Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 8 of 203
Found at i:2520990 original size:21 final size:20
Alignment explanation
Indices: 2520966--2521005 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2520956 AATTTGACAG
*
2520966 CTTGTCTACATTATCTGGTGA
1 CTTGTCCACATTAT-TGGTGA
2520987 CTTGTCCACATTATTGGTG
1 CTTGTCCACATTATTGGTG
2521006 TGTTATTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
CTTGTCCACATTATTGGTGA
Found at i:2522070 original size:15 final size:15
Alignment explanation
Indices: 2522050--2522093 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
2522040 TGTTATATAC
* *
2522050 TGAAACTTTAGAATG
1 TGAAACTATAGAATA
*
2522065 TGAAACTATAGACTA
1 TGAAACTATAGAATA
2522080 TGAAACTATA-AATA
1 TGAAACTATAGAATA
2522094 GTGGGAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (15 bp):
TGAAACTATAGAATA
Found at i:2528796 original size:10 final size:10
Alignment explanation
Indices: 2528781--2528828 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
2528771 TAGCATATAG
2528781 AATTTTAATT
1 AATTTTAATT
*
2528791 AATTTTATAATA
1 AA-TTT-TAATT
2528803 AATTTTAATT
1 AATTTTAATT
*
2528813 TATTTTAATT
1 AATTTTAATT
*
2528823 TATTTT
1 AATTTT
2528829 CGACAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 21 0.64
11 6 0.18
12 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:2541740 original size:50 final size:50
Alignment explanation
Indices: 2541682--2541805 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
2541672 TATTGAGGTT
* * ** *
2541682 ATGAGAGGTCCCACGTAAAACCATGTATTGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTATGGGACATGGCATGGGCACCGAG
* *
2541732 ATGAGAGGTCCC-CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCAC-GTAAGACCATGTATGGGACATGGCATGGGCACCGAG
** *
2541782 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCACGTAAGACCAT
2541806 ATCTGGGATA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.02
50 61 0.98
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTATGGGACATGGCATGGGCACCGAG
Found at i:2541811 original size:50 final size:50
Alignment explanation
Indices: 2541723--2541868 Score: 163
Period size: 50 Copynumber: 2.9 Consensus size: 50
2541713 ACATGGTGTT
* ** * *
2541723 GGCACCGAGATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATG
1 GGCACCGATATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATG
* * *
2541773 GGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATT
1 GGCACCGATATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATG
**
2541823 GGCA--G-TACAAGAAACATCCCATGTAAGACCATGTCTGGGACATGAC
1 GGCACCGATATGAG-AAC-TCCCATGTAAGACCATGTCTGGGACATGAC
2541869 TTTGGCATGT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
47 4 0.05
48 4 0.05
49 28 0.34
50 46 0.56
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (50 bp):
GGCACCGATATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATG
Found at i:2541860 original size:49 final size:49
Alignment explanation
Indices: 2541740--2541875 Score: 159
Period size: 49 Copynumber: 2.8 Consensus size: 49
2541730 AGATGAGAGG
* * * * *
2541740 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-CGACAAGAGAAC
* *
2541790 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACG-ACAAGAGAAC
*
2541838 ATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
2541876 TGTTATTATC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 4 0.05
49 38 0.51
50 32 0.43
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACGACAAGAGAAC
Found at i:2542329 original size:35 final size:35
Alignment explanation
Indices: 2542283--2542354 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
2542273 ATTTAAGAAC
2542283 ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
1 ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
2542318 ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
1 ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
2542353 AT
1 AT
2542355 ACAAAGAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (35 bp):
ATGTTTTGGTGTTATGTATGCCTAAATGATAGTTA
Found at i:2547602 original size:14 final size:14
Alignment explanation
Indices: 2547585--2547612 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2547575 CCAATTTATT
2547585 AATGAATTATTAAA
1 AATGAATTATTAAA
2547599 AATGAATTATTAAA
1 AATGAATTATTAAA
2547613 TATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:2553104 original size:84 final size:84
Alignment explanation
Indices: 2552949--2553106 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
2552939 ATATGTGTTA
* * *
2552949 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTAGGA
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTAGGA
2553014 CATTGGCATCGTATTTGAT
66 CATTGGCATCGTATTTGAT
* *
2553033 TCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGA-TATGTGATTACATGTAAGACCACGTCTG
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTA
*
2553095 GGACGTTGGCAT
63 GGACATTGGCAT
2553107 TGTACGAGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.95
85 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTAGGA
CATTGGCATCGTATTTGAT
Found at i:2553108 original size:43 final size:43
Alignment explanation
Indices: 2552937--2553106 Score: 199
Period size: 43 Copynumber: 4.0 Consensus size: 43
2552927 ATAGGATTTC
2552937 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
2552980 CGACT-TGTGTTTACGTGTAAGACCATGTCTAGGACATTGGCAT
1 CGA-TATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
*
2553023 CG-TATTTGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
2553064 TGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
2553107 TGTACGAGTC
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
41 27 0.25
42 14 0.13
43 61 0.57
44 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:2553296 original size:16 final size:17
Alignment explanation
Indices: 2553267--2553298 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2553257 TGAATTGATG
2553267 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
2553284 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
2553299 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:2556656 original size:40 final size:40
Alignment explanation
Indices: 2556612--2556875 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
2556602 GCTCCTCGTT
* *
2556612 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
2556652 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
2556692 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
2556732 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
2556772 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
2556811 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
2556852 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2556876 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:2565655 original size:40 final size:40
Alignment explanation
Indices: 2565611--2565872 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
2565601 GCTCCTCGTT
* *
2565611 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
2565651 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
2565691 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
2565730 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
2565769 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
2565808 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
2565849 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2565873 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:2567852 original size:128 final size:129
Alignment explanation
Indices: 2567657--2567910 Score: 307
Period size: 128 Copynumber: 2.0 Consensus size: 129
2567647 AGATGAATTT
* * * *
2567657 GATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCGCTACA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * * *
2567722 ACTTTAGGGAGATAGGATT-T-GTTTATTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 ACTTCAGGGAGATAGGATTATCG--GATTTAATCTACTCCACTGCAACTTCAGGGAGATAAGACT
2567785 A
129 A
* * ** * * * *
2567786 GATGCGTTCTGCTCT-CTGCAACTTCAGAGAGATATGATCCAAGGTTTTAATCCGCTTCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* *
2567850 ACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACTGCAATTTCAGGGAGATAAGA
66 ACTTCAGGGAGATAGGATTATCGGATTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA
2567911 TTTGTCATCT
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
128 89 0.85
129 15 0.14
130 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
ACTTCAGGGAGATAGGATTATCGGATTTAATCTACTCCACTGCAACTTCAGGGAGATAAGACTA
Found at i:2568269 original size:44 final size:43
Alignment explanation
Indices: 2568215--2568590 Score: 338
Period size: 44 Copynumber: 8.7 Consensus size: 43
2568205 GCTATTTTCT
* ** * *
2568215 ACCTACTCCACTGTTGCTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTACTGC-CAGGGAGATAGGATTCACAATCTTCA
* *
2568259 ACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCA
1 ACCTATTCCACTACTG-CCAGGGAGATAGGATTC-ACAATCTTCA
* * * *
2568303 ATCTATTCCAATACTGCCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTACTG-CCAGGGAGATAGGATTCACAATCTTCA
*
2568347 ACCTATTCCACTACTGACCAGGGAGATAGGAGTT-ACAATCTTTA
1 ACCTATTCCACTACTG-CCAGGGAGATAGGA-TTCACAATCTTCA
* *
2568391 ACCCATTCCACTACAGTCCAGGGAGATAGGATT--C--T-TT-A
1 ACCTATTCCACTACTG-CCAGGGAGATAGGATTCACAATCTTCA
* * *
2568429 ATCTATTCCACT-CTTGCCCAAGGAGATAGGATTCTCAATCTTCA
1 ACCTATTCCACTAC-TG-CCAGGGAGATAGGATTCACAATCTTCA
* * *
2568473 ACCTATTCCACTACCGACCAGAGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTACTG-CCAGGGAGATAGGATTCACAATCTTCA
* * * *
2568517 ACCTATTCCACTGCTGTCCAGGGGGATAGGATTCATAATCTTTA
1 ACCTATTCCACTACTG-CCAGGGAGATAGGATTCACAATCTTCA
* * *
2568561 ACCTATACCACTGCTGACCAAGGAGATAGG
1 ACCTATTCCACTACTG-CCAGGGAGATAGG
2568591 GCTGGGGTCA
Statistics
Matches: 277, Mismatches: 43, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.00
38 27 0.10
39 2 0.01
40 2 0.01
42 2 0.01
43 5 0.02
44 233 0.84
45 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ACCTATTCCACTACTGCCAGGGAGATAGGATTCACAATCTTCA
Found at i:2568437 original size:38 final size:38
Alignment explanation
Indices: 2568385--2568463 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
2568375 GGAGTTACAA
* *
2568385 TCTTTAACCCATTCCACTAC-AGTCCAGGGAGATAGGAT
1 TCTTTAACCCATTCCACT-CTAGCCCAAGGAGATAGGAT
* * *
2568423 TCTTTAATCTATTCCACTCTTGCCCAAGGAGATAGGAT
1 TCTTTAACCCATTCCACTCTAGCCCAAGGAGATAGGAT
2568461 TCT
1 TCT
2568464 CAATCTTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.03
38 34 0.97
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (38 bp):
