Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 156 of 325
Found at i:49434693 original size:9 final size:9
Alignment explanation
Indices: 49434678--49434729 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
49434668 TTGGGTTAAG
49434678 AAATTAATT
1 AAATTAATT
* *
49434687 TAATTAA-G
1 AAATTAATT
49434695 AAATTAATT
1 AAATTAATT
* *
49434704 TAGTTAATT
1 AAATTAATT
*
49434713 AAATTGATT
1 AAATTAATT
49434722 AAATTAAT
1 AAATTAAT
49434730 ATTTTGGGAA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (9 bp):
AAATTAATT
Found at i:49434695 original size:17 final size:17
Alignment explanation
Indices: 49434673--49434710 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
49434663 TTAGATTGGG
49434673 TTAAGAAATTAATTTAA
1 TTAAGAAATTAATTTAA
*
49434690 TTAAGAAATTAATTTAG
1 TTAAGAAATTAATTTAA
49434707 TTAA
1 TTAA
49434711 TTAAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
TTAAGAAATTAATTTAA
Found at i:49436120 original size:26 final size:27
Alignment explanation
Indices: 49436069--49436122 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
49436059 ATCATTTAGA
49436069 AGACTTAGAAAATTTTTTCAAGGAAAC
1 AGACTTAGAAAATTTTTTCAAGGAAAC
* *
49436096 AGACTTAGAAATTTTTTTCAAGAAAAC
1 AGACTTAGAAAATTTTTTCAAGGAAAC
49436123 CCTGTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (27 bp):
AGACTTAGAAAATTTTTTCAAGGAAAC
Found at i:49439401 original size:28 final size:28
Alignment explanation
Indices: 49439363--49439420 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
49439353 CTCCTCGGTT
*
49439363 TTTTTTTTTAATTTTGAT-AGGGTTAGGG
1 TTTTTTTTTAATTTTG-TGAGGGTTAAGG
49439391 TTTTTTTTTAATTTTGTGAGGGTTAAGG
1 TTTTTTTTTAATTTTGTGAGGGTTAAGG
49439419 TT
1 TT
49439421 AAAGCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (28 bp):
TTTTTTTTTAATTTTGTGAGGGTTAAGG
Found at i:49453715 original size:545 final size:541
Alignment explanation
Indices: 49452690--49453775 Score: 1841
Period size: 545 Copynumber: 2.0 Consensus size: 541
49452680 TCAGTAACAA
*
49452690 AGTTCATGTTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
1 AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
*
49452755 CATTTATATATATATAAGAGCATATATTATTCTTAATTCATACAAACATTCATAATGGCAAATAA
66 CATTTATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAATGGCAAATAA
**
49452820 ACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAGGATTTAATTGCA
131 ACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAGGACCTAATTGCA
49452885 TATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATAAAATT
196 TATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATAAAATT
*
49452950 TTGGGTTAAAACTATAATTTCTTGTTTCTAGGGGACACACAACTATGTTACCAAACCATGTGGGG
261 TTGGGTTAAAACTATAATTTCTTGTTTCTAGGGGACACACAACTATGTGACCAAACCATGTGGGG
* * * *
49453015 AGCTCTGGGCTGTGTAGTTAGGCCTTGTAAGAGTCTAAGGTCGTGTGACATTCAAAATTTCAACC
326 AGCTCTGGGATGTGTAGCTAGGCCTTGTAAGAGACTAAGGCCGTGTGACATTCAAAATTTCAACC
* *
49453080 TACAAGGAAGAAATGATCGTGTGGCAGGCCGTGTGGGGGGTCTTAAGCCGTGTGAGAAGCGAAAA
391 TACAAGGAAGAAACGATCGTGTGGCAGGCCGTGCGGGGGGTCTTAAGCCGTGTGAGAAGCGAAAA
* * *
49453145 CCTAGGGTTTCAAGGGGGAACCTAACTATGTGTGAGGTCATGCAATCCACATTGGCGGGCCACAC
456 CCTAAGGTTTCAAGGGGGAACCTAACTATGTGTGAGATCATGCAATACACATTGGCGGGCCACAC
* *
49453210 GCCCATATGGACTGGGCTGTT
521 GCCCATACGGACTAGGCTGTT
* *
49453231 AGTTCATGCTTTTCTATATTTAGATAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCCAA
1 AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
* *
49453296 CATTTATATGTATATATATAAGAACATATATTATTCTTAATTCATGCTAACATTCATAATGGCAA
66 CA-TT-TA--TATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAATGGCAA
49453361 ATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATC-AGAGACCTAA
127 ATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAG-GACCTAA
49453425 TTGCATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATA
191 TTGCATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATA
*
49453490 AAATTTTGGGTTAAAACTATAATTTCTTGTTTCTAGGGGACACACGACTATGTGACCAAACCATG
256 AAATTTTGGGTTAAAACTATAATTTCTTGTTTCTAGGGGACACACAACTATGTGACCAAACCATG
* * *
49453555 TGGGGAGCTTTGGGATGTGTGGCTAGGCCTTGTAAGAGACTGAGGCCGTGTGACATTCAAAATTT
321 TGGGGAGCTCTGGGATGTGTAGCTAGGCCTTGTAAGAGACTAAGGCCGTGTGACATTCAAAATTT
* * ** *
49453620 CAATCTATAAGGAAGGCACGGTCGTGTGGCAGGCCGTGCGGGGGGTCTTAAGCCGTGTGAGAAGC
386 CAACCTACAAGGAAGAAACGATCGTGTGGCAGGCCGTGCGGGGGGTCTTAAGCCGTGTGAGAAGC
*
49453685 GAAAACCTAAGGTTTCAAGGGGGAACCTAACTATGTGTGAGATTATGCAATACACATTGGCGGGC
451 GAAAACCTAAGGTTTCAAGGGGGAACCTAACTATGTGTGAGATCATGCAATACACATTGGCGGGC
*
49453750 CACACGCCCGTACGGACTAGGCTGTT
516 CACACGCCCATACGGACTAGGCTGTT
49453776 TTGATTTTTG
Statistics
Matches: 509, Mismatches: 31, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
541 64 0.13
542 2 0.00
543 2 0.00
544 2 0.00
545 439 0.86
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (541 bp):
AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
CATTTATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAATGGCAAATAA
ACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAGGACCTAATTGCA
TATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCAAAACATAAAATT
TTGGGTTAAAACTATAATTTCTTGTTTCTAGGGGACACACAACTATGTGACCAAACCATGTGGGG
AGCTCTGGGATGTGTAGCTAGGCCTTGTAAGAGACTAAGGCCGTGTGACATTCAAAATTTCAACC
TACAAGGAAGAAACGATCGTGTGGCAGGCCGTGCGGGGGGTCTTAAGCCGTGTGAGAAGCGAAAA
CCTAAGGTTTCAAGGGGGAACCTAACTATGTGTGAGATCATGCAATACACATTGGCGGGCCACAC
GCCCATACGGACTAGGCTGTT
Found at i:49463096 original size:17 final size:17
Alignment explanation
Indices: 49463076--49463114 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
49463066 AAAATAATAT
*
49463076 TATTTTACTAGATTTAA
1 TATTTTACTAAATTTAA
* *
49463093 TATTATATTAAATTTAA
1 TATTTTACTAAATTTAA
49463110 TATTT
1 TATTT
49463115 ATCTTAATAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTTACTAAATTTAA
Found at i:49463152 original size:20 final size:19
Alignment explanation
Indices: 49463129--49463181 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
49463119 TAATAGTATT
49463129 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
49463148 GTTATT-ATATTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
49463168 -T-TTAATTTAATATT
1 TTATTAATTTAATATT
49463182 TATCTTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.32
18 3 0.10
19 2 0.06
20 16 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:49463161 original size:68 final size:66
Alignment explanation
Indices: 49463087--49463285 Score: 203
Period size: 68 Copynumber: 3.0 Consensus size: 66
49463077 ATTTTACTAG
* *
49463087 ATTTAATATTATATTAAATTTAATATTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTTA
1 ATTTAATATTAAATTTAATTTAATATTTATCTT-ATAGTATTTTATTAATTTAATATTAAAGTTA
49463152 TT
65 TT
* * *
49463154 ATATTAATATTAAATTTAATTTAATATTTATCTTGTAG-ATAATTATT-CTATTAAT-TT-AA--
1 AT-TTAATATTAAATTTAATTTAATATTTATCTTATAGTAT-TTTATTAAT-TTAATATTAAAGT
**
49463213 TAAG
63 TATT
* * * *
49463217 ATTTAATATTAAATTTAATCTGATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTT-AT-AGTATTTTATTAATTTAATATTAAAGTT
49463282 ATT
64 ATT
49463285 A
1 A
49463286 ATTTTAATCA
Statistics
Matches: 105, Mismatches: 16, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
62 29 0.28
63 5 0.05
64 11 0.10
65 7 0.07
66 7 0.07
67 15 0.14
68 31 0.30
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (66 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTATAGTATTTTATTAATTTAATATTAAAGTTAT
T
Found at i:49463232 original size:62 final size:59
Alignment explanation
Indices: 49463157--49463273 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
49463147 AGTTATTATA
* * *
49463157 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAATTATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATAAGAT
*
49463219 TTAATATTAAATTTAATCTGATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
49463274 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATAAGAT
Found at i:49471525 original size:54 final size:54
Alignment explanation
Indices: 49471455--49471564 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
49471445 ACAAGCTTCA
* *
49471455 TACATCAATTAGGTACAGGAATGTTTTGTAGTAACTGATGCGAAGCTAGGCGCT
1 TACATCAATTAGGTACAGGAATGTTCTATAGTAACTGATGCGAAGCTAGGCGCT
*
49471509 TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCGCT
1 TACATCAATTAGGTACAGGAATGTTCTATAGTAACTGATGCGAAGCTAGGCGCT
49471563 TA
1 TA
49471565 GCTGACTGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (54 bp):
TACATCAATTAGGTACAGGAATGTTCTATAGTAACTGATGCGAAGCTAGGCGCT
Found at i:49473752 original size:153 final size:153
Alignment explanation
Indices: 49473468--49473785 Score: 530
Period size: 153 Copynumber: 2.1 Consensus size: 153
49473458 CACGGCCAAG
* * * *
49473468 CACACCGGCATGTGTCTAGGCTGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTAGGTGGCCGT
1 CACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTAGGTGGCCGT
49473533 GTAACTCATAGTTCATCGATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAGCTGTG
66 GTAACTCATAGTTCATCGATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAGCTGTG
49473598 TGTGGCCATGTTAGTGCAAGGTT
131 TGTGGCCATGTTAGTGCAAGGTT
*
49473621 CACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTGGGTGGCCGT
1 CACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTAGGTGGCCGT
* ** *
49473686 GTAATTCATAGTTCATTTATTTGGAGCCACATGGGCAAGGCACATGAGCATGTGTCCAAGAC-GT
66 GTAACTCATAGTTCATCGATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAG-CTGT
*
49473750 GTGTGGCCATGTTAGTGCAGGGTT
130 GTGTGGCCATGTTAGTGCAAGGTT
49473774 CACACGGGCATG
1 CACACGGGCATG
49473786 GGACACGAGC
Statistics
Matches: 154, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
153 153 0.99
154 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (153 bp):
CACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCGTAAGGCCGTGTAGGTGGCCGT
GTAACTCATAGTTCATCGATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAGCTGTG
TGTGGCCATGTTAGTGCAAGGTT
Found at i:49474467 original size:16 final size:16
Alignment explanation
Indices: 49474431--49474471 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
49474421 CTGATCTGCA
* *
49474431 ATATATATATATGAAT
1 ATATGTATATATAAAT
49474447 -T-TGTATATATAAAT
1 ATATGTATATATAAAT
49474461 ATATGTATATA
1 ATATGTATATA
49474472 ATTGTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.52
15 2 0.10
16 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (16 bp):
ATATGTATATATAAAT
Found at i:49476394 original size:68 final size:66
Alignment explanation
Indices: 49476320--49476518 Score: 198
Period size: 68 Copynumber: 3.0 Consensus size: 66
49476310 ATTTTAATAG
* * *
49476320 ATTTAATATTAAATTTAATTTAATACTTATCTTAAT-ATTATTTTATTAATTTAATATGAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATAT-AAA-TG
49476384 ATT
64 ATT
* *
49476387 ATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-AT-AA
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAATATTATATTAATTTAATATAAA
49476449 --A--
62 TGATT
* * *
49476450 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAATG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATA-T-AAATG
49476515 ATT
64 ATT
49476518 A
1 A
49476519 AGTTTAATCA
Statistics
Matches: 109, Mismatches: 9, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 28 0.26
63 2 0.02
64 2 0.02
65 1 0.01
66 1 0.01
67 2 0.02
68 30 0.28
69 1 0.01
70 4 0.04
71 3 0.03
72 14 0.13
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (66 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATAAATGAT
T
Found at i:49476513 original size:62 final size:62
Alignment explanation
Indices: 49476390--49476506 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
49476380 AGTGATTATC
* * *
49476390 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAAAT
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAAAT
*
49476452 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
49476507 TTAAAATGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (62 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAAAT
Found at i:49477702 original size:82 final size:82
Alignment explanation
Indices: 49477565--49477728 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 82
