Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 165 of 203
Found at i:52140505 original size:6 final size:6
Alignment explanation
Indices: 52140494--52140518 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52140484 ATTTTTCAGG
52140494 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
52140519 GAAGAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:52146881 original size:37 final size:35
Alignment explanation
Indices: 52146838--52146996 Score: 87
Period size: 37 Copynumber: 4.4 Consensus size: 35
52146828 ATCATTTTAA
52146838 TATTAAATTAATATAGATTAAATGTAATATTAAATC
1 TATTAAATTAATATAGATTAAATGTAATATTAAA-C
* * ** * *
52146874 TGATTAAAATAATAGA-ATGTTTATCTACA-AGATAAAC
1 T-ATTAAATTAATATAGAT-TAAATGTA-ATA-TTAAAC
* *
52146911 -ATTAAATTAAATTTGAGATT-AA-GATAATCAATTTAA-
1 TATTAAATT-AATAT-AGATTAAATG-TAAT--ATTAAAC
52146947 TATTAAATTAATATAGATTAAATGTAATATTAAATC
1 TATTAAATTAATATAGATTAAATGTAATATTAAA-C
*
52146983 TGATTAAAATAATA
1 T-ATTAAATTAATA
52146997 GAATGTTTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 33
0.65 0.12 0.24
Matches are distributed among these distances:
34 5 0.06
35 13 0.14
36 20 0.22
37 44 0.49
38 8 0.09
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (35 bp):
TATTAAATTAATATAGATTAAATGTAATATTAAAC
Found at i:52146938 original size:52 final size:52
Alignment explanation
Indices: 52146875--52147047 Score: 165
Period size: 52 Copynumber: 3.2 Consensus size: 52
52146865 TATTAAATCT
52146875 GATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTGA
1 GATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTGA
* * * * * **
52146927 GATTAAGATAAT-CAAT-TTAATAT-TA-AATTAATATAGATTAAATGTAATATTAAATCT
1 GATTAAAATAATAGAATGTT--TATCTACAA--GATAAACATTAAAT-TAA-ATT---TGA
52146984 GATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTGA
1 GATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTGA
*
52147036 GATTAAGATAAT
1 GATTAAAATAAT
52147048 CAATTTAATA
Statistics
Matches: 93, Mismatches: 15, Indels: 26
0.69 0.11 0.19
Matches are distributed among these distances:
50 4 0.04
51 5 0.05
52 37 0.40
53 3 0.03
54 3 0.03
55 3 0.03
56 3 0.03
57 26 0.28
58 5 0.05
59 4 0.04
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (52 bp):
GATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTGA
Found at i:52146975 original size:109 final size:109
Alignment explanation
Indices: 52146826--52147068 Score: 477
Period size: 109 Copynumber: 2.2 Consensus size: 109
52146816 TAATTAAACT
*
52146826 TAATCATTTTAATATTAAATTAATATAGATTAAATGTAATATTAAATCTGATTAAAATAATAGAA
1 TAATCAATTTAATATTAAATTAATATAGATTAAATGTAATATTAAATCTGATTAAAATAATAGAA
52146891 TGTTTATCTACAAGATAAACATTAAATTAAATTTGAGATTAAGA
66 TGTTTATCTACAAGATAAACATTAAATTAAATTTGAGATTAAGA
52146935 TAATCAATTTAATATTAAATTAATATAGATTAAATGTAATATTAAATCTGATTAAAATAATAGAA
1 TAATCAATTTAATATTAAATTAATATAGATTAAATGTAATATTAAATCTGATTAAAATAATAGAA
52147000 TGTTTATCTACAAGATAAACATTAAATTAAATTTGAGATTAAGA
66 TGTTTATCTACAAGATAAACATTAAATTAAATTTGAGATTAAGA
52147044 TAATCAATTTAATATTAAATTAATA
1 TAATCAATTTAATATTAAATTAATA
52147069 AAATATTATT
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 133 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (109 bp):
TAATCAATTTAATATTAAATTAATATAGATTAAATGTAATATTAAATCTGATTAAAATAATAGAA
TGTTTATCTACAAGATAAACATTAAATTAAATTTGAGATTAAGA
Found at i:52147070 original size:52 final size:52
Alignment explanation
Indices: 52146905--52147070 Score: 160
Period size: 52 Copynumber: 3.1 Consensus size: 52
52146895 TATCTACAAG
52146905 ATAAACATTAAATTAAATTTGAGATTAAGATAATCAATTTAATATTAAATTA
1 ATAAACATTAAATTAAATTTGAGATTAAGATAATCAATTTAATATTAAATTA
* * ** * * *
52146957 ATATAGATTAAATGTAATATTAAATCTGATTAAAATAATAGAATGTT--TATCTACAA--G
1 ATAAACATTAAAT-TAA-ATT---TGAGATTAAGATAAT-CAAT-TTAATAT-TA-AATTA
52147014 ATAAACATTAAATTAAATTTGAGATTAAGATAATCAATTTAATATTAAATTA
1 ATAAACATTAAATTAAATTTGAGATTAAGATAATCAATTTAATATTAAATTA
52147066 ATAAA
1 ATAAA
52147071 ATATTATTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
50 4 0.05
51 5 0.06
52 31 0.36
53 3 0.03
54 3 0.03
55 3 0.03
56 3 0.03
57 26 0.30
58 5 0.06
59 4 0.05
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.37
Consensus pattern (52 bp):
ATAAACATTAAATTAAATTTGAGATTAAGATAATCAATTTAATATTAAATTA
Found at i:52149377 original size:144 final size:144
Alignment explanation
Indices: 52149117--52149404 Score: 576
Period size: 144 Copynumber: 2.0 Consensus size: 144
52149107 AAATAATGGC
52149117 AACTTGCTAAAACTTTAAAAATTGATCAAATTGATACATGAGCTAGCTAAATCAAGCTCCCATAA
1 AACTTGCTAAAACTTTAAAAATTGATCAAATTGATACATGAGCTAGCTAAATCAAGCTCCCATAA
52149182 CCATAAATCTATAAAAATTACAAGAAAAATGTTTAAATTACCTTAATTATTAGCTTGGTTGAATG
66 CCATAAATCTATAAAAATTACAAGAAAAATGTTTAAATTACCTTAATTATTAGCTTGGTTGAATG
52149247 CAATCTTCCTTGGT
131 CAATCTTCCTTGGT
52149261 AACTTGCTAAAACTTTAAAAATTGATCAAATTGATACATGAGCTAGCTAAATCAAGCTCCCATAA
1 AACTTGCTAAAACTTTAAAAATTGATCAAATTGATACATGAGCTAGCTAAATCAAGCTCCCATAA
52149326 CCATAAATCTATAAAAATTACAAGAAAAATGTTTAAATTACCTTAATTATTAGCTTGGTTGAATG
66 CCATAAATCTATAAAAATTACAAGAAAAATGTTTAAATTACCTTAATTATTAGCTTGGTTGAATG
52149391 CAATCTTCCTTGGT
131 CAATCTTCCTTGGT
52149405 GTTTTTTTAT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (144 bp):
AACTTGCTAAAACTTTAAAAATTGATCAAATTGATACATGAGCTAGCTAAATCAAGCTCCCATAA
CCATAAATCTATAAAAATTACAAGAAAAATGTTTAAATTACCTTAATTATTAGCTTGGTTGAATG
CAATCTTCCTTGGT
Found at i:52153096 original size:29 final size:29
Alignment explanation
Indices: 52153064--52153141 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
52153054 ATGGTTAGAT
* *
52153064 TTATCAGATACTTTGTACCGATGTTACAA
1 TTATCAGGTACTATGTACCGATGTTACAA
* * * * * *
52153093 TTATCAGGCACTCTGTGCCAATGTTATAT
1 TTATCAGGTACTATGTACCGATGTTACAA
52153122 TTATCAGGTACTATGTACCG
1 TTATCAGGTACTATGTACCG
52153142 GTGGTGGATA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (29 bp):
TTATCAGGTACTATGTACCGATGTTACAA
Found at i:52153780 original size:17 final size:17
Alignment explanation
Indices: 52153758--52153791 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52153748 AGAGAGCATA
52153758 GGTTCAAATTTCACTCT
1 GGTTCAAATTTCACTCT
52153775 GGTTCAAATTTCACTCT
1 GGTTCAAATTTCACTCT
52153792 NTTAATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (17 bp):
GGTTCAAATTTCACTCT
Found at i:52154757 original size:43 final size:43
Alignment explanation
Indices: 52154664--52154757 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
52154654 CTCTGTGGAT
* * * *
52154664 CACACGACCATGTCTCTCGGTATCCCCTTGTGTCGTTACATCA
1 CACACGGCCATGTCCCTCGGTATCCCCTCGTGTCATTACATCA
* * *
52154707 CACACGGCCATGTCCCTCGGTATCCTCTCGTGTCATTGCATCG
1 CACACGGCCATGTCCCTCGGTATCCCCTCGTGTCATTACATCA
*
52154750 CAGACGGC
1 CACACGGC
52154758 TTGGAGCTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.17, C:0.36, G:0.20, T:0.27
Consensus pattern (43 bp):
CACACGGCCATGTCCCTCGGTATCCCCTCGTGTCATTACATCA
Found at i:52155224 original size:18 final size:17
Alignment explanation
Indices: 52155201--52155234 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52155191 ATTATGTTGC
52155201 ATATGAATAGGGGGAAGG
1 ATATGAA-AGGGGGAAGG
*
52155219 ATATGAAAGGTGGAAG
1 ATATGAAAGGGGGAAG
52155235 AACGATAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (17 bp):
ATATGAAAGGGGGAAGG
Found at i:52156806 original size:22 final size:22
Alignment explanation
Indices: 52156781--52156822 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
52156771 AGGTTAGGGC
52156781 TTTCATT-TAGTTTTATTTTCAG
1 TTTCATTCTAG-TTTATTTTCAG
*
52156803 TTTCTTTCTAGTTTATTTTC
1 TTTCATTCTAGTTTATTTTC
52156823 TACTTAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTCATTCTAGTTTATTTTCAG
Found at i:52174065 original size:44 final size:44
Alignment explanation
Indices: 52174000--52174112 Score: 147
Period size: 44 Copynumber: 2.5 Consensus size: 44
52173990 GATCAACGAT
* *
52174000 AAGTGAGTTCGCCATAGGGAGTTCTCCATAGAGT-AGTTTGCCAC
1 AAGTGAGTTCACCATAGGGAGTTCGCCATAG-GTGAGTTTGCCAC
* *
52174044 ATGTGAGTTCACCATAGGGAGTTCGCCATAGGTGAGTTTGCCAT
1 AAGTGAGTTCACCATAGGGAGTTCGCCATAGGTGAGTTTGCCAC
* *
52174088 AAGGGAGTTCACCGTAGGAGAGTTC
1 AAGTGAGTTCACCATAGG-GAGTTC
52174113 ATCATAAGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.03
44 52 0.87
45 6 0.10
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (44 bp):
AAGTGAGTTCACCATAGGGAGTTCGCCATAGGTGAGTTTGCCAC
Found at i:52174095 original size:15 final size:14
Alignment explanation
Indices: 52174004--52174136 Score: 113
Period size: 15 Copynumber: 9.1 Consensus size: 14
52173994 AACGATAAGT
52174004 GAGTTCGCCATAGG
1 GAGTTCGCCATAGG
*
52174018 GAGTTCTCCATAGAG
1 GAGTTCGCCATAG-G
* * * *
52174033 TAGTTTGCCACATGT
1 GAGTTCGCCATA-GG
*
52174048 GAGTTCACCATAGG
1 GAGTTCGCCATAGG
52174062 GAGTTCGCCATAGG
1 GAGTTCGCCATAGG
*
52174076 TGAGTTTGCCATAAGG
1 -GAGTTCGCCAT-AGG
* *
52174092 GAGTTCACCGTAGG
1 GAGTTCGCCATAGG
**
52174106 AGAGTTCATCATAAGG
1 -GAGTTCGCCAT-AGG
52174122 GAGTTCGCCATAGG
1 GAGTTCGCCATAGG
52174136 G
1 G
52174137 TTATGCACAG
Statistics
Matches: 93, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
14 33 0.35
15 53 0.57
16 7 0.08
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (14 bp):
GAGTTCGCCATAGG
Found at i:52174095 original size:30 final size:30
Alignment explanation
Indices: 52173998--52174135 Score: 138
Period size: 30 Copynumber: 4.7 Consensus size: 30
52173988 CAGATCAACG
* *
52173998 ATAAGTGAGTTCGCCATAGG-GAGTTCTCC
1 ATAAGGGAGTTCGCCATAGGTGAGTTCACC
* * * *
52174027 AT-AGAGTAGTTTGCCACATGTGAGTTCACC
1 ATAAG-GGAGTTCGCCATAGGTGAGTTCACC
**
52174057 AT-AGGGAGTTCGCCATAGGTGAGTTTGCC
1 ATAAGGGAGTTCGCCATAGGTGAGTTCACC
* * * *
52174086 ATAAGGGAGTTCACCGTAGGAGAGTTCATC
1 ATAAGGGAGTTCGCCATAGGTGAGTTCACC
52174116 ATAAGGGAGTTCGCCATAGG
1 ATAAGGGAGTTCGCCATAGG
52174136 GTTATGCACA
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
28 2 0.02
29 33 0.38
30 51 0.59
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (30 bp):
ATAAGGGAGTTCGCCATAGGTGAGTTCACC
Found at i:52174132 original size:45 final size:44
Alignment explanation
Indices: 52173998--52174133 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 44
52173988 CAGATCAACG
* * * *
52173998 ATAAGTGAGTTCGCCATAGGGAGTTCTCCATAGAGT-AGTTTGCC
1 ATAAGGGAGTTCACCATAGGGAGTTCACCATAG-GTGAGTTCGCC
* * * * *
52174042 ACATGTGAGTTCACCATAGGGAGTTCGCCATAGGTGAGTTTGCC
1 ATAAGGGAGTTCACCATAGGGAGTTCACCATAGGTGAGTTCGCC
* *
52174086 ATAAGGGAGTTCACCGTAGGAGAGTTCATCATAAGG-GAGTTCGCC
1 ATAAGGGAGTTCACCATAGG-GAGTTCACCAT-AGGTGAGTTCGCC
52174131 ATA
1 ATA
52174134 GGGTTATGCA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.03
44 53 0.68
45 20 0.26
46 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
ATAAGGGAGTTCACCATAGGGAGTTCACCATAGGTGAGTTCGCC
Found at i:52176895 original size:17 final size:18
Alignment explanation
Indices: 52176873--52176914 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
52176863 TCTTAGAAGC
*
52176873 ACTTTTGGGCCAGAAAGT
1 ACTTTTGGGCCAAAAAGT
*
52176891 ATTTTTGGGCCAAAAAGT
1 ACTTTTGGGCCAAAAAGT
52176909 ACTTTT
1 ACTTTT
