAA-TAGTA-AT
1 ATATAAATAGATAAAAAATAATAAAAATAGATA-A-ATATTAATAAAGTA-TATAT
* *
14053902 A-ATAAATAAATAAACAAAAAATAAA
1 ATATAAATAGATAAA-AAATAATAAA
14053927 TAAGATACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
53 39 0.59
54 14 0.21
55 13 0.20
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (53 bp):
ATATAAATAGATAAAAAATAATAAAAATAGATAAATATTAATAAAGTATATAT
Found at i:14053938 original size:18 final size:18
Alignment explanation
Indices: 14053902--14053981 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 18
14053892 AAATAGTAAT
14053902 AATAAATAAATAAACAAAA
1 AATAAATAAAT-AACAAAA
14053921 AATAAATAAGAT-ACAAAA
1 AATAAATAA-ATAACAAAA
14053939 AAT-AA-AAAT-ACAAAA
1 AATAAATAAATAACAAAA
*
14053954 TATAGAA-AAATAA-AAAA
1 AATA-AATAAATAACAAAA
*
14053971 TAAAAAATAAA
1 -AATAAATAAA
14053982 ATAAAATAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
15 10 0.19
16 2 0.04
17 14 0.27
18 15 0.29
19 9 0.17
20 2 0.04
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.16
Consensus pattern (18 bp):
AATAAATAAATAACAAAA
Found at i:14053964 original size:17 final size:14
Alignment explanation
Indices: 14053899--14053982 Score: 71
Period size: 15 Copynumber: 5.5 Consensus size: 14
14053889 AATAAATAGT
*
14053899 AATAATAAATAAATA
1 AATAAAAAATAAA-A
*
14053914 AACAAAAAATAAATA
1 AATAAAAAATAAA-A
14053929 AGATACAAAAA-ATAAA
1 A-ATA-AAAAATA-AAA
14053945 AATACAAAATATAGAAA
1 AATA-AAAA-ATA-AAA
14053962 AATAAAAAATAAAA
1 AATAAAAAATAAAA
14053976 AATAAAA
1 AATAAAA
14053983 TAAAATAGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.17
15 25 0.42
16 10 0.17
17 15 0.25
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (14 bp):
AATAAAAAATAAAA
Found at i:14053977 original size:24 final size:23
Alignment explanation
Indices: 14053899--14053989 Score: 78
Period size: 24 Copynumber: 3.9 Consensus size: 23
14053889 AATAAATAGT
* * *
14053899 AATAATAAATA-AATAAACAAAA
1 AATAAAAAATACAAAAAATAAAA
14053921 AATAAATAAGATACAAAAAAT-AAA
1 AATAAA-AA-ATACAAAAAATAAAA
* *
14053945 AATACAAAATATAGAAAAATAAAA
1 AATAAAAAATACA-AAAAATAAAA
*
14053969 AATAAAAAATAAAATAAAATA
1 AATAAAAAATACAA-AAAATA
14053990 GAATGAAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
22 9 0.16
23 11 0.20
24 31 0.55
25 5 0.09
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (23 bp):
AATAAAAAATACAAAAAATAAAA
Found at i:14054875 original size:16 final size:17
Alignment explanation
Indices: 14054844--14054892 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
14054834 TTAATTTATT
14054844 ATTTTTAGTAACTTTCC
1 ATTTTTAGTAACTTTCC
*
14054861 ATTTTTAGTAA-TTTCT
1 ATTTTTAGTAACTTTCC
*
14054877 ATATTTAGTAAGCTTT
1 ATTTTTAGTAA-CTTT
14054893 AGTTCTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 14 0.50
17 11 0.39
18 3 0.11
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (17 bp):
ATTTTTAGTAACTTTCC
Found at i:14056184 original size:14 final size:14
Alignment explanation
Indices: 14056165--14056202 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
14056155 TAAAGGATTC
14056165 TTTCTTTTTTTTGG
1 TTTCTTTTTTTTGG
*
14056179 TTTC-TTCTTTTGG
1 TTTCTTTTTTTTGG
14056192 TTT-TTTTTTTT
1 TTTCTTTTTTTT
14056203 AGAAGTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.00, C:0.08, G:0.11, T:0.82
Consensus pattern (14 bp):
TTTCTTTTTTTTGG
Found at i:14057531 original size:7 final size:7
Alignment explanation
Indices: 14057519--14057544 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14057509 TCAACACACA
14057519 AACATGC
1 AACATGC
14057526 AACATGC
1 AACATGC
14057533 AACATGC
1 AACATGC
14057540 AACAT
1 AACAT
14057545 ACAATACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.12, T:0.15
Consensus pattern (7 bp):
AACATGC
Found at i:14059164 original size:24 final size:23
Alignment explanation
Indices: 14059120--14059164 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
14059110 TTAAATTTAG
*
14059120 AAAAAATTAAATAAAATTAAATA
1 AAAAAATTAAATAAAAATAAATA
14059143 AAAAAATATAAA-ACAAAATAAA
1 AAAAAAT-TAAATA-AAAATAAA
14059165 ACACTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAAAATTAAATAAAAATAAATA
Found at i:14067084 original size:22 final size:19
Alignment explanation
Indices: 14067058--14067108 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 19
14067048 TAAGCTAAAA
14067058 AATGAAAAAAAAAAGAAAAATG
1 AATGAAAAAAAAAAG---AATG
14067080 AATGAAAAAAAAAAGAATG
1 AATGAAAAAAAAAAGAATG
14067099 AATGAAAAAA
1 AATGAAAAAA
14067109 GAAGACCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 14 0.48
22 15 0.52
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (19 bp):
AATGAAAAAAAAAAGAATG
Found at i:14067087 original size:19 final size:18
Alignment explanation
Indices: 14067054--14067108 Score: 76
Period size: 19 Copynumber: 3.0 Consensus size: 18
14067044 ATACTAAGCT
*
14067054 AAAAAATGAA-AAAAAAA
1 AAAAAATGAATGAAAAAA
14067071 AGAAAAATGAATGAAAAAA
1 A-AAAAATGAATGAAAAAA
14067090 AAAAGAATGAATGAAAAAA
1 AAAA-AATGAATGAAAAAA
14067109 GAAGACCTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.03
18 12 0.35
19 21 0.62
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (18 bp):
AAAAAATGAATGAAAAAA
Found at i:14067097 original size:15 final size:15
Alignment explanation
Indices: 14067067--14067111 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
14067057 AAATGAAAAA
14067067 AAAAAGAAAAATGAATG
1 AAAAA-AAAAA-GAATG
14067084 AAAAAAAAAAGAATG
1 AAAAAAAAAAGAATG
**
14067099 AATGAAAAAAGAA
1 AAAAAAAAAAGAA
14067112 GACCTAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 16 0.62
16 5 0.19
17 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAAGAATG
Found at i:14068269 original size:50 final size:48
Alignment explanation
Indices: 14068154--14068269 Score: 135
Period size: 50 Copynumber: 2.4 Consensus size: 48
14068144 TTAAAAAAAA
* *
14068154 CCTCTATTTAAAGGAGC-TCATTTATTTATTTTTCAAAAGTTGTTGAG
1 CCTCTATTTAGAGGAGCTTCATTTATTTATTTTTCAAAAGTCGTTGAG
* * ** *
14068201 CTTTTATTTAGATAAGCTTTATTTATATATATTTTTCAAAAGTCGTTGAG
1 CCTCTATTTAGAGGAGCTTCATTTAT-T-TATTTTTCAAAAGTCGTTGAG
*
14068251 CCTCTGTTTAGAGGAGCTT
1 CCTCTATTTAGAGGAGCTT
14068270 GAGCCTCTAT
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
47 12 0.22
48 7 0.13
49 1 0.02
50 34 0.63
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.46
Consensus pattern (48 bp):
CCTCTATTTAGAGGAGCTTCATTTATTTATTTTTCAAAAGTCGTTGAG
Found at i:14068274 original size:22 final size:22
Alignment explanation
Indices: 14068246--14068291 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
14068236 TCAAAAGTCG
*
14068246 TTGAGCCTCTGTTTAGAGGAGC
1 TTGAGCCTCTATTTAGAGGAGC
14068268 TTGAGCCTCTATTTAGAGGAGC
1 TTGAGCCTCTATTTAGAGGAGC
14068290 TT
1 TT
14068292 TATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (22 bp):
TTGAGCCTCTATTTAGAGGAGC
Found at i:14068494 original size:43 final size:43
Alignment explanation
Indices: 14068269--14068699 Score: 322
Period size: 42 Copynumber: 10.0 Consensus size: 43
14068259 TAGAGGAGCT
* * *
14068269 TGAGCCTCTATTTAGAGGAGCTTTATTT-TTTTTTCAAAAGTCA
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTT-AAAAGTCA
* * * **
14068312 TTGAGCCTCTATTTAGAGGAGCCTTATTTATGTTTTTTTCCAAAAATTGT
