Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 136 of 332
Found at i:44413621 original size:46 final size:45
Alignment explanation
Indices: 44413479--44413621 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
44413469 CCCGCCCCTA
* * ** * *
44413479 AGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** * *
44413524 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAGA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC--T
44413571 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
44413617 AGTGA
1 AGTGA
44413622 CATGTCACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 78 0.94
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:44415512 original size:30 final size:30
Alignment explanation
Indices: 44415477--44415576 Score: 123
Period size: 29 Copynumber: 3.4 Consensus size: 30
44415467 AGCTATCCCC
44415477 TTCATATTTTGATGGTCGTCACCATCCCTT
1 TTCATATTTTGATGGTCGTCACCATCCCTT
* * *
44415507 GTCATA-GTTGATGGTCGTCACCATTCCTT
1 TTCATATTTTGATGGTCGTCACCATCCCTT
* * *
44415536 TTCAT-TATTGATGGTTGTCACTATCCCTT
1 TTCATATTTTGATGGTCGTCACCATCCCTT
*
44415565 TTCATAATTTGA
1 TTCATATTTTGA
44415577 CAGGCAAAGC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
29 49 0.84
30 9 0.16
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (30 bp):
TTCATATTTTGATGGTCGTCACCATCCCTT
Found at i:44415617 original size:30 final size:30
Alignment explanation
Indices: 44415583--44415696 Score: 138
Period size: 30 Copynumber: 3.8 Consensus size: 30
44415573 TTGACAGGCA
* * * *
44415583 AAGCTATCCCTTTTCGTAGTTCGATAGTTG
1 AAGCTATCCCTTTTCATTGATCGATAGTAG
* * *
44415613 AAGCTATCTCTTTTCATTGGTCGATACTAG
1 AAGCTATCCCTTTTCATTGATCGATAGTAG
*
44415643 AAGCTATCCCTTTTCATTGATCGATAGTCG
1 AAGCTATCCCTTTTCATTGATCGATAGTAG
* *
44415673 AAGCTATCCCTTTTTATTGGTCGA
1 AAGCTATCCCTTTTCATTGATCGA
44415697 CGATCATCAA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (30 bp):
AAGCTATCCCTTTTCATTGATCGATAGTAG
Found at i:44415647 original size:60 final size:60
Alignment explanation
Indices: 44415583--44415696 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
44415573 TTGACAGGCA
* * * *
44415583 AAGCTATCCCTTTTCGTAGTTCGATAGTTGAAGCTATCTCTTTTCATTGGTCGATACTAG
1 AAGCTATCCCTTTTCATAGATCGATAGTCGAAGCTATCCCTTTTCATTGGTCGATACTAG
* *
44415643 AAGCTATCCCTTTTCATTGATCGATAGTCGAAGCTATCCCTTTTTATTGGTCGA
1 AAGCTATCCCTTTTCATAGATCGATAGTCGAAGCTATCCCTTTTCATTGGTCGA
44415697 CGATCATCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (60 bp):
AAGCTATCCCTTTTCATAGATCGATAGTCGAAGCTATCCCTTTTCATTGGTCGATACTAG
Found at i:44430714 original size:57 final size:57
Alignment explanation
Indices: 44430642--44430757 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
44430632 AAATTTGAGT
*
44430642 AAAACTTGGTAACCCAATTTGGTACGTTTCAAAATGAAGAGTCCTAGTAATACCTCG
1 AAAACTTGGTAACCCAATTTGGTACGTTTCAAAATGAAAAGTCCTAGTAATACCTCG
* * *
44430699 AAAACTTGGTGACCCAATTTGGTACGTTTCAAAATGAAAAGTCCTGGTAATACTTCG
1 AAAACTTGGTAACCCAATTTGGTACGTTTCAAAATGAAAAGTCCTAGTAATACCTCG
44430756 AA
1 AA
44430758 CCCTATCCCG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (57 bp):
AAAACTTGGTAACCCAATTTGGTACGTTTCAAAATGAAAAGTCCTAGTAATACCTCG
Found at i:44446055 original size:39 final size:40
Alignment explanation
Indices: 44445956--44446168 Score: 287
Period size: 40 Copynumber: 5.5 Consensus size: 40
44445946 CGGATGATAA
* *
44445956 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44445995 -TGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44446032 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44446071 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44446111 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
44446151 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44446169 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
36 23 0.14
37 2 0.01
38 16 0.10
39 54 0.34
40 64 0.40
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44446149 original size:40 final size:40
Alignment explanation
Indices: 44445952--44446135 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
44445942 TATTCGGATG
* *
44445952 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
44445991 -TAATTGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44446028 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
44446067 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
44446107 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
44446136 AGCAAGTAGC
Statistics
Matches: 133, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
36 21 0.16
38 21 0.16
39 38 0.29
40 53 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:44446157 original size:79 final size:78
Alignment explanation
Indices: 44445952--44446168 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 78
44445942 TATTCGGATG
* **
44445952 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTGGGCTAAG-CCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATATCCGGCTAAGTCCGAAGGCAT
44446014 TTGTGCGAGTTACT
65 TTGTGCGAGTTACT
* * *
44446028 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCC-GGCTAAGT-CCGAAGGC
44446091 ATTTGTGCGAGTTACT
63 ATTTGTGCGAGTTACT
* *
44446107 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGCT-AAGTCCGAAGG
44446169 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
75 21 0.17
76 16 0.13
77 7 0.06
79 51 0.42
80 27 0.22
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGCTAAGTCCGAAGGCATT
TGTGCGAGTTACT
Found at i:44454145 original size:40 final size:40
Alignment explanation
Indices: 44454042--44454257 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
44454032 CGGATGATAA
* *
44454042 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
44454082 CCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44454120 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44454160 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44454200 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
44454240 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44454258 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 34 0.21
39 17 0.10
40 113 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44458358 original size:62 final size:62
Alignment explanation
Indices: 44458257--44458388 Score: 237
Period size: 62 Copynumber: 2.1 Consensus size: 62
44458247 TTTGTTCAAT
*
44458257 GGCATGTATAGTATTTTTTTTTGAGTATTTTGTTGTATGTGTCATTCCATTTGCCAAATGAA
1 GGCATGTATAGTATTTTTTTTTGAGTATTTTGTTATATGTGTCATTCCATTTGCCAAATGAA
* *
44458319 GGCATGTATAGTATTTTTTTTTGAGTATTTTGTTATATGTGTCATTCGATTTTCCAAATGAA
1 GGCATGTATAGTATTTTTTTTTGAGTATTTTGTTATATGTGTCATTCCATTTGCCAAATGAA
44458381 GGCATGTA
1 GGCATGTA
44458389 AAAATATTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.48
Consensus pattern (62 bp):
GGCATGTATAGTATTTTTTTTTGAGTATTTTGTTATATGTGTCATTCCATTTGCCAAATGAA
Found at i:44465890 original size:65 final size:65
Alignment explanation
Indices: 44465755--44465890 Score: 147
Period size: 65 Copynumber: 2.1 Consensus size: 65
44465745 CAGGGTAACC
* * *
44465755 ATACTGACTTTCACCCATGGCCAATAGGCACGACCGTGTGCTAAGGCCGTGTGATATTTAGCTAG
1 ATACTGACTTTCACCCACGGCCAATAGACACGACCGTGTGCTAAGGCCGTGTGATATTTAGATAG
* *
44465820 CTACTGACTTT-AGCCCACGGCC-ATATGACACGCCCGTGTG-TCAAGGCCGTGTGAT-TCTTA-
1 ATACTGACTTTCA-CCCACGGCCAATA-GACACGACCGTGTGCT-AAGGCCGTGTGATAT-TTAG
44465880 ATAG
62 ATAG
44465884 AATACTG
1 -ATACTG
44465891 TTTTTCTTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
64 9 0.15
65 51 0.85
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (65 bp):
ATACTGACTTTCACCCACGGCCAATAGACACGACCGTGTGCTAAGGCCGTGTGATATTTAGATAG
Found at i:44466472 original size:24 final size:24
Alignment explanation
Indices: 44466443--44466490 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
44466433 AACCTATGAG
*
44466443 TATTTGCACAATTTCAGTCCATAT
1 TATTTGCACAATTTCAATCCATAT
44466467 TATTTGCACAATTTCAATCCATAT
1 TATTTGCACAATTTCAATCCATAT
44466491 AACTATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (24 bp):
TATTTGCACAATTTCAATCCATAT
Found at i:44475561 original size:44 final size:44
Alignment explanation
Indices: 44475513--44475598 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
44475503 TTAAATAGAA
*
44475513 TAAAACTTAATTTTTTGTTCGTGGACAAGTAATAAGCTTAAAAC
1 TAAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAAC
44475557 TAAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAA
1 TAAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAA
44475599 GTGTGGCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (44 bp):
TAAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAAC
Found at i:44482597 original size:23 final size:21
Alignment explanation
Indices: 44482548--44482596 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
44482538 ATGTAGCACA
* **
44482548 GGTGTGTCCCATGGTCACACG
1 GGTGTGTCCCTTGACCACACG
44482569 GGTGTGTCCCTTGACCACACG
1 GGTGTGTCCCTTGACCACACG
*
44482590 GGCGTGT
1 GGTGTGT
44482597 GTGCCCTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.29, G:0.35, T:0.24
Consensus pattern (21 bp):
GGTGTGTCCCTTGACCACACG
Found at i:44488521 original size:29 final size:29
Alignment explanation
Indices: 44488489--44488568 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
44488479 GAAAGGTGAT
44488489 TTGGGCCTAATAGGCCATATGAATATGAA
1 TTGGGCCTAATAGGCCATATGAATATGAA
* * *
44488518 TTGGGCCTAATACGCCGTATGAATGTGAA
1 TTGGGCCTAATAGGCCATATGAATATGAA
*
44488547 TTGGGCCTGAT-GGCCCATATGA
1 TTGGGCCTAATAGG-CCATATGA
44488569 GTAAGATGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
28 1 0.02
29 43 0.98
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATAGGCCATATGAATATGAA
Found at i:44489665 original size:17 final size:18
Alignment explanation
Indices: 44489633--44489666 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44489623 TTTAAGAAGG
44489633 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
44489651 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
44489667 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:44498638 original size:25 final size:25
Alignment explanation
Indices: 44498586--44498643 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
44498576 ATAAAACCTA
*
44498586 AAAATGAAATAGTATTAAATGAAAAT
1 AAAAT-AAAAAGTATTAAATGAAAAT
*
44498612 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAAAT
44498637 -AAATAAA
1 AAAATAAA
44498644 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAAAT
Found at i:44505390 original size:56 final size:56
Alignment explanation
Indices: 44505318--44505428 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
44505308 TCTTACATGT
*
44505318 AATCACATATCAATGCC-ACTGTCCTAG-ACAG-GGTCTTACTCGTACACATATATCGG
1 AATCACATATCAATGCCAAC-GT-ATAGAAC-GTGGTCTTACTCGTACACATATATCGG
* *
44505374 AATCACATATCGATGCCAACGTATATAACGTGGTCTTACTCGTACACATATATCG
1 AATCACATATCAATGCCAACGTATAGAACGTGGTCTTACTCGTACACATATATCG
44505429 ATGCCATGGT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
55 3 0.06
56 44 0.90
57 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
AATCACATATCAATGCCAACGTATAGAACGTGGTCTTACTCGTACACATATATCGG
Found at i:44508915 original size:36 final size:36