52176915 AAGTAAAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (18 bp):
ACTTTTGGGCCAAAAAGT
Found at i:52179671 original size:392 final size:392
Alignment explanation
Indices: 52178949--52180122 Score: 2203
Period size: 390 Copynumber: 3.0 Consensus size: 392
52178939 TTTTCTCTAT
*
52178949 TGTTTTCTTGTTCCTTTTTGTTTATTTCATGGGGGTTTTGGTTTTGAGCAACAAAGATAGAAGCC
1 TGTTTTCTTGTTCCTTTTTGTTTATTTCATGGGGGTTTTGGTTTTGAGCAACGAAGATAGAAGCC
52179014 TCTTTCTTGACCATGTGGTTTGCTTATAGGATTCCCTTTTTGGATTATCTTATCATCTCTTTTGA
66 TCTTTCTTGACCATGTGGTTTGCTTATAGGATTCCCTTTTTGGATTATCTTATCATCTCTTTTGA
*
52179079 TTGA--CTTTTAATTAAGGAATTGCTGTTCTGTTGTTTTCTCCCATCCCATGTAAGTATGGGAAG
131 TTGACTCTTTTAATTAAGGAATTGCTGTTCTGTTGTTTTCTCCCCTCCCATGTAAGTATGGGAAG
*
52179142 GGAAAAGAAGGTTTTACTTGAGATTTGTTGTTCAATAATAGGCTTGTCCATTTTCACTTTCTCTT
196 GGAAAAAAAGGTTTTACTTGAGATTTGTTGTTCAATAATAGGCTTGTCCATTTTCACTTTCTCTT
*
52179207 GTATGTATAATTGTATTACCAATGCCATTTGGTGTATTGGATGTCAGATTCAATTATCTTGTTTC
261 GTATGTATAATTGTATTACCAATGCTATTTGGTGTATTGGATGTCAGATTCAATTATCTTGTTTC
*
52179272 TTTGTTTATGTAATTCTTATTTTAGGGTCTTATTAATTGATATATGACTAGTAGTCTGAATTGCT
326 TTTGTTTATGTAATTCTTGTTTTAGGGTCTTATTAATTGATATATGACTAGTAGTCTGAATTGCT
52179337 AC
391 AC
52179339 TGTTTTCTTGTTCCTTTTTGTTTATTTCATGGGGGTTTTGGTTTTGAGCAACGAAGATAGAAGCC
1 TGTTTTCTTGTTCCTTTTTGTTTATTTCATGGGGGTTTTGGTTTTGAGCAACGAAGATAGAAGCC
52179404 TCTTTCTTGACCATGTGGTTTGCTTATAGGATTCCCTTTTTGGATTATCTTATCATCTCTTTTGA
66 TCTTTCTTGACCATGTGGTTTGCTTATAGGATTCCCTTTTTGGATTATCTTATCATCTCTTTTGA
*
52179469 TTGACTCTTTTAATTAAGGAATTGCTGTTCTGTTGCTTTCTCCCCTCCCATGTAAGTATGGGAAG
131 TTGACTCTTTTAATTAAGGAATTGCTGTTCTGTTGTTTTCTCCCCTCCCATGTAAGTATGGGAAG
52179534 GGAAAAAAAGGTTTTACTTGAGATTTGTTGTTCAATAATAGGCTTGTCCATTTTCACTTTCTCTT
196 GGAAAAAAAGGTTTTACTTGAGATTTGTTGTTCAATAATAGGCTTGTCCATTTTCACTTTCTCTT
52179599 GTATGTATAATTGTATTACCAATGCTATTTGGTGTATTGGATGTCAGATTCAATTATCTTGTTTC
261 GTATGTATAATTGTATTACCAATGCTATTTGGTGTATTGGATGTCAGATTCAATTATCTTGTTTC
52179664 TTTGTTTATGTAATTCTTGTTTTAGGGTCTTATTAATTGATATATGACTAGTAGTCTGAATTGCT
326 TTTGTTTATGTAATTCTTGTTTTAGGGTCTTATTAATTGATATATGACTAGTAGTCTGAATTGCT
52179729 AC
391 AC
52179731 TGTTTTCTTGTTCCTTTTTGTTTATTTCAT-GGGGTTTTGGTTTTGAGCAACGAAGATAGAAGCC
1 TGTTTTCTTGTTCCTTTTTGTTTATTTCATGGGGGTTTTGGTTTTGAGCAACGAAGATAGAAGCC
*
52179795 TCTTTCTTGACCATGTGGTTTGCTTATAGGATTCCCTTTTTGGATTATCTTATCATCTGTTTTGA
66 TCTTTCTTGACCATGTGGTTTGCTTATAGGATTCCCTTTTTGGATTATCTTATCATCTCTTTTGA
* * * *
52179860 TTGGCTCTTTTAATTAAGGAATTGCTGTTCTGTTGTTTTCTACCCTCCCAT-TATGTATGGTAAG
131 TTGACTCTTTTAATTAAGGAATTGCTGTTCTGTTGTTTTCTCCCCTCCCATGTAAGTATGGGAAG
*
52179924 GGAAAAAAAGGTTTTACTTGAGATTTGTTGTTCAATAATAGGATTGTCCATTTTCACTTTCTCTT
196 GGAAAAAAAGGTTTTACTTGAGATTTGTTGTTCAATAATAGGCTTGTCCATTTTCACTTTCTCTT
*
52179989 GTATGTATAATTGTATTACCAATGCTATTTGGTGTATTGGATGTCATATTCAATTATCTTGTTTC
261 GTATGTATAATTGTATTACCAATGCTATTTGGTGTATTGGATGTCAGATTCAATTATCTTGTTTC
52180054 TTTGTTTATGTAATTCTTGTTTTAGGGTCTTATTAATTGATATATGACTAGTAGTCTGAATTGCT
326 TTTGTTTATGTAATTCTTGTTTTAGGGTCTTATTAATTGATATATGACTAGTAGTCTGAATTGCT
52180119 AC
391 AC
52180121 TG
1 TG
52180123 ATTGAAAAAT
Statistics
Matches: 768, Mismatches: 14, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
390 341 0.44
391 146 0.19
392 281 0.37
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (392 bp):
TGTTTTCTTGTTCCTTTTTGTTTATTTCATGGGGGTTTTGGTTTTGAGCAACGAAGATAGAAGCC
TCTTTCTTGACCATGTGGTTTGCTTATAGGATTCCCTTTTTGGATTATCTTATCATCTCTTTTGA
TTGACTCTTTTAATTAAGGAATTGCTGTTCTGTTGTTTTCTCCCCTCCCATGTAAGTATGGGAAG
GGAAAAAAAGGTTTTACTTGAGATTTGTTGTTCAATAATAGGCTTGTCCATTTTCACTTTCTCTT
GTATGTATAATTGTATTACCAATGCTATTTGGTGTATTGGATGTCAGATTCAATTATCTTGTTTC
TTTGTTTATGTAATTCTTGTTTTAGGGTCTTATTAATTGATATATGACTAGTAGTCTGAATTGCT
AC
Found at i:52182918 original size:216 final size:217
Alignment explanation
Indices: 52182544--52182975 Score: 787
Period size: 216 Copynumber: 2.0 Consensus size: 217
52182534 AAACTGCTGA
52182544 AGGGGAAGGGGGTTGGATAAATATCATTTTTTGAAAATCTCTTGCTTTGCGCCTTGTTCTTTTTA
1 AGGGGAAGGGGGTTGGATAAATATCATTTTTTGAAAATCTCTTGCTTTGCGCCTTGTTCTTTTTA
* *
52182609 ATTTCTCACTTAATTGTTCTTCCATTACAATATTTGAAGAGTTGTTTTTGTTTTAATGGTGAAGA
66 ATTTCTCACTTAATTGTTCTTCCATTACAATATTTGAAGAGCTGTCTTTGTTTTAATGGTGAAGA
*
52182674 AATGTTCATTTTGCCAATTTAAGATTATTCATGACTTTGACT-TTTATTAAATTGCATAGGGAGA
131 AATGTTCATTTTGCCAATTCAAGATTATTCATGACTTTGACTGTTTATTAAATTGCATAGGGAGA
*
52182738 CAACGTTTCAGCACCATTCATG
196 CAACGTTCCAGCACCATTCATG
*
52182760 AGGGGAAGGGGGTTGGATAAATATCATTTTTTGAAAATCTCTTGCTTTGTGCCTTGTTCTTTTTA
1 AGGGGAAGGGGGTTGGATAAATATCATTTTTTGAAAATCTCTTGCTTTGCGCCTTGTTCTTTTTA
52182825 A-TTCTCACTTAATTGTTCTTCCATTACAATATTTGAAGAGCTGTCTTTGTTTTAATGGTGAAGA
66 ATTTCTCACTTAATTGTTCTTCCATTACAATATTTGAAGAGCTGTCTTTGTTTTAATGGTGAAGA
*
52182889 AATGATTCATTTTGCCAATTCAAGATTATTCATGACTTTGATTGTTTATTAAATTGCATAGGGAG
131 AATG-TTCATTTTGCCAATTCAAGATTATTCATGACTTTGACTGTTTATTAAATTGCATAGGGAG
52182954 ACAACGTTCCAGCACCATTCAT
195 ACAACGTTCCAGCACCATTCAT
52182976 AAGATTTGAA
Statistics
Matches: 208, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
215 65 0.31
216 101 0.49
217 42 0.20
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (217 bp):
AGGGGAAGGGGGTTGGATAAATATCATTTTTTGAAAATCTCTTGCTTTGCGCCTTGTTCTTTTTA
ATTTCTCACTTAATTGTTCTTCCATTACAATATTTGAAGAGCTGTCTTTGTTTTAATGGTGAAGA
AATGTTCATTTTGCCAATTCAAGATTATTCATGACTTTGACTGTTTATTAAATTGCATAGGGAGA
CAACGTTCCAGCACCATTCATG
Found at i:52185312 original size:33 final size:33
Alignment explanation
Indices: 52185275--52185363 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
52185265 GGATTCTGGA
52185275 GGCCGTGGTGGAATGAGGGATGGAGGCTTTGGT
1 GGCCGTGGTGGAATGAGGGATGGAGGCTTTGGT
*
52185308 GGCCGTGGTGGAATGAGGGATGGGGGCTTTGGT
1 GGCCGTGGTGGAATGAGGGATGGAGGCTTTGGT
* * *
52185341 GGGCGTGGTGGCATGAGAGATGG
1 GGCCGTGGTGGAATGAGGGATGG
52185364 TTTTGGCAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.15, C:0.09, G:0.54, T:0.22
Consensus pattern (33 bp):
GGCCGTGGTGGAATGAGGGATGGAGGCTTTGGT
Found at i:52186666 original size:6 final size:6
Alignment explanation
Indices: 52186657--52186689 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
52186647 NAGTAGGAGT
52186657 AGTAGG AGTAGG AGTAGG AGTAGG AGTAGG AGT
1 AGTAGG AGTAGG AGTAGG AGTAGG AGTAGG AGT
52186690 CGAAGCAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.48, T:0.18
Consensus pattern (6 bp):
AGTAGG
Found at i:52186920 original size:63 final size:63
Alignment explanation
Indices: 52186821--52186976 Score: 226
Period size: 63 Copynumber: 2.5 Consensus size: 63
52186811 GCTATGAGCG
* * * *
52186821 GAAGGATGTTGCAAAGCGGGCATTTGATTCTCCTCCTGCTTCCAACGAACATAACTT-GCAACA
1 GAAGGATGTTGCAAAGCGAGCATTTGATTCTCCTCCTCCTTCCAACAAACAGAACTTCG-AACA
* *
52186884 GAAGGATGTTGCGAAGCGAGCATTTGATTCTCCTCCTCCTTCCAACAAACAGAACTTCGAGCA
1 GAAGGATGTTGCAAAGCGAGCATTTGATTCTCCTCCTCCTTCCAACAAACAGAACTTCGAACA
52186947 GAAGGATGTTGCAAAGC-AGGCATTTGATTC
1 GAAGGATGTTGCAAAGCGA-GCATTTGATTC
52186977 ACCTGGTGCA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
62 1 0.01
63 82 0.98
64 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (63 bp):
GAAGGATGTTGCAAAGCGAGCATTTGATTCTCCTCCTCCTTCCAACAAACAGAACTTCGAACA
Found at i:52187579 original size:2 final size:2
Alignment explanation
Indices: 52187574--52187603 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52187564 GTGTGTGTGT
52187574 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
52187604 AATGGGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:52188077 original size:30 final size:32
Alignment explanation
Indices: 52188023--52188081 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
52188013 ATTAGATTAA
* *
52188023 TTGTGACTATTGGATAAGAAAAAGGGCTTGCC
1 TTGTAACTATTAGATAAGAAAAAGGGCTTGCC
52188055 TTGTAACTATTAGAT-A-AAAAAGGGCTT
1 TTGTAACTATTAGATAAGAAAAAGGGCTT
52188082 CCCTCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 1 0.04
32 13 0.52
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (32 bp):
TTGTAACTATTAGATAAGAAAAAGGGCTTGCC
Found at i:52202298 original size:12 final size:13
Alignment explanation
Indices: 52202281--52202309 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
52202271 CTCATATATG
52202281 AATAAATAAA-GC
1 AATAAATAAATGC
52202293 AATAAATAAATGC
1 AATAAATAAATGC
52202306 AATA
1 AATA
52202310 GTTATAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:52207228 original size:16 final size:17
Alignment explanation
Indices: 52207196--52207236 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
52207186 GATTATTATA
52207196 TATTTATATATTTTACTT
1 TATTTAT-TATTTTACTT
52207214 TATTTATTA-TTTACTT
1 TATTTATTATTTTACTT
52207230 T-TTTATT
1 TATTTATT
52207237 TACTTTACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 2 0.09
18 7 0.30
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATTATTTTACTT
Found at i:52214186 original size:20 final size:19
Alignment explanation
Indices: 52214163--52214200 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
52214153 AAATTTTAAA
52214163 ATATTTTTATATGTTTTTAT
1 ATATTTTTATAT-TTTTTAT
*
52214183 ATATTTTTGTATTTTTTA
1 ATATTTTTATATTTTTTA
52214201 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
ATATTTTTATATTTTTTAT
Found at i:52215389 original size:23 final size:23
Alignment explanation
Indices: 52215362--52215411 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
52215352 ATAATATCCA
52215362 AAAATTAACAATAAAATAGTAGC
1 AAAATTAACAATAAAATAGTAGC
* * *
52215385 AAAA-TAATACTGAAATAGTAGC
1 AAAATTAACAATAAAATAGTAGC
52215407 AAAAT
1 AAAAT
52215412 AATGGCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.22
Consensus pattern (23 bp):
AAAATTAACAATAAAATAGTAGC
Found at i:52216545 original size:17 final size:18
Alignment explanation
Indices: 52216517--52216555 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
52216507 GTTTTTTTTA
*
52216517 TTATATAAATAAATATTT
1 TTATATAAATAAATATAT
52216535 TTATA-AAATAAATATAT
1 TTATATAAATAAATATAT
52216552 TTAT
1 TTAT
52216556 CACAATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATATAAATAAATATAT
Found at i:52228756 original size:18 final size:20
Alignment explanation
Indices: 52228719--52228760 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
52228709 ACTAAAGCTT
*
52228719 ATTATTACTATTATAAAATA
1 ATTATTAATATTATAAAATA
52228739 ATTATTAATA-TA-AAAATA
1 ATTATTAATATTATAAAATA
52228757 ATTA
1 ATTA
52228761 CAATAATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 2 0.10
20 9 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTATTAATATTATAAAATA
Found at i:52230392 original size:21 final size:24
Alignment explanation
Indices: 52230366--52230425 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 24
52230356 GTCCGTGGTG
*
52230366 AAGCTTGGG-C-T-AGGGAAAGTC
1 AAGCTTGGGTCTTCAGGGAAAGAC
52230387 AAGCTTGGGTCTTCCAGGGAAAGAC
1 AAGCTTGGGTCTT-CAGGGAAAGAC
52230412 AAGCTTGGGTCTTC
1 AAGCTTGGGTCTTC
52230426 CAAGTCCGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.26
22 1 0.03
23 1 0.03
24 1 0.03
25 22 0.65
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.23
Consensus pattern (24 bp):