1 -TGAGCCTCTGTTTAGAAGAGCCTTATTTA---TTTTTT---AAAAGTCA
* * * * * * **
14068362 TAAGCTTTTGTTTAAAAGAGCC--ATCTATATTTTCAAAAGTTG
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTAT-TTTTTAAAAGTCA
* * * *
14068404 TGAGCCTCTATTTAGAATAGCCTTCTATA-TTTTTAAAAGTCA
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTTAAAAGTCA
* *
14068446 TGAGCCTCTGTTTATAAGAGCCTTATTTATTTTTTAAAAGTTA
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTTAAAAGTCA
* * *
14068489 TGAGCCTTTGTTTAG-AGTAGCCTTATATATTTTTCAAAAGTCA
1 TGAGCCTCTGTTTAGAAG-AGCCTTATTTATTTTTTAAAAGTCA
* * * * *
14068532 TGAGCCTTTGTTTAGAGGAACCTTATTTATTTGTCAAAAGTCA
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTTAAAAGTCA
*
14068575 TGAGCCTCTGTTTA-AATGAGCC-AATTTATTTTTTAAAAGTCA
1 TGAGCCTCTGTTTAGAA-GAGCCTTATTTATTTTTTAAAAGTCA
* * * **
14068617 TGAGCCTCTATTTAGAGGAGCCTTATTTATTGTTT-AAAGTTG
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTTAAAAGTCA
* * * * *
14068659 TGAGGCTTTATTAAGAAGAGCCTT-TTATATTTTTCAAAAGT
1 TGAGCCTCTGTTTAGAAGAGCCTTATT-TATTTTTTAAAAGT
14068700 TGTTGAGCCT
Statistics
Matches: 310, Mismatches: 60, Indels: 35
0.77 0.15 0.09
Matches are distributed among these distances:
41 2 0.01
42 124 0.40
43 117 0.38
44 32 0.10
45 4 0.01
47 4 0.01
48 6 0.02
49 16 0.05
50 5 0.02
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42
Consensus pattern (43 bp):
TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTTAAAAGTCA
Found at i:14068512 original size:85 final size:85
Alignment explanation
Indices: 14068269--14068699 Score: 347
Period size: 85 Copynumber: 5.0 Consensus size: 85
14068259 TAGAGGAGCT
* * * * * **
14068269 TGAGCCTCTATTTAGAGGAGCTTTATTTTTTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGC
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGTTA-TGAGCCTCTATTTAGAATAGC
* * **
14068334 CTTATTTATGTTTTTTTCCAAAAATTGT
65 C---TTTA--TATTTTT-C-AAAAGTCA
* * * * * *
14068362 TAAGCTTTTGTTTAAAAGAGCC--ATCTATATTTTCAAAAGTTGTGAGCCTCTATTTAGAATAGC
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTAT-TTTTCAAAAGTTATGAGCCTCTATTTAGAATAGC
14068425 CTTCTATATTTTT-AAAAGTCA
65 CTT-TATATTTTTCAAAAGTCA
* * * * *
14068446 TGAGCCTCTGTTTATAAGAGCCTTATTTATTTTTTAAAAGTTATGAGCCTTTGTTTAGAGTAGCC
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGTTATGAGCCTCTATTTAGAATAGCC
14068511 TTATATATTTTTCAAAAGTCA
66 TT-TATATTTTTCAAAAGTCA
* * * * * *
14068532 TGAGCCTTTGTTTAGAGGAACCTTATTTATTTGTCAAAAGTCATGAGCCTCTGTTTA-AATGAGC
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGTTATGAGCCTCTATTTAGAAT-AGC
14068596 CAATTTAT-TTTTT-AAAAGTCA
65 C--TTTATATTTTTCAAAAGTCA
* * * * * * *
14068617 TGAGCCTCTATTTAGAGGAGCCTTATTTATTGTTT--AAAGTTGTGAGGCTTTATTAAGAAGAGC
1 TGAGCCTCTGTTTAGAAGAGCCTTATTTATT-TTTCAAAAGTTATGAGCCTCTATTTAGAATAGC
14068680 CTTTTATATTTTTCAAAAGT
65 C-TTTATATTTTTCAAAAGT
14068700 TGTTGAGCCT
Statistics
Matches: 277, Mismatches: 49, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
83 5 0.02
84 47 0.17
85 87 0.31
86 73 0.26
87 9 0.03
88 4 0.01
89 2 0.01
91 24 0.09
92 11 0.04
93 15 0.05
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42
Consensus pattern (85 bp):
TGAGCCTCTGTTTAGAAGAGCCTTATTTATTTTTCAAAAGTTATGAGCCTCTATTTAGAATAGCC
TTTATATTTTTCAAAAGTCA
Found at i:14068701 original size:43 final size:43
Alignment explanation
Indices: 14068368--14068740 Score: 302
Period size: 43 Copynumber: 8.8 Consensus size: 43
14068358 TTGTTAAGCT
* * * **
14068368 TTTGTTTAAAAGAGCCATCTATA-TTTTCAAAAGTTGTGAGCC
1 TTTGTTTAGAAGAGCCTTTTATATTTTTCAAAAGTCATGAGCC
* * * *
14068410 TCTATTTAGAATAGCCTTCTATATTTTT-AAAAGTCATGAGCC
1 TTTGTTTAGAAGAGCCTTTTATATTTTTCAAAAGTCATGAGCC
* * * *
14068452 TCTGTTTATAAGAGCCTTATT-TATTTTTTAAAAGTTATGAGCC
1 TTTGTTTAGAAGAGCCTT-TTATATTTTTCAAAAGTCATGAGCC
*
14068495 TTTGTTTAG-AGTAGCCTTATATATTTTTCAAAAGTCATGAGCC
1 TTTGTTTAGAAG-AGCCTTTTATATTTTTCAAAAGTCATGAGCC
* * *
14068538 TTTGTTTAGAGGAACCTTATT-TATTTGTCAAAAGTCATGAGCC
1 TTTGTTTAGAAGAGCCTT-TTATATTTTTCAAAAGTCATGAGCC
* *
14068581 TCTGTTTA-AATGAGCCAATTTAT-TTTTT-AAAAGTCATGAGCC
1 TTTGTTTAGAA-GAGCC-TTTTATATTTTTCAAAAGTCATGAGCC
* * * ** *
14068623 TCTATTTAGAGGAGCCTTATT-TATTGTTT--AAAGTTGTGAGGC
1 TTTGTTTAGAAGAGCCTT-TTATATT-TTTCAAAAGTCATGAGCC
* * **
14068665 TTTATTAAGAAGAGCCTTTTATATTTTTCAAAAGTTGTTGAGCC
1 TTTGTTTAGAAGAGCCTTTTATATTTTTCAAAAG-TCATGAGCC
* * *
14068709 TTTGTTGAGAGGAG-CTTTTATACTTTTCAAAA
1 TTTGTTTAGAAGAGCCTTTTATATTTTTCAAAA
14068741 TGTTAAACCT
Statistics
Matches: 271, Mismatches: 42, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
41 7 0.03
42 115 0.42
43 128 0.47
44 21 0.08
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (43 bp):
TTTGTTTAGAAGAGCCTTTTATATTTTTCAAAAGTCATGAGCC
Found at i:14069933 original size:3 final size:3
Alignment explanation
Indices: 14069925--14069955 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
14069915 GATAAAATTT
14069925 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14069956 TTTTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14071659 original size:36 final size:37
Alignment explanation
Indices: 14071619--14071695 Score: 131
Period size: 35 Copynumber: 2.1 Consensus size: 37
14071609 AATTTTCTTT
14071619 TTTGGGATTTCTATTGACATTAACT-CCGTTAAACTC
1 TTTGGGATTTCTATTGACATTAACTCCCGTTAAACTC
*
14071655 TTT-GGTTTTCTATTGACATTAACTCCCGTTAAACTC
1 TTTGGGATTTCTATTGACATTAACTCCCGTTAAACTC
14071691 TTTGG
1 TTTGG
14071696 TTTTCTCTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
35 20 0.53
36 17 0.45
37 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (37 bp):
TTTGGGATTTCTATTGACATTAACTCCCGTTAAACTC
Found at i:14071665 original size:35 final size:36
Alignment explanation
Indices: 14071626--14071701 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
14071616 TTTTTTGGGA
14071626 TTTCTATTGACATTAACT-CCGTTAAACTCTTTGGT
1 TTTCTATTGACATTAACTCCCGTTAAACTCTTTGGT
14071661 TTTCTATTGACATTAACTCCCGTTAAACTCTTTGGT
1 TTTCTATTGACATTAACTCCCGTTAAACTCTTTGGT
14071697 TTTCT
1 TTTCT
14071702 CTCATTAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 18 0.45
36 22 0.55
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (36 bp):
TTTCTATTGACATTAACTCCCGTTAAACTCTTTGGT
Found at i:14072161 original size:18 final size:17
Alignment explanation
Indices: 14072134--14072180 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
14072124 TTTTTTCCTT
*
14072134 TTTTCCTTTTTTCTTTCA
1 TTTTCATTTTTTC-TTCA
14072152 -TTTCATTTTTTCTTCA
1 TTTTCATTTTTTCTTCA
14072168 TTTTTCATTTTTT
1 -TTTTCATTTTTT
14072181 TTTCTTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 11 0.42
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCATTTTTTCTTCA
Found at i:14072199 original size:8 final size:7
Alignment explanation
Indices: 14072124--14072207 Score: 53
Period size: 8 Copynumber: 10.4 Consensus size: 7
14072114 ATAATTAAAT
14072124 TTTTTTCC
1 TTTTTT-C
14072132 TTTTTTCC
1 TTTTTT-C
14072140 TTTTTTC
1 TTTTTTC
14072147 TTTCATTTC
1 TTT--TTTC
14072156 ATTTTTTC
1 -TTTTTTC
14072164 TTCATTTTTC
1 -T--TTTTTC
14072174 ATTTTTT-
1 -TTTTTTC
14072181 TTTCTTCTC
1 TTT-TT-TC
14072190 TTATTTTC
1 TT-TTTTC
14072198 TTTTTTC
1 TTTTTTC
14072205 TTT
1 TTT
