Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007491.1 Hibiscus syriacus cultivar Beakdansim tig00020689_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: 275112
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:399 original size:20 final size:20
Alignment explanation
Indices: 374--419 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
364 AAGAGAAGCG
374 AAGCACTTACCCATTGGACT
1 AAGCACTTACCCATTGGACT
394 AAGCACTTACCCATTGGACT
1 AAGCACTTACCCATTGGACT
414 AAGCAC
1 AAGCAC
420 AATATGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (20 bp):
AAGCACTTACCCATTGGACT
Found at i:7651 original size:10 final size:10
Alignment explanation
Indices: 7637--7675 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
7627 AGCTCTACAG
7637 TCTTCCA-AT
1 TCTTCCATAT
7646 TCCTTCCATAT
1 T-CTTCCATAT
*
7657 TCTTCCATAC
1 TCTTCCATAT
7667 TCTTCCATA
1 TCTTCCATA
7676 AGGTTCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 1 0.04
10 23 0.85
11 3 0.11
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.44
Consensus pattern (10 bp):
TCTTCCATAT
Found at i:13014 original size:31 final size:31
Alignment explanation
Indices: 12962--13030 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
12952 TCGTAGATCT
*
12962 TCAACGAGACCTCAGAGAATTTGTTTAGTCTA
1 TCAA-GAGGCCTCAGAGAATTTGTTTAGTCTA
* * *
12994 TTAAGAGGCCTCGGAGAATTTGTTTAGTTTA
1 TCAAGAGGCCTCAGAGAATTTGTTTAGTCTA
13025 TCAAGA
1 TCAAGA
13031 ACCCAAGTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 29 0.91
32 3 0.09
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (31 bp):
TCAAGAGGCCTCAGAGAATTTGTTTAGTCTA
Found at i:17828 original size:22 final size:22
Alignment explanation
Indices: 17803--17859 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
17793 TGCTTAGATA
17803 TTAGGAGTTTGTTACTCGGTTG
1 TTAGGAGTTTGTTACTCGGTTG
17825 TTAGGAGTTTGTTACTCGGTTG
1 TTAGGAGTTTGTTACTCGGTTG
17847 TTAGG-GTTTGTTA
1 TTAGGAGTTTGTTA
17860 GAACTAACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 8 0.23
22 27 0.77
ACGTcount: A:0.14, C:0.07, G:0.32, T:0.47
Consensus pattern (22 bp):
TTAGGAGTTTGTTACTCGGTTG
Found at i:23893 original size:90 final size:89
Alignment explanation
Indices: 23779--23953 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
23769 TCCCGAATAT
* * * *
23779 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAG
23844 GATAACTTAGATATAAAAGGATTA
66 GATAACTTAGATATAAAAGGATTA
23868 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
* * *
23933 GGGTAACTTGGCTATAAAAGG
65 GGATAACTTAGATATAAAAGG
23954 GTGTGTTAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAG
GATAACTTAGATATAAAAGGATTA
Found at i:30332 original size:90 final size:90
Alignment explanation
Indices: 30215--30380 Score: 260
Period size: 90 Copynumber: 1.8 Consensus size: 90
30205 TATTTAATTT
* * * * *
30215 CAATTAAGTAAATATAGATTTAATTAATTTGAAATAATAAAATCTCTGATATGATTATGGTAACT
1 CAATTAAGTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACT
30280 TGGATATAAAATGATTATTAAGTTC
66 TGGATATAAAATGATTATTAAGTTC
* *
30305 CAATTAATTAAATATAGATTTATTTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACT
1 CAATTAAGTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACT
*
30370 TGGCTATAAAA
66 TGGATATAAAA
30381 GGGTGTGTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (90 bp):
CAATTAAGTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACT
TGGATATAAAATGATTATTAAGTTC
Found at i:30722 original size:21 final size:21
Alignment explanation
Indices: 30696--30759 Score: 128
Period size: 21 Copynumber: 3.0 Consensus size: 21
30686 GTGCCGACGG
30696 TCCCAACACATACATATATAT
1 TCCCAACACATACATATATAT
30717 TCCCAACACATACATATATAT
1 TCCCAACACATACATATATAT
30738 TCCCAACACATACATATATAT
1 TCCCAACACATACATATATAT
30759 T
1 T
30760 AACTCTAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (21 bp):
TCCCAACACATACATATATAT
Found at i:32199 original size:74 final size:74
Alignment explanation
Indices: 32078--32216 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 74
32068 AGAGCAATTG
* * *
32078 CCCCTCCCAACTTTGATGGTCTAATTACATTTTAGATCATTGATAATTATAAAATCATTATAATT
1 CCCCTCCCAACTTTAATGATCTAATTACATTTTAGATCACTGATAATTATAAAATCATTATAATT
32143 AAGCTTTTA
66 AAGCTTTTA
* * *
32152 CCCCTCTCAACTTTAATGATCTAATTACATTTTAGGTCACTGATAATTATAAAATTATTATAATT
1 CCCCTCCCAACTTTAATGATCTAATTACATTTTAGATCACTGATAATTATAAAATCATTATAATT
32217 GAGCCCTTGT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 59 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (74 bp):
CCCCTCCCAACTTTAATGATCTAATTACATTTTAGATCACTGATAATTATAAAATCATTATAATT
AAGCTTTTA
Found at i:32231 original size:74 final size:74
Alignment explanation
Indices: 32078--32233 Score: 213
Period size: 74 Copynumber: 2.1 Consensus size: 74
32068 AGAGCAATTG
* * *
32078 CCCCTCCCAACTTTGATGGTCTAATTACATTTTAGATCATTGATAATTATAAAATCATTATAATT
1 CCCCTCCCAACTTTAATGATCTAATTACATTTTAGATCACTGATAATTATAAAATCATTATAATT
**
32143 AAGCTTTTA
66 AAGCCCTTA
* * *
32152 CCCCTCTCAACTTTAATGATCTAATTACATTTTAGGTCACTGATAATTATAAAATTATTATAATT
1 CCCCTCCCAACTTTAATGATCTAATTACATTTTAGATCACTGATAATTATAAAATCATTATAATT
* *
32217 GAGCCCTTG
66 AAGCCCTTA
*
32226 TCCCTCCC
1 CCCCTCCC
32234 CAAATTTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (74 bp):
CCCCTCCCAACTTTAATGATCTAATTACATTTTAGATCACTGATAATTATAAAATCATTATAATT
AAGCCCTTA
Found at i:32632 original size:20 final size:20
Alignment explanation
Indices: 32607--32652 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
32597 AAGAGAAGCG
32607 AAGCACTTACCCATTGGACT
1 AAGCACTTACCCATTGGACT
32627 AAGCACTTACCCATTGGACT
1 AAGCACTTACCCATTGGACT
32647 AAGCAC
1 AAGCAC
32653 AATATTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (20 bp):
AAGCACTTACCCATTGGACT
Found at i:34820 original size:30 final size:30
Alignment explanation
Indices: 34784--34852 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
34774 TCATAGTTAA
34784 TGGACCACTCTGTTACAAGGTTTCTATTAC
1 TGGACCACTCTGTTACAAGGTTTCTATTAC
34814 TGGACCACTCTGTTACAAGGTTTCTATTAC
1 TGGACCACTCTGTTACAAGGTTTCTATTAC
34844 TGGACCACT
1 TGGACCACT
34853 TTCTGATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (30 bp):
TGGACCACTCTGTTACAAGGTTTCTATTAC
Found at i:36253 original size:14 final size:14
Alignment explanation
Indices: 36230--36267 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
36220 TCTGTCTATA
*
36230 TGCAGAGATTTATT
1 TGCAGGGATTTATT
36244 TGCAGGGATTTATT
1 TGCAGGGATTTATT
*
36258 TGCAAGGATT
1 TGCAGGGATT
36268 ACTTACCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:36934 original size:9 final size:9
Alignment explanation
Indices: 36920--36944 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36910 AAGTTCTCAA
36920 ATATTTTAG
1 ATATTTTAG
36929 ATATTTTAG
1 ATATTTTAG
36938 ATATTTT
1 ATATTTT
36945 TATTGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (9 bp):
ATATTTTAG
Found at i:48937 original size:2 final size:2
Alignment explanation
Indices: 48930--48977 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
48920 CTACAATGTA
48930 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
48972 AT AT AT
1 AT AT AT
48978 GTGTGTGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53078 original size:31 final size:30
Alignment explanation
Indices: 53033--53140 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 30
53023 ATTTATATTT
53033 AATTTT-T-TGTATAATTGAATTAAAATTAA
1 AATTTTATATGTATAATT-AATTAAAATTAA
* *
53062 AGTTTTATATGTATAATT-ATTATAATT-A
1 AATTTTATATGTATAATTAATTAAAATTAA
* * *
53090 ATTTTTATTATATATAATTTAA-TCAAATTCAA
1 AATTTTA-TATGTATAA-TTAATTAAAATT-AA
*
53122 AATTTTATAAGTATAATTA
1 AATTTTATATGTATAATTA
53141 CAACAAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
28 7 0.11
29 21 0.33
30 11 0.17
31 17 0.27
32 7 0.11
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTTATATGTATAATTAATTAAAATTAA
Found at i:55064 original size:24 final size:24
Alignment explanation
Indices: 55037--55143 Score: 108
Period size: 24 Copynumber: 4.5 Consensus size: 24
55027 AAACGGAGAT
* *
55037 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATCCAG
*
55061 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATCCAG
* *
55085 ATCATAAATCAGAATAGAATCCA-
1 ATCAGAAATCAGAACAGAATCCAG
** * *
55108 AGTCAGGTATCAGAACAGAATTCAA
1 A-TCAGAAATCAGAACAGAATCCAG
*
55133 ATCGGAAATCA
1 ATCAGAAATCA
55144 AATAAAACAT
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
23 1 0.01
24 65 0.97
25 1 0.01
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATCCAG
Found at i:59911 original size:59 final size:58
Alignment explanation
Indices: 59832--59981 Score: 201
Period size: 59 Copynumber: 2.5 Consensus size: 58
59822 TGTCTGCTTA
* * * * * *
59832 TGTGTTATGGATGAGTGTTTGAGCTCTGTGTCCCGAGCTTCATCATTGATGTTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCT-TGTGACCCAAGCATCATCATTGATGTTGTATTG
* *
59891 TGTGTTGTAGATGAATGTTTGATCTTCGTAACCCAAGCATCATCATTGATGTTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCTT-GTGACCCAAGCATCATCATTGATGTTGTATTG
59950 TGTGTTGTAGATGAATGTTTGAGCTATGTGAC
1 TGTGTTGTAGATGAATGTTTGAGCT-TGTGAC
59982 TCGAACCTCG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.01
59 77 0.97
60 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.41
Consensus pattern (58 bp):
TGTGTTGTAGATGAATGTTTGAGCTTGTGACCCAAGCATCATCATTGATGTTGTATTG
Found at i:62364 original size:25 final size:23
Alignment explanation
Indices: 62326--62371 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
62316 CTATATCGAG
*
62326 TGCATGTCATTTTTGTAATGCTTTA
1 TGCATGTCA-GTTT-TAATGCTTTA
*
62351 TGCATGTGAGTTTTAATGCTT
1 TGCATGTCAGTTTTAATGCTT
62372 CATTTCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 3 0.16
25 8 0.42
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.50
Consensus pattern (23 bp):
TGCATGTCAGTTTTAATGCTTTA
Found at i:65986 original size:29 final size:29
Alignment explanation
Indices: 65954--66110 Score: 260
Period size: 29 Copynumber: 5.4 Consensus size: 29
65944 ATTTATTTAT
* *
65954 GAAAATAACACCCTTTTAAAATTAATTAC
1 GAAAATAGCACCCTTTTAAAAATAATTAC
65983 GAAAATAGCACCCTTTTAAAAATAATTAC
1 GAAAATAGCACCCTTTTAAAAATAATTAC
*
66012 GAAAATAGCACCCTTTTTAAAATAATTAC
1 GAAAATAGCACCCTTTTAAAAATAATTAC
*
66041 GAAAATAACACCCTTTTAAAAATAATTAC
1 GAAAATAGCACCCTTTTAAAAATAATTAC
*
66070 GAAAATAGCACCCTTTTAAAAATAATTAT
1 GAAAATAGCACCCTTTTAAAAATAATTAC
*
66099 GAAAATATCACC
1 GAAAATAGCACC
66111 GAACAGAATT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 120 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (29 bp):
GAAAATAGCACCCTTTTAAAAATAATTAC
Found at i:66125 original size:87 final size:87