AAGCTTGGGTCTTCAGGGAAAGAC
Found at i:52230405 original size:25 final size:25
Alignment explanation
Indices: 52230377--52230427 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
52230367 AGCTTGGGCT
*
52230377 AGGGAAAGTCAAGCTTGGGTCTTCC
1 AGGGAAAGACAAGCTTGGGTCTTCC
52230402 AGGGAAAGACAAGCTTGGGTCTTCC
1 AGGGAAAGACAAGCTTGGGTCTTCC
52230427 A
1 A
52230428 AGTCCGATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (25 bp):
AGGGAAAGACAAGCTTGGGTCTTCC
Found at i:52233574 original size:3 final size:3
Alignment explanation
Indices: 52233566--52233597 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
52233556 GTTGTAAAGA
*
52233566 TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
52233598 TAGATTCTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:52240324 original size:89 final size:89
Alignment explanation
Indices: 52240173--52240345 Score: 240
Period size: 89 Copynumber: 1.9 Consensus size: 89
52240163 CTCAAGGAGA
* * * * *
52240173 CAAGGCTGGTGTTTTCGATCTGCTTCACTGCTAGTACAAGAAGACAAGATTTGTTGTTTTCAGTC
1 CAAGGCTGGTGTCTTCGATCTGCTTCACTGCTAATACAAGAAGACAAGATCTGTTATCTTCAGTC
52240238 TGCTCCGCTGTAAACTCAGAGAGG
66 TGCTCCGCTGTAAACTCAGAGAGG
* ** *
52240262 CAAGGCTGGTGTCTTCGATTTGCTTCGTTG-TCAATACAGGAAGACAAGATCTGTTATCTTCAGT
1 CAAGGCTGGTGTCTTCGATCTGCTTCACTGCT-AATACAAGAAGACAAGATCTGTTATCTTCAGT
*
52240326 CTGTTCCGCTGTAAACTCAG
65 CTGCTCCGCTGTAAACTCAG
52240346 GGAGATAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 1 0.01
89 72 0.99
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (89 bp):
CAAGGCTGGTGTCTTCGATCTGCTTCACTGCTAATACAAGAAGACAAGATCTGTTATCTTCAGTC
TGCTCCGCTGTAAACTCAGAGAGG
Found at i:52240815 original size:169 final size:169
Alignment explanation
Indices: 52240523--52240988 Score: 636
Period size: 169 Copynumber: 2.8 Consensus size: 169
52240513 GAGATGAGAT
* * * ** * * *
52240523 TCGCTGCCTTCAACTTTAATCTACTCCGCTACAATGCCAGGGAAACCAGACTCGCTACCTTTAGC
1 TCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACCAGGGAAACAAAATTCGCTACCTTTAGC
52240588 TTTAATCTG-TTCTACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
66 TTTAATCTGTTTC-ACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
* *
52240652 ACTTCAGCTA-TTCTAAGTATTAAC-TCTAGGGAGAA-ATGAT
130 ACTTCAGCCATTTC-AAGTATTAACGTC-AGGGAGAATA-GAG
* ** * *
52240692 TCGTTGCCCTCAGCTTTAATCTGCTCCGCTTTAACACCCGGGAAATAAAATTCGCTACCTTTAGC
1 TCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACCAGGGAAACAAAATTCGCTACCTTTAGC
*
52240757 TTTAATCTGTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGTTCCA
66 TTTAATCTGTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCA
* *
52240822 CTTCAGCCATTTCAAGTCTTAACGTCAGGGAGATTAGAG
131 CTTCAGCCATTTCAAGTATTAACGTCAGGGAGAATAGAG
* * * *
52240861 TCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACGCTAGGGAAACAAGATTCGCTACCTTAAGC
1 TCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACCAGGGAAACAAAATTCGCTACCTTTAGC
* *
52240926 TTTAATCTGTTCCACTTTAATGCCAAAGAGATAGGATTCGCTGCCCAC-GACTTTAATCCGCTC
66 TTTAATCTGTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAG-CTTTAATCCGCTC
52240989 TGCTTCAACT
Statistics
Matches: 262, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
168 1 0.00
169 252 0.96
170 9 0.03
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (169 bp):
TCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACACCAGGGAAACAAAATTCGCTACCTTTAGC
TTTAATCTGTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCA
CTTCAGCCATTTCAAGTATTAACGTCAGGGAGAATAGAG
Found at i:52241170 original size:80 final size:80
Alignment explanation
Indices: 52241028--52241175 Score: 215
Period size: 80 Copynumber: 1.9 Consensus size: 80
52241018 CGCTAGGGAA
* * * * * *
52241028 ATAATATTTGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGC
1 ATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAACGCCAGGGAAACAAGATTCGCTAC
52241093 ATTCAGCACAGTGAG
66 ATTCAGCACAGTGAG
** *
52241108 ATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCGTTGCAACGCTAGGGAAACAAGATTCGCTAC
1 ATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAACGCCAGGGAAACAAGATTCGCTAC
52241173 ATT
66 ATT
52241176 TAGCTTTAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (80 bp):
ATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAACGCCAGGGAAACAAGATTCGCTAC
ATTCAGCACAGTGAG
Found at i:52241172 original size:131 final size:131
Alignment explanation
Indices: 52240991--52241499 Score: 455
Period size: 131 Copynumber: 3.8 Consensus size: 131
52240981 ATCCGCTCTG
* * * * * *
52240991 CTTCAACTTTAATCTATTCCGTTGTAACGCTAGGGAAATAATATTTGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
* * *
52241056 TGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCATTCAGCACAGTGAGATAAGATTCGCTA
66 TGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCACAGTGAGATAAGATTCACTA
52241121 C
131 C
** * * * * *
52241122 CTTCAGCTTTAATCTGCTCCGTTGCAACGCTAGGGAAACAAGATTCGCTACATTTAGCTTTAATA
1 CTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
* * * * ** *
52241187 TGTTCCACTGTAACGCCAAGGAAATAGGATTCGCTGCCTTCA--AC-TTTA-ATCCG---CTCTA
66 TGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCACAGTGAGATAAGATTCACTA
52241245 -
131 C
* ** *
52241245 CTTCAGCTTTAATATATTCCATTGCAACGCCA-AAAGAATAAGAGTCGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGA-AATAAGATTCGCTACCTTTAGCTTTAAT
52241309 CTGTTCCACTGCAACGCC-AGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCT
65 CTGTTCCACTGCAACGCCAAG-GAAATAAGATTCGCTGCCTTCAG-------C-A---C-A-G-T
* * *
52241373 AGGGAAAAAGATTCACTGC
115 -GAG-ATAAGATTCACTAC
* * * * *
52241392 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAA-AAGATTTGCTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
*
52241456 TGTTCCACTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGC
66 TGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGC
52241500 TTTAATCTAC
Statistics
Matches: 301, Mismatches: 49, Indels: 48
0.76 0.12 0.12
Matches are distributed among these distances:
122 3 0.01
123 89 0.30
124 4 0.01
127 3 0.01
128 2 0.01
129 2 0.01
131 94 0.31
133 1 0.00
136 1 0.00
139 1 0.00
140 1 0.00
143 2 0.01
146 64 0.21
147 33 0.11
148 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (131 bp):
CTTCAGCTTTAATCTATTCCATTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
TGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCACAGTGAGATAAGATTCACTA
C
Found at i:52241202 original size:51 final size:51
Alignment explanation
Indices: 52241110--52241236 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 51
52241100 ACAGTGAGAT
* * ** * *
52241110 AAGATTCGCTACCTTCAGCTTTAATCTGCTCCGTTGCAACGCTAGGGAAAC
1 AAGATTCGCTACATTCAGCTTTAATATGCTCCACTGCAACGCCAAGGAAAC
* * * *
52241161 AAGATTCGCTACATTTAGCTTTAATATGTTCCACTGTAACGCCAAGGAAAT
1 AAGATTCGCTACATTCAGCTTTAATATGCTCCACTGCAACGCCAAGGAAAC
* * * *
52241212 AGGATTCGCTGCCTTCAACTTTAAT
1 AAGATTCGCTACATTCAGCTTTAAT
52241237 CCGCTCTACT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (51 bp):
AAGATTCGCTACATTCAGCTTTAATATGCTCCACTGCAACGCCAAGGAAAC
Found at i:52241314 original size:123 final size:123
Alignment explanation
Indices: 52240870--52241360 Score: 509
Period size: 123 Copynumber: 3.9 Consensus size: 123
52240860 GTCGCTGCCC
** * * * *
52240870 TCAGCTTTAATCTGCTCCGCTACAACGCTAGGGAAACAAGATTCGCTACCTTAAGCTTTAATCTG
1 TCAGCTTTAATCTATTCCGTTGCAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTG
** * * * * ** * *
52240935 TTCCACTTTAATGCCAAAGAGATAGGATTCGCTGCCCACGACTTTAATCCGCTCTGCT
66 TTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCCGCTCTACT
* * * *
52240993 TCAACTTTAATCTATTCCGTTGTAACGCTAGGGAAATAATATTTGCTACCTTTAGCTTTAATCTG
1 TCAGCTTTAATCTATTCCGTTGCAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTG
* * * * ** *
52241058 TTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCATTCAGCACAGTGAGATAAGATTCGCTACC
66 TTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCA--AC-TTTA-ATCCG---CTCTA-C
52241123 T
123 T
** * * *
52241124 TCAGCTTTAATCTGCTCCGTTGCAACGCTAGGGAAACAAGATTCGCTACATTTAGCTTTAATATG
1 TCAGCTTTAATCTATTCCGTTGCAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTG
* *
52241189 TTCCACTGTAACGCCAAGGAAATAGGATTCGCTGCCTTCAACTTTAATCCGCTCTACT
66 TTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCCGCTCTACT
* * * ** *
52241247 TCAGCTTTAATATATTCCATTGCAACGCCA-AAAGAATAAGAGTCGCTACCTTTAGCTTTAATCT
1 TCAGCTTTAATCTATTCCGTTGCAACGCTAGGGA-AATAAGATTCGCTACCTTTAGCTTTAATCT
*
52241311 GTTCCACTGCAACGCC-AGAGAAATAAGATTCGCTGCCTTCAGCTTTAATC
65 GTTCCACTGCAACGCCAAG-GAAATAAGATTCGCTGCCTTCAACTTTAATC
52241361 TACTGCAACG
Statistics
Matches: 299, Mismatches: 59, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
122 3 0.01
123 181 0.61
124 4 0.01
125 2 0.01
126 2 0.01
127 6 0.02
128 2 0.01
129 2 0.01
130 3 0.01
131 94 0.31
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (123 bp):
TCAGCTTTAATCTATTCCGTTGCAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTG
TTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCCGCTCTACT
Found at i:52241319 original size:254 final size:261
Alignment explanation
Indices: 52240851--52241506 Score: 781
Period size: 254 Copynumber: 2.5 Consensus size: 261
52240841 TAACGTCAGG
* * * *
52240851 GAGATTAGAGTCGCTGCCCTCAGCTTTAATCTGCTCCGCTACAACGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGC
* * * * ** *
52240916 TACCTTAAGCTTTAATCTGTTCCACTTTAATGCCAAAGAGATAGGATTCGCTGCCCACGACTTTA
66 TACCTTAAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAGGATTCGCTGCCTTCAACTTTA
* * * * * ** * * *
52240981 ATCCGCTCTGCTTCAACTTTAATCTATTCCGTTGTAACGCTAGGGAAATAATATTTGCTACCTTT
131 ATCCGCTCTACTTCAACTTTAATATATTCCATTGCAACGCAAAAGAAATAAGAGTCGCTACCTTT
*
52241046 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCATTCAG-C-A-C-A-G-T
196 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCATTCAGTCTACCAACGCT
52241105 -
261 A
* *
52241105 GAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCGTTGCAACGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGC
* * *
52241170 TACATTTAGCTTTAATATGTTCCACTGTAACGCCAAGGAAATAGGATTCGCTGCCTTCAACTTTA
66 TACCTTAAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAGGATTCGCTGCCTTCAACTTTA
*
52241235 ATCCGCTCTACTTCAGCTTTAATATATTCCATTGCAACGCCAAAAG-AATAAGAGTCGCTACCTT
131 ATCCGCTCTACTTCAACTTTAATATATTCCATTGCAACG-CAAAAGAAATAAGAGTCGCTACCTT
*
52241299 TAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTAC
195 TAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCATTCAG------TCTAC
52241364 TGCAACGCTA
254 --CAACGCTA
* * * * * * *
52241374 GGGAAAAAGATTCACTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAA-AAGATTTG
1 GAG-ATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCG
* * * * * *
52241438 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTT
65 CTACCTTAAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAGGATTCGCTGCCTTCAACTTT
52241503 AATC
130 AATC
52241507 TACTGCAACG
Statistics
Matches: 339, Mismatches: 46, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
254 215 0.63
255 3 0.01
261 1 0.00
262 1 0.00
265 1 0.00