14072208 ACATACCCCC
Statistics
Matches: 65, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
6 3 0.05
7 14 0.22
8 29 0.45
9 8 0.12
10 11 0.17
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTTC
Found at i:14074859 original size:37 final size:36
Alignment explanation
Indices: 14074818--14074995 Score: 117
Period size: 37 Copynumber: 5.1 Consensus size: 36
14074808 AATATAGTGC
* *
14074818 ATGTAGTAGCTATTAAGATGTGCATGAAATGGAATGT
1 ATGTACTATCTATTAAGATGTGCATG-AATGGAATGT
**
14074855 ATGTACTATCTATTGGGATGTGC----ATGGAATGT
1 ATGTACTATCTATTAAGATGTGCATGAATGGAATGT
* * *
14074887 ATGTATTATCTATTAATATGTGTATGAGATGG-A---
1 ATGTACTATCTATTAAGATGTGCATGA-ATGGAATGT
* ** *
14074920 ATG--C-ATTTATTAAGATGTGTGTGAGATAGAATGT
1 ATGTACTATCTATTAAGATGTGCATGA-ATGGAATGT
* * *
14074954 AAGTACTATCTATTAAGATATGCATGAGATGGAATGC
1 ATGTACTATCTATTAAGATGTGCATGA-ATGGAATGT
14074991 ATGTA
1 ATGTA
14074996 TGTCATTGTG
Statistics
Matches: 107, Mismatches: 22, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
30 21 0.20
31 1 0.01
32 27 0.25
33 3 0.03
34 2 0.02
36 2 0.02
37 51 0.48
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (36 bp):
ATGTACTATCTATTAAGATGTGCATGAATGGAATGT
Found at i:14074908 original size:32 final size:32
Alignment explanation
Indices: 14074846--14074908 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
14074836 TGTGCATGAA
**
14074846 ATGGAATGTATGTACTATCTATTGGGATGTGC
1 ATGGAATGTATGTACTATCTATTAAGATGTGC
* *
14074878 ATGGAATGTATGTATTATCTATTAATATGTG
1 ATGGAATGTATGTACTATCTATTAAGATGTG
14074909 TATGAGATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (32 bp):
ATGGAATGTATGTACTATCTATTAAGATGTGC
Found at i:14075060 original size:37 final size:37
Alignment explanation
Indices: 14075017--14075089 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
14075007 TGTACATAGG
*
14075017 ATGGACTACATGTATTTTCTA-TTATGATATGCATGAC
1 ATGGACTACATGTATTATCTATTTA-GATATGCATGAC
* *
14075054 ATGGACTACATGTGTTATCTATTTAGATGTGCATGA
1 ATGGACTACATGTATTATCTATTTAGATATGCATGA
14075090 AACGAAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 29 0.91
38 3 0.09
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (37 bp):
ATGGACTACATGTATTATCTATTTAGATATGCATGAC
Found at i:14077103 original size:19 final size:19
Alignment explanation
Indices: 14077081--14077129 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
14077071 TGGAGGGTAA
14077081 TTTAGGGTTTGA-AGAGTGG
1 TTTAGGGTTTGACAG-GTGG
*
14077100 TTTAGGGTTTCACAGGTGG
1 TTTAGGGTTTGACAGGTGG
*
14077119 TTTAAGGTTTG
1 TTTAGGGTTTG
14077130 GAATTTGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.18, C:0.04, G:0.37, T:0.41
Consensus pattern (19 bp):
TTTAGGGTTTGACAGGTGG
Found at i:14077233 original size:23 final size:23
Alignment explanation
Indices: 14077207--14077282 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
14077197 AAATATTGAT
14077207 ACATGTGACAAAAAACAAAAATG
1 ACATGTGACAAAAAACAAAAATG
** * *
14077230 ACAT-TGGTAAAAATATAAATATTG
1 ACATGTGACAAAAA-ACAAA-AATG
*
14077254 ATACATGTGACAAATAACAAAAATG
1 --ACATGTGACAAAAAACAAAAATG
14077279 ACAT
1 ACAT
14077283 TGGTGAAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 7 0.18
23 12 0.31
24 3 0.08
25 3 0.08
26 8 0.21
27 6 0.15
ACGTcount: A:0.55, C:0.11, G:0.12, T:0.22
Consensus pattern (23 bp):
ACATGTGACAAAAAACAAAAATG
Found at i:14077239 original size:49 final size:49
Alignment explanation
Indices: 14077182--14077301 Score: 213
Period size: 49 Copynumber: 2.4 Consensus size: 49
14077172 ACAAGGATGC
14077182 CATTGGTAAAAATGTAAATATTGATACATGTGACAAAAAACAAAAATGA
1 CATTGGTAAAAATGTAAATATTGATACATGTGACAAAAAACAAAAATGA
* *
14077231 CATTGGTAAAAATATAAATATTGATACATGTGACAAATAACAAAAATGA
1 CATTGGTAAAAATGTAAATATTGATACATGTGACAAAAAACAAAAATGA
*
14077280 CATTGGTGAAAATGTAAATATT
1 CATTGGTAAAAATGTAAATATT
14077302 AATGAATGAC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (49 bp):
CATTGGTAAAAATGTAAATATTGATACATGTGACAAAAAACAAAAATGA
Found at i:14077288 original size:25 final size:25
Alignment explanation
Indices: 14077211--14077292 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
14077201 ATTGATACAT
*
14077211 GTGACAAAAAACAAAAATGACATTG
1 GTGACAAATAACAAAAATGACATTG
* * *
14077236 GT-AAAAATATA-AATATTGATACA-T-
1 GTGACAAATA-ACAAAAATG--ACATTG
14077260 GTGACAAATAACAAAAATGACATTG
1 GTGACAAATAACAAAAATGACATTG
14077285 GTGA-AAAT
1 GTGACAAAT
14077293 GTAAATATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 15
0.66 0.11 0.23
Matches are distributed among these distances:
23 3 0.07
24 18 0.42
25 19 0.44
26 3 0.07
ACGTcount: A:0.54, C:0.09, G:0.15, T:0.23
Consensus pattern (25 bp):
GTGACAAATAACAAAAATGACATTG
Found at i:14078995 original size:16 final size:16
Alignment explanation
Indices: 14078974--14079009 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
14078964 ATTCTAATTG
14078974 GTTGTGAATTTTAAAA
1 GTTGTGAATTTTAAAA
*
14078990 GTTGTGAATTTTGAAA
1 GTTGTGAATTTTAAAA
14079006 GTTG
1 GTTG
14079010 ATCCGAGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTTGTGAATTTTAAAA
Found at i:14080517 original size:22 final size:22
Alignment explanation
Indices: 14080475--14080515 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14080465 GGTAAAAACC
*
14080475 TAAAATGGGATCGATCCTTTAA
1 TAAAATGGGATCAATCCTTTAA
14080497 TAAAA-GGGATCAATCCTTT
1 TAAAATGGGATCAATCCTTT
14080516 TACTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (22 bp):
TAAAATGGGATCAATCCTTTAA
Found at i:14081274 original size:24 final size:24
Alignment explanation
Indices: 14081218--14081274 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
14081208 GAGTTGTAAT
* * *
14081218 TTTATTTTAATTTTAATTTTTTTA
1 TTTATTTTAATTCTAAGTTTTTGA
* *
14081242 ATTAGTTTTAGTTCTAAGTTTTTGA
1 TTTA-TTTTAATTCTAAGTTTTTGA
14081267 TTTATTTT
1 TTTATTTT
14081275 GGTGAAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (24 bp):
TTTATTTTAATTCTAAGTTTTTGA
Found at i:14092858 original size:13 final size:13
Alignment explanation
Indices: 14092840--14092873 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
14092830 AATAAAATAT
14092840 ATGAAAAAAAGAAG
1 ATGAAAAAAAG-AG
14092854 A-GAAAAAAAGAG
1 ATGAAAAAAAGAG
14092866 ATGAAAAA
1 ATGAAAAA
14092874 TGGTTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 15 0.79
14 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (13 bp):
ATGAAAAAAAGAG
Found at i:14094630 original size:12 final size:13
Alignment explanation
Indices: 14094605--14094637 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
14094595 GATTTTTTGA
14094605 AAAAAAATGAAATG
1 AAAAAAAT-AAATG
14094619 AAAAAAAT-AATG
1 AAAAAAATAAATG
14094631 AAAAAAA
1 AAAAAAA
14094638 ATCTTCGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
14 8 0.42
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAATG
Found at i:14094773 original size:42 final size:42
Alignment explanation
Indices: 14094673--14094797 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 42
14094663 AAAACATTTA
* * *
14094673 ATCTACATCATAAAAAAGGACCTTCACATTTGTATCACTTGC
1 ATCTGCATCATAAAAAAGGACATTCACATTTGCATCACTTGC
*
14094715 ATCTGCATCATAAAAAAGGAACATTCACATCTGCATCACTTGC
1 ATCTGCATCATAAAAAAGG-ACATTCACATTTGCATCACTTGC
