Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 145 of 438
Found at i:43340014 original size:46 final size:46
Alignment explanation
Indices: 43339850--43340023 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
43339840 ATTTGGGCAT
* *
43339850 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
43339896 CC-AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
43339940 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
43339988 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43340024 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 25 0.23
46 39 0.36
47 25 0.23
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:43341558 original size:49 final size:49
Alignment explanation
Indices: 43341505--43341709 Score: 365
Period size: 49 Copynumber: 4.2 Consensus size: 49
43341495 ACATATATAT
* * *
43341505 ATATATATACACTTTCGCATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
43341554 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
43341603 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
43341652 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
43341701 ATATATACA
1 ATATATACA
43341710 TCTCATACAT
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 151 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:43344919 original size:7 final size:7
Alignment explanation
Indices: 43344904--43344949 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
43344894 GCAACCACAC
*
43344904 GGGTGTA
1 GGGTTTA
43344911 GGGTTTA
1 GGGTTTA
43344918 GGGTTTA
1 GGGTTTA
43344925 GGGTTTA
1 GGGTTTA
*
43344932 AGGTTTA
1 GGGTTTA
43344939 GGGTTTTA
1 GGG-TTTA
43344947 GGG
1 GGG
43344950 GTGCCTCAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
7 28 0.80
8 7 0.20
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:43349028 original size:28 final size:28
Alignment explanation
Indices: 43348955--43349030 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
43348945 AATGGAGTAA
* *
43348955 GTCTATCGAGATAGTAAACATGAGGTAG
1 GTCTATCGGGATAGTAAACACGAGGTAG
* *
43348983 GTCTATCAGGACAGTAAACACGAGGTAG
1 GTCTATCGGGATAGTAAACACGAGGTAG
* *
43349011 GTCTATCGGGGTACTAAACA
1 GTCTATCGGGATAGTAAACA
43349031 GGGGCAAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (28 bp):
GTCTATCGGGATAGTAAACACGAGGTAG
Found at i:43354485 original size:54 final size:53
Alignment explanation
Indices: 43354427--43354572 Score: 195
Period size: 55 Copynumber: 2.7 Consensus size: 53
43354417 CAAGAAGAGT
*
43354427 ATATAGTGTAAGACCTAGTTTGGGACTATGGCATCATATAGGAAAGT-GAAGACC
1 ATATAGTGTAAGACCTAGTTTGGGACTATGGCATCATACAGG--AGTAGAAGACC
* * * *
43354481 ATATAGTGTAAGACCTAGTCATGGTGGCTATGACATCATACAGGGGTAGAAGACC
1 ATATAGTGTAAGACCTAGT-TTGG-GACTATGGCATCATACAGGAGTAGAAGACC
*
43354536 ACATAGTGTAAGACCTAGTTTGGGACTATGGCATCAT
1 ATATAGTGTAAGACCTAGTTTGGGACTATGGCATCAT
43354573 GTGGGGAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
53 12 0.15
54 24 0.30
55 28 0.35
56 16 0.20
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (53 bp):
ATATAGTGTAAGACCTAGTTTGGGACTATGGCATCATACAGGAGTAGAAGACC
Found at i:43356771 original size:50 final size:52
Alignment explanation
Indices: 43356662--43356782 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 52
43356652 ATGAACAAAT
* * * *
43356662 GAGTTACTTAATGCATGACTTAATTTAATGATGCTAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
43356714 GAATTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
43356764 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
43356783 TTTATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 29 0.48
51 10 0.16
52 22 0.36
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:43358220 original size:43 final size:43
Alignment explanation
Indices: 43358172--43358254 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
43358162 CACCTTAGTG
* * *
43358172 CATCATGGGATAAA-AAGAAGCAAATATACTGGCACACACAGTT
1 CATCATGAGATAAACAA-AAACAAATATACTAGCACACACAGTT
* *
43358215 CATCATTAGATAAACAAAAACAAATATACTAGTACACACA
1 CATCATGAGATAAACAAAAACAAATATACTAGCACACACA
43358255 TTGTATCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.19
Consensus pattern (43 bp):
CATCATGAGATAAACAAAAACAAATATACTAGCACACACAGTT
Found at i:43371106 original size:40 final size:40
Alignment explanation
Indices: 43371044--43371299 Score: 376
Period size: 40 Copynumber: 6.4 Consensus size: 40
43371034 AAACCAAGTA
* * *
43371044 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
43371083 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43371123 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43371163 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43371203 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
43371243 CCTTCAGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43371283 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