TCTTTAACCCATTCCACTCTAGCCCAAGGAGATAGGAT
Found at i:2568457 original size:170 final size:170
Alignment explanation
Indices: 2568261--2568590 Score: 423
Period size: 170 Copynumber: 1.9 Consensus size: 170
2568251 GATCTTCAAC
* * * * *
2568261 CTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCAATACTGCCCAGG
1 CTATTCCACTGCTGACCAAGGAGATAGGATCCT-CAATCTTCAACCTATTCCAATACCGACCAGA
*
2568325 GAGATAGAATTCTCAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGAGTT-ACAATCTT
65 GAGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGA-TTCACAATCTT
* * *
2568389 TAACCCATTCCACTACAGTCCAGGGAGATAGGATTCTTTAAT
129 TAACCCATACCACTACAGACCAAGGAGATAGGATTCTTTAAT
* * *
2568431 CTATTCCACT-CTTGCCCAAGGAGATAGGATTCTCAATCTTCAACCTATTCCACTACCGACCAGA
1 CTATTCCACTGC-TGACCAAGGAGATAGGATCCTCAATCTTCAACCTATTCCAATACCGACCAGA
* * * * * *
2568495 GAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGGGATAGGATTCATAATCTTT
65 GAGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTT
* * *
2568560 AACCTATACCACTGCTGACCAAGGAGATAGG
130 AACCCATACCACTACAGACCAAGGAGATAGG
2568591 GCTGGGGTCA
Statistics
Matches: 136, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
169 3 0.02
170 131 0.96
171 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (170 bp):
CTATTCCACTGCTGACCAAGGAGATAGGATCCTCAATCTTCAACCTATTCCAATACCGACCAGAG
AGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTTA
ACCCATACCACTACAGACCAAGGAGATAGGATTCTTTAAT
Found at i:2568483 original size:126 final size:127
Alignment explanation
Indices: 2568233--2568550 Score: 428
Period size: 126 Copynumber: 2.5 Consensus size: 127
2568223 CACTGTTGCT
* * *
2568233 CAGGGAGATAGG-GTTCACGATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAA
1 CAGGGAGATAGGAGTTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGA--T----
* *
2568297 TCTTCAATCTATTCCAATACTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACT
60 TCTTCAATCTATTCCAATACTGCCCAAGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACC
2568362 GAC
125 GAC
* * * *
2568365 CAGGGAGATAGGAGTT-ACAATCTTTAACCCATTCCACTACAGTCCAGGGAGATAGGATTCTTTA
1 CAGGGAGATAGGAGTTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTTCA
* *
2568429 ATCTATTCCACT-CTTGCCCAAGGAGATAGGATTCTCAATCTTCAACCTATTCCACTACCGAC
66 ATCTATTCCAATAC-TGCCCAAGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACCGAC
* *
2568491 CAGAGAGATAGGA-TTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGGGATAGGATTC
1 CAGGGAGATAGGAGTTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTC
2568551 ATAATCTTTA
Statistics
Matches: 167, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
125 3 0.02
126 113 0.68
130 1 0.01
132 47 0.28
133 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (127 bp):
CAGGGAGATAGGAGTTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTTCA
ATCTATTCCAATACTGCCCAAGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACCGAC
Found at i:2568649 original size:88 final size:88
Alignment explanation
Indices: 2568557--2569166 Score: 375
Period size: 88 Copynumber: 6.9 Consensus size: 88
2568547 ATTCATAATC
* * * *
2568557 TTTAACCT-ATACCACTGCTGA-CCAAGG-AGATAGGGCTGGGGTCATCAATCTGCTTCGCTGTC
1 TTTAACCTGAT-CCACTGC-AACCCAAGGAAGA-AAGGCTGGGGTCATCAATCTGCTTCACTATC
2568619 GGTGCAAGAAGGCAAGATCTGCTATT
63 GGTGCAAGAAGGCAAGATCTGCTATT
* ** * * *
2568645 TTTAACCTGGTCCGTTGCAACCCAAGGAAGAAAGGCTGGTGTCTTCGATCTGCTTCACTATCGGT
1 TTTAACCTGATCCACTGCAACCCAAGGAAGAAAGGCTGGGGTCATCAATCTGCTTCACTATCGGT
* *
2568710 GTAGGAAGGCAAGATCTGCTATT
66 GCAAGAAGGCAAGATCTGCTATT
* * * * * * * * * * ** * *
2568733 TTTAGCCTGCTCTACTGCAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTGCTTCTTTGTCAGT
1 TTTAACCTGATCCACTGCAACCCAAGGAAGAAAGGCTGGGGTCATCAATCTGCTTCACTATCGGT
* *
2568798 GGAGGAAGGCAAGATCTGCTATT
66 GCAAGAAGGCAAGATCTGCTATT
* * * * * * * * * * * * *
2568821 TTTAGCCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGACTTCGATCTGCTTAATTGTCTGT
1 TTTAACCTGATCCACTGCAACCCAAGGAAGAAAGGCTGGGGTCATCAATCTGCTTCACTATCGGT
* *
2568886 GCAGGAAGGCAAGATCTGCTATG
66 GCAAGAAGGCAAGATCTGCTATT
* * * * * * * ** ** *
2568909 TTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC-TTGATCTGCTTCGTTGTCGGT
1 TTTAACCTGATCCACTGCAACCCAAGGAAGAAAGGCTGGGGTCATCAATCTGCTTCACTATCGGT
* *
2568973 GCAGGAAGGCAAGATCTACTATT
66 GCAAGAAGGCAAGATCTGCTATT
* * ** * * * * * * * ** *
2568996 TTTAGCCT-ACTCCCCTGCAACCCTGGGAGGCAAGGCTGGTGACTTCGATCTACTTCGTTGTCGG
1 TTTAACCTGA-TCCACTGCAACCCAAGGAAGAAAGGCTGGGGTCATCAATCTGCTTCACTATCGG
* * *
2569060 TGTAGGAAGGCAAGATCTACTATT
65 TGCAAGAAGGCAAGATCTGCTATT
* * * * * * * * * * *
2569084 TTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTGGT
1 TTTAACCTGATCCACTGCAACCCAAGGAAGAAAGGCTGGGGTCATCAATCTGCTTCACTATCGGT
*
2569149 GCAGGAAGGCAAGATCTG
66 GCAAGAAGGCAAGATCTG
2569167 TTATCTTCAT
Statistics
Matches: 457, Mismatches: 59, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
87 77 0.17
88 376 0.82
89 4 0.01
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (88 bp):
TTTAACCTGATCCACTGCAACCCAAGGAAGAAAGGCTGGGGTCATCAATCTGCTTCACTATCGGT
GCAAGAAGGCAAGATCTGCTATT
Found at i:2568898 original size:176 final size:176
Alignment explanation
Indices: 2568590--2569166 Score: 832
Period size: 176 Copynumber: 3.3 Consensus size: 176
2568580 AAGGAGATAG
* * * ** * * *
2568590 GGCTGGGGTCATCAATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGG
1 GGCTGGTGTCTTCGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* * * * * *
2568655 TCCGTTGCAACCCAAGGAAGAAAGGCTGGTGTCTTCGATCTGCTTCACTATCGGTGTAGGAAGGC
66 TCCGCTGCAACCCAAGGAGGCAAGGCTGGTGACTTCGATCTGCTTCATTGTCGGTGTAGGAAGGC
**
2568720 AAGATCTGCTATTTTTAGCCTGCTCTACTGCAACCCAGGGAGGCAA
131 AAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAA
* * * *
2568766 GGCTGGTGACTTCGATCTGCTTCTTTGTCAGTGGAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* * *
2568831 TCCGCTGCAACCCAAGGAGGCAAGGCTGGTGACTTCGATCTGCTTAATTGTCTGTGCAGGAAGGC
66 TCCGCTGCAACCCAAGGAGGCAAGGCTGGTGACTTCGATCTGCTTCATTGTCGGTGTAGGAAGGC
*
2568896 AAGATCTGCTATGTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAA
131 AAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAA
* * *
2568942 GGCTGGTGTCTT-GATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAGCCTAC
1 GGCTGGTGTCTTCGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* ** * *
2569006 TCCCCTGCAACCCTGGGAGGCAAGGCTGGTGACTTCGATCTACTTCGTTGTCGGTGTAGGAAGGC
66 TCCGCTGCAACCCAAGGAGGCAAGGCTGGTGACTTCGATCTGCTTCATTGTCGGTGTAGGAAGGC
*
2569071 AAGATCTACTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAA
131 AAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAA
* *
2569117 GGCTGGTGTCTTCGATCTGCTTCACTGTTGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTG
2569167 TTATCTTCAT
Statistics
Matches: 357, Mismatches: 43, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
175 160 0.45
176 197 0.55
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (176 bp):
GGCTGGTGTCTTCGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCGCTGCAACCCAAGGAGGCAAGGCTGGTGACTTCGATCTGCTTCATTGTCGGTGTAGGAAGGC
AAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAA
Found at i:2569046 original size:263 final size:264
Alignment explanation
Indices: 2568604--2569166 Score: 842
Period size: 263 Copynumber: 2.1 Consensus size: 264
2568594 GGGGTCATCA
** * * * * *
2568604 ATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGGTCCGTTGCAACCCA
1 ATCTGCTTAACTGTCTGTGCAGGAAGGCAAGATCTGCTATGTTTAACCTGCTCCGCTGCAACCCA
* *
2568669 AGGAAGAAAGGCTGGTGTCTTCGATCTGCTTCACTATCGGTGTAGGAAGGCAAGATCTGCTATTT
66 AGGAAGAAAGGCTGGTGTCTTCGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTACTATTT
* * * *
2568734 TTAGCCTGCTCTACTGCAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTGCTTCTTTGTCAGTG
131 TTAGCCTACTCCACTGCAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTACTTCGTTGTCAGTG
*
2568799 GAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGAC
196 GAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGAC
2568864 TTCG
261 TTCG
* *
2568868 ATCTGCTTAATTGTCTGTGCAGGAAGGCAAGATCTGCTATGTTTAGCCTGCTCCGCTGCAACCCA
1 ATCTGCTTAACTGTCTGTGCAGGAAGGCAAGATCTGCTATGTTTAACCTGCTCCGCTGCAACCCA
* * * ** *
2568933 GGGAGGCAAGGCTGGTGTCTT-GATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTACTATTT
66 AGGAAGAAAGGCTGGTGTCTTCGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTACTATTT
* * *
2568997 TTAGCCTACTCCCCTGCAACCCTGGGAGGCAAGGCTGGTGACTTCGATCTACTTCGTTGTCGGTG
131 TTAGCCTACTCCACTGCAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTACTTCGTTGTCAGTG
* * *
2569062 TAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTC
196 GAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGAC
2569127 TTCG
261 TTCG
*
2569131 ATCTGCTTCACTGT-TGGTGCAGGAAGGCAAGATCTG
1 ATCTGCTTAACTGTCT-GTGCAGGAAGGCAAGATCTG
2569167 TTATCTTCAT
Statistics
Matches: 268, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
262 1 0.00
263 193 0.72
264 74 0.28
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (264 bp):
ATCTGCTTAACTGTCTGTGCAGGAAGGCAAGATCTGCTATGTTTAACCTGCTCCGCTGCAACCCA
AGGAAGAAAGGCTGGTGTCTTCGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTACTATTT
TTAGCCTACTCCACTGCAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTACTTCGTTGTCAGTG
GAGGAAGGCAAGATCTACTATTTTTAGCCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGAC
TTCG
Found at i:2570371 original size:16 final size:16
Alignment explanation
Indices: 2570350--2570391 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2570340 TCTCATTTTC
2570350 TTTTCTTTTTTTGGC-T
1 TTTTCTTTTTTT-GCTT
*
2570366 TTTTCTTTCTTTTTCTT
1 TTTTCTTT-TTTTGCTT
2570383 TTTTCTTTT
1 TTTTCTTTT
2570392 CGTTTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTTTTGCTT
Found at i:2574754 original size:23 final size:24
Alignment explanation
Indices: 2574696--2574754 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
2574686 GCAAAGTATC
* *
2574696 AAATAAAGAAAAATATGAAAACAT
1 AAATAAAGAAAAATATAAAAAAAT
* *
2574720 AAATCAACAAAAA-ATAAAAAAAT
1 AAATAAAGAAAAATATAAAAAAAT
2574743 AAATAAAGAAAA
1 AAATAAAGAAAA
2574755 GAGAGCTCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (24 bp):
AAATAAAGAAAAATATAAAAAAAT
Found at i:2575116 original size:23 final size:22
Alignment explanation
Indices: 2575069--2575114 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
2575059 AAATATTAGT
2575069 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
2575092 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
2575113 TA
1 TA
2575115 TATATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:2576401 original size:14 final size:14