266 1 0.00
267 1 0.00
268 1 0.00
269 70 0.21
270 45 0.13
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (261 bp):
GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGC
TACCTTAAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAGGATTCGCTGCCTTCAACTTTA
ATCCGCTCTACTTCAACTTTAATATATTCCATTGCAACGCAAAAGAAATAAGAGTCGCTACCTTT
AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGCATTCAGTCTACCAACGCT
A
Found at i:52241325 original size:51 final size:50
Alignment explanation
Indices: 52241245--52241668 Score: 423
Period size: 51 Copynumber: 8.7 Consensus size: 50
52241235 ATCCGCTCTA
* * * * * * *
52241245 CTTCAGCTTTAATATATTCCATTGCAACGCCAAAAGAATAAGAGTCGCTAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCC-AGAGAAAAAGATTCGCTGC
*
52241296 CTTTAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAA-AAGATTCGCTGC
* * *
52241347 CTTCAGCTTTAATC---T--ACTGCAACGCTAGGGAAAAAGATTCACTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAAAAGATTCGCTGC
* *
52241392 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAAAAGATTTGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAAAAGATTCGCTGC
52241442 CTTCAGCTTTAATCTGTTCCACTGCAACGCCA-AGGAAAAAAGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGA-G-AAAAAGATTCGCTGC
* * * *
52241493 CTTCAGCTTTAATC---T--ACTGCAACGCCAGGGAAAAAATATTCGTTAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGAG-AAAAAGATTCGCTGC
* * *
52241539 CTTCAACTTTAATCTGTTCCACTGTC-ACACCATAGAAATAAGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTG-CAACGCCAGAGAAA-AAGATTCGCTGC
* * * *
52241590 CTTCAACTTTAATC---T--ACTGCGACACCAAAGAAATAAGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAA-AAGATTCGCTGC
* *
52241636 CTTCAGCTTTAATCTGCTCCACTGCCACGCCAG
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAG
52241669 GGGTATAAGG
Statistics
Matches: 318, Mismatches: 33, Indels: 44
0.81 0.08 0.11
Matches are distributed among these distances:
45 26 0.08
46 96 0.30
48 4 0.01
49 2 0.01
50 68 0.21
51 121 0.38
52 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (50 bp):
CTTCAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAAAAGATTCGCTGC
Found at i:52241525 original size:46 final size:47
Alignment explanation
Indices: 52241315--52241650 Score: 333
Period size: 46 Copynumber: 7.0 Consensus size: 47
52241305 TAATCTGTTC
* *
52241315 CACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCT
1 CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT
* *
52241362 -ACTGCAACGCTAGGG-AAAAAGATTCACTGCCTTCAGCTTTAATCTGTT
1 CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC---T
*
52241410 CCACTGCAACGCCAGGG-AAAAAGATTTGCTGCCTTCAGCTTTAATCTGTT
1 -CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC---T
*
52241460 CCACTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT
1 -CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT
* * * *
52241508 -ACTGCAACGCCAGGGAAAAAATATTCGTTACCTTCAACTTTAATCTGTT
1 CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC---T
* ** * *
52241557 CCACTGTC-ACACCATAGAAATAAGATTCGCTGCCTTCAACTTTAATCT
1 -CACTG-CAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT
* * ** *
52241605 -ACTGCGACACCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCT
1 CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT
52241651 GCTCCACTGC
Statistics
Matches: 253, Mismatches: 23, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
45 28 0.11
46 95 0.38
48 3 0.01
49 1 0.00
50 61 0.24
51 64 0.25
52 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (47 bp):
CACTGCAACGCCAGGGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT
Found at i:52241562 original size:97 final size:98
Alignment explanation
Indices: 52241245--52241667 Score: 420
Period size: 97 Copynumber: 4.3 Consensus size: 98
52241235 ATCCGCTCTA
* * * * * *
52241245 CTTCAGCTTTAATATATTCCATTGCAACGCCAA-AAGAATAAGAGTCGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGAA-AA-AAGATTCGCTGCCTTCAGCTTTAAT
*
52241309 CTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTGC
64 C--TT-CACTGCAACGCCAGAGAAAAAAGATTCGCTGC
* * * *
52241347 CTTCAGCTTTAATC---T--ACTGCAACGCTAGGGAAAAAGATTCACTGCCTTCAGCTTTAATCT
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGAAAAAAGATTCGCTGCCTTCAGCTTTAATC-
* *
52241407 GTTCCACTGCAACGCCAG-GGAAAAAGATTTGCTGC
65 -TT-CACTGCAACGCCAGAGAAAAAAGATTCGCTGC
52241442 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAAAAAGATTCGCTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAA-GAAAAAAGATTCGCTGCCTTCAGCTTTAATC
* * * *
52241507 -T-ACTGCAACGCCAGGGAAAAAATATTCGTTAC
65 TTCACTGCAACGCCAGAGAAAAAAGATTCGCTGC
* * * *
52241539 CTTCAACTTTAATCTGTTCCACTGTC-ACACCATAGAAATAAGATTCGCTGCCTTCAACTTTAAT
1 CTTCAGCTTTAATCTGTTCCACTG-CAACGCCA-AGAAAAAAGATTCGCTGCCTTCAGCTTTAAT
* * * *
52241603 C-T-ACTGCGACACCAAAGAAATAAGATTCGCTGC
64 CTTCACTGCAACGCCAGAGAAAAAAGATTCGCTGC
* *
52241636 CTTCAGCTTTAATCTGCTCCACTGCCACGCCA
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCA
52241668 GGGGTATAAG
Statistics
Matches: 274, Mismatches: 36, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
95 28 0.10
96 55 0.20
97 132 0.48
98 5 0.02
99 1 0.00
100 11 0.04
101 29 0.11
102 13 0.05
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (98 bp):
CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGAAAAAAGATTCGCTGCCTTCAGCTTTAATCT
TCACTGCAACGCCAGAGAAAAAAGATTCGCTGC
Found at i:52242924 original size:11 final size:11
Alignment explanation
Indices: 52242910--52242934 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52242900 TTATTTTTGG
52242910 TTTATTATTTT
1 TTTATTATTTT
52242921 TTTATTATTTT
1 TTTATTATTTT
52242932 TTT
1 TTT
52242935 GTATTCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:52243982 original size:20 final size:19
Alignment explanation
Indices: 52243957--52243994 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
52243947 CATTTTTCGA
52243957 TTTTGATTATTTTTATTTTG
1 TTTTGATTA-TTTTATTTTG
52243977 TTTTGATTATTTTATTTT
1 TTTTGATTATTTTATTTT
52243995 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTGATTATTTTATTTTG
Found at i:52243995 original size:20 final size:22
Alignment explanation
Indices: 52243942--52243995 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 22
52243932 TTTTTTCATC
52243942 ATTTTCATTTTTCGATTTTGATT
1 ATTTT-ATTTTTCGATTTTGATT
52243965 ATTTT-TATTTT-G-TTTTGATT
1 ATTTTAT-TTTTCGATTTTGATT
52243985 ATTTTATTTTT
1 ATTTTATTTTT
52243996 TAATTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 17 0.59
21 3 0.10
22 4 0.14
23 5 0.17
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (22 bp):
ATTTTATTTTTCGATTTTGATT
Found at i:52244002 original size:6 final size:6
Alignment explanation
Indices: 52243993--52244026 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
52243983 TTATTTTATT
*
52243993 TTTTAA TTTTAA TTTTAA TTTTAA TTGTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
52244027 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:52246207 original size:37 final size:37
Alignment explanation
Indices: 52246146--52246291 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
52246136 TACGTATGAT
* *
52246146 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
52246181 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
52246218 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
52246255 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
52246292 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:52246308 original size:46 final size:46
Alignment explanation
Indices: 52246255--52246523 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
52246245 TAAGTGTAGC
* **
52246255 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
52246301 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
52246347 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
52246399 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
52246445 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
52246497 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
52246524 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:52246374 original size:52 final size:52
Alignment explanation
Indices: 52246298--52246517 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
52246288 TAGCTAAAGC
* *
52246298 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
52246351 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
52246403 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
52246449 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
52246501 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
52246518 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:52246420 original size:98 final size:98
Alignment explanation
Indices: 52246255--52246523 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
52246245 TAAGTGTAGC
* * *
52246255 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
52246320 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
52246354 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
52246419 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
52246452 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
52246517 GATCAGA
66 GATCAGA
52246524 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:52249595 original size:16 final size:16
Alignment explanation
Indices: 52249570--52249604 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
52249560 TTCTATGATG
*
52249570 AAATGCCATGCAGTCA
1 AAATGCCATGCAGCCA
*
52249586 AAATGTCATGCAGCCA
1 AAATGCCATGCAGCCA
52249602 AAA
1 AAA
52249605 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGCCA
Found at i:52259989 original size:20 final size:20
Alignment explanation
Indices: 52259953--52259990 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52259943 CAAATAATCT
*
52259953 ATTCTTAAAAATGTTAAATA
1 ATTCTTAAAAATATTAAATA
52259973 ATTC-TAAAAATTATTAAA
1 ATTCTTAAAAA-TATTAAA
52259991 AATGGTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTCTTAAAAATATTAAATA
Found at i:52260009 original size:29 final size:27
Alignment explanation
Indices: 52259957--52260016 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
52259947 TAATCTATTC
* *
52259957 TTAAAAATGTTAAATAATTCTAAAAATTA
1 TTAAAAATGGTAAATAA-T-TATAAATTA
52259986 TTAAAAATGGT-AATAATATATAAATTA
1 TTAAAAATGGTAAATAAT-TATAAATTA
52260013 TTAA
1 TTAA
52260017 TTATTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
28 5 0.18
29 10 0.36
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (27 bp):
TTAAAAATGGTAAATAATTATAAATTA
Found at i:52260045 original size:34 final size:33
Alignment explanation
Indices: 52259981--52260052 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
52259971 TAATTCTAAA
* *
52259981 AATTATTAAAAATGGTAATAATATATAAATTATT
1 AATTATTAAAAATAGTAAAAATATATAAATT-TT
*
52260015 AATTATTAAAAATATTAAAAATAT-TAAAATTTT
1 AATTATTAAAAATAGTAAAAATATAT-AAATTTT
52260048 -ATTAT
1 AATTAT
52260053 GATATTTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 5 0.15
33 3 0.09
34 26 0.76
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (33 bp):
