Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009396.1 Hibiscus syriacus cultivar Beakdansim tig00113301_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 283260
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:2142 original size:26 final size:26
Alignment explanation
Indices: 2108--2160 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2098 TATTCAAAAT
2108 TATAATTATGAAAAAAATA-TTATTTA
1 TATAATTAT-AAAAAAATATTTATTTA
* *
2134 TATATTTATAAATAAATATTTATTTA
1 TATAATTATAAAAAAATATTTATTTA
2160 T
1 T
2161 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TATAATTATAAAAAAATATTTATTTA
Found at i:2156 original size:22 final size:22
Alignment explanation
Indices: 2120--2169 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2110 TAATTATGAA
*
2120 AAAAAT-ATTATTTATATATTT
1 AAAAATAAATATTTATATATTT
* *
2141 ATAAATAAATATTTATTTATTT
1 AAAAATAAATATTTATATATTT
2163 AAAAATA
1 AAAAATA
2170 TCAGAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAAATAAATATTTATATATTT
Found at i:2255 original size:20 final size:19
Alignment explanation
Indices: 2216--2257 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
2206 TTTCTTCGAT
2216 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
2235 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
2255 ATT
1 ATT
2258 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:2278 original size:120 final size:118
Alignment explanation
Indices: 2132--2351 Score: 316
Period size: 121 Copynumber: 1.8 Consensus size: 118
2122 AAATATTATT
* *
2132 TATATATTTATAAATAAATATTTATTTATTTAAAAATATCAGAAAAT-GACTTCTAGGTGCCTTA
1 TATATATTTATAAATAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGCCTTA
*
2196 AGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 AGACAGCTCTTTTCTTAGATATTAAAAAATAAATAAATAATTAAAACAATTAA
* * **
2249 TATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGTT
1 TATAT-ATTTAT-AAATA-AATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGCC
* * *
2314 TTAAGACTGTTTTTTTCTTAGATATTAAAAAATAAATA
63 TTAAGACAGCTCTTTTCTTAGATATTAAAAAATAAATA
2352 CATATCAAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
117 5 0.06
118 6 0.07
119 5 0.06
120 30 0.34
121 43 0.48
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (118 bp):
TATATATTTATAAATAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGCCTTA
AGACAGCTCTTTTCTTAGATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:2577 original size:15 final size:15
Alignment explanation
Indices: 2513--2580 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 15
2503 TAATTTAAAC
*
2513 ATATCAAAAGTAATA
1 ATATTAAAAGTAATA
* *
2528 ATAAATAAAAATAAT-
1 AT-ATTAAAAGTAATA
* *
2543 A-ATTAAAATGAAAGA
1 ATATTAAAA-GTAATA
2558 A-ATTAAAAGTAATA
1 ATATTAAAAGTAATA
2572 ATATTAAAA
1 ATATTAAAA
2581 CTATAGGATC
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
13 6 0.15
14 7 0.17
15 18 0.45
16 9 0.22
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.26
Consensus pattern (15 bp):
ATATTAAAAGTAATA
Found at i:4018 original size:3 final size:3
Alignment explanation
Indices: 3993--4078 Score: 86
Period size: 3 Copynumber: 29.0 Consensus size: 3
3983 GTTGTATCTG
* * * *
3993 TAA TAA -AA TGA TAA TAT TAA TAA TAA TAA TAA TAT TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
4040 TTA TAA TAA TAG TAA TAA AAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
4079 AAAACCAAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
2 3 0.05
3 62 0.94
4 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4603 original size:113 final size:113
Alignment explanation
Indices: 4420--5086 Score: 1054
Period size: 113 Copynumber: 5.9 Consensus size: 113
4410 AGAATCATGC
4420 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
4485 TATGAACTC-TCTCTGGAAAAGTTGATCCATC-AAGTGATGAATTCGAGCA
65 TATGAACTCGAC-CTGGTAATGTTGATCCATCGAA-TGATGAATTCAAGCG
* *
4534 AAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
4599 ATGAACTCGCCCTGGCAATGTTGATCCATCGAATGATAAATTCAAGCG
66 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
*
4647 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
4712 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGTG
66 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
**
4760 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
4825 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGTG
66 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* *
4873 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGATTTCTT-TCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
4937 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
*
4985 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * *
5050 ATGAACTCTTCC-AGAAATGTTGATCCATTGAATGATG
66 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATG
5087 GATTTGAACT
Statistics
Matches: 517, Mismatches: 33, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
112 129 0.25
113 380 0.74
114 8 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
Found at i:5518 original size:22 final size:22
Alignment explanation
Indices: 5493--5547 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
5483 GATAAAGCTT
*
5493 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
5515 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
5537 TCATCTTTGAA
1 TCATCTTTGAA
5548 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:5996 original size:54 final size:54
Alignment explanation
Indices: 5914--6025 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
5904 AGAATAGCAG
* * * *
5914 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTCTTGTGGCTTT-TGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGG-TTTCTGCTCAGAT
5968 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTGCTCAGAT
6022 GTTC
1 GTTC
6026 TCAATCATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 3 0.06
54 50 0.94
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTGCTCAGAT
Found at i:8287 original size:114 final size:114
Alignment explanation
Indices: 8087--8306 Score: 368
Period size: 114 Copynumber: 1.9 Consensus size: 114
8077 GATCATGTAG
* * * *
8087 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
8152 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
8201 TTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTTATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
8266 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
8307 CGAGAACGTG
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:10671 original size:7 final size:7
Alignment explanation
Indices: 10614--10681 Score: 50
Period size: 7 Copynumber: 9.0 Consensus size: 7
10604 AATTTTTCCT
10614 TTTTTTCC
1 TTTTTT-C
10622 TTTTTT-
1 TTTTTTC
10628 TTTGTTT-
1 TTT-TTTC
10635 TTTTTTC
1 TTTTTTC
10642 ATTTCTTTC
1 -TTT-TTTC
*
10651 ATTTTTTGTT
1 --TTTTT-TC
10661 TTTTTTC
1 TTTTTTC
10668 TTTTTTC
1 TTTTTTC
10675 TTTTTTC
1 TTTTTTC
10682 CTTTCTTTGC
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
6 6 0.12
7 21 0.41
8 14 0.27
9 6 0.12
10 4 0.08
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:10678 original size:21 final size:22
Alignment explanation
Indices: 10613--10678 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 22
10603 CAATTTTTCC
*
10613 TTTTTTTCCTTTTT-TTTTGTT
1 TTTTTTTCTTTTTTCTTTTGTT
*
10634 TTTTTTTCATTTCTTTCATTTTTTGT
1 TTTTTTTC-TTT-TTTC-TTTTGT-T
10660 TTTTTTTCTTTTTTCTTTT
1 TTTTTTTCTTTTTTCTTTT
10679 TTCCTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 8 0.21
22 2 0.05
23 7 0.18
24 4 0.11
25 8 0.21
26 9 0.24
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (22 bp):
TTTTTTTCTTTTTTCTTTTGTT
Found at i:10701 original size:15 final size:15
Alignment explanation
Indices: 10683--10730 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
10673 TCTTTTTTCC
10683 TTTCTTTGCTGGATT
1 TTTCTTTGCTGGATT
*
10698 TTTCTTT-CT---TC
1 TTTCTTTGCTGGATT
*
10709 TTTCTTTGATGGATT
1 TTTCTTTGCTGGATT
10724 TTTCTTT
1 TTTCTTT
10731 CTTCTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
11 8 0.31
12 1 0.04
14 2 0.08
15 15 0.58
ACGTcount: A:0.06, C:0.15, G:0.12, T:0.67
Consensus pattern (15 bp):
TTTCTTTGCTGGATT
Found at i:10711 original size:26 final size:26
Alignment explanation
Indices: 10669--10748 Score: 133
Period size: 26 Copynumber: 3.0 Consensus size: 26
10659 TTTTTTTTCT
*
10669 TTTTTCTTTTTTCCTTTCTTTGCTGGA
1 TTTTTCTTTCTT-CTTTCTTTGCTGGA
*
10696 TTTTTCTTTCTTCTTTCTTTGATGGA
1 TTTTTCTTTCTTCTTTCTTTGCTGGA
10722 TTTTTCTTTCTTCTTTCTTTGCTGGA
1 TTTTTCTTTCTTCTTTCTTTGCTGGA
10748 T
1 T
10749 GAGTATATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
26 39 0.78
27 11 0.22
ACGTcount: A:0.05, C:0.17, G:0.11, T:0.66
Consensus pattern (26 bp):
TTTTTCTTTCTTCTTTCTTTGCTGGA
Found at i:14038 original size:14 final size:14
Alignment explanation
Indices: 14013--14046 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14003 AGCAAACAAT
14013 AAATGC-AAAATGA
1 AAATGCAAAAATGA
*
14026 AAATGCAAAAATGC
1 AAATGCAAAAATGA
14040 AAATGCA
1 AAATGCA
14047 TGTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (14 bp):
AAATGCAAAAATGA
Found at i:16191 original size:119 final size:119
Alignment explanation
Indices: 16041--16266 Score: 305
Period size: 120 Copynumber: 1.9 Consensus size: 119
16031 AAAAAATATT
* * * *
16041 AATTTATATATATTTATAAACAAAATATTTATTTATTTAGAAATATCAGAAAA-TGACTTCTAGG
1 AATTAATATATATTTATAAACAAAATATTTATTTATTTAAAAATATCAGAAAATTGACATCCAGG
*
16105 TGCCTTAAGACAGCTCTTTTCTTCGATATT-AAAAATAAATAAATAATTAAAAC
66 TGCCTTAAGACAGCTCTTTTCTTAGATATTAAAAAATAAATAAATAATTAAAAC
*
16158 AATTAATATATAATTTATAAA-ATAGGATATTTATTTATTTAAAAATATCAGAAAATTGACATCC
1 AATTAATATAT-ATTTATAAACA-A-AATATTTATTTATTTAAAAATATCAGAAAATTGACATCC
* ** * *
16222 AGTTGTTTTAAGACTGTTCTTTTCTTAGATATTAAAAAATAAATA
63 AGGTGCCTTAAGACAGCTCTTTTCTTAGATATTAAAAAATAAATA
16267 CATATCAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
117 11 0.12
118 10 0.11
119 28 0.30
120 33 0.35
121 11 0.12
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (119 bp):
AATTAATATATATTTATAAACAAAATATTTATTTATTTAAAAATATCAGAAAATTGACATCCAGG
TGCCTTAAGACAGCTCTTTTCTTAGATATTAAAAAATAAATAAATAATTAAAAC
Found at i:16473 original size:15 final size:14
