Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_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: 2600608
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 13
Found at i:241094 original size:14 final size:14
Alignment explanation
Indices: 241095--241128 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
241085 TGCGATTTTC
241095 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
241109 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
241123 ATTTTC
1 ATTTTC
241129 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:241269 original size:14 final size:14
Alignment explanation
Indices: 241250--241286 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
241240 CATCAATTAA
241250 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
241264 ACAAATCACCTTTT
1 ACAAATCAACTTTT
241278 ACAAATCAA
1 ACAAATCAA
241287 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:242708 original size:21 final size:21
Alignment explanation
Indices: 242642--242708 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
242632 GTGAATCGGG
*
242642 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
242662 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
242684 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
242705 CTCT
1 CTCT
242709 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:242727 original size:42 final size:41
Alignment explanation
Indices: 242642--242764 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
242632 GTGAATCGGG
* * * * *
242642 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
242684 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
242726 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
242765 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:244847 original size:33 final size:33
Alignment explanation
Indices: 244790--244888 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
244780 ACGAGATAAT
*
244790 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
244824 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
244857 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
244889 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:244882 original size:19 final size:19
Alignment explanation
Indices: 244765--244930 Score: 127
Period size: 20 Copynumber: 9.1 Consensus size: 19
244755 TCTTTTGGTT
* *
244765 GAAATGAAAATCGTAACGA
1 GAAATGAAAATCGCAACGC
*
244784 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
244804 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
244822 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
244838 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
244856 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
244871 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
244891 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
244910 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
244929 GA
1 GA
244931 TTTTGGTTTC
Statistics
Matches: 118, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 43 0.36
20 44 0.37
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:244959 original size:19 final size:19
Alignment explanation
Indices: 244926--244992 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
244916 AAAATCGCAA
**
244926 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
244945 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
244964 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
244984 TGCGATTTT
1 TGCGATTTT
244993 CATTATCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:245532 original size:20 final size:20
Alignment explanation
Indices: 245507--245559 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
245497 GCGCTATGTA
245507 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
245527 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
245547 TATCTCGTTGCGA
1 AATCGCGTTGCGA
245560 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:245620 original size:41 final size:41
Alignment explanation
Indices: 245528--245622 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
245518 GAAAGTCAGA
* * * * *
245528 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCACATTGCGATTTTGTAAT
*
245569 ATCGCATTGCGATAGTAAGTATCACATTGCGATTTT-TCCAAT
1 ATCGCGTTGCGATAGTAAGTATCACATTGCGATTTTGT--AAT
245611 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
245623 TTACTTATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
40 1 0.02
41 42 0.93
42 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCACATTGCGATTTTGTAAT
Found at i:245696 original size:21 final size:21
Alignment explanation
Indices: 245672--245725 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
245662 ACTGTATACC
*
245672 ATCGCAACGCGATTTCTAACT
1 ATCGCAACGCGATTTCCAACT
245693 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGATTTCCAACT
245714 ATCGCAACGCGA
1 ATCGCAACGCGA
245726 AATACAACGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATTTCCAACT
Found at i:245733 original size:21 final size:21
Alignment explanation
Indices: 245672--245733 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
245662 ACTGTATACC
*
245672 ATCGCAACGCG-ATTTCTAACT
1 ATCGCAACGCGAATTAC-AACT
* *
245693 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAATTACAACT
*
245714 ATCGCAACGCGAAATACAAC
1 ATCGCAACGCGAATTACAAC
245734 GCGAATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAATTACAACT
Found at i:249159 original size:2 final size:2
Alignment explanation
Indices: 249154--249195 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
249144 TTTTATAACC
249154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
249196 TATTTCATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:249958 original size:31 final size:30
Alignment explanation
Indices: 249910--249978 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
249900 GACACTTTAA
* *
249910 ATAGTC-AGGACTGAACAAAATAACACCAT
1 ATAGTCAAGGACTCAACAAAACAACACCAT
*
249939 ATAGTCAATGGACTCAACAAAACAACACCCT
1 ATAGTCAA-GGACTCAACAAAACAACACCAT
*
249970 ATAATCAAG
1 ATAGTCAAG
249979 ACCATTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.18
30 2 0.06
31 26 0.76
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (30 bp):
ATAGTCAAGGACTCAACAAAACAACACCAT
Found at i:253420 original size:13 final size:13
Alignment explanation
Indices: 253402--253431 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
253392 ATTATATCAA
*
253402 TTAATGATTTCAG
1 TTAATGATTACAG
253415 TTAATGATTACAG
1 TTAATGATTACAG
253428 TTAA
1 TTAA
253432 GGGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (13 bp):
TTAATGATTACAG
Found at i:253566 original size:2 final size:2
Alignment explanation
Indices: 253559--253604 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
253549 TAAAAGAATC
253559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
253601 AT AT
1 AT AT
253605 CTTACTGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:257732 original size:13 final size:14
Alignment explanation
Indices: 257713--257749 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
257703 AGAATAAAAG
257713 CAAAGAGAAAATAA
1 CAAAGAGAAAATAA
257727 -AAAGAGAAAA-AA
1 CAAAGAGAAAATAA
257739 CAAAGA-AAAAT
1 CAAAGAGAAAAT
257750 TGAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (14 bp):
CAAAGAGAAAATAA
Found at i:257939 original size:69 final size:69
Alignment explanation
Indices: 257821--257958 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
257811 GATTCAAACT
* * *
257821 ATGAGCTTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
257886 TCAA
66 TCAA
* * *
257890 ATGAGATTGATCAAGCATAATCATTTCTAAATCACTGAATCACTCCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
257955 TCAA
66 TCAA
257959 GAGAGACACA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:258929 original size:32 final size:32
Alignment explanation
Indices: 258882--258970 Score: 133
Period size: 32 Copynumber: 2.8 Consensus size: 32
258872 AGGAACATTG
*
258882 GGGGCATTCTTGGAGATTCAACATCGAATATT
1 GGGGCATTTTTGGAGATTCAACATCGAATATT
* *
258914 GGGGAATTTTTGGAGATTAAACATCGAATATT
1 GGGGCATTTTTGGAGATTCAACATCGAATATT
* *
258946 GGGGCATCTTTGGGGATTCAACATC
1 GGGGCATTTTTGGAGATTCAACATC
258971 CTGATATGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.31
Consensus pattern (32 bp):
GGGGCATTTTTGGAGATTCAACATCGAATATT
Found at i:259666 original size:106 final size:106
Alignment explanation
Indices: 259544--259861 Score: 413
Period size: 106 Copynumber: 3.0 Consensus size: 106
259534 CGTGCCACTT
* *
259544 GAGACAACACAAGTTCAACTCCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATT
**
259609 TCATTGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
*
259650 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGTCTGGTTGTCAACAAACAATTTCCCAATT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATT
** * * *
259715 TTGGAGTCAATTTCAAATTCACAGTGAAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* ** * * * ** *
259756 GAGACAGCACAAGCTT-AACTTCACAGTGAAAGGACGGCTGGCTGTCAACAAACAATTTCTTAGT
1 GAGACAACACAAG-TTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAAT
* * * *
259820 TCCAGAGCCAATTTTAACTTCACGGCGGAGGATATTGGACTC
65 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
259862 AGAACAATAC
Statistics
Matches: 183, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
106 181 0.99
107 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (106 bp):
GAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATT
TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
Found at i:260305 original size:37 final size:37
Alignment explanation
Indices: 260264--260418 Score: 116
Period size: 37 Copynumber: 4.4 Consensus size: 37
260254 CGATTGGGGT
260264 AGTTTCCCTTGAAACAAAATTGTGTCTCCCTTGAGAC
1 AGTTTCCCTTGAAACAAAATTGTGTCTCCCTTGAGAC
* * *
260301 AGTTTCTCTTGAAACATAAA---------CATTGAAAAC
1 AGTTTCCCTTGAAACA-AAATTGTGTCTCCCTTG-AGAC
* ** * * *
260331 A-TTTCCTTTGAAA-TTAATTTTGTCTCTCTTGAGAT
1 AGTTTCCCTTGAAACAAAATTGTGTCTCCCTTGAGAC
*
260366 AGTTTCCCTTGAAACAAAATTGTGTCTCCCTTGAGAT
1 AGTTTCCCTTGAAACAAAATTGTGTCTCCCTTGAGAC
*
260403 AGTTTCTCTTGAAACA
1 AGTTTCCCTTGAAACA
260419 TAAACCTTGA
Statistics
Matches: 88, Mismatches: 17, Indels: 26
0.67 0.13 0.20
Matches are distributed among these distances:
27 2 0.02
29 14 0.16
30 4 0.05
35 3 0.03
36 14 0.16
37 48 0.55
38 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (37 bp):
AGTTTCCCTTGAAACAAAATTGTGTCTCCCTTGAGAC
Found at i:260317 original size:87 final size:87
Alignment explanation
Indices: 260119--260297 Score: 304
Period size: 87 Copynumber: 2.1 Consensus size: 87
260109 GACAGTTTCT
* *
260119 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTTGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