* *
14094758 ATCTGCTTTATAAAAAAGGACATTCACATTTGCATCACTT
1 ATCTGCATCATAAAAAAGGACATTCACATTTGCATCACTT
14094798 ACATTCACAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
42 38 0.51
43 37 0.49
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.30
Consensus pattern (42 bp):
ATCTGCATCATAAAAAAGGACATTCACATTTGCATCACTTGC
Found at i:14094863 original size:101 final size:101
Alignment explanation
Indices: 14094737--14094921 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 101
14094727 AAAAAGGAAC
* *
14094737 ATTCACATCTGCATCACTTGCATCTGCTTTATAAAAAAGGACATTCACATTTGCATCACTTACAT
1 ATTCACATCTGCATCACTTGCATCTGCATCATAAAAAAGGACATTCACATTTGCATCACTTACAT
*
14094802 TCACACTTATATGTGCATCATGAGAAAGACATTTAT
66 TCACACTTACATGTGCATCATGAGAAAGACATTTAT
* * * * **
14094838 ATTCCCATTTGCATCACTTGTATCTGCATCATAAAAAAGGACATTCGCATTTGCATCACTTGTAT
1 ATTCACATCTGCATCACTTGCATCTGCATCATAAAAAAGGACATTCACATTTGCATCACTTACAT
* *
14094903 TCATACTTGCATGTGCATC
66 TCACACTTACATGTGCATC
14094922 TTGAAAAAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (101 bp):
ATTCACATCTGCATCACTTGCATCTGCATCATAAAAAAGGACATTCACATTTGCATCACTTACAT
TCACACTTACATGTGCATCATGAGAAAGACATTTAT
Found at i:14095011 original size:21 final size:21
Alignment explanation
Indices: 14094986--14095033 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
14094976 CATTCCGTAA
*
14094986 TTGCATCACTTGCATTCGCAT
1 TTGCATCACTTGCATTCGCAC
*
14095007 TTGCATCACTTGCATTTGCAC
1 TTGCATCACTTGCATTCGCAC
14095028 TTGCAT
1 TTGCAT
14095034 GTACATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.40
Consensus pattern (21 bp):
TTGCATCACTTGCATTCGCAC
Found at i:14095108 original size:41 final size:41
Alignment explanation
Indices: 14095063--14095144 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
14095053 TTTGTGTTCA
* *
14095063 CATCTACATCATAAAAAAGACATT-TGCATTTGCATGACTTG
1 CATCTACATCACAAAAAAGACATTCT-CATTTGCATCACTTG
* *
14095104 CATCTACATCACAAGAAAGACATTCTCATTTGTATCACTTG
1 CATCTACATCACAAAAAAGACATTCTCATTTGCATCACTTG
14095145 TATTTGCACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (41 bp):
CATCTACATCACAAAAAAGACATTCTCATTTGCATCACTTG
Found at i:14095820 original size:98 final size:97
Alignment explanation
Indices: 14095646--14096093 Score: 585
Period size: 98 Copynumber: 4.6 Consensus size: 97
14095636 TAAGCAAAAC
* ** * *
14095646 ATTTTTAAAATTTCAATGCCTCTTATTAAGAGGAGCATTCAAAGATTTTTAAGACTTCCAAGCAT
1 ATTTTTAAAGTTTCAATGCCTCTTATTGGGAGGAGCATTCAAAGATTTTTAAGACTT-TAGGCAT
*
14095711 AATTTCTAAGACCTCTAGGCAAAACATTTTTAA
65 AATTTCCAAGACCTCTAGGCAAAACATTTTTAA
* *
14095744 ATTTTTAAAGTTTCAATGCCTCTTATTGGGATGAGCATTCAAAGATTTTTAAGATCTTTGGGCAT
1 ATTTTTAAAGTTTCAATGCCTCTTATTGGGAGGAGCATTCAAAGATTTTTAAGA-CTTTAGGCAT
*
14095809 AATTTCCAAGACCTCTAGGCATAACATTTTTAA
65 AATTTCCAAGACCTCTAGGCAAAACATTTTTAA
* * *
14095842 AATTTTAAAGTTTCAATGCCTCTTATTGGGAGGAGCATTCAAAGATTTGTAAGACTTTCGGGCAT
1 ATTTTTAAAGTTTCAATGCCTCTTATTGGGAGGAGCATTCAAAGATTTTTAAGACTTT-AGGCAT
* **
14095907 AATTTCCAAGAGCTCCGGGCAAAACATTTTTAA
65 AATTTCCAAGACCTCTAGGCAAAACATTTTTAA
* * * ** * *
14095940 AATTTTAAAGTTTCAATACCTCTTATTGGGAAGAATATTCAAAG-TTTTTAAAAACCTCTAGGCA
1 ATTTTTAAAGTTTCAATGCCTCTTATTGGGAGGAGCATTCAAAGATTTTT-AAGA-CTTTAGGCA
*
14096004 TAATTTCCAAGGCCTCT-GAGCAAAACATTTTTAA
64 TAATTTCCAAGACCTCTAG-GCAAAACATTTTTAA
* ** *
14096038 ATTTTTAAAGTTTCAATGCATCTTATTAAGAGGAGCATTCAAAGATTTCTAAGACT
1 ATTTTTAAAGTTTCAATGCCTCTTATTGGGAGGAGCATTCAAAGATTTTTAAGACT
14096094 ATCGGGCAAA
Statistics
Matches: 307, Mismatches: 37, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
97 11 0.04
98 286 0.93
99 10 0.03
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (97 bp):
ATTTTTAAAGTTTCAATGCCTCTTATTGGGAGGAGCATTCAAAGATTTTTAAGACTTTAGGCATA
ATTTCCAAGACCTCTAGGCAAAACATTTTTAA
Found at i:14095948 original size:196 final size:196
Alignment explanation
Indices: 14095614--14096101 Score: 647
Period size: 196 Copynumber: 2.5 Consensus size: 196
14095604 AAGCTAGCTC
*
14095614 CTAGG-ATAATTTCCAAGACCTCTAAGCAAAACATTTTT---A----AAA-TTTCAATGCCTCTT
1 CTAGGCATAATTTCCAAGACCTCTGAGCAAAACATTTTTAAAATTTTAAAGTTTCAATGCCTCTT
* * ** * *
14095670 ATTAAGAGGAGCATTCAAAGATTTTTAAGACTTCCAAGCATAATTTCTAAGACCTCTAGGCAAAA
66 ATTAAGAGGAGCATTCAAAGATTTCTAAGACTTTCGGGCATAATTTCCAAGACCTCCAGGCAAAA
* * * * * *
14095735 CATTTTTAAATTTTTAAAGTTTCAATGCCTCTTATTGGGATGAGCATTCAAAGATTTTT-AAGAT
131 CATTTTTAAAATTTTAAAGTTTCAATACCTCTTATTGGGAAGAACATTCAAAG-TTTTTAAAAAC
14095799 CT
195 CT
* * *
14095801 TTGGGCATAATTTCCAAGACCTCT-AGGCATAACATTTTTAAAATTTTAAAGTTTCAATGCCTCT
1 CTAGGCATAATTTCCAAGACCTCTGA-GCAAAACATTTTTAAAATTTTAAAGTTTCAATGCCTCT
** * * *
14095865 TATTGGGAGGAGCATTCAAAGATTTGTAAGACTTTCGGGCATAATTTCCAAGAGCTCCGGGCAAA
65 TATTAAGAGGAGCATTCAAAGATTTCTAAGACTTTCGGGCATAATTTCCAAGACCTCCAGGCAAA
*
14095930 ACATTTTTAAAATTTTAAAGTTTCAATACCTCTTATTGGGAAGAATATTCAAAGTTTTTAAAAAC
130 ACATTTTTAAAATTTTAAAGTTTCAATACCTCTTATTGGGAAGAACATTCAAAGTTTTTAAAAAC
14095995 CT
195 CT
* * *
14095997 CTAGGCATAATTTCCAAGGCCTCTGAGCAAAACATTTTTAAATTTTTAAAGTTTCAATGCATCTT
1 CTAGGCATAATTTCCAAGACCTCTGAGCAAAACATTTTTAAAATTTTAAAGTTTCAATGCCTCTT
*
14096062 ATTAAGAGGAGCATTCAAAGATTTCTAAGACTATCGGGCA
66 ATTAAGAGGAGCATTCAAAGATTTCTAAGACTTTCGGGCA
14096102 AACTCTTTTA
Statistics
Matches: 259, Mismatches: 30, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
187 4 0.02
188 30 0.12
191 1 0.00
195 8 0.03
196 215 0.83
197 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (196 bp):
CTAGGCATAATTTCCAAGACCTCTGAGCAAAACATTTTTAAAATTTTAAAGTTTCAATGCCTCTT
ATTAAGAGGAGCATTCAAAGATTTCTAAGACTTTCGGGCATAATTTCCAAGACCTCCAGGCAAAA
CATTTTTAAAATTTTAAAGTTTCAATACCTCTTATTGGGAAGAACATTCAAAGTTTTTAAAAACC
T
Found at i:14097082 original size:144 final size:144
Alignment explanation
Indices: 14096725--14097128 Score: 429
Period size: 144 Copynumber: 2.8 Consensus size: 144
14096715 GTACTGGAAA
** * * * *
14096725 AAGTGTGAAATTAAAAAAAAAACCCTTATAAGGGTATTTTCATAATTTGATTTTTTCAAGCTTGA
1 AAGTGTGAAATT-ACCAAAATACCCTTATAAGGGTATTTTCGTAATTTG-TTTTCTCAAGCTTGG
* * ** *
14096790 ATTTTCAT-AAAACTCTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTACATTTTAAAT
64 ATTTTCATGAAAA-TTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGTACACATGAAAT
* *
14096854 CACAGCCATACCTCAAT
128 CACAGACATACCTCAAG
* * ** ** * *
14096871 AAGTGTAAAATTACCAAAATACCCCTATAAAAGTATTTTCGTAATTTGCCCTTCCCAAGCTTAGA
1 AAGTGTGAAATTACCAAAATACCCTTATAAGGGTATTTTCGTAATTTG-TTTTCTCAAGCTTGGA
* * *
14096936 TTTTTATGAAAATTTTTAGATCTTAATTTT-TAAATATTTCATGATTTTTGGTGCACATGAAATC
65 TTTTCATGAAAATTTTCAGATCTTAATTTTAT-AATATTTCATGATTTTTGGTACACATGAAATC
* * *
14097000 ATA-ATAGTACCT-GAG
129 ACAGACA-TACCTCAAG
* *
14097015 AAGTGTGAAATTACCAAAATATCCTTATAAGGGTTTTTTCGTAATTTGTTATTCTCAAGCTTGGA
1 AAGTGTGAAATTACCAAAATACCCTTATAAGGGTATTTTCGTAATTTGTT-TTCTCAAGCTTGGA
* * *
14097080 TTTTCATGAAACTTTTCATATCTCAATTTTATAATATTTCATGATTTTT
65 TTTTCATGAAAATTTTCAGATCTTAATTTTATAATATTTCATGATTTTT
14097129 AATTTTTTAA
Statistics
Matches: 210, Mismatches: 43, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
144 99 0.47
145 96 0.46
146 15 0.07
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (144 bp):