Alignment explanation
Indices: 44508868--44508941 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
44508858 CTAAGTGTGC
*
44508868 AATATCGAGATAGCTTTGGTTTATTAAAATGGCACT
1 AATATCGAGATAGCTTTAGTTTATTAAAATGGCACT
44508904 AATATCGAGATAGCTTTAGTTTATTAAAATGGCACT
1 AATATCGAGATAGCTTTAGTTTATTAAAATGGCACT
44508940 AA
1 AA
44508942 GTGTGCGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (36 bp):
AATATCGAGATAGCTTTAGTTTATTAAAATGGCACT
Found at i:44531297 original size:23 final size:22
Alignment explanation
Indices: 44531255--44531297 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
44531245 TATCCCCACA
*
44531255 TGGAGTGCAGGGCTGGATGGAG
1 TGGAGTGCAGGGATGGATGGAG
*
44531277 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGCAG-GGATGGATGG
44531298 GTAGGATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.21, C:0.05, G:0.53, T:0.21
Consensus pattern (22 bp):
TGGAGTGCAGGGATGGATGGAG
Found at i:44531372 original size:34 final size:33
Alignment explanation
Indices: 44531321--44531414 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 33
44531311 ATGCATTTTG
*
44531321 GATACTGTACTGAAATGGGCTAAGGCACACATT
1 GATACTGTACTGAAATGGGCTAAGGCACACACT
* * *
44531354 GATACTGTTACTGTAATGGGTTAAGGCCCACACT
1 GATACTG-TACTGAAATGGGCTAAGGCACACACT
* * * *
44531388 GATATTGCGACTGATATGGGCTTAGGC
1 GATACTG-TACTGAAATGGGCTAAGGC
44531415 CCAGACTGTT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 7 0.14
34 42 0.86
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (33 bp):
GATACTGTACTGAAATGGGCTAAGGCACACACT
Found at i:44532471 original size:55 final size:55
Alignment explanation
Indices: 44532353--44532473 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 55
44532343 AGCCCGTGTG
* * *
44532353 CAACATTGACTTCAACACACAGCCATGGCACACGCCCGTGTGACCTGCCCGTGTA
1 CAACACTGACTTCAACACACAGCCATGGCACACGCCCGTGTGACCTACCCATGTA
* * * * * *
44532408 CGATACTGACTTTAAGACACAGCCATGGCACACGCCCGTGTGGCCTACCCATGTT
1 CAACACTGACTTCAACACACAGCCATGGCACACGCCCGTGTGACCTACCCATGTA
44532463 CAACACTGACT
1 CAACACTGACT
44532474 AAAAAGTTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.26, C:0.35, G:0.20, T:0.20
Consensus pattern (55 bp):
CAACACTGACTTCAACACACAGCCATGGCACACGCCCGTGTGACCTACCCATGTA
Found at i:44533505 original size:46 final size:44
Alignment explanation
Indices: 44533338--44533502 Score: 197
Period size: 46 Copynumber: 3.6 Consensus size: 44
44533328 TACATGTGCT
*
44533338 GATGCATGTCCCAAACATGTCTTACACTAGCA-CAACTCTTAGCC
1 GATGCATGTCCCAAACATGTCTTACACTAGCATCATCTC-TAGCC
* * * *
44533382 GATGCGTGTCCCAGACACGTCTTACACTAGCTATCATCATCGAGACC
1 GATGCATGTCCCAAACATGTCTTACACTAGC-ATCATC-TCTAG-CC
* * *
44533429 GATGCATGTCCCAGACATGTCTTATACTGGCACTCATCTCTACGCC
1 GATGCATGTCCCAAACATGTCTTACACTAGCA-TCATCTCTA-GCC
44533475 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAAACATGTCTTACACT
44533503 GGCGCACAAG
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
44 28 0.27
45 1 0.01
46 37 0.36
47 37 0.36
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (44 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCATCATCTCTAGCC
Found at i:44537959 original size:49 final size:49
Alignment explanation
Indices: 44537779--44538024 Score: 224
Period size: 49 Copynumber: 5.0 Consensus size: 49
44537769 TCTATTGTGA
* * * ** * *
44537779 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAG-ATAGT-T
* * * * * * *
44537830 GATCACGTGTGTAGGACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGT-T
* * *
44537880 GGTCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACTAGACT-GTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-TAGTT
* ** *
44537929 GGTCGCATGTGTAGTACTAGGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTT
* * * *
44537978 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
44538025 CTTTGGCTAC
Statistics
Matches: 162, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.01
49 82 0.51
50 45 0.28
51 34 0.21
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTT
Found at i:44542920 original size:49 final size:50
Alignment explanation
Indices: 44542865--44543110 Score: 264
Period size: 49 Copynumber: 4.9 Consensus size: 50
44542855 ATCTATTGTG
* * *
44542865 AGGTCACATGCGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
44542915 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * * **
44542965 CA-ATCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGCATCAGATGGTT
1 -AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
** * ** *
44543015 AGGTCATGTGTGTAGTACTAAGTACAGGCTACTACATATACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
44543065 A-GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
44543111 GCTTTGGCTA
Statistics
Matches: 159, Mismatches: 33, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
49 80 0.50
50 43 0.27
51 36 0.23
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:44543062 original size:101 final size:98
Alignment explanation
Indices: 44542868--44543097 Score: 264
Period size: 100 Copynumber: 2.3 Consensus size: 98
44542858 TATTGTGAGG
* * * *
44542868 TCACATGCGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATTATTGGTCACATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACTAGATGATTGGTCACATGTGTAGTACT
* ** * *
44542933 AAGTGCAGGCTACTATGCGTACCCGATAACTTCAA
66 AAGTACAGGCTACTACACATACCAGATAA-TT-AA
* * * **
44542968 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGCA-TCAGATGGTTAGGTCATGTGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACT-AGATGATT-GGTCACATGTGTAGTA
* *
44543032 CTAAGTACAGGCTACTACATATACCAGATAATTAG
64 CTAAGTACAGGCTACTACACATACCAGATAATTAA
*
44543067 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
44543098 TGCGTACCAG
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
99 30 0.28
100 40 0.37
101 39 0.36
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACTAGATGATTGGTCACATGTGTAGTACT
AAGTACAGGCTACTACACATACCAGATAATTAA
Found at i:44552550 original size:58 final size:58
Alignment explanation
Indices: 44552431--44552547 Score: 150
Period size: 57 Copynumber: 2.0 Consensus size: 58
44552421 AAATGGTAAG
* * * * *
44552431 AATGGAGAAATGGGTAATATTTGGAAATGATTAGGGTTTTCTTCAAAATGAAAATGAA
1 AATGGAGAAATGGGTAATATTTGAAAATGAATAGGGTTTTATCCAAAATGAAAATAAA
44552489 AATGGAGAAAT-GG-AATCATTTGAAAATGAAT-GTGGTTTTATCCAAAATGAAAATAAA
1 AATGGAGAAATGGGTAAT-ATTTGAAAATGAATAG-GGTTTTATCCAAAATGAAAATAAA
44552546 AA
1 AA
44552548 ATGAAAATGA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
56 4 0.08
57 37 0.71
58 11 0.21
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.29
Consensus pattern (58 bp):
AATGGAGAAATGGGTAATATTTGAAAATGAATAGGGTTTTATCCAAAATGAAAATAAA
Found at i:44555958 original size:48 final size:47
Alignment explanation
Indices: 44555833--44556203 Score: 260
Period size: 48 Copynumber: 7.7 Consensus size: 47
44555823 TGATATGTGC
* *
44555833 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACAATATG-A-GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA-TAT-TGTAGGA
* * * *
44555881 GCCAGTTTGTAAGACCATGTTTGGAACATGGCATCGACAATATTGTAGGA
1 GCTAG--TGTAAGACCATGTCTGGGACATGGCATCGGC-ATATTGTAGGA
** *
44555931 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGT-TATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATATTGTA-G-GA
* * *
44555979 GCTAGTGTAAGACCATGTCTGGGATATGGCATCGG--TGTCGTTATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATATTG-TA-G-GA
* * * *
44556027 GCCAATGTAAGACCATGTCTAGGACATGGCATCGGC--ATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATATTG-TA-G-GA
* * * * *
44556075 GCTAGTTTAAGACAATGTCTGGGACATGGCATCAGCCTCGACATGT--GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT--A-TTGTAGGA
* * * *
44556123 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGACATGT--TA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT--A-TTGTAGGA
44556171 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
44556204 AGCAATTCAC
Statistics
Matches: 266, Mismatches: 42, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
46 3 0.01
47 4 0.02
48 219 0.82
49 4 0.02
50 33 0.12
52 1 0.00
53 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATATTGTAGGA
Found at i:44556044 original size:96 final size:96
Alignment explanation
Indices: 44555936--44556206 Score: 346
Period size: 96 Copynumber: 2.8 Consensus size: 96
44555926 TAGGAGCTAG
**
44555936 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGTGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGACATGTGTGCTAGTGTAAGACCATGTCTGG
* * ** **
44556001 GATATGGCATCGGTGTCGTTATGTGAGCCAA
66 GACATGGCATCAGCCTCGACATGTGAGCCAA
* * * * * * * *
44556032 TGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGTTTAAGACAATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGACATGTGTGCTAGTGTAAGACCATGTCTGG
* *
44556097 GACATGGCATCAGCCTCGACATGTGAGCTAG
66 GACATGGCATCAGCCTCGACATGTGAGCCAA
* *
44556128 TGTAAGACCATGTCTGGGACATGGCATTGGCCTCGACATGT-TAGCTAGTGTAAGACCATGTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGACATGTGT-GCTAGTGTAAGACCATGTCTG
44556192 GGACATGGCATCAGC
65 GGACATGGCATCAGC
44556207 AATTCACCCT
Statistics
Matches: 147, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
96 147 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGACATGTGTGCTAGTGTAAGACCATGTCTGG
GACATGGCATCAGCCTCGACATGTGAGCCAA
Found at i:44556093 original size:144 final size:142
Alignment explanation
Indices: 44555824--44556203 Score: 440
Period size: 144 Copynumber: 2.6 Consensus size: 142
44555814 ACATTTTGGT
* * * * * *
44555824 GATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACAATATGAGAGCCAGTTT
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCA--AT
* * *
44555889 GTAAGACCATGT-TTGGAACATGGCATCGACAATATTGTAGGAGCTAGTGTAAGACCATGTCTGG
64 GTAAGACCATGTCTAGG-ACATGGCATCGAC-A-ATTGGAGGAGCTAGTGTAAGACAATGTCTGG
*
44555953 GACATGGCATCGGCATC
126 GACATGGCATCAGCATC
* * * ** *
44555970 GTTATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGTGTCGTTATGTGAGCCAATGT
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAATGT
* *
44556035 AAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGAGAGCTAGTTTAAGACAATGTCTGGGA
66 AAGACCATGTCTAGGACATGGCATCGACAATTG-GA-G-GAGCTAGTGTAAGACAATGTCTGGGA
*
44556099 CATGGCATCAGCCTC
128 CATGGCATCAGCATC
* * * * * *
44556114 GACATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGACATGTTAGCTAGTGT
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAATGT
*
44556179 AAGACCATGTCTGGGACATGGCATC
66 AAGACCATGTCTAGGACATGGCATC
44556204 AGCAATTCAC
Statistics
Matches: 199, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
141 4 0.02
142 1 0.01
143 1 0.01
144 139 0.70
145 3 0.02
146 51 0.26
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (142 bp):
GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAATGT
AAGACCATGTCTAGGACATGGCATCGACAATTGGAGGAGCTAGTGTAAGACAATGTCTGGGACAT
GGCATCAGCATC
Found at i:44575888 original size:25 final size:24
Alignment explanation
Indices: 44575859--44575947 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 24
44575849 CATTTAACAA
44575859 GAAGCTCATGTGAGCCATGTAATGG
1 GAAGCTCATGTGAGCCAT-TAATGG
* ** * * *
44575884 GAAGCTTATCCGGGCTATATAACGG
1 GAAGCTCATGTGAGCCAT-TAATGG