49477555 TAGGCCACTT
* *
49477565 GATTAAGTAAGACTAGAAATACATGGCAATACTCGAATAAGTTGATATGAGATATCATACTTATT
1 GATTAAGTAAGACTAGAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
49477630 TGTTTATTGTAGTTTAC
66 TGTTTATTGTAGTTTAC
* *
49477647 GATTAAGTAAGACTAGAAATAAATGGCAATGCTCGAATAAGTTGATATAAGATATCATTCTTATT
1 GATTAAGTAAGACTAGAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
49477712 TGTTTATTGTAGTTTAC
66 TGTTTATTGTAGTTTAC
49477729 TCGAGATATC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (82 bp):
GATTAAGTAAGACTAGAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
TGTTTATTGTAGTTTAC
Found at i:49482235 original size:20 final size:20
Alignment explanation
Indices: 49482212--49482296 Score: 84
Period size: 20 Copynumber: 4.2 Consensus size: 20
49482202 TAAAAATCAA
*
49482212 TAAAAGTTATAAAAAAATAT
1 TAAAAATTATAAAAAAATAT
**
49482232 TAAATTTTA-ATAAAAAATAT
1 TAAAAATTATA-AAAAAATAT
* *
49482252 TAAAAATTAGAAAAAAAAAT
1 TAAAAATTATAAAAAAATAT
*
49482272 ATAAAAATCATAAAAAAATA-
1 -TAAAAATTATAAAAAAATAT
49482292 TAAAA
1 TAAAA
49482297 GTGTAAACTT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
19 6 0.11
20 31 0.57
21 17 0.31
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAATTATAAAAAAATAT
Found at i:49482276 original size:21 final size:19
Alignment explanation
Indices: 49482243--49482296 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
49482233 AAATTTTAAT
*
49482243 AAAAAATATTAAAAATTAGAAA
1 AAAAAATA-TAAAAA-T-CAAA
*
49482265 AAAAAATATAAAAATCATA
1 AAAAAATATAAAAATCAAA
49482284 AAAAAATATAAAA
1 AAAAAATATAAAA
49482297 GTGTAAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 15 0.50
20 1 0.03
21 6 0.20
22 8 0.27
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAAATATAAAAATCAAA
Found at i:49482344 original size:10 final size:10
Alignment explanation
Indices: 49482308--49482347 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
49482298 TGTAAACTTT
49482308 TATATAAATA
1 TATATAAATA
49482318 GTA-ATAAAT-
1 -TATATAAATA
49482327 TATA-AAATA
1 TATATAAATA
49482336 TATATAAATA
1 TATATAAATA
49482346 TA
1 TA
49482348 GAAAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.23
9 5 0.19
10 13 0.50
11 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
TATATAAATA
Found at i:49482347 original size:17 final size:19
Alignment explanation
Indices: 49482307--49482344 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49482297 GTGTAAACTT
49482307 TTATATAAATAGTAATAAA
1 TTATATAAATAGTAATAAA
49482326 TTATA-AAATA-TATATAAA
1 TTATATAAATAGTA-ATAAA
49482344 T
1 T
49482345 ATAGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 11 0.61
19 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TTATATAAATAGTAATAAA
Found at i:49482628 original size:19 final size:19
Alignment explanation
Indices: 49482604--49482687 Score: 100
Period size: 19 Copynumber: 4.4 Consensus size: 19
49482594 GTTAAAGGGC
49482604 ATTTTTTATGCA-TTTTATA
1 ATTTTTTATG-ATTTTTATA
49482623 ATTTTTTATGATTTTTATA
1 ATTTTTTATGATTTTTATA
** *
49482642 AAATTTTATAATTTTT-TA
1 ATTTTTTATGATTTTTATA
49482660 TATTTTATTATGATTTTTATA
1 -ATTTT-TTATGATTTTTATA
49482681 ATTTTTT
1 ATTTTTT
49482688 TCTAATTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
18 3 0.05
19 35 0.64
20 15 0.27
21 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTTATGATTTTTATA
Found at i:49482629 original size:10 final size:10
Alignment explanation
Indices: 49482616--49482687 Score: 78
Period size: 10 Copynumber: 7.4 Consensus size: 10
49482606 TTTTTATGCA
49482616 TTTTATAATT
1 TTTTATAATT
*
49482626 TTTTATGA-T
1 TTTTATAATT
**
49482635 TTTTATAAAA
1 TTTTATAATT
49482645 TTTTATAATT
1 TTTTATAATT
49482655 TTTTAT-ATT
1 TTTTATAATT
*
49482664 TTATTATGA-T
1 TT-TTATAATT
49482674 TTTTATAATT
1 TTTTATAATT
49482684 TTTT
1 TTTT
49482688 TCTAATTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
9 18 0.35
10 33 0.63
11 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:49482696 original size:10 final size:11
Alignment explanation
Indices: 49482616--49482696 Score: 52
Period size: 10 Copynumber: 8.1 Consensus size: 11
49482606 TTTTTATGCA
49482616 TTTTATAA-TT
1 TTTTATAATTT
*
49482626 TTTTATGA--T
1 TTTTATAATTT
**
49482635 TTTTATAA-AA
1 TTTTATAATTT
49482645 TTTTATAA-TT
1 TTTTATAATTT
49482655 TTTTAT-ATTT
1 TTTTATAATTT
* *
49482665 TATTATGA--T
1 TTTTATAATTT
49482674 TTTTATAATTT
1 TTTTATAATTT
*
49482685 TTTTCTAATTT
1 TTTTATAATTT
49482696 T
1 T
49482697 AATAAAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
9 16 0.28
10 28 0.49
11 13 0.23
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:49482740 original size:58 final size:59
Alignment explanation
Indices: 49482615--49482744 Score: 160
Period size: 58 Copynumber: 2.2 Consensus size: 59
49482605 TTTTTTATGC
* * *
49482615 ATTTTATAA-TTTTTTATGATTTTTATAAAATTTTATAATTTTTTATATTTTATTATGA
1 ATTTTATAATTTTTTTATAATTTTAATAAAATTTTATAATTTTTTATATTTTATTATAA
* *
49482673 TTTTTATAATTTTTTTCTAATTTTAATAAAA-TTTA-AATATTTTTATATTTTTATTA-AA
1 ATTTTATAATTTTTTTATAATTTTAATAAAATTTTATAAT-TTTTTATA-TTTTATTATAA
*
49482731 ATTTAATAATTTTT
1 ATTTTATAATTTTT
49482745 ATAACTTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
57 3 0.05
58 33 0.53
59 26 0.42
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.63
Consensus pattern (59 bp):
ATTTTATAATTTTTTTATAATTTTAATAAAATTTTATAATTTTTTATATTTTATTATAA
Found at i:49482745 original size:10 final size:9
Alignment explanation
Indices: 49482616--49482755 Score: 84
Period size: 9 Copynumber: 14.7 Consensus size: 9
49482606 TTTTTATGCA
49482616 TTTTATAATT
1 TTTTATAA-T
*
49482626 TTTTATGAT
1 TTTTATAAT
*
49482635 TTTTATAAAA
1 TTTTAT-AAT
49482645 TTTTATAATT
1 TTTTATAA-T
*
49482655 TTTTATATT
1 TTTTATAAT
*
49482664 TTATTATGAT
1 TT-TTATAAT
49482674 TTTTATAATTT
1 TTTTATAA--T
*
49482685 TTTTCTAAT
1 TTTTATAAT
* *
49482694 TTTAATAAA
1 TTTTATAAT
* *
49482703 ATTTAAATAT
1 TTTTATA-AT
49482713 TTTTAT-AT
1 TTTTATAAT
*
49482721 TTTTATTAAAA
1 TTTTA-T-AAT
*
49482732 TTTAATAAT
1 TTTTATAAT
*
49482741 TTTTATAAC
1 TTTTATAAT
49482750 TTTTAT
1 TTTTAT
49482756 TTGGTTTTTT
Statistics
Matches: 98, Mismatches: 23, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
8 7 0.07
9 44 0.45
10 34 0.35
11 13 0.13
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:49482754 original size:29 final size:28
Alignment explanation
Indices: 49482615--49482756 Score: 119
Period size: 28 Copynumber: 4.9 Consensus size: 28
49482605 TTTTTTATGC
*
49482615 ATTTTATAATTTTTTATGATTTT-TATAAA
1 ATTTTATAA-TTTTTATAATTTTAT-TAAA
*
49482644 ATTTTATAATTTTT-TATATTTTATTATGA
1 ATTTTATAATTTTTATA-ATTTTATTA-AA
* * *
49482673 TTTTTATAATTTTTTTCTAATTTTAATAAA
1 ATTTTATAA--TTTTTATAATTTTATTAAA
* *
49482703 A-TTTAAATATTTTTATATTTTTATTAAA
1 ATTTTATA-ATTTTTATAATTTTATTAAA
*
49482731 ATTTAATAATTTTTATAACTTTTATT
1 ATTTTATAATTTTTATAA-TTTTATT
49482757 TGGTTTTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
27 1 0.01
28 38 0.42
29 35 0.38
30 2 0.02
31 13 0.14
32 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (28 bp):
ATTTTATAATTTTTATAATTTTATTAAA
Found at i:49483033 original size:89 final size:87
Alignment explanation
Indices: 49482900--49483061 Score: 236
Period size: 89 Copynumber: 1.8 Consensus size: 87
49482890 TTGCTTCTTC
* ** *
49482900 TTTTTTTGAAAAGTTTGAGGGTTTTTTTATGCATTTTGACAGTTCAAGTACCCAATTGAG-TGAA
1 TTTTTTTGAAAAATTTGAGGCCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGCTGAA
49482964 AATAAAAAGCAGGGACTTAATTT
66 AA-AAAAAGCAGGGACTTAATTT
* *
49482987 TTTTTTTGAAAAATTTGGAGGACCTTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGCTT
1 TTTTTTTGAAAAATTT-GAGG-CCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGCTG
49483052 AAAAAAAAAG
64 AAAAAAAAAG
49483062 GCTTAATTAC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
87 15 0.23
88 4 0.06
89 42 0.64
90 5 0.08
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (87 bp):
TTTTTTTGAAAAATTTGAGGCCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGCTGAA
AAAAAAAGCAGGGACTTAATTT
Found at i:49484137 original size:268 final size:268
Alignment explanation
Indices: 49483784--49484316 Score: 904
Period size: 268 Copynumber: 2.0 Consensus size: 268
49483774 AAGGGGTGAG
*
49483784 AATCCAACTCCTCGATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCCGAGTGGTAAGTGTGCCA
1 AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCCGAGTGGTAAGTGTGCCA
* *
49483849 AAATCATTTTGAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGGATT
66 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
* * *
49483914 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCGTAGGTTCTCGATAGTGGAGTGGGTCAAATACG
131 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
* * * * *
49483979 TAATTAGGTGGGTGAAAATAACCCAAAAATTCCTTAGAAACTCGACTAAAATCGCAAAACAAAGG
196 TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAAAGA
49484044 TTGTACAA
261 TTGTACAA
* * *
49484052 AATCCAACTCCTCCATCATAGTAGGCTTCTAGTTGGTCGCTATTTTCTGAGTGGTAAGTGTGCCA
1 AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCCGAGTGGTAAGTGTGCCA
*
49484117 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTTTTAATTGGTTAGGTTTTGATGAATT
66 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
* *
49484182 GATTTGTGTGTTTTGTTTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
131 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
*
49484247 TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAGAGA
196 TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAAAGA
49484312 TTGTA
261 TTGTA
49484317 TGAAATTGCC
Statistics
Matches: 247, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
268 247 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (268 bp):
AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCCGAGTGGTAAGTGTGCCA
AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAAAGA
TTGTACAA
Found at i:49484679 original size:15 final size:15
Alignment explanation
Indices: 49484647--49484675 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49484637 ATTTTCTGTG
49484647 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
49484662 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
49484676 ATTTTGGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:49489678 original size:33 final size:33
Alignment explanation
Indices: 49489641--49489708 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
49489631 AAAGAAACAT
* *
49489641 TGAATCAGTACTTGTTGTGTGCGAGTATCTGGA
1 TGAATCAGTACCTGTTGTGTGCGAGTATCCGGA
*
49489674 TGAATTAGTACCTGTTGTGTGCGAGTATCCGGA
1 TGAATCAGTACCTGTTGTGTGCGAGTATCCGGA
49489707 TG
1 TG
49489709 TGTTTCATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.13, G:0.31, T:0.35
Consensus pattern (33 bp):
TGAATCAGTACCTGTTGTGTGCGAGTATCCGGA
Found at i:49493395 original size:35 final size:35
Alignment explanation
Indices: 49493351--49493547 Score: 279
Period size: 35 Copynumber: 5.6 Consensus size: 35
49493341 TCCTCATTGA
*
49493351 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCGGTAT-GGAT
** * *
49493386 AATACCATACCTACGTTTCTTAACTCAGCATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
**
49493421 AATACCATACCTACGTTTCACAACTTAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* *
49493456 GATACCATACCTACGTTTCACAACTCGGTATAGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* *
49493491 GATACCATACCTACGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
49493526 AATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
49493548 CTTTGCCATA
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
34 3 0.02
35 142 0.98
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCGGTATGGAT
Found at i:49506022 original size:23 final size:23
Alignment explanation
Indices: 49505979--49506023 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49505969 GAAAAGAACT
* *
49505979 GAAAAGAAATCTAAAGCCTAAAA
1 GAAAAGAAAACTAAAGACTAAAA
49506002 GAAAAGAAAACTGAAA-ACTAAA
1 GAAAAGAAAACT-AAAGACTAAA
49506024 TTACAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (23 bp):
GAAAAGAAAACTAAAGACTAAAA
Found at i:49511517 original size:20 final size:20