AAGTGTGAAATTACCAAAATACCCTTATAAGGGTATTTTCGTAATTTGTTTTCTCAAGCTTGGAT
TTTCATGAAAATTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGTACACATGAAATCAC
AGACATACCTCAAG
Found at i:14097661 original size:18 final size:18
Alignment explanation
Indices: 14097627--14097661 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14097617 AAAATAAGAA
* *
14097627 AGGGAAAAAGGCTTAAAT
1 AGGGAAAAAGACATAAAT
14097645 AGGGAAAAAGACATAAA
1 AGGGAAAAAGACATAAA
14097662 AAAATGGCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.26, T:0.11
Consensus pattern (18 bp):
AGGGAAAAAGACATAAAT
Found at i:14101752 original size:3 final size:3
Alignment explanation
Indices: 14101746--14101816 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
14101736 TTATTATTAT
*
14101746 TAC TAC TGC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
* *
14101794 TAC TAC TAC TAT TAC TAT TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TA
14101817 TTATTATTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.30, G:0.01, T:0.37
Consensus pattern (3 bp):
TAC
Found at i:14101821 original size:3 final size:3
Alignment explanation
Indices: 14101803--14101911 Score: 101
Period size: 3 Copynumber: 36.3 Consensus size: 3
14101793 CTACTACTAC
* * * * * * * * * *
14101803 TAT TAC TAT TAC TAT TAT TAT TGT TGT TGT TGT TGT TGT TGT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
14101851 TAT TAT TTT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
14101899 TAC TAT TAT TAT T
1 TAT TAT TAT TAT T
14101912 GTTGTTGTTG
Statistics
Matches: 92, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:14102599 original size:16 final size:14
Alignment explanation
Indices: 14102571--14102604 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
14102561 TTAACTACAA
14102571 ACAAAAAAAAACTC
1 ACAAAAAAAAACTC
14102585 ACAAAGAAAATAACTC
1 ACAAA-AAAA-AACTC
14102601 ACAA
1 ACAA
14102605 GGATTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 4 0.22
16 9 0.50
ACGTcount: A:0.68, C:0.21, G:0.03, T:0.09
Consensus pattern (14 bp):
ACAAAAAAAAACTC
Found at i:14103026 original size:21 final size:21
Alignment explanation
Indices: 14103000--14103042 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
14102990 CATAGTAATG
14103000 AATCTGACCACAATCTCATTT
1 AATCTGACCACAATCTCATTT
*
14103021 AATCTGACCACTATCTCATTT
1 AATCTGACCACAATCTCATTT
14103042 A
1 A
14103043 CCTTCATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (21 bp):
AATCTGACCACAATCTCATTT
Found at i:14107878 original size:20 final size:21
Alignment explanation
Indices: 14107840--14107878 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14107830 TGGGTAGAAG
14107840 ATTATGTTCACATTACAAAAT
1 ATTATGTTCACATTACAAAAT
14107861 ATTATGTTCACA-TACAAA
1 ATTATGTTCACATTACAAA
14107879 TCCCTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (21 bp):
ATTATGTTCACATTACAAAAT
Found at i:14108573 original size:83 final size:83
Alignment explanation
Indices: 14108435--14108590 Score: 240
Period size: 83 Copynumber: 1.9 Consensus size: 83
14108425 CCATCTCAAT
* * * *
14108435 AAGACAAGATTGAAGGTAATCCTATCAATTCAATAATCCAAAAAAGGTAATCTTTAAAGCTCTCA
1 AAGACAAGATTGAAGGCAATCCCATCAATTCAACAATCCAAAAAAGGTAATCTTTAAAGCTCCCA
14108500 TGCTTGGATGAATGTTTC
66 TGCTTGGATGAATGTTTC
* * **
14108518 AAGACAAGATTGAAGGCAATCCCATCAATTTAGCAATCTTAAAAAGGTAATCTTTAAAGCTCCCA
1 AAGACAAGATTGAAGGCAATCCCATCAATTCAACAATCCAAAAAAGGTAATCTTTAAAGCTCCCA
14108583 TGCTTGGA
66 TGCTTGGA
14108591 GGGATGTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 65 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (83 bp):
AAGACAAGATTGAAGGCAATCCCATCAATTCAACAATCCAAAAAAGGTAATCTTTAAAGCTCCCA
TGCTTGGATGAATGTTTC
Found at i:14113037 original size:20 final size:20
Alignment explanation
Indices: 14113012--14113056 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
14113002 TACAATTTAG
14113012 AAGCATGAGTGATCAATTAA
1 AAGCATGAGTGATCAATTAA
* *
14113032 AAGCATGGGTGATCAATTAG
1 AAGCATGAGTGATCAATTAA
14113052 AAGCA
1 AAGCA
14113057 CAGATCTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (20 bp):
AAGCATGAGTGATCAATTAA
Found at i:14114511 original size:21 final size:21
Alignment explanation
Indices: 14114482--14114528 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
14114472 AGAACAAATT
*
14114482 GATCTCCTATCAAAACCAATC
1 GATCCCCTATCAAAACCAATC
*
14114503 GATCCCCTATCAAAACTAATC
1 GATCCCCTATCAAAACCAATC
14114524 GATCC
1 GATCC
14114529 TTTCATCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.34, G:0.06, T:0.23
Consensus pattern (21 bp):
GATCCCCTATCAAAACCAATC
Found at i:14115017 original size:65 final size:65
Alignment explanation
Indices: 14114940--14115072 Score: 212
Period size: 65 Copynumber: 2.0 Consensus size: 65
14114930 AGTAGGCATT
* * * *
14114940 TTTTTTAGAGTTTTATAGTGAGATTGAGTAAAATACTATAAAAAGTAGAGATTTTTATCTTAAGC
1 TTTTTGAGAGTTTTATAATGAGATTGAGTAAAATACTACAAAAAGTAAAGATTTTTATCTTAAGC
* *
14115005 TTTTTGAGAGTTTTATAATGAGATTGGGTAAAATACTACAAAAGGTAAAGATTTTTATCTTAAGC
1 TTTTTGAGAGTTTTATAATGAGATTGAGTAAAATACTACAAAAAGTAAAGATTTTTATCTTAAGC
14115070 TTT
1 TTT
14115073 GGAGAGAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.41
Consensus pattern (65 bp):
TTTTTGAGAGTTTTATAATGAGATTGAGTAAAATACTACAAAAAGTAAAGATTTTTATCTTAAGC
Found at i:14121131 original size:14 final size:15
Alignment explanation
Indices: 14121105--14121133 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14121095 AAATGTCTGC
14121105 AATTATAAAATTATA
1 AATTATAAAATTATA
14121120 AATTAT-AAATTATA
1 AATTATAAAATTATA
14121134 TATTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTATAAAATTATA
Found at i:14121149 original size:22 final size:21
Alignment explanation
Indices: 14121124--14121169 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14121114 ATTATAAATT
*
14121124 ATAAATTATATATTTTTAAAAA
1 ATAAATTATATA-TTTGAAAAA
* *
14121146 ATAATTTTTATATTTGAAAAA
1 ATAAATTATATATTTGAAAAA
14121167 ATA
1 ATA
14121170 TTATTCTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATAAATTATATATTTGAAAAA
Found at i:14123743 original size:29 final size:31
Alignment explanation
Indices: 14123691--14123757 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
14123681 AATATCACGA
*
14123691 ATAATTTTTAAATTATCATAAAATATTTAAT
1 ATAATATTTAAATTATCATAAAATATTTAAT
* *
14123722 ATAATATTTAAATT-TTA-AAAATTTTTAAT
1 ATAATATTTAAATTATCATAAAATATTTAAT
14123751 ATAATAT
1 ATAATAT
14123758 ATGAATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 18 0.55
30 2 0.06
31 13 0.39
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
ATAATATTTAAATTATCATAAAATATTTAAT
Found at i:14125567 original size:19 final size:21
Alignment explanation
Indices: 14125536--14125578 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
14125526 AAACTTTTAC
14125536 TTTTTATATTTTA-AATT-AT
1 TTTTTATATTTTATAATTAAT
14125555 TTTTTAT-TCTTTATAATTAAT
1 TTTTTATAT-TTTATAATTAAT
14125576 TTT
1 TTT
14125579 GGAAACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 4 0.19
21 5 0.24
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTATATTTTATAATTAAT
Found at i:14129456 original size:27 final size:26
Alignment explanation