AATTATTAAAAATAGTAAAAATATATAAATTTT
Found at i:52260378 original size:38 final size:38
Alignment explanation
Indices: 52260329--52260408 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
52260319 AATTATTAAG
* * *
52260329 AAAATATTTTTATAA-TTTTTAATGATGTTTAATTTTTA
1 AAAATAGTTTTATAACTTTTTAA-AATGTTTAAATTTTA
*
52260367 AAAATAGTTTTATAACTTTTTAAAATTTTTAAATTTTA
1 AAAATAGTTTTATAACTTTTTAAAATGTTTAAATTTTA
52260405 AAAA
1 AAAA
52260409 CTTAATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 30 0.81
39 7 0.19
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (38 bp):
AAAATAGTTTTATAACTTTTTAAAATGTTTAAATTTTA
Found at i:52262937 original size:16 final size:16
Alignment explanation
Indices: 52262916--52262951 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
52262906 GCTTTTTCCA
52262916 TTTTTTTACTAAGAAT
1 TTTTTTTACTAAGAAT
*
52262932 TTTTTTTGCTAAGAAT
1 TTTTTTTACTAAGAAT
52262948 TTTT
1 TTTT
52262952 ATACCTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (16 bp):
TTTTTTTACTAAGAAT
Found at i:52273121 original size:19 final size:19
Alignment explanation
Indices: 52273094--52273130 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
52273084 GAGTGAGATA
*
52273094 ATTTGAAATTAAAAATATT
1 ATTTAAAATTAAAAATATT
52273113 ATTTAAAATTAAAAATAT
1 ATTTAAAATTAAAAATAT
52273131 AAGAACTGGA
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:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTTAAAATTAAAAATATT
Found at i:52273641 original size:23 final size:23
Alignment explanation
Indices: 52273610--52273674 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
52273600 AAAAAACTAA
*
52273610 TTGATATGATTATATCATTAAAAC
1 TTGA-ATGATTATATAATTAAAAC
* *
52273634 TTGCATGATAATATAAAATTAAAAC
1 TTGAATGAT--TATATAATTAAAAC
*
52273659 TTGAATGATAATATAA
1 TTGAATGATTATATAA
52273675 AATTAAAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
23 10 0.30
24 3 0.09
25 20 0.61
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (23 bp):
TTGAATGATTATATAATTAAAAC
Found at i:52273654 original size:25 final size:25
Alignment explanation
Indices: 52273626--52273682 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
52273616 TGATTATATC
*
52273626 ATTAAAACTTGCATGATAATATAAA
1 ATTAAAACTTGAATGATAATATAAA
52273651 ATTAAAACTTGAATGATAATATAAA
1 ATTAAAACTTGAATGATAATATAAA
52273676 ATTAAAA
1 ATTAAAA
52273683 TCTTTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
ATTAAAACTTGAATGATAATATAAA
Found at i:52277256 original size:43 final size:42
Alignment explanation
Indices: 52277148--52277412 Score: 199
Period size: 43 Copynumber: 6.2 Consensus size: 42
52277138 GGAAAAACGT
* * * * * **
52277148 CGCTATAGAACATGACATTTAGCAACGTTTTTCACAAAAATTT
1 CGCTAAAGAACATGACCTTTAGCGACG-CTTTCCCAAAAATAC
* * * * *
52277191 CACTATAGAACATGACATTTAGCGATGCTTCTCACAAAAATAC
1 CGCTAAAGAACATGACCTTTAGCGACGCTT-TCCCAAAAATAC
* * * **
52277234 CGCTAAAGAACATGACCCTTAGCGGCGCTTTCCCCATAAACGC
1 CGCTAAAGAACATGACCTTTAGCGACGCTTT-CCCAAAAATAC
** * ** * *
52277277 CGCTATGGAACATGACCTTTAGCGGCAATTTTCCCATAAACAC
1 CGCTAAAGAACATGACCTTTAGCGAC-GCTTTCCCAAAAATAC
* *
52277320 CGCTAAAGAACATGACCTTTAGCGACGCTTTCCCCACAAATGC
1 CGCTAAAGAACATGACCTTTAGCGACGCTTT-CCCAAAAATAC
* **
52277363 CAG-TAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACGC
1 C-GCTAAAGAACATGACCTTTAGCGACGC-TTTCCCAAAAATAC
52277406 CGCTAAA
1 CGCTAAA
52277413 AGTCATGTTT
Statistics
Matches: 182, Mismatches: 33, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
42 7 0.04
43 168 0.92
44 7 0.04
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (42 bp):
CGCTAAAGAACATGACCTTTAGCGACGCTTTCCCAAAAATAC
Found at i:52277288 original size:86 final size:86
Alignment explanation
Indices: 52277193--52277412 Score: 248
Period size: 86 Copynumber: 2.5 Consensus size: 86
52277183 AAAAATTTCA
* *
52277193 CTATAGAACATGACATTTAGCGATGC-TTCTCACAAAAATACCGCTAAAGAACATGACCCTTAGC
1 CTATAGAACATGACCTTTAGCG--GCATTCTCACAAAAACACCGCTAAAGAACATGACCCTTAGC
* *
52277257 GGCGCTTTCCCCATAAACGCC-G
64 GACGCTTTCCCCACAAACGCCAG
* * * * *
52277279 CTATGGAACATGACCTTTAGCGGCAATTTTCCCATAAACACCGCTAAAGAACATGACCTTTAGCG
1 CTATAGAACATGACCTTTAGCGGC-ATTCTCACAAAAACACCGCTAAAGAACATGACCCTTAGCG
*
52277344 ACGCTTTCCCCACAAATGCCAG
65 ACGCTTTCCCCACAAACGCCAG
* * * * *
52277366 -TAAAGAACATGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAA
1 CTATAGAACATGACCTTTAGCGGC-ATTCTCACAAAAACACCGCTAAA
52277413 AGTCATGTTT
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
84 2 0.02
86 112 0.97
87 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.22
Consensus pattern (86 bp):
CTATAGAACATGACCTTTAGCGGCATTCTCACAAAAACACCGCTAAAGAACATGACCCTTAGCGA
CGCTTTCCCCACAAACGCCAG
Found at i:52277309 original size:129 final size:129
Alignment explanation
Indices: 52277140--52277410 Score: 312
Period size: 129 Copynumber: 2.1 Consensus size: 129
52277130 GTTTATGTGG
* ** *** *
52277140 AAAAACGTCGCTATAGAACATGACATTTAGCAACGTTTTTCACAAAAATTTCACTATAGAACATG
1 AAAAACGCCGCTATAGAACATGACATTTAGCAACAATTTTCACAAAAACACCACTAAAGAACATG
*
52277205 ACATTTAGCGATGC-TTCTCACAAAAATACC-GCTAAAGAACATGACCCTTAGCGGCGCTTTCCC
66 ACATTTAGCGACGCTTTC-CACAAAAATACCAG-TAAAGAACATGACCCTTAGCGGCGCTTTCCC
52277268 C
129 C
* * * ** * * *
52277269 ATAAACGCCGCTATGGAACATGACCTTTAGCGGCAATTTTCCCATAAACACCGCTAAAGAACATG
1 AAAAACGCCGCTATAGAACATGACATTTAGCAACAATTTTCACAAAAACACCACTAAAGAACATG
* * * * * *
52277334 ACCTTTAGCGACGCTTTCCCCACAAATGCCAGTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
66 ACATTTAGCGACGCTTTCCACAAAAATACCAGTAAAGAACATGACCCTTAGCGGCGCTTTCCCC
52277398 AAAAACGCCGCTA
1 AAAAACGCCGCTA
52277411 AAAGTCATGT
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
129 113 0.97
130 4 0.03
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (129 bp):
AAAAACGCCGCTATAGAACATGACATTTAGCAACAATTTTCACAAAAACACCACTAAAGAACATG
ACATTTAGCGACGCTTTCCACAAAAATACCAGTAAAGAACATGACCCTTAGCGGCGCTTTCCCC
Found at i:52277843 original size:66 final size:65
Alignment explanation
Indices: 52277717--52277859 Score: 171
Period size: 66 Copynumber: 2.2 Consensus size: 65
52277707 TTTCATCATA
* * * *
52277717 TTTTGAAGCTGTAGTTGGAGTTCGTCATATTTTCTACTTGCCTCTGCTTCCCTCGCTGTTGCCTC
1 TTTT-AAGTTGTAGCTGGAGTTCGTCATATTTTCTA-TTGCCTCTACTTCCCTCGATGTTGCCTC
52277782 CG
64 CG
* * *
52277784 TTTTAAGTTGTAGCTGGAGTTCTTCATATTTTCT-TTGAGCCTCTACTTCTCTCGATGTTGTCTC
1 TTTTAAGTTGTAGCTGGAGTTCGTCATATTTTCTATT--GCCTCTACTTCCCTCGATGTTGCCTC
52277848 CG
64 CG
*
52277850 CTTTAAGTTG
1 TTTTAAGTTG
52277860 AGCAATTTGC
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
64 2 0.03
66 60 0.91
67 4 0.06
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (65 bp):
TTTTAAGTTGTAGCTGGAGTTCGTCATATTTTCTATTGCCTCTACTTCCCTCGATGTTGCCTCCG
Found at i:52282042 original size:38 final size:39
Alignment explanation
Indices: 52281950--52282058 Score: 184
Period size: 39 Copynumber: 2.8 Consensus size: 39
52281940 AAATTATCCC
52281950 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
* *
52281989 ACCCAACCAAATAAAACTAAAACTAAAGTCTACCTAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
*
52282028 A-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTA
52282059 ACTCTTAAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 28 0.42
39 38 0.58
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.18
Consensus pattern (39 bp):
ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
Found at i:52282233 original size:37 final size:37
Alignment explanation
Indices: 52282187--52282261 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
52282177 TGTTAATTTC
* *
52282187 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGAGATTCA
* *
52282224 AAGACTTATGTCATATTTTTAATTATGTAGAGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGAGATTCA
52282261 A
1 A
52282262 TTCGGATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGAGATTCA
Found at i:52282284 original size:9 final size:9
Alignment explanation
Indices: 52282260--52282308 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
52282250 GTAGAGATTC
*
52282260 AATTCGGAT
1 AATTCGGGT
*
52282269 AAATCGGGT
1 AATTCGGGT
52282278 AATTCGGGT
1 AATTCGGGT
*
52282287 AATTCGGTT
1 AATTCGGGT
*
52282296 AATTCGGTT
1 AATTCGGGT
52282305 AATT
1 AATT
52282309 GTTAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (9 bp):
AATTCGGGT
Found at i:52284194 original size:9 final size:9
Alignment explanation
Indices: 52284180--52284313 Score: 109
Period size: 9 Copynumber: 15.3 Consensus size: 9
52284170 TTTATGTATA
52284180 ATGTAAGTT
1 ATGTAAGTT
52284189 ATGTAAGTT
1 ATGTAAGTT
52284198 ATGTAAGTT
1 ATGTAAGTT
* *
52284207 ATGATATGAT
1 ATG-TAAGTT
* *
52284217 ATAT-ATTT
1 ATGTAAGTT
52284225 ATG-AA-TT
1 ATGTAAGTT
52284232 ATGTAAGTT
1 ATGTAAGTT
*
52284241 ATGTAAGTG
1 ATGTAAGTT
52284250 ATGTAAGTT
1 ATGTAAGTT
* *
52284259 ATGATATGAT
1 ATG-TAAGTT
* *
52284269 ATAT-ATTT
1 ATGTAAGTT
*
52284277 ATGT-A-TC
1 ATGTAAGTT
52284284 ATGTAAGTT
1 ATGTAAGTT
52284293 ATGTAAGTT
1 ATGTAAGTT
*
52284302 ATGTACGTT
1 ATGTAAGTT
52284311 ATG
1 ATG
52284314 ATCCAAAGTT
Statistics
Matches: 99, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
7 10 0.10
8 12 0.12
9 65 0.66
10 12 0.12
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:52284201 original size:52 final size:52
Alignment explanation
Indices: 52284144--52284315 Score: 299
Period size: 52 Copynumber: 3.3 Consensus size: 52
52284134 ATCCAAAGTT
52284144 TTATGTAAGTTATGATATGATATATATTTATGTATAATGTAAGTTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATAATGTAAGTTATGTAAG
* *
52284196 TTATGTAAGTTATGATATGATATATATTTATGAATTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATAATGTAAGTTATGTAAG
* *
52284248 TGATGTAAGTTATGATATGATATATATTTATGTATCATGTAAGTTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATAATGTAAGTTATGTAAG
*
52284300 TTATGTACGTTATGAT
1 TTATGTAAGTTATGAT
52284316 CCAAAGTTTT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 113 1.00
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (52 bp):
TTATGTAAGTTATGATATGATATATATTTATGTATAATGTAAGTTATGTAAG
Found at i:52284401 original size:14 final size:14
Alignment explanation
Indices: 52284364--52284416 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
52284354 TATGATTATC
52284364 ATCTTTAAATTTTA
1 ATCTTTAAATTTTA
52284378 A-CTTTAAATTTTA
1 ATCTTTAAATTTTA
* *
52284391 ATCTTTTAATTATA
1 ATCTTTAAATTTTA
* *
52284405 CTCTTTTAATTT
1 ATCTTTAAATTT
52284417 ATAAATTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.58
Consensus pattern (14 bp):
ATCTTTAAATTTTA
Found at i:52284418 original size:15 final size:15
Alignment explanation
Indices: 52284359--52284420 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 15
52284349 TAAGTTATGA
* *
52284359 TTATCATCTTTAAAT
1 TTATAATCTTTTAAT
*
52284374 TT-TAA-CTTTAAAT
1 TTATAATCTTTTAAT
52284387 TT-TAATCTTTTAA-
1 TTATAATCTTTTAAT
*
52284400 TTATACTCTTTTAAT
1 TTATAATCTTTTAAT
52284415 TTATAA
1 TTATAA
52284421 ATTTGTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 15 0.38
14 18 0.45
15 7 0.17