* *
260184 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACAAAATTGTGTCTCC
* *
260206 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
260271 CTTGAAACAAAATTGTGTCTCC
66 CTTGAAACAAAATTGTGTCTCC
260293 CTTGA
1 CTTGA
260298 GACAGTTTCT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACAAAATTGTGTCTCC
Found at i:260317 original size:102 final size:102
Alignment explanation
Indices: 260206--260445 Score: 390
Period size: 102 Copynumber: 2.4 Consensus size: 102
260196 TTTTGTCTCC
* *
260206 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
260271 CTTGAAACAAAATTGTGTCTCCCTTGAGACAGTTTCT
66 CTTGAAACAAAATTGTGTCTCCCTTGAGACAGTTTCT
* * * **
260308 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
*
260373 CTTGAAACAAAATTGTGTCTCCCTTGAGATAGTTTCT
66 CTTGAAACAAAATTGTGTCTCCCTTGAGACAGTTTCT
* *
260410 CTTGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
260446 CATAAAATAT
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 127 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACAAAATTGTGTCTCCCTTGAGACAGTTTCT
Found at i:260379 original size:36 final size:37
Alignment explanation
Indices: 260346--260418 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
260336 CTTTGAAATT
* *
260346 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTGTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
*
260383 AATTGTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AATTGTGTCTCCCTTGAGATAGTTTCCCTTGAAACA
260419 TAAACCTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (37 bp):
AATTGTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
Found at i:260628 original size:37 final size:36
Alignment explanation
Indices: 260564--260680 Score: 148
Period size: 36 Copynumber: 3.2 Consensus size: 36
260554 TATATTTTCC
*
260564 TTGAAACAAA-TTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAAGTTT-GTCTCTCTTGAGACAGTTTCTT
*
260600 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AACAAAG-TTTGTCTCTCTTGAGACAGTTTCTT
* * *
260637 TTGAAACAAAGTTTGTCCCTCTTGAGACAATTTCTC
1 TTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCTT
260673 TTGAAACA
1 TTGAAACA
260681 CAAAAAAACC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
35 1 0.01
36 37 0.52
37 29 0.41
38 4 0.06
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (36 bp):
TTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:260740 original size:37 final size:34
Alignment explanation
Indices: 260667--260752 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 34
260657 CTTGAGACAA
*
260667 TTTCTCTTGAAACACAAAAAAACCCTCGAAATTG
1 TTTCTCTTGAAACACAAAAAAACCCTCGAAAATG
* *
260701 TTTCTCTTGAAACACACACACAAAACCTTTGAAAATG
1 TTTCTCTTGAAACACA-A-A-AAAACCCTCGAAAATG
260738 TTTCTCTTGAAACAC
1 TTTCTCTTGAAACAC
260753 CAAACCCTCG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 16 0.35
35 1 0.02
36 1 0.02
37 28 0.61
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.29
Consensus pattern (34 bp):
TTTCTCTTGAAACACAAAAAAACCCTCGAAAATG
Found at i:261977 original size:47 final size:47
Alignment explanation
Indices: 261911--262033 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
261901 TTTTTTAGAT
261911 TATATATATATATATTATTTTTTTATTATCAGTTTTATTAATTTATA
1 TATATATATATATATTATTTTTTTATTATCAGTTTTATTAATTTATA
261958 TATATATATATATATTATTTTTTTATTATCAGTTTTATTAATTTATA
1 TATATATATATATATTATTTTTTTATTATCAGTTTTATTAATTTATA
*
262005 TATATATATATATATACAATTTTTTTATT
1 TATATATATATATAT--TATTTTTTTATT
262034 TTTTATTTTT
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 62 0.85
49 11 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (47 bp):
TATATATATATATATTATTTTTTTATTATCAGTTTTATTAATTTATA
Found at i:262044 original size:14 final size:14
Alignment explanation
Indices: 262025--262085 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 14
262015 TATATACAAT
262025 TTTTTTATTTTTTA
1 TTTTTTATTTTTTA
262039 TTTTTTATTTATACTT-
1 TTTTTTATTT-T--TTA
262055 TTTTATTATTATTTTA
1 TTTT-TTATT-TTTTA
262071 TTTATTTATATTTTT
1 TTT-TTTAT-TTTTT
262086 TCTTCTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
14 10 0.26
15 3 0.08
16 15 0.38
17 10 0.26
18 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTTTTA
Found at i:262052 original size:31 final size:33
Alignment explanation
Indices: 262017--262079 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
262007 TATATATATA
262017 TATACAATTTTT-TTATT-TTTTATTT-TTTATT
1 TATAC-ATTTTTATTATTATTTTATTTATTTATT
*
262048 TATACTTTTTTATTATTATTTTATTTATTTAT
1 TATACATTTTTATTATTATTTTATTTATTTAT
262080 ATTTTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 5 0.18
31 10 0.36
32 8 0.29
33 5 0.18
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (33 bp):
TATACATTTTTATTATTATTTTATTTATTTATT
Found at i:262057 original size:21 final size:20
Alignment explanation
Indices: 262027--262085 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
262017 TATACAATTT
262027 TTTTA-TTTTTTATTTTTTA
1 TTTTACTTTTTTATTTTTTA
*
262046 TTTATACTTTTTTA-TTATTA
1 TTT-TACTTTTTTATTTTTTA
262066 TTTTA-TTTATTTATATTTTT
1 TTTTACTTT-TTTAT-TTTTT
262086 TCTTCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 3 0.09
19 9 0.27
20 10 0.30
21 11 0.33
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTACTTTTTTATTTTTTA
Found at i:262063 original size:13 final size:13
Alignment explanation
Indices: 262025--262086 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 13
262015 TATATACAAT
*
262025 TTTTTTATTTTTTA
1 TTTTTTA-TTTATA
262039 TTTTTTATTTATA
1 TTTTTTATTTATA
262052 CTTTTTTA-TTATTA
1 -TTTTTTATTTA-TA
262066 TTTTATTTATTTATA
1 -TTT-TTTATTTATA
262081 TTTTTT
1 TTTTTT
262087 CTTCTTTTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
13 11 0.26
14 22 0.52
15 6 0.14
16 3 0.07
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTATTTATA
Found at i:262122 original size:49 final size:49
Alignment explanation
Indices: 262023--262128 Score: 112
Period size: 49 Copynumber: 2.2 Consensus size: 49
262013 TATATATACA
* *
262023 ATTT-TTT-TATTTTTTATTTTTTATTTATACTTTTTTATTATTATTTT
1 ATTTATTTATATTTTTTATTTTTTATCTATACTTTTTTATTATTATTAT
* * *
262070 ATTTATTTATATTTTTTCTTCTTTT-TCTATATTTTTTTAATTTTTA-TAT
1 ATTTATTTATATTTTTTATT-TTTTATCTATACTTTTTT-ATTATTATTAT
262119 ATTTACTTTA
1 ATTTA-TTTA
262129 CTAACTATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
47 4 0.08
48 3 0.06
49 28 0.57
50 14 0.29
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.75
Consensus pattern (49 bp):
ATTTATTTATATTTTTTATTTTTTATCTATACTTTTTTATTATTATTAT
Found at i:262192 original size:16 final size:16
Alignment explanation
Indices: 262148--262192 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
262138 TTATCTTTGC
*
262148 TTTCTTTATCTTATTT
1 TTTCTTTATTTTATTT
* *
262164 TTTATTTAATTTATTT
1 TTTCTTTATTTTATTT
*
262180 TTTCTTCATTTTA
1 TTTCTTTATTTTA
262193 CTTTAATTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCTTTATTTTATTT
Found at i:263119 original size:17 final size:16
Alignment explanation
Indices: 263097--263144 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
263087 AAATGATTAA
263097 TATTTTATTAATTATTT
1 TATTTTATTAATT-TTT
*
263114 TATTTT-TTAACTTTT
1 TATTTTATTAATTTTT
*
263129 TATATTATTTAATTTT
1 TATTTTA-TTAATTTT
263145 CAATTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 8 0.31
16 5 0.19
17 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTATTAATTTTT
Found at i:263354 original size:22 final size:23
Alignment explanation
Indices: 263321--263368 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
263311 TTAATATATA
263321 AAACGTTAAATTATAAAGTA-TT
1 AAACGTTAAATTATAAAGTAGTT
*
263343 AAACG-TATAATTATAAATTAGTT
1 AAACGTTA-AATTATAAAGTAGTT
263366 AAA
1 AAA
263369 AATCTAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (23 bp):
AAACGTTAAATTATAAAGTAGTT
Found at i:277424 original size:22 final size:22
Alignment explanation
Indices: 277396--277438 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
277386 AGTTTTATTA
*
277396 AAGTTTTT-TCTTTTTACTTTTC
1 AAGTTTTTCCCTTTTT-CTTTTC
277418 AAGTTTTTCCCTTTTTCTTTT
1 AAGTTTTTCCCTTTTTCTTTT
277439 ACTTTCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.12, C:0.16, G:0.05, T:0.67
Consensus pattern (22 bp):
AAGTTTTTCCCTTTTTCTTTTC
Found at i:290567 original size:43 final size:48
Alignment explanation
Indices: 290465--290570 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 48
290455 AGGATTAGAT
*
290465 TTATTATTTTATTAGGAATTAATATTGAGTTAAAACATTAATTTTAGTTA
1 TTATTATTTTATTAGGAATT-ATA-TGAGTTAAAACATTAATTTAAGTTA
* * *
290515 TTATTATTTTATTAGGAA-T-TA-GAGTTAAGACA-T-ATTTAATTTG
1 TTATTATTTTATTAGGAATTATATGAGTTAAAACATTAATTTAAGTTA
290558 TTATTATTTTATT
1 TTATTATTTTATT
290571 CATTAGTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
43 20 0.38
44 1 0.02
45 10 0.19
47 2 0.04
49 1 0.02
50 18 0.35
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (48 bp):
TTATTATTTTATTAGGAATTATATGAGTTAAAACATTAATTTAAGTTA
Found at i:300701 original size:13 final size:14
Alignment explanation
Indices: 300637--300704 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 14
300627 TTTAAGAATG
300637 GTTGTAATATGTTA
1 GTTGTAATATGTTA
* *
300651 GTTTGGTTATTTG-TA
1 G-TT-GTAATATGTTA
* * *
300666 GAT-TATTATTTTA
1 GTTGTAATATGTTA
300679 GTTGTAATATGTTA
1 GTTGTAATATGTTA
300693 GTT-TAATATGTT
1 GTTGTAATATGTT
300705 TGTGGATTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
12 3 0.08
13 13 0.32
14 13 0.32
15 5 0.12
16 6 0.15
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (14 bp):
GTTGTAATATGTTA
Found at i:300717 original size:42 final size:42
Alignment explanation
Indices: 300637--300717 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
300627 TTTAAGAATG
**
300637 GTTGTAATATGTTAGTTTGGTTATTTGTAGATTATTATTTTA
1 GTTGTAATATGTTAGTTTAATTATTTGTAGATTATTATTTTA
* *
300679 GTTGTAATATGTTAGTTTAATATGTTTGTGGATT-TTATT
1 GTTGTAATATGTTAGTTTAAT-TATTTGTAGATTATTATT
300718 GAGTTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 24 0.71
43 10 0.29
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (42 bp):
GTTGTAATATGTTAGTTTAATTATTTGTAGATTATTATTTTA
Found at i:301190 original size:12 final size:12
Alignment explanation
Indices: 301173--301197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
301163 ATATTTTTAA
301173 TAAAATATTATT
1 TAAAATATTATT
301185 TAAAATATTATT
1 TAAAATATTATT
301197 T
1 T
301198 TTTTATTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:304639 original size:3 final size:3
Alignment explanation
Indices: 304631--304746 Score: 196
Period size: 3 Copynumber: 38.7 Consensus size: 3
304621 TTAATATATT
*
304631 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
