Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 139 of 213
Found at i:41442715 original size:136 final size:136
Alignment explanation
Indices: 41442471--41442743 Score: 397
Period size: 136 Copynumber: 2.0 Consensus size: 136
41442461 TAGTATATGA
* *
41442471 ACAATGGTTATGTGGCCTCTAGTAAGGCAGGTACATTGCAAACCAGACTAGCTAGCATGGCAAAG
1 ACAATGGTTATGTGGCCTCTAGTAAGGCAGGTACATTACAAACCAGACTAGCTAGCATGACAAAG
* ***
41442536 GAAATGAAAGGAATTGTTGATCTCTGAATACAAAATTGGGTTTGGCCAACACAAAGAAGGTTGTC
66 GAAATGAAAGGAATTGTTGATCTCTGAACACAAAACCAGGTTTGGCCAACACAAAGAAGGTTGTC
41442601 TGCATG
131 TGCATG
*
41442607 ACAATGGTTATGTGGCCTC-AGGTAAGGTAGGTACATTACAAACCAGACTAGCTAGCATGACAAA
1 ACAATGGTTATGTGGCCTCTA-GTAAGGCAGGTACATTACAAACCAGACTAGCTAGCATGACAAA
* ** * * *
41442671 GGAAATGAAAGGAA-TGATTGATCTTTGAACACGGACCCATGTTTGGCTAACACAAAGAAGGTTG
65 GGAAATGAAAGGAATTG-TTGATCTCTGAACACAAAACCAGGTTTGGCCAACACAAAGAAGGTTG
41442735 TCTGCATG
129 TCTGCATG
41442743 A
1 A
41442744 ATGTATGGGC
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
135 3 0.02
136 119 0.98
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (136 bp):
ACAATGGTTATGTGGCCTCTAGTAAGGCAGGTACATTACAAACCAGACTAGCTAGCATGACAAAG
GAAATGAAAGGAATTGTTGATCTCTGAACACAAAACCAGGTTTGGCCAACACAAAGAAGGTTGTC
TGCATG
Found at i:41445357 original size:18 final size:19
Alignment explanation
Indices: 41445331--41445366 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
41445321 ACTCTATATC
41445331 CTTCAGGGA-TTTTAAATT
1 CTTCAGGGATTTTTAAATT
*
41445349 CTTCTGGGATTTTTAAAT
1 CTTCAGGGATTTTTAAAT
41445367 AAATTTCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (19 bp):
CTTCAGGGATTTTTAAATT
Found at i:41445695 original size:37 final size:37
Alignment explanation
Indices: 41445654--41445728 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
41445644 TCCAAAAACA
41445654 TTACGTTTAGAAAGTGAATTTAATTCTTCTTGAATTG
1 TTACGTTTAGAAAGTGAATTTAATTCTTCTTGAATTG
41445691 TTACGTTTAGAAAGTGAATTTAATTCTTCTTGAATTG
1 TTACGTTTAGAAAGTGAATTTAATTCTTCTTGAATTG
41445728 T
1 T
41445729 GTCTTTCCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (37 bp):
TTACGTTTAGAAAGTGAATTTAATTCTTCTTGAATTG
Found at i:41447780 original size:27 final size:27
Alignment explanation
Indices: 41447750--41447927 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
41447740 ATATTGAGCC
* *
41447750 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
41447777 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
41447804 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
41447832 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
41447859 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
41447886 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
41447913 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41447928 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41447862 original size:55 final size:54
Alignment explanation
Indices: 41447750--41447927 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
41447740 ATATTGAGCC
* * * * *
41447750 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
41447804 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
41447859 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
41447913 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41447928 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:41465424 original size:40 final size:40
Alignment explanation
Indices: 41465379--41465564 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
41465369 GCTCCTCGTT
* *
41465379 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
41465419 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
41465459 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
41465499 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
41465540 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41465565 CATCATTCAA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.89
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41467739 original size:15 final size:15
Alignment explanation
Indices: 41467719--41467757 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
41467709 GCACACCACC
* *
41467719 TTTTTTTTACATGAA
1 TTTTTTATACATCAA
*
41467734 TTTTTTATATATCAA
1 TTTTTTATACATCAA
41467749 TTTTTTATA
1 TTTTTTATA
41467758 TATATATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTTTATACATCAA
Found at i:41467758 original size:15 final size:15
Alignment explanation
Indices: 41467732--41467760 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41467722 TTTTTACATG
41467732 AATTTTTTATATATC
1 AATTTTTTATATATC
41467747 AATTTTTTATATAT
1 AATTTTTTATATAT
41467761 ATATTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTTTTATATATC
Found at i:41470736 original size:27 final size:28
Alignment explanation
Indices: 41470686--41470738 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
41470676 CACACGTTTC
41470686 ATTTAATTTCACATTTTAGTCCCTAAAA
1 ATTTAATTTCACATTTTAGTCCCTAAAA
*
41470714 ATTTATTTTCACAATTTT-G-CCCTAA
1 ATTTAATTTCAC-ATTTTAGTCCCTAA
41470739 TTACTCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 12 0.52
29 5 0.22
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (28 bp):
ATTTAATTTCACATTTTAGTCCCTAAAA
Found at i:41491073 original size:41 final size:41
Alignment explanation
Indices: 41491016--41491117 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
41491006 GCTTAGAGCT
*
41491016 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * * *
41491057 TAGCAGGCTTAATGCCGGTGGAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
41491098 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
41491118 TACTGAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:41498655 original size:41 final size:41
Alignment explanation
Indices: 41498610--41498711 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
41498600 GCTTAGAGCT
*
41498610 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * * *
41498651 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
41498692 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
41498712 TACTGAATCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
40 3 0.06
41 50 0.94
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:41500811 original size:63 final size:59
Alignment explanation
Indices: 41500727--41500868 Score: 160
Period size: 63 Copynumber: 2.3 Consensus size: 59
41500717 AATCTGACTT
* * * * *
41500727 AGACAAGTATTAATGCGGTACAAACTAAGACACCATTAATAGACTTAGAACAACTAAACAATC
1 AGACATGTAATAATGCTGTACAAACTAAGACACAATTAATAGAATT--AACAA--AAACAATC
* * *
41500790 AGACAT-TCAATAATGCTGTACAATCTAAGACACAATTAATAGAATTAACTAAAATAATC
1 AGACATGT-AATAATGCTGTACAAACTAAGACACAATTAATAGAATTAACAAAAACAATC
41500849 AGACATGTAATAATGCTGTA
1 AGACATGTAATAATGCTGTA
41500869 TGAAATCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
59 25 0.36
60 1 0.01
61 4 0.06
62 1 0.01
63 38 0.55
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (59 bp):
AGACATGTAATAATGCTGTACAAACTAAGACACAATTAATAGAATTAACAAAAACAATC
Found at i:41503165 original size:45 final size:45
Alignment explanation
Indices: 41503096--41503188 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 45
41503086 ACAGATACTT
* * *
41503096 GGTGGATTCAGCAAATAGCGACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAGCAAATAGCAACCACCTTACTAATCAATGATGTCC
* * *
41503141 GGTGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGTTC
1 GGTGGAATCAGCAAATAGCAACCACCTTACTAATCAATGATGTCC
41503186 GGT
1 GGT
41503189 TCACATAGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (45 bp):
GGTGGAATCAGCAAATAGCAACCACCTTACTAATCAATGATGTCC
Found at i:41506118 original size:42 final size:42
Alignment explanation
Indices: 41506038--41506119 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
41506028 TGTTTTCTCT
* **
41506038 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
41506080 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
41506120 CACACGGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:41506280 original size:25 final size:25
Alignment explanation
Indices: 41506252--41506304 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
41506242 TGCGTTCTAC
41506252 TCAATTTAATCTTCCAATTCAATTT
1 TCAATTTAATCTTCCAATTCAATTT
41506277 TCAATTTAATCTTCCAATTCAATTT
1 TCAATTTAATCTTCCAATTCAATTT
41506302 TCA
1 TCA
41506305 TACTATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (25 bp):
TCAATTTAATCTTCCAATTCAATTT
Found at i:41508944 original size:16 final size:16
Alignment explanation
Indices: 41508923--41508954 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41508913 GTTTTGTTGC
*
41508923 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
41508939 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
41508955 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:41509141 original size:45 final size:45
Alignment explanation
Indices: 41509084--41509172 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
41509074 AACAGATACT
* *
41509084 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATAATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
* *
41509129 CGGTGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGT
41509173 TCGATTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
Found at i:41509238 original size:51 final size:51
Alignment explanation
Indices: 41509183--41509367 Score: 216
Period size: 51 Copynumber: 3.6 Consensus size: 51
41509173 TCGATTCACA
* *
41509183 TAGTAGCCTGCACATAGTACTACACATGTGA-CTATTACCATTCGATACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTA-TACCATTCGGTACACG
* * * * * *
41509234 TAGTAGCCTGCACATAGTACTACACATGTGATCGAAACTATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTATACCATTCGGTACACG
* *
41509285 TAGTAGCC-GTCACATATTACTACACATGCGACCTAT--CATTCCGGTACACG
1 TAGTAGCCTG-CACATAGTACTACACATGTGACCTATACCATT-CGGTACACG
*
41509335 TAGTAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACATGTGACC
41509368 ATCACTTTCA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
49 3 0.03
50 36 0.32
51 71 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCTATACCATTCGGTACACG
Found at i:41509360 original size:101 final size:101
Alignment explanation
Indices: 41509181--41509365 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 101
41509171 GTTCGATTCA
* *
41509181 CATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATTCGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACTATTA-CATTCGATACACGTAGTAGCCTGCA
*
41509246 CATAGTACTACACATGTGATCGAAACTATTCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATTCGGTACG
* *
41509283 CATAGTAGCC-GTCACATATTACTACACATGCGACCTA-T-CATTCCGGTACACGTAGTAGCCTG
1 CATAGTAGCCTG-CACATAGTACTACACATGCGA-CTATTACATT-CGATACACGTAGTAGCCTG
41509345 CACATAGTACTACACACGTGA
63 CACATAGTACTACACACGTGA
41509366 CCATCACTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 30 0.40
103 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACTATTACATTCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATTCGGTACG
Found at i:41509388 original size:101 final size:101
Alignment explanation
Indices: 41509177--41509399 Score: 240
Period size: 101 Copynumber: 2.2 Consensus size: 101
41509167 TGATGTTCGA
* *
41509177 TTCACATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATTCGATACATGTAGTAGCC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACTATTA-CATTCGATACACGTAGTAGCC
* * *
41509242 TGCACATAGTACTACACATGTGATCGAAACTATTCGG
