Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006161.1 Hibiscus syriacus cultivar Beakdansim tig00014636_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: 142818
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:607 original size:56 final size:54
Alignment explanation
Indices: 490--785 Score: 271
Period size: 54 Copynumber: 5.5 Consensus size: 54
480 TAGAATTAAC
* * * *
490 GATTGAGCACCTC-GTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAG-TAAAAAT
544 GATTGAGCACCTCTGTGCTTCAATCGAGAAACTGACACCTCTGTGCAGTAAAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAG-AACTGACACCTCTGTGCAGT-AAAAAT
* ** * * * *
600 GACTGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCT-AAGAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAG-TAAAAAT
* * * **
654 GATTGAGCACCTCTGTACTTCAATCGAGGACTGACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAG-TAAAAAT
* * * * ***
709 GACT--GCACCTTTGTGCTTCAATCTA-AATTCTGGCACCTCTGTGCA-TTGGAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAA--CTGACACCTCTGTGCAGTAAAAAT
*
761 GATTGAGCACCTCTGTGCTACAATC
1 GATTGAGCACCTCTGTGCTTCAATC
786 TAAATCAAGC
Statistics
Matches: 197, Mismatches: 36, Indels: 18
0.78 0.14 0.07
Matches are distributed among these distances:
52 6 0.03
53 18 0.09
54 89 0.45
55 37 0.19
56 47 0.24
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTAAAAAT
Found at i:662 original size:110 final size:109
Alignment explanation
Indices: 493--700 Score: 328
Period size: 110 Copynumber: 1.9 Consensus size: 109
483 AATTAACGAT
*
493 TGAGCACCTCGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTCT
1 TGAGCACCTCGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTCT
*
558 GTGCTTCAATCGAGAAACTGACACCTCTGTGCAGTAAAAAATGAC
66 GTACTTCAATCGAG-AACTGACACCTCTGTGCAGTAAAAAATGAC
* * * *
603 TGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGA-TGATTGAGCACCTC
1 TGAGCACCTC-GTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
*
667 TGTACTTCAATCGAGGACTGACACCTCTGTGCAG
65 TGTACTTCAATCGAGAACTGACACCTCTGTGCAG
701 CCAACTATGA
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
109 18 0.20
110 38 0.42
111 34 0.38
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (109 bp):
TGAGCACCTCGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTCT
GTACTTCAATCGAGAACTGACACCTCTGTGCAGTAAAAAATGAC
Found at i:771 original size:107 final size:109
Alignment explanation
Indices: 495--785 Score: 304
Period size: 107 Copynumber: 2.7 Consensus size: 109
485 TTAACGATTG
* * * * *
495 AGCACCTC-GTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTCTG
1 AGCACCTCTGTGCTTCAACCGAAAGCTGACACCTCTGTGCAGCTAAGA-TGATTGAGCACCTCTG
*
559 TGCTTCAATCGAGAAACTGACACCTCTGTGCAGTAAAAAATGACT
65 TGCTTCAATCGAGAAACTGACACCTCTGTGCAGCAAAAAATGACT
* ** *
604 GAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGATGATTGAGCACCTCTG
1 -AGCACCTCTGTGCTTCAACCGAAAGCTGACACCTCTGTGCAGCTAAGATGATTGAGCACCTCTG
* * * **
669 TACTTCAATCGAG-GACTGACACCTCTGTGCAGCCAACTATGACT
65 TGCTTCAATCGAGAAACTGACACCTCTGTGCAGCAAAAAATGACT
* * * * * **
713 -GCACCTTTGTGCTTCAATCTAAATTCTGGCACCTCTGTGCA--TTGGAATGATTGAGCACCTCT
1 AGCACCTCTGTGCTTCAACCGAAA-GCTGACACCTCTGTGCAGCTAAG-ATGATTGAGCACCTCT
*
775 GTGCTACAATC
64 GTGCTTCAATC
786 TAAATCAAGC
Statistics
Matches: 154, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
106 2 0.01
107 42 0.27
108 14 0.09
109 26 0.17
110 36 0.23
111 34 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (109 bp):
AGCACCTCTGTGCTTCAACCGAAAGCTGACACCTCTGTGCAGCTAAGATGATTGAGCACCTCTGT
GCTTCAATCGAGAAACTGACACCTCTGTGCAGCAAAAAATGACT
Found at i:1799 original size:30 final size:30
Alignment explanation
Indices: 1763--1824 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1753 GAGCTCAATA
1763 TGAATACACATTGCTGCATTTATTTTAGTT
1 TGAATACACATTGCTGCATTTATTTTAGTT
1793 TGAATACACATTGCTGCATTTATTTTAGTT
1 TGAATACACATTGCTGCATTTATTTTAGTT
1823 TG
1 TG
1825 CATTTCTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (30 bp):
TGAATACACATTGCTGCATTTATTTTAGTT
Found at i:9011 original size:15 final size:15
Alignment explanation
Indices: 8965--9024 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
8955 CGGCGTTTTT
8965 AAACGCCGCTAAAAA
1 AAACGCCGCTAAAAA
*
8980 CACATACGGCG-TAAAAA
1 -A-A-ACGCCGCTAAAAA
8997 AAACGCCGCTAAAAA
1 AAACGCCGCTAAAAA
* *
9012 TAGCGCCGCTAAA
1 AAACGCCGCTAAA
9025 GTTTGCGGCG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.14
15 18 0.49
16 2 0.05
17 7 0.19
18 5 0.14
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.10
Consensus pattern (15 bp):
AAACGCCGCTAAAAA
Found at i:9119 original size:43 final size:44
Alignment explanation
Indices: 9072--9219 Score: 143
Period size: 43 Copynumber: 3.5 Consensus size: 44
9062 TTACAACATA
* *
9072 TAGCGGCGATTGT-TCA-ACAAACGCCGCAAAAGGTATTGATATT
1 TAGCGGCGATT-TATCATACAAACGCCGCAATAGGTGTTGATATT
9115 TAGCGGCG-TTTATCATTA-AAACGCCGCAATAGGTGTTGATATT
1 TAGCGGCGATTTATCA-TACAAACGCCGCAATAGGTGTTGATATT
* ** * *
9158 TAACGGC-ATTTGGCAGACAAACGCCGCAATA-GTCGTTGATGTT
1 TAGCGGCGATTTATCATACAAACGCCGCAATAGGT-GTTGATATT
9201 TAGCGGCG-TTT-TC-TACAAA
1 TAGCGGCGATTTATCATACAAA
9220 AACGTCGCAG
Statistics
Matches: 88, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
41 6 0.07
42 9 0.10
43 72 0.82
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TAGCGGCGATTTATCATACAAACGCCGCAATAGGTGTTGATATT
Found at i:9223 original size:43 final size:43
Alignment explanation
Indices: 9029--9228 Score: 140
Period size: 43 Copynumber: 4.6 Consensus size: 43
9019 GCTAAAGTTT
* ** * *
9029 GCGGCGTTTTTCAACAAAAAACGCCGCAATAGGT-TACAACATATA
1 GCGGCGTTTATC-AC-AAAAACGCCGCAATAGGTGT-TGATATTTA
* * *
9074 GCGGCGATTGT-TCA-ACAAACGCCGCAAAAGGTATTGATATTTA
1 GCGGCG-TT-TATCACAAAAACGCCGCAATAGGTGTTGATATTTA
**
9117 GCGGCGTTTATCATTAAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTATCACAAAAACGCCGCAATAGGTGTTGATATTTA
* * ** * * *
9160 ACGGCATTTGGCAGACAAACGCCGCAATA-GTCGTTGATGTTTA
1 GCGGCGTTTATCACAAAAACGCCGCAATAGGT-GTTGATATTTA
*
9203 GCGGCGTTT-TCTACAAAAACGTCGCA
1 GCGGCGTTTATC-ACAAAAACGCCGCA
9229 GTAGATTTTT
Statistics
Matches: 124, Mismatches: 24, Indels: 16
0.76 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 8 0.06
43 102 0.82
44 1 0.01
45 7 0.06
46 4 0.03
47 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
GCGGCGTTTATCACAAAAACGCCGCAATAGGTGTTGATATTTA
Found at i:9715 original size:21 final size:21
Alignment explanation
Indices: 9654--9762 Score: 87
Period size: 21 Copynumber: 5.2 Consensus size: 21
9644 TGATATATTA
* * *
9654 CTTCTCTCTGTTCTACCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* * *
9675 CCTCTCTCTGTGATGT-CGCTG
1 CTTCTCTCTCTGCT-TCCGCTG
9696 CTTCTCTCTCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* **
9717 CTGCTCTAGCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* *
9738 CTGCTCTCTCTGTTTCC-CTTG
1 CTTCTCTCTCTGCTTCCGC-TG
9759 CTTC
1 CTTC
9763 ATTTTCCGCT
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.03
21 69 0.97
ACGTcount: A:0.03, C:0.39, G:0.17, T:0.41
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Found at i:12341 original size:21 final size:21
Alignment explanation
Indices: 12315--12354 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
12305 CGAAACATCA
12315 TTCGTGTTCAGTAAAAAACAT
1 TTCGTGTTCAGTAAAAAACAT
12336 TTCGTGTTCAGTAAAAAAC
1 TTCGTGTTCAGTAAAAAAC
12355 TAATTGCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
TTCGTGTTCAGTAAAAAACAT
Found at i:13137 original size:42 final size:41
Alignment explanation
Indices: 13061--13282 Score: 123
Period size: 42 Copynumber: 5.3 Consensus size: 41
13051 ATGTGTAATA
* * *
13061 TATTGCGGCGTTTTTTG-TCAAAACGCCGC-CAATTTACCGCTC
1 TATTGCGGCG--TTTTGCT-AAATCGCCGCAAAATTTACCACTC
* *
13103 TATTGCGGCGTTTTGACTCAATCGCCGCAAAATTTA-TACTC
1 TATTGCGGCGTTTTG-CTAAATCGCCGCAAAATTTACCACTC
* * * * * * * *
13144 TAGTGTGGCGTTTGTGGTAAAAACGCTGC-CAGTTTACCACTA
1 TATTGCGGCGTTT-TGCT-AAATCGCCGCAAAATTTACCACTC
* *
13186 TATTGCGGCGTTTTGGCTAAATCGCCGCAAAATTTA-TAATC
1 TATTGCGGCGTTTT-GCTAAATCGCCGCAAAATTTACCACTC
** * * * * *
13227 TATTGAAGCGTTTGTGATATAAACGCCGC-TAATTTAGCACCC
1 TATTGCGGCGTTT-TGCTA-AATCGCCGCAAAATTTACCACTC
13269 TATTGCGGCGTTTT
1 TATTGCGGCGTTTT
13283 TAGAAAAACG
Statistics
Matches: 134, Mismatches: 35, Indels: 23
0.70 0.18 0.12
Matches are distributed among these distances:
40 5 0.04
41 60 0.45
42 69 0.51
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (41 bp):
TATTGCGGCGTTTTGCTAAATCGCCGCAAAATTTACCACTC
Found at i:13145 original size:41 final size:40
Alignment explanation
Indices: 13100--13282 Score: 118
Period size: 41 Copynumber: 4.4 Consensus size: 40
13090 CAATTTACCG
*
13100 CTCTATTGCGGCGTTTTGACTCAATCGCCGCAAAATTTATA
1 CTCTATTGCGGCGTTTTG-CTAAATCGCCGCAAAATTTATA
* * * * * * * *
13141 CTCTAGTGTGGCGTTTGTGGTAAAAACGCTGC-CAGTTTACCA
1 CTCTATTGCGGCGTTT-TGCT-AAATCGCCGCAAAATTTA-TA
*
13183 CTATATTGCGGCGTTTTGGCTAAATCGCCGCAAAATTTATA
1 CTCTATTGCGGCGTTTT-GCTAAATCGCCGCAAAATTTATA
* ** * * * *
13224 ATCTATTGAAGCGTTTGTGATATAAACGCCGC-TAATTTAGCA
1 CTCTATTGCGGCGTTT-TGCTA-AATCGCCGCAAAATTTA-TA
*
13266 CCCTATTGCGGCGTTTT
1 CTCTATTGCGGCGTTTT
13283 TAGAAAAACG
Statistics
Matches: 104, Mismatches: 30, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
41 52 0.50
42 52 0.50
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (40 bp):
CTCTATTGCGGCGTTTTGCTAAATCGCCGCAAAATTTATA
Found at i:13180 original size:83 final size:83
Alignment explanation
Indices: 13080--13282 Score: 271
Period size: 83 Copynumber: 2.4 Consensus size: 83
13070 GTTTTTTGTC
* * *
13080 AAAACGCCGCCAATTTACCGCTCTATTGCGGCGTTTTGACTCAATCGCCGCAAAATTTATACTCT
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACTAAATCGCCGCAAAATTTATAATCT
** *
13145 AGTGTGGCGTTTGTGGTA
66 AGTGAAGCGTTTGTGATA
* * * *
13163 AAAACGCTGCCAGTTTACCACTATATTGCGGCGTTTTGGCTAAATCGCCGCAAAATTTATAATCT
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACTAAATCGCCGCAAAATTTATAATCT
*
13228 ATTGAAGCGTTTGTGATA
66 AGTGAAGCGTTTGTGATA
* * * *
13246 TAAACGCCGCTAATTTAGCACCCTATTGCGGCGTTTT
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTT
13283 TAGAAAAACG
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 102 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (83 bp):
AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACTAAATCGCCGCAAAATTTATAATCT
AGTGAAGCGTTTGTGATA
Found at i:14364 original size:38 final size:38
Alignment explanation
Indices: 14322--14398 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
14312 ATATCCACAA
14322 TAATTGTCTCCATAGGGTGTAGATTGATATCACTCGCC
1 TAATTGTCTCCATAGGGTGTAGATTGATATCACTCGCC
14360 TAATTGTCTCCATAGGGTGTAGATTGATATCACTCGCC
1 TAATTGTCTCCATAGGGTGTAGATTGATATCACTCGCC
14398 T
1 T
14399 CAACAAGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (38 bp):
TAATTGTCTCCATAGGGTGTAGATTGATATCACTCGCC
Found at i:17595 original size:14 final size:14
Alignment explanation
Indices: 17565--17603 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
17555 ACTAATCATT
17565 ATATTATT--TATG
1 ATATTATTACTATG
17577 ATATTATTACTATG
1 ATATTATTACTATG
*
17591 GTATTATTACTAT
1 ATATTATTACTAT
17604 ATAACATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
14 16 0.67
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (14 bp):
ATATTATTACTATG
Found at i:18160 original size:91 final size:89
Alignment explanation
