Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 53 of 78
Found at i:10485995 original size:117 final size:117
Alignment explanation
Indices: 10485788--10486002 Score: 358
Period size: 117 Copynumber: 1.8 Consensus size: 117
10485778 CGATTGAGAT
* *
10485788 AACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCCCTTGAAACAAA
1 AACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
*
10485853 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAATTTCTCTTAAAACATA
66 ATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAATTTCTCTTAAAACATA
* * * *
10485905 AACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA
1 AACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
*
10485970 ATTTTGTCTCCCTTGAGATAATTTCTCTTGAAA
66 ATTTTGTCTCCCTTGAGACAATTTCTCTTGAAA
10486003 TATAAACCTT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 90 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (117 bp):
AACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
ATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACAATTTCTCTTAAAACATA
Found at i:10486119 original size:37 final size:37
Alignment explanation
Indices: 10486069--10486171 Score: 190
Period size: 36 Copynumber: 2.8 Consensus size: 37
10486059 AAAACGAGTT
10486069 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
*
10486106 TTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
10486142 TTGAGACAGTTTCCCTTGAAACAAAATCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTT
10486172 TTAATATTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 35 0.56
37 28 0.44
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
Found at i:10488012 original size:22 final size:22
Alignment explanation
Indices: 10487967--10488013 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10487957 ACCCCTTTTG
* **
10487967 TTTTGTTTTATTTTCATTTTAA
1 TTTTGTTTTATTTTCAGTAAAA
*
10487989 TTTTGTTTTATTTTTAGTAAAA
1 TTTTGTTTTATTTTCAGTAAAA
10488011 TTT
1 TTT
10488014 CTTTCATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTTGTTTTATTTTCAGTAAAA
Found at i:10488030 original size:10 final size:10
Alignment explanation
Indices: 10488010--10488061 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
10488000 TTTTAGTAAA
10488010 ATTTC-TTTC
1 ATTTCATTTC
10488019 ATTTCATTTC
1 ATTTCATTTC
10488029 ATTTCATTTC
1 ATTTCATTTC
*
10488039 ATTCCATTT-
1 ATTTCATTTC
* *
10488048 ATTTTATTTT
1 ATTTCATTTC
10488058 ATTT
1 ATTT
10488062 TATCAGATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
9 12 0.32
10 26 0.68
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTCATTTC
Found at i:10488035 original size:15 final size:15
Alignment explanation
Indices: 10488010--10488061 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
10488000 TTTTAGTAAA
10488010 ATTTC-TTTCATTTC
1 ATTTCATTTCATTTC
10488024 ATTTCATTTCATTTC
1 ATTTCATTTCATTTC
* *
10488039 ATTCCATTT-ATTTT
1 ATTTCATTTCATTTC
*
10488053 ATTTTATTT
1 ATTTCATTT
10488062 TATCAGATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 16 0.48
15 17 0.52
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTCATTTCATTTC
Found at i:10492768 original size:21 final size:21
Alignment explanation
Indices: 10492742--10492781 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10492732 CAGAACCCCA
*
10492742 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
10492763 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
10492782 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:10492803 original size:22 final size:23
Alignment explanation
Indices: 10492764--10492812 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
10492754 TTCCCCTGTG
10492764 GGGGGAATCGGTTCCCCTTCAA-A
1 GGGGGAATCGGTTCCCC-TCAAGA
10492787 GGGGGAATCGGTT-CCCTCAAGA
1 GGGGGAATCGGTTCCCCTCAAGA
10492809 GGGG
1 GGGG
10492813 ATCAATTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.16
22 8 0.32
23 13 0.52
ACGTcount: A:0.20, C:0.22, G:0.39, T:0.18
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTCAAGA
Found at i:10496676 original size:22 final size:21
Alignment explanation
Indices: 10496634--10496673 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10496624 GAGTTTGTTT
*
10496634 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
10496655 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
10496674 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:10500041 original size:15 final size:18
Alignment explanation
Indices: 10500017--10500069 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 18
10500007 CTATTAATAT
10500017 TTAT-TATTTTATTATT-
1 TTATCTATTTTATTATTA
10500033 TT-TCT-TTTTATTTATTA
1 TTATCTATTTTA-TTATTA
10500050 TTATCTATTTTATT-TTA
1 TTATCTATTTTATTATTA
10500067 TTA
1 TTA
10500070 AATATTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 6 0.19
16 8 0.25
17 8 0.25
18 5 0.16
19 5 0.16
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATCTATTTTATTATTA
Found at i:10500048 original size:19 final size:20
Alignment explanation
Indices: 10500020--10500069 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
10500010 TTAATATTTA
*
10500020 TTATTTTATTATTTTTCT-TT
1 TTATTTTATTA-TTATCTATT
10500040 TTA-TTTATTATTATCTATT
1 TTATTTTATTATTATCTATT
10500059 TTATTTTATTA
1 TTATTTTATTA
10500070 AATATTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 5 0.19
19 12 0.44
20 10 0.37
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTTATTATTATCTATT
Found at i:10508847 original size:12 final size:12
Alignment explanation
Indices: 10508830--10508862 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
10508820 TGAAGTTCCT
10508830 AAGGCTCATGGG
1 AAGGCTCATGGG
10508842 AAGGCTCATGGG
1 AAGGCTCATGGG
10508854 AAGGCTCAT
1 AAGGCTCAT
10508863 TGTAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.18
Consensus pattern (12 bp):
AAGGCTCATGGG
Found at i:10510587 original size:29 final size:29
Alignment explanation
Indices: 10510509--10510587 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
10510499 ACCTGTACCT
* * *
10510509 TTCACTTTATTCATTTTATAGCATGTATTA
1 TTCACTTT-TTCATTTCATAACATGTATCA
*
10510539 TTCATTTTTTTCATTTCATAACATGT-TCCA
1 TTCA-CTTTTTCATTTCATAACATGTAT-CA
10510569 TTCACTTTTTCATTTCATA
1 TTCACTTTTTCATTTCATA
10510588 GCCAATGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 15 0.36
30 24 0.57
31 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.04, T:0.54
Consensus pattern (29 bp):
TTCACTTTTTCATTTCATAACATGTATCA
Found at i:10513723 original size:13 final size:13
Alignment explanation
Indices: 10513705--10513729 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10513695 TTTATTTTTT
10513705 TATATATATTATA
1 TATATATATTATA
10513718 TATATATATTAT
1 TATATATATTAT
10513730 TTTTTTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATATTATA
Found at i:10513831 original size:46 final size:42
Alignment explanation
Indices: 10513696--10513835 Score: 137
Period size: 46 Copynumber: 3.3 Consensus size: 42
10513686 GTATATATTT
* * *
10513696 TTATTTTTTTATATATATTATATATATA-TATTATTTTTTTA
1 TTATTATTTTATATATATTATATATATATTTTTACTTTTTTA
* *
10513737 TTATCAGTTTTAT-TA-ATT-TATATATATATTTACTATTTTT-
1 TTATTA-TTTTATATATATTATATATATATTTTTACT-TTTTTA
10513777 TTATTTATTTCATATATATATATATATATATTATTTTTACTTTTTTA
1 TTA-TTATTT--TATATATAT-TATATATA-TATTTTTACTTTTTTA
10513824 TTATTATTTTAT
1 TTATTATTTTAT
10513836 TTATTTGTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
39 8 0.10
40 13 0.16
41 13 0.16
42 9 0.11
43 2 0.03
44 5 0.06
45 1 0.01
46 17 0.21
47 12 0.15
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (42 bp):
TTATTATTTTATATATATTATATATATATTTTTACTTTTTTA
Found at i:10517048 original size:13 final size:13
Alignment explanation
Indices: 10517032--10517073 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
10517022 AAAGATAAAA
10517032 AAAAAACAAAGAG
1 AAAAAACAAAGAG
10517045 AAAATAA-AAAGAG
1 AAAA-AACAAAGAG
10517058 AAAAAACAAAG-G
1 AAAAAACAAAGAG
10517070 AAAA
1 AAAA
10517074 TTGAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.26
13 18 0.67
14 2 0.07
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (13 bp):
AAAAAACAAAGAG
Found at i:10518286 original size:32 final size:32
Alignment explanation
Indices: 10518219--10518309 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 32
10518209 GCATCTTTGA
* *
10518219 AGATTCAACATCAAATGTTAGGGTATTTTTTTT
1 AGATTCAACATCAAATGTTGGGGCA-TTTTTTT
*
10518252 AGATTTAACATCAAATGTTGGGGCATTTTTTT
1 AGATTCAACATCAAATGTTGGGGCATTTTTTT
* *
10518284 AGATTCAACATCGAATATTGGGGCAT
1 AGATTCAACATCAAATGTTGGGGCAT
10518310 CTTTGGGAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 30 0.58
33 22 0.42
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (32 bp):
AGATTCAACATCAAATGTTGGGGCATTTTTTT
Found at i:10519025 original size:106 final size:106
Alignment explanation
Indices: 10518873--10519226 Score: 440
Period size: 106 Copynumber: 3.3 Consensus size: 106
10518863 GCCACTTGCG
* * * * *
10518873 ATTTCAACTCCAC-GACGGAGGATATCGTGGCACTCGAGACAACACAAGTTTAACTCCATAACGA
1 ATTTCAACTTCACAG-CGAAGGATAT--TGG-ACTCGAGACAACACAAGTTCAACTTCACAACGA
*
10518937 AGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAAAGCCA
62 AGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAAAGCCA
* *
10518982 ATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAAGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
**
10519047 ACGGCTGGTTGTCAACAAACAATTTCCCAATTTTGAAGCCA
66 ACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAAAGCCA
* * * **
10519088 ATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAGCACAAGCTCAACTTCACAGTGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * ** * * *
10519153 GCGGCTGGCTGTCAACAAACAATTTCTTAGTTCCAGAGCCA
66 ACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAAAGCCA
* * *
10519194 ATTTTAACTTCACGGCGGAGGATATTGGACTCG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCG
10519227 GAACAATACA
Statistics
Matches: 214, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
106 190 0.89
107 3 0.01
109 21 0.10
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (106 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
ACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAAAGCCA
Found at i:10519453 original size:36 final size:36
Alignment explanation
Indices: 10519403--10519473 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 36
10519393 TATTTGAATC
10519403 TATTTTCATTGAAACT-AATTTCGTCTCCCTTGAGA
1 TATTTTCATTGAAACTAAATTTCGTCTCCCTTGAGA
* *
10519438 TATTTTCTTTTGAAACTAAATTTTGTCTCCCTTGAG
1 TATTTTC-ATTGAAACTAAATTTCGTCTCCCTTGAG
10519474 GCAGTTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 7 0.22
36 8 0.25
37 17 0.53
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.46
Consensus pattern (36 bp):
TATTTTCATTGAAACTAAATTTCGTCTCCCTTGAGA
Found at i:10519482 original size:37 final size:37
Alignment explanation
Indices: 10519411--10519495 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
10519401 TCTATTTTCA
* * *
10519411 TTGAAACT-AATTTCGTCTCCCTTGAGATATTTTCTT
1 TTGAAACTAAATTTCGTCTCCCTTGAGACAGTTTCTC
* *
10519447 TTGAAACTAAATTTTGTCTCCCTTGAGGCAGTTTCTC
1 TTGAAACTAAATTTCGTCTCCCTTGAGACAGTTTCTC
10519484 TTGAAACATAAA
1 TTGAAAC-TAAA
10519496 CATTGAAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 8 0.19
37 30 0.71
38 4 0.10
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (37 bp):
TTGAAACTAAATTTCGTCTCCCTTGAGACAGTTTCTC
Found at i:10519726 original size:36 final size:37
Alignment explanation
Indices: 10519679--10519765 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
10519669 ATTGAAAACA
* * * * **
