Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 108 of 255
Found at i:34175002 original size:46 final size:46
Alignment explanation
Indices: 34174857--34174995 Score: 128
Period size: 47 Copynumber: 3.0 Consensus size: 46
34174847 TTCGCATCCA
*
34174857 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * *
34174905 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATC
34174950 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
34174996 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
44 7 0.10
45 3 0.04
46 28 0.38
47 29 0.40
48 2 0.03
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:34186215 original size:55 final size:55
Alignment explanation
Indices: 34186080--34186252 Score: 219
Period size: 55 Copynumber: 3.1 Consensus size: 55
34186070 CATTTCTACC
* * *
34186080 TTTC-AAAATCAACTCATATTGCAAGAGGTTAGTTGAGCCCTTTCAATT-ATG-T
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
* *
34186132 TTTCAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTTAAATTCATGTT
1 TTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
* *
34186191 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCCTTTAATTTC-TGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
34186245 TTTCAAAA
1 TTTCAAAA
34186253 TCTGCTTTTA
Statistics
Matches: 105, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
52 4 0.04
54 12 0.11
55 42 0.40
57 39 0.37
58 3 0.03
59 5 0.05
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (55 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTTTAAATTCATGTT
Found at i:34189937 original size:21 final size:21
Alignment explanation
Indices: 34189911--34189958 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
34189901 CGGGTGTGGG
34189911 ACACGGGAATGTTACCCTTCA
1 ACACGGGAATGTTACCCTTCA
** *
34189932 ACACGGGCGTGTTACCCTTCC
1 ACACGGGAATGTTACCCTTCA
34189953 ACACGG
1 ACACGG
34189959 ATTTGTGCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.21
Consensus pattern (21 bp):
ACACGGGAATGTTACCCTTCA
Found at i:34214351 original size:39 final size:39
Alignment explanation
Indices: 34214297--34214420 Score: 158
Period size: 39 Copynumber: 3.2 Consensus size: 39
34214287 GGACTTTAGC
* * * * *
34214297 CCGGACATATTTCCAGAACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGAACATAGCCTGCGGACCCTAAGT
* *
34214336 CCGGATATAATTCCAGCACATAGCCTACGGACCCTAAGT
1 CCGGATATAATTCCAGAACATAGCCTGCGGACCCTAAGT
* *
34214375 CTGGATATAATTCCAGTACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGAACATAGCCTGCGGACCCTAAGT
*
34214414 CTGGATA
1 CCGGATA
34214421 AACATCACTG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGAACATAGCCTGCGGACCCTAAGT
Found at i:34222105 original size:27 final size:26
Alignment explanation
Indices: 34222068--34222178 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 26
34222058 AGCATGGCTG
* *
34222068 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
34222094 CCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
34222122 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
34222149 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
34222176 CCA
1 CCA
34222179 TGACGCTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:34222160 original size:54 final size:54
Alignment explanation
Indices: 34222068--34222178 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
34222058 AGCATGGCTG
* *
34222068 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCA
* * *
34222122 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCA
34222176 CCA
1 CCA
34222179 TGACGCTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCA
Found at i:34224809 original size:27 final size:27
Alignment explanation
Indices: 34224779--34224832 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
34224769 ATAACCAAAA
* *
34224779 TACCTCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGT-AAATGACTGATTT
*
34224806 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
34224833 GACTATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:34225198 original size:28 final size:28
Alignment explanation
Indices: 34225143--34225225 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 28
34225133 TTATTGTACT
* * *
34225143 GTATTGTTACTGCATTGGGCTAATGCCCA
1 GTATTGTTACTG-AATGGGCTTAGGCCCA
34225172 -TATTGTTACTGTAATGGGCTTAGGCCCA
1 GTATTGTTACTG-AATGGGCTTAGGCCCA
*
34225200 GT-CTGTTACTGATATGGGCTTAGGCC
1 GTATTGTTACTGA-ATGGGCTTAGGCC
34225226 TAGACTGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.02
28 45 0.96
29 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (28 bp):
GTATTGTTACTGAATGGGCTTAGGCCCA
Found at i:34228267 original size:29 final size:29
Alignment explanation
Indices: 34228225--34228285 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
34228215 TACGTGATCC
34228225 GTGCTCGAGAGGAAGCTTCAGCGCTCGAT
1 GTGCTCGAGAGGAAGCTTCAGCGCTCGAT
* *
34228254 GTGCTCGAGAGGAAGCTTTAGTGCTCGAT
1 GTGCTCGAGAGGAAGCTTCAGCGCTCGAT
34228283 GTG
1 GTG
34228286 ATCACCGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.25
Consensus pattern (29 bp):
GTGCTCGAGAGGAAGCTTCAGCGCTCGAT
Found at i:34230894 original size:40 final size:40
Alignment explanation
Indices: 34230832--34231001 Score: 211
Period size: 40 Copynumber: 4.3 Consensus size: 40
34230822 AAACCAAGTA
* * *
34230832 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTTGCACAAATG
*
34230871 CCTTCGGGACTTAGCCCGGATATAGT-AGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTT-GCACAAATG
* * **
34230911 CCTTCGGGACATAGCCCGGATATATTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
* *
34230951 CCTTTGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
34230991 CCTTCGGGACT
1 CCTTCGGGACT
34231002 GTGACAGCCC
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 16 0.14
40 95 0.84
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
Found at i:34232685 original size:40 final size:40
Alignment explanation
Indices: 34232595--34232819 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
34232585 TTGAAAGATG
* * * *
34232595 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
34232635 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34232675 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34232714 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34232754 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
34232795 -CCGGGCTATGTCCCGAAGACATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34232820 AATGAGTAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.22
40 114 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34232837 original size:80 final size:79
Alignment explanation
Indices: 34232648--34232842 Score: 198
Period size: 80 Copynumber: 2.5 Consensus size: 79
34232638 GGACTAAGAT
* ** * * * *
34232648 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGACATTTGAACGAGTTACTAAATCCGGGTTAAGCCCAAAGGCATTGGTGCGAGTTACTAA
*
34232713 ATCCGGGTTAAGTC
66 ATCCGGGCTAAGTC
** ** *
34232727 CCGAAGGTATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTA
1 CCGAAGACATTTGAACGAGTTACTAAATCCGGGTTAAG-CCCAAAGGCATTGGTGCGAGTTACTA
*
34232792 TAA-CCGGGCTATGTC
65 -AATCCGGGCTAAGTC
* *
34232807 CCGAAGACATTTGAATGAG-TAGCTATATCC-GGTTAA
1 CCGAAGACATTTGAACGAGTTA-CTAAATCCGGGTTAA
34232843 ATTCCGAAGG
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 42 0.42
80 55 0.56
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGACATTTGAACGAGTTACTAAATCCGGGTTAAGCCCAAAGGCATTGGTGCGAGTTACTAA
ATCCGGGCTAAGTC
Found at i:34239744 original size:40 final size:39
Alignment explanation
Indices: 34239673--34239884 Score: 187
Period size: 40 Copynumber: 5.3 Consensus size: 39
34239663 GGGCTAAGAC
* * * *
34239673 CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAG-T
* * * *
34239713 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGT
* * * **
34239752 CCGAAGGCAGTGGTGCGAGTTACTAAATCTGGGTTAAGT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGT
*
34239791 CCGGAAGGCATTTGTGCGAGTTACTAAATCTGGGA-TAAGT
1 CC-GAAGGCATTTGTGCGAGTTACTAAATC-CGGACTAAGT
* *
34239831 CCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGT
1 -CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGT
*
34239871 CCCGAAGACATTTG
1 -CCGAAGGCATTTG
34239885 AATGAGTAGC
Statistics
Matches: 143, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
39 36 0.25
40 94 0.66
41 13 0.09
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGT
Found at i:34239768 original size:39 final size:40
Alignment explanation
Indices: 34239713--34239884 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
34239703 GGACTAAGAT
* * * *
34239713 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGATAAGTC
* * *
34239752 CCGAAGGCAGTGGTGCGAGTTACTAAATCTGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGATAAGTC
*
34239792 CGGAAGGCATTTGTGCGAGTTACTAAATCTGGGATAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGATAAGTC
* * *
34239832 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCTGGGATAAGTC
*
34239872 CCGAAGACATTTG
1 CCGAAGGCATTTG
34239885 AATGAGTAGC