Alignment explanation
Indices: 49511488--49511525 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49511478 CAATGCAATG
*
49511488 TATGTCTCGAGACTTGGCAA
1 TATGTCTCGAGACATGGCAA
*
49511508 TATGTTTCGAGACATGGC
1 TATGTCTCGAGACATGGC
49511526 TGAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
TATGTCTCGAGACATGGCAA
Found at i:49518266 original size:52 final size:52
Alignment explanation
Indices: 49518189--49518303 Score: 194
Period size: 52 Copynumber: 2.2 Consensus size: 52
49518179 GGCTCGCACG
49518189 AAAAATAAGAGAATTTGAATAAAAATATAGACTCGAAAAATGGGCTTGAACA
1 AAAAATAAGAGAATTTGAATAAAAATATAGACTCGAAAAATGGGCTTGAACA
* * *
49518241 AAAAATGAGAGGATTTGAGTAAAAATATAGACTCGAAAAATGGGCTTGAACA
1 AAAAATAAGAGAATTTGAATAAAAATATAGACTCGAAAAATGGGCTTGAACA
49518293 AAAAGATAAGA
1 AAAA-ATAAGA
49518304 TCCGTTTAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 53 0.91
53 5 0.09
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (52 bp):
AAAAATAAGAGAATTTGAATAAAAATATAGACTCGAAAAATGGGCTTGAACA
Found at i:49523194 original size:343 final size:343
Alignment explanation
Indices: 49522568--49523256 Score: 1342
Period size: 343 Copynumber: 2.0 Consensus size: 343
49522558 TGATCCAGAA
49522568 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
1 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
49522633 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
66 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
* *
49522698 ATGTCAAGGCTGATCTAGTTGCTTATGCTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
131 ATATCAAGGCTGATCTAGTTGCTTATACTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
49522763 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
196 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
* *
49522828 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAATCTAGTGAAGCTTCCTAAGGGTAAAAAGG
261 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTAAAGCTTCCTAAGGGTAAAAAGG
49522893 TTGTTCATTGTAAATAAG
326 TTGTTCATTGTAAATAAG
49522911 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
1 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
49522976 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
66 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
49523041 ATATCAAGGCTGATCTAGTTGCTTATACTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
131 ATATCAAGGCTGATCTAGTTGCTTATACTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
49523106 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
196 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
49523171 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTAAAGCTTCCTAAGGGTAAAAAGG
261 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTAAAGCTTCCTAAGGGTAAAAAGG
49523236 TTGTTCATTGTAAATAAG
326 TTGTTCATTGTAAATAAG
49523254 TGT
1 TGT
49523257 TCAAGAAGAA
Statistics
Matches: 342, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
343 342 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (343 bp):
TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
ATATCAAGGCTGATCTAGTTGCTTATACTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGTCATGCAATA
AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTAAAGCTTCCTAAGGGTAAAAAGG
TTGTTCATTGTAAATAAG
Found at i:49523575 original size:21 final size:21
Alignment explanation
Indices: 49523551--49523593 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
49523541 TTCCTAAGAA
49523551 AGTCCATTTATGGC-CTGAAAC
1 AGTCCATTTATGGCTC-GAAAC
*
49523572 AGTCCCTTTATGGCTCGAAAC
1 AGTCCATTTATGGCTCGAAAC
49523593 A
1 A
49523594 ATCACCAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (21 bp):
AGTCCATTTATGGCTCGAAAC
Found at i:49530547 original size:16 final size:18
Alignment explanation
Indices: 49530508--49530549 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
49530498 AAAATTTATA
49530508 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
49530525 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
49530542 A-ATTTATA
1 ATATTTATA
49530550 ACATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:49534255 original size:29 final size:29
Alignment explanation
Indices: 49534198--49534275 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
49534188 ATTAATAACA
*
49534198 TTTATAAAAATATAGAAAATTTTTTAAAT
1 TTTATAAAAATATAGAAAATTTTTAAAAT
49534227 TTTACTAAAAACT-TAGAAAA-TTTTAAAAT
1 TTTA-TAAAAA-TATAGAAAATTTTTAAAAT
*
49534256 TATT-TAAAAAT-TATAAAATT
1 T-TTATAAAAATATAGAAAATT
49534276 ACGATAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
27 7 0.16
28 7 0.16
29 13 0.30
30 15 0.35
31 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTATAAAAATATAGAAAATTTTTAAAAT
Found at i:49534305 original size:21 final size:21
Alignment explanation
Indices: 49534251--49534319 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
49534241 AGAAAATTTT
*
49534251 AAAATTATTTAAAAAT-TA-T
1 AAAATTATTTAAAAATATAGA
**
49534270 AAAATTA-CGATAAAATATAGA
1 AAAATTATTTA-AAAATATAGA
49534291 AAAATTATTTAAAAATATAGA
1 AAAATTATTTAAAAATATAGA
*
49534312 AAGATTAT
1 AAAATTAT
49534320 AAATTTTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.30
20 2 0.05
21 24 0.60
22 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (21 bp):
AAAATTATTTAAAAATATAGA
Found at i:49534416 original size:19 final size:20
Alignment explanation
Indices: 49534384--49534426 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
49534374 TAAAATGATA
*
49534384 AAAAAATTATTAAAATTCAT
1 AAAAAATCATTAAAATTCAT
*
49534404 AAAAAATCA-TAAAATTTAT
1 AAAAAATCATTAAAATTCAT
49534423 AAAA
1 AAAA
49534427 TATATTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATCATTAAAATTCAT
Found at i:49534443 original size:28 final size:27
Alignment explanation
Indices: 49534405--49534473 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 27
49534395 AAAATTCATA
* *
49534405 AAAAATCATAAAATTTATAAAA-TATATT
1 AAAAAT-ATAAAATATAGAAAATTAT-TT
49534433 ACAAAATATAAGAATATAGAAAATTATTT
1 A-AAAATATAA-AATATAGAAAATTATTT
*
49534462 AAAATTATAAAA
1 AAAAATATAAAA
49534474 AATGGGTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 2 0.06
28 13 0.37
29 17 0.49
30 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAAATATAAAATATAGAAAATTATTT
Found at i:49535977 original size:16 final size:17
Alignment explanation
Indices: 49535934--49535980 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
49535924 CAGTCATGCA
*
49535934 ATACTCAATTCATGAAT
1 ATACTCAATTCATGAAC
* *
49535951 ATA-TCATTTCAT-ACC
1 ATACTCAATTCATGAAC
49535966 ATACTCAATTCATGA
1 ATACTCAATTCATGA
49535981 GTATATAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (17 bp):
ATACTCAATTCATGAAC
Found at i:49537365 original size:5 final size:5
Alignment explanation
Indices: 49537355--49537421 Score: 104
Period size: 5 Copynumber: 14.0 Consensus size: 5
49537345 ATTCTTTTAT
49537355 TATAA TATAA TAT-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
*
49537404 TA-CA -ATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA
49537422 CATTTACTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
3 1 0.02
4 6 0.11
5 50 0.88
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:49539064 original size:17 final size:17
Alignment explanation
Indices: 49539042--49539076 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
49539032 ATCTTAAGTG
49539042 GATGACGAACTATGTAT
1 GATGACGAACTATGTAT
49539059 GATGACGAACTATGTAT
1 GATGACGAACTATGTAT
49539076 G
1 G
49539077 CGTGACTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (17 bp):
GATGACGAACTATGTAT
Found at i:49540704 original size:13 final size:13
Alignment explanation
Indices: 49540686--49540717 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
49540676 CCCAAAATGT
49540686 CACACGGCTATGG
1 CACACGGCTATGG
49540699 CACACGGCTATGG
1 CACACGGCTATGG
49540712 CACACG
1 CACACG
49540718 CCCGTGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.34, G:0.28, T:0.12
Consensus pattern (13 bp):
CACACGGCTATGG
Found at i:49541639 original size:50 final size:50
Alignment explanation
Indices: 49541519--49541746 Score: 187
Period size: 47 Copynumber: 4.8 Consensus size: 50
49541509 TAAGGTACCG
* * * * *
49541519 ATGCCATGTCCCAGACATGGTCTTACA-TAG-ACTCATATCTCAAGTG--G
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CGTGCCA
*
49541566 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCA
* * * *
49541616 ATGCCATATCCCAGACATGGTCTTACACT-G---ACACATCT-CGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCA
* * * **
49541662 ATG-CATGTCCCAGACAT-GACTTACACTAGCTCT--CGTTTCAATG-CA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCA
*
49541707 GATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTCACA
1 -ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA
49541747 ATGTGGCCTG
Statistics
Matches: 144, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
44 9 0.06
45 18 0.12
46 19 0.13
47 41 0.28
48 20 0.14
49 9 0.06
50 28 0.19
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCA
Found at i:49543625 original size:25 final size:25
Alignment explanation
Indices: 49543597--49543692 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
49543587 GAGGAAGTGC
* *
49543597 AAAAGGGCTATGCCCTAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
* *
49543622 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTG
* * *
49543647 AAAAGGGCTTTTGCCCTAGTCTA-TCA
1 AAAAGGGC-TTTGCCCCAGTTTACT-G
49543673 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
49543693 ATTAAAAGAG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
25 38 0.66
26 20 0.34
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:49543666 original size:51 final size:50
Alignment explanation
Indices: 49543597--49543692 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 50
49543587 GAGGAAGTGC
* * *
49543597 AAAAGGGCTATGCCCTAGTTTA-CTGAAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCTAGTCTATC-AAAAAGGGCTTTGCCCCAGTTTACCG
*
49543647 AAAAGGGCTTTTGCCCTAGTCTATCAAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGC-TATGCCCTAGTCTATCAAAAAGGGCTTTGCCCCAGTT
49543693 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 8 0.20
51 31 0.77
52 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTATGCCCTAGTCTATCAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:49543705 original size:24 final size:24
Alignment explanation
Indices: 49543596--49543719 Score: 67
Period size: 25 Copynumber: 5.0 Consensus size: 24
49543586 GGAGGAAGTG
* *
49543596 CAAAAG-GGCTATGCCCTAGTTTACT
1 CAAAAGAGGCTTTGCCCCAG-TTA-T
* * *
49543621 GAAAAG-GGTTTTGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
*
49543645 CGAAAAG-GGCTTTTGCCCTAGTCTAT
1 C-AAAAGAGGC-TTTGCCCCAGT-TAT
49543671 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
49543695 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
49543720 ATGTTAAAGA
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
24 14 0.18
25 50 0.63
26 15 0.19
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:49543952 original size:31 final size:31
Alignment explanation
Indices: 49543912--49543995 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
49543902 TTGTTACAGT
*
49543912 AAAA-GCTTCGGCCTAGTGATATGAATAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
49543942 AAAAGGCTTCGGCCCAGTGATATGAATAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
*
49543973 TAAAGGCTTCGGCCCAGT-ATATG
1 AAAAGGCTTCGGCCCAGTGATATG
49543996 CTGAGATTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 9 0.18
31 42 0.82
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGAATAATG
Found at i:49551160 original size:46 final size:46
Alignment explanation
Indices: 49551109--49551286 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
49551099 GATGTTTGGG
49551109 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *** * * * *
49551155 TATCCGAACTCGTTGAGTTGAGTCAGAGTTCGAGAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-A
* * *
49551202 CATCCGAGCTCATTGAGTTGAGTCCGGGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** *
49551248 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49551287 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 71 0.68