10519679 TTTCCCATGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
10519715 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
10519752 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
10519766 TAAACATTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 11 0.26
37 31 0.74
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:10519754 original size:37 final size:37
Alignment explanation
Indices: 10519713--10519868 Score: 105
Period size: 37 Copynumber: 4.4 Consensus size: 37
10519703 CGCTTGGGGT
10519713 AGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
1 AGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
* ** ** *
10519750 AGTTTCTCTTGAAACATAAACATTG-------AAAAAC
1 AGTTTCCCTTGAAACA-AAATTTTGTCTCCCTTGAGAC
* ** * *
10519781 A-TTTCCTTTGAAA-TTAATTTTGTCTCTCTTGAGAT
1 AGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
* *
10519816 AGTTTCCCTTGAAACAATATTTTGTCTCCCTTGAGAT
1 AGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
* *
10519853 AATTTCTCTTGAAACA
1 AGTTTCCCTTGAAACA
10519869 TAAACCTTGA
Statistics
Matches: 86, Mismatches: 23, Indels: 20
0.67 0.18 0.16
Matches are distributed among these distances:
28 5 0.06
30 10 0.12
31 4 0.05
35 3 0.03
36 11 0.13
37 47 0.55
38 6 0.07
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (37 bp):
AGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
Found at i:10519766 original size:87 final size:87
Alignment explanation
Indices: 10519483--10519746 Score: 433
Period size: 87 Copynumber: 3.1 Consensus size: 87
10519473 GGCAGTTTCT
*
10519483 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATTTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
10519548 CTTGAAACGAAA--TTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
10519568 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
* *
10519633 CTTAAAACGAAATTTTATCTCC
66 CTTGAAACGAAATTTTGTCTCC
* * * * *
10519655 CTTGAAACATAAACATTGAAAACATTTCCCATGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
*
10519720 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
10519742 CTTGA
1 CTTGA
10519747 GACAGTTTCT
Statistics
Matches: 166, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
85 75 0.45
87 91 0.55
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACGAAATTTTGTCTCC
Found at i:10519829 original size:36 final size:37
Alignment explanation
Indices: 10519797--10519868 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
10519787 TTTGAAATTA
* *
10519797 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAT
1 ATTTTGTCTCCCTTGAGATAATTTCCCTTGAAACAAT
*
10519834 ATTTTGTCTCCCTTGAGATAATTTCTCTTGAAACA
1 ATTTTGTCTCCCTTGAGATAATTTCCCTTGAAACA
10519869 TAAACCTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.43
Consensus pattern (37 bp):
ATTTTGTCTCCCTTGAGATAATTTCCCTTGAAACAAT
Found at i:10519838 original size:103 final size:102
Alignment explanation
Indices: 10519655--10519895 Score: 365
Period size: 103 Copynumber: 2.4 Consensus size: 102
10519645 TTTTATCTCC
* * *
10519655 CTTGAAACATAAACATTGAAAACATTTCCCATGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
10519720 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCT
* * * *
10519757 CTTGAAACATAAACATTGAAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTC
1 CTTGAAACATAAACATTG-AAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTC
* *
10519822 CCTTGAAACAATATTTTGTCTCCCTTGAGATAATTTCT
65 CCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCT
* *
10519860 CTTGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
10519896 CACAAAATAC
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
102 34 0.27
103 91 0.73
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCT
Found at i:10519983 original size:37 final size:37
Alignment explanation
Indices: 10519933--10520035 Score: 190
Period size: 36 Copynumber: 2.8 Consensus size: 37
10519923 AAACCGAGTT
10519933 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
*
10519970 TTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
10520006 TTGAGACAGTTTCCCTTGAAACAAAATCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTT
10520036 TGAATATCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 35 0.56
37 28 0.44
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
Found at i:10520101 original size:102 final size:102
Alignment explanation
Indices: 10519946--10520132 Score: 263
Period size: 102 Copynumber: 1.8 Consensus size: 102
10519936 AGACAGTTTC
* *
10519946 CCTTGAAACAAAATCTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
1 CCTTGAAACAAAATCTTGTCTCCCCTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
10520011 ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
66 ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
* * *
10520048 CCTTGAAAC-AAAT-TTCGTCTCCCCTGAGACAGTTT-CTTTTAGAACTAAGTTTTGTCTCTCTT
1 CCTTGAAACAAAATCTT-GTCTCCCCTGAGACAGTTTCCCTTGA-AAC-AAATTTTGTCTCTCTT
**
10520110 GAGACAGTTTCTTTTGAAACAAA
63 GAGACAGTTTCCCTTGAAACAAA
10520133 TTTTGTCCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 6 0.08
101 24 0.32
102 45 0.60
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (102 bp):
CCTTGAAACAAAATCTTGTCTCCCCTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
Found at i:10520145 original size:36 final size:36
Alignment explanation
Indices: 10520045--10520166 Score: 149
Period size: 36 Copynumber: 3.4 Consensus size: 36
10520035 TTGAATATCT
* * *
10520045 TTTC-CTTGAAACAAATTTCGTCTCCCCTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
10520080 TTTCT-TTTAGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGA-AAC-AAATTTTGTCTCTCTTGAGACAG
* *
10520117 TTTCTTTTGAAACAAATTTTGTCCCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
10520153 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
10520167 CAAAAAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
35 7 0.09
36 37 0.50
37 27 0.36
38 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:10520230 original size:39 final size:36
Alignment explanation
Indices: 10520152--10520242 Score: 119
Period size: 39 Copynumber: 2.4 Consensus size: 36
10520142 TCTTGAGACA
*
10520152 GTTTCTCTTGAAACACAAAAAAAAACCCTCGAAATT
1 GTTTCTCTTGAAACACAAAAAAAAACCCTCGAAAAT
* * *
10520188 GTTTCTCTTGAAACACACACACACAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACA-A-A-AAAAAACCCTCGAAAAT
10520227 GTTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
10520243 CAAACCCTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
36 17 0.35
37 1 0.02
38 1 0.02
39 29 0.60
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (36 bp):
GTTTCTCTTGAAACACAAAAAAAAACCCTCGAAAAT
Found at i:10521431 original size:11 final size:11
Alignment explanation
Indices: 10521415--10521528 Score: 55
Period size: 11 Copynumber: 10.4 Consensus size: 11
10521405 TATATATATA
10521415 TATTATTATTT
1 TATTATTATTT
*
10521426 TATTATCAGTTT
1 TATTATTA-TTT
10521438 TATTA--ATTT
1 TATTATTATTT
10521447 ATATATATATATATT
1 -TAT-TAT-TAT-TT
* *
10521462 TACTATTTTTT
1 TATTATTATTT
10521473 TATTATT-TATT
1 TATTATTAT-TT
*
10521484 TATTA-TA-TA
1 TATTATTATTT
10521493 TATATATTA-TT
1 TAT-TATTATTT
*
10521504 T-TTACTT-TAT
1 TATTA-TTATTT
10521514 TATTATTATTT
1 TATTATTATTT
10521525 TATT
1 TATT
10521529 TATTTGTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
9 9 0.11
10 15 0.19
11 37 0.46
12 10 0.12
13 3 0.04
14 4 0.05
15 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (11 bp):
TATTATTATTT
Found at i:10521474 original size:35 final size:35
Alignment explanation
Indices: 10521435--10521506 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
10521425 TTATTATCAG
*
10521435 TTTTATTAATTTATATA-TATATATATTTACTATTT
1 TTTTATT-ATTTATATATTATATATATATACTATTT
* *
10521470 TTTTATTATTTATTTATTATATATATATATTATTT
1 TTTTATTATTTATATATTATATATATATACTATTT
10521505 TT
1 TT
10521507 ACTTTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 8 0.24
35 25 0.76
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (35 bp):
TTTTATTATTTATATATTATATATATATACTATTT
Found at i:10521490 original size:41 final size:42
Alignment explanation
Indices: 10521401--10521532 Score: 151
Period size: 44 Copynumber: 3.0 Consensus size: 42
10521391 TTTTAGATTA
* * *
10521401 TATATATATATATATATTATTATTTTATTATCAGTTTTATTAATT
1 TATATATATATATAT-TTACTATTTTATTATTA-TTTTATTTA-T
*
10521446 TATATATATATATATTTACTATTTTTTTATTA-TTTATTTAT
1 TATATATATATATATTTACTATTTTATTATTATTTTATTTAT
10521487 TATATATATATATTATTTTTACT-TTATTATTATTATTTTATTTAT
1 TATATATATATA-TA--TTTACTATT-TTATTATTATTTTATTTAT
10521532 T
1 T
10521533 TGTTTTATTT
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
41 13 0.17
42 9 0.12
43 2 0.03
44 28 0.36
45 25 0.32
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (42 bp):
TATATATATATATATTTACTATTTTATTATTATTTTATTTAT
Found at i:10521514 original size:35 final size:38
Alignment explanation
Indices: 10521436--10521522 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 38
10521426 TATTATCAGT
* **
10521436 TTTATTAATTTA-TATATATATATATTTACTATTTTTT
1 TTTATTTATTTATTATATATATATATTTACTATTTTAC
10521473 TATTATTTATTTATTATATATATATA-TTA-T-TTTTAC
1 T-TTATTTATTTATTATATATATATATTTACTATTTTAC
10521509 TTTA-TTA-TTATTAT
1 TTTATTTATTTATTAT
10521523 TTTATTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
33 7 0.16
34 3 0.07
35 3 0.07
36 5 0.11
37 2 0.04
38 13 0.29
39 12 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (38 bp):
TTTATTTATTTATTATATATATATATTTACTATTTTAC
Found at i:10521569 original size:57 final size:58
Alignment explanation
Indices: 10521478--10521586 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 58
10521468 TTTTTTATTA
10521478 TTTATTTATTATATATATATATTATTTTTACTTTATTATTATTAT-TTTATTTATTTGT
1 TTTATTTATTATATATATATATTATTTTTACTTTATT-TTATTATATTTATTTATTTGT
* * * * * *
10521536 TTTATTTA-TATATATTTTTCTTCTTTTTTCTTTATTTTTTTATATTTATTT
1 TTTATTTATTATATATATATATTATTTTTACTTTATTTTATTATATTTATTT
10521587 TACTATCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 6 0.14
57 30 0.68
58 8 0.18
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (58 bp):
TTTATTTATTATATATATATATTATTTTTACTTTATTTTATTATATTTATTTATTTGT
Found at i:10521588 original size:49 final size:55
Alignment explanation
Indices: 10521465--10521588 Score: 140
Period size: 53 Copynumber: 2.4 Consensus size: 55
10521455 ATATATTTAC
*
10521465 TATTTTTTTATTATTTA-TTTATTATATATATATATTATTTTTACTTTATTATTAT
1 TATTTTTTTA-TATTTATTTTATTATATATATATATTATTCTTACTTTATTATTAT
* *
10521520 TATTTTATT-TATTTGTTTTATT-TATATATAT-TT-TTCTT-CTTT-TT-TCT-T
1 TATTTTTTTATATTTATTTTATTATATATATATATTATTCTTACTTTATTAT-TAT
10521568 TATTTTTTTATATTTATTTTA
1 TATTTTTTTATATTTATTTTA
10521589 CTATCTATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
48 10 0.16
49 13 0.21
50 4 0.07
51 4 0.07
52 2 0.03
53 14 0.23
54 6 0.10
55 8 0.13
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (55 bp):
TATTTTTTTATATTTATTTTATTATATATATATATTATTCTTACTTTATTATTAT
Found at i:10526456 original size:32 final size:32
Alignment explanation
Indices: 10526418--10526483 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
10526408 TATGTACACC
10526418 AAAAATCCACAATGTGTAGAGGAACTTCCCCA
1 AAAAATCCACAATGTGTAGAGGAACTTCCCCA
10526450 AAAAATCCACAATGTGTAGAGGAACTTCCCCA
1 AAAAATCCACAATGTGTAGAGGAACTTCCCCA
10526482 AA
1 AA
10526484 TTCTCACCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.18
Consensus pattern (32 bp):
AAAAATCCACAATGTGTAGAGGAACTTCCCCA
Found at i:10532014 original size:31 final size:31
Alignment explanation
Indices: 10531974--10532036 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
10531964 TATAATATAA
* *