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATAATCTTTTAAT
Found at i:52287750 original size:39 final size:39
Alignment explanation
Indices: 52287696--52287770 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
52287686 ACCTCTATTG
52287696 TTAAAGAATCAACCAAGAACAAGTAGCAACATTAAACAC
1 TTAAAGAATCAACCAAGAACAAGTAGCAACATTAAACAC
52287735 TTAAAGAATCAACCAAGAACAAGTAGCAACATTAAA
1 TTAAAGAATCAACCAAGAACAAGTAGCAACATTAAA
52287771 TACCTCTAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.55, C:0.19, G:0.11, T:0.16
Consensus pattern (39 bp):
TTAAAGAATCAACCAAGAACAAGTAGCAACATTAAACAC
Found at i:52289365 original size:41 final size:40
Alignment explanation
Indices: 52289287--52289373 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
52289277 TTTGCAGCCT
* *
52289287 TTTTTCTCATAAACGCCACCAATGCTTGACCTTTTGCGACA
1 TTTTTCTCATAAACGCCACCAATGATTGACCTATTGCG-CA
* * * *
52289328 TTTTTCTCATAAACGCCGCTAATGATTTACCTATTGCGCG
1 TTTTTCTCATAAACGCCACCAATGATTGACCTATTGCGCA
52289368 TTTTTC
1 TTTTTC
52289374 GTTAGCGCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 7 0.17
41 33 0.82
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (40 bp):
TTTTTCTCATAAACGCCACCAATGATTGACCTATTGCGCA
Found at i:52303321 original size:18 final size:18
Alignment explanation
Indices: 52303298--52303334 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
52303288 ACTCGGTTGG
52303298 ATAATGGCATGTATAGCT
1 ATAATGGCATGTATAGCT
52303316 ATAATGGCATGTATAGCT
1 ATAATGGCATGTATAGCT
52303334 A
1 A
52303335 GACTCGTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (18 bp):
ATAATGGCATGTATAGCT
Found at i:52304363 original size:24 final size:25
Alignment explanation
Indices: 52304312--52304366 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
52304302 AGTTTTGGAT
* *
52304312 AGCCATATATCGGGAAGTTTAAGCG
1 AGCCATATATCGGGAAGTCTAAGAG
52304337 AGCCA-ATATCGGGAAGCTCT-AGAG
1 AGCCATATATCGGGAAG-TCTAAGAG
52304361 AGCCAT
1 AGCCAT
52304367 TAATTAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
AGCCATATATCGGGAAGTCTAAGAG
Found at i:52311463 original size:6 final size:6
Alignment explanation
Indices: 52311452--52311487 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
52311442 TAATCGGAAT
*
52311452 GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA GCGAAA
1 GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA
52311488 TGCTTCTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (6 bp):
GAGAAA
Found at i:52324144 original size:32 final size:32
Alignment explanation
Indices: 52324108--52324169 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
52324098 GTCACTTGGA
52324108 GTTGGAT-TAGACGATGAAGACACTGGTATAGG
1 GTTGGATCT-GACGATGAAGACACTGGTATAGG
* * *
52324140 GTTGGATCTGATGATGAAGGCATTGGTATA
1 GTTGGATCTGACGATGAAGACACTGGTATA
52324170 AGATATCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.34, T:0.29
Consensus pattern (32 bp):
GTTGGATCTGACGATGAAGACACTGGTATAGG
Found at i:52324925 original size:33 final size:33
Alignment explanation
Indices: 52324858--52324926 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
52324848 AGCCCAAAAC
* * *
52324858 AGTACTGAAACAGTTCCAAAACAGTACCTAAAT
1 AGTACTGAAACAGTGCCAAAACAATACCCAAAT
* *
52324891 AGTATTGAAACAGTGCCAAAACAATACCCGAAT
1 AGTACTGAAACAGTGCCAAAACAATACCCAAAT
52324924 AGT
1 AGT
52324927 TCCCAATTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (33 bp):
AGTACTGAAACAGTGCCAAAACAATACCCAAAT
Found at i:52342540 original size:4 final size:4
Alignment explanation
Indices: 52342531--52342572 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
52342521 TTGCATGACC
52342531 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
52342573 ATCTATATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:52342581 original size:12 final size:12
Alignment explanation
Indices: 52342531--52342600 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
52342521 TTGCATGACC
* *
52342531 ATCTATCTATCT
1 ATCTATATATAT
* *
52342543 ATCTATCTATCT
1 ATCTATATATAT
* *
52342555 ATCTATCTATCT
1 ATCTATATATAT
*
52342567 ATCTATATCTAT
1 ATCTATATATAT
52342579 ATCTATATATAT
1 ATCTATATATAT
*
52342591 ATATATATAT
1 ATCTATATAT
52342601 GTATTTGGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 53 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (12 bp):
ATCTATATATAT
Found at i:52364561 original size:25 final size:25
Alignment explanation
Indices: 52364524--52364619 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
52364514 GACACACCAC
* *
52364524 AGCTCTCACGAGCTTCCCGTTATTT
1 AGCTCTCATGAGCTTCCCGATATTT
* * *
52364549 AGCTCTTATGAGCATCTCGATATTT
1 AGCTCTCATGAGCTTCCCGATATTT
* * *
52364574 GGCTCGCATGAGCTTCCCGATAATT
1 AGCTCTCATGAGCTTCCCGATATTT
*
52364599 GGCTCTCATGAGCTTCCCGAT
1 AGCTCTCATGAGCTTCCCGAT
52364620 TAATGGCTCT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.33
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCCCGATATTT
Found at i:52364626 original size:25 final size:25
Alignment explanation
Indices: 52364525--52364727 Score: 101
Period size: 25 Copynumber: 8.1 Consensus size: 25
52364515 ACACACCACA
* * * *
52364525 GCTCTCACGAGCTTCCCGTTATTTA
1 GCTCTCATGAGCTTCCCGATATATG
* * * *
52364550 GCTCTTATGAGCATCTCGATATTTG
1 GCTCTCATGAGCTTCCCGATATATG
*
52364575 GCTCGCATGAGCTTCCCGATA-ATTG
1 GCTCTCATGAGCTTCCCGATATA-TG
52364600 GCTCTCATGAGCTTCCCGAT-TAATG
1 GCTCTCATGAGCTTCCCGATAT-ATG
* * * * **
52364625 GCTCTCTTAAGCTTCCTGTTATACA
1 GCTCTCATGAGCTTCCCGATATATG
*
52364650 ACTCGT-ATGAGCTTCCCGATACTCA--
1 GCTC-TCATGAGCTTCCCGATA-T-ATG
** * * **
52364675 GCTGGCAAGAGCTTCCCGTTATACA
1 GCTCTCATGAGCTTCCCGATATATG
* * *
52364700 ACTCACATGAGCTTCCCGTTATATG
1 GCTCTCATGAGCTTCCCGATATATG
52364725 GCT
1 GCT
52364728 TGGAACAACT
Statistics
Matches: 133, Mismatches: 35, Indels: 20
0.71 0.19 0.11
Matches are distributed among these distances:
23 1 0.01
24 1 0.01
25 126 0.95
26 4 0.03
27 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATATATG
Found at i:52366272 original size:30 final size:30
Alignment explanation
Indices: 52366236--52366296 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
52366226 TTATCATGTG
52366236 ATTAATTCAAAAAAGGCTATATTTAAATGC
1 ATTAATTCAAAAAAGGCTATATTTAAATGC
*
52366266 ATTAATTCGAAAAAGGCTATATTTAAATGC
1 ATTAATTCAAAAAAGGCTATATTTAAATGC
52366296 A
1 A
52366297 CTAGCTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (30 bp):
ATTAATTCAAAAAAGGCTATATTTAAATGC
Found at i:52369357 original size:20 final size:20
Alignment explanation
Indices: 52369289--52369357 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
52369279 TTAACTGTGT
52369289 AATTATCACAATTTCTATTA
1 AATTATCACAATTTCTATTA
* * ** *
52369309 AACTATAATTATTTTTAATGTA
1 AATTATCACAATTTCT-AT-TA
*
52369331 TAATTATCACGATTTCTATTA
1 -AATTATCACAATTTCTATTA
52369352 AATTAT
1 AATTAT
52369358 AATTATTTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 17 0.47
21 4 0.11
22 4 0.11
23 11 0.31
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (20 bp):
AATTATCACAATTTCTATTA
Found at i:52369405 original size:44 final size:44
Alignment explanation
Indices: 52369263--52369394 Score: 189
Period size: 43 Copynumber: 3.0 Consensus size: 44
52369253 TAATTTTAAT
* *
52369263 TTAAATT-TGAATT-TTTTTAACTGTGTAATTATCACAATTTCTA
1 TTAAATTAT-AATTATTTTTAAATGTATAATTATCACAATTTCTA
* *
52369306 TTAAACTATAATTATTTTT-AATGTATAATTATCACGATTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAATTTCTA
*
52369349 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAATTTCTA
52369393 TT
1 TT
52369395 TTATTTTAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
43 49 0.62
44 30 0.38
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATCACAATTTCTA
Found at i:52370032 original size:26 final size:26
Alignment explanation
Indices: 52370001--52370053 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
52369991 AAAATATATA
*
52370001 AATTATCATAAATATAAATATTATTT
1 AATTATCATAAAGATAAATATTATTT
* * *
52370027 AATTATTATTAAGATAAATATTGTTT
1 AATTATCATAAAGATAAATATTATTT
52370053 A
1 A
52370054 TCTTAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (26 bp):
AATTATCATAAAGATAAATATTATTT
Found at i:52370630 original size:24 final size:26
Alignment explanation
Indices: 52370587--52370659 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 26
52370577 ATATACTTAA
*
52370587 ATATTTT-TTATTTTAATAAAA-TTAT-
1 ATATTTTATTATTTT--TAAAAGTAATC
52370612 ATATTTTATTATTTTTAAAAGTAATC
1 ATATTTTATTATTTTTAAAAGTAATC
52370638 ATATTAATATATTATTTTTAAA
1 ATATT--T-TATTATTTTTAAA
52370660 TAATAATGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
24 5 0.12
25 10 0.24
26 12 0.29
28 1 0.02
29 13 0.32
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (26 bp):
ATATTTTATTATTTTTAAAAGTAATC
Found at i:52370641 original size:26 final size:24
Alignment explanation
Indices: 52370587--52370664 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 24
52370577 ATATACTTAA
*
52370587 ATATTTT-TTATTTTAATAAAATTAT
1 ATATTTTATTATTTT--TAAAATAAT
52370612 ATATTTTATTATTTTTAAAAGTAAT
1 ATATTTTATTATTTTTAAAA-TAAT
52370637 CATATTAATATATTATTTTT-AAATAAT
1 -ATATT--T-TATTATTTTTAAAATAAT
52370664 A
1 A
52370665 ATGCTTTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
24 5 0.11
25 10 0.22
26 13 0.28
27 4 0.09
28 4 0.09
29 10 0.22
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (24 bp):
ATATTTTATTATTTTTAAAATAAT
Found at i:52375839 original size:14 final size:14
Alignment explanation
Indices: 52375820--52375846 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52375810 AAATATAAAG
52375820 GGGAAAAGCAAAAT
1 GGGAAAAGCAAAAT
52375834 GGGAAAAGCAAAA
1 GGGAAAAGCAAAA
52375847 GAATTTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.30, T:0.04
Consensus pattern (14 bp):
GGGAAAAGCAAAAT
Found at i:52376886 original size:11 final size:11
Alignment explanation
Indices: 52376870--52376897 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
52376860 GTTAATGAAC
52376870 AAATGATATAT
1 AAATGATATAT
52376881 AAATGATATAT
1 AAATGATATAT
52376892 AAATGA
1 AAATGA
52376898 GCTATTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (11 bp):
AAATGATATAT
Found at i:52377945 original size:31 final size:30
Alignment explanation
Indices: 52377876--52377977 Score: 143
Period size: 31 Copynumber: 3.4 Consensus size: 30
52377866 TGTTTTGTAC
* * *
52377876 ATTGCCGAATTTGATTTGTATAT-ATATAC
1 ATTGCCGAATTTGAATTGTTTATGATATAT
52377905 ATTGCCGAATTTGAATTGTTTATGAATATAT
1 ATTGCCGAATTTGAATTGTTTATG-ATATAT
*
52377936 ATTGTCGAATTTGAATTGTTTATGGATATAT
1 ATTGCCGAATTTGAATTGTTTAT-GATATAT
52377967 ATTGCCGAATT
1 ATTGCCGAATT
52377978 GATTTGAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
29 21 0.32
31 43 0.66
32 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (30 bp):
ATTGCCGAATTTGAATTGTTTATGATATAT
Found at i:52378159 original size:43 final size:43
Alignment explanation
Indices: 52378098--52378291 Score: 280
Period size: 43 Copynumber: 4.5 Consensus size: 43
52378088 ACTTTCGAGG
* *
52378098 TGAGATTTCGAGTAAGACCATAGCTGGGCTACTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* *