47 33 0.32
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:49551266 original size:93 final size:93
Alignment explanation
Indices: 49551107--49551278 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
49551097 AGGATGTTTG
* * *
49551107 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
49551172 TTGAGTCAGAGTTCGAGAGATGTAACTA
66 TTGAGTCAGAGTTCGAGAGATGTAACTA
* * * *
49551200 GGCATCCGAGCTCATTGAGTTGAGTCCGGGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
*
49551265 TTGAGTCCGAGTTC
66 TTGAGTCAGAGTTC
49551279 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCAGAGTTCGAGAGATGTAACTA
Found at i:49554558 original size:26 final size:25
Alignment explanation
Indices: 49554489--49554584 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
49554479 GAGGAAGTGC
*
49554489 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
49554514 AAAAGGGCTTTGCCCCAGTTTGCCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * * *
49554539 AAAAGGGCTTTTGCTCCAGTCTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCG
49554565 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
49554585 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 41 0.67
26 20 0.33
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:49554821 original size:31 final size:31
Alignment explanation
Indices: 49554774--49554857 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
49554764 TTGTTACAGT
*
49554774 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
49554805 AAAGACTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
49554836 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
49554858 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:49555670 original size:30 final size:30
Alignment explanation
Indices: 49555636--49555695 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
49555626 TGGAAATTCC
49555636 ACTATCTCAATGATCATTACACATTCTCAA
1 ACTATCTCAATGATCATTACACATTCTCAA
49555666 ACTATCTCAATGATCATTACACATTCTCAA
1 ACTATCTCAATGATCATTACACATTCTCAA
49555696 CTCCATAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (30 bp):
ACTATCTCAATGATCATTACACATTCTCAA
Found at i:49561191 original size:25 final size:26
Alignment explanation
Indices: 49561161--49561209 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
49561151 TGAATTTGTC
*
49561161 ATTTTTTTTCT-TAATTTGATACTTA
1 ATTTTTTTTATCTAATTTGATACTTA
*
49561186 ATTTTTTTTATCTAATTTGGTACT
1 ATTTTTTTTATCTAATTTGATACT
49561210 CAAATTTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.63
Consensus pattern (26 bp):
ATTTTTTTTATCTAATTTGATACTTA
Found at i:49561215 original size:27 final size:25
Alignment explanation
Indices: 49561161--49561216 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
49561151 TGAATTTGTC
* *
49561161 ATTTTTTTTCTTAATTTGATACTTA
1 ATTTTTTTTATTAATTTGATACTAA
*
49561186 ATTTTTTTTATCTAATTTGGTACTCAA
1 ATTTTTTTTAT-TAATTTGATACT-AA
49561213 ATTT
1 ATTT
49561217 GGCCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 11 0.42
27 5 0.19
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTTTTTTTATTAATTTGATACTAA
Found at i:49561489 original size:24 final size:23
Alignment explanation
Indices: 49561445--49561490 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
49561435 TATGTTTTTA
*
49561445 TTTTATTTTATATGTTCAATTAC
1 TTTTATTTTATATATTCAATTAC
* *
49561468 TTTTAGTTTTATTTATTTAATTA
1 TTTTA-TTTTATATATTCAATTA
49561491 ATTGTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATATATTCAATTAC
Found at i:49576651 original size:19 final size:19
Alignment explanation
Indices: 49576627--49576663 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49576617 TTAATGTGCG
*
49576627 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
49576646 AATATATATATATGTGTG
1 AATATATATATATGTGTG
49576664 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:49576937 original size:41 final size:41
Alignment explanation
Indices: 49576875--49577214 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
49576865 GTTTGGAATT
* *
49576875 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49576916 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49576957 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49576998 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49577039 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49577080 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49577121 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49577162 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
49577203 GGTGATCCGAAT
1 GGTGATCTGAAT
49577215 ATGATGAATT
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:49577012 original size:82 final size:82
Alignment explanation
Indices: 49576875--49577208 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
49576865 GTTTGGAATT
49576875 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
49576940 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
49576957 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
49577022 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
49577039 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
49577104 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
49577121 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
49577186 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
49577203 GGTGAT
1 GGTGAT
49577209 CCGAATATGA
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:49577585 original size:102 final size:103
Alignment explanation
Indices: 49577460--49577669 Score: 406
Period size: 102 Copynumber: 2.1 Consensus size: 103
49577450 TTTATAGTTT
49577460 ATAA-GTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
49577524 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
49577562 ATAATGTAT-AAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
49577626 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
49577664 ATAATG
1 ATAATG
49577670 ATTATGTTAG
Statistics
Matches: 107, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 103 0.96
103 4 0.04
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (103 bp):
ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
Found at i:49583648 original size:19 final size:19
Alignment explanation
Indices: 49583624--49583660 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49583614 TTAATGTGCG
*
49583624 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
49583643 AATATATATATATGTGTG
1 AATATATATATATGTGTG
49583661 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:49583934 original size:41 final size:41
Alignment explanation
Indices: 49583872--49584211 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
49583862 GTTTGGAATT
* *
49583872 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49583913 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49583954 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49583995 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49584036 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49584077 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49584118 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
49584159 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
49584200 GGTGATCCGAAT
1 GGTGATCTGAAT
49584212 ATGATGAATT
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:49584009 original size:82 final size:82
Alignment explanation
Indices: 49583872--49584205 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
49583862 GTTTGGAATT
49583872 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
49583937 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
49583954 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
49584019 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
49584036 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
49584101 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
49584118 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
49584183 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
49584200 GGTGAT
1 GGTGAT
49584206 CCGAATATGA
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:49584640 original size:103 final size:103
Alignment explanation
Indices: 49584457--49584667 Score: 415
Period size: 103 Copynumber: 2.1 Consensus size: 103
49584447 TTTATAGTTT
49584457 ATAA-GTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
49584521 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
49584559 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
49584624 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
49584662 ATAATG
1 ATAATG
49584668 ATTATGTTAG
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 4 0.04
103 104 0.96
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (103 bp):
ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
Found at i:49598592 original size:55 final size:54
Alignment explanation
Indices: 49598511--49598669 Score: 178
Period size: 55 Copynumber: 2.9 Consensus size: 54
49598501 TACGTGGTAT
*
49598511 CCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
* * * * * ***
49598563 CCTTTGCCTTGTGGTAACTCATCAATGCCATGTCTCGACATGGTCTTACATGATTT
1 CC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
* * *
49598619 CCTTGCCTTATAGAACTTATCGATGTCATGCCTTGGCATGGTCTTACATGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
49598670 TATCCTTATC
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
52 2 0.02
53 8 0.09
54 33 0.38
55 42 0.48
56 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (54 bp):
CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
Found at i:49598669 original size:54 final size:54
Alignment explanation
Indices: 49598482--49598777 Score: 225
Period size: 54 Copynumber: 5.6 Consensus size: 54
49598472 CTTGCCATTT
* * * * * *
49598482 CCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
* ** * * *
49598535 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTGTGGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTTATCAATG
* * * *
49598590 CCATGTCTCGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCGATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
* * ** * *
49598644 TCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA-AA--TGTC-ATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA-TAGAACTTATCAATG
* ** * * *
49598695 ---TTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
* *
49598745 CCATGCCTTGGCATGGTCTTACATGATAACCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
49598778 ATCTTACCAA
Statistics
Matches: 190, Mismatches: 40, Indels: 25
0.75 0.16 0.10
Matches are distributed among these distances:
46 1 0.01
47 28 0.15
48 3 0.02
49 3 0.02
50 3 0.02
51 3 0.02
52 5 0.03
53 34 0.18
54 65 0.34
55 43 0.23
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
Found at i:49598709 original size:47 final size:47
Alignment explanation
Indices: 49598655--49598824 Score: 169
Period size: 47 Copynumber: 3.5 Consensus size: 47
49598645 CATGCCTTGG
49598655 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
* * ** * * ***
49598702 CATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTATCTTA-CCAA-ATGTC-ATG---TTCC-AAA
* *
49598756 CATGGTCTTACATGATAACCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
*
49598803 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGATATCCTT
49598825 GTTGTAACAC
Statistics
Matches: 94, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
47 46 0.49
48 5 0.05
49 4 0.04
50 3 0.03
51 3 0.03
52 3 0.03
53 5 0.05
54 25 0.27
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
Found at i:49598731 original size:101 final size:101
Alignment explanation
Indices: 49598600--49598826 Score: 382
Period size: 101 Copynumber: 2.2 Consensus size: 101
49598590 CCATGTCTCG
* * * * * *
49598600 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCGATGTCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
* *
49598665 CATGATATCCTTATCTTACCAAATGTCATGTTCCAA
66 CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
49598701 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