Alignment explanation
Indices: 16443--16502 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
16433 TATCAAAAGT
16443 AATAATAAAA-TAA
1 AATAATAAAATTAA
16456 AATAATAATAATTAA
1 AATAATAA-AATTAA
16471 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
16486 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
16501 AA
1 AA
16503 ACTATAGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:17926 original size:3 final size:3
Alignment explanation
Indices: 17912--17970 Score: 79
Period size: 3 Copynumber: 20.0 Consensus size: 3
17902 GTTGTATCTG
17912 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
17956 TAA -ATA TAA TAA TAA
1 TAA TA-A TAA TAA TAA
17971 AAAACCAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.08
3 45 0.88
4 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:18241 original size:15 final size:16
Alignment explanation
Indices: 18207--18243 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18197 GGTGAGTGCA
18207 ATACATGCATGACATT
1 ATACATGCATGACATT
*
18223 ATACATGGATGAC-TT
1 ATACATGCATGACATT
18238 ATACAT
1 ATACAT
18244 CATCAGGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (16 bp):
ATACATGCATGACATT
Found at i:18875 original size:46 final size:46
Alignment explanation
Indices: 18783--19041 Score: 398
Period size: 46 Copynumber: 5.7 Consensus size: 46
18773 GTAAGCATGC
* *
18783 AAATAAGCTTACGATCTTATGGAA-T-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
18827 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
18873 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
* * * **
18919 AAATAAGCTTACGAGCTTTTGGGATTAAATGGAAAGTATATTAATA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
* *
18965 AAATAAGCTTACTAGCTTATGGTATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
* *
19011 AAATAAGCTTACAAGCTTATGGGA-TAAATGG
1 AAATAAGCTTACGAGCTTATGGAATTAAATGG
19042 ATGTTATATT
Statistics
Matches: 198, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
44 23 0.12
45 8 0.04
46 167 0.84
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
Found at i:26802 original size:23 final size:23
Alignment explanation
Indices: 26749--26803 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
26739 TGACATGTTA
*
26749 TCTGCCTTTATGACACGTTTATC
1 TCTGTCTTTATGACACGTTTATC
* * * * *
26772 TTTATCTTTATGGCATGTTTTTC
1 TCTGTCTTTATGACACGTTTATC
26795 TCTGTCTTT
1 TCTGTCTTT
26804 TGGTAGCTTA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.55
Consensus pattern (23 bp):
TCTGTCTTTATGACACGTTTATC
Found at i:32062 original size:20 final size:20
Alignment explanation
Indices: 32039--32088 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
32029 CTTGGGTAAG
32039 GTATCAATACTA-AAGAGAGA
1 GTATCAATACTACAAG-GAGA
* **
32059 GTATCGATACTACAAGGTTA
1 GTATCAATACTACAAGGAGA
32079 GTATCAATAC
1 GTATCAATAC
32089 CAAGGGTGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (20 bp):
GTATCAATACTACAAGGAGA
Found at i:34125 original size:15 final size:16
Alignment explanation
Indices: 34086--34127 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
34076 AAAGATTTTA
34086 TTATTTTATATACTATT
1 TTATTTTATATA-TATT
* *
34103 TAAATTTATAT-TATT
1 TTATTTTATATATATT
34118 TTATTTTATA
1 TTATTTTATA
34128 AAAATAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
17 9 0.43
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTTTATATATATT
Found at i:35884 original size:39 final size:39
Alignment explanation
Indices: 35841--35961 Score: 120
Period size: 39 Copynumber: 3.1 Consensus size: 39
35831 CTGAATGTCA
**
35841 TCTTCAGGTCAAACGTAAAGACTGGAGGAGTGCACGGCG
1 TCTTCAGGTCAAACGTAAAGACTCCAGGAGTGCACGGCG
* * * * * *
35880 TCTTCAGGTC-GATGAATAATACTCCAGAAGTGCACGGTG
1 TCTTCAGGTCAAACGTA-AAGACTCCAGGAGTGCACGGCG
* *
35919 TCTTCAGG-CTAAACGTAAAGACTCCAAGAGTGCACGACG
1 TCTTCAGGTC-AAACGTAAAGACTCCAGGAGTGCACGGCG
35958 TCTT
1 TCTT
35962 TAGGCCATGC
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
38 4 0.06
39 56 0.89
40 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (39 bp):
TCTTCAGGTCAAACGTAAAGACTCCAGGAGTGCACGGCG
Found at i:36231 original size:22 final size:20
Alignment explanation
Indices: 36206--36248 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
36196 AAAATAATAA
*
36206 ACAGATTAATTTTTATACAAAT
1 ACAG-TTAACTTTTATA-AAAT
*
36228 ACAGTTTACTTTTATAAAAT
1 ACAGTTAACTTTTATAAAAT
36248 A
1 A
36249 ATAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (20 bp):
ACAGTTAACTTTTATAAAAT
Found at i:37340 original size:60 final size:59
Alignment explanation
Indices: 37239--37363 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 59
37229 TTTCTAAGTC
* * *
37239 CATCCCTAAACTATGAGTCATTCTAAATTGATCCTAAAAC-TTTTGAATATTTCATTTT
1 CATCCCCAAACTATGAGTCATTCTAAATTGATCCTAAAACTTTTTGAACATTTCAATTT
* * *
37297 CATCCCCAAACTATGATCTTCATTCTAAATTGGTCCCT-AAACTTTTTTAACATTTCAATTT
1 CATCCCCAAACTATGA--GTCATTCTAAATTGAT-CCTAAAACTTTTTGAACATTTCAATTT
37358 CATCCC
1 CATCCC
37364 ACGTTATACA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
58 15 0.26
60 18 0.32
61 24 0.42
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (59 bp):
CATCCCCAAACTATGAGTCATTCTAAATTGATCCTAAAACTTTTTGAACATTTCAATTT
Found at i:37598 original size:60 final size:60
Alignment explanation
Indices: 37502--37674 Score: 195
Period size: 60 Copynumber: 2.9 Consensus size: 60
37492 AAATTTGGGT
* * * * *
37502 ATGAAATTAGAAGATTAAAAAGTTTAGAGACCAATTTAGAATGAGAGTCATAGTTTAGGG
1 ATGAAAATAGAATATTTAAAAGTTTAAAGACCAATTTAGAATGAGAGTCATAGTTTAGAG
* ** * *
37562 ATGAAAATGGAATATTTAAAAGTTTAAAGAGTAATTTAGAATGATATTCATAGTTTAGAG
1 ATGAAAATAGAATATTTAAAAGTTTAAAGACCAATTTAGAATGAGAGTCATAGTTTAGAG
* * * * *
37622 ATGAAATTAGAATGTTTAAAAGTTTAAGGACCAATATAAAATGA-AGATCATAG
1 ATGAAAATAGAATATTTAAAAGTTTAAAGACCAATTTAGAATGAGAG-TCATAG
37675 AATACATTAT
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
59 1 0.01
60 92 0.99
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.31
Consensus pattern (60 bp):
ATGAAAATAGAATATTTAAAAGTTTAAAGACCAATTTAGAATGAGAGTCATAGTTTAGAG
Found at i:38098 original size:2 final size:2
Alignment explanation
Indices: 38091--38120 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
38081 TAGAAAGGTA
38091 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38121 TAACTCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42525 original size:12 final size:12
Alignment explanation
Indices: 42508--42533 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42498 TAAATTGTTG
42508 TTTGCATTTTAA
1 TTTGCATTTTAA
42520 TTTGCATTTTAA
1 TTTGCATTTTAA
42532 TT
1 TT
42534 AACAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (12 bp):
TTTGCATTTTAA
Found at i:43772 original size:7 final size:6
Alignment explanation
Indices: 43744--43778 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
43734 TAACACCTCG
43744 TGCATT TGCATT TGCATT TGCATTT TGCA-T TGCAT
1 TGCATT TGCATT TGCATT TGCA-TT TGCATT TGCAT
43779 GTATTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TGCATT
Found at i:46515 original size:16 final size:16
Alignment explanation
Indices: 46481--46511 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
46471 CCCTCAGGGT
46481 TAATTTTATTTTTAAA
1 TAATTTTATTTTTAAA
46497 TAATTTT-TTTTTAAA
1 TAATTTTATTTTTAAA
46512 ATAAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTTTATTTTTAAA
Found at i:47644 original size:128 final size:128
Alignment explanation
Indices: 47414--47719 Score: 416
Period size: 128 Copynumber: 2.4 Consensus size: 128
47404 AAGTTGCGAT
* * *
47414 ATGTTGTGGCACGGCTGAACCCACATTAGGTTGAGATGACAAGATTCAGAAGAAGAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGACAAAATTCAGAAGAAGAAGAAGGCAT
* * * * *
47479 GAAGAATGAGCCTTACAATCTGAGGTGATGGGACATTTTGAAGGCTCGTACCAGTATAAGATA
66 GAAGAATAAGCCTTACAAACTAAGGTGATGGGACATTTTGAAAGCCCGTACCAGTATAAGATA
* *
47542 ATGTTGGGGCATGACTGAACCCACATTAGGTTGAGATGATAAAATTCAGAAGAAGAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGACAAAATTCAGAAGAAGAAGAAGGCAT
* * *
47607 GAAGAATAAGCCTTACAAACTAAGGTGATGGGGCATTTTGAAAGCCCGTACTAGTGTAAGATA
66 GAAGAATAAGCCTTACAAACTAAGGTGATGGGACATTTTGAAAGCCCGTACCAGTATAAGATA
* ** * * * *
47670 ATGTTGGGGCGCGACCAAACCCACGTCATGTGGAGATGA-AAAGATTCAGA
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGACAAA-ATTCAGA
47720 CCAAGAAAGT
Statistics
Matches: 156, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
127 3 0.02
128 153 0.98
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (128 bp):
ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGACAAAATTCAGAAGAAGAAGAAGGCAT
GAAGAATAAGCCTTACAAACTAAGGTGATGGGACATTTTGAAAGCCCGTACCAGTATAAGATA
Found at i:48507 original size:36 final size:36
Alignment explanation
Indices: 48455--48610 Score: 197
Period size: 36 Copynumber: 4.3 Consensus size: 36
48445 AGTCAATCCT
*
48455 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCAGAGAATAATGAAGCAAACCATCTG
* * *
48491 AAGCCTTCACCGGAGAATAATGAAGCAATCAATCTG
1 AAGCCTTCACCAGAGAATAATGAAGCAAACCATCTG
* *
48527 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCAGAGAATAATGAAGCAAACCATC-TG
* * * *
48563 AAGTCGTCACCAGAGAGTAATGAAGCAAACCATCTT
1 AAGCCTTCACCAGAGAATAATGAAGCAAACCATCTG
*
48599 AAGTCTTCACCA
1 AAGCCTTCACCA
48611 AAAAGTAGTG
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
35 1 0.01
36 103 0.98
37 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (36 bp):
AAGCCTTCACCAGAGAATAATGAAGCAAACCATCTG
Found at i:48573 original size:72 final size:71
Alignment explanation
Indices: 48447--48625 Score: 218
Period size: 72 Copynumber: 2.5 Consensus size: 71
48437 TGGAGAAAAG
* *
48447 TCAATCCTAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATAAT
1 TCAAT-CTAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCGTCACCAGAGAATAAT
48512 GAAGCAA
65 GAAGCAA
* * *
48519 TCAATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-AAGTCGTCACCAGAGAGTAA
1 TCAATCT-AAGCCTTCACCAGAGAATAGTGAAGCAAACCATC-TGAAGCCGTCACCAGAGAATAA
48583 TGAAGCAA
64 TGAAGCAA
* * * *
48591 ACCATCTTAAGTCTTCACCA-AAAAGTAGTGAAGCA
1 TCAATC-TAAGCCTTCACCAGAGAA-TAGTGAAGCA
48626 GATCCATTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
71 5 0.05
72 86 0.92
73 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (71 bp):
TCAATCTAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCGTCACCAGAGAATAATG
AAGCAA
Found at i:48623 original size:36 final size:35
Alignment explanation
Indices: 48454--48643 Score: 182
Period size: 36 Copynumber: 5.3 Consensus size: 35
48444 AAGTCAATCC
48454 TAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCT
1 TAAGCCTTCACCA-AGAATAGTGAAGCAAACCATCT
* * * * *
48490 GAAGCCTTCACCGGAGAATAATGAAGCAATCAATCT
1 TAAGCCTTCACC-AAGAATAGTGAAGCAAACCATCT
* * *
48526 GAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCA
1 TAAGCCTTCACC-AAGAATAGTGAAGCAAACCATCT
* * * *
48562 TAAGTCGTCACCAGAGAGTAATGAAGCAAACCATCT
1 TAAGCCTTCACCA-AGAATAGTGAAGCAAACCATCT
* * * *
48598 TAAGTCTTCACCAAAAAGTAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCAAGAA-TAGTGAAGCA-AACCATCT
48635 TAAGCCTTC
1 TAAGCCTTC
48644 TCAGAAGAGT
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
35 2 0.02
36 111 0.87
37 14 0.11
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (35 bp):
TAAGCCTTCACCAAGAATAGTGAAGCAAACCATCT
Found at i:49098 original size:51 final size:51
Alignment explanation
Indices: 49025--49906 Score: 422
Period size: 51 Copynumber: 16.7 Consensus size: 51
49015 AAGATTATTT
* * *
49025 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
* * *
49076 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATG--C
* * *
49129 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
*
49180 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
* * * * *
49231 GAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTTGTTGAAGAT-TGT
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCC--GTG-TGAAGATATGC
* * * * * *
49284 G-GGTCTTATACT-CTCTGAAGAAATAGGGGGCAGACACAATCGT-TGAAGAT-TGTT
1 GAGTTC-TATACTCCT-TAAAGAAAGAGGGAGC-GA-AC--CCGTGTGAAGATATG-C
* * * * *
49338 G-G-TCTTATACT-CTCTGAAGAAATAGGGGGC-AGACGCGATTGATGAAGAT-TGT
1 GAGTTC-TATACTCCT-TAAAGAAAGAGGGAGCGA-ACCCG--TG-TGAAGATATGC
* * * *
49390 G-GGTCTTATACT-CTCTGAAGAAATAGGGGGCAGACGCAA-TCGT-TGAAGAT-TGTTC
1 GAGTTC-TATACTCCT-TAAAG-AA-AGAGGG-AG-CG-AACCCGTGTGAAGATATG--C
* * * * * *
49445 G-GATCTTATACT-CTCTGAAGAAATAGGGGGC-AGACGCGATTGATGAAGAT-TGTT
1 GAGTTC-TATACTCCT-TAAAGAAAGAGGGAGCGA-ACCCG--TG-TGAAGATATG-C
* * *
49499 G-G-TCTTATACT-CTCTGAAGAAATAGGGGGCAGACGCAA-TCGT-TGAAGAT-TGTTC
1 GAGTTC-TATACTCCT-TAAAG-AA-AGAGGG-AG-CG-AACCCGTGTGAAGATATG--C
* * * ** *
49553 GAG-TCTTATACT-CTCTGAAGAAATAGGGGGC-AGACAAGTTTGTTGAAGATGATTC
1 GAGTTC-TATACTCCT-TAAAGAAAGAGGGAGCGA-ACCCG--TG-TGAAGAT-ATGC
* * * * * *
49608 AAG-TCTTATAC-CCTCTGAAGAAATAGGGAGCGAACCCATTTTTCTGAAGATTTAT-T
1 GAGTTC-TATACTCCT-TAAAGAAAGAGGGAGCGAACCC----GTGTGAAGA--TATGC
* * *
49664 GAATTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTGTGAAGATATAC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
* * *
49715 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATG--C
* * * *
49768 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCATGTGAAGATATGC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
*
49819 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
* * *
49870 GAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCC
1 GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCC
49907 ATTTGTTGAA
Statistics
Matches: 683, Mismatches: 88, Indels: 120
0.77 0.10 0.13
Matches are distributed among these distances:
49 4 0.01
50 5 0.01
51 260 0.38
52 16 0.02
53 221 0.32
54 25 0.04
55 97 0.14
56 34 0.05
57 16 0.02
58 3 0.00
59 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (51 bp):
GAGTTCTATACTCCTTAAAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
Found at i:49306 original size:53 final size:53
Alignment explanation
Indices: 49249--50547 Score: 1057
Period size: 53 Copynumber: 24.2 Consensus size: 53
49239 TACTCCCTAG
* *
49249 AGAAATAGGGAGC-GAACCCATTTGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAG-ACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
49302 AGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
49355 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
49408 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
* * * *
49463 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTTGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
49516 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
** *
49571 AGAAATAGGGGGCAGA--CAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
1 AGAAATAGGGGGCAGACCCAA--TTGTTGAAGATTG--T-GGGTCTTATACTCTCTGA
* * * * ** *
49626 AGAAATAGGGAGC-GAACCCATTTTTCTGAAGATTTATTGAAT-TCTATACTC-CTTAA
1 AGAAATAGGGGGCAG-ACCCAATTGT-TGAAGA-TT-GTGGGTCT-TATACTCTC-TGA
* * * * ** * *
49682 AGAAAGAAGGAGC-GAACCC--GTG-TGAAGATATACGAGT-TCTATACTC-CTTAA
1 AGAAATAGGGGGCAG-ACCCAATTGTTGAAGAT-TGTGGGTCT-TATACTCTC-TGA
* * * * * * * *
49733 AGAAAGAAGGAGC-GAACCC--GT-TTGAAGAGATGTTCGAGT-TCCATACTCCCT-A
1 AGAAATAGGGGGCAG-ACCCAATTGTTGAAGA-TTG-T-GGGTCT-TATACTCTCTGA
* * * * *
49785 GAGAAAGAGGGAGC-GAACCC-A-TG-TGAAGATATGCGAGT-TCTATACTC-CTTAA
1 -AGAAATAGGGGGCAG-ACCCAATTGTTGAAGAT-TGTGGGTCT-TATACTCTC-TGA
* * * * * * *
49837 AGAAAGAAGGAGC-GAACCC--GTG-TGAAGATATGCGAGT-TCTATACTCCCT-A
1 AGAAATAGGGGGCAG-ACCCAATTGTTGAAGAT-TGTGGGTCT-TATACTCTCTGA
* *
49887 GAGAAATAGGGAGC-GAACCCATTTGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 -AGAAATAGGGGGCAG-ACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
49941 AGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
* * *
49996 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
50049 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
* * * *
50104 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTTGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
50157 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
50210 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
* * *
50265 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
* * *
50320 AGAAATAGGGGGCAGACGCAATTGATGAAGATTGTTGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
* * *
50373 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
* * *
50428 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACCCAATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
** *
50483 AGAAATAGGGGGCAGA--CAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
1 AGAAATAGGGGGCAGACCCAA--TTGTTGAAGATTG--T-GGGTCTTATACTCTCTGA
50538 AGAAATAGGG
1 AGAAATAGGG
50548 AGCGAACCCA
Statistics
Matches: 1105, Mismatches: 92, Indels: 96
0.85 0.07 0.07
Matches are distributed among these distances:
50 2 0.00
51 121 0.11
52 10 0.01
53 457 0.41
54 28 0.03
55 450 0.41
56 33 0.03
57 3 0.00
58 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (53 bp):
AGAAATAGGGGGCAGACCCAATTGTTGAAGATTGTGGGTCTTATACTCTCTGA
Found at i:49477 original size:55 final size:55
Alignment explanation
Indices: 49272--50547 Score: 1165
Period size: 55 Copynumber: 23.8 Consensus size: 55
49262 GAACCCATTT
* *
49272 GTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
49325 GTTGAAGATTGTT-GG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATT
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
49378 GATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
49431 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATT
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
49486 GATGAAGATTGTT-GG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
49539 GTTGAAGATTGTTC-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTTT
1 GTTGAAGATTGTTCGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA--TC
* * * * * *
49594 GTTGAAGA-TGATTC-AAGTCTTATACCCTCTGAAGAAATAGGGAGC-GAACCCATTT
1 GTTGAAGATTG-TTCGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAG-ACGCAATC
* * * * ** *
49649 TTCTGAAGATT-TATTGAAT-TCTATACTC-CTTAA-AGAA-AGAAGG-AG-CG-AACCC
1 GT-TGAAGATTGT-TCGGATCT-TATACTCTCTGAAGA-AATAGGGGGCAGACGCAA-TC
* * * * ** *
49701 GTGTGAAGA-TATACGAGTTC-TATACTC-CTTAA-AGAA-AGAAGG-AG-CG-AACCC
1 GT-TGAAGATTGTTCG-GATCTTATACTCTCTGAAGA-AATAGGGGGCAGACGCAA-TC
* * * * * * *
49752 GTTTGAAGAGATGTTCGAGTTC-CATACTCCCT-AGAGAAAGAGGGAGC-GAAC-CCAT-
1 G-TTGAAGA-TTGTTCG-GATCTTATACTCTCTGA-AGAAATAGGGGGCAG-ACGCAATC
* * ** *
49807 G-TGAAGATATG--CGAGTTC-TATACTC-CTTAA-AGAA-AGAAGG-AG-CG-AACCC
1 GTTGAAGAT-TGTTCG-GATCTTATACTCTCTGAAGA-AATAGGGGGCAGACGCAA-TC
* * * * * *
49856 GTGTGAAGATATG--CGAGTTC-TATACTCCCT-AGAGAAATAGGGAGC-GAACCCATTT
1 GT-TGAAGAT-TGTTCG-GATCTTATACTCTCTGA-AGAAATAGGGGGCAG-ACGCAATC
* *
49911 GTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATC
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
49964 GTTGAAGATTGTTC-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATT
1 GTTGAAGATTGTTCGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
50019 GATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
50072 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATT
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* * *
50127 GATGAAGATTGTT-GG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATT
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
* *
50180 GATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
50233 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
50288 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATT
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
50343 GATGAAGATTGTT-GG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
50396 GTTGAAGATTGTTC-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
1 GTTGAAGATTGTTCGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
*
50451 GTTGAAGATTGTTC-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTTT
1 GTTGAAGATTGTTCGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA--TC
* *
50506 GTTGAAGA-TGATTC-AAGTCTTATACCCTCTGAAGAAATAGGG
1 GTTGAAGATTG-TTCGGA-TCTTATACTCTCTGAAGAAATAGGG
50548 AGCGAACCCA
Statistics
Matches: 1064, Mismatches: 88, Indels: 140
0.82 0.07 0.11
Matches are distributed among these distances:
47 2 0.00
49 6 0.01
50 5 0.00
51 80 0.08
52 25 0.02
53 417 0.39
54 40 0.04
55 467 0.44
56 15 0.01
57 7 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (55 bp):
GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATC
Found at i:49511 original size:108 final size:108
Alignment explanation
Indices: 49274--50547 Score: 1294
Period size: 108 Copynumber: 11.9 Consensus size: 108
49264 ACCCATTTGT
* *
49274 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGTT-
1 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
49338 GG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
66 GGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
*
49380 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
1 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
49445 GGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
66 GGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
49488 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
1 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
** * *
49553 -GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGTTTGT
66 GGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
* * * * * **
49596 TGAAGA-TGATTCAAGTCTTATACCCTCTGAAGAAATAGGGAGC-GAACCCATTTTTCTGAAGAT
1 TGAAGATTG-TT--GGTCTTATACTCTCTGAAGAAATAGGGGGCAG-ACGCAATCGT-TGAAGAT
* * * * * * *
49659 T-TATTGAAT-TCTATACTC-CTTAAAGAAAGAAGGAGC-GAACCCG--TG-
61 TGT-TCGGATCT-TATACTCTC-TGAAGAAATAGGGGGCAG-ACGCGATTGA
** * ** *
49704 TGAAGATAT-ACGAGT-TCTATACTC-CTTAA-AGAA-AGAAGG-AG-CG-AACCCGTTTGAAGA
1 TGAAGAT-TGTTG-GTCT-TATACTCTCTGAAGA-AATAGGGGGCAGACGCAA-TCG-TTGAAGA
* * * * * * *
49761 GATGTTCGAGTTC-CATACTCCCT-AGAGAAAGAGGGAGC-GAAC-CCA-TG-
60 -TTGTTCG-GATCTTATACTCTCTGA-AGAAATAGGGGGCAG-ACGCGATTGA
* * ** *
49808 TGAAGATATG-CGAGT-TCTATACTC-CTTAA-AGAA-AGAAGG-AG-CG-AACCCGTGTGAAGA
1 TGAAGAT-TGTTG-GTCT-TATACTCTCTGAAGA-AATAGGGGGCAGACGCAA-TCGT-TGAAGA
* * * * *
49865 TATG--CGAGTTC-TATACTCCCT-AGAGAAATAGGGAGC-GAAC-CCATTTGT
60 T-TGTTCG-GATCTTATACTCTCTGA-AGAAATAGGGGGCAG-ACGCGA-TTGA
* *
49913 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTC
1 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
49978 -GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
66 GGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
*
50021 TGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
1 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
50086 GGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
66 GGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
* * *
50129 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-
1 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
* * * *
50192 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGT
66 GGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
50235 TGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGT
1 TGAAGATTGTT-GG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGT
*
50300 TCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGA
64 TCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
50345 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
1 TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
* * *
50410 -GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGT
66 GGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
*
50453 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTTTGTTGAAGA-T
1 TGAAGATTGTT-G-GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA--TCGTTGAAGATT
* *
50515 GATTC-AAGTCTTATACCCTCTGAAGAAATAGGG
62 G-TTCGGA-TCTTATACTCTCTGAAGAAATAGGG
50548 AGCGAACCCA
Statistics
Matches: 1033, Mismatches: 75, Indels: 116
0.84 0.06 0.09
Matches are distributed among these distances:
102 38 0.04
103 10 0.01
104 98 0.09
105 23 0.02
106 128 0.12
107 30 0.03
108 497 0.48
109 17 0.02
110 159 0.15
111 32 0.03
112 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (108 bp):
TGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTC
GGATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA
Found at i:50239 original size:639 final size:638
Alignment explanation
Indices: 49013--50274 Score: 2284
Period size: 639 Copynumber: 2.0 Consensus size: 638
49003 GTGAAGCAAA
* * * *
49013 TGAAGATTATTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGA
1 TGAAGATTATTTGAATTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTGTGAAGATATACGA
49078 GTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGAGTTCCATACTCC
66 GTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGAGTTCCATACTCC
*
49143 CTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGG
131 CTAGAGAAAGAGGGAGCGAACCCATGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGG
49208 AGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
196 AGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
49273 TTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGTT
261 TTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGTT
49338 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTC
326 GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTC
49403 TCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAA
391 TCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAA
49468 TAGGGGGCAGACGCGATTGATGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
456 TAGGGGGCAGACGCGATTGATGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
* *
49533 GCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGTTTGTTG
521 GCAATCGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAG-TCGTTG
49598 AAGA-TGATTCA-AGTCTTATACCCTCTGAAGAAATAGGGAGCGAACCCATTTTTC
585 AAGATTG-TTCAGA-TCTTATACCCTCTGAAGAAATAGGGAGCGAACCCATTTTTC
* *
49652 TGAAGATT-TATTGAATTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTGTGAAGATATACG
1 TGAAGATTAT-TTGAATTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTGTGAAGATATACG
49716 AGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGAGTTCCATACTC
65 AGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGAGTTCCATACTC
49781 CCTAGAGAAAGAGGGAGCGAACCCATGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAG
130 CCTAGAGAAAGAGGGAGCGAACCCATGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAG
49846 GAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTT
195 GAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTT
49911 GTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGT
260 GTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGT
49976 TCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATA
325 T-G-GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATA
50041 CTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGAAG
388 CTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGAAG
50106 AAATAGGGGGCAGACGCGATTGATGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCA
453 AAATAGGGGGCAGACGCGATTGATGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCA
* * *
50171 GACGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA-TC
518 GACGCAATCGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTC
* *
50233 GTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGG
581 GTTGAAGATTGTTCAGATCTTATACCCTCTGAAGAAATAGGG
50275 GGCAGACGCA
Statistics
Matches: 602, Mismatches: 14, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
638 1 0.00
639 385 0.64
640 5 0.01
641 211 0.35
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (638 bp):
TGAAGATTATTTGAATTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTGTGAAGATATACGA
GTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGAGTTCCATACTCC
CTAGAGAAAGAGGGAGCGAACCCATGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGG
AGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
TTGAAGATTGTGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTGAAGATTGTT
GGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTC
TCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAA
TAGGGGGCAGACGCGATTGATGAAGATTGTTGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
GCAATCGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGTCGTTGA
AGATTGTTCAGATCTTATACCCTCTGAAGAAATAGGGAGCGAACCCATTTTTC
Found at i:54656 original size:23 final size:23
Alignment explanation
Indices: 54630--54677 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
54620 ATAAAGTACA
*
54630 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
54653 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
54676 AT
1 AT
54678 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:55428 original size:18 final size:18
Alignment explanation
Indices: 55405--55441 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
55395 CGAAATATAT
55405 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
55423 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
55441 A
1 A
55442 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:55671 original size:23 final size:23
Alignment explanation
Indices: 55645--55709 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
55635 ATGCGAGATA
55645 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
55668 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
55691 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
55710 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:56092 original size:21 final size:20
Alignment explanation
Indices: 56062--56115 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
56052 GATAGACACT
*
56062 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
56083 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
56106 TTACATTATA
1 TTACATTATA
56116 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:56103 original size:23 final size:23
Alignment explanation
Indices: 56077--56139 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
56067 ATATAACCAT
56077 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
56100 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
56123 TACCTATTACATCATAT
1 TACCTATTACATTATAT
56140 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:56447 original size:430 final size:429
Alignment explanation
Indices: 55647--56666 Score: 1990
Period size: 430 Copynumber: 2.4 Consensus size: 429
55637 GCGAGATAGA
55647 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
55712 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
55777 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
