Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000122.1 Hibiscus syriacus cultivar Beakdansim tig00000221_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: 200435
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:3112 original size:18 final size:18
Alignment explanation
Indices: 3089--3125 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3079 TCTTCAAGGG
3089 TATGCACCGATGCACCAA
1 TATGCACCGATGCACCAA
* *
3107 TATGCATCGATGCATCAA
1 TATGCACCGATGCACCAA
3125 T
1 T
3126 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (18 bp):
TATGCACCGATGCACCAA
Found at i:8926 original size:13 final size:13
Alignment explanation
Indices: 8905--8944 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
8895 TTTATATTTA
*
8905 TTTATTTTGTTCG
1 TTTAGTTTGTTCG
8918 TTTAGTTTGTTCG
1 TTTAGTTTGTTCG
8931 TTT-G--TGTTCG
1 TTTAGTTTGTTCG
8941 TTTA
1 TTTA
8945 TTCTATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 9 0.36
12 1 0.04
13 15 0.60
ACGTcount: A:0.07, C:0.07, G:0.20, T:0.65
Consensus pattern (13 bp):
TTTAGTTTGTTCG
Found at i:8956 original size:23 final size:21
Alignment explanation
Indices: 8899--8956 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
8889 CGTTTGTTTA
*
8899 TATTTATTTATTTTGTTCGTT
1 TATTTATTTGTTTTGTTCGTT
* *
8920 TAGTTTGTTCGTTTGTGTTCGTT
1 TA-TTTATTTGTTT-TGTTCGTT
8943 TATTCTATTTGTTT
1 TATT-TATTTGTTT
8957 ACATCCGTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.07
22 10 0.34
23 17 0.59
ACGTcount: A:0.10, C:0.07, G:0.16, T:0.67
Consensus pattern (21 bp):
TATTTATTTGTTTTGTTCGTT
Found at i:9994 original size:14 final size:15
Alignment explanation
Indices: 9972--10010 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
9962 AAGTTTCATC
* *
9972 GAGTTAACTCG-ATT
1 GAGTCAACTCGTATA
9986 GAGTCAACTCGTATA
1 GAGTCAACTCGTATA
10001 GAGTCAACTC
1 GAGTCAACTC
10011 ATTAACTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (15 bp):
GAGTCAACTCGTATA
Found at i:10490 original size:14 final size:16
Alignment explanation
Indices: 10454--10492 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
10444 GTGACAATTA
*
10454 TCTATGTGATTATATG
1 TCTATGTGATTATAAG
10470 TCTATGTGA-TATAAG
1 TCTATGTGATTATAAG
10485 -CTATGTGA
1 TCTATGTGA
10493 AATGTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.44
Consensus pattern (16 bp):
TCTATGTGATTATAAG
Found at i:10626 original size:23 final size:23
Alignment explanation
Indices: 10569--10639 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
10559 GAATCGAGGG
* *
10569 TTCTACACGGTCCTTCGAGACAA
1 TTCTACACGGTCCTTCGGGACAT
* *
10592 TTCCACATGGTCCTTCGGGACAT
1 TTCTACACGGTCCTTCGGGACAT
* * *
10615 TTCTACGCGGTCATTCGGGATAT
1 TTCTACACGGTCCTTCGGGACAT
10638 TT
1 TT
10640 TTATGTGGCA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (23 bp):
TTCTACACGGTCCTTCGGGACAT
Found at i:10817 original size:2 final size:2
Alignment explanation
Indices: 10810--10842 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10800 GATGATGATG
10810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10843 CATGTATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17489 original size:45 final size:46
Alignment explanation
Indices: 17430--17573 Score: 177
Period size: 45 Copynumber: 3.2 Consensus size: 46
17420 TATATTTTAT
* *
17430 GCTATATGATATTGACCTATGTGATTACATGAAAATGAT-ATATAA
1 GCTATGTGACATTGACCTATGTGATTACATGAAAATGATGATATAA
*
17475 GCTATGTGGCATTGACCTATGTGATTACATGAAAAT-ATGATATAA
1 GCTATGTGACATTGACCTATGTGATTACATGAAAATGATGATATAA
* * * * ***
17520 GCTATATGACAATGATCTATGTGATTATATGTCTATG-TGATATAA
1 GCTATGTGACATTGACCTATGTGATTACATGAAAATGATGATATAA
17565 GCTATGTGA
1 GCTATGTGA
17574 AATGTTATAA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.02
45 83 0.98
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (46 bp):
GCTATGTGACATTGACCTATGTGATTACATGAAAATGATGATATAA
Found at i:17556 original size:16 final size:15
Alignment explanation
Indices: 17535--17573 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
17525 ATGACAATGA
*
17535 TCTATGTGATTATATG
1 TCTATGTGA-TATAAG
17551 TCTATGTGATATAAG
1 TCTATGTGATATAAG
17566 -CTATGTGA
1 TCTATGTGA
17574 AATGTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.44
Consensus pattern (15 bp):
TCTATGTGATATAAG
Found at i:17689 original size:23 final size:23
Alignment explanation
Indices: 17663--17756 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 23
17653 GCGGCCCTTA
*
17663 GGGACAATTCTATATGGTCATTC
1 GGGACAATTCTATGTGGTCATTC
* * * * *
17686 GGGATATTTCTACGCGGTCTTTC
1 GGGACAATTCTATGTGGTCATTC
17709 GGGAC-ATATCTATGTGGTCATTC
1 GGGACAAT-TCTATGTGGTCATTC
* *
17732 GGCACATTTCTATGTGG-CACTTC
1 GGGACAATTCTATGTGGTCA-TTC
17755 GG
1 GG
17757 TGCAATTATA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
22 3 0.05
23 51 0.93
24 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (23 bp):
GGGACAATTCTATGTGGTCATTC
Found at i:17756 original size:46 final size:46
Alignment explanation
Indices: 17647--17743 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
17637 GAGTCGAGGG
* * * *
17647 TTCTACGCGGCCCTTAGGGACAATTCTATATGGTCATTCGGGATAT
1 TTCTACGCGGTCCTTCGGGACAATTCTATATGGTCATTCGGCACAT
* *
17693 TTCTACGCGGTCTTTCGGGAC-ATATCTATGTGGTCATTCGGCACAT
1 TTCTACGCGGTCCTTCGGGACAAT-TCTATATGGTCATTCGGCACAT
17739 TTCTA
1 TTCTA
17744 TGTGGCACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
45 2 0.05
46 42 0.95
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (46 bp):
TTCTACGCGGTCCTTCGGGACAATTCTATATGGTCATTCGGCACAT
Found at i:21385 original size:2 final size:2
Alignment explanation
Indices: 21378--21416 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
21368 AATAATGATT
21378 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21417 CGTTTAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22659 original size:19 final size:20
Alignment explanation
Indices: 22620--22662 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
22610 TAAACCGACC
22620 TTAATAAAATGAAAATATAT
1 TTAATAAAATGAAAATATAT
* *
22640 TTAATAAAAT-TAAGTATAT
1 TTAATAAAATGAAAATATAT
22659 TTAA
1 TTAA
22663 AGCAAGTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
TTAATAAAATGAAAATATAT
Found at i:23768 original size:23 final size:25
Alignment explanation
Indices: 23728--23776 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
23718 ATTATGAGAA
*
23728 AAAAAATTTATATATATTTATAAAT
1 AAAAAATTTATATATATTTAGAAAT
*
23753 AAAATATTTAT-T-TATTTAGAAAT
1 AAAAAATTTATATATATTTAGAAAT
23776 A
1 A
23777 TCAGAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAAAATTTATATATATTTAGAAAT
Found at i:23850 original size:23 final size:22
Alignment explanation
Indices: 23826--23870 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23816 CTTCGATATT
23826 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
23850 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
23871 TTTTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:25417 original size:3 final size:3
Alignment explanation
Indices: 25411--25463 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
25401 TTTTTTTAAC
* *
25411 AAT AAT AAT AAT -AT ATAT TAT AAT AAT AAT AAT AAT AAT TAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25456 AAT AAT AA
1 AAT AAT AA
25464 AAATGGGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:25435 original size:21 final size:21
Alignment explanation
Indices: 25411--25463 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
25401 TTTTTTTAAC
25411 AATAATAATAAT-ATATATTAT
1 AATAATAATAATAATA-ATTAT
25432 AATAATAATAATAATAATTAT
1 AATAATAATAATAATAATTAT
25453 AATAATAATAA
1 AATAATAATAA
25464 AAATGGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 28 0.90
22 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATAATAATAATAATTAT
Found at i:25751 original size:122 final size:118
Alignment explanation
Indices: 25615--25886 Score: 350
Period size: 124 Copynumber: 2.3 Consensus size: 118
25605 TCTTCTCTTT
* * *
25615 CTTCAGATGAGTTCTTCTCATTATGAACTTT-TCGATGG-GGATGATGTTGACCTATTTCCTTCT
1 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTC--TGGAGGATGATGCTAACCTATCTCCTTCT
* *
25678 GTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTC
64 GTGATAGAATCATGCAAAAGGTTGAATAAGCTCTTCTCATTATGAA--T-TT-TTTCTC
* * * *
25737 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGCTGCTAATCTATCTGCTTCT
1 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG--AGGATGATGCTAACCTATCTCCTTCT
* * *
25802 GTGATAGAATTATGCAAAAGGTTGAATAAGCTCTTCTCATTGTGAATTTTTTCTT
64 GTGATAGAATCATGCAAAAGGTTGAATAAGCTCTTCTCATTATGAATTTTTTCTC
25857 CTTCAGATGAGTTCTTCTCATTATGAACTT
1 CTTCAGATGAGTTCTTCTCATTATGAACTT
25887 CTTCTTCTTC
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
120 35 0.26
121 5 0.04
122 32 0.24
123 2 0.01
124 60 0.45
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (118 bp):
CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAGGATGATGCTAACCTATCTCCTTCTGT
GATAGAATCATGCAAAAGGTTGAATAAGCTCTTCTCATTATGAATTTTTTCTC
Found at i:25875 original size:36 final size:36
Alignment explanation
Indices: 25833--25924 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 36
25823 TTGAATAAGC
* * *
25833 TCTTCTCATTGTGAATTTTTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
25869 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
25905 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
25925 CTGGAAAAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:25890 original size:17 final size:17