49598766 CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
49598802 ACATGGTCTTACATGGTATCCTTGT
1 ACATGGTCTTACATGGTATCCTTGT
49598827 TGTAACACCC
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 118 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
Found at i:49602171 original size:44 final size:44
Alignment explanation
Indices: 49602120--49602206 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
49602110 GTATCCTTAA
* *
49602120 CCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTT
* *
49602164 CCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
49602207 GAGATATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
Found at i:49604927 original size:46 final size:46
Alignment explanation
Indices: 49604874--49605046 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
49604864 TGGTTGAGCA
* *
49604874 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
49604920 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
49604967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
49605013 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49605047 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49605030 original size:93 final size:93
Alignment explanation
Indices: 49604871--49605041 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
49604861 GGATGGTTGA
* * *
49604871 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
49604936 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
49604964 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
49605029 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49605042 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49605308 original size:19 final size:20
Alignment explanation
Indices: 49605271--49605308 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49605261 ATAAGGTGGT
49605271 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
49605291 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
49605309 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:49610483 original size:40 final size:40
Alignment explanation
Indices: 49610409--49610648 Score: 286
Period size: 40 Copynumber: 5.8 Consensus size: 40
49610399 GACCCAAGTA
* * *
49610409 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
49610448 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
49610488 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
49610528 CCTTCAGGACTTAGCCCTAAGTCTCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAG--C-----C-CGGATATAGTCAATAGCACAAATG
* *
49610576 CCTCCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
49610616 CCTTCGGGACTTAGCCCGGATATCAGTCGAATA
1 CCTTCGGGACTTAGCCCGGATAT-AGTC-AATA
49610649 ATCATGCACA
Statistics
Matches: 174, Mismatches: 15, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
39 11 0.06
40 114 0.66
41 8 0.05
42 4 0.02
46 1 0.01
47 1 0.01
48 35 0.20
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:49610613 original size:88 final size:88
Alignment explanation
Indices: 49610464--49610632 Score: 311
Period size: 88 Copynumber: 1.9 Consensus size: 88
49610454 GGTCTTAGCC
**
49610464 CGGATATAGTCAATAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CGGATATAGTCAATAGCACAAATGCCTCCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
49610529 CTTCAGGACTTAGCCCTAAGTCT
66 CTTCAGGACTTAGCCCTAAGTCT
49610552 CGGATATAGTCAATAGCACAAATGCCTCCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CGGATATAGTCAATAGCACAAATGCCTCCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
49610617 CTTCGGGACTTAGCCC
66 CTTCAGGACTTAGCCC
49610633 GGATATCAGT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (88 bp):
CGGATATAGTCAATAGCACAAATGCCTCCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
CTTCAGGACTTAGCCCTAAGTCT
Found at i:49615192 original size:54 final size:54
Alignment explanation
Indices: 49614996--49615304 Score: 280
Period size: 54 Copynumber: 5.9 Consensus size: 54
49614986 TTTCCTTTTT
* * * * *
49614996 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
49615049 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATTG-GA-CCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACA-TGATATCC-TTGCCTTATA
* * *
49615103 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * ** *
49615158 GAACTTATCAATGCCATGCCTTGGCATGATCTTACATGATATCCTTATCTTACCA
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA-TA
* * ** * *
49615213 -AA--T-GCAATG---TTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATA
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* *
49615259 GAACTTATCAATGCCTTGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
49615305 ATCTTACGAA
Statistics
Matches: 207, Mismatches: 34, Indels: 29
0.77 0.13 0.11
Matches are distributed among these distances:
46 1 0.00
47 27 0.13
48 3 0.01
49 1 0.00
50 5 0.02
51 5 0.02
52 3 0.01
53 44 0.21
54 72 0.35
55 44 0.21
56 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:49615239 original size:47 final size:47
Alignment explanation
Indices: 49615182--49615404 Score: 205
Period size: 47 Copynumber: 4.6 Consensus size: 47
49615172 CATGCCTTGG
* * *
49615182 CATGATCTTACATGATATCCTTATCTTACCAAATGCAATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* * ***
49615229 CATGGTCTTACATGGTATCCTTGTCTTATAGAACTTAT-CAATGCCTTGCCTTGG
1 CATGGTCTTACATGGTATCCTTATCTTACA-AA---ATGCAATG--TT-CC-AAA
* * *
49615283 CATGGTCTTACATGATATCCTTATCTTACGAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* * * *
49615330 CATGATCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCACA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* * *
49615377 CATCGTCTTAAATGGTATTCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
49615405 ATGCCAATGC
Statistics
Matches: 141, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
47 90 0.64
48 4 0.03
49 2 0.01
50 7 0.05
51 6 0.04
52 2 0.01
53 4 0.03
54 26 0.18
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
Found at i:49615250 original size:101 final size:101
Alignment explanation
Indices: 49615019--49615357 Score: 421
Period size: 101 Copynumber: 3.3 Consensus size: 101
49615009 CCATGTCTTG
* * *
49615019 ACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
* * * ***
49615083 CATTGGACCTTTGCCTTATAGTAACTCATCAATGCCATG-TCTTG
66 CA-T-GA--TAT-CCTTAT-CTTAC-CA--AATGCCATGTTCCAA
* * *
49615127 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGATCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
49615192 CATGATATCCTTATCTTACCAAATGCAATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* *
49615228 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCTTGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
49615293 CATGATATCCTTATCTTACGAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* *
49615329 ACATGATCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTA
49615358 CAAAATGCCA
Statistics
Matches: 208, Mismatches: 21, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
100 8 0.04
101 124 0.60
102 2 0.01
103 3 0.01
104 6 0.03
105 2 0.01
107 2 0.01
108 28 0.13
109 33 0.16
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
Found at i:49619878 original size:30 final size:30
Alignment explanation
Indices: 49619810--49619878 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
49619800 CCGTGTACTA
*
49619810 GGCCGTGTCCTCCACACGACTGAGACACGC
1 GGCCGTGTCCCCCACACGACTGAGACACGC
*** * * *
49619840 GATTGTGTCCCCCACATGGCTGAGACACGT
1 GGCCGTGTCCCCCACACGACTGAGACACGC
49619870 GGCCGTGTC
1 GGCCGTGTC
49619879 TCTGCCCATG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.19
Consensus pattern (30 bp):
GGCCGTGTCCCCCACACGACTGAGACACGC
Found at i:49628758 original size:46 final size:46
Alignment explanation
Indices: 49628611--49628921 Score: 260
Period size: 46 Copynumber: 6.7 Consensus size: 46
49628601 GGGGTAAGGT
* * * **
49628611 GCCGATGTCATGTCCTAGACATGGTCTTACACTAG-ATATCATCTTTGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATC-CCGAG
* *
49628660 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCCCG-AG
* *
49628706 GTCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCCCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCCCGAG
*
49628752 GCCGATGCATGTCCCAGACATGTCTTACACTGGTTTACATCCCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCCCGAG
* * * * * *
49628798 GCCGATGCATGTCCCAGACTTGTCTTACACTGGCGCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCCCGAG
** * ***
49628844 GTTGATGCCATAT-CCAGACATGGTCTTACACTGGCTCT-CATGATGCA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCCCG-AG
49628891 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
49628922 AGCCCACAAT
Statistics
Matches: 219, Mismatches: 32, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
44 12 0.05
45 14 0.06
46 121 0.55
47 39 0.18
48 2 0.01
49 31 0.14
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCCCGAG
Found at i:49628876 original size:139 final size:139
Alignment explanation
Indices: 49628611--49628923 Score: 338
Period size: 139 Copynumber: 2.2 Consensus size: 139
49628601 GGGGTAAGGT
* **
49628611 GCCGATGTCATGTCCTAGACATGGTCTTACACTAGATATCATCTTTGAGGCCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGATATCATCTCCGAGGCCGATGCCATGTCCC
*
49628676 AGACATGGTCTTACACTGACACATCTCGTAGTCGATGCATGTCCCAAACATGTCTTACACTGGCT
64 AGACATGGTCTTACACTGACACATCTCGTAGTCGATGCATATCCCAAACATGTCTTACACTGGCT
*
49628741 -TACATCCCG-A
129 CT-CATCACGCA
* *
49628751 GGCCGATGCATGTCCCAGACATGTCTTACACT-GGTTTACATC-CCGAGGCCGATG-CATGTCCC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGATAT-CATCTCCGAGGCCGATGCCATGTCCC
* * * * *
49628813 AGAC-TTGTCTTACACTGGCGC-TCGTC-TCAATGTTGATGCCATAT-CCAGACATGGTCTTACA
64 AGACATGGTCTTACACTGACACATC-TCGT--A-GTCGATG-CATATCCCAAACAT-GTCTTACA
* *
49628874 CTGGCTCTCATGATGCA
123 CTGGCTCTCATCACGCA
49628891 GCCGATGCATGTCCCAGACATGTCTTACACTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG
49628924 CCCACAATAA
Statistics
Matches: 148, Mismatches: 14, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
135 3 0.02
136 16 0.11
137 13 0.09
138 26 0.18
139 67 0.45
140 16 0.11
141 7 0.05
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (139 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGATATCATCTCCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATCTCGTAGTCGATGCATATCCCAAACATGTCTTACACTGGCTCT
CATCACGCA
Found at i:49633424 original size:48 final size:48
Alignment explanation
Indices: 49633365--49640284 Score: 8390
Period size: 48 Copynumber: 143.8 Consensus size: 48
49633355 ATAAATGTGT
* * *
49633365 GATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49633413 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49633461 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49633509 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49633557 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49633605 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49633653 GAGATGTATATGTGGTAAAGCC-AATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49633700 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49633748 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49633795 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49633843 GATATGTATATGTGGT-AAGCCGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49633890 GAGATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49633938 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49633986 GAGATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49634034 GATATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49634082 GATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49634130 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49634178 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * ** * * *
49634226 GATATGTATATGTGGTAAAGCTGAATGGCGAATGTGATTTTAGAAAATCA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATA-TATATGA
* * * * * * ** * * * ** *
49634276 CTATAAATTTTTGGTGTGGAATTATAGGCTGAAT--AAAATATGTAATCAAAGCTTA
1 -GAT--ATGTAT-ATGTGG---TA-AAGCCGAATGGCTAATGTGAAAT-ATATATGA
* * * * * ** * * * * * **
49634331 GTTGGTCTAGTTTCTTATAAAAG-AGACCGTGG--AA-G-CAAATAAATTTCC