43371300 CGTTATCATC
Statistics
Matches: 202, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
39 14 0.07
40 188 0.93
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43376481 original size:6 final size:6
Alignment explanation
Indices: 43376463--43376582 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
43376453 AAGAAACATT
* *
43376463 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
43376512 ATCAAA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
43376563 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
43376583 GGGAATGCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 7 0.08
6 64 0.73
7 13 0.15
8 4 0.05
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:43376508 original size:31 final size:31
Alignment explanation
Indices: 43376472--43376574 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
43376462 TATCAGAACT
* * * * *
43376472 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAAAATCAGTATCAGGTAAC
* *
43376503 AGAATCAGAATCAAAATCAGTATCAGGTAAT
1 AGAATCAAAATCAAAATCAGTATCAGGTAAC
43376534 AGAATCAAAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAAAATCAGTATCAGGTAAC
43376565 AGAATCAAAA
1 AGAATCAAAA
43376575 ATCAGAATGG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAAAATCAGTATCAGGTAAC
Found at i:43376749 original size:27 final size:26
Alignment explanation
Indices: 43376719--43376820 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
43376709 GCTCAGGTAT
*
43376719 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
*
43376746 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
* * * *
43376772 CAGATATTTATGGCATAGCCATCAGAAA
1 CAGATA-TTGTGACAGAGCCACCAG-AA
* * *
43376800 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGACAGAGCCAC
43376821 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.77
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:43377007 original size:22 final size:22
Alignment explanation
Indices: 43376979--43377042 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
43376969 GCAAATACGC
*
43376979 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
43377001 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
43377023 TTAACACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
43377043 AAAGGCTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:43377499 original size:26 final size:27
Alignment explanation
Indices: 43377470--43377718 Score: 311
Period size: 27 Copynumber: 9.3 Consensus size: 27
43377460 GGGGCAAAAT
* * * *
43377470 GGTAATTTTACCCCAC-GAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43377496 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43377523 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43377550 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
43377577 AATAATTTTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43377604 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43377631 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43377658 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
43377685 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
43377712 GGTAATT
1 GGTAATT
43377719 TTGTAAATTG
Statistics
Matches: 197, Mismatches: 25, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
26 13 0.07
27 184 0.93
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:43377732 original size:27 final size:27
Alignment explanation
Indices: 43377702--43378128 Score: 149
Period size: 27 Copynumber: 15.9 Consensus size: 27
43377692 CTACCCTACA
*
43377702 AGGGTATTTCGGTAATTTTGTAAATTG
1 AGGGTATTTCGGTAATTTTGTAAATCG
*** * *
43377729 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTATTTCGGTAATTTTGTAAATCG
** *
43377756 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGGTAATTTTGTAAATCG
** ** **
43377783 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
* ***
43377810 AGGGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTGTAAATCG
* ** *
43377836 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCGGTAATTTTGTAAATCG
* * ** *
43377863 AGGGGTATTTTGATAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTGTAAATCG
* ** *
43377890 AGGGGT-TTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTGTAAATCG
* ** *
43377916 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTGTAAATCG
* * *
43377942 AGGGGTATTTTGGTAATTTTATAAA-CAA
1 A-GGGTATTTCGGTAATTTTGTAAATC-G
** ** *
43377970 AGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTCGGTAATTTTGTAAATCG
* * *
43377996 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTCGGTAATTTTGTAAATCG
* ** *
43378024 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTGTAAATCG
*
43378050 AGGGGTATTTTGGTAATTTTGCT-AATCG
1 A-GGGTATTTCGGTAATTTTG-TAAATCG