55842 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
55907 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
55972 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
*
56036 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACAC-TTTATAAAAAGGATAGACACTTTAC-ATATAACCAC
56077 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
56142 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
56207 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
56272 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
56337 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
56402 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
56467 ACACTTTATAAAAAGGATAGACACTTTACATATAACCAC
391 ACACTTTATAAAAAGGATAGACACTTTACATATAACCAC
56506 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
56571 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
56636 TGTAATTTATGTTTCAA-TTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
56667 ACTGCGAATT
Statistics
Matches: 587, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
428 14 0.02
429 155 0.26
430 403 0.69
431 15 0.03
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (429 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
ACACTTTATAAAAAGGATAGACACTTTACATATAACCAC
Found at i:56481 original size:20 final size:20
Alignment explanation
Indices: 56456--56494 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56446 TCCACAGTGA
* *
56456 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
56476 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
56495 CATATAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:56524 original size:23 final size:23
Alignment explanation
Indices: 56496--56568 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
56486 GACACTTTAC
*
56496 ATATAACCACTACCTATTACATT
1 ATATAACGACTACCTATTACATT
56519 ATATAAACGA-TACCTATTACATT
1 ATAT-AACGACTACCTATTACATT
* * *
56542 ATATAAGGGCTACCTATTACATC
1 ATATAACGACTACCTATTACATT
56565 ATAT
1 ATAT
56569 GTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.07
23 37 0.84
24 4 0.09
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAACGACTACCTATTACATT
Found at i:59499 original size:183 final size:183
Alignment explanation
Indices: 59123--59786 Score: 1205
Period size: 182 Copynumber: 3.7 Consensus size: 183
59113 TTTTAAATGG
* *
59123 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
59188 TAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
66 TAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
59253 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCC-A
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
59305 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
59370 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTA-TACATTATAATTATGGGTTCC
66 TAA-ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
59434 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
130 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
* *
59488 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
59553 TAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
66 TAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
59618 A--TGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
59669 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
59734 TAAGACCGGTATA-TT-TACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAA-ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
59787 ATGTTGAAAG
Statistics
Matches: 468, Mismatches: 10, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
180 36 0.08
181 117 0.25
182 186 0.40
183 129 0.28
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:60113 original size:20 final size:20
Alignment explanation
Indices: 60088--60126 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60078 TTCCACAGTG
*
60088 AAAAAGTATAGACACTTTAT
1 AAAAAGGATAGACACTTTAT
*
60108 AAAAAGGATAGATACTTTA
1 AAAAAGGATAGACACTTTA
60127 CAATATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:61258 original size:3 final size:3
Alignment explanation
Indices: 61250--61336 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
61240 ACTTGTTTGG
* * * **
61250 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
61298 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
61337 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:61273 original size:18 final size:18
Alignment explanation
Indices: 61250--61351 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
61240 ACTTGTTTGG
61250 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
61268 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
61286 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
61304 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
61322 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
61340 AGCTTCATCTTC
1 ATCATCATCTTC
61352 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:61317 original size:42 final size:42
Alignment explanation
Indices: 61258--61348 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
61248 GGATCATCAT
*
61258 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
61300 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
61342 CTTCATC
1 CTTCATC
61349 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:63341 original size:198 final size:198
Alignment explanation
Indices: 62803--64218 Score: 2572
Period size: 198 Copynumber: 7.1 Consensus size: 198
62793 TTTAAATTAG
*
62803 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
62868 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
62933 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGG-AAA
62998 AAAA
195 AAAA
* *
63002 TATCGAAACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
63067 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
63131 CGAAACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
63196 AAA
196 AAA
*
63199 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
63264 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
63328 CGACACGTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
63393 AAAA
195 AAAA
63397 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
63462 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
63527 CGACACTTTT-TATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
63591 AAA
196 AAA
*
63594 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
63659 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
63724 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT-GGAA
131 CGACAC--TTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAA
63788 AAAAA
194 AAAAA
*
63793 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
63858 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
63923 CGACACTTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
63987 AAAA
195 AAAA
*
63991 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
64056 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
64121 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
64186 AAAA
195 AAAA
*
64190 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
64219 TGACCCTTAA
Statistics
Matches: 1188, Mismatches: 22, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
197 358 0.30
198 437 0.37
199 347 0.29
200 46 0.04
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
AAA
Found at i:64327 original size:19 final size:19
Alignment explanation
Indices: 64300--64344 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
64290 ATTCACATAA
*
64300 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
64319 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
64338 AAAATTA
1 AAAATTA
64345 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:66168 original size:33 final size:33
Alignment explanation
Indices: 66131--66196 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
66121 CATCTTAATA
*
66131 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
66164 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
66197 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:68332 original size:24 final size:24
Alignment explanation
Indices: 68295--68347 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
68285 CCGTTCTATC
68295 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
68319 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
68343 TATTT
1 TATTT
68348 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:68538 original size:20 final size:19
Alignment explanation
Indices: 68492--68538 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
68482 TCCGGTATCA
*
68492 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
68511 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
68532 TTTTACC
1 TTTTACC
68539 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:68686 original size:20 final size:20
Alignment explanation
Indices: 68660--68705 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
68650 CACTTTTAAA
68660 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
68679 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
68700 TTTACC
1 TTTACC
68706 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:72954 original size:16 final size:16
Alignment explanation
Indices: 72935--72977 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
72925 AACGAGCCGA
72935 GTTGAGCTCGAGTATT
1 GTTGAGCTCGAGTATT
72951 GTTGAGCTCGAGTATT
1 GTTGAGCTCGAGTATT
*
72967 GTTTAGCTCGA
1 GTTGAGCTCGA
72978 CTCGAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (16 bp):
GTTGAGCTCGAGTATT
Found at i:74781 original size:24 final size:23
Alignment explanation
Indices: 74754--74801 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
74744 TTCCGAACTT
*
74754 AAAAGGAGCGACATTTGGATATTA
1 AAAAGGAGCGACA-TTAGATATTA
74778 AAAAGGAGCGACATTAGATATTA
1 AAAAGGAGCGACATTAGATATTA
74801 A
1 A
74802 TGATCTACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (23 bp):
AAAAGGAGCGACATTAGATATTA
Found at i:75555 original size:50 final size:51
Alignment explanation
Indices: 75430--75556 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
75420 TTAGCAGTAA
* **
75430 AGCGCGCCCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGAGGTAT
1 AGCGCGGCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGAGGTAT
* * *
75481 AACGC-GCCTCCTGTACCGCGCTATACGGTGAGCTGGCGCCACGTG-GGTAT
1 AGCGCGGCC-CCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGAGGTAT
*
75531 AGCGCGGCCCCTGCAGCGCGCTATAC
1 AGCGCGGCCCCTGCACCGCGCTATAC
75557 CTATATATCT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 26 0.40
51 39 0.60
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.18
Consensus pattern (51 bp):
AGCGCGGCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGAGGTAT
Found at i:75756 original size:13 final size:14
Alignment explanation
Indices: 75728--75756 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
75718 ATATTTTATA
75728 ATATTTTTACTATT
1 ATATTTTTACTATT
75742 ATATTTTTACT-TT
1 ATATTTTTACTATT
75755 AT
1 AT
75757 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:75970 original size:110 final size:111
Alignment explanation
Indices: 75831--76051 Score: 372
Period size: 110 Copynumber: 2.0 Consensus size: 111
75821 TGAAAATCAT
*
75831 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * *
75896 TATTTAGTT-ATTTAATTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCAATTAATGCATGATTATTAGATTAAGAATTAA
*
75941 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
76006 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCAATTAATGCATGATTATTAGATTAAGAATTAA
76052 TTTTTGTAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 71 0.69
111 32 0.31
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCAATTAATGCATGATTATTAGATTAAGAATTAA
Found at i:77588 original size:18 final size:18
Alignment explanation
Indices: 77562--77596 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77552 GCAGCCACCG
*
77562 CAGCTATATATGATGCCC
1 CAGCCATATATGATGCCC
77580 CAGCCATATATGATGCC
1 CAGCCATATATGATGCC
77597 GCCATCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
CAGCCATATATGATGCCC
Found at i:77943 original size:3 final size:3
Alignment explanation
Indices: 77937--77974 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
77927 TGTGTAAGAA
*
77937 GAC GAC GAC GAC GAC GAT GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
77975 TGATGACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.34, T:0.03
Consensus pattern (3 bp):
GAC
Found at i:81806 original size:51 final size:49
Alignment explanation
Indices: 81730--81827 Score: 169
Period size: 51 Copynumber: 2.0 Consensus size: 49
81720 TTATAGAAAA
81730 CGCGGTACCTCCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTCCCCCGCGCTATATAAAATTAT-T-AGGAGTAAAGGTATGT
*
81781 CGCGGTACCTGCCCCGCGCTATATAAAATTATTAGGAGTAAAGGTAT
1 CGCGGTACCTCCCCCGCGCTATATAAAATTATTAGGAGTAAAGGTAT
81828 AACATGGTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 14 0.30
50 1 0.02
51 31 0.67
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (49 bp):
CGCGGTACCTCCCCCGCGCTATATAAAATTATTAGGAGTAAAGGTATGT
Found at i:81837 original size:49 final size:51
Alignment explanation
Indices: 81732--81852 Score: 165
Period size: 49 Copynumber: 2.4 Consensus size: 51
81722 ATAGAAAACG
* ** *
81732 CGGTACCTCCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGTCG
1 CGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATAACA
81783 CGGTACCTGCCCCGCGCTATATAAAATTAT-T-AGGAGTAAAGGTATAACA
1 CGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATAACA
* **
81832 TGGTACCTGATCCGCGCTATA
1 CGGTACCTGCCCCGCGCTATA
81853 CCCCTATGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
49 33 0.52
50 1 0.02
51 29 0.46
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (51 bp):
CGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATAACA
Found at i:81948 original size:50 final size:48
Alignment explanation
Indices: 81866--81987 Score: 136
Period size: 50 Copynumber: 2.5 Consensus size: 48
81856 CTATGTGGCG
* **
81866 TATAGCGCGATGCAGGGGCCGCGCTATACCCACATGGCGCCAGCTCACCA
1 TATAGCGCGGTGCAGGGG--GCGCTATACCCACATGGCGCCAAATCACCA
* * * *
81916 TATAGCGCGGTGCAGGGGGACGCTATACCCCACGTGGTGCCAAATCATCG
1 TATAGCGCGGTGCAGGGGG-CGCTATA-CCCACATGGCGCCAAATCACCA
*
81966 TATAGCGCAGTGCAGGGGGCGC
1 TATAGCGCGGTGCAGGGGGCGC
81988 ACTTTACTGC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
48 1 0.02
49 10 0.16
50 51 0.82
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (48 bp):
TATAGCGCGGTGCAGGGGGCGCTATACCCACATGGCGCCAAATCACCA
Found at i:84067 original size:14 final size:14
Alignment explanation
Indices: 84048--84087 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
84038 AATGTGAAGT
84048 AATCCCTGCA-AATA
1 AATCCCTGCATAA-A
84062 AATCCCTGCATAAA
1 AATCCCTGCATAAA
*
84076 AATCTCTGCATA
1 AATCCCTGCATA
84088 TAGACAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 22 0.92
15 2 0.08
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.25
Consensus pattern (14 bp):
AATCCCTGCATAAA
Found at i:86560 original size:22 final size:21
Alignment explanation
Indices: 86535--86578 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
86525 AACATTTGTA
86535 TACTTTACCACCCAAA-AAAAAC
1 TACTTT-CCA-CCAAATAAAAAC
*
86557 TACTTTCCATCAAATAAAAAC
1 TACTTTCCACCAAATAAAAAC
86578 T
1 T
86579 TAAAAGAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (21 bp):
TACTTTCCACCAAATAAAAAC
Found at i:90600 original size:24 final size:24
Alignment explanation
Indices: 90556--90601 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
90546 ATATTGTTTC
* *
90556 ATAATACAAAATTTATTTTAATTT
1 ATAATACAAAATTAATGTTAATTT
90580 ATAATA-AAAATATAATGTTAAT
1 ATAATACAAAAT-TAATGTTAAT
90602 GTATCTTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATAATACAAAATTAATGTTAATTT
Found at i:94799 original size:36 final size:35
Alignment explanation
Indices: 94640--95069 Score: 274
Period size: 36 Copynumber: 11.9 Consensus size: 35
94630 TTTTGACAAA
*
94640 ATATAATATATAATTTTCAGAAAACGATTTTCGAAAATTT
1 ATATAATATATAGTTTT-A-AAAAC-ATTTT-GAAAA-TT
* * * *
94680 ATATATTATATAGTTTTTGAAAATATTTT-TAAA--
1 ATATAATATATAG-TTTTAAAAACATTTTGAAAATT
* *
94713 ATATAATATATAGTTTTGAAAATATTTTGAAAACATTT
1 ATATAATATATAGTTTTAAAAACATTTTG-AAA-A-TT
* * *
94751 ATATATTGTATAGTTTTTAAAACATTTTGAAAACTT
1 ATATAATATATAGTTTTAAAAACATTTTGAAAA-TT
* *
94787 ATATAGTATATAGTTTTTAAAACATTTT-AAAA--
1 ATATAATATATAGTTTTAAAAACATTTTGAAAATT
* ****
94819 ATAAAATATATAGTTTTAAATTTTTTTTGAACAATT
1 ATATAATATATAGTTTTAAAAACATTTTGAA-AATT
* ** *
94855 ATATAATGTATAGTTCAAAAAAATATTTTTTTTGAAAAATT
1 ATATAATATATAGTT-TTAAAAACA----TTTTG-AAAATT
*
94896 ATATAATATATAGTTGTAAAAACATTTTTGAAAATT
1 ATATAATATATAGTTTTAAAAACA-TTTTGAAAATT
*
94932 ATATAATATATATAGTTTTAAAAACATTTTTTAAAAAACTT
1 ATAT-A-ATATATAGTTTTAAAAACA--TTTT-GAAAA-TT
*
94973 ATAT-A-ATAT--TTTTAAAAACATTTTGAAAACT
1 ATATAATATATAGTTTTAAAAACATTTTGAAAATT
* * **
95004 ATATAACATATAGTTTTGAAAAC-TTTT-AAAAAA
1 ATATAATATATAGTTTTAAAAACATTTTGAAAATT
*
95037 ATATAATATATA-ATTTAAAAACATATTTTGAAA
1 ATATAATATATAGTTTTAAAAAC--ATTTTGAAA
95070 TATATGTTAT
Statistics
Matches: 318, Mismatches: 42, Indels: 64
0.75 0.10 0.15
Matches are distributed among these distances:
31 5 0.02
32 49 0.15
33 37 0.12
34 8 0.03
35 29 0.09
36 58 0.18
37 18 0.06
38 49 0.15
39 9 0.03
40 21 0.07
41 33 0.10
42 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATAATATATAGTTTTAAAAACATTTTGAAAATT
Found at i:95131 original size:13 final size:12
Alignment explanation
Indices: 95099--95137 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
95089 ATTTAGTATG
95099 TTATTATTATTT-
1 TTATT-TTATTTA
95111 TTATTTTATTTA
1 TTATTTTATTTA
95123 TTCATTTTATTTA
1 TT-ATTTTATTTA
95136 TT
1 TT
95138 TTAATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 7 0.28
13 12 0.48
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTTTATTTA
Found at i:96389 original size:18 final size:18
Alignment explanation
Indices: 96351--96389 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
96341 TATTAACTTC
* *
96351 TTTTTTTATTTGTTTTTA
1 TTTTTTTATTTGCTTTGA
96369 TTTTTTTATTTGCTTTGA
1 TTTTTTTATTTGCTTTGA
96387 TTT
1 TTT
96390 AATATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.03, G:0.08, T:0.79
Consensus pattern (18 bp):
TTTTTTTATTTGCTTTGA
Found at i:96422 original size:13 final size:13
Alignment explanation
Indices: 96406--96450 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
96396 TTATTATTCT
96406 ATTATTTTAATTA
1 ATTATTTTAATTA
* *
96419 ATTAATTTATTTA
1 ATTATTTTAATTA
96432 A-TA-TTTAATT-
1 ATTATTTTAATTA
96442 ATTATTTTA
1 ATTATTTTA
96451 CAATCTAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
10 1 0.04
11 8 0.30
12 6 0.22
13 12 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTTTAATTA
Found at i:96444 original size:8 final size:8
Alignment explanation
Indices: 96386--96444 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
96376 ATTTGCTTTG
96386 ATTTAA-T
1 ATTTAATT
*
96393 ATTTTATT
1 ATTTAATT
96401 ATTCT-ATT
1 ATT-TAATT
96409 ATTTTAATT
1 A-TTTAATT
*
96418 AATTAATTT
1 ATTTAA-TT
96427 ATTTAA-T
1 ATTTAATT
96434 ATTTAATT
1 ATTTAATT
96442 ATT
1 ATT
96445 ATTTTACAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
7 12 0.28
8 17 0.40
9 14 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTTAATT
Found at i:103256 original size:15 final size:15
Alignment explanation
Indices: 103236--103266 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
103226 ATTATCGATG
103236 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
103251 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
103266 A
1 A
103267 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:103524 original size:2 final size:2
Alignment explanation
Indices: 103517--103542 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
103507 ACTAAAAATA
103517 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
103543 TATTTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103850 original size:63 final size:64
Alignment explanation
Indices: 103754--103881 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 64
103744 ATGGATCAAA
* *
103754 TTAATTGAATGCACAAGTGTTGATGATCAAATATGTAATTATATCAATTTTATTAATTGTCATG
1 TTAATTGAATGCACAAGTGTTGACGATCAAATATGTAATTATATCAATTTTATTAATTATCATG
*
103818 TTAATTGAATGCACAA-TGTTGACGATCAAATATGTAATTATTTCAATTTTATTAATTATCATG
1 TTAATTGAATGCACAAGTGTTGACGATCAAATATGTAATTATATCAATTTTATTAATTATCATG
103881 T
1 T
103882 AAACACTTCT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 45 0.74
64 16 0.26
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (64 bp):
TTAATTGAATGCACAAGTGTTGACGATCAAATATGTAATTATATCAATTTTATTAATTATCATG
Found at i:105365 original size:31 final size:32
Alignment explanation
Indices: 105298--105367 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 32
105288 AAAAATGAAA
105298 AATTTATGTACTAAAACAAACCAAAACTATAAT
1 AATTTATGTACTAAAACAAACCAAAAC-ATAAT
**
105331 AATTTATGTACTAAAACAAATTAAAAC-TAAT
1 AATTTATGTACTAAAACAAACCAAAACATAAT
105362 AATTTA
1 AATTTA
105368 AGTATGAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 10 0.29
33 25 0.71
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (32 bp):
AATTTATGTACTAAAACAAACCAAAACATAAT
Found at i:114507 original size:4 final size:4
Alignment explanation
Indices: 114498--114524 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
114488 CAATGCATGT
114498 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
114525 CATAGTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:114618 original size:14 final size:14
Alignment explanation
Indices: 114580--114619 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
114570 AATGGGAAGT
* *
114580 AATCTCTGCAGATA
1 AATCTCTGCATAAA
*
114594 AATCCCTGCATAAA
1 AATCTCTGCATAAA
114608 AATCTCTGCATA
1 AATCTCTGCATA
114620 TAGATAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (14 bp):
AATCTCTGCATAAA
Found at i:123772 original size:18 final size:18
Alignment explanation
Indices: 123751--123792 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
123741 GAAGCTGCAT
123751 AGCCCGCTAAACCTGAAG
1 AGCCCGCTAAACCTGAAG
* *
123769 AGCCTGCTAAAGCTGAAG
1 AGCCCGCTAAACCTGAAG
123787 AGCCCG
1 AGCCCG
123793 ATGACCCTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.26, T:0.12
Consensus pattern (18 bp):
AGCCCGCTAAACCTGAAG
Found at i:127024 original size:13 final size:13
Alignment explanation
Indices: 127006--127035 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
126996 GAGAGCAGCT
127006 TCCGTGGCAAACC
1 TCCGTGGCAAACC
127019 TCCGTGGCAAACC
1 TCCGTGGCAAACC
127032 TCCG
1 TCCG
127036 AAAGTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.40, G:0.23, T:0.17
Consensus pattern (13 bp):
TCCGTGGCAAACC
Found at i:127292 original size:36 final size:36
Alignment explanation
Indices: 127245--127327 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
127235 GACACATTAA
* * *
127245 GAGAATGATACATAGAAATCAATGATATCAAACTAC
1 GAGAATAATACACAGAAATCAACGATATCAAACTAC
* *
127281 GAGAATAATACACAGAATTCAACGATATCAAGCTAC
1 GAGAATAATACACAGAAATCAACGATATCAAACTAC
127317 GAGAATGAATA
1 GAGAAT-AATA
127328 AAGTCAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 37 0.90
37 4 0.10
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.20
Consensus pattern (36 bp):
GAGAATAATACACAGAAATCAACGATATCAAACTAC
Found at i:128267 original size:4 final size:4
Alignment explanation
Indices: 128260--129623 Score: 2679
Period size: 4 Copynumber: 342.8 Consensus size: 4
128250 TGTGTGTGTG
128260 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128308 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128356 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128404 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128452 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128500 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128547 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128595 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128643 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128689 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128737 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128785 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128833 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128881 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128929 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
128977 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129025 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129073 TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129119 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129167 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129215 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129263 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129311 TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129357 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129405 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129453 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129501 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129549 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
129597 TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGT
129624 TATTTTAAAT
Statistics
Matches: 1353, Mismatches: 0, Indels: 14
0.99 0.00 0.01
Matches are distributed among these distances:
2 6 0.00
3 3 0.00
4 1344 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:129993 original size:12 final size:13
Alignment explanation
Indices: 129976--130004 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
129966 CTTAATTATG
129976 AAAATTAAAA-TT
1 AAAATTAAAATTT
129988 AAAATTAAAATTT
1 AAAATTAAAATTT
130001 AAAA
1 AAAA
130005 ATTTGATCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:138022 original size:4 final size:4
Alignment explanation
Indices: 138013--138039 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
138003 GGAGTTCAAC
138013 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
138040 ACATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:141125 original size:19 final size:19
Alignment explanation
Indices: 141101--141137 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
141091 TTATATACAT
*
141101 ATATGAAATATGTCATTAA
1 ATATGAAATATGTAATTAA
*
141120 ATATGACATATGTAATTA
1 ATATGAAATATGTAATTA
141138 TGAGAAGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (19 bp):
ATATGAAATATGTAATTAA
Found at i:146163 original size:21 final size:21
Alignment explanation
Indices: 146137--146178 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
146127 ATTCTGGTTG
*
146137 TGTGCATCGATACACATTCAA
1 TGTGCACCGATACACATTCAA
* *
146158 TGTGCACCGATGCACTTTCAA
1 TGTGCACCGATACACATTCAA
146179 ATAAATGAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (21 bp):
TGTGCACCGATACACATTCAA
Found at i:146993 original size:23 final size:23
Alignment explanation
Indices: 146925--146985 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
146915 ACATCTTATA
*
146925 TGGCACTACGGTGTAATTCTACG
1 TGGCACTTCGGTGTAATTCTACG
*
146948 CGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGTAATTCTACG
146971 TGGCACTTCGGTGTA
1 TGGCACTTCGGTGTA
146986 TTTATACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGTAATTCTACG
Found at i:147214 original size:3 final size:3
Alignment explanation
Indices: 147206--147251 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
147196 TTATATTTCC
147206 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
147252 ATTGCCTCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:152540 original size:13 final size:13
Alignment explanation
Indices: 152522--152546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152512 TCCAGATTTC
152522 TCTTCTTCTCCAT
1 TCTTCTTCTCCAT
152535 TCTTCTTCTCCA
1 TCTTCTTCTCCA
152547 CCGTGAAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.00, T:0.52
Consensus pattern (13 bp):
TCTTCTTCTCCAT
Found at i:154037 original size:3 final size:3
Alignment explanation
Indices: 154029--154056 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
154019 TTACATTTCC
154029 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
154057 ATTGCCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:155378 original size:23 final size:23
Alignment explanation
Indices: 155319--155379 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
155309 CTCGTATAAA
*
155319 TGCACCTAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
155342 TGCACCGAACTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
155365 TGCACTGTAGTGCCA
1 TGCACCGAAGTGCCA
155380 TATAAAATGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:162320 original size:23 final size:23
Alignment explanation
Indices: 162232--162313 Score: 146
Period size: 23 Copynumber: 3.6 Consensus size: 23
162222 CCACAGCTCG
*
162232 TAGAATTGCACCGAAGTGCCGCG
1 TAGAATTGCACCGAAGTGCCGCT
*
162255 TAGAATTGCACCGAAGTGCTGCT
1 TAGAATTGCACCGAAGTGCCGCT
162278 TAGAATTGCACCGAAGTGCCGCT
1 TAGAATTGCACCGAAGTGCCGCT
162301 TAGAATTGCACCG
1 TAGAATTGCACCG
162314 TAATGCCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (23 bp):
TAGAATTGCACCGAAGTGCCGCT
Found at i:164965 original size:15 final size:15
Alignment explanation
Indices: 164915--164957 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
164905 CGAAACTAAT
164915 GATGTCACTTGGCCA
1 GATGTCACTTGGCCA
164930 GATGTCACTTGGCCA
1 GATGTCACTTGGCCA
164945 GATGTCACTTGGC
1 GATGTCACTTGGC
164958 TAGCTGTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (15 bp):
GATGTCACTTGGCCA
Found at i:172408 original size:20 final size:21
Alignment explanation
Indices: 172385--172423 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
172375 CCAACATATG
172385 GGTATCGATACT-AAGGGTTT
1 GGTATCGATACTAAAGGGTTT
172405 GGTATCGATACTAAAGGGT
1 GGTATCGATACTAAAGGGT
172424 CAACATCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.28, C:0.10, G:0.31, T:0.31
Consensus pattern (21 bp):
GGTATCGATACTAAAGGGTTT
Found at i:178525 original size:30 final size:31
Alignment explanation
Indices: 178473--178532 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
178463 CCAGGCAAAC
* * **
178473 GTGTAAGGATTAATTTTGTATTTT-TCTAAA
1 GTGTAAGGATAAAATTAATATTTTATCTAAA
178503 GTGTAAGGATAAAATTAATATTTTATCTAA
1 GTGTAAGGATAAAATTAATATTTTATCTAA
178533 GTCCAGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (31 bp):
GTGTAAGGATAAAATTAATATTTTATCTAAA