10531974 TCCCCCAACATTTAGTCCGTTTGCAATATGG
1 TCCCCCAACATTTAGCCCATTTGCAATATGG
*
10532005 TCCCTCAACATTTAGCCCATTTGCAATATGG
1 TCCCCCAACATTTAGCCCATTTGCAATATGG
10532036 T
1 T
10532037 TCCTGAATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (31 bp):
TCCCCCAACATTTAGCCCATTTGCAATATGG
Found at i:10533750 original size:27 final size:27
Alignment explanation
Indices: 10533720--10533771 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10533710 CTCTCAACAT
*
10533720 TTAGTCCATTTTCAATATGATCCCTCA
1 TTAGTCCATTTGCAATATGATCCCTCA
* *
10533747 TTAGTCCGTTTGCAATATGGTCCCT
1 TTAGTCCATTTGCAATATGATCCCT
10533772 GACGTAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.40
Consensus pattern (27 bp):
TTAGTCCATTTGCAATATGATCCCTCA
Found at i:10540373 original size:25 final size:24
Alignment explanation
Indices: 10540345--10540415 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
10540335 TGACCCCCAA
10540345 ATTCTTTAATTATTTTCAATTTAAT
1 ATTCTTTAATTATTTT-AATTTAAT
*
10540370 ATTCTTTAATT-TTTTAATTTTAT
1 ATTCTTTAATTATTTTAATTTAAT
* * *
10540393 ATCTTTTTATTTATTTTATTTTA
1 AT-TCTTTAATTATTTTAATTTA
10540416 TTGTTTAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 9 0.23
24 11 0.28
25 19 0.49
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTCTTTAATTATTTTAATTTAAT
Found at i:10540401 original size:24 final size:23
Alignment explanation
Indices: 10540345--10540416 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
10540335 TGACCCCCAA
*
10540345 ATTCTTTAATTATTTTCAATTTAAT
1 ATTCTTTAATT-TTTT-AATTTTAT
10540370 ATTCTTTAATTTTTTAATTTTAT
1 ATTCTTTAATTTTTTAATTTTAT
* *
10540393 A-TCTTTTTATTTATTTTATTTTAT
1 ATTC-TTTAATTT-TTTAATTTTAT
10540417 TGTTTAACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 2 0.05
23 15 0.36
24 14 0.33
25 11 0.26
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTCTTTAATTTTTTAATTTTAT
Found at i:10542629 original size:19 final size:19
Alignment explanation
Indices: 10542605--10542647 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
10542595 CTCTGCTTTT
10542605 AGCACTTCGGCAGTATGGG
1 AGCACTTCGGCAGTATGGG
10542624 AGCACTTCGGCAGTATGGG
1 AGCACTTCGGCAGTATGGG
*
10542643 GGCAC
1 AGCAC
10542648 GTCAGTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (19 bp):
AGCACTTCGGCAGTATGGG
Found at i:10543128 original size:29 final size:29
Alignment explanation
Indices: 10543086--10543155 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
10543076 CAAATTTTGG
10543086 TTAGTGACCAAAATGTAAGTTTTAAAAGT
1 TTAGTGACCAAAATGTAAGTTTTAAAAGT
10543115 TTAGTGACCAAAATGTAAGTTTTAAAAGT
1 TTAGTGACCAAAATGTAAGTTTTAAAAGT
* *
10543144 TTATTGGCCAAA
1 TTAGTGACCAAA
10543156 GTATAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (29 bp):
TTAGTGACCAAAATGTAAGTTTTAAAAGT
Found at i:10543167 original size:29 final size:29
Alignment explanation
Indices: 10543086--10543167 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
10543076 CAAATTTTGG
* **
10543086 TTAGTGACCAAAATGTAAGTTTTAAAAGT
1 TTAGTGACCAAAATATAAAATTTAAAAGT
* **
10543115 TTAGTGACCAAAATGTAAGTTTTAAAAGT
1 TTAGTGACCAAAATATAAAATTTAAAAGT
* * *
10543144 TTATTGGCCAAAGTATAAAATTTA
1 TTAGTGACCAAAATATAAAATTTA
10543168 GAAAATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (29 bp):
TTAGTGACCAAAATATAAAATTTAAAAGT
Found at i:10551692 original size:429 final size:429
Alignment explanation
Indices: 10550893--10551754 Score: 1670
Period size: 429 Copynumber: 2.0 Consensus size: 429
10550883 TTCCAATAGT
*
10550893 ACAAAGACATGTTTGCATGGTCGTACCAAGATATGCCTGGACTAGACATGGATATGGTAGTCTAT
1 ACAAAGACATGTTTGCATGGTCGTACCAAGATATGCCTGGACTAGACATGGATATGGTAGTCCAT
10550958 AAAATACCAATTAAGCCAGAATGCAAACCGATAAGTAAAAACTTAGGAGGACGAGGCCTGAAATG
66 AAAATACCAATTAAGCCAGAATGCAAACCGATAAGTAAAAACTTAGGAGGACGAGGCCTGAAATG
*
10551023 CTTTTAAGATAAAAGAAGAAGTCAAGAAATAGTTTGATGATGGTTTTCTCCAGGTAACCAAGTAT
131 CTCTTAAGATAAAAGAAGAAGTCAAGAAATAGTTTGATGATGGTTTTCTCCAGGTAACCAAGTAT
*
10551088 CCAGACTGGGTGGCTAACATAGAGCTGGTGCAAAAAAAAGATGGAAAAGTGCACATGTGCATTTC
196 CCAGACTGGGTGGCTAACATAGAGCTGGTGCAAAAAAAAGATGGAAAAGTGCACACGTGCATTTC
* *
10551153 CTATAGAGACCTCAACAGAGCAAGCCCTAAAGATAATTTCCCATTTTCACACATAGATACCCTGG
261 CTATAGAGACCTCAACAGAGCAAGCCCTAAAGACAATTTCACATTTTCACACATAGATACCCTGG
10551218 TGGATAACATGGCTGAAAATTCTTTCTTCTCGTTCATGGACGATTTCTCGGGATACAACTAGATT
326 TGGATAACATGGCTGAAAATTCTTTCTTCTCGTTCATGGACGATTTCTCGGGATACAACTAGATT
10551283 AAGATGCATCCCGACGACATGGAAAAGACTACATTTGTA
391 AAGATGCATCCCGACGACATGGAAAAGACTACATTTGTA
10551322 ACAAAGACATGTTTGCATGGTCGTACCAAGATATGCCTGGACTAGACATGGATATGGTAGTCCAT
1 ACAAAGACATGTTTGCATGGTCGTACCAAGATATGCCTGGACTAGACATGGATATGGTAGTCCAT
10551387 AAAATACCAATTAAGCCAGAATGCAAACCGATAAGTAAAAACTTAGGAGGACGAGGCCTGAAATG
66 AAAATACCAATTAAGCCAGAATGCAAACCGATAAGTAAAAACTTAGGAGGACGAGGCCTGAAATG
10551452 CTCTTAAGATAAAAGAAGAAGTCAAGAAATAGTTTGATGATGGTTTTCTCCAGGTAACCAAGTAT
131 CTCTTAAGATAAAAGAAGAAGTCAAGAAATAGTTTGATGATGGTTTTCTCCAGGTAACCAAGTAT
*
10551517 CCAGAGTGGGTGGCTAACATAGAGCTGGTGCAAAAAAAAGATGGAAAAGTGCACACGTGCATTTC
196 CCAGACTGGGTGGCTAACATAGAGCTGGTGCAAAAAAAAGATGGAAAAGTGCACACGTGCATTTC
10551582 CTATAGAGACCTCAACAGAGCAAGCCCTAAAGACAATTTCACATTTTCACACATAGATACCCTGG
261 CTATAGAGACCTCAACAGAGCAAGCCCTAAAGACAATTTCACATTTTCACACATAGATACCCTGG
10551647 TGGATAACATGGCTGAAAATTCTTTCTTCTCGTTCATGGACGATTTCTCGGGATACAACTAGATT
326 TGGATAACATGGCTGAAAATTCTTTCTTCTCGTTCATGGACGATTTCTCGGGATACAACTAGATT
10551712 AAGATGCATCCCGACGACATGGAAAAGACTACATTTGTA
391 AAGATGCATCCCGACGACATGGAAAAGACTACATTTGTA
10551751 ACAA
1 ACAA
10551755 TGTAGGGAAC
Statistics
Matches: 427, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
429 427 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (429 bp):
ACAAAGACATGTTTGCATGGTCGTACCAAGATATGCCTGGACTAGACATGGATATGGTAGTCCAT
AAAATACCAATTAAGCCAGAATGCAAACCGATAAGTAAAAACTTAGGAGGACGAGGCCTGAAATG
CTCTTAAGATAAAAGAAGAAGTCAAGAAATAGTTTGATGATGGTTTTCTCCAGGTAACCAAGTAT
CCAGACTGGGTGGCTAACATAGAGCTGGTGCAAAAAAAAGATGGAAAAGTGCACACGTGCATTTC
CTATAGAGACCTCAACAGAGCAAGCCCTAAAGACAATTTCACATTTTCACACATAGATACCCTGG
TGGATAACATGGCTGAAAATTCTTTCTTCTCGTTCATGGACGATTTCTCGGGATACAACTAGATT
AAGATGCATCCCGACGACATGGAAAAGACTACATTTGTA
Found at i:10551949 original size:21 final size:21
Alignment explanation
Indices: 10551919--10551958 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10551909 TGAACACATA
*
10551919 AAAAATATGAGTAAGCTTTTTC
1 AAAAATATGAGGAAG-TTTTTC
10551941 AAAAA-ATGAGGAAGTTTT
1 AAAAATATGAGGAAGTTTT
10551959 AATTAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (21 bp):
AAAAATATGAGGAAGTTTTTC
Found at i:10555273 original size:15 final size:15
Alignment explanation
Indices: 10555250--10555316 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 15
10555240 CCCATTGAGG
*
10555250 ATCATAAAATCAAGA
1 ATCAGAAAATCAAGA
10555265 ATCAGAAAATCAAGA
1 ATCAGAAAATCAAGA
* * *
10555280 TTGATAAGAATCAAGAA
1 ATCAGAA-AATCAAG-A
10555297 ACGTCAGAGAAATCAAGA
1 A--TCAGA-AAATCAAGA
10555315 AT
1 AT
10555317 GACAGGAAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
15 18 0.45
16 8 0.20
17 1 0.03
18 2 0.05
19 10 0.25
20 1 0.03
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (15 bp):
ATCAGAAAATCAAGA
Found at i:10557766 original size:3 final size:3
Alignment explanation
Indices: 10557758--10557789 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10557748 AATATTGTTA
10557758 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10557790 ATAATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10557843 original size:2 final size:2
Alignment explanation
Indices: 10557836--10557869 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10557826 TTAAAAGATA
10557836 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
10557870 GCGCATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10559322 original size:30 final size:30
Alignment explanation
Indices: 10559288--10559355 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
10559278 TTAATTCAAC
*
10559288 ATAATTTTATT-TCTTCATATTTAATATTTT
1 ATAATTTTATTCT-TTCATATTTAACATTTT
*
10559318 ATAATTTTATTCTTTTATATTTAACATTTT
1 ATAATTTTATTCTTTCATATTTAACATTTT
10559348 A-AATTTTA
1 ATAATTTTA
10559356 ATAGCAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (30 bp):
ATAATTTTATTCTTTCATATTTAACATTTT
Found at i:10560604 original size:2 final size:2
Alignment explanation
Indices: 10560599--10560645 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
10560589 ACACACACAC
10560599 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
10560641 AT AT A
1 AT AT A
10560646 GGTATAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10561712 original size:23 final size:21
Alignment explanation
Indices: 10561684--10561743 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
10561674 TATGATTATC
10561684 CCGAAGGACCACATAGGTTTG
1 CCGAAGGACCACATAGGTTTG
**
10561705 CACGGAAGTG-CCACATAATTTTG
1 C-C-GAAG-GACCACATAGGTTTG
10561728 CCGAAGGACCACATAG
1 CCGAAGGACCACATAG
10561744 AACCCTCGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.03
21 12 0.38
22 2 0.06
23 16 0.50
24 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (21 bp):
CCGAAGGACCACATAGGTTTG
Found at i:10569232 original size:20 final size:20
Alignment explanation
Indices: 10569192--10569230 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10569182 CATTGCATGA
*
10569192 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
10569212 ATTTCATGGCCTCAACAAA
1 ATTT-ATGGCCTCAACAAA
10569231 GACCTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:10580742 original size:23 final size:22
Alignment explanation
Indices: 10580675--10580746 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
10580665 ACCACAGCTC
* *
10580675 ATAATTTGCACCAAAGTGCCAC
1 ATAATTTGCACCGAAGTGCCAT
*
10580697 ATAATTAT-C-CCGAA-TGACAAT
1 ATAATT-TGCACCGAAGTG-CCAT
10580718 ATAGATTTGCACCGAAGTGCCAT
1 ATA-ATTTGCACCGAAGTGCCAT
10580741 ATAATT
1 ATAATT
10580747 GTCACGAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
20 2 0.05
21 10 0.25
22 14 0.35
23 12 0.30
24 2 0.05
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (22 bp):
ATAATTTGCACCGAAGTGCCAT
Found at i:10580766 original size:44 final size:44
Alignment explanation
Indices: 10580674--10580766 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
10580664 CACCACAGCT
* *
10580674 CATA-ATTTGCACCAAAGTGCCACATAATTATCCCGAATGACAA
1 CATAGATTTGCACCAAAGTGCCACATAATTATCACGAAGGACAA
* * * * *
10580717 TATAGATTTGCACCGAAGTGCCATATAATTGTCACGAAGGACCA
1 CATAGATTTGCACCAAAGTGCCACATAATTATCACGAAGGACAA
10580761 CATAGA
1 CATAGA
10580767 ACCCTCAACT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 3 0.07
44 38 0.93
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (44 bp):
CATAGATTTGCACCAAAGTGCCACATAATTATCACGAAGGACAA
Found at i:10598739 original size:12 final size:12
Alignment explanation
Indices: 10598722--10598756 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
10598712 GAAAATAAAG
10598722 AAAACTTAATGT
1 AAAACTTAATGT
*
10598734 AAAACTTGATGT
1 AAAACTTAATGT
10598746 AAAAC-TAATGT
1 AAAACTTAATGT
10598757 CCCTAGCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (12 bp):
AAAACTTAATGT
Found at i:10604718 original size:12 final size:12
Alignment explanation
Indices: 10604701--10604734 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10604691 GAAAATAAAG
10604701 AAAACTTAATGT
1 AAAACTTAATGT
*
10604713 AAAACTTGATGT
1 AAAACTTAATGT
10604725 AAAAC-TAATG
1 AAAACTTAATG
10604735 GCCCTAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
AAAACTTAATGT
Found at i:10608738 original size:36 final size:36
Alignment explanation
Indices: 10608691--10608853 Score: 274