Indices: 17996--18231 Score: 278
Period size: 91 Copynumber: 2.6 Consensus size: 89
17986 ATCAAAACCA
* * * * *
17996 TTTAATTATTGGGTTGCCAAAAATAAAATCAAAAGATTAATTCCTTTTGCTTATTATGTTGCCAA
1 TTTAATTATT-GGTTGTCAAAATTAAAATCAAAAGATTAGTTCCTTTTGATTATTATGCTGCCAA
18061 AAACAAAATCAAATGATTAGTTCAT
65 AAACAAAATCAAATGATTAGTTCAT
* *
18086 TTTAATTATTGAGTTGTCAAAATTAAAAATCAAAGGATTGGTTCCTTTTGATTATT-TGGCTG-C
1 TTTAATTATTG-GTTGTCAAAATT-AAAATCAAAAGATTAGTTCCTTTTGATTATTAT-GCTGCC
* *
18149 AGAAACTAAAATCAAATGATTAGTTCCT
63 AAAAAC-AAAATCAAATGATTAGTTCAT
** * * *
18177 TTCGATTATTGGATTGTGAAAATTATAATCAAATGATTAGTTCCTTTTGATTATT
1 TTTAATTATTGG-TTGTCAAAATTAAAATCAAAAGATTAGTTCCTTTTGATTATT
18232 GGGTTGGTAA
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
89 1 0.01
90 56 0.44
91 69 0.55
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (89 bp):
TTTAATTATTGGTTGTCAAAATTAAAATCAAAAGATTAGTTCCTTTTGATTATTATGCTGCCAAA
AACAAAATCAAATGATTAGTTCAT
Found at i:18232 original size:45 final size:44
Alignment explanation
Indices: 18000--18248 Score: 216
Period size: 45 Copynumber: 5.5 Consensus size: 44
17990 AAACCATTTA
* * * *
18000 ATTATTGGGTTGCCAAAAATAAAATCAAAAGATTAATTCCTTTTG
1 ATTATTGGATTG-CAAAATTAAAATCAAATGATTAGTTCCTTTTG
* * ** * *
18045 CTTATTATG-TTGCCAAAAACAAAATCAAATGATTAGTTCATTTTA
1 ATTATT-GGATTG-CAAAATTAAAATCAAATGATTAGTTCCTTTTG
* *
18090 ATTATT-GAGTTGTCAAAATTAAAAATCAAAGGATTGGTTCCTTTTG
1 ATTATTGGA-TTG-CAAAATT-AAAATCAAATGATTAGTTCCTTTTG
* * *
18136 ATTATTTGG-CTGCAGAAACTAAAATCAAATGATTAGTTCCTTTCG
1 ATTA-TTGGATTGCA-AAATTAAAATCAAATGATTAGTTCCTTTTG
* *
18181 ATTATTGGATTGTGAAAATTATAATCAAATGATTAGTTCCTTTTG
1 ATTATTGGATTG-CAAAATTAAAATCAAATGATTAGTTCCTTTTG
* *
18226 ATTATTGGGTTGGTAAAATTAAA
1 ATTATTGGATT-GCAAAATTAAA
18249 GGATTAATTT
Statistics
Matches: 166, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
43 1 0.01
44 4 0.02
45 124 0.75
46 34 0.20
47 2 0.01
48 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (44 bp):
ATTATTGGATTGCAAAATTAAAATCAAATGATTAGTTCCTTTTG
Found at i:18574 original size:58 final size:58
Alignment explanation
Indices: 18475--18641 Score: 194
Period size: 58 Copynumber: 2.9 Consensus size: 58
18465 TTTGTAAGAA
** * * **
18475 AAATAAATTATCGAATTTATTTTCTTGAGAATCGTGGATGATTATATCCTTT-AAAAAG-
1 AAATAAATTATTAAATTTATTTTTTTGAGAATCTTAAATGATTATAT--TTTGAAAAAGT
* *
18533 AAATAAATTATTAAATTTATTTTTTTGAGAATCTTAAATGATTCTATTTTGTAAAAGT
1 AAATAAATTATTAAATTTATTTTTTTGAGAATCTTAAATGATTATATTTTGAAAAAGT
* * * *
18591 TAATAAACTATTAAATTTATCTTTTTGAGAATCTTAAATGATTCTATTTTG
1 AAATAAATTATTAAATTTATTTTTTTGAGAATCTTAAATGATTATATTTTG
18642 TTAAATTTAT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
56 3 0.03
57 5 0.05
58 88 0.92
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (58 bp):
AAATAAATTATTAAATTTATTTTTTTGAGAATCTTAAATGATTATATTTTGAAAAAGT
Found at i:18729 original size:40 final size:39
Alignment explanation
Indices: 18675--18780 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
18665 TTGAATAAAT
**
18675 AAATAAATTGTTGAATTTATTTGATTTTATTTT-TAAAAGG
1 AAATAAATTGTTGAATTTATTT--TCCTATTTTGTAAAAGG
** *
18715 AAATAAATCATTGAATTTATTTTCCTATTTTGTAAAATG
1 AAATAAATTGTTGAATTTATTTTCCTATTTTGTAAAAGG
18754 AAATAAATTGTTGAATTTATTTTCCTA
1 AAATAAATTGTTGAATTTATTTTCCTA
18781 AGAATCTCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
38 7 0.12
39 31 0.53
40 20 0.34
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (39 bp):
AAATAAATTGTTGAATTTATTTTCCTATTTTGTAAAAGG
Found at i:18896 original size:39 final size:39
Alignment explanation
Indices: 18838--19078 Score: 218
Period size: 39 Copynumber: 5.9 Consensus size: 39
18828 TTAATTTATG
* * *
18838 TTTTGTAAAATGAAATAAATCGTTGGATTTAGTTTCCTA
1 TTTTGTAAAAAGAAATAAATCGTTAGATTTATTTTCCTA
* * *
18877 TTTTATAAAAAGAAATAAATCGAAACAAATCGTTTGATTTATTTTCCTG
1 TTTTGTAAAAAG----AAAT------AAATCGTTAGATTTATTTTCCTA
*
18926 TTTTGTAAAAAGAAATAAATC-TAATGATTTATTTTCCTA
1 TTTTGTAAAAAGAAATAAATCGTTA-GATTTATTTTCCTA
* * *
18965 TTTTGTAAAAGGAAATAAATCATTAGATTTATTTTTC-A
1 TTTTGTAAAAAGAAATAAATCGTTAGATTTATTTTCCTA
* *
19003 GTTTTGT-AAAAGCAAATAAATTGTTAGATTTATTTTTCTA
1 -TTTTGTAAAAAG-AAATAAATCGTTAGATTTATTTTCCTA
* *
19043 TTTTGTAAAAGGAAATAAATCATTAGATTTATTTTC
1 TTTTGTAAAAAGAAATAAATCGTTAGATTTATTTTC
19079 TTTGGGAATC
Statistics
Matches: 167, Mismatches: 19, Indels: 32
0.77 0.09 0.15
Matches are distributed among these distances:
38 6 0.04
39 115 0.69
40 7 0.04
43 4 0.02
45 4 0.02
49 31 0.19
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (39 bp):
TTTTGTAAAAAGAAATAAATCGTTAGATTTATTTTCCTA
Found at i:18916 original size:49 final size:49
Alignment explanation
Indices: 18845--18946 Score: 152
Period size: 49 Copynumber: 2.1 Consensus size: 49
18835 ATGTTTTGTA
*
18845 AAAT-GAAATAAATCGTTGGATTTAGTTTCCTATTTTATAAAAAGAAAT
1 AAATCGAAACAAATCGTTGGATTTAGTTTCCTATTTTATAAAAAGAAAT
* * * *
18893 AAATCGAAACAAATCGTTTGATTTATTTTCCTGTTTTGTAAAAAGAAAT
1 AAATCGAAACAAATCGTTGGATTTAGTTTCCTATTTTATAAAAAGAAAT
18942 AAATC
1 AAATC
18947 TAATGATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 4 0.08
49 44 0.92
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (49 bp):
AAATCGAAACAAATCGTTGGATTTAGTTTCCTATTTTATAAAAAGAAAT
Found at i:19033 original size:78 final size:78
Alignment explanation
Indices: 18898--19078 Score: 258
Period size: 78 Copynumber: 2.3 Consensus size: 78
18888 GAAATAAATC
* * * *
18898 GAAACAAATCGTTTGATTTATTTTCCTGTTTTGTAAAAAGAAATAAATCTAATGATTTATTTTCC
1 GAAATAAATCATTAGATTTATTTTCCAGTTTTGTAAAAAGAAATAAATCTAATGATTTATTTTCC
18963 TATTTTGTAAAAG
66 TATTTTGTAAAAG
* **
18976 GAAATAAATCATTAGATTTATTTTTCAGTTTTGT-AAAAGCAAATAAAT-TGTTAGATTTATTTT
1 GAAATAAATCATTAGATTTATTTTCCAGTTTTGTAAAAAG-AAATAAATCTAAT-GATTTATTTT
*
19039 TCTATTTTGTAAAAG
64 CCTATTTTGTAAAAG
19054 GAAATAAATCATTAGATTTATTTTC
1 GAAATAAATCATTAGATTTATTTTC
19079 TTTGGGAATC
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
77 7 0.08
78 85 0.92
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (78 bp):
GAAATAAATCATTAGATTTATTTTCCAGTTTTGTAAAAAGAAATAAATCTAATGATTTATTTTCC
TATTTTGTAAAAG
Found at i:22606 original size:16 final size:16
Alignment explanation
Indices: 22585--22623 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22575 GGTATTACCC
* *
22585 GACCTGTTTTCAACCT
1 GACCTGTTATCAACAT
*
22601 GACCTGTTATGAACAT
1 GACCTGTTATCAACAT
22617 GACCTGT
1 GACCTGT
22624 AATTAACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACAT
Found at i:22805 original size:18 final size:19
Alignment explanation
Indices: 22782--22863 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
22772 ATTTAGTTTT
22782 TATATTAATTATAATT-TG
1 TATATTAATTATAATTCTG
* *
22800 TATATTATAAATT-TGATT-TT
1 TATA-T-T-AATTATAATTCTG
*
22820 TATATTAATTCTAATTCTG
1 TATATTAATTATAATTCTG
*
22839 TATATTATTTATAATTCT-
1 TATATTAATTATAATTCTG
22857 TATATTA
1 TATATTA
22864 TAAATTTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.08
18 16 0.30
19 19 0.36
20 10 0.19
21 4 0.08
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
TATATTAATTATAATTCTG
Found at i:22813 original size:38 final size:39
Alignment explanation
Indices: 22770--22846 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 39
22760 TTACTTTTTG
22770 AAATTT-AGTTTTTATATTAATTATAATT-TGTATATTAT
1 AAATTTGA-TTTTTATATTAATTATAATTCTGTATATTAT
*
22808 AAATTTGATTTTTATATTAATTCTAATTCTGTATATTAT
1 AAATTTGATTTTTATATTAATTATAATTCTGTATATTAT
22847 TTATAATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 25 0.69
39 11 0.31
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (39 bp):
AAATTTGATTTTTATATTAATTATAATTCTGTATATTAT
Found at i:22877 original size:13 final size:14
Alignment explanation
Indices: 22843--22879 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
22833 ATTCTGTATA
22843 TTATTTAT-AATTC
1 TTATTTATAAATTC
22856 TTATATTATAAATT-
1 TTAT-TTATAAATTC
22870 TTATTTATAA
1 TTATTTATAA
22880 TCACTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:25764 original size:62 final size:60
Alignment explanation
Indices: 25637--25772 Score: 168
Period size: 62 Copynumber: 2.2 Consensus size: 60
25627 TTTAAATGTA
* * *
25637 TTCAATTTAGTCCAAATTTAATGATTTAATATATTAATTTAAGCTTCATATTTTAACTTCT
1 TTCAATTTAATCCAAATTTAAT-ATTTAATATATTAATTTAAGCTTCATATTTAAAATTCT
*
25698 TTCAATTTAATCCAAATTTTGAAT-TTATAATTTATTAATTTAAGCTTCATATTTAAAATT-T
1 TTCAATTTAATCCAAA-TTT-AATATT-TAATATATTAATTTAAGCTTCATATTTAAAATTCT
*
25759 GTTCAATTTGATCC
1 -TTCAATTTAATCC
25773 TTATATATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
61 18 0.27
62 45 0.68
63 3 0.05
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (60 bp):
TTCAATTTAATCCAAATTTAATATTTAATATATTAATTTAAGCTTCATATTTAAAATTCT
Found at i:25848 original size:18 final size:18
Alignment explanation
Indices: 25825--26024 Score: 121
Period size: 18 Copynumber: 11.1 Consensus size: 18
25815 AATAAATTAA
25825 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
25843 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
**
25861 TA-AT-GAACTATATAATA-
1 TATATAG-TTTATAT-ATAC
*
25878 TATAGTTTGTATATATCATATAC
1 TATA--TAGT-T-TAT-ATATAC
*
25901 TATATAGGTTATATATAC
1 TATATAGTTTATATATAC
* *
25919 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
25934 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
** *
25952 TA-AT-GAACTATATATAA
1 TATATAG-TTTATATATAC
* * *
25969 TGTATAATTTAAATATAC
1 TATATAGTTTATATATAC
* * *
25987 AATATAGTCTATATATAT
1 TATATAGTTTATATATAC
26005 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
26023 TA
1 TA
26025 ATAAACTATA
Statistics
Matches: 136, Mismatches: 28, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
14 1 0.01
15 8 0.06
16 5 0.04
17 23 0.17
18 78 0.57
19 4 0.03
20 2 0.01
21 3 0.02
22 6 0.04
23 6 0.04
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.45
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:25856 original size:51 final size:50
Alignment explanation
Indices: 25800--25966 Score: 115
Period size: 51 Copynumber: 3.1 Consensus size: 50
25790 CATTCAATTA
*
25800 ATATATGTTTAGATTAATAAATTAATATATAGTTTATATATACTATATAGT
1 ATATATGTTTA-ATTAATAAATTAATATATAGTTTATATATACTATATACT
* * * * * *
25851 TTATATATACTAATGAACTATA-TAATATATAGTTTGTATATA-TCATATACT
1 ATATATGT-TTAATTAA-TAAATTAATATATAGTTTATATATACT-ATATACT
*
25902 ATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATACTA-ATGAACT
1 ATATATGTT-TA-AT--TAAT-AA--AT-TAATATATAGTTTATATATACTATAT--ACT
25961 ATATAT
1 ATATAT
25967 AATGTATAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
50 1 0.01
51 42 0.49
52 7 0.08
53 1 0.01
54 3 0.03
56 1 0.01
57 2 0.02
58 20 0.23
59 9 0.10
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.44
Consensus pattern (50 bp):
ATATATGTTTAATTAATAAATTAATATATAGTTTATATATACTATATACT
Found at i:25880 original size:33 final size:33
Alignment explanation
Indices: 25836--26048 Score: 212
Period size: 33 Copynumber: 6.5 Consensus size: 33
25826 ATATAGTTTA
*
25836 TATATACTATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
25869 TATATAATATATAG-TT-TGTATA-T-AT---C
1 TATATAATATATAGTTTATATATACTAATGAAC
* *
25895 -ATATACTATATAGGTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
25927 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* * *
25960 TATATATAATGTATAATTTAAATATAC-AAT-ATAGTC
1 --TATATAATATATAGTTTATATATACTAATGA-A--C
*
25996 TATATATATTATATAGTTTATATATACTAATAAAC
1 TATATA-A-TATATAGTTTATATATACTAATGAAC