* ** **
43378078 AAGGTATTTTAGTAATTTTAAAAATC-
1 AGGGTATTTCGGTAATTTTGTAAATCG
* *
43378104 AGGGGTATTTTGGTAATTTGGTAAA
1 A-GGGTATTTCGGTAATTTTGTAAA
43378129 CTAAAGTATT
Statistics
Matches: 335, Mismatches: 51, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
25 4 0.01
26 50 0.15
27 276 0.82
28 5 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATCG
Found at i:43377813 original size:81 final size:81
Alignment explanation
Indices: 43377728--43377885 Score: 176
Period size: 81 Copynumber: 2.0 Consensus size: 81
43377718 TTTGTAAATT
* ** *
43377728 GAGGGTAAAACGGTAA-TTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTCGA-GGGTATT
1 GAGGGTAAAACAGTAATTTC-ACAAATCAAGGGTACTTTGGTAATTTTACAA-ACGAGGGGTATT
43377791 TCAATAATTTTACAGGTC
64 TCAATAATTTTACAGGTC
*** * * * *
43377809 GAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 GAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTC
*
43377874 GATAATTTTACA
66 AATAATTTTACA
43377886 AACCAGGGGT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
80 2 0.03
81 58 0.92
82 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (81 bp):
GAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTC
AATAATTTTACAGGTC
Found at i:43377853 original size:54 final size:53
Alignment explanation
Indices: 43377810--43378122 Score: 416
Period size: 54 Copynumber: 5.8 Consensus size: 53
43377800 TTACAGGTCG
* * *
43377810 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAAC-A
* *
43377864 GGGGTATTTT-GATAATTTTACAAACCAGGGGT-TTTTGGTAATTTTACAAACC
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACA
* *
43377916 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAAC-A
* **
43377970 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAA-CA
* * *
43378024 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCTAATCGA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-AAAC-A
* *
43378079 A-GGTATTTTAGTAATTTTAAAAATCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
43378123 GGTAAACTAA
Statistics
Matches: 234, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
52 29 0.12
53 39 0.17
54 161 0.69
55 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACA
Found at i:43378022 original size:81 final size:80
Alignment explanation
Indices: 43377757--43378122 Score: 387
Period size: 81 Copynumber: 4.5 Consensus size: 80
43377747 TGTAAATCAA
* ** *** *** * *
43377757 GGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
*
43377821 GTAATTTCACAAATCAG
65 GTAATTTTACAAAT-AG
* * * *
43377838 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGT-TTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
43377902 TAATTTTACAAACCA-
66 TAATTTTACAAA-TAG
* *
43377917 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
43377982 TAATTTTACAAACTAG
66 TAATTTTACAAA-TAG
** * * *
43377998 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
* * *
43378063 TAATTTTGCTAATCG
66 TAATTTTACAAATAG
* * * *
43378078 AAGGTATTTTAGTAATTTTAAAAATCAGGGGTATTTTGGTAATTT
1 -GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
43378123 GGTAAACTAA
Statistics
Matches: 242, Mismatches: 38, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
79 53 0.22
80 37 0.15
81 151 0.62
82 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
TAATTTTACAAATAG
Found at i:43380672 original size:30 final size:30
Alignment explanation
Indices: 43380638--43380697 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43380628 CCCTAGTACG
43380638 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
43380668 AACTTTTGCATATTTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
43380698 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:43384352 original size:93 final size:93
Alignment explanation
Indices: 43384240--43384411 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43384230 GCCCATAAGT
* *
43384240 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43384305 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43384333 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43384398 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43384412 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43384407 original size:46 final size:46
Alignment explanation
Indices: 43384232--43384407 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43384222 TGTAACCCGC
* * *
43384232 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43384278 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43384328 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43384371 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43384408 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43386836 original size:30 final size:30
Alignment explanation
Indices: 43386792--43386880 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