Indices: 14129426--14129485 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
14129416 TTTTTTTTTT
*
14129426 TTTTTGGCTTCATTTTGGTTTTGGGAA
1 TTTTTGGCTTCATTTAGGTTTTGGG-A
* * * *
14129453 TTTTAGGCTTGATTTAGTTTTTTGGA
1 TTTTTGGCTTCATTTAGGTTTTGGGA
14129479 TTTTTGG
1 TTTTTGG
14129486 AACTAGGATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.12, C:0.05, G:0.25, T:0.58
Consensus pattern (26 bp):
TTTTTGGCTTCATTTAGGTTTTGGGA
Found at i:14130588 original size:37 final size:37
Alignment explanation
Indices: 14130516--14130586 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
14130506 TTGAATTGGA
* ** *
14130516 GTTTGGGTTTTGAGCCCAATCTTTAGTTTTCTTTTGT
1 GTTTGGGCTTTGAGCCCAATAGTTAATTTTCTTTTGT
14130553 GTTTGGGCTTTGAGCCCAATAGTTAA-TTTCTTTT
1 GTTTGGGCTTTGAGCCCAATAGTTAATTTTCTTTT
14130587 TGCTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 8 0.27
37 22 0.73
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.51
Consensus pattern (37 bp):
GTTTGGGCTTTGAGCCCAATAGTTAATTTTCTTTTGT
Found at i:14130975 original size:27 final size:26
Alignment explanation
Indices: 14130945--14131004 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
14130935 TTTTTTTTTT
*
14130945 TTTTTGGCTTCATTTTGTTTTTGGGAA
1 TTTTTGGCTTCATTTAGTTTTTGGG-A
* * *
14130972 TTTTAGGCTTGATTTAGTTTTTTGGA
1 TTTTTGGCTTCATTTAGTTTTTGGGA
14130998 TTTTTGG
1 TTTTTGG
14131005 AACTAGGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.12, C:0.05, G:0.23, T:0.60
Consensus pattern (26 bp):
TTTTTGGCTTCATTTAGTTTTTGGGA
Found at i:14134266 original size:18 final size:17
Alignment explanation
Indices: 14134238--14134280 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
14134228 ATTTATTTTT
14134238 ATTTGTTTAAACTATTAG
1 ATTT-TTTAAACTATTAG
*
14134256 ATCTTTTTAAACTATTTG
1 AT-TTTTTAAACTATTAG
14134274 ATTTTTT
1 ATTTTTT
14134281 CTTTATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 16 0.70
19 2 0.09
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (17 bp):
ATTTTTTAAACTATTAG
Found at i:14134779 original size:41 final size:41
Alignment explanation
Indices: 14134720--14134799 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
14134710 CCATTTGGAT
* *
14134720 CAATAACAACATAGGATGATTTAATGTAAAAGTTTCTAGAC
1 CAATAACAACATAAGATGATTTAATGCAAAAGTTTCTAGAC
* **
14134761 CAATAACAGCATAAGATGATTTGGTGCAAAAGTTTCTAG
1 CAATAACAACATAAGATGATTTAATGCAAAAGTTTCTAG
14134800 CTAAATTCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (41 bp):
CAATAACAACATAAGATGATTTAATGCAAAAGTTTCTAGAC
Found at i:14138964 original size:21 final size:20
Alignment explanation
Indices: 14138931--14138974 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
14138921 CCAAACTTTG
*
14138931 TTTTTCACTTATTTTTTCTT
1 TTTTTCACTTATTATTTCTT
* *
14138951 TTTTTCCCTCTATTATTTGTT
1 TTTTTCACT-TATTATTTCTT
14138972 TTT
1 TTT
14138975 CACAACTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTCACTTATTATTTCTT
Found at i:14139905 original size:8 final size:8
Alignment explanation
Indices: 14139894--14139957 Score: 62
Period size: 8 Copynumber: 8.0 Consensus size: 8
14139884 ACCAAATAAC
14139894 CAAATGAA
1 CAAATGAA
14139902 CAAATGAA
1 CAAATGAA
14139910 CAAATGAA
1 CAAATGAA
14139918 CAAA-GAA
1 CAAATGAA
*
14139925 AAAAT-AA
1 CAAATGAA
14139932 GCAATAT-AA
1 -CAA-ATGAA
*
14139941 CCAGATGAA
1 -CAAATGAA
14139950 CAAATGAA
1 CAAATGAA
14139958 AACATCAACA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
7 8 0.17
8 31 0.66
9 8 0.17
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
CAAATGAA
Found at i:14139968 original size:48 final size:46
Alignment explanation
Indices: 14139871--14139971 Score: 132
Period size: 48 Copynumber: 2.2 Consensus size: 46
14139861 ATCAATACAT
* *
14139871 ACAAAAAAACATAACCAAATAACCAAATGAACAAATGAACAAATGA
1 ACAAAAAAAAATAACCAAATAACCAAATGAACAAATGAACAAATCA
* *
14139917 ACAAAGAAAAAATAAGCAATATAACCAGATGAACAAATGAA-AACATCA
1 ACAAA-AAAAAATAACCAA-ATAACCAAATGAACAAATGAACAA-ATCA
14139965 ACAAAAA
1 ACAAAAA
14139972 GAAACAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
46 5 0.10
47 15 0.31
48 28 0.58
ACGTcount: A:0.65, C:0.16, G:0.08, T:0.11
Consensus pattern (46 bp):
ACAAAAAAAAATAACCAAATAACCAAATGAACAAATGAACAAATCA
Found at i:14141967 original size:141 final size:141
Alignment explanation
Indices: 14141713--14141992 Score: 470
Period size: 141 Copynumber: 2.0 Consensus size: 141
14141703 GGCCATGGTT
*
14141713 CTAGGTAGTCATAAAAATAATAACTTAAAGGCTTAACATGGTCCTCATAGTGCTTGACTACCTCA
1 CTAGGTAGTCATAAAAATAATAACTTAAAGGCTTAACATGGTCCTCATAGTGCTTGACTACATCA
*
14141778 TAAAAATTGGACTCTCAGATGAAAAATAACATAAAACCTAAACAAAAATATAATAACTATGTCTA
66 TAAAAATTGGACTCCCAGATGAAAAATAACATAAAACCTAAACAAAAATATAATAACTATGTCTA
14141843 AACTATCTACA
131 AACTATCTACA
* * ** *
14141854 CTAGGTAGTCATCAAAATAATAACTTAAAGGCTTAACATGGTCTTTTTGGTGCTTGACTACATCA
1 CTAGGTAGTCATAAAAATAATAACTTAAAGGCTTAACATGGTCCTCATAGTGCTTGACTACATCA
* **
14141919 TAAAAATTGGACTCCCATATGAAAAATAACATAAAACCTAAACAAAAATATAATGGCTATGTCTA
66 TAAAAATTGGACTCCCAGATGAAAAATAACATAAAACCTAAACAAAAATATAATAACTATGTCTA
14141984 AACTATCTA
131 AACTATCTA
14141993 TGCTAAAGCT
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 129 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.28
Consensus pattern (141 bp):
CTAGGTAGTCATAAAAATAATAACTTAAAGGCTTAACATGGTCCTCATAGTGCTTGACTACATCA
TAAAAATTGGACTCCCAGATGAAAAATAACATAAAACCTAAACAAAAATATAATAACTATGTCTA
AACTATCTACA
Found at i:14146081 original size:24 final size:24
Alignment explanation
Indices: 14146027--14146074 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14146017 AGTTGGCATG
14146027 CTATAATCATGATGATGCTAACTT
1 CTATAATCATGATGATGCTAACTT
14146051 CTATAATCATGATGATGCTAACTT
1 CTATAATCATGATGATGCTAACTT
14146075 AGTTAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (24 bp):
CTATAATCATGATGATGCTAACTT
Found at i:14148760 original size:29 final size:29
Alignment explanation
Indices: 14148727--14148787 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
14148717 TTTATGTGTA
**
14148727 CTTTGAGCTTTCGACTATGCACTCAATGC
1 CTTTGAGCTTTCGACTACACACTCAATGC
* *
14148756 CTTTGAGCTTTTGACTACACACTTAATGC
1 CTTTGAGCTTTCGACTACACACTCAATGC
14148785 CTT
1 CTT
14148788 AGTCTCTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
CTTTGAGCTTTCGACTACACACTCAATGC
Found at i:14154379 original size:20 final size:19
Alignment explanation
Indices: 14154344--14154381 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
14154334 ATCCTAAGCC
*
14154344 ATTTAAGAATTCTAATTTG
1 ATTTAAGAAATCTAATTTG
14154363 ATTTAATGAAATCTAATTT
1 ATTTAA-GAAATCTAATTT
14154382 CTTATGTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (19 bp):
ATTTAAGAAATCTAATTTG
Found at i:14156188 original size:35 final size:35
Alignment explanation
Indices: 14156149--14156292 Score: 105
Period size: 35 Copynumber: 4.1 Consensus size: 35
14156139 TATTGTGGGT
* *
14156149 ATGATTGGGACAATACCATAAGTCAAAAAATAAAG
1 ATGATTAGGACAACACCATAAGTCAAAAAATAAAG
* * * * *
14156184 ATGATTAGGACAACATCACAGGTAAAAAAAATAATG
1 ATGATTAGGACAACACCATAAGT-CAAAAAATAAAG
* * * * *
14156220 ATG-TT-GAAATAACATCA-ACAGTCGAAAAAACAAAT
1 ATGATTAG-GACAACACCATA-AGTC-AAAAAATAAAG
* *
14156255 ATGACTAGGACAACACCATACGTCAAAAAATAAAG