Alignment explanation
Indices: 25868--25924 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
25858 TTCAGATGAG
25868 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
25885 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
25904 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
25921 TTCT
1 TTCT
25925 CTGGAAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
17 15 0.47
18 6 0.19
19 11 0.34
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:26100 original size:112 final size:109
Alignment explanation
Indices: 25868--26520 Score: 713
Period size: 113 Copynumber: 5.8 Consensus size: 109
25858 TTCAGATGAG
*
25868 TTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACT-T-CTCTGGAA
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAA
* * * ** * * *
25931 AAGCTGATCTATCAAGTGATGGTTTTGAGCAAAAAGTTGAACAAA
65 ATGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
*
25976 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTTTTCTCATTATGAACTCTACCTGG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGG
* * *
26041 CAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
63 AAATGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
* * * *
26088 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACT-
1 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
** * * * *
26152 GATAATGCTGATCCATTGAATGATGAATTTAATCAAAAAGTTAAACAAG
62 GA-AATGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
*
26201 TTCTTCTCATTATGAACTTT-TTCAGCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTC
1 TTCTTCTCATTATGAA-TTTCTT----CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-C
* * * * *
26264 TGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTAAACAAA
60 TGGAAATGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
26314 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGG
* * *
26379 CAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
63 AAATGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
* * * **
26426 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTTATTATGAACTTTTTTCT
1 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCTACCT
* *
26491 GGAAAAGCTGATCCATCAAATGATGGATTT
61 GGAAATGCTGATCCATCAAATGATGAATTT
26521 GAATCTTTGC
Statistics
Matches: 460, Mismatches: 60, Indels: 44
0.82 0.11 0.08
Matches are distributed among these distances:
108 32 0.07
109 11 0.02
110 2 0.00
111 22 0.05
112 141 0.31
113 187 0.41
114 33 0.07
115 10 0.02
116 22 0.05
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (109 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAA
TGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
Found at i:26314 original size:338 final size:333
Alignment explanation
Indices: 25866--26483 Score: 1110
Period size: 338 Copynumber: 1.8 Consensus size: 333
25856 TCTTCAGATG
25866 AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
* * * *
25931 AAGCTGATCTATCAAGTGATGGTTTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATTTC
66 AAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTAAACAAATTCTTCTCATTATGAATTTC
*
25996 TTCTTCTTCAGATGACGAGTTTTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATG
131 TTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATG
*
26061 ATGAATTTAAACAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATG
196 ATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
*
26126 AGTTCTTCTTATTATGAACTCGAACTGATAATGCTGATCCATTGAATGATGAATTTAATCAAAAA
261 AATTCTTCTTATTATGAACTCGAACTGATAATGCTGATCCATTGAATGATGAATTTAATCAAAAA
26191 GTTAAACA
326 GTTAAACA
*
26199 AGTTCTTCTCATTATGAACTTTTTCAGCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTT----CTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTC
*
26264 TGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATTATGA
61 TGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTAAACAAATTCTTCTCATTATGA
26329 ATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATC
126 ATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATC
26394 AAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
191 AAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
26459 AGATGAATTCTTCTTATTATGAACT
256 AGATGAATTCTTCTTATTATGAACT
26484 TTTTTCTGGA
Statistics
Matches: 271, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
333 23 0.08
337 31 0.11
338 217 0.80
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (333 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
AAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTAAACAAATTCTTCTCATTATGAATTTC
TTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATG
ATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
AATTCTTCTTATTATGAACTCGAACTGATAATGCTGATCCATTGAATGATGAATTTAATCAAAAA
GTTAAACA
Found at i:26472 original size:225 final size:221
Alignment explanation
Indices: 25868--26523 Score: 795
Period size: 225 Copynumber: 2.9 Consensus size: 221
25858 TTCAGATGAG
*
25868 TTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACT-T-CTCTGGAA
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAA
* * * ** * *
25931 AAGCTGATCTATCAAGTGATGGTTTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAA--TT
65 ATGCTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTT
* * * * * *
25994 TCTT-CTTCTTCAGATGACGAGTTTTTCTCATTATGAACTCTAC-CTGGCAATGTTAATCCATCA
130 TCTTCCTTCTTCAGATGA--A-TTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCA
* * *
26057 AATGATGAATTTAAACAAAAGGTTGAACAAA
191 AATGATGGATTTGAACAAAAGGTTAAACAAA
* * * *
26088 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACT-
1 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
** * * *
26152 GATAATGCTGATCCATTGAATGATGAATTTAATCAAAAAGTTAAACAAGTTCTTCTCATTATGAA
62 GA-AATGCTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAA
** *
26217 CTTTTTCAGCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
126 C-TTTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
*
26282 AAATGATGGATTTGAGCAAAAGGTTAAACAAA
190 AAATGATGGATTTGAACAAAAGGTTAAACAAA
26314 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGG
* * * *
26379 CAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
63 AAATGCTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACT
* *
26444 TCTTCTTCCTTCTTCAGATGAATTCTTCTTATTATGAACTTTTTTCTGGAAAAGCTGATCCATCA
128 T-TTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAAC-TTTCTCTGGAAAAGCTGATCCATCA
26509 AATGATGGATTTGAA
191 AATGATGGATTTGAA
26524 TCTTTGCTAA
Statistics
Matches: 370, Mismatches: 48, Indels: 30
0.83 0.11 0.07
Matches are distributed among these distances:
220 15 0.04
222 11 0.03
223 10 0.03
224 36 0.10
225 167 0.45
226 114 0.31
228 4 0.01
229 13 0.04
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (221 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAA
TGCTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTTT
CTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGA
TGGATTTGAACAAAAGGTTAAACAAA
Found at i:27394 original size:115 final size:115
Alignment explanation
Indices: 27225--27568 Score: 593
Period size: 114 Copynumber: 3.0 Consensus size: 115
27215 GATCATGCAG
* * * * * *
27225 TTCATCTTTTAATTCCAATGATTGG-TTCTGTGGTTCCTACCGAACTAGATCAGATAACTCAAAG
1 TTCATCTTTTAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
27289 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
27339 TTCATCTTTTAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTTAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
27404 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* *
27454 TTCATCTGTCAAAT-CAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTTAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
27518 AACACTTCCAGAAGATGATATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
27568 T
1 T
27569 GGCACTTACT
Statistics
Matches: 220, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
114 124 0.56
115 96 0.44
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (115 bp):
TTCATCTTTTAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
Found at i:28838 original size:1 final size:1
Alignment explanation
Indices: 28832--28897 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
28822 TCTTGACCCC
* * * * * * * *
28832 TTTTTTTCTTTTTTCTTTTTTCTTTTTTTCTTTTTTTTCTTTTTTTTTCTTTTTTGTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
28897 T
1 T
28898 CTTCAAGCAT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:28844 original size:8 final size:8
Alignment explanation
Indices: 28831--28900 Score: 81
Period size: 9 Copynumber: 8.4 Consensus size: 8
28821 ATCTTGACCC
28831 CTTTTTTT
1 CTTTTTTT
28839 C-TTTTTT
1 CTTTTTTT
28846 C-TTTTTT
1 CTTTTTTT
28853 CTTTTTTT
1 CTTTTTTT
28861 CTTTTTTTT
1 C-TTTTTTT
28870 CTTTTTTTTT
1 C--TTTTTTT
28880 CTTTTTTGTT
1 C-TTTTT-TT
28890 CTTTTTTT
1 CTTTTTTT
28898 CTT
1 CTT
28901 CAAGCATAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.24
8 13 0.22
9 19 0.33
10 12 0.21
ACGTcount: A:0.00, C:0.13, G:0.01, T:0.86
Consensus pattern (8 bp):
CTTTTTTT
Found at i:28845 original size:7 final size:7
Alignment explanation
Indices: 28833--28886 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
28823 CTTGACCCCT
28833 TTTTTTC
1 TTTTTTC
28840 TTTTTTC
1 TTTTTTC
28847 TTTTTTC
1 TTTTTTC
28854 TTTTTTTC
1 -TTTTTTC
28862 TTTTTT-
1 TTTTTTC
*
28868 TTCTTT-
1 TTTTTTC
28874 TTTTTTC
1 TTTTTTC
28881 TTTTTT
1 TTTTTT
28887 GTTCTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 10 0.23
7 26 0.60
8 7 0.16