43386782 CAAAGATAAC
43386792 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
43386821 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
43386851 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
43386881 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:43386840 original size:15 final size:15
Alignment explanation
Indices: 43386792--43386871 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
43386782 CAAAGATAAC
*
43386792 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43386806 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
43386821 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
43386836 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
43386851 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
43386866 AAGAAA
1 AAGAAA
43386872 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43386880 original size:15 final size:15
Alignment explanation
Indices: 43386803--43386880 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
43386793 AGAAAACCGA
43386803 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
43386818 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
43386832 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
43386847 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
43386863 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
43386878 ATA
1 ATA
43386881 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43389897 original size:46 final size:48
Alignment explanation
Indices: 43389775--43389904 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
43389765 TGTAACCCGC
*
43389775 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
43389825 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
43389868 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43389905 TGCCAAATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:43391379 original size:247 final size:243
Alignment explanation
Indices: 43390930--43391424 Score: 947
Period size: 247 Copynumber: 2.0 Consensus size: 243
43390920 TAGAAATTGG
43390930 TAAAATTACTCTTTAAGACCTCTAATTAATAATCTAATTCAATTTGCAAAATACTTCTAGAACAC
1 TAAAATTACTCTTTAAGACCTCTAATTAATAATCTAATTCAATTTGCAAAATACTTCTAGAACAC
43390995 AAGTTTTGCAATTTATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCT
66 AAGTTTTGCAATTTATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCT
43391060 TCACGAAATTTTCACACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTAT
131 TCACGAAATTTTCACACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTAT
43391125 TTCTATCTCGGATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCC
196 TTCTATCTCGGATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCC
43391173 TAAAATTACTCTTTAAGGACCTCTAATTAATAATCTAATTCAATTTTATGCAAAATACTTCTAGA
1 TAAAATTACTCTTTAA-GACCTCTAATTAATAATCTAATTCAA--TT-TGCAAAATACTTCTAGA
43391238 ACACAAGTTTTGCAATTTATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAAT
62 ACACAAGTTTTGCAATTTATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAAT
43391303 TTCTTCACGAAATTTTCACACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAA
127 TTCTTCACGAAATTTTCACACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAA
43391368 TTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCC
192 TTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCC
43391420 -AAAAT
1 TAAAAT
43391425 CAGGATATTA
Statistics
Matches: 248, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
243 16 0.06
244 26 0.10
246 7 0.03
247 199 0.80
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (243 bp):
TAAAATTACTCTTTAAGACCTCTAATTAATAATCTAATTCAATTTGCAAAATACTTCTAGAACAC
AAGTTTTGCAATTTATTCAATTTAGTCCCAAATTTCAAATTAAGCACTTTATGCATAAAATTTCT
TCACGAAATTTTCACACAATCATGCAATCATATCATAGACCTTAAAATAATCATAAAATAATTAT
TTCTATCTCGGATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCC
Found at i:43391812 original size:190 final size:191
Alignment explanation
Indices: 43391486--43391866 Score: 509
Period size: 190 Copynumber: 2.0 Consensus size: 191
43391476 AACGCCCCCA
**
43391486 TACCCGAGACCATCGCCGGAGTCGAGTACGAGGTGTTACTAAACTTAATTCATTAATTAAACAAC
1 TACCCGAGACCATCGCCGGAGTCGAACACGAGGTGTTACTAAACTTAATTCATTAATTAAACAAC
* * * * **
43391551 TTAAACAATTTATTTTAGAATTTCCAGACAAGCTGGCTAACTGCGTTGCAGTCACTTAAAAATTA
66 TCAAACAATTCATTTTAAAATTTCCAGACAAGCTGGCTAACTGCATCACAGTCACTTAAAAATTA
* * * *
43391616 ATATCTCGAGTTTC-AAACTCGAAAT-TAAGATCTGTAAATTTTTCCTGAAAATAGGCTCAT
131 ATATCTCGAGTTACGAAACTCGAAATCCAA-ATCCGTAAATTTTTCCTGAAAATAGACTCAT
* * ** *
43391676 TACCCGAGACCGTTGCCGGAGTCGAACACGAGGTGTTAAC-GGACTTAATTCATTAATTAAACAG
1 TACCCGAGACCATCGCCGGAGTCGAACACGAGGTGTT-ACTAAACTTAATTCATTAATTAAACAA
* *
43391740 CTCATACAATTCATTTTAAAATTTCCAGACAAGCTGGCTAACTGCATCACAGTCGCTTTAAAAA-