** *
44575909 GAAGCTCATAAGAGCCA-TAATCAG
1 GAAGCTCATGTGAGCCATTAAT-GG
44575933 GAAGCTCATGTGAGC
1 GAAGCTCATGTGAGC
44575948 AAATAACATG
Statistics
Matches: 47, Mismatches: 16, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
23 3 0.06
24 14 0.30
25 30 0.64
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.21
Consensus pattern (24 bp):
GAAGCTCATGTGAGCCATTAATGG
Found at i:44579233 original size:47 final size:47
Alignment explanation
Indices: 44579155--44579703 Score: 882
Period size: 47 Copynumber: 11.6 Consensus size: 47
44579145 CCCTTCGGGA
* * ** * * *
44579155 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44579202 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44579249 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44579296 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44579343 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44579390 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44579439 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44579488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44579535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44579582 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44579631 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44579678 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
44579704 CACAATTATC
Statistics
Matches: 473, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 334 0.71
49 139 0.29
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44579547 original size:143 final size:143
Alignment explanation
Indices: 44579155--44579703 Score: 935
Period size: 143 Copynumber: 3.9 Consensus size: 143
44579145 CCCTTCGGGA
* ** * * *
44579155 CTTATCACAT-T-TATACACTTTCACATCCATCATGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
44579218 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
44579283 TCGGCTATTAGGC
131 TCGGCCATTAGGC
* * *
44579296 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
44579359 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
44579424 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
44579439 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
44579504 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
44579569 TCGGCCATTAGGC
131 TCGGCCATTAGGC
44579582 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
44579647 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
44579704 CACAATTATC
Statistics
Matches: 386, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
140 1 0.00
141 89 0.23
143 205 0.53
145 91 0.24
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:44583678 original size:40 final size:40
Alignment explanation
Indices: 44583623--44583800 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
44583613 CGGATGATAA
*
44583623 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44583663 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44583703 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44583743 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
44583783 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44583801 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.12
40 115 0.88
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44591847 original size:28 final size:28
Alignment explanation
Indices: 44591810--44591916 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
44591800 GCAATCAAAT
*
44591810 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
44591838 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
44591866 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
** * *
44591894 ATGAAACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
44591917 CGAATGATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:44593928 original size:28 final size:28
Alignment explanation
Indices: 44593897--44594104 Score: 174
Period size: 28 Copynumber: 7.5 Consensus size: 28
44593887 GTGAACATAG
*
44593897 GCACTGTGTGTGTGAGTTCCGTAATCGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
* * ** *
44593925 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
*
44593953 GGCA-TGTGTGTGCGAGTTCCGTAA-CCA
1 -GCACTGTGTGTGCGAGTTCCGTAATCGA
* * ** *
44593980 --ACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
*
44594006 GGCACTGTGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAATCGA
* ** *
44594035 GCACTGTGTGTGCGAGAT-CGATTGTTGA
1 GCACTGTGTGTGCGAGTTCCG-TAATCGA
* *
44594063 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAATCGA
44594092 GCACTGTGTGTGC
1 GCACTGTGTGTGC
44594105 AAGATCGGTT
Statistics
Matches: 136, Mismatches: 35, Indels: 18
0.72 0.19 0.10
Matches are distributed among these distances:
24 1 0.01
25 16 0.12
26 1 0.01
27 3 0.02
28 71 0.52
29 42 0.31
30 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAATCGA
Found at i:44594012 original size:29 final size:29
Alignment explanation
Indices: 44593925--44594134 Score: 157
Period size: 28 Copynumber: 7.4 Consensus size: 29
44593915 CCGTAATCGA
44593925 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * *
44593954 GCA-TGTGTGTGCGAGTTC---CG-T-AA
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
*
44593977 CCAACTGTGTGTGCGAGATCGGTTGTTGAG
1 GC-ACTGTGTGTGCGAGATCGGTTGTTGAG
* * ****
44594007 GCACTGTGTGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
*
44594035 GCACTGTGTGTGCGAGATCGATTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * **** *
44594064 GCACTGTGTGTGCGAGTTCCG-TAACCAA
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
44594092 GCACTGTGTGTGCAAGATCGGTTGTTGGG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
44594121 GCACTAAGTGTGTG
1 GCACT--GTGTGTG
44594135 AAATGAGATC
Statistics
Matches: 132, Mismatches: 38, Indels: 20
0.69 0.20 0.11
Matches are distributed among these distances:
23 2 0.02
24 2 0.02
25 15 0.11
28 56 0.42
29 48 0.36
30 2 0.02
31 7 0.05
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAG
Found at i:44594062 original size:57 final size:57
Alignment explanation
Indices: 44593895--44594134 Score: 380
Period size: 57 Copynumber: 4.2 Consensus size: 57
44593885 AAGTGAACAT
* *
44593895 AGGCACTGTGTGTGTGAGTTCCGTAATCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
44593952 AGGCA-TGTGTGTGCGAGTTCCGTAACC-A--ACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
44594005 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
44594062 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
44594119 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
44594135 AAATGAGATC
Statistics
Matches: 170, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
53 30 0.18
54 22 0.13
55 2 0.01
56 20 0.12
57 89 0.52
59 7 0.04
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:44599096 original size:28 final size:28
Alignment explanation
Indices: 44599059--44599164 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
44599049 GCAATCAAAT
*
44599059 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
44599087 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
44599115 AT-GCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
44599142 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
44599165 CGAATGATTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
27 25 0.35
28 46 0.65
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:44612648 original size:40 final size:40
Alignment explanation
Indices: 44612604--44612795 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 40
44612594 AGATATAGCT
* *
44612604 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
44612644 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
44612684 ACTCGTACCAATGCCTTCGGG-CTTAGCCCGAAATTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * * * * *
44612723 TCTCGCACAAATGCCTTC-GGATCTTAGTCCAGATATGGTC
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
44612763 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGTACAAATGCCTTCGGGACTTAGCCCGGA
44612796 CATCATTCGA
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 79 0.64
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:44628942 original size:13 final size:13
Alignment explanation
Indices: 44628924--44628949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44628914 GAAAAGAGAA
44628924 ATTCCCCCAAAGT
1 ATTCCCCCAAAGT
44628937 ATTCCCCCAAAGT
1 ATTCCCCCAAAGT
44628950 GCCGAATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (13 bp):
ATTCCCCCAAAGT
Found at i:44636633 original size:22 final size:22
Alignment explanation
Indices: 44636605--44636655 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
44636595 ACACCGAAAA
* *
44636605 TAAGCCTGAATAACATC-GACAC
1 TAAGCCTAAATAACACCAG-CAC
44636627 TAAGCCTAAATAACACCAGCAC
1 TAAGCCTAAATAACACCAGCAC
44636649 TAAGCCT
1 TAAGCCT
44636656 TCTAGGCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (22 bp):
TAAGCCTAAATAACACCAGCAC
Found at i:44636727 original size:38 final size:38
Alignment explanation
Indices: 44636624--44636715 Score: 159
Period size: 38 Copynumber: 2.4 Consensus size: 38
44636614 ATAACATCGA
*
44636624 CACTAAGCCTAAATAACACCAGCACTAAGCCTTCTAGG
1 CACTAAGCCTAAATAACACCAGCACTAAGCCTGCTAGG
44636662 CACTAAGGCCT-AATAACACCAGCACTAAGCCTGCTAGG
1 CACTAA-GCCTAAATAACACCAGCACTAAGCCTGCTAGG
44636700 CACTAAGCCTAAATAA
1 CACTAAGCCTAAATAA
44636716 TAGCTAAACT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
37 4 0.08
38 43 0.84
39 4 0.08
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.17
Consensus pattern (38 bp):
CACTAAGCCTAAATAACACCAGCACTAAGCCTGCTAGG
Found at i:44639317 original size:16 final size:16
Alignment explanation
Indices: 44639298--44639329 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44639288 AATTGTTTTA
44639298 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
44639314 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
44639330 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:44639588 original size:78 final size:78
Alignment explanation
Indices: 44639459--44639613 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 78
44639449 GTAAATTTCC
44639459 CGTTGAACTCATCGGAATAATAACATATACCCGGTGGCTTGTGCATATACCACCCTTGTAATCGA
1 CGTTGAACTCATCGGAATAATAACATATACCCGGTGGCTTGTGCATATACCACCCTTGTAATCGA
44639524 AGCTCTCTAGTAT
66 AGCTCTCTAGTAT
* *
44639537 CGTTGAACTCATCGGAATAATAATATATATCCGGTGGCTTGTGCATATACCACCCTTGTAATCGA
1 CGTTGAACTCATCGGAATAATAACATATACCCGGTGGCTTGTGCATATACCACCCTTGTAATCGA
44639602 AGCTCTCTAGTA
66 AGCTCTCTAGTA
44639614 CACATAGTAG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (78 bp):
CGTTGAACTCATCGGAATAATAACATATACCCGGTGGCTTGTGCATATACCACCCTTGTAATCGA
AGCTCTCTAGTAT
Found at i:44639817 original size:101 final size:101
Alignment explanation
Indices: 44639611--44640004 Score: 357
Period size: 101 Copynumber: 3.9 Consensus size: 101
44639601 AAGCTCTCTA
* ** * *
44639611 GTACACATAGTAGCCTGCACTTAGTACTACACATG-AAACCTATAAATCTGGTACACGTAGTAGC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGAACAAATAAATCGGGTACACATAGTAGC
* * * * *
44639675 CTGCACTTAGTACTACACACGTGACTTATCCATCTG
66 CTACACTTAGTACTACACACGCGACCTATCAATCCG
* * * * *