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:28860 original size:10 final size:10
Alignment explanation
Indices: 28832--28897 Score: 89
Period size: 10 Copynumber: 6.5 Consensus size: 10
28822 TCTTGACCCC
28832 TTTTTTTCTT
1 TTTTTTTCTT
*
28842 TTTTCTTTTTT
1 TTTT-TTTCTT
28853 CTTTTTTTC-T
1 -TTTTTTTCTT
28863 TTTTTTTCTT
1 TTTTTTTCTT
28873 TTTTTTTCTT
1 TTTTTTTCTT
*
28883 TTTTGTTCTT
1 TTTTTTTCTT
28893 TTTTT
1 TTTTT
28898 CTTCAAGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.16
10 29 0.59
11 8 0.16
12 4 0.08
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.88
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:36256 original size:15 final size:15
Alignment explanation
Indices: 36233--36264 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36223 TGAAATGAAT
36233 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
36248 AATGTATGTATGCAA
1 AATGAATGTATGCAA
36263 AA
1 AA
36265 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:40125 original size:28 final size:25
Alignment explanation
Indices: 40094--40145 Score: 59
Period size: 28 Copynumber: 2.0 Consensus size: 25
40084 ATTTCAAAAT
40094 TATAATTATGAGAAAAAAATAATTTATA
1 TATAATTAT-A-AAAAAAAT-ATTTATA
* *
40122 TATATTTATAAATAAAATATTTAT
1 TATAATTATAAAAAAAATATTTAT
40146 TTATTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 1 0.05
28 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
TATAATTATAAAAAAAATATTTATA
Found at i:40152 original size:23 final size:26
Alignment explanation
Indices: 40104--40158 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 26
40094 TATAATTATG
40104 AGAAA-AAAATAATTTATATATATTT
1 AGAAATAAAATAATTTATATATATTT
*
40129 ATAAATAAAAT-ATTTAT-T-TATTT
1 AGAAATAAAATAATTTATATATATTT
40152 AGAAATA
1 AGAAATA
40159 TCAGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.41
24 1 0.04
25 10 0.37
26 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
AGAAATAAAATAATTTATATATATTT
Found at i:40232 original size:23 final size:22
Alignment explanation
Indices: 40208--40252 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
40198 CTTCGATATT
40208 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
40232 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
40253 TTTTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:40380 original size:2 final size:2
Alignment explanation
Indices: 40373--40440 Score: 60
Period size: 2 Copynumber: 37.5 Consensus size: 2
40363 TTTATGTAAA
*
40373 AT AT AT AT AT AA AT -T AT -T AT -T 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
* *
40412 AT AT A- AT A- AT A- AT A- AT AT TT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
40441 ACAAGTAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
1 7 0.13
2 46 0.87
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:41772 original size:3 final size:3
Alignment explanation
Indices: 41766--41822 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
41756 ATTATTTTTT
* *
41766 TAA TAA TAA TAA TAA T-A TATA TTA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
41811 TAA TAA TAA TAA
1 TAA TAA TAA TAA
41823 AAATGGGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:44023 original size:16 final size:15
Alignment explanation
Indices: 43998--44029 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
43988 GCGGTTGAGT
43998 GATTGTTTAGTTTAG
1 GATTGTTTAGTTTAG
44013 GATTAGTTTAGTTTAG
1 GATT-GTTTAGTTTAG
44029 G
1 G
44030 TTTTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (15 bp):
GATTGTTTAGTTTAG
Found at i:46070 original size:45 final size:47
Alignment explanation
Indices: 46018--46109 Score: 161
Period size: 45 Copynumber: 2.0 Consensus size: 47
46008 CCGAATAAAT
46018 GCATGCGAACTAGATATCATGCGGTTAGG-TTTATTTTT-TGAATAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAATAA
*
46063 GCATGCGAATTAGATATCATGCGGTTAGGATTTATTTTTGTGAATAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAATAA
46110 CAAAGCATGG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 28 0.64
46 9 0.20
47 7 0.16
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAATAA
Found at i:55793 original size:24 final size:25
Alignment explanation
Indices: 55763--55847 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
55753 GAAAAGAAGG
* *
55763 AAAAAAAATGAAAATGGAAAAGGGA
1 AAAAAAAATAAAAATGAAAAAGGGA
* **
55788 AGAAAAAATAAAAATGAAAAAGAAA
1 AAAAAAAATAAAAATGAAAAAGGGA
* *
55813 AATAAAAAGAGAAAAATGGAAAAAGAGA
1 AA-AAAAA-ATAAAAAT-GAAAAAGGGA
*
55841 AATAAAA
1 AAAAAAA
55848 GGAGGGTTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
25 21 0.44
26 5 0.10
27 11 0.23
28 11 0.23
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (25 bp):
AAAAAAAATAAAAATGAAAAAGGGA
Found at i:55793 original size:25 final size:24
Alignment explanation
Indices: 55743--55809 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
55733 CTTAAAGAAG
*
55743 AAATAAAAGA-GAAAAGAAGGAAAAA
1 AAATAAAA-ATGAAAA-AGGGAAAAA
* *
55768 AAATGAAAATGGAAAAGGGAAGAAA
1 AAATAAAAATGAAAAAGGGAA-AAA
55793 AAATAAAAATGAAAAAG
1 AAATAAAAATGAAAAAG
55810 AAAAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.17
25 29 0.83
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (24 bp):
AAATAAAAATGAAAAAGGGAAAAA
Found at i:55808 original size:14 final size:14
Alignment explanation
Indices: 55789--55847 Score: 61
Period size: 13 Copynumber: 4.4 Consensus size: 14
55779 GAAAAGGGAA
*
55789 GAAAAAATAAAAAT
1 GAAAAAAGAAAAAT
55803 G-AAAAAGAAAAAT
1 GAAAAAAGAAAAAT
55816 -AAAAAGAGAAAAAT
1 GAAAAA-AGAAAAAT
* *
55830 GGAAAAAGAGAAAT
1 GAAAAAAGAAAAAT
55844 -AAAA
1 GAAAA
55848 GGAGGGTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 18 0.47
14 16 0.42
15 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.08
Consensus pattern (14 bp):
GAAAAAAGAAAAAT
Found at i:55837 original size:16 final size:14
Alignment explanation
Indices: 55797--55842 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 14
55787 AAGAAAAAAT
*
55797 AAAAATGAAAA-AG
1 AAAAATAAAAAGAG
55810 AAAAATAAAAAGAG
1 AAAAATAAAAAGAG
55824 AAAAATGGAAAAAGAG
1 AAAAAT--AAAAAGAG
55840 AAA
1 AAA
55843 TAAAAGGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 10 0.34
14 8 0.28
16 11 0.38
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAAATAAAAAGAG
Found at i:57227 original size:51 final size:51
Alignment explanation
Indices: 57166--57718 Score: 820
Period size: 51 Copynumber: 10.7 Consensus size: 51
57156 AATTCGTTTA
*
57166 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
57217 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
57268 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
57319 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
57370 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
57421 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
*
57472 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTTG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
* * * * * * *
57523 TTGAAGATTGAGTTCTATACTCCCTGAACGGATAGGGAGCGAACACGTTTG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
* * ** *
57574 TTAAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTGTT-A
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
* * * ** **
57624 TTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
1 TTGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTCG
*
57680 TTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAG
1 TTGAAGATTG----AGTCCTATACTCTCTGAATGAATAG
57719 AGAGAAGACA
Statistics
Matches: 467, Mismatches: 25, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
50 6 0.01
51 390 0.84
52 1 0.00
53 4 0.01
54 34 0.07
55 2 0.00
56 30 0.06
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
Found at i:57766 original size:55 final size:56
Alignment explanation
Indices: 57583--57773 Score: 203
Period size: 56 Copynumber: 3.5 Consensus size: 56
57573 GTTAAAGATT
* * * ** * *
57583 GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGAC-C-TGTTATTGAAGATTTTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGAAGACACATTTTATTGAAGATTGTTC
** * *
57637 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGAGAGAAGACACATTTTATTGAAGATTGTTC
* * *
57693 AAGTCTTATACTCTCTGAATGAATAGAGAGAAGACACATTTTA-TGAAGATTGCTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGAAGACACATTTTATTGAAGATTGTTC
57748 GAGTCTTATACT-TCCTGAAGGAATAG
1 GAGTCTTATACTCT-CTGAAGGAATAG
57774 GGAGCAGGCT
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
54 32 0.27
55 34 0.29
56 51 0.43
57 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (56 bp):
GAGTCTTATACTCTCTGAAGGAATAGAGAGAAGACACATTTTATTGAAGATTGTTC
Found at i:57795 original size:55 final size:54
Alignment explanation
Indices: 57175--57797 Score: 266
Period size: 51 Copynumber: 11.9 Consensus size: 54
57165 ATTGAAGATT
* * * **
57175 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGAC-CGTTATTTGAAGATTGTTC
* * * * **
57226 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGAC-CGTTATTTGAAGATTGTTC
* * * * **
57277 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGAC-CGTTATTTGAAGATTGTTC
* * * * **
57328 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGAC-CGTTATTTGAAGATTGTTC
* * * * **
57379 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGAC-CGTTATTTGAAGATTGTTC
* * * * **
57430 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGAC-CGTTATTTGAAGATTGTTC
* * * *
57481 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTT-TGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGAC-CGTTAT-TTGAAGATTGTTC