65 CTCAAACAATTCATTTTAAAATTTCCAGACAAGCTGGCTAACTGCATCACAGTCAC-TTAAAAAT
* * *
43391804 TCATATCTCGAGTTACGAAACTCGAAATCCAATTCCGTAAATTTTTCCTGAAACTAGACTCAT
129 TAATATCTCGAGTTACGAAACTCGAAATCCAAATCCGTAAATTTTTCCTGAAAATAGACTCAT
43391867 ATATATATCT
Statistics
Matches: 165, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
190 116 0.70
191 47 0.28
192 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (191 bp):
TACCCGAGACCATCGCCGGAGTCGAACACGAGGTGTTACTAAACTTAATTCATTAATTAAACAAC
TCAAACAATTCATTTTAAAATTTCCAGACAAGCTGGCTAACTGCATCACAGTCACTTAAAAATTA
ATATCTCGAGTTACGAAACTCGAAATCCAAATCCGTAAATTTTTCCTGAAAATAGACTCAT
Found at i:43393089 original size:93 final size:93
Alignment explanation
Indices: 43392977--43393148 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43392967 GCCCATAAGT
* *
43392977 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43393042 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43393070 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43393135 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43393149 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43393144 original size:46 final size:46
Alignment explanation
Indices: 43392969--43393144 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43392959 TGTAACCCGC
* * *
43392969 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43393015 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43393065 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43393108 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43393145 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43395569 original size:30 final size:30
Alignment explanation
Indices: 43395525--43395613 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
43395515 CAAAGATAAC
43395525 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
43395554 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
43395584 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
43395614 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:43395573 original size:15 final size:15
Alignment explanation
Indices: 43395525--43395604 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
43395515 CAAAGATAAC
*
43395525 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43395539 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
43395554 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
43395569 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
43395584 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
43395599 AAGAAA
1 AAGAAA
43395605 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43395613 original size:15 final size:15
Alignment explanation
Indices: 43395536--43395613 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
43395526 AGAAAACCGA
43395536 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
43395551 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
43395565 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
43395580 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
43395596 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
43395611 ATA
1 ATA
43395614 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43398637 original size:46 final size:48
Alignment explanation
Indices: 43398515--43398644 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
43398505 TGTAACCCGC
*
43398515 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
43398565 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
43398608 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43398645 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:43401389 original size:48 final size:48
Alignment explanation
Indices: 43401318--43401500 Score: 267
Period size: 48 Copynumber: 3.8 Consensus size: 48
43401308 GGGGTGTTAC
* * * *
43401318 ATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACATTGTTG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGTCG
* * *
43401366 ATGTCATGTTCCAAACATGGTCTTAAAGTGGCTCTCATAACATTGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGTCG
** * *
43401414 ATGCCATGTTCCAAATGTGGTCCTACACAGGCTCTCATAACATTGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGTCG
43401462 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATA
43401501 TCACCCAAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGTCG
Found at i:43414602 original size:34 final size:34
Alignment explanation
Indices: 43414562--43414672 Score: 150
Period size: 34 Copynumber: 3.3 Consensus size: 34
43414552 GAAGTACATA
*
43414562 AATATATATGTATGGCTTGGCATAATCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
* * * *
43414596 ATTATATATGTATAGCTTGGTATAATTGAAAGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
* * *
43414630 AATATATATGTATGGTTTGTTATAACCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