304679 TGA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
304727 TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
304747 TGGATAAAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:305424 original size:113 final size:113
Alignment explanation
Indices: 305064--305593 Score: 881
Period size: 113 Copynumber: 4.7 Consensus size: 113
305054 AGAATTATGC
* * * *
305064 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
305129 TATGAAC-TTCTCTGGAAAAGAT-ATCCATCAATTGATGAATTCAAGT
66 TATGAACTTTCTCTGGAAAGGCTGATCCATCAAATGATGGACTCAGGT
*
305175 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TTCCT-TTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
*
305238 TATGAACTTTCTCTGGAAAGGCTGATCCATCAAA-GATGGACTCAGGA
66 TATGAACTTTCTCTGGAAAGGCTGATCCATCAAATGATGGACTCAGGT
305285 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
*
305350 TATGAACTTTCTCTGGACAGGCTGATCCATCAAATGATGGACTCAGGT
66 TATGAACTTTCTCTGGAAAGGCTGATCCATCAAATGATGGACTCAGGT
*
305398 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
*
305463 TATGAACTTTCTCTGGAAAGGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAGGCTGATCCATCAAATGATGGACTCAGGT
*
305511 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
305576 TATGAACTTTCTCTGGAA
66 TATGAACTTTCTCTGGAA
305594 GAAATGATCC
Statistics
Matches: 396, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
109 26 0.07
110 64 0.16
111 48 0.12
112 53 0.13
113 205 0.52
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAGGCTGATCCATCAAATGATGGACTCAGGT
Found at i:306691 original size:83 final size:83
Alignment explanation
Indices: 306342--306804 Score: 833
Period size: 82 Copynumber: 5.6 Consensus size: 83
306332 CCTACTGAAT
* *
306342 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTTTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAACTCA
306406 ATGATTGTTCTGTCCAAC
66 ATGATTGTTCTGTCCAAC
*
306424 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAACTCA
306488 ATGATTGTTCTGTCCAAC
66 ATGATTGTTCTGTCCAAC
*
306506 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAACTCA
306570 ATGATTGTTCTGTCCAAC
66 ATGATTGTTCTGTCCAAC
*
306588 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAACTCA
306653 ATGATTGTTCTGTCCAAC
66 ATGATTGTTCTGTCCAAC
* *
306671 TAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAACTCA
306736 ATGATTGGTTCTGTCCAAC
66 ATGATT-GTTCTGTCCAAC
306755 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
306805 ATATTTGTTT
Statistics
Matches: 372, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
82 201 0.54
83 110 0.30
84 61 0.16
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAACTCA
ATGATTGTTCTGTCCAAC
Found at i:307972 original size:9 final size:9
Alignment explanation
Indices: 307943--307984 Score: 52
Period size: 8 Copynumber: 4.8 Consensus size: 9
307933 TTGACCCCCC
307943 TTTTTCTTT
1 TTTTTCTTT
*
307952 GTTTGT-TTT
1 -TTTTTCTTT
307961 TTTTTC-TT
1 TTTTTCTTT
307969 TTTTTCTTT
1 TTTTTCTTT
307978 TTTTTCT
1 TTTTTCT
307985 CCTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 12 0.43
9 12 0.43
10 4 0.14
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.86
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:307984 original size:17 final size:18
Alignment explanation
Indices: 307943--307982 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
307933 TTGACCCCCC
307943 TTTTTCTTTGTTTGTTTT
1 TTTTTCTTTGTTTGTTTT
* *
307961 TTTTTCTTTTTTTCTTTT
1 TTTTTCTTTGTTTGTTTT
307979 TTTT
1 TTTT
307983 CTCCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (18 bp):
TTTTTCTTTGTTTGTTTT
Found at i:307990 original size:19 final size:18
Alignment explanation
Indices: 307943--307992 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
307933 TTGACCCCCC
*
307943 TTTTT-CTTTGTTTGTTTT
1 TTTTTCCTTT-TTTCTTTT
*
307961 TTTTTCTTTTTTTCTTTT
1 TTTTTCCTTTTTTCTTTT
307979 TTTTCTCCTTTTTT
1 TTTT-TCCTTTTTT
307993 TTCAAGCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (18 bp):
TTTTTCCTTTTTTCTTTT
Found at i:320826 original size:3 final size:3
Alignment explanation
Indices: 320818--320936 Score: 193
Period size: 3 Copynumber: 39.7 Consensus size: 3
320808 TTAATATATT
* *
320818 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
320866 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
320914 TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
320937 TGGATAAAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 106 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:324012 original size:3 final size:3
Alignment explanation
Indices: 323998--324045 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
323988 CAAAATGTAT
* *
323998 TAA TAA -AA TAA TAA TAA TAA TAC TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
324045 T
1 T
324046 TACAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:324326 original size:40 final size:40
Alignment explanation
Indices: 324206--324497 Score: 167
Period size: 40 Copynumber: 6.9 Consensus size: 40
324196 TTGGTTGTTG
*
324206 GGGACGACACTGCTCATACATGATGAAGAGTTCTGGTCGTATAA
1 GGGATGACACTGCTCATACATGATGAAGAGTTCTGGTC----AA
* ** * * * **
324250 AGG-TGACAAGGTTCCTACATGATGAGGAAATCTGGTCAA
1 GGGATGACACTGCTCATACATGATGAAGAGTTCTGGTCAA
*
324289 GGGATGACACTGCTCATACATGATGAAGAGTTATGGTCATCTTTA
1 GGGATGACACTGCTCATACATGATGAAGAGTTCTGGTCA-----A
* * * * * * * *
324334 GGAGGAGTGATAACCCGATTCCTACGTGATGAGGACG-GCTGGTTATTTA
1 -G-GGA-TGA-CA-CTG-CTCATACATGATGAAGA-GTTCTGGTCA---A
* * * *
324383 G-GATGACACGGCTCCTACGTGATGAAGAGTTCTGGTCAG
1 GGGATGACACTGCTCATACATGATGAAGAGTTCTGGTCAA
* *
324422 GGGATGACACTGCTCATACGTGATGAAGAGTTCTGGTCAG
1 GGGATGACACTGCTCATACATGATGAAGAGTTCTGGTCAA
*
324462 GGGATGACACTGCTCATACGTGATGAAGAGTTCTGG
1 GGGATGACACTGCTCATACATGATGAAGAGTTCTGG
324498 CCATCTTTAG
Statistics
Matches: 197, Mismatches: 36, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
39 5 0.03
40 99 0.50
41 1 0.01
42 21 0.11
43 28 0.14
44 3 0.02
45 4 0.02
46 3 0.02
47 3 0.02
48 4 0.02
49 5 0.03
50 2 0.01
51 18 0.09
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (40 bp):
GGGATGACACTGCTCATACATGATGAAGAGTTCTGGTCAA
Found at i:324418 original size:42 final size:40
Alignment explanation
Indices: 324383--324497 Score: 212
Period size: 40 Copynumber: 2.9 Consensus size: 40
324373 TGGTTATTTA
* *
324383 GGATGACACGGCTCCTACGTGATGAAGAGTTCTGGTCAGG
1 GGATGACACTGCTCATACGTGATGAAGAGTTCTGGTCAGG
324423 GGATGACACTGCTCATACGTGATGAAGAGTTCTGGTCAGG
1 GGATGACACTGCTCATACGTGATGAAGAGTTCTGGTCAGG
324463 GGATGACACTGCTCATACGTGATGAAGAGTTCTGG
1 GGATGACACTGCTCATACGTGATGAAGAGTTCTGG
324498 CCATCTTTAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (40 bp):
GGATGACACTGCTCATACGTGATGAAGAGTTCTGGTCAGG
Found at i:324531 original size:173 final size:174
Alignment explanation
Indices: 324280--324605 Score: 512
Period size: 173 Copynumber: 1.9 Consensus size: 174
324270 GATGAGGAAA
* *
324280 TCTGGTCAAGGGATGACACTGCTCATACATGATGAAGAGTTATGGTCATCTTTAGGAGGAGTGAT
1 TCTGGTCAAGGGATGACACTGCTCATACATGATGAAGAGTTATGGCCATCTTTAGGAGGAGCGAT
* * *
324345 AACCCGATTCCTACGTGATGAGGACGGCTGGTTATTTA-GGATGACACGGCTCCTACGTGATGAA
66 AACACGATTCCTACATGATGAGGACGGCTGGTTATCTATGGATGACACGGCTCCTACGTGATGAA
* *
324409 GAGTTCTGGTCAGGGGATGACACTGCTCATACGTGATGAAGAGT
131 GAGATCTGGTCAGAGGATGACACTGCTCATACGTGATGAAGAGT
* * *
324453 TCTGGTCAGGGGATGACACTGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGTAGG-GCGA
1 TCTGGTCAAGGGATGACACTGCTCATACATGATGAAGAGTTATGGCCATCTTTAGG-AGGAGCGA
* *
324517 TAACACGGTTCCTACATGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGA
65 TAACACGATTCCTACATGATGAGGACGGCTGGTTATCTATGGATGACACGGCTCCTACGTGATGA
*
324582 GGAGATCTGGTCAGAGGATGACAC
130 AGAGATCTGGTCAGAGGATGACAC
324606 GGTTCCTATG
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
173 90 0.65
174 48 0.35
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (174 bp):
TCTGGTCAAGGGATGACACTGCTCATACATGATGAAGAGTTATGGCCATCTTTAGGAGGAGCGAT
AACACGATTCCTACATGATGAGGACGGCTGGTTATCTATGGATGACACGGCTCCTACGTGATGAA
GAGATCTGGTCAGAGGATGACACTGCTCATACGTGATGAAGAGT
Found at i:325016 original size:35 final size:36
Alignment explanation
Indices: 324975--325070 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 36
324965 ACAAAATTCA
**
324975 TTTCAAGAGAAACGATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACGATCTCAAAGATGGTAAATTTTG
*
325010 TTTCAAGTGAAACAGAT-TCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAAC-GATCTCAAAGATGGTAAATTTTG
* *
325046 TTTCCAA-AGAAACAAACTCAAAGAT
1 TTT-CAAGAGAAACGATCTCAAAGAT
325071 TTTTCTCAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
35 21 0.41
36 27 0.53
37 3 0.06
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (36 bp):
TTTCAAGAGAAACGATCTCAAAGATGGTAAATTTTG
Found at i:325335 original size:15 final size:15
Alignment explanation
Indices: 325315--325352 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
325305 ATCTTGTTTT
325315 AAGAGAAAATGCTTC
1 AAGAGAAAATGCTTC
*
325330 AAGAGAAAATGTTTC
1 AAGAGAAAATGCTTC
*
325345 AAGTGAAA
1 AAGAGAAA
325353 CGACTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (15 bp):
AAGAGAAAATGCTTC
Found at i:325405 original size:31 final size:30
Alignment explanation
Indices: 325341--325415 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
325331 AGAGAAAATG
*
325341 TTTCAAGTGAAACGACTCAAAAATGGTTTTA
1 TTTCAAGTGAAACAACTCAAAAAT-GTTTTA
*
325372 TTTCAAGTGAAACAAACTCAAAGAT-TTTGTA
1 TTTCAAGTGAAAC-AACTCAAAAATGTTT-TA
* *
325403 TTTCTAGAGAAAC
1 TTTCAAGTGAAAC
325416 TGCCTCAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 3 0.08
31 26 0.68
32 9 0.24
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (30 bp):
TTTCAAGTGAAACAACTCAAAAATGTTTTA
Found at i:325508 original size:40 final size:40
Alignment explanation
Indices: 325448--325527 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
325438 GTTTTAATAA
*
325448 AAACAATCTCAAAGGTGGGTAGTTTT-AAAAGAAATTGTCT
1 AAACAATCTCAAAGGTGGGTA-TTTTCAAAAGAAACTGTCT
* *
325488 AAACGATCTCAAATGTGGGTATTTTCAAAAGAAACTGTCT
1 AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAACTGTCT
325528 CGAGAGACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (40 bp):
AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAACTGTCT
Found at i:325582 original size:63 final size:64
Alignment explanation
Indices: 325509--325633 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
325499 AATGTGGGTA
* *
325509 TTTTCAAAAGAAACTGTC-TCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTT
1 TTTTCAAAAGAAACTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
* * * *
325572 TTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
1 TTTTCAAAAGAAACTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