Alignment explanation
Indices: 2576382--2576420 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2576372 TTGTTTCACT
*
2576382 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
2576396 GAAAATGATTTCTG
1 GAAAATGACTTCCG
2576410 GAAAATGACTT
1 GAAAATGACTT
2576421 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:2577029 original size:18 final size:18
Alignment explanation
Indices: 2576991--2577026 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2576981 TTATTATTTT
*
2576991 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
2577009 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
2577027 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:2577038 original size:31 final size:29
Alignment explanation
Indices: 2577001--2577066 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
2576991 TAAAATTTAC
*
2577001 TATTAAAATAA-AATTTAAATATTAAATAATT
1 TATTAAAATAATAAATT--ATATT-AATAATT
2577032 TATTAAAAATAATAAATTATATTAATAATT
1 TATT-AAAATAATAAATTATATTAATAATT
2577062 TATTA
1 TATTA
2577067 TATGACTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.03
30 11 0.34
31 9 0.28
32 7 0.22
33 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTAAAATAATAAATTATATTAATAATT
Found at i:2577163 original size:10 final size:9
Alignment explanation
Indices: 2577134--2577159 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2577124 ATTTTATATT
2577134 AATATTTTA
1 AATATTTTA
2577143 AATATTTTA
1 AATATTTTA
2577152 AATATTTT
1 AATATTTT
2577160 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:2578372 original size:3 final size:3
Alignment explanation
Indices: 2578364--2578404 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2578354 CTCTATAGGG
*
2578364 TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
2578405 AGAATCCTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:2579115 original size:25 final size:25
Alignment explanation
Indices: 2579065--2579117 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
2579055 TAATTAGTAT
*
2579065 AAAATATTAATAATTCAATAATTTG
1 AAAATATTAATAATTCAATAAATTG
2579090 AAAA-ATTAAATAATT-AATAAAATTG
1 AAAATATT-AATAATTCAAT-AAATTG
2579115 AAA
1 AAA
2579118 TTTAAGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (25 bp):
AAAATATTAATAATTCAATAAATTG
Found at i:2582063 original size:50 final size:50
Alignment explanation
Indices: 2581984--2582094 Score: 186
Period size: 50 Copynumber: 2.2 Consensus size: 50
2581974 ATATAACTAA
* *
2581984 GGACCTCTCATCTTGGTGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
*
2582034 GGACCTCTCATCTCGGTGCCAACGTCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
*
2582084 GGACCTTTCAT
1 GGACCTCTCAT
2582095 AATCTCAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.28
Consensus pattern (50 bp):
GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
Found at i:2591422 original size:45 final size:45
Alignment explanation
Indices: 2591332--2591422 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
2591322 AAAAACGAAA
* * * *
2591332 CCATTTCATACCAAAACTTATACCATTTCGTACTTACACCAAAAC
1 CCATTTCATACCAAAACCTATACCATTCCCTACTTAAACCAAAAC
* * *
2591377 CCATTTCGTGCCAAAACCTATACCATTCCCTAAC-TAAACCTAAAC
1 CCATTTCATACCAAAACCTATACCATTCCCT-ACTTAAACCAAAAC
2591422 C
1 C
2591423 ATATTCGATC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.26
Consensus pattern (45 bp):
CCATTTCATACCAAAACCTATACCATTCCCTACTTAAACCAAAAC
Found at i:2593946 original size:16 final size:16
Alignment explanation
Indices: 2593921--2593958 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2593911 ACAGAGTGAA
2593921 AAAAAG-AAAACAATG
1 AAAAAGAAAAACAATG
*
2593936 AAAAAGAAAAAGAATG
1 AAAAAGAAAAACAATG
*
2593952 TAAAAGA
1 AAAAAGA
2593959 TTGAGTGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAAAGAAAAACAATG
Found at i:2598174 original size:22 final size:22
Alignment explanation
Indices: 2598148--2598194 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2598138 TCATTTTTTT
2598148 TACCAAAAAC-CAAACCATTTCG
1 TACC-AAAACTCAAACCATTTCG
* *
2598170 TACCAAAACTTATACCATTTCG
1 TACCAAAACTCAAACCATTTCG
2598192 TAC
1 TAC
2598195 TTTCACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.40, C:0.30, G:0.04, T:0.26
Consensus pattern (22 bp):
TACCAAAACTCAAACCATTTCG
Found at i:2598222 original size:17 final size:17
Alignment explanation
Indices: 2598200--2598235 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2598190 CGTACTTTCA
*
2598200 CCAAAACCCATTTCATT
1 CCAAAACCCATATCATT
*
2598217 CCAAAACCTATATCATT
1 CCAAAACCCATATCATT
2598234 CC
1 CC
2598236 CTAACTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (17 bp):
CCAAAACCCATATCATT
Found at i:2601061 original size:3 final size:3
Alignment explanation
Indices: 2601053--2601090 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2601043 TTGTCCTTCT
*
2601053 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2601091 CCCTCAACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2602196 original size:32 final size:32
Alignment explanation
Indices: 2602141--2602282 Score: 133
Period size: 32 Copynumber: 4.5 Consensus size: 32
2602131 GAATGGCTAC
* *
2602141 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGCAATATGATTGGCACA
** * *
2602172 AAGCCATCAGTAGTAGCGATATGATCGGCACA
1 AAGCCATCAGTAACAGCAATATGATTGGCACA
* * * * *
2602204 TAGTCATCAGTAACGGTAATATGATTGGAACA
1 AAGCCATCAGTAACAGCAATATGATTGGCACA
* * * *
2602236 AAGCCATCAGTAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACAGCAATATGATTGGCACA
*
2602268 AAGCCATCAATAACA
1 AAGCCATCAGTAACA
2602283 TCGCAGCAAA
Statistics
Matches: 88, Mismatches: 22, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
31 10 0.11
32 78 0.89
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGCAATATGATTGGCACA
Found at i:2602258 original size:64 final size:64
Alignment explanation
Indices: 2602155--2602281 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
2602145 CATAAGTACA
* ** * * * * *
2602155 GTAATATGATTGGCACAAAGCCATCAGTAGTAGCGATATGATCGGCACATAGTCATCAGTAACG
1 GTAATATGATTGGAACAAAGCCATCAGTAACAGCAATATGATCGACACAAAGCCATCAATAACG
* *
2602219 GTAATATGATTGGAACAAAGCCATCAGTAACGGTAATATGATCGACACAAAGCCATCAATAAC
1 GTAATATGATTGGAACAAAGCCATCAGTAACAGCAATATGATCGACACAAAGCCATCAATAAC
2602282 ATCGCAGCAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (64 bp):
GTAATATGATTGGAACAAAGCCATCAGTAACAGCAATATGATCGACACAAAGCCATCAATAACG
Found at i:2602466 original size:24 final size:24
Alignment explanation
Indices: 2602439--2602487 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2602429 AGTCATACAA
*
2602439 ATCACAGAAAAATCAGTCATTTAC
1 ATCACAGAAAAATCAATCATTTAC
** *
2602463 ATCAGGGACAAATCAATCATTTAC
1 ATCACAGAAAAATCAATCATTTAC
2602487 A
1 A
2602488 CTCGAGGGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.24
Consensus pattern (24 bp):
ATCACAGAAAAATCAATCATTTAC
Found at i:2602548 original size:27 final size:27
Alignment explanation
Indices: 2602508--2602716 Score: 201
Period size: 27 Copynumber: 7.8 Consensus size: 27
2602498 AAAATAGTAA
*
2602508 TTTACCCTTTAGGGGCATTACAGTCAT
1 TTTACCCTATAGGGGCATTACAGTCAT
* * *
2602535 TTTACCCTACA-GGGCATTATAGTTAT
1 TTTACCCTATAGGGGCATTACAGTCAT
* *
2602561 TTTACCCTATAAGGGAATTAC-GATCAT
1 TTTACCCTATAGGGGCATTACAG-TCAT
* * **
2602588 TTTACCTTACAGGGGCATTACAACCAT
1 TTTACCCTATAGGGGCATTACAGTCAT
2602615 TTTACCCTATAGGGGCATTAC-GATCAT
1 TTTACCCTATAGGGGCATTACAG-TCAT
* *
2602642 TTTACCCTAT-GAGGGTATTACGGTCAT
1 TTTACCCTATAG-GGGCATTACAGTCAT
* * * *
2602669 TTTACCCTATGGGGGTATTACGGTTAT
1 TTTACCCTATAGGGGCATTACAGTCAT
* *
2602696 TTTACCCTATGGGGGTATTAC
1 TTTACCCTATAGGGGCATTAC
2602717 GATCATTATA
Statistics
Matches: 155, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
26 25 0.16
27 128 0.83
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
TTTACCCTATAGGGGCATTACAGTCAT
Found at i:2602669 original size:81 final size:81
Alignment explanation
Indices: 2602508--2602728 Score: 248
Period size: 81 Copynumber: 2.7 Consensus size: 81
2602498 AAAATAGTAA
** * * *
2602508 TTTACCCTTTAGGGGCATTACAGTCATTTTACCCTACA-GGGCATTA-TAGTTATTTTACCCTAT
1 TTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGCATTACGA-TCATTTTACCCTAT
2602571 AAGGGAATTACGATCAT
65 AAGGGAATTACGATCAT
* ** *
2602588 TTTACCTTACAGGGGCATTACAACCATTTTACCCTATAGGGGCATTACGATCATTTTACCCTATG
1 TTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTTTACCCTATA
* *
2602653 AGGGTATTACGGTCAT
66 AGGGAATTACGATCAT
** * * * * * *
2602669 TTTACCCTATGGGGGTATTACGGTTATTTTACCCTATGGGGGTATTACGATCATTATACC
1 TTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTTTACC
2602729 TATTTTATGG
Statistics
Matches: 117, Mismatches: 22, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
80 32 0.27
81 84 0.72
82 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (81 bp):
TTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGCATTACGATCATTTTACCCTATA
AGGGAATTACGATCAT
Found at i:2610715 original size:13 final size:13
Alignment explanation
Indices: 2610699--2610733 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2610689 TTTTTACCTT
2610699 TTAATTTTCTTAG
1 TTAATTTTCTTAG
*
2610712 TTAATTTACTTAG
1 TTAATTTTCTTAG
2610725 TTAAATTTT
1 TT-AATTTT
2610734 GGTTTTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (13 bp):
TTAATTTTCTTAG
Found at i:2630597 original size:27 final size:27
Alignment explanation
Indices: 2630567--2630642 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
2630557 ATCAGCACAG
2630567 TGTGGGCCTTAGCCCATTACAGTAACA
1 TGTGGGCCTTAGCCCATTACAGTAACA
2630594 TGTGGGCCTTAGCCCATTACAGTAACA
1 TGTGGGCCTTAGCCCATTACAGTAACA
*
2630621 TGTGGGCCTTAGCCCAATACAG
1 TGTGGGCCTTAGCCCATTACAG
2630643 AAATCAATAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (27 bp):
TGTGGGCCTTAGCCCATTACAGTAACA
Found at i:2630811 original size:26 final size:26
Alignment explanation
Indices: 2630748--2630825 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
2630738 CAGCCAACAC
*
2630748 AACAAT-ATCACAACAAAGCTGCCAGT
1 AACAATAAT-ACAGCAAAGCTGCCAGT
* *
2630774 AATAATATTACAGCAAAGCTGCCAGT
1 AACAATAATACAGCAAAGCTGCCAGT
* *
2630800 AACAATAATACAGTAAAGTTGCCAGT
1 AACAATAATACAGCAAAGCTGCCAGT
2630826 GACAGTATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (26 bp):
AACAATAATACAGCAAAGCTGCCAGT
Found at i:2631042 original size:27 final size:27
Alignment explanation
Indices: 2631012--2631205 Score: 216
Period size: 27 Copynumber: 7.2 Consensus size: 27
2631002 TATAACAGTC
* * *
2631012 ATTTTACCCTACGGGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
2631039 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
2631066 ATTTTACCCTTTGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
2631093 ATTTTACCCTTTGAAGGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
* *
2631120 ATTTTACCATTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
2631147 ATTTTACCCTAT-G-GGAGTATTTTGGTA
1 ATTTTACCCT-TCGAGG-GTATTTCGATA
*
2631174 ATTTTACCCTTTGAGGGTATTTCAGA-A
1 ATTTTACCCTTCGAGGGTATTTC-GATA
2631201 ATTTT
1 ATTTT
2631206 CTGGCCCAAG
Statistics
Matches: 145, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
26 4 0.03
27 137 0.94
28 4 0.03
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:2631133 original size:81 final size:81
Alignment explanation
Indices: 2631037--2631205 Score: 266
Period size: 81 Copynumber: 2.1 Consensus size: 81
2631027 GGTATTTTGA
* * *
2631037 TAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCC
1 TAATTTTACCATTCGAGGGTATTTCGATAATTTTACCCTATGGGAGTATTTCGATAATTTTACCC
2631102 TTTGAAGGTATTTCAG
66 TTTGAAGGTATTTCAG
* * *
2631118 TAATTTTACCATTCGAGGGTATTTCGGTAATTTTACCCTATGGGAGTATTTTGGTAATTTTACCC
1 TAATTTTACCATTCGAGGGTATTTCGATAATTTTACCCTATGGGAGTATTTCGATAATTTTACCC
*
2631183 TTTGAGGGTATTTCAG
66 TTTGAAGGTATTTCAG
*
2631199 AAATTTT
1 TAATTTT
2631206 CTGGCCCAAG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (81 bp):
TAATTTTACCATTCGAGGGTATTTCGATAATTTTACCCTATGGGAGTATTTCGATAATTTTACCC
TTTGAAGGTATTTCAG
Found at i:2645886 original size:40 final size:40
Alignment explanation
Indices: 2645518--2645878 Score: 524
Period size: 40 Copynumber: 9.0 Consensus size: 40
2645508 TAATTATTGA
* *
2645518 TGATTGCACATATGTGCCCCTATTTCTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
2645558 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
2645598 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
2645638 TGGTTGCACATTCGTGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
2645678 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
2645718 TGGTTGCACATTCGTGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
2645758 TGATTGCACATACGTGCCCCTATTTGCACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * * *
2645798 TTATTGCACATATGTGCCCCTGTTTTTACTTCAGTACCCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
2645838 TGATTGCACATGCATGCCCCTATTTATACTTAGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
2645878 T
1 T
2645879 AAATGCACTT
Statistics
Matches: 286, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:2647468 original size:25 final size:25
Alignment explanation
Indices: 2647440--2647528 Score: 97
Period size: 25 Copynumber: 3.6 Consensus size: 25
2647430 CGTATGGGCT
* *
2647440 TACCGACTTACAGCTCGTGAGAGCA
1 TACCGATTTACAGCTCGAGAGAGCA
* * * *
2647465 TACCAATTTACAGCTCAAGAAAGAA
1 TACCGATTTACAGCTCGAGAGAGCA
*
2647490 TACCGATTTACAGGTCGAGAGAGCA
1 TACCGATTTACAGCTCGAGAGAGCA
* *
2647515 TAACGATTCACAGC
1 TACCGATTTACAGC
2647529 ACGAATAAGC
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (25 bp):
TACCGATTTACAGCTCGAGAGAGCA
Found at i:2654740 original size:25 final size:25
Alignment explanation
Indices: 2654675--2654744 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
2654665 GCGGACACAC
*
2654675 CACAGCTCGTATGAGCTTACCAATT
1 CACAGCTCGTATGAGCATACCAATT
* * * *
2654700 TACAACTCG-AGAGAGCATACCGATT
1 CACAGCTCGTA-TGAGCATACCAATT
2654725 CACAGCTCGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
2654745 ATGTACAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCAATT
Found at i:2655937 original size:43 final size:43
Alignment explanation
Indices: 2655862--2655944 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
2655852 CACAGGCAGA
* * * *
2655862 GACACGGGCGTGTGTCTCAGCCGTTTATGATACATGGCTAGGT
1 GACACGGGCATGTGTCTCAGCCATGTATGATACACGGCTAGGT
* * *
2655905 GACATGGGCATGTTTCTCAGCCATGTGTGATACACGGCTA
1 GACACGGGCATGTGTCTCAGCCATGTATGATACACGGCTA
2655945 TGTGTCCCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (43 bp):
GACACGGGCATGTGTCTCAGCCATGTATGATACACGGCTAGGT
Found at i:2659046 original size:27 final size:27
Alignment explanation
Indices: 2658980--2659050 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
2658970 CATTTTGACC
* *
2658980 CACAGCTCTTGTGAGCAAGCTTCTATT
1 CACAGCTCATGTGAGCAAGCTCCTATT
** *
2659007 CACAAATCGTGTGAGCAAGC-CCATATT
1 CACAGCTCATGTGAGCAAGCTCC-TATT
2659034 CACAGCTCATGTGAGCA
1 CACAGCTCATGTGAGCA
2659051 TTTTGATCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (27 bp):
CACAGCTCATGTGAGCAAGCTCCTATT
Found at i:2682765 original size:15 final size:15
Alignment explanation
Indices: 2682743--2682823 Score: 90
Period size: 15 Copynumber: 5.4 Consensus size: 15
2682733 GTTCGTATAT
*
2682743 AGGGTTTGCACATAC
1 AGGGTTCGCACATAC
* * *
2682758 AAGGTTTGCATATAC
1 AGGGTTCGCACATAC
*
2682773 AGGGTTCACACATAC
1 AGGGTTCGCACATAC
* *
2682788 AGGGTTCGCATATTC
1 AGGGTTCGCACATAC
*
2682803 AGGATTCGCACATAC
1 AGGGTTCGCACATAC
2682818 AGGGTT
1 AGGGTT
2682824 TGCATGTAGG
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (15 bp):
AGGGTTCGCACATAC
Found at i:2682785 original size:30 final size:30
Alignment explanation
Indices: 2682751--2682828 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
2682741 ATAGGGTTTG
* *
2682751 CACATACAAGGTTTGCATATACAGGGTTCA
1 CACATACAGGGTTTGCATATACAGGATTCA
* * *
2682781 CACATACAGGGTTCGCATATTCAGGATTCG
1 CACATACAGGGTTTGCATATACAGGATTCA
2682811 CACATACAGGGTTTGCAT
1 CACATACAGGGTTTGCAT
2682829 GTAGGGTTCG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (30 bp):
CACATACAGGGTTTGCATATACAGGATTCA
Found at i:2682859 original size:23 final size:23
Alignment explanation
Indices: 2682833--2683038 Score: 128
Period size: 24 Copynumber: 8.7 Consensus size: 23
2682823 TTGCATGTAG
* *
2682833 GGTTCGCATAATAAATCACATAA
1 GGTTCGCATACTAAATCATATAA
* * **
2682856 GGTTTCGCATATTAAAACATATGG
1 GG-TTCGCATACTAAATCATATAA
* *
2682880 GGTTCGCATGCTAAATCCATA-AG
1 GGTTCGCATACTAAAT-CATATAA
* * * *
2682903 GGTTCGCATAATAAAACGTATAGGG
1 GGTTCGCATACTAAATCATATA--A
*
2682928 GGTTCACATACTAAATTCATA-AA
1 GGTTCGCATACTAAA-TCATATAA
* * *
2682951 GGTTCGCATAATAAAACATATGGA
1 GGTTCGCATACTAAATCATAT-AA
* * *
2682975 GATTTGCATACTAAATCATATTA
1 GGTTCGCATACTAAATCATATAA
* * *
2682998 GAGTTCGCATATTAAAACATATAG
1 G-GTTCGCATACTAAATCATATAA
*
2683022 GGTTCGCATACCAAATC
1 GGTTCGCATACTAAATC
2683039 CATAAGGGTT
Statistics
Matches: 138, Mismatches: 36, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
22 7 0.05
23 56 0.41
24 57 0.41
25 15 0.11
26 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (23 bp):
GGTTCGCATACTAAATCATATAA
Found at i:2682949 original size:48 final size:48
Alignment explanation
Indices: 2682832--2683053 Score: 240
Period size: 48 Copynumber: 4.7 Consensus size: 48
2682822 TTTGCATGTA
* * *
2682832 GGGTTCGCATAATAAATCACATAAGGTTTCGCATATTAAAACATAT--G
1 GGGTTCGCATACTAAATC-CATAAGGGTTCGCATAATAAAACATATAGG
* *
2682879 GGGTTCGCATGCTAAATCCATAAGGGTTCGCATAATAAAACGTATAGG
1 GGGTTCGCATACTAAATCCATAAGGGTTCGCATAATAAAACATATAGG
* * *
2682927 GGGTTCACATACTAAATTCATAAAGGTTCGCATAATAAAACATAT-GG
1 GGGTTCGCATACTAAATCCATAAGGGTTCGCATAATAAAACATATAGG
* * * * *
2682974 AGATTTGCATACTAAAT-CATATTAGAGTTCGCATATTAAAACATATA--
1 GGGTTCGCATACTAAATCCATA--AGGGTTCGCATAATAAAACATATAGG
* *
2683021 GGGTTCGCATACCAAATCCATAAGGGTTTGCAT
1 GGGTTCGCATACTAAATCCATAAGGGTTCGCAT
2683054 GTAGGTTCGC
Statistics
Matches: 146, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
46 37 0.25
47 44 0.30
48 65 0.45
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (48 bp):
GGGTTCGCATACTAAATCCATAAGGGTTCGCATAATAAAACATATAGG
Found at i:2683046 original size:23 final size:23
Alignment explanation
Indices: 2682831--2683053 Score: 139
Period size: 23 Copynumber: 9.5 Consensus size: 23
2682821 GTTTGCATGT
*
2682831 AGGGTTCGCATAATAAATCACATA
1 AGGGTTCGCATACTAAATC-CATA
* * *
2682855 AGGTTTCGCATATTAAA-ACATA
1 AGGGTTCGCATACTAAATCCATA
* *
2682877 TGGGGTTCGCATGCTAAATCCATA
1 -AGGGTTCGCATACTAAATCCATA
* * *
2682901 AGGGTTCGCATAATAAAACGTATA
1 AGGGTTCGCATACTAAATC-CATA
* * *
2682925 GGGGGTTCACATACTAAATTCATA
1 -AGGGTTCGCATACTAAATCCATA
* * *
2682949 AAGGTTCGCATAATAAA-ACATA
1 AGGGTTCGCATACTAAATCCATA
* *
2682971 TGGAGATTTGCATACTAAAT-CATA
1 AGG-G-TTCGCATACTAAATCCATA
* * *
2682995 TTAGAGTTCGCATATTAAA-ACATA
1 --AGGGTTCGCATACTAAATCCATA
*
2683019 TAGGGTTCGCATACCAAATCCATA
1 -AGGGTTCGCATACTAAATCCATA
*
2683043 AGGGTTTGCAT
1 AGGGTTCGCAT
2683054 GTAGGTTCGC
Statistics
Matches: 151, Mismatches: 37, Indels: 23
0.72 0.18 0.11
Matches are distributed among these distances:
22 9 0.06
23 67 0.44
24 59 0.39
25 15 0.10
26 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (23 bp):
AGGGTTCGCATACTAAATCCATA
Found at i:2683538 original size:17 final size:16
Alignment explanation
Indices: 2683493--2683544 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
2683483 TTGCAATAAG
2683493 ATTAGAAATTAATTTAAA
1 ATTAG-AATTAATTT-AA
**
2683511 ATTAGGGTTAATTTAA
1 ATTAGAATTAATTTAA
*
2683527 ATTAAGAATTAAATTAA
1 ATT-AGAATTAATTTAA
2683544 A
1 A
2683545 ATATAGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
ATTAGAATTAATTTAA
Found at i:2683984 original size:6 final size:6
Alignment explanation
Indices: 2683975--2684001 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2683965 ATTTAAATTC
2683975 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
2684002 GCGTGATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:2685443 original size:39 final size:39
Alignment explanation
Indices: 2685394--2685482 Score: 130
Period size: 36 Copynumber: 2.4 Consensus size: 39
2685384 TAACTTATTT
*
2685394 TAGGAATAGTTTTCTATATTATAGGAAGTAAAGGGTGAA
1 TAGGAGTAGTTTTCTATATTATAGGAAGTAAAGGGTGAA
* *
2685433 TAGGAGTAG--TT-TATATTATAGGAAGTAGAGGGTGAT
1 TAGGAGTAGTTTTCTATATTATAGGAAGTAAAGGGTGAA
2685469 TAGGAGTAGTTTTC
1 TAGGAGTAGTTTTC
2685483 CTATTTCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
36 32 0.73
37 2 0.05
38 2 0.05
39 8 0.18
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (39 bp):
TAGGAGTAGTTTTCTATATTATAGGAAGTAAAGGGTGAA
Found at i:2692442 original size:4 final size:4
Alignment explanation
Indices: 2692435--2692480 Score: 76
Period size: 4 Copynumber: 11.8 Consensus size: 4
2692425 GGTTGGTATA
*
2692435 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAG ATAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
2692481 ATGCACGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:2692874 original size:18 final size:17
Alignment explanation
Indices: 2692851--2692887 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
2692841 TATTTTTTTA
*
2692851 TGATATATATATTTAATT
1 TGATATATAAATTT-ATT
2692869 TGATATATAAATTTATT
1 TGATATATAAATTTATT
2692886 TG
1 TG
2692888 TTTAAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (17 bp):
TGATATATAAATTTATT
Found at i:2695993 original size:9 final size:9
Alignment explanation
Indices: 2695979--2696054 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
2695969 GTAGTGATTC
2695979 AATTCGGTT
1 AATTCGGTT
*
2695988 AATTCGGGT
1 AATTCGGTT
*
2695997 AATTCGGGT
1 AATTCGGTT
*
2696006 AATTCGATT
1 AATTCGGTT
**
2696015 AATTCGGGG
1 AATTCGGTT
*
2696024 AATCCGGTT
1 AATTCGGTT
2696033 AATTCGGTT
1 AATTCGGTT
2696042 AATTCGGTT
1 AATTCGGTT
2696051 AATT
1 AATT
2696055 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:2697783 original size:34 final size:34
Alignment explanation
Indices: 2697708--2697783 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 34
2697698 TTTTGATTGT
* * *
2697708 TTTG-TTACTATTATTGTTATCATTATAATTAAA
1 TTTGATTATTATTATTATTATCAGTATAATTAAA
* * * *
2697741 TTTCATTATTATTATTATTATTAGTATTATTATA
1 TTTGATTATTATTATTATTATCAGTATAATTAAA
2697775 TTTGATTAT
1 TTTGATTAT
2697784 ATTTCTACCT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 3 0.09
34 31 0.91
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (34 bp):
TTTGATTATTATTATTATTATCAGTATAATTAAA
Found at i:2707172 original size:19 final size:18
Alignment explanation
Indices: 2707136--2707198 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
2707126 ACTCAAAATC
*
2707136 ATTTAAATCATTTAAATTA
1 ATTTAAAT-ATTTTAATTA
2707155 ATTTAAATATTTTTAATTA
1 ATTTAAATA-TTTTAATTA
* *
2707174 GCTTTATA-ATTTTAA-TA
1 -ATTTAAATATTTTAATTA
2707191 ATTTAAAT
1 ATTTAAAT
2707199 TAATTTTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 5 0.14
17 2 0.06
18 7 0.19
19 17 0.47
20 5 0.14
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTTAAATATTTTAATTA
Found at i:2710658 original size:27 final size:24
Alignment explanation
Indices: 2710620--2710670 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 24
2710610 TTAAATTAAA
2710620 ATTGAAATTAAAATTATCAAAAGAAAT
1 ATTGAAATTAAAA--AT-AAAAGAAAT
2710647 ATTGCAAA-TAAAAATAAAAGAAAT
1 ATTG-AAATTAAAAATAAAAGAAAT
2710671 CAATGTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 9 0.39
25 2 0.09
27 9 0.39
28 3 0.13
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (24 bp):
ATTGAAATTAAAAATAAAAGAAAT
Found at i:2727455 original size:24 final size:24
Alignment explanation
Indices: 2727410--2727458 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2727400 AACAATTTCC
* *
2727410 AATGCCAATACCAATAACTAATCA
1 AATGCCAATACAAACAACTAATCA
* *
2727434 AATGCCAATTCAAACAATTAATCA
1 AATGCCAATACAAACAACTAATCA
2727458 A
1 A
2727459 TCTTCATAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.22
Consensus pattern (24 bp):
AATGCCAATACAAACAACTAATCA
Found at i:2729418 original size:16 final size:16
Alignment explanation
Indices: 2729397--2729437 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2729387 CATATGCTTT
*
2729397 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTCGTTTC
2729413 TTTTCTTTTT-GTTTC
1 TTTTCTTTTTCGTTTC
2729428 TTTT-TTTTTC
1 TTTTCTTTTTC
2729438 ACGAGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 8 0.35
16 10 0.43
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTCGTTTC
Found at i:2737046 original size:13 final size:13
Alignment explanation
Indices: 2737028--2737058 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2737018 GCCATTGGAA
2737028 GTTTCAACTTGAG
1 GTTTCAACTTGAG
2737041 GTTTCAACTTGAG
1 GTTTCAACTTGAG
*
2737054 ATTTC
1 GTTTC
2737059 TTCTGAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (13 bp):
GTTTCAACTTGAG
Found at i:2740257 original size:21 final size:21
Alignment explanation
Indices: 2740231--2740276 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2740221 GGCAACCCTC
*
2740231 CTTTAACTTAACCTGAGTATT
1 CTTTAACTTAACCTAAGTATT
* *
2740252 CTTTAACTTATCCTAAGTCTT
1 CTTTAACTTAACCTAAGTATT
2740273 CTTT
1 CTTT
2740277 GGAACTGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.48
Consensus pattern (21 bp):
CTTTAACTTAACCTAAGTATT
Found at i:2744346 original size:17 final size:17
Alignment explanation
Indices: 2744324--2744359 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2744314 TTGAAAACCT
*
2744324 TTCTTGCAATTTCAAAC
1 TTCTTGCAATTTAAAAC
*
2744341 TTCTTGCCATTTAAAAC
1 TTCTTGCAATTTAAAAC
2744358 TT
1 TT
2744360 GTACAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (17 bp):
TTCTTGCAATTTAAAAC
Found at i:2745377 original size:27 final size:27
Alignment explanation
Indices: 2745345--2745445 Score: 71
Period size: 27 Copynumber: 3.7 Consensus size: 27
2745335 TGACTTCCTA
*
2745345 GGGGTATAAT-AGTCATTTTACCCTAAG
1 GGGGTAT-ATCAGTAATTTTACCCTAAG
* **
2745372 GGGGTATTTCAGTAATTTTACCCTTCG
1 GGGGTATATCAGTAATTTTACCCTAAG
* ** * **
2745399 GGGGTATTTTGGTAATTTCACCCTTCG
1 GGGGTATATCAGTAATTTTACCCTAAG
*
2745426 GGGGTATTTC-GATAATTTTA
1 GGGGTATATCAG-TAATTTTA
2745446 ACCATCGAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.03
27 61 0.97
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.40
Consensus pattern (27 bp):
GGGGTATATCAGTAATTTTACCCTAAG
Found at i:2745485 original size:81 final size:82
Alignment explanation
Indices: 2745373--2745607 Score: 334
Period size: 81 Copynumber: 2.9 Consensus size: 82
2745363 TACCCTAAGG
* * * *
2745373 GGGTATTTCAGTAATTTTACCCT-TCGGGGGTATTTTGGTAATTTCACCCTTCGGGGGTATTTCG
1 GGGTATTTCAGTAATTTTA-CCTATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCG
*
2745437 ATAATTTTAACC-ATCGA
65 ATAATTTTAACCTATCAA
*
2745454 GGGTACTTCAGTAATTTTACCTATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGA
1 GGGTATTTCAGTAATTTTACCTATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGA
*
2745519 TAATTTT-ACCTATTAA
66 TAATTTTAACCTATCAA
* * *
2745535 GGGTATTTTAGTAATTTTA-CTCATCGATGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCG
1 GGGTATTTCAGTAATTTTACCT-ATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCG
2745599 ATAATTTTA
65 ATAATTTTA
2745608 CAACCTTCCC
Statistics
Matches: 139, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
80 8 0.06
81 131 0.94
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (82 bp):
GGGTATTTCAGTAATTTTACCTATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGA
TAATTTTAACCTATCAA
Found at i:2745608 original size:27 final size:27
Alignment explanation
Indices: 2745373--2745608 Score: 253
Period size: 27 Copynumber: 8.7 Consensus size: 27
2745363 TACCCTAAGG
* *
2745373 GGGTATTTC-AGTAATTTTACCCTTCGG
1 GGGTATTTCGA-TAATTTTACCCATCGA
* * * * *
2745400 GGGTATTTTGGTAATTTCACCCTTCGG
1 GGGTATTTCGATAATTTTACCCATCGA
*
2745427 GGGTATTTCGATAATTTTAACCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* *
2745454 GGGTACTTC-AGTAATTTTACCTATCGA
1 GGGTATTTCGA-TAATTTTACCCATCGA
* *
2745481 GGGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* **
2745508 GGGTATTTCGATAATTTTACCTATTAA
1 GGGTATTTCGATAATTTTACCCATCGA
* *
2745535 GGGTATTT-TAGTAATTTTACTCATCGA
1 GGGTATTTCGA-TAATTTTACCCATCGA
* *
2745562 TGGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
2745589 GGGTATTTCGATAATTTTAC
1 GGGTATTTCGATAATTTTAC
2745609 AACCTTCCCG
Statistics
Matches: 172, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 170 0.99
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATCGA
Found at i:2749188 original size:41 final size:41
Alignment explanation
Indices: 2749069--2749199 Score: 131
Period size: 41 Copynumber: 3.1 Consensus size: 41
2749059 AAAAACACAT
* * *
2749069 AAATCACATACAATGCCATATCCCAGATATGGTCTTACATG
1 AAATCACATACAATGCCATGTCCCAGACATGGTCTTACACG
** * *
2749110 TTATCACATATCGATGCCTCTGTCCCAGACA-GAGTCTTACACG
1 AAATCACATA-CAATGCC-ATGTCCCAGACATG-GTCTTACACG
* *
2749153 -AATCATATACAATGCCAATGTCCCAAACATGGTCTTACACG
1 AAATCACATACAATGCC-ATGTCCCAGACATGGTCTTACACG
2749194 AAATCA
1 AAATCA
2749200 TACCTCGAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
41 34 0.47
42 20 0.28
43 18 0.25
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (41 bp):
AAATCACATACAATGCCATGTCCCAGACATGGTCTTACACG
Found at i:2760477 original size:16 final size:16
Alignment explanation
Indices: 2760444--2760473 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2760434 CAATCAAAAA
2760444 CATTCATATATTATAT
1 CATTCATATATTATAT
2760460 CATTCA-ATATTATA
1 CATTCATATATTATA
2760474 ATCACATCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (16 bp):
CATTCATATATTATAT
Found at i:2761511 original size:23 final size:24
Alignment explanation
Indices: 2761462--2761513 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2761452 GCGTACTAAA
* *
2761462 ACAACAAATCTTACCAAAGTAAGT
1 ACAACAAATCGTACCAAAATAAGT
2761486 ACAACAAATCGT-CCAATAATAA-T
1 ACAACAAATCGTACCAA-AATAAGT
2761509 ACAAC
1 ACAAC
2761514 CATATGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (24 bp):
ACAACAAATCGTACCAAAATAAGT
Found at i:2778295 original size:30 final size:30
Alignment explanation
Indices: 2778256--2778317 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
2778246 TACATGAAAT
2778256 ACATAGAAAT-GAT-ATTACATGATATATTGAA
1 ACATAGAAATGGATGA-TACATG-TATA-TGAA
2778287 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATAGAAATGGATGATACATGTATATGAA
2778316 AC
1 AC
2778318 TTTTTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (30 bp):
ACATAGAAATGGATGATACATGTATATGAA
Found at i:2780208 original size:10 final size:10
Alignment explanation
Indices: 2780193--2780217 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2780183 TAGTGAAAAA
2780193 AGAAAAAGTG
1 AGAAAAAGTG
2780203 AGAAAAAGTG
1 AGAAAAAGTG
2780213 AGAAA
1 AGAAA
2780218 TTTCCCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (10 bp):
AGAAAAAGTG
Found at i:2780448 original size:51 final size:51
Alignment explanation
Indices: 2780328--2780560 Score: 364
Period size: 51 Copynumber: 4.6 Consensus size: 51
2780318 AAAGTGATGG
* * * * *
2780328 TCACGTGTGTAGTACTAT-TGCAGGCTACTACGTGTACCAGAAT-G-ATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCA-AATAGCTTCGA
* *
2780377 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
*
2780428 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
2780479 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
2780530 TCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
2780561 CGTGTATTGG
Statistics
Matches: 172, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
49 19 0.11
50 20 0.12
51 133 0.77
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
Found at i:2780502 original size:102 final size:101
Alignment explanation
Indices: 2780328--2780613 Score: 380
Period size: 102 Copynumber: 2.8 Consensus size: 101
2780318 AAAGTGATGG
* * *
2780328 TCACGTGTGTAGTACTAT-TGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGATCACATGTGTAGTAC
2780392 TATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
* * * * *
2780428 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCA-AATAGCTTCGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAT-G-ATAGATCACATGTGTAGT
2780492 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
64 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
* *** * *
2780530 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGATAG-CCACATGTGTTGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGA-A-TGATAGATCACATGTGTAGT
*
2780594 ACTATGTGCAGGTTACTATG
64 ACTATGTGCAGGCTACTATG
2780614 TGAACCGGTA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
100 20 0.12
101 20 0.12
102 114 0.71
103 3 0.02
104 2 0.01
105 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGATCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
Found at i:2784903 original size:10 final size:10
Alignment explanation
Indices: 2784888--2784912 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2784878 TAGTGAAAAA
2784888 AGAAAAAGTG
1 AGAAAAAGTG
2784898 AGAAAAAGTG
1 AGAAAAAGTG
2784908 AGAAA
1 AGAAA
2784913 TTTCCCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (10 bp):
AGAAAAAGTG
Found at i:2785143 original size:51 final size:50
Alignment explanation
Indices: 2785023--2785257 Score: 269
Period size: 51 Copynumber: 4.7 Consensus size: 50
2785013 AAAGTGATGG
* * * * * *
2785023 TCACGTGTGTAGTACTAT-TGCAGGCTACTACGTGTACCAGAAT-GATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCA-AATAGTTCGA
*
2785072 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAG-TTCGA
2785123 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAG-TTCGA
* * * * * * *
2785174 TCACGTGTGTAGTACTATGTGCAAGCTACTAAGTGTATCAGATAGTGAT-GG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGT--TCGA
*
2785225 TCACATGTGCAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
2785258 TGAACCGGTA
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
49 19 0.12
50 21 0.13
51 121 0.75
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGTTCGA
Found at i:2789326 original size:37 final size:37
Alignment explanation
Indices: 2789238--2789310 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
2789228 ATACGCCAGC
*
2789238 TGCTCATAAGAGCTAATCCATCCGATAACACGTTAAA
1 TGCTCATAAGAGCTAATCCATCCGATAACACGCTAAA
2789275 TGCTCATAAGAGCTAATCCA-CACGATAACACGCTAA
1 TGCTCATAAGAGCTAATCCATC-CGATAACACGCTAA
2789311 TTGTTCCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (37 bp):
TGCTCATAAGAGCTAATCCATCCGATAACACGCTAAA
Found at i:2793360 original size:40 final size:40
Alignment explanation
Indices: 2793249--2793390 Score: 173
Period size: 40 Copynumber: 3.5 Consensus size: 40
2793239 TATGTGAATT
*
2793249 TACTTTGGTA-CCCTGAATGCACATATGTGCCCTTGTTTG
1 TACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTG
* *
2793288 TACTTTGGTACCCCCT-AATTACACATATGTGCCCCTGTTGG
1 TACTTTGGTA-CCCCTGAA-TGCACATATGTGCCCCTGTTTG
*
2793329 TACTTTGGTACCCCTGAATGC-CTATACGTGCCCCTGTTTG
1 TACTTTGGTACCCCTGAATGCAC-ATATGTGCCCCTGTTTG
** *
2793369 TACTTCAGTATCCCTGAATGCA
1 TACTTTGGTACCCCTGAATGCA
2793391 TTTTAATGTC
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
39 11 0.12
40 42 0.48
41 35 0.40
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.35
Consensus pattern (40 bp):
TACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTG
Found at i:2806858 original size:613 final size:613
Alignment explanation
Indices: 2805693--2806918 Score: 2407
Period size: 613 Copynumber: 2.0 Consensus size: 613
2805683 TTTAAATTAA
2805693 ATCAAAGAAGAGAAAGATTAAACCCAATTTAGAGTGGCTGTCACCCAAGACTCTGACTGACGAGG
1 ATCAAAGAAGAGAAAGATTAAACCCAATTTAGAGTGGCTGTCACCCAAGACTCTGACTGACGAGG
*
2805758 CTCCTTCGCTCCTTTGCTTAACTCCTTTACTGATGGCTTTCCAAGGTGGCCAACCAAGGGTTATT
66 CTCCTTCGCTCCTTTGCTTAACTCCTTTACTGATGGCTCTCCAAGGTGGCCAACCAAGGGTTATT
*
2805823 TAAGAGACTAGTTTGCTGCAATCCTTATGCAAGGATGATGATAGGTGTGAGAGCTAAGAGAGTTG
131 TAAGAGACTAGTTTGCTGAAATCCTTATGCAAGGATGATGATAGGTGTGAGAGCTAAGAGAGTTG
2805888 AGAGAATTGAGAGAGCAGAGAATGATGAGAAGTGAGGGATGATAGATGAATGAATGAGAGGGTCT
196 AGAGAATTGAGAGAGCAGAGAATGATGAGAAGTGAGGGATGATAGATGAATGAATGAGAGGGTCT
2805953 TATTTATAGGTTAGGAGAGGGGGATAGTTTACTAAAAATAGGGGTGTTCATCCTTTGAAAAATCT
261 TATTTATAGGTTAGGAGAGGGGGATAGTTTACTAAAAATAGGGGTGTTCATCCTTTGAAAAATCT
2806018 CCCATGGTTCACCGGTCATAAATCAAGAAAATCAAGCTAATTTTTCCTTGATTTTTGGTCAATTT
326 CCCATGGTTCACCGGTCATAAATCAAGAAAATCAAGCTAATTTTTCCTTGATTTTTGGTCAATTT
2806083 GGATGCCACAACAATTCAGGACTGAGACCTAGTCAACTGCAAATCTTCAGGTAAATCTCAAATTT
391 GGATGCCACAACAATTCAGGACTGAGACCTAGTCAACTGCAAATCTTCAGGTAAATCTCAAATTT
2806148 CTTCAATTCTTCCAGGACCTTGTATAATTAAACCAAAAGTTAGTCTATAATCAGCCATGTGCAGC
456 CTTCAATTCTTCCAGGACCTTGTATAATTAAACCAAAAGTTAGTCTATAATCAGCCATGTGCAGC
2806213 CGAAAATTGGGTTGGCTTGGTCCCCACTTGGACGGTTTTGCAATTAGAAGAAAATCCTTAGACCT
521 CGAAAATTGGGTTGGCTTGGTCCCCACTTGGACGGTTTTGCAATTAGAAGAAAATCCTTAGACCT
2806278 GCCAAAAATAGCAGATAGTTTAGATGAC
586 GCCAAAAATAGCAGATAGTTTAGATGAC
2806306 ATCAAAGAAGAGAAAGATTAAACCCAATTTAGAGTGGCTGTCACCCAAGACTCTGACTGACGAGG
1 ATCAAAGAAGAGAAAGATTAAACCCAATTTAGAGTGGCTGTCACCCAAGACTCTGACTGACGAGG
*
2806371 CTCCTTCGCTCCTTTGCTTAACTCCTTTACTGATGGCTCTCTAAGGTGGCCAACCAAGGGTTATT
66 CTCCTTCGCTCCTTTGCTTAACTCCTTTACTGATGGCTCTCCAAGGTGGCCAACCAAGGGTTATT
2806436 TAAGAGACTAGTTTGCTGAAATCCTTATGCAAGGATGATGATAGGTGTGAGAGCTAAGAGAGTTG
131 TAAGAGACTAGTTTGCTGAAATCCTTATGCAAGGATGATGATAGGTGTGAGAGCTAAGAGAGTTG
2806501 AGAGAATTGAGAGAGCAGAGAATGATGAGAAGTGAGGGATGATAGATGAATGAATGAGAGGGTCT
196 AGAGAATTGAGAGAGCAGAGAATGATGAGAAGTGAGGGATGATAGATGAATGAATGAGAGGGTCT
*
2806566 TATTTATAGGTTAGGAGAGGGGGATAGTTTACTAAATATAGGGGTGTTCATCCTTTGAAAAATCT
261 TATTTATAGGTTAGGAGAGGGGGATAGTTTACTAAAAATAGGGGTGTTCATCCTTTGAAAAATCT
2806631 CCCATGGTTCACCGGTCATAAATCAAGAAAATCAAGCTAATTTTTCCTTGATTTTTGGTCAATTT
326 CCCATGGTTCACCGGTCATAAATCAAGAAAATCAAGCTAATTTTTCCTTGATTTTTGGTCAATTT
2806696 GGATGCCACAACAATTCAGGACTGAGACCTAGTCAACTGCAAATCTTCAGGTAAATCTCAAATTT
391 GGATGCCACAACAATTCAGGACTGAGACCTAGTCAACTGCAAATCTTCAGGTAAATCTCAAATTT
2806761 CTTCAATTCTTCCAGGACCTTGTATAATTAAACCAAAAGTTAGTCTATAATCAGCCATGTGCAGC
456 CTTCAATTCTTCCAGGACCTTGTATAATTAAACCAAAAGTTAGTCTATAATCAGCCATGTGCAGC
2806826 CGAAAATTGGGTTGGCTTGGTCCCCACTTGGACGGTTTTGCAATTAGAAGAAAATCCTTAGACCT
521 CGAAAATTGGGTTGGCTTGGTCCCCACTTGGACGGTTTTGCAATTAGAAGAAAATCCTTAGACCT
*
2806891 GTCAAAAATAGCAGATAGTTTAGATGAC
586 GCCAAAAATAGCAGATAGTTTAGATGAC
2806919 CAATAAATTA
Statistics
Matches: 608, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
613 608 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (613 bp):
ATCAAAGAAGAGAAAGATTAAACCCAATTTAGAGTGGCTGTCACCCAAGACTCTGACTGACGAGG
CTCCTTCGCTCCTTTGCTTAACTCCTTTACTGATGGCTCTCCAAGGTGGCCAACCAAGGGTTATT
TAAGAGACTAGTTTGCTGAAATCCTTATGCAAGGATGATGATAGGTGTGAGAGCTAAGAGAGTTG
AGAGAATTGAGAGAGCAGAGAATGATGAGAAGTGAGGGATGATAGATGAATGAATGAGAGGGTCT
TATTTATAGGTTAGGAGAGGGGGATAGTTTACTAAAAATAGGGGTGTTCATCCTTTGAAAAATCT
CCCATGGTTCACCGGTCATAAATCAAGAAAATCAAGCTAATTTTTCCTTGATTTTTGGTCAATTT
GGATGCCACAACAATTCAGGACTGAGACCTAGTCAACTGCAAATCTTCAGGTAAATCTCAAATTT
CTTCAATTCTTCCAGGACCTTGTATAATTAAACCAAAAGTTAGTCTATAATCAGCCATGTGCAGC
CGAAAATTGGGTTGGCTTGGTCCCCACTTGGACGGTTTTGCAATTAGAAGAAAATCCTTAGACCT
GCCAAAAATAGCAGATAGTTTAGATGAC
Found at i:2808696 original size:16 final size:16
Alignment explanation
Indices: 2808672--2808705 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2808662 ATTAAATCCT
2808672 AATTACTAAAGAAATA
1 AATTACTAAAGAAATA
* *
2808688 AATTCCTAAAGACATA
1 AATTACTAAAGAAATA
2808704 AA
1 AA
2808706 AAACAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (16 bp):
AATTACTAAAGAAATA
Found at i:2831575 original size:53 final size:52
Alignment explanation
Indices: 2831499--2831836 Score: 362
Period size: 53 Copynumber: 6.3 Consensus size: 52
2831489 CTAAAATATA
*
2831499 CCCATAGGGTAAAATGA-TCGAAATACCCCACAGGGTAAAATGATCGAAATACC
1 CCCATAGGGTAAAATGACT-GAAATACCCCATAGGGTAAAATGA-CGAAATACC
* ** *
2831552 CCCATAGGGTAAATTGACTGAAATACCTTATAGAGTAAAATGACTGAAATA-C
1 CCCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGAC-GAAATACC
*
2831604 CCCATAGGGTAAAATAACT-AATATACCCTCATAGGGTAAAATGACTGAAATACC
1 CCCATAGGGTAAAATGACTGAA-ATACCC-CATAGGGTAAAATGAC-GAAATACC
* * ** *
2831658 CCCATAAGGTAGAATGA-TCGAAATACCCTTGTAAGGTAAAATGACCGAAATACC
1 CCCATAGGGTAAAATGACT-GAAATACCC-CATAGGGTAAAATGA-CGAAATACC
* * *
2831712 CCCGTAAGGTAAAATGACTGAAATACGCCCATAGAGTAAAATGAAC-AAATACC
1 CCCATAGGGTAAAATGACTGAAATAC-CCCATAGGGTAAAATG-ACGAAATACC
* * * *
2831765 CCCATAGGGTAAAATGACCGAAATACCCCTGTAAGGTAGAATGACCGAAATACC
1 CCCATAGGGTAAAATGACTGAAATACCCC-ATAGGGTAAAATGA-CGAAATACC
2831819 CCCATAGGGTAAAATGAC
1 CCCATAGGGTAAAATGAC
2831837 AGTTATACCC
Statistics
Matches: 242, Mismatches: 29, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
51 2 0.01
52 28 0.12
53 104 0.43
54 101 0.42
55 7 0.03
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (52 bp):
CCCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGACGAAATACC
Found at i:2831762 original size:107 final size:105
Alignment explanation
Indices: 2831499--2831836 Score: 420
Period size: 107 Copynumber: 3.2 Consensus size: 105
2831489 CTAAAATATA
* *
2831499 CCCATAGGGTAAAATGA-TCGAAATACCCCACAGGGTAAAATGATCGAAATACCCCCATAGGGTA
1 CCCATAGGGTAAAATGACT-GAAATACCCCATAGGGTAAAATGAACGAAATACCCCCATAGGGTA
* *
2831563 AATTGACTGAAATA-CCTTAT-AGAGTAAAATGACTGAAATA-C
65 AA-TGAC-GAAATACCCTTGTAAG-GTAAAATGACCGAAATACC
* *
2831604 CCCATAGGGTAAAATAACT-AATATACCCTCATAGGGTAAAATG-ACTGAAATACCCCCATAAGG
1 CCCATAGGGTAAAATGACTGAA-ATACCC-CATAGGGTAAAATGAAC-GAAATACCCCCATAGGG
2831667 TAGAATGATCGAAATACCCTTGTAAGGTAAAATGACCGAAATACC
63 TA-AATGA-CGAAATACCCTTGTAAGGTAAAATGACCGAAATACC
* * *
2831712 CCCGTAAGGTAAAATGACTGAAATACGCCCATAGAGTAAAATGAAC-AAATACCCCCATAGGGTA
1 CCCATAGGGTAAAATGACTGAAATAC-CCCATAGGGTAAAATGAACGAAATACCCCCATAGGGT-
* *
2831776 AAATGACCGAAATACCCCTGTAAGGTAGAATGACCGAAATACC
64 AAATGA-CGAAATACCCTTGTAAGGTAAAATGACCGAAATACC
2831819 CCCATAGGGTAAAATGAC
1 CCCATAGGGTAAAATGAC
2831837 AGTTATACCC
Statistics
Matches: 204, Mismatches: 16, Indels: 24
0.84 0.07 0.10
Matches are distributed among these distances:
104 2 0.01
105 23 0.11
106 41 0.20
107 95 0.47
108 37 0.18
109 6 0.03
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (105 bp):
CCCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGAACGAAATACCCCCATAGGGTAA
ATGACGAAATACCCTTGTAAGGTAAAATGACCGAAATACC
Found at i:2831847 original size:27 final size:27
Alignment explanation
Indices: 2831499--2831836 Score: 352
Period size: 27 Copynumber: 12.7 Consensus size: 27
2831489 CTAAAATATA
2831499 CCCATAGGGTAAAATGA-TCGAAATA-C
1 CCCATAGGGTAAAATGACT-GAAATACC
*
2831525 CCCACAGGGTAAAATGA-TCGAAATACC
1 CCCATAGGGTAAAATGACT-GAAATACC
*
2831552 CCCATAGGGTAAATTGACTGAAATA-C
1 CCCATAGGGTAAAATGACTGAAATACC
** *
2831578 CTTATAGAGTAAAATGACTGAAATA-C
1 CCCATAGGGTAAAATGACTGAAATACC
*
2831604 CCCATAGGGTAAAATAACT-AATATACC
1 CCCATAGGGTAAAATGACTGAA-ATACC
*
2831631 CTCATAGGGTAAAATGACTGAAATACC
1 CCCATAGGGTAAAATGACTGAAATACC
* *
2831658 CCCATAAGGTAGAATGA-TCGAAATACC
1 CCCATAGGGTAAAATGACT-GAAATACC
*** * *
2831685 CTTGTAAGGTAAAATGACCGAAATACC
1 CCCATAGGGTAAAATGACTGAAATACC
* * *
2831712 CCCGTAAGGTAAAATGACTGAAATACG
1 CCCATAGGGTAAAATGACTGAAATACC
*
2831739 CCCATAGAGTAAAATGAAC--AAATACC
1 CCCATAGGGTAAAATG-ACTGAAATACC
*
2831765 CCCATAGGGTAAAATGACCGAAATACC
1 CCCATAGGGTAAAATGACTGAAATACC
** * * *
2831792 CCTGTAAGGTAGAATGACCGAAATACC
1 CCCATAGGGTAAAATGACTGAAATACC
2831819 CCCATAGGGTAAAATGAC
1 CCCATAGGGTAAAATGAC
2831837 AGTTATACCC
Statistics
Matches: 264, Mismatches: 38, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.02
26 87 0.33
27 168 0.64
28 5 0.02
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
CCCATAGGGTAAAATGACTGAAATACC
Found at i:2833533 original size:27 final size:27
Alignment explanation
Indices: 2833495--2833700 Score: 161
Period size: 27 Copynumber: 7.7 Consensus size: 27
2833485 GATTCGTGGG
* * *
2833495 AAAATTACCGAAATACCCTCAAAGAGT
1 AAAATAACCGAAATACCCTCGAAGGGT
*
2833522 AAAATAACCGAAATACCC-CTGATGGGT
1 AAAATAACCGAAATACCCTC-GAAGGGT
*
2833549 AAAATAA-CGAAAATACCCTCGATGGGT
1 AAAATAACCG-AAATACCCTCGAAGGGT
* **
2833576 GAAATAATTGAAATACTCC-CGAAGGGT
1 AAAATAACCGAAATAC-CCTCGAAGGGT
* * * *
2833603 AAAATGAA-TGAAATATCCTGGATGGGT
1 AAAAT-AACCGAAATACCCTCGAAGGGT
* * *
2833630 AAAATGACCAAAATACCC-CGAAAGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
* * *
2833656 AAAATGACCGAAATACCCTTGAAAGGT
1 AAAATAACCGAAATACCCTCGAAGGGT
* *
2833683 AAAATGATCGAAATACCC
1 AAAATAACCGAAATACCC
2833701 CTAGGAGTTG
Statistics
Matches: 149, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
26 28 0.19
27 115 0.77
28 6 0.04
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (27 bp):
AAAATAACCGAAATACCCTCGAAGGGT
Found at i:2833581 original size:54 final size:53
Alignment explanation
Indices: 2833503--2833701 Score: 193
Period size: 54 Copynumber: 3.7 Consensus size: 53
2833493 GGAAAATTAC
* * *
2833503 CGAAATACCCTCAAAGAGTAAAATAACCGAAATACCCCTGATGGGTAAAAT-AA
1 CGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCC-GAAGGGTAAAATGAA
* * **
2833556 CGAAAATACCCTCGATGGGTGAAATAATTGAAATACTCCCGAAGGGTAAAATGAA
1 CG-AAATACCCTCGAAGGGTAAAATAACCGAAATAC-CCCGAAGGGTAAAATGAA
* * * * * * * *
2833611 TGAAATATCCTGGATGGGTAAAATGACCAAAATACCCCGAAAGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCCGAAGGGTAAAATGAA
* * * *
2833664 CGAAATACCCTTGAAAGGTAAAATGATCGAAATACCCC
1 CGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCC
2833702 TAGGAGTTGA
Statistics
Matches: 119, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
53 49 0.41
54 64 0.54
55 6 0.05
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (53 bp):
CGAAATACCCTCGAAGGGTAAAATAACCGAAATACCCCGAAGGGTAAAATGAA
Found at i:2837288 original size:50 final size:50
Alignment explanation
Indices: 2837152--2837347 Score: 167
Period size: 50 Copynumber: 3.8 Consensus size: 50
2837142 TCTTGTACTA
* * * ** * *
2837152 CCAATGCCATATCCCAGATATGGTCTTACATAGAAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCAGTG
* ****
2837202 CCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCAGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCAGTG
* * *
2837252 CCAACGCCATGTCCTAGACATGGTTTTACATAGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTC---ATCTC-A-G-TG
* * * *
2837308 CCAATGTCATGTCCCAGACATGGTTTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCT
2837348 TTACCCAAAT
Statistics
Matches: 115, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 71 0.62
53 5 0.04
54 1 0.01
55 1 0.01
56 37 0.32
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCAGTG
Found at i:2845394 original size:8 final size:8
Alignment explanation
Indices: 2845384--2845413 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2845374 TAAATAATAT
*
2845384 TTTATTAT
1 TTTATTAA
2845392 TTTATTAA
1 TTTATTAA
2845400 TTTATTAA
1 TTTATTAA
2845408 TTTATT
1 TTTATT
2845414 GTTTAGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTATTAA
Found at i:2853748 original size:27 final size:27
Alignment explanation
Indices: 2853709--2853904 Score: 196
Period size: 27 Copynumber: 7.3 Consensus size: 27
2853699 GATTCGTGGG
* *
2853709 AAAATGTCTGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* ** *
2853736 AAAATGACCGAAATACTCTAGATGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* * *
2853763 AAAATGATCGAAATACCTCTGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* ** *
2853790 AAAATGACCGAAATACCACTAAAGGAT
1 AAAATGACCGAAATACCCCCGAAGGGT
**
2853817 AAAATGACCGAAATACCCCTAAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* * * * *
2853844 AAAATGTCTGAAATAACCCCAAAGGAT
1 AAAATGACCGAAATACCCCCGAAGGGT
*
2853871 AAAATGACCGAAATA-CCCCGATGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
2853897 AAAATGAC
1 AAAATGAC
2853905 TATTATACCC
Statistics
Matches: 141, Mismatches: 28, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 16 0.11
27 125 0.89
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCGAAGGGT
Found at i:2853776 original size:54 final size:53
Alignment explanation
Indices: 2853709--2853904 Score: 223
Period size: 54 Copynumber: 3.7 Consensus size: 53
2853699 GATTCGTGGG
* * * * *
2853709 AAAATGTCTGAAATACCCCCGAAGGGTAAAATGACCGAAATACTCTAGATGGGT
1 AAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACACTA-AAGGAT
* * *
2853763 AAAATGATCGAAATACCTCTGAAGGGTAAAATGACCGAAATACCACTAAAGGAT
1 AAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATA-CACTAAAGGAT
** * * * *
2853817 AAAATGACCGAAATACCCCTAAAGGGTAAAATGTCTGAAATAACCCCAAAGGAT
1 AAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAAT-ACACTAAAGGAT
*
2853871 AAAATGACCGAAATA-CCCCGATGGGTAAAATGAC
1 AAAATGACCGAAATACCCCCGAAGGGTAAAATGAC
2853905 TATTATACCC
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
53 15 0.12
54 101 0.83
55 5 0.04
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (53 bp):
AAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACACTAAAGGAT
Found at i:2854074 original size:27 final size:27
Alignment explanation
Indices: 2854029--2854102 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
2854019 ATAGAGGAAG
**
2854029 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGAAGCTTTGCCACA
** *
2854055 TATACTGTTACTGGAAGCTTTGCTGCG
1 TATACTGTTACTGGAAGCTTTGCCACA
*
2854082 T-TACTGTTACTGGCAGCTTTG
1 TATACTGTTACTGGAAGCTTTG
2854103 TTGCGATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 26 0.63
27 15 0.37
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (27 bp):
TATACTGTTACTGGAAGCTTTGCCACA
Found at i:2854086 original size:26 final size:26
Alignment explanation
Indices: 2854057--2854107 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
2854047 TTGCCACATA
2854057 TACTGTTACTGGAAGCTTTGCTGCGT
1 TACTGTTACTGGAAGCTTTGCTGCGT
* *
2854083 TACTGTTACTGGCAGCTTTGTTGCG
1 TACTGTTACTGGAAGCTTTGCTGCG
2854108 ATATTGGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCTGCGT
Found at i:2854934 original size:28 final size:28
Alignment explanation
Indices: 2854902--2855025 Score: 180
Period size: 28 Copynumber: 4.5 Consensus size: 28
2854892 GTTGCATTAT
2854902 CACACTGTTACTGTATTGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
*
2854930 CACACTGTTTCTGTATT-GGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
* * *
2854957 CATACTATTTCTGTATTGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
* *
2854985 TACACTGTTACTGTATCGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
2855013 CACACTG-TACTGT
1 CACACTGTTACTGT
2855026 TACTGAATAG
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
27 31 0.36
28 55 0.64
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (28 bp):
CACACTGTTACTGTATTGGGCTAAGGCC
Found at i:2861238 original size:39 final size:39
Alignment explanation
Indices: 2861195--2861411 Score: 330
Period size: 39 Copynumber: 5.6 Consensus size: 39
2861185 GGGCCTTACA
2861195 AGTATTGTGATATATGCTTAAATTTTATGTAATTATATG
1 AGTATTGTGATATATGCTTAAATTTTATGTAATTATATG
*
2861234 AGTATTGTGATATATGCTTAAATGTTT-TGTGATTATATG
1 AGTATTGTGATATATGCTTAAAT-TTTATGTAATTATATG
*
2861273 AGTATTGTAATATATGCTTAAATTTTATGTAATTATATG
1 AGTATTGTGATATATGCTTAAATTTTATGTAATTATATG
* *
2861312 AGTATTGTGATATTTGCTTAAATGTTT-TGTGATTATATG
1 AGTATTGTGATATATGCTTAAAT-TTTATGTAATTATATG
*
2861351 AGTATTGTAATATATGCTTAAATTTTATGTAATTATATG
1 AGTATTGTGATATATGCTTAAATTTTATGTAATTATATG
* * *
2861390 TGTAATGTGATATATGCCTAAA
1 AGTATTGTGATATATGCTTAAA
2861412 AGTGAATATG
Statistics
Matches: 161, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
38 6 0.04
39 149 0.93
40 6 0.04
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATTTTATGTAATTATATG
Found at i:2861324 original size:78 final size:78
Alignment explanation
Indices: 2861195--2861411 Score: 389
Period size: 78 Copynumber: 2.8 Consensus size: 78
2861185 GGGCCTTACA
*
2861195 AGTATTGTGATATATGCTTAAATTTTATGTAATTATATGAGTATTGTGATATATGCTTAAATGTT
1 AGTATTGTAATATATGCTTAAATTTTATGTAATTATATGAGTATTGTGATATATGCTTAAATGTT
2861260 TTGTGATTATATG
66 TTGTGATTATATG
*
2861273 AGTATTGTAATATATGCTTAAATTTTATGTAATTATATGAGTATTGTGATATTTGCTTAAATGTT
1 AGTATTGTAATATATGCTTAAATTTTATGTAATTATATGAGTATTGTGATATATGCTTAAATGTT
2861338 TTGTGATTATATG
66 TTGTGATTATATG
* * *
2861351 AGTATTGTAATATATGCTTAAATTTTATGTAATTATATGTGTAATGTGATATATGCCTAAA
1 AGTATTGTAATATATGCTTAAATTTTATGTAATTATATGAGTATTGTGATATATGCTTAAA
2861412 AGTGAATATG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 133 1.00
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (78 bp):
AGTATTGTAATATATGCTTAAATTTTATGTAATTATATGAGTATTGTGATATATGCTTAAATGTT
TTGTGATTATATG
Found at i:2880255 original size:175 final size:175
Alignment explanation
Indices: 2879964--2880315 Score: 704
Period size: 175 Copynumber: 2.0 Consensus size: 175
2879954 TAAAGAACCA
2879964 TAAGAATCTTTAATTTAAAAAATTCTCATTTGTTGTTTGTTCTCAATGAAAATTGATTCTTAGAA
1 TAAGAATCTTTAATTTAAAAAATTCTCATTTGTTGTTTGTTCTCAATGAAAATTGATTCTTAGAA
2880029 ACTCACTAGCTAAAGTTGAGATTTCATTTCTTGCATTTCTGAAATGAATATGGGCCCATTCATCC
66 ACTCACTAGCTAAAGTTGAGATTTCATTTCTTGCATTTCTGAAATGAATATGGGCCCATTCATCC
2880094 ACCATATGGATGATTTTGATATTATATGATTTTGGTAGATGCATC
131 ACCATATGGATGATTTTGATATTATATGATTTTGGTAGATGCATC
2880139 TAAGAATCTTTAATTTAAAAAATTCTCATTTGTTGTTTGTTCTCAATGAAAATTGATTCTTAGAA
1 TAAGAATCTTTAATTTAAAAAATTCTCATTTGTTGTTTGTTCTCAATGAAAATTGATTCTTAGAA
2880204 ACTCACTAGCTAAAGTTGAGATTTCATTTCTTGCATTTCTGAAATGAATATGGGCCCATTCATCC
66 ACTCACTAGCTAAAGTTGAGATTTCATTTCTTGCATTTCTGAAATGAATATGGGCCCATTCATCC
2880269 ACCATATGGATGATTTTGATATTATATGATTTTGGTAGATGCATC
131 ACCATATGGATGATTTTGATATTATATGATTTTGGTAGATGCATC
2880314 TA
1 TA
2880316 CAAAATAATC
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 177 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (175 bp):
TAAGAATCTTTAATTTAAAAAATTCTCATTTGTTGTTTGTTCTCAATGAAAATTGATTCTTAGAA
ACTCACTAGCTAAAGTTGAGATTTCATTTCTTGCATTTCTGAAATGAATATGGGCCCATTCATCC
ACCATATGGATGATTTTGATATTATATGATTTTGGTAGATGCATC
Found at i:2894990 original size:16 final size:17
Alignment explanation
Indices: 2894969--2895004 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2894959 TCAATCATCC
2894969 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
2894985 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
2895002 CTC
1 CTC
2895005 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:2899604 original size:16 final size:17
Alignment explanation
Indices: 2899583--2899618 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2899573 TCAATCATCC
2899583 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
2899599 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
2899616 CTC
1 CTC
2899619 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:2906119 original size:13 final size:13
Alignment explanation
Indices: 2906101--2906130 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2906091 TATAATCGTT
*
2906101 TTTAAAAAATTGA
1 TTTAAAAAATTAA
2906114 TTTAAAAAATTAA
1 TTTAAAAAATTAA
2906127 TTTA
1 TTTA
2906131 TATTTAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TTTAAAAAATTAA
Found at i:2909474 original size:23 final size:22
Alignment explanation
Indices: 2909431--2909474 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
2909421 TTCTAAGTCG
2909431 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
2909454 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
2909475 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:2909723 original size:51 final size:51
Alignment explanation
Indices: 2909608--2909732 Score: 144
Period size: 51 Copynumber: 2.5 Consensus size: 51
2909598 CAATGATGTT
* ** *
2909608 CGATTCACATAGTAGCCTACACATAGTACTACACGTGTGACCATTACCATC
1 CGATACACATAGTAGCCTACACATAGTACTACACACGTGACCATCACCATC
* * **
2909659 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTC
1 CGATACACATAGTAGCCTACACATAGTACTACACACGTGACCATCACCATC
**
2909710 AC-ATTTACATAGTAGCCTACACA
1 -CGATACACATAGTAGCCTACACA
2909733 CAATCCATGC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 60 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.25
Consensus pattern (51 bp):
CGATACACATAGTAGCCTACACATAGTACTACACACGTGACCATCACCATC
Found at i:2913705 original size:50 final size:50
Alignment explanation
Indices: 2913627--2913864 Score: 251
Period size: 50 Copynumber: 4.6 Consensus size: 50
2913617 TCGTGTATTA
* * * * * ** * *
2913627 CCAATGTCATATCCCAGATATGGTCTTACATGTGATTTCTCATATAGGTG
1 CCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* **
2913677 CCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
2913727 CCAACGCCATGTCCTAGACATGGTCTTACTTGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
2913777 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGGTG
1 CCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTG
* * * *
2913833 CTAATGCCATTTCCCAAACATGGTCTTACATG
1 CCAATGCCATGTCCTAGACATGGTCTTACATG
2913865 AGATCTCATC
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 122 0.76
53 5 0.03
56 33 0.21
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
CCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:2914255 original size:30 final size:30
Alignment explanation
Indices: 2914208--2914273 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
2914198 GTCCTCGACT
*
2914208 CTAA-CTTTGACAAAATTACAATTTTGCCC
1 CTAAGCTTTGACAAAATTACAATTCTGCCC
* * *
2914237 CTAAGCTTTTACATAATTACACTTCTGCCC
1 CTAAGCTTTGACAAAATTACAATTCTGCCC
*
2914267 CAAAGCT
1 CTAAGCT
2914274 CAGAAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (30 bp):
CTAAGCTTTGACAAAATTACAATTCTGCCC
Found at i:2919522 original size:37 final size:37
Alignment explanation
Indices: 2919461--2919539 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
2919451 TTATTACGAA
* * * *
2919461 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
2919498 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
2919535 GTCTT
1 GTCTT
2919540 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:2928356 original size:7 final size:7
Alignment explanation
Indices: 2928344--2928374 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2928334 ATTTTATTTT
2928344 ATTTGGA
1 ATTTGGA
2928351 ATTTGGA
1 ATTTGGA
2928358 ATTTGGA
1 ATTTGGA
2928365 ATTTGGA
1 ATTTGGA
2928372 ATT
1 ATT
2928375 AGGTTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (7 bp):
ATTTGGA
Found at i:2928893 original size:21 final size:21
Alignment explanation
Indices: 2928869--2928923 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
2928859 AGGTAAGAAA
*
2928869 ATAAAAATATATAA-AGTTATC
1 ATAAAAATAAATAATA-TTATC
*
2928890 ATAAAGATAAATAATATTATC
1 ATAAAAATAAATAATATTATC
* *
2928911 ATACATATAAATA
1 ATAAAAATAAATA
2928924 TCATTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAAAAATAAATAATATTATC
Found at i:2934338 original size:29 final size:29
Alignment explanation
Indices: 2934294--2934349 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
2934284 TAGGATCTAT
2934294 GATCAGGTGTGAGTTTTAACACTAAACTA
1 GATCAGGTGTGAGTTTTAACACTAAACTA
* *
2934323 GATCAGGTGTGGGTTTTAACCCTAAAC
1 GATCAGGTGTGAGTTTTAACACTAAAC
2934350 CAAATTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
GATCAGGTGTGAGTTTTAACACTAAACTA
Found at i:2954930 original size:30 final size:31
Alignment explanation
Indices: 2954886--2954944 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
2954876 AAATAGAGAA
*
2954886 CATAGAAAAAATTAA-TATATGA-ATTTGATT
1 CATACAAAAAATTAATTATAT-ATATTTGATT
*
2954916 CATACAAAATATTAATTATATATATTTGA
1 CATACAAAAAATTAATTATATATATTTGA
2954945 AATTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (31 bp):
CATACAAAAAATTAATTATATATATTTGATT
Found at i:2957133 original size:21 final size:21
Alignment explanation
Indices: 2957108--2957156 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2957098 GTGGGGGTCT
*
2957108 ACACGCCCATGTGGAGGCCAC
1 ACACGCCCATGTGAAGGCCAC
**
2957129 ACACGCCTGTGTGAAGGCCAC
1 ACACGCCCATGTGAAGGCCAC
*
2957150 AAACGCC
1 ACACGCC
2957157 AGTGTGACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (21 bp):
ACACGCCCATGTGAAGGCCAC
Found at i:2957161 original size:21 final size:21
Alignment explanation
Indices: 2957117--2957163 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2957107 TACACGCCCA
* * *
2957117 TGTGGAGGCCACACACGCCTG
1 TGTGAAGGCCACAAACGCCAG
2957138 TGTGAAGGCCACAAACGCCAG
1 TGTGAAGGCCACAAACGCCAG
2957159 TGTGA
1 TGTGA
2957164 CCAACCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.15
Consensus pattern (21 bp):
TGTGAAGGCCACAAACGCCAG
Found at i:2988677 original size:50 final size:50
Alignment explanation
Indices: 2988581--2988752 Score: 195
Period size: 50 Copynumber: 3.4 Consensus size: 50
2988571 CATTTGGGTA
*
2988581 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGCT-GGAACCGAAAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-ATGGGAACCGAAAT
* **
2988631 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGCT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGAACCGAAAT
* **** *
2988681 GAGAGGTCCCCCAAAAGACCATGTCTGAGACATGGCATGGGAACC-AATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGAACCGAA-AT
* **
2988731 GAGAACTCCCATGTAAGACCAT
1 AAGAGGTCCCATGTAAGACCAT
2988753 ATCCGGGATA
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
49 2 0.02
50 99 0.98
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGAACCGAAAT
Found at i:2988821 original size:49 final size:47
Alignment explanation
Indices: 2988695--2988823 Score: 125
Period size: 49 Copynumber: 2.6 Consensus size: 47
2988685 GGTCCCCCAA
* *
2988695 AAGACCATGTCTGAGACATGGCATGGGAACCAATATGAGAACTCCCATGT
1 AAGACCATGTCTGAGACATGGCATTGG---CAATAGGAGAACTCCCATGT
* * * * *
2988745 AAGACCATATCCGGGATATGACATTGGCAATACAGGA-AACATCCCATGT
1 AAGACCATGTCTGAGACATGGCATTGGCAAT--AGGAGAAC-TCCCATGT
*
2988794 AAGACCATGTCTGAGACATGGCCTTGGCAA
1 AAGACCATGTCTGAGACATGGCATTGGCAA
2988824 GTTATTATCA
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
47 4 0.06
48 3 0.05
49 35 0.56
50 21 0.33
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (47 bp):
AAGACCATGTCTGAGACATGGCATTGGCAATAGGAGAACTCCCATGT
Found at i:2990317 original size:13 final size:13
Alignment explanation
Indices: 2990281--2990310 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
2990271 GTCTTTTTCT
2990281 TTTTATTATTTTA
1 TTTTATTATTTTA
2990294 TTTTATTTATTTTA
1 TTTTA-TTATTTTA
2990308 TTT
1 TTT
2990311 AGTTATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:2990340 original size:12 final size:11
Alignment explanation
Indices: 2990319--2990362 Score: 61
Period size: 12 Copynumber: 3.8 Consensus size: 11
2990309 TTAGTTATTG
2990319 TTTATTTTTCT
1 TTTATTTTTCT
*
2990330 TATTATCTTTCTT
1 T-TTATTTTTC-T
2990343 TTTATTTTTCT
1 TTTATTTTTCT
2990354 TTTATTTTT
1 TTTATTTTT
2990363 TTTGTAGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 11 0.38
12 16 0.55
13 2 0.07
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTATTTTTCT
Found at i:2990346 original size:24 final size:21
Alignment explanation
Indices: 2990286--2990365 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 21
2990276 TTTCTTTTTA
* *
2990286 TTATTTTATTTTATTTATTTTAT
1 TTATTTTTTTTTATTT-TTCT-T
* *
2990309 TTAGTTATTGTTTATTTTTCTT
1 TTA-TTTTTTTTTATTTTTCTT
2990331 ATTATCTTTCTTTTTATTTTTCTT
1 -TTAT-TTT-TTTTTATTTTTCTT
2990355 TTATTTTTTTT
1 TTATTTTTTTT
2990366 GTAGTCTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
21 4 0.09
22 5 0.11
23 15 0.32
24 23 0.49
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (21 bp):
TTATTTTTTTTTATTTTTCTT
Done.