43414664 AATATATAT
1 AATATATAT
43414673 ATACATTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (34 bp):
AATATATATGTATGGCTTGGTATAATCGAAGGTG
Found at i:43414850 original size:59 final size:60
Alignment explanation
Indices: 43414745--43414882 Score: 174
Period size: 59 Copynumber: 2.3 Consensus size: 60
43414735 TAAGCTTGAG
* * *
43414745 ATGAGCACTAAGTGTGCGAAATGAAATTGGTACTGAGTACTAAGTGTACGAAATTGGTCA
1 ATGAGCACTAAGTGTGCGAAATGAAATTGATACCGAGTACTAAGTGTACGAAATCGGTCA
* * * *
43414805 TTTG-GCACTAAGTGTGC-AAATTG-AATTTATACCGAGTACTAAGTGTACGAGATCGGTTA
1 -ATGAGCACTAAGTGTGCGAAA-TGAAATTGATACCGAGTACTAAGTGTACGAAATCGGTCA
43414864 ATGAGCACTAAGTGTGCGA
1 ATGAGCACTAAGTGTGCGA
43414883 GTTTATCTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
58 2 0.03
59 46 0.70
60 16 0.24
61 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (60 bp):
ATGAGCACTAAGTGTGCGAAATGAAATTGATACCGAGTACTAAGTGTACGAAATCGGTCA
Found at i:43418325 original size:46 final size:46
Alignment explanation
Indices: 43418273--43418494 Score: 261
Period size: 46 Copynumber: 4.8 Consensus size: 46
43418263 TGTAACCCAC
* * *
43418273 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43418319 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * * *
43418365 ACATCTCTCGAACTCAGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
43418412 CCATAAGTGAACTCTGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43418458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43418495 TGCCCAAACA
Statistics
Matches: 151, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
46 112 0.74
47 30 0.20
49 4 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:43424172 original size:37 final size:37
Alignment explanation
Indices: 43424131--43424209 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
43424121 GGTATCCCAT
43424131 ATTTTCCATATTTTTCTCATTTCCACCACACATTTAC
1 ATTTTCCATATTTTTCTCATTTCCACCACACATTTAC
*
43424168 ATTTTCCATATTTTTCTCATTTCCAGCACACATTTAC
1 ATTTTCCATATTTTTCTCATTTCCACCACACATTTAC
43424205 ATTTT
1 ATTTT
43424210 TTGCATGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.24, C:0.27, G:0.01, T:0.48
Consensus pattern (37 bp):
ATTTTCCATATTTTTCTCATTTCCACCACACATTTAC
Found at i:43426217 original size:48 final size:48
Alignment explanation
Indices: 43426165--43426333 Score: 232
Period size: 48 Copynumber: 3.5 Consensus size: 48
43426155 GTCTCGATGT
* *
43426165 CGATGCCATGTCCCAGACATGGTCTTACTCTAGCTCTCATAACATTGC
1 CGATGCCATGTTCCAAACATGGTCTTACTCTAGCTCTCATAACATTGC
* * *
43426213 CGATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGC
1 CGATGCCATGTTCCAAACATGGTCTTACTCTAGCTCTCATAACATTGC
* * * * *
43426261 CGATGTCATGTTCCAAACATGGTCTTACAT-TGGTTCTCATAACAATGT
1 CGATGCCATGTTCCAAACATGGTCTTAC-TCTAGCTCTCATAACATTGC
43426309 CGATGCCATGTTCCAAACATGGTCT
1 CGATGCCATGTTCCAAACATGGTCT
43426334 GATGCCATGT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACTCTAGCTCTCATAACATTGC
Found at i:43426231 original size:23 final size:23
Alignment explanation
Indices: 43426205--43426280 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
43426195 TAGCTCTCAT
43426205 AACATTGCCGATGTCATGTTCCA
1 AACATTGCCGATGTCATGTTCCA
* * *
43426228 AACATGGTC--T-TACACTGGCTCTCA
1 AACATTGCCGATGT-CA-T-GTTC-CA
43426252 TAACATTGCCGATGTCATGTTCCA
1 -AACATTGCCGATGTCATGTTCCA
43426276 AACAT
1 AACAT
43426281 GGTCTTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 1 0.03
23 15 0.38
24 4 0.10
25 10 0.26
26 1 0.03
27 3 0.08
28 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (23 bp):
AACATTGCCGATGTCATGTTCCA
Found at i:43426283 original size:96 final size:96
Alignment explanation
Indices: 43426119--43426333 Score: 254
Period size: 96 Copynumber: 2.2 Consensus size: 96
43426109 TAAATTACCA
* * * * ** * *
43426119 ATGTCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCTCGATGTCGATGCCATGTCCCAGACA
1 ATGTCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACGATGCCGATGCCATGTCCCAAACA
*
43426184 TGGTCTTAC-TCTAGCTCTCATAACATTGCCG
66 TGGTCTTACAT-TAGCTCTCATAACAATGCCG
* * *
43426215 ATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC-ATTGCCGATGTCATGTTCCAAAC
1 ATGTCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACGA-TGCCGATGCCATGTCCCAAAC
* * *
43426279 ATGGTCTTACATTGGTTCTCATAACAATGTCG
65 ATGGTCTTACATTAGCTCTCATAACAATGCCG
*
43426311 ATGCCATGTTCCAAACATGGTCT
1 ATGTCATGTTCCAAACATGGTCT
43426334 GATGCCATGT
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
95 1 0.01
96 99 0.98
97 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.32
Consensus pattern (96 bp):
ATGTCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACGATGCCGATGCCATGTCCCAAACA
TGGTCTTACATTAGCTCTCATAACAATGCCG
Found at i:43426337 original size:24 final size:24
Alignment explanation