Alignment explanation
Indices: 65943--66156 Score: 266
Period size: 87 Copynumber: 2.5 Consensus size: 87
65933 CCTTAAAATA
* * *
65943 AATTTATTTATGAAAATAACACCCTTTTAAAATTAATTACGAAAATAGCACCCTTTTAAAAATAA
1 AATTTAATTACGAAAATAACACCCTTTTAAAAATAATTACGAAAATAGCACCCTTTTAAAAATAA
*****
66008 TTACGAAAATAGCACCCTTTTT
66 TTACGAAAATAGCACCCAACAG
**
66030 AAAATAATTACGAAAATAACACCCTTTTAAAAATAATTACGAAAATAGCACCCTTTTAAAAATAA
1 AATTTAATTACGAAAATAACACCCTTTTAAAAATAATTACGAAAATAGCACCCTTTTAAAAATAA
* * *
66095 TTATGAAAATATCACCGAACAG
66 TTACGAAAATAGCACCCAACAG
** ** *
66117 AATTTAATTACCTAAATGGCACCCTTTTAAAAATATTTAC
1 AATTTAATTACGAAAATAACACCCTTTTAAAAATAATTAC
66157 AGAATAACAC
Statistics
Matches: 107, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 107 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.31
Consensus pattern (87 bp):
AATTTAATTACGAAAATAACACCCTTTTAAAAATAATTACGAAAATAGCACCCTTTTAAAAATAA
TTACGAAAATAGCACCCAACAG
Found at i:66182 original size:58 final size:58
Alignment explanation
Indices: 66005--66185 Score: 161
Period size: 58 Copynumber: 3.1 Consensus size: 58
65995 CTTTTAAAAA
* * **** *
66005 TAATTACGAAAATAGCACCCTTTTTAAAATAATTA-CGAAAATAACACCCTTTTA-AAAA
1 TAATTACCAAAATAGCACCCTTTTAAAAATAATTATC-AAAATAACA-CCGAACAGAAAT
* * * *
66063 TAATTACGAAAATAGCACCCTTTTAAAAATAATTATGAAAATATCACCGAACAGAATT
1 TAATTACCAAAATAGCACCCTTTTAAAAATAATTATCAAAATAACACCGAACAGAAAT
* * * * * *
66121 TAATTACCTAAATGGCACCCTTTTAAAAATATTTA-CAGAATAACACCATAACCGAAAT
1 TAATTACCAAAATAGCACCCTTTTAAAAATAATTATCAAAATAACACC-GAACAGAAAT
66179 TAATTAC
1 TAATTAC
66186 GTATTTATCA
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
57 12 0.12
58 89 0.88
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.29
Consensus pattern (58 bp):
TAATTACCAAAATAGCACCCTTTTAAAAATAATTATCAAAATAACACCGAACAGAAAT
Found at i:70507 original size:20 final size:19
Alignment explanation
Indices: 70484--70529 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
70474 CGATATACCA
70484 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
70504 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
70524 GGTAAA
1 GGTAAA
70530 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:70676 original size:21 final size:20
Alignment explanation
Indices: 70643--70698 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
70633 GATCCACAAC
*
70643 GATATAACAGGTAAAAAATAT
1 GATAAAACAGGTAAAAAA-AT
*
70664 GATAAAACTGGT-AAAAAAT
1 GATAAAACAGGTAAAAAAAT
*
70683 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
70699 TGATACCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.42
20 8 0.26
21 10 0.32
ACGTcount: A:0.57, C:0.07, G:0.16, T:0.20
Consensus pattern (20 bp):
GATAAAACAGGTAAAAAAAT
Found at i:70700 original size:17 final size:18
Alignment explanation
Indices: 70657--70703 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
70647 TAACAGGTAA
*
70657 AAAATATGATAAAACTGGT
1 AAAA-ATGATAAAACCGGT
70676 AAAAAATGATAAAACCGGT
1 -AAAAATGATAAAACCGGT
70695 -AAAATGATA
1 AAAAATGATA
70704 CCAGATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
19 13 0.50
20 4 0.15
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.21
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:72965 original size:21 final size:21
Alignment explanation
Indices: 72918--72982 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
72908 AAGACAATCA
* *
72918 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
72940 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
72960 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
72981 AG
1 AG
72983 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:73058 original size:33 final size:33
Alignment explanation
Indices: 73016--73081 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
73006 AAATAGATGG
*
73016 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
73049 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
73082 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:74901 original size:18 final size:19
Alignment explanation
Indices: 74857--74904 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
74847 AATGTCGAGT
74857 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
74876 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
74895 T-ATTTTGTAT
1 TAATTTTGTAT
74905 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:75772 original size:198 final size:198
Alignment explanation
Indices: 75023--80100 Score: 9189
Period size: 198 Copynumber: 25.9 Consensus size: 198
75013 CAATATGGCC
* *
75023 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* *
75088 ACCAAAAGTATAATGTAATATGTAATTTTTCAATTTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
75153 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
75218 TGGAA
194 TGGAA
*
75223 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
75288 CC-AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
75351 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
75416 GGAA
195 GGAA
75420 AACAGGGTGCA-CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
75483 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
75548 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATAAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
75613 GAA
196 GAA
75616 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
75681 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
75746 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA--TTTTTTTCCAGAATGAA
75811 TGGAA
194 TGGAA
75816 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
75879 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
75944 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTAGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
76009 GGAA
195 GGAA
76013 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
76078 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
76143 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
76208 GG-A
195 GGAA
76211 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
76276 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
76341 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTAGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
76406 GGAA
195 GGAA
76410 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
76474 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACC-GTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
76538 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
76603 GGAA
195 GGAA
*
76607 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
76671 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
76736 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
76801 GAA
196 GAA
*
76804 AACAGGGTGCACCCATAAAGCGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
76869 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
76933 AATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
76996 GGAA
195 GGAA
* *
77000 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCTAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
77064 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTAC-ATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
77127 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
77192 GAA
196 GAA
*
77195 AACAGGGTGCACCCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
77260 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATA-CGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
77322 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
77387 GAA
196 GAA
77390 AACAGGG-GCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
77454 CAAAAGTATAATGTAATATGTAA--TTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
77517 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTG-GTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
77581 GGAA
195 GGAA
* *
77585 AACAAGGTGCACCCATAAGGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
77648 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
77713 AATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
77776 GGAA
195 GGAA
77780 AACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAA--GTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
77842 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
77907 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTAGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
77972 GGAA
195 GGAA
77976 AACAGGGTGCACCCATAAAGTGTCGATCC--ATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
78038 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
78103 AATATGTCT-AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
78167 GGAA
195 GGAA
*
78171 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
78236 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
78301 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
78366 AAA
196 GAA
* *
78369 AACAAGGTGCACCCATAAAGCGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAA-C
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
78432 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
78497 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
78562 GG-A
195 GGAA
*
78565 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
78629 CAAAAGTATAATGT-A-ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
78692 AATATGTCTAAATAA--TGTCGACACTAATATAG-TTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
78754 GGAA
195 GGAA
* *
78758 AACAAGGTGCACCCATAAGGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
78821 CAAAAGTATAATGTAATATG---TTTTTCAATCTAACCGG--------TA--GGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
78873 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
78938 GGAA
195 GGAA
*
78942 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
79007 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
79072 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
79137 GGAA
195 GGAA
79141 AACAGGGTGCACCCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
79205 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
79270 AATATGTCTAAATAATGTGTCG-CACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
79334 GG-A
195 GGAA
79337 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
79402 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAA-CGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
79466 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTG-CGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
79530 GGAA
195 GGAA
* *
79534 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATTCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