* * * *
57532 GAGT-TCTATACTCCCTGAACGG-ATAGGGAGCGAACACGTT-TGTTAAAGA---TT-
1 GAGTCT-TATACTCTCTGAA-GGAATAGAGAGCGGAC-CGTTAT-TTGAAGATTGTTC
* * * *
57583 GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTGTTA-TTGAAGATTTTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACC-GTTATTTGAAGATTGTTC
*
57637 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGAGAGCGGA-CCGTTAT-TTGAAGATTGTTC
* * ** * *
57693 AAGTCTTATACTCTCTGAATGAATAGAGAGAAGACACATT-TTATGAAGATTGCTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGAC-CGTTATT-TGAAGATTGTTC
* *
57748 GAGTCTTATACT-TCCTGAAGGAATAGGGAGCAGG-CTCGTCATTTGAAGAT
1 GAGTCTTATACTCT-CTGAAGGAATAGAGAGC-GGAC-CGTTATTTGAAGAT
57798 GTTTCAAGTC
Statistics
Matches: 519, Mismatches: 32, Indels: 38
0.88 0.05 0.06
Matches are distributed among these distances:
50 8 0.02
51 376 0.72
52 1 0.00
53 2 0.00
54 35 0.07
55 50 0.10
56 46 0.09
57 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (54 bp):
GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCGTTATTTGAAGATTGTTC
Found at i:57804 original size:110 final size:110
Alignment explanation
Indices: 57584--57808 Score: 246
Period size: 110 Copynumber: 2.0 Consensus size: 110
57574 TTAAAGATTG
* * ** **
57584 AGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTGTTATTGAAGATTTTTCGAGTTCTATACT
1 AGTCTTATACTCTCTGAAAGAATAGAGAGAAGACCTGTTATTGAAGATTGCTCGAGTTCTATACT
**
57649 CTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTCA
66 CTCTGAAGGAATAGAGAGCGGACCCGTCATATTGAAGATTGTTCA
* *
57694 AGTCTTATACTCTCTGAATGAATAGAGAGAAGACACATTTTA-TGAAGATTGCTCGAG-TCTTAT
1 AGTCTTATACTCTCTGAAAGAATAGAGAGAAGAC-C-TGTTATTGAAGATTGCTCGAGTTC-TAT
* *
57757 ACT-TCCTGAAGGAATAGGGAGCAGG-CTCGTCAT-TTGAAGA-TGTTTCA
63 ACTCT-CTGAAGGAATAGAGAGC-GGACCCGTCATATTGAAGATTG-TTCA
57804 AGTCT
1 AGTCT
57809 CATTTATCCT
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
109 2 0.02
110 48 0.49
111 41 0.42
112 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (110 bp):
AGTCTTATACTCTCTGAAAGAATAGAGAGAAGACCTGTTATTGAAGATTGCTCGAGTTCTATACT
CTCTGAAGGAATAGAGAGCGGACCCGTCATATTGAAGATTGTTCA
Found at i:58824 original size:16 final size:15
Alignment explanation
Indices: 58799--58830 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
58789 GCGGTTGAGT
58799 GATTGTTTAGTTTAG
1 GATTGTTTAGTTTAG
58814 GATTAGTTTAGTTTAG
1 GATT-GTTTAGTTTAG
58830 G
1 G
58831 TTTTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (15 bp):
GATTGTTTAGTTTAG
Found at i:64443 original size:14 final size:14
Alignment explanation
Indices: 64418--64451 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
64408 AGAGGAAGCC
64418 AAAGAAACAAAT-A
1 AAAGAAACAAATCA
64431 AAAGAATACAAATCA
1 AAAGAA-ACAAATCA
64446 AAAGAA
1 AAAGAA
64452 GAGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 6 0.32
15 7 0.37
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (14 bp):
AAAGAAACAAATCA
Found at i:68333 original size:2 final size:2
Alignment explanation
Indices: 68326--68350 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68316 AAAACTGTAG
68326 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
68351 TTAAAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:68929 original size:2 final size:2
Alignment explanation
Indices: 68922--68959 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
68912 GAAGTTAGTA
68922 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
68960 TTAAATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71751 original size:21 final size:21
Alignment explanation
Indices: 71727--71771 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
71717 TATCAAAGTG
* *
71727 CCACATATTTGTCCCGAAGGA
1 CCACATAATTATCCCGAAGGA
*
71748 CCACATAATTATCCTGAAGGA
1 CCACATAATTATCCCGAAGGA
71769 CCA
1 CCA
71772 TATAGACCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (21 bp):
CCACATAATTATCCCGAAGGA
Found at i:74034 original size:55 final size:55
Alignment explanation
Indices: 73917--74120 Score: 293
Period size: 55 Copynumber: 3.7 Consensus size: 55
73907 CGTTTCATAC
* * * * * *
73917 TTGGGGGTATTGATACACTCTTCAGTGTACCGATACACAAGTAACACTCGATATT
1 TTGGGTGTATCGATACACTCCTCAGTGTACCGATACACAAATAGCACTCGATGTT
* * *
73972 TTAGGTGTATCGATACACTCCTTAGTGTACCGATACACAAATAGCACTTGATGTT
1 TTGGGTGTATCGATACACTCCTCAGTGTACCGATACACAAATAGCACTCGATGTT
*
74027 TTGGGTGTATCGATACACTCCTCAGTGTACCGATACACAGATAGCACTCGATGTT
1 TTGGGTGTATCGATACACTCCTCAGTGTACCGATACACAAATAGCACTCGATGTT
*
74082 TTGAGG-GTATTGATACACTCCTCAGTGTACCGATACACA
1 TTG-GGTGTATCGATACACTCCTCAGTGTACCGATACACA
74121 CTCATACAAT
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
55 132 0.99
56 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (55 bp):
TTGGGTGTATCGATACACTCCTCAGTGTACCGATACACAAATAGCACTCGATGTT
Found at i:80254 original size:21 final size:21
Alignment explanation
Indices: 80228--80277 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
80218 CATCAAAGTG
*
80228 CCACATATTTGTCTCGGAA-GA
1 CCACATATTTATCTC-GAATGA
*
80249 CCACATAATTATCTCGAATGA
1 CCACATATTTATCTCGAATGA
80270 CCACATAT
1 CCACATAT
80278 ACCCTCGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (21 bp):
CCACATATTTATCTCGAATGA
Found at i:80934 original size:55 final size:55
Alignment explanation
Indices: 80796--80943 Score: 210
Period size: 54 Copynumber: 2.7 Consensus size: 55
80786 GATTTCATAC
* * *
80796 TTGGGGGTATCGATACACTCCTCAGTGTACCGATACACAATTAGCACTCAATGTT
1 TTGGGTGTATCGATACACTTCTCAGTGTACCGATACACAAATAGCACTCAATGTT
* * *
80851 TT-GGTGTATCGATACAC-TCATCAGTGTACCAATACACAAATAGCACTCGATTTT
1 TTGGGTGTATCGATACACTTC-TCAGTGTACCGATACACAAATAGCACTCAATGTT
*
80905 TTGGGTGTATTGATACACTTCTCAGTGTACCGATACACA
1 TTGGGTGTATCGATACACTTCTCAGTGTACCGATACACA
80944 CTCATACAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
53 1 0.01
54 46 0.56
55 33 0.40
56 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (55 bp):
TTGGGTGTATCGATACACTTCTCAGTGTACCGATACACAAATAGCACTCAATGTT
Found at i:83590 original size:19 final size:19
Alignment explanation
Indices: 83553--83590 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
83543 GTTGACTTTT
*
83553 TGGTCAAAGTCAACGAGTC
1 TGGTCAAAGGCAACGAGTC
83572 TGGTCAACAGGCAAC-AGTC
1 TGGTCAA-AGGCAACGAGTC
83591 AGAGGTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (19 bp):
TGGTCAAAGGCAACGAGTC
Found at i:84302 original size:2 final size:2
Alignment explanation
Indices: 84295--84334 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
84285 ACTCGAAACA
84295 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
84335 GCTTTGATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87067 original size:55 final size:55
Alignment explanation
Indices: 86982--87097 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
86972 CCAATTCGAG
* * * *
86982 TAAAAAACCAAGTTTGAATTTATACGAGATTATACTTCTACTATTAAACTTTGAT
1 TAAAAAACCAAGATTGAATTTATACAAGATTATACTTCTACTATTAAACATGGAT
* * * *
87037 TAAAAAACCAA-ATTGAAATTTCTATAAGATTATATTTCTACTATTAGACATGGAT
1 TAAAAAACCAAGATTG-AATTTATACAAGATTATACTTCTACTATTAAACATGGAT
87092 TAAAAA
1 TAAAAA
87098 TAATAAACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 3 0.06
55 49 0.94
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (55 bp):
TAAAAAACCAAGATTGAATTTATACAAGATTATACTTCTACTATTAAACATGGAT
Found at i:91232 original size:7 final size:7
Alignment explanation
Indices: 91220--91253 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
91210 GAAAAAGCAC
*
91220 TCTCCAT
1 TCTCCAA
91227 TCTCCAA
1 TCTCCAA
91234 TCTCCAA
1 TCTCCAA
91241 TCTCCAA
1 TCTCCAA
91248 TCTCCA
1 TCTCCA
91254 TCATGATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (7 bp):
TCTCCAA
Found at i:100497 original size:6 final size:6
Alignment explanation
Indices: 100482--100518 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
100472 AGTGGGCCAT
*
100482 CTGGGG CTGGGA CTGGGG CTGGGG CTGGGG CGTGGGG
1 CTGGGG CTGGGG CTGGGG CTGGGG CTGGGG C-TGGGG
100519 GTTGGGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.03, C:0.16, G:0.65, T:0.16
Consensus pattern (6 bp):
CTGGGG
Found at i:101744 original size:130 final size:130
Alignment explanation
Indices: 101602--101849 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
101592 TATTTATATA
*
101602 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
101667 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
101732 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
101797 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
101850 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:101880 original size:130 final size:129
Alignment explanation
Indices: 101616--101880 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
101606 ATTTGGTCCT
* *
101616 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
101681 TGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
101746 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
101811 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
101875 -A
128 CA
101876 AAATT
1 AAATT
101881 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:102206 original size:28 final size:27
Alignment explanation
Indices: 102175--102237 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
102165 AGTTGATACA
*
102175 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
102203 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
102231 ATATTTT
1 ATATTTT
102238 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:102338 original size:16 final size:18