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 32 0.28
40 82 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGATAAGTC
Found at i:34239801 original size:79 final size:80
Alignment explanation
Indices: 34239707--34239856 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 80
34239697 ATATCCGGAC
* *
34239707 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCAGTGGTGCGAG
1 TAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGATAAGTCCCGAAGGCAGTGGTGCGAG
34239771 TTACTAAATCTGGGT
66 TTACTAAATCTGGGT
* * * *
34239786 TAAG-TCCGGAAGGCATTTGTGCGAGTTACTAAATCTGGGATAAGTCCCGAAGGCATTTGTGCGA
1 TAAGATCC-GAAGGCATTTGTGCGAGATACTAAATCCGGGATAAGTCCCGAAGGCAGTGGTGCGA
34239850 GTTACTA
65 GTTACTA
34239857 TAACCGGGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
78 3 0.05
79 36 0.57
80 24 0.38
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (80 bp):
TAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGATAAGTCCCGAAGGCAGTGGTGCGAG
TTACTAAATCTGGGT
Found at i:34241298 original size:40 final size:40
Alignment explanation
Indices: 34241241--34241332 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
34241231 GGGTGCTACA
*
34241241 GGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCAGAATTAGTAACTAGCACAAATGCCTTC
* *
34241281 GGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCAGAATTAGTAACTAGCACAAATGCCTTC
34241321 GGGACTTAGCCC
1 GGGACTTAGCCC
34241333 CGTTATCATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
GGGACTTAGCCCAGAATTAGTAACTAGCACAAATGCCTTC
Found at i:34260989 original size:37 final size:37
Alignment explanation
Indices: 34260930--34261075 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
34260920 AGCTCAGACG
* * *
34260930 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
34260967 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
34261004 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
34261041 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
34261076 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:34261346 original size:47 final size:47
Alignment explanation
Indices: 34261284--34261817 Score: 726
Period size: 47 Copynumber: 11.1 Consensus size: 47
34261274 ACACGTTTCG
* * * **
34261284 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
34261331 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
34261378 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
34261425 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
34261472 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
34261525 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
34261572 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
34261623 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
34261670 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
34261717 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* * *
34261768 CATTGGCCATTTGGCCTTATAACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
34261815 CAT
1 CAT
34261818 AAAATCCTAA
Statistics
Matches: 437, Mismatches: 36, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
47 308 0.70
49 1 0.00
51 86 0.20
53 42 0.10
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:34261746 original size:145 final size:144
Alignment explanation
Indices: 34261284--34261817 Score: 783
Period size: 145 Copynumber: 3.7 Consensus size: 144
34261274 ACACGTTTCG
* **
34261284 CATTAGCCATTCGGCCTTA-C-CACATATAT-TCATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
* * * *
34261346 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
66 CTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
34261411 GTTCACATTCATCA
131 GTTCACATTCATCA
***
34261425 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
* ** * *
34261487 CTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
66 CTTATCA--C----ACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACAT
34261552 ACGCATGTTCACATTCATCA
125 ACGCATGTTCACATTCATCA
*
34261572 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCAG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-CGGGTTCACATTCATCACATTGGCCATTCGG
*
34261637 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
65 CCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCA
34261702 TGTTCACATTCATCA
130 TGTTCACATTCATCA
*
34261717 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTTGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-CGGGTTCACATTCATCACATTGGCCATTCGG
*
34261782 CCTTATAACACATACGCATGTTCACATCCATCACAT
65 CCTTATCACACATACGCATGTTCACATCCATCACAT
34261818 AAAATCCTAA
Statistics
Matches: 359, Mismatches: 21, Indels: 22
0.89 0.05 0.05
Matches are distributed among these distances:
141 53 0.15
142 1 0.00
143 7 0.02
144 1 0.00
145 162 0.45
147 99 0.28
149 1 0.00
151 35 0.10
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (144 bp):
CATTGGCCATTCGGCCTTATCACACATATATATCGGGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
GTTCACATTCATCA
Found at i:34265656 original size:27 final size:26
Alignment explanation
Indices: 34265617--34265729 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
34265607 AGCATGGCTG
* * **
34265617 CCAGAACTGATAATGTGACAGAGTAA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
34265643 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
34265671 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
34265698 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
34265726 CCAG
1 CCAG
34265730 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.50
28 31 0.42
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:34265701 original size:55 final size:54
Alignment explanation
Indices: 34265617--34265729 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
34265607 AGCATGGCTG
* *
34265617 CCAGAACTGATAATGTGACAGAGTAACCAGATACAGATAA-TCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCAACCAGAT-CAGATAATTCGTGGCAGAACCA
* * * * *
34265671 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCAACCAGATCAGATAATTCGTGGCAGAACCA
34265726 CCAG
1 CCAG
34265730 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCAACCAGATCAGATAATTCGTGGCAGAACCA
Found at i:34267175 original size:24 final size:24
Alignment explanation
Indices: 34267148--34267218 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
34267138 CTTGATTTCG
**
34267148 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34267172 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34267196 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
34267219 CTCCTAACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:34270622 original size:20 final size:20
Alignment explanation
Indices: 34270593--34270633 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
34270583 GAGTGTTAGT
34270593 TTCAACAAGTTTGATAGAGA
1 TTCAACAAGTTTGATAGAGA
*
34270613 TTCAATAAGTTTGATAGAGA
1 TTCAACAAGTTTGATAGAGA
34270633 T
1 T
34270634 CCATGGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (20 bp):
TTCAACAAGTTTGATAGAGA
Found at i:34285571 original size:15 final size:15
Alignment explanation
Indices: 34285551--34285581 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34285541 AAACCTATAA
*
34285551 AAATTAAATTAAACT
1 AAATTAAATAAAACT
34285566 AAATTAAATAAAACT
1 AAATTAAATAAAACT
34285581 A
1 A
34285582 CAAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:34290801 original size:18 final size:18
Alignment explanation
Indices: 34290771--34290826 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
34290761 AATGATCATC
*
34290771 ATTTCAATCATCAAATAT
1 ATTTAAATCATCAAATAT
*
34290789 ATTTAAATGATC--ATA-
1 ATTTAAATCATCAAATAT
*
34290804 ATTTCAATCATCAAATAT
1 ATTTAAATCATCAAATAT
34290822 ATTTA
1 ATTTA
34290827 CACAAGAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 10 0.33
16 3 0.10
17 3 0.10
18 14 0.47
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTTAAATCATCAAATAT
Found at i:34290802 original size:33 final size:33
Alignment explanation
Indices: 34290755--34290826 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
34290745 TTCTTTTTAC
* *
34290755 TATTCAAATGATCATCATTTCAATCATCAAATA
1 TATTTAAATGATCATAATTTCAATCATCAAATA
34290788 TATTTAAATGATCATAATTTCAATCATCAAATA
1 TATTTAAATGATCATAATTTCAATCATCAAATA
34290821 TATTTA
1 TATTTA
34290827 CACAAGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (33 bp):
TATTTAAATGATCATAATTTCAATCATCAAATA
Found at i:34290816 original size:15 final size:15
Alignment explanation
Indices: 34290765--34290816 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
34290755 TATTCAAATG
*
34290765 ATCATCATTTCAATC
1 ATCATAATTTCAATC
* *
34290780 ATCAAATATATTTAAATG
1 ATC--ATA-ATTTCAATC
34290798 ATCATAATTTCAATC
1 ATCATAATTTCAATC
34290813 ATCA
1 ATCA
34290817 AATATATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 14 0.48
16 3 0.10
17 2 0.07
18 10 0.34
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.38
Consensus pattern (15 bp):
ATCATAATTTCAATC
Found at i:34293317 original size:27 final size:27
Alignment explanation