Period size: 36 Copynumber: 4.6 Consensus size: 36
10608681 TTTTTTATTG
* * *
10608691 TGAATCGGAAGTGCTGATGTTTCCTTCCGTTCGACT
1 TGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACT
*
10608727 TGAATCGGAAGTGCCGATGCTTCCCTGCGTTCGACT
1 TGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACT
10608763 TGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACT
1 TGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACT
*
10608799 TGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACT
1 TGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACT
10608835 TGAATCGGAAGTG-CGATGC
1 TGAATCGGAAGTGCCGATGC
10608854 ATTCTTTCGT
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
35 6 0.05
36 115 0.95
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (36 bp):
TGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACT
Found at i:10612054 original size:37 final size:36
Alignment explanation
Indices: 10611937--10612081 Score: 150
Period size: 37 Copynumber: 3.8 Consensus size: 36
10611927 TTAAAAATAT
*
10611937 ATAATTTTGAAAAATATGTATATATAGTATAGTTTTGGAA
1 ATAATTTTG--AAATA--TATATATAGTATAGTTTTGAAA
* *
10611977 ATAATTTTGAAATATATATATTTATATATAGTTTTAAAA
1 ATAATTTTGAAATATATATA--TA-GTATAGTTTTGAAA
10612016 ATATTATTTTGGAAA-ATATATA-AGTATAGTTTTGAAA
1 ATA--ATTTT-GAAATATATATATAGTATAGTTTTGAAA
*
10612053 ATAATTTTGAAATATATATATAGTTTAGT
1 ATAATTTTGAAATATATATATAGTATAGT
10612082 ATAGTTTTAA
Statistics
Matches: 91, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
34 4 0.04
35 12 0.13
36 13 0.14
37 15 0.16
38 8 0.09
39 14 0.15
40 9 0.10
41 12 0.13
42 4 0.04
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (36 bp):
ATAATTTTGAAATATATATATAGTATAGTTTTGAAA
Found at i:10612099 original size:2 final size:2
Alignment explanation
Indices: 10612092--10612184 Score: 165
Period size: 2 Copynumber: 48.0 Consensus size: 2
10612082 ATAGTTTTAA
10612092 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
10612134 AT AT AT -T AT AT AT AT AT AT AT A- 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 AT AT AT AT AT
10612173 AT AT AT AT AT AT
1 AT AT AT AT AT AT
10612185 TAAGAAAAAA
Statistics
Matches: 88, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
1 3 0.03
2 85 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10612220 original size:22 final size:22
Alignment explanation
Indices: 10612194--10612267 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 22
10612184 TTAAGAAAAA
10612194 ATATAATTTTGAAAATATATATAT
1 ATATAATTTTG-AAA-ATATATAT
*
10612218 ATAGTATAGTTTTAGAAAACATATAT
1 ATA-TA-A-TTTT-GAAAATATATAT
*
10612244 AATATAA-TTTGAAAATAAATAT
1 -ATATAATTTTGAAAATATATAT
10612266 AT
1 AT
10612268 TATTATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
21 2 0.05
22 10 0.24
23 3 0.07
24 3 0.07
25 3 0.07
26 10 0.24
27 10 0.24
28 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (22 bp):
ATATAATTTTGAAAATATATAT
Found at i:10612241 original size:28 final size:28
Alignment explanation
Indices: 10612195--10612249 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
10612185 TAAGAAAAAA
*
10612195 TATAATTTTGAAAATATATAT-ATATAG
1 TATAATTTTGAAAACATATATAATATAG
*
10612222 TATAGTTTTAGAAAACATATATAATATA
1 TATAATTTT-GAAAACATATATAATATA
10612250 ATTTGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (28 bp):
TATAATTTTGAAAACATATATAATATAG
Found at i:10613813 original size:23 final size:24
Alignment explanation
Indices: 10613767--10613815 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10613757 AATAAAATAA
*
10613767 TATTTTTATGATTTTATTTTTATC
1 TATTTTTATGATTTTATTTGTATC
10613791 TATTTTTAT-ATATTTA-TTGTATC
1 TATTTTTATGAT-TTTATTTGTATC
10613814 TA
1 TA
10613816 AAATTTAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (24 bp):
TATTTTTATGATTTTATTTGTATC
Found at i:10614128 original size:17 final size:16
Alignment explanation
Indices: 10614099--10614140 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
10614089 AACGCAGATC
10614099 AATT-TTTTATCTTTTAA
1 AATTATTTTATC-TTT-A
10614116 AATTATTTT-TCTTTA
1 AATTATTTTATCTTTA
10614131 AATTATTTTA
1 AATTATTTTA
10614141 AAATGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.43
16 3 0.13
17 6 0.26
18 4 0.17
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTATTTTATCTTTA
Found at i:10615454 original size:55 final size:55
Alignment explanation
Indices: 10615370--10615693 Score: 497
Period size: 55 Copynumber: 5.9 Consensus size: 55
10615360 CATGAACATT
* *
10615370 GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTC
1 GTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTC
*
10615425 GTGTGCATATTCACAGAATTCATCATGAGTTGATGAACCACCGTACAGGCACCTT-
1 GTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCA-CTTC
* * * * * * *
10615480 GTGTGCAAATCCACTGAATTCATTATAAGTTGATGAATCACCGTACATGCACTTT
1 GTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTC
* * *
10615535 GTGTGCATCTTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGAACTTC
1 GTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTC
*
10615590 GTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTC
1 GTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTC
*
10615645 GTGTGTATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACAGG
1 GTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACAGG
10615694 AACTATGTGT
Statistics
Matches: 244, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
54 3 0.01
55 238 0.98
56 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (55 bp):
GTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTC
Found at i:10615561 original size:110 final size:109
Alignment explanation
Indices: 10615358--10615751 Score: 540
Period size: 110 Copynumber: 3.6 Consensus size: 109
10615348 CTATGTGTAC
*
10615358 TACATGAACATTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACT
1 TACAGGAAC-TTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACT
*
10615423 TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAACCACCG
65 TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCG
* * * * *
10615468 TACAGGCACCTTGTGTGCAAATCCACTGAATTCATTATAAGTTGATGAATCACCGTACATGCACT
1 TACAGG-AACTTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACT
* * *
10615533 TTGTGTGCATCTTCACGGAATTCATCATGAGTTGATGAATCACCG
65 TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCG
* * *
10615578 TACAGGAACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACT
1 TACAGGAACTT-GTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACT
*
10615643 TCGTGTGTATATTCACAGAATTCATCATGAGTTGATGAATCACCG
65 TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCG
* ** * * * *
10615688 TACAGGAACTATGTGTG-GAGCCCACGGAATTTATCATGTGTTGATGAATTC-CCGTATAGGCAC
1 TACAGGAACT-TGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAA-TCACCGTACAGGCAC
10615751 T
64 T
10615752 AATTGTGCAT
Statistics
Matches: 251, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
109 40 0.16
110 208 0.83
111 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (109 bp):
TACAGGAACTTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTT
CGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCG
Found at i:10615640 original size:165 final size:165
Alignment explanation
Indices: 10615358--10615736 Score: 546
Period size: 165 Copynumber: 2.3 Consensus size: 165
10615348 CTATGTGTAC
* * * *
10615358 TACATGAACATTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATCACCGTACAGGCACT
1 TACATGAACTTTGTGTGCAACTCCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGAACT
10615423 TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAACCACCGTACAGGCACCTT-GTGTGCA
66 TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAACCACCGTACAGGCA-CTTCGTGTGCA
* *
10615487 AATCCACTGAATTCATTATAAGTTGATGAATCACCG
130 AATCCACAGAATTCATCATAAGTTGATGAATCACCG
* * *
10615523 TACATGCACTTTGTGTGCATCTTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGAACT
1 TACATGAACTTTGTGTGCAACTCCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGAACT
* * * *
10615588 TCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGTAT
66 TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAACCACCGTACAGGCACTTCGTGTGCAA
* *
10615653 ATTCACAGAATTCATCATGAGTTGATGAATCACCG
131 ATCCACAGAATTCATCATAAGTTGATGAATCACCG
* * * * * *
10615688 TACAGGAACTATGTGTGGAGC-CCACGGAATTTATCATGTGTTGATGAAT
1 TACATGAACTTTGTGTGCAACTCCACGGAATTCATCATGAGTTGATGAAT
10615737 TCCCGTATAG
Statistics
Matches: 190, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
164 28 0.15
165 162 0.85
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (165 bp):
TACATGAACTTTGTGTGCAACTCCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGAACT
TCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAACCACCGTACAGGCACTTCGTGTGCAA
ATCCACAGAATTCATCATAAGTTGATGAATCACCG
Found at i:10621027 original size:55 final size:54
Alignment explanation
Indices: 10620954--10621400 Score: 510
Period size: 55 Copynumber: 8.2 Consensus size: 54
10620944 CTATGTGTAC
*
10620954 TACAGACACCTTGTGTGCAAATCCAC-ATAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCA-CTTGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATCACCG
* ** *
10621009 TACAGGCACTTCGTGTGCATATTTACGGAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTT-GTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATCACCG
* * * * *
10621064 TACATGCACCTTGTGTGTAAATCCACAAAATTCATCATGATTTGATGAATCACCT
1 TACAGGCA-CTTGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATCACCG
* * *
10621119 TACAGGCACTTCATGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTT-GTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATCACCG
* * *
10621174 TACATGCACTATATGTG-TAATCCACGAAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACT-TGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATCACCG
* * * * **
10621228 TACATGCACTATATGTGC-AATCCACGAAATTCATTACGAGTTGATGAATCATTG
1 TACAGGCACT-TGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATCACCG
* * * *
10621282 TACAGACACTTCGTGTGCATATTCAAGAAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTT-GTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATCACCG
10621337 TACAGGCACTATGTGTGC--ATCCCACGAAATTCATCATGAGTTGATGAATTC-CCG
1 TACAGGCACT-TGTGTGCAAAT-CCACGAAATTCATCATGAGTTGATGAA-TCACCG
*
10621391 TATAGGCACT
1 TACAGGCACT
10621401 AATTGTGCAT
Statistics
Matches: 337, Mismatches: 44, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.01
54 139 0.41
55 190 0.56
56 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (54 bp):
TACAGGCACTTGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATCACCG
Found at i:10621304 original size:163 final size:163
Alignment explanation
Indices: 10620954--10621385 Score: 579
Period size: 163 Copynumber: 2.6 Consensus size: 163
10620944 CTATGTGTAC
* *
10620954 TACAGACACCTT-GTGTGCAAATCCAC-ATAATTCATCATGAGTTGATGAATCACCGTACAGGCA
1 TACAGACA-CTTCGTGTGCATATTCACGA-AATTCATCATGAGTTGATGAATCACCGTACAGGCA
** * *
10621017 CT-TCGTGTGCATATTTACGGAATTCATCATGAGTTGATGAATCACCGTACATGCACCTTGTGTG
64 CTAT-GTGTG-A-ATCCACGAAATTCATCATGAGTTGATGAATCACCGTACATGCACCTTATGTG
* *
10621081 TAAATCCACAAAATTCATCATGATTTGATGAATCACCT
126 TAAATCCACAAAATTCATCACGAGTTGATGAATCACCT
* * *
10621119 TACAGGCACTTCATGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCGTACATGCACT
1 TACAGACACTTCGTGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCGTACAGGCACT
* *
10621184 ATATGTGTAATCCACGAAATTCATCATGAGTTGATGAATCACCGTACATGCA-CTATATGTG-CA
66 ATGTGTG-AATCCACGAAATTCATCATGAGTTGATGAATCACCGTACATGCACCT-TATGTGTAA
* * *
10621247 ATCCACGAAATTCATTACGAGTTGATGAATCA-TT
129 ATCCACAAAATTCATCACGAGTTGATGAATCACCT
*