44639711 ATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAA-CGGGTACGCATAGTAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGAACAAA-TAAATCGGGTACACATAGTAG
*
44639775 CCTACACTTAGTACTACACATGCGACCTATCAATCCG
65 CCTACACTTAGTACTACACACGCGACCTATCAATCCG
* * * * ** * *
44639812 GTACACATAGTAGCCTGCACTTAGTACTAAAAATGTGACCTAA-CCATCTGATACACATAGTAGC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGAACAAATAAATCGGGTACACATAGTAGC
* * * * * * * *
44639876 TTGCACTTAGTACAACACACGTGA-TTGAAACTATCGG
66 CTACACTTAGTACTACACACGCGACCT--ATCAATCCG
* * * * * * *
44639913 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTACACGTAGTAGC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGAACAAATAAATCGGGTACACATAGTAGC
* *
44639977 CTGCACTTAGTACTACACACGTGACCTA
66 CTACACTTAGTACTACACACGCGACCTA
44640005 AAACTGTTTT
Statistics
Matches: 242, Mismatches: 46, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
99 2 0.01
100 67 0.28
101 169 0.70
102 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGAACAAATAAATCGGGTACACATAGTAGC
CTACACTTAGTACTACACACGCGACCTATCAATCCG
Found at i:44639836 original size:151 final size:151
Alignment explanation
Indices: 44639611--44640005 Score: 594
Period size: 151 Copynumber: 2.6 Consensus size: 151
44639601 AAGCTCTCTA
* ** *
44639611 GTACACATAGTAGCCTGCACTTAGTACTACACATGAAACCTATAAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
* * * *
44639676 TGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACAAC
* *
44639741 ACATGTGA-TCAAAGTTAACGG
131 ACACGTGATTCAAA-CTAACGG
* * *
44639762 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCGGTACACATAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
* * * *
44639827 TGCACTTAGTACTAAAAATGTGACCTAACCATCTGATACACATAGTAGCTTGCACTTAGTACAAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACAAC
* *
44639892 ACACGTGATTGAAACTATCGG
131 ACACGTGATTCAAACTAACGG
*
44639913 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
44639978 TGCACTTAGTACTACACACGTGACCTAA
66 TGCACTTAGTACTACACACGTGACCTAA
44640006 AACTGTTTTA
Statistics
Matches: 217, Mismatches: 26, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
151 213 0.98
152 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (151 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACAAC
ACACGTGATTCAAACTAACGG
Found at i:44640005 original size:50 final size:50
Alignment explanation
Indices: 44639611--44640005 Score: 436
Period size: 50 Copynumber: 7.9 Consensus size: 50
44639601 AAGCTCTCTA
**
44639611 GTACACATAGTAGCCTGCACTTAGTACTACACATGAAACCTATA-AATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTA-ACAATCTG
* * * * *
44639661 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* * * * * *
44639711 ATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAA-CGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--CAATCTG
* * * * *
44639762 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* * *
44639812 GTACACATAGTAGCCTGCACTTAGTACTAAAAATGTGACCTAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* * * * * * *
44639862 ATACACATAGTAGCTTGCACTTAGTACAACACACGTGA-TTGAAACTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACAATCTG
* *
44639913 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* *
44639963 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
44640006 AACTGTTTTA
Statistics
Matches: 282, Mismatches: 56, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
49 3 0.01
50 201 0.71
51 76 0.27
52 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
Found at i:44647304 original size:48 final size:48
Alignment explanation
Indices: 44647215--44647494 Score: 239
Period size: 48 Copynumber: 5.9 Consensus size: 48
44647205 TGACATTGGG
* * * * * *
44647215 TGATATGTGTGCCAGTGTAAGACCATGTTTGGAACACGGCATCGACAA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
* ** *
44647263 TGTTATGAGAGCCAGTGTAAGACCATGTCCAGGACATGGCATCAGA-GT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACAT
* * * * *
44647311 TGATAGGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
* * * * * *
44647359 TGACAT--GAGCCAGTGTAAGACCATGTTTGGGGCACGGAAACGGCCACA-
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACAT
* * *
44647407 T--TATGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCAT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
* * *
44647453 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
44647495 TGGCAATTTA
Statistics
Matches: 183, Mismatches: 39, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.01
46 31 0.17
47 4 0.02
48 142 0.78
49 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
Found at i:44647481 original size:142 final size:142
Alignment explanation
Indices: 44647225--44647494 Score: 371
Period size: 142 Copynumber: 1.9 Consensus size: 142
44647215 TGATATGTGT
* * ** *
44647225 GCCAGTGTAAGACCATGTTTGGAACACGGCATCGACAATGTTATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGAACACGGAAACGACAACATTATGAGAGCCAGTATAAGACCATG
* * * *
44647290 TCCAGGACATGGCATCAGAGTTGATAGGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
66 TCCAGGACATGGCATCAGAGTTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
44647355 ACGTTGACATGA
131 ACGTTGACATGA
** * * *
44647367 GCCAGTGTAAGACCATGTTTGGGGCACGGAAACGGCCACATTATGAGAGCTAGTATAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGAACACGGAAACGACAACATTATGAGAGCCAGTATAAGACCATG
** *
44647432 TCTGGGACATGGCATCGGCA-TTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
66 TCCAGGACATGGCATCAG-AGTTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
44647495 TGGCAATTTA
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
142 109 0.99
143 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (142 bp):
GCCAGTGTAAGACCATGTTTGGAACACGGAAACGACAACATTATGAGAGCCAGTATAAGACCATG
TCCAGGACATGGCATCAGAGTTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
ACGTTGACATGA
Found at i:44656278 original size:17 final size:17
Alignment explanation
Indices: 44656256--44656294 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
44656246 CAGGATACTG
*
44656256 ATTCAAGACATGCTCTT
1 ATTCAAGACATACTCTT
*
44656273 ATTCAAGACCTACTCTT
1 ATTCAAGACATACTCTT
44656290 ATTCA
1 ATTCA
44656295 GAGGAGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (17 bp):
ATTCAAGACATACTCTT
Found at i:44673302 original size:43 final size:45
Alignment explanation
Indices: 44673241--44673352 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
44673231 ATTCATTCAT
* * * *
44673241 CGGCATT-TCGCCTGCTAGGCTC-GAGGCTCG-ATA-TCATGTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCAC
*
44673283 TGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
*
44673328 CGGCATAATAGCCTGCTAGGCTCAA
1 CGGCATTATAGCCTGCTAGGCTCAA
44673353 GGTCTGAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 6 0.10
43 14 0.24
44 6 0.10
45 32 0.54
46 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:44673428 original size:38 final size:38
Alignment explanation
Indices: 44673381--44673650 Score: 425
Period size: 38 Copynumber: 7.1 Consensus size: 38
44673371 GTACTAGGCT
* *
44673381 TGCGGGATTTAACCCGGATATAATACAAGCACGAAGCC
1 TGCGAGATTTAACCCGGATATAATACCAGCACGAAGCC
44673419 TGCGAGATTTAACCCGGATATAATACCAGCACGAAGCC
1 TGCGAGATTTAACCCGGATATAATACCAGCACGAAGCC
*
44673457 TGCGAGATTTAACCCGGATATATTACCAGCACGAAGCC
1 TGCGAGATTTAACCCGGATATAATACCAGCACGAAGCC
* * *
44673495 TGCGAGATTTAACCCGAATATATTAACAGCACGAAGCC
1 TGCGAGATTTAACCCGGATATAATACCAGCACGAAGCC
44673533 TGC-AGGATTTAACCCGGATATAATACCAGCACGAAGCC
1 TGCGA-GATTTAACCCGGATATAATACCAGCACGAAGCC
* * *
44673571 TGCGGGATTTAACCCAGATATATTACCAGCACGAAGCC
1 TGCGAGATTTAACCCGGATATAATACCAGCACGAAGCC
* *
44673609 TACGGGATTTAACCCGGATATAATACCAGCACGAAGCC
1 TGCGAGATTTAACCCGGATATAATACCAGCACGAAGCC
44673647 TGCG
1 TGCG
44673651 GGTCTTTAAG
Statistics
Matches: 215, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
37 1 0.00
38 214 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
TGCGAGATTTAACCCGGATATAATACCAGCACGAAGCC
Found at i:44679574 original size:38 final size:38
Alignment explanation
Indices: 44679530--44679800 Score: 398
Period size: 38 Copynumber: 7.1 Consensus size: 38
44679520 CAAGGCTTGA
* * * *
44679530 ATATAATACTAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
44679568 GTATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
44679606 ATATAATACAAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
44679644 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
44679682 ATATAATACCAGCACGAAGCTTGCGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
44679720 ATATATTACCAGCACGAAGCTTGCAGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
44679758 ATATAATACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
44679798 ATA
1 ATA
44679801 CACATCAAAT
Statistics
Matches: 210, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 197 0.94
39 5 0.02
40 8 0.04
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:44680135 original size:43 final size:44
Alignment explanation
Indices: 44680074--44680167 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
44680064 CTCACATAAC
* *
44680074 ATATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCG-
1 ATATCATTTCACCAGCATTATAGCCTGCTAGGCCCAAAGCCCGA
* *
44680117 ATATCGTTTCACCAGCATTATAGCCTGCTAGGCCCGAAGCCCGA
1 ATATCATTTCACCAGCATTATAGCCTGCTAGGCCCAAAGCCCGA
44680161 ATATCAT
1 ATATCAT
44680168 ATTTTGATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 39 0.87
44 6 0.13
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
ATATCATTTCACCAGCATTATAGCCTGCTAGGCCCAAAGCCCGA
Found at i:44686807 original size:7 final size:8
Alignment explanation
Indices: 44686788--44686815 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
44686778 CCCTACCCAA
44686788 TTTTTGAC
1 TTTTTGAC
44686796 TTTTTGAC
1 TTTTTGAC
44686804 TTTTTGAC
1 TTTTTGAC
44686812 TTTT
1 TTTT
44686816 CATTGATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.68
Consensus pattern (8 bp):
TTTTTGAC
Found at i:44688596 original size:38 final size:38
Alignment explanation
Indices: 44688533--44688642 Score: 123
Period size: 38 Copynumber: 2.9 Consensus size: 38
44688523 TATTACACCA
* * * *
44688533 GCACCAAGCCTGAATAGCACTGGCACTAAGCCTGTTTA-
1 GCACTAAGCCTGAATAACACCGGCACTAAGCCTG-CTAG
* *
44688571 GCATTAAGCCTGAATAACACCGGCACTAAGCTTGCTAG
1 GCACTAAGCCTGAATAACACCGGCACTAAGCCTGCTAG
* **
44688609 GCACTAAGCCTAAATAACACCCTCACTAAGCCTG
1 GCACTAAGCCTGAATAACACCGGCACTAAGCCTG
44688643 AATAACAATA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 2 0.03
38 58 0.97
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (38 bp):
GCACTAAGCCTGAATAACACCGGCACTAAGCCTGCTAG
Found at i:44690838 original size:28 final size:29
Alignment explanation
Indices: 44690774--44690841 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
44690764 ATGAAATTGG
* * *
44690774 CACTAAGTGTGCGGGTTCAAGTTGTATAG
1 CACTAAGTGTGCGAGTTCAAGTTATATAA
*
44690803 CACTAAGTGTGCGAGTTCGA-TTATATAA
1 CACTAAGTGTGCGAGTTCAAGTTATATAA
44690831 CACTAAGTGTG
1 CACTAAGTGTG
44690842 TGGACTTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 17 0.49
29 18 0.51
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (29 bp):