52378141 TGAGATTTCGTTTAAGACCATAGTTGGGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * *
52378184 TGAGATTTCGTGTAAGGCCATAGCTAGGCTATTGCCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
*
52378227 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * *
52378270 CGAGATTCCCATGTAAGACCAT
1 TGAGATT-TCGTGTAAGACCAT
52378292 GTCTGGGACA
Statistics
Matches: 134, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
43 122 0.91
44 12 0.09
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
Found at i:52380458 original size:22 final size:22
Alignment explanation
Indices: 52380417--52380461 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52380407 ATAGTTTACT
*
52380417 TAACATAATAATATTTTATAAG
1 TAACATAATAATATTATATAAG
52380439 TAACATAATATATATATATATAA
1 TAACATAATA-ATAT-TATATAA
52380462 AGAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TAACATAATAATATTATATAAG
Found at i:52383449 original size:20 final size:20
Alignment explanation
Indices: 52383420--52383461 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
52383410 GCCGCTGTTA
*
52383420 GGGTTTGGATCTTATTTGAT
1 GGGTTGGGATCTTATTTGAT
52383440 GGGTTGGGATCTTATTTGAT
1 GGGTTGGGATCTTATTTGAT
52383460 GG
1 GG
52383462 ATTGATCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.05, G:0.36, T:0.45
Consensus pattern (20 bp):
GGGTTGGGATCTTATTTGAT
Found at i:52390641 original size:87 final size:87
Alignment explanation
Indices: 52390490--52390753 Score: 438
Period size: 87 Copynumber: 3.0 Consensus size: 87
52390480 TAATCTTTTG
* * * * *
52390490 GAGTTCTCAAGTACTGAAACATAGTTCAAGCATTTAGTTAAAGAAAATTTTGAAGCTAAGTCAGA
1 GAGTGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
*
52390555 ACCTAACATTGACGGAAAGTAA
66 ACCTAACATTGACAGAAAGTAA
* * *
52390577 GAGTGCTCAAGTATTGAAACATAGTTTAAACACTTAGTGAAAGACAATTTTGAAACTAAGTCAGA
1 GAGTGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
52390642 ACCTAACATTGACAGAAAGTAA
66 ACCTAACATTGACAGAAAGTAA
*
52390664 GAGTGCTCAAGTATTGAAACATAATTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
1 GAGTGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
52390729 ACCTAACATTGACAGAAAGTAA
66 ACCTAACATTGACAGAAAGTAA
52390751 GAG
1 GAG
52390754 GTCCATAGCC
Statistics
Matches: 164, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 164 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (87 bp):
GAGTGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
ACCTAACATTGACAGAAAGTAA
Found at i:52391266 original size:22 final size:22
Alignment explanation
Indices: 52391225--52391269 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52391215 ATAGTTTACT
*
52391225 TAACATAATAATATTTTATAAG
1 TAACATAATAATATTATATAAG
52391247 TAACATAATATATATATATATAA
1 TAACATAATA-ATAT-TATATAA
52391270 AGAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TAACATAATAATATTATATAAG
Found at i:52394257 original size:20 final size:20
Alignment explanation
Indices: 52394228--52394269 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
52394218 GCCGCTGTTA
*
52394228 GGGTTTGGATCTTATTTGAT
1 GGGTTGGGATCTTATTTGAT
52394248 GGGTTGGGATCTTATTTGAT
1 GGGTTGGGATCTTATTTGAT
52394268 GG
1 GG
52394270 ATTGATCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.05, G:0.36, T:0.45
Consensus pattern (20 bp):
GGGTTGGGATCTTATTTGAT
Found at i:52401453 original size:87 final size:87
Alignment explanation
Indices: 52401302--52401565 Score: 456
Period size: 87 Copynumber: 3.0 Consensus size: 87
52401292 AATCTTTTTG
* * *
52401302 GAGTTCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGAAAATTTTGAAGCTAAGTCAGA
1 GAGTGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
*
52401367 ACCTAACATTGACGGAAAGTAA
66 ACCTAACATTGACAGAAAGTAA
* * *
52401389 GAGTGCTCAAGTATTGAAACACAGTTTAAACATTTAGTGAAAGACAATTTTGAAACTAAGTCAGA
1 GAGTGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
52401454 ACCTAACATTGACAGAAAGTAA
66 ACCTAACATTGACAGAAAGTAA
*
52401476 GAATGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
1 GAGTGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
52401541 ACCTAACATTGACAGAAAGTAA
66 ACCTAACATTGACAGAAAGTAA
52401563 GAG
1 GAG
52401566 GTCTATAGCC
Statistics
Matches: 165, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 165 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (87 bp):
GAGTGCTCAAGTATTGAAACATAGTTCAAACATTTAGTTAAAGACAATTTTGAAACTAAGTCAGA
ACCTAACATTGACAGAAAGTAA
Found at i:52404795 original size:25 final size:25
Alignment explanation
Indices: 52404761--52404810 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
52404751 AGAAGAAAGA
52404761 AAGTTTTGCTTTCTTTACAAATTGG
1 AAGTTTTGCTTTCTTTACAAATTGG
*
52404786 AAGTTTTGCTTTCTTTACAATTTGG
1 AAGTTTTGCTTTCTTTACAAATTGG
52404811 TCTTTTCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (25 bp):
AAGTTTTGCTTTCTTTACAAATTGG
Found at i:52406992 original size:21 final size:22
Alignment explanation
Indices: 52406966--52407012 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
52406956 CTCTGCTCAA
*
52406966 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
52406987 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
52407009 ACTC
1 ACTC
52407013 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:52434313 original size:36 final size:34
Alignment explanation
Indices: 52434268--52434334 Score: 80
Period size: 36 Copynumber: 1.9 Consensus size: 34
52434258 CTCCATGCAT
* *
52434268 TGAACGTAGGACCTTCCGTAAGCATTCCCCCATGTG
1 TGAAAGTAGGACCCT-CGTAAG-ATTCCCCCATGTG
* *
52434304 TGAAAGTAGGTCCCTCGTAAGTTTCCCCCAT
1 TGAAAGTAGGACCCTCGTAAGATTCCCCCAT
52434335 ATGTTAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 9 0.33
35 6 0.22
36 12 0.44
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (34 bp):
TGAAAGTAGGACCCTCGTAAGATTCCCCCATGTG
Found at i:52435258 original size:26 final size:26
Alignment explanation
Indices: 52435222--52435273 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
52435212 AAGAAGACAT
*
52435222 TGTAACACCCCTAACCCGGCCCGATC
1 TGTAACACCCCTAACCCAGCCCGATC
52435248 TGTAACACCCCTAACCCAGCCCGATC
1 TGTAACACCCCTAACCCAGCCCGATC
52435274 GTCAGACCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.46, G:0.13, T:0.15
Consensus pattern (26 bp):
TGTAACACCCCTAACCCAGCCCGATC
Found at i:52438136 original size:17 final size:17
Alignment explanation
Indices: 52438114--52438147 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52438104 AAGAAAGATG
52438114 ATATGATTTGCGTGGTT
1 ATATGATTTGCGTGGTT
52438131 ATATGATTTGCGTGGTT
1 ATATGATTTGCGTGGTT
52438148 TTCTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.29, T:0.47
Consensus pattern (17 bp):
ATATGATTTGCGTGGTT
Found at i:52450557 original size:30 final size:30
Alignment explanation
Indices: 52450523--52450582 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
52450513 ACTTAACAAG
52450523 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
52450553 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
52450583 ATATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:52453892 original size:21 final size:21
Alignment explanation
Indices: 52453868--52453908 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
52453858 TCCCCCTCGG
52453868 AAGGTGGATATCACGATACCT
1 AAGGTGGATATCACGATACCT
* *
52453889 AAGGTTGATATCGCGATACC
1 AAGGTGGATATCACGATACC
52453909 ACTATAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (21 bp):
AAGGTGGATATCACGATACCT
Found at i:52459978 original size:152 final size:149
Alignment explanation
Indices: 52459672--52460076 Score: 508
Period size: 152 Copynumber: 2.7 Consensus size: 149
52459662 TATTATCTTT
* * * *
52459672 CTATTTAAGATTTGAAGAGAGACTGTGGATAGTTCTATATATTGTATCAACAAAGAGCAGATATT
1 CTATTTAAGAATTGAGGAGAGACTATGGATAGTTCTATATATTGTATCAACAAAGAGCAGATATG
* * * *
52459737 ATGAGAACTTATAATGAGATTAATGTTTAATATATATATGTAAACTGGTTGAGTCTTAGCTCGAT
66 ATAAGAACTTATAATGAGATTAAAGTTTAATATATATATGTAAACCGGTTGAGTCTTAACTCGAT
*
52459802 TGGTATGGATGTTGTCCTC
131 TGGTATGGATATTGTCCTC
* * *
52459821 TTATTTAAGGATTGGGGAGAGACTATGGATAGTTCTATATATTGTATCAACAAAGAGCAGATATG
1 CTATTTAAGAATTGAGGAGAGACTATGGATAGTTCTATATATTGTATCAACAAAGAGCAGATATG
* * *
52459886 ATAAGAACTTATAATGATCATATTAAAGTTTACTATATATATGTAAGCCGGTTGAGTCTTAACTC
66 ATAAGAACTTATAATG---AGATTAAAGTTTAATATATATATGTAAACCGGTTGAGTCTTAACTC
*
52459951 GATTGGTATGGGTATTGTCCTC
128 GATTGGTATGGATATTGTCCTC
* * * * * *
52459973 CTATTTAAGAATTGAGAAGAGACTATGGGTAATTCTAGATATTGTATCAAC-AAGTAACAAATAT
1 CTATTTAAGAATTGAGGAGAGACTATGGATAGTTCTATATATTGTATCAACAAAG-AGCAGATAT
* * * * *
52460037 AATAAGAA-TCTATAATAAAATTAATGTTTAAAATATATAT
65 GATAAGAACT-TATAATGAGATTAAAGTTTAATATATATAT
52460077 ATATTAAAAA
Statistics
Matches: 220, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
149 92 0.42
151 4 0.02
152 124 0.56
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (149 bp):
CTATTTAAGAATTGAGGAGAGACTATGGATAGTTCTATATATTGTATCAACAAAGAGCAGATATG
ATAAGAACTTATAATGAGATTAAAGTTTAATATATATATGTAAACCGGTTGAGTCTTAACTCGAT
TGGTATGGATATTGTCCTC
Found at i:52465598 original size:16 final size:16
Alignment explanation
Indices: 52465579--52465609 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52465569 TTGAAAAAGT
52465579 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
52465595 TTTCAAATTTATATG
1 TTTCAAATATATATG
52465610 CTGCAATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:52465906 original size:20 final size:20
Alignment explanation
Indices: 52465872--52465911 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
52465862 TTAAACTCTC
*
52465872 TTAAAAATTGCTAACTTAAA
1 TTAAAAATTGCTAACGTAAA
**
52465892 TTAAAAATTTTTAACGTAAA
1 TTAAAAATTGCTAACGTAAA
52465912 ATTTATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAAAATTGCTAACGTAAA
Found at i:52472534 original size:19 final size:20
Alignment explanation
Indices: 52472497--52472534 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52472487 AAATGGAATC
*
52472497 AAATCAGAATTTCATGTATA
1 AAATCAAAATTTCATGTATA
52472517 AAATCAAAATTT-ATGTAT
1 AAATCAAAATTTCATGTAT
52472535 GACATTGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (20 bp):
AAATCAAAATTTCATGTATA
Found at i:52474178 original size:6 final size:6
Alignment explanation
Indices: 52474169--52474193 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52474159 ACTTAATGTA
52474169 CTTCAT CTTCAT CTTCAT CTTCAT C
1 CTTCAT CTTCAT CTTCAT CTTCAT C
52474194 ATTACATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CTTCAT
Found at i:52476276 original size:9 final size:9
Alignment explanation
Indices: 52476260--52476338 Score: 122
Period size: 9 Copynumber: 8.8 Consensus size: 9
52476250 GGTATTTTTC
52476260 GGTAATTCG
1 GGTAATTCG
*
52476269 GTTAATTCG
1 GGTAATTCG
*
52476278 GTTAATTCG
1 GGTAATTCG
*
52476287 GTTAATTCG
1 GGTAATTCG
*
52476296 GTTAATTCG
1 GGTAATTCG
52476305 GGTAATTCG
1 GGTAATTCG
52476314 GGTAATTCG
1 GGTAATTCG
52476323 GGTAATTCG
1 GGTAATTCG
52476332 GGTAATT
1 GGTAATT
52476339 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:52476864 original size:31 final size:31