10621281 GTACAGACACTTCGTGTGCATATTCAAGAAATTCATCATGAGTTGATGAATCACCGTACAGGCAC
1 -TACAGACACTTCGTGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCGTACAGGCAC
*
10621346 TATGTGTGCATCCCACGAAATTCATCATGAGTTGATGAAT
65 TATGTGTGAAT-CCACGAAATTCATCATGAGTTGATGAAT
10621386 TCCCGTATAG
Statistics
Matches: 238, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
162 3 0.01
163 126 0.53
164 48 0.20
165 59 0.25
166 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (163 bp):
TACAGACACTTCGTGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCGTACAGGCACT
ATGTGTGAATCCACGAAATTCATCATGAGTTGATGAATCACCGTACATGCACCTTATGTGTAAAT
CCACAAAATTCATCACGAGTTGATGAATCACCT
Found at i:10621312 original size:109 final size:108
Alignment explanation
Indices: 10620982--10621385 Score: 523
Period size: 109 Copynumber: 3.7 Consensus size: 108
10620972 AAATCCACAT
* ** *
10620982 AATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCATATTTACGGAATTCATCAT
1 AATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCATGTGCATATCCACGAAATTCATCAT
10621047 GAGTTGATGAATCACCGTACATGCACCTTGTGTGTAAATCCACA-A
66 GAGTTGATGAATCACCGTACATGCA-CTTGTGTGT-AATCCA-AGA
* * *
10621092 AATTCATCATGATTTGATGAATCACCTTACAGGCACTTCATGTGCATATTCACGAAATTCATCAT
1 AATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCATGTGCATATCCACGAAATTCATCAT
* *
10621157 GAGTTGATGAATCACCGTACATGCACTATATGTGTAATCCACGA
66 GAGTTGATGAATCACCGTACATGCACT-TGTGTGTAATCCAAGA
* *
10621201 AATTCATCATGAGTTGATGAATCACCGTACATGCACTAT-ATGTGCA-ATCCACGAAATTCATTA
1 AATTCATCATGAGTTGATGAATCACCGTACAGGCACT-TCATGTGCATATCCACGAAATTCATCA
* ** * *
10621264 CGAGTTGATGAATCATTGTACA-GACACTTCGTGTGCATATTCAAGA
65 TGAGTTGATGAATCACCGTACATG-CACTT-GTGTGTA-ATCCAAGA
* *
10621310 AATTCATCATGAGTTGATGAATCACCGTACAGGCACTAT-GTGTGCAT-CCCACGAAATTCATCA
1 AATTCATCATGAGTTGATGAATCACCGTACAGGCACT-TCATGTGCATATCCACGAAATTCATCA
10621373 TGAGTTGATGAAT
65 TGAGTTGATGAAT
10621386 TCCCGTATAG
Statistics
Matches: 263, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
107 2 0.01
108 43 0.16
109 126 0.48
110 92 0.35
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (108 bp):
AATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCATGTGCATATCCACGAAATTCATCAT
GAGTTGATGAATCACCGTACATGCACTTGTGTGTAATCCAAGA
Found at i:10628334 original size:2 final size:2
Alignment explanation
Indices: 10628327--10628376 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
10628317 CATTCTTTGT
10628327 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10628368 TA TA TA TA T
1 TA TA TA TA T
10628377 GTGTGTGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10628381 original size:2 final size:2
Alignment explanation
Indices: 10628376--10628422 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
10628366 TATATATATA
10628376 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10628418 TG TG T
1 TG TG T
10628423 ATTATTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:10631890 original size:2 final size:2
Alignment explanation
Indices: 10631885--10631957 Score: 132
Period size: 2 Copynumber: 37.5 Consensus size: 2
10631875 ATTTTGCTTA
10631885 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
10631927 A- AT AT AT -T 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
10631958 AGGAGGGTTC
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 67 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10633550 original size:89 final size:89
Alignment explanation
Indices: 10633066--10633563 Score: 588
Period size: 89 Copynumber: 5.6 Consensus size: 89
10633056 GGATGTTAAA
** * * *
10633066 AGATTCTTCTTATTTCCTATTTGGTCTTCCTGAAGAAGCAGTGAAAAAAATCAATATCGAGTCTA
1 AGATTCTTCTTATTTCAGATTTGGTCTTCCTGAAGAAGCAGTGAAGAAAATCAATCTCGAGTCTG
*
10633131 ATCTCCCCTAAAGAGTAGTGGAGA
66 ATCTCCCCTAAAGAGTAGTGGAGC
* * * * *
10633155 AGATTCTT-TTTTTTCATATTTGGTCTTCTTGAAGAAGCAACT-AAGAAAATCAATCTCGAGTTT
1 AGATTCTTCTTATTTCAGATTTGGTCTTCCTGAAGAAGC-AGTGAAGAAAATCAATCTCGAGTCT
* * * *
10633218 GATATCCCCTATAGCGTAGTGGATC
65 GATCTCCCCTAAAGAGTAGTGGAGC
* * ** * *
10633243 AGATTCTTCTTATTTCAGATTTCGTCTTCCTGAAGAAGAAGCAAAGCAAATCAATCTCGAGTTTG
1 AGATTCTTCTTATTTCAGATTTGGTCTTCCTGAAGAAGCAGTGAAGAAAATCAATCTCGAGTCTG
* *
10633308 ATCTCCCTTACAGAGTAGTGGAGC
66 ATCTCCCCTAAAGAGTAGTGGAGC
* * * * * * *
10633332 ATATTCATCTTATTTCATATTTGGTTTTCCTGAAGAATCAGTGAAGCAAATCAATCTCGATTCTG
1 AGATTCTTCTTATTTCAGATTTGGTCTTCCTGAAGAAGCAGTGAAGAAAATCAATCTCGAGTCTG
* *
10633397 ATCTCCCCTAAAGTGTAGTGGAGT
66 ATCTCCCCTAAAGAGTAGTGGAGC
* * *
10633421 AGATTCTTCTTATTTCAGATTTGGTATTCCTGAAGAAGCAGTGAAGTAAATCAATCTCGAGTCTA
1 AGATTCTTCTTATTTCAGATTTGGTCTTCCTGAAGAAGCAGTGAAGAAAATCAATCTCGAGTCTG
* *
10633486 ATATCCTCTAAAGAGTAGTGGAGC
66 ATCTCCCCTAAAGAGTAGTGGAGC
* * * *
10633510 AGATTCTTTTTTATTTCAGATTTGGTCTTTCTGAA-TAGCAGTGAAGTAAATCAA
1 AGATTC-TTCTTATTTCAGATTTGGTCTTCCTGAAGAAGCAGTGAAGAAAATCAA
10633564 ATTTGATTCA
Statistics
Matches: 348, Mismatches: 57, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
88 73 0.21
89 250 0.72
90 25 0.07
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (89 bp):
AGATTCTTCTTATTTCAGATTTGGTCTTCCTGAAGAAGCAGTGAAGAAAATCAATCTCGAGTCTG
ATCTCCCCTAAAGAGTAGTGGAGC
Found at i:10634056 original size:26 final size:26
Alignment explanation
Indices: 10634027--10634080 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
10634017 TTTTGGTTAA
10634027 AAAT-ATATAATTTTGAAAAAATATAT
1 AAATAATATAATTTTGAAAAAA-ATAT
* *
10634053 AAATAATATAGTTTTTAAAAAAATAT
1 AAATAATATAATTTTGAAAAAAATAT
10634079 AA
1 AA
10634081 TTTTGAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
AAATAATATAATTTTGAAAAAAATAT
Found at i:10634182 original size:43 final size:42
Alignment explanation
Indices: 10634031--10634220 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 42
10634021 GGTTAAAAAT
* * *
10634031 ATATAATTTT-GAAAAAATATATAAATA-ATATAGTTTTTAAAAAA
1 ATATAATTTTGGAAAATATATATATATATATATAG-TTTT---GAA
* * *
10634075 ATATAATTTT-GAAAAGTATGTATATAT-TGTATAATTTTGAA
1 ATATAATTTTGGAAAA-TATATATATATATATATAGTTTTGAA
10634116 A-ATAATTTT-GAAATATATGTATATATATATATATAGTTTTGAAA
1 ATATAATTTTGGAAA-ATA--TATATATATATATATAGTTTTG-AA
10634160 ATATAATTTTGG---A-ATATATATATATATATAGTTTTGAA
1 ATATAATTTTGGAAAATATATATATATATATATAGTTTTGAA
10634198 A-ATAATTTT-G-AAATATATATATA
1 ATATAATTTTGGAAAATATATATATA
10634221 GTTCTGAAAA
Statistics
Matches: 125, Mismatches: 9, Indels: 29
0.77 0.06 0.18
Matches are distributed among these distances:
36 1 0.01
37 8 0.06
38 4 0.03
39 31 0.25
40 14 0.11
41 5 0.04
42 9 0.07
43 10 0.08
44 22 0.18
45 20 0.16
46 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (42 bp):
ATATAATTTTGGAAAATATATATATATATATATAGTTTTGAA
Found at i:10635474 original size:14 final size:14
Alignment explanation
Indices: 10635455--10635484 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10635445 AATAATGTAC
10635455 ATATTTATAAATTT
1 ATATTTATAAATTT
10635469 ATATTTATAAATTT
1 ATATTTATAAATTT
10635483 AT
1 AT
10635485 TACTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTTATAAATTT
Found at i:10635731 original size:298 final size:298
Alignment explanation
Indices: 10635190--10635768 Score: 1077
Period size: 298 Copynumber: 1.9 Consensus size: 298
10635180 TTTTAGTCAT
* *
10635190 TAAATTAAAATTTTATCTTTTTGTTTTGGGCTTCTGTTTTTCCATATTTATGATTTAATCATTGT
1 TAAAATAAAATTTTATCTTTTTGTTTTGAGCTTCTGTTTTTCCATATTTATGATTTAATCATTGT
* *
10635255 TTTTATTTATACACATTTTTGGGTAAATATCTGATTTAGTCCCTATTATTTTAGTGGTTTCCATT
66 TTTTATTCATACACATATTTGGGTAAATATCTGATTTAGTCCCTATTATTTTAGTGGTTTCCATT
* *
10635320 TTAAACATTAATAGTGATAAGGGTTAAATTACAATTCCAGTACTTATTTTGCATGTTAGTCTTAT
131 TTAAACATTAATAGCGATAAGGGTTAAATTACAATTCCAATACTTATTTTGCATGTTAGTCTTAT
10635385 TTATGGCCATAATTTTCGTTTTGTTTACAATTTAGTCCCCAAATTTAAATTTAAATTTTGAATAA
196 TTATGGCCATAATTTTCGTTTTGTTTACAATTTAGTCCCCAAATTTAAATTTAAATTTTGAATAA
10635450 TGTACATATTTATAAATTTATATTTATAAATTTATTAC
261 TGTACATATTTATAAATTTATATTTATAAATTTATTAC
10635488 TAAAATAAAATTTTATCTTTTTGTTTTGAGCTTCTGTTTTTCCATATTTATGATTTAATCATTGT
1 TAAAATAAAATTTTATCTTTTTGTTTTGAGCTTCTGTTTTTCCATATTTATGATTTAATCATTGT
*
10635553 TTTTATTCATACACATATTTGGGTAAATATCTGATTTAGTCCCTATTATTTTAGTGGTTTTCATT
66 TTTTATTCATACACATATTTGGGTAAATATCTGATTTAGTCCCTATTATTTTAGTGGTTTCCATT
10635618 TTAAACATTAATAGCGATAAGGGTTAAATTACAATTCCAATACTTATTTTGCATGTTAGTCTTAT
131 TTAAACATTAATAGCGATAAGGGTTAAATTACAATTCCAATACTTATTTTGCATGTTAGTCTTAT
* *
10635683 TTATGGCCATAATTTTTGTTTTGTTTACATTTTAGTCCCCAAATTTAAATTTAAATTTTGAATAA
196 TTATGGCCATAATTTTCGTTTTGTTTACAATTTAGTCCCCAAATTTAAATTTAAATTTTGAATAA
10635748 TGTACATATTTATAAATTTAT
261 TGTACATATTTATAAATTTAT
10635769 TACTAAAATA
Statistics
Matches: 272, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
298 272 1.00
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (298 bp):
TAAAATAAAATTTTATCTTTTTGTTTTGAGCTTCTGTTTTTCCATATTTATGATTTAATCATTGT
TTTTATTCATACACATATTTGGGTAAATATCTGATTTAGTCCCTATTATTTTAGTGGTTTCCATT
TTAAACATTAATAGCGATAAGGGTTAAATTACAATTCCAATACTTATTTTGCATGTTAGTCTTAT
TTATGGCCATAATTTTCGTTTTGTTTACAATTTAGTCCCCAAATTTAAATTTAAATTTTGAATAA
TGTACATATTTATAAATTTATATTTATAAATTTATTAC
Found at i:10636191 original size:17 final size:16
Alignment explanation
Indices: 10636162--10636203 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
10636152 AATGTAGATC
10636162 AATT-TTTTATCTTTTAA
1 AATTATTTTATC-TTT-A
10636179 AATTATTTT-TCTTTA
1 AATTATTTTATCTTTA
10636194 AATTATTTTA
1 AATTATTTTA
10636204 AAAGGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.43
16 3 0.13
17 6 0.26
18 4 0.17
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTATTTTATCTTTA
Found at i:10637319 original size:75 final size:75
Alignment explanation
Indices: 10637229--10637371 Score: 214
Period size: 75 Copynumber: 1.9 Consensus size: 75
10637219 ACCATAAACG
**
10637229 AATTTCAAGACTCAAACCACAATATTAAGTCTAAAACAATAAAATTTATAAACAAATCACAATAT
1 AATTTCAAGACTCAAACCACAATATTAAGTCTAAAACAATAAAATCCATAAACAAATCACAATAT
10637294 TAAAATGTCA
66 TAAAATGTCA
* * * * * *
10637304 AATTTCAAGATTCAAACCACAATATTAATTCTACAACAATAAAATCCATAAATAAATCATAATGT
1 AATTTCAAGACTCAAACCACAATATTAAGTCTAAAACAATAAAATCCATAAACAAATCACAATAT
10637369 TAA
66 TAA
10637372 GTCTAAAACA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (75 bp):
AATTTCAAGACTCAAACCACAATATTAAGTCTAAAACAATAAAATCCATAAACAAATCACAATAT
TAAAATGTCA
Found at i:10637394 original size:75 final size:75
Alignment explanation
Indices: 10637240--10637394 Score: 161
Period size: 75 Copynumber: 2.1 Consensus size: 75
10637230 ATTTCAAGAC
** * *
10637240 TCAAACCACAATATTAAGTCTAAAACAATAAAATTTATAAACAAATCACAATATTAAAATGTCAA
1 TCAAACCACAATATTAAGTCTAAAACAATAAAATCCATAAACAAATCACAATATTAAAATCTAAA
** *
10637305 ATTTCAAGAT
66 AAATCAAAAT
* * * * * *
10637315 TCAAACCACAATATTAATTCTACAACAATAAAATCCATAAATAAATCATAATGTT-AAGTCTAAA
1 TCAAACCACAATATTAAGTCTAAAACAATAAAATCCATAAACAAATCACAATATTAAAATCTAAA
10637379 ACAAT-AAAAT
66 A-AATCAAAAT
10637389 GTCAAA
1 -TCAAA
10637395 ATTACCCATC
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
74 11 0.17
75 54 0.83
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (75 bp):
TCAAACCACAATATTAAGTCTAAAACAATAAAATCCATAAACAAATCACAATATTAAAATCTAAA
AAATCAAAAT
Found at i:10644896 original size:21 final size:21
Alignment explanation
Indices: 10644872--10644911 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10644862 TACAAAATAT
*
10644872 ATAACTTTTTAAGTGAAAACG
1 ATAACATTTTAAGTGAAAACG
*
10644893 ATAACATTTTAAGTTAAAA
1 ATAACATTTTAAGTGAAAA
10644912 TCTAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (21 bp):
ATAACATTTTAAGTGAAAACG
Found at i:10645691 original size:42 final size:43
Alignment explanation
Indices: 10645619--10645700 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