65 TGCACATAGTACTACACACGTGATCCAAACTATTCCG
* * * *
41509279 TACGCATAGTAGCC-GTCACATATTACTACACATGCGACCTA-T-CATTCCGGTACACGTAGTAG
1 TTCACATAGTAGCCTG-CACATAGTACTACACATGCGA-CTATTACATT-CGATACACGTAGTAG
* *
41509341 CCTGCACATAGTACTACACACGTGA-CCATCACT-TTCACT
63 CCTGCACATAGTACTACACACGTGATCCA-AACTATTC-CG
* *
41509380 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTGCACA
41509400 CAGCCTATGC
Statistics
Matches: 100, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
100 9 0.09
101 56 0.56
102 32 0.32
103 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (101 bp):
TTCACATAGTAGCCTGCACATAGTACTACACATGCGACTATTACATTCGATACACGTAGTAGCCT
GCACATAGTACTACACACGTGATCCAAACTATTCCG
Found at i:41511393 original size:39 final size:37
Alignment explanation
Indices: 41511313--41511460 Score: 138
Period size: 39 Copynumber: 3.9 Consensus size: 37
41511303 TTCAACAAAC
* *
41511313 ATTAAAGATGTCCAAATT-TAAACATATTTAAAACATGT
1 ATTAAAGATGTCCAAATTAT-GACATAATTAAAACAT-T
*
41511351 ATTAAAGATGTCCTAAACTATGACATAATTAAAACCATT
1 ATTAAAGATGTCC-AAATTATGACATAATTAAAA-CATT
* * * *
41511390 ATTAATGTTGTTCAGATTATGACATAATTAAAA-ATTCAT
1 ATTAAAGATGTCCAAATTATGACATAATTAAAACA-T--T
* *
41511429 ATTAATGATGTTCAAATTATGACATAATTAAA
1 ATTAAAGATGTCCAAATTATGACATAATTAAA
41511461 GACTCAAACT
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 31 0.33
39 57 0.61
40 4 0.04
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (37 bp):
ATTAAAGATGTCCAAATTATGACATAATTAAAACATT
Found at i:41513123 original size:19 final size:19
Alignment explanation
Indices: 41513099--41513140 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
41513089 TTCAATCTCA
41513099 TTTTCAAACTCTCTTTCAT
1 TTTTCAAACTCTCTTTCAT
* * *
41513118 TTTTCATAGTCTCTTTTAT
1 TTTTCAAACTCTCTTTCAT
41513137 TTTT
1 TTTT
41513141 GAAAACTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTCAAACTCTCTTTCAT
Found at i:41524365 original size:20 final size:20
Alignment explanation
Indices: 41524340--41524378 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
41524330 TGAGTTATTT
41524340 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
41524360 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
41524379 GAAGACAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:41527916 original size:45 final size:45
Alignment explanation
Indices: 41527847--41528056 Score: 224
Period size: 45 Copynumber: 4.7 Consensus size: 45
41527837 TATAGAGTAT
* *
41527847 CATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCATCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
*
41527892 CATTAATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
* **** *
41527937 CATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCACCATAAAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
** * * * * ** *
41527982 CATTGAAAATAGAGGTGGTTGTTATATGCTGGTTCCACCGAATAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
* * *
41528027 AATTTATTATAAGGGTGG-TGCTATGTGCTG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTG
41528057 GTCCATCATG
Statistics
Matches: 137, Mismatches: 28, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
44 10 0.07
45 127 0.93
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
Found at i:41534020 original size:27 final size:27
Alignment explanation
Indices: 41533990--41534167 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41533980 ATATTGAGTC
* * * *
41533990 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41534017 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41534044 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41534072 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41534099 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41534126 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41534153 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41534168 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41534129 original size:82 final size:81
Alignment explanation
Indices: 41534011--41534166 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41534001 TGCTATATAA
* *
41534011 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41534076 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41534093 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41534157 CACTTAGTGC
65 CACTTAGTGC
41534167 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41542132 original size:27 final size:27
Alignment explanation
Indices: 41542102--41542278 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
41542092 ATATTGAGTC
* *
41542102 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
41542129 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
41542156 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
41542184 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
41542211 CGCACACTT-GTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
41542237 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
41542264 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41542279 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 21 0.17
27 82 0.65
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41542261 original size:53 final size:55
Alignment explanation
Indices: 41542102--41542278 Score: 200
Period size: 53 Copynumber: 3.3 Consensus size: 55
41542092 ATATTGAGTC
* * * * * *
41542102 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
41542156 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
41542211 CGCACACTT-GTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
41542264 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41542279 GTACAATTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
53 35 0.34
54 34 0.33
55 34 0.33
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:41559044 original size:13 final size:14
Alignment explanation
Indices: 41559022--41559053 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
41559012 TTTACTTAAA
41559022 ATAA-AAAAAATTT
1 ATAATAAAAAATTT
41559035 A-AATAAAAAATTT
1 ATAATAAAAAATTT
41559048 ATAATA
1 ATAATA
41559054 TTTTTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 11 0.65
14 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAATAAAAAATTT
Found at i:41559435 original size:21 final size:21
Alignment explanation
Indices: 41559409--41559470 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
41559399 CACCACGTAG
*
41559409 TCAATCAACGTCGTTCAATGA
1 TCAATCAACGTCGTTCAACGA
*
41559430 TCAATCAACGTCGGGTCAACGA
1 TCAATCAACGTC-GTTCAACGA
*
41559452 TCAGTCAACGTCGTTCAAC
1 TCAATCAACGTCGTTCAAC
41559471 ACTTGATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (21 bp):
TCAATCAACGTCGTTCAACGA
Found at i:41559453 original size:22 final size:22
Alignment explanation
Indices: 41559409--41559464 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
41559399 CACCACGTAG
* *
41559409 TCAATCAACGTC-GTTCAATGA
1 TCAATCAACGTCGGGTCAACGA
41559430 TCAATCAACGTCGGGTCAACGA
1 TCAATCAACGTCGGGTCAACGA
*
41559452 TCAGTCAACGTCG
1 TCAATCAACGTCG
41559465 TTCAACACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (22 bp):
TCAATCAACGTCGGGTCAACGA
Found at i:41562341 original size:16 final size:16
Alignment explanation
Indices: 41562320--41562350 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41562310 AATACTCTAA
*
41562320 GGCGTACTCTTTCTTG
1 GGCGTAATCTTTCTTG
41562336 GGCGTAATCTTTCTT
1 GGCGTAATCTTTCTT
41562351 TGTTTGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (16 bp):
GGCGTAATCTTTCTTG
Found at i:41568944 original size:10 final size:10
Alignment explanation
Indices: 41568911--41568959 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
41568901 TATTTCATAA
*
41568911 ATTTAATATT
1 ATTTTATATT
* *
41568921 ATTAATATAAT
1 ATT-TTATATT
41568932 ATTTTATATT
1 ATTTTATATT
41568942 ATTTTATATT
1 ATTTTATATT
*
41568952 TTTTTATA
1 ATTTTATA
41568960 AAAGTTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 25 0.78
11 7 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTTATATT
Found at i:41571104 original size:21 final size:21
Alignment explanation
Indices: 41571080--41571119 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
41571070 GATTAGGGTC
41571080 ATAAT-TAATTAAAGTATTAAA
1 ATAATATAA-TAAAGTATTAAA
*
41571101 ATAATATAATAAGGTATTA
1 ATAATATAATAAAGTATTA
41571120 TTATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
ATAATATAATAAAGTATTAAA
Found at i:41598349 original size:73 final size:73
Alignment explanation
Indices: 41598263--41598415 Score: 306
Period size: 73 Copynumber: 2.1 Consensus size: 73
41598253 ATAATCTCTT
41598263 TAGAGAATTTGCTCTCTACAAGTTTCTCTTAAATTCAAGTGTGTGTAAATAACGACTCAATGCTC
1 TAGAGAATTTGCTCTCTACAAGTTTCTCTTAAATTCAAGTGTGTGTAAATAACGACTCAATGCTC
41598328 TCTTTATA
66 TCTTTATA
41598336 TAGAGAATTTGCTCTCTACAAGTTTCTCTTAAATTCAAGTGTGTGTAAATAACGACTCAATGCTC
1 TAGAGAATTTGCTCTCTACAAGTTTCTCTTAAATTCAAGTGTGTGTAAATAACGACTCAATGCTC
41598401 TCTTTATA
66 TCTTTATA
41598409 TAGAGAA
1 TAGAGAA
41598416 AGTTTAGAGA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 80 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (73 bp):
TAGAGAATTTGCTCTCTACAAGTTTCTCTTAAATTCAAGTGTGTGTAAATAACGACTCAATGCTC
TCTTTATA
Found at i:41601728 original size:101 final size:101
Alignment explanation
Indices: 41601601--41601782 Score: 256
Period size: 101 Copynumber: 1.8 Consensus size: 101
41601591 AAAGTGATGG
* * * * *
41601601 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGATCGCATGTATAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGAACCGGAAAGAAAGATCACATGTATAGTAC
*
41601666 TATGTGCAGGCTACTATACGTACCAGATAACTTCGA
66 TATGTGAAGGCTACTATACGTACCAGATAACTTCGA
* *** * *
41601702 TCACGTTTGTAGTACTATGTGCAGGCTACTACATGAACCGGAAAGTTTGATCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGAACCGGAAAGAAAGATCACATGTATAGTAC
41601767 TATGTGAAGGCTACTA
66 TATGTGAAGGCTACTA
41601783 CGTGTATCGA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 69 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGAACCGGAAAGAAAGATCACATGTATAGTAC
TATGTGAAGGCTACTATACGTACCAGATAACTTCGA
Found at i:41601772 original size:50 final size:50
Alignment explanation
Indices: 41601601--41601788 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
41601591 AAAGTGATGG
* * * **
41601601 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAAAGTTAGA
* * * * * * * *
41601651 TCGCATGTATAGTACTATGTGCAGGCTACTATACGTACCAGATAACTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGA-AAGTTAGA
* * *
41601702 TCACGTTTGTAGTACTATGTGCAGGCTACTACATGAACCGGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAAAGTTAGA
* *
41601752 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTA
41601789 TCGAATGATA
Statistics
Matches: 110, Mismatches: 27, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
50 73 0.66
51 37 0.34
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAAAGTTAGA
Found at i:41609889 original size:40 final size:41
Alignment explanation
Indices: 41609828--41610132 Score: 501
Period size: 40 Copynumber: 7.5 Consensus size: 41
41609818 GACTTTATGT
*
41609828 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
41609869 CTAGCAGGCT-AGTGCCGGTGATATGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
41609909 CTAGCAGGCTAAGTGCCGGTGAGCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
41609950 CTAGCAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
41609990 CTAGCAGGCTAAGTGCCGGTGACCCGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