*
26031 TATATAATATATACTTTA
1 TATATAATATATAGTTTA
26049 GGGTTTAGGG
Statistics
Matches: 150, Mismatches: 13, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
25 12 0.08
26 3 0.02
27 5 0.03
28 1 0.01
29 4 0.03
30 1 0.01
31 5 0.03
32 3 0.02
33 54 0.36
34 11 0.07
35 30 0.20
36 16 0.11
37 4 0.03
38 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.44
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:25913 original size:58 final size:58
Alignment explanation
Indices: 25837--25950 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
25827 TATAGTTTAT
* *
25837 ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGTATATATC
1 ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATATC
25895 ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATA
1 ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATA
25951 CTAATGAACT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (58 bp):
ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTATATATATC
Found at i:25932 original size:17 final size:17
Alignment explanation
Indices: 25910--25967 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
25900 CTATATAGGT
25910 TATATATACTAATGAAC
1 TATATATACTAATGAAC
**
25927 TATATA-A-TATAT-AGTT
1 TATATATACTA-ATGA-AC
25943 TATATATACTAATGAAC
1 TATATATACTAATGAAC
25960 TATATATA
1 TATATATA
25968 ATGTATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (17 bp):
TATATATACTAATGAAC
Found at i:26102 original size:2 final size:2
Alignment explanation
Indices: 26085--26159 Score: 53
Period size: 2 Copynumber: 35.0 Consensus size: 2
26075 ATATGTAAAT
*
26085 TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA TA TA -A TA TA TA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
26127 GTA TA TA AA TA TA AA CTA TA GTA TA TA TT TA TA
1 -TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
26160 GGTCACATGT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
1 1 0.02
2 47 0.81
3 10 0.17
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:26104 original size:9 final size:9
Alignment explanation
Indices: 26090--26133 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
26080 TAAATTATAC
26090 TATATAGTA
1 TATATAGTA
26099 TATATAGT-
1 TATATAGTA
26107 T-TATA-TA
1 TATATAGTA
26114 TATATA--A
1 TATATAGTA
26121 TATATAGTA
1 TATATAGTA
26130 TATA
1 TATA
26134 AATATAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 1 0.03
7 12 0.39
8 5 0.16
9 13 0.42
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (9 bp):
TATATAGTA
Found at i:26123 original size:22 final size:22
Alignment explanation
Indices: 26084--26159 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
26074 CATATGTAAA
26084 TTATACTATATAGT-ATATATAGT
1 TTATA-TATATA-TAATATATAGT
26107 TTATATATATATAATATATAG-
1 TTATATATATATAATATATAGT
*
26128 -TATATAAATATAA-ACTATAGT
1 TTATATATATATAATA-TATAGT
* *
26149 ATATATTTATA
1 TTATATATATA
26160 GGTCACATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 1 0.02
20 17 0.37
21 1 0.02
22 22 0.48
23 5 0.11
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (22 bp):
TTATATATATATAATATATAGT
Found at i:26131 original size:20 final size:20
Alignment explanation
Indices: 26085--26159 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
26075 ATATGTAAAT
26085 TATACTATATAGT-ATATATAG
1 TATA-TATATA-TAATATATAG
26106 TTTATATATATATAATATATAG
1 --TATATATATATAATATATAG
*
26128 TATATAAATATAA-ACTATAG
1 TATATATATATAATA-TATAG
*
26148 TATATATTTATA
1 TATATATATATA
26160 GGTCACATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
19 1 0.02
20 27 0.57
21 1 0.02
22 14 0.30
23 4 0.09
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TATATATATATAATATATAG
Found at i:26178 original size:53 final size:56
Alignment explanation
Indices: 26121--26249 Score: 183
Period size: 57 Copynumber: 2.3 Consensus size: 56
26111 ATATATATAA
*
26121 TATATAGTATATAAATATAAACTATAGTAT-ATAT-T-TATAGGTCACATGTAAAC
1 TATATAGTATATAAATATAAACTATAGTATAATATATATATAAGTCACATGTAAAC
* *
26174 TATATAGTATATAAATATCAACTATAGTATACATATATATATAAGTCATATGTAAAC
1 TATATAGTATATAAATATAAACTATAGTATA-ATATATATATAAGTCACATGTAAAC
* *
26231 TATATAGTTTATATATATA
1 TATATAGTATATAAATATA
26250 GTTCATATGT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 29 0.44
55 4 0.06
56 1 0.02
57 32 0.48
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.40
Consensus pattern (56 bp):
TATATAGTATATAAATATAAACTATAGTATAATATATATATAAGTCACATGTAAAC
Found at i:26180 original size:33 final size:31
Alignment explanation
Indices: 26138--26267 Score: 110
Period size: 33 Copynumber: 4.3 Consensus size: 31
26128 TATATAAATA
* *
26138 TAAACTATAGTA-TATATTTATAGGTCACATG
1 TAAACTATA-TAGTATATATATAGGTCATATG
* *
26169 TAAACTATATAGTATATAAATA--TCA-A-C
1 TAAACTATATAGTATATATATAGGTCATATG
* * * *
26196 TATAGTATACA-TATATATATAAGTCATATG
1 TAAACTATATAGTATATATATAGGTCATATG
*
26226 TAAACTATATAGTTTATATATATAGTTCATATG
1 TAAACTATATAG--TATATATATAGGTCATATG
26259 TAAACTATA
1 TAAACTATA
26268 GTTCATATGT
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
26 9 0.12
27 8 0.10
28 4 0.05
29 4 0.05
30 10 0.13
31 17 0.22
33 26 0.33
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (31 bp):
TAAACTATATAGTATATATATAGGTCATATG
Found at i:26268 original size:31 final size:32
Alignment explanation
Indices: 26207--26275 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 32
26197 ATAGTATACA
26207 TATATATATAAGTCATATGTAAACTATATAGTT
1 TATATATATAAGTCATATGTAAAC-ATATAGTT
26240 TATATATAT-AGTTCATATGTAAAC-TATAGTT
1 TATATATATAAG-TCATATGTAAACATATAGTT
*
26271 CATAT
1 TATAT
26276 GTAAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 11 0.32
32 2 0.06
33 21 0.62
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (32 bp):
TATATATATAAGTCATATGTAAACATATAGTT
Found at i:26269 original size:18 final size:18
Alignment explanation
Indices: 26246--26322 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 18
26236 AGTTTATATA
26246 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
26264 TATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
*
26288 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
* *
26306 TATAGTTTATATATAAA
1 TATAGTTCATATGTAAA
26323 TATCAACCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
18 32 0.63
20 2 0.04
22 2 0.04
24 15 0.29
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:26305 original size:42 final size:42
Alignment explanation
Indices: 26246--26325 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
26236 AGTTTATATA
*
26246 TATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATGTAAACTATAGTTCATATATAAATATTAAC
* *
26288 TATAGTTTATATGTAAACTATAGTTTATATATAAATAT
1 TATAGTTCATATGTAAACTATAGTTCATATATAAATAT
26326 CAACCTTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (42 bp):
TATAGTTCATATGTAAACTATAGTTCATATATAAATATTAAC
Found at i:26341 original size:42 final size:42
Alignment explanation
Indices: 26246--26341 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
26236 AGTTTATATA
* *
26246 TATAGT-TCATATGTAAACTATAGTTCATATGTAAATATTAAC
1 TATAGTAT-ATATGTAAACTATAGTTCATATATAAATATCAAC
* *
26288 TATAGTTTATATGTAAACTATAGTTTATATATAAATATCAACC
1 TATAGTATATATGTAAACTATAGTTCATATATAAATATCAA-C
26331 T-TAGTATATAT
1 TATAGTATATAT
26342 ATATATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 45 0.94
43 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (42 bp):
TATAGTATATATGTAAACTATAGTTCATATATAAATATCAAC
Found at i:26388 original size:31 final size:32
Alignment explanation
Indices: 26350--26434 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
26340 ATATATATTT
*
26350 ATATATATAGT-TCAT-ATGTAAACTATAGTTC
1 ATATATATAGTAT-ATAATATAAACTATAGTTC
*
26381 ATATATATAGTATATAAATATAAACTATAGTTT
1 ATATATATAGTATAT-AATATAAACTATAGTTC
* *
26414 ATATAAATAGTATAAAATATA
1 ATATATATAGTATATAATATA
26435 GTATATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
31 13 0.28
32 7 0.15
33 27 0.57
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (32 bp):
ATATATATAGTATATAATATAAACTATAGTTC
Found at i:26394 original size:18 final size:17
Alignment explanation
Indices: 26349--26394 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
26339 TATATATATT
26349 TATATATATAGTTCATA
1 TATATATATAGTTCATA
* *
26366 TGTAAACTATAGTTCATA
1 TATATA-TATAGTTCATA
26384 TATATAGTATA
1 TATATA-TATA
26395 TAAATATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (17 bp):
TATATATATAGTTCATA
Found at i:26405 original size:33 final size:32
Alignment explanation
Indices: 26368--26434 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
26358 AGTTCATATG
*
26368 TAAACTATAGTTCATATATATAGTATATAAATA
1 TAAACTATAGTTCATATAAATAGTATA-AAATA
*
26401 TAAACTATAGTTTATATAAATAGTATAAAATA
1 TAAACTATAGTTCATATAAATAGTATAAAATA
26433 TA
1 TA
26435 GTATATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (32 bp):
TAAACTATAGTTCATATAAATAGTATAAAATA
Found at i:26409 original size:20 final size:20
Alignment explanation
Indices: 26385--26458 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
26375 TAGTTCATAT
26385 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
26405 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
26430 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
26450 TTATAGTAT
1 ATATAGTAT
26459 GTAGTTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 19 0.41
21 1 0.02
22 7 0.15
23 7 0.15
24 1 0.02
25 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:26434 original size:25 final size:23
Alignment explanation
Indices: 26385--26445 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
26375 TAGTTCATAT
26385 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
26405 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
26430 ATATAGTATATAAATA
1 ATATAGTATATAAATA
26446 TAAATTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.15
22 5 0.15
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:26437 original size:12 final size:13
Alignment explanation
Indices: 26398--26447 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
26388 TAGTATATAA
26398 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
26412 TTATATAA-ATAGT
1 ATATA-AATATAGT
26425 ATA-AAATATAGT
1 ATATAAATATAGT
26437 ATATAAATATA
1 ATATAAATATA
26448 AATTATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:26446 original size:29 final size:29
Alignment explanation
Indices: 26414--26482 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
26404 ACTATAGTTT
26414 ATATAAATAGTATAAAATATAG-TATATAA
1 ATATAAATA-TATAAAATATAGTTATATAA
** *
26443 ATATAAAT-TATAGTATGTAGTTTATATAA
1 ATATAAATATATAAAATATAG-TTATATAA
26472 ATATAAATATA
1 ATATAAATATA
26483 AACCCTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 9 0.26
29 23 0.68
30 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (29 bp):
ATATAAATATATAAAATATAGTTATATAA
Found at i:26624 original size:20 final size:20
Alignment explanation
Indices: 26599--26693 Score: 86
Period size: 20 Copynumber: 4.7 Consensus size: 20
26589 TAGTATATAA
*
26599 ATATAAATTGTATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
26619 ATATAATTCATATATAATTTAT
1 ATATAAAT--TATATAGTTTAT
* *
26641 ATATAAACTATGTAGTTTAT
1 ATATAAATTATATAGTTTAT
*
26661 ATAT-AGTTCA-ATAGTTTAT
1 ATATAAATT-ATATAGTTTAT
*
26680 ATATAAACTATATA
1 ATATAAATTATATA
26694 ATATTATAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