10645609 CCTATTCAAC
** *
10645619 AATTCTCTTCATGAAAAGATTAAATTCTTTCATGAAAAGATTA
1 AATTCTCTTCATGAAAAGATTAAACCCTTTCATCAAAAGATTA
* *
10645662 AATTCT-TTCATGAAAAGTTTAAGCCCTTTCATCAAAAGA
1 AATTCTCTTCATGAAAAGATTAAACCCTTTCATCAAAAGA
10645701 GAAGTCTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 28 0.82
43 6 0.18
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (43 bp):
AATTCTCTTCATGAAAAGATTAAACCCTTTCATCAAAAGATTA
Found at i:10645693 original size:21 final size:21
Alignment explanation
Indices: 10645619--10645683 Score: 112
Period size: 21 Copynumber: 3.0 Consensus size: 21
10645609 CCTATTCAAC
10645619 AATTCTCTTCATGAAAAGATTA
1 AATTCT-TTCATGAAAAGATTA
10645641 AATTCTTTCATGAAAAGATTA
1 AATTCTTTCATGAAAAGATTA
*
10645662 AATTCTTTCATGAAAAGTTTA
1 AATTCTTTCATGAAAAGATTA
10645683 A
1 A
10645684 GCCCTTTCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 36 0.86
22 6 0.14
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (21 bp):
AATTCTTTCATGAAAAGATTA
Found at i:10645725 original size:21 final size:21
Alignment explanation
Indices: 10645692--10645762 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
10645682 AAGCCCTTTC
10645692 ATCAAAA-GAGAAGTCTTTTA
1 ATCAAAAGGAGAAGTCTTTTA
10645712 ATCAAAAGGAGAAGTCTTTTA
1 ATCAAAAGGAGAAGTCTTTTA
** * *
10645733 ATCAAAAGGTTAAGTATTTTC
1 ATCAAAAGGAGAAGTCTTTTA
10645754 ATCAAAAGG
1 ATCAAAAGG
10645763 TCTTAACCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 7 0.15
21 39 0.85
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.30
Consensus pattern (21 bp):
ATCAAAAGGAGAAGTCTTTTA
Found at i:10647378 original size:16 final size:16
Alignment explanation
Indices: 10647359--10647389 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10647349 ATTTAAAAAC
10647359 TTATTTAATTATTCCG
1 TTATTTAATTATTCCG
10647375 TTATTTAATTATTCC
1 TTATTTAATTATTCC
10647390 AAATTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATTTAATTATTCCG
Found at i:10647763 original size:18 final size:18
Alignment explanation
Indices: 10647740--10647788 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
10647730 CCTTTATATC
10647740 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
10647758 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
*
10647776 TAGAATAGTCACA
1 TAGAATAGGCACA
10647789 CTTGTATAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (18 bp):
TAGAATAGGCACAAGTCT
Found at i:10648804 original size:21 final size:21
Alignment explanation
Indices: 10648780--10648832 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
10648770 TTAGATGAGT
10648780 AGTATCGATACTGATTCAATC
1 AGTATCGATACTGATTCAATC
10648801 AGTATCGATACTGATTCAATC
1 AGTATCGATACTGATTCAATC
10648822 AGTATCGATAC
1 AGTATCGATAC
10648833 CGACAAGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (21 bp):
AGTATCGATACTGATTCAATC
Found at i:10649009 original size:95 final size:95
Alignment explanation
Indices: 10648839--10649015 Score: 223
Period size: 95 Copynumber: 1.9 Consensus size: 95
10648829 ATACCGACAA
* * * * * *
10648839 GGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGAACCATCGAATTTAATTTTTGTATCG
1 GGTAGTATCGATACCATGATAAGGAGTATCGATACCAAGAAACATCGAACTAAAATTATGTATCG
*
10648904 ACACCGGAAGGGGGTATCCGGACCATAGTAT
66 ACACCAGAA-GGGGTATCCGGACCATAGTAT
* * *
10648935 GGTAGTATCGATACCATGGTAA-GAGTATCGATACTAGGAAACATCGAACCTAAAATTAT-TATC
1 GGTAGTATCGATACCATGATAAGGAGTATCGATACCAAGAAACATCGAA-CTAAAATTATGTATC
*
10648998 GATACCAGAAGGGGTATC
65 GACACCAGAAGGGGTATC
10649016 GATACCATTG
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
94 8 0.12
95 34 0.49
96 27 0.39
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (95 bp):
GGTAGTATCGATACCATGATAAGGAGTATCGATACCAAGAAACATCGAACTAAAATTATGTATCG
ACACCAGAAGGGGTATCCGGACCATAGTAT
Found at i:10649878 original size:68 final size:68
Alignment explanation
Indices: 10649769--10650051 Score: 397
Period size: 68 Copynumber: 4.2 Consensus size: 68
10649759 GATTAATAGA
* * *
10649769 CCTAACCGTGCTTATGACA-ACAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGTCATT
1 CCTAACTGTGCTTATGACAGA-AAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
10649833 GAGG
65 GAGG
* *
10649837 CCTAACTGTGCTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAAGCTAAGTGCCTTTG
1 CCTAACTGTGCTTATGACAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
*
10649902 AGA
66 AGG
* * * *
10649905 CCTAACTGTGCTTATGACAGAAAGGTGTCATTTAAGACATTTAGATGAAAGGTTAAGTGCCTTTG
1 CCTAACTGTGCTTATGACAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
10649970 AGG
66 AGG
* * * * * *
10649973 CCCAACTATGCTTATGATAAAAAGGTGTCATATAAGCCAGTTAGATAAAAGGCTATGTGCCTTTG
1 CCTAACTGTGCTTATGACAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
10650038 AGG
66 AGG
*
10650041 CCTAATTGTGC
1 CCTAACTGTGC
10650052 AATTTTTAGA
Statistics
Matches: 190, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 189 0.99
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (68 bp):
CCTAACTGTGCTTATGACAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGG
Found at i:10650085 original size:136 final size:136
Alignment explanation
Indices: 10649766--10650107 Score: 379
Period size: 136 Copynumber: 2.5 Consensus size: 136
10649756 AAGGATTAAT
* ** * *
10649766 AGACCTAACCGTGCTTATGACA-ACAAGGTGTC-ATATAAGCCAGTTAGATGAAAGGCTAAGTGT
1 AGACCTAACTGTGCTTATGACAGA-AAGGTACCAAT-TAAGCCAGTTAGATGAAAGGTTAAGTGC
* * * *
10649829 CATTGAGGCCTAACTGTGCTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAAGCTAAG
64 CATTGAGGCCCAACTATGCTTATGACAAAAAGGTGTCATATAAGCCAGTTAGATGAAAAGCTAAG
10649894 TGCCTTTG
129 TGCCTTTG
** * * * *
10649902 AGACCTAACTGTGCTTATGACAGAAAGGTGTCATTTAAGACATTTAGATGAAAGGTTAAGTGCCT
1 AGACCTAACTGTGCTTATGACAGAAAGGTACCAATTAAGCCAGTTAGATGAAAGGTTAAGTGCCA
* *
10649967 TTGAGGCCCAACTATGCTTATGATAAAAAGGTGTCATATAAGCCAGTTAGAT-AAAAGGCTATGT
66 TTGAGGCCCAACTATGCTTATGACAAAAAGGTGTCATATAAGCCAGTTAGATGAAAA-GCTAAGT
10650031 GCCTTTG
130 GCCTTTG
* * ** * * * *
10650038 AGGCCTAATTGTGCAATT-T-TTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATAC
1 AGACCTAACTGTGC--TTATGACAGAAAGGTACCAATTAAGCCAGTTAGATGAAAGGTTAAGTGC
10650101 CATTGAG
64 CATTGAG
10650108 TACAACAATA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
135 4 0.02
136 165 0.95
137 3 0.02
138 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (136 bp):
AGACCTAACTGTGCTTATGACAGAAAGGTACCAATTAAGCCAGTTAGATGAAAGGTTAAGTGCCA
TTGAGGCCCAACTATGCTTATGACAAAAAGGTGTCATATAAGCCAGTTAGATGAAAAGCTAAGTG
CCTTTG
Found at i:10650177 original size:81 final size:81
Alignment explanation
Indices: 10650039--10650819 Score: 1100
Period size: 81 Copynumber: 9.6 Consensus size: 81
10650029 GTGCCTTTGA
* ** *
10650039 GGCCTAATTGTGCAATTTTTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* *
10650104 TGAGTACAACAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
10650120 GGTCTAATTGTGCAATTGGTAGAAAGGTACCAATTATGCCAATTAGGTGAACGGTTAAGTACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
10650185 TGAGGAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
10650201 GGCCTAACTGTGTAATTGGTAGAAAGGTACTAATTATGCCAGTTAAATGAACAGTTTAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
10650266 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
10650282 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
10650347 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAATAAT
* * * *
10650363 GGTCTAATTGTGCAATTGGTAGAAAGGTACCAATTATGCCACTTAGATAAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
10650428 TGAGT-AAGGTAATAAT
66 TGAGTAAAAG-AATAAT
* * * * *
10650444 GGCCTAACTATGCAATTGGTAGAAAGTTTCCAATTATGCCAGTTAGATGAACTGTTAAATACCGC
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
10650509 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
10650525 GGCCTAACTATGCAATTGGTATAAAGGTGCCAATTATGCTAGTTAGATGAACGGTTTAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
10650590 TGAGTAAAGGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
10650606 GGCCTAACTGTGCAATTGGTAGAAAGTTTCCAATTATGGCAGTTAGATGAACTGTTAAATACCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
10650671 TGAGTAAAAGATTAAT
66 TGAGTAAAAGAATAAT
* * *
10650687 GGCGTAACTGTGCAATTGGTAGAAAGGTACCAATTATGTCAGTTAGATGAAAC-GTTTAATACCG
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATG-AACGGTTAAATACCG
10650751 TTGAGT-AAAGAAATAAT
65 TTGAGTAAAAG-AATAAT
** *
10650768 GGCCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAATTAGATGAAC
1 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAAC
10650820 AATTAAACGC
Statistics
Matches: 622, Mismatches: 74, Indels: 9
0.88 0.10 0.01
Matches are distributed among these distances:
80 10 0.02
81 606 0.97
82 6 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:10654717 original size:95 final size:94
Alignment explanation
Indices: 10654561--10654783 Score: 270
Period size: 94 Copynumber: 2.4 Consensus size: 94
10654551 TAATACAATC
* * * * * *
10654561 AGTATCGATACCATGATAAGGGGTATCGATACCAAGCAACATCGAATCTAATTTTTGTATCAATA
1 AGTATCGATACCATGGTAA-GAGTATCGATACTAAGCAACATCGAACCTAAATTATGTATCAATA
* *
10654626 CCAGAAAGGGGTATCAGTAGCATAGTATGGT
65 CCAG-AAGGGGTATCAATACCATAGTATGGT
*
10654657 AGTATCGATACCATGGTAAGAGTATCGATACTAGGCAACATCGAACCTAAAATTAT-TATCAATA
1 AGTATCGATACCATGGTAAGAGTATCGATACTAAGCAACATCGAACCT-AAATTATGTATCAATA
**
10654721 CCAGAAGGGGTATCAATACCATAGTATTTT
65 CCAGAAGGGGTATCAATACCATAGTATGGT
* * *
10654751 AGTATCGGTACTAGGGT-AGTAGTATCGATACTA
1 AGTATCGATACCATGGTAAG-AGTATCGATACTA
10654784 TAGAGCCAGA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
93 2 0.02
94 49 0.44
95 37 0.33
96 23 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (94 bp):
AGTATCGATACCATGGTAAGAGTATCGATACTAAGCAACATCGAACCTAAATTATGTATCAATAC
CAGAAGGGGTATCAATACCATAGTATGGT
Found at i:10655730 original size:68 final size:68
Alignment explanation
Indices: 10655432--10655715 Score: 406
Period size: 68 Copynumber: 4.2 Consensus size: 68
10655422 GTATTAATAA
* ** *
10655432 GCCTAATTGTGCTTATGGCAGAAAGGTGTCATATAAGCCATTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCTTATGAAAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
10655497 GCG
66 GAG
* * * * * *
10655500 GCTTAACTGTGCTTATGAAAGAAATGAGTCATTTAAGCTAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCTTATGAAAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
10655565 GAG
66 GAG
* * * *
10655568 GCCTAACTGTGCTTATGATAGAAATGTGTCATTTAAGCTAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCTTATGAAAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
10655633 GAG
66 GAG
* *
10655636 GCCTAATTGTGCTTATGAAAGAAAGGTGTCATATAAGCCAATTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCTTATGAAAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
10655701 GAG
66 GAG
*
10655704 GCCTATCTGTGC
1 GCCTAACTGTGC
10655716 AATTGGTAGA
Statistics
Matches: 193, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 193 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (68 bp):
GCCTAACTGTGCTTATGAAAGAAAGGTGTCATATAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:10655749 original size:68 final size:68
Alignment explanation
Indices: 10655432--10655753 Score: 380
Period size: 68 Copynumber: 4.7 Consensus size: 68
10655422 GTATTAATAA
* ** *
10655432 GCCTAATTGTGCTTATGGCAGAAAGGTGTC-ATATAAGCCATTTAGATGAAAGGCTAAGTGCCTT
1 GCCTAACTGTGCTTATGAAAGAAAGGTGTCAAT-TAAGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
10655496 TGCG
65 TGAG
* * * * * *
10655500 GCTTAACTGTGCTTATGAAAGAAATGAGTCATTTAAGCTAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCTTATGAAAGAAAGGTGTCAATTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