1 ATGATTAGGACAACACCATAAGTCAAAAAATAAAG
14156290 ATG
1 ATG
14156293 GCATCATAGG
Statistics
Matches: 81, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
34 2 0.02
35 53 0.65
36 24 0.30
37 2 0.02
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.19
Consensus pattern (35 bp):
ATGATTAGGACAACACCATAAGTCAAAAAATAAAG
Found at i:14156346 original size:36 final size:36
Alignment explanation
Indices: 14156306--14156403 Score: 128
Period size: 36 Copynumber: 2.7 Consensus size: 36
14156296 TCATAGGTAA
* * *
14156306 AAAAAGTAAAGATGATCAGGACAACATCACAGGTT-G
1 AAAAA-TAAAAATGATCGGGACAACATCACAGATTAG
14156342 AAAAAATAAAAATGA-CTGGGACAACATCACAGATTAG
1 -AAAAATAAAAATGATC-GGGACAACATCACAGATTAG
14156379 AAAAATAAAAATGATCGGGACAACA
1 AAAAATAAAAATGATCGGGACAACA
14156404 CCAACAATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
35 1 0.02
36 47 0.85
37 7 0.13
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.15
Consensus pattern (36 bp):
AAAAATAAAAATGATCGGGACAACATCACAGATTAG
Found at i:14156768 original size:36 final size:36
Alignment explanation
Indices: 14156729--14156796 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
14156719 CGCAGGTAAA
*
14156729 AAAAAAC-AAATATAATTAAGACAACACTGTAAATC
1 AAAAAACTAAATATAACTAAGACAACACTGTAAATC
* * *
14156764 AAAAAACTAAATATGACTAGGACAACATTGTAA
1 AAAAAACTAAATATAACTAAGACAACACTGTAA
14156797 GTAGAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 7 0.25
36 21 0.75
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.21
Consensus pattern (36 bp):
AAAAAACTAAATATAACTAAGACAACACTGTAAATC
Found at i:14156825 original size:35 final size:36
Alignment explanation
Indices: 14156748--14156863 Score: 128
Period size: 36 Copynumber: 3.2 Consensus size: 36
14156738 ATATAATTAA
* * *
14156748 GACAACACTGTAA-ATCAAAAAACTAAATATGACTAG
1 GACAACACTGTAAGA-CAAAAAAATAAAAATGACCAG
* * * *
14156784 GACAACATTGTAAG-TAGAAAAATAAAGATGACCAG
1 GACAACACTGTAAGACAAAAAAATAAAAATGACCAG
* *
14156819 GCCAACACTGTAGGACAAAAAAATAAAAATGACCAG
1 GACAACACTGTAAGACAAAAAAATAAAAATGACCAG
14156855 GACAACACT
1 GACAACACT
14156864 AATGGTCAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
35 27 0.42
36 38 0.58
ACGTcount: A:0.52, C:0.17, G:0.16, T:0.16
Consensus pattern (36 bp):
GACAACACTGTAAGACAAAAAAATAAAAATGACCAG
Found at i:14157377 original size:28 final size:28
Alignment explanation
Indices: 14157345--14157422 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 28
14157335 TTGGTTATGA
*
14157345 TGCAAATGATGTAAATGCTAATGTCTTT
1 TGCAAATGATGTAAATGCGAATGTCTTT
* *
14157373 TGCAAGTGATGTAATTGCGAATGTCTTT
1 TGCAAATGATGTAAATGCGAATGTCTTT
* * *
14157401 TTC--ATGATGTAGATGTGAATGT
1 TGCAAATGATGTAAATGCGAATGT
14157423 GAATATCTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 15 0.36
28 27 0.64
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (28 bp):
TGCAAATGATGTAAATGCGAATGTCTTT
Found at i:14173528 original size:3 final size:3
Alignment explanation
Indices: 14173520--14173591 Score: 99
Period size: 3 Copynumber: 24.0 Consensus size: 3
14173510 CATTTTCGTT
* * *
14173520 TTA TTA TTA TTG CTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
14173568 TTA TTA TTA TTA TTG CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
14173592 GAAAGAATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:14174811 original size:18 final size:18
Alignment explanation
Indices: 14174784--14174819 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14174774 AAGAGAATTT
* *
14174784 GTTCAGATTAGTTAAAAA
1 GTTCAAATTAATTAAAAA
14174802 GTTCAAATTAATTAAAAA
1 GTTCAAATTAATTAAAAA
14174820 AATTCATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (18 bp):
GTTCAAATTAATTAAAAA
Found at i:14177132 original size:145 final size:142
Alignment explanation
Indices: 14176827--14177320 Score: 408
Period size: 145 Copynumber: 3.4 Consensus size: 142
14176817 TTTTAAAACA
** * * * * * * *
14176827 CAAAAATCATGAAATATTATAAAATTGAGATTTGAAAAGTTTCATTAAAATTCGAGCTTAGGAAG
1 CAAAAATCAAAAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATT-GAGC-TCGAAAA
** * * * * *
14176892 GTCAAATTACGAAAATACCCTTATAGGGTTATTTT-AGTAACTTCACATCTC-CTAAGGTACTGC
64 ACCAAATTATGAAAATACCCTTATAGGG-TATTTTGA-TAATTTCAAATTTCTC-GAGGTACTGC
*
14176955 TATGATTTCAAATACA-
126 TATGATTTCAAATGCAC
** * * *
14176971 CAAATAATCATGAAATATTATTAAATTAAAATCTAAAAAATTTCATGAAAATTCGAGCTCGAAAA
1 CAAA-AATCAAAAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATT-GAGCTCG-AAA
* *
14177036 AACCAAATTATGAATATACCCTTATAAGGGTATTTTGATAATTTCAAATTTCTCGAGGTACAGCT
63 AACCAAATTATGAAAATACCCTTAT-AGGGTATTTTGATAATTTCAAATTTCTCGAGGTACTGCT
14177101 ATGATTTCAAATGCAC
127 ATGATTTCAAATGCAC
** * * * * **
14177117 CAAAAATCCCAAAATATT-TCAAAATTAAGATTTGAAATGTTTCAT-AAAAGTTTGAGCTTGGGA
1 CAAAAATCAAAAAATATTAT-AAAATTAAGATCTAAAAAGTTTCATGAAAA--TTGAGCTCGAAA
** * * * * *
14177180 GGCCAAATTATGAAAATACCCTTATAGGAATATTTTGGTAATTTCACACTTT-TCGAAGT-TTGA
63 AACCAAATTATGAAAATACCCTTATAGG-GTATTTTGATAATTTCA-AATTTCTCGAGGTACTG-
* *
14177243 CTGTGATTTTAAATGCAC
125 CTATGATTTCAAATGCAC
* *
14177261 CAAAAATAAAAAAATATTATAAAATTAAGATCTATAAAGTTTCATGAAAAATTGAGCTCG
1 CAAAAATCAAAAAATATTATAAAATTAAGATCTAAAAAGTTTCATG-AAAATTGAGCTCG
14177321 GGAGGGCTAA
Statistics
Matches: 284, Mismatches: 51, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
143 4 0.01
144 115 0.40
145 149 0.52
146 16 0.06
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (142 bp):
CAAAAATCAAAAAATATTATAAAATTAAGATCTAAAAAGTTTCATGAAAATTGAGCTCGAAAAAC
CAAATTATGAAAATACCCTTATAGGGTATTTTGATAATTTCAAATTTCTCGAGGTACTGCTATGA
TTTCAAATGCAC
Found at i:14180438 original size:143 final size:143
Alignment explanation
Indices: 14180205--14180571 Score: 424
Period size: 143 Copynumber: 2.6 Consensus size: 143
14180195 TTGAGATCTG
* * * *
14180205 AAAAGTTTCATGAAAATTCAAGCTGAGAAAGGTTAAATTATGAAAATACCCCTAAGGGGTA-TTT
1 AAAAGTTTCATAAAAATTCAAGCTTAGAAAGGTCAAATTA-CAAAATA-CCCTAAGGGGTATTTT
* * ** *
14180269 GGTAATTTAACATAT-TTTAGGTTACTGCTATGATTTCAAATACA-CAAAAAATCATAAAATATT
64 GGTAATTTCACATCTCTCAAGGTTACTGCTATGATTTCAAATACACCAAAAAA-CATAAAACATT
*
14180332 TTGAAAGTAAGAGC-TA
128 ATGAAAGTAAGA-CTTA
*
14180348 AAAAGTTTCATAAAAATTCAAGCTTAGAAAGGTCAAATTACAAAAATACCTTAAGGGGTATTTTG
1 AAAAGTTTCATAAAAATTCAAGCTTAGAAAGGTCAAATTAC-AAAATACCCTAAGGGGTATTTTG
* * * *
14180413 GTGATTTCACATCTCTCAATG-TACTGCTATGATTTCAAATGCACCAAAAAACATGAAACATTAT
65 GTAATTTCACATCTCTCAAGGTTACTGCTATGATTTCAAATACACCAAAAAACATAAAACATTAT
*
14180477 GAAATTAAGACTTA
130 GAAAGTAAGACTTA
* * * * *
14180491 AAAAGTTACATAAAAA-TCTAAG-TTTGAGAAGGTCAAATTACAAAATACTCGTAAGGGATGTTT
1 AAAAGTTTCATAAAAATTC-AAGCTTAGA-AAGGTCAAATTACAAAATAC-CCTAAGGGGTATTT
14180554 TGGTAATTTCACATCTCT
63 TGGTAATTTCACATCTCT
14180572 TACTAAGTTT
Statistics
Matches: 194, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
142 25 0.13
143 159 0.82
144 10 0.05
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (143 bp):
AAAAGTTTCATAAAAATTCAAGCTTAGAAAGGTCAAATTACAAAATACCCTAAGGGGTATTTTGG
TAATTTCACATCTCTCAAGGTTACTGCTATGATTTCAAATACACCAAAAAACATAAAACATTATG
AAAGTAAGACTTA
Found at i:14185611 original size:22 final size:24
Alignment explanation