19 15 0.26
20 27 0.47
22 16 0.28
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (20 bp):
ATATAAATTATATAGTTTAT
Found at i:26634 original size:22 final size:21
Alignment explanation
Indices: 26609--26693 Score: 88
Period size: 20 Copynumber: 4.2 Consensus size: 21
26599 ATATAAATTG
26609 TATAGTTTATATATAATTCATA
1 TATAGTTTATATATAATTC-TA
* *
26631 TATAATTTATATATAA-ACTA
1 TATAGTTTATATATAATTCTA
* *
26651 TGTAGTTTATATATAGTTC-A
1 TATAGTTTATATATAATTCTA
*
26671 -ATAGTTTATATATAA-ACTA
1 TATAGTTTATATATAATTCTA
26690 TATA
1 TATA
26694 ATATTATAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
18 1 0.02
19 14 0.27
20 19 0.37
21 2 0.04
22 15 0.29
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (21 bp):
TATAGTTTATATATAATTCTA
Found at i:26644 original size:13 final size:11
Alignment explanation
Indices: 26609--26646 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
26599 ATATAAATTG
*
26609 TATAGTTTATA
1 TATAATTTATA
*
26620 TATAATTCATA
1 TATAATTTATA
26631 TATAATTTATA
1 TATAATTTATA
26642 TATAA
1 TATAA
26647 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:26647 original size:42 final size:39
Alignment explanation
Indices: 26599--26693 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 39
26589 TAGTATATAA
* *
26599 ATATAAATTGTATAGTTTATATATAATTCATATATAATTTAT
1 ATATAAACTATATAGTTTATATATAATTC--A-ATAATTTAT
* * *
26641 ATATAAACTATGTAGTTTATATATAGTTCAATAGTTTAT
1 ATATAAACTATATAGTTTATATATAATTCAATAATTTAT
26680 ATATAAACTATATA
1 ATATAAACTATATA
26694 ATATTATAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 21 0.45
40 1 0.02
42 25 0.53
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (39 bp):
ATATAAACTATATAGTTTATATATAATTCAATAATTTAT
Found at i:26689 original size:39 final size:41
Alignment explanation
Indices: 26611--26690 Score: 119
Period size: 39 Copynumber: 2.0 Consensus size: 41
26601 ATAAATTGTA
26611 TAGTTTATATATAATTCATATATAATTTATATATAAACTATG
1 TAGTTTATATATAATTCA-ATATAATTTATATATAAACTATG
* *
26653 TAGTTTATATATAGTTC-A-ATAGTTTATATATAAACTAT
1 TAGTTTATATATAATTCAATATAATTTATATATAAACTAT
26691 ATAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 19 0.53
40 1 0.03
42 16 0.44
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.47
Consensus pattern (41 bp):
TAGTTTATATATAATTCAATATAATTTATATATAAACTATG
Found at i:26735 original size:27 final size:28
Alignment explanation
Indices: 26675--26784 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 28
26665 AGTTCAATAG
*
26675 TTTATATATAA-ACTATATAATATTATAA
1 TTTATACATAATA-TATATAATATTATAA
** * *
26703 TTTATACATGGTATATATAGT-TTATAC
1 TTTATACATAATATATATAATATTATAA
*
26730 TTTATACATAATATATATAA-ACTATATAG
1 TTTATACATAATATATATAATA-T-TATAA
*
26759 TTTATA-TTATATATATATATATATTA
1 TTTATACATA-ATATATATA-ATATTA
26785 GTTGTTTAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
27 22 0.34
28 18 0.28
29 22 0.34
30 2 0.03
31 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (28 bp):
TTTATACATAATATATATAATATTATAA
Found at i:27295 original size:217 final size:215
Alignment explanation
Indices: 26785--27470 Score: 1033
Period size: 215 Copynumber: 3.2 Consensus size: 215
26775 ATATATATTA
*
26785 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTCCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
*
26850 TATTTGCACCTGAAATTGA-C--AC--A-TACTTATTTCTATTTTTAAATTGGCCCATAACTTTT
66 TATTTGCATCTGAAATTGACCATACTTATTACTTATTTCTATTTTTAAATTGG-CCATAACTTTT
* *
26909 TAAATGGGTATAATTTAGTAC--TTTTTGTATTAATTTTAACCTCAAAATTTAAAATTATTTCGA
130 TAAATGGGTATAATTTAGTACTTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGA
26972 TTTGATCCCT--T---T-TGT
195 TTTGATCCCTCATCAATGTGT
* *
26987 GTTGTTTAATATATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
*
27052 TATTTGCATCCGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCTATAACTTT
66 TATTTGCATCTGAAATTGA-CCATACTTATTACTTATTTCTATTTTTAAATTGGCC-ATAACTTT
*
27117 TTAAATGGGTATAATTTAGTACTTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCG
129 TTAAATGGGTATAATTTAGTACTTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCG
27182 ATTTGATCCCTCATCAATGTGT
194 ATTTGATCCCTCATCAATGTGT
* * * * *
27204 GTTGTTTAATTTATTTATATTTATATTTTTAATTTCATATTTGTTCTATTTAGTCCTCCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
* * * * * *
27269 TATCTACATATGAAATTGATCCATACTTATTACTTAATTCTATTTTTTAATTGGACATAACTTTT
66 TATTTGCATCTGAAATTGA-CCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTT
* *
27334 TAAATGGGTATAATTTAGTA-TTTATTTGTATTAATTTCAACCTCACAATTTAAAATTATTTTGA
130 TAAATGGGTATAATTTAGTACTTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGA
27398 TTTGATCCCTCATCAATGTGT
195 TTTGATCCCTCATCAATGTGT
*
27419 GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
27471 ATTCTTAAAT
Statistics
Matches: 438, Mismatches: 30, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
202 79 0.18
204 1 0.00
206 2 0.00
208 3 0.01
209 54 0.12
211 49 0.11
213 1 0.00
215 110 0.25
216 30 0.07
217 109 0.25
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (215 bp):
GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
TATTTGCATCTGAAATTGACCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTTT
AAATGGGTATAATTTAGTACTTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGAT
TTGATCCCTCATCAATGTGT
Found at i:27430 original size:215 final size:213
Alignment explanation
Indices: 26785--27470 Score: 1027
Period size: 217 Copynumber: 3.2 Consensus size: 213
26775 ATATATATTA
*
26785 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTCCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
*
26850 TATTTGCACCTGAAATTGA-C--AC--A-TACTTATTTCTATTTTTAAATTGGCCCATAACTTTT
66 TATTTGCATCTGAAATTGACCATACTTATTACTTATTTCTATTTTTAAATTGG-CCATAACTTTT
* * *
26909 TAAATGGGTATAATTTAGTACTTTTTGTATTAATTTTAACCTCAAAATTTAAAATTATTTCGATT
130 TAAATGGGTATAATTTAGTATTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
26974 TGATCCCT--T---T-TGT
195 TGATCCCTCATCAATGTGT
* *
26987 GTTGTTTAATATATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
*
27052 TATTTGCATCCGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCTATAACTTT
66 TATTTGCATCTGAAATTGA-CCATACTTATTACTTATTTCTATTTTTAAATTGGCC-ATAACTTT
*
27117 TTAAATGGGTATAATTTAGTACTTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCG
129 TTAAATGGGTATAATTTAGTA--TTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCG
27182 ATTTGATCCCTCATCAATGTGT
192 ATTTGATCCCTCATCAATGTGT
* * * * *
27204 GTTGTTTAATTTATTTATATTTATATTTTTAATTTCATATTTGTTCTATTTAGTCCTCCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
* * * * * *
27269 TATCTACATATGAAATTGATCCATACTTATTACTTAATTCTATTTTTTAATTGGACATAACTTTT
66 TATTTGCATCTGAAATTGA-CCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTT
*
27334 TAAATGGGTATAATTTAGTATTTATTTGTATTAATTTCAACCTCACAATTTAAAATTATTTTGAT
130 TAAATGGGTATAATTTAGTATTT-TTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGAT
27399 TTGATCCCTCATCAATGTGT
194 TTGATCCCTCATCAATGTGT
*
27419 GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
27471 ATTCTTAAAT
Statistics
Matches: 437, Mismatches: 30, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
202 79 0.18
204 1 0.00
206 2 0.00
208 3 0.01
209 53 0.12
211 49 0.11
213 1 0.00
214 3 0.01
215 107 0.24
216 30 0.07
217 109 0.25
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (213 bp):
GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
TATTTGCATCTGAAATTGACCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTTT
AAATGGGTATAATTTAGTATTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTT
GATCCCTCATCAATGTGT
Found at i:35616 original size:26 final size:27
Alignment explanation
Indices: 35572--35626 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
35562 GAAGAAGAAC
35572 GACGAGGAGGGAAGAGA-TTGGGAATG
1 GACGAGGAGGGAAGAGATTTGGGAATG
* *
35598 GACGAGAGAGGGGAG-GATTTGGGGATG
1 GACGAG-GAGGGAAGAGATTTGGGAATG
35625 GA
1 GA
35627 GGCTCGAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.31, C:0.04, G:0.53, T:0.13
Consensus pattern (27 bp):
GACGAGGAGGGAAGAGATTTGGGAATG
Found at i:35726 original size:15 final size:15
Alignment explanation
Indices: 35703--35732 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35693 GTTACGTGAT
35703 GAGAGGGAGCAGGCC
1 GAGAGGGAGCAGGCC
*
35718 GAGATGGAGCAGGCC
1 GAGAGGGAGCAGGCC
35733 AGAAGCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.20, G:0.50, T:0.03
Consensus pattern (15 bp):
GAGAGGGAGCAGGCC
Found at i:40889 original size:15 final size:15
Alignment explanation
Indices: 40866--40895 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40856 GTTACCTGAT
40866 GAGAGGGAGCAGGCC
1 GAGAGGGAGCAGGCC
*
40881 GAGATGGAGCAGGCC
1 GAGAGGGAGCAGGCC
40896 AGAAGTACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.20, G:0.50, T:0.03
Consensus pattern (15 bp):
GAGAGGGAGCAGGCC
Found at i:87004 original size:253 final size:251
Alignment explanation
Indices: 86552--87061 Score: 824
Period size: 253 Copynumber: 2.0 Consensus size: 251
86542 AAAGTTTACC
* * * *
86552 ACCACTTTTTGTATCCCACAAGAAACAGAAGGATACAACTTATGACAGAGCTTGTATTTTTTCCC
1 ACCACCTTTTGTATCACACAAGAAACAGAAGGATACAACTTATGACAGAGCATGTATTTTTTCCA
* * *
86617 CATTTATGGACTACAGAATGATGGTACACCAAACCCAGGGCTAGGCATAGTTATTCTCAAGACCA
66 CATTTATGAACTACAGAATGATCGTACACCAAACCCAGGGATAGGCATAGTTATTCTCAAGACCA
* * *
86682 ACATATCAAACCAAAACAAGTCAGAACAACATATCACCGGAAACTAGATCAGAAGATTTAGTAAG
131 ACATATCAAACCAAAACAAGTCAGAACAACATATCAACGCAAACTAGATCAGAAAATTTAGTAAG
* *
86747 AAAGTTGGCCAACATAACATGGTTGACTCATTATTCAACAACGTTGAAGGTCTTCT
196 AAAGTTGGCCAAAATAACATGGTTGACTCATCATTCAACAACGTTGAAGGTCTTCT
* *
86803 ACCACCTTTTGTATCACACAAGAAACAGAAGGATACAACTTATGACATATCATGTATTTTTTTCC
1 ACCACCTTTTGTATCACACAAGAAACAGAAGGATACAACTTATGACAGAGCATGTA-TTTTTTCC
* *
86868 TACATTTATGAACTGCAGAATGATCGTATACCAAACCCAGGGATAGGCATAGTTATTCTCAAGAC
65 -ACATTTATGAACTACAGAATGATCGTACACCAAACCCAGGGATAGGCATAGTTATTCTCAAGAC
*
86933 CAACATATCAAACCAAAACAAGTCAGAACAACACT-TCAATGCAAACTAGATCAGAAAATTTAGT
129 CAACATATCAAACCAAAACAAGTCAGAACAACA-TATCAACGCAAACTAGATCAGAAAATTTAGT
86997 AAGAAAGTTGGCCAAAATAACATGGTTGACTCATCATTCAACAACGTTGAAGGTCTTCT
193 AAGAAAGTTGGCCAAAATAACATGGTTGACTCATCATTCAACAACGTTGAAGGTCTTCT
*
87056 ATCACC
1 ACCACC
87062 AGTTGATTTC
Statistics
Matches: 238, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
251 51 0.21
252 8 0.03
253 178 0.75
254 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (251 bp):
ACCACCTTTTGTATCACACAAGAAACAGAAGGATACAACTTATGACAGAGCATGTATTTTTTCCA
CATTTATGAACTACAGAATGATCGTACACCAAACCCAGGGATAGGCATAGTTATTCTCAAGACCA
ACATATCAAACCAAAACAAGTCAGAACAACATATCAACGCAAACTAGATCAGAAAATTTAGTAAG
AAAGTTGGCCAAAATAACATGGTTGACTCATCATTCAACAACGTTGAAGGTCTTCT
Found at i:90226 original size:51 final size:51
Alignment explanation
Indices: 90171--90274 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
90161 TGATGTTGTC
* *
90171 GTTGCTGTTCTTGTTGTTGCCTTCGTTGCCATCCTTGGTGGTGTCGATGTT
1 GTTGCTGTTCTTGTTGTCGCATTCGTTGCCATCCTTGGTGGTGTCGATGTT
*
90222 GTTGCTGTTCTTGTTGTCGCATTCGTTGCCATCCTTGGTGGTGTTGATGTT
1 GTTGCTGTTCTTGTTGTCGCATTCGTTGCCATCCTTGGTGGTGTCGATGTT
90273 GT
1 GT
90275 CAGTGGTGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.05, C:0.18, G:0.30, T:0.47
Consensus pattern (51 bp):
GTTGCTGTTCTTGTTGTCGCATTCGTTGCCATCCTTGGTGGTGTCGATGTT
Found at i:90249 original size:24 final size:24