CACTAAGTGTGCGAGTTCAAGTTATATAA
Found at i:44694541 original size:27 final size:27
Alignment explanation
Indices: 44694507--44694685 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
44694497 TAAATTGTAC
44694507 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44694534 TGCACTAAGTGTGCGAAATGAATAATG-
1 AGCACTAAGTGTGCGATTTGACT-ATGT
* * *
44694561 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44694589 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44694617 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44694644 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44694671 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44694686 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 84 0.65
28 45 0.35
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44694569 original size:55 final size:55
Alignment explanation
Indices: 44694507--44694685 Score: 193
Period size: 55 Copynumber: 3.3 Consensus size: 55
44694497 TAAATTGTAC
*
44694507 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATAATG-
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAAT-ATGT
* * ** ** *
44694561 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
* * * * *
44694617 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
*
44694671 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44694686 GACTCAATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
54 23 0.22
55 78 0.74
56 5 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
Found at i:44694676 original size:82 final size:82
Alignment explanation
Indices: 44694504--44694685 Score: 224
Period size: 82 Copynumber: 2.2 Consensus size: 82
44694494 GTATAAATTG
*
44694504 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATAATGATGCACTA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAATGATGCACTA
44694569 AGTGTGCGAATTGACCA
66 AGTGTGCGAATTGACCA
* * ** * *
44694586 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATAATGAT-GCAC
* **
44694649 TAAGTGTGCGAGTTGATTA
64 TAAGTGTGCGAATTGACCA
* *
44694668 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44694686 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 1 0.01
82 55 0.65
83 28 0.33
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (82 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAATGATGCACTA
AGTGTGCGAATTGACCA
Found at i:44702523 original size:27 final size:27
Alignment explanation
Indices: 44702489--44702666 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44702479 TAAATTGTAC
44702489 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44702516 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44702542 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44702570 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44702598 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44702625 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44702652 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44702667 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44702603 original size:82 final size:81
Alignment explanation
Indices: 44702490--44702645 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44702480 AAATTGTACA
* *
44702490 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44702554 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44702571 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44702636 TGCGAGTTGA
65 TGCGAATTGA
44702646 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44702657 original size:82 final size:81
Alignment explanation
Indices: 44702486--44702666 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44702476 GAGTAAATTG
* *
44702486 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44702551 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44702567 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44702631 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44702649 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44702667 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44704658 original size:29 final size:29
Alignment explanation
Indices: 44704585--44704698 Score: 90
Period size: 29 Copynumber: 4.0 Consensus size: 29
44704575 ACATACATGC
* * * *
44704585 ATATAGCCCCCTAGGCCCAATT-TTATTC
1 ATATGGCCCACTAGGCCCAATTCATATTT
* *
44704613 AAATGGCCCATCT-GGCCCAGTTCATATTCT
1 ATATGGCCCA-CTAGGCCCAATTCATATT-T
* **
44704643 -TATGGCCCACTAGGCCTAATTCACCTTT
1 ATATGGCCCACTAGGCCCAATTCATATTT
* *
44704671 ATATGGCCCATTAGGCCCAAATCATATT
1 ATATGGCCCACTAGGCCCAATTCATATT
44704699 ATACTCATGC
Statistics
Matches: 65, Mismatches: 16, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
28 18 0.28
29 47 0.72
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAATTCATATTT
Found at i:44704931 original size:8 final size:8
Alignment explanation
Indices: 44704920--44704962 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
44704910 ACTTTCGATA
44704920 TTTCAGCT
1 TTTCAGCT
*
44704928 TTTCAGCA
1 TTTCAGCT
*
44704936 TTTCGGCT
1 TTTCAGCT
*
44704944 TTTCAGCA
1 TTTCAGCT
*
44704952 TTTCGGCT
1 TTTCAGCT
44704960 TTT
1 TTT
44704963 GTCGATTCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.12, C:0.23, G:0.16, T:0.49
Consensus pattern (8 bp):
TTTCAGCT
Found at i:44704938 original size:16 final size:16
Alignment explanation
Indices: 44704919--44704962 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
44704909 AACTTTCGAT
*
44704919 ATTTCAGCTTTTCAGC
1 ATTTCGGCTTTTCAGC
44704935 ATTTCGGCTTTTCAGC
1 ATTTCGGCTTTTCAGC
44704951 ATTTCGGCTTTT
1 ATTTCGGCTTTT
44704963 GTCGATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (16 bp):
ATTTCGGCTTTTCAGC
Found at i:44706217 original size:7 final size:7
Alignment explanation
Indices: 44706205--44706234 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
44706195 TATGAGACCG
44706205 AAAGCCC
1 AAAGCCC
44706212 AAAGCCC
1 AAAGCCC
44706219 AAAGCCC
1 AAAGCCC
44706226 AAAGCCC
1 AAAGCCC
44706233 AA
1 AA
44706235 TTCATCTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAGCCC
Found at i:44709937 original size:42 final size:42
Alignment explanation
Indices: 44709891--44710045 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
44709881 TATGTTATCA
* *
44709891 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGATTTCG
1 TGTAAGACCATATCTGGGACATGGCATTGATATGAGATTTCG
** * *
44709933 TGTAAGACCACGTCTGGGACATGGCATTGAAATGATATTTCG
1 TGTAAGACCATATCTGGGACATGGCATTGATATGAGATTTCG
* * * * * * * *
44709975 TATAATACCATATCTGGGATATGACATCGATGTGAGATCTCA
1 TGTAAGACCATATCTGGGACATGGCATTGATATGAGATTTCG
* *
44710017 TGTAAGACCATGTTTGGGACATGGCATTG
1 TGTAAGACCATATCTGGGACATGGCATTG
44710046 GTATCTTATT
Statistics
Matches: 88, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATGGCATTGATATGAGATTTCG
Found at i:44714933 original size:38 final size:38
Alignment explanation
Indices: 44714888--44715000 Score: 154
Period size: 38 Copynumber: 3.0 Consensus size: 38
44714878 AATCCGGGCT
* *
44714888 TAAAGACCCGATGACTATAAGTAGAGATTGTGTCCGGG
1 TAAAGACCCGATGACTATATGTAGAGATTATGTCCGGG
* *
44714926 TAAAGACCCGATGACTATATGTGGAGATTATGCCCGGG
1 TAAAGACCCGATGACTATATGTAGAGATTATGTCCGGG
* * * *
44714964 TAAAGATCCGATGGCTATGTGCAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGTAGAGATTATGTCCGG
44715001 ATTAAAATTC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGTAGAGATTATGTCCGGG
Found at i:44715029 original size:38 final size:38
Alignment explanation
Indices: 44714888--44715030 Score: 117
Period size: 38 Copynumber: 3.8 Consensus size: 38
44714878 AATCCGGGCT
* * ** * * *
44714888 TAAAGACCCGATGACTATAAGTAGAGATTGTGTCCGGG
1 TAAAGATCCGATGGCTATGTGTGGAGATTATGCCCGGG
* * *
44714926 TAAAGACCCGATGACTATATGTGGAGATTATGCCCGGG
1 TAAAGATCCGATGGCTATGTGTGGAGATTATGCCCGGG
** * *
44714964 TAAAGATCCGATGGCTATGTGCAGAGATTATGTCCGGAT
1 TAAAGATCCGATGGCTATGTGTGGAGATTATGCCCGG-G
* * *
44715003 TAAA-ATTCGCTGGCTTTGTGTGGAGATT
1 TAAAGATCCGATGGCTATGTGTGGAGATT
44715031 TCATCCGAGC
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 84 0.95
39 4 0.05
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (38 bp):
TAAAGATCCGATGGCTATGTGTGGAGATTATGCCCGGG
Found at i:44715113 original size:40 final size:40
Alignment explanation
Indices: 44715058--44715248 Score: 319
Period size: 40 Copynumber: 4.8 Consensus size: 40
44715048 CTCGACGATG
* *
44715058 ATCCGGGTTAAGTCCCGAAGAGCATTCCTGCTAGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
44715098 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
44715138 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
*
44715178 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
* * * *
44715218 ATCCGAGCTAAGTCCTGAAGGGCATTTGTGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
44715249 CGATGATGTG
Statistics
Matches: 144, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
Found at i:44715459 original size:25 final size:25
Alignment explanation
Indices: 44715417--44715468 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
44715407 TGTGTAATAA
44715417 CGAATGAATATAGACACTATGTGTG
1 CGAATGAATATAGACACTATGTGTG
*
44715442 CGAATGAAT-TGAGGCACTATGTGTG
1 CGAATGAATAT-AGACACTATGTGTG
44715467 CG
1 CG
44715469 GATTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGACACTATGTGTG
Found at i:44715515 original size:28 final size:28
Alignment explanation
Indices: 44715484--44715580 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
44715474 TTTAACCGAG
44715484 CACTATGTGTGCGAGATCGGTCAGTGGA
1 CACTATGTGTGCGAGATCGGTCAGTGGA
* ** * *
44715512 CACTGTGTGTGCGA-ATTCTTTAACT-GA
1 CACTATGTGTGCGAGA-TCGGTCAGTGGA
*
44715539 GCACTATGTGTGCGAGATCGGTCAGTGGG
1 -CACTATGTGTGCGAGATCGGTCAGTGGA
*
44715568 CACTGTGTGTGCG
1 CACTATGTGTGCG
44715581 GATTTCGTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
27 3 0.06
28 48 0.91
29 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (28 bp):
CACTATGTGTGCGAGATCGGTCAGTGGA
Found at i:44715535 original size:56 final size:56
Alignment explanation
Indices: 44715456--44715580 Score: 205
Period size: 56 Copynumber: 2.2 Consensus size: 56
44715446 TGAATTGAGG
* * *
44715456 CACTATGTGTGCGGATTTTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTGGA
1 CACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTGGA
* *
44715512 CACTGTGTGTGCGAATTCTTTAACTGAGCACTATGTGTGCGAGATCGGTCAGTGGG
1 CACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTGGA
44715568 CACTGTGTGTGCG
1 CACTGTGTGTGCG
44715581 GATTTCGTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.30
Consensus pattern (56 bp):
CACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTGGA
Found at i:44718512 original size:25 final size:25
Alignment explanation
Indices: 44718484--44718562 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
44718474 CGAATGGCCA
44718484 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
44718509 ATGTGAT-AAAGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
*
44718531 ATATGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
44718556 ATGTGAT
1 ATGTGAT
44718563 AAGACCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 6 0.17
23 8 0.23
24 8 0.23
25 13 0.37