Alignment explanation
Indices: 52476824--52476886 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
52476814 GATATGGTGT
*
52476824 AATTATACACATAAAACTTTT-ATTTTGATTC
1 AATTATACACATAAAA-TTTTAACTTTGATTC
* *
52476855 AATTGTACACATGAAATTTTAACTTTGATTC
1 AATTATACACATAAAATTTTAACTTTGATTC
52476886 A
1 A
52476887 GTTGCATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (31 bp):
AATTATACACATAAAATTTTAACTTTGATTC
Found at i:52484215 original size:24 final size:24
Alignment explanation
Indices: 52484188--52484239 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
52484178 TTAGTAAGTC
*
52484188 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
52484212 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
52484236 AAAT
1 AAAT
52484240 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:52486186 original size:24 final size:24
Alignment explanation
Indices: 52486159--52486210 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
52486149 TTAGTAAGCC
*
52486159 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
52486183 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
52486207 AAAT
1 AAAT
52486211 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:52495235 original size:40 final size:39
Alignment explanation
Indices: 52495177--52495295 Score: 157
Period size: 39 Copynumber: 3.0 Consensus size: 39
52495167 AGTGAAAAGG
* *
52495177 TATATAGTTGCTAGTTTGTATTTTTGTACGATGCAGGGGT
1 TATATAATTGCTAGTTTGTATTTTTATACGATGCA-GGGT
* * *
52495217 TATATAATTGCTAATTTGTATTTTTATGCGATGCATGGT
1 TATATAATTGCTAGTTTGTATTTTTATACGATGCAGGGT
**
52495256 TATATAATTATTAGTTTGTATTTTTATACGATGCACGGGT
1 TATATAATTGCTAGTTTGTATTTTTATACGATGCA-GGGT
52495296 CACTTGTGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 34 0.50
40 34 0.50
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.47
Consensus pattern (39 bp):
TATATAATTGCTAGTTTGTATTTTTATACGATGCAGGGT
Found at i:52496301 original size:6 final size:6
Alignment explanation
Indices: 52496274--52496311 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
52496264 AACCAAACAC
*
52496274 AAAAA- AAAAAG -AAAAG AAAAAG AAAAAG AAGAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
52496312 TGGAAGAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:52497333 original size:215 final size:210
Alignment explanation
Indices: 52496897--52497846 Score: 687
Period size: 215 Copynumber: 4.4 Consensus size: 210
52496887 AAGATTATAG
** * * * *
52496897 AGAAAAGGGTAAATAAATATAGCTTGCCAACTAAATTTATCAAATTGA-TGATCAGGTTCTTGGT
1 AGAAAAGAATAAATAAACATAGCTTGCCAACTAAATTTAAC-AATTTATTGATCAGGTTCATGGT
* * * * * * * * * * * *
52496961 TTAGAGTCCAACATTGATGCTTTA-CGTGTTGGTCC-TACTCATTTTGACAACTGCTATGTGTTG
65 TCAAAGTACGACATCGATGCTTTATCG-GTTAGTCCTTACTGAATTTAACAGCAGTTATGTGTTG
* * * * * ** * * * * * * *
52497024 ATACCAGAGAGTTCTTACTCGAGACTACGTGGGAGGGAAATAGGTTCT-GGCAAAACGATA-TTC
129 ATACGAGAGAATGCATCCTTAAGATTACCT-GGAGAGAATTAAGTT-TAGGCAAAATGATACCT-
*
52497087 AAATTGTATTACCAGGGAAA
191 GAATTGTATTACCAGGGAAA
* * *
52497107 ACAAAAGAATAAATAAACGTAGCTTGCCAACTAAATTTAACAATTTATTGATCAAGTTCATGGTT
1 AGAAAAGAATAAATAAACATAGCTTGCCAACTAAATTTAACAATTTATTGATCAGGTTCATGGTT
* * *
52497172 CAAAGTACGACATCGGTGCTTTAT-GTATTGATCTTGGTCCTTACTGATTTTAACAGCAGTTATG
66 CAAAGTACGACATCGATGCTTTATCG----G---TTAGTCCTTACTGAATTTAACAGCAGTTATG
* ** * *
52497236 TGTTGATACGAGAGAGTGCATTGTTGAGATTACCT-GAG-GCAA-TAAGGTTTAGGCAAAATGGT
124 TGTTGATACGAGAGAATGCATCCTTAAGATTACCTGGAGAG-AATTAA-GTTTAGGCAAAATGAT
52497298 A-CTCGAATTGTATTGA-CAGGGAAA
187 ACCT-GAATTGTATT-ACCAGGGAAA
* * * *
52497322 AGAGAAGAATAAATAAACATAGCTTGTCAACTAAATTTTACAATTTATTGATTAGGTTCATGGTT
1 AGAAAAGAATAAATAAACATAGCTTGCCAACTAAATTTAACAATTTATTGATCAGGTTCATGGTT
* * *
52497387 CAAAGTACTACATCGATGCTTTATCGGTTAGTTCTTACTGAATTTAACAGCTGTTATGTGTTGAT
66 CAAAGTACGACATCGATGCTTTATCGGTTAGTCCTTACTGAATTTAACAGCAGTTATGTGTTGAT
*
52497452 GCGAGAGAATGCATCCTTAAGATTACCTGGCGGGGGAGAGAATTAAGTTTAGGCAAAATGATACC
131 ACGAGAGAATGCATCCTTAAGATTACCT------GGAGAGAATTAAGTTTAGGCAAAATGATACC
*
52497517 TGGATTGTATTACCA-GGAAA
190 TGAATTGTATTACCAGGGAAA
* *
52497537 AGAAAAAAATAGAATAAATGAACATAGCTTGCCAACTAAATTTTAACATTTTATTGA-CAGGTTC
1 AG----AAA-AGAATAAATAAACATAGCTTGCCAACTAAA-TTTAACAATTTATTGATCAGGTTC
** * * ** *
52497601 ATGGTTCAAAGT-CTGACATATATGCTTTAT-GCGTT-GTTCATTACTGAACTTGGCAGCTGTTA
60 ATGGTTCAAAGTAC-GACATCGATGCTTTATCG-GTTAG-TCCTTACTGAATTTAACAGCAGTTA
* * * *
52497663 TGTGTTGATACGAGATAATGAATCCTTAAGATTACCGGGGAGGGAATTAAGTTTTAAGTTTAGGC
122 TGTGTTGATACGAGAGAATGCATCCTTAAGATTACC-TGGA--G-A-GAA---TTAAGTTTAGGC
* * * * *
52497728 AAAATGATACCCGGATTATATTTCCA-CGAAA
179 AAAATGATACCTGAATTGTATTACCAGGGAAA
* * * ** * *
52497759 AAAACAAGAATAAATAAGCATA-CTTACTGACTGAATTGTAACATTTTATTGATCAGGTTCATGG
1 AGAA-AAGAATAAATAAACATAGCTTGCCAACTAAATT-TAACAATTTATTGATCAGGTTCATGG
52497823 TTCAAAGTTA-GACATCGATGCTTT
64 TTCAAAG-TACGACATCGATGCTTT
52497847 TTGTATCGGT
Statistics
Matches: 608, Mismatches: 85, Indels: 86
0.78 0.11 0.11
Matches are distributed among these distances:
209 62 0.10
210 68 0.11
212 1 0.00
213 2 0.00
214 4 0.01
215 128 0.21
216 43 0.07
217 75 0.12
218 47 0.08
219 9 0.01
220 115 0.19
221 14 0.02
222 40 0.07
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (210 bp):
AGAAAAGAATAAATAAACATAGCTTGCCAACTAAATTTAACAATTTATTGATCAGGTTCATGGTT
CAAAGTACGACATCGATGCTTTATCGGTTAGTCCTTACTGAATTTAACAGCAGTTATGTGTTGAT
ACGAGAGAATGCATCCTTAAGATTACCTGGAGAGAATTAAGTTTAGGCAAAATGATACCTGAATT
GTATTACCAGGGAAA
Found at i:52497601 original size:220 final size:215
Alignment explanation
Indices: 52497089--52497846 Score: 748
Period size: 220 Copynumber: 3.5 Consensus size: 215
52497079 CGATATTCAA
*
52497089 ATTGTATTACCAGGGAAAACAAAAGAATAAATAAACGTAGCTTGCCAACTAAA-TTTAACAATTT
1 ATTGTATTACCAGGGAAAACAAAAGAATAAATAAACATAGCTTGCCAACTAAATTTTAACAATTT
* * *
52497153 ATTGATCAAGTTCATGGTTCAAAGTACGACATCGGTGCTTTATGTATTGATCTTGGTCCTTACTG
66 ATTGATCAGGTTCATGGTTCAAAGTACGACATCGATGCTTTATG---TG---TT-GTTCTTACTG
* * * ** *
52497218 ATTTTAACAGCAGTTATGTGTTGATACGAGAGAGTGCATTGTTGAGATTACCT------GAG-GC
124 AATTTAACAGCTGTTATGTGTTGATACGAGAGAATGCATCCTTAAGATTACCTGGGGGGGAGAG-
* *
52497276 AA-TAAGGTTTAGGCAAAATGGTA-CTCGA
188 AATTAA-GTTTAGGCAAAATGATACCT-GG
* * *
52497304 ATTGTATTGA-CAGGGAAAAGAGAAGAATAAATAAACATAGCTTGTCAACTAAATTTT-ACAATT
1 ATTGTATT-ACCAGGGAAAACAAAAGAATAAATAAACATAGCTTGCCAACTAAATTTTAACAATT
* *
52497367 TATTGATTAGGTTCATGGTTCAAAGTACTACATCGATGCTTTATCG-GTTAGTTCTTACTGAATT
65 TATTGATCAGGTTCATGGTTCAAAGTACGACATCGATGCTTTAT-GTGTT-GTTCTTACTGAATT
*
52497431 TAACAGCTGTTATGTGTTGATGCGAGAGAATGCATCCTTAAGATTACCTGGCGGGGGAGAGAATT
128 TAACAGCTGTTATGTGTTGATACGAGAGAATGCATCCTTAAGATTACCTGG-GGGGGAGAGAATT
52497496 AAGTTTAGGCAAAATGATACCTGG
192 AAGTTTAGGCAAAATGATACCTGG
*
52497520 ATTGTATTACCAGGAAAAGAAAA-AAATAGAATAAATGAACATAGCTTGCCAACTAAATTTTAAC
1 ATTGTATTACCAGG----GAAAACAAA-AGAATAAATAAACATAGCTTGCCAACTAAATTTTAAC
* ** *
52497584 ATTTTATTGA-CAGGTTCATGGTTCAAAGT-CTGACATATATGCTTTATGCGTTGTTCATTACTG
61 AATTTATTGATCAGGTTCATGGTTCAAAGTAC-GACATCGATGCTTTATGTGTTGTTC-TTACTG
* ** * *
52497647 AACTTGGCAGCTGTTATGTGTTGATACGAGATAATGAATCCTTAAGATTACC-GGGGAGGGA-AT
124 AATTTAACAGCTGTTATGTGTTGATACGAGAGAATGCATCCTTAAGATTACCTGGGG-GGGAGA-
* *
52497710 TAAGTTTTAAGTTTAGGCAAAATGATACCCGG
187 GAA---TTAAGTTTAGGCAAAATGATACCTGG
* * * * * * ** * * *
52497742 ATTATATTTCCA-CGAAAAAAACAAGAATAAATAAGCATA-CTTACTGACTGAATTGTAACATTT
1 ATTGTATTACCAGGGAAAACAA-AAGAATAAATAAACATAGCTTGCCAACTAAATTTTAACAATT
52497805 TATTGATCAGGTTCATGGTTCAAAGTTA-GACATCGATGCTTT
65 TATTGATCAGGTTCATGGTTCAAAG-TACGACATCGATGCTTT
52497847 TTGTATCGGT
Statistics
Matches: 463, Mismatches: 47, Indels: 63
0.81 0.08 0.11
Matches are distributed among these distances:
209 57 0.12
212 1 0.00
215 94 0.20
216 39 0.08
217 36 0.08
218 49 0.11
219 18 0.04
220 123 0.27
221 11 0.02
222 35 0.08
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32
Consensus pattern (215 bp):
ATTGTATTACCAGGGAAAACAAAAGAATAAATAAACATAGCTTGCCAACTAAATTTTAACAATTT
ATTGATCAGGTTCATGGTTCAAAGTACGACATCGATGCTTTATGTGTTGTTCTTACTGAATTTAA
CAGCTGTTATGTGTTGATACGAGAGAATGCATCCTTAAGATTACCTGGGGGGGAGAGAATTAAGT
TTAGGCAAAATGATACCTGG
Found at i:52499383 original size:23 final size:23
Alignment explanation
Indices: 52499333--52499377 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
52499323 GACAGCAAAT
52499333 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
52499356 TGTAATA-CCCTGAAAATTACTA
1 TGTAATATCCC-GAAAATTACTA
52499378 TAGTAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:52505990 original size:221 final size:222
Alignment explanation
Indices: 52505551--52506085 Score: 639
Period size: 221 Copynumber: 2.4 Consensus size: 222
52505541 GGTGGCAAAG
* * *
52505551 TAAGGACCGACACATAAAGCATCA-ATGTCTGACTCTGAACCATGAACCTGATCAATAAAATGTT
1 TAAGGAACAACACATAAAGCAT-AGATGTCAGACTCTGAACCATGAACCTGATCAATAAAATGTT
* * * *
52505615 ACAATTCAGTCAGTAAG-TATG--C--TTATT-TATTCTTGTTTTTTCCTGAAAATACAATCCGG
65 AAAATTCAGTTAGCAAGCTATGTTCATTTATTCTATTCTTGTTTTTTCCTGAAAATACAATCCAG
* * *
52505674 GTATCATTTTGCCTAAACTTAAAACTTAATTCCCTCTCAGGTATTATTAAGGATTCACTCTCTCG
130 GTATCATTTTGCCTAAACTTAAAACTT-ACTCCCTCTCAGGTAATATTAAGGATGCACTCTCTCG
* *
52505739 TATCAACACATAACAGCTGCCAAGTTCAA
194 CATCAACACATAACAGCTGCCAAATTCAA
*
52505768 TAAGGAACAACACATAAAGCATAGATGTCAGACTCTGAACCATGAACCTG-TCTATAAAATGTTA
1 TAAGGAACAACACATAAAGCATAGATGTCAGACTCTGAACCATGAACCTGATCAATAAAATGTTA
* * * **
52505832 AAATTCGGTTAGCAAGCTATGTTCATTTATTCTATTTTTTTTCTTTTCCTGGTAATACAATCCAG
66 AAATTCAGTTAGCAAGCTATGTTCATTTATTCTATTCTTGTT-TTTTCCTGAAAATACAATCCAG
** * * *
52505897 GTATCATTTTGCCTAAACTTAATTCTCT-CTCCC-GTCAGGTAATCTTAAGGATGCATTCTCTCG
130 GTATCATTTTGCCTAAACTTAAAACT-TACTCCCTCTCAGGTAATATTAAGGATGCACTCTCTCG
**
52505960 CATCAACACATAACAGCTGTTAAATTCAA
194 CATCAACACATAACAGCTGCCAAATTCAA
* *
52505989 TAAGG-ACTAAC-CAATAAAGCATTGATGT-AGTACTCTGAACCATGAACCTGATCAATAAATTG
1 TAAGGAAC-AACAC-ATAAAGCATAGATGTCAG-ACTCTGAACCATGAACCTGATCAATAAAATG
* * *
52506051 -TAAAATTCAGTTGGCAAGCTATTTTTATTTATTCT
63 TTAAAATTCAGTTAGCAAGCTATGTTCATTTATTCT
52506086 TCTCTTTTCC
Statistics
Matches: 273, Mismatches: 32, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
216 26 0.10
217 49 0.18
219 1 0.00
220 5 0.02
221 127 0.47
222 21 0.08
223 43 0.16
224 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (222 bp):
TAAGGAACAACACATAAAGCATAGATGTCAGACTCTGAACCATGAACCTGATCAATAAAATGTTA
AAATTCAGTTAGCAAGCTATGTTCATTTATTCTATTCTTGTTTTTTCCTGAAAATACAATCCAGG
TATCATTTTGCCTAAACTTAAAACTTACTCCCTCTCAGGTAATATTAAGGATGCACTCTCTCGCA
TCAACACATAACAGCTGCCAAATTCAA
Found at i:52507134 original size:13 final size:13
Alignment explanation
Indices: 52507118--52507144 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52507108 TTTCTTCTAC
52507118 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
52507131 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
52507144 T
1 T
52507145 GTGTGTGTTT
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:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Done.