41610031 CTAGTAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
41610071 CTAGCAGGCT-AGTGCCGGTGATCTGAATGAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
41610111 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
41610133 ATATGTTAAA
Statistics
Matches: 245, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
40 151 0.62
41 94 0.38
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:41609918 original size:81 final size:81
Alignment explanation
Indices: 41609828--41610137 Score: 523
Period size: 81 Copynumber: 3.8 Consensus size: 81
41609818 GACTTTATGT
41609828 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATAT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATAT
41609893 GAATCAGGTTATAAAC
66 GAATCAGGTTATAAAC
* *
41609909 CTAGCAGGCTAAGTGCCGGTGAGCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATAT
41609974 GAATCAGGTTATAAAC
66 GAATCAGGTTATAAAC
* * * *
41609990 CTAGCAGGCTAAGTGCCGGTGACCCGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATAT
41610055 GAATCAGGTTATAAAC
66 GAATCAGGTTATAAAC
**
41610071 CTAGCAGGCT-AGTGCCGGTGATCTGAATGAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCT-AGTGCCGGTG-AT
41610135 ATG
64 ATG
41610138 TTAAATTAAG
Statistics
Matches: 216, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
80 35 0.16
81 177 0.82
82 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (81 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATAT
GAATCAGGTTATAAAC
Found at i:41609990 original size:121 final size:121
Alignment explanation
Indices: 41609828--41610137 Score: 505
Period size: 121 Copynumber: 2.5 Consensus size: 121
41609818 GACTTTATGT
*
41609828 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCT-AGTGCCGGTGATA
1 CTAGCAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATA
*
41609892 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGAGCTGAACCAGGTTATAAAC
65 TGAACCAGGTTATAAACCTAGCAGGCT-AGTGCCGGTGAGCTGAACCAGGTTATAAAC
***
41609950 CTAGCAGGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGACCC
1 CTAGCAGGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATAT
* * *
41610015 GAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCTGAATCAGGTTATAAAC
66 GAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGAGCTGAACCAGGTTATAAAC
*
41610071 CTAGCAGGCTAGTGCCGGTGATCTGAATGAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGAATA
1 CTAGCAGGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTG-ATA
41610136 TG
65 TG
41610138 TTAAATTAAG
Statistics
Matches: 174, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
121 127 0.73
122 47 0.27
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (121 bp):
CTAGCAGGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATAT
GAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGAGCTGAACCAGGTTATAAAC
Found at i:41617926 original size:40 final size:41
Alignment explanation
Indices: 41617865--41618209 Score: 583
Period size: 40 Copynumber: 8.5 Consensus size: 41
41617855 GACTTTATGT
41617865 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
41617906 CTAGCAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
41617946 CTAACAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
* *
41617987 CTAGCAGGCT-AGTGCCGGTGATATGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
41618027 CTAGC-GGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
* * *
41618067 CTAGTAGGCT-AGTGCCGGTGATTTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
41618107 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
41618148 CTAGCAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
41618188 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
41618210 ATATGTTAAA
Statistics
Matches: 284, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.01
40 179 0.63
41 101 0.36
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
Found at i:41617959 original size:81 final size:81
Alignment explanation
Indices: 41617865--41618209 Score: 647
Period size: 81 Copynumber: 4.3 Consensus size: 81
41617855 GACTTTATGT
41617865 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
41617930 GAATCAGGTTATAAAC
66 GAATCAGGTTATAAAC
* *
41617946 CTAACAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATAT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
41618011 GAATCAGGTTATAAAC
66 GAATCAGGTTATAAAC
* *
41618027 CTAGC-GGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATTT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
41618091 GAATCAGGTTATAAAC
66 GAATCAGGTTATAAAC
41618107 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
41618172 GAATCAGGTTATAAAC
66 GAATCAGGTTATAAAC
41618188 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
41618210 ATATGTTAAA
Statistics
Matches: 256, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
80 78 0.30
81 178 0.70
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (81 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
GAATCAGGTTATAAAC
Found at i:41618136 original size:161 final size:162
Alignment explanation
Indices: 41617865--41618209 Score: 647
Period size: 161 Copynumber: 2.1 Consensus size: 162
41617855 GACTTTATGT
41617865 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
41617930 GAATCAGGTTATAAACCTAACAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGG
66 GAATCAGGTTATAAACCTAACAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGG
41617995 CTAGTGCCGGTGATATGAATCAGGTTATAAAC
131 CTAGTGCCGGTGATATGAATCAGGTTATAAAC
* *
41618027 CTAGC-GGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATTT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
*
41618091 GAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGG
66 GAATCAGGTTATAAACCTAACAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGG
*
41618156 CTAGTGCCGGTGATCTGAATCAGGTTATAAAC
131 CTAGTGCCGGTGATATGAATCAGGTTATAAAC
41618188 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
41618210 ATATGTTAAA
Statistics
Matches: 178, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
161 157 0.88
162 21 0.12
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (162 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCT
GAATCAGGTTATAAACCTAACAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGG
CTAGTGCCGGTGATATGAATCAGGTTATAAAC
Found at i:41626004 original size:40 final size:41
Alignment explanation
Indices: 41625947--41626290 Score: 588
Period size: 40 Copynumber: 8.5 Consensus size: 41
41625937 CTTTATGTCG
41625947 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
*
41625988 AGCAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAACCT
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
*
41626028 AGCAAGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
**
41626069 AGCAGGCT-AGTGCCGGTGATCTGAATTAGGTTATAAACCT
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
41626109 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
* * *
41626150 AGTAGGCT-AGTGCCGGTGATCAGAATCAGGTTATAAACCT
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
41626190 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
*
41626231 AGCAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAACCT
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
41626271 AGCAGGCTAAGTGCCGGTGA
1 AGCAGGCTAAGTGCCGGTGA
41626291 ATATGTTAAA
Statistics
Matches: 284, Mismatches: 15, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
40 152 0.54
41 132 0.46
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCT
Found at i:41626042 original size:81 final size:81
Alignment explanation
Indices: 41625947--41626858 Score: 714
Period size: 81 Copynumber: 11.2 Consensus size: 81
41625937 CTTTATGTCG
41625947 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
41626012 ATCAGGTTATAAACCT
66 ATCAGGTTATAAACCT
*
41626028 AGCAAGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
*
41626093 ATTAGGTTATAAACCT
66 ATCAGGTTATAAACCT
* *
41626109 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCAGA
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
41626174 ATCAGGTTATAAACCT
66 ATCAGGTTATAAACCT
41626190 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
41626255 ATCAGGTTATAAACCT
66 ATCAGGTTATAAACCT
* ** * * * * * * *****
41626271 AGCAGGCTAAGTGCCGGTGAATATGTTAAATTAAGTGAT-TA--TATGCATTTGATATATATAAA
1 AGCAGGCTAAGTGCCGGTG-ATCTG---AACCAGGTTATAAACCTA-GCA--GGCTA-GTGCCGG
* * * *
41626333 T-ATATAAATGATTTTGGGTTATATA--T
58 TGATCTGAATCA-----GGTTATAAACCT
* *** * ** * ** * *** * **
41626359 A--ATGGATAAGT--ATATGA-AT-ATTCA-TTTATATGTGTTCGATGAGCATATTAATGTTTGG
1 AGCA-GGCTAAGTGCCGGTGATCTGAACCAGGTTATA----AAC-CT-AGCAGGCTAGTG-CCGG
* * * *
41626417 ATGTATGTG-TTTA-GTGA-AAGACC-
58 -TG-ATCTGAATCAGGTTATAA-ACCT
** ** * * ** ** * **
41626440 A--ATTTCATATCTG-TGGT-AT-T----CAGGGTCGATGCCTAGCAGATG-TAATGCCGGAAAA
1 AGCA-GGC-TAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAG--GCTAGTGCCGG-TGA
* * ***
41626495 T-T-ATTTCAGACTT-TATGTCT
61 TCTGA-ATCAG-GTTATAAACCT
*
41626515 AGGAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
41626580 ATCAGGTTATAAACCT
66 ATCAGGTTATAAACCT
* * *
41626596 AGCAAGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGCCTAGTGTCGGTGATCTGA
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
*
41626661 ATTAGGTTATAAACCT
66 ATCAGGTTATAAACCT
* *
41626677 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCGGA
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
41626742 ATCAGGTTATAAACCT
66 ATCAGGTTATAAACCT
*
41626758 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTCTAAACCTAGCAGGCTAGTGCCGGTGATCTGA
1 AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
41626823 ATCAGGTTATAAACCT
66 ATCAGGTTATAAACCT
41626839 AGCAGGCTAAGTGCCGGTGA
1 AGCAGGCTAAGTGCCGGTGA
41626859 ATATGTTAAA
Statistics
Matches: 671, Mismatches: 105, Indels: 110
0.76 0.12 0.12
Matches are distributed among these distances:
72 1 0.00
73 5 0.01
74 8 0.01
75 13 0.02
76 6 0.01
77 3 0.00
78 4 0.01
79 6 0.01
80 11 0.02
81 523 0.78
82 26 0.04
83 9 0.01
84 6 0.01
85 20 0.03
86 9 0.01
87 11 0.02
88 2 0.00
90 8 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (81 bp):
AGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGA
ATCAGGTTATAAACCT
Found at i:41626574 original size:40 final size:41
Alignment explanation
Indices: 41626513--41626858 Score: 556
Period size: 40 Copynumber: 8.5 Consensus size: 41
41626503 GACTTTATGT
*
41626513 CTAGGAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
41626554 CTAGCAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
41626594 CTAGCAAGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
* * **
41626635 CTAGCAGCCT-AGTGTCGGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
41626675 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
* * *
41626716 CTAGTAGGCT-AGTGCCGGTGATCGGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
41626756 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTCTAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
41626797 CTAGCAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
41626837 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
41626859 ATATGTTAAA
Statistics
Matches: 279, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
40 149 0.53
41 130 0.47
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
Found at i:41626938 original size:568 final size:568
Alignment explanation
Indices: 41625862--41627007 Score: 2202
Period size: 568 Copynumber: 2.0 Consensus size: 568
41625852 AAAGATTTTT
*
41625862 GTGAAAGACCAATTTCATATCTGTGGTATTCAGGCTCGATGCCTAGCAGCTGTAATGCCGGAAAA
1 GTGAAAGACCAATTTCATATCTGTGGTATTCAGGCTCGATGCCTAGCAGATGTAATGCCGGAAAA
41625927 TTATTTCAGACTTTATGTCGAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCA
66 TTATTTCAGACTTTATGTCGAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCA
41625992 GGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCGGTGATCTGAACCA
131 GGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCGGTGATCTGAACCA
*
41626057 GGTTATAAACCTAGCAGGCTAGTGCCGGTGATCTGAATTAGGTTATAAACCTAGCAGGCTAAGTG
196 GGTTATAAACCTAGCAGCCTAGTGCCGGTGATCTGAATTAGGTTATAAACCTAGCAGGCTAAGTG
41626122 CCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCAGAATCAGGTTATAAA
261 CCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCAGAATCAGGTTATAAA
41626187 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATC
326 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATC
41626252 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGAATATGTTAAATTAAGTGATTATATGC
391 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGAATATGTTAAATTAAGTGATTATATGC
41626317 ATTTGATATATATAAATATATAAATGATTTTGGGTTATATATAATGGATAAGTATATGAATATTC
456 ATTTGATATATATAAATATATAAATGATTTTGGGTTATATATAATGGATAAGTATATGAATATTC
41626382 ATTTATATGTGTTCGATGAGCATATTAATGTTTGGATGTATGTGTTTA
521 ATTTATATGTGTTCGATGAGCATATTAATGTTTGGATGTATGTGTTTA
*
41626430 GTGAAAGACCAATTTCATATCTGTGGTATTCAGGGTCGATGCCTAGCAGATGTAATGCCGGAAAA
1 GTGAAAGACCAATTTCATATCTGTGGTATTCAGGCTCGATGCCTAGCAGATGTAATGCCGGAAAA
* *
41626495 TTATTTCAGACTTTATGTCTAGGAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCA
66 TTATTTCAGACTTTATGTCGAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCA
41626560 GGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCGGTGATCTGAACCA
131 GGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCGGTGATCTGAACCA
*
41626625 GGTTATAAACCTAGCAGCCTAGTGTCGGTGATCTGAATTAGGTTATAAACCTAGCAGGCTAAGTG
196 GGTTATAAACCTAGCAGCCTAGTGCCGGTGATCTGAATTAGGTTATAAACCTAGCAGGCTAAGTG
*
41626690 CCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCGGAATCAGGTTATAAA
261 CCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCAGAATCAGGTTATAAA
*
41626755 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTCTAAACCTAGCAGGCTAGTGCCGGTGATC
326 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATC
41626820 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGAATATGTTAAATTAAGTGATTATATGC
391 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGAATATGTTAAATTAAGTGATTATATGC
*
41626885 ATTTGATATATATAAATATATAAATGATTTTGGGTTATATATAGTGGATAAGTATATGAATATTC
456 ATTTGATATATATAAATATATAAATGATTTTGGGTTATATATAATGGATAAGTATATGAATATTC
41626950 ATTTATATGTGTTCGATGAGCATATTAATGTTTGGATGTATGTGTTTA
521 ATTTATATGTGTTCGATGAGCATATTAATGTTTGGATGTATGTGTTTA
41626998 GTGAATAGAC
1 GTGAA-AGAC
41627008 ACAAATATTG
Statistics
Matches: 568, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
568 564 0.99
569 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (568 bp):
GTGAAAGACCAATTTCATATCTGTGGTATTCAGGCTCGATGCCTAGCAGATGTAATGCCGGAAAA
TTATTTCAGACTTTATGTCGAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCA
GGCTAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCGGTGATCTGAACCA
GGTTATAAACCTAGCAGCCTAGTGCCGGTGATCTGAATTAGGTTATAAACCTAGCAGGCTAAGTG
CCGGTGATCTGAACCAGGTTATAAACCTAGTAGGCTAGTGCCGGTGATCAGAATCAGGTTATAAA
CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAACCTAGCAGGCTAGTGCCGGTGATC
TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGAATATGTTAAATTAAGTGATTATATGC
ATTTGATATATATAAATATATAAATGATTTTGGGTTATATATAATGGATAAGTATATGAATATTC
ATTTATATGTGTTCGATGAGCATATTAATGTTTGGATGTATGTGTTTA
Found at i:41628536 original size:12 final size:12
Alignment explanation
Indices: 41628519--41628545 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
41628509 CTCTTTCGCA
41628519 TTAAAAGGCCTC
1 TTAAAAGGCCTC
41628531 TTAAAAGGCCTC
1 TTAAAAGGCCTC
41628543 TTA
1 TTA
41628546 CTTATTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (12 bp):
TTAAAAGGCCTC
Found at i:41632579 original size:20 final size:20
Alignment explanation
Indices: 41632554--41632601 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
41632544 TTTGATGAAT
*
41632554 TTAATTTTACTTAATCAAAA
1 TTAATTTTACCTAATCAAAA
* *
41632574 TTAATTTTTCCTGATCAAAA
1 TTAATTTTACCTAATCAAAA
41632594 TTAATTTT
1 TTAATTTT
41632602 TCAAGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAATTTTACCTAATCAAAA
Found at i:41635837 original size:40 final size:40
Alignment explanation
Indices: 41635793--41635904 Score: 215
Period size: 40 Copynumber: 2.8 Consensus size: 40
41635783 ATAACCACAA
*
41635793 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
41635833 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
41635873 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
41635905 CATTCAAATG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:41639142 original size:21 final size:21
Alignment explanation
Indices: 41639118--41639161 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
41639108 CTATTAGTAG
*
41639118 AATTA-GGAGTTCTACCGATAC
1 AATTATGG-GTTCTACAGATAC
41639139 AATTATGGGTTCTACAGATAC
1 AATTATGGGTTCTACAGATAC
41639160 AA
1 AA
41639162 CTCGAACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (21 bp):
AATTATGGGTTCTACAGATAC
Found at i:41641515 original size:27 final size:26
Alignment explanation
Indices: 41641485--41641600 Score: 169
Period size: 27 Copynumber: 4.3 Consensus size: 26
41641475 GGGTATAACA
41641485 GTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
* *
41641512 GTCATTCTACCCTATAGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
*
41641538 ATCATTTTACCCTATTGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCG
*
41641565 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATG-GGGTATTTCG
41641592 GTCATTTTA
1 GTCATTTTA
41641601 TCTATTTTGG
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 21 0.26
27 59 0.74
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:41641606 original size:53 final size:54
Alignment explanation
Indices: 41641485--41641600 Score: 182
Period size: 53 Copynumber: 2.2 Consensus size: 54
41641475 GGGTATAACA
41641485 GTCATTTTACCCTA-TGGGGTTATTTCGGTCATTCTACCCTATAGGGTATTTCG
1 GTCATTTTACCCTATTGGGGTTATTTCGGTCATTCTACCCTATAGGGTATTTCG
* * *
41641538 ATCATTTTACCCTATTGGGG-TATTTCGGTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATTGGGGTTATTTCGGTCATTCTACCCTAT-AGGGTATTTCG
41641592 GTCATTTTA
1 GTCATTTTA
41641601 TCTATTTTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 34 0.60
54 23 0.40
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (54 bp):
GTCATTTTACCCTATTGGGGTTATTTCGGTCATTCTACCCTATAGGGTATTTCG
Found at i:41647294 original size:9 final size:9
Alignment explanation
Indices: 41647280--41647305 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
41647270 AGTTGATCCG
41647280 AATAACTCA
1 AATAACTCA
41647289 AATAACTCA
1 AATAACTCA
41647298 AATAACTC
1 AATAACTC
41647306 GAACTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAACTCA
Found at i:41650546 original size:2 final size:2
Alignment explanation
Indices: 41650541--41650586 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
41650531 AATTGAACGA
* * *
41650541 AG AG AG AG AG AG AG AG AG GG AG GG AG GG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
41650583 AG AG
1 AG AG
41650587 GGAAGGAGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41650576 original size:24 final size:24
Alignment explanation
Indices: 41650544--41650595 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
41650534 TGAACGAAGA
* *
41650544 GAGAGAGAGAGAGAGGGAGGGAGG
1 GAGAGAGAGAGAGAGAGAGGGAAG
41650568 GAGAGAGAGAGAGAGAGAGGGAAG
1 GAGAGAGAGAGAGAGAGAGGGAAG
41650592 GAGA
1 GAGA
41650596 CATGAAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (24 bp):
GAGAGAGAGAGAGAGAGAGGGAAG
Found at i:41650581 original size:28 final size:28
Alignment explanation
Indices: 41650541--41650594 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
41650531 AATTGAACGA
*
41650541 AGAGAGAGAGAGAGAGAGGGAGGGAGGG
1 AGAGAGAGAGAGAGAGAGGGAAGGAGGG
41650569 AGAGAGAGAGAGAGAGAGGGAAGGAG
1 AGAGAGAGAGAGAGAGAGGGAAGGAG
41650595 ACATGAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (28 bp):
AGAGAGAGAGAGAGAGAGGGAAGGAGGG
Found at i:41655550 original size:21 final size:21
Alignment explanation
Indices: 41655486--41655551 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
41655476 CACTTGAAAG
* *
41655486 AAAATTCACAAAAAATAACTAA
1 AAAATTGAAAAAAAATAA-TAA
* *
41655508 ATTAAAATG-AAAAATATAAATAA
1 A--AAATTGAAAAAAAAT-AATAA
41655531 AAAATTGAAAAAAAATAATAA
1 AAAATTGAAAAAAAATAATAA
41655552 GCTTCACAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
21 10 0.29
22 8 0.24
23 10 0.29
24 6 0.18
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (21 bp):
AAAATTGAAAAAAAATAATAA
Found at i:41661629 original size:24 final size:24
Alignment explanation
Indices: 41661602--41661648 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
41661592 CAACTTGTAT
* *
41661602 CGTTGTGGTCAAACCACTTAATAG
1 CGTTGTGGACAAACCACTCAATAG
*
41661626 CGTTGTGGACAAGCCACTCAATA
1 CGTTGTGGACAAACCACTCAATA
41661649 TTGCAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
CGTTGTGGACAAACCACTCAATAG
Found at i:41671366 original size:37 final size:37
Alignment explanation
Indices: 41671316--41671394 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
41671306 TTATTACGAA
* * *
41671316 GTCTTACCCGGACATAATCTCCACACGAAGTTATAGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
* *
41671353 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
41671390 GTCTT
1 GTCTT
41671395 TAGAGCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
Found at i:41671590 original size:47 final size:47
Alignment explanation
Indices: 41671512--41671948 Score: 640
Period size: 47 Copynumber: 9.2 Consensus size: 47
41671502 CCCTTCGGGA
* * * * * **
41671512 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
41671559 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
41671606 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
41671653 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
41671702 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
41671749 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
41671798 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
41671845 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
41671893 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
41671940 CTTATCACA
1 CTTATCACA
41671949 ATTTAGAATT
Statistics
Matches: 354, Mismatches: 31, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
47 223 0.63
48 44 0.12
49 87 0.25
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:41671707 original size:96 final size:95
Alignment explanation
Indices: 41671512--41671950 Score: 648
Period size: 96 Copynumber: 4.6 Consensus size: 95
41671502 CCCTTCGGGA
** * * * * * * *
41671512 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
41671576 CTTTCACATTCATCACATCGGCCATTAAGC
66 CTTTCACATTCATCACATCGGCCATTAAGC
* *
41671606 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
* *
41671671 ACTTTCACATTCATCACATCGGCTATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
41671702 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
41671767 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAAGC
* * *
41671798 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCCTATTCAC-ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACAATATATAC
41671862 ACTTTCACATTCATCACATCGGCCATTAAGC
65 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
41671893 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAT
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAT
41671951 TTAGAATTCA
Statistics
Matches: 316, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
94 48 0.15
95 88 0.28
96 176 0.56
97 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAAGC
Found at i:41671728 original size:143 final size:143
Alignment explanation
Indices: 41671512--41671948 Score: 684
Period size: 143 Copynumber: 3.1 Consensus size: 143
41671502 CCCTTCGGGA
* * * * * *
41671512 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
**
41671575 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
*
41671640 TCGGCCATTAAGC
131 TCGGCCATTAGGC
* * * *
41671653 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
41671718 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCA
41671783 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
*
41671798 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGCCCTATTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA-TCACATATATA
*
41671861 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACAATTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCAC
41671926 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
41671940 CTTATCACA
1 CTTATCACA
41671949 ATTTAGAATT
Statistics
Matches: 271, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
141 10 0.04
142 47 0.17
143 121 0.45
144 49 0.18
145 44 0.16
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:41686741 original size:67 final size:68
Alignment explanation
Indices: 41686626--41686815 Score: 179
Period size: 68 Copynumber: 2.8 Consensus size: 68
41686616 TAACAATTTT
* * * * * *
41686626 TTCACTACTTTCATT-AAAAGATTAGTTTTAATCCATATTGATTAAAGAATACT-TCATAGCTCA
1 TTCACTACTTTCATTAAAAAG-TTAATTTCAATCCACATTGACTAAAGAATACTCACATAACTCA
41686689 CTTC
65 CTTC
** * *
41686693 TTCGTTACTTTCATTAAAAAGTTAATTTCAATTCCACATTGGCT-AAGAATACTCACATAACTTA
1 TTCACTACTTTCATTAAAAAGTTAATTTCAA-TCCACATTGACTAAAGAATACTCACATAACTCA
41686757 CTTC
65 CTTC
* * * * * * *
41686761 TTCACCATTTTAATTAAAAAGTTAATTTTAATCTCATATTAACTAGAGAATACTC
1 TTCACTACTTTCATTAAAAAGTTAATTTCAATC-CACATTGACTAAAGAATACTC
41686816 TTAATTCCAC
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
67 32 0.33
68 57 0.58
69 9 0.09
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (68 bp):
TTCACTACTTTCATTAAAAAGTTAATTTCAATCCACATTGACTAAAGAATACTCACATAACTCAC
TTC
Found at i:41699109 original size:101 final size:101
Alignment explanation
Indices: 41698933--41699117 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
41698923 ACCTAGTTCA
* * *
41698933 CATAGTAGCCTGGACATAGTACTACAAATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACAAATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
41698998 CATAGTACTACACAAGTGATCGAAGCTATTTGGTATG
65 CATAGTACTACACAAGTGATCGAAGCTATTTGGTATG
* * * * *
41699035 CATAGTAGCCTGCACATAGTACTATACATGCGACC-TATCATTCTGGTACACGTAGTAGCCTGCG
1 CATAGTAGCCTGCACATAGTACTACAAATGCGACCATATCA-TCCGATACACGTAGTAGCCTGCA
*
41699099 CATAGTACTACACACGTGA
65 CATAGTACTACACAAGTGA
41699118 CCTAGCAACT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.52
102 31 0.42
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACAAATGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACAAGTGATCGAAGCTATTTGGTATG
Found at i:41702477 original size:46 final size:46
Alignment explanation
Indices: 41702424--41702562 Score: 244
Period size: 46 Copynumber: 3.0 Consensus size: 46
41702414 ACATTGCTAT
41702424 AACTCAGTATGGTTTTCTTCAC-GAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTG-AAATACCATACCTACTTTTCAC
*
41702470 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
41702516 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
41702562 A
1 A
41702563 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 88 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:41703347 original size:16 final size:17
Alignment explanation
Indices: 41703301--41703345 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
41703291 AAATTCTTTT
*
41703301 TAAATCACAAAATTCAA
1 TAAATCAAAAAATTCAA
*
41703318 TAAATCAAAAAATTCAC
1 TAAATCAAAAAATTCAA
*
41703335 TAATTCAAAAA
1 TAAATCAAAAA
41703346 TTATTCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATCAAAAAATTCAA
Found at i:41714871 original size:19 final size:18
Alignment explanation
Indices: 41714829--41714872 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
41714819 AGTAACCTTC
*
41714829 TCCTAAATCAAATAGGGT
1 TCCTAAGTCAAATAGGGT
*
41714847 TCCTAAGTCAAGTAGGGT
1 TCCTAAGTCAAATAGGGT
41714865 ATCCTAAG
1 -TCCTAAG
41714873 ATTTCTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (18 bp):
TCCTAAGTCAAATAGGGT
Found at i:41721576 original size:15 final size:15
Alignment explanation
Indices: 41721552--41721583 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41721542 TATGCATGCA
*
41721552 AAATATAAAAGACAT
1 AAATACAAAAGACAT
41721567 AAATACAAAAGACAT
1 AAATACAAAAGACAT
41721582 AA
1 AA
41721584 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:41723769 original size:39 final size:39
Alignment explanation
Indices: 41723707--41723867 Score: 146
Period size: 42 Copynumber: 4.0 Consensus size: 39
41723697 TTATTAATGG
* ** * *
41723707 CACTTAGTGTGCA-ATTTGGAATAGCTTTGGCATATATGG
1 CACTTAGTGTGCAGAATTATAATAGCTTCGGC-TATATGA
* * *
41723746 CACTTAGTGTGCAGAA-TATAATAGTTTTGGCTATGTTAGA
1 CACTTAGTGTGCAGAATTATAATAGCTTCGGCTAT-AT-GA
* *
41723786 CACTTAAATGTGCATAATTATAATAGCTTCGGCTAATGTATGA
1 CACTT-AGTGTGCAGAATTATAATAGCTTCGGCT-A--TATGA
*
41723829 CACTTAGTGTGCGGAATTATAATAGCTTCGGCTATATGA
1 CACTTAGTGTGCAGAATTATAATAGCTTCGGCTATATGA
41723868 TTGGACAATC
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 31 0.31
40 7 0.07
41 10 0.10
42 39 0.39
43 8 0.08
44 1 0.01
45 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (39 bp):
CACTTAGTGTGCAGAATTATAATAGCTTCGGCTATATGA
Found at i:41723809 original size:42 final size:41
Alignment explanation
Indices: 41723726--41723863 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 41
41723716 TGCAATTTGG
* * * *
41723726 AATAGCTTTGGC-ATATATGGCACTTAGTGTGCAGAA-TAT
1 AATAGCTTCGGCTATGTATGACACTTAATGTGCAGAATTAT
* * *
41723765 AATAGTTTTGGCTATGT-TAGACACTTAAATGTGCATAATTAT
1 AATAGCTTCGGCTATGTAT-GACACTT-AATGTGCAGAATTAT
* *
41723807 AATAGCTTCGGCTAATGTATGACACTTAGTGTGCGGAATTAT
1 AATAGCTTCGGCT-ATGTATGACACTTAATGTGCAGAATTAT
41723849 AATAGCTTCGGCTAT
1 AATAGCTTCGGCTAT
41723864 ATGATTGGAC
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
39 12 0.14
40 9 0.11
41 11 0.13
42 39 0.47
43 11 0.13
44 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (41 bp):
AATAGCTTCGGCTATGTATGACACTTAATGTGCAGAATTAT
Found at i:41743612 original size:19 final size:18
Alignment explanation
Indices: 41743570--41743613 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
41743560 AGTAACCTTC
*
41743570 TCCTAAATCAAATAGGGT
1 TCCTAAGTCAAATAGGGT
*
41743588 TCCTAAGTCAAGTAGGGT
1 TCCTAAGTCAAATAGGGT
41743606 ATCCTAAG
1 -TCCTAAG
41743614 ATTTCTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (18 bp):
TCCTAAGTCAAATAGGGT
Found at i:41750353 original size:15 final size:15
Alignment explanation
Indices: 41750329--41750360 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41750319 TATGCATGCA
*
41750329 AAATATAAAAGACAT
1 AAATACAAAAGACAT
41750344 AAATACAAAAGACAT
1 AAATACAAAAGACAT
41750359 AA
1 AA
41750361 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:41752486 original size:40 final size:40
Alignment explanation
Indices: 41752442--41752522 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
41752432 CTTAATATGA
*
41752442 AATTT-GAGATAGCTTCAGTTAT-TAATGGCACTTAGTGTGC
1 AATTTGGA-ATAGCTTCAGCTATAT-ATGGCACTTAGTGTGC
**
41752482 AATTTGGAATAGCTTTGGCTATATATGGCACTTAGTGTGC
1 AATTTGGAATAGCTTCAGCTATATATGGCACTTAGTGTGC
41752522 A
1 A
41752523 GAATTATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 33 0.92
41 3 0.08
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.37
Consensus pattern (40 bp):
AATTTGGAATAGCTTCAGCTATATATGGCACTTAGTGTGC
Found at i:41752555 original size:41 final size:41
Alignment explanation
Indices: 41752470--41752626 Score: 192
Period size: 41 Copynumber: 3.9 Consensus size: 41
41752460 TTATTAATGG
* ** * * *
41752470 CACTTAGTGTGCA-ATTTGGAATAGCTTTGGCTATATATGG
1 CACTTAGTGTGCAGAATTATAATAGCTTCGGCTATGTATGA
* *
41752510 CACTTAGTGTGCAGAATTATAATAGTTTTGGCTATGT-TAGA
1 CACTTAGTGTGCAGAATTATAATAGCTTCGGCTATGTAT-GA
* *
41752551 CACTTAATGTGCATAATTATAATAGCTTCGGCTATGTATGA
1 CACTTAGTGTGCAGAATTATAATAGCTTCGGCTATGTATGA
*
41752592 CACTTAGTGTGCGGAATTATAATAGCTTCGGCTAT
1 CACTTAGTGTGCAGAATTATAATAGCTTCGGCTAT
41752627 ATGATTGACA
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
40 14 0.14
41 86 0.85
42 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (41 bp):
CACTTAGTGTGCAGAATTATAATAGCTTCGGCTATGTATGA
Found at i:41763147 original size:42 final size:42
Alignment explanation
Indices: 41763016--41763321 Score: 354
Period size: 42 Copynumber: 7.4 Consensus size: 42
41763006 TTTAAACAGA
* * *
41763016 TTCATCGGCACTT-AGCCT-CTAGACTTAAAGCCTGAT-TTAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATT-GT
* * * * * *
41763056 TACACCGGCACCTAA-CCTACTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
*
41763097 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
41763139 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* * *
41763181 TTCACCAGCATTAAGCTTGCTAGATGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* * * * *
41763223 TTCACTGGCAATAAGTCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
*
41763265 TTCACCGGCATTAAGCTTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* *
41763307 TTCACTGGCAATAAG
1 TTCACCGGCATTAAG
41763322 TTTGTTAGGT
Statistics
Matches: 226, Mismatches: 34, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
40 17 0.08
41 42 0.19
42 167 0.74
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:41763322 original size:84 final size:84
Alignment explanation
Indices: 41763075--41763345 Score: 400
Period size: 84 Copynumber: 3.2 Consensus size: 84
41763065 ACCTAACCTA
* * * *
41763075 CTAGACATATAGTCTGAAA-TGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGATATTGT
1 CTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTAAGCTTGCTAGACGTAAAGTCTGATATTGT
* * *
41763139 TTCACCGGCATTAAGCCTG
66 TTCACTGGCAATAAGTCTG
* * *
41763158 CTAGACGTAAAGTCTGATATTGTTTCACCAGCATTAAGCTTGCTAGATGTAAAGTCTGATATTGT
1 CTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTAAGCTTGCTAGACGTAAAGTCTGATATTGT
41763223 TTCACTGGCAATAAGTCTG
66 TTCACTGGCAATAAGTCTG
*
41763242 CTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCTTGCTAGACGTAAAGTCTGATATTGT
1 CTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTAAGCTTGCTAGACGTAAAGTCTGATATTGT
*
41763307 TTCACTGGCAATAAGTTTG
66 TTCACTGGCAATAAGTCTG
* **
41763326 TTAGGTGTAAAGTCTGAAAT
1 CTAGACGTAAAGTCTGAAAT
41763346 CTCAGTTTCA
Statistics
Matches: 169, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
83 16 0.09
84 153 0.91
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (84 bp):
CTAGACGTAAAGTCTGAAATTGTTTCACCGGCATTAAGCTTGCTAGACGTAAAGTCTGATATTGT
TTCACTGGCAATAAGTCTG
Found at i:41771315 original size:42 final size:42
Alignment explanation
Indices: 41771177--41771504 Score: 324
Period size: 42 Copynumber: 7.9 Consensus size: 42
41771167 TTTAAACAGA
* * * * *
41771177 TTCACTGGCACTT-AGCCTGCTAGTCTTAAAGCCTGAT-TCAG
1 TTCACTGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTAT
* * * * * * *
41771218 TACACCGGCACTT-AGCCTACTAGACATATAGTCTGA-AATGT
1 TTCACTGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTAT
* * *
41771259 TTCACCT-GAATTAAGTCTGCTAGATGTAAAGTCTGATATTAT
1 TTCA-CTGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTAT
* * *
41771301 TTCACTGGTATTAAGCCTGCTAGACGTAAAGTCTAAAATTAT
1 TTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTAT
* *
41771343 TTCACTGGCATTAAGCCTGCTAGACGTAAAATCTGATATTGT
1 TTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTAT
* * * *
41771385 TTCACTAGCAATAAGCCTGCTAGACGTAAAGTTTGAAATTAT
1 TTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTAT
* * *
41771427 TTCACTGGCTTTAAGCCTGCTAGACGTAAAGTCTAATATTGT
1 TTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTAT
* * *
41771469 TTCACTAGCAATAAGCCTGCTAGGCGTAAAGTCTGA
1 TTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGA
41771505 AATCTCAATT
Statistics
Matches: 233, Mismatches: 49, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
40 2 0.01
41 54 0.23
42 177 0.76
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (42 bp):
TTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTAT
Found at i:41771363 original size:84 final size:84
Alignment explanation
Indices: 41771231--41771507 Score: 378
Period size: 84 Copynumber: 3.3 Consensus size: 84
41771221 ACCGGCACTT
* * * * * * *
41771231 AGCCTACTAGACATATAGTCTGAAA-TGTTTCACCT-GAATTAAGTCTGCTAGATGTAAAGTCTG
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCA-CTGGCATTAAGCCTGCTAGACGTAAAGTCTG
* * * *
41771294 ATATTATTTCACTGGTATTA
65 ATATTGTTTCACTAGCAATA
* *
41771314 AGCCTGCTAGACGTAAAGTCTAAAATTATTTCACTGGCATTAAGCCTGCTAGACGTAAAATCTGA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGA
41771379 TATTGTTTCACTAGCAATA
66 TATTGTTTCACTAGCAATA
* * *
41771398 AGCCTGCTAGACGTAAAGTTTGAAATTATTTCACTGGCTTTAAGCCTGCTAGACGTAAAGTCTAA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGA
41771463 TATTGTTTCACTAGCAATA
66 TATTGTTTCACTAGCAATA
*
41771482 AGCCTGCTAGGCGTAAAGTCTGAAAT
1 AGCCTGCTAGACGTAAAGTCTGAAAT
41771508 CTCAATTTCA
Statistics
Matches: 172, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
83 23 0.13
84 149 0.87
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (84 bp):
AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGA
TATTGTTTCACTAGCAATA
Found at i:41771416 original size:126 final size:126
Alignment explanation
Indices: 41771270--41771504 Score: 364
Period size: 126 Copynumber: 1.9 Consensus size: 126
41771260 TCACCTGAAT
* * *
41771270 TAAGTCTGCTAGATGTAAAGTCTGATATTATTTCACTGG-TATTAAGCCTGCTAGACGTAAAGTC
1 TAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACTGGCT-TTAAGCCTGCTAGACGTAAAGTC
* *
41771334 TAAAATTATTTCACTGGCATTAAGCCTGCTAGACGTAAAATCTGATATTGTTTCACTAGCAA
65 TAAAATTATTTCACTAGCAATAAGCCTGCTAGACGTAAAATCTGATATTGTTTCACTAGCAA
*
41771396 TAAGCCTGCTAGACGTAAAGTTTGAAATTATTTCACTGGCTTTAAGCCTGCTAGACGTAAAGTCT
1 TAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACTGGCTTTAAGCCTGCTAGACGTAAAGTCT
* * * *
41771461 AATATTGTTTCACTAGCAATAAGCCTGCTAGGCGTAAAGTCTGA
66 AAAATTATTTCACTAGCAATAAGCCTGCTAGACGTAAAATCTGA
41771505 AATCTCAATT
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 97 0.99
127 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (126 bp):
TAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACTGGCTTTAAGCCTGCTAGACGTAAAGTCT
AAAATTATTTCACTAGCAATAAGCCTGCTAGACGTAAAATCTGATATTGTTTCACTAGCAA
Found at i:41789919 original size:49 final size:49
Alignment explanation
Indices: 41789849--41789953 Score: 174
Period size: 49 Copynumber: 2.1 Consensus size: 49
41789839 TTTCTGAATC
*
41789849 TTCTTTTCTCTCGCATAGAAATTCCACTTTCTGGATTCACTATCCTTTT
1 TTCTTTTCTCTCGCATAGAAATTCCACTTTCCGGATTCACTATCCTTTT
* * *
41789898 TTCTTTTCTCTCGCTTAGAAATTCCACTTTCCGGATTCATTATCTTTTT
1 TTCTTTTCTCTCGCATAGAAATTCCACTTTCCGGATTCACTATCCTTTT
41789947 TTCTTTT
1 TTCTTTT
41789954 TCTTCTCGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.16, C:0.25, G:0.08, T:0.51
Consensus pattern (49 bp):
TTCTTTTCTCTCGCATAGAAATTCCACTTTCCGGATTCACTATCCTTTT
Found at i:41791437 original size:21 final size:23
Alignment explanation
Indices: 41791392--41791438 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
41791382 TCACCTGCAA
* *
41791392 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
41791415 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
41791436 TAA
1 TAA
41791439 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:41793409 original size:50 final size:50
Alignment explanation
Indices: 41793337--41793461 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
41793327 TATCCCATAT
** * * * *
41793337 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
** *
41793387 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
41793437 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
41793462 ACCTCAATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
Found at i:41797289 original size:32 final size:32
Alignment explanation
Indices: 41797228--41797305 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
41797218 TTTGAAGAGT
** *
41797228 CTTTGGTGTGAAC-ACATGGACTTGGATGGTC
1 CTTTGGTGTGAACAACATGGAAGTGAATGGTC
41797259 CTTTGGGTGTGAACAACA-GGAAGTGAATGGTC
1 CTTT-GGTGTGAACAACATGGAAGTGAATGGTC
* *
41797291 CATTAGTGTGAACAA
1 CTTTGGTGTGAACAA
41797306 AAGAAGCTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 14 0.35
32 23 0.57
33 3 0.08
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (32 bp):
CTTTGGTGTGAACAACATGGAAGTGAATGGTC
Found at i:41802090 original size:65 final size:65
Alignment explanation
Indices: 41801985--41802108 Score: 223
Period size: 65 Copynumber: 1.9 Consensus size: 65
41801975 GTTGATTGGC
*
41801985 TTCTATTTCTTATTTCATTGAGATTCGATAATTTTGTATGGAGGGTTGTGGCTAAATTAGCTTTA
1 TTCTATTTCTTATTTCATTGAGATTCGATAATTTTGTATGGAGAGTTGTGGCTAAATTAGCTTTA
41802050 TTCTATTTCTTATTTCATTGAGATTCGATAACTTTT-TATGGAGAGTTGTGGCTAAATTA
1 TTCTATTTCTTATTTCATTGAGATTCGATAA-TTTTGTATGGAGAGTTGTGGCTAAATTA
41802109 ATTATTGCTT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 53 0.93
66 4 0.07
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.48
Consensus pattern (65 bp):
TTCTATTTCTTATTTCATTGAGATTCGATAATTTTGTATGGAGAGTTGTGGCTAAATTAGCTTTA
Found at i:41805893 original size:26 final size:26
Alignment explanation
Indices: 41805864--41805916 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
41805854 AATCAATAAT
* *
41805864 TCGGTGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTCAGCAACCCC
*
41805890 TCGGGGAATCTGCACTCAGCAACCCC
1 TCGGGGAATCAGCACTCAGCAACCCC
41805916 T
1 T
41805917 TTTTGATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.36, G:0.21, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGCACTCAGCAACCCC
Found at i:41809644 original size:50 final size:50
Alignment explanation
Indices: 41809587--41809686 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
41809577 GATACATTTA
41809587 CATATATATTAATTCATTTACATTAAAAACAACATAATAAACATTTAATT
1 CATATATATTAATTCATTTACATTAAAAACAACATAATAAACATTTAATT
41809637 CATATATATTAATTCATTTACATTAAAAACAACATAATAAACATTTAATT
1 CATATATATTAATTCATTTACATTAAAAACAACATAATAAACATTTAATT
41809687 TAACTAACAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (50 bp):
CATATATATTAATTCATTTACATTAAAAACAACATAATAAACATTTAATT
Found at i:41818557 original size:26 final size:26
Alignment explanation
Indices: 41818535--41818586 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
41818525 CTACCTTGTG
*
41818535 AGCTAGGTCCGTAAACTCCCCTTGCT
1 AGCTAGGTCCGCAAACTCCCCTTGCT
** *
41818561 TTCTGGGTCCGCAAACTCCCCTTGCT
1 AGCTAGGTCCGCAAACTCCCCTTGCT
41818587 GTCCTATCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.15, C:0.37, G:0.19, T:0.29
Consensus pattern (26 bp):
AGCTAGGTCCGCAAACTCCCCTTGCT
Found at i:41821812 original size:71 final size:70
Alignment explanation
Indices: 41821632--41822255 Score: 495
Period size: 71 Copynumber: 8.8 Consensus size: 70
41821622 TTTATCAAAA
* * ** * * * * * **
41821632 TTAAGGCTCACAAGTTTAAGACTACAACTCCTCAAATAGTTAGCGAAAGTTAAAAACTCCCAGGT
1 TTAAGGCTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAGC-AGAGTTAAAAGCTCCCAACT
*
41821697 -GCA-T
65 ATCACT
* * * * *
41821701 ATTAAGGCTCGTAGGTTCAATACCGTAGCCCCCCAAATAGTTAGCATGAGTTAAAAGCTCCCAAA
1 -TTAAGGCTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAGCA-GAGTTAAAAGCTCCCAAC
*
41821766 TGTCACT
64 TATCACT
* * * *
41821773 TTAAGACTCATAGGTTTAAGACCGTAGCCCCCCAAATAGTAAGTGAGAGTTAAAAGCTCCCAACT
1 TTAAGGCTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAG-CAGAGTTAAAAGCTCCCAACT
41821838 ATCACT
65 ATCACT
* * * * * *
41821844 TTAAGGCTCGA-AGGTTTAAGACCGCAACCGCCCAAACAATTAGCAAGAGTTAAAAACTCCAAAC
1 TTAAGGCTC-ATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAGC-AGAGTTAAAAGCTCCCAAC
*
41821908 TGTCACT
64 TATCACT
* * * * * *
41821915 TTAATGCTCGTAGGTCTAAGACTGCAGCCCCCCAAATAGTTAGCCAGAGTTAAAAGCTCTCAATT
1 TTAAGGCTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAG-CAGAGTTAAAAGCTCCCAACT
41821980 ATCACT
65 ATCACT
* * * * * * *
41821986 TTAAGGCTCAAAAGTTTAAGACTGCAGCCCCCCAAATAATTAGTAAGAGTTAAAAACTCCTAACT
1 TTAAGGCTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAG-CAGAGTTAAAAGCTCCCAACT
41822051 ATCACT
65 ATCACT
*** * *
41822057 TTAAGGCTTGCAGGTTTAAAACCACA-CCCCCCAAATAGTTAAAG-AGAGTTAAAAGCTCCCAAC
1 TTAAGGCTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTT--AGCAGAGTTAAAAGCTCCCAAC
41822120 TATCACT
64 TATCACT
* * * * * * * * *
41822127 TTAAGGCTCGA-AAGTTTAAGACTGCAGCCCTCCAGACAGTTAGCAACAGTTAAAAACTCTCAAT
1 TTAAGGCTC-ATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAGC-AGAGTTAAAAGCTCCCAAC
* *
41822191 TTTCGCT
64 TATCACT
* * * * * * * *
41822198 TTAAAGCTTATAGGTTTAAGGCTGTAGCTCCCCAAACAATTAGCGAGAGTTAAAAGCT
1 TTAAGGCTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAGC-AGAGTTAAAAGCT
41822256 TTCAGTTGTT
Statistics
Matches: 442, Mismatches: 97, Indels: 29
0.78 0.17 0.05
Matches are distributed among these distances:
69 3 0.01
70 105 0.24
71 328 0.74
72 6 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (70 bp):
TTAAGGCTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTTAGCAGAGTTAAAAGCTCCCAACTA
TCACT
Found at i:41821898 original size:142 final size:142
Alignment explanation
Indices: 41821702--41822255 Score: 569
Period size: 142 Copynumber: 3.9 Consensus size: 142
41821692 CAGGTGCATA
* * * * * * * * *
41821702 TTAAGGCTCGTAGGTTCAATACCGTAGCCCCCCAAATAGTTAGCATGAGTTAAAAGCTCCCAAAT
1 TTAAGGCTCGAAAGTTTAAGACCGCAGCCCCCCAAACAATTAGCAAGAGTTAAAAACTCCCAAAT
* *
41821767 GTCACTTTAAGACTCATAGGTTTAAGACCGTAGCCCCCCAAATAGTAAGTGAGAGTTAAAAGCTC
66 GTCACTTTAAGACTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTAAGCGAGAGTTAAAAGCTC
41821832 CCAACTATCACT
131 CCAACTATCACT
* * *
41821844 TTAAGGCTCGAAGGTTTAAGACCGCAACCGCCCAAACAATTAGCAAGAGTTAAAAACT-CCAAAC
1 TTAAGGCTCGAAAGTTTAAGACCGCAGCCCCCCAAACAATTAGCAAGAGTTAAAAACTCCCAAA-
* * * * *
41821908 TGTCACTTTAATG-CTCGTAGGTCTAAGACTGCAGCCCCCCAAATAGTTAGCCAGAGTTAAAAGC
65 TGTCACTTTAA-GACTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTAAGCGAGAGTTAAAAGC
* *
41821972 TCTCAATTATCACT
129 TCCCAACTATCACT
* * * * * *
41821986 TTAAGGCTCAAAAGTTTAAGACTGCAGCCCCCCAAATAATTAGTAAGAGTTAAAAACTCCTAACT
1 TTAAGGCTCGAAAGTTTAAGACCGCAGCCCCCCAAACAATTAGCAAGAGTTAAAAACTCCCAAAT
* * *** * * *
41822051 ATCACTTTAAGGCTTGCAGGTTTAAAACCACA-CCCCCCAAATAGTTAA-AGAGAGTTAAAAGCT
66 GTCACTTTAAGACTCATAGGTTTAAGACCGCAGCCCCCCAAATAG-TAAGCGAGAGTTAAAAGCT
41822114 CCCAACTATCACT
130 CCCAACTATCACT
* * * * * * *
41822127 TTAAGGCTCGAAAGTTTAAGACTGCAGCCCTCCAGACAGTTAGCAACAGTTAAAAACTCTCAATT
1 TTAAGGCTCGAAAGTTTAAGACCGCAGCCCCCCAAACAATTAGCAAGAGTTAAAAACTCCCAAAT
* * * * * * * * * *
41822192 TTCGCTTTAA-AGCTTATAGGTTTAAGGCTGTAGCTCCCCAAACAATTAGCGAGAGTTAAAAGCT
66 GTCACTTTAAGA-CTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTAAGCGAGAGTTAAAAGCT
41822256 TTCAGTTGTT
Statistics
Matches: 339, Mismatches: 65, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
141 120 0.35
142 215 0.63
143 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (142 bp):
TTAAGGCTCGAAAGTTTAAGACCGCAGCCCCCCAAACAATTAGCAAGAGTTAAAAACTCCCAAAT
GTCACTTTAAGACTCATAGGTTTAAGACCGCAGCCCCCCAAATAGTAAGCGAGAGTTAAAAGCTC
CCAACTATCACT
Found at i:41822172 original size:283 final size:284
Alignment explanation
Indices: 41821727--41822255 Score: 697
Period size: 283 Copynumber: 1.9 Consensus size: 284
41821717 TCAATACCGT
* * * * *
41821727 AGCCCCCCAAATAGTTAGCATGAGTTAAAAGCTCCCAAATGTCACTTTAAGACTCATAGGTTTAA
1 AGCCCCCCAAATAATTAGCAAGAGTTAAAAACTCCCAAATATCACTTTAAGACTCACAGGTTTAA
* ** * *
41821792 GACCGTAGCCCCCCAAATAGTAAGTGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGCTCGAAG
66 AACCACAGCCCCCCAAATAGTAAGAGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGCTCGAAA
* *
41821857 GTTTAAGACCGCAACCGCCCAAACAATTAGCAAGAGTTAAAAACTC-CAAACTGTCACTTTAATG
131 GTTTAAGACCGCAACCGCCCAAACAATTAGCAACAGTTAAAAACTCTC-AACTGTCACTTTAAAG
* * *
41821921 CTCGTAGGTCTAAGACTGCAGCCCCCCAAATAGTTAGCCAGAGTTAAAAGCTCTCAATTATCACT
195 CTCATAGGTCTAAGACTGCAGCCCCCCAAACAATTAGCCAGAGTTAAAAGCTCTCAATTATCACT
41821986 TTAAGGCTCAAAAGTTTAAGACTGC
260 TTAAGGCTCAAAAGTTTAAGACTGC
* * * * **
41822011 AGCCCCCCAAATAATTAGTAAGAGTTAAAAACTCCTAACTATCACTTTAAGGCTTGCAGGTTTAA
1 AGCCCCCCAAATAATTAGCAAGAGTTAAAAACTCCCAAATATCACTTTAAGACTCACAGGTTTAA
41822076 AACCACA-CCCCCCAAATAGTTAA-AGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGCTCGAA
66 AACCACAGCCCCCCAAATAG-TAAGAGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGCTCGAA
* * * * * * *
41822139 AGTTTAAGACTGCAGCC-CTCCAGACAGTTAGCAACAGTTAAAAACTCTCAATTTTCGCTTTAAA
130 AGTTTAAGACCGCAACCGC-CCAAACAATTAGCAACAGTTAAAAACTCTCAACTGTCACTTTAAA
* * * * * *
41822203 GCTTATAGGTTTAAGGCTGTAGCTCCCCAAACAATTAGCGAGAGTTAAAAGCT
194 GCTCATAGGTCTAAGACTGCAGCCCCCCAAACAATTAGCCAGAGTTAAAAGCT
41822256 TTCAGTTGTT
Statistics
Matches: 208, Mismatches: 34, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
282 1 0.00
283 145 0.70
284 62 0.30
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (284 bp):
AGCCCCCCAAATAATTAGCAAGAGTTAAAAACTCCCAAATATCACTTTAAGACTCACAGGTTTAA
AACCACAGCCCCCCAAATAGTAAGAGAGAGTTAAAAGCTCCCAACTATCACTTTAAGGCTCGAAA
GTTTAAGACCGCAACCGCCCAAACAATTAGCAACAGTTAAAAACTCTCAACTGTCACTTTAAAGC
TCATAGGTCTAAGACTGCAGCCCCCCAAACAATTAGCCAGAGTTAAAAGCTCTCAATTATCACTT
TAAGGCTCAAAAGTTTAAGACTGC
Found at i:41824367 original size:211 final size:211
Alignment explanation
Indices: 41823996--41824419 Score: 769
Period size: 211 Copynumber: 2.0 Consensus size: 211
41823986 AATCCTAACA
* *
41823996 TTAATGGGAGTACTTAACAGATTAATTGGAACAACCTTTCTACCCACAAGGAGGCCACCATCAAT
1 TTAATGGGAGTAATTAACAGATTAATTGGAACAACCTTTCTACCCACAAGGAGGCCACCATCAAC
* *
41824061 GGACGAGGCTTTATCCCACAATAATTATAGAAATAGTTCACTGGCTTCTTTCGAAGACCGATCAG
66 GGACGAGACTTTATCCCACAATAATTATAGAAATAGTTCACTGGCTCCTTTCGAAGACCGATCAG
* *
41824126 AATTTGGACCAATTCGTTGTTTTTAAAATTGCCATAAATTCCATGTGGCCATGACCGACTCTCAA
131 AATTTAGACCAATTCGTTGTTTTCAAAATTGCCATAAATTCCATGTGGCCATGACCGACTCTCAA
41824191 CAACTGCCCCTAAGGC
196 CAACTGCCCCTAAGGC
41824207 TTAATGGGAGTAATTAACAGATTAATTGGAACAACCTTTCTACCCACAAGGAGGCCACCATCAAC
1 TTAATGGGAGTAATTAACAGATTAATTGGAACAACCTTTCTACCCACAAGGAGGCCACCATCAAC
41824272 GGACGAGACTTTATCCCACAATAATTATAGAAATAGTTCA-TAGGCTCCTTTCGAAGACCGATCA
66 GGACGAGACTTTATCCCACAATAATTATAGAAATAGTTCACT-GGCTCCTTTCGAAGACCGATCA
*
41824336 GAATTTAGACCAATTCGTTGTTTTCAAAATTGCCATAAATTCCATGTGGCCATGACTGACTCTCA
130 GAATTTAGACCAATTCGTTGTTTTCAAAATTGCCATAAATTCCATGTGGCCATGACCGACTCTCA
41824401 ACAACTGCCCCTAAGGC
195 ACAACTGCCCCTAAGGC
41824418 TT
1 TT
41824420 TAGCGACCTT
Statistics
Matches: 205, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
210 1 0.00
211 204 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (211 bp):
TTAATGGGAGTAATTAACAGATTAATTGGAACAACCTTTCTACCCACAAGGAGGCCACCATCAAC
GGACGAGACTTTATCCCACAATAATTATAGAAATAGTTCACTGGCTCCTTTCGAAGACCGATCAG
AATTTAGACCAATTCGTTGTTTTCAAAATTGCCATAAATTCCATGTGGCCATGACCGACTCTCAA
CAACTGCCCCTAAGGC
Found at i:41826783 original size:17 final size:18
Alignment explanation
Indices: 41826763--41826800 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
41826753 TGATATATGG
*
41826763 ATTTT-TTATATTTTAAA
1 ATTTTCTTATATTTAAAA
41826780 ATTTTCTTATATTTAAAA
1 ATTTTCTTATATTTAAAA
41826798 ATT
1 ATT
41826801 GTGATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTCTTATATTTAAAA
Found at i:41826813 original size:19 final size:21
Alignment explanation
Indices: 41826789--41826829 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
41826779 AATTTTCTTA
41826789 TATTTAAAA-ATTGTGA-TTT
1 TATTTAAAATATTGTGACTTT
41826808 TATTTAAAATATTGTGACTTT
1 TATTTAAAATATTGTGACTTT
41826829 T
1 T
41826830 CAAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (21 bp):
TATTTAAAATATTGTGACTTT
Found at i:41832722 original size:12 final size:12
Alignment explanation
Indices: 41832707--41832745 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
41832697 AAAGAGAAGA
41832707 AAAATCAAAATC
1 AAAATCAAAATC
*
41832719 AAAATCAAAGTC
1 AAAATCAAAATC
*
41832731 AAAATGAAAAT-
1 AAAATCAAAATC
41832742 AAAA
1 AAAA
41832746 AAGGAGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.15
Consensus pattern (12 bp):
AAAATCAAAATC
Found at i:41832779 original size:8 final size:8
Alignment explanation
Indices: 41832742--41832781 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
41832732 AAATGAAAAT
41832742 AAAAAAGG
1 AAAAAAGG
* *
41832750 AGAGAAGG
1 AAAAAAGG
41832758 AAAAAA-G
1 AAAAAAGG
41832765 AAAAAAGG
1 AAAAAAGG
41832773 AAAAAAGG
1 AAAAAAGG
41832781 A
1 A
41832782 GAAGCCAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:41832780 original size:23 final size:23
Alignment explanation
Indices: 41832737--41832781 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
41832727 AGTCAAAATG
* * *
41832737 AAAATAAAAAAGGAGAGAAGGAA
1 AAAAGAAAAAAGGAAAAAAGGAA
41832760 AAAAGAAAAAAGGAAAAAAGGA
1 AAAAGAAAAAAGGAAAAAAGGA
41832782 GAAGCCAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAAAGGAAAAAAGGAA
Found at i:41835331 original size:44 final size:44
Alignment explanation
Indices: 41835283--41835673 Score: 130
Period size: 44 Copynumber: 8.5 Consensus size: 44
41835273 CTAGTAATCC
*
41835283 TATCTCCCTGAAATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
* * * * * * *
41835327 TATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGATTACAGCCAGAAATCT
1 TATCTCCCTGAGATTACAGT-G-G-AG--CGGATTAAAATA-A---AG-GATCT
* * * *** * * *
41835381 TATCTCCCTGAGATTACAGAGGAGCAGA-TAGAAGCTAGTAACC
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
*
41835424 TATCTCCATGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
** * * * * * *
41835468 TATCTTTCTGAGGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCT
1 TATCTCCCTGAGATTACAGT-G-G-AG--CGGATTAAAAT-AA---AG-GATCT
* * ** * *
41835522 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-GATCT
* * **
41835566 TATCTCCTTGAGATTATAGTGGAGTAGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
* * ** *** *
41835610 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCAT-CAGG-TCT
1 TATCTCCCTGAGA-TTACAGTGGAGCGGATTAAAATAAAGGATCT
41835651 TATCTCCCTGAGATTACAGTGGA
1 TATCTCCCTGAGATTACAGTGGA
41835674 ACAGACCGAA
Statistics
Matches: 251, Mismatches: 70, Indels: 55
0.67 0.19 0.15
Matches are distributed among these distances:
41 22 0.09
42 4 0.02
43 34 0.14
44 100 0.40
45 4 0.02
46 2 0.01
47 4 0.02
48 3 0.01
49 20 0.08
50 5 0.02
51 4 0.02
52 2 0.01
53 6 0.02
54 41 0.16
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
Found at i:41835350 original size:142 final size:142
Alignment explanation
Indices: 41835094--41835646 Score: 914
Period size: 142 Copynumber: 3.9 Consensus size: 142
41835084 AGAAAACAAG
* *
41835094 TCTTATCTCCCTAAGATTACAGCAGAGCAGATGGAAGCTACTAATCCTATCTCCCTGAAATTACA
1 TCTTATCTCCCTGAGATTACAGCAGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAAATTACA
*
41835159 GTGGACCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
41835224 TGAAGCCAGAAA
131 TGAAGCCAGAAA
* *
41835236 TCTTATCTCCCTGATATTACAGCAGAGCAGGTGGAAGCTAGTAATCCTATCTCCCTGAAATTACA
1 TCTTATCTCCCTGAGATTACAGCAGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAAATTACA
41835301 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
41835366 T-ACAGCCAGAAA
131 TGA-AGCCAGAAA
* * *
41835378 TCTTATCTCCCTGAGATTACAG-AGGAGCAGATAGAAGCTAGTAA-CCTATCTCCATGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCA-GAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAAATTAC
*
41835441 AGTGGAGCGGATTAAAATAAAGGATCTTATCTTTCTGAGGTTACAGTAGAGTAGATCGCATCAGA
65 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGA
41835506 TTGAAGCCAGAAA
130 TTGAAGCCAGAAA
* * * * *
41835519 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTATA
1 TCTTATCTCCCTGAGATTACAGCAGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAAATTACA
** *
41835584 GTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAG
41835647 GTCTTATCTC
Statistics
Matches: 387, Mismatches: 19, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
141 135 0.35
142 252 0.65
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (142 bp):
TCTTATCTCCCTGAGATTACAGCAGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAAATTACA
GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
TGAAGCCAGAAA
Found at i:41835602 original size:283 final size:284
Alignment explanation
Indices: 41835094--41835646 Score: 930
Period size: 283 Copynumber: 2.0 Consensus size: 284
41835084 AGAAAACAAG
* *
41835094 TCTTATCTCCCTAAGATTACAGCAGAGCAGATGGAAGCTACTAATCCTATCTCCCTGAAATTACA
1 TCTTATCTCCCTAAGATTACAGCAGAGCAGATAGAAGCTACTAATCCTATCTCCATGAAATTACA
41835159 GTGGACCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
66 GTGGACCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
* *
41835224 TGAAGCCAGAAATCTTATCTCCCTGATATTACAGCAGAGCAGGTGGAAGCTAGTAATCCTATCTC
131 TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATGGAAGCTAGTAATCCTATCTC
* *
41835289 CCTGAAATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAG
196 CCTGAAATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
41835354 ATCGCATCAGATTACAGCCAGAAA
261 ATCGCATCAGATTACAGCCAGAAA
* * *
41835378 TCTTATCTCCCTGAGATTACAG-AGGAGCAGATAGAAGCTAGTAA-CCTATCTCCATGAGATTAC
1 TCTTATCTCCCTAAGATTACAGCA-GAGCAGATAGAAGCTACTAATCCTATCTCCATGAAATTAC
* *
41835441 AGTGGAGCGGATTAAAATAAAGGATCTTATCTTTCTGAGGTTACAGTAGAGTAGATCGCATCAGA
65 AGTGGACCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGA
* *
41835506 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
130 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATGGAAGCTAGTAATCCTATCT
* * * *
41835571 CCTTGAGATTATAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
195 CCCTGAAATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
41835636 GATCGCATCAG
260 GATCGCATCAG
41835647 GTCTTATCTC
Statistics
Matches: 251, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
283 212 0.84
284 39 0.16
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (284 bp):
TCTTATCTCCCTAAGATTACAGCAGAGCAGATAGAAGCTACTAATCCTATCTCCATGAAATTACA
GTGGACCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGAT
TGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATGGAAGCTAGTAATCCTATCTC
CCTGAAATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
ATCGCATCAGATTACAGCCAGAAA
Found at i:41835774 original size:50 final size:50
Alignment explanation
Indices: 41835709--41835958 Score: 232
Period size: 50 Copynumber: 5.0 Consensus size: 50
41835699 CCCCAGGCGA
* * * *
41835709 TGCAGTGGAACAGATTAAAGCTACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGCAAAAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * **
41835759 TGCAGTTCAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGTGA-
1 TGCAGTGCAAAAGATTAAAGCTACAACGGCGAATCTTGCTTCCC-CGACAT
* * * * * *
41835809 TACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGCAAAAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * **
41835859 TGTAGTTCAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGG
1 TGCAGTGCAAAAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACAT
* * *
41835909 TGCAGTGGAATAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
1 TGCAGTGCAAAAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACAT
41835959 CATAGTTAAG
Statistics
Matches: 149, Mismatches: 49, Indels: 4
0.74 0.24 0.02
Matches are distributed among these distances:
49 2 0.01
50 145 0.97
51 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTGCAAAAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACAT
Found at i:41835974 original size:100 final size:100
Alignment explanation
Indices: 41835690--41835958 Score: 432
Period size: 100 Copynumber: 2.7 Consensus size: 100
41835680 CGAAGAAGCA
*
41835690 AATCTTATCC-CCCAGGCGATGCAGTGGAACAGATTAAAGCTACATCGGTGAATCTTGCTTCCCC
1 AATCTTA-CCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
*
41835754 GACATTGCAGTTCAAAAGATTAAAGCTACAACAGCG
65 GACATTGTAGTTCAAAAGATTAAAGCTACAACAGCG
* *
41835790 AATCTTACCTCCCAGGTGATACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
41835855 ACATTGTAGTTCAAAAGATTAAAGCTACAACAGCG
66 ACATTGTAGTTCAAAAGATTAAAGCTACAACAGCG
* * * * * *
41835890 AATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
41835955 ACAT
66 ACAT
41835959 CATAGTTAAG
Statistics
Matches: 156, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
99 2 0.01
100 154 0.99
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (100 bp):
AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGTAGTTCAAAAGATTAAAGCTACAACAGCG
Found at i:41836987 original size:14 final size:11
Alignment explanation
Indices: 41836958--41836982 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41836948 CCGCTAGACG
41836958 CGGCGGTTCCA
1 CGGCGGTTCCA
41836969 CGGCGGTTCCA
1 CGGCGGTTCCA
41836980 CGG
1 CGG
41836983 TGGCGACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.36, G:0.40, T:0.16
Consensus pattern (11 bp):
CGGCGGTTCCA
Found at i:41839277 original size:2 final size:2
Alignment explanation
Indices: 41839270--41839295 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
41839260 TGAATTACCA
41839270 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
41839296 TATTTTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41839600 original size:18 final size:18
Alignment explanation
Indices: 41839574--41839609 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41839564 CTATAGGTCC
*
41839574 CAAACATGAACAGTAAAA
1 CAAACATGAAAAGTAAAA
*
41839592 CAAATATGAAAAGTAAAA
1 CAAACATGAAAAGTAAAA
41839610 AAAAAAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.11, G:0.11, T:0.14
Consensus pattern (18 bp):
CAAACATGAAAAGTAAAA
Found at i:41840048 original size:25 final size:25
Alignment explanation
Indices: 41840019--41840069 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
41840009 TACTTATAGA
41840019 TATTTTTTATTGTAATTAATTTTTT
1 TATTTTTTATTGTAATTAATTTTTT
41840044 TATTTTTTATTGTAATTAATTTTTT
1 TATTTTTTATTGTAATTAATTTTTT
41840069 T
1 T
41840070 TCTGCAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (25 bp):
TATTTTTTATTGTAATTAATTTTTT
Found at i:41844070 original size:16 final size:17
Alignment explanation
Indices: 41844034--41844070 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
41844024 AATTTTATTT
*
41844034 TAATAATAAATTTTAAA
1 TAATAATAAATGTTAAA
41844051 -AATAAT-AATGTTAAA
1 TAATAATAAATGTTAAA
41844066 TAATA
1 TAATA
41844071 TTCATCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATGTTAAA
Found at i:41844120 original size:25 final size:24
Alignment explanation
Indices: 41844061--41844120 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 24
41844051 AATAATAATG
41844061 TTAAATAATATTCATCATATATTA
1 TTAAATAATATTCATCATATATTA
*
41844085 TTGAAAAAATATTCAAT-ATTAATATT-
1 TT-AAATAATATTC-ATCA-T-ATATTA
41844111 TTAAATAATA
1 TTAAATAATA
41844121 AATATCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
24 2 0.07
25 18 0.60
26 5 0.17
27 5 0.17
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAAATAATATTCATCATATATTA
Found at i:41845036 original size:14 final size:15
Alignment explanation
Indices: 41845017--41845055 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
41845007 TTCATAAAAT
41845017 AAATTATTTTCT-AA
1 AAATTATTTTCTCAA
41845031 AAATTATTTT-TCAA
1 AAATTATTTTCTCAA
*
41845045 AAATAATTTTC
1 AAATTATTTTC
41845056 ACTGAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATTATTTTCTCAA
Found at i:41845544 original size:17 final size:17
Alignment explanation
Indices: 41845524--41845563 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
41845514 AATTTAGCCT
41845524 TTAATTTTATTT-TTTTG
1 TTAATTTT-TTTCTTTTG
*
41845541 TTAATTTTTTTCTTTTT
1 TTAATTTTTTTCTTTTG
41845558 TTAATT
1 TTAATT
41845564 AAATTTGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTAATTTTTTTCTTTTG
Found at i:41845744 original size:9 final size:9
Alignment explanation
Indices: 41845732--41845779 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
41845722 AATTTTATGA
41845732 AATTTTTAT
1 AATTTTTAT
*
41845741 AATTTGTTTT
1 AATTT-TTAT
41845751 AATTTTT-T
1 AATTTTTAT
41845759 AATTTTTAT
1 AATTTTTAT
*
41845768 GATTTTTA-
1 AATTTTTAT
41845776 AATT
1 AATT
41845780 ATTTGTTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 11 0.32
9 15 0.44
10 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (9 bp):
AATTTTTAT
Found at i:41845772 original size:27 final size:29
Alignment explanation
Indices: 41845718--41845772 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
41845708 ATATTAATTA
41845718 TTTTAATTTTATGAAATTTTTATAATTTG
1 TTTTAATTTTATGAAATTTTTATAATTTG
* *
41845747 TTTTAATTTT-T-TAATTTTTATGATTT
1 TTTTAATTTTATGAAATTTTTATAATTT
41845773 TTAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 1 0.04
29 10 0.42
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (29 bp):
TTTTAATTTTATGAAATTTTTATAATTTG
Found at i:41847952 original size:18 final size:18
Alignment explanation
Indices: 41847926--41847960 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41847916 CATCACAGAA
*
41847926 ACAATATCACAATTTCAC
1 ACAACATCACAATTTCAC
*
41847944 ACAACATCACAGTTTCA
1 ACAACATCACAATTTCA
41847961 TAAATTGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.03, T:0.26
Consensus pattern (18 bp):
ACAACATCACAATTTCAC
Found at i:41850351 original size:21 final size:21
Alignment explanation
Indices: 41850327--41850367 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
41850317 AAAATAAGTT
41850327 ATTGTTGCTGGTAAATTGTAA
1 ATTGTTGCTGGTAAATTGTAA
41850348 ATTGTTGCTGGTAAATTGTA
1 ATTGTTGCTGGTAAATTGTA
41850368 TAAATACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (21 bp):
ATTGTTGCTGGTAAATTGTAA
Found at i:41850634 original size:20 final size:20
Alignment explanation
Indices: 41850585--41850635 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
41850575 ATTTGCATTT
* *
41850585 CGGTGCCCTTGTATACACTT
1 CGGTGCCCCTGTATACACTA
*
41850605 CGGTGTCCCTGT-TCACACTA
1 CGGTGCCCCTGTAT-ACACTA
41850625 CGGTGCCCCTG
1 CGGTGCCCCTG
41850636 CTTGCACATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.12, C:0.35, G:0.24, T:0.29
Consensus pattern (20 bp):
CGGTGCCCCTGTATACACTA
Found at i:41855853 original size:8 final size:8
Alignment explanation
Indices: 41855842--41855879 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
41855832 GCCACCAAAC
41855842 CACCACCT
1 CACCACCT
41855850 CACCACCT
1 CACCACCT
41855858 CACCACCT
1 CACCACCT
*
41855866 CACTACCAT
1 CACCACC-T
41855875 CACCA
1 CACCA
41855880 TCGTCTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 22 0.81
9 5 0.19
ACGTcount: A:0.29, C:0.58, G:0.00, T:0.13
Consensus pattern (8 bp):
CACCACCT
Found at i:41858015 original size:25 final size:25
Alignment explanation
Indices: 41857978--41858026 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
41857968 GGAACATAAG
**
41857978 AATTAAATTTTAAAATAAAAAATCT
1 AATTAAAACTTAAAATAAAAAATCT
* *
41858003 AATTAAAACTTAAATTTAAAAATC
1 AATTAAAACTTAAAATAAAAAATC
41858027 AAAGATTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
AATTAAAACTTAAAATAAAAAATCT
Found at i:41858016 original size:32 final size:34
Alignment explanation
Indices: 41857980--41858057 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 34
41857970 AACATAAGAA
41857980 TTAAATTTTAAAATAAAAAATCTAA-TT-AAAAC
1 TTAAATTTTAAAATAAAAAATCTAATTTAAAAAC
* * * *
41858012 TTAAATTTAAAAATCAAAGATTTAATTTAAAAAC
1 TTAAATTTTAAAATAAAAAATCTAATTTAAAAAC
*
41858046 TGAAA-TTTAAAA
1 TTAAATTTTAAAA
41858058 GTAACCTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 21 0.55
33 8 0.21
34 9 0.24
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.35
Consensus pattern (34 bp):
TTAAATTTTAAAATAAAAAATCTAATTTAAAAAC
Found at i:41862640 original size:69 final size:69
Alignment explanation
Indices: 41862529--41862670 Score: 248
Period size: 69 Copynumber: 2.1 Consensus size: 69
41862519 ATTCGATGAG
* *
41862529 ACTTACGCAATTGATCGTCAAATTGCACACTTCTACAAATGGAATACGATTCCAGGATTTTTGAA
1 ACTTACGCAATTGATCGTCAAATTGCACACTTCTACAAATGGAATACGATTCAAAGATTTTTGAA
41862594 TGGC
66 TGGC
* *
41862598 ACTTATGCAATTGATCGTCAAATTGCATACTTCTACAAATGGAATACGATTCAAAGATTTTTGAA
1 ACTTACGCAATTGATCGTCAAATTGCACACTTCTACAAATGGAATACGATTCAAAGATTTTTGAA
41862663 TGGC
66 TGGC
41862667 ACTT
1 ACTT
41862671 TATGAAGGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (69 bp):
ACTTACGCAATTGATCGTCAAATTGCACACTTCTACAAATGGAATACGATTCAAAGATTTTTGAA
TGGC
Found at i:41869793 original size:24 final size:24
Alignment explanation
Indices: 41869738--41869798 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
41869728 GTACACAGTA
* *
41869738 CCTACTAAACACACCGGCATGAAG
1 CCTACTAAATACACCGGCATAAAG
* *
41869762 CCTGCTAAATACACCGGC-TCAAAT
1 CCTACTAAATACACCGGCAT-AAAG
41869786 CCTACTAAATACA
1 CCTACTAAATACA
41869799 GAGACTCGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.38, C:0.33, G:0.11, T:0.18
Consensus pattern (24 bp):
CCTACTAAATACACCGGCATAAAG
Done.