Indices: 34293286--34293463 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
34293276 TAAATTGTAC
34293286 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34293313 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34293339 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
34293367 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34293395 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34293422 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34293449 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34293464 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 106 0.81
28 25 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34293453 original size:82 final size:81
Alignment explanation
Indices: 34293283--34293463 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
34293273 GATTAAATTG
* *
34293283 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34293348 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* ** *
34293364 TGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34293428 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34293446 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34293464 GACTCAATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 19 0.22
82 67 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34301418 original size:27 final size:27
Alignment explanation
Indices: 34301387--34301564 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
34301377 TAAATTGTAC
34301387 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34301414 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34301440 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
34301468 GGCACTAAGTGTGTGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34301496 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34301523 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34301550 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34301565 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34301501 original size:82 final size:81
Alignment explanation
Indices: 34301388--34301543 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
34301378 AAATTGTACA
* *
34301388 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34301452 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
34301469 GCACTAAGTGTGTGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34301534 TGCGAGTTGA
65 TGCGAATTGA
34301544 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34301555 original size:82 final size:81
Alignment explanation
Indices: 34301384--34301564 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
34301374 GATTAAATTG
* *
34301384 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34301449 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
34301465 TGCGGCACTAAGTGTGTGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34301529 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34301547 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34301565 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34303944 original size:56 final size:56
Alignment explanation
Indices: 34303872--34304019 Score: 224
Period size: 56 Copynumber: 2.6 Consensus size: 56
34303862 TCTCATATAG
* *
34303872 GGTCTTACTCGTACACATATATCGGAATCACATTTCGATACCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATACCAACGTATTAAACGT
* * * * *
34303928 GGTCTTACACGCACACATATATCGAAATCACATATCGATGCCAATGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATACCAACGTATTAAACGT
*
34303984 GGTCTTACTCGCACACATATATCGGAATCAGATATC
1 GGTCTTACTCGCACACATATATCGGAATCACATATC
34304020 ACAAGTTGGA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 82 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATACCAACGTATTAAACGT
Found at i:34305683 original size:48 final size:50
Alignment explanation
Indices: 34305517--34305883 Score: 185
Period size: 46 Copynumber: 7.8 Consensus size: 50
34305507 AGGGTATAAT
** * * * * *
34305517 GCCGATGCCATGTTGCAGACATGGTTTTACACTGGCTCATC--CATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCGAAATCGAG
* * *
34305564 GTCAATGCCATGTCCCAGACATGGTCTTACATTGAC-CATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCGAAATCGAG
* * * * * *
34305613 GCCGATGTCATGTCCCAAACATGGTCTTACACTGACACCTCTATA-C-AT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCGAAATCGAG
* *
34305661 GCTGATGCCATGTCCCAGACATGGTTTTACACTGACACATC----TCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCGAAATCG-AG
* * *
34305707 GCCAATG-CAAGTCCCAGACAT-GTCTTACACTGGCTTACATC----TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCGAAATCGAG
* * * ** * *
34305753 GCCGATG-CATGTCCCAGACAT-GTCTTACGCT-AGC-CCTTG-TCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATCGAAATCGAG
* * * *
34305799 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TC-ATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCGA-AATCGAG
* * *
34305847 GCCAATG-TATGTCCCAGACAT-GTCTTACACTGGCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACA
34305884 CAAATAACCC
Statistics
Matches: 250, Mismatches: 49, Indels: 42
0.73 0.14 0.12
Matches are distributed among these distances:
43 2 0.01
44 11 0.04
45 15 0.06
46 69 0.28
47 57 0.23
48 56 0.22
49 35 0.14
50 5 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCGAAATCGAG
Found at i:34314592 original size:18 final size:19
Alignment explanation
Indices: 34314569--34314606 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
34314559 CAAATGGTTT
34314569 ACACATAGCAA-TTTGGTC
1 ACACATAGCAACTTTGGTC
34314587 ACACATAGCAACTTTGGTC
1 ACACATAGCAACTTTGGTC
34314606 A
1 A
34314607 GGATACATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (19 bp):
ACACATAGCAACTTTGGTC
Found at i:34317863 original size:15 final size:17
Alignment explanation
Indices: 34317839--34317872 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34317829 GCTAAGGACT
34317839 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
34317855 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
34317871 AA
1 AA
34317873 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:34325667 original size:48 final size:48
Alignment explanation
Indices: 34325492--34325665 Score: 276
Period size: 48 Copynumber: 3.6 Consensus size: 48
34325482 ATGAGATCCT
*
34325492 GTGTAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCA
* *
34325540 ATGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCA
* * * *
34325588 GTGTAAAACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCA
*
34325636 GTGTAAGACCATGTCTGGGGCATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
34325666 GCACCGATAT
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCA
Found at i:34325691 original size:48 final size:48
Alignment explanation
Indices: 34325495--34325708 Score: 162
Period size: 48 Copynumber: 4.5 Consensus size: 48
34325485 AGATCCTGTG
* * ** * * * * *
34325495 TAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCGACGATATGAGTACTAGTA
** ** * * * *
34325543 TAAGACCATGTCTGGGACATGGCATCAACGTTGATATGTGTGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGACGATATGAGTACTAGTA
* * * * *
34325591 TAAAACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGACGATATGAGTACTAGTA
* *
34325639 TAAGACCATGTCTGGGGCATGGCATCGGC-ACCGATATGAG-ACTTCGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGA-CGATATGAGTAC-TAGTA
* *
34325687 TAAGACCATATCTGGGATATGG
1 TAAGACCATGTCTGGGACATGG
34325709 TGTCGACATG
Statistics
Matches: 146, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
47 2 0.01
48 144 0.99
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGACGATATGAGTACTAGTA
Found at i:34325695 original size:96 final size:96
Alignment explanation
Indices: 34325495--34325751 Score: 244
Period size: 96 Copynumber: 2.7 Consensus size: 96
34325485 AGATCCTGTG
* *
34325495 TAAGACCATGTTTGGGACATGGCATCGACGTTGATATGTGTGCCAATGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCAATGTAAGACCATGTCTGGGA
*** * *
34325560 CATGGCATCAACGTTGATATGTGTGCCAGTG
66 CATGGCATCAACACCGATATGAGTGCCAGTA
* * * * *
34325591 TAAAACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTAGTGTAAGACCATGTCTGGGG
1 TAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCAATGTAAGACCATGTCTGGGA
** *
34325656 CATGGCATCGGCACCGATATGAGACT-TC-GTA
66 CATGGCATCAACACCGATATGAG--TGCCAGTA
* * ** *
34325687 TAAGACCATATCTGGGATATGGTGTCGAC-ATG---TG-GAT-CC-ATGTAAGACCATGTTTGGG
1 TAAGACCATGTCTGGGACATGGCATCGACGATGATATGTG-TGCCAATGTAAGACCATGTCTGGG
34325745 ACATGGC
65 ACATGGC
34325752 TATGGTACTT
Statistics
Matches: 133, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
90 23 0.17
91 2 0.02
92 3 0.02
95 3 0.02
96 100 0.75
97 1 0.01
98 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCAATGTAAGACCATGTCTGGGA
CATGGCATCAACACCGATATGAGTGCCAGTA
Found at i:34330337 original size:12 final size:12
Alignment explanation
Indices: 34330308--34330339 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
34330298 TTTTTATGCC
34330308 ATAAATATTAAA
1 ATAAATATTAAA
34330320 AT-AATATTAAA
1 ATAAATATTAAA
34330331 ATAAATATT