Alignment explanation
Indices: 102317--102350 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
102307 ATTTCTTATT
102317 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
102333 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
102351 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:102497 original size:21 final size:21
Alignment explanation
Indices: 102473--102515 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
102463 TATTACCTTA
102473 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
*
102494 AATTGAATTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
102515 A
1 A
102516 GGGTTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:102533 original size:35 final size:35
Alignment explanation
Indices: 102484--102569 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
102474 ATTGAAGTAT
** * *
102484 TTTAGAATTTAATTGAATTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAATTACTTTAGAAATTAGGG
* *
102519 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAATTACTTTAGAAATTAGGG
*
102554 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
102570 TGACTGTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.20, T:0.42
Consensus pattern (35 bp):
TTTAGAATAAAATTGAATTACTTTAGAAATTAGGG
Found at i:103544 original size:29 final size:30
Alignment explanation
Indices: 103488--103550 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
103478 TTTTTTATTA
103488 ATAATCTTATTTTATTTTTCTTAAAATTTT
1 ATAATCTTATTTTATTTTTCTTAAAATTTT
*
103518 ATAAT-TTCATTTTTTTTTTC-TAAAATTTT
1 ATAATCTT-ATTTTATTTTTCTTAAAATTTT
103547 ATAA
1 ATAA
103551 GTTTATCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (30 bp):
ATAATCTTATTTTATTTTTCTTAAAATTTT
Found at i:104316 original size:15 final size:17
Alignment explanation
Indices: 104295--104331 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
104285 GGTCCCAAAG
104295 TCAAAAA-GAAAGCCTA
1 TCAAAAAGGAAAGCCTA
*
104311 -CAAAAAGGAATGCCTA
1 TCAAAAAGGAAAGCCTA
104327 TCAAA
1 TCAAA
104332 GGTTTTAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.54, C:0.19, G:0.14, T:0.14
Consensus pattern (17 bp):
TCAAAAAGGAAAGCCTA
Found at i:104955 original size:23 final size:24
Alignment explanation
Indices: 104928--104978 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
104918 CTTTTATCGG
104928 AAATATTAAAA-AA-ATTATGTTTT
1 AAATATTAAAATAATATTAT-TTTT
104951 AAATA--AAAATAATATTATTTTT
1 AAATATTAAAATAATATTATTTTT
104973 -AATATT
1 AAATATT
104979 TTTTACCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
21 8 0.33
22 6 0.25
23 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
AAATATTAAAATAATATTATTTTT
Found at i:106042 original size:163 final size:162
Alignment explanation
Indices: 105764--106067 Score: 437
Period size: 163 Copynumber: 1.9 Consensus size: 162
105754 ACTTTTTTAC
* * * *
105764 TACCGGTTTTGTTATTTCGAGACCGGTTTTGTCATATTTTTAACTGTTATATTGTTATAGATCGA
1 TACCGGTTTTGTCATTTAGAGACCGGTTTTATCATATTTTTAACTGTTATATTATTATAGATCGA
* *
105829 TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTTCAAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTTTCTTTTAAA-TTCAAAAA
105894 GTATCGACACTTTCAACATATATGGTAGCTCTT
130 GTATCGACACTTTCAACATATATGGTAGCTCTT
* * * * * *
105927 TACCTGTTTTGTCATTTATAGACCGGTTTTATCCTTTTTTTACCTGTTATATTATTATGGATCGA
1 TACCGGTTTTGTCATTTAGAGACCGGTTTTATCATATTTTTAACTGTTATATTATTATAGATCGA
* * * *
105992 TACATTTTTATAAAGTATTGACACTTTATTAGTGTTATAACTTATTTTCTTTTAAATTCTAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTTTCTTTTAAATTCAAAAAG
* *
106057 TGTCGATACTT
131 TATCGACACTT
106068 ATAATAAAGT
Statistics
Matches: 123, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
162 17 0.14
163 106 0.86
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (162 bp):
TACCGGTTTTGTCATTTAGAGACCGGTTTTATCATATTTTTAACTGTTATATTATTATAGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTTTCTTTTAAATTCAAAAAG
TATCGACACTTTCAACATATATGGTAGCTCTT
Found at i:106130 original size:163 final size:163
Alignment explanation
Indices: 105961--106284 Score: 508
Period size: 163 Copynumber: 2.0 Consensus size: 163
105951 GGTTTTATCC
* *
105961 TTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTAT-TGACACTTTATTAGT
1 TTTTTTTACCTGTTATATTATTATGGATCAATACATTTTTATAAAGTATCT-ACACTTTATTAGC
* * *
106025 GTTATAACTTATTTTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAAAGTATCGATAATATC
65 GCTATAACTTATTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACAATATC
*
106090 AACATATCCGGTAGCGT-TTTACCTGTTTTGTCGT
130 AACATATCCGGTAGC-TCTTTACCAGTTTTGTCGT
* * *
106124 TTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCTACAGTTTATTGGCG
1 TTTTTTTACCTGTTATATTATTATGGATCAATACATTTTTATAAAGTATCTACACTTTATTAGCG
* * *
106189 CTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCA
66 CTATAACTTATTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACAATATCA
106254 ACATATCCGGTAGCTCTTTACCAGTTTTGTC
131 ACATATCCGGTAGCTCTTTACCAGTTTTGTC
106285 ATTTCGAGAC
Statistics
Matches: 147, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
162 1 0.01
163 145 0.99
164 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.45
Consensus pattern (163 bp):
TTTTTTTACCTGTTATATTATTATGGATCAATACATTTTTATAAAGTATCTACACTTTATTAGCG
CTATAACTTATTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACAATATCA
ACATATCCGGTAGCTCTTTACCAGTTTTGTCGT
Found at i:106439 original size:182 final size:181
Alignment explanation
Indices: 106125--106540 Score: 706
Period size: 182 Copynumber: 2.3 Consensus size: 181
106115 TTTTGTCGTT
* * *
106125 TTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCTACAGTTTATTGGCGC
1 TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAGTTTATTAGCGC
* * *
106190 TATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAA
66 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATAGACACTATCAA
*
106255 CATATCCGGTAGCTCTTTACCAGTTTTGTCATTTCGAGACCGGTTTTGTCA
131 CATATCCGGTAGCGCTTTACCAGTTTTGTCATTTCGAGACCGGTTTTGTCA
*
106306 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACATTTTATTAGCG
1 T-TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAGTTTATTAGCG
106371 CTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATAGACACTATCA
65 CTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATAGACACTATCA
* **
106436 ACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCGGTTTTGTCA
130 ACATATCCGGTAGCGCTTTACCAGTTTTGTCATTTCGAGACCGGTTTTGTCA
* *
106488 TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATAGCGACA
1 TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACA
106541 CTTTCAATAT
Statistics
Matches: 221, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
181 51 0.23
182 170 0.77
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (181 bp):
TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAGTTTATTAGCGC
TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATAGACACTATCAA
CATATCCGGTAGCGCTTTACCAGTTTTGTCATTTCGAGACCGGTTTTGTCA
Found at i:106774 original size:112 final size:111
Alignment explanation
Indices: 106416--106876 Score: 742
Period size: 111 Copynumber: 4.1 Consensus size: 111
106406 GATACTTATA
* * * *
106416 ATAAAGTATAGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
106481 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* * * **
106527 ATAAAATAGCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACTTGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
106592 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
*
106638 ATAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
106703 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTT-TTTACCTGTTATATTGTTATGGATCAATACATTTTT
* * *
106750 ATAATGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
106815 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATTAATATATTTTT
66 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
106862 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
106877 AAACTGACAA
Statistics
Matches: 325, Mismatches: 23, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
111 171 0.53
112 151 0.46
113 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
Found at i:106803 original size:223 final size:223
Alignment explanation
Indices: 106416--106876 Score: 762
Period size: 223 Copynumber: 2.1 Consensus size: 223
106406 GATACTTATA
* *
106416 ATAAAGTATAGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
106481 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAATAGCGACACTTTC
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAATAGCGACACTTTC
*
106546 AATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACTTGTTTTGTCA-TTTTTTACCTG
131 AATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACTGGTTTTGTCATTTTTTTACCTG
*
106610 TTATATTGTTATGGATCGATACATTTTT
196 TTATATTGTTATGGATCAATACATTTTT
* * *
106638 ATAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* ** *
106703 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAATGTATCGACACTTT
66 TTTGTCATTT-TTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAATAGCGACACTTT
* *
106768 CAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGTTTTGTCATTTTTTTACCT
130 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACTGGTTTTGTCATTTTTTTACCT
* *
106833 GTTATATTGTTATGGATTAATATATTTTT
195 GTTATATTGTTATGGATCAATACATTTTT
106862 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
106877 AAACTGACAA
Statistics
Matches: 221, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