Indices: 43426310--43426357 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
43426300 TAACAATGTC
43426310 GATGCCATGTTCCAAACATGGTCT
1 GATGCCATGTTCCAAACATGGTCT
43426334 GATGCCATGTTCCAAACATGGTCT
1 GATGCCATGTTCCAAACATGGTCT
43426358 TACACTGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (24 bp):
GATGCCATGTTCCAAACATGGTCT
Found at i:43427682 original size:48 final size:47
Alignment explanation
Indices: 43427624--43427760 Score: 150
Period size: 48 Copynumber: 2.9 Consensus size: 47
43427614 CATAGGTAAA
* * * *
43427624 AATAATAGTGTCTAGTTACCTGTTTGCGTTAAACCTACATGAATAATT
1 AATAATAGTGTCTGGTTACCTGTTAG-GTTAAACCTACATAAATAATG
* *
43427672 AATAATAGTGTCTGGTTA-CTCGTCAAGGTTAAACCTACACAAATAATG
1 AATAATAGTGTCTGGTTACCT-GT-TAGGTTAAACCTACATAAATAATG
* **
43427720 AATAATAGTGTTTGGTTACCCCTTAGGGTTAAACCTACATA
1 AATAATAGTGTCTGGTTACCTGTTA-GGTTAAACCTACATA
43427761 GTAGATAGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
47 3 0.04
48 69 0.93
49 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (47 bp):
AATAATAGTGTCTGGTTACCTGTTAGGTTAAACCTACATAAATAATG
Found at i:43430608 original size:29 final size:29
Alignment explanation
Indices: 43430573--43430630 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
43430563 TTTATATAAG
43430573 ATATTAATTATTATAAAAATAAATTTTGA
1 ATATTAATTATTATAAAAATAAATTTTGA
43430602 ATATTAATTATTATAAAAATAAATTTTGA
1 ATATTAATTATTATAAAAATAAATTTTGA
43430631 CGGTCAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
ATATTAATTATTATAAAAATAAATTTTGA
Found at i:43436334 original size:32 final size:32
Alignment explanation
Indices: 43436289--43436381 Score: 150
Period size: 32 Copynumber: 2.9 Consensus size: 32
43436279 TGTCAATCAT
* *
43436289 TTCAATTTTCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
43436321 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
43436353 TTAAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
43436382 CAATATCTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:43436405 original size:27 final size:27
Alignment explanation
Indices: 43436356--43436408 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
43436346 TAATAAATTA
*
43436356 AATATCTAACAAGCTTAAAACATAATC
1 AATATCTAACAAGATTAAAACATAATC
*
43436383 AATATCTAACAA-ATTCAAGACATAAT
1 AATATCTAACAAGATT-AAAACATAAT
43436409 AATTTCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (27 bp):
AATATCTAACAAGATTAAAACATAATC
Found at i:43436407 original size:59 final size:62
Alignment explanation
Indices: 43436299--43436420 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 62
43436289 TTCAATTTTC
*
43436299 AACAAGCTTAAAACATAATAAATTCAATATCCAACAAGCTTAAAACATAATAAATTAAATATCT
1 AACAAGCTTAAAAC--AATAAATTCAATATCCAACAAGATTAAAACATAATAAATTAAATATCT
* * * *
43436363 AACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATTCAAGACATAATAATTTCAATATC
1 AACAAGCTTAAAACAATAAATTCAATATCCAACAAGATT-AAAACATAATAAATTAAATATC
43436421 ATTATCCAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
58 2 0.04
59 32 0.62
60 2 0.04
61 2 0.04
64 14 0.27
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.27
Consensus pattern (62 bp):
AACAAGCTTAAAACAATAAATTCAATATCCAACAAGATTAAAACATAATAAATTAAATATCT
Found at i:43436417 original size:32 final size:31
Alignment explanation
Indices: 43436299--43436420 Score: 128
Period size: 32 Copynumber: 4.0 Consensus size: 31
43436289 TTCAATTTTC
*
43436299 AACAAGCTTAAAACATAATAAATTCAATATCC
1 AACAAGCTT-AAACATAATAAATTCAATATCT
*
43436331 AACAAGCTTAAAACATAATAAATTAAATATCT
1 AACAAGCTT-AAACATAATAAATTCAATATCT
*
43436363 AACAAGCTTAAA-A-CAT-AA-TCAATATCT
1 AACAAGCTTAAACATAATAAATTCAATATCT
* *
43436390 AACAA-ATTCAAGACATAATAATTTCAATATC
1 AACAAGCTT-AA-ACATAATAAATTCAATATC
43436421 ATTATCCAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 15 0.19
28 3 0.04
29 3 0.04
30 3 0.04
31 4 0.05
32 47 0.61
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.27
Consensus pattern (31 bp):
AACAAGCTTAAACATAATAAATTCAATATCT
Found at i:43444954 original size:46 final size:46
Alignment explanation
Indices: 43444887--43445062 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
43444877 TGTAACCCGC
*
43444887 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
43444933 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
43444979 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
43445026 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43445063 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.65
47 33 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:43445007 original size:93 final size:93
Alignment explanation
Indices: 43444895--43445065 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43444885 GCCCATAAGT
* *
43444895 GAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43444960 CGAGTTCAGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