79599 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
79664 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
79729 GGAA
195 GGAA
*
79733 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
79796 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT--GAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
79859 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
79924 GGAA
195 GGAA
*
79928 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
79993 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAA-CGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
80056 AATATGTCTAAATAATGTGTCGACACTAATAT-GTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
80101 CTAATTTAAA
Statistics
Matches: 4764, Mismatches: 43, Indels: 146
0.96 0.01 0.03
Matches are distributed among these distances:
181 28 0.01
183 19 0.00
184 68 0.01
185 15 0.00
186 33 0.01
189 17 0.00
191 17 0.00
192 72 0.02
193 79 0.02
194 339 0.07
195 658 0.14
196 870 0.18
197 945 0.20
198 1076 0.23
199 443 0.09
200 85 0.02
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:80417 original size:15 final size:15
Alignment explanation
Indices: 80399--80433 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
80389 CAACCCAGTT
80399 CTTCTCAACCACCTC
1 CTTCTCAACCACCTC
80414 CTTCTCAACCACCTC
1 CTTCTCAACCACCTC
80429 CTTCT
1 CTTCT
80434 GTAACAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.51, G:0.00, T:0.31
Consensus pattern (15 bp):
CTTCTCAACCACCTC
Found at i:81269 original size:18 final size:18
Alignment explanation
Indices: 81248--81315 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
81238 AGCGGTCGCA
81248 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
81266 GAAGATGACGACGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
81287 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
81308 GAAGATGA
1 GAAGATGA
81316 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:81272 original size:6 final size:6
Alignment explanation
Indices: 81248--81345 Score: 61
Period size: 6 Copynumber: 16.3 Consensus size: 6
81238 AGCGGTCGCA
* * * * * * *
81248 GAAGAT GAAGCT GACGAT GAAGAT GACGAC GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
81296 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
81344 GA
1 GA
81346 TGATCCAAAC
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:81280 original size:15 final size:15
Alignment explanation
Indices: 81259--81348 Score: 114
Period size: 15 Copynumber: 6.2 Consensus size: 15
81249 AAGATGAAGC
81259 TGACGATGAAGATGA
1 TGACGATGAAGATGA
* *
81274 CGACGATGATGATGA
1 TGACGATGAAGATGA
*
81289 TGACGATGAAGCTG-
1 TGACGATGAAGATGA
81303 -G-CGATGAAGATGA
1 TGACGATGAAGATGA
*
81316 TGACGATGATGATGA
1 TGACGATGAAGATGA
*
81331 TGATGATGAAGATGA
1 TGACGATGAAGATGA
81346 TGA
1 TGA
81349 TCCAAACAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.16
13 1 0.02
14 1 0.02
15 51 0.81
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.22
Consensus pattern (15 bp):
TGACGATGAAGATGA
Found at i:81284 original size:3 final size:3
Alignment explanation
Indices: 81263--81349 Score: 75
Period size: 3 Copynumber: 29.0 Consensus size: 3
81253 TGAAGCTGAC
* * * * * * ** *
81263 GAT GAA GAT GAC GAC GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
81311 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
81350 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:81298 original size:42 final size:42
Alignment explanation
Indices: 81251--81341 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
81241 GGTCGCAGAA
81251 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
81293 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
81335 GATGAAG
1 GATGAAG
81342 ATGATGATCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:83112 original size:184 final size:184
Alignment explanation
Indices: 82803--83146 Score: 589
Period size: 184 Copynumber: 1.9 Consensus size: 184
82793 ACTTTCAACT
* *
82803 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
* *
82868 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
*
82933 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACAGATCGGAACCCATA
131 AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACAGATCGGAACCCATA
** * * *
82987 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
83052 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
83117 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACCATTTAAAAAAGTGTCG
83147 GTAATTTGAA
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (184 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACAGATCGGAACCCATA
Found at i:85635 original size:25 final size:25
Alignment explanation
Indices: 85601--85665 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
85591 TTATCATTAA
85601 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
85626 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
85651 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
85666 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:85932 original size:21 final size:21
Alignment explanation
Indices: 85887--85932 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
85877 AAATTACATA
* *
85887 ACTTTTAAAAAAGTATCTATC
1 ACTTTTAAAAAAGTATCGAAC
85908 -CTTTTATAAAAAGTAT-GAAC
1 ACTTTTA-AAAAAGTATCGAAC
85928 ACTTT
1 ACTTT
85933 CAATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (21 bp):
ACTTTTAAAAAAGTATCGAAC
Found at i:85988 original size:22 final size:23
Alignment explanation
Indices: 85950--86012 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
85940 ATAGGTAAAC
*
85950 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
85973 ATATAATGT-ATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
85995 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
86013 TGGTTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:86019 original size:23 final size:23
Alignment explanation
Indices: 85950--86021 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
85940 ATAGGTAAAC
* **
85950 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
85973 ATATAATGT-ATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
85995 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
86018 ATAT
1 ATAT
86022 TGTAAAGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 18 0.44
23 22 0.54
24 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:93671 original size:29 final size:29
Alignment explanation
Indices: 93638--93696 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
93628 TATATGTGAT
93638 GAAAAGAAAATTGTCACATTTTTAGTAAC
1 GAAAAGAAAATTGTCACATTTTTAGTAAC
93667 GAAAAGAAAATTGTCACATTTTTAGTAAC
1 GAAAAGAAAATTGTCACATTTTTAGTAAC
93696 G
1 G
93697 TGGTATATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (29 bp):
GAAAAGAAAATTGTCACATTTTTAGTAAC
Found at i:98314 original size:35 final size:35
Alignment explanation
Indices: 98268--98353 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 35
98258 AAAACAGTCC
*
98268 TCAATTTCATTCTAAACCAC-AAATTTCAAAGTAAT
1 TCAATTTCATTCTAAACC-CTAAATTTCAAAATAAT
98303 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
*
98338 TCAATTACATTCTAAA
1 TCAATTTCATTCTAAA
98354 ATACTTCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 1 0.02
35 47 0.98
ACGTcount: A:0.43, C:0.20, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
Found at i:99209 original size:22 final size:22
Alignment explanation
Indices: 99184--99235 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
99174 TAAAAAACTT
99184 AATTATAATTGAAATAAATAAA
1 AATTATAATTGAAATAAATAAA
99206 AATTATAATTGAAATAAATAAA
1 AATTATAATTGAAATAAATAAA
99228 AATTATAA
1 AATTATAA
99236 GGATGTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AATTATAATTGAAATAAATAAA
Found at i:99493 original size:35 final size:35
Alignment explanation
Indices: 99445--99556 Score: 170
Period size: 35 Copynumber: 3.2 Consensus size: 35
99435 ATTTCTTCTT
* *
99445 AAATTGAAGTATTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* *
99480 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* *
99515 AAATTGAATTACTTTGGAATTTGTGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
99550 AAATTGA
1 AAATTGA
99557 GGACTGTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.42
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
Found at i:99960 original size:82 final size:82
Alignment explanation
Indices: 99851--100249 Score: 451
Period size: 82 Copynumber: 4.8 Consensus size: 82
99841 ACACTATTGC
* * * **
99851 GGCGTTTATTGAAAAAACGCCACTATAGGTAAACACTATTGCGGCGTTTGTATAAAAACGTAGCT
1 GGCGTTTATT-AAAAAACGCCACTATAGGTGAACCCTATTGCGGCGTTTATATAAAAACGCCGCT
**
99916 AAAGTTGTAATCTGTTGT
65 AAAGTACTAATCTGTTGT
99934 GGCGTTTATTAAAAAACGCCACTATAGGTGAACCCTATTGCGGCGTTTATATAAAAACGCCGCTA
1 GGCGTTTATTAAAAAACGCCACTATAGGTGAACCCTATTGCGGCGTTTATATAAAAACGCCGCTA
* *
99999 AAGTTCTAATTTGTTGT
66 AAGTACTAATCTGTTGT
* * * * ***
100016 GGCGTTTATTGAAAAACGACACTACAGGTGAACCCTATTACGATATTTATATAAAAACGCCGCTA
1 GGCGTTTATTAAAAAACGCCACTATAGGTGAACCCTATTGCGGCGTTTATATAAAAACGCCGCTA
100081 AAGTACTAATCTGTTGT
66 AAGTACTAATCTGTTGT
* * * * * *
100098 GGCGTTTATTGAAAAAACGGCACTATAGATGGA-CCTATTGCGGCGTTTGTATAAAAATGTCGCT
1 GGCGTTTATT-AAAAAACGCCACTATAGGTGAACCCTATTGCGGCGTTTATATAAAAACGCCGCT
** *
100162 AAAGTACTTCTCTGATGT
65 AAAGTACTAATCTGTTGT
* * * * * * * *
100180 GGCGTTTGTCGAAAACACGCCACTATAGATGAACCCTATTACGACATTTGTA-AAGAAACGCCGC
1 GGCGTTTAT-TAAAAAACGCCACTATAGGTGAACCCTATTGCGGCGTTTATATAA-AAACGCCGC
100244 TAAAGT
64 TAAAGT
100250 TACCATTTTG
Statistics
Matches: 271, Mismatches: 41, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
82 216 0.80
83 55 0.20
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (82 bp):
GGCGTTTATTAAAAAACGCCACTATAGGTGAACCCTATTGCGGCGTTTATATAAAAACGCCGCTA
AAGTACTAATCTGTTGT
Found at i:100084 original size:164 final size:164
Alignment explanation
Indices: 99851--100250 Score: 507
Period size: 164 Copynumber: 2.4 Consensus size: 164
99841 ACACTATTGC
* * * * * **
99851 GGCGTTTATTGAAAAAACGCCACTATAGGTAAACACTATTGCGGCGTTTGTATAAAAACGTAGCT
1 GGCGTTTATTG-AAAAACGCCACTATAGGTGAACCCTATTACGACATTTGTATAAAAACGCCGCT
* *
99916 AAAGTTGTAATCTGTTGTGGCGTTTATT-AAAAAACGCCACTATAGGTGAACCCTATTGCGGCGT
65 AAAGTTCTAATCTGTTGTGGCGTTTATTGAAAAAACGCCACTATAGATGAA-CCTATTGCGGCGT
* * *
99980 TTATATAAAAACGCCGCTAAAGTTCTAATTTGTTGT
129 TTATATAAAAACGCCGCTAAAGTACTAATCTGATGT
* * * *
100016 GGCGTTTATTGAAAAACGACACTACAGGTGAACCCTATTACGATATTTATATAAAAACGCCGCTA
1 GGCGTTTATTGAAAAACGCCACTATAGGTGAACCCTATTACGACATTTGTATAAAAACGCCGCTA
* * *
100081 AAGTACTAATCTGTTGTGGCGTTTATTGAAAAAACGGCACTATAGATGGACCTATTGCGGCGTTT
66 AAGTTCTAATCTGTTGTGGCGTTTATTGAAAAAACGCCACTATAGATGAACCTATTGCGGCGTTT
* * * **
100146 GTATAAAAATGTCGCTAAAGTACTTCTCTGATGT
131 ATATAAAAACGCCGCTAAAGTACTAATCTGATGT
* * *
100180 GGCGTTTGTCGAAAACACGCCACTATAGATGAACCCTATTACGACATTTGTA-AAGAAACGCCGC
1 GGCGTTTATTGAAAA-ACGCCACTATAGGTGAACCCTATTACGACATTTGTATAA-AAACGCCGC
100244 TAAAGTT
64 TAAAGTT
100251 ACCATTTTGT
Statistics
Matches: 200, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
164 124 0.62
165 76 0.38
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (164 bp):
GGCGTTTATTGAAAAACGCCACTATAGGTGAACCCTATTACGACATTTGTATAAAAACGCCGCTA
AAGTTCTAATCTGTTGTGGCGTTTATTGAAAAAACGCCACTATAGATGAACCTATTGCGGCGTTT
ATATAAAAACGCCGCTAAAGTACTAATCTGATGT
Found at i:100143 original size:41 final size:40
Alignment explanation
Indices: 99804--100154 Score: 217
Period size: 41 Copynumber: 8.5 Consensus size: 40
99794 AATTCAAACA
*
99804 ATTGCGGCGTTTATTGAAAAAACGCCACTATAGGTAAACACT
1 ATTGCGGCGTTTATT-AAAAAACGCCACTATAGGTGAAC-CT
*
99846 ATTGCGGCGTTTATTGAAAAAACGCCACTATAGGTAAACACT
1 ATTGCGGCGTTTATT-AAAAAACGCCACTATAGGTGAAC-CT
* * * * *
99888 ATTGCGGCGTTT-GTATAAAAACG-TAGCTAAAGTTGTAATCT
1 ATTGCGGCGTTTATTA-AAAAACGCCA-CTATAGGTG-AACCT
* *
99929 GTTGTGGCGTTTATTAAAAAACGCCACTATAGGTGAACCCT
1 ATTGCGGCGTTTATTAAAAAACGCCACTATAGGTGAA-CCT
* * * * **
99970 ATTGCGGCGTTTA-TATAAAAACGCCGCTAAAGTTCTAATTT
1 ATTGCGGCGTTTATTA-AAAAACGCCACTATAGGT-GAACCT
* * * * *
100011 GTTGTGGCGTTTATTGAAAAACGACACTACAGGTGAACCCT
1 ATTGCGGCGTTTATTAAAAAACGCCACTATAGGTGAA-CCT
* *** * * * *
100052 ATTACGATATTTA-TATAAAAACGCCGCTA-AAGTACTAATCT
1 ATTGCGGCGTTTATTA-AAAAACGCCACTATAGGT--GAACCT
* * * * *
100093 GTTGTGGCGTTTATTGAAAAAACGGCACTATAGATGGACCT
1 ATTGCGGCGTTTATT-AAAAAACGCCACTATAGGTGAACCT
*
100134 ATTGCGGCGTTTGTATAAAAA
1 ATTGCGGCGTTTAT-TAAAAA
100155 TGTCGCTAAA
Statistics
Matches: 233, Mismatches: 59, Indels: 35
0.71 0.18 0.11
Matches are distributed among these distances:
40 12 0.05
41 141 0.61
42 77 0.33
43 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (40 bp):
ATTGCGGCGTTTATTAAAAAACGCCACTATAGGTGAACCT
Found at i:100448 original size:20 final size:20
Alignment explanation
Indices: 100423--100518 Score: 63
Period size: 19 Copynumber: 4.5 Consensus size: 20
100413 AAATATAGAA
*
100423 AATTTAGATAAATTAAAAAT
1 AATTTAAATAAATTAAAAAT
*
100443 AATTTAAAT-AATTTAAAAT
1 AATTTAAATAAATTAAAAAT
* *
100462 AGTTATTAA-AAA-TAAGGAATATT
1 AATT-TAAATAAATTAA--AA-A-T
100485 CAATTTAAATAATTATTAAAAAT
1 -AATTTAAATAA--ATTAAAAAT
100508 AATTTAAATAA
1 AATTTAAATAA
100519 TTTAGATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
19 14 0.24
20 13 0.22
21 2 0.03
22 12 0.21
23 5 0.09
24 6 0.10
25 2 0.03
26 1 0.02
27 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTTAAATAAATTAAAAAT
Found at i:100597 original size:22 final size:22
Alignment explanation
Indices: 100565--100612 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
100555 AGAAAATGTC
*
100565 TTTTAACATATACTAAATACTT
1 TTTTAACATATACTAAATAATT
* **
100587 TTTTAATATATTTTAAATAATT
1 TTTTAACATATACTAAATAATT
100609 TTTT
1 TTTT
100613 TGGATTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAACATATACTAAATAATT
Found at i:101978 original size:30 final size:30
Alignment explanation
Indices: 101942--101998 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
101932 ACGAGGAAGA
*
101942 GAGGAAGATTTGGGAATGGATGATCGAATG
1 GAGGAAGAATTGGGAATGGATGATCGAATG
101972 GAGGAAGAATTGGGAATGGATGATCGA
1 GAGGAAGAATTGGGAATGGATGATCGA
101999 GGGTTAGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.40, T:0.21
Consensus pattern (30 bp):
GAGGAAGAATTGGGAATGGATGATCGAATG
Found at i:114039 original size:31 final size:30
Alignment explanation
Indices: 113994--114101 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 30
113984 ATTTATATTT
113994 AATTTT-T-TGTATAATTGAATTAAAATTAA
1 AATTTTATATGTATAATT-AATTAAAATTAA
* *
114023 AGTTTTATATGTATAATT-ATTATAATT-A
1 AATTTTATATGTATAATTAATTAAAATTAA
* * *
114051 ATTTTTATTATATATAATTTAA-TCAAATTCAA
1 AATTTTA-TATGTATAA-TTAATTAAAATT-AA
*
114083 AATTTTATAAGTATAATTA
1 AATTTTATATGTATAATTA
114102 CAACAAATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
28 7 0.11
29 21 0.33
30 11 0.17
31 17 0.27
32 7 0.11
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTTATATGTATAATTAATTAAAATTAA
Found at i:116100 original size:24 final size:24
Alignment explanation
Indices: 115994--116100 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
115984 AAACGGAGAT
* * * *
115994 ATCAAAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATCCAA
* *
116018 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATCCAA
* *
116042 ATCATAAATCAGAATAGAATCCAA
1 ATCAGAAATCAGAACAGAATCCAA
* ** *
116066 GTCAGGTATCAGAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATCCAA
*
116090 ATCGGAAATCA
1 ATCAGAAATCA
116101 AATAAAACAT
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATCCAA
Found at i:120860 original size:59 final size:59
Alignment explanation
Indices: 120781--120930 Score: 212
Period size: 59 Copynumber: 2.5 Consensus size: 59
120771 TGTCTGCTTA
* * * * * *
120781 TGTGTTATGGATGAGTGTTTGAGCTCTGTGTCCCGAGCTTCATCATTGATGTTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCTCTGTGACCCAAGCATCATCATTGATGTTGTATTG
* *
120840 TGTGTTGTAGATGAATGTTTGATCT-TCGTAACCCAAGCATCATCATTGATGTTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCTCT-GTGACCCAAGCATCATCATTGATGTTGTATTG
120899 TGTGTTGTAGATGAATGTTTGAGCTCTGTGAC
1 TGTGTTGTAGATGAATGTTTGAGCTCTGTGAC
120931 TCGAACCTCG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.01
59 77 0.97
60 1 0.01
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (59 bp):
TGTGTTGTAGATGAATGTTTGAGCTCTGTGACCCAAGCATCATCATTGATGTTGTATTG
Found at i:123311 original size:25 final size:23
Alignment explanation
Indices: 123273--123318 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
123263 CTATATCGAG
*
123273 TGCATGTCATTTTTGTAATGCTTTA
1 TGCATGTCA-GTTT-TAATGCTTTA
*
123298 TGCATGTGAGTTTTAATGCTT
1 TGCATGTCAGTTTTAATGCTT
123319 CATTTCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 3 0.16
25 8 0.42
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.50
Consensus pattern (23 bp):
TGCATGTCAGTTTTAATGCTTTA
Found at i:126932 original size:29 final size:29
Alignment explanation
Indices: 126899--127087 Score: 326
Period size: 29 Copynumber: 6.6 Consensus size: 29
126889 ATAAATTTAT
* *
126899 TTACGAAAATAACACCCTTTTAAAATTAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
126928 TTACGAAAATAGCA-CCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
126956 TTACCAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
126985 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
127014 TTACAAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
127043 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
127072 TTACGAAAATATCACC
1 TTACGAAAATAGCACC
127088 GAACATAATT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
28 26 0.17
29 126 0.83
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Found at i:127012 original size:17 final size:17
Alignment explanation
Indices: 126990--127041 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
126980 AATAATTACG
126990 AAAATAGCACCCTTTTA
1 AAAATAGCACCCTTTTA
**
127007 AAAATA--A---TTACA
1 AAAATAGCACCCTTTTA
127019 AAAATAGCACCCTTTTA
1 AAAATAGCACCCTTTTA
127036 AAAATA
1 AAAATA
127042 ATTACGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 9 0.35
14 1 0.04
15 1 0.04
17 15 0.58
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAATAGCACCCTTTTA
Found at i:127102 original size:87 final size:86
Alignment explanation
Indices: 126919--127133 Score: 281
Period size: 87 Copynumber: 2.5 Consensus size: 86
126909 AACACCCTTT
126919 TAAAATTAATTACGAAAATAGCA-CCTTTTAAAAATAATTACCAAAATAGCACCCTTTTAAAAAT
1 TAAAATTAATTAC-AAAATAGCACCCTTTTAAAAATAATTACCAAAATAGCACCCTTTTAAAAAT
****
126983 AATTACGAAAATAGCACCCTTT
65 AATTACGAAAATAGCACCAACA
* *
127005 TAAAAATAATTACAAAAATAGCACCCTTTTAAAAATAATTACGAAAATAGCACCCTTTTAAAAAT
1 TAAAATTAATTAC-AAAATAGCACCCTTTTAAAAATAATTACCAAAATAGCACCCTTTTAAAAAT
*
127070 AATTACGAAAATATCACCGAACA
65 AATTACGAAAATAGCACC-AACA
* ** *
127093 T-AATTTAATTACCTAATAGGCACCCTTTTAAAAATATTTAC
1 TAAAATTAATTACAAAATA-GCACCCTTTTAAAAATAATTAC
127134 AGAATAACAC
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
86 25 0.22
87 87 0.77
88 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (86 bp):
TAAAATTAATTACAAAATAGCACCCTTTTAAAAATAATTACCAAAATAGCACCCTTTTAAAAATA
ATTACGAAAATAGCACCAACA
Found at i:127159 original size:58 final size:57
Alignment explanation
Indices: 126921--127161 Score: 148
Period size: 58 Copynumber: 4.2 Consensus size: 57
126911 CACCCTTTTA
** * * ****
126921 AAATTAATTACGAAAATAGCA-CCTTTTAAAAATAATTACCAAAATAGCACCCTTTTA-
1 AAATTAATTAC-CTAATAGCACCCTTTTAAAAATAATTACGAAAATAACA-CCGAACAG
* ** * * ****
126978 AAAATAATTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAGCACCCTTTTA-
1 AAATTAATTAC-CTAATAGCACCCTTTTAAAAATAATTACGAAAATAACA-CCGAACAG
* ** * *
127036 AAAATAATTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATATCACCGAACAT
1 AAATTAATTAC-CTAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCGAACAG
* * * * *
127094 AATTTAATTACCTAATAGGCACCCTTTTAAAAATATTTAC-AGAATAACACCATAACCG
1 AAATTAATTACCTAATA-GCACCCTTTTAAAAATAATTACGAAAATAACACC-GAACAG
127152 AAATTAATTA
1 AAATTAATTA
127162 TGCATTTATC
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
57 36 0.22
58 125 0.78
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (57 bp):
AAATTAATTACCTAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCGAACAG
Found at i:137995 original size:29 final size:29
Alignment explanation
Indices: 137962--138020 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
137952 TATATGTGAT
137962 GAAAAGAAAATTGTCACATTTTTAGTAAC
1 GAAAAGAAAATTGTCACATTTTTAGTAAC
137991 GAAAAGAAAATTGTCACATTTTTAGTAAC
1 GAAAAGAAAATTGTCACATTTTTAGTAAC
138020 G
1 G
138021 TGGTATATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (29 bp):
GAAAAGAAAATTGTCACATTTTTAGTAAC
Found at i:138328 original size:194 final size:193
Alignment explanation
Indices: 138032--138389 Score: 466
Period size: 194 Copynumber: 1.8 Consensus size: 193
138022 GGTATATCGC
* * *
138032 CACCTAATAGTAGCATGGATGACATTTATATATAACATCACTATATAATTAATATTCAATGACAA
1 CACCTAATAATAGCATGAATGACATTTATACATAACATCACTATATAATTAATATTCAATGACAA
* * * **
138097 CTAATTATGTCACTAAATTATCGATAATTTCGTTATTGATGATTTATATCGTCACGGATAATACA
66 CTAATTACGTCACTAAATTA-CAATAATTTCGTTATTGATAATTTATATCGTCACAAATAATACA
*
138162 TTAAAATCAACCTATATGTGACGAAAGAGATATTGTCACATTTTTAGTGACATAATATAAATCT
130 TTAAAATCAACCTATATGTGACGAAAAAGATATTGTCACATTTTTAGTGACATAATATAAATCT
** * * * * * *
138226 CACCTAATAATATTATGAATGACGTTTATACATAACGTCACTTTATAATTTATATTCTATGACAG
1 CACCTAATAATAGCATGAATGACATTTATACATAACATCACTATATAATTAATATTCAATGACAA
* ** * *
138291 TTGGTTACGTCACTAAATTA-AATAAGATTTCGTTATTGATAATTTATATTGTCACAAATAATGC
66 CTAATTACGTCACTAAATTACAAT-A-ATTTCGTTATTGATAATTTATATCGTCACAAATAATAC
**
138355 ATTAAAATCAATTTATATGTGACGAAAAAGATATT
129 ATTAAAATCAACCTATATGTGACGAAAAAGATATT
138390 TTAGCAAAAC
Statistics
Matches: 138, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
192 2 0.01
193 1 0.01
194 135 0.98
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (193 bp):
CACCTAATAATAGCATGAATGACATTTATACATAACATCACTATATAATTAATATTCAATGACAA
CTAATTACGTCACTAAATTACAATAATTTCGTTATTGATAATTTATATCGTCACAAATAATACAT
TAAAATCAACCTATATGTGACGAAAAAGATATTGTCACATTTTTAGTGACATAATATAAATCT
Found at i:142641 original size:35 final size:35
Alignment explanation
Indices: 142595--142680 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 35
142585 AAAACATTTC
*
142595 TCAATTTCATTCTAAACCAC-AAATTTCAAAGTAAT
1 TCAATTTCATTCTAAACC-CTAAATTTCAAAATAAT
142630 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
*
142665 TCAATTACATTCTAAA
1 TCAATTTCATTCTAAA
142681 ATACTTCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 1 0.02
35 47 0.98
ACGTcount: A:0.43, C:0.20, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
Found at i:143798 original size:35 final size:35
Alignment explanation
Indices: 143750--143861 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
143740 ATTTCTCCTT
* *
143750 AAATTGAAGTATTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* *
143785 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* * *
143820 AAATTAAATTACTTTGGAATTTGTGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
143855 AAATTGA
1 AAATTGA
143862 GGACTGTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
Found at i:144161 original size:42 final size:41
Alignment explanation
Indices: 144113--144299 Score: 195
Period size: 41 Copynumber: 4.5 Consensus size: 41
144103 CAAACAATTA
144113 CGGCGTTTATTGAAAAAACGCCACTATAGGTAAACACTATTG
1 CGGCGTTTATT-AAAAAACGCCACTATAGGTAAACACTATTG
144155 CGGCGTTTATTGAAAAAACGCCACTATAGGTAAACACTATTG
1 CGGCGTTTATT-AAAAAACGCCACTATAGGTAAACACTATTG
* * * * * *
144197 TGGCGTTT-GTATAAAAACG-TAGCTAAAGTTGT-AA-TCTGTTG
1 CGGCGTTTATTA-AAAAACGCCA-CTATAG--GTAAACACTATTG
* * *
144238 TGGCGTTTATTAAAAAACGCCACTATAGGTGAACCCTATTG
1 CGGCGTTTATTAAAAAACGCCACTATAGGTAAACACTATTG
144279 CGGCGTTTA-TATAAAAACGCC
1 CGGCGTTTATTA-AAAAACGCC
144300 GCTAAAGTTC
Statistics
Matches: 124, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.05
41 60 0.48
42 54 0.44
43 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (41 bp):
CGGCGTTTATTAAAAAACGCCACTATAGGTAAACACTATTG
Found at i:144239 original size:41 final size:41
Alignment explanation
Indices: 144194--144419 Score: 135
Period size: 41 Copynumber: 5.5 Consensus size: 41
144184 GTAAACACTA
* *
144194 TTGTGGCGTTTGTATAAAAACGTAGCTAAAGTTGTAATCTG
1 TTGTGGCGTTTATATAAAAACGCAGCTAAAGTTGTAATCTG
* * * *
144235 TTGTGGCGTTTAT-TAAAAAACGCCA-CTATAGGTG-AACCCTA
1 TTGTGGCGTTTATAT-AAAAACG-CAGCTAAAGTTGTAA-TCTG
* * * *
144276 TTGCGGCGTTTATATAAAAACGCCGCTAAAGTTCTAATTTG
1 TTGTGGCGTTTATATAAAAACGCAGCTAAAGTTGTAATCTG
* * * * *
144317 TTGTGGCATTTAT-TGAAAAACGACA-CTACAGGTG-AACCCTA
1 TTGTGGCGTTTATAT-AAAAACG-CAGCTAAAGTTGTAA-TCTG
** * * * **
144358 TTACGACATTTATAT-AAAACGCCGCTAAAGTACTAATCTG
1 TTGTGGCGTTTATATAAAAACGCAGCTAAAGTTGTAATCTG
144398 TTGTGGCGTTTAT-TGAAAAACG
1 TTGTGGCGTTTATAT-AAAAACG
144420 GCACTATTGA
Statistics
Matches: 134, Mismatches: 37, Indels: 28
0.67 0.19 0.14
Matches are distributed among these distances:
39 2 0.01
40 29 0.22
41 97 0.72
42 6 0.04
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (41 bp):
TTGTGGCGTTTATATAAAAACGCAGCTAAAGTTGTAATCTG
Found at i:144403 original size:163 final size:164
Alignment explanation
Indices: 144218--144552 Score: 431
Period size: 163 Copynumber: 2.0 Consensus size: 164
144208 TAAAAACGTA
** *
144218 GCTAAAGTTGTAATCTGTTGTGGCGTTTATTAAAAAACGCCACTATAGGTGAACCCTATTGCGGC
1 GCTAAAGTACTAATCTGTTGTGGCGTTTATTAAAAAACGCCACTATAGATGAA-CCTATTGCGGC
* * * * * *
144283 GTTTATATAAAAACGCCGCTAAAGTTCTAATTTGTTGTGGCATTTATTGAAAA-ACGACACTACA
65 ATTTATATAAAAACGCCGCTAAAATACTAATCTGATGTGGCATTTATCGAAAACACGACACTACA
* *
144347 GGTGAACCCTATTACGACATTTATATA-AAACGCC
130 GATGAACCCTATTACGACATTTATAAATAAACGCC
* * * *
144381 GCTAAAGTACTAATCTGTTGTGGCGTTTATTGAAAAACGGCACTATTGATGGACCTATTGCGGCA
1 GCTAAAGTACTAATCTGTTGTGGCGTTTATTAAAAAACGCCACTATAGATGAACCTATTGCGGCA
* * * ** * * * *
144446 TTTGTATAAAAATGTCGCTAAAATACTTCTCTGATGTGGCGTTTGTCGAAAACACGCCACTATAG
66 TTTATATAAAAACGCCGCTAAAATACTAATCTGATGTGGCATTTATCGAAAACACGACACTACAG
144511 ATGAACCCTATTACGACATTTATAAATAAACGCC
131 ATGAACCCTATTACGACATTTATAAATAAACGCC
144545 GCTAAAGT
1 GCTAAAGT
144553 TACCATTTTG
Statistics
Matches: 146, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
162 51 0.35
163 80 0.55
164 15 0.10
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (164 bp):
GCTAAAGTACTAATCTGTTGTGGCGTTTATTAAAAAACGCCACTATAGATGAACCTATTGCGGCA
TTTATATAAAAACGCCGCTAAAATACTAATCTGATGTGGCATTTATCGAAAACACGACACTACAG
ATGAACCCTATTACGACATTTATAAATAAACGCC
Found at i:144412 original size:81 final size:82
Alignment explanation
Indices: 144156--144552 Score: 440
Period size: 82 Copynumber: 4.8 Consensus size: 82
144146 ACACTATTGC
* * * * * **
144156 GGCGTTTATTGAAAAAACGCCACTATAGGTAAACACTATTGTGGCGTTTGTATAAAAACGTAGCT
1 GGCGTTTATTG-AAAAACGCCACTATAGGTGAACCCTATTGCGGCATTTATATAAAAACGCCGCT
**
144221 AAAGTTGTAATCTGTTGT
65 AAAGTACTAATCTGTTGT
* *
144239 GGCGTTTATTAAAAAACGCCACTATAGGTGAACCCTATTGCGGCGTTTATATAAAAACGCCGCTA
1 GGCGTTTATTGAAAAACGCCACTATAGGTGAACCCTATTGCGGCATTTATATAAAAACGCCGCTA
* *
144304 AAGTTCTAATTTGTTGT
66 AAGTACTAATCTGTTGT
* * * * *
144321 GGCATTTATTGAAAAACGACACTACAGGTGAACCCTATTACGACATTTATAT-AAAACGCCGCTA
1 GGCGTTTATTGAAAAACGCCACTATAGGTGAACCCTATTGCGGCATTTATATAAAAACGCCGCTA
144385 AAGTACTAATCTGTTGT
66 AAGTACTAATCTGTTGT
* * * * * * *
144402 GGCGTTTATTGAAAAACGGCACTATTGATGGA-CCTATTGCGGCATTTGTATAAAAATGTCGCTA
1 GGCGTTTATTGAAAAACGCCACTATAGGTGAACCCTATTGCGGCATTTATATAAAAACGCCGCTA
* ** *
144466 AAATACTTCTCTGATGT
66 AAGTACTAATCTGTTGT
* * * * *
144483 GGCGTTTGTCGAAAACACGCCACTATAGATGAACCCTATTACGACATTTATA-AATAAACGCCGC
1 GGCGTTTATTGAAAA-ACGCCACTATAGGTGAACCCTATTGCGGCATTTATATAA-AAACGCCGC
144547 TAAAGT
64 TAAAGT
144553 TACCATTTTG
Statistics
Matches: 266, Mismatches: 44, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
80 16 0.06
81 89 0.33
82 124 0.47
83 37 0.14
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (82 bp):
GGCGTTTATTGAAAAACGCCACTATAGGTGAACCCTATTGCGGCATTTATATAAAAACGCCGCTA
AAGTACTAATCTGTTGT
Found at i:144751 original size:20 final size:20
Alignment explanation
Indices: 144726--144821 Score: 63
Period size: 19 Copynumber: 4.5 Consensus size: 20
144716 AAATATAGAA
*
144726 AATTTAGATAAATTAAAAAT
1 AATTTAAATAAATTAAAAAT
*
144746 AATTTAAAT-AATTTAAAAT
1 AATTTAAATAAATTAAAAAT
* *
144765 AGTTATTAA-AAA-TAAGGAATATT
1 AATT-TAAATAAATTAA--AA-A-T
144788 CAATTTAAATAATTATTAAAAAT
1 -AATTTAAATAA--ATTAAAAAT
144811 AATTTAAATAA
1 AATTTAAATAA
144822 TTTAGATAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
19 14 0.24
20 13 0.22
21 2 0.03
22 12 0.21
23 5 0.09
24 6 0.10
25 2 0.03
26 1 0.02
27 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTTAAATAAATTAAAAAT
Found at i:144900 original size:22 final size:22
Alignment explanation
Indices: 144868--144915 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
144858 AGAAAATGTC
*
144868 TTTTAACATATACTAAATACTT
1 TTTTAACATATACTAAATAATT
* **
144890 TTTTAATATATTTTAAATAATT
1 TTTTAACATATACTAAATAATT
144912 TTTT
1 TTTT
144916 TGGATTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAACATATACTAAATAATT
Found at i:159106 original size:31 final size:30
Alignment explanation
Indices: 159061--159168 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 30
159051 ATTTATATTT
159061 AATTTT-T-TGTATAATTGAATTAAAATTAA
1 AATTTTATATGTATAATT-AATTAAAATTAA
* *
159090 AGTTTTATATGTATAATT-ATTATAATT-A
1 AATTTTATATGTATAATTAATTAAAATTAA
* * *
159118 ATTTTTATTATATATAATTTAA-TCAAATTCAA
1 AATTTTA-TATGTATAA-TTAATTAAAATT-AA
*
159150 AATTTTATAAGTATAATTA
1 AATTTTATATGTATAATTA
159169 CAACAAATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
28 7 0.11
29 21 0.33
30 11 0.17
31 17 0.27
32 7 0.11
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTTATATGTATAATTAATTAAAATTAA
Found at i:161085 original size:24 final size:24
Alignment explanation
Indices: 161058--161164 Score: 124
Period size: 24 Copynumber: 4.5 Consensus size: 24
161048 AAACGGAGAT
* *
161058 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATCCAG
*
161082 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATCCAG
*
161106 ATCAGAAATCAGAATAGAATCCAG
1 ATCAGAAATCAGAACAGAATCCAG
* ** * *
161130 GTCAGGTATCAGAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATCCAG
*
161154 ATCGGAAATCA
1 ATCAGAAATCA
161165 AATAAAACAT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATCCAG
Found at i:161087 original size:12 final size:12
Alignment explanation
Indices: 161058--161118 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
161048 AAACGGAGAT
* *
161058 ATCAGAAATCAA
1 ATCAGAATTCAG
*
161070 AACAGAATTCAG
1 ATCAGAATTCAG
161082 ATCAG-ATATCAG
1 ATCAGAAT-TCAG
* *
161094 AACAGAATCCAG
1 ATCAGAATTCAG
*
161106 ATCAGAAATCAG
1 ATCAGAATTCAG
161118 A
1 A
161119 ATAGAATCCA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
11 2 0.05
12 34 0.89
13 2 0.05
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (12 bp):
ATCAGAATTCAG
Found at i:161114 original size:48 final size:48
Alignment explanation
Indices: 161058--161166 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 48
161048 AAACGGAGAT
* *
161058 ATCAGAAATCAAAACAGAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATCCAGATCAGATATCAGAACAGAATCCAA
* * * * *
161106 ATCAGAAATCAGAATAGAATCCAGGTCAGGTATCAGAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATCCAGATCAGATATCAGAACAGAATCCAA
*
161154 ATCGGAAATCAAA
1 ATCAGAAATCAAA
161167 TAAAACATTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATCCAGATCAGATATCAGAACAGAATCCAA
Found at i:165905 original size:59 final size:59
Alignment explanation
Indices: 165826--165975 Score: 212
Period size: 59 Copynumber: 2.5 Consensus size: 59
165816 TGTCTGCTTA
* * * * * *
165826 TGTGTTATGGATGAGTGTTTGAGCTCTGTGTCCCGAGCTTCATCATTGATGTTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCTCTGTGACCCAAGCATCATCATTGATGTTGTATTG
* *
165885 TGTGTTGTAGATGAATGTTTGATCT-TCGTAACCCAAGCATCATCATTGATGTTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCTCT-GTGACCCAAGCATCATCATTGATGTTGTATTG
165944 TGTGTTGTAGATGAATGTTTGAGCTCTGTGAC
1 TGTGTTGTAGATGAATGTTTGAGCTCTGTGAC
165976 TCGAACCTCG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.01
59 77 0.97
60 1 0.01
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (59 bp):
TGTGTTGTAGATGAATGTTTGAGCTCTGTGACCCAAGCATCATCATTGATGTTGTATTG
Found at i:168356 original size:25 final size:23
Alignment explanation
Indices: 168318--168363 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
168308 CTATATCGAG
*
168318 TGCATGTCATTTTTGTAATGCTTTA
1 TGCATGTCA-GTTT-TAATGCTTTA
*
168343 TGCATGTGAGTTTTAATGCTT
1 TGCATGTCAGTTTTAATGCTT
168364 CATTTCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 3 0.16
25 8 0.42
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.50
Consensus pattern (23 bp):
TGCATGTCAGTTTTAATGCTTTA
Found at i:171965 original size:29 final size:29
Alignment explanation
Indices: 171932--172092 Score: 277
Period size: 29 Copynumber: 5.6 Consensus size: 29
171922 ATAAATTTAT
* *
171932 TTACGAAAATAACACCCTTTTAAAATTAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
171961 TTACGAATATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
171990 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
172019 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
172048 TTACAAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
172077 TTACGAAAATATCACC
1 TTACGAAAATAGCACC
172093 GAACAGAATT
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 125 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.29
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Found at i:172046 original size:17 final size:17
Alignment explanation
Indices: 172024--172075 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
172014 AATAATTACG
172024 AAAATAGCACCCTTTTA
1 AAAATAGCACCCTTTTA
**
172041 AAAATA--A---TTACA
1 AAAATAGCACCCTTTTA
172053 AAAATAGCACCCTTTTA
1 AAAATAGCACCCTTTTA
172070 AAAATA
1 AAAATA
172076 ATTACGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 9 0.35
14 1 0.04
15 1 0.04
17 15 0.58
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAATAGCACCCTTTTA
Found at i:172107 original size:87 final size:87
Alignment explanation
Indices: 171924--172139 Score: 265
Period size: 87 Copynumber: 2.5 Consensus size: 87
171914 ACCTTAAAAT
* * * * *
171924 AAATTTATTTACGAAAATAACACCCTTTTAAAATTAATTACGAATATAGCACCCTTTTAAAAATA
1 AAATTTAATTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAGCACCCTTTTAAAAATA
****
171989 ATTACGAAAATAGCACCCTTTT
66 ATTACGAAAATAGCACCCGAAC
**
172011 AAAAATAATTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAGCACCCTTTTAAAAATA
1 AAATTTAATTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAGCACCCTTTTAAAAATA
*
172076 ATTACGAAAATATCA-CCGAAC
66 ATTACGAAAATAGCACCCGAAC
** *
172097 AGAATTTAATTAC-CTAATAGGCACCCTTTTAAAAATATTTACA
1 A-AATTTAATTACGAAAATA-GCACCCTTTTAAAAATAATTACA
172140 GAATAACACC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
86 7 0.06
87 103 0.94
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (87 bp):
AAATTTAATTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAGCACCCTTTTAAAAATA
ATTACGAAAATAGCACCCGAAC
Found at i:172121 original size:58 final size:58
Alignment explanation
Indices: 171932--172138 Score: 211
Period size: 58 Copynumber: 3.6 Consensus size: 58
171922 ATAAATTTAT
* * * * ****
171932 TTACGAAAATAACACCCTTTTAAAATTAATTACGAATATAGCACCCTTTTAAAAATAA
1 TTACAAAAATAGCACCCTTTTAAAAATAATTACGAAAATAGCACCCGAACAAAAATAA
* ****
171990 TTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACAAAAATAGCACCCTTTTAAAAATAATTACGAAAATAGCACCCGAACAAAAATAA
* **
172048 TTACAAAAATAGCACCCTTTTAAAAATAATTACGAAAATATCA-CCGAACAGAATTTAA
1 TTACAAAAATAGCACCCTTTTAAAAATAATTACGAAAATAGCACCCGAACA-AAAATAA
** *
172106 TTAC-CTAATAGGCACCCTTTTAAAAATATTTAC
1 TTACAAAAATA-GCACCCTTTTAAAAATAATTAC
172139 AGAATAACAC
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
57 7 0.05
58 126 0.95
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.29
Consensus pattern (58 bp):
TTACAAAAATAGCACCCTTTTAAAAATAATTACGAAAATAGCACCCGAACAAAAATAA
Found at i:172164 original size:58 final size:57
Alignment explanation
Indices: 171997--172167 Score: 166
Period size: 58 Copynumber: 3.0 Consensus size: 57
171987 TAATTACGAA
* **** * **
171997 AATAGCACCCTTTTAAAAATAATTACGAAAATAGCACCCTTTTA-AAAATAATTACAAA
1 AATAGCACCCTTTTAAAAATAATTACGAAAATAACA-CCGAACAGAAATTAATTAC-CT
* *
172055 AATAGCACCCTTTTAAAAATAATTACGAAAATATCACCGAACAGAATTTAATTACCT
1 AATAGCACCCTTTTAAAAATAATTACGAAAATAACACCGAACAGAAATTAATTACCT
* * * *
172112 AATAGGCACCCTTTTAAAAATATTTAC-AGAATAACACCATAACCGAAATTAATTAC
1 AATA-GCACCCTTTTAAAAATAATTACGAAAATAACACC-GAACAGAAATTAATTAC
172168 GTATTTATCA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
57 16 0.17
58 79 0.83
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.27
Consensus pattern (57 bp):
AATAGCACCCTTTTAAAAATAATTACGAAAATAACACCGAACAGAAATTAATTACCT
Found at i:179399 original size:29 final size:29
Alignment explanation
Indices: 179366--179612 Score: 383
Period size: 29 Copynumber: 8.6 Consensus size: 29
179356 ATAAATTTAT
* * *
179366 TTACGAAAATAGTACCATTTTAAAATTAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
179395 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
179424 TTACGAAAATAGCA-CCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
179452 TTACGAAAATAGAACCCTTTTTAAAAATAA
1 TTACGAAAATAGCACCC-TTTTAAAAATAA
*
179482 TTACAAAAATTA-CA-CCTTTTAAAAATAA
1 TTACGAAAA-TAGCACCCTTTTAAAAATAA
179510 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
179539 TTATGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
179568 TTACGAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
179597 TTACGAAAATATCACC
1 TTACGAAAATAGCACC
179613 GAATATAATT
Statistics
Matches: 202, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
27 2 0.01
28 49 0.24
29 128 0.63
30 21 0.10
31 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Found at i:179537 original size:17 final size:17
Alignment explanation
Indices: 179515--179566 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
179505 AATAATTACG
179515 AAAATAGCACCCTTTTA
1 AAAATAGCACCCTTTTA
* *
179532 AAAATA--A---TTATG
1 AAAATAGCACCCTTTTA
179544 AAAATAGCACCCTTTTA
1 AAAATAGCACCCTTTTA
179561 AAAATA
1 AAAATA
179567 ATTACGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 9 0.35
14 1 0.04
15 1 0.04
17 15 0.58
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAATAGCACCCTTTTA
Found at i:179627 original size:87 final size:85
Alignment explanation
Indices: 179366--179669 Score: 344
Period size: 87 Copynumber: 3.5 Consensus size: 85
179356 ATAAATTTAT
* * * *
179366 TTACGAAAATAGTACCATTTTAAAATTAATTACGAAAATAGCACCCTTTTAAAAATAATTACGAA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCCTTTTAAAAATAATTACGAA
**
179431 AATAGCACCTTTTAAAAATAA
66 AATAGCACC-AATAAAAATAA
* * *
179452 TTACGAAAATAGAACCCTTTTTAAAAATAATTACAAAAATTACA-CCTTTTAAAAATAATTACGA
1 TTACGAAAATAGCACCC-TTTTAAAAATAATTACGAAAATAACACCCTTTTAAAAATAATTACGA
**
179516 AAATAGCACCCTTTTAAAAATAA
65 AAATAGCA-CC-AATAAAAATAA
*
179539 TTATGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCCTTTTAAAAATAATTACGAA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCCTTTTAAAAATAATTACGAA
* **
179604 AATATCACCGAATATAATTTAA
66 AATAGCACC-AATA-AAAATAA
** * * *
179626 TTAC-CTATTAGGCACCCTTTTAAAAATATTTAC-AGAATAACACC
1 TTACGAAAATA-GCACCCTTTTAAAAATAATTACGAAAATAACACC
179670 ATAACCGAAA
Statistics
Matches: 191, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
86 84 0.44
87 107 0.56
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (85 bp):
TTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCCTTTTAAAAATAATTACGAA
AATAGCACCAATAAAAATAA
Found at i:180736 original size:59 final size:59
Alignment explanation
Indices: 180569--180748 Score: 218
Period size: 59 Copynumber: 3.0 Consensus size: 59
180559 TGTCTGCTTA
* * * * **
180569 TGTGTTATGGATGAGTGTTTGAGCTCCGTGACCCCAACTTCATTATTGATGTTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCTCCGTGACCCGAACTTCATCCTTGATGTTGTATTG
*
180628 TGTGTTGTAGATGAATGTTTGAGCTCCGTGACCCGAGCTTCA-CCATTGATGTTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCTCCGTGACCCGAACTTCATCC-TTGATGTTGTATTG
* ** * * *
180687 TGTGTTGTCGATGAATGTTTGAGCTTTGTGACTCGAACCTCATCCTTGATTATTGTATTG
1 TGTGTTGTAGATGAATGTTTGAGCTCCGTGACCCGAACTTCATCCTTGA-TGTTGTATTG
180747 TG
1 TG
180749 ATTTGCGGAT
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
59 91 0.88
60 13 0.12
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.41
Consensus pattern (59 bp):
TGTGTTGTAGATGAATGTTTGAGCTCCGTGACCCGAACTTCATCCTTGATGTTGTATTG
Found at i:183851 original size:54 final size:54
Alignment explanation
Indices: 183695--184144 Score: 451
Period size: 54 Copynumber: 8.5 Consensus size: 54
183685 CTATTCCTTC
* * **
183695 AGGGAGTAGA-AACTCGAACAATCTTTTGCCTACGGGTTCGCTCCCTCTTTCTTT
1 AGGGAGTATAGAACTCGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
* * *
183749 AGGGAGTATGGAACTC-AAACATCTTCT---TACGGGTTCGCTCCCTCTTTCTCT
1 AGGGAGTATAGAACTCGAAA-ATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
* * * * *
183800 AGGGATTATAGAACTAGAAAATCTTCTGAAAATGGGTTCACTCCCTCTTTCTTT
1 AGGGAGTATAGAACTCGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
* * *
183854 AGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTC
1 AGGGAGTATAGAACTCGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
* *
183908 AGGGAGTATAGAACTCGAACATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTT
1 AGGGAGTATAGAACTCGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
* * * * * * * *
183962 AAGGAGTATGGAACTCGGATAATCTTCTTCAAACGGG-TCAGCTCCTTATTCCTTC
1 AGGGAGTATAGAACTC-GAAAATCTTCTGCAAACGGGTTC-GCTCCCTCTTTCTTT
* * * *
184017 A--GAG---AG---TCGAACAATCTTCTGAAAATGGGTCCGCTCCCTCTTTCTTC
1 AGGGAGTATAGAACTCGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
* *
184064 AGGGAGTATAGAACTTGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTT
1 AGGGAGTATAGAACTCGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
* *
184119 AAGGAGTATAGAACTCGAACATCTTC
1 AGGGAGTATAGAACTCGAAAATCTTC
184145 AACAATCGTG
Statistics
Matches: 328, Mismatches: 50, Indels: 36
0.79 0.12 0.09
Matches are distributed among these distances:
46 2 0.01
47 29 0.09
48 1 0.00
49 3 0.01
50 1 0.00
51 43 0.13
52 5 0.02
53 4 0.01
54 155 0.47
55 85 0.26
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (54 bp):
AGGGAGTATAGAACTCGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTT
Found at i:183933 original size:108 final size:108
Alignment explanation
Indices: 183691--184144 Score: 515
Period size: 108 Copynumber: 4.3 Consensus size: 108
183681 CTTCCTATTC
* * ***
183691 CTTCAGGGAGTAGA-AACTCGAACAATCTTTTGCCTACGGGTTCGCTCCCTCTTTCTTTAGGGAG
1 CTTCAGGGAGTATAGAACTCGAAC-ATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAG
* *
183755 TATGGAACTCAAACATCTTCTT---ACGGGTTCGCTCCCTCTTT
65 TATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
* * * * *
183796 C-TCTAGGGATTATAGAACTAGAAAATCTTCTGAAAATGGGTTCACTCCCTCTTTCTTTAGGGAG
1 CTTC-AGGGAGTATAGAACTCGAACATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAG
183860 TATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
65 TATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
** *
183904 CTTCAGGGAGTATAGAACTCGAACATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAAGGAGT
1 CTTCAGGGAGTATAGAACTCGAACATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGT
* * * *
183969 ATGGAACTCGGATA-ATCTTCTTCAAACGGG-TCAGCTCCTTATTC
66 ATAGAACTC-GA-ACATCTTCTTCAAACGGGTTC-GCTCCCTCTTT
* * *
184013 CTTCA--GAG---AG---TCGAACAATCTTCTGAAAATGGGTCCGCTCCCTCTTTCTTCAGGGAG
1 CTTCAGGGAGTATAGAACTCGAAC-ATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAG
*
184070 TATAGAACTTGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTT
65 TATAGAACTCGAAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTT
* *
184115 CTTTAAGGAGTATAGAACTCGAACATCTTC
1 CTTCAGGGAGTATAGAACTCGAACATCTTC
184145 AACAATCGTG
Statistics
Matches: 292, Mismatches: 36, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
100 1 0.00
101 8 0.03
102 70 0.24
103 2 0.01
104 7 0.02
105 63 0.22
106 7 0.02
107 5 0.02
108 83 0.28
109 39 0.13
110 7 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (108 bp):
CTTCAGGGAGTATAGAACTCGAACATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGT
ATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
Found at i:184065 original size:156 final size:152
Alignment explanation
Indices: 183728--184251 Score: 488
Period size: 156 Copynumber: 3.3 Consensus size: 152
183718 TTTTGCCTAC
* * * * *
183728 GGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTCAAAC-ATCTTCT-TACGGGTTCGCTCCC
1 GGGTCCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAACGGGTTCGCTCCC
* * * * * * * * *
183791 TCTTTCTCTAGGGATTATAGAACTAGAAAATCTTCTGA-AAATGGGTTCA-CTCCCTCTTTCTTT
66 TCTTTCTTTAAGGAGTATAGAACTCG-AAATCTTCT-ACAAACGGG-TCAGCTCCTTATTACTTC
* *
183854 AGGGAGTATAGAACTCGAAC-ATCTTCTTCAAAC
128 A--GAG---AG---TCGAACAATCTTC-TAAAAT
*
183887 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAC-ATCTTCTGCCAACGGGTTCGCTC
1 GGGTCCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCT--CAACGGGTTCGCTC
* * *
183951 CCTCTTTCTTTAAGGAGTATGGAACTCGGATAATCTTCTTCAAACGGGTCAGCTCCTTATTCCTT
64 CCTCTTTCTTTAAGGAGTATAGAACTC-GA-AATCTTCTACAAACGGGTCAGCTCCTTATTACTT
184016 CAGAGAGTCGAACAATCTTCTGAAAAT
127 CAGAGAGTCGAACAATCTTCT-AAAAT
*
184043 GGGTCCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAACAATCTTCTTCAAACGGGTTCGCTC
1 GGGTCCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTC-TC-AACGGGTTCGCTC
* * * **
184108 CCTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAACAATCGTGTTTGCTCCTTATTACTTC
64 CCTCTTTCTTTAAGGAGTATAGAACTCGAA-ATCTTCTACAAACGGGTCAGCTCCTTATTACTTC
*
184173 ATAGAGTCGAACAATCTTC-AACAAT
128 AGAGAGTCGAACAATCTTCTAA-AAT
* * * * *
184198 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATA-AGACTCGAACAATCTTCATCAA
1 -GGGTCCGCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAACAATCTTC-TCAA
184252 TCGTGTCTGC
Statistics
Matches: 314, Mismatches: 35, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
154 2 0.01
155 14 0.04
156 138 0.44
157 45 0.14
158 3 0.01
159 45 0.14
161 3 0.01
162 38 0.12
163 26 0.08
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (152 bp):
GGGTCCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTCAACGGGTTCGCTCCC
TCTTTCTTTAAGGAGTATAGAACTCGAAATCTTCTACAAACGGGTCAGCTCCTTATTACTTCAGA
GAGTCGAACAATCTTCTAAAAT
Found at i:184109 original size:55 final size:55
Alignment explanation
Indices: 184023--184144 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 55
184013 CTTCAGAGAG
* *
184023 TCGAACAATCTTCTGAAAATGGGTCCGCTCCCTCTTTCTTCAGGGAGTATAGAAC
1 TCGAACAATCTTCTGAAAACGGGTCCGCTCCCTCTTTCTTCAAGGAGTATAGAAC
* ** * *
184078 TTGAACAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAAGGAGTATAGAAC
1 TCGAACAATCTTCTGAAAACGGGTCCGCTCCCTCTTTCTTCAAGGAGTATAGAAC
184133 TCGAAC-ATCTTC
1 TCGAACAATCTTC
184145 AACAATCGTG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 6 0.10
55 53 0.90
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (55 bp):
TCGAACAATCTTCTGAAAACGGGTCCGCTCCCTCTTTCTTCAAGGAGTATAGAAC
Found at i:184190 original size:47 final size:46
Alignment explanation
Indices: 184133--184281 Score: 154
Period size: 55 Copynumber: 3.0 Consensus size: 46
184123 AGTATAGAAC
* * *
184133 TCGAACATCTTCAACAATCGTGTTTGCTCCTTATTACTTCATAGAG
1 TCGAACATCTTCAACAATCGTGTCTGCTCCCTATTACTTCAGAGAG
*
184179 TCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAG
1 TCGAAC-ATCTTCAACAATCGTGTCTGCTCCCTATTACTTC--AGAG----AG
* *
184232 ACTCGAACAATCTTCATCAATCGTGTCTGCTCCCTATTCCTTCAGAGAG
1 --TCGAAC-ATCTTCAACAATCGTGTCTGCTCCCTATTACTTCAGAGAG
184281 T
1 T
184282 ATAAGACTCA
Statistics
Matches: 89, Mismatches: 5, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
46 6 0.07
47 32 0.36
49 5 0.06
53 6 0.07
55 40 0.45
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (46 bp):
TCGAACATCTTCAACAATCGTGTCTGCTCCCTATTACTTCAGAGAG
Found at i:184245 original size:55 final size:55
Alignment explanation
Indices: 184179--184300 Score: 226
Period size: 55 Copynumber: 2.2 Consensus size: 55
184169 CTTCATAGAG
184179 TCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGAC
1 TCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGAC
*
184234 TCGAACAATCTTCATCAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGAC
1 TCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGAC
*
184289 TCAAACAATCTT
1 TCGAACAATCTT
184301 AATGCTTCAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (55 bp):
TCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGAC
Found at i:185375 original size:9 final size:8
Alignment explanation
Indices: 185339--185391 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
185329 TGAACCCCCC
185339 TTTTATTCA
1 TTTT-TTCA
185348 TTTTTT-A
1 TTTTTTCA
185355 TTTTTTCA
1 TTTTTTCA
*
185363 -TTTTACA
1 TTTTTTCA
185370 TTTTTTTCA
1 -TTTTTTCA
185379 TTTTTTCA
1 TTTTTTCA
185387 TTTTT
1 TTTTT
185392 ATCTTCAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
7 13 0.33
8 16 0.41
9 10 0.26
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:195299 original size:16 final size:16
Alignment explanation
Indices: 195278--195315 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
195268 AACCTTATTC
195278 ACATGGTATATACCCA
1 ACATGGTATATACCCA
*
195294 ACATGGTATCTACCCA
1 ACATGGTATATACCCA
195310 ATCATG
1 A-CATG
195316 CTTTAGTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
ACATGGTATATACCCA
Found at i:200481 original size:14 final size:14
Alignment explanation
Indices: 200459--200500 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
200449 AGTTAACTCG
200459 GTCCGAGTCAACCC
1 GTCCGAGTCAACCC
* *
200473 GTTCGAGTCAACTCG
1 GTCCGAGTCAAC-CC
200488 GTCCGAGTCAACC
1 GTCCGAGTCAACC
200501 GTTGAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.19
Consensus pattern (14 bp):
GTCCGAGTCAACCC
Found at i:200496 original size:15 final size:15
Alignment explanation
Indices: 200448--200499 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
200438 TCCAGTCACT
*
200448 GAGTTAACTCGGTCC
1 GAGTCAACTCGGTCC
* *
200463 GAGTCAAC-CCGTTC
1 GAGTCAACTCGGTCC
200477 GAGTCAACTCGGTCC
1 GAGTCAACTCGGTCC
200492 GAGTCAAC
1 GAGTCAAC
200500 CGTTGAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (15 bp):
GAGTCAACTCGGTCC
Found at i:205301 original size:27 final size:27
Alignment explanation
Indices: 205251--205303 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
205241 AAGTATATGA
*
205251 TATGTTATAATGAAAAGTGAAAATTTG
1 TATGTTATAATGAAAAGTCAAAATTTG
* *
205278 TATGTTATAATGAAAGGTCTAAATTT
1 TATGTTATAATGAAAAGTCAAAATTT
205304 TGATATATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (27 bp):
TATGTTATAATGAAAAGTCAAAATTTG
Found at i:206728 original size:19 final size:18
Alignment explanation
Indices: 206689--206730 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
206679 TTGGTTCATG
206689 TAAAAATAAATATTTAAAT
1 TAAAAATAAATATTT-AAT
206708 TAAAAATACAATAATTT-AT
1 TAAAAATA-AAT-ATTTAAT
206727 TAAA
1 TAAA
206731 TATTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 14 0.67
20 3 0.14
21 4 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAATAAATATTTAAT
Found at i:207764 original size:17 final size:18
Alignment explanation
Indices: 207742--207779 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
207732 AGTTTCATAT
207742 TAAATA-ATTGCATATTA
1 TAAATAGATTGCATATTA
207759 TAAATAGTATTGCATATTA
1 TAAATAG-ATTGCATATTA
207778 TA
1 TA
207780 TTAGATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (18 bp):
TAAATAGATTGCATATTA
Found at i:207788 original size:19 final size:19
Alignment explanation
Indices: 207738--207788 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
207728 ATATAGTTTC
*
207738 ATATTAAATAATTGCATATT
1 ATATTAGAT-ATTGCATATT
*
207758 ATAAATAG-TATTGCATATT
1 AT-ATTAGATATTGCATATT
207777 ATATTAGATATT
1 ATATTAGATATT
207789 AAATAATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.15
19 16 0.62
20 3 0.12
21 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (19 bp):
ATATTAGATATTGCATATT
Found at i:208152 original size:14 final size:14
Alignment explanation
Indices: 208135--208166 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
208125 TGTTTCATTG
208135 AAAACGTTTTTCGT
1 AAAACGTTTTTCGT
208149 AAAACGTTTTTCGT
1 AAAACGTTTTTCGT
208163 AAAA
1 AAAA
208167 TGAATTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (14 bp):
AAAACGTTTTTCGT
Found at i:208509 original size:23 final size:23
Alignment explanation
Indices: 208460--208510 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
208450 GTGTTATATT
**
208460 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
208483 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
208506 ATATT
1 ATATT
208511 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:208566 original size:19 final size:19
Alignment explanation
Indices: 208498--208578 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
208488 TTAAATATCT
208498 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
208517 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
208536 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
208556 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
208574 -TATTA
1 TTATTA
208579 TTTCTACGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:208703 original size:32 final size:32
Alignment explanation
Indices: 208666--208735 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
208656 ATATTAGTAT
*
208666 AATATAATTGATTATTTTATTAT-AATA-TTAAA
1 AATATAA-T-ATTATATTATTATAAATATTTAAA
* *
208698 AATATAATATTATATTATTTTAAATATTTATA
1 AATATAATATTATATTATTATAAATATTTAAA
208730 AATATA
1 AATATA
208736 TTTTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.33
31 5 0.15
32 17 0.52
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
AATATAATATTATATTATTATAAATATTTAAA
Found at i:208722 original size:22 final size:21
Alignment explanation
Indices: 208683--208745 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
208673 TTGATTATTT
* **
208683 TATTATAATATTAAAAATATAA
1 TATTATATTATTTTAAATAT-A
*
208705 TATTATATTATTTTAAATATT
1 TATTATATTATTTTAAATATA
*
208726 TA-TAAATATATTTTAAATAT
1 TATTATAT-TATTTTAAATAT
208746 TTTAATAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 4 0.11
21 14 0.40
22 17 0.49
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTATATTATTTTAAATATA
Found at i:208744 original size:11 final size:11
Alignment explanation
Indices: 208713--208745 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
208703 AATATTATAT
208713 TATTTTAAATA
1 TATTTTAAATA
*
208724 T-TTATAAATA
1 TATTTTAAATA
208734 TATTTTAAATA
1 TATTTTAAATA
208745 T
1 T
208746 TTTAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTTTAAATA
Found at i:212318 original size:82 final size:81
Alignment explanation
Indices: 212176--212387 Score: 307
Period size: 82 Copynumber: 2.6 Consensus size: 81
212166 CCATAACTGC
* * * *
212176 GTCCATAGGGCTTACCTTAAGCATACGGCAAAAAGAAAGCCAACCTAAGGATAGGCTTTGGGGCC
1 GTCCATAGGGCTTACCCTAAGCACAC-GC-AAAGGGAA-CCAACCTAAGGATAGGCTTTGGGGCC
212241 TGTATCCTTAAGTCCGTAA
63 TGTATCCTTAAGTCCGTAA
*
212260 GTCCATAGGGCTTACCCTAAGCACACGTCAAAGGGAACCAACCTAAGGATAGGCTTTGGGGTCTG
1 GTCCATAGGGCTTACCCTAAGCACACG-CAAAGGGAACCAACCTAAGGATAGGCTTTGGGGCCTG
212325 TATCCTTAAGTCCGTAA
65 TATCCTTAAGTCCGTAA
* * *
212342 GTCAATAGGGCTTACCCTAAGCACACAGGAAAGGGAGCCAACCTAA
1 GTCCATAGGGCTTACCCTAAGCACAC-GCAAAGGGAACCAACCTAA
212388 TGGAGCATCT
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
82 85 0.72
83 8 0.07
84 25 0.21
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (81 bp):
GTCCATAGGGCTTACCCTAAGCACACGCAAAGGGAACCAACCTAAGGATAGGCTTTGGGGCCTGT
ATCCTTAAGTCCGTAA
Found at i:214896 original size:17 final size:17
Alignment explanation
Indices: 214874--214913 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
214864 GTCAACAATT
*
214874 GTCAACGCTGGTCAACG
1 GTCAACGCAGGTCAACG
214891 GTCAACGCAGGTCAACG
1 GTCAACGCAGGTCAACG
214908 GTCAAC
1 GTCAAC
214914 AGTCGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.15
Consensus pattern (17 bp):
GTCAACGCAGGTCAACG
Found at i:216693 original size:2 final size:2
Alignment explanation
Indices: 216686--216714 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
216676 TCACCGAGAG
216686 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
216715 CAATTACGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:218411 original size:2 final size:2
Alignment explanation
Indices: 218406--218441 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
218396 ACACGTATTC
218406 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
218442 TAACTTAATG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:220515 original size:20 final size:20
Alignment explanation
Indices: 220490--220527 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
220480 TGGCCACCGC
220490 AACTCACCCTCGACCGCCGT
1 AACTCACCCTCGACCGCCGT
220510 AACTCACCCTCGACCGCC
1 AACTCACCCTCGACCGCC
220528 ATACACGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.53, G:0.13, T:0.13
Consensus pattern (20 bp):
AACTCACCCTCGACCGCCGT
Found at i:221588 original size:3 final size:3
Alignment explanation
Indices: 221494--221576 Score: 141
Period size: 3 Copynumber: 27.3 Consensus size: 3
221484 TGAAGCATAC
221494 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
221542 AAT AAT AAT AAT AA- AAGTT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT A
221577 TCTTAATAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.03
3 73 0.95
5 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:221896 original size:134 final size:134
Alignment explanation
Indices: 221736--223004 Score: 1605
Period size: 134 Copynumber: 9.5 Consensus size: 134
221726 GCTGTTACTC
* * * * *
221736 AGGGAATATCAAATCT-GGGGATGTTGATCCATTCCACTGTCACTTAGGGAAGATTGAATCGAGG
1 AGGGAATATCAGATCTGGGGGA-GTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGG
* *
221800 CAGACTTGTTCC-TTAATCACTCAGGGAATAT-AAAGTCTTGAAAGAGAGGGATATGTTCCGCTT
65 CAGACTTGTTCCGCT-GTCACTCAGGGAATATCAAA-TCTTGAAAGAGAGGGATATGTTCCGCTT
221863 CTTCTGA
128 CTTCTGA
* * * *
221870 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGTTGTCACTCAGGGAAGATTGAATTGGGGT
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * *
221935 AGATTTGTTCCGCTGTCACTCAGGAAATATCAAATCTTGAAAGAGAGGGATGTGTTCCGCTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTT
222000 CTGA
131 CTGA
* * * * * *
222004 AGGGAATATCAAATATGGGGGAGTTGATACATTCCGCTGTCACTCAGGCAAGATTTAATCGGGGC
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * * * *
222069 AGACATGTTCCGTTGTCACTCAGGGAATATCAAATCTTCAAAAAGAGGGATATGTTCTGCTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTT
222134 CTGA
131 CTGA
* * * *
222138 AGGAAATATCAGATCTGGGGGAGTTGATCTATTCCGCTGTCACTTAGGGAAGATTGAATCGGGGC
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * * * *
222203 AGACTTGTTCCGCTGCCACTTAGAGAATATCAAATCTTGAAAGAGAGGGATTTGTTCTGCTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTT
222268 CT-A
131 CTGA
* * * * *
222271 AAGGATATATCAGATTTGGGGGATTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGG
1 AGGGA-ATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGG
* * * *
222336 TAGACTTGTTCCGTTGTCACTCAGGGAATAAT-AAATCTTGAAAGAGGGGGATTTGTTCCGCTTC
65 CAGACTTGTTCCGCTGTCACTCAGGGAAT-ATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTC
222400 TTCTGA
129 TTCTGA
** * * * * * *
222406 ATAGAATATCATATCTGGGGGAGTTTATCCATTTCACTATCACTCAAGGAAGATTGAATCGGGGT
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * * * * **
222471 AGACTTGCTCCGCTGTTATTAAGGGAATATCAAATCTTGAAAGAGAGGGTTATGTTCATCTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTT
222536 CTGA
131 CTGA
* *
222540 AGGGAATATCAGATATGTGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * * * * *
222605 AGACTTATTCCGCTATCACTCAGGGAATATCAAATCTTGAAAGAGAGTGATGTGTTTCACTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTT
222670 CTGA
131 CTGA
* * * * ** *
222674 AGAGAATATTAGATATGGGGGGAGTTGATCCATTCTGCTATCA-TGCAAAGAATATTGAATCGGG
1 AGGGAATATCAGATCT-GGGGGAGTTGATCCATTCCGCTATCACT-CAGGGAAGATTGAATCGGG
* * * *
222738 GCAGACTTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGATCTGCTTC
64 GCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTC
*
222803 TTCTAA
129 TTCTGA
* * * *
222809 AGGGATTATCAGATATGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATTGGGTC
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * * * * * *
222874 AGCCATGTTCCACTGTCACTCAGGGAATATCAAATCTTAAAAGAGTGGGATATGTTCTGCTTTTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGC-TTCT
222939 TCTGA
130 TCTGA
* *
222944 AGGGAATATCAGTTCTGGGGGAGTTGATCCATTCCGCTATCACTTAGGGAAGATTGAATCG
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCG
223005 AGTTTGATTT
Statistics
Matches: 982, Mismatches: 142, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
133 6 0.01
134 783 0.80
135 193 0.20
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (134 bp):
AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCTT
CTGA
Found at i:241504 original size:18 final size:17
Alignment explanation
Indices: 241481--241515 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
241471 CCTGTATAGA
*
241481 AAATAAATCAAAACAAAC
1 AAATAAACCAAAA-AAAC
241499 AAATAAACCAAAAAAAC
1 AAATAAACCAAAAAAAC
241516 CTACAACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.74, C:0.17, G:0.00, T:0.09
Consensus pattern (17 bp):
AAATAAACCAAAAAAAC
Found at i:251995 original size:5 final size:5
Alignment explanation
Indices: 251985--252088 Score: 95
Period size: 5 Copynumber: 20.8 Consensus size: 5
251975 TGTTCATAGA
* *
251985 AAAAT AAAAT AAAAT -AAAT CAAAAT AAAAT -AAAT AAAAT GAAAT AAAGT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*** * * * *
252034 TTTAT AAAAT AAAAT AAAAT AAAACT AAACT AAAAT GAAAT GAAAT AAAAC
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT
252085 AAAA
1 AAAA
252089 ATAGAACGAA
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
4 8 0.10
5 64 0.80
6 8 0.10
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:252099 original size:26 final size:26
Alignment explanation
Indices: 252045--252101 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
252035 TTATAAAATA
* * * *
252045 AAATAAAATAAAACTAAACTAAAATG
1 AAATGAAATAAAACAAAAATAAAACG
*
252071 AAATGAAATAAAACAAAAATAGAACG
1 AAATGAAATAAAACAAAAATAAAACG
252097 AAATG
1 AAATG
252102 GGCTGCCTCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.68, C:0.07, G:0.09, T:0.16
Consensus pattern (26 bp):
AAATGAAATAAAACAAAAATAAAACG
Found at i:257757 original size:16 final size:15
Alignment explanation
Indices: 257725--257765 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
257715 TTAAAAGGGA
257725 AAATAATAAAATAAT
1 AAATAATAAAATAAT
*
257740 AAATAATAATAGTAAT
1 AAATAATAA-AATAAT
257756 AAAT-ATAAAA
1 AAATAATAAAA
257766 GAGGGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
AAATAATAAAATAAT
Found at i:273977 original size:12 final size:12
Alignment explanation
Indices: 273960--273989 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
273950 CAACAGTCAG
*
273960 ATTCAGAATCGA
1 ATTCAGAATCAA
273972 ATTCAGAATCAA
1 ATTCAGAATCAA
273984 ATTCAG
1 ATTCAG
273990 GCGAAACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (12 bp):
ATTCAGAATCAA
Done.