222 70 0.32
223 100 0.45
224 51 0.23
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (223 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAATAGCGACACTTTC
AATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACTGGTTTTGTCATTTTTTTACCTG
TTATATTGTTATGGATCAATACATTTTT
Found at i:113472 original size:20 final size:19
Alignment explanation
Indices: 113428--113474 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
113418 CAGTTCAGTG
113428 GTGTAAAAAACTTGATTAA
1 GTGTAAAAAACTTGATTAA
113447 GTGTAAAAAACTTGATTAA
1 GTGTAAAAAACTTGATTAA
113466 GTAGTAAAA
1 GT-GTAAAA
113475 GATCATTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (19 bp):
GTGTAAAAAACTTGATTAA
Found at i:122120 original size:36 final size:37
Alignment explanation
Indices: 122065--122145 Score: 130
Period size: 36 Copynumber: 2.2 Consensus size: 37
122055 CCCATTCCTA
*
122065 TTTTC-AACAAACATCTACCAAACTTT-AAAAAACAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAAACAT
*
122100 TTTTCAAAGAAACATTTACCAAACTTTGAAAAAACAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAAACAT
122137 TTTTCAAAG
1 TTTTCAAAG
122146 TTGGTTGCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 5 0.12
36 19 0.45
37 18 0.43
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.31
Consensus pattern (37 bp):
TTTTCAAAGAAACATCTACCAAACTTTGAAAAAACAT
Found at i:126707 original size:36 final size:37
Alignment explanation
Indices: 126648--126728 Score: 121
Period size: 36 Copynumber: 2.2 Consensus size: 37
126638 CCCATTCATA
*
126648 TTTTC-AACAAACATCTACCAAACTTTG-AAAAACAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAAACAT
* *
126683 TTTTCAAAGAAACATTTACTAAACTTTGAAAAAACAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAAACAT
126720 TTTTCAAAG
1 TTTTCAAAG
126729 TTGGTTGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 5 0.12
36 19 0.46
37 17 0.41
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (37 bp):
TTTTCAAAGAAACATCTACCAAACTTTGAAAAAACAT
Found at i:134146 original size:31 final size:31
Alignment explanation
Indices: 134105--134173 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
134095 TTCATGGATT
* *
134105 AAATTGATATTTTATCTAAATTTTAG-ATATC
1 AAATTAATATTTTATCTAAAGTTTAGAAT-TC
134136 AAATTAATATTTTATCTAAAGTTTAGAATTC
1 AAATTAATATTTTATCTAAAGTTTAGAATTC
134167 AAATTAA
1 AAATTAA
134174 AAAGGCTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (31 bp):
AAATTAATATTTTATCTAAAGTTTAGAATTC
Found at i:134527 original size:16 final size:16
Alignment explanation
Indices: 134502--134541 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
134492 TAATAAATGT
*
134502 CACGTTATCATCATAC
1 CACGTCATCATCATAC
*
134518 CACGTCATCATCATGC
1 CACGTCATCATCATAC
134534 CACGTCAT
1 CACGTCAT
134542 TAATATTGGT
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:0.28, C:0.35, G:0.10, T:0.28
Consensus pattern (16 bp):
CACGTCATCATCATAC
Found at i:135512 original size:193 final size:195
Alignment explanation
Indices: 135181--135570 Score: 766
Period size: 193 Copynumber: 2.0 Consensus size: 195
135171 GACCTTCGTA
135181 TGGATATTTCATCAGCGAGATGTAATGGAACCATAGCCAATATCTGGGGAGTCGATCTCTCGCAA
1 TGGATATTTCATCAGCGAGATGTAATGGAACCATAGCCAATATCTGGGGAGTCGATCTCTCGCAA
135246 CGAGGAATACGCAGAAGAACAGGAAGTAGCAAACGATGGCGATGGACATAACAAAGGCGAGGAAG
66 CGAGGAATACGCAGAAGAACAGGAAGTAGCAAACGATGGCGATGGACATAACAAAGGCGAGGAAG
135311 AAATCAGGCAAAATCCCTGCAATGGCTGACACAAATGAACTTCCTACCCAGAAGGTGGCTAAGAT
131 AAATCAGGCAAAATCCCTGCAATGGCTGACACAAATGAACTTCCTACCCAGAAGGTGGCTAAGAT
135376 TGGATATTTCATCAGCGAGATGTAATGGAACCATAGCCAATATCT-GGGAGTCGATCTCTCGCAA
1 TGGATATTTCATCAGCGAGATGTAATGGAACCATAGCCAATATCTGGGGAGTCGATCTCTCGCAA
135440 CGA-GAATACGCAGAAGAACAGGAAGTAGCAAACGATGGCGATGGACATAACAAAGGCGAGGAAG
66 CGAGGAATACGCAGAAGAACAGGAAGTAGCAAACGATGGCGATGGACATAACAAAGGCGAGGAAG
135504 AAATCAGGCAAAATCCCTGCAATGGCTGACACAAATGAACTTCCTACCCAGAAGGTGGCTAAGAT
131 AAATCAGGCAAAATCCCTGCAATGGCTGACACAAATGAACTTCCTACCCAGAAGGTGGCTAAGAT
135569 TG
1 TG
135571 TGAGGAAAAA
Statistics
Matches: 195, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
193 128 0.66
194 22 0.11
195 45 0.23
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (195 bp):
TGGATATTTCATCAGCGAGATGTAATGGAACCATAGCCAATATCTGGGGAGTCGATCTCTCGCAA
CGAGGAATACGCAGAAGAACAGGAAGTAGCAAACGATGGCGATGGACATAACAAAGGCGAGGAAG
AAATCAGGCAAAATCCCTGCAATGGCTGACACAAATGAACTTCCTACCCAGAAGGTGGCTAAGAT
Found at i:138193 original size:37 final size:37
Alignment explanation
Indices: 138112--138204 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
138102 TTCGTCCTAT
* * * *
138112 TAGGATTCAAACTCATAAAAATAGGATAAAATTTTAT
1 TAGGATTTAAACTCCTAAAAATAGGATAAAATTCTAC
* * *
138149 TAGGATTTAAACTCCTAAAAATATGATAGAGTTCTAC
1 TAGGATTTAAACTCCTAAAAATAGGATAAAATTCTAC
*
138186 TATGATTTAAACTCCTAAA
1 TAGGATTTAAACTCCTAAA
138205 GATAAGATCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (37 bp):
TAGGATTTAAACTCCTAAAAATAGGATAAAATTCTAC
Found at i:138732 original size:24 final size:23
Alignment explanation
Indices: 138705--138803 Score: 82
Period size: 24 Copynumber: 4.3 Consensus size: 23
138695 CTTTGCATTT
138705 TTATTATTACTATTATATTTATTA
1 TTATTATT-CTATTATATTTATTA
* **
138729 TTATTTTTACTATTATATTT-TCC
1 TTATTATT-CTATTATATTTATTA
138752 TT-TTATTCTACTTAT-TTTATATA
1 TTATTATTCTA-TTATATTTAT-TA
*
138775 TGTA-TATT-TTTTATATTTATTA
1 T-TATTATTCTATTATATTTATTA
138797 TTATTAT
1 TTATTAT
138804 ATTTTTTACT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
21 8 0.13
22 19 0.31
23 10 0.16
24 24 0.39
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (23 bp):
TTATTATTCTATTATATTTATTA
Found at i:138806 original size:15 final size:15
Alignment explanation
Indices: 138701--138807 Score: 59
Period size: 15 Copynumber: 7.3 Consensus size: 15
138691 TTTTCTTTGC
138701 ATTT-TTATTATTACT
1 ATTTATTATTATTA-T
138716 ATTATATTTATTATTAT
1 ATT-TA-TTATTATTAT
* *
138733 TTTTACTATTA-TAT
1 ATTTATTATTATTAT
* *
138747 -TTTCCTT-TTATTCT
1 ATTT-ATTATTATTAT
*
138761 ACTTATT-TTA-TAT
1 ATTTATTATTATTAT
138774 ATGTATATT-TT-TTAT
1 AT-T-TATTATTATTAT
138789 ATTTATTATTATTAT
1 ATTTATTATTATTAT
138804 ATTT
1 ATTT
138808 TTTACTTTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
13 13 0.18
14 15 0.21
15 29 0.40
16 3 0.04
17 3 0.04
18 9 0.12
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (15 bp):
ATTTATTATTATTAT
Found at i:138849 original size:12 final size:11
Alignment explanation
Indices: 138827--138867 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
138817 TCTTTCTTTT
138827 TATTATTCTTG
1 TATTATTCTTG
138838 TATTATTACTTG
1 TATTATT-CTTG
* *
138850 TATTATTTTTA
1 TATTATTCTTG
138861 TATTATT
1 TATTATT
138868 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:139090 original size:2 final size:2
Alignment explanation
Indices: 139085--139135 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
139075 ATTTTACTAT
139085 TA TA TA TA TA TA TA TA TA TA TA TA TA 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
139127 TA TA TA TA T
1 TA TA TA TA T
139136 TCTACACAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:139390 original size:12 final size:11
Alignment explanation
Indices: 139361--139490 Score: 52
Period size: 12 Copynumber: 11.3 Consensus size: 11
139351 CGTCATTTAA
*
139361 TTTATTAATTT
1 TTTATTTATTT
*
139372 ATATATTTACTTT
1 -TTTATTTA-TTT
139385 TTTATTTATTT
1 TTTATTTATTT
* *
139396 TATATATA-TT
1 TTTATTTATTT
* **
139406 ATT-CGTACTTT
1 TTTATTTA-TTT
*
139417 GTTAT-TATTAT
1 TTTATTTATT-T
*
139428 TTTGTTTATTT
1 TTTATTTATTT
139439 GTTTATTTATTT
1 -TTTATTTATTT
*
139451 TCTT-TTTCTTT
1 T-TTATTTATTT
139462 TTTATATATATTT
1 TTTAT-T-TATTT
139475 TATTATTTACTTT
1 T-TTATTTA-TTT
139488 TTT
1 TTT
139491 TACTTACTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
9 2 0.02
10 7 0.08
11 29 0.33
12 34 0.38
13 13 0.15
14 4 0.04
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:143034 original size:22 final size:22
Alignment explanation
Indices: 143006--143060 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
142996 GCTACCCCAT
143006 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
143028 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
143050 CAAACCTTTGA
1 CAAACCTTTGA
143061 CCAAACATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:144094 original size:106 final size:106
Alignment explanation
Indices: 143884--145363 Score: 2201
Period size: 106 Copynumber: 14.0 Consensus size: 106
143874 ATATCGTGCC
* * * * * * *
143884 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGACAA-AAATAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** *
143948 AATTTTGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
143989 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
144054 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
144095 ACTCCAAATAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCC
*
144159 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
144201 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAATAACTTT-T
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCC
144265 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
144307 -CTCCAAACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
144371 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
144412 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
144477 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
144518 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
144583 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
144624 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
144689 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
144730 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
144795 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
144836 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
144901 AATTTTAGAGCAAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
144942 ACTCCAGACAACGCAAGTTCAACTTTACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
145007 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
145048 ACTCAAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * *
145113 AATTTTAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
145154 AC-CCAAGACAACACAAGCTCAACTTCACGACGAAAGGG-CGGCTGATTGTCAAC-AA-AATTT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACG-AAGGGACCGCTGGTTGTCAACAAACAATTTC
* *
145214 -C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* ** * * * * * *
145254 ATTGAAGATAACACAAGTTCAACTTTACAACGAAGGGACGGCTGGTTGTAAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** * * *
145319 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
145360 ACTC
1 ACTC
145364 GGAACAATGC
Statistics
Matches: 1265, Mismatches: 96, Indels: 27
0.91 0.07 0.02
Matches are distributed among these distances:
99 5 0.00
100 71 0.06
101 3 0.00
102 6 0.00
104 7 0.01
105 144 0.11
106 1021 0.81
107 8 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:146184 original size:37 final size:37
Alignment explanation
Indices: 146094--146198 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
146084 CCTTTTCATC
* *
146094 CTACTAGGATTCAAACTCATAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* ** *
146131 TTGTTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
146168 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
146199 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:146799 original size:61 final size:58
Alignment explanation
Indices: 146734--146897 Score: 142
Period size: 61 Copynumber: 2.7 Consensus size: 58
146724 TATATATATA
146734 TATATTTTTTTTTTCT-TTGCATTTTTATTATTACTATTATATTTATTATTATTTTTACTAT
1 TATATTTTTTTTTTCTCTT-CATTTTTATTATTACTATTATATTT-TTA-TA-TTTTACTAT
* *
146795 TATATTTTCCTTTTATTCTACTT-ATTTATATTA-TA-TATGTATATTTTTATATTTTATTAT
1 TATATTTT--TTTT-TTCT-CTTCATTTTTATTATTACTAT-TATATTTTTATATTTTACTAT
146855 TATTATTTTTTTTACTTTCTCTTTC-TTTTTATTATT-CTATTAT
1 TA-TA-TTTTTTT--TTTCTC-TTCATTTTTATTATTACTATTAT
146898 TATTACTTGT
Statistics
Matches: 86, Mismatches: 3, Indels: 28
0.74 0.03 0.24
Matches are distributed among these distances:
60 14 0.16
61 29 0.34
62 15 0.17
63 13 0.15
64 13 0.15
66 2 0.02
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (58 bp):
TATATTTTTTTTTTCTCTTCATTTTTATTATTACTATTATATTTTTATATTTTACTAT
Found at i:146844 original size:21 final size:22
Alignment explanation
Indices: 146819--146942 Score: 64
Period size: 22 Copynumber: 5.5 Consensus size: 22
146809 ATTCTACTTA
146819 TTTATATTATA-TATGTA-TATT
1 TTTATATTATATTAT-TATTATT
*
146840 TTTATATTTTATTATTATTATT
1 TTTATATTATATTATTATTATT
* *
146862 TTT-T-TTACT-TTCTCT-TTCTT
1 TTTATATTA-TATTAT-TATTATT
*
146882 TTTATTATTCTATTATTATTACTT
1 TTTA-TATTATATTATTATTA-TT
*
146906 GTATTATTTTATATTATTTATT-TT
1 -T-TTATATTATATTA-TTATTATT
*
146930 GTTATATATATAT
1 TTTATAT-TATAT
146943 ATATGCGTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 26
0.68 0.10 0.23
Matches are distributed among these distances:
20 12 0.15
21 15 0.19
22 18 0.23
23 12 0.15
24 4 0.05
25 9 0.12
26 8 0.10
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATATTATATTATTATTATT
Found at i:147146 original size:2 final size:2
Alignment explanation
Indices: 147139--147171 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
147129 TTACTATTAT
147139 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
147172 TCTACACAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:147441 original size:2 final size:2
Alignment explanation
Indices: 147436--147464 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
147426 TTTTATTTAT
147436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
147465 TCGTACTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:147510 original size:18 final size:18
Alignment explanation
Indices: 147471--147547 Score: 50
Period size: 18 Copynumber: 4.2 Consensus size: 18
147461 ATATTCGTAC
*
147471 TTTGTTATTATTATTTTGT
1 TTTGTT-TTATTATTTTAT
147490 TTTGTTTTATT-TATTTAT
1 TTTGTTTTATTAT-TTTAT
* *
147508 TTTCTTTT-TCTTTTTTAT
1 TTTGTTTTAT-TATTTTAT
* * *
147526 ATATATTTTATTATTTAAT
1 -TTTGTTTTATTATTTTAT
147545 TTT
1 TTT
147548 TTACTTACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
17 2 0.04
18 24 0.52
19 19 0.41
20 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTGTTTTATTATTTTAT
Found at i:147521 original size:24 final size:23
Alignment explanation
Indices: 147481--147534 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
147471 TTTGTTATTA
*
147481 TTATTTTGTTTTGTTTTATT-TAT
1 TTATTTTGTTTTCTTTT-TTATAT
*
147504 TTATTTTCTTTTTCTTTTTTATAT
1 TTATTTT-GTTTTCTTTTTTATAT
*
147528 ATATTTT
1 TTATTTT
147535 ATTATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.78
Consensus pattern (23 bp):
TTATTTTGTTTTCTTTTTTATAT
Found at i:150740 original size:23 final size:24
Alignment explanation
Indices: 150712--150757 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
150702 ATCTTGGATC
150712 TCTTCTGA-CAACAAAAC-CCAAGA
1 TCTTCT-ATCAACAAAACTCCAAGA
*
150735 TCTTCTATCAACTAAACTCCAAG
1 TCTTCTATCAACAAAACTCCAAG
150758 TGTCTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 14 0.70
24 5 0.25
ACGTcount: A:0.39, C:0.30, G:0.07, T:0.24
Consensus pattern (24 bp):
TCTTCTATCAACAAAACTCCAAGA
Found at i:153609 original size:30 final size:30
Alignment explanation
Indices: 153569--153663 Score: 75
Period size: 35 Copynumber: 3.0 Consensus size: 30
153559 AAAAATATTC
* *
153569 ATTTAGATTATTGTAAACTTAAAATATAAT
1 ATTTAAATTATTATAAACTTAAAATATAAT
* *
153599 ATTTAAATTATATTTACACTTATTAATAGTATAAT
1 ATTTAAATTAT-TATAAACTTA--AA-A-TATAAT
* * *
153634 ATTTAAAATA-TATCAACTTAAACTATAAT
1 ATTTAAATTATTATAAACTTAAAATATAAT
153663 A
1 A
153664 AAAACATAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
29 7 0.13
30 10 0.19
31 10 0.19
33 9 0.17
34 1 0.02
35 15 0.29
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (30 bp):
ATTTAAATTATTATAAACTTAAAATATAAT
Found at i:161204 original size:2 final size:2
Alignment explanation
Indices: 161197--161221 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
161187 ATTTGGTAGT
161197 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
161222 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:167460 original size:2 final size:2
Alignment explanation
Indices: 167453--167528 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
167443 GGATTATTAC
167453 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
167495 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
167529 GTGTGTGTGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:167533 original size:2 final size:2
Alignment explanation
Indices: 167528--167563 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
167518 TATATATATA
167528 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
167564 AGCAAAGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:170076 original size:24 final size:24
Alignment explanation
Indices: 170030--170090 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
170020 ATAATTATTT
*
170030 ATTTTATTGATTATATCACCATAAA
1 ATTTTATTTA-TATATCACCATAAA
170055 ATTTTATTTATATA-CACACATAAA
1 ATTTTATTTATATATCAC-CATAAA
*
170079 AGTTTATGTTAT
1 ATTTTAT-TTAT
170091 TAATATCAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 3 0.09
24 16 0.50
25 13 0.41
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (24 bp):
ATTTTATTTATATATCACCATAAA
Found at i:172032 original size:68 final size:67
Alignment explanation
Indices: 171910--172044 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 67
171900 TTATGTTGCC
*** * * * *
171910 ATTTAGAATGACGCGCACCCTTTCTTAATATTTTGTAAATTTAGATCATTCAAAAATAATGTTAT
1 ATTTAGAATGACGCGCACCCTGGATAAATATTTTATAAATTCAGACCATTCAAAAATAATGTTAT
171975 AA
66 AA
* *
171977 ATTTAGAATGACGGGCACCCTGGATAAATAATTTTATAAATTCAGACCATTCAAAAATAATTTTA
1 ATTTAGAATGACGCGCACCCTGGATAAAT-ATTTTATAAATTCAGACCATTCAAAAATAATGTTA
172042 TAA
65 TAA
172045 TTCAAGTCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
67 24 0.41
68 34 0.59
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (67 bp):
ATTTAGAATGACGCGCACCCTGGATAAATATTTTATAAATTCAGACCATTCAAAAATAATGTTAT
AA
Found at i:175870 original size:98 final size:99
Alignment explanation
Indices: 175630--175872 Score: 283
Period size: 98 Copynumber: 2.4 Consensus size: 99
175620 TGTTTTGAGG
* *
175630 CCAATATTCTTCGTTGTGAAGTTGAAATTGACTTTGAAACTGGAAAGTTGTTTGTTGACAGTCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGA--TT----CT-GAAAGTTGTTTGTTGACAATCAG
*
175695 CCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTATCGAGT
59 CCACCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTATCGAGT
* * * *
175736 CTAATATCCTTCGTTTGTG-AGTTTAGATTGACTCTGAAAGTTG-TTGTTGACAATCAGCCACCC
1 CCAATATCCTTCG-TTGTGAAGTTGAAATTGATTCTGAAAGTTGTTTGTTGACAATCAGCCACCC
* * * * *
175799 CTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGGT
65 CTTCGCCGTGAAGTTGAGCTTGTGCTGTATCGAGT
*
175834 CCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAA
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGATTCTGAAA
175873 TTGGGAATCC
Statistics
Matches: 118, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
97 5 0.04
98 76 0.64
99 8 0.07
100 2 0.02
104 1 0.01
106 21 0.18
107 5 0.04
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (99 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGATTCTGAAAGTTGTTTGTTGACAATCAGCCACCCC
TTCGCCGTGAAGTTGAGCTTGTGCTGTATCGAGT
Found at i:177039 original size:8 final size:7
Alignment explanation
Indices: 177020--177055 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
177010 TCTTGTTTCG
177020 TTCTTTT
1 TTCTTTT
177027 TTCTTTT
1 TTCTTTT
177034 TCTCTTTT
1 T-TCTTTT
177042 TTCTTTT
1 TTCTTTT
177049 TT-TTTT
1 TTCTTTT
177055 T
1 T
177056 ATTTTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTCTTTT
Found at i:177041 original size:15 final size:16
Alignment explanation
Indices: 177006--177049 Score: 63
Period size: 15 Copynumber: 2.7 Consensus size: 16
176996 ACCCACCTTA
177006 TTTTTCTTGTTTCGTTCT
1 TTTTTCTT-TTTCG-TCT
177024 TTTTTCTTTTTC-TCT
1 TTTTTCTTTTTCGTCT
177039 TTTTTCTTTTT
1 TTTTTCTTTTT
177050 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.54
17 4 0.15
18 8 0.31
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTCGTCT
Found at i:177110 original size:6 final size:6
Alignment explanation
Indices: 177099--177133 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
177089 CCCTAAACAA
177099 TTTTTC TTTTTC TTTTT- TTTTTC TTTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTT
177134 TCCCAACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (6 bp):
TTTTTC
Found at i:177119 original size:17 final size:18
Alignment explanation
Indices: 177099--177134 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
177089 CCCTAAACAA
177099 TTTTTC-TTTTTCTTTTT
1 TTTTTCTTTTTTCTTTTT
177116 TTTTTCTTTTTTCTTTTT
1 TTTTTCTTTTTTCTTTTT
177134 T
1 T
177135 CCCAACCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTCTTTTTTCTTTTT
Found at i:178462 original size:172 final size:172
Alignment explanation
Indices: 178176--178526 Score: 693
Period size: 172 Copynumber: 2.0 Consensus size: 172
178166 AAACTCTATC
178176 ATGTACTTCTTCCACTATCATTTTTACCTCTTCAGCATCGACGCATCTTAACAGGATTTGATTAT
1 ATGTACTTCTTCCACTATCATTTTTACCTCTTCAGCATCGACGCATCTTAACAGGATTTGATTAT
178241 GGCTTTTCTTGTATACAACCTCTCCGTCAAGGACGTATCCAGCTGTCATTCTTCTAATGGTTCTT
66 GGCTTTTCTTGTATACAACCTCTCCGTCAAGGACGTATCCAGCTGTCATTCTTCTAATGGTTCTT
178306 TTATCGGTTTCAGTGGCTTCTTCTGGATAACTCTGATGCTTG
131 TTATCGGTTTCAGTGGCTTCTTCTGGATAACTCTGATGCTTG
178348 ATGTACTTCTTCCACTATCATTTTTACCTCTTCAGCATCGACGCATCTTAACAGGATTTGATTAT
1 ATGTACTTCTTCCACTATCATTTTTACCTCTTCAGCATCGACGCATCTTAACAGGATTTGATTAT
178413 GGCTTTTCTTGTATACAACCTCTCCGTCAAGGACGTATCCAGCTGTCATTCTTCTAATGGTTCTT
66 GGCTTTTCTTGTATACAACCTCTCCGTCAAGGACGTATCCAGCTGTCATTCTTCTAATGGTTCTT
178478 TTATCGGTTTCAGTGGCTTCTTCTGGATAACTCTGATGCTTG
131 TTATCGGTTTCAGTGGCTTCTTCTGGATAACTCTGATGCTTG
*
178520 ATATACT
1 ATGTACT
178527 GTAGAATGTC
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 178 1.00
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (172 bp):
ATGTACTTCTTCCACTATCATTTTTACCTCTTCAGCATCGACGCATCTTAACAGGATTTGATTAT
GGCTTTTCTTGTATACAACCTCTCCGTCAAGGACGTATCCAGCTGTCATTCTTCTAATGGTTCTT
TTATCGGTTTCAGTGGCTTCTTCTGGATAACTCTGATGCTTG
Found at i:190636 original size:65 final size:63
Alignment explanation
Indices: 190517--190726 Score: 223
Period size: 65 Copynumber: 3.3 Consensus size: 63
190507 TTTATCAAAG
*
190517 TGATGCA-CTGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATG
1 TGATGCATC-GATGCA-CAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATG
190578 CATT
60 CATT
* * *
190582 TCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCAAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
190646 T
63 T
* * * *
190647 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
190711 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
190727 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 47 0.38
65 68 0.54
66 6 0.05
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:190726 original size:17 final size:19
Alignment explanation
Indices: 190698--190746 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
190688 TATTTTGAAA
190698 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
190716 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
190735 CACCGATGCACT
1 CATCGATGCACT
190747 AACGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:195650 original size:42 final size:44
Alignment explanation
Indices: 195603--195697 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
195593 TTGTGCTTCA
* *
195603 TGCATCGATACACC-T-AACAGTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACACCATGAA-AGTGCACCGATGCACGCCTTGAATG
*
195645 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
195689 TGCATCGAT
1 TGCATCGAT
195698 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 20 0.43
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:195668 original size:21 final size:21
Alignment explanation
Indices: 195603--195697 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 21
195593 TTGTGCTTCA
*
195603 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
*
195623 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
195645 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
195666 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
195689 TGCATCGAT
1 TGCATCGAT
195698 GCACAAGGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 17 0.28
22 13 0.22
23 19 0.32
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:195691 original size:23 final size:23
Alignment explanation
Indices: 195622--195702 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 23
195612 ACACCTAACA
*
195622 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
195644 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
195665 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
195688 GTGCATCGATGCACA
1 GTGCATCGATGCACA
195703 AGGCCATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 10 0.21
23 21 0.45
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:195718 original size:43 final size:42
Alignment explanation
Indices: 195621--195720 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 42
195611 TACACCTAAC
* * *
195621 AGTGCATCGATGCATCCTTGAATGTGCATCGATACACCATGA
1 AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
* * *
195663 AGGTGCACCGATGCACGCCTTGAATGTGCATCGATGCACAAGGCC
1 A-GTGCATCGATGCA-GCCTTGAATGTGCATCGATACACAAGG-A
195708 A-TGCATCGATGCA
1 AGTGCATCGATGCA
195721 TCCATCGGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 1 0.02
43 23 0.48
44 23 0.48
45 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (42 bp):
AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
Found at i:197282 original size:21 final size:21
Alignment explanation
Indices: 197241--197283 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
197231 CTCCGGGAGT
*
197241 TAGCTCTTCACGATCTGCTCC
1 TAGCTCTTCACGATCTCCTCC
*
197262 TAGCTCTTCTCG-TGCTCCTCC
1 TAGCTCTTCACGAT-CTCCTCC
197283 T
1 T
197284 TCTCCTCCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.09, C:0.40, G:0.14, T:0.37
Consensus pattern (21 bp):
TAGCTCTTCACGATCTCCTCC
Found at i:197637 original size:14 final size:15
Alignment explanation
Indices: 197612--197640 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
197602 TTGTTTTTGA
197612 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
197627 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
197641 AAATGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:198375 original size:45 final size:45
Alignment explanation
Indices: 198320--198426 Score: 126
Period size: 46 Copynumber: 2.4 Consensus size: 45
198310 GCACCAATCA
*
198320 ATGCATCGATGCACCATGAATTAAATTG-AACATCGAATGCATTTC
1 ATGCATCGATGCACCAAGAATTAAA-TGAAACATCGAATGCATTTC
* * ** *
198365 ATGCATCGATGCACTAAGGATTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACCAAGAATTAAATG-AAACATCGAATGCATTTC
*
198411 ATGTATCGATGCACCA
1 ATGCATCGATGCACCA
198427 GCCATGCATC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
44 2 0.04
45 20 0.38
46 30 0.58
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCATCGATGCACCAAGAATTAAATGAAACATCGAATGCATTTC
Found at i:198433 original size:65 final size:64
Alignment explanation
Indices: 198364--198488 Score: 162
Period size: 64 Copynumber: 1.9 Consensus size: 64
198354 GAATGCATTT
* * *
198364 CATGCATCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCATTTGATGTATCGATGCACCAG
1 CATGCATCGATGCACTAAGGATATTT-TG-AAACATAGAATGCACTTGATGCATCGATGCACCAG
198428 C
64 C
* ** *
198429 CATGCATCGATGTACTCTGGCTATTTTGAAACATAGAATGCACTTGATGCATCGATGCAC
1 CATGCATCGATGCACTAAGGATATTTTGAAACATAGAATGCACTTGATGCATCGATGCAC
198489 TCTTAGTGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 29 0.56
65 20 0.38
66 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (64 bp):
CATGCATCGATGCACTAAGGATATTTTGAAACATAGAATGCACTTGATGCATCGATGCACCAGC
Found at i:198488 original size:17 final size:19
Alignment explanation
Indices: 198466--198508 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
198456 GAAACATAGA
*
198466 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
198483 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
198502 ATGCACT
1 ATGCACT
198509 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Done.