1 ATAAATATT
34330340 TTTACCTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAAATATTAAA
Found at i:34332643 original size:49 final size:49
Alignment explanation
Indices: 34332477--34332714 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
34332467 TGAGGTCGCA
* * * *
34332477 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-TGGTCACG
* * **
34332528 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
* *
34332578 TGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* *** *
34332627 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* * *
34332676 TGTGTAGTACTATGTGGAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
34332715 GCTTTGGCTA
Statistics
Matches: 160, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 84 0.52
50 43 0.27
51 33 0.21
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:34332658 original size:99 final size:100
Alignment explanation
Indices: 34332470--34332714 Score: 341
Period size: 99 Copynumber: 2.5 Consensus size: 100
34332460 TCCATTGTGA
* * *
34332470 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
**
34332535 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTATCAGATAATT
* * * * *
34332570 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
**
34332633 GTACTAAGTGCAGGCTACTACGTGTATTGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
* *
34332669 GGTCACATGTGTAGTACTATGTGGAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
34332715 GCTTTGGCTA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 40 0.31
99 45 0.35
100 1 0.01
101 41 0.32
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTATCAGATAATT
Found at i:34334673 original size:13 final size:13
Alignment explanation
Indices: 34334655--34334682 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34334645 CAATCTCTTT
34334655 TGGGTATTCTATA
1 TGGGTATTCTATA
34334668 TGGGTATTCTATA
1 TGGGTATTCTATA
34334681 TG
1 TG
34334683 TACTGTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:34338519 original size:19 final size:19
Alignment explanation
Indices: 34338492--34338529 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34338482 TGTCATCAAG
*
34338492 AATTCATAGCCATAACTTA
1 AATTCATAGACATAACTTA
*
34338511 AATTTATAGACATAACTTA
1 AATTCATAGACATAACTTA
34338530 CACATTTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (19 bp):
AATTCATAGACATAACTTA
Found at i:34341460 original size:30 final size:31
Alignment explanation
Indices: 34341426--34341522 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 31
34341416 AGCTCACTCC
34341426 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
* * * * *
34341456 TAGCTCAAC-TTCAACTTAGGAGTTTAATCT
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
* * * *
34341486 CAGCTCAACTTT-AGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
34341516 TAGCTCA
1 TAGCTCA
34341523 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (31 bp):
TAGCTCAACTTTCAACTCACGAGCTAAACCT
Found at i:34343213 original size:11 final size:11
Alignment explanation
Indices: 34343197--34343231 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
34343187 ATACAACAAG
34343197 TCAAAAAAAAT
1 TCAAAAAAAAT
34343208 TCAAAAAAAAAT
1 TC-AAAAAAAAT
34343220 TCAAAAAAAAT
1 TCAAAAAAAAT
34343231 T
1 T
34343232 TCGAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (11 bp):
TCAAAAAAAAT
Found at i:34343214 original size:12 final size:12
Alignment explanation
Indices: 34343199--34343244 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
34343189 ACAACAAGTC
34343199 AAAAAAAATTCA
1 AAAAAAAATTCA
34343211 AAAAAAAATTCA
1 AAAAAAAATTCA
*
34343223 AAAAAAATTTCGA
1 AAAAAAAATTC-A
34343236 AAAGAAAAA
1 AAA-AAAAA
34343245 AAAATCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 22 0.73
13 4 0.13
14 4 0.13
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:34344181 original size:9 final size:10
Alignment explanation
Indices: 34344174--34344230 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
34344164 AAGAGAAAAC
34344174 AAAGAAAAGA
1 AAAGAAAAGA
34344184 AAAGAAAAAGA
1 AAAG-AAAAGA
*
34344195 AAA-AGAAGAA
1 AAAGAAAAG-A
34344205 AAAGAAAATGA
1 AAAGAAAA-GA
34344216 AATA-AAAAGA
1 AA-AGAAAAGA
34344226 AAAGA
1 AAAGA
34344231 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 5 0.13
10 13 0.33
11 19 0.49
12 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:34344184 original size:5 final size:5
Alignment explanation
Indices: 34344174--34344230 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
34344164 AAGAGAAAAC
*
34344174 AAAGA AAAGA AAAGAA AAAGA AAA-A GAAGAA AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAGA AAAGA AAAG-A AAAGA AAA-GA AA-AGA
34344221 AAAGA AAAGA
1 AAAGA AAAGA
34344231 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 26 0.59
6 13 0.30
7 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:34344307 original size:12 final size:12
Alignment explanation
Indices: 34344299--34344323 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34344289 TTTGAAAAGC
34344299 AAAAAGAAAATG
1 AAAAAGAAAATG
34344311 AAAAAGAAAATG
1 AAAAAGAAAATG
34344323 A
1 A
34344324 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:34344320 original size:18 final size:18
Alignment explanation
Indices: 34344293--34344348 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
34344283 AACGCCTTTG
34344293 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
34344312 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
34344330 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
34344347 AA
1 AA
34344349 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:34344333 original size:30 final size:31
Alignment explanation
Indices: 34344299--34344380 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
34344289 TTTGAAAAGC
*
34344299 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
34344329 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* *
34344359 AAAAAGAAGATGAAAAGGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
34344381 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.62
31 8 0.19
ACGTcount: A:0.63, C:0.01, G:0.23, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:34346589 original size:30 final size:30
Alignment explanation
Indices: 34346494--34346590 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
34346484 AGCTCACTCC
*
34346494 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * *
34346524 TAGCTCAACTTTAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
34346554 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
34346584 TAGCTCA
1 TAGCTCA
34346591 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 47 0.90
31 5 0.10
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:34349862 original size:57 final size:59
Alignment explanation
Indices: 34349772--34349973 Score: 180
Period size: 61 Copynumber: 3.4 Consensus size: 59
34349762 TGTATCGATT
* * * *
34349772 GGATTTAGCCCGGACGGGTAATCCAGA-TCAAGCTCT-TT-AGAGAATATGTCA-T-AAAAA
1 GGATTTAGCCTGGACTGGTAATCCTGACT-AAGCTCTATTGAGA-AATATAT-ATTGAAAAA
* *
34349829 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTAAATATATATTGGAGAGA
1 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAG-AAATATATATT-GAAAAA
* * * * * *
34349890 GGATTTAACCTAGACTAGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGATA
1 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAG-AAATATATATT-GAAAAA
* *
34349951 GGTTTTAGCCTGGATTGGTAATC
1 GGATTTAGCCTGGACTGGTAATC
34349974 ATGTTGTATA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
57 31 0.25
58 4 0.03
59 9 0.07
60 1 0.01
61 77 0.63
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (59 bp):
GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGAAATATATATTGAAAAA
Found at i:34349972 original size:61 final size:61
Alignment explanation
Indices: 34349828--34349973 Score: 229
Period size: 61 Copynumber: 2.4 Consensus size: 61
34349818 TGTCATAAAA
*
34349828 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTAAATATATATTGGAGAG
1 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
* * * *
34349889 AGGATTTAACCTAGACTAGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAT
1 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
* *
34349950 AGGTTTTAGCCTGGATTGGTAATC
1 AGGATTTAGCCTGGACTGGTAATC
34349974 ATGTTGTATA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 75 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (61 bp):
AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
Found at i:34350201 original size:16 final size:15
Alignment explanation
Indices: 34350180--34350225 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
34350170 TCTGTCTAAA
34350180 ATACATGAAAATGATG
1 ATACATGAAAAT-ATG
*
34350196 ATACATGATAAT-TG
1 ATACATGAAAATATG
*
34350210 ATATATGAAAATATG
1 ATACATGAAAATATG
34350225 A
1 A
34350226 AATGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (15 bp):
ATACATGAAAATATG
Found at i:34355207 original size:69 final size:69
Alignment explanation