43444988 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
43445053 TGAGTTCGGATGC
66 CGAGTTCAGATGC
43445066 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:43447050 original size:30 final size:30
Alignment explanation
Indices: 43447009--43447081 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
43446999 ACTTAAAAAA
* *
43447009 AAAAAAATTTAACAGTTTAAT-GACTTAAAT
1 AAAAAATTTTAACAGTTCAATAG-CTTAAAT
* * *
43447039 AAAAACTTTTAAATAGTTCAGTAGCTTAAAT
1 AAAAAATTTT-AACAGTTCAATAGCTTAAAT
43447070 AAAAAATTTTAA
1 AAAAAATTTTAA
43447082 ATAATTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 10 0.29
31 24 0.69
32 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (30 bp):
AAAAAATTTTAACAGTTCAATAGCTTAAAT
Found at i:43449379 original size:9 final size:9
Alignment explanation
Indices: 43449365--43449401 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
43449355 TATAGCTTGG
43449365 TATTCAATT
1 TATTCAATT
*
43449374 TATTCAAAT
1 TATTCAATT
*
43449383 TATTCAAGT
1 TATTCAATT
43449392 TATTCAATT
1 TATTCAATT
43449401 T
1 T
43449402 GAAAATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (9 bp):
TATTCAATT
Found at i:43451077 original size:43 final size:43
Alignment explanation
Indices: 43450997--43451153 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
43450987 TGATTATGTA
* * **
43450997 TAAGACCATGT-TTGGGACATTGACATCATTATGTGATTACATG
1 TAAGACCATATCTT-GGACATTGGCATTGTTATGTGATTACATG
* *
43451040 TAAGACCATATCTTGGACATTGGCATTGTTATTTGATTTCATG
1 TAAGACCATATCTTGGACATTGGCATTGTTATGTGATTACATG
* * ** * *
43451083 TAAGACCATAGC-TGGGCTATCAGCATTGATATGTGATAACATG
1 TAAGACCATATCTTGGAC-ATTGGCATTGTTATGTGATTACATG
* * *
43451126 TAAGACTATATCTGGGATA-TGGCATTGT
1 TAAGACCATATCTTGGACATTGGCATTGT
43451154 ACGAGCTATA
Statistics
Matches: 89, Mismatches: 22, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 10 0.11
43 75 0.84
44 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (43 bp):
TAAGACCATATCTTGGACATTGGCATTGTTATGTGATTACATG
Found at i:43453089 original size:12 final size:12
Alignment explanation
Indices: 43453072--43453098 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43453062 ATACACTCTT
43453072 GTGTGCTAGGCC
1 GTGTGCTAGGCC
43453084 GTGTGCTAGGCC
1 GTGTGCTAGGCC
43453096 GTG
1 GTG
43453099 CCAAACCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:43455240 original size:24 final size:24
Alignment explanation
Indices: 43455196--43455242 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
43455186 GATGGACAGT
*
43455196 AACGGTAAGCTCTGATAAGCTGAA
1 AACGGTAAGCTCTGACAAGCTGAA
* *
43455220 AACGGTAAGCTCTTACGAGCTGA
1 AACGGTAAGCTCTGACAAGCTGA
43455243 TATATCAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (24 bp):
AACGGTAAGCTCTGACAAGCTGAA
Found at i:43455792 original size:40 final size:40
Alignment explanation
Indices: 43455748--43455828 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
43455738 CCGAATTTAA
*
43455748 TACATGTTACTAGCAGCCCATATTTTCAATTTATTCACAC
1 TACATGTTACTACCAGCCCATATTTTCAATTTATTCACAC
43455788 TACATGTTACTACCAGCCCATATTTTCAATTTATTCACAC
1 TACATGTTACTACCAGCCCATATTTTCAATTTATTCACAC
43455828 T
1 T
43455829 TTTAACCACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.38
Consensus pattern (40 bp):
TACATGTTACTACCAGCCCATATTTTCAATTTATTCACAC
Found at i:43457743 original size:7 final size:7
Alignment explanation
Indices: 43457733--43457759 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
43457723 GATAATGCCC
43457733 GATAAAT
1 GATAAAT
43457740 GATAAAT
1 GATAAAT
43457747 GATAAAT
1 GATAAAT
43457754 GATAAA
1 GATAAA
43457760 ATGTTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:43465301 original size:25 final size:25
Alignment explanation
Indices: 43465272--43465319 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43465262 TTATAATATG
* * *
43465272 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43465297 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43465320 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43465388 original size:20 final size:20
Alignment explanation
Indices: 43465363--43465421 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
43465353 TAAATATGGT
43465363 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
43465383 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
43465403 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
43465422 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:43465403 original size:11 final size:11
Alignment explanation
Indices: 43465367--43465421 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
43465357 TATGGTATGT
43465367 ATGATATGCAC
1 ATGATATGCAC
* *
43465378 ATGAAATG--T
1 ATGATATGCAC
43465387 ATGATATGCAC
1 ATGATATGCAC
*
43465398 ATGATