Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 236 of 335
Found at i:71397462 original size:146 final size:145
Alignment explanation
Indices: 71397177--71397462 Score: 410
Period size: 146 Copynumber: 2.0 Consensus size: 145
71397167 AACGTCCCAG
* * *
71397177 ACGTGGTCTTACACGTAATCAATATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACA
1 ACGTGGTCTTACACGTAATCAATATCGATGCCAATGTCCCAAACGTGCTCTTACACATAATCACA
* * * **
71397242 TATCGATGCCAATGTCTCAAACGTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAAC
66 TATCGATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAAC
*
71397307 GTGCTCTTACCTCAA
131 ATGCTCTTACCTCAA
* *
71397322 ACGTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAACGTGCTTTTACACATAATCAC
1 ACGTGGTCTTACACGTAATCA-ATATCGATGCCAATGTCCCAAACGTGCTCTTACACATAATCAC
* ** * *
71397387 ATATCGATGTCAATGTCCCAGGCATGGTCTTACACGTATTCACATATCGATGCCAACATCCCAGA
65 ATATCGATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAA
*
71397452 CATGGTCTTAC
130 CATGCTCTTAC
71397463 ACGTAATCAC
Statistics
Matches: 123, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
145 20 0.16
146 103 0.84
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (145 bp):
ACGTGGTCTTACACGTAATCAATATCGATGCCAATGTCCCAAACGTGCTCTTACACATAATCACA
TATCGATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCAACATCCCAAAC
ATGCTCTTACCTCAA
Found at i:71398084 original size:30 final size:30
Alignment explanation
Indices: 71398050--71398109 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
71398040 ACTTAACAAG
71398050 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
71398080 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
71398110 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:71401844 original size:24 final size:24
Alignment explanation
Indices: 71401791--71401853 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
71401781 TCTTACTTAT
* * *
71401791 TCGCACACATGGTGCCATGTAATC
1 TCGCACACATAGTGCCATATAACC
*
71401815 TCGCACACATAGTGCCATATAGCC
1 TCGCACACATAGTGCCATATAACC
*
71401839 TTGCACACATAGTGC
1 TCGCACACATAGTGC
71401854 TGTATTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (24 bp):
TCGCACACATAGTGCCATATAACC
Found at i:71403154 original size:20 final size:21
Alignment explanation
Indices: 71403129--71403167 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
71403119 TAATTTCTTC
*
71403129 TTTTATTCCTATT-TTTATTT
1 TTTTATTCATATTGTTTATTT
71403149 TTTTATTCATATTGTTTAT
1 TTTTATTCATATTGTTTAT
71403168 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTCATATTGTTTATTT
Found at i:71404916 original size:30 final size:29
Alignment explanation
Indices: 71404822--71404923 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
71404812 TATAGTGAAT
* * *
71404822 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
71404851 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
71404879 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
71404909 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71404924 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:71412769 original size:30 final size:29
Alignment explanation
Indices: 71412675--71412776 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
71412665 TATAGTGAAT
* * *
71412675 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
71412704 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
71412732 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
71412762 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71412777 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:71419762 original size:28 final size:27
Alignment explanation
Indices: 71419699--71419768 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
71419689 ATAGTGAGTC
71419699 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
71419726 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
71419754 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71419769 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:71427782 original size:28 final size:25
Alignment explanation
Indices: 71427721--71427788 Score: 109
Period size: 28 Copynumber: 2.6 Consensus size: 25
71427711 ATAGTGAGTC
71427721 CGCACACTTAGTGCTATAATCAACT
1 CGCACACTTAGTGCTATAATCAACT
71427746 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATA--ATC-AACT
71427774 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71427789 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 18 0.45
27 3 0.08
28 19 0.47
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (25 bp):
CGCACACTTAGTGCTATAATCAACT
Found at i:71429955 original size:39 final size:39
Alignment explanation
Indices: 71429900--71430099 Score: 253
Period size: 39 Copynumber: 5.1 Consensus size: 39
71429890 TGAATGATAC
* * * *
71429900 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
71429940 CCGGG-TAAGACCCGAAGGCATTTGTGCGAGT-TGTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGT-TATAT
71429978 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
* * *
71430017 CC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* **
71430056 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
71430096 CCGG
1 CCGG
71430100 CTAAATTCCG
Statistics
Matches: 142, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
37 1 0.01
38 37 0.26
39 65 0.46
40 39 0.27
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:71430029 original size:77 final size:78
Alignment explanation
Indices: 71429896--71430103 Score: 319
Period size: 78 Copynumber: 2.7 Consensus size: 78
71429886 GCATTGAATG
* * * *
71429896 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGTAAGACCCGAAGGCAT
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTG-TTATATCCGGCTAAGACCCGAAGGCAT
71429961 TTGTGCGAGTTG-T
65 TTGTGCGAGTTGCT
* *
71429974 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATATCCGGCTAAGACCCGAAGGCATT
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGTTATATCCGGCTAAGACCCGAAGGCATT
71430039 TGTGCGAGTTGCT
66 TGTGCGAGTTGCT
* *
71430052 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGT-GTTATATCCGGCTAA
71430104 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
77 38 0.32
78 65 0.55
79 15 0.13
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGTTATATCCGGCTAAGACCCGAAGGCATT
TGTGCGAGTTGCT
Found at i:71438040 original size:40 final size:40
Alignment explanation
Indices: 71437981--71438184 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
71437971 TGAATGATAC
* * * * *
71437981 CCGGGCTAAGCCCCAAAGGCATTTATGCTAG-TGATTGTAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
*
71438021 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
71438061 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
71438101 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
71438141 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
71438181 CCGG
1 CCGG
71438185 CTAAATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 143 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:71438114 original size:80 final size:80
Alignment explanation
Indices: 71437977--71438188 Score: 293
Period size: 80 Copynumber: 2.7 Consensus size: 80
71437967 CAATTGAATG
* * * * * *
71437977 ATACCCGGGCTAAGCCCCAAAGGCATTTATGCTAG-TGATTGTATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
*
71438041 ATTTGTGCTAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
71438057 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
71438122 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
71438137 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
71438189 ATTCCGAAGA
Statistics
Matches: 117, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
79 6 0.05
80 109 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:71439913 original size:166 final size:165
Alignment explanation
Indices: 71439630--71439955 Score: 472
Period size: 166 Copynumber: 2.0 Consensus size: 165
71439620 TTGGGAAACG
** *
71439630 TTGCACACAAGGTGTCAAATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCGCT
1 TTGCACACAAGGTACCAAATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCACT
* * * *
71439695 CTCAAGCCATCAACAGGCCTACTCACATAAGCTGTCAGTCAAGACGTAGCTACACGGTGCTATTC
66 CTCAAGCCATCAACAGGCCTACTCACACAAGCTATCAGTCAAGACATAGCTACACGGTGCTACTC
* **
71439760 ACATAAGCTGTCAAGTAACTGCAACATATGTAGCCA
131 ACACAAGCTGTCAAGT-ACCACAACATATGTAGCCA
*
71439796 TTGCACACAAGGTACCACATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCACT
1 TTGCACACAAGGTACCAAATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCACT
* * * * * * * *
71439861 CTCGAGCCATTAACGGGCCTGCTCACACAAGCTATCAGTCACGACATAGCTACTCGGTGTTGCTC
66 CTCAAGCCATCAACAGGCCTACTCACACAAGCTATCAGTCAAGACATAGCTACACGGTGCTACTC
71439926 ACACAAGCTGTCAAGTACCACAACATATGT
131 ACACAAGCTGTCAAGTACCACAACATATGT
71439956 TGATATACTC
Statistics
Matches: 141, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
165 12 0.09
166 129 0.91
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (165 bp):
TTGCACACAAGGTACCAAATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCACT
CTCAAGCCATCAACAGGCCTACTCACACAAGCTATCAGTCAAGACATAGCTACACGGTGCTACTC
ACACAAGCTGTCAAGTACCACAACATATGTAGCCA
Found at i:71441479 original size:5 final size:5
Alignment explanation
Indices: 71441457--71441490 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
71441447 TTTTATTAAA
*
71441457 TTTAT TATTAT TTGAT TTTAT TTTAT TTTAT TTT
1 TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTT
71441491 TTGTTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:71447899 original size:31 final size:31
Alignment explanation
Indices: 71447861--71447924 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
71447851 TCTTTTAGAC
71447861 TTAGTTTCGTAAGAAATATATCAGTCAGAGA
1 TTAGTTTCGTAAGAAATATATCAGTCAGAGA
*
71447892 TTAGTTTCGTAAGAAATATGTCAGTCAGAGA
1 TTAGTTTCGTAAGAAATATATCAGTCAGAGA
71447923 TT
1 TT
71447925 TATGGACCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (31 bp):
TTAGTTTCGTAAGAAATATATCAGTCAGAGA
Found at i:71452756 original size:71 final size:71
Alignment explanation
Indices: 71452672--71452835 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
71452662 CGATTTGTCT
71452672 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
71452737 CTTTCA
66 CTTTCA
71452743 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
71452808 CTTTCA
66 CTTTCA
71452814 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
71452836 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:71452873 original size:71 final size:70
Alignment explanation
Indices: 71452672--71452869 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
71452662 CGATTTGTCT
* * * *
71452672 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
71452737 CTTTCA
65 CTTTCA
* * * *
71452743 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
71452808 CTTTCA
65 CTTTCA
* *
71452814 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
71452870 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:71465651 original size:2 final size:2
Alignment explanation
Indices: 71465644--71465673 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71465634 TACCGTTCGT
71465644 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
71465674 CATAATTCCC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:71471364 original size:12 final size:12
Alignment explanation
Indices: 71471347--71471395 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
71471337 CATCATGAAA
71471347 TATGTTATTCAT
1 TATGTTATTCAT
71471359 TATGTTATTCA-
1 TATGTTATTCAT
** *
71471370 TAGTGGGATCCAT
1 TA-TGTTATTCAT
71471383 TATGTTATTCAT
1 TATGTTATTCAT
71471395 T
1 T
71471396 CAGGCAATGC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 2 0.07
12 25 0.86
13 2 0.07
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.51
Consensus pattern (12 bp):
TATGTTATTCAT
Found at i:71472870 original size:9 final size:9
Alignment explanation
Indices: 71472856--71472882 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
71472846 CGGCGAAAGT
71472856 GCTGCTGCC
1 GCTGCTGCC
71472865 GCTGCTGCC
1 GCTGCTGCC
71472874 GCTGCTGCC
1 GCTGCTGCC
71472883 ATAGAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.33, T:0.22
Consensus pattern (9 bp):
GCTGCTGCC
Found at i:71474053 original size:21 final size:23
Alignment explanation
Indices: 71474029--71474074 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
71474019 AGAAAATCAA
71474029 TTTTTG-ATA-TGAGAAATATTG
1 TTTTTGCATACTGAGAAATATTG
* *
71474050 TTTTTGCATACTGATAAATTTTG
1 TTTTTGCATACTGAGAAATATTG
71474073 TT
1 TT
71474075 AAGAAGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 3 0.14
23 12 0.57
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (23 bp):
TTTTTGCATACTGAGAAATATTG
Found at i:71474416 original size:15 final size:15
Alignment explanation
Indices: 71474395--71474436 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
71474385 ATTTATTTTT
71474395 TTAAATTATAAAGATA
1 TTAAATTATAAA-ATA
71474411 -TAAATTATTAAAATA
1 TTAAATTA-TAAAATA
71474426 TTAAAATTATA
1 TT-AAATTATA
71474437 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 10 0.43
16 7 0.30
17 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TTAAATTATAAAATA
Found at i:71474449 original size:31 final size:29
Alignment explanation
Indices: 71474414--71474482 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
71474404 AAAGATATAA
* *
71474414 ATTATTAAAATATTAAAATTATATTTTTATT
1 ATTATAAAAATA-TAAAATT-TAATTTTATT
*
71474445 ATTATAAAAATATACAATTTAATTTTATT
1 ATTATAAAAATATAAAATTTAATTTTATT
*
71474474 CTT-TAAAAA
1 ATTATAAAAA
71474483 AAATTTCTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.18
29 11 0.32
30 6 0.18
31 11 0.32
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTATAAAAATATAAAATTTAATTTTATT
Found at i:71474470 original size:30 final size:30
Alignment explanation
Indices: 71474414--71474482 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
71474404 AAAGATATAA
*
71474414 ATTATTAAAATATTAAAATTATATTTTTATT
1 ATTATAAAAATATTAAAATTATA-TTTTATT
*
71474445 ATTATAAAAATA-TACAATT-TAATTTTATT
1 ATTATAAAAATATTAAAATTAT-ATTTTATT
*
71474474 CTT-TAAAAA
1 ATTATAAAAA
71474483 AAATTTCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 6 0.18
29 10 0.29
30 7 0.21
31 11 0.32
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTATAAAAATATTAAAATTATATTTTATT
Found at i:71475611 original size:3 final size:3
Alignment explanation
Indices: 71475603--71475638 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
71475593 ATGAAGAAAG
71475603 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
71475639 TTGTACATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:71480092 original size:29 final size:29
Alignment explanation
Indices: 71480058--71480132 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
71480048 TACTCGATTT
*
71480058 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
71480087 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
71480116 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
71480133 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:71480149 original size:29 final size:29
Alignment explanation
Indices: 71480116--71480189 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71480106 CCTTCGAGCT
71480116 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
71480145 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
71480174 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
71480190 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:71492563 original size:48 final size:48
Alignment explanation
Indices: 71492500--71492780 Score: 400
Period size: 48 Copynumber: 5.9 Consensus size: 48
71492490 ACATGAATCT
71492500 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCAC
** * * * *
71492548 ACATATCATTACCGATGCCATGCCCCAAACATGGTCTTACACTGGCCC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCAC
* * *
71492596 ACATATCATCGCCGATGCCATGTCCCAGAAATGGTCTTACACTGGTAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCAC
* * * *
71492644 ACATATCATCCCCGATACCATGTCCTAGACATGGTCTTACATAGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCAC
* * *
71492692 ACATATCATCCCCGATGCCATGTCCCAAACATGGTCTTACATAGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCAC
* *
71492740 ATATATCATCGTCGATGCCATGTCCCAGACATGGTCTTACA
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACA
71492781 CAGGCACATT
Statistics
Matches: 206, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 206 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (48 bp):
ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCAC
Found at i:71492748 original size:144 final size:144
Alignment explanation
Indices: 71492500--71492781 Score: 449
Period size: 144 Copynumber: 2.0 Consensus size: 144
71492490 ACATGAATCT
* * * *
71492500 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCACACATATCATTACCGATG
1 ACATATCATCCCCGATACCATGTCCCAGACATGGTCTTACATAGGCACACATATCATCACCGATG
*
71492565 CCATGCCCCAAACATGGTCTTACACTGGCCCACATATCATCGCCGATGCCATGTCCCAGAAATGG
66 CCATGCCCCAAACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAGAAATGG
71492630 TCTTACACTGGTAC
131 TCTTACACTGGTAC
* *
71492644 ACATATCATCCCCGATACCATGTCCTAGACATGGTCTTACATAGGCACACATATCATCCCCGATG
1 ACATATCATCCCCGATACCATGTCCCAGACATGGTCTTACATAGGCACACATATCATCACCGATG
* * * *
71492709 CCATGTCCCAAACATGGTCTTACA-TAGGCACATATATCATCGTCGATGCCATGTCCCAGACATG
66 CCATGCCCCAAACATGGTCTTACACT-GGCACACATATCATCGCCGATGCCATGTCCCAGAAATG
71492773 GTCTTACAC
130 GTCTTACAC
71492782 AGGCACATTT
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
143 1 0.01
144 125 0.99
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (144 bp):
ACATATCATCCCCGATACCATGTCCCAGACATGGTCTTACATAGGCACACATATCATCACCGATG
CCATGCCCCAAACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAGAAATGG
TCTTACACTGGTAC
Found at i:71493771 original size:18 final size:20
Alignment explanation
Indices: 71493735--71493781 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
71493725 AGTTGTAAGT
71493735 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
71493755 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
71493774 ATGATATA
1 AT-ATATA
71493782 ACCTATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:71494393 original size:101 final size:101
Alignment explanation
Indices: 71494288--71494471 Score: 332
Period size: 101 Copynumber: 1.8 Consensus size: 101
71494278 TAAGTCATGC
71494288 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTG
*
71494353 CAGGCTACTATGCGTACCTGTTAACTTTGATCACAT
66 CAGGCTACTATGCATACCTGTTAACTTTGATCACAT
* * *
71494389 GTGTAGTACTAAGTGTAGGCTATTACGTGTACCAGATTGATAGGTCACATGTGTTGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTG
71494454 CAGGCTACTATGCATACC
66 CAGGCTACTATGCATACC
71494472 AGAGAGCTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTG
CAGGCTACTATGCATACCTGTTAACTTTGATCACAT
Found at i:71494474 original size:50 final size:50
Alignment explanation
Indices: 71494130--71494463 Score: 348
Period size: 50 Copynumber: 6.6 Consensus size: 50
71494120 ATCGTTGTGA
*
71494130 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
71494180 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * ** * * * * *
71494231 ATCACGTATGAAGTACTAAGTTTAGGCTACAACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
***
71494281 GTCATGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
71494331 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * *
71494382 ATCACATGTGTAGTACTAAGTGTAGGCTATTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
71494432 GTCACATGTGTTGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
71494464 TGCATACCAG
Statistics
Matches: 222, Mismatches: 56, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
49 6 0.03
50 142 0.64
51 70 0.32
52 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:71494474 original size:151 final size:151
Alignment explanation
Indices: 71494129--71494463 Score: 526
Period size: 151 Copynumber: 2.2 Consensus size: 151
71494119 AATCGTTGTG
*
71494129 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
* *
71494194 ACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTCGATCACGTATGAAGTACTAAGTTTAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTCGATCACATATGAAGTACTAAGTGTAGGCT
* *
71494259 ACAACGTGTATCAGATGGTTA
131 ACAACGTGTACCAGATGGATA
* *
71494280 AGTCATGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
* * *
71494345 ACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTTGATCACATGTGTAGTACTAAGTGTAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTCGATCACATATGAAGTACTAAGTGTAGGCT
** *
71494410 ATTACGTGTACCAGATTGATA
131 ACAACGTGTACCAGATGGATA
* * *
71494431 GGTCACATGTGTTGTACTAAGTGCAGGCTACTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
71494464 TGCATACCAG
Statistics
Matches: 166, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
151 166 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTCGATCACATATGAAGTACTAAGTGTAGGCT
ACAACGTGTACCAGATGGATA
Found at i:71497139 original size:28 final size:28
Alignment explanation
Indices: 71497070--71497170 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71497060 GACAAGATTG
* * * *
71497070 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71497100 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71497128 GCACTAAGTGTGCGAG-CTGAATATATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71497157 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71497171 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71497164 original size:29 final size:28
Alignment explanation
Indices: 71497099--71497170 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
71497089 AAAATTGTAC
*
71497099 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
71497127 AGCACTAAGTGTGCGAG-CTGAATATATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
71497156 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71497171 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:71503554 original size:24 final size:24
Alignment explanation
Indices: 71503524--71503886 Score: 654
Period size: 24 Copynumber: 15.1 Consensus size: 24
71503514 GAATGTGACT
* *
71503524 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
71503548 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503572 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71503596 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503620 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71503644 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503668 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71503692 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503716 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503740 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71503764 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503788 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71503812 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503836 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503860 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71503884 ATA
1 ATA
71503887 TGGTCTTTGC
Statistics
Matches: 327, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 327 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:71506638 original size:18 final size:20
Alignment explanation
Indices: 71506602--71506648 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
71506592 AGTTGTAAGT
71506602 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
71506622 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
71506641 ATGATATA
1 AT-ATATA
71506649 ACCTATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:71507175 original size:101 final size:100
Alignment explanation
Indices: 71506997--71507894 Score: 520
Period size: 101 Copynumber: 8.9 Consensus size: 100
71506987 TTCATTGTGA
** * * *
71506997 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATTGTTAAGTCACATGTGTAGTA
* * *
71507062 CTTAGTGCAGGCTACTATGCGTACCCGTTAACGTCG
66 CTAAGTGCAGGCTACTACGCGTACCAGTTAA-GTCG
* * * *
71507098 ATCACGTGTGTAGTACTAAGTGTAGGCTATTACGTGTATTAGATGGTTAAGTCACGTGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATTGTTAAGTCACATGTGTAGTA
** * * * * * *
71507163 CTAACCGTAGGCTACTACGTGTGCTAGATTGA-TAG
66 CTAAGTGCAGGCTACTACGCGTACCAG-TTAAGTCG
*** * ** * *
71507198 ATCGTATGTGTAGTACTAGGTGCAGGCTACTATGCGTACCCATTAAATTCG---A-TCACGTGTG
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTA--CGT--GTATTAGATT-GTTAAGTCACATGTG
*
71507259 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG
61 TAGTACTAAGTGCAGGCTACTACGCGTACCAG-TT-A-A-GTCG
* * * * * **
71507303 AT----TGTGTAGTACTTAGTGTAGGCTACTATGCGTACCCGTTA-A-CGTCGA-TCACATGTGT
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA----TTAGATTGTTAAGTCACATGTGT
* * * * * * **
71507361 AGTGCTAAGTGTAGGCTATTACGTGTATCAGAT-AGTTA
62 AGTACTAAGTGCAGGCTACTACGCGTACCAGTTAAGTCG
* * * * **
71507399 AGTCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACTAGATTGATAGGTTGCATGTGTAGT
1 A-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATTGTTAAGTCACATGTGTAGT
* *
71507464 ACTAAGTGCAGGCTACTATGCGTACCCA-TTAAATTCG
65 ACTAAGTGCAGGCTACTACGCGTA-CCAGTT-AAGTCG
* ** * *
71507501 ATCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATTGTTAAGTCACATGTGTAGTA
* * *
71507566 CTAAGTGCAGGCTACTATGCGTACCCA-CTAACTTCG
66 CTAAGTGCAGGCTACTACGCGTA-CCAGTTAA-GTCG
* * * * *
71507602 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAAGTCACGTGTGCAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATTGTTAAGTCACATGTGTAGTA
* * * * *
71507667 CTAAGTGCAGGCTGCTACGTGTTCCAGATTGA-TAG
66 CTAAGTGCAGGCTACTACGCGTACCAG-TTAAGTCG
* * * * * * ** * * *
71507702 GTCGCATGTGTAGTACTAAGTCCAGGCTACTATGCGTATCCG-TTAACTTCAA-CCACTTGTGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATT--GTT-AAGTCACATGTGTA
* * * * * * **
71507765 ATACTAAGTGCAGGCGACTACGTGTATCAGAT-GGTTA
63 GTACTAAGTGCAGGCTACTACGCGTACCAGTTAAGTCG
* ** * * ** * * * *
71507802 AGTCACATGTGTAGTACTAAGTGTGGGCCACTACATGTACCAAATTGATAGGTCGCATGTGTAGT
1 A-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATTGTTAAGTCACATGTGTAGT
* *
71507867 ACTAAGTGCAGGCTACTATGTGTACCAG
65 ACTAAGTGCAGGCTACTACGCGTACCAG
71507895 AGACCTTCAG
Statistics
Matches: 618, Mismatches: 141, Indels: 77
0.74 0.17 0.09
Matches are distributed among these distances:
96 3 0.00
97 5 0.01
98 2 0.00
99 4 0.01
100 139 0.22
101 437 0.71
102 16 0.03
103 1 0.00
104 6 0.01
105 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATTGTTAAGTCACATGTGTAGTA
CTAAGTGCAGGCTACTACGCGTACCAGTTAAGTCG
Found at i:71507276 original size:151 final size:151
Alignment explanation
Indices: 71506998--71507582 Score: 459
Period size: 151 Copynumber: 3.9 Consensus size: 151
71506988 TCATTGTGAA
** *
71506998 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAACCGCAGGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTAC
* * * *
71507063 TTAGTGCAGGCTACTATGCGTACCCGTTAACGTCGATCACGTGTGTAGTACTAAGTGTAGGCTAT
66 TTAGTGCAGGCTACTATGCGTACCCATTAAAGTCGATCACGTGTGTAGTACTAAGTGCAGGCTAC
71507128 TACGTGTATTAGATGGTTAAG
131 TACGTGTATTAGATGGTTAAG
* * * *
71507149 TCACGTGTGTAGTACTAACCGTAGGCTACTACGTGTGCTAGATTGATAGATCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTAACCGCAGGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTAC
*
71507214 -TAGGTGCAGGCTACTATGCGTACCCATTAAATTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
66 TTA-GTGCAGGCTACTATGCGTACCCATTAAAGTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
** * * *
71507278 CTACGTGTACCAGATTGATAGG
130 CTACGTGTATTAGATGGTTAAG
* * ** * * * * * * *
71507300 TCGA-TTGTGTAGTACTTAGTGTAGGCTACTATGCGTACCCG-TTAACGTCGATCACATGTGTAG
1 TC-ACGTGTGTAGTACTAACCGCAGGCTACTACGTGTACCAGATTGA--TAGATCGCATGTGTAG
* * * * * * * * * ** *
71507363 TGCTAAGTGTAGGCTATTACGTGTA-TCA-GATAGTTAAGTCACGTGTGTAGTACTAACTGCAGG
63 TACTTAGTGCAGGCTACTATGCGTACCCATTAAAGTCGA-TCACGTGTGTAGTACTAAGTGCAGG
* * * *
71507426 CTACTACGTGTACTAGATTGATAGG
127 CTACTACGTGTATTAGATGGTTAAG
** * ** * * * * * * *
71507451 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-CATTAAATTCGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAACCGCAGGCTACTACGTGTACCAGATT-GA-TAGATCGCATGTGTAGT
* * * * * * *
71507515 ACTAAGTACAGGCTACTACGTGTACCAGATTGATAG--G-TCACATGTGTAGTACTAAGTGCAGG
64 ACTTAGTGCAGGCTACTATGCGTACC-CATT-AAAGTCGATCACGTGTGTAGTACTAAGTGCAGG
71507577 CTACTA
127 CTACTA
71507583 TGCGTACCCA
Statistics
Matches: 359, Mismatches: 62, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
150 9 0.03
151 311 0.87
152 33 0.09
153 2 0.01
155 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (151 bp):
TCACGTGTGTAGTACTAACCGCAGGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTAC
TTAGTGCAGGCTACTATGCGTACCCATTAAAGTCGATCACGTGTGTAGTACTAAGTGCAGGCTAC
TACGTGTATTAGATGGTTAAG
Found at i:71507444 original size:252 final size:251
Alignment explanation
Indices: 71506997--71507824 Score: 1251
Period size: 252 Copynumber: 3.3 Consensus size: 251
71506987 TTCATTGTGA
71506997 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG-ATGTGTAGTA
71507062 CTTAGTGCAGGCTACTATGCGTACCCGTTAACGTCGATCACGTGTGTAGTACTAAGTGTAGGCTA
65 CTTAGTGCAGGCTACTATGCGTACCCGTTAACGTCGATCACGTGTGTAGTACTAAGTGTAGGCTA
* * * *
71507127 TTACGTGTATTAGATGGTTAAGTCACGTGTGTAGTACTAACCGTAGGCTACTACGTGTGCTAGAT
130 TTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACTAGAT
* * *
71507192 TGATAGATCGTATGTGTAGTACTAGGTGCAGGCTACTATGCGTACCCATTAAATTCG
195 TGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCATTAAATTCG
71507249 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGATTGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGA-TGTGTAGTA
* * *
71507314 CTTAGTGTAGGCTACTATGCGTACCCGTTAACGTCGATCACATGTGTAGTGCTAAGTGTAGGCTA
65 CTTAGTGCAGGCTACTATGCGTACCCGTTAACGTCGATCACGTGTGTAGTACTAAGTGTAGGCTA
*
71507379 TTACGTGTATCAGATAGTTAAGTCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACTAGAT
130 TTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACTAGAT
*
71507444 TGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCATTAAATTCG
195 TGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCATTAAATTCG
* *
71507501 ATCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTC-GATGTGTAGTA
* ** * *
71507566 CTAAGTGCAGGCTACTATGCGTACCCACTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
65 CTTAGTGCAGGCTACTATGCGTACCCGTTAACGTCGATCACGTGTGTAGTACTAAGTGTAGGCTA
* * * * * * *
71507631 CTACGTGTATCAAATGGTTAAGTCACGTGTGCAGTACTAAGTGCAGGCTGCTACGTGTTCCAGAT
130 TTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACTAGAT
* * * * *
71507696 TGATAGGTCGCATGTGTAGTACTAAGTCCAGGCTACTATGCGTATCCGTTAACTTCA
195 TGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCATTAAATTCG
* * * * * * * * *
71507753 ACCACTTGTGTAATACTAAGTGCAGGCGACTACGTGTATCAGATGGTTAAGTCACATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTC-GATGTGTAGTA
*
71507818 CTAAGTG
65 CTTAGTG
71507825 TGGGCCACTA
Statistics
Matches: 529, Mismatches: 45, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
251 1 0.00
252 527 1.00
253 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (251 bp):
ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGATGTGTAGTAC
TTAGTGCAGGCTACTATGCGTACCCGTTAACGTCGATCACGTGTGTAGTACTAAGTGTAGGCTAT
TACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACTAGATT
GATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCATTAAATTCG
Found at i:71507657 original size:151 final size:151
Alignment explanation
Indices: 71507502--71507892 Score: 584
Period size: 151 Copynumber: 2.6 Consensus size: 151
71507492 TTAAATTCGA
* *
71507502 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
* * * *
71507567 TAAGTGCAGGCTACTATGCGTACCCACTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTAC
66 TAAGTGCAGGCTACTATGCGTACCCACTAACTTCAACCACGTGTGTAATACTAAGTGCAGGCGAC
71507632 TACGTGTATCAAATGGTTAAG
131 TACGTGTATCAAATGGTTAAG
* * *
71507653 TCACGTGTGCAGTACTAAGTGCAGGCTGCTACGTGTTCCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
* * ** *
71507718 TAAGTCCAGGCTACTATGCGTATCCGTTAACTTCAACCACTTGTGTAATACTAAGTGCAGGCGAC
66 TAAGTGCAGGCTACTATGCGTACCCACTAACTTCAACCACGTGTGTAATACTAAGTGCAGGCGAC
*
71507783 TACGTGTATCAGATGGTTAAG
131 TACGTGTATCAAATGGTTAAG
* ** * * *
71507804 TCACATGTGTAGTACTAAGTGTGGGCCACTACATGTACCAAATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
*
71507869 TAAGTGCAGGCTACTATGTGTACC
66 TAAGTGCAGGCTACTATGCGTACC
71507893 AGAGACCTTC
Statistics
Matches: 213, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
151 213 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (151 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCACTAACTTCAACCACGTGTGTAATACTAAGTGCAGGCGAC
TACGTGTATCAAATGGTTAAG
Found at i:71519010 original size:15 final size:15
Alignment explanation
Indices: 71518992--71519026 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
71518982 ATGGCCTCTT
71518992 GTACCCCATCCGTGA
1 GTACCCCATCCGTGA
* *
71519007 GTACCCTATCTGTGA
1 GTACCCCATCCGTGA
71519022 GTACC
1 GTACC
71519027 TCGTGTGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.26
Consensus pattern (15 bp):
GTACCCCATCCGTGA
Found at i:71522702 original size:103 final size:103
Alignment explanation
Indices: 71522579--71522789 Score: 343
Period size: 103 Copynumber: 2.1 Consensus size: 103
71522569 CCTTTAAAAG
* * *
71522579 AACAG-CAATGATTCCTACGAATCTAAGCCTCTAGTAAACAATTTTGAATCCTTGAAAACCCTCC
1 AACAGTCAATGATTCCCACGAATCTAAGCCTCTAGCAAACAATTTTGAATCCTCGAAAACCCTCC
* * *
71522643 TAAACGATAATAATGACACTTGTCAACGAACAGTTAAT
66 TAAACAATAACAATGACACTTGTAAACGAACAGTTAAT
* *
71522681 AACAGTCAATGATTCCCACGAATCTAAGCCTCTAGCAAACAATTTTGAATCCTCGAAACCCCTCT
1 AACAGTCAATGATTCCCACGAATCTAAGCCTCTAGCAAACAATTTTGAATCCTCGAAAACCCTCC
71522746 TAAACAATAACAATGACACTTGTAAACGAACAGTTAAT
66 TAAACAATAACAATGACACTTGTAAACGAACAGTTAAT
71522784 AACAGT
1 AACAGT
71522790 TAACCAGAGA
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 5 0.05
103 95 0.95
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (103 bp):
AACAGTCAATGATTCCCACGAATCTAAGCCTCTAGCAAACAATTTTGAATCCTCGAAAACCCTCC
TAAACAATAACAATGACACTTGTAAACGAACAGTTAAT
Found at i:71524209 original size:23 final size:24
Alignment explanation
Indices: 71524174--71524225 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
71524164 TCGCAAATAA
*
71524174 TTTTAATCAAATATT-TTATAATT
1 TTTTAAACAAATATTATTATAATT
* *
71524197 TTTTAAACTAATATTAATTATTATT
1 TTTTAAACAAATATT-ATTATAATT
71524222 TTTT
1 TTTT
71524226 TTTTTGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
25 11 0.46
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTAAACAAATATTATTATAATT
Found at i:71542992 original size:55 final size:55
Alignment explanation
Indices: 71542926--71543045 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
71542916 GCCAAAACAA
* *
71542926 CACGGGCGTGCGACACGTCCGTGTGGAAG-AACCGTGGTCGAACCTGTTAAAATAG
1 CACGGGCGTGCGACACGCCCGTGT-CAAGCAACCGTGGTCGAACCTGTTAAAATAG
* * * * * * *
71542981 CACGGGTGTGCGACATGCCCGTGTCTAGCACCCGTGGTTGAACCTGTTAAATTAA
1 CACGGGCGTGCGACACGCCCGTGTCAAGCAACCGTGGTCGAACCTGTTAAAATAG
*
71543036 CACAGGCGTG
1 CACGGGCGTG
71543046 GGTGGGAGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 2 0.04
55 51 0.96
ACGTcount: A:0.23, C:0.25, G:0.31, T:0.21
Consensus pattern (55 bp):
CACGGGCGTGCGACACGCCCGTGTCAAGCAACCGTGGTCGAACCTGTTAAAATAG
Found at i:71551625 original size:17 final size:17
Alignment explanation
Indices: 71551603--71551641 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
71551593 AAATGTATTA
71551603 GCTTGTAATTATCAAAG
1 GCTTGTAATTATCAAAG
71551620 GCTTGTAATTATCAAAG
1 GCTTGTAATTATCAAAG
71551637 GCTTG
1 GCTTG
71551642 ATGTGGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (17 bp):
GCTTGTAATTATCAAAG
Found at i:71556447 original size:40 final size:40
Alignment explanation
Indices: 71556392--71556595 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
71556382 TGAATGATAC
* * * * *
71556392 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTGTAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
71556432 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
71556472 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
71556512 CCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
71556552 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
71556592 CCGG
1 CCGG
71556596 CTAAATTCGA
Statistics
Matches: 144, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 142 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:71556525 original size:80 final size:80
Alignment explanation
Indices: 71556388--71556599 Score: 302
Period size: 80 Copynumber: 2.7 Consensus size: 80
71556378 CAATTGAATG
* * * * * *
71556388 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTGTATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCAAAGGC
71556452 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
71556468 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCAAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCAAAGGCA
71556533 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
71556548 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
71556600 ATTCGAAGAA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 6 0.05
80 110 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCAAAGGCA
TTTGTGCGAGTTGCT
Found at i:71564529 original size:40 final size:40
Alignment explanation
Indices: 71564475--71564676 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
71564465 TGAATGATAC
* * *
71564475 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
71564514 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
71564554 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
71564594 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
71564633 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
71564673 CCGG
1 CCGG
71564677 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 42 0.29
40 103 0.70
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:71566397 original size:166 final size:165
Alignment explanation
Indices: 71566114--71566439 Score: 472
Period size: 166 Copynumber: 2.0 Consensus size: 165
71566104 TTGGGAAACG
** *
71566114 TTGCACACAAGGTGTCAAATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCGCT
1 TTGCACACAAGGTACCAAATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCACT
* * * *
71566179 CTCAAGCCATCAACAGGCCTACTCACATAAGCTGTCAGTCAAGACGTAGCTACACGGTGCTATTC
66 CTCAAGCCATCAACAGGCCTACTCACACAAGCTATCAGTCAAGACATAGCTACACGGTGCTACTC
* **
71566244 ACATAAGCTGTCAAGTAACTGCAACATATGTAGCCA
131 ACACAAGCTGTCAAGT-ACCACAACATATGTAGCCA
*
71566280 TTGCACACAAGGTACCACATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCACT
1 TTGCACACAAGGTACCAAATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCACT
* * * * * * * *
71566345 CTCGAGCCATTAACGGGCCTGCTCACACAAGCTATCAGTCACGACATAGCTACTCGGTGTTGCTC
66 CTCAAGCCATCAACAGGCCTACTCACACAAGCTATCAGTCAAGACATAGCTACACGGTGCTACTC
71566410 ACACAAGCTGTCAAGTACCACAACATATGT
131 ACACAAGCTGTCAAGTACCACAACATATGT
71566440 TGATATACTC
Statistics
Matches: 141, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
165 12 0.09
166 129 0.91
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (165 bp):
TTGCACACAAGGTACCAAATATGTAGCCATTGCTACCTCTATCTCATAACACATATATGCTCACT
CTCAAGCCATCAACAGGCCTACTCACACAAGCTATCAGTCAAGACATAGCTACACGGTGCTACTC
ACACAAGCTGTCAAGTACCACAACATATGTAGCCA
Found at i:71567963 original size:5 final size:5
Alignment explanation
Indices: 71567941--71567974 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
71567931 TTTTATTAAA
*
71567941 TTTAT TATTAT TTGAT TTTAT TTTAT TTTAT TTT
1 TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTT
71567975 TTGTTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:71573962 original size:80 final size:80
Alignment explanation
Indices: 71573878--71574026 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
71573868 TATGGTAACC
* * * *
71573878 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
71573942 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
71573958 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
71574023 CCGG
66 CCGG
71574027 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:71573968 original size:40 final size:38
Alignment explanation
Indices: 71573919--71574026 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
71573909 ATCACGATTT
*
71573919 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
71573959 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
71573999 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
71574027 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:71577174 original size:29 final size:28
Alignment explanation
Indices: 71577104--71577178 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
71577094 ATACTCGATT
* *
71577104 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
71577132 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
71577161 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
71577179 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:71577195 original size:29 final size:29
Alignment explanation
Indices: 71577162--71577235 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71577152 CCTTCGAGCT
71577162 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
71577191 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
71577220 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
71577236 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:71587806 original size:13 final size:12
Alignment explanation
Indices: 71587782--71587820 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
71587772 CTTATAGAAC
*
71587782 AAAAAAAAAAAT
1 AAAAAATAAAAT
*
71587794 ATAAAATATAAAT
1 AAAAAATA-AAAT
71587807 AAAAAATAAAAT
1 AAAAAATAAAAT
71587819 AA
1 AA
71587821 TTCAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:71589078 original size:38 final size:35
Alignment explanation
Indices: 71589027--71589151 Score: 92
Period size: 38 Copynumber: 3.4 Consensus size: 35
71589017 TTCTTACGAC
**
71589027 TTTATAAAATTTTATAATTTTTTTATAATTCTATATAT
1 TTTATAATTTTTTA-AATTTTTTTATAATT-TATA-AT
* * *
71589065 TTTATAATTTTTTAAGATTTTTATAAAATTTTACAAAT
1 TTTATAATTTTTTAA-ATTTTTTTATAA-TTTA-TAAT
* * *
71589103 TTT-TATTTTTTTAAAATTTTTAATAAATTTATAAT
1 TTTATAATTTTTTAAATTTTTTTAT-AATTTATAAT
71589138 ATTTA-AATTTTTTA
1 -TTTATAATTTTTTA
71589152 TTAAAATTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
35 3 0.04
36 21 0.30
37 13 0.19
38 29 0.42
39 3 0.04
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.60
Consensus pattern (35 bp):
TTTATAATTTTTTAAATTTTTTTATAATTTATAAT
Found at i:71589089 original size:28 final size:29
Alignment explanation
Indices: 71589010--71589107 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 29
71589000 TTACATTTTG
* *
71589010 TATAATTTTCTTACGACTT-TATAAAATTT
1 TATAATTTT-TTAAGAATTCTATAAAATTT
* * *
71589039 TATAATTTTTTTATAATTCTAT-ATATTT
1 TATAATTTTTTAAGAATTCTATAAAATTT
* *
71589067 TATAATTTTTTAAGATTTTTATAAAATTT
1 TATAATTTTTTAAGAATTCTATAAAATTT
* *
71589096 TACAAATTTTTA
1 TATAATTTTTTA
71589108 TTTTTTTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 28 0.51
29 27 0.49
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (29 bp):
TATAATTTTTTAAGAATTCTATAAAATTT
Found at i:71589142 original size:27 final size:29
Alignment explanation
Indices: 71589112--71589171 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
71589102 TTTTTATTTT
71589112 TTTAAAATTTTTAAT-AAATTT-ATAATA
1 TTTAAAATTTTTAATAAAATTTAATAATA
* * *
71589139 TTTAAATTTTTTATTAAAATTTAATAGTA
1 TTTAAAATTTTTAATAAAATTTAATAATA
71589168 TTTA
1 TTTA
71589172 TAGCTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
28 6 0.21
29 9 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTAAAATTTTTAATAAAATTTAATAATA
Found at i:71589148 original size:37 final size:38
Alignment explanation
Indices: 71589072--71589160 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 38
71589062 TATTTTATAA
* **
71589072 TTTTTTAAGATTTTTATAAAATTTTACAAATTTTTA-T
1 TTTTTTAAAATTTTTATAAAATTTTACAAATTTAAATT
*
71589109 TTTTTTAAAATTTTTA-ATAAATTTATA-ATATTTAAATT
1 TTTTTTAAAATTTTTATA-AAATTT-TACAAATTTAAATT
71589147 TTTTATTAAAATTT
1 TTTT-TTAAAATTT
71589161 AATAGTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
36 1 0.02
37 27 0.61
38 7 0.16
39 9 0.20
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (38 bp):
TTTTTTAAAATTTTTATAAAATTTTACAAATTTAAATT
Found at i:71589343 original size:87 final size:87
Alignment explanation
Indices: 71589241--71589420 Score: 265
Period size: 87 Copynumber: 2.1 Consensus size: 87
71589231 TTCTTTTTTT
* * * *
71589241 AAGTTTGAGGGTCTTTTTGATGAATTTTGAAAGTTTAAGT-CCCAATTGAGTG-AAAAAAAGGTA
1 AAGTTTGAGGATCTTTTTGATGAATTTTGAAAGTTTAAGTACCCAAATGAGAGCAAAAAAA--AA
*
71589304 GGGGCTTAATTGCTTTTTTTGAAA
64 GGGGCTTAATTGCTTATTTTGAAA
* *
71589328 AGGTTTGAGGATCTTTTTGATGCATTTTGAAAGTTTAAGTACCCAAATGAGAGCAAAAAAAAAGG
1 AAGTTTGAGGATCTTTTTGATGAATTTTGAAAGTTTAAGTACCCAAATGAGAGCAAAAAAAAAGG
71589393 GGCTTAATTGCTTATTTTGAAA
66 GGCTTAATTGCTTATTTTGAAA
71589415 AAGTTT
1 AAGTTT
71589421 AAAGACTTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
87 66 0.80
88 10 0.12
89 7 0.08
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (87 bp):
AAGTTTGAGGATCTTTTTGATGAATTTTGAAAGTTTAAGTACCCAAATGAGAGCAAAAAAAAAGG
GGCTTAATTGCTTATTTTGAAA
Found at i:71589878 original size:25 final size:24
Alignment explanation
Indices: 71589849--71589896 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
71589839 AAATAAAAAA
71589849 ATTT-AAAATATAATAAATCAAATAC
1 ATTTAAAAATATAA-AAA-CAAATAC
71589874 ATTTAAAAATATAAAAACAAATA
1 ATTTAAAAATATAAAAACAAATA
71589897 TTAAAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.27
25 7 0.32
26 9 0.41
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAATATAAAAACAAATAC
Found at i:71590132 original size:15 final size:16
Alignment explanation
Indices: 71590112--71590141 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71590102 AAAGTTACTT
71590112 AAAA-TTAAAAATAAA
1 AAAATTTAAAAATAAA
71590127 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
71590142 TTTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTTAAAAATAAA
Found at i:71590486 original size:2 final size:2
Alignment explanation
Indices: 71590479--71590519 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
71590469 CAAATTGATA
71590479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71590520 AACATTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:71600427 original size:93 final size:93
Alignment explanation
Indices: 71600268--71600465 Score: 333
Period size: 93 Copynumber: 2.1 Consensus size: 93
71600258 ATGTGCACTA
* * **
71600268 TACTCTTTTTCCTTTAACCGAGGTTTTGTCCCATTGGGTTTTCTTGGTAAGGTTTTTAATGAGGC
1 TACTCTTTTTCCCTTAACCGAAGTTTTGTCCCATTAAGTTTTCTTGGTAAGGTTTTTAATGAGGC
71600333 AGCATATTATACGTATTATAGATATGTG
66 AGCATATTATACGTATTATAGATATGTG
71600361 TACTCTTTTTCCCTTAACCGAAGTTTTGTCCCATTAAGTTTTCTTGGTAAGGTTTTTAATGAGGC
1 TACTCTTTTTCCCTTAACCGAAGTTTTGTCCCATTAAGTTTTCTTGGTAAGGTTTTTAATGAGGC
**
71600426 AGCATATTATGTGTATTATAGATATGTG
66 AGCATATTATACGTATTATAGATATGTG
*
71600454 TACTTTTTTTCC
1 TACTCTTTTTCC
71600466 TTTACTAGGA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 98 1.00
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (93 bp):
TACTCTTTTTCCCTTAACCGAAGTTTTGTCCCATTAAGTTTTCTTGGTAAGGTTTTTAATGAGGC
AGCATATTATACGTATTATAGATATGTG
Found at i:71602741 original size:12 final size:11
Alignment explanation
Indices: 71602701--71602741 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
71602691 TTAATATTTA
71602701 AATTTCTTATTC
1 AATTTC-TATTC
71602713 AATTTCTATTC
1 AATTTCTATTC
*
71602724 AATTTCTACTTT
1 AATTTCTA-TTC
71602736 AATTTC
1 AATTTC
71602742 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:71603245 original size:5 final size:5
Alignment explanation
Indices: 71603235--71603261 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
71603225 ATTATTAAAC
71603235 TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
71603262 TTTATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:71603363 original size:17 final size:17
Alignment explanation
Indices: 71603338--71603379 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
71603328 CATACAATTG
71603338 TATTAATTTGA-TTTATT
1 TATTAATTT-ACTTTATT
*
71603355 TATTTATTTACTTTATT
1 TATTAATTTACTTTATT
71603372 TAATTAAT
1 T-ATTAAT
71603380 ATAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.71
18 5 0.24
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTAATTTACTTTATT
Found at i:71604567 original size:30 final size:29
Alignment explanation
Indices: 71604511--71604568 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
71604501 TATCTTATTT
* *
71604511 TATTAACAAGATAAAAAAGCATATACTTA
1 TATTAACAAGATAAAAAAACACATACTTA
71604540 TATTAACAAGATAAAAAAAACACATACTT
1 TATTAACAAGAT-AAAAAAACACATACTT
71604569 TTACCTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.26
Consensus pattern (29 bp):
TATTAACAAGATAAAAAAACACATACTTA
Found at i:71619514 original size:30 final size:30
Alignment explanation
Indices: 71619478--71619608 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
71619468 GACAAGATTG
* * * * *
71619478 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
71619508 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
71619536 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
71619566 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
71619595 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71619609 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:71619569 original size:58 final size:58
Alignment explanation
Indices: 71619478--71619608 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
71619468 GACAAGATTG
* * * * * *
71619478 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
71619536 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
71619595 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71619609 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:71627468 original size:30 final size:30
Alignment explanation
Indices: 71627432--71627562 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
71627422 GACAAGATTG
* * * * *
71627432 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
71627462 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
71627490 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
71627520 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
71627549 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71627563 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:71627523 original size:58 final size:58
Alignment explanation
Indices: 71627432--71627562 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
71627422 GACAAGATTG
* * * * * *
71627432 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
71627490 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
71627549 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71627563 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:71628969 original size:23 final size:23
Alignment explanation
Indices: 71628941--71628996 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
71628931 TAGGGGTGTT
*
71628941 ACAGTTTTAGTTTGAAACAAATA
1 ACAGTTTTAGCTTGAAACAAATA
* * *
71628964 ATAGTTTCAGCTTGAAACAAGTA
1 ACAGTTTTAGCTTGAAACAAATA
71628987 ACAGTTTTAG
1 ACAGTTTTAG
71628997 AGGACTTACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (23 bp):
ACAGTTTTAGCTTGAAACAAATA
Found at i:71630825 original size:22 final size:23
Alignment explanation
Indices: 71630800--71630845 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
71630790 CAACCAAATC
71630800 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
71630822 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
71630845 A
1 A
71630846 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:71630851 original size:23 final size:23
Alignment explanation
Indices: 71630807--71630851 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71630797 ATCAATTCAA
*
71630807 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
71630830 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
71630852 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:71637142 original size:9 final size:9
Alignment explanation
Indices: 71637128--71637156 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
71637118 GGTTTAGGAG
71637128 TGCCAACAC
1 TGCCAACAC
71637137 TGCCAACAC
1 TGCCAACAC
71637146 TGCCAACAC
1 TGCCAACAC
71637155 TG
1 TG
71637157 GTCACTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.41, G:0.14, T:0.14
Consensus pattern (9 bp):
TGCCAACAC
Found at i:71638437 original size:22 final size:23
Alignment explanation
Indices: 71638412--71638457 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
71638402 CAACCAAATC
71638412 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
71638434 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
71638457 A
1 A
71638458 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:71638463 original size:23 final size:23
Alignment explanation
Indices: 71638419--71638463 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71638409 ATCAATTCAA
*
71638419 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
71638442 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
71638464 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:71650972 original size:40 final size:40
Alignment explanation
Indices: 71650917--71651126 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
71650907 AACATTGGAA
71650917 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71650957 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71650997 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
71651037 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
71651076 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
71651117 CTATATCCGG
1 ATATATCCGG
71651127 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:71659096 original size:40 final size:40
Alignment explanation
Indices: 71659041--71659249 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
71659031 AACATTGGAA
71659041 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71659081 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71659121 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
71659161 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
71659200 ACCAAATCCGGGTTATGA-CCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
71659240 CTATATCCGG
1 ATATATCCGG
71659250 TTAAATCCCG
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 24 0.16
40 126 0.84
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:71666220 original size:40 final size:40
Alignment explanation
Indices: 71666161--71666329 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 40
71666151 CGGGACTTTA
* * *
71666161 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
71666201 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * * *
71666241 CCTGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
71666281 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
71666321 CCCGGATAT
1 CCCGGATAT
71666330 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 97 0.93
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:71676847 original size:154 final size:155
Alignment explanation
Indices: 71676557--71676850 Score: 493
Period size: 154 Copynumber: 1.9 Consensus size: 155
71676547 TAGTTTAACA
* *
71676557 TCCTCATTTAATCCTTCCTCGAAGCGTTTTCACAATTCTGCTTCATTCTGAACCCATTCTTGGGC
1 TCCTCATTTAATCCTTCCTCGAAGCGTTTGCACAATTCTGCTTCATTCTGAACCCACTCTTGGGC
* *
71676622 ATGTTGGCTCAGTCGGACAAACTCCAGTTCATATTCTGACACAATCCATTCCCCTTGCTTAAGCT
66 ATGCTGGCTCAGTCGGACAAACTCCAGTTCATATTCTGACACAACCCATTCCCCTTGCTTAAGCT
71676687 CTAGAAATTCTGACATGGTATAAAC
131 CTAGAAATTCTGACATGGTATAAAC
* *
71676712 TCCTCATTTAATCCTTCCTCGAAGTGTTTGCACAATTTTGCTTCATTCTGAACCCACTCTTGGGC
1 TCCTCATTTAATCCTTCCTCGAAGCGTTTGCACAATTCTGCTTCATTCTGAACCCACTCTTGGGC
* *
71676777 AT-CTGGCTCAGTCGGACAAACTCTC-GTTCGTATTCTGACACAGCCCATTCCCCTTGCTTAAGC
66 ATGCTGGCTCAGTCGGACAAACTC-CAGTTCATATTCTGACACAACCCATTCCCCTTGCTTAAGC
71676840 TCTAGAAATTC
130 TCTAGAAATTC
71676851 CTTCCTCTTC
Statistics
Matches: 130, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
154 66 0.51
155 64 0.49
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (155 bp):
TCCTCATTTAATCCTTCCTCGAAGCGTTTGCACAATTCTGCTTCATTCTGAACCCACTCTTGGGC
ATGCTGGCTCAGTCGGACAAACTCCAGTTCATATTCTGACACAACCCATTCCCCTTGCTTAAGCT
CTAGAAATTCTGACATGGTATAAAC
Found at i:71680437 original size:21 final size:21
Alignment explanation
Indices: 71680412--71680455 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
71680402 GACCTCATAA
71680412 TAATCATAAAATAATTATTTC
1 TAATCATAAAATAATTATTTC
71680433 TAATCATAAAATAATTATTTC
1 TAATCATAAAATAATTATTTC
71680454 TA
1 TA
71680456 CTTCGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATCATAAAATAATTATTTC
Found at i:71689091 original size:53 final size:53
Alignment explanation
Indices: 71689010--71689160 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
71689000 CTTACACGGT
* *
71689010 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
71689065 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
71689118 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
71689161 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:71696422 original size:53 final size:53
Alignment explanation
Indices: 71696341--71696491 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
71696331 CTTACACGGT
* *
71696341 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
71696396 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
71696449 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
71696492 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:71698491 original size:17 final size:17
Alignment explanation
Indices: 71698469--71698507 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
71698459 GATCTAGGCT
71698469 GTGTGGGCCACACGAGC
1 GTGTGGGCCACACGAGC
* * *
71698486 GTGTGGGTCATACGGGC
1 GTGTGGGCCACACGAGC
71698503 GTGTG
1 GTGTG
71698508 AAATTTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.21, G:0.46, T:0.21
Consensus pattern (17 bp):
GTGTGGGCCACACGAGC
Found at i:71709154 original size:13 final size:14
Alignment explanation
Indices: 71709116--71709145 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71709106 ACCCTTTTCC
71709116 AAAA-AAGAAAAGA
1 AAAAGAAGAAAAGA
71709129 AAAAGAAGAAAAGA
1 AAAAGAAGAAAAGA
71709143 AAA
1 AAA
71709146 TGGAGAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAAAGA
Found at i:71709564 original size:12 final size:12
Alignment explanation
Indices: 71709547--71709576 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
71709537 CCCCACACAC
71709547 CTGTGTGTTAGG
1 CTGTGTGTTAGG
71709559 CTGTGTGTTAGG
1 CTGTGTGTTAGG
*
71709571 CAGTGT
1 CTGTGT
71709577 AACTCACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.10, G:0.40, T:0.40
Consensus pattern (12 bp):
CTGTGTGTTAGG
Found at i:71714738 original size:21 final size:21
Alignment explanation
Indices: 71714714--71714756 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
71714704 AATGAAGTGG
71714714 AGCTCATTTA-GATCTATAAGT
1 AGCTCATTTATG-TCTATAAGT
71714735 AGCTCATTTATGTCTATAAGT
1 AGCTCATTTATGTCTATAAGT
71714756 A
1 A
71714757 CTTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (21 bp):
AGCTCATTTATGTCTATAAGT
Found at i:71717789 original size:2 final size:2
Alignment explanation
Indices: 71717782--71717811 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71717772 CATATTTATC
71717782 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71717812 CGTTACTGAA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71718745 original size:17 final size:17
Alignment explanation
Indices: 71718723--71718767 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
71718713 TAAAATTTTG
* *
71718723 GGCCCACATGTACATGT
1 GGCCCACACGCACATGT
*
71718740 GGCCCACACGCCCATGT
1 GGCCCACACGCACATGT
71718757 GGCCCACACGC
1 GGCCCACACGC
71718768 CTAGATTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.20, C:0.42, G:0.24, T:0.13
Consensus pattern (17 bp):
GGCCCACACGCACATGT
Found at i:71718768 original size:17 final size:17
Alignment explanation
Indices: 71718735--71718768 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
71718725 CCCACATGTA
71718735 CATGTGGCCCACACGCC
1 CATGTGGCCCACACGCC
71718752 CATGTGGCCCACACGCC
1 CATGTGGCCCACACGCC
71718769 TAGATTGGCA
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:0.47, G:0.24, T:0.12
Consensus pattern (17 bp):
CATGTGGCCCACACGCC
Found at i:71723520 original size:5 final size:5
Alignment explanation
Indices: 71723510--71723541 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
71723500 TTATGTTTTA
71723510 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
71723542 AAACTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:71725260 original size:21 final size:21
Alignment explanation
Indices: 71725234--71725281 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
71725224 GTCGTATTTT
71725234 AGGCACCTCGTATGTCGTATC
1 AGGCACCTCGTATGTCGTATC
* * *
71725255 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCGTATGTCGTATC
71725276 AGGCAC
1 AGGCAC
71725282 TTTATGTGTT
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:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (21 bp):
AGGCACCTCGTATGTCGTATC
Found at i:71725289 original size:21 final size:21
Alignment explanation
Indices: 71725211--71725290 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
71725201 TTTACCGATC
* *
71725211 AGGCACTTTATGTGTCGTATTTT
1 AGGCACCTCATGTGTCG--TTTT
* * * *
71725234 AGGCACCTCGTATGTCGTATC
1 AGGCACCTCATGTGTCGTTTT
*
71725255 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCATGTGTCGTTTT
* *
71725276 AGGCACTTTATGTGT
1 AGGCACCTCATGTGT
71725291 TGTACTCTGA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
21 32 0.71
23 13 0.29
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTTTT
Found at i:71730342 original size:22 final size:23
Alignment explanation
Indices: 71730314--71730356 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
71730304 CAAATATATG
71730314 AACAGAT-ATCACAATTCATGCA
1 AACAGATGATCACAATTCATGCA
* *
71730336 AACAGATGATCAGATTTCATG
1 AACAGATGATCACAATTCATG
71730357 TTTTATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (23 bp):
AACAGATGATCACAATTCATGCA
Found at i:71730696 original size:4 final size:4
Alignment explanation
Indices: 71730687--71730711 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
71730677 CTAAATTCAG
71730687 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
71730712 CTTAATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:71733213 original size:14 final size:14
Alignment explanation
Indices: 71733194--71733220 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71733184 TATTAGTAAT
71733194 TTTTTAAATATTTC
1 TTTTTAAATATTTC
71733208 TTTTTAAATATTT
1 TTTTTAAATATTT
71733221 TACCATACTC
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:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATATTTC
Found at i:71740814 original size:16 final size:17
Alignment explanation
Indices: 71740793--71740825 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
71740783 AAATTCTATC
71740793 AAAATTCTT-AATTTAA
1 AAAATTCTTGAATTTAA
*
71740809 AAAATTTTTGAATTTAA
1 AAAATTCTTGAATTTAA
71740826 TTTTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
AAAATTCTTGAATTTAA
Found at i:71740986 original size:48 final size:48
Alignment explanation
Indices: 71740934--71741071 Score: 179
Period size: 50 Copynumber: 2.8 Consensus size: 48
71740924 AGTGATAATT
*
71740934 TTAAATTTTCAATACTATTTGATATTTTTTTAATTTATGCAAATT-TAA
1 TTAAATTTTCAATACTATTTGATATTTTTTTCATTTATGC-AATTATAA
* *
71740982 TTAAATTTGCACAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT--TCAATACTATTTGATATTTTTTTCATTTATGCAATTATAA
* * *
71741032 TTAAAATTTCAATACTACTTGATTTTTTTTTTCATTTATG
1 TTAAATTTTCAATACTATTTGA-TATTTTTTTCATTTATG
71741072 ATGTTTGCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
48 20 0.26
49 19 0.24
50 39 0.50
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (48 bp):
TTAAATTTTCAATACTATTTGATATTTTTTTCATTTATGCAATTATAA
Found at i:71742048 original size:7 final size:7
Alignment explanation
Indices: 71742036--71742068 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
71742026 TAGTTGTTTC
71742036 GTATTTA
1 GTATTTA
71742043 GTATTTA
1 GTATTTA
71742050 GTATTTA
1 GTATTTA
71742057 GTATTTA
1 GTATTTA
71742064 GTATT
1 GTATT
71742069 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:71742678 original size:18 final size:18
Alignment explanation
Indices: 71742655--71742692 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
71742645 TGTTAGGTGC
*
71742655 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
71742673 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
71742691 GT
1 GT
71742693 TTCATTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:71746343 original size:126 final size:126
Alignment explanation
Indices: 71746116--71746625 Score: 815
Period size: 126 Copynumber: 4.0 Consensus size: 126
71746106 TTATAGCCTC
* * * *
71746116 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAACTTTTTTCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAAATTTGCTG
**
71746181 ACAGTACATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTACATCCTGCTTGAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
71746242 ATTTTTCTACAAACTACTGTAGTAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAAATTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAAATTTGCTG
* *
71746307 ACAGTGCATCCTGCTTGAAGCGTTTTCAACAGTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTACATCCTGCTTGAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
71746368 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAAATTTGCTG
* * *
71746433 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTATTCAGAATT
66 ACAGTACATCCTGCTTGAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
71746494 ATTTTTCTACTAACTACTGTAGCAAAATAACGTCCACGTGGGAGCTTTTTTCA-AAAATTTTGCT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAAA-TTTGCT
* * * *
71746558 GACAGTACATCCTGCTTGAAGTGTTTTTAACCCTATTTGTTCAGAAACGTCTACTCAAAATT
65 GACAGTACATCCTGCTTGAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAGAATT
71746620 ATTTTT
1 ATTTTT
71746626 GCAGAAACCC
Statistics
Matches: 356, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 3 0.01
126 353 0.99
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAAATTTGCTG
ACAGTACATCCTGCTTGAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:71747186 original size:19 final size:19
Alignment explanation
Indices: 71747164--71747232 Score: 99
Period size: 19 Copynumber: 3.8 Consensus size: 19
71747154 CGATTATGTG
*
71747164 TCAATTAACCCTAAATTAA
1 TCAATTAACCCTAATTTAA
71747183 TCAATTAACCCTAATTTAA
1 TCAATTAACCCTAATTTAA
*
71747202 TCAA-T--CACTAATTTAA
1 TCAATTAACCCTAATTTAA
71747218 TCAATTAACCCTAAT
1 TCAATTAACCCTAAT
71747233 ACCTTAAACT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.32
17 1 0.02
18 1 0.02
19 28 0.64
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (19 bp):
TCAATTAACCCTAATTTAA
Found at i:71748986 original size:15 final size:14
Alignment explanation
Indices: 71748949--71749000 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
71748939 GTCTAGCGAG
*
71748949 AATT-AAAATTTAA
1 AATTAAAAATATAA
71748962 AATTTAAAAAATATAA
1 AA-TT-AAAAATATAA
*
71748978 TAATTAAAAATATCA
1 -AATTAAAAATATAA
71748993 AATTAAAA
1 AATTAAAA
71749001 TACATAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 2 0.06
14 10 0.30
15 9 0.27
16 10 0.30
17 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTAAAAATATAA
Found at i:71749002 original size:13 final size:15
Alignment explanation
Indices: 71748968--71749000 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
71748958 TTAAAATTTA
71748968 AAAAATATAATAATT
1 AAAAATATAATAATT
*
71748983 AAAAATATCA-AATT
1 AAAAATATAATAATT
71748997 AAAA
1 AAAA
71749001 TACATAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATATAATAATT
Found at i:71752884 original size:30 final size:30
Alignment explanation
Indices: 71752848--71752905 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
71752838 AGGTACAATC
71752848 TGATGATAATGG-AAAATAATGTTATGAATG
1 TGATGATAATGGAAAAAT-ATGTTATGAATG
71752878 TGATGATAATGGAAAAATATGTTATGAA
1 TGATGATAATGGAAAAATATGTTATGAA
71752906 ACATGTGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.33
Consensus pattern (30 bp):
TGATGATAATGGAAAAATATGTTATGAATG
Found at i:71758465 original size:29 final size:29
Alignment explanation
Indices: 71758432--71758505 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71758422 GTGACGAGAT
71758432 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71758461 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71758490 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71758506 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71758521 original size:29 final size:29
Alignment explanation
Indices: 71758489--71758564 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
71758479 CTGGAAATAT
* *
71758489 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
71758518 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
71758547 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
71758565 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:71758532 original size:58 final size:58
Alignment explanation
Indices: 71758432--71758564 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
71758422 GTGACGAGAT
* * * * * *
71758432 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
71758490 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
71758548 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
71758565 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:71766305 original size:29 final size:29
Alignment explanation
Indices: 71766272--71766345 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71766262 GTGACGAGAT
71766272 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71766301 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71766330 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71766346 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71766361 original size:29 final size:29
Alignment explanation
Indices: 71766329--71766404 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
71766319 CTGGAAATAT
* *
71766329 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
71766358 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
71766387 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
71766405 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:71766372 original size:58 final size:58
Alignment explanation
Indices: 71766272--71766404 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
71766262 GTGACGAGAT
* * * * * *
71766272 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
71766330 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
71766388 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
71766405 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:71769290 original size:93 final size:93
Alignment explanation
Indices: 71769183--71769353 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
71769173 GCCCCTAAGT
* *
71769183 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71769248 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
71769276 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71769341 CGAGTTCGGATGC
66 CGAGTTCGGATGC
71769354 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:71769350 original size:46 final size:46
Alignment explanation
Indices: 71769178--71769350 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
71769168 AACCCGCCCC
* * *
71769178 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
71769224 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
71769272 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
71769317 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71769351 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:71769804 original size:30 final size:30
Alignment explanation
Indices: 71769770--71769829 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71769760 ATTTAATACG
71769770 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
71769800 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
71769830 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71776853 original size:47 final size:46
Alignment explanation
Indices: 71776704--71776877 Score: 212
Period size: 47 Copynumber: 3.7 Consensus size: 46
71776694 TGTAACCCCC
* * *
71776704 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
71776750 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
71776798 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
71776843 TAAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAA-GTGAACTCGGACTCAACTCAACGAGTTCGGA
71776878 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 32 0.29
47 58 0.53
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:71778972 original size:29 final size:29
Alignment explanation
Indices: 71778939--71779012 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71778929 GTGACGAGAT
71778939 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71778968 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71778997 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71779013 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71779028 original size:29 final size:29
Alignment explanation
Indices: 71778996--71779071 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
71778986 CTGGAAATAT
* *
71778996 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
71779025 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
71779054 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
71779072 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Done.