Found at i:181656 original size:29 final size:29
Alignment explanation
Indices: 181623--181678 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
181613 AAACGAAAAT
* *
181623 AAAATTTCATTATATTAACAAAGTAATTG
1 AAAATTTAATTATATGAACAAAGTAATTG
* *
181652 AAAATTTAATTGTATGAACAATGTAAT
1 AAAATTTAATTATATGAACAAAGTAAT
181679 ATCGAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (29 bp):
AAAATTTAATTATATGAACAAAGTAATTG
Found at i:182506 original size:13 final size:13
Alignment explanation
Indices: 182488--182514 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
182478 TTCCCCTCTC
182488 GAGTTGGGATCAT
1 GAGTTGGGATCAT
182501 GAGTTGGGATCAT
1 GAGTTGGGATCAT
182514 G
1 G
182515 GCTCCGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.41, T:0.30
Consensus pattern (13 bp):
GAGTTGGGATCAT
Found at i:183556 original size:123 final size:126
Alignment explanation
Indices: 183337--183681 Score: 332
Period size: 123 Copynumber: 2.7 Consensus size: 126
183327 CCCTTTTTCT
* * * * * * *
183337 CCTTTCAAAATGCATCATCAGGCATACTTACTGGAAGCAGAATGTTCT-AAGTTGTGCCTATGAC
1 CCTTTC-AAATGCATCATCGGGCATACTTACAGTAAGCGGAATGCTCTGAA-TTATGCTTATGAC
* * *
183401 AAGAACT-AACTACG-TTTCCCTAAAGGCTCTGCATATATGTATGTACTCATTC-A-A-AATCG
64 AA-AACTAAACTATGTTTTCCCTAAAGACTCTGCATATATCTATGTACTCATTCTAGATAATCG
* *
183460 CCTTTCACAATGCATTATCGGGCATACTTACAGTAAGCGGAATGCTCTGAATTACGCTTATGACA
1 CCTTTCA-AATGCATCATCGGGCATACTTACAGTAAGCGGAATGCTCTGAATTATGCTTATGACA
183525 AAACTAAACTATGTTTTCCC--AAGAACTCTGCATATATCTATGTACTCATTCTAGTATGCTTCT
65 AAACTAAACTATGTTTTCCCTAAAG-ACTCTGCATATATCTATGTACTCATTCTAG-A------T
183588 GAATCG
122 -AATCG
* * * **
183594 CCTTTTGAAATGCATCATCGGGCGTACTTACAGTAAGTGGAATGCTCTGAATTATGCTTATGATG
1 CC-TTTCAAATGCATCATCGGGCATACTTACAGTAAGCGGAATGCTCTGAATTATGCTTATGACA
183659 AAA-TCAAACTATGTTTT-CCTAAA
65 AAACT-AAACTATGTTTTCCCTAAA
183682 ATCCTCATAA
Statistics
Matches: 183, Mismatches: 19, Indels: 28
0.80 0.08 0.12
Matches are distributed among these distances:
122 8 0.04
123 83 0.45
124 9 0.05
126 1 0.01
133 3 0.02
134 73 0.40
135 6 0.03
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (126 bp):
CCTTTCAAATGCATCATCGGGCATACTTACAGTAAGCGGAATGCTCTGAATTATGCTTATGACAA
AACTAAACTATGTTTTCCCTAAAGACTCTGCATATATCTATGTACTCATTCTAGATAATCG
Found at i:188893 original size:29 final size:30
Alignment explanation
Indices: 188851--188929 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
188841 TCTATGGGTG
*
188851 ATTGATT-TTTTTAAAAGATTT-AGGACTTA
1 ATTGATTCTTTTAAAAAG-TTTGAGGACTTA
*
188880 ATTGATTCTTTTAAAAAGTTTGAGGATTTA
1 ATTGATTCTTTTAAAAAGTTTGAGGACTTA
188910 ATTGATTCTTTTAAAAAGTT
1 ATTGATTCTTTTAAAAAGTT
188930 AGAACTCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 10 0.22
30 36 0.78
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTGATTCTTTTAAAAAGTTTGAGGACTTA
Found at i:189417 original size:26 final size:27
Alignment explanation
Indices: 189350--189420 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
189340 TTTTCCAGTG
*
189350 TTTTTTTGTAATTTTATAATATTTAATTA
1 TTTTTTT-TAATTTTA-AATATTTAAATA
*
189379 -TTTTTTAATATTTTAAAT-TTTAAATA
1 TTTTTTTTA-ATTTTAAATATTTAAATA
189405 TTTTTTTTAATTTTAA
1 TTTTTTTTAATTTTAA
189421 TTTGTTTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 14 0.38
27 11 0.30
28 12 0.32
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTTTTTTAATTTTAAATATTTAAATA
Found at i:193618 original size:3 final size:3
Alignment explanation
Indices: 193606--193635 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
193596 AATATGAGAC
193606 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
193636 ATATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:196492 original size:19 final size:20
Alignment explanation
Indices: 196468--196507 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
196458 AAAATAAAAG
*
196468 TAAATTTAA-TATTTTATTT
1 TAAATTAAATTATTTTATTT
196487 TAAATTAAATTATTTTATTT
1 TAAATTAAATTATTTTATTT
196507 T
1 T
196508 GTGATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAAATTAAATTATTTTATTT
Found at i:196561 original size:16 final size:17
Alignment explanation
Indices: 196527--196564 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
196517 ATTCTCTAAA
*
196527 TTAT-TTTAATATAATT
1 TTATATTTAATATAACT
196543 TTATATTTAATAT-ACT
1 TTATATTTAATATAACT
196559 TTATAT
1 TTATAT
196565 GTTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATTTAATATAACT
Found at i:198606 original size:21 final size:21
Alignment explanation
Indices: 198573--198614 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
198563 TTTTAAAAAT
198573 ATTGAAAGGTTAGATACTAAA
1 ATTGAAAGGTTAGATACTAAA
* * *
198594 ATTGAGAGTTTAGGTACTAAA
1 ATTGAAAGGTTAGATACTAAA
198615 TACATAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (21 bp):
ATTGAAAGGTTAGATACTAAA
Found at i:198909 original size:30 final size:31
Alignment explanation
Indices: 198845--198929 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 31
198835 GAATAAGGGG
* * *
198845 TTAAATTGATATTTTATCTGAAATTTATAAA
1 TTAAATTAATATTTAATCTAAAATTTATAAA
*
198876 TTAAATTAACATTTAATCTAAAATTTA-AAA
1 TTAAATTAATATTTAATCTAAAATTTATAAA
*
198906 TTAAATTAATATTTCATCTAAAAT
1 TTAAATTAATATTTAATCTAAAAT
198930 CTAGAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 25 0.52
31 23 0.48
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (31 bp):
TTAAATTAATATTTAATCTAAAATTTATAAA
Found at i:199308 original size:16 final size:17
Alignment explanation
Indices: 199287--199321 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
199277 AATTGTAAAA
199287 AAAAATCC-AAATCCCT
1 AAAAATCCTAAATCCCT
199303 AAAAATCCTAAATCCCT
1 AAAAATCCTAAATCCCT
199320 AA
1 AA
199322 CCCGCCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATCCTAAATCCCT
Found at i:199612 original size:16 final size:16
Alignment explanation
Indices: 199591--199664 Score: 73
Period size: 17 Copynumber: 4.6 Consensus size: 16
199581 AAAATAAAGG
*
199591 TTTTTAAAATATTATA
1 TTTTTAAAATATAATA
199607 TTTTTAAAAATATAATA
1 TTTTT-AAAATATAATA
*
199624 TTTTT-AAATATAATT
1 TTTTTAAAATATAATA
*
199639 TTAATTTTAAATA-AA-A
1 TT--TTTAAAATATAATA
199655 TTTTTAAAAT
1 TTTTTAAAAT
199665 TACTAGAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
14 7 0.14
15 11 0.22
16 7 0.14
17 20 0.40
18 5 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTAAAATATAATA
Found at i:204212 original size:22 final size:21
Alignment explanation
Indices: 204174--204221 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
204164 CCCTATTTAT
*
204174 AAATATAAACTTTAAAACACTA
1 AAATATAAACTTAAAAAC-CTA
*
204196 AAATATTAAAC-TAAAAACCTT
1 AAATA-TAAACTTAAAAACCTA
204217 AAATA
1 AAATA
204222 ACATAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
22 11 0.48
23 5 0.22
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATATAAACTTAAAAACCTA
Found at i:204607 original size:2 final size:2
Alignment explanation
Indices: 204600--204630 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
204590 CGTTGAATGA
204600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
204631 CACACACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:211639 original size:21 final size:21
Alignment explanation
Indices: 211588--211640 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
211578 ATTCTGACTA
*
211588 TCGCATTGAGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
211609 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
211630 TCGCAATGCGA
1 TCGCATTGCGA
211641 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:211672 original size:20 final size:20
Alignment explanation
Indices: 211649--211716 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
211639 GAATACGTAA
211649 ATCGCAATGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
* * *
211669 ATCGCAACGAGATTCTGACT
1 ATCGCAATGCGAATCTGACT
211689 ATCGCAA--CGATATTCTGACT
1 ATCGCAATGCGA-A-TCTGACT
211709 ATCGCAAT
1 ATCGCAAT
211717 ACTGAATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.05
20 38 0.95
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGAATCTGACT
Found at i:212584 original size:24 final size:24
Alignment explanation
Indices: 212557--212616 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
212547 TAGTCAGTAT
*
212557 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTAAATAC
*
212581 TCGAACTTTGATCTTGGTAAATAC
1 TCGAAATTTGATCTTGGTAAATAC
* *
212605 TCGGATTTTGAT
1 TCGAAATTTGAT
212617 GATTTTTCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTAAATAC
Found at i:212861 original size:20 final size:20
Alignment explanation
Indices: 212838--212910 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
212828 CGATAGTCAG
212838 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
*
212858 ATTCGCGTTGCGATTTATGT
1 ATTCGCGTTGCGATTTACGT
212878 ATTCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
212898 ATTCGCGTTGCGA
1 ATTCGCGTTGCGA
212911 ATTAGGAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.40
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACGT
Found at i:213343 original size:30 final size:30
Alignment explanation
Indices: 213275--213349 Score: 125
Period size: 29 Copynumber: 2.5 Consensus size: 30
213265 CAGTCCCAGG
213275 GGTAGGTCGCCATGCACGCCCAGCGACCTA
1 GGTAGGTCGCCATGCACGCCCAGCGACCTA
**
213305 -CCAGGTCGCCATGCACGCCCAGCGACCTA
1 GGTAGGTCGCCATGCACGCCCAGCGACCTA
213334 GGTAGGTCGCCATGCA
1 GGTAGGTCGCCATGCA
213350 ATCCATGCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 27 0.68
30 13 0.32
ACGTcount: A:0.20, C:0.37, G:0.29, T:0.13
Consensus pattern (30 bp):
GGTAGGTCGCCATGCACGCCCAGCGACCTA
Found at i:213691 original size:29 final size:28
Alignment explanation
Indices: 213649--213732 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 28
213639 TACAACGTGG
213649 GTAGGTCGCCAGGGAATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
213678 GTAGGTCGCCAGGGCATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
*
213707 GTAGGTCGCCAAGGGATCCCAACGAC
1 GTAGGTCGCC-AGGGATCCCAGCGAC
213733 CTATGCCTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 48 0.92
30 4 0.08
ACGTcount: A:0.24, C:0.30, G:0.31, T:0.15
Consensus pattern (28 bp):
GTAGGTCGCCAGGGATCCCAGCGACATT
Done.