Indices: 34355078--34355212 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
34355068 TCAATGACAC
* * * *
34355078 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCGACCTCTTTCACAATGAA
1 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
34355143 GCAA
66 GCAA
* *
34355147 TGAGAAAAGCATGACACACCAATGAGGCATCGATGGAAATTGATGTTAACCACTTCCACAACGAA
1 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
34355212 G
66 G
34355213 TAGTTGTGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (69 bp):
TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
GCAA
Found at i:34356601 original size:57 final size:59
Alignment explanation
Indices: 34356511--34356712 Score: 180
Period size: 61 Copynumber: 3.4 Consensus size: 59
34356501 TGTATCGATT
* * * *
34356511 GGATTTAGCCCGGACGGGTAATCCAGA-TCAAGCTCT-TT-AGAGAATATGTCA-T-AAAAA
1 GGATTTAGCCTGGACTGGTAATCCTGACT-AAGCTCTATTGAGA-AATATAT-ATTGAAAAA
* *
34356568 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTAAATATATATTGGAGAGA
1 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAG-AAATATATATT-GAAAAA
* * * * * *
34356629 GGATTTAACCTAGACTAGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGATA
1 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAG-AAATATATATT-GAAAAA
* *
34356690 GGTTTTAGCCTGGATTGGTAATC
1 GGATTTAGCCTGGACTGGTAATC
34356713 ATGTTGTATA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
57 31 0.25
58 4 0.03
59 9 0.07
60 1 0.01
61 77 0.63
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (59 bp):
GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGAAATATATATTGAAAAA
Found at i:34356711 original size:61 final size:61
Alignment explanation
Indices: 34356567--34356712 Score: 229
Period size: 61 Copynumber: 2.4 Consensus size: 61
34356557 TGTCATAAAA
*
34356567 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTAAATATATATTGGAGAG
1 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
* * * *
34356628 AGGATTTAACCTAGACTAGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAT
1 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
* *
34356689 AGGTTTTAGCCTGGATTGGTAATC
1 AGGATTTAGCCTGGACTGGTAATC
34356713 ATGTTGTATA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 75 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (61 bp):
AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTAAGTAAATATATATTGGAGAG
Found at i:34356941 original size:16 final size:15
Alignment explanation
Indices: 34356920--34356965 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
34356910 TCTGTCTAAA
34356920 ATACATGAAAATGATG
1 ATACATGAAAAT-ATG
*
34356936 ATACATGATAAT-TG
1 ATACATGAAAATATG
*
34356950 ATATATGAAAATATG
1 ATACATGAAAATATG
34356965 A
1 A
34356966 AATGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (15 bp):
ATACATGAAAATATG
Found at i:34361950 original size:69 final size:69
Alignment explanation
Indices: 34361821--34361955 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
34361811 TCAATGACAC
* * * *
34361821 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCGACCTCTTTCACAATGAA
1 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
34361886 GCAG
66 GCAG
* *
34361890 TGAGAAAAGCATGACACACCAATGAGGCATCGATGGAAATTGATGTTAACCACTTCCACAACGAA
1 TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
34361955 G
66 G
34361956 TAGTTGTGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (69 bp):
TGAGAAAAGCACGACACACCAATGAGGCATCGATGGAAATTGATGTCAACCACTTCCACAACGAA
GCAG
Found at i:34365927 original size:29 final size:29
Alignment explanation
Indices: 34365887--34365945 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
34365877 TTGTGGAAGA
* *
34365887 GGTGGAGAACTTGTTCGTTGAGAGTTCGT
1 GGTGGAGAACTTGTTCCTTGAGAATTCGT
* *
34365916 GGTGTAGAACTTGTTCCTTGTGAATTCGT
1 GGTGGAGAACTTGTTCCTTGAGAATTCGT
34365945 G
1 G
34365946 TCAAGGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.17, C:0.12, G:0.34, T:0.37
Consensus pattern (29 bp):
GGTGGAGAACTTGTTCCTTGAGAATTCGT
Found at i:34366063 original size:24 final size:24
Alignment explanation
Indices: 34366036--34366087 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34366026 TTTCTAGAAG
* * *
34366036 ATTTAGCATTTATTAGTATAATAT
1 ATTTAACAATTATTAGCATAATAT
34366060 ATTTAACAATTATTAGCATAATAT
1 ATTTAACAATTATTAGCATAATAT
34366084 ATTT
1 ATTT
34366088 GACATTAATT
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:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (24 bp):
ATTTAACAATTATTAGCATAATAT
Found at i:34366098 original size:24 final size:23
Alignment explanation
Indices: 34366036--34366099 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
34366026 TTTCTAGAAG
* *
34366036 ATTTAGCATTTATTAGTATAATAT
1 ATTTAACA-TTATTAGCATAATAT
34366060 ATTTAACAATTATTAGCATAATAT
1 ATTTAAC-ATTATTAGCATAATAT
*
34366084 ATTTGACATTAATTAG
1 ATTTAACATT-ATTAG
34366100 AATTATGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.09
24 31 0.89
25 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (23 bp):
ATTTAACATTATTAGCATAATAT
Found at i:34366864 original size:13 final size:13
Alignment explanation
Indices: 34366846--34366879 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
34366836 GGTCACACGT
34366846 CCATGTCCCGTGG
1 CCATGTCCCGTGG
34366859 CCATGTCCCGTGG
1 CCATGTCCCGTGG
34366872 CCATGTCC
1 CCATGTCC
34366880 TTCACACGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.41, G:0.26, T:0.24
Consensus pattern (13 bp):
CCATGTCCCGTGG
Found at i:34373846 original size:32 final size:32
Alignment explanation
Indices: 34373785--34373868 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 32
34373775 ACTAAGTGTG
**
34373785 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
34373817 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * *
34373849 TATCTAGGTGTAGTTTGATA
1 TATATATGTGTAGTTGGATA
34373869 TACCCGATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
31 1 0.02
32 39 0.91
33 3 0.07
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:34374045 original size:27 final size:26
Alignment explanation
Indices: 34374014--34374159 Score: 80
Period size: 27 Copynumber: 5.5 Consensus size: 26
34374004 TTTGAGGGAT
34374014 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGAT-CTGA
* * * * *
34374041 GCACTAAGTGTACGAGTTGGATTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * *
34374067 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
* * * * * *
34374094 CCACTAAGTGTGCGAGTTGGGTTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * *
34374120 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
34374147 GCACTAAGTGTGC
1 GCACTAAGTGTGC
34374160 AAAATCAGTT
Statistics
Matches: 83, Mismatches: 31, Indels: 10
0.67 0.25 0.08
Matches are distributed among these distances:
26 33 0.40
27 50 0.60
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTTGATCTGA
Found at i:34374077 original size:26 final size:26
Alignment explanation
Indices: 34374014--34374131 Score: 85
Period size: 27 Copynumber: 4.5 Consensus size: 26
34374004 TTTGAGGGAT
* * * *
34374014 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAGTTGGAT-TTAA
*
34374041 GCACTAAGTGTACGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
* * * * *
34374067 GCACTATGTGTGTGAATT-AATTTCTGA
1 GCACTAAGTGTGCGAGTTGGA-TT-TAA
* *
34374094 CCACTAAGTGTGCGAGTTGGGTTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
*
34374120 GCACTATGTGTG
1 GCACTAAGTGTG
34374132 TGAATTAATT
Statistics
Matches: 68, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
25 1 0.01
26 30 0.44
27 37 0.54
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGTTGGATTTAA
Found at i:34374158 original size:53 final size:53
Alignment explanation
Indices: 34374037--34374159 Score: 219
Period size: 53 Copynumber: 2.3 Consensus size: 53
34374027 GAATTTGATA
*
34374037 CTGAGCACTAAGTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
1 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
* *
34374090 CTGACCACTAAGTGTGCGAGTTGGGTTTAAGCACTATGTGTGTGAATTAATTT
1 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
34374143 CTGAGCACTAAGTGTGC
1 CTGAGCACTAAGTGTGC
34374160 AAAATCAGTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (53 bp):
CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
Found at i:34383604 original size:20 final size:20
Alignment explanation
Indices: 34383579--34383616 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34383569 GTCACATATA
34383579 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
34383599 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
34383617 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:34386971 original size:24 final size:23
Alignment explanation
Indices: 34386918--34386967 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
34386908 TTTGTTTATT
*
34386918 ATTAAAATATTTTAAATAATGATA
1 ATTAATATATTTTAAATAA-GATA
34386942 ATTAATATATTTTAAATCAA-ATA
1 ATTAATATATTTTAAAT-AAGATA
34386965 ATT
1 ATT
34386968 TAATCTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 16 0.67
25 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTAATATATTTTAAATAAGATA
Found at i:34390231 original size:21 final size:23
Alignment explanation
Indices: 34390206--34390252 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
34390196 GGGACTGGAT
34390206 AAAATAAA-TTTTA-TTAATTAA
1 AAAATAAATTTTTATTTAATTAA
34390227 AAAATAAATTTTTTATTTAATTAA
1 AAAATAAA-TTTTTATTTAATTAA
34390251 AA
1 AA
34390253 GAGGTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.35
23 5 0.22
24 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATAAATTTTTATTTAATTAA
Found at i:34390616 original size:10 final size:10
Alignment explanation
Indices: 34390603--34390641 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
34390593 TAAAAATATT
34390603 AAAAATTAGA
1 AAAAATTAGA
*
34390613 AAAAATAAGAA
1 AAAAATTAG-A
*
34390624 AAAAATTATA
1 AAAAATTAGA
34390634 AAAAATTA
1 AAAAATTA
34390642 TTAAGTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (10 bp):
AAAAATTAGA
Found at i:34391136 original size:76 final size:75
Alignment explanation
Indices: 34391010--34391161 Score: 250
Period size: 76 Copynumber: 2.0 Consensus size: 75
34391000 GTAACACCCT
* * * *
34391010 TTACCTAACCAACCTGCCAAGTCTAGGAATCGGATTCTGCATTAACTAGATTTACTTAACAATTT
1 TTACCTAACCAAACTGCCAAGTCTAGGAATCGGATGCTGCATTAACTAGATTTACCTAACAAATT
34391075 TTTTCTAATTC
66 TTTT-TAATTC
*
34391086 TTACCTAACCAAACTGCCAAGTCTAGGTATCGGATGCTGCATTAACTAGATTTACCTAACAAATT
1 TTACCTAACCAAACTGCCAAGTCTAGGAATCGGATGCTGCATTAACTAGATTTACCTAACAAATT
34391151 TTTTTAATTC
66 TTTTTAATTC
34391161 T
1 T
34391162 AATTTAGTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
75 7 0.10
76 64 0.90
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (75 bp):
TTACCTAACCAAACTGCCAAGTCTAGGAATCGGATGCTGCATTAACTAGATTTACCTAACAAATT
TTTTTAATTC
Found at i:34392963 original size:7 final size:7
Alignment explanation
Indices: 34392947--34392977 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
34392937 TTCGAATGGC
34392947 AAATGATG
1 AAATG-TG
34392955 AAATGTG
1 AAATGTG
34392962 AAATGTG
1 AAATGTG
34392969 AAATGTG
1 AAATGTG
34392976 AA
1 AA
34392978 TTATATCGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.78
8 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (7 bp):
AAATGTG
Found at i:34394058 original size:42 final size:42
Alignment explanation
Indices: 34393996--34394081 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
34393986 CCTACAACAC
*
34393996 GGCCGTGTGACCCAAATCAATGAGTTACATGGGCAGAGACAT
1 GGCCGTGTGACCCAAATCAATGAGTTACATGGGCAAAGACAT
* * * *
34394038 GGCCGTGTGTCTCAAGTCAATGAGTTACATGGGTAAAGACAT
1 GGCCGTGTGACCCAAATCAATGAGTTACATGGGCAAAGACAT
34394080 GG
1 GG
34394082 GCTGGGATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (42 bp):
GGCCGTGTGACCCAAATCAATGAGTTACATGGGCAAAGACAT
Found at i:34396715 original size:27 final size:27
Alignment explanation
Indices: 34396685--34396862 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34396675 ATATTGAGTC
* * * *
34396685 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34396712 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34396739 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34396767 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34396794 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34396821 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34396848 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34396863 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34396824 original size:82 final size:81
Alignment explanation
Indices: 34396706--34396861 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34396696 TGCTATATAA
* *
34396706 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34396771 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34396788 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34396852 CACTTAGTGC
65 CACTTAGTGC
34396862 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34398720 original size:45 final size:45
Alignment explanation
Indices: 34398663--34398781 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 45
34398653 TGTCACAATT
* * **
34398663 CCATATCGTCTTTTAGATATGGTCTTA-TTCAT-TTCTGTCATGATG
1 CCATATCATCTTTCAGATATGGTCTTACTT-ATCTT-TACCATGATG
*
34398708 CCATATCATCTTTCAGTTATGGTCTTACTTATCTTTACCATGATG
1 CCATATCATCTTTCAGATATGGTCTTACTTATCTTTACCATGATG
* *
34398753 CCATAGCATCTTTCA-ACTACGGTCTTACT
1 CCATATCATCTTTCAGA-TATGGTCTTACT
34398782 GACTTTGATG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
45 59 0.94
46 4 0.06
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (45 bp):
CCATATCATCTTTCAGATATGGTCTTACTTATCTTTACCATGATG
Found at i:34403210 original size:46 final size:46
Alignment explanation
Indices: 34403158--34403523 Score: 502
Period size: 46 Copynumber: 8.0 Consensus size: 46
34403148 AGTGTGCTCT
*
34403158 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
34403204 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
34403250 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
34403296 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
34403342 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
34403388 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
34403434 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGATACGATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
34403480 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
34403524 TCATGTCAAA
Statistics
Matches: 298, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 297 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:34403853 original size:24 final size:24
Alignment explanation
Indices: 34403818--34403866 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
34403808 AATAAAAAGT
*
34403818 TAGTAGATATTTTTGGATGATTCA
1 TAGTAGACATTTTTGGATGATTCA
34403842 TAGTAGACATTTTTGGATGATTCA
1 TAGTAGACATTTTTGGATGATTCA
34403866 T
1 T
34403867 CCATGGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (24 bp):
TAGTAGACATTTTTGGATGATTCA
Found at i:34406775 original size:34 final size:33
Alignment explanation
Indices: 34406704--34406775 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
34406694 AACACAGTGT
**
34406704 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAATCTGGGCCAAAGCCCTAAACAGTAA
* ** *
34406737 CAGTACAGTCTGGGCCTTAGCCCTTAAACAGTAG
1 CAGTACAATCTGGGCCAAAGCCC-TAAACAGTAA
34406771 CAGTA
1 CAGTA
34406776 TAGGCCTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 20 0.62
34 12 0.38
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (33 bp):
CAGTACAATCTGGGCCAAAGCCCTAAACAGTAA
Found at i:34406883 original size:30 final size:31
Alignment explanation
Indices: 34406803--34406885 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
34406793 TTAGTCTCGA
*
34406803 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
34406833 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
34406864 CATATCACT-GGCTGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
34406886 ACTGTAAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:34407138 original size:25 final size:25
Alignment explanation
Indices: 34407104--34407173 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
34407094 CTCTTTTAAT
*
34407104 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34407129 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
34407154 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34407174 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:34408131 original size:27 final size:27
Alignment explanation
Indices: 34408101--34408186 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
34408091 GTAAATCTAC
34408101 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
34408128 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
34408154 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
34408184 AAA
1 AAA
34408187 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:34408205 original size:27 final size:27
Alignment explanation
Indices: 34408164--34408287 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
34408154 AGAAAGTCAA
** *
34408164 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* *
34408191 GGGTATTTTGATAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
34408217 AGAGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
34408245 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
34408272 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
34408288 CCACCCTATA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.04
27 75 0.94
28 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:34408304 original size:54 final size:54
Alignment explanation
Indices: 34408188--34408320 Score: 144
Period size: 54 Copynumber: 2.5 Consensus size: 54
34408178 TTTTGTAAAT
* * *
34408188 TAGGGGTATTTTGATAATTTTACAAATTGAGAGTATTTCGGTAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAATAGAGAGTATTTCGGTAATTCCACAAAC
* * * **
34408242 TAGTGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTCCACCCTA-
1 TAGGGGTATTTTGGTAATTTTACAAA-TAGAGAGTATTTCGGTAATTCCA-CAAAC
* *