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:44718512 original size:47 final size:47
Alignment explanation
Indices: 44718459--44719035 Score: 902
Period size: 47 Copynumber: 12.3 Consensus size: 47
44718449 ACAAGATATG
*
44718459 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44718506 TATATGTGATAAAGCCTAATGGCCAATATGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
44718553 TATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGAA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44718600 TATATGTGATAAAGCCTAATGGCCAATATGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44718647 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44718694 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
44718741 TATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44718788 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44718835 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44718882 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * ** * *
44718929 TATATGAGATAAGACCTAATAGCTGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44718976 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44719023 TAAATGTGATAAG
1 TATATGTGATAAG
44719036 TCCCGAAGGG
Statistics
Matches: 482, Mismatches: 48, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 482 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:44718675 original size:22 final size:22
Alignment explanation
Indices: 44718650--44718725 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
44718640 AAGTGTATAT
44718650 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
44718672 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
44718696 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
44718719 ATGTGAT
1 ATGTGAT
44718726 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:44718794 original size:25 final size:25
Alignment explanation
Indices: 44718766--44718843 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
44718756 CTAATGGCCG
44718766 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
44718791 ATGTGAT-AAAGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
44718813 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
44718838 ATGTGA
1 ATGTGA
44718844 CAAGGCCTAA
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:44722101 original size:20 final size:21
Alignment explanation
Indices: 44722078--44722119 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
44722068 GAAAAAAATC
*
44722078 AAATCCA-AATTAAAATACTG
1 AAATCCAGAATAAAAATACTG
*
44722098 AAATTCAGAATAAAAATACTG
1 AAATCCAGAATAAAAATACTG
44722119 A
1 A
44722120 GGTGGCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (21 bp):
AAATCCAGAATAAAAATACTG
Found at i:44723254 original size:6 final size:6
Alignment explanation
Indices: 44723243--44723291 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
44723233 AGCATGTAAT
* *
44723243 GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGGA GGAGGA GGAGAA
1 GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA
44723291 G
1 G
44723292 AAACTAATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (6 bp):
GGAGAA
Found at i:44737706 original size:13 final size:13
Alignment explanation
Indices: 44737688--44737713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44737678 TGAATCTCTG
44737688 ACTAACATATTTC
1 ACTAACATATTTC
44737701 ACTAACATATTTC
1 ACTAACATATTTC
44737714 TTTCTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
ACTAACATATTTC
Found at i:44740655 original size:145 final size:145
Alignment explanation
Indices: 44740477--44740769 Score: 532
Period size: 145 Copynumber: 2.0 Consensus size: 145
44740467 ATCCCATTAC
*
44740477 AAAAATTTACAGCAAATGTATTCATAAAAATTCAAAAATTTTCATCAAATTTCACAACTTTACAT
1 AAAAACTTACAGCAAATGTATTCATAAAAATTCAAAAATTTTCATCAAATTTCACAACTTTACAT
*
44740542 TTTTGTCCCTAAATCTGTTTTCATCAAAAATCACTTTGTAAAAGTTGTTCATCTATCAACAACCT
66 TTTAGTCCCTAAATCTGTTTTCATCAAAAATCACTTTGTAAAAGTTGTTCATCTATCAACAACCT
*
44740607 TTTATTTTCTACCAT
131 TTCATTTTCTACCAT
* *
44740622 AAAAACTTACAGCACATGTATTCATAAAAATTCAAAATTTTTCATCAAATTTCACAACTTTACAT
1 AAAAACTTACAGCAAATGTATTCATAAAAATTCAAAAATTTTCATCAAATTTCACAACTTTACAT
*
44740687 TTTAGTCCCTAAATTTGTTTTCATCAAAAATCACTTTGTAAAAGTTGTTCATCTATCAACAACCT
66 TTTAGTCCCTAAATCTGTTTTCATCAAAAATCACTTTGTAAAAGTTGTTCATCTATCAACAACCT
44740752 TTCATTTTCTACCAT
131 TTCATTTTCTACCAT
44740767 AAA
1 AAA
44740770 TTTCTAATTT
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 142 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.39
Consensus pattern (145 bp):
AAAAACTTACAGCAAATGTATTCATAAAAATTCAAAAATTTTCATCAAATTTCACAACTTTACAT
TTTAGTCCCTAAATCTGTTTTCATCAAAAATCACTTTGTAAAAGTTGTTCATCTATCAACAACCT
TTCATTTTCTACCAT
Found at i:44748289 original size:41 final size:40
Alignment explanation
Indices: 44748244--44748351 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
44748234 AGCGGCATTT
* * *
44748244 TTAGCGGCG-TTTGGATAAAAAACTCCGCTATAGATCGAGTA
1 TTAGCGGCGCTTT--ATAAAAAACGCCGCTATAGATCAAGCA
* *
44748285 TTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAAGCA
1 TTAGCGGCGCTTTATAAAAAACGCCGCTATAGATCAAGCA
* *
44748325 TTAGCGGCGCTTTTTGAAAAACGCCGC
1 TTAGCGGCGCTTTATAAAAAACGCCGC
44748352 AAAAAATAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
40 49 0.80
41 9 0.15
42 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (40 bp):
TTAGCGGCGCTTTATAAAAAACGCCGCTATAGATCAAGCA
Found at i:44748594 original size:154 final size:153
Alignment explanation
Indices: 44748261--44748657 Score: 506
Period size: 153 Copynumber: 2.6 Consensus size: 153
44748251 CGTTTGGATA
* * * * * * *
44748261 AAAAACTCCGCTATAGATCGAGTATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAAGCAT
1 AAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
* ** * * *
44748326 TAGCGGCGCTTTTTGAAAAACGCCGCAAAAAATAAGCACAACTTCGTCATTTTATGTTAAGCTAT
66 TAGCGGCGCTTTTTGAAAAACGCCACAAAAAATAAGCACAACGCCATCACTTTATATTAAGCTAT
44748391 AGTGGCATCAGAGGCGCATTTTC
131 AGTGGCATCAGAGGCGCATTTTC
* *
44748414 AAAAACGCCGCTATAGATTGAGCATTAGTGGCGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
1 AAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
* * * * * * * *
44748479 TAGCGACGCTTTTTTAAGAATGCCACAAAAAATTAAGCATAACGCCATCGCTTTATATTGAGCTT
66 TAGCGGCGCTTTTTGAAAAACGCCACAAAAAA-TAAGCACAACGCCATCACTTTATATTAAGCTA
* * * * *
44748544 TGGTGGCATTAGCGGCGCTTTTTG
130 TAGTGGCATCAGAGGCGCATTTTC
* *
44748568 AAAAACACCGTTATAGATTGAGCATTAGCGGTGCTTTTTTAAAAAACGCCGCTATAGGTCGACCA
1 AAAAACACCGCTATAGATTGAGCATTAGCGGCGC-TTTTTAAAAAACGCCGCTATAGGTCGACCA
44748633 TTAGCGGCGCTTTTTGAAAAACGCC
65 TTAGCGGCGCTTTTTGAAAAACGCC
44748658 GCTATAGATC
Statistics
Matches: 207, Mismatches: 35, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
153 84 0.41
154 72 0.35
155 51 0.25
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (153 bp):
AAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
TAGCGGCGCTTTTTGAAAAACGCCACAAAAAATAAGCACAACGCCATCACTTTATATTAAGCTAT
AGTGGCATCAGAGGCGCATTTTC
Found at i:44748678 original size:40 final size:40
Alignment explanation
Indices: 44748261--44748670 Score: 208
Period size: 40 Copynumber: 10.6 Consensus size: 40
44748251 CGTTTGGATA
* *
44748261 AAAAACTCCGCTATAGATCGAGTATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
*
44748301 AAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * * * **
44748341 AAAAACGCCGCAAAAAAT-AAGCA-CAACTTCGTCATTTTATG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCG-C-TTTT-TG
** * * * *
44748382 -TTAA----GCTATAG-T-G-GCATCAGAGGCGCATTTTC
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * *
44748414 AAAAACGCCGCTATAGATTGAGCATTAGTGGCGCTTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * *
44748454 AAAAACGCCGCTATAGGTCGACCATTAGCGACGCTTTTTT
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * * * ** * **
44748494 AAGAATGCCACAAAAAATTAAGCATAACGCCATCGC--TTT-
1 AAAAACGCCGCTATAGATCGAGCATTA-G-CGGCGCTTTTTG
* ** * * *
44748533 -ATATTG-AGCT-TTGGT-G-GCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
44748568 AAAAACACCGTTATAGATTGAGCATTAGCGGTGCTTTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGC-TTTTTG
* *
44748609 AAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
44748649 AAAAACGCCGCTATAGATCGAG
1 AAAAACGCCGCTATAGATCGAG
44748671 TTTTAGCGTC
Statistics
Matches: 268, Mismatches: 79, Indels: 46
0.68 0.20 0.12
Matches are distributed among these distances:
32 5 0.02
33 6 0.02
34 12 0.04
35 5 0.02
36 7 0.03
37 10 0.04
38 12 0.04
39 8 0.03
40 163 0.61
41 36 0.13
42 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:44748693 original size:40 final size:40
Alignment explanation
Indices: 44748550--44748699 Score: 131
Period size: 40 Copynumber: 3.7 Consensus size: 40
44748540 GCTTTGGTGG
* * * * * *
44748550 CATTAGCGGCGCTTTTTGAAAAACACCGTTATAGATTGAG
1 CATTAGCGGCGCTTTATCAAAAACGCCGCTATAGATCGAC
* * * *
44748590 CATTAGCGGTGCTTTTTTAAAAAACGCCGCTATAGGTCGAC
1 CATTAGCGGCGC-TTTATCAAAAACGCCGCTATAGATCGAC
* * *
44748631 CATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAG
1 CATTAGCGGCGCTTTATCAAAAACGCCGCTATAGATCGAC
** *
44748671 TTTTAGCGTCAG-TTTATCAAAAACGCCGC
1 CATTAGCGGC-GCTTTATCAAAAACGCCGC
44748700 AAAAAATGTT
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 58 0.63
41 34 0.37
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (40 bp):
CATTAGCGGCGCTTTATCAAAAACGCCGCTATAGATCGAC
Found at i:44748693 original size:81 final size:80
Alignment explanation
Indices: 44748550--44748699 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 80
44748540 GCTTTGGTGG
* * * *
44748550 CATTAGCGGCGCTTTTTGAAAAACACCGTTATAGATTGAGCATTAGCGGTGCTTTTTTAAAAAAC
1 CATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTAGCGGTGC-TTTATCAAAAAC
44748615 GCCGCTATAGGTCGAC
65 GCCGCTATAGGTCGAC
* **
44748631 CATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGTTTTAGC-GT-CAGTTTATCAAAAA
1 CATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTAGCGGTGC--TTTATCAAAAA
44748694 CGCCGC
64 CGCCGC
44748700 AAAAAATGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.02
80 17 0.28
81 42 0.70
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (80 bp):
CATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGCATTAGCGGTGCTTTATCAAAAACG
CCGCTATAGGTCGAC
Found at i:44748766 original size:29 final size:29
Alignment explanation
Indices: 44748734--44748792 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
44748724 ATTATTTAAC
44748734 TGGTTTATTTATATTAATTAAAATACAAT
1 TGGTTTATTTATATTAATTAAAATACAAT
44748763 TGGTTTATTTATATTAATTAAAATACAAT
1 TGGTTTATTTATATTAATTAAAATACAAT
44748792 T
1 T
44748793 TATTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (29 bp):
TGGTTTATTTATATTAATTAAAATACAAT
Found at i:44748982 original size:14 final size:14
Alignment explanation
Indices: 44748963--44749016 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
44748953 TTAATTATCA
44748963 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
44748977 TTATAGTTTAGGAT
1 TTATAGTTTAGGGT
*
44748991 ATATAGTTTAGGGT
1 TTATAGTTTAGGGT
44749005 TTA-AGCTTTAGG
1 TTATAG-TTTAGG
44749017 AGATACTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 2 0.06