10655565 GAG
66 GAG
* * * *
10655568 GCCTAACTGTGCTTATGATAGAAATGTGTCATTTAAGCTAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCTTATGAAAGAAAGGTGTCAATTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
10655633 GAG
66 GAG
* *
10655636 GCCTAATTGTGCTTATGAAAGAAAGGTGTC-ATATAAGCCAATTAGATGAAAGGCTAAGTGCCTT
1 GCCTAACTGTGCTTATGAAAGAAAGGTGTCAAT-TAAGCCAGTTAGATGAAAGGCTAAGTGCCTT
10655700 TGAG
65 TGAG
* * ** ** *
10655704 GCCTATCTGTGC-AATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAA
1 GCCTAACTGTGCTTA-TGAAAGAAAGGTGTCAATTAAGCCAGTTAGATGAA
10655754 CAGTTAAAGA
Statistics
Matches: 220, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
67 2 0.01
68 215 0.98
69 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCTTATGAAAGAAAGGTGTCAATTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:10655798 original size:64 final size:64
Alignment explanation
Indices: 10655717--10655845 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
10655707 TATCTGTGCA
*
10655717 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACAGTTAAAGA-TCGTTGAGTAAAAGAAT
1 ATTGGTAGAAAGGTACCAATTATGCCAATTAGATGAACAGTTAAAGACT-GTTGAGTAAAAGAAT
* * *
10655781 ATTGGTAGAAAGGTACCAATTATGCCAATTAGATGAACGGTTAAATACTGTTGAGTAAACGAAT
1 ATTGGTAGAAAGGTACCAATTATGCCAATTAGATGAACAGTTAAAGACTGTTGAGTAAAAGAAT
10655845 A
1 A
10655846 ATGGCCTAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 59 0.98
65 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (64 bp):
ATTGGTAGAAAGGTACCAATTATGCCAATTAGATGAACAGTTAAAGACTGTTGAGTAAAAGAAT
Found at i:10655917 original size:81 final size:80
Alignment explanation
Indices: 10655781--10656385 Score: 818
Period size: 81 Copynumber: 7.5 Consensus size: 80
10655771 GTAAAAGAAT
*
10655781 ATTGGTAGAAAGGTACCAATTATGCCAATTAGATGAACGGTTAAATACTGTTGAGTAAACGAATA
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAA-GAATA
*
10655846 ATGGCCTAACTATGCA
65 ATGGCCTAACTGTGCA
* ** * *
10655862 TTTGGTAGAAATATACCAATTATGCCAGTTAGATGAACGGTTTAATACTGTTGAGTACAGGAATA
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTA-AAGAATA
10655927 ATGGCCTAACTGTGCA
65 ATGGCCTAACTGTGCA
* * * *
10655943 ATTGCTAGAAAGGTACCAATTATGCCAGTTAGATGGATGGTTAAATACCGTTGAGTAAAAGAATA
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGT-AAAGAATA
*
10656008 ATGACCTAACTGTGCA
65 ATGGCCTAACTGTGCA
* *
10656024 ATTGGTAGAAAGGTACCAATTATACCAGTTAGATGAACGGTTAAATA-TCGTTGAGCAAAAGAAT
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACT-GTTGAG-TAAAGAAT
*
10656088 ACTGGCCTAACTGTGCA
64 AATGGCCTAACTGTGCA
* * * *
10656105 ATTGGTTGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTTAATACCGTTGAATAAAGGAATA
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAA-GAATA
10656170 ATGGCCTAACTGTGCA
65 ATGGCCTAACTGTGCA
* * * * * *
10656186 ATTGCTAGAAATGTACCAATTATGCCAGTGAGATGAATGATTAAATACCGTTGAGTAATAGAATA
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAA-AGAATA
*
10656251 ATGGCCTAACTATGCA
65 ATGGCCTAACTGTGCA
* * *
10656267 ATTGGTAGAATGGTACCAATTATGCCAGTTAGATGAACGGTTTAATTCCT-TTGAGTAAAGAAAT
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGG-TTAAATACTGTTGAGTAAAG-AAT
* *
10656331 AATGGCCTAATTGTTCA
64 AATGGCCTAACTGTGCA
* *
10656348 ATTGGTAGAAAGGTGCCAATTATGCCATTTAGATGAAC
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAAC
10656386 ACTTAAACAA
Statistics
Matches: 459, Mismatches: 56, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
80 5 0.01
81 445 0.97
82 9 0.02
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (80 bp):
ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAGAATAA
TGGCCTAACTGTGCA
Found at i:10656209 original size:243 final size:242
Alignment explanation
Indices: 10655781--10656385 Score: 908
Period size: 243 Copynumber: 2.5 Consensus size: 242
10655771 GTAAAAGAAT
* *
10655781 ATTGGTAGAAAGGTACCAATTATGCCAATTAGATGAACGGTTAAATA-CTGTTGAGTAAACGAAT
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATATC-GTTGAG-AAAAGAAT
* * **
10655845 AATGGCCTAACTATGCATTTGGTAGAAATATACCAATTATGCCAGTTAGATGAACGGTTTAATAC
64 AATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTTAATAC
* * * *
10655910 TGTTGAGTACAGGAATAATGGCCTAACTGTGCAATTGCTAGAAAGGTACCAATTATGCCAGTTAG
129 CGTTGAATAAAGGAATAATGGCCTAACTGTGCAATTGCTAGAAAGGTACCAATTATGCCAGTGAG
* * *
10655975 ATGGATGGTTAAATACCGTTGAGTAAAAGAATAATGACCTAACTGTGCA
194 ATGAATGATTAAATACCGTTGAGTAAAAGAATAATGACCTAACTATGCA
*
10656024 ATTGGTAGAAAGGTACCAATTATACCAGTTAGATGAACGGTTAAATATCGTTGAGCAAAAGAATA
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATATCGTTGAG-AAAAGAATA
* *
10656089 CTGGCCTAACTGTGCAATTGGTTGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTTAATACC
65 ATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTTAATACC
*
10656154 GTTGAATAAAGGAATAATGGCCTAACTGTGCAATTGCTAGAAATGTACCAATTATGCCAGTGAGA
130 GTTGAATAAAGGAATAATGGCCTAACTGTGCAATTGCTAGAAAGGTACCAATTATGCCAGTGAGA
* *
10656219 TGAATGATTAAATACCGTTGAGTAATAGAATAATGGCCTAACTATGCA
195 TGAATGATTAAATACCGTTGAGTAAAAGAATAATGACCTAACTATGCA
* * * *
10656267 ATTGGTAGAATGGTACCAATTATGCCAGTTAGATGAACGGTTTAAT-TCCTTTGAGTAAAGAAAT
1 ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATAT-CGTTGAGAAAAG-AAT
* * * *
10656331 AATGGCCTAATTGTTCAATTGGTAGAAAGGTGCCAATTATGCCATTTAGATGAAC
64 AATGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAAC
10656386 ACTTAAACAA
Statistics
Matches: 328, Mismatches: 31, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
242 5 0.02
243 322 0.98
244 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (242 bp):
ATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATATCGTTGAGAAAAGAATAA
TGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTTAATACCG
TTGAATAAAGGAATAATGGCCTAACTGTGCAATTGCTAGAAAGGTACCAATTATGCCAGTGAGAT
GAATGATTAAATACCGTTGAGTAAAAGAATAATGACCTAACTATGCA
Found at i:10679760 original size:55 final size:54
Alignment explanation
Indices: 10679592--10680116 Score: 376
Period size: 55 Copynumber: 9.6 Consensus size: 54
10679582 AATCAAATCA
* * * * * * ***
10679592 ATTGTTCGAGTCCTATACTCCTTGAAAGAATAAGGAGTGGACCCATTTACCAAAG
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGAGGACCCGTTT-TTGAAG
** * ** * *
10679647 ATTGTTTTAGTCCTATACTCCCT-AAAAAAGATAGAGCA-GACCTGTTTGCTGAAG
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAG-AGGACCCGTTT-TTGAAG
* * * *
10679701 ATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGAGAACACGTTTGTTGAAG
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGAGGACCCGTTT-TTGAAG
* * * * * * *
10679756 ATTGTTCGAGTCTTATAATCCCTTAAAGAAGAGGGAGCA-GACACATTTGCTGAAG
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAG-AGGACCCGTTT-TTGAAG
* * *
10679811 ATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCA-GACCCATTTTTCGAAT
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAG-AGGACCCGTTTTT-GAAG
* ** * **
10679866 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAATGAGCGGACATGTTTTTCGAAG
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGAGGACCCGTTTTT-GAAG
* * * * * * * * *
10679921 AATGTTTAAGTCCTTTAGTCCTTGACAGAA-AGAGGAGCGGACCCATTTTTCAAAG
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAG-GGAGAGGACCCGTTTTT-GAAG
* * * * * *
10679976 ATTTTTCAAGTCCTATACTCCCTGAAAGAAGATGGAGCGAACCCGTTTTCCGAAT
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGAGGACCCGTTTT-TGAAG
* * * * *
10680031 ATTATTTCAAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACCTGCTTTTCGAAG
1 ATT-GTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGAGGACCCG-TTTTTGAAG
*
10680087 ATTTTTCAAGTCCTATACTCCCTGAAAGAA
1 ATTGTTCAAGTCCTATACTCCCTGAAAGAA
10680117 AATAGAGCAG
Statistics
Matches: 385, Mismatches: 74, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
54 43 0.11
55 291 0.76
56 47 0.12
57 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (54 bp):
ATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGAGGACCCGTTTTTGAAG
Found at i:10679894 original size:110 final size:110
Alignment explanation
Indices: 10679592--10680128 Score: 521
Period size: 110 Copynumber: 4.9 Consensus size: 110
10679582 AATCAAATCA
* * * ** * **
10679592 ATTGTTCGAGTCCTATACTCCTTGAAAGAATAAGGAGTGGACCCATTTACCAAAGATTGTTTTAG
1 ATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCAAG
* *
10679657 TCCTATACTCCCT-AAAAAAGATAGAGCAGAC-CTGTTTGCTGAAG
66 TCCTATACTCCCTGAAAGAAGATGGAGCAGACAC-GTTTGCTGAAG
* * * * *
10679701 ATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGAGAACACGTTTGTT-GAAGATTGTTCGA
1 ATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCGGACCCATTT-TTCGAAGATTGTTCAA
* * * * *
10679765 GTCTTATAATCCCTTAAAGAAGAGGGAGCAGACACATTTGCTGAAG
65 GTCCTATACTCCCTGAAAGAAGATGGAGCAGACACGTTTGCTGAAG
* * *
10679811 ATTGTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTCGAATATTGTTCAAG
1 ATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCAAG
* * * *
10679876 TCCTATACTCCTTGAAAGAAGAAT-GAGCGGACATGTTT-TTCGAAG
66 TCCTATACTCCCTGAAAGAAG-ATGGAGCAGACACGTTTGCT-GAAG
* ** * * * * *
10679921 AATGTTTAAGTCCTTTAGTCCTTGACAGAA-AGAGGAGCGGACCCATTTTTCAAAGATTTTTCAA
1 ATTGTTCGAGTCCTATACTCCTTGAAAGAAGAG-GGAGCGGACCCATTTTTCGAAGATTGTTCAA
* * * *
10679985 GTCCTATACTCCCTGAAAGAAGATGGAGC-GAACCCGTTTTCCGAAT
65 GTCCTATACTCCCTGAAAGAAGATGGAGCAG-ACACGTTTGCTGAAG
* * * * *** *
10680031 ATTATTTCAAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACCTGCTTTTCGAAGATTTTTCAA
1 ATT-GTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCAA
* *
10680096 GTCCTATACTCCCTGAAAGAAAATAGAGCAGAC
65 GTCCTATACTCCCTGAAAGAAGATGGAGCAGAC
10680129 CCATCTTCCA
Statistics
Matches: 351, Mismatches: 64, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
109 72 0.21
110 197 0.56
111 79 0.23
112 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (110 bp):
ATTGTTCGAGTCCTATACTCCTTGAAAGAAGAGGGAGCGGACCCATTTTTCGAAGATTGTTCAAG
TCCTATACTCCCTGAAAGAAGATGGAGCAGACACGTTTGCTGAAG
Found at i:10680173 original size:166 final size:165
Alignment explanation
Indices: 10679600--10680145 Score: 482
Period size: 165 Copynumber: 3.3 Consensus size: 165
10679590 CAATTGTTCG
* * ** *
10679600 AGTCCTATACTCCTTGAAAGAATA-AGGAGTGGACCCAT-TTACCAAAGATTGTTT-TAGTCCTA
1 AGTCCTATACTCCCTGAAAGAA-AGAAGAGCAGACCCATCTT-CCAAAGATT-TTTCAAGTCCTA
* * ** * * * * *
10679662 TACTCCCT-AAAAAAGATAGAGCAGACCTGTTTGCTGAAGATTGTTCGAGTCCTATACTCCTTGA
63 TACTCCCTGAAAGAAGATGGAGCAGACCCATTTTCCGAATATTGTTCAAGTCCTATACTCCCTGA
* * * * * * **
10679726 AAGAAGAGGGAGAGAACACG-TTTGTTGAAGATTGTTCG
128 AAGAAGAAGGAGCGGACATGCTTT-TCGAAGAATGTTTA
* * * * * ** * *
10679764 AGTCTTATAATCCCTTAAAG-AAGAGGGAGCAGACACAT-TTGCTGAAGATTGTTCGAGTCCTAT
1 AGTCCTATACTCCCTGAAAGAAAGA-AGAGCAGACCCATCTT-CCAAAGATTTTTCAAGTCCTAT
* * *
10679827 ACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTCGAATATTGTTCAAGTCCTATACTCCTTGAA
64 ACTCCCTGAAAGAAGATGGAGCAGACCCATTTTCCGAATATTGTTCAAGTCCTATACTCCCTGAA
* *
10679892 AGAAGAATGAGCGGACATGTTTTTCGAAGAATGTTTA
129 AGAAGAAGGAGCGGACATGCTTTTCGAAGAATGTTTA
* * * * * * * *
10679929 AGTCCTTTAGTCCTTGACAGAAAGAGGAGCGGACCCATTTTTCAAAGATTTTTCAAGTCCTATAC
1 AGTCCTATACTCCCTGAAAGAAAGAAGAGCAGACCCATCTTCCAAAGATTTTTCAAGTCCTATAC
* *
10679994 TCCCTGAAAGAAGATGGAGC-GAACCCGTTTTCCGAATATTATTTCAAGTCCTATACTCCCTGAA
66 TCCCTGAAAGAAGATGGAGCAG-ACCCATTTTCCGAATATT-GTTCAAGTCCTATACTCCCTGAA
* * * *
10680058 AGAATAGGGAGCGGACCTGCTTTTCGAAG-ATTTTTCA
129 AGAAGAAGGAGCGGACATGCTTTTCGAAGAATGTTT-A
10680095 AGTCCTATACTCCCTGAAAGAAA-ATAGAGCAGACCCATCTTCCAAAGATTT
1 AGTCCTATACTCCCTGAAAGAAAGA-AGAGCAGACCCATCTTCCAAAGATTT
10680146 CTTGAGTCTG
Statistics
Matches: 308, Mismatches: 63, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
162 1 0.00
163 4 0.01
164 51 0.17
165 156 0.51
166 96 0.31
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (165 bp):