1 GAT-ATGTA-TATGTGGT-AAAGCCGA--ATGGCTAATGTGAAATATATATGA
* * * ** ** * * * **
49634379 TATAAAGAGATAT-T--TAAAGTTGTGTGGGAC-AGTGTCAGAATGA-CTCCGA
1 GAT-ATG-TATATGTGGTAAAGCCGAAT-GG-CTAATGTGA-AAT-ATATATGA
* * * * * ** ** * * * *
49634428 AATCCCCTGTTCTTTTTTGG-AAAATC--AT-TATAATTTGTACAAAAATGGTTATAA
1 GAT---ATG-T-ATATGTGGTAAAGCCGAATGGCTAA--TGT-GAAATAT--ATATGA
* ** ** * * * * *
49634482 GATAAGATTTATAT-TCTTAGACTCCTAAATGAGTCTAGTTTCAAATGA-A-ATCA
1 GAT---ATGTATATGTGGTA-AAGCC-GAATG-G-CTAATGTGAAAT-ATATATGA
* * * ** ** ** * * * **
49634535 AATA-GAACACATTATGAATTCCG--T-AC-AA--TGAAAAATTTGATTC
1 GATATGTATATGTGGT-AAAGCCGAATGGCTAATGTGAAATATAT-ATGA
* * * * * ** * * *
49634578 G-TAGTGAAGA-GTGGTCAGATTAGTCAAACAGTGAAACAGGGGAAACT-T-TAAGA
1 GATA-TGTATATGTGGT-A-A--AGCCGAA-TG-GCTA-ATGTGAAA-TATATATGA
* * * * * ** * * *
49634631 AAAATCTGGTAT-TGAT-TGGCC-AAT-CCTAAAATTCTGAAA-ATTTTATGA
1 GATATGT-ATATGTGGTAAAGCCGAATGGCT--AA-TGTGAAATA-TATATGA
* * * * * *** * * *
49634679 -ATGGAAGATAAATGAGTCTATATTCAG-GGAA-AATTAACG-GAAAT-TGATTTTCA
1 GAT--ATG-TATATGTG-GTA-A---AGCCGAATGGCTAATGTGAAATAT-A-TATGA
* * * ** * * * * * *
49634732 GTTTTGTAGCTCTAGTTATAAA---TAAT---TTA-GTG-ACTATTTCTCA
1 GATATGTA--TAT-GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * * *
49634775 GGAAAACAG-CT-TGTGGTGAATATG-TGAATTTGTTG-TAAACATTGATGAAACTAT-T-TGA
1 -G-ATA-TGTATATGTGGT-AA-A-GCCGAA--TG--GCT--A-A-TG-TGAAA-TATATATGA
* * * ** * ** *
49634833 GTTGCTTGTAAGCTATG-GCTGAAA-TTG-ATGTAC-AAAAT-AAATATATAAATGTGT
1 GAT--ATGT-A--TATGTGGT-AAAGCCGAATG-GCTAATGTGAAATATAT--A--TGA
* * *
49634887 GATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49634935 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49634983 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49635031 GATATGTATATGTGGTAAAG-CGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635078 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635126 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635174 GAGATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635222 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49635270 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635318 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49635366 GATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49635414 GAGATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635462 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49635510 GAGATGTATATGTGGTAAAGCC-AATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49635557 GATATGTATATGTGGTAAAGCC-AATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49635604 GATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49635652 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * * *
49635700 GATATATATATGTGGTAGAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635748 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49635796 GAGATGTATATGTGGTAAAGCCCAATGACTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635844 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * * * *
49635892 GACATGTATATGTGGTAAAGCTGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635940 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49635988 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49636036 GAGATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49636084 GATATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49636132 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49636180 GATATGTATATATGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49636228 GATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49636276 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49636324 GAGATGTATATGTGGTAAAGCCCAATGACTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49636372 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49636420 GATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49636468 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49636516 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * * *
49636564 GATATGTATATATGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49636612 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * ** *
49636660 GATATGTATATGTGGTAAATG-TGAA---ATATATGTGTGATATGTAT-A
1 GATATGTATATGTGGTAAA-GCCGAATGGCTA-ATGTGAAATATATATGA
* * ** * * * * ** * *
49636705 TG-T-GGTA-AAGCCG-AATGGCTAATGTG-AAACAT-ATATGAGATATG-
1 -GATATGTATATGTGGTAAAGCCGAATG-GCTAATGTGAAAT-ATATATGA
* * ** * * * * * * *
49636749 GATATGTGGTAAAGCCG-AATGGCTAATGTG-AAATAT-ATATGAGATATG-
1 GATATGT-AT-ATGTGGTAAAGCCGAATG-GCTAATGTGAAAT-ATATATGA
* * * ** * * * * * *
49636797 TATATGTGGTAAAGCCG-AATGGCTAAT-G-TGAA----ATATATGTGT--
1 GATATGT-AT-ATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATGA
*
49636839 GATATGTATATGTGGTAAAGCCGAATGG-TGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATGA
* *
49636887 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49636935 GATATGTATTTGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49636983 GTTATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49637031 GATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49637079 GATATGTATAAGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * * *
49637127 GATATGAATATTTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49637175 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49637223 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49637271 GATATGTATATGTGGCAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49637319 GAGATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49637367 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49637415 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49637463 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49637511 GATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49637559 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49637607 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49637655 GATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49637703 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49637751 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * * *
49637799 GATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATATTTGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49637847 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49637895 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49637943 GATATGTATAAGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49637991 GATATGTATATGTGGTAAAGCCGAATGGCTAATGAGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49638039 GATATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638087 GATATGTATAAGTGGTAAAGCCGAATGGCTAATGTGAAATATATATCA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638135 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49638183 GATATGTATATGTGGTAATGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638231 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638279 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638327 GAGATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49638375 GATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49638423 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638471 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49638519 GATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638567 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * * *
49638615 GATATGTATATATGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49638663 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49638711 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638759 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49638807 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49638855 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49638903 GATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49638951 GATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49638999 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49639047 GATATGTATTTGTGGTAAAGCCGAATGGCGAATGTGAAGTATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * * *
49639095 GATATGTATATATGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49639143 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49639191 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49639239 GTTATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AATATAATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGA
* *
49639287 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49639335 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49639383 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49639431 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49639479 GATATGTATACGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49639527 GAGATGTATATGTGGTAAAGCCCAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49639575 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49639623 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49639671 GTTATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49639719 GATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49639767 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49639815 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49639863 GATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
49639911 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49639959 GATATGTATATGTGGTAAAGCCGAATGGCTATTGTGAAATATATATAA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
** * * *
49640007 GATATGTATATGTGGTAAAGCCGAATATCTAATGTGAAATATTTGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49640055 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* *
49640103 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49640151 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
49640199 GATATGTATACGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
49640247 GATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49640285 TGTTGTAACA
Statistics
Matches: 6047, Mismatches: 652, Indels: 346
0.86 0.09 0.05
Matches are distributed among these distances:
40 4 0.00
41 16 0.00
42 20 0.00
43 23 0.00
44 30 0.00
45 13 0.00
46 28 0.00
47 285 0.05
48 5387 0.89
49 39 0.01
50 22 0.00
51 21 0.00
52 31 0.01
53 29 0.00
54 30 0.00
55 12 0.00
56 18 0.00
57 8 0.00
58 13 0.00
59 6 0.00
60 4 0.00
61 6 0.00
62 2 0.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
Found at i:49636681 original size:35 final size:35
Alignment explanation
Indices: 49636642--49636713 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
49636632 CCGAATGGCT
49636642 AATGTGAAATATATATGAGATATGTATATGTGGTA
1 AATGTGAAATATATATGAGATATGTATATGTGGTA
* *
49636677 AATGTGAAATATATGTGTGATATGTATATGTGGTA
1 AATGTGAAATATATATGAGATATGTATATGTGGTA
49636712 AA
1 AA
49636714 GCCGAATGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.38
Consensus pattern (35 bp):
AATGTGAAATATATATGAGATATGTATATGTGGTA
Found at i:49636687 original size:83 final size:83
Alignment explanation
Indices: 49636594--49636761 Score: 318
Period size: 83 Copynumber: 2.0 Consensus size: 83
49636584 CTGAATGGCT
*
49636594 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATATATG
*
49636659 AGATATGTATATGTGGTA
66 AGATATGGATATGTGGTA
49636677 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATATATG
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATATATG
49636742 AGATATGGATATGTGGTA
66 AGATATGGATATGTGGTA
49636760 AA
1 AA
49636762 GCCGAATGGC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (83 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATATATG
AGATATGGATATGTGGTA
Found at i:49640379 original size:37 final size:37
Alignment explanation
Indices: 49640329--49640473 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
49640319 GGAAATATAT
*
49640329 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49640366 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
49640403 TCTGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49640440 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
49640474 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49641309 original size:40 final size:40
Alignment explanation
Indices: 49641254--49641525 Score: 438
Period size: 40 Copynumber: 6.8 Consensus size: 40
49641244 GAGAATTGAG
* * *
49641254 AGTGATATATCCGGGCTAAATCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
* *
49641294 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
*
49641334 AGTGATGTATCTGGACTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
*
49641374 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
49641414 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
*
49641454 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
**
49641494 AGTGATGTATCC-GAGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGA-CTAAATCCCGAAGAGCA
49641526 ATCATGCTGG
Statistics
Matches: 222, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.01
40 220 0.99
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCT
Found at i:49645296 original size:48 final size:48
Alignment explanation
Indices: 49645223--49645942 Score: 1206
Period size: 48 Copynumber: 15.0 Consensus size: 48
49645213 ATAAAAATAT
* *
49645223 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
49645271 AAATATGTGTGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49645319 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49645367 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49645415 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
49645463 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
49645511 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49645559 ATATGTTTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49645607 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
49645655 ATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
49645703 ATATATATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49645751 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49645799 ATATATATGAGATATGTATATGTGGTAAAGTCGAATGACTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49645847 ATATATATGAGATATGTATACGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49645895 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49645943 TGTTGTAACA
Statistics
Matches: 630, Mismatches: 42, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 630 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:49646037 original size:37 final size:37
Alignment explanation
Indices: 49645987--49646131 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
49645977 GGAAATATAT
*
49645987 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
49646024 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49646061 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49646098 TTCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
49646132 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49653421 original size:20 final size:20
Alignment explanation
Indices: 49653372--49653433 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
49653362 AGTTTATGTT
* *
49653372 AAGTAAATGAAATGGAAAGT-
1 AAGTAAATGGAATGGTAA-TA
49653392 AAGTAAATGGAATGGTAATA
1 AAGTAAATGGAATGGTAATA
*
49653412 AAGTAAATGGAGTGGTACATA
1 AAGTAAATGGAATGGTA-ATA
49653433 A
1 A
49653434 TTTATGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 32 0.86
21 4 0.11
ACGTcount: A:0.50, C:0.02, G:0.26, T:0.23
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAATA
Found at i:49656068 original size:22 final size:24
Alignment explanation
Indices: 49656006--49656083 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
49655996 GGACTCACCG
49656006 CAGCTCGA-ATGAGCTTACTATTCT
1 CAGCTC-ATATGAGCTTACTATTCT
*
49656030 CAGCTCATATGAACTTACTATT-T
1 CAGCTCATATGAGCTTACTATTCT
*
49656053 -AGCTCGTCA-GAGCTTACTATTCAT
1 CAGCTCAT-ATGAGCTTACTATTC-T
*
49656077 CACCTCA
1 CAGCTCA
49656084 GGAGGAGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
22 17 0.39
23 3 0.07
24 20 0.45
25 4 0.09
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (24 bp):
CAGCTCATATGAGCTTACTATTCT
Found at i:49662939 original size:18 final size:18
Alignment explanation
Indices: 49662916--49662953 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
49662906 TTTCTGGCTT
49662916 AGTCTCGAATCGTTTCTA
1 AGTCTCGAATCGTTTCTA
49662934 AGTCTCGAATCGTTTCTA
1 AGTCTCGAATCGTTTCTA
49662952 AG
1 AG
49662954 GTATTTCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (18 bp):
AGTCTCGAATCGTTTCTA
Found at i:49666300 original size:46 final size:45
Alignment explanation
Indices: 49666085--49666490 Score: 228
Period size: 46 Copynumber: 8.6 Consensus size: 45
49666075 GGGGTAAAGT
*
49666085 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTGTCATCTTCAAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TCATC-TCAAG
* * * * * * * *
49666134 GCCAATGCCATCTCCCAAACATTGTCTTACACTAGCTCTCGCGTATC-CG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACATTGGCT-T--CATCTCAAG
* * * * * *
49666183 TGCCAATGCCATGTCCCAGACATGGTCGTATACTGAC-ACATCTCATA-
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTCATCTCA-AG
* * * *
49666230 GCTGATGCATGTCCCAAACATGTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTT-CATCTCAAG
* * **
49666276 GCCGATGCATGCCCCAGACATGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCT-TCAT-CTCAAG
* * * *
49666322 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGC-TTCATCTCAAG
* * * * *
49666368 GTCGATGCATGTCCTAGACATGTCTTACACTGGCACTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGC-TTCATCTCAAG
* * * **
49666414 GCCGATGCCATGTCCTATACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TCAT-CTCAAG
* *
49666462 GCTGATGCATGTCCTAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
49666491 CTAGCTCACA
Statistics
Matches: 284, Mismatches: 55, Indels: 39
0.75 0.15 0.10
Matches are distributed among these distances:
44 9 0.03
45 15 0.05
46 142 0.50
47 28 0.10
48 22 0.08
49 35 0.12
50 31 0.11
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGGCTTCATCTCAAG
Found at i:49666474 original size:140 final size:136
Alignment explanation
Indices: 49666088--49666492 Score: 374
Period size: 140 Copynumber: 2.9 Consensus size: 136
49666078 GTAAAGTGCC
* * *
49666088 GATGCCATGTCCCAGACATGGTCTTACACTGG-CTGTCATCTTCAAGGCCAATGCCAT-CTCCCA
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCCT-ACATC-TCAAGGCCGATG-CATGC-CCCA
* * * * * * *
49666151 AACATTGTCTTACACTAGCTCTCGCGT-ATCCGT-GCCAATGCCATGTCCCAGACATGGTCGTAT
60 GACA-TGTCTTACATTGGCTCT--CATAAT--GTGGCCGATG-CATGTCCCAGACAT-GTCTTAC
49666214 ACTGACACATCTCATAGCT
118 ACTGACACATCTCATAGCT
* * * *
49666233 GATGCATGTCCCAAACATGTCTTACATTGGCTTACGTCTCGAGGCCGATGCATGCCCCAGACATG
1 GATGCATGTCCCAAACATGTCTTACACTGGCCTACATCTCAAGGCCGATGCATGCCCCAGACATG
*
49666298 TCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAATC
66 TCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGACAC--ATC
49666363 TCA-ATG-T
129 TCATA-GCT
* * * * * *
49666370 CGATGCATGTCCTAGACATGTCTTACACTGGCACT-CATCTCAATGCCGATGCCATGTCCTATAC
1 -GATGCATGTCCCAAACATGTCTTACACTGGC-CTACATCTCAAGGCCGATG-CATGCCCCAGAC
* *
49666434 ATGGTCTTACATTGGCTCTCATAATGTGGCTGATGCATGTCCTAGACATGTCTTACACT
63 AT-GTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
49666493 AGCTCACACA
Statistics
Matches: 222, Mismatches: 27, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
136 12 0.05
137 18 0.08
138 56 0.25
139 14 0.06
140 69 0.31
141 10 0.05
142 11 0.05
143 14 0.06
144 14 0.06
145 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (136 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCCTACATCTCAAGGCCGATGCATGCCCCAGACATG
TCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTC
ATAGCT
Found at i:49667363 original size:8 final size:8
Alignment explanation
Indices: 49667346--49667380 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
49667336 GATGATATCA
*
49667346 TCTTTCTT
1 TCTTTATT
49667354 TCTTTATT
1 TCTTTATT
49667362 TCTTTATT
1 TCTTTATT
49667370 TCTTTATT
1 TCTTTATT
49667378 TCT
1 TCT
49667381 ATTAAACAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (8 bp):
TCTTTATT
Found at i:49673005 original size:15 final size:15
Alignment explanation
Indices: 49672973--49673001 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49672963 ATTTTCTGTG
49672973 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
49672988 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
49673002 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:49674144 original size:45 final size:45
Alignment explanation
Indices: 49674082--49674303 Score: 264
Period size: 45 Copynumber: 4.9 Consensus size: 45
49674072 TAGGATTCCG
* **
49674082 ATATGTGTTTTTGTGTAAGACCACGTTTGGGACGTTGGCATTGAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
* * * * *
49674127 ATATGTGTTTTCATGTAAGACCATGTCTAGGACGTTGGTATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
* * * *
49674172 ATATGTGGTTACGTGTAATACCACATTTGGGACGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
* *
49674217 ATATGTGTTTTCCTGTAAGACCACGTTTGGGAGGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
* * * * * *
49674262 ATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGGCATC
1 ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATC
49674304 GTATTTGATT
Statistics
Matches: 146, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 146 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAAT
Found at i:49674293 original size:90 final size:90
Alignment explanation
Indices: 49674094--49674303 Score: 294
Period size: 90 Copynumber: 2.3 Consensus size: 90
49674084 ATGTGTTTTT
** *
49674094 GTGTAAGACCACGTTTGGGACGTTGGCATTGATATATGTGTTTTCATGTAAGACCATGTCTAGGA
1 GTGTAAGACCACGTTTGGGACGTTGGCATCAATATATGTGTTTTCATGTAAGACCACGTCTAGGA
*
49674159 CGTTGGTATCAATATATGTGGTTAC
66 CGTTGGCATCAATATATGTGGTTAC
* * * * *
49674184 GTGTAATACCACATTTGGGACGTTGGCATCAATATATGTGTTTTCCTGTAAGACCACGTTTGGGA
1 GTGTAAGACCACGTTTGGGACGTTGGCATCAATATATGTGTTTTCATGTAAGACCACGTCTAGGA
*
49674249 GGTTGGCATCAATATATGTGGTTAC
66 CGTTGGCATCAATATATGTGGTTAC
* * * *
49674274 GTGTAAGACCATGTCTGGGACATCGGCATC
1 GTGTAAGACCACGTTTGGGACGTTGGCATC
49674304 GTATTTGATT
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 104 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (90 bp):
GTGTAAGACCACGTTTGGGACGTTGGCATCAATATATGTGTTTTCATGTAAGACCACGTCTAGGA
CGTTGGCATCAATATATGTGGTTAC
Found at i:49674385 original size:43 final size:41
Alignment explanation
Indices: 49674275--49674386 Score: 109
Period size: 43 Copynumber: 2.7 Consensus size: 41
49674265 TGTGGTTACG
* * * ** *
49674275 TGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCA
1 TGTAAGACCATGTCTAGGACGTTGGCATCGTATGAGATGCA
* * *
49674316 TGTAAGACCCTATCTAGGATAG-TGGCATCGATATGAGATAGCA
1 TGTAAGACCATGTCTAGGA-CGTTGGCATCG-TATGAGAT-GCA
49674359 TGTAAGACCATGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTAGGACGTTGGCAT
49674387 TGTTCAATAT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
41 23 0.42
42 7 0.13
43 25 0.45
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATGTCTAGGACGTTGGCATCGTATGAGATGCA
Found at i:49674750 original size:24 final size:24
Alignment explanation
Indices: 49674714--49674762 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
49674704 AATTGAATGA
*
49674714 TAGTTAGTTAATGTATATATATGT
1 TAGTTAGTAAATGTATATATATGT
*
49674738 TAGTTTGTAAATGTATATATATGT
1 TAGTTAGTAAATGTATATATATGT
49674762 T
1 T
49674763 CATTCGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (24 bp):
TAGTTAGTAAATGTATATATATGT
Found at i:49677370 original size:48 final size:49
Alignment explanation
Indices: 49677233--49677504 Score: 183
Period size: 48 Copynumber: 5.7 Consensus size: 49
49677223 TTTATTTGTG
* * ** *
49677233 AGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGC-ATTA-AGATGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATGA
* * **
49677280 GAGCTACTGTAAGACACA--TCTGGGACAT-GCATCGGCCTCGAGATATGCA
1 -AGCCAGTGTAAGAC-CATGTCTGGGACATGGCATCGGCAACGAGATATG-A
*
49677329 AGCCAGTGTAAGA-CAGGTCTGGGACAT-GCATCGGCAACGAG--ATG-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATGA
* * * * *
49677373 TGTCAGTGTAAGACCATGTCTGGGACATGGCGTAGG-TAC-AGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATA--TGA
** ** * *
49677422 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCTACCTCGA-TTTTGA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATGA
* *
49677471 TAGTCAGTGTAAGACCATGTCTTGGACATGGCAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
49677505 TGACTTGATG
Statistics
Matches: 177, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
44 13 0.07
45 15 0.08
46 18 0.10
47 10 0.06
48 51 0.29
49 37 0.21
50 30 0.17
51 2 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACGAGATATGA
Found at i:49677498 original size:49 final size:47
Alignment explanation
Indices: 49677374--49677548 Score: 169
Period size: 49 Copynumber: 3.6 Consensus size: 47
49677364 AACGAGATGT
* * *
49677374 GTCAGTGTAAGACCATGTCTGGGACATGGCGTAGGTAC-AGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGC--A-TTACTAGAT-TTTGATA
* *
49677424 GCCAGTGTAAGACCATGTCTGGGACATGGCATCTACCTCGATTTTGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT-TA-CTAGATTTTGATA
* * *
49677473 GTCAGTGTAAGACCATGTCTTGGACATGGCATTGACTTGA--TGGATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATT-ACTAGATTTTGAT-A
49677520 GTCAGTGTAAGACCATG-CTTGGGACATGG
1 GTCAGTGTAAGACCATGTC-TGGGACATGG
49677549 TATCGGTATT
Statistics
Matches: 109, Mismatches: 10, Indels: 15
0.81 0.07 0.11
Matches are distributed among these distances:
46 5 0.05
47 27 0.25
48 8 0.07
49 37 0.34
50 32 0.29
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (47 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATTACTAGATTTTGATA
Found at i:49684870 original size:27 final size:27
Alignment explanation
Indices: 49684847--49684929 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
49684837 GACCCCCTTG
*
49684847 GTGGTAAAATGACTGTATTGCCCCTAT
1 GTGGTAAAATGACTATATTGCCCCTAT
* *
49684874 GTGGTAAAATGACTATTTTGCCCTTAT
1 GTGGTAAAATGACTATATTGCCCCTAT
* * * *
49684901 ATGCTAAAGTGACTATTTTGCCCCTAT
1 GTGGTAAAATGACTATATTGCCCCTAT
49684928 GT
1 GT
49684930 AATGTAAGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GTGGTAAAATGACTATATTGCCCCTAT
Found at i:49686653 original size:46 final size:46
Alignment explanation
Indices: 49686586--49686807 Score: 288
Period size: 46 Copynumber: 4.8 Consensus size: 46
49686576 TGTAACCCGC
* * *
49686586 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
49686632 CCATAAGTGAACTCGGACTCAACTCAACAAGCTC-G-TATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
49686678 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
49686725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
49686771 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49686808 TGCTTAACCA
Statistics
Matches: 153, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 1 0.01
46 113 0.74
47 29 0.19
48 1 0.01
49 4 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49697950 original size:42 final size:42
Alignment explanation
Indices: 49697838--49698003 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
49697828 AGTACCACAC
* * * * **
49697838 CAATGCCATATTCTAGATATGGTCTTCCATGGGATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * * *
49697880 CGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAT
*
49697923 CAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATAAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-AT
* ** *
49697966 -GATGTTATATCCCAGATATGGTCTTACACGTAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
49698004 AATAACCCTA
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 68 0.67
43 34 0.33
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:49703282 original size:50 final size:48
Alignment explanation
Indices: 49703178--49703286 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 48
49703168 ACTGGAGGCC
49703178 TAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTAGGGCAA
1 TAGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTAGGGCAA
* *
49703227 AAGCCCTTTTAATAAACTGGGGCAAAAGCCCTTTTCGGTAAACTAGGGC-A
1 TAGCCCTTTTAAT-AACTGGGGC-AAAGCCCTTTT-GATAAACTAGGGCAA
49703277 TAGCCCTTTT
1 TAGCCCTTTT
49703287 TGCACTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 8 0.15
49 13 0.24
50 21 0.39
51 12 0.22
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (48 bp):
TAGCCCTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTAGGGCAA
Found at i:49703287 original size:26 final size:25
Alignment explanation
Indices: 49703179--49703286 Score: 123
Period size: 25 Copynumber: 4.4 Consensus size: 25
49703169 CTGGAGGCCT
* *
49703179 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTAGGGCAAA
49703203 AGCCCTTTTGATAAACTAGGGCAAA
1 AGCCCTTTTGATAAACTAGGGCAAA
* *
49703228 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTAGGGCAAA
* *
49703253 AGCCCTTTTCGGTAAACTAGGGC-AT
1 AGCCCTTTT-GATAAACTAGGGCAAA
49703278 AGCCCTTTT
1 AGCCCTTTT
49703287 TGCACTTCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
23 7 0.10
24 12 0.16
25 44 0.60
26 10 0.14
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTAGGGCAAA
Found at i:49711067 original size:31 final size:31
Alignment explanation
Indices: 49711029--49711092 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
49711019 CCTTTTCATA
49711029 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
49711060 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
49711091 TT
1 TT
49711093 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:49711356 original size:25 final size:25
Alignment explanation
Indices: 49711301--49711378 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
49711291 CTAGAGGCCT
49711301 AGCCTCTTTTAAT-AACT-GGG-ACAA
1 AGCC-CTTTTAATAAACTAGGGCA-AA
*
49711325 AGCCCTTTTGATAAACTAGGGCAAA
1 AGCCCTTTTAATAAACTAGGGCAAA
49711350 AGCCCTTTTAATAAACTAGGGCAAA
1 AGCCCTTTTAATAAACTAGGGCAAA
49711375 AGCC
1 AGCC
49711379 TGTTTCGGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
23 7 0.14
24 8 0.16
25 33 0.67
26 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCAAA
Found at i:49711479 original size:20 final size:20
Alignment explanation
Indices: 49711456--49711502 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
49711446 TTATGAATAC
49711456 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49711476 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49711496 ATCATGT
1 ATCATGT
49711503 ATATTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49713940 original size:19 final size:19
Alignment explanation
Indices: 49713916--49713956 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
49713906 TGTGGTCCTT
*
49713916 ATTTCAACATCAAAATTTA
1 ATTTCAACATCAAAATTAA
**
49713935 ATTTCAATTTCAAAATTAA
1 ATTTCAACATCAAAATTAA
49713954 ATT
1 ATT
49713957 AGTATTGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTCAACATCAAAATTAA
Found at i:49715551 original size:13 final size:13
Alignment explanation
Indices: 49715533--49715559 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49715523 GTGATATAGG
49715533 TGATATCTAAATA
1 TGATATCTAAATA
49715546 TGATATCTAAATA
1 TGATATCTAAATA
49715559 T
1 T
49715560 TTAAGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TGATATCTAAATA
Found at i:49722488 original size:31 final size:31
Alignment explanation
Indices: 49722453--49722529 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
49722443 GCTATTAAAA
* *
49722453 TAGTCACTTTTGTTTCTCTGATATTATAGTT
1 TAGTCACTTATGTTTCTCTGATATTACAGTT
* * *
49722484 TAGTCACTAATGTTTCTCTGATGTTACATTT
1 TAGTCACTTATGTTTCTCTGATATTACAGTT
49722515 TAGTCACTTATGTTT
1 TAGTCACTTATGTTT
49722530 GAAATGTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (31 bp):
TAGTCACTTATGTTTCTCTGATATTACAGTT
Found at i:49723764 original size:23 final size:25
Alignment explanation
Indices: 49723736--49723783 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
49723726 AATTTTTATA
49723736 TTTTAATTTAATA-TAATA-TAATT
1 TTTTAATTTAATATTAATATTAATT
*
49723759 TTTTAATTTTATATTAATATTAATT
1 TTTTAATTTAATATTAATATTAATT
49723784 AATTCAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.55
24 5 0.23
25 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTAATTTAATATTAATATTAATT
Found at i:49728395 original size:31 final size:31
Alignment explanation
Indices: 49728357--49728498 Score: 114
Period size: 31 Copynumber: 4.6 Consensus size: 31
49728347 TAAGAAGTCA
* *
49728357 TTATTTGAGCAATTTTGAAAAGTTTTAGCCC
1 TTATTTGAACAATTTTGAAAAGGTTTAGCCC
* * * * *
49728388 TTATTTGATCACTTTCGAAAAGGTTTGGCCT
1 TTATTTGAACAATTTTGAAAAGGTTTAGCCC
**
49728419 TTATTTGAAC-ATTTTGAAAAGGTTTA-ATC
1 TTATTTGAACAATTTTGAAAAGGTTTAGCCC
* *
49728448 TTCATTTGAAC-ATTTTAATAAATG-TTAGACCC
1 TT-ATTTGAACAATTTTGA-AAAGGTTTAG-CCC
*
49728480 TTATTT-AACCATTTTGAAA
1 TTATTTGAACAATTTTGAAA
49728499 TATTTGATCT
Statistics
Matches: 88, Mismatches: 18, Indels: 11
0.75 0.15 0.09
Matches are distributed among these distances:
29 2 0.02
30 35 0.40
31 48 0.55
32 3 0.03
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (31 bp):
TTATTTGAACAATTTTGAAAAGGTTTAGCCC
Found at i:49730352 original size:26 final size:27
Alignment explanation
Indices: 49730301--49730354 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
49730291 AAAATGATTG
49730301 AAAAATTTCTCCATAAGTAGCTTTTTA
1 AAAAATTTCTCCATAAGTAGCTTTTTA
49730328 AAAAATTTCTCCATAAGTAGCTTTTTA
1 AAAAATTTCTCCATAAGTAGCTTTTTA
49730355 TCTACTTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
AAAAATTTCTCCATAAGTAGCTTTTTA
Found at i:49730590 original size:13 final size:14
Alignment explanation
Indices: 49730567--49730595 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
49730557 AATAAATGAA
49730567 ATATTTAAATTTTT
1 ATATTTAAATTTTT
49730581 ATATTT-AATTTTT
1 ATATTTAAATTTTT
49730594 AT
1 AT
49730596 CTAAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTAAATTTTT
Found at i:49731196 original size:27 final size:29
Alignment explanation
Indices: 49731166--49731221 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
49731156 AGCATCCCTT
49731166 TTTATTTA-TTGAATGGTAA-ATT-ATTCA
1 TTTATTTAGTTGAAT-GTAATATTCATTCA
49731193 TTTATTTAGTTGAATGTAATATTCATTCA
1 TTTATTTAGTTGAATGTAATATTCATTCA
49731222 ATGGTATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 12 0.46
28 9 0.35
29 5 0.19
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (29 bp):
TTTATTTAGTTGAATGTAATATTCATTCA
Found at i:49731411 original size:17 final size:16
Alignment explanation
Indices: 49731391--49731425 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
49731381 AAATGTTTTG
49731391 ATATAATTTAATATAAA
1 ATATAATTTAAT-TAAA
*
49731408 ATATAATTTTATTAAA
1 ATATAATTTAATTAAA
49731424 AT
1 AT
49731426 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATTTAATTAAA
Found at i:49731483 original size:37 final size:36
Alignment explanation
Indices: 49731410--49731500 Score: 112
Period size: 37 Copynumber: 2.4 Consensus size: 36
49731400 AATATAAAAT
* *
49731410 ATAATTTTATTAAAATTTTTATTAAATTATATTTAATA
1 ATAA-TTTATTAAAA-TATGATTAAATTATATTTAATA
49731448 ATAATTATATTAAAATATGATTAAATTAT-TCTTAATA
1 ATAATT-TATTAAAATATGATTAAATTATAT-TTAATA
49731485 ATAATCTTATTAAAAT
1 ATAAT-TTATTAAAAT
49731501 TTAATAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
36 1 0.02
37 34 0.71
38 13 0.27
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (36 bp):
ATAATTTATTAAAATATGATTAAATTATATTTAATA
Found at i:49731702 original size:15 final size:15
Alignment explanation
Indices: 49731682--49731789 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
49731672 TTTATGGAAA
49731682 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
49731697 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
*
49731711 AGTCAAAGATATGTGT
1 A-TCAAAGATATGGGT
* **
49731727 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
49731741 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
49731757 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
49731771 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
49731787 ATC
1 ATC
49731790 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Done.