34408296 TAGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTACAA
34408321 TCGAAGGTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 62 0.94
55 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
TAGGGGTATTTTGGTAATTTTACAAATAGAGAGTATTTCGGTAATTCCACAAAC
Found at i:34408356 original size:27 final size:27
Alignment explanation
Indices: 34408319--34408383 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
34408309 GTAATTTCAC
* * * *
34408319 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
34408346 AATCGAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
34408373 AATCGAGGGTA
1 AATCGAGGGTA
34408384 CTTTGGTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:34413227 original size:44 final size:44
Alignment explanation
Indices: 34413164--34413297 Score: 259
Period size: 44 Copynumber: 3.0 Consensus size: 44
34413154 CATTGATAAC
*
34413164 CACCAATTCAATATGCATTTAGCTATATCCACAATTAAAACAAA
1 CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
34413208 CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
1 CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
34413252 CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
1 CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
34413296 CA
1 CA
34413298 TACCAAAACA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (44 bp):
CACCAATTCAACATGCATTTAGCTATATCCACAATTAAAACAAA
Found at i:34415044 original size:28 final size:28
Alignment explanation
Indices: 34415012--34415080 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
34415002 ATAGTAAGTC
34415012 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
34415040 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
34415068 CGCACACTTAGTG
1 CGCACACTTAGTG
34415081 TCAATCTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 34 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:34423713 original size:22 final size:22
Alignment explanation
Indices: 34423682--34423724 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
34423672 GTACGAGACC
34423682 GGATTAGCTTATTAGAAAACAT
1 GGATTAGCTTATTAGAAAACAT
*
34423704 GGATTCGCTTATTAGAAAACA
1 GGATTAGCTTATTAGAAAACA
34423725 CAGGTGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (22 bp):
GGATTAGCTTATTAGAAAACAT
Found at i:34429601 original size:68 final size:68
Alignment explanation
Indices: 34429529--34429676 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 68
34429519 CATCATGTGT
* * * *
34429529 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
34429592 TGTAG
64 TGTAG
* ** * *
34429597 ACAAGAGAGCT--ATGGTATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
34429660 GTAG
65 GTAG
34429664 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
34429677 GAGATAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 24 0.36
65 3 0.05
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:34429633 original size:64 final size:64
Alignment explanation
Indices: 34429553--34429736 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
34429543 AGACATTATG
* * *
34429553 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATG-GTATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAG-ATAA
* * * * *
34429617 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
34429682 AA
63 AA
* * *
34429684 AT-TGGCTAGGTCGAATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
34429737 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 31 0.32
68 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:34434020 original size:24 final size:25
Alignment explanation
Indices: 34433978--34434024 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
34433968 ACCTTTGCTC
*
34433978 TTCTAGCATGAACTTGTCTTACCCT
1 TTCTAGCATGAACTCGTCTTACCCT
*
34434003 TTCTAGTAT-AACTCGTCTTACC
1 TTCTAGCATGAACTCGTCTTACC
34434025 TTACCTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (25 bp):
TTCTAGCATGAACTCGTCTTACCCT
Found at i:34436001 original size:79 final size:81
Alignment explanation
Indices: 34435869--34436049 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
34435859 ATGATGTCCA
* *
34435869 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
34435933 CGAGATACTA-ATTCCG
66 CGAGATACTATA-ACCG
* * **
34435949 GGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGT
*
34436011 GCGAGTTACTATAACCG
65 GCGAGATACTATAACCG
* *
34436028 GACTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
34436050 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.66
80 29 0.33
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGATACTATAACCG
Found at i:34436056 original size:40 final size:40
Alignment explanation
Indices: 34435871--34436049 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
34435861 GATGTCCAGG
* * * * *
34435871 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGA
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGA
* * *
34435911 CTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
* *
34435951 CTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAATCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
*
34435990 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGA
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGA
*
34436030 CTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTG
34436050 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.29
40 74 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
Found at i:34436071 original size:79 final size:79
Alignment explanation
Indices: 34435918--34436082 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
34435908 GGACTAAGAT
* * **
34435918 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGACTAAGCCCGAAGGCATTTGAACAAGTTACTAA
*
34435983 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
34435997 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGACTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGACTAAG-CCCGAAGGCATTTGAACAAGTTA-C
* *
34436060 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34436076 CCGAAGG
1 CCGAAGG
34436083 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGACTAAGCCCGAAGGCATTTGAACAAGTTACTAA
ATCCGGGTTAAATC
Found at i:34438425 original size:21 final size:20
Alignment explanation
Indices: 34438401--34438445 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
34438391 ATTTATGGAA
34438401 ATGGTAAAATTCAA-GAAAAAT
1 ATGGTAAAA-T-AATGAAAAAT
*
34438422 ATGGTGAAATAATGAAAAAT
1 ATGGTAAAATAATGAAAAAT
34438442 ATGG
1 ATGG
34438446 GCTGTATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 12 0.55
21 8 0.36
ACGTcount: A:0.53, C:0.02, G:0.20, T:0.24
Consensus pattern (20 bp):
ATGGTAAAATAATGAAAAAT
Found at i:34440807 original size:27 final size:27
Alignment explanation
Indices: 34440776--34440835 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
34440766 CCCTGATTTG
* * *
34440776 TAAAATTACCGAAATACCCTTGTAGTA
1 TAAAATTACCAAAATACCCCTATAGTA
*
34440803 TAAAATTACCAAAATACCCCTATAGTG
1 TAAAATTACCAAAATACCCCTATAGTA
34440830 TAAAAT
1 TAAAAT
34440836 GACTGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTATAGTA
Found at i:34444070 original size:19 final size:19
Alignment explanation
Indices: 34444031--34444070 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34444021 ATATGTCAAA
* *
34444031 ATTTCAAATATCCAAATTG
1 ATTTCAAATATCAAAAGTG
*
34444050 ATTTCAATTATCAAAAGTG
1 ATTTCAAATATCAAAAGTG
34444069 AT
1 AT
34444071 CAAATGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTTCAAATATCAAAAGTG
Found at i:34445073 original size:22 final size:21
Alignment explanation
Indices: 34445034--34445074 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
34445024 CATATTATAA
**
34445034 AACAAAGAGAAATTTAGAATG
1 AACAAAGAGAAAAATAGAATG
34445055 AACAAGAGAGAAAAATAGAA
1 AACAA-AGAGAAAAATAGAA
34445075 AAAATGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.63, C:0.05, G:0.20, T:0.12
Consensus pattern (21 bp):
AACAAAGAGAAAAATAGAATG
Found at i:34447896 original size:27 final size:26
Alignment explanation
Indices: 34447873--34448029 Score: 192
Period size: 27 Copynumber: 5.9 Consensus size: 26
34447863 ATTTTACCTT
34447873 ACAGGGGTATTTCAGTAATTTTACAA
1 ACAGGGGTATTTCAGTAATTTTACAA
* *
34447899 ACTGGGGGTATTTCGGTAATTTTACAA
1 AC-AGGGGTATTTCAGTAATTTTACAA
34447926 ACCA-GGGTATTTCAGTAATTTTACAA
1 A-CAGGGGTATTTCAGTAATTTTACAA
* *
34447952 ACTTA-GGGTATTTCGGTAATTTTTCAA
1 AC--AGGGGTATTTCAGTAATTTTACAA
* *
34447979 ACTGGGGGTATTTCGGTAATTTTACAA
1 AC-AGGGGTATTTCAGTAATTTTACAA
34448006 ACCAGGGGTATTTCAGTAATTTTA
1 A-CAGGGGTATTTCAGTAATTTTA
34448030 AATAGTTTGG
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
25 1 0.01
26 25 0.22
27 87 0.76
28 2 0.02
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (26 bp):
ACAGGGGTATTTCAGTAATTTTACAA
Found at i:34447936 original size:53 final size:54
Alignment explanation
Indices: 34447877--34448029 Score: 220
Period size: 53 Copynumber: 2.9 Consensus size: 54
34447867 TACCTTACAG
*
34447877 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAAC-CA
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAACTCA
* **
34447930 GGGTATTTCAGTAATTTTACAAACTTA-GGGTATTTCGGTAATTTTTCAAACTGG
1 GGGTATTTCAGTAATTTTACAAAC-TAGGGGTATTTCGGTAATTTTACAAACTCA
* * *
34447984 GGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTA
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTA
34448030 AATAGTTTGG
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
53 48 0.54
54 41 0.46
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAACTCA
Found at i:34447972 original size:80 final size:81
Alignment explanation
Indices: 34447877--34448029 Score: 281
Period size: 80 Copynumber: 1.9 Consensus size: 81
34447867 TACCTTACAG
34447877 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACCA-GGGTATTTCAG
1 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAG
34447941 TAATTTTACAAACTTA
66 TAATTTTACAAACTTA
* *
34447957 GGGTATTTCGGTAATTTTTCAAACTGGGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAG
1 GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAG
34448022 TAATTTTA
66 TAATTTTA
34448030 AATAGTTTGG
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
80 51 0.73
81 19 0.27
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAG
TAATTTTACAAACTTA
Found at i:34449480 original size:24 final size:25
Alignment explanation
Indices: 34449435--34449481 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
34449425 CTCTATTCAA
*
34449435 AGTCTCATGACCAATTCAACCTCAG
1 AGTCTCATGACCAACTCAACCTCAG
* *
34449460 AGTCTCA-GTCCAACTCCACCTC
1 AGTCTCATGACCAACTCAACCTC
34449482 TTACACAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.28, C:0.38, G:0.11, T:0.23
Consensus pattern (25 bp):
AGTCTCATGACCAACTCAACCTCAG
Found at i:34466298 original size:38 final size:38
Alignment explanation
Indices: 34466255--34466330 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
34466245 TTCATCCTTT
34466255 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
34466293 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
34466331 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:34467612 original size:40 final size:40
Alignment explanation
Indices: 34467518--34467662 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
34467508 TACTCGAATG
*
34467518 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
34467559 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
34467599 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
34467639 ATATCCGGGTTAAGGCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
34467663 CTTGTGCAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:34471290 original size:26 final size:26
Alignment explanation
Indices: 34471261--34471342 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
34471251 TGGTACAAAT
*
34471261 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
34471287 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
34471313 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
34471339 TGAT
1 TGAT
34471343 GGACATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:34474387 original size:25 final size:25
Alignment explanation
Indices: 34474333--34474390 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
34474323 TTAATTTAAT
* *
34474333 TTAATACTTATATTAATAGTATTTTA
1 TTAATA-TAATATTAATAGTATTATA
*
34474359 TTAATATAATATTAA-AGTGATTATC
1 TTAATATAATATTAATAGT-ATTATA
34474384 TTAATAT
1 TTAATAT
34474391 TAAATTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.11
25 19 0.68
26 6 0.21
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (25 bp):
TTAATATAATATTAATAGTATTATA
Found at i:34474468 original size:11 final size:11
Alignment explanation
Indices: 34474454--34474502 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 11
34474444 ATAATATTAA
34474454 ATTTATATAAT
1 ATTTATATAAT
34474465 ATTTATATAAT
1 ATTTATATAAT
*
34474476 AAATTTAATCTAAT
1 --ATTT-ATATAAT
34474490 ATTTATATTAAT
1 ATTTATA-TAAT
34474502 A
1 A
34474503 AATATTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 13 0.41
12 9 0.28
13 4 0.12
14 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTATATAAT
Found at i:34474471 original size:25 final size:25
Alignment explanation
Indices: 34474443--34474512 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
34474433 ATTTTAATAA
*
34474443 TATAATATTAAATTTATATAATATT
1 TATAATAATAAATTTATATAATATT
*
34474468 TAT-ATAATAAATTTAATCTAATATT
1 TATAATAATAAATTT-ATATAATATT
*
34474493 TATATTAATAAATATTATAT
1 TATAATAATAAAT-TTATAT
34474513 TAATTTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
24 10 0.26
25 15 0.39
26 11 0.29
27 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (25 bp):
TATAATAATAAATTTATATAATATT
Found at i:34474518 original size:25 final size:25
Alignment explanation
Indices: 34474451--34474526 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 25
34474441 AATATAATAT
*
34474451 TAAATTTATATAATATTTATA-TAA
1 TAAATTTATATTATATTTATATTAA
34474475 TAAATTTA-ATCTAATATTTATATTAA
1 TAAATTTATAT-T-ATATTTATATTAA
34474501 TAAATATTATATTA-ATTTAATATTAA
1 TAAAT-TTATATTATATTT-ATATTAA
34474527 AGTGATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
23 2 0.04
24 8 0.18
25 13 0.29
26 16 0.36
27 4 0.09
28 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (25 bp):
TAAATTTATATTATATTTATATTAA
Found at i:34475384 original size:33 final size:33
Alignment explanation
Indices: 34475340--34475412 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
34475330 GGACATGCTT
* * *
34475340 AACATGTGAATCAGATTTATAGTCAACACAGCC
1 AACATGCGAATCAAATTTATAGTCAACACAACC
*
34475373 AACATGCGAATCAAATTTATAGTCAACACAATC
1 AACATGCGAATCAAATTTATAGTCAACACAACC
34475406 AACATGC
1 AACATGC
34475413 TCAACATGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.23
Consensus pattern (33 bp):
AACATGCGAATCAAATTTATAGTCAACACAACC
Found at i:34480382 original size:38 final size:38
Alignment explanation
Indices: 34480340--34480476 Score: 159
Period size: 38 Copynumber: 3.6 Consensus size: 38
34480330 GTAGGCTTTA
*
34480340 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTCCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTCCG
*
34480378 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGC-CTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTC-CG
* * * *
34480416 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTCCG
* * *
34480456 TGCTGGTGTTATGTTCGGGTT
1 TGCTGGTATTATATCCGGGTT
34480477 TTATACCTCG
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 50 0.60
39 9 0.11
40 23 0.28
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTCCG
Found at i:34484964 original size:39 final size:40
Alignment explanation
Indices: 34484919--34485029 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
34484909 CGGGGTTTAG
* * *
34484919 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
34484958 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
34484998 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
34485030 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:34484989 original size:40 final size:40
Alignment explanation
Indices: 34484942--34485086 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
34484932 CTCGCACAAG
* * * * *
34484942 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
34484982 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
34485022 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
34485063 GCGTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
34485087 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:34486317 original size:38 final size:38
Alignment explanation
Indices: 34486275--34486350 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
34486265 CAAGAACTAC
34486275 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
34486313 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
34486351 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:34488025 original size:30 final size:30
Alignment explanation
Indices: 34487991--34488051 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
34487981 TTCCCGAGCC
34487991 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
34488021 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
34488051 T
1 T
34488052 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:34496220 original size:8 final size:9
Alignment explanation
Indices: 34496190--34496219 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34496180 ATGGTAAAAA
34496190 GTTTTGGGT
1 GTTTTGGGT
34496199 GTTTTGGG-
1 GTTTTGGGT
34496207 GTTTTGGGT
1 GTTTTGGGT
34496216 GTTT
1 GTTT
34496220 GAAGCATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.00, C:0.00, G:0.43, T:0.57
Consensus pattern (9 bp):
GTTTTGGGT
Found at i:34497550 original size:12 final size:13
Alignment explanation
Indices: 34497533--34497564 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
34497523 GCAAATGTTA
34497533 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
34497545 AGTTTTGATGCAT
1 AGTTTTGATGCAT
34497558 -GTTTTGA
1 AGTTTTGA
34497565 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Done.