AGTCCTATACTCCCTGAAAGAAAGAAGAGCAGACCCATCTTCCAAAGATTTTTCAAGTCCTATAC
TCCCTGAAAGAAGATGGAGCAGACCCATTTTCCGAATATTGTTCAAGTCCTATACTCCCTGAAAG
AAGAAGGAGCGGACATGCTTTTCGAAGAATGTTTA
Found at i:10682798 original size:3 final size:3
Alignment explanation
Indices: 10682792--10682816 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10682782 TAATATTTAT
10682792 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
10682817 CTCGTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10683585 original size:29 final size:28
Alignment explanation
Indices: 10683514--10683596 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
10683504 GCACGTAGGG
* *
10683514 GTAGGTCGCCATGCACGCCCAGCTACCT
1 GTAGGTCGCCATGCACGCCCAGCGACAT
*
10683542 GTAGGTCGCCATGCACGCCCCGCGACAT
1 GTAGGTCGCCATGCACGCCCAGCGACAT
* * *
10683570 GCTAGGTTGTCATGCACGCCCGGCGAC
1 G-TAGGTCGCCATGCACGCCCAGCGAC
10683597 CAAGCCTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 26 0.54
29 22 0.46
ACGTcount: A:0.17, C:0.37, G:0.29, T:0.17
Consensus pattern (28 bp):
GTAGGTCGCCATGCACGCCCAGCGACAT
Found at i:10683853 original size:19 final size:19
Alignment explanation
Indices: 10683802--10683853 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
10683792 CGCATGGATC
*
10683802 AGAAGAAAGAAA-GAAAGGG
1 AGAAG-AAGAAAGGAAAGGA
10683821 AGAAGAGAGAAAGGAAAGGA
1 AGAAGA-AGAAAGGAAAGGA
10683841 AGAAGAAGAAAGG
1 AGAAGAAGAAAGG
10683854 GAGATAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 17 0.57
20 12 0.40
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (19 bp):
AGAAGAAGAAAGGAAAGGA
Found at i:10683999 original size:21 final size:21
Alignment explanation
Indices: 10683974--10684017 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10683964 AATTTAGTTA
10683974 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
10683995 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
10684016 AT
1 AT
10684018 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:10684097 original size:50 final size:50
Alignment explanation
Indices: 10683991--10684094 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 50
10683981 TGTTAGTATA
* *
10683991 AATT-ATTAGTTTGTTAGTTTAAGTTATATATTATATTATATAAAAAGTT
1 AATTAATTAGTTTCTTAGTTTAAGTTATATATTATATTATAAAAAAAGTT
* *
10684040 AGTTAATTAGTTTCTTAGTTTAAG-T-TATATTATA-TGTAAAAAAA-TT
1 AATTAATTAGTTTCTTAGTTTAAGTTATATATTATATTATAAAAAAAGTT
*
10684086 ATTTAATTA
1 AATTAATTA
10684095 ATTTGTTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
46 10 0.20
47 8 0.16
48 9 0.18
49 4 0.08
50 18 0.37
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (50 bp):
AATTAATTAGTTTCTTAGTTTAAGTTATATATTATATTATAAAAAAAGTT
Found at i:10684780 original size:21 final size:21
Alignment explanation
Indices: 10684691--10684780 Score: 51
Period size: 21 Copynumber: 4.2 Consensus size: 21
10684681 ATTATTAGTA
* *
10684691 ATCATTACTAAATGATT-AGT
1 ATCATTACTAAATCATTAAAT
*
10684711 ATCA-AATCTAAATCATTAAAT
1 ATCATTA-CTAAATCATTAAAT
* * * *
10684732 AT-TTATAATAAATAATTATTAGT
1 ATCAT-TACTAAATCATTA--AAT
10684755 AATCATTACTAAATCATTAAAT
1 -ATCATTACTAAATCATTAAAT
10684777 ATCA
1 ATCA
10684781 AATCATTAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 15
0.65 0.16 0.19
Matches are distributed among these distances:
19 1 0.02
20 13 0.26
21 17 0.34
22 3 0.06
23 2 0.04
24 13 0.26
25 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (21 bp):
ATCATTACTAAATCATTAAAT
Found at i:10684794 original size:65 final size:65
Alignment explanation
Indices: 10684681--10684826 Score: 167
Period size: 65 Copynumber: 2.3 Consensus size: 65
10684671 ACTAATCATT
* * *
10684681 ATTATTAGTAATCATTACTAAATGATTAGTATCAAATCTAAATCATT-A-AATATTTATAATAAA
1 ATTATTAGTAATCATTACTAAATCATTAATATCAAATCTAAATCATTAATAATAATTAT--TAAA
10684744 TA
64 TA
* *
10684746 ATTATTAGTAATCATTACTAAATCATTAAATATCAAATC--ATTAGATTAATAATAATTATTAAA
1 ATTATTAGTAATCATTACTAAATCATT-AATATCAAATCTAAAT-CATTAATAATAATTATTAAA
*
10684809 TC
64 TA
10684811 ATTATTAGTAAT-ATTA
1 ATTATTAGTAATCATTA
10684827 GTAATCAATC
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
64 6 0.08
65 46 0.65
66 11 0.15
67 8 0.11
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (65 bp):
ATTATTAGTAATCATTACTAAATCATTAATATCAAATCTAAATCATTAATAATAATTATTAAATA
Found at i:10686442 original size:11 final size:11
Alignment explanation
Indices: 10686426--10686467 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
10686416 TTTAATTGAA
10686426 TTATTTATATT
1 TTATTTATATT
10686437 TTATTTATATT
1 TTATTTATATT
* *
10686448 CTATCTTAT-TA
1 TTAT-TTATATT
10686459 TTATTTATA
1 TTATTTATA
10686468 AATGGTCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.15
11 18 0.69
12 4 0.15
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTTATATT
Found at i:10687063 original size:21 final size:22
Alignment explanation
Indices: 10687025--10687069 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
10687015 TGATTACTAA
*
10687025 TAATGATTTATTATTAAT-ATT
1 TAATGATTTATTACTAATGATT
10687046 TAATGATTTGA-TACTAATGATT
1 TAATGATTT-ATTACTAATGATT
10687068 TA
1 TA
10687070 GTAATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
TAATGATTTATTACTAATGATT
Found at i:10687121 original size:24 final size:24
Alignment explanation
Indices: 10687060--10687153 Score: 77
Period size: 24 Copynumber: 3.9 Consensus size: 24
10687050 GATTTGATAC
* * *
10687060 TAATGATTTAGTAATGATTAGTAA
1 TAATGATTAAATAATGATTACTAA
*
10687084 TAATGA--AATTATAATAATTACTAA
1 TAATGATTAA--ATAATGATTACTAA
10687108 TAATGATTAAATAATGATTACTAGA
1 TAATGATTAAATAATGATTACTA-A
* *
10687133 -ATATAATTTAATAATGATTAC
1 TA-ATGATTAAATAATGATTAC
10687154 ATATTTAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
24 36 0.63
25 18 0.32
26 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (24 bp):
TAATGATTAAATAATGATTACTAA
Found at i:10687123 original size:59 final size:59
Alignment explanation
Indices: 10686985--10687126 Score: 148
Period size: 59 Copynumber: 2.4 Consensus size: 59
10686975 TAGTGTTTTA
* * *
10686985 ATAATGATTTTATATTTAATGATTTAGTAATGATTACTAATAATGATTTATTATTAATAT
1 ATAATGATTTGATA-ATAATGATTTAGTAATGATTACTAATAATGATTTATAATTAATAT
* * * *
10687045 TTAATGATTTGATACTAATGATTTAGTAATGATTAGTAATAATGAAATTATAA-TAATTACT
1 ATAATGATTTGATAATAATGATTTAGTAATGATTACTAATAATG-ATTTATAATTAA-TA-T
10687106 AATAATGA-TT-A-AATAATGATT
1 -ATAATGATTTGATAATAATGATT
10687127 ACTAGAATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
59 40 0.57
60 21 0.30
61 3 0.04
62 6 0.09
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (59 bp):
ATAATGATTTGATAATAATGATTTAGTAATGATTACTAATAATGATTTATAATTAATAT
Found at i:10687231 original size:22 final size:22
Alignment explanation
Indices: 10687203--10687246 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10687193 AAATAGTTGA
*
10687203 ATTTATAACTAGTCGAATTTAT
1 ATTTATAAATAGTCGAATTTAT
10687225 ATTTATAAATAGTCGAATTTAT
1 ATTTATAAATAGTCGAATTTAT
10687247 TCTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (22 bp):
ATTTATAAATAGTCGAATTTAT
Found at i:10687246 original size:16 final size:16
Alignment explanation
Indices: 10687186--10687225 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10687176 ATTTAAATCA
*
10687186 AATTTATAAATAGTTG
1 AATTTATAAATAGTCG
*
10687202 AATTTATAACTAGTCG
1 AATTTATAAATAGTCG
10687218 AATTTATA
1 AATTTATA
10687226 TTTATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (16 bp):
AATTTATAAATAGTCG
Found at i:10689948 original size:39 final size:38
Alignment explanation
Indices: 10689880--10689977 Score: 144
Period size: 39 Copynumber: 2.6 Consensus size: 38
10689870 TAATTAACAC
10689880 AAACTAATTAAATATTTTTT-ATATATAACTAACAAAA
1 AAACTAATTAAATATTTTTTAATATATAACTAACAAAA
* * *
10689917 AAACTAATTAATTATTTTTTTAATATATAACTATCAAAC
1 AAACTAATTAAATA-TTTTTTAATATATAACTAACAAAA
10689956 AAACTAATTAAATAATTTTTTA
1 AAACTAATTAAAT-ATTTTTTA
10689978 TTTATGTATG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
37 13 0.24
38 6 0.11
39 34 0.63
40 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (38 bp):
AAACTAATTAAATATTTTTTAATATATAACTAACAAAA
Found at i:10690041 original size:21 final size:21
Alignment explanation
Indices: 10689988--10690027 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10689978 TTTATGTATG
10689988 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
10690009 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
10690028 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:10690108 original size:17 final size:18
Alignment explanation
Indices: 10690079--10690112 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10690069 AACAAACTAA
10690079 TAATTTAAAATAATAAAC
1 TAATTTAAAATAATAAAC
10690097 TAATTT-AAATAATAAA
1 TAATTTAAAATAATAAA
10690113 AAATCACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATTTAAAATAATAAAC
Found at i:10695234 original size:11 final size:11
Alignment explanation
Indices: 10695194--10695254 Score: 54
Period size: 11 Copynumber: 5.3 Consensus size: 11
10695184 TATAATCATG
10695194 TTATTATTATA
1 TTATTATTATA
*
10695205 GTATTATTATA
1 TTATTATTATA
10695216 GTGCTATTATTATA
1 -T--TATTATTATA
10695230 TTATT-TT-TA
1 TTATTATTATA
10695239 TTATATATTAATA
1 TTAT-TATT-ATA
10695252 TTA
1 TTA
10695255 AAGTGTTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
9 6 0.15
10 3 0.07
11 16 0.39
13 6 0.15
14 10 0.24
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (11 bp):
TTATTATTATA
Found at i:10696014 original size:18 final size:18
Alignment explanation
Indices: 10695956--10696006 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
10695946 GGGAGTGTAT
10695956 GGGAGGGAAGGGGCAGCG
1 GGGAGGGAAGGGGCAGCG
10695974 GGGAGGGAAGGGGCAGCG
1 GGGAGGGAAGGGGCAGCG
*
10695992 GGGAGGGAAAGGGCA
1 GGGAGGGAAGGGGCA
10696007 TTGGGGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.65, T:0.00
Consensus pattern (18 bp):
GGGAGGGAAGGGGCAGCG
Found at i:10696061 original size:18 final size:17
Alignment explanation
Indices: 10696040--10696109 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 17
10696030 GAGAAGAAAG
10696040 AAAGAAAGGAAGAAGAA
1 AAAGAAAGGAAGAAGAA
*
10696057 TAAAGAAAAGAAGAAG--
1 -AAAGAAAGGAAGAAGAA
* *
10696073 GAAGAAAGGAATAAGAGA
1 AAAGAAAGGAAGAAGA-A
10696091 AAAGAGGAAGGAAGAAGAA
1 AAAGA--AAGGAAGAAGAA
10696110 GATAATAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 12 0.29
18 18 0.44
19 1 0.02
20 10 0.24
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (17 bp):
AAAGAAAGGAAGAAGAA
Found at i:10696077 original size:15 final size:15
Alignment explanation
Indices: 10696049--10696111 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
10696039 GAAAGAAAGG
**
10696049 AAGAAGAATAAAGAA
1 AAGAAGAAGGAAGAA
10696064 AAGAAGAAGGAAGAA
1 AAGAAGAAGGAAGAA
* *
10696079 AGGAATAA-G-AGAA
1 AAGAAGAAGGAAGAA
*
10696092 AAGAGGAAGGAAGAA
1 AAGAAGAAGGAAGAA
10696107 GAAGA
1 -AAGA
10696112 TAATAAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 23 0.61
16 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (15 bp):
AAGAAGAAGGAAGAA
Found at i:10696100 original size:28 final size:26
Alignment explanation
Indices: 10696036--10696106 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 26
10696026 ACATGAGAAG
10696036 AAAGAAAGAAAGGAAG-AAGAATAAAGA
1 AAAG-AAG-AAGGAAGAAAGAATAAAGA
10696063 AAAGAAGAAGGAAGAAAGGAATAAGAGA
1 AAAGAAGAAGGAAGAAA-GAATAA-AGA
*
10696091 AAAGAGGAAGGAAGAA
1 AAAGAAGAAGGAAGAA
10696107 GAAGATAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 7 0.17
26 5 0.12
27 10 0.25
28 18 0.45
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (26 bp):
AAAGAAGAAGGAAGAAAGAATAAAGA
Done.