Indices: 14185579--14185629 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
14185569 TAAGGATCAA
*
14185579 AAAAAGCAAAAGCA-AAGAAAGGC
1 AAAAAGCAAAAGCATAAGAAAGCC
* *
14185602 AAAAAG-AAAATCATAATAAAGCC
1 AAAAAGCAAAAGCATAAGAAAGCC
14185625 AAAAA
1 AAAAA
14185630 TGGCTCAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.06
Consensus pattern (24 bp):
AAAAAGCAAAAGCATAAGAAAGCC
Found at i:14202381 original size:64 final size:64
Alignment explanation
Indices: 14202310--14202436 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
14202300 TTAATATCTT
* * *
14202310 TTTATTACATAGTATCTCGATTTGAATATTGAGTATGGTTTAGTATCTACTCAATCTTGTTCAC
1 TTTATTACATAGTATCTCAATTTGAACACTGAGTATGGTTTAGTATCTACTCAATCTTGTTCAC
14202374 TTTATTACATAGTATCTCAATTTGAACACTGAGTATGGTTTAGTATCTACTCAATCTTGTTCA
1 TTTATTACATAGTATCTCAATTTGAACACTGAGTATGGTTTAGTATCTACTCAATCTTGTTCA
14202437 ACAATATTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (64 bp):
TTTATTACATAGTATCTCAATTTGAACACTGAGTATGGTTTAGTATCTACTCAATCTTGTTCAC
Found at i:14206018 original size:38 final size:39
Alignment explanation
Indices: 14205942--14206020 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
14205932 TTATGCCATA
* * *
14205942 AAACACATCATTTAAATAAAAGGAACAATAATTGCCTTT
1 AAACACATCATTTAAATAAAAGAAACAACAATTACCTTT
14205981 AAACACATCATTTAAATAAAA-AAACAACAATTACCTTT
1 AAACACATCATTTAAATAAAAGAAACAACAATTACCTTT
14206019 AA
1 AA
14206021 TATTAAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 16 0.43
39 21 0.57
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (39 bp):
AAACACATCATTTAAATAAAAGAAACAACAATTACCTTT
Found at i:14210864 original size:6 final size:7
Alignment explanation
Indices: 14210847--14210871 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14210837 TAGAAAATAT
14210847 AAAAAAG
1 AAAAAAG
14210854 AAAAAAG
1 AAAAAAG
14210861 AAAAAAG
1 AAAAAAG
14210868 AAAA
1 AAAA
14210872 GGAAATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:14215353 original size:17 final size:17
Alignment explanation
Indices: 14215331--14215363 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14215321 TCAATTGTTT
*
14215331 AACTTTTTATTTTTAGA
1 AACTTTCTATTTTTAGA
14215348 AACTTTCTATTTTTAG
1 AACTTTCTATTTTTAG
14215364 CATGTTCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (17 bp):
AACTTTCTATTTTTAGA
Found at i:14222842 original size:11 final size:11
Alignment explanation
Indices: 14222826--14222850 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14222816 GTTGGTGCTT
14222826 TCTCCTCTTTC
1 TCTCCTCTTTC
14222837 TCTCCTCTTTC
1 TCTCCTCTTTC
14222848 TCT
1 TCT
14222851 TAGCTTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (11 bp):
TCTCCTCTTTC
Found at i:14230296 original size:18 final size:16
Alignment explanation
Indices: 14230273--14230308 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
14230263 CCTTCTTCTC
14230273 TTTGTTTTTTGTTTTGTT
1 TTTGTTTTTT-TTTT-TT
14230291 TTTGTTTTTTTTTTTT
1 TTTGTTTTTTTTTTTT
14230307 TT
1 TT
14230309 GTTAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (16 bp):
TTTGTTTTTTTTTTTT
Found at i:14230590 original size:18 final size:18
Alignment explanation
Indices: 14230563--14230619 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
14230553 TTTGCACAGA
14230563 TTTTCAGATTCGTC-AGGAT
1 TTTTC-GATTCG-CAAGGAT
*
14230582 TTTTCGATTTGCAAGGAT
1 TTTTCGATTCGCAAGGAT
* * *
14230600 TTTTAGATTTGCAATGAT
1 TTTTCGATTCGCAAGGAT
14230618 TT
1 TT
14230620 CAAGTTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 1 0.03
18 28 0.82
19 5 0.15
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (18 bp):
TTTTCGATTCGCAAGGAT
Found at i:14230871 original size:72 final size:72
Alignment explanation
Indices: 14230760--14230893 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 72
14230750 AAAGATTTTA
* * * * *
14230760 AGGTTCACAAGAAATCAATGATTCGCAAGAACTTCAGATTCGTGAGAAGTTTAGGTTCTCAAAAA
1 AGGTTCACAAGAAATCAATGATTCGCAAGAACATCAGATTCATAAGAACTTTAGATTCTCAAAAA
14230825 AAATTTC
66 AAATTTC
*
14230832 AGGTTCACAA-AAATTTAA-GATTCGCAAGAA-ATCAAAGATTCATAAGAACTTTAGATTCTCAA
1 AGGTTCACAAGAAA-TCAATGATTCGCAAGAACATC--AGATTCATAAGAACTTTAGATTCTCAA
14230894 TAAATTTAGG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
70 2 0.04
71 15 0.28
72 36 0.68
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (72 bp):
AGGTTCACAAGAAATCAATGATTCGCAAGAACATCAGATTCATAAGAACTTTAGATTCTCAAAAA
AAATTTC
Found at i:14230902 original size:89 final size:88
Alignment explanation
Indices: 14230756--14230970 Score: 272
Period size: 89 Copynumber: 2.4 Consensus size: 88
14230746 TTTTAAAGAT
* * * * *
14230756 TTTAAGGTTCACAAGAAATCAATGATTCGCAAGAACTTCAGATTCGTGAGAAGTTTAGGTTCTCA
1 TTTAAGGTTCACAAGAAATCAAAGATTCACAAGAACTTTAGATTCGTAAGAAATTTAGGTTCTC-
*
14230821 AAAAAAATTTCAGGTTCACAAAAA
65 AAAAAAATTTCAGATTCACAAAAA
* * * * *
14230845 TTTAAGATTCGCAAGAAATCAAAGATTCATAAGAACTTTAGATTC-TCAATAAATTTAGGTTTTC
1 TTTAAGGTTCACAAGAAATCAAAGATTCACAAGAACTTTAGATTCGT-AAGAAATTTAGGTTCTC
* *
14230909 AATAAAATTTCAGATTCACAAGAA
65 AAAAAAATTTCAGATTCACAAAAA
*
14230933 TTTAAGGTTCACAAGAAATCAAAAATTCACAA-AACTTT
1 TTTAAGGTTCACAAGAAATCAAAGATTCACAAGAACTTT
14230971 CTATTAGCCT
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
87 6 0.06
88 50 0.46
89 52 0.48
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (88 bp):
TTTAAGGTTCACAAGAAATCAAAGATTCACAAGAACTTTAGATTCGTAAGAAATTTAGGTTCTCA
AAAAAATTTCAGATTCACAAAAA
Found at i:14230934 original size:17 final size:17
Alignment explanation
Indices: 14230835--14230949 Score: 63
Period size: 17 Copynumber: 6.6 Consensus size: 17
14230825 AAATTTCAGG
*
14230835 TTCACAAAAATTTAAGA
1 TTCACAAGAATTTAAGA
* **
14230852 TTCGCAAGAAATCAAAGA
1 TTCACAAG-AATTTAAGA
*
14230870 TTCATAAGAACTTT-AGA
1 TTCACAAGAA-TTTAAGA
* * * *
14230887 TTCTCAATAAATTTAGGTT
1 TTCACAA-GAATTTAAG-A
* *
14230906 TTCA-ATAAAATTTCAGA
1 TTCACA-AGAATTTAAGA
*
14230923 TTCACAAGAATTTAAGG
1 TTCACAAGAATTTAAGA
14230940 TTCACAAGAA
1 TTCACAAGAA
14230950 ATCAAAAATT
Statistics
Matches: 71, Mismatches: 20, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
17 41 0.58
18 26 0.37
19 4 0.06
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (17 bp):
TTCACAAGAATTTAAGA
Found at i:14233350 original size:8 final size:8
Alignment explanation
Indices: 14233337--14233361 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14233327 AAAAAGAAAT
14233337 TTGATGAA
1 TTGATGAA
14233345 TTGATGAA
1 TTGATGAA
14233353 TTGATGAA
1 TTGATGAA
14233361 T
1 T
14233362 GAAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (8 bp):
TTGATGAA
Found at i:14239660 original size:21 final size:22
Alignment explanation
Indices: 14239634--14239714 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 22
14239624 ACCCAAAAGG
* * *
14239634 AAATTTTAAAGATTTACA-TCA
1 AAATTTCAAAAATTCACATTCA
14239655 AAATTTCAAAAATTCACATTCAA
1 AAATTTCAAAAATTCACATTC-A
* * **
14239678 AAACTTT-AATAGTTCACAACCA
1 AAA-TTTCAAAAATTCACATTCA
*
14239700 AAATTTCAATAATTC
1 AAATTTCAAAAATTC
14239715 TCATCCTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
21 18 0.38
22 13 0.27
23 14 0.29
24 3 0.06
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATTTCAAAAATTCACATTCA
Done.