325634 GGATCACATC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 17 0.31
64 38 0.69
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (64 bp):
TTTTCAAAAGAAACTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
Found at i:325746 original size:120 final size:119
Alignment explanation
Indices: 325531--325754 Score: 276
Period size: 120 Copynumber: 1.9 Consensus size: 119
325521 ACTGTCTCGA
* *
325531 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTTAAG
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAACTGTCTTCAAG
*
325596 AGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
66 AGAGAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
* * * **
325650 GAGACCAAA-TTTGTTTCAAATGAAACAATCTCAAA-AGTTAGTTTTTCATTAGAAACTGTC-TC
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGA-TT--TTTTTCAAAAGAAACTGTCTTC
** *
325712 AAGAGAGACAACA-TTTGTTTTTAAAGAAATAGACTCAAAGATG
63 AAGAGAGA-AA-ATTTTGTTTCAAAAGAAACAGACTCAAAGATG
325755 ATTTTGTTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
117 1 0.01
118 26 0.29
119 16 0.18
120 45 0.51
121 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (119 bp):
GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAACTGTCTTCAAG
AGAGAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
Found at i:325881 original size:64 final size:64
Alignment explanation
Indices: 325801--326081 Score: 302
Period size: 67 Copynumber: 4.4 Consensus size: 64
325791 ATGAACATAT
** * * * * * *
325801 TCAAAGATTTACTTCAAGAGAAACTGTCTCAAGTGATACAAAATTCAT-TTT-AAGAGAAACAGA
1 TCAAAGATTTTTTTCAAAAGAAATTATCTCAAGAGAGACAAAATT-TTGTTTCAA-AGAAACAGA
*
325864 T
64 C
*
325865 TCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGAC
1 TCAAAGATTTTTTTCAAAAGAAATTATCTCAAGAGAGACAAAATTTTGTTT-CAAAGAAACAGAC
* *
325930 TCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAA
1 TCAAAGA-TTTT-TTTCAAAAGAAATTATCTCAAGAGAGACAAAATTTTGTTT-CAAAGAAACAG
325995 AC
63 AC
* * * * *
325997 TCAAAGATTTTTTTC-ACA-AAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGAC
1 TCAAAGATTTTTTTCAAAAGAAATTATCTCAAGAGAGACAAAATTTTGTTTC-AAAGAAACAGAC
*
326060 TCAAAGA-TTTTTTCAAACGAAA
1 TCAAAGATTTTTTTCAAAAGAAA
326082 CAACTCAAAG
Statistics
Matches: 189, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
62 8 0.04
63 46 0.24
64 45 0.24
65 20 0.11
66 10 0.05
67 60 0.32
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (64 bp):
TCAAAGATTTTTTTCAAAAGAAATTATCTCAAGAGAGACAAAATTTTGTTTCAAAGAAACAGAC
Found at i:325922 original size:37 final size:38
Alignment explanation
Indices: 325866--325991 Score: 123
Period size: 37 Copynumber: 3.6 Consensus size: 38
325856 GAAACAGATT
325866 CAAAGATTTT-TTTCAAAAGAAATTATCTTAAGAGAGA
1 CAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGAGA
* **
325903 CAAA-ATTTTGTTTCCAAAG-AA--A-C-----AGACT
1 CAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGAGA
325931 CAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGA
1 CAAAGA-TTTTGTTTCAAAAGAAATTATCTTAAGAGAGA
*
325970 CAAA-ATTTTGTTTCCAAAGAAA
1 CAAAGATTTTGTTTCAAAAGAAA
325992 CAAACTCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
28 7 0.10
29 1 0.01
30 13 0.19
31 2 0.03
33 2 0.03
34 2 0.03
36 7 0.10
37 28 0.40
38 1 0.01
39 7 0.10
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (38 bp):
CAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGAGA
Found at i:326062 original size:63 final size:65
Alignment explanation
Indices: 325855--326081 Score: 325
Period size: 67 Copynumber: 3.5 Consensus size: 65
325845 TCATTTTAAG
*
325855 AGAAACAGATTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAA
1 AGAAACAGACTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAA
325920 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACTCAAAGA-TTTT-TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
325985 AA
64 AA
* * * * * *
325987 AGAAACAAACTCAAAGATTTTTTTC-ACA-AAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAA
1 AGAAACAGACTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAA
* * *
326050 ATAAATAGACTCAAAGA-TTTTTTCAAACGAAA
1 AGAAACAGACTCAAAGATTTTTTTCAAAAGAAA
326082 CAACTCAAAG
Statistics
Matches: 146, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
62 7 0.05
63 46 0.32
64 5 0.03
65 20 0.14
66 8 0.05
67 60 0.41
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (65 bp):
AGAAACAGACTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAA
Found at i:326073 original size:27 final size:27
Alignment explanation
Indices: 326043--326193 Score: 160
Period size: 27 Copynumber: 5.4 Consensus size: 27
326033 CAAAACTTTG
* * *
326043 TTTCAAAATAAATAGACTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
*
326070 TTTCAAACGAAAC-AACTCAAAGACTTT
1 TTTCAAAAGAAACAAACTCAAAGA-TTT
* *
326097 TATTCAAAAGGAACAAACTCCAAGATTTT
1 T-TTCAAAAGAAACAAACTCAAAGA-TTT
*
326126 TATTCAAAAGGAACAAACTCAAAGATTT
1 T-TTCAAAAGAAACAAACTCAAAGATTT
* * *
326154 TTTTAAGAGGAACAAACTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
326181 TTTCCAAAAGAAA
1 TTT-CAAAAGAAA
326194 TTGTCTTTAA
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.08
27 41 0.39
28 20 0.19
29 36 0.34
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (27 bp):
TTTCAAAAGAAACAAACTCAAAGATTT
Found at i:326126 original size:29 final size:28
Alignment explanation
Indices: 326058--326190 Score: 173
Period size: 29 Copynumber: 4.8 Consensus size: 28
326048 AAATAAATAG
* *
326058 ACTCAAAGA-TTTTTTCAAACGAAAC-A
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
*
326084 ACTCAAAGACTTTTATTCAAAAGGAACAA
1 ACTCAAAGA-TTTTTTTCAAAAGGAACAA
*
326113 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
*
326142 ACTCAAAGATTTTTTT-AAGAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
*
326169 ACTCAAAGATTTTTTCCAAAAG
1 ACTCAAAGATTTTTTTCAAAAG
326191 AAATTGTCTT
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 9 0.10
27 25 0.27
28 23 0.25
29 36 0.39
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAAAGGAACAA
Found at i:326171 original size:56 final size:56
Alignment explanation
Indices: 326058--326193 Score: 179
Period size: 56 Copynumber: 2.4 Consensus size: 56
326048 AAATAAATAG
*
326058 ACTCAAAGA-TTTTTTCAAACGAAACAACTCAAAGACTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGAAACAACTCAAAGACTTTTATTCAAAAGGAACAA
* * * *
326113 ACTCCAAGATTTTTATTCAAAAGGAACAAACTCAAAGA-TTTT-TTTAAGAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGAAAC-AACTCAAAGACTTTTATTCAAAAGGAACAA
*
326169 ACTCAAAGATTTTTTCCAAAAGAAA
1 ACTCAAAGATTTTTTTCAAAAGAAA
326194 TTGTCTTTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
55 17 0.24
56 29 0.41
57 14 0.20
58 10 0.14
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.27
Consensus pattern (56 bp):
ACTCAAAGATTTTTTTCAAAAGAAACAACTCAAAGACTTTTATTCAAAAGGAACAA
Found at i:326516 original size:36 final size:35
Alignment explanation
Indices: 326432--326529 Score: 126
Period size: 36 Copynumber: 2.8 Consensus size: 35
326422 GAGAAAATGA
* *
326432 TGTCTCAAGCGAGACAAAATTTG-CTTTAAGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAT
* **
326466 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTA-AGAAAT
*
326502 TGTCTCAAGCGAGACAAAGTTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTTT
326530 GAGGAAACGA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 20 0.38
35 4 0.08
36 29 0.55
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAT
Found at i:326544 original size:36 final size:36
Alignment explanation
Indices: 326433--326551 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
326423 AGAAAATGAT
* * *
326433 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATC
** *
326467 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATC
*
326503 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGGAAA-C
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGA-GAAATC
*
326538 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
326552 TCAACTTTGT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
34 20 0.28
35 7 0.10
36 44 0.62
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAATC
Found at i:326690 original size:105 final size:105
Alignment explanation
Indices: 326546--326735 Score: 292
Period size: 105 Copynumber: 1.8 Consensus size: 105
326536 ACGATCTCAA
* *
326546 GTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAGGTCTCA
1 GTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTCA
326611 AGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAG
66 AGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAG
* * * * *
326651 GTGAGATTAATTTTGTTTTAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTC
1 GTGAGATCAACTTTG-TTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTC
*
326715 AAGCGAGACGCAATTTGTTTT
65 AAGCGAGACGAAATTTGTTTT
326736 AAAATTCTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
105 71 0.93
106 5 0.07
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (105 bp):
GTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTCA
AGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAG
Found at i:327216 original size:4 final size:4
Alignment explanation
Indices: 327207--327241 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
327197 TTTATGTATC
327207 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
327242 AGTTTTCTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 27 0.93
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:328449 original size:12 final size:11
Alignment explanation
Indices: 328421--328458 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
328411 CCTCTTTTTG
*
328421 TTCTTTGCTTT
1 TTCTTTGATTT
328432 TTCTTTGATTT
1 TTCTTTGATTT
328443 TTGCTTTGATTT
1 TT-CTTTGATTT
328455 TTCT
1 TTCT
328459 CTTTGCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:328462 original size:13 final size:12
Alignment explanation
Indices: 328416--328463 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
328406 TTTGTCCTCT
328416 TTTTGTTCTTTG-
1 TTTT-TTCTTTGA
*
328428 CTTTTTCTTTGA
1 TTTTTTCTTTGA
*
328440 TTTTTGCTTTGA
1 TTTTTTCTTTGA
328452 TTTTTCTCTTTG
1 TTTTT-TCTTTG
328464 CTCTTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 7 0.23
12 18 0.60
13 5 0.17
ACGTcount: A:0.04, C:0.12, G:0.12, T:0.71
Consensus pattern (12 bp):
TTTTTTCTTTGA
Found at i:329157 original size:46 final size:45
Alignment explanation
Indices: 329065--329158 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
329055 ATAAATGCAG
* * * *
329065 TGTTTCAAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
* *
329110 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
329156 TGT
1 TGT
329159 CAAAAATTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 11 0.26
46 31 0.74
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
Found at i:334402 original size:3 final size:3
Alignment explanation
Indices: 334388--334432 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
334378 CAAAATGTAT
* *
334388 TAA TAA -AA TAA TAA TAA TAA TAC TAA TTA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
334433 TACAATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:336792 original size:24 final size:24
Alignment explanation
Indices: 336737--336794 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
336727 ATTAACATTT
*
336737 TATATTTGTTATTAATGATATTAG
1 TATATTTTTTATTAATGATATTAG
336761 TATATTTTTTATTAATGATATTAG
1 TATATTTTTTATTAATGATATTAG
336785 TAT-TTTTTTA
1 TATATTTTTTA
336795 AAAAAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 7 0.21
24 26 0.79
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (24 bp):
TATATTTTTTATTAATGATATTAG
Found at i:338068 original size:20 final size:19
Alignment explanation
Indices: 338021--338348 Score: 282
Period size: 20 Copynumber: 16.3 Consensus size: 19
338011 AATGACCAAC
*
338021 AAAATCGTAACGCGATATC-
1 AAAATCGCAACGCGAT-TCA
* *
338040 AAAACCGCAACGCGATTTA
1 AAAATCGCAACGCGATTCA
* * **
338059 GAAAAGCGCAACGTTGA-AAA
1 -AAAATCGCAACG-CGATTCA
338079 GAAAATCGCAACGCGATCTTCCA
1 -AAAATCGCAACGCGA--TT-CA
* *
338102 AGAATCGCAATGCGATTCA
1 AAAATCGCAACGCGATTCA
338121 TAAAATCGCAACGCGATCTTCCA
1 -AAAATCGCAACGCGA--TT-CA
* *
338144 AGAATCGCAACGCGATTAA
1 AAAATCGCAACGCGATTCA
338163 GAAAATCGCAACGCGATTCCA
1 -AAAATCGCAACGCGATT-CA
*
338184 AGAATCGCAACGCGATTCCA
1 AAAATCGCAACGCGATT-CA
*
338204 AGAATCGCAACGCGATTCCA
1 AAAATCGCAACGCGATT-CA
*
338224 AGAATCGCAACGCGATTCCA
1 AAAATCGCAACGCGATT-CA
* *
338244 AGAATCGCAACGCGATTAA
1 AAAATCGCAACGCGATTCA
338263 GAAAATCGCAACGCGATTCCA
1 -AAAATCGCAACGCGATT-CA
*
338284 AGAATCGCAACGCGATTCA
1 AAAATCGCAACGCGATTCA
338303 GAAAATCGCAACGCGATTCCA
1 -AAAATCGCAACGCGATT-CA
* *
338324 AGAATCGCAATGCGATTCA
1 AAAATCGCAACGCGATTCA
338343 GAAAAT
1 -AAAAT
338349 GAGTAAATTC
Statistics
Matches: 263, Mismatches: 28, Indels: 35
0.81 0.09 0.11
Matches are distributed among these distances:
18 1 0.00
19 24 0.09
20 200 0.76
21 6 0.02
22 29 0.11
23 3 0.01
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.16
Consensus pattern (19 bp):
AAAATCGCAACGCGATTCA
Found at i:338194 original size:40 final size:39
Alignment explanation
Indices: 338082--338341 Score: 330
Period size: 40 Copynumber: 6.4 Consensus size: 39
338072 TTGAAAAGAA
* *
338082 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCATAA
1 AATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCA-AG
338124 AATCGCAACGCGATCTTCCAAGAATCGCAACGCGATT-AAG
1 AATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCAAG
338164 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCCAAG
1 --AATCGCAACGCGATTCCAAGAATCGCAACGCGATT-CAAG
338206 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATT-CAAG
338246 AATCGCAACGCGATT--AAGAAAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG--AATCGCAACGCGATT-CAAG
*
338286 AATCGCAACGCGATT-CAGAAAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATT-CAAG
*
338326 AATCGCAATGCGATTC
1 AATCGCAACGCGATTC
338342 AGAAAATGAG
Statistics
Matches: 205, Mismatches: 4, Indels: 19
0.90 0.02 0.08
Matches are distributed among these distances:
38 3 0.01
40 147 0.72
41 2 0.01
42 53 0.26
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17
Consensus pattern (39 bp):
AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAAG
Found at i:338212 original size:60 final size:59
Alignment explanation
Indices: 338023--338342 Score: 330
Period size: 60 Copynumber: 5.3 Consensus size: 59
338013 TGACCAACAA
* * * * * ****
338023 AATCGTAACGCGATATCAA-AACCGCAACGCGATTTAGAAAAGCGCAACGTTGAAAAGAA-
1 AATCGCAACGCGAT-TCAAGAATCGCAACGCGATTCAGAAAATCGCAACG-CGATTCCAAG
* *
338082 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGA--TT-CAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGA--TTCCAAG
*
338146 AATCGCAACGCGATT-AAGAAAATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCAAG--AATCGCAACGCGATT-CAGAAAATCGCAACGCGATTCCAAG
*
338206 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCCA-AGAATCGCAACGCGATT--AAG
1 AATCGCAACGCGATT-CAAGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATTCCAAG
338264 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCCAAG
1 --AATCGCAACGCGATT-CAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCCAAG
*
338326 AATCGCAATGCGATTCA
1 AATCGCAACGCGATTCA
338343 GAAAATGAGT
Statistics
Matches: 229, Mismatches: 15, Indels: 34
0.82 0.05 0.12
Matches are distributed among these distances:
58 3 0.01
59 16 0.07
60 126 0.55
61 6 0.03
62 61 0.27
63 4 0.02
64 13 0.06
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (59 bp):
AATCGCAACGCGATTCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCCAAG
Found at i:338342 original size:40 final size:40
Alignment explanation
Indices: 338021--338348 Score: 316
Period size: 40 Copynumber: 8.1 Consensus size: 40
338011 AATGACCAAC
* * *
338021 AAAATCGTAACGCGATAT-CAA-AACCGCAACGCGATTTAG
1 AAAATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTCAG
* * ****
338060 AAAAGCGCAACGTTGAAAAGAA-AATCGCAACGCGATCTTCCA-
1 AAAATCGCAACG-CGATTCCAAGAATCGCAACGCGA--TT-CAG
* * *
338102 AGAATCGCAATGCGATT-CATAAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGATTCCA-AGAATCGCAACGCGA--TT-CAG
*
338144 AGAATCGCAACGCGATT--AAGAAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATTCCAAG--AATCGCAACGCGATT-CAG
*
338184 AGAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATT-CAG
* *
338224 AGAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
338264 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
*
338304 AAAATCGCAACGCGATTCCAAGAATCGCAATGCGATTCAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
338344 AAAAT
1 AAAAT
338349 GAGTAAATTC
Statistics
Matches: 256, Mismatches: 21, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
39 11 0.04
40 177 0.69
41 4 0.02
42 63 0.25
43 1 0.00
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.16
Consensus pattern (40 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAG
Found at i:338455 original size:6 final size:6
Alignment explanation
Indices: 338444--338493 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
338434 GACACGTATT
338444 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
338491 ACC
1 ACC
338494 CGAGACGGCG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:339029 original size:6 final size:6
Alignment explanation
Indices: 338988--339092 Score: 168
Period size: 6 Copynumber: 18.5 Consensus size: 6
338978 TCTCGTCTCG
338988 GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
339030 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
339078 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
339093 AATACGTGTC
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 30 0.30
6 69 0.70
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:351719 original size:22 final size:23
Alignment explanation
Indices: 351694--351756 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
351684 AATAATAAGA
351694 GAAAATAAACTAAA-AATAT-AAT
1 GAAAATAAA-TAAATAATATAAAT
*
351716 GAAAATAAATAAATAGTATAAAT
1 GAAAATAAATAAATAATATAAAT
*
351739 -AAAAT-AATAAAAAATATA
1 GAAAATAAATAAATAATATA
351757 TATATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 15 0.42
22 18 0.50
23 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.24
Consensus pattern (23 bp):
GAAAATAAATAAATAATATAAAT
Found at i:351784 original size:22 final size:21
Alignment explanation
Indices: 351695--351795 Score: 69
Period size: 22 Copynumber: 4.4 Consensus size: 21
351685 ATAATAAGAG
* *
351695 AAAATAAACTAAAAATATA-ATG
1 AAAATAAA--AAATATATATATA
*
351717 AAAATAAATAAATAGTATAAATAA
1 AAAATAAA-AAATA-TATATAT-A
351741 AATAATAAAAAATATATATATA
1 AA-AATAAAAAATATATATATA
* *
351763 AAAATATAAAAATGTATGTATA
1 AAAATA-AAAAATATATATATA
351785 ATATAATAAAA
1 A-A-AATAAAA
351796 TACTAAATAG
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
21 9 0.13
22 29 0.43
23 12 0.18
24 11 0.16
25 6 0.09
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATAAAAAATATATATATA
Found at i:351838 original size:22 final size:22
Alignment explanation
Indices: 351674--351838 Score: 55
Period size: 22 Copynumber: 7.5 Consensus size: 22
351664 GTGTTTTTAA
*
351674 AAAAAAAAATAAT-AAT-AA-G
1 AAAAATAAATAATAAATAAATG
351693 AGAAAATAAACTAA-AAATATAATG
1 A-AAAATAAA-TAATAAATA-AATG
* *
351717 -AAAATAAATAAATAGTATAAATA
1 AAAAATAAAT-AATA-AATAAATG
* * *
351740 AAATAATAAAAAATATATATAT-
1 AAA-AATAAATAATAAATAAATG
**
351762 AAAAAT--ATAA-AAATGTATG
1 AAAAATAAATAATAAATAAATG
* *
351781 TATAATATAATAA-AATACTAAATAG
1 AAAAATA-AATAATAA-A-TAAAT-G
*
351806 TAATAAT-AATAATAAATAAATG
1 -AAAAATAAATAATAAATAAATG
351828 AAAAATAAATA
1 AAAAATAAATA
351839 TACATATAAT
Statistics
Matches: 111, Mismatches: 14, Indels: 39
0.68 0.09 0.24
Matches are distributed among these distances:
18 6 0.05
19 8 0.07
20 7 0.06
21 15 0.14
22 24 0.22
23 18 0.16
24 19 0.17
25 9 0.08
26 5 0.05
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAATAAATAATAAATAAATG
Found at i:352057 original size:23 final size:24
Alignment explanation
Indices: 352022--352069 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
352012 AACGCAAAAA
352022 AAATGAAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAAA-TATAATTAAAT
*
352046 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAAAAAAATATAATTAAAT
352069 A
1 A
352070 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATGAAAAAAAATATAATTAAAT
Found at i:352074 original size:2 final size:2
Alignment explanation
Indices: 352067--352099 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
352057 ATATAATTAA
352067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
352100 ATAAGGGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:352587 original size:37 final size:37
Alignment explanation
Indices: 352494--352595 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
352484 ATGCTTGTGG
* * ** * *
352494 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
* *
352531 ATCATATTTTTAGGAGTTTGAATCCTAGAAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
352568 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
352596 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
Found at i:353538 original size:106 final size:106
Alignment explanation
Indices: 353345--354621 Score: 1925
Period size: 106 Copynumber: 12.0 Consensus size: 106
353335 AGCATTGTTC
* * * * * *
353345 CGAGTCCAATATCATTCG-TCGTGAAGTTCAAATTGGCTCTGGAATCGGGAAATTGTTTGTTAAC
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
* * *
353409 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
353451 CGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
** *
353516 ACCAGCGGTCTTTTCTTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
353557 CGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
353622 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
353663 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGATGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
353728 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
353769 -GAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGAC
1 CG-AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
* *
353833 AACCAGCGGTCCCTTCATCGTGAAGTTTAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
353875 GGAGTCCAATAACTTTCGCTGTAAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * **
353940 ATCAGCGATCCCTTTTTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
353981 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
354046 ACCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
354087 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
354152 ACCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
354193 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
354258 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
354299 TGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
354364 ACCAGCGGTGCCTTCGTCGTGAAATTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
354405 -GAAGTCCAATATCCTTCGTTGTGAAGTT-AAAGTTGGCTCTGAAATTGAGAAGTTGTTTGTTGA
1 CG-AGTCCAATATCCTTCGCTGTGAAGTTGAAA-TTGGCTCTGAAATTGGGAAGTTGTTTGTTGA
*
354468 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
64 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
354511 GGAGTCCATTATCCTTCGCTGTGAAGTTGAATTTGGCTCTGAATTTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
354576 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
354617 CGAGT
1 CGAGT
354622 GGCACGATAT
Statistics
Matches: 1080, Mismatches: 83, Indels: 16
0.92 0.07 0.01
Matches are distributed among these distances:
105 5 0.00
106 1069 0.99
107 6 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:354851 original size:24 final size:24
Alignment explanation
Indices: 354824--354871 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
354814 TATCCTTCAT
*
354824 CGTGAAGTTGAAATCCACTCTCGA
1 CGTGAAGTTAAAATCCACTCTCGA
354848 CGTGAAGTTAAAATCCACTCTCGA
1 CGTGAAGTTAAAATCCACTCTCGA
354872 GCAAATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
CGTGAAGTTAAAATCCACTCTCGA
Found at i:355628 original size:22 final size:22
Alignment explanation
Indices: 355602--355656 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
355592 TTGTGTTTGG
355602 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
355624 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
355646 TCAAAGGTTTG
1 TCAAAGGTTTG
355657 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:358378 original size:16 final size:15
Alignment explanation
Indices: 358355--358403 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
358345 AAAAAGGGCA
358355 AAAACAAAAAAGAA-
1 AAAACAAAAAAGAAG
358369 AAGAAGCAAAAAAGAAG
1 AA-AA-CAAAAAAGAAG
*
358386 AAAACAAAAAAAAAG
1 AAAACAAAAAAGAAG
358401 AAA
1 AAA
358404 GAACAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 2 0.06
15 15 0.48
16 12 0.39
17 2 0.06
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAGAAG
Found at i:358379 original size:15 final size:15
Alignment explanation
Indices: 358357--358412 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
358347 AAAGGGCAAA
358357 AACAAAAAAGAAAAG
1 AACAAAAAAGAAAAG
358372 AAGCAAAAAAGAAGAA-
1 AA-CAAAAAAGAA-AAG
*
358388 AACAAAAAAAAAGAAAG
1 AAC-AAAAAAGA-AAAG
358405 AACAAAAA
1 AACAAAAA
358413 TCAAAAAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 3 0.09
16 26 0.74
17 6 0.17
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (15 bp):
AACAAAAAAGAAAAG
Found at i:358388 original size:19 final size:18
Alignment explanation
Indices: 358353--358412 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
358343 CCAAAAAGGG
358353 CAAAAACAAAA-AAGAAAA
1 CAAAAA-AAAAGAAGAAAA
* *
358371 GAAGCAAAAAAGAAGAAAA
1 CAA-AAAAAAAGAAGAAAA
*
358390 CAAAAAAAAAGAA-AGAA
1 CAAAAAAAAAGAAGAAAA
358407 CAAAAA
1 CAAAAA
358413 TCAAAAAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 9 0.26
18 15 0.43
19 11 0.31
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (18 bp):
CAAAAAAAAAGAAGAAAA
Found at i:360151 original size:106 final size:106
Alignment explanation
Indices: 360022--360548 Score: 876
Period size: 106 Copynumber: 5.0 Consensus size: 106
360012 ATATCGTGCC
* * *
360022 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
360086 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
360128 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCAC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
360193 AATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
360234 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
360299 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
360340 ACTTCAGACAACGCAAGTTCAACTTCATGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
360405 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
360446 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
360511 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATAT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATAT
360549 CAACTTCACG
Statistics
Matches: 390, Mismatches: 30, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
106 388 0.99
107 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:360605 original size:84 final size:84
Alignment explanation
Indices: 360464--360632 Score: 311
Period size: 84 Copynumber: 2.0 Consensus size: 84
360454 CAACGCAAGT
* * *
360464 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCTAATTTCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
360529 AACTTCACAGCGAAGGATA
66 AACTTCACAGCGAAGGATA
360548 TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
360613 AACTTCACAGCGAAGGATA
66 AACTTCACAGCGAAGGATA
360632 T
1 T
360633 TGGACTCCAG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (84 bp):
TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
AACTTCACAGCGAAGGATA
Found at i:360733 original size:106 final size:106
Alignment explanation
Indices: 360548--361063 Score: 836
Period size: 106 Copynumber: 4.9 Consensus size: 106
360538 GCGAAGGATA
*
360548 TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
*
360613 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGT
66 AACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGT
* * * *
360654 TCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTCC
1 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
* *
360719 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
66 AACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGT
* *
360760 TCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
* *
360825 AACTTCACAGCGAATGATATTGGACTCAAGACAACGGAAGT
66 AACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGT
360866 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
* *
360931 AACTTCACAGCGAATGATATTGGACTTAAGACAACGCAAGT
66 AACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGT
* * * * *
360972 TCAACTTCACGAAGAAGGGACTGTTGGTTGTCAATAAACAACTTCCCAATTCCAGAGCCAATTTT
1 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
*
361037 AACTTCAC-GACGGAGGATATTGGACTC
66 AACTTCACAG-CGAAGGATATTGGACTC
361064 GGAACAATGC
Statistics
Matches: 381, Mismatches: 28, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
105 1 0.00
106 380 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
AACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGT
Found at i:360786 original size:296 final size:302
Alignment explanation
Indices: 360252--361063 Score: 1258
Period size: 296 Copynumber: 2.7 Consensus size: 302
360242 CAACGCAAGT
*
360252 TCAACTTCACGACGAATGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
* * *
360317 AACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCATGACAAAGGGACCGC
66 AACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGC
*
360382 TAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
131 TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
* *
360447 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCTA
196 CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
360512 ATTTCAGAGCCAATTTCAACTTCACAGC-GA-A-GGA-T-A-
261 ATTTCAGAGCCAATTTCAACTTCACAGCAGATATGGACTAAG
*
360548 TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
*
360613 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGC
66 AACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGC
*
360678 TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
131 TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
360743 CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
196 CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
360808 ATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACGGAAG
261 ATTTCAGAGCCAATTTCAACTTCACAGC--A-GATA-TGGACT-----------AAG
360865 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
1 -TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
* * *
360930 CAACTTCACAGCGAATGATATTGGACTTAAGACAACGCAAGTTCAACTTCACGAAGAAGGGACTG
65 CAACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTG
* * * * * * *
360995 TTGGTTGTCAATAAACAACTTCCCAATTCCAGAGCCAATTTTAACTTCACGACGGAGGATATTGG
130 CTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
361060 ACTC
195 ACTC
361064 GGAACAATGC
Statistics
Matches: 471, Mismatches: 23, Indels: 22
0.91 0.04 0.04
Matches are distributed among these distances:
296 278 0.59
300 2 0.00
301 1 0.00
303 3 0.01
304 1 0.00
316 1 0.00
318 185 0.39
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (302 bp):
TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
AACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGC
TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCAGATATGGACTAAG
Found at i:360890 original size:402 final size:402
Alignment explanation
Indices: 360146--360950 Score: 1376
Period size: 402 Copynumber: 2.0 Consensus size: 402
360136 CAACGCAAGT
* *
360146 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCACAATATCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCACAATATCAGAGCCAATTTC
*
360211 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGC
66 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
* * *
360276 TGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
131 TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
* * *
360341 CTTCAGACAACGCAAGTTCAACTTCATGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCTCA
196 CTCCAGACAACGCAAGTTCAACTTCAAGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCCCA
*
360406 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
261 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTT
* *
360471 CACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCTAATTTCAGAGCCAATTTCAACTTCA
326 CACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
360536 CAGCGAAGGATA
391 CAGCGAAGGATA
* * *
360548 TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCACAATATCAGAGCCAATTTC
* *
360613 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGC
66 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
*
360678 TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
131 TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
* * * *
360743 CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
196 CTCCAGACAACGCAAGTTCAACTTCAAGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCCCA
* * *
360808 ATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACGGAAGTTCAACTT
261 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTT
360873 CACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
326 CACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
*
360938 CAGCGAATGATA
391 CAGCGAAGGATA
360950 T
1 T
360951 TGGACTTAAG
Statistics
Matches: 377, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
402 377 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (402 bp):
TCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCACAATATCAGAGCCAATTTC
AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
CTCCAGACAACGCAAGTTCAACTTCAAGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTT
CACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
CAGCGAAGGATA
Found at i:361056 original size:508 final size:508
Alignment explanation
Indices: 360040--361044 Score: 1733
Period size: 508 Copynumber: 2.0 Consensus size: 508
360030 CAACACAAGT
*
360040 TCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
360105 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
66 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
* *
360170 TGGTTGTCAACAAATAACTTCACAATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
131 TGGTTGTCAACAAACAACTTCACAATATCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
* *
360235 CTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAATAAACAACTTCCCA
196 CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
360300 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTT
261 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTT
* *
360365 CATGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCA
326 CACGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
* *
360430 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
391 CAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGT
* * *
360495 CAATAAACAATTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
456 CAATAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* *
360548 TCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
1 TCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
*
360613 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGC
66 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
* *
360678 TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
131 TGGTTGTCAACAAACAACTTCACAATATCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
*
360743 CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
196 CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
* *
360808 ATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGAC-TCAAGACAACGGAAGTTCAACT
261 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACT
* * *
360872 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
325 TCACGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* * * * *
360937 ACAGCGAATGATATTGGACTTAAGACAACGCAAGTTCAACTTCACGAAGAAGGGACTGTTGGTTG
390 ACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTG
*
361002 TCAATAAACAACTTCCCAATTCCAGAGCCAATTTTAACTTCAC
455 TCAATAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCAC
361045 GACGGAGGAT
Statistics
Matches: 467, Mismatches: 29, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
507 2 0.00
508 465 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (508 bp):
TCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
TGGTTGTCAACAAACAACTTCACAATATCAGAGCCAATTCCAACTTCACAACGAAGGATATTGGA
CTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTT
CACGACAAAGGGACCGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
CAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGT
CAATAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATA
Found at i:361900 original size:37 final size:37
Alignment explanation
Indices: 361810--361914 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
361800 CTTTTTCGTC
361810 CTACTATGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAAAATT
* * * * * *
361847 TTGCTAGGATTCAAACTTCTAAAAATAGGATAGAGTT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
361884 CTACTATTATTTAAACTCCTAAATATAGGAT
1 CTACTATGATTCAAACTCCTAAAAATAGGAT
361915 CCACAAGTAT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (37 bp):
CTACTATGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:362664 original size:28 final size:28
Alignment explanation
Indices: 362618--362731 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 28
362608 TTATTTTTCA
* *
362618 TTTATT-TATTAT-TAT-TATTTAGTAT
1 TTTATTATATTATACATATATTTATTAT
362643 TTTATTATATTATACATATATTT-TTA-
1 TTTATTATATTATACATATATTTATTAT
* *
362669 TAT-TTATA-TATACATATATTTTTTAT
1 TTTATTATATTATACATATATTTATTAT
362695 TATT-TTAT-TTATAC---TATTTATTTAT
1 T-TTATTATATTATACATATATTTA-TTAT
362720 TTTCATTATATT
1 TTT-ATTATATT
362732 TTAAGTTTCT
Statistics
Matches: 73, Mismatches: 5, Indels: 20
0.74 0.05 0.20
Matches are distributed among these distances:
24 20 0.27
25 19 0.26
26 13 0.18
27 16 0.22
28 5 0.07
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTATTATATTATACATATATTTATTAT
Found at i:362672 original size:24 final size:23
Alignment explanation
Indices: 362642--362729 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 23
362632 TTATTTAGTA
362642 TTTTATTATATTATACATATATT
1 TTTTATTATATTATACATATATT
362665 TTTATATT-TATATATACATATATT
1 TTT-TATTATAT-TATACATATATT
* **
362689 TTTTATTATTTTATTTATACTATT
1 TTTTATTATATTATACATA-TATT
*
362713 TATTTATTTTCATTATA
1 T-TTTATTAT-ATTATA
362730 TTTTAAGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 16 0.30
24 26 0.49
25 7 0.13
26 4 0.08
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATTATATTATACATATATT
Found at i:362691 original size:25 final size:27
Alignment explanation
Indices: 362647--362720 Score: 86
Period size: 25 Copynumber: 2.9 Consensus size: 27
362637 TAGTATTTTA
362647 TTATATTATACATATA-TTTTTA-TA-T
1 TTATA-TATACATATATTTTTTATTATT
362672 TTATATATACATATATTTTTTATTATT
1 TTATATATACATATATTTTTTATTATT
* *
362699 TTATTTATAC-TAT-TTATTTATT
1 TTATATATACATATATTTTTTATT
362721 TTCATTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.23
25 19 0.43
26 5 0.11
27 10 0.23
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (27 bp):
TTATATATACATATATTTTTTATTATT
Found at i:362732 original size:28 final size:26
Alignment explanation
Indices: 362603--362732 Score: 81
Period size: 28 Copynumber: 4.8 Consensus size: 26
362593 ATATTATATG
*
362603 TATATTTATTTTTCATTTATTTATTA-T
1 TATATTTA-TTTTCATTTATTTA-TACA
*
362630 TATTATTTAGTATTTTA-TTATATTATACA
1 TA-TATTTA-T-TTTCATTTAT-TTATACA
* *
362659 TATATTT-TTAT-ATTTATATATACA
1 TATATTTATTTTCATTTATTTATACA
*
362683 TATATTT-TTTATTATTTTATTTATACTA
1 TATATTTATTT-TCA-TTTATTTATAC-A
*
362711 TTTATTTATTTTCATTATATTT
1 TATATTTATTTTCATT-TATTT
362733 TAAGTTTCTT
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
24 16 0.19
25 7 0.08
26 2 0.02
27 14 0.17
28 32 0.39
29 12 0.14
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (26 bp):
TATATTTATTTTCATTTATTTATACA
Found at i:362831 original size:5 final size:5
Alignment explanation
Indices: 362808--362863 Score: 60
Period size: 5 Copynumber: 11.2 Consensus size: 5
362798 TTTATATATA
* * * *
362808 TATTT TATCTT CA-TT TATTT TATTT TATTT TATTT TATTC AATTT CATTT
1 TATTT TAT-TT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT
362858 TATTT T
1 TATTT T
362864 TTTGTTTCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
4 3 0.07
5 36 0.86
6 3 0.07
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (5 bp):
TATTT
Found at i:363402 original size:35 final size:35
Alignment explanation
Indices: 363363--363439 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
363353 GTTGGGTATG
*
363363 TAATTGAAGTCTTTTAGAATTTGAGGATTAGAACA
1 TAATTGAAGTATTTTAGAATTTGAGGATTAGAACA
* * * **
363398 TAATTGAAGTATTTTGGAATTTGGGGTTTAGAATG
1 TAATTGAAGTATTTTAGAATTTGAGGATTAGAACA
363433 TAATTGA
1 TAATTGA
363440 TGAATGCGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (35 bp):
TAATTGAAGTATTTTAGAATTTGAGGATTAGAACA
Found at i:364433 original size:6 final size:6
Alignment explanation
Indices: 364424--364449 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
364414 ATTCCTTCTC
364424 CTCCCT CTCCCT CTCCCT CTCCCT CT
1 CTCCCT CTCCCT CTCCCT CTCCCT CT
364450 TCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CTCCCT
Found at i:368455 original size:6 final size:6
Alignment explanation
Indices: 368444--368471 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
368434 ATGGAGGAAC
368444 TGGAGA TGGAGA TGGAGA TGGAGA TGGA
1 TGGAGA TGGAGA TGGAGA TGGAGA TGGA
368472 AAGAGTGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.50, T:0.18
Consensus pattern (6 bp):
TGGAGA
Found at i:374362 original size:221 final size:223
Alignment explanation
Indices: 373977--374420 Score: 874
Period size: 221 Copynumber: 2.0 Consensus size: 223
373967 TATAAGTTCA
373977 TTTATGAAATTTATTTACCCGTTTTTCAAAATTTTTTTATTTTTATATTTTAAATATTGGTGAAG
1 TTTATGAAATTTATTTACCCGTTTTTCAAAATTTTTTTATTTTTATATTTTAAATATTGGTGAAG
374042 GTAGAGACCAATTAAACACATGATGAATTTTAGAGTTCAAAATTTGAAGCCTAAAAAGTTCTAAA
66 GTAGAGACCAATTAAACACATGATGAATTTTAGAGTTCAAAATTTGAAGCCTAAAAAGTTCTAAA
374107 ATTCTTAAGGACTAAGGATATCATTTCACCAATTTTCTAAACATATAAACAAATGCGTTCACAAG
131 ATTCTTAAGGACTAAGGATATCATTTCACCAATTTTCTAAACATATAAACAAATGCGTTCACAAG
374172 CAAATGTTAACCAATCATGTTCACGAAT
196 CAAATGTTAACCAATCATGTTCACGAAT
374200 TTTATGAAATTTATTTACCCGTTTTTCAAAATTTTTTTA-TTTTATATTTTAAATATTGGTGAAG
1 TTTATGAAATTTATTTACCCGTTTTTCAAAATTTTTTTATTTTTATATTTTAAATATTGGTGAAG
374264 GTAGAGACCAATTAAACACATGATGAA-TTTAGAGTTCAAAATTTGAAGCCTAAAAAGTTCTAAA
66 GTAGAGACCAATTAAACACATGATGAATTTTAGAGTTCAAAATTTGAAGCCTAAAAAGTTCTAAA
374328 ATTCTTAAGGACTAAGGATATCATTTCACCAATTTTCTAAACATATAAACAAATGCGTTCACAAG
131 ATTCTTAAGGACTAAGGATATCATTTCACCAATTTTCTAAACATATAAACAAATGCGTTCACAAG
374393 CAAATGTTAACCAATCATGTTCACGAAT
196 CAAATGTTAACCAATCATGTTCACGAAT
374421 ATTAAATAAA
Statistics
Matches: 221, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
221 130 0.59
222 52 0.24
223 39 0.18
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (223 bp):
TTTATGAAATTTATTTACCCGTTTTTCAAAATTTTTTTATTTTTATATTTTAAATATTGGTGAAG
GTAGAGACCAATTAAACACATGATGAATTTTAGAGTTCAAAATTTGAAGCCTAAAAAGTTCTAAA
ATTCTTAAGGACTAAGGATATCATTTCACCAATTTTCTAAACATATAAACAAATGCGTTCACAAG
CAAATGTTAACCAATCATGTTCACGAAT
Found at i:396794 original size:15 final size:15
Alignment explanation
Indices: 396774--396805 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
396764 AAAATATTTC
*
396774 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
396789 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
396804 TT
1 TT
396806 CGATATGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:403848 original size:2 final size:2
Alignment explanation
Indices: 403843--403874 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
403833 TAGGGTGGAC
403843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
403875 TAATAACAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:414011 original size:6 final size:6
Alignment explanation
Indices: 414002--414834 Score: 1624
Period size: 6 Copynumber: 139.8 Consensus size: 6
413992 CAAATTCAGT
414002 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414050 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414098 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414146 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414194 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414240 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414288 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414336 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414384 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414432 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414480 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414528 --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414574 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414622 ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414668 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414716 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414764 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
414812 ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATA
414835 TGTAGCTTGC
Statistics
Matches: 821, Mismatches: 0, Indels: 12
0.99 0.00 0.01
Matches are distributed among these distances:
4 12 0.01
6 809 0.99
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:415681 original size:17 final size:17
Alignment explanation
Indices: 415651--415694 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
415641 TATAAAATTT
** *
415651 TATAAAAAACAAAAATA
1 TATAAAAATTAAAAAAA
415668 TATAAAAATTAAAAAAA
1 TATAAAAATTAAAAAAA
*
415685 AATAAAAATT
1 TATAAAAATT
415695 TTAGGAGACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (17 bp):
TATAAAAATTAAAAAAA
Found at i:420786 original size:18 final size:19
Alignment explanation
Indices: 420746--420787 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
420736 TTTTTTTTTG
*
420746 AAAAAAAATAATTTCATTT
1 AAAAAAAATAATTTCATTC
* *
420765 AAAAGAAATAATTTTA-TC
1 AAAAAAAATAATTTCATTC
420783 AAAAA
1 AAAAA
420788 TTTATAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAAAAATAATTTCATTC
Found at i:424095 original size:18 final size:18
Alignment explanation
Indices: 424072--424108 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
424062 TTTAAAATTT
424072 AAAATATAAAA-ACTATTA
1 AAAATA-AAAACACTATTA
424090 AAAATAAAAACACTATTA
1 AAAATAAAAACACTATTA
424108 A
1 A
424109 GACTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATAAAAACACTATTA
Found at i:425307 original size:40 final size:40
Alignment explanation
Indices: 425252--425334 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
425242 AATATATATG
425252 TAAGAACTTATTACGTCTTTTTTAGGCTCAACAACCTAAA
1 TAAGAACTTATTACGTCTTTTTTAGGCTCAACAACCTAAA
425292 TAAGAACTTATTACGTCTTTTTTAGGCTCAACAACCTAAA
1 TAAGAACTTATTACGTCTTTTTTAGGCTCAACAACCTAAA
425332 TAA
1 TAA
425335 CGACTACAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (40 bp):
TAAGAACTTATTACGTCTTTTTTAGGCTCAACAACCTAAA
Found at i:427767 original size:17 final size:17
Alignment explanation
Indices: 427745--427791 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
427735 TCGAATGGAT
427745 TCGACTCGAGTTCAAGC
1 TCGACTCGAGTTCAAGC
427762 TCGACTCGAGTTCAAGC
1 TCGACTCGAGTTCAAGC
427779 TCGACTCGAGTTC
1 TCGACTCGAGTTC
427792 TTAACGAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (17 bp):
TCGACTCGAGTTCAAGC
Found at i:430343 original size:11 final size:11
Alignment explanation
Indices: 430320--430460 Score: 138
Period size: 11 Copynumber: 12.4 Consensus size: 11
430310 AAACCCGCTA
430320 AGCTCAGAATCG
1 AGCTCA-AATCG
430332 AGCTCAAATCG
1 AGCTCAAATCG
430343 AGCTCAAATCG
1 AGCTCAAATCG
** *
430354 AGCTTGAATTG
1 AGCTCAAATCG
430365 AGCTCAAAATCG
1 AGCTC-AAATCG
**
430377 AGCTTTAATCG
1 AGCTCAAATCG
**
430388 AGCTTGAATCG
1 AGCTCAAATCG
430399 AGCTCAAAATCG
1 AGCTC-AAATCG
**
430411 AGCTTTAATCG
1 AGCTCAAATCG
430422 AGCTCATAATCG
1 AGCTCA-AATCG
**
430434 AGCTTGAATCG
1 AGCTCAAATCG
430445 AGCTCAAAATCG
1 AGCTC-AAATCG
430457 AGCT
1 AGCT
430461 TCAATTGAGT
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
11 65 0.61
12 41 0.39
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (11 bp):
AGCTCAAATCG
Found at i:430379 original size:34 final size:34
Alignment explanation
Indices: 430326--430461 Score: 161
Period size: 34 Copynumber: 4.0 Consensus size: 34
430316 GCTAAGCTCA
430326 GAATCGAGCTC-AAATCGAGCTCAAATCGAGCTT
1 GAATCGAGCTCAAAATCGAGCTCAAATCGAGCTT
* **
430359 GAATTGAGCTCAAAATCGAGCTTTAATCGAGCTT
1 GAATCGAGCTCAAAATCGAGCTCAAATCGAGCTT
**
430393 GAATCGAGCTCAAAATCGAGCTTTAATCGAGCTCAT
1 GAATCGAGCTCAAAATCGAGCTCAAATCGAGCT--T
**
430429 -AATCGAGCT-TGAATCGAGCTCAAAATCGAGCTT
1 GAATCGAGCTCAAAATCGAGCTC-AAATCGAGCTT
430462 CAATTGAGTT
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
33 11 0.12
34 61 0.67
35 18 0.20
36 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (34 bp):
GAATCGAGCTCAAAATCGAGCTCAAATCGAGCTT
Found at i:430461 original size:23 final size:23
Alignment explanation
Indices: 430326--430461 Score: 143
Period size: 23 Copynumber: 6.0 Consensus size: 23
430316 GCTAAGCTCA
*
430326 GAATCGAGCTC-AAATCGAGCTC
1 GAATCGAGCTCAAAATCGAGCTT
* ** * *
430348 AAATCGAGCT-TGAATTGAGCTCA
1 GAATCGAGCTCAAAATCGAGCT-T
* **
430371 AAATCGAGCT-TTAATCGAGCTT
1 GAATCGAGCTCAAAATCGAGCTT
430393 GAATCGAGCTCAAAATCGAGCTT
1 GAATCGAGCTCAAAATCGAGCTT
* *
430416 TAATCGAGCTCATAATCGAGCTT
1 GAATCGAGCTCAAAATCGAGCTT
430439 GAATCGAGCTCAAAATCGAGCTT
1 GAATCGAGCTCAAAATCGAGCTT
430462 CAATTGAGTT
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
22 26 0.27
23 71 0.73
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (23 bp):
GAATCGAGCTCAAAATCGAGCTT
Found at i:431085 original size:20 final size:18
Alignment explanation
Indices: 431060--431109 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
431050 ACAACGATAT
431060 AACTGGTAAAAATATGACAA
1 AACTGGTAAAAA-A-GACAA
431080 AACTGGTAAGGAAAAGACAA
1 AACTGGTAA--AAAAGACAA
*
431100 AACCGGTAAA
1 AACTGGTAAA
431110 GAGATATCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
20 22 0.81
21 1 0.04
22 3 0.11
ACGTcount: A:0.54, C:0.12, G:0.20, T:0.14
Consensus pattern (18 bp):
AACTGGTAAAAAAGACAA
Found at i:431423 original size:182 final size:181
Alignment explanation
Indices: 430913--431508 Score: 856
Period size: 180 Copynumber: 3.3 Consensus size: 181
430903 GTAAAAATAT
* * * *
430913 GACAAAACCGGTAAAGTGCTACCAGATATATTGCAAGTGTCGCTACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* * * *
430978 TATAGTGAATTTAAAGGAGAAACAGTTTTAGCGCCTGTAAAGTGTTGATTCTTTATAAATATGTA
66 CAT-GTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* *
431043 TCGATCCACAACGATATAACT-GGTAAAAATATGACAAAACTGGTAAGGAAAA
130 TCGATCCACAACGATATAA-TAGGTAAAAATATGACAAAACCGGTCAGGAAAA
* * *
431095 GACAAAACCGGTAAAGAGATATCAGATATATTGAAAGTTTCGATACTTTAATATAAGTATTGACA
1 GACAAAACCGGTAAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* *
431160 CA-GTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTAT
66 CATGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTAT
*
431224 CGATCCACAACGATATAATAGGTAAAAATATGACAGAACCGGTCAGGAAAA
131 CGATCCACAACGATATAATAGGTAAAAATATGACAAAACCGGTCAGGAAAA
* *
431275 GACAAAACCGATAAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAATATCGACA
1 GACAAAACCGGTAAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* *
431340 CATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGGCTATAAAGTGTCGATTCTTTATAAAAATGTA
66 CA-TGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTA
* * * *** *
431405 TCGATCCATAACGATATAAAAGGT-AAAATATGATAAAACCGGTCTCTAAAT
130 TCGATCCACAACGATATAATAGGTAAAAATATGACAAAACCGGTCAGGAAAA
* * * * *
431456 GACAAAATCGGTAAAGTGCTACCGGATATATTGAAAGTGTTGATACTTTAATA
1 GACAAAACCGGTAAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATA
431509 AGTACGCATA
Statistics
Matches: 372, Mismatches: 39, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
179 1 0.00
180 165 0.44
181 68 0.18
182 138 0.37
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (181 bp):
GACAAAACCGGTAAAGAGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
CATGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATTCTTTATAAATATGTAT
CGATCCACAACGATATAATAGGTAAAAATATGACAAAACCGGTCAGGAAAA
Found at i:433461 original size:22 final size:23
Alignment explanation
Indices: 433410--433465 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
433400 AACATTTTTG
*
433410 TTTTTTTATATAAAATGATAATA
1 TTTTATTATATAAAATGATAATA
* *
433433 TAATTATTATATAAAATTATAA-A
1 T-TTTATTATATAAAATGATAATA
433456 TTTTATTATA
1 TTTTATTATA
433466 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAATA
Found at i:433887 original size:21 final size:21
Alignment explanation
Indices: 433859--433944 Score: 136
Period size: 21 Copynumber: 4.1 Consensus size: 21
433849 AAGACAATCA
*
433859 AGAGTCGAAGAAAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
433880 ATAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
433901 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
433922 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
433943 AG
1 AG
433945 GCATAAGGGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Done.