14 33 0.94
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:44749002 original size:28 final size:29
Alignment explanation
Indices: 44748964--44749037 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
44748954 TAATTATCAT
*
44748964 TATAGTTTAGGGTTTATAG-TTTAGGATA
1 TATAGTTTAGGGTTTATAGCTTTAGGAGA
44748992 TATAGTTTAGGGTTTA-AGCTTTAGGAGA
1 TATAGTTTAGGGTTTATAGCTTTAGGAGA
* *
44749020 TACTATTTTAAGGTTTAT
1 TA-TAGTTTAGGGTTTAT
44749038 GGATTATAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.05
28 26 0.65
29 12 0.30
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (29 bp):
TATAGTTTAGGGTTTATAGCTTTAGGAGA
Found at i:44749059 original size:28 final size:27
Alignment explanation
Indices: 44748962--44749060 Score: 84
Period size: 28 Copynumber: 3.8 Consensus size: 27
44748952 ATTAATTATC
44748962 ATTATAGTTTAGGGTTTATA-GTTTAGG
1 ATTATAGTTTAGGGTTTA-AGGTTTAGG
*
44748989 ATATATAGTTTAGGGTTTAAGCTTTAGG
1 AT-TATAGTTTAGGGTTTAAGGTTTAGG
* * *
44749017 A-GATA--CTA--TTTTAAGGTTTATGG
1 ATTATAGTTTAGGGTTTAAGGTTTA-GG
*
44749040 ATTATAGTTTATGGTTTAAGG
1 ATTATAGTTTAGGGTTTAAGG
44749061 GTTGGGGGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
22 10 0.18
23 3 0.05
24 5 0.09
26 5 0.09
27 3 0.05
28 30 0.54
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.45
Consensus pattern (27 bp):
ATTATAGTTTAGGGTTTAAGGTTTAGG
Found at i:44749534 original size:21 final size:21
Alignment explanation
Indices: 44749495--44749554 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
44749485 ATATAGTTAG
* *
44749495 GGTCTAAGGTGTA-GGTTTAT
1 GGTCTAAGATTTAGGGTTTAT
*
44749515 GGTTTAAGATTTAGGGTTTAT
1 GGTCTAAGATTTAGGGTTTAT
* *
44749536 GGTCTAGGATTTGGGGTTT
1 GGTCTAAGATTTAGGGTTT
44749555 GGTGTTTGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.18, C:0.03, G:0.35, T:0.43
Consensus pattern (21 bp):
GGTCTAAGATTTAGGGTTTAT
Found at i:44754474 original size:19 final size:20
Alignment explanation
Indices: 44754452--44754501 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
44754442 CAAAAATAAA
44754452 ATAAAATATAATATT-TATC
1 ATAAAATATAATATTATATC
*
44754471 ATAAAA-ATAAATATTATATG
1 ATAAAATAT-AATATTATATC
44754491 ATTAAAATATA
1 A-TAAAATATA
44754502 TTTTTTAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.08
19 12 0.46
20 4 0.15
21 6 0.23
22 2 0.08
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAATATAATATTATATC
Found at i:44754479 original size:20 final size:21
Alignment explanation
Indices: 44754454--44754501 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
44754444 AAAATAAAAT
44754454 AAAATATAATATT-TATCATA
1 AAAATATAATATTATATCATA
* *
44754474 AAAATA-AATATTATATGATT
1 AAAATATAATATTATATCATA
44754494 AAAATATA
1 AAAATATA
44754502 TTTTTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 17 0.71
21 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATATAATATTATATCATA
Found at i:44754598 original size:42 final size:43
Alignment explanation
Indices: 44754507--44754653 Score: 242
Period size: 43 Copynumber: 3.4 Consensus size: 43
44754497 ATATATTTTT
* **
44754507 TAAAGGTTATGTTCTTTAGCGGCACTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
44754550 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GAAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
44754592 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
44754635 TAAAGGTCATGTTCTTTAG
1 TAAAGGTCATGTTCTTTAG
44754654 AGGTGTTTTT
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 41 0.42
43 56 0.58
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:44766429 original size:39 final size:40
Alignment explanation
Indices: 44766384--44766551 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
44766374 CGGGGTTTAG
* * *
44766384 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
44766423 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
44766463 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
44766503 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
44766544 CCGGATAT
1 CCGGATAT
44766552 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:44766534 original size:41 final size:40
Alignment explanation
Indices: 44766407--44766551 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
44766397 CTCGCACAAG
* * * * *
44766407 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
44766447 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
44766487 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
44766528 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
44766552 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:44768850 original size:30 final size:31
Alignment explanation
Indices: 44768803--44768860 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
44768793 GATTCATCCA
44768803 TGGAAAATAAAATAAAAAA-AAGGATGAAAT
1 TGGAAAATAAAATAAAAAATAAGGATGAAAT
* *
44768833 TGGAAAGTGAAAA-AAAAAATAATGATGA
1 TGGAAAAT-AAAATAAAAAATAAGGATGA
44768861 TCAATGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (31 bp):
TGGAAAATAAAATAAAAAATAAGGATGAAAT
Found at i:44768977 original size:28 final size:28
Alignment explanation
Indices: 44768937--44768994 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
44768927 TAGGAAAGAG
*
44768937 AAAGTAAGCTTTCTTGGCTTAATTGGGT
1 AAAGCAAGCTTTCTTGGCTTAATTGGGT
44768965 AAAGCAAGCTTTCTTGGCTTAATTGGGT
1 AAAGCAAGCTTTCTTGGCTTAATTGGGT
44768993 AA
1 AA
44768995 GTAATTTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (28 bp):
AAAGCAAGCTTTCTTGGCTTAATTGGGT
Found at i:44770049 original size:23 final size:24
Alignment explanation
Indices: 44770004--44770049 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
44769994 CCTGTTACAT
*
44770004 GGCTCTTTGTGAGCATTCCTGATA
1 GGCTCTTCGTGAGCATTCCTGATA
44770028 GGCTCTTCGTGAGC-TTCCTGAT
1 GGCTCTTCGTGAGCATTCCTGAT
44770050 TAAAAGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (24 bp):
GGCTCTTCGTGAGCATTCCTGATA
Found at i:44771129 original size:22 final size:21
Alignment explanation
Indices: 44771104--44771164 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
44771094 TGGTTATAAA
44771104 CCATAATCA-ATGTAGCATAGAG
1 CCATAATCAGATG--GCATAGAG
*
44771126 CCATAATTAGGATGGCATAGAG
1 CCATAATCA-GATGGCATAGAG
44771148 CCATAATCAGGATGGCA
1 CCATAATCA-GATGGCA
44771165 CAAGGCTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 32 0.91
24 3 0.09
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (21 bp):
CCATAATCAGATGGCATAGAG
Found at i:44771740 original size:27 final size:26
Alignment explanation
Indices: 44771710--44771918 Score: 170
Period size: 27 Copynumber: 7.8 Consensus size: 26
44771700 TTCCTTACAG
* *
44771710 GGGTATTTCGATAATTTTACACCACAA
1 GGGTATTTCGATAATTTTACA-AACTA
* * * ** *
44771737 GGGTATTTTGGTAATTGTACACTTCAA
1 GGGTATTTCGATAATTTTACA-AACTA
* * *
44771764 TGGTATTTC-AGTAATTTTACAAATTG
1 GGGTATTTCGA-TAATTTTACAAACTA
* *
44771790 GGGTATTTCGGTAATTTTACAAATTA
1 GGGTATTTCGATAATTTTACAAACTA
* * *
44771816 GGGTATTTTGGTAATTTTACAAACTG
1 GGGTATTTCGATAATTTTACAAACTA
44771842 GAGGTATTTCGATAATTTTACAAACTGA
1 G-GGTATTTCGATAATTTTACAAACT-A
* *
44771870 GGGTATTTC-AGTAATTTTACAAATTGG
1 GGGTATTTCGA-TAATTTTACAAACT-A
*
44771897 GGGTATTTCGGTAATTTTACAA
1 GGGTATTTCGATAATTTTACAA
44771919 TCCGAGGTCT
Statistics
Matches: 150, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 47 0.31
27 102 0.68
28 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
GGGTATTTCGATAATTTTACAAACTA
Found at i:44771803 original size:26 final size:26
Alignment explanation
Indices: 44771765--44771918 Score: 218
Period size: 27 Copynumber: 5.8 Consensus size: 26
44771755 ACACTTCAAT
*
44771765 GGTATTTCAGTAATTTTACAAATTGG
1 GGTATTTCGGTAATTTTACAAATTGG
*
44771791 GGTATTTCGGTAATTTTACAAATTAG
1 GGTATTTCGGTAATTTTACAAATTGG
* *
44771817 GGTATTTTGGTAATTTTACAAACTGG
1 GGTATTTCGGTAATTTTACAAATTGG
* *
44771843 AGGTATTTCGATAATTTTACAAACTGAG
1 -GGTATTTCGGTAATTTTACAAATTG-G
*
44771871 GGTATTTCAGTAATTTTACAAATTGGG
1 GGTATTTCGGTAATTTTACAAATT-GG
44771898 GGTATTTCGGTAATTTTACAA
1 GGTATTTCGGTAATTTTACAA
44771919 TCCGAGGTCT
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
26 47 0.41
27 65 0.57
28 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAAATTGG
Found at i:44775961 original size:27 final size:26
Alignment explanation
Indices: 44775931--44776032 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
44775921 CAGTGACTGT
*
44775931 AATATAATTGGCACATAGCCACGGGTA
1 AATATGATTGGCACATAGCCAC-GGTA
* * * * **
44775958 AATATGATCGACACAGAGTCATCAATA
1 AATATGATTGGCACATAGCCA-CGGTA
*
44775985 AATATGATTGGCACTTAGCCACAGGTA
1 AATATGATTGGCACATAGCCAC-GGTA
* *
44776012 AATACGATTGGCACAAAGCCA
1 AATATGATTGGCACATAGCCA
44776033 TAATCAAGAT
Statistics
Matches: 56, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
AATATGATTGGCACATAGCCACGGTA
Found at i:44776045 original size:22 final size:23
Alignment explanation
Indices: 44776017--44776086 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 23
44776007 AGGTAAATAC
*
44776017 GATTGGCACAAAGCCATAATCAA
1 GATTGGCACAGAGCCATAATCAA
**
44776040 GA-TGGCACAGAGCCAT-ATTTA
1 GATTGGCACAGAGCCATAATCAA
44776061 GATTGGCACAGAGCCATAATC-A
1 GATTGGCACAGAGCCATAATCAA
44776083 GATT
1 GATT
44776087 ACGCGGCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.12
22 32 0.78
23 4 0.10
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (23 bp):
GATTGGCACAGAGCCATAATCAA
Found at i:44776461 original size:27 final size:27
Alignment explanation
Indices: 44776431--44776645 Score: 127
Period size: 27 Copynumber: 8.0 Consensus size: 27
44776421 TCATTTTGCC
*
44776431 CTACAAGGGTATTTTAGTAATTTTACA
1 CTACAAGGGTATTTCAGTAATTTTACA
* * *
44776458 CTACAAGGGTA-TACGGTAATTGTACA
1 CTACAAGGGTATTTCAGTAATTTTACA
* *
44776484 CTACAAGGGTATTTCAGTAGTTTCACA
1 CTACAAGGGTATTTCAGTAATTTTACA
* **
44776511 -AATCGGGGGTATTTCAGTAATTTTACA
1 CTA-CAAGGGTATTTCAGTAATTTTACA
* * * *
44776538 -AATTAGGGGTAATTT-GGTAATTTTACA
1 CTA-CAAGGGT-ATTTCAGTAATTTTACA
* *
44776565 AT-CTAAGGGTATTTCGGTAATTTTACA
1 CTAC-AAGGGTATTTCAGTAATTTTACA
* ** *
44776592 -AACTGGGAGTATTTCAATAATTTTACA
1 CTACAAGG-GTATTTCAGTAATTTTACA
* * ** *
44776619 ATCCGGGGGTATTTCAATAATTTTACA
1 CTACAAGGGTATTTCAGTAATTTTACA
44776646 AATTGGGGGT
Statistics
Matches: 151, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
26 29 0.19
27 114 0.75
28 8 0.05
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
CTACAAGGGTATTTCAGTAATTTTACA
Found at i:44776575 original size:54 final size:53
Alignment explanation
Indices: 44776516--44776778 Score: 278
Period size: 54 Copynumber: 4.9 Consensus size: 53
44776506 TCACAAATCG
* * *
44776516 GGGGTATTTCAGTAATTTTACAAATTAGGGGTAATTTGGTAATTTTACAATCTA
1 GGGGTATTTCAGTAATTTTACAAACT-GGGGTATTTTGGTAATTTTACAATCCA
* * *** *
44776570 AGGGTATTTCGGTAATTTTACAAACTGGGAGTATTTCAATAATTTTACAATCCG
1 GGGGTATTTCAGTAATTTTACAAACTGGG-GTATTTTGGTAATTTTACAATCCA
* * * *
44776624 GGGGTATTTCAATAATTTTACAAATTGGGGGTATTTTGGTAATCTTACAAAT-TA
1 GGGGTATTTCAGTAATTTTACAAACT-GGGGTATTTTGGTAATTTTAC-AATCCA
* * *
44776678 GGGGTATTTTAGTAATTTTACAAACTGGGTGTATTTTGGTAATTGTACAAACCA
1 GGGGTATTTCAGTAATTTTACAAACTGGG-GTATTTTGGTAATTTTACAATCCA
* * *