Alignment explanation
Indices: 90169--90250 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
90159 GATGATGTTG
* *
90169 TCGTTGCTGTTCTTGTTGTTGCCT
1 TCGTTGCTGTTCTTGTTGTCGCAT
** *
90193 TCGTTGCCATCCTTGGTGGTGTCG-AT
1 TCGTTGCTGTTCTT-GT--TGTCGCAT
*
90219 GTTGTTGCTGTTCTTGTTGTCGCAT
1 -TCGTTGCTGTTCTTGTTGTCGCAT
90244 TCGTTGC
1 TCGTTGC
90251 CATCCTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 22 0.51
25 4 0.09
26 3 0.07
27 14 0.33
ACGTcount: A:0.04, C:0.21, G:0.28, T:0.48
Consensus pattern (24 bp):
TCGTTGCTGTTCTTGTTGTCGCAT
Found at i:90258 original size:24 final size:24
Alignment explanation
Indices: 90180--90258 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
90170 CGTTGCTGTT
* *
90180 CTTGTTGTTGCCTTCGTTGCCATC
1 CTTGTTGTCGCATTCGTTGCCATC
* ** *
90204 CTTGGTGGTGTCG-ATGTTGTTGCTGTT
1 CTT-GT--TGTCGCAT-TCGTTGCCATC
90231 CTTGTTGTCGCATTCGTTGCCATC
1 CTTGTTGTCGCATTCGTTGCCATC
90255 CTTG
1 CTTG
90259 GTGGTGTTGA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 19 0.47
25 4 0.10
26 3 0.08
27 14 0.35
ACGTcount: A:0.05, C:0.23, G:0.27, T:0.46
Consensus pattern (24 bp):
CTTGTTGTCGCATTCGTTGCCATC
Found at i:90491 original size:51 final size:51
Alignment explanation
Indices: 90433--90587 Score: 240
Period size: 51 Copynumber: 3.0 Consensus size: 51
90423 TGATGTTGTC
*
90433 GTTGCTGTTCTTGTTGTTGCCTTCGTTGCCATCCTTGGTGGTGTCGATGTT
1 GTTGCTGTTCTTGTTGTTGCCTTCGTTGCCATCCTTGGTGGTGTTGATGTT
* *
90484 GTTGCTGTTCTTGTTGTCGCATTCGTTGCCATCCTTGGTGGTGTTGATGTT
1 GTTGCTGTTCTTGTTGTTGCCTTCGTTGCCATCCTTGGTGGTGTTGATGTT
* * *
90535 GCTGTTGTTCTTGTTGTTGCCTTCGTTGCCATTCTTAGG-GGTGTTGATGTT
1 GTTGCTGTTCTTGTTGTTGCCTTCGTTGCCATCCTT-GGTGGTGTTGATGTT
90586 GT
1 GT
90588 CAGTGGTGGT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
51 92 0.98
52 2 0.02
ACGTcount: A:0.05, C:0.17, G:0.30, T:0.48
Consensus pattern (51 bp):
GTTGCTGTTCTTGTTGTTGCCTTCGTTGCCATCCTTGGTGGTGTTGATGTT
Found at i:90511 original size:24 final size:24
Alignment explanation
Indices: 90431--90512 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
90421 GATGATGTTG
* *
90431 TCGTTGCTGTTCTTGTTGTTGCCT
1 TCGTTGCTGTTCTTGTTGTCGCAT
** *
90455 TCGTTGCCATCCTTGGTGGTGTCG-AT
1 TCGTTGCTGTTCTT-GT--TGTCGCAT
*
90481 GTTGTTGCTGTTCTTGTTGTCGCAT
1 -TCGTTGCTGTTCTTGTTGTCGCAT
90506 TCGTTGC
1 TCGTTGC
90513 CATCCTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 22 0.51
25 4 0.09
26 3 0.07
27 14 0.33
ACGTcount: A:0.04, C:0.21, G:0.28, T:0.48
Consensus pattern (24 bp):
TCGTTGCTGTTCTTGTTGTCGCAT
Found at i:90520 original size:24 final size:24
Alignment explanation
Indices: 90442--90520 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
90432 CGTTGCTGTT
* *
90442 CTTGTTGTTGCCTTCGTTGCCATC
1 CTTGTTGTCGCATTCGTTGCCATC
* ** *
90466 CTTGGTGGTGTCG-ATGTTGTTGCTGTT
1 CTT-GT--TGTCGCAT-TCGTTGCCATC
90493 CTTGTTGTCGCATTCGTTGCCATC
1 CTTGTTGTCGCATTCGTTGCCATC
90517 CTTG
1 CTTG
90521 GTGGTGTTGA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 19 0.47
25 4 0.10
26 3 0.08
27 14 0.35
ACGTcount: A:0.05, C:0.23, G:0.27, T:0.46
Consensus pattern (24 bp):
CTTGTTGTCGCATTCGTTGCCATC
Found at i:92128 original size:6 final size:6
Alignment explanation
Indices: 92117--92156 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
92107 TCGGCGGCGT
92117 TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGAG
1 TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGAG
92157 AGGTGGCCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
TGAGTG
Found at i:93776 original size:39 final size:39
Alignment explanation
Indices: 93733--93851 Score: 184
Period size: 39 Copynumber: 3.0 Consensus size: 39
93723 ATCATTACTT
*
93733 TAATCTTTTGGTGTTTTAATAAAAAATTGATAGGTTTAG
1 TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAG
93772 TAATCTTTTGGTGTTTTAATAAAAAAAATTGGTAGGTTTAG
1 TAATCTTTTGGTGTTTTAAT--AAAAAATTGGTAGGTTTAG
* * *
93813 TAATCTTTTAGTGTTTTAATAATACATTGGTAGGTTTAG
1 TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAG
93852 AAAAATAATT
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
39 37 0.50
41 37 0.50
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.46
Consensus pattern (39 bp):
TAATCTTTTGGTGTTTTAATAAAAAATTGGTAGGTTTAG
Found at i:93798 original size:41 final size:41
Alignment explanation
Indices: 93733--93834 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
93723 ATCATTACTT
93733 TAATCTTTTGGTGTTTTAAT--AAAAAATTGATAGGTTTAG
1 TAATCTTTTGGTGTTTTAATAAAAAAAATTGATAGGTTTAG
*
93772 TAATCTTTTGGTGTTTTAATAAAAAAAATTGGTAGGTTTAG
1 TAATCTTTTGGTGTTTTAATAAAAAAAATTGATAGGTTTAG
*
93813 TAATCTTTTAGTGTTTTAATAA
1 TAATCTTTTGGTGTTTTAATAA
93835 TACATTGGTA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 20 0.34
41 39 0.66
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (41 bp):
TAATCTTTTGGTGTTTTAATAAAAAAAATTGATAGGTTTAG
Found at i:93871 original size:21 final size:22
Alignment explanation
Indices: 93833--93873 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
93823 GTGTTTTAAT
*
93833 AATACATTGGTAGGTTTAGAAA
1 AATACATTGGTAGATTTAGAAA
*
93855 AATA-ATTGGTATATTTAGA
1 AATACATTGGTAGATTTAGA
93874 CTAACTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (22 bp):
AATACATTGGTAGATTTAGAAA
Found at i:95069 original size:26 final size:25
Alignment explanation
Indices: 95018--95075 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
95008 ACTGAAATTC
*
95018 AATAAAA-A-AAAGTAAATGACATA
1 AATAAAATATAAAGTAAAGGACATA
95041 AATTAAAATATAAAGTAAAGGAC-TAA
1 AA-TAAAATATAAAGTAAAGGACAT-A
95067 AATAAAATA
1 AATAAAATA
95076 CATCAGAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.07
24 5 0.17
25 9 0.30
26 14 0.47
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (25 bp):
AATAAAATATAAAGTAAAGGACATA
Found at i:95073 original size:25 final size:25
Alignment explanation
Indices: 95018--95075 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
95008 ACTGAAATTC
*
95018 AATAAAA-AAAAGTAAATGACATAA
1 AATAAAATAAAAGTAAAGGACATAA
*
95042 ATTAAAATATAAAGTAAAGGAC-TAA
1 AATAAAATA-AAAGTAAAGGACATAA
95067 AATAAAATA
1 AATAAAATA
95076 CATCAGAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 12 0.41
26 11 0.38
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (25 bp):
AATAAAATAAAAGTAAAGGACATAA
Found at i:96619 original size:39 final size:39
Alignment explanation
Indices: 96560--97101 Score: 666
Period size: 39 Copynumber: 14.0 Consensus size: 39
96550 AGGTTGAATA
* * * *
96560 AGTTCTTCAGACCATGAACTTCTTCTTCATCTTCAAATG
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
* * * * *
96599 AGTTCTTCAGATTATAAACTTATTCTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
*
96638 AGTTCTTCAGACTATGAAC-TCATTCTTCCTCTTCAAACG
1 AGTTCTTCAGACTATGAACTTC-TTCTTCCTCTTCAGACG
*
96677 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
* *
96716 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACA
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
* *
96755 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
* *
96794 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
* * * *
96833 AGTTCTTCAAATTATGAAC-TC--CTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
*
96869 AGTTCTTCAGACTATCAAC-TCTTTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTTC-TTCTTCCTCTTCAGACG
* * *
96908 AGTTCTTTAGATTATGAACTTATTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
* * * *
96947 AGTTCTTCATATTATGAAC-TCATTCTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTTC-TTCTTCCTCTTCAGACG
* * *
96986 AGCTCTTCAGACTATGAAC-TCATTCTTCATCTTCAGGCG
1 AGTTCTTCAGACTATGAACTTC-TTCTTCCTCTTCAGACG
* *
97025 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTTAGACG
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
* * *
97064 AGTTCTTTAGACTATGAACTCCTTCTTCATCTTCAGAC
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGAC
97102 TATGAACTTT
Statistics
Matches: 446, Mismatches: 49, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
36 31 0.07
38 3 0.01
39 409 0.92
40 3 0.01
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (39 bp):
AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACG
Found at i:96704 original size:20 final size:20
Alignment explanation
Indices: 96679--96743 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
96669 TTCAAACGAG
96679 TTCTTCAGACTATGAACTCC
1 TTCTTCAGACTATGAACTCC
** * ***
96699 TTCTTC-CTCT-TCAGACGAG
1 TTCTTCAGACTATGA-ACTCC
96718 TTCTTCAGACTATGAACTCC
1 TTCTTCAGACTATGAACTCC
96738 TTCTTC
1 TTCTTC
96744 CTCTTCAGAC
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 16 0.53
21 2 0.07
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (20 bp):
TTCTTCAGACTATGAACTCC
Found at i:96771 original size:117 final size:117
Alignment explanation
Indices: 96560--97547 Score: 1288
Period size: 117 Copynumber: 8.6 Consensus size: 117
96550 AGGTTGAATA
* * * * * * * **
96560 AGTTCTTCAGACCATGAACTTCTTCTTCATCTTCAAATGAGTTCTTCAGATTATAAACTTATTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
*
96625 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAAACG
66 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
96677 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* ** * *
96742 TCCTCTTCAGACAAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
66 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
* * *
96794 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAAATTATGAACT-C--CT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* *
96856 TCCTCTTCATATGAGTTCTTCAGACTATCAACTCTTTCTTCCTCTTCAGACG
66 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
* * ** * * *
96908 AGTTCTTTAGATTATGAACTTATTCTTCCTCTTCAGACGAGTTCTTCATATTATGAACTCATTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* * *
96973 TCCTCTTCATATGAGCTCTTCAGACTATGAACTCATTCTTCATCTTCAGGCG
66 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
* *
97025 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTTAGACGAGTTCTTTAGACTATGAACT-C--C-
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
** *
97086 T--TCTTC-----A--TCTTCAGACTATGAACTTTTTCTTCCTCTTCAGATG
66 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
* * * *
97129 AATTCTTCAGATTATGAACTCATTCTTCTTCTTCTTCATACGAGTTCTTCAGACTATGAACTCCT
1 AGTTCTTCAGACTATGAACTC---CTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCT
* *
97194 TTTTCCTCTTCATATGAGTTCTTCACACTATGAACTCATTCTTCCTCTTCAGACG
63 TCTTCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
* * * * * *
97249 AGTTCTTCAGATTATGAACTCATTCTTTCTCTTTAGACCAGTTCTTCAGACGATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* * *
97314 TCCTCTTAATATGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACA
66 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
* * * *
97366 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCATATGTGTTCTTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* * *
97431 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
66 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
* * * *
97483 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTTATATGAGTTCTTCAGACTATAAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
97548 GGAAATATTT
Statistics
Matches: 762, Mismatches: 90, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
104 50 0.07
106 1 0.00
107 34 0.04
108 1 0.00
111 6 0.01
113 6 0.01
114 104 0.14
116 1 0.00
117 506 0.66
118 1 0.00
120 52 0.07
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (117 bp):
AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
Found at i:96782 original size:20 final size:20
Alignment explanation
Indices: 96757--96821 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
96747 TTCAGACAAG
96757 TTCTTCAGATTATGAACTCC
1 TTCTTCAGATTATGAACTCC
*** ***
96777 TTCTTCCTCTTCA-G-ACGAG
1 TTCTTCAGATT-ATGAACTCC
96796 TTCTTCAGATTATGAACTCC
1 TTCTTCAGATTATGAACTCC
96816 TTCTTC
1 TTCTTC
96822 CTCTTCAGAC
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
18 1 0.03
19 11 0.37
20 17 0.57
21 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.11, T:0.42
Consensus pattern (20 bp):
TTCTTCAGATTATGAACTCC
Found at i:97103 original size:26 final size:26
Alignment explanation
Indices: 97067--97126 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
97057 TTAGACGAGT
*
97067 TCTTTAGACTATGAACTCCTTCTTCA
1 TCTTCAGACTATGAACTCCTTCTTCA
** *
97093 TCTTCAGACTATGAACTTTTTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCA
97119 TCTTCAGA
1 TCTTCAGA
97127 TGAATTCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (26 bp):
TCTTCAGACTATGAACTCCTTCTTCA
Found at i:97109 original size:65 final size:65
Alignment explanation
Indices: 97028--97162 Score: 189
Period size: 65 Copynumber: 2.1 Consensus size: 65
97018 TCAGGCGAGT
* * * *
97028 TCTTCAGACTATGAACTCCTTCTTCCTCTTTAGACGAGTTCTTTAGACTATGAACTCCTTCTTCA
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAATTCTTCAGACTATGAACTCATTCTTCA
** * * *
97093 TCTTCAGACTATGAACTTTTTCTTCCTCTTCAGATGAATTCTTCAGATTATGAACTCATTCTTCT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAATTCTTCAGACTATGAACTCATTCTTCA
97158 TCTTC
1 TCTTC
97163 TTCATACGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (65 bp):
TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAATTCTTCAGACTATGAACTCATTCTTCA
Found at i:97147 original size:39 final size:39
Alignment explanation
Indices: 97093--97547 Score: 613
Period size: 39 Copynumber: 11.6 Consensus size: 39
97083 TCCTTCTTCA
** * *
97093 TCTTCAGACTATGAACTTTTTCTTCCTCTTCAGATGAAT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * *
97132 TCTTCAGATTATGAACTCATTCTTCTTCTTCTTCATACGAGT
1 TCTTCAGACTATGAACTC---CTTCTTCCTCTTCAGACGAGT
* * *
97174 TCTTCAGACTATGAACTCCTTTTTCCTCTTCATATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* *
97213 TCTTCACACTATGAACTCATTCTTCCTCTTCAGACGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * * * *
97252 TCTTCAGATTATGAACTCATTCTTTCTCTTTAGACCAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * * *
97291 TCTTCAGACGATGAACTCCTTCTTCCTCTTAATATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
*
97330 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACAAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * *
97369 TCTTCAGACTATGAACTCCTTCTTCCTCTTCATATGTGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
*
97408 TCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
97447 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * *
97486 TCTTCAGACTATGAACTCCTTCTTCCTCTTTATATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
*
97525 TCTTCAGACTATAAACTCCTTCT
1 TCTTCAGACTATGAACTCCTTCT
97548 GGAAATATTT
Statistics
Matches: 366, Mismatches: 47, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
39 333 0.91
42 33 0.09
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.41
Consensus pattern (39 bp):
TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
Found at i:97354 original size:20 final size:20
Alignment explanation
Indices: 97329--97393 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
97319 TTAATATGAG
97329 TTCTTCAGACTATGAACTCC
1 TTCTTCAGACTATGAACTCC
** * ***
97349 TTCTTC-CTCT-TCAGACAAG
1 TTCTTCAGACTATGA-ACTCC
97368 TTCTTCAGACTATGAACTCC
1 TTCTTCAGACTATGAACTCC
97388 TTCTTC
1 TTCTTC
97394 CTCTTCATAT
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 16 0.53
21 2 0.07
ACGTcount: A:0.22, C:0.31, G:0.09, T:0.38
Consensus pattern (20 bp):
TTCTTCAGACTATGAACTCC
Found at i:97471 original size:20 final size:20
Alignment explanation
Indices: 97446--97510 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
97436 TTCAGACGAG
97446 TTCTTCAGACTATGAACTCC
1 TTCTTCAGACTATGAACTCC
** * ***
97466 TTCTTC-CTCT-TCAGACGAG
1 TTCTTCAGACTATGA-ACTCC
97485 TTCTTCAGACTATGAACTCC
1 TTCTTCAGACTATGAACTCC
97505 TTCTTC
1 TTCTTC
97511 CTCTTTATAT
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 16 0.53
21 2 0.07
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (20 bp):
TTCTTCAGACTATGAACTCC
Found at i:97740 original size:73 final size:73
Alignment explanation
Indices: 97555--97957 Score: 668
Period size: 73 Copynumber: 5.5 Consensus size: 73
97545 TCTGGAAATA
* * * *
97555 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCCAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
97620 ACAATTTG
66 ACAATTTG
*
97628 TTTTAAG-AAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
*
97692 ACAGTTTG
66 ACAATTTG
* * *
97700 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCCAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
*
97765 ACAATTTA
66 ACAATTTG
*
97773 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
97838 A-AAGTTTG
66 ACAA-TTTG
97846 TTTTAAGAAAAA-AATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
97910 ACAATTTG
66 ACAATTTG
*
97918 TGTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
97958 GAAAACATCC
Statistics
Matches: 307, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
72 135 0.44
73 172 0.56
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (73 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
ACAATTTG
Found at i:97862 original size:145 final size:146
Alignment explanation
Indices: 97555--97957 Score: 711
Period size: 145 Copynumber: 2.8 Consensus size: 146
97545 TCTGGAAATA
*
97555 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCCAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCCAGCGAGAA
97620 ACAATTTGTTTTAAG-AAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCA
66 ACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCA
*
97684 AGCGAGAAACAGTTTG
131 AGCGAGAAAAAGTTTG
97700 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCCAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCCAGCGAGAA
* * *
97765 ACAATTTATTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCA
66 ACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCA
97830 AGCGAGAAAAAGTTTG
131 AGCGAGAAAAAGTTTG
* * *
97846 TTTTAAGAAAAA-AATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCCAGCGAGAA
*
97910 ACAATTTGTGTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
66 ACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
97958 GAAAACATCC
Statistics
Matches: 246, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
145 172 0.70
146 74 0.30
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (146 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCCAGCGAGAA
ACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCA
AGCGAGAAAAAGTTTG
Found at i:97931 original size:218 final size:218
Alignment explanation
Indices: 97553--97957 Score: 731
Period size: 218 Copynumber: 1.9 Consensus size: 218
97543 CTTCTGGAAA
* * *
97553 TATTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCCAGCGAG
1 TATTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
*
97618 AAACAATTTGTTTTAAGAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTC
66 AAACAATTTGTTTTAAGAAAAAAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTC
* *
97683 AAGCGAGAAACAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAA
131 AAGCGAGAAACAATTTGTGTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAA
97748 ATTTTCTCCAGCGAGAAACAATT
196 ATTTTCTCCAGCGAGAAACAATT
97771 TATTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
1 TATTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
*
97836 AAA-AAGTTTGTTTTAAGAAAAAAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCT
66 AAACAA-TTTGTTTTAAGAAAAAAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCT
97900 CAAGCGAGAAACAATTTGTGTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
130 CAAGCGAGAAACAATTTGTGTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
97958 GAAAACATCC
Statistics
Matches: 179, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
217 2 0.01
218 177 0.99
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (218 bp):
TATTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
AAACAATTTGTTTTAAGAAAAAAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTC
AAGCGAGAAACAATTTGTGTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAA
ATTTTCTCCAGCGAGAAACAATT
Found at i:98740 original size:22 final size:23
Alignment explanation
Indices: 98653--98737 Score: 131
Period size: 22 Copynumber: 3.8 Consensus size: 23
98643 AAATCCAATA
* *
98653 AATCTTTCATCTTTGAAAAGAT-
1 AATCTATCATCTTTGAAGAGATG
98675 AATCTATCATCTTTGAAGAGA-G
1 AATCTATCATCTTTGAAGAGATG
98697 AATCTATCATCTTTGAAGA-ATG
1 AATCTATCATCTTTGAAGAGATG
98719 AATCTATCATCTTTGAAGA
1 AATCTATCATCTTTGAAGA
98738 ATGTAGATGT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
21 1 0.02
22 58 0.98
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (23 bp):
AATCTATCATCTTTGAAGAGATG
Found at i:101600 original size:10 final size:10
Alignment explanation
Indices: 101553--101601 Score: 71
Period size: 10 Copynumber: 4.7 Consensus size: 10
101543 CTCGATTCAA
101553 TTTTTTTCTT
1 TTTTTTTCTT
*
101563 TTCTTTTTCATC
1 TT-TTTTTC-TT
101575 TTTTTTTCTT
1 TTTTTTTCTT
101585 TTTTTTTCTT
1 TTTTTTTCTT
101595 TTTTTTT
1 TTTTTTT
101602 ATGATGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 20 0.57
11 12 0.34
12 3 0.09
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:104546 original size:17 final size:17
Alignment explanation
Indices: 104524--104561 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
104514 GGTCTGACAC
104524 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
104541 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
104558 GACC
1 GACC
104562 GTGACCGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:113000 original size:9 final size:9
Alignment explanation
Indices: 112986--113035 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
112976 CAGCTGGAAA
112986 ACCGGTTTG
1 ACCGGTTTG
112995 ACCGGTTTG
1 ACCGGTTTG
*
113004 AACCGGTCTG
1 -ACCGGTTTG
113014 AACCGGTTTG
1 -ACCGGTTTG
*
113024 ACCGGTCTG
1 ACCGGTTTG
113033 ACC
1 ACC
113036 CGACCGACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
9 20 0.54
10 17 0.46
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:113009 original size:19 final size:19
Alignment explanation
Indices: 112985--113035 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
112975 GCAGCTGGAA
*
112985 AACCGGTTTGACCGGTTTG
1 AACCGGTCTGACCGGTTTG
113004 AACCGGTCTGAACCGGTTTG
1 AACCGGTCTG-ACCGGTTTG
113024 -ACCGGTCTGACC
1 AACCGGTCTGACC
113036 CGACCGACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 3 0.10
19 18 0.60
20 9 0.30
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.25
Consensus pattern (19 bp):
AACCGGTCTGACCGGTTTG
Found at i:113010 original size:10 final size:10
Alignment explanation
Indices: 112985--113029 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
112975 GCAGCTGGAA
112985 AACCGGTTTG
1 AACCGGTTTG
112995 -ACCGGTTTG
1 AACCGGTTTG
*
113004 AACCGGTCTG
1 AACCGGTTTG
113014 AACCGGTTTG
1 AACCGGTTTG
113024 -ACCGGT
1 AACCGGT
113030 CTGACCCGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:113068 original size:17 final size:17
Alignment explanation
Indices: 113046--113083 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
113036 CGACCGACCC
113046 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
*
113063 GACCCGACCCTACCGTT
1 GACCCGACCCGACCGTT
113080 GACC
1 GACC
113084 GTGACCGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.13
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:114969 original size:14 final size:14
Alignment explanation
Indices: 114950--115082 Score: 64
Period size: 14 Copynumber: 9.4 Consensus size: 14
114940 AATGTAATTG
* *
114950 TGCAAAGATGTAAA
1 TGCAAAAATGAAAA
114964 TGCAAAAATGAAAA
1 TGCAAAAATGAAAA
* *
114978 TG--TAAATAAAAA
1 TGCAAAAATGAAAA
* *
114990 CGTAAAAATGCAAATA
1 TGCAAAAATG-AAA-A
* * *
115006 TGC-GAATTCAAAA
1 TGCAAAAATGAAAA
115019 TG--AAAATGCAAAGA
1 TGCAAAAATG-AAA-A
115033 TGC-AAAATGAAAA
1 TGCAAAAATGAAAA
115046 TGCAAAAAATGTAGAAA
1 TGC-AAAAATG-A-AAA
115063 TGCAAAAAT-AAGAA
1 TGCAAAAATGAA-AA
115077 TGCAAA
1 TGCAAA
115083 TTGTGCAATG
Statistics
Matches: 92, Mismatches: 15, Indels: 24
0.70 0.11 0.18
Matches are distributed among these distances:
12 12 0.13
13 11 0.12
14 36 0.39
15 18 0.20
16 9 0.10
17 6 0.07
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.18
Consensus pattern (14 bp):
TGCAAAAATGAAAA
Found at i:115026 original size:6 final size:7
Alignment explanation
Indices: 114994--115154 Score: 74
Period size: 6 Copynumber: 23.1 Consensus size: 7
114984 TAAAAACGTA
114994 AAAATGC
1 AAAATGC
115001 AAATATGC
1 AAA-ATGC
* *
115009 -GAATTC
1 AAAATGC
115015 AAAATG-
1 AAAATGC
115021 AAAATGC
1 AAAATGC
115028 AAAGATGC
1 AAA-ATGC
115036 AAAATG-
1 AAAATGC
115042 AAAATGC
1 AAAATGC
*
115049 AAAAAATGT
1 --AAAATGC
115058 AGAAATGC
1 A-AAATGC
115066 AAAAAT--
1 -AAAATGC
115072 AAGAATGC
1 AA-AATGC
* *
115080 AAATTGT
1 AAAATGC
**
115087 GCAATGC
1 AAAATGC
115094 AAAA-GC
1 AAAATGC
115100 AAACAT--
1 AAA-ATGC
*
115106 AAAA-GT
1 AAAATGC
*
115112 ACGAATGC
1 A-AAATGC
115120 AAAATG-
1 AAAATGC
115126 AAAATGC
1 AAAATGC
115133 AAAGATGC
1 AAA-ATGC
115141 AAAATGC
1 AAAATGC
115148 -AAATGC
1 AAAATGC
115154 A
1 A
115155 TGTATGAAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 42
0.66 0.10 0.24
Matches are distributed among these distances:
5 3 0.03
6 39 0.34
7 36 0.31
8 31 0.27
9 7 0.06
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (7 bp):
AAAATGC
Found at i:115038 original size:21 final size:21
Alignment explanation
Indices: 115014--115154 Score: 82
Period size: 21 Copynumber: 6.7 Consensus size: 21
115004 TATGCGAATT
115014 CAAAATGAAAATGCAAAGATG
1 CAAAATGAAAATGCAAAGATG
*
115035 CAAAATGAAAATGCAAAAAATG
1 CAAAATGAAAATGC-AAAGATG
*
115057 TAGAAATGCAAAA---ATAAGAATG
1 CA-AAATG-AAAATGCA-AAG-ATG
* **
115079 CAAATTGTGCAATGCAAA-A-G
1 CAAAATG-AAAATGCAAAGATG
* *
115099 CAAACAT-AAAA-G-TACGAATG
1 CAAA-ATGAAAATGCAAAG-ATG
115119 CAAAATGAAAATGCAAAGATG
1 CAAAATGAAAATGCAAAGATG
*
115140 CAAAATGCAAATGCA
1 CAAAATGAAAATGCA
115155 TGTATGAAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 30
0.66 0.12 0.22
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 5 0.06
20 15 0.17
21 42 0.47
22 13 0.15
23 7 0.08
24 5 0.06
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.16
Consensus pattern (21 bp):
CAAAATGAAAATGCAAAGATG
Found at i:115045 original size:27 final size:28
Alignment explanation
Indices: 114994--115052 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
114984 TAAAAACGTA
* * *
114994 AAAATGCAAATATGCGAATTCAAAATG-
1 AAAATGCAAAGATGCAAAATCAAAATGC
*
115021 AAAATGCAAAGATGCAAAATGAAAATGC
1 AAAATGCAAAGATGCAAAATCAAAATGC
115049 AAAA
1 AAAA
115053 AATGTAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (28 bp):
AAAATGCAAAGATGCAAAATCAAAATGC
Found at i:115054 original size:15 final size:15
Alignment explanation
Indices: 115036--115082 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
115026 GCAAAGATGC
115036 AAAATGAAAATGCAA
1 AAAATGAAAATGCAA
115051 AAAATGTAGAAATGC-A
1 AAAATG-A-AAATGCAA
115067 AAAAT-AAGAATGCAA
1 AAAATGAA-AATGCAA
115082 A
1 A
115083 TTGTGCAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.04
14 6 0.21
15 8 0.29
16 7 0.25
17 6 0.21
ACGTcount: A:0.64, C:0.06, G:0.15, T:0.15
Consensus pattern (15 bp):
AAAATGAAAATGCAA
Found at i:117431 original size:14 final size:14
Alignment explanation
Indices: 117412--117444 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
117402 CAAACATAGA
117412 AAATTAAAGTAA-TG
1 AAATTAAAG-AACTG
117426 AAATTAAAGAACTG
1 AAATTAAAGAACTG
117440 AAATT
1 AAATT
117445 CAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (14 bp):
AAATTAAAGAACTG
Found at i:119406 original size:18 final size:19
Alignment explanation
Indices: 119371--119407 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
119361 CACGGAATGT
119371 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
119391 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
119408 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:125433 original size:12 final size:13
Alignment explanation
Indices: 125403--125432 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
125393 ACTCCAGTTT
125403 TTTTTAAAAAATA
1 TTTTTAAAAAATA
125416 TTTTTAAAAAATA
1 TTTTTAAAAAATA
125429 TTTT
1 TTTT
125433 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTTAAAAAATA
Found at i:128889 original size:90 final size:90
Alignment explanation
Indices: 128648--129199 Score: 803
Period size: 90 Copynumber: 6.2 Consensus size: 90
128638 AAAAGACTTA
* * * * **
128648 GATGACCCGAATGATTTAAAAATC-AGAAACCCTTGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
*
128712 AACATCATGCACTGAAGATCTTATG
66 AACATCATGCACTGAAGGTCTTATG
* * *
128737 GATGGCCTGAAGGACTT--AAA--AATAAACCCCCGAAGGCTTAGTTTTTAAAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
*
128798 AACATCCTGCACTGAAGGTCTTATG
66 AACATCATGCACTGAAGGTCTTATG
* *
128823 GATGACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
* *
128888 AACATCCTGCACTGAAGGTCATATG
66 AACATCATGCACTGAAGGTCTTATG
* * *
128913 GATGACCCGAATGACTTACAAATTAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
* *
128978 AATATCATGCACTAAAGGTCTTATG
66 AACATCATGCACTGAAGGTCTTATG
*
129003 GATGGTCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA-TTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
129067 AACAT-ACTGCACTGAAGGTCTTATG
66 AACATCA-TGCACTGAAGGTCTTATG
* * * * *
129092 GATGGTCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGTTTAGTTTCTTAAATCTTATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
129157 AACATCATGCACTGAAGGTCTTATG
66 AACATCATGCACTGAAGGTCTTATG
*
129182 GATGGCCCGAATGACTTA
1 GATGGCCCGAAGGACTTA
129200 TCATCTTGCT
Statistics
Matches: 420, Mismatches: 35, Indels: 15
0.89 0.07 0.03
Matches are distributed among these distances:
86 74 0.18
87 3 0.01
88 4 0.01
89 94 0.22
90 244 0.58
91 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (90 bp):
GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
AACATCATGCACTGAAGGTCTTATG
Found at i:129148 original size:269 final size:265
Alignment explanation
Indices: 128648--129199 Score: 865
Period size: 269 Copynumber: 2.1 Consensus size: 265
128638 AAAAGACTTA
* * **
128648 GATGACCCGAATGATTTAAAAATCAGAAACCCTTGAAGGCTTAGTTTCTAAAATCTCATTTGAAA
1 GATGACCCGAATGACTTAAAAATAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAA
* *
128713 ACATCATGCACTGAAGATCTTATGGATGGCCTGAAGGACTTAAAAATAAACCCCCGAAGGCTTAG
66 ACATCATGCACTAAAGATCTTATGGATGGCCTGAAGGACTTAAAAAGAAACCCCCGAAGGCTTAG
* *
128778 TTTTTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTACA
131 TTTCTAAAATCTCATTTGAAAACATACTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTACA
*
128843 AATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCCTGCACTGAAGGTC
196 AATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTC
128908 ATATG
261 ATATG
*
128913 GATGACCCGAATGACTTACAAATTAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1 GATGACCCGAATGACTTA-AAAATAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
* *
128978 AATATCATGCACTAAAGGTCTTATGGATGGTCC-GAAGGACTTACAAATCAAGAAACCCCCGAAG
65 AACATCATGCACTAAAGATCTTATGGATGG-CCTGAAGGACTT--AAA--AAGAAACCCCCGAAG
**
129042 GCTTAGTTTCTAAAATCTCA-TTGAAAACATACTGCACTGAAGGTCTTATGGATGGTCCGAAGGA
125 GCTTAGTTTCTAAAATCTCATTTGAAAACATACTGCACTGAAGGTCTTATGGATGACCCGAAGGA
* * *
129106 CTTACAAATCAAGAAACCCCTGAAGGTTTAGTTTCTTAAATCTTATTTGAAAACATCATGCACTG
190 CTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCATGCACTG
*
129171 AAGGTCTTATG
255 AAGGTCATATG
*
129182 GATGGCCCGAATGACTTA
1 GATGACCCGAATGACTTA
129200 TCATCTTGCT
Statistics
Matches: 262, Mismatches: 19, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
265 17 0.06
266 78 0.30
267 2 0.01
268 3 0.01
269 129 0.49
270 33 0.13
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (265 bp):
GATGACCCGAATGACTTAAAAATAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAA
ACATCATGCACTAAAGATCTTATGGATGGCCTGAAGGACTTAAAAAGAAACCCCCGAAGGCTTAG
TTTCTAAAATCTCATTTGAAAACATACTGCACTGAAGGTCTTATGGATGACCCGAAGGACTTACA
AATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTC
ATATG
Found at i:129166 original size:179 final size:177
Alignment explanation
Indices: 128648--129199 Score: 783
Period size: 179 Copynumber: 3.1 Consensus size: 177
128638 AAAAGACTTA
* * * * **
128648 GATGACCCGAATGATTTAAAAATC-AGAAACCCTTGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
* *
128712 AACATCATGCACTGAAGATCTTATGGATGGCCTGAAGGACTT--AAA-AATAAACCCCCGAAGGC
66 AACATC-TGCACTGAAGGTCTTATGGATGGCC-GAAGGACTTACAAATAAGAAACCCCCGAAGGC
*
128774 TTAGTTT-TTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATG
129 TTAGTTTCTT-AAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATG
* *
128823 GATGACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
* * *
128888 AACATCCTGCACTGAAGGTCATATGGATGACCCGAATGACTTACAAATTAAGAAACCCCCGAAGG
66 AACAT-CTGCACTGAAGGTCTTATGGATG-GCCGAAGGACTTACAAA-TAAGAAACCCCCGAAGG
* * *
128953 CTTAGTTTCTAAAATCTCATTTGAAAATATCATGCACTAAAGGTCTTATG
128 CTTAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATG
*
129003 GATGGTCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA-TTGAA
1 GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
*
129067 AACATACTGCACTGAAGGTCTTATGGATGGTCCGAAGGACTTACAAATCAAGAAACCCCTGAAGG
66 AACAT-CTGCACTGAAGGTCTTATGGATGG-CCGAAGGACTTACAAAT-AAGAAACCCCCGAAGG
* *
129132 TTTAGTTTCTTAAATCTTATTTGAAAACATCATGCACTGAAGGTCTTATG
128 CTTAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATG
*
129182 GATGGCCCGAATGACTTA
1 GATGGCCCGAAGGACTTA
129200 TCATCTTGCT
Statistics
Matches: 337, Mismatches: 30, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
175 21 0.06
176 70 0.21
177 3 0.01
178 4 0.01
179 123 0.36
180 115 0.34
181 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (177 bp):
GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
AACATCTGCACTGAAGGTCTTATGGATGGCCGAAGGACTTACAAATAAGAAACCCCCGAAGGCTT
AGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATG
Found at i:129316 original size:42 final size:42
Alignment explanation
Indices: 129158--129331 Score: 152
Period size: 42 Copynumber: 4.1 Consensus size: 42
129148 TTATTTGAAA
* * * * *
129158 ACATCATGCACTGAAGGTCTTATGGATGGCCCGAATGACTTA-
1 ACATCATGCTC-GAAAGACTTATTGATGACCCGAATGACTTAC
* * * * * * *
129200 TCATCTTGCTCAAAAGACTTATAGATGACCCAAAAGATTTAC
1 ACATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTAC
** * * * *
129242 GTATCATACTCGAAAGACTTACTGATGACCCGAAGGATTTAC
1 ACATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTAC
*
129284 ACATCATGCTCGAAAGACTTATTGATGGCCCGAATGACTTAC
1 ACATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTAC
*
129326 TCATCA
1 ACATCA
129332 AGAAACCCCC
Statistics
Matches: 103, Mismatches: 28, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
41 22 0.21
42 81 0.79
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (42 bp):
ACATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTAC
Found at i:129466 original size:43 final size:43
Alignment explanation
Indices: 129360--129619 Score: 398
Period size: 43 Copynumber: 6.0 Consensus size: 43
129350 AGTTTCTTAG
*
129360 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAG-
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
* *
129402 -TGTTCATCAAGAAACCCCTACATATCACGTTGGTCTCTCAAGC
1 TTG-TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
129445 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
129488 TTGTCATCAAGGAACCCCCTACATATCACGTTGGTCCCTCAAGC
1 TTGTCATCAAGGAA-CCCCTACATATCACGTTGGTCCCTCAAGC
* * ** *
129532 TTGTCATCAAGGAACCCTTACATATCACGATGACCCCTCAAAC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
* *
129575 TTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
129618 TT
1 TT
129620 AGTTTCTTAT
Statistics
Matches: 201, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 2 0.01
42 36 0.18
43 118 0.59
44 45 0.22
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (43 bp):
TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
Found at i:129538 original size:87 final size:86
Alignment explanation
Indices: 129360--129619 Score: 398
Period size: 87 Copynumber: 3.0 Consensus size: 86
129350 AGTTTCTTAG
* *
129360 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAG--TGTTCATCAAGAAACCCCTAC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG-TCATCAAGGAACCCCTAC
*
129423 ATATCACGTTGGTCTCTCAAGC
65 ATATCACGTTGGTCCCTCAAGC
129445 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGAACCCCCTAC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGAA-CCCCTAC
129510 ATATCACGTTGGTCCCTCAAGC
65 ATATCACGTTGGTCCCTCAAGC
* * ** *
129532 TTGTCATCAAGGAACCCTTACATATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
* *
129597 TATCACGATGATCCCTCAAGC
66 TATCACGTTGGTCCCTCAAGC
129618 TT
1 TT
129620 AGTTTCTTAT
Statistics
Matches: 162, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
85 41 0.25
86 39 0.24
87 82 0.51
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (86 bp):
TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
TATCACGTTGGTCCCTCAAGC
Found at i:129549 original size:23 final size:22
Alignment explanation
Indices: 129523--129591 Score: 52
Period size: 23 Copynumber: 3.1 Consensus size: 22
129513 TCACGTTGGT
129523 CCCTCAAGCTTGTCATCAAGGAA
1 CCCTCAA-CTTGTCATCAAGGAA
* * * * * *
129546 CCCT-TACATATCA-CGATGAC
1 CCCTCAACTTGTCATCAAGGAA
129566 CCCTCAAACTTGTCATCAAGGAA
1 CCCTC-AACTTGTCATCAAGGAA
129589 CCC
1 CCC
129592 CTACATATCA
Statistics
Matches: 31, Mismatches: 12, Indels: 6
0.63 0.24 0.12
Matches are distributed among these distances:
20 8 0.26
21 5 0.16
22 7 0.23
23 11 0.35
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (22 bp):
CCCTCAACTTGTCATCAAGGAA
Found at i:129572 original size:130 final size:128
Alignment explanation
Indices: 129360--129619 Score: 396
Period size: 130 Copynumber: 2.0 Consensus size: 128
129350 AGTTTCTTAG
129360 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGTGTTCATCAAGAAACCCCTACAT
1 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGTGTTCATCAAGAAACCCCTACAT
* ** * * * *
129425 ATCACGTTGGTCTCTCAAGCTTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
66 ATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAGC
* * *
129488 TTGTCATCAAGGAACCCCCTACATATCACGTTGGTCCCTCAAGCT-TGTCATCAAGGAACCCTTA
1 TTGTCACCAAGGAA-CCCCTACATATCACGTTGGTCCCTCAAG-TGT-TCATCAAGAAACCCCTA
129552 CATATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAG
63 CATATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAG
129617 C
128 C
129618 TT
1 TT
129620 AGTTTCTTAT
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
128 13 0.11
129 29 0.24
130 77 0.65
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (128 bp):
TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGTGTTCATCAAGAAACCCCTACAT
ATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAGC
Found at i:130197 original size:52 final size:50
Alignment explanation
Indices: 130082--130272 Score: 219
Period size: 52 Copynumber: 3.8 Consensus size: 50
130072 AAATCCCAAC
* *
130082 CTTTTCATGCTGGTGTGAGCCTTCAAGA--CCCCACATGAATTACGTT-TGT
1 CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATG-ATTAC-TTCTAT
* * * *
130131 CTATTCATACTGATGTGACCCTTCAAGATGCCCCCCATAGATTACTTCTAT
1 CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACAT-GATTACTTCTAT
**
130182 CTTTTTCATGCTGATGCAAGCCTTCAAGATGCCCCTACATGGATTACTTCTAT
1 C-TTTTCATGCTGATGTGAGCCTTCAAGATGCCCC-ACAT-GATTACTTCTAT
*
130235 CTTTTCATGCTGATGTGAGCCTTCAAGAT-ACCCACATG
1 CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATG
130273 GATAATGTGG
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 25 0.21
50 6 0.05
51 18 0.15
52 55 0.46
53 16 0.13
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (50 bp):
CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGATTACTTCTAT
Found at i:131421 original size:6 final size:6
Alignment explanation
Indices: 131399--131469 Score: 65
Period size: 6 Copynumber: 11.5 Consensus size: 6
131389 TTCCTCATTC
* * *
131399 TTTCTT TTT-TA TTTCTT TTTCTT TTT-TAT TTTCAT TTTCAT TTTCTTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT TTTCTT TTTC-TT
131447 TTTCTTT TTTCTT TTTCATT TTT
1 TTTC-TT TTTCTT TTTC-TT TTT
131470 TCCTTCTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.09
6 34 0.61
7 17 0.30
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:131430 original size:24 final size:25
Alignment explanation
Indices: 131403--131468 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
131393 TCATTCTTTC
*
131403 TTTTTTA-TTTCTTTTTCTTTTTTA
1 TTTTTTATTTTCATTTTCTTTTTTA
* *
131427 -TTTTCATTTTCATTTTCTTTTTTC
1 TTTTTTATTTTCATTTTCTTTTTTA
*
131451 TTTTTTCTTTTTCATTTT
1 TTTTTT-ATTTTCATTTT
131469 TTCCTTCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.15
24 15 0.44
25 4 0.12
26 10 0.29
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTATTTTCATTTTCTTTTTTA
Found at i:131463 original size:32 final size:29
Alignment explanation
Indices: 131396--131484 Score: 57
Period size: 32 Copynumber: 3.2 Consensus size: 29
131386 ATCTTCCTCA
*
131396 TTCTTTCTT-TTTT-ATTTCTTTTTCTTTT
1 TTCTTTTTTATTTTCATTT-TTTTTCTTTT
* *
131424 TT-ATTTTCATTTTCA--TTT--TCTTTT
1 TTCTTTTTTATTTTCATTTTTTTTCTTTT
*
131448 TTCTTTTTTCTTTTTCATTTTTTCCTTCTTTT
1 TTCTTTTTT-ATTTTCATTTTTT--TTCTTTT
131480 TTCTT
1 TTCTT
131485 CCTTTTTGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 8 0.18
25 4 0.09
26 8 0.18
27 4 0.09
28 9 0.20
29 1 0.02
32 11 0.24
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.79
Consensus pattern (29 bp):
TTCTTTTTTATTTTCATTTTTTTTCTTTT
Found at i:131484 original size:7 final size:7
Alignment explanation
Indices: 131396--131471 Score: 52
Period size: 7 Copynumber: 10.4 Consensus size: 7
131386 ATCTTCCTCA
131396 TTCTTTCT
1 TTCTTT-T
131404 TT-TTTAT
1 TTCTTT-T
131411 TTC-TTT
1 TTCTTTT
131417 TTCTTTT
1 TTCTTTT
*
131424 TTATTTT
1 TTCTTTT
131431 CATT-TTCATT
1 --TTCTT--TT
131441 TTCTTTT
1 TTCTTTT
131448 TTCTTTT
1 TTCTTTT
131455 TTC-TTT
1 TTCTTTT
131461 TTCATTTT
1 TTC-TTTT
131469 TTC
1 TTC
131472 CTTCTTTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
6 10 0.18
7 29 0.51
8 12 0.21
9 4 0.07
10 2 0.04
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (7 bp):
TTCTTTT
Found at i:131490 original size:22 final size:21
Alignment explanation
Indices: 131443--131491 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
131433 TTTTCATTTT
*
131443 CTTTTTTCTTTTTTCTTTTTC
1 CTTTTTTCTTTTTTCTTCTTC
*
131464 ATTTTTTCCTTCTTTT-TTCTTC
1 CTTTTTT-CTT-TTTTCTTCTTC
131486 CTTTTT
1 CTTTTT
131492 GAGTGTAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 13 0.57
23 4 0.17
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (21 bp):
CTTTTTTCTTTTTTCTTCTTC
Found at i:133972 original size:2 final size:2
Alignment explanation
Indices: 133967--134003 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
133957 TATATATATA
133967 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
134004 TTATGTGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:134175 original size:22 final size:22
Alignment explanation
Indices: 134106--134167 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
134096 TGCACATGTG
*
134106 ATATGTGA-CAGAAGAAAAGGT
1 ATATGTGATCACAAGAAAAGGT
134127 ATATGTGATCACAAGAAAAGGT
1 ATATGTGATCACAAGAAAAGGT
134149 ATATGTGATCACAAGAAAA
1 ATATGTGATCACAAGAAAA
134168 ATGATATGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 8 0.21
22 31 0.79
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (22 bp):
ATATGTGATCACAAGAAAAGGT
Found at i:134424 original size:22 final size:23
Alignment explanation
Indices: 134364--134429 Score: 62
Period size: 27 Copynumber: 2.7 Consensus size: 23
134354 TCTAAGGAGT
134364 GGTCCTTCGGGACAAATACAGTACATA
1 GGTCCTTCGGGACAAATACAG---A-A
* *
134391 GGTCTTTTGGGACAAATACAG-A
1 GGTCCTTCGGGACAAATACAGAA
*
134413 GGTCCTTCGGGATAAAT
1 GGTCCTTCGGGACAAAT
134430 TTCTAGCCCC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 15 0.44
27 19 0.56
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (23 bp):
GGTCCTTCGGGACAAATACAGAA
Found at i:135205 original size:23 final size:23
Alignment explanation
Indices: 135178--135230 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
135168 ACGAACATAA
* *
135178 TTTAATAGTATATAT-TTTATTT
1 TTTAAGAGTATAAATGTTTATTT
*
135200 TCTTAAGAGTTTAAATGTTTATTT
1 T-TTAAGAGTATAAATGTTTATTT
135224 TTTAAGA
1 TTTAAGA
135231 ATATTGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 17 0.65
24 8 0.31
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTAAGAGTATAAATGTTTATTT
Found at i:138570 original size:12 final size:12
Alignment explanation
Indices: 138546--138579 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
138536 TTAATAAGCT
*
138546 AATGCAAACGAG
1 AATGCAAATGAG
*
138558 AATGCGAATGAG
1 AATGCAAATGAG
138570 AATGCAAATG
1 AATGCAAATG
138580 CACAAGGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.26, T:0.15
Consensus pattern (12 bp):
AATGCAAATGAG
Found at i:140953 original size:2 final size:2
Alignment explanation
Indices: 140946--140980 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
140936 TGGTGCATAC
140946 AT AT AT AT AT AT AT AT AT AT AT A- AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
140981 GCATGCACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.