44776732 GGGGTATTT-TGATAATTTTTCAAAATGGGGGTATTTTGGTAATTTTA
1 GGGGTATTTCAG-TAATTTTACAAACT-GGGGTATTTTGGTAATTTTA
44776779 AAATTCGAGG
Statistics
Matches: 172, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
53 9 0.05
54 154 0.90
55 9 0.05
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGGTATTTCAGTAATTTTACAAACTGGGGTATTTTGGTAATTTTACAATCCA
Found at i:44776634 original size:108 final size:108
Alignment explanation
Indices: 44776492--44776783 Score: 358
Period size: 108 Copynumber: 2.7 Consensus size: 108
44776482 CACTACAAGG
* * * *
44776492 GTATTTCAGTAGTTTCACAAAT-CGGGGGTATTTCAGTAATTTTACAAATTAGGGGTAATTTGGT
1 GTATTTCAGTAATTTTAC-AATCCGGGGGTATTTCAGTAATTTTACAAATTGGGGGTATTTTGGT
*
44776556 AATTTTAC-AATCTAAGGGTATTTCGGTAATTTTACAAACTGGGA
65 AATTTTACAAAT-TAAGGGTATTTCAGTAATTTTACAAACTGGGA
* *
44776600 GTATTTCAATAATTTTACAATCCGGGGGTATTTCAATAATTTTACAAATTGGGGGTATTTTGGTA
1 GTATTTCAGTAATTTTACAATCCGGGGGTATTTCAGTAATTTTACAAATTGGGGGTATTTTGGTA
* * * *
44776665 ATCTTACAAATTAGGGGTATTTTAGTAATTTTACAAACTGGGT
66 ATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACTGGGA
** * * * * * *
44776708 GTATTTTGGTAATTGTACAAACCAGGGGTATTT-TGATAATTTTTCAAAATGGGGGTATTTTGGT
1 GTATTTCAGTAATTTTACAATCCGGGGGTATTTCAG-TAATTTTACAAATTGGGGGTATTTTGGT
44776772 AATTTTA-AAATT
65 AATTTTACAAATT
44776784 CGAGGTCTTA
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
107 8 0.05
108 148 0.93
109 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (108 bp):
GTATTTCAGTAATTTTACAATCCGGGGGTATTTCAGTAATTTTACAAATTGGGGGTATTTTGGTA
ATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACTGGGA
Found at i:44776646 original size:27 final size:27
Alignment explanation
Indices: 44776490--44776783 Score: 238
Period size: 27 Copynumber: 10.9 Consensus size: 27
44776480 TACACTACAA
* * *
44776490 GGGTATTTCAGTAGTTTCACAAATCGG
1 GGGTATTTCAGTAATTTTACAAATTGG
*
44776517 GGGTATTTCAGTAATTTTACAAATTAG
1 GGGTATTTCAGTAATTTTACAAATTGG
* **
44776544 GGGTAATTT-GGTAATTTTAC-AATCTAA
1 GGGT-ATTTCAGTAATTTTACAAAT-TGG
* *
44776571 GGGTATTTCGGTAATTTTACAAACTGG
1 GGGTATTTCAGTAATTTTACAAATTGG
* * *
44776598 GAGTATTTCAATAATTTTAC-AATCCGG
1 GGGTATTTCAGTAATTTTACAAAT-TGG
*
44776625 GGGTATTTCAATAATTTTACAAATTGG
1 GGGTATTTCAGTAATTTTACAAATTGG
** * *
44776652 GGGTATTTTGGTAATCTTACAAATTAG
1 GGGTATTTCAGTAATTTTACAAATTGG
* *
44776679 GGGTATTTTAGTAATTTTACAAACTGG
1 GGGTATTTCAGTAATTTTACAAATTGG
* ** * ***
44776706 GTGTATTTTGGTAATTGTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAATTGG
* * *
44776733 GGGTATTT-TGATAATTTTTCAAAATGG
1 GGGTATTTCAG-TAATTTTACAAATTGG
**
44776760 GGGTATTTTGGTAATTTTA-AAATT
1 GGGTATTTCAGTAATTTTACAAATT
44776784 CGAGGTCTTA
Statistics
Matches: 219, Mismatches: 40, Indels: 17
0.79 0.14 0.06
Matches are distributed among these distances:
26 14 0.06
27 195 0.89
28 10 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATTGG
Found at i:44777044 original size:18 final size:18
Alignment explanation
Indices: 44776998--44777050 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
44776988 CATCCGTGTG
44776998 AGGCCC-ACGAGCCCATT
1 AGGCCCAACGAGCCCATT
*
44777015 AGGTCCACACGA-CCCATTT
1 AGGCCCA-ACGAGCCCA-TT
44777034 AGGCCCAACGAGGCCCA
1 AGGCCCAACGA-GCCCA
44777051 AAACTACCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 5 0.17
18 8 0.28
19 12 0.41
20 4 0.14
ACGTcount: A:0.26, C:0.40, G:0.23, T:0.11
Consensus pattern (18 bp):
AGGCCCAACGAGCCCATT
Found at i:44787111 original size:56 final size:56
Alignment explanation
Indices: 44787015--44787255 Score: 290
Period size: 56 Copynumber: 4.3 Consensus size: 56
44787005 TCTTATATGT
* * * * *
44787015 AATCACATATCGATGCC-ACTGTCTCAGACAG-GGTCATACTCGCACATATATATCGG
1 AATCACATATCGATGCCAAC-GTATAAAAC-GTGGTCTTACTCGCACACATATATCGG
*
44787071 AGTCACATATCGATGCCAACGTATAAAACGTGGTCTTACTCGCACTA-ATATATCGG
1 AATCACATATCGATGCCAACGTATAAAACGTGGTCTTACTCGCAC-ACATATATCGG
* * * ** *
44787127 AATCACATATTGATGCCAGCGTAGAAAACGTGGTCTTACTCGTGCACATATATCAG
1 AATCACATATCGATGCCAACGTATAAAACGTGGTCTTACTCGCACACATATATCGG
* * *
44787183 AATCACATATCGATGTCGACGTATAAAACGTGATCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCAACGTATAAAACGTGGTCTTACTCGCACACATATATCGG
*
44787239 AATCACATGTCGATGCC
1 AATCACATATCGATGCC
44787256 TAATATAAAT
Statistics
Matches: 158, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
55 2 0.01
56 153 0.97
57 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATAAAACGTGGTCTTACTCGCACACATATATCGG
Found at i:44794774 original size:23 final size:23
Alignment explanation
Indices: 44794744--44794817 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
44794734 TAAAGAGAAA
44794744 GAAATCCTTCCCCAAAAATAATG
1 GAAATCCTTCCCCAAAAATAATG
*** * * *
44794767 GAAATCC-T-AGGAAAGAGAA-A
1 GAAATCCTTCCCCAAAAATAATG
*
44794787 GAAAGCCTTCCCCAAAAATAATG
1 GAAATCCTTCCCCAAAAATAATG
44794810 GAAATCCT
1 GAAATCCT
44794818 AGGAAAGAGA
Statistics
Matches: 34, Mismatches: 14, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
20 6 0.18
21 7 0.21
22 7 0.21
23 14 0.41
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.18
Consensus pattern (23 bp):
GAAATCCTTCCCCAAAAATAATG
Found at i:44794782 original size:43 final size:43
Alignment explanation
Indices: 44794706--44794835 Score: 224
Period size: 43 Copynumber: 3.0 Consensus size: 43
44794696 TTATCATCTT
* * *
44794706 CTTCCCCAAAAATACATGGAAACCCTAGTAAAGAGAAAGAAATC
1 CTTCCCCAAAAATA-ATGGAAATCCTAGGAAAGAGAAAGAAAGC
44794750 CTTCCCCAAAAATAATGGAAATCCTAGGAAAGAGAAAGAAAGC
1 CTTCCCCAAAAATAATGGAAATCCTAGGAAAGAGAAAGAAAGC
44794793 CTTCCCCAAAAATAATGGAAATCCTAGGAAAGAGAAAGAAAGC
1 CTTCCCCAAAAATAATGGAAATCCTAGGAAAGAGAAAGAAAGC
44794836 TTTTTTGGGT
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
43 69 0.83
44 14 0.17
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.15
Consensus pattern (43 bp):
CTTCCCCAAAAATAATGGAAATCCTAGGAAAGAGAAAGAAAGC
Found at i:44795943 original size:26 final size:23
Alignment explanation
Indices: 44795882--44795927 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
44795872 CCTATTACAT
*
44795882 GGCTCTTTGTGAGCATTCCTGATA
1 GGCTCTTTGTGAGC-TTCCAGATA
*
44795906 GGCTCTTCGTGAGCTTCCAGAT
1 GGCTCTTTGTGAGCTTCCAGAT
44795928 TAAGAGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (23 bp):
GGCTCTTTGTGAGCTTCCAGATA
Found at i:44796218 original size:23 final size:23
Alignment explanation
Indices: 44796180--44796234 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
44796170 ACATGAGAAA
*
44796180 ATATGA-ACATGAAAATGATGAT
1 ATATGATATATGAAAATGATGAT
44796202 ATATGATATATGAAAATGATGAT
1 ATATGATATATGAAAATGATGAT
*
44796225 ACATCGATAT
1 ATAT-GATAT
44796235 TTCAAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 6 0.21
23 18 0.62
24 5 0.17
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.31
Consensus pattern (23 bp):
ATATGATATATGAAAATGATGAT
Found at i:44801859 original size:49 final size:47
Alignment explanation
Indices: 44801727--44802026 Score: 209
Period size: 49 Copynumber: 6.3 Consensus size: 47
44801717 CTCCAAACAT
* ** *
44801727 GGTCTTACACTAGCTCTCACATCTAAGTCGATGCCATGCCCCAGACA
1 GGTCTTACACTAGCTCTCATATCTGTGTCGATGCCATGTCCCAGACA
* * * * * *
44801774 GGTTTTACAC-CGACT-TACATA-CATTGAGGCCAATGCCATGTCCTAGACA
1 GGTCTTACACTAG-CTCT-CATATC--TG-TGTCGATGCCATGTCCCAGACA
*
44801823 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACA
1 GGTCTTACACTAGCTCTCA--TATCTGTGTCGATGCCATGTCCCAGACA
* * ** ** * * *
44801872 GGTCTTACACTA--ACACACCTC-AAGCCAATGCCATGTCCCAGATA
1 GGTCTTACACTAGCTCTCATATCTGTGTCGATGCCATGTCCCAGACA
* * * * **
44801916 GGTCTTACACTAGCTTTCATATCTTGAGGTAGATGCCGTGTCTTAGACA
1 GGTCTTACACTAGCTCTCATATC-TG-TGTCGATGCCATGTCCCAGACA
44801965 GGTCTTACACTAGCTCTCATCTATCTGTGTCGATGCCATGTCCC-GACA
1 GGTCTTACACTAGCTCTCA--TATCTGTGTCGATGCCATGTCCCAGACA
*
44802013 AGTCTTACACTAGC
1 GGTCTTACACTAGC
44802027 ACACACATCA
Statistics
Matches: 190, Mismatches: 46, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
44 30 0.16
45 2 0.01
46 7 0.04
47 17 0.09
48 18 0.09
49 103 0.54
50 6 0.03
51 6 0.03
52 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GGTCTTACACTAGCTCTCATATCTGTGTCGATGCCATGTCCCAGACA
Found at i:44801923 original size:93 final size:93
Alignment explanation
Indices: 44801727--44801976 Score: 263
Period size: 93 Copynumber: 2.6 Consensus size: 93
44801717 CTCCAAACAT
* * * *
44801727 GGTCTTACACTAGCTCTCAC-ATCTAAGTCGATGCCATGCCCCAGACAGGTTTTACACCGACTTA
1 GGTCTTACACTAGCTCTCACTATCTGAGTCGATGCCATGTCCCAGACAGGTCTT--A-C-ACTAA
* * * * *
44801791 CATACATTGAGGCCAATGCCATGTCCTAGACA
62 CACACACTCAAGCCAATGCCATGTCCCAGACA
* *
44801823 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTAACAC
1 GGTCTTACACTAGCTCTCAC-TATCTGAGTCGATGCCATGTCCCAGACAGGTCTTACACTAACAC
*
44801888 AC-CTCAAGCCAATGCCATGTCCCAGATA
65 ACACTCAAGCCAATGCCATGTCCCAGACA
* * * **
44801916 GGTCTTACACTAGCTTTCA-TATCTTGAGGTAGATGCCGTGTCTTAGACAGGTCTTACACTA
1 GGTCTTACACTAGCTCTCACTATC-TGA-GTCGATGCCATGTCCCAGACAGGTCTTACACTA
44801977 GCTCTCATCT
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
91 4 0.03
92 2 0.02
93 67 0.51
94 8 0.06
95 1 0.01
96 20 0.15
98 29 0.22
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
GGTCTTACACTAGCTCTCACTATCTGAGTCGATGCCATGTCCCAGACAGGTCTTACACTAACACA
CACTCAAGCCAATGCCATGTCCCAGACA
Found at i:44810113 original size:49 final size:48
Alignment explanation
Indices: 44810060--44810326 Score: 176
Period size: 49 Copynumber: 5.6 Consensus size: 48
44810050 ATCTAAGTCA
44810060 ATGCCATGTCCCAGATAGGTCTTACACTGACTTACATACATCAAGGCCG
1 ATGCCATGTCCCAGATAGGTCTTACACTGACTT-CATACATCAAGGCCG
* * * * * *
44810109 ATGCCATGTCCCAGTTAGGTTTTACACTGGCTCTCACT-TATC-TGTGTCG
1 ATGCCATGTCCCAGATAGGTCTTACACTGACT-TCA-TACATCAAG-GCCG
* * * * *
44810158 ATGCCATGTCCCAGACAGGTCTTACACTAAC-GC--ACCTTAA-GCCG
1 ATGCCATGTCCCAGATAGGTCTTACACTGACTTCATACATCAAGGCCG
* * * * *
44810202 ATGCCATGTCCCAAACAGGTCTTACACT-AGCTTGCATATCCT-GAGGTCG
1 ATGCCATGTCCCAGATAGGTCTTACACTGA-CTT-CATA-CATCAAGGCCG
* * ** * *
44810251 ATGCCGTGTCCCAGA-AGGTCTTACACTGCCTCTCAT-CTATTGATGCTG
1 ATGCCATGTCCCAGATAGGTCTTACACTGACT-TCATAC-ATCAAGGCCG
*
44810299 ATGCCATGTCCTAGATAGGTCTTACACT
1 ATGCCATGTCCCAGATAGGTCTTACACT
44810327 AGCACACATA
Statistics
Matches: 171, Mismatches: 30, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 1 0.01
46 2 0.01
47 2 0.01
48 37 0.22
49 95 0.56
50 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGATAGGTCTTACACTGACTTCATACATCAAGGCCG
Found at i:44814967 original size:46 final size:46
Alignment explanation
Indices: 44814802--44814977 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
44814792 TGTAACTCGC
* * *
44814802 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCAGG-CATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC-GGACGTTCGCAT
** * * * *
44814848 CCATAAGTGAACTC-GAACTCAACTCAACGAGTTCAAATGCCTAG-TT
1 CCATAAGTGAACTCAG-ACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
44814894 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
44814941 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
44814978 TGCCCAAATA
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
45 3 0.03
46 63 0.63
47 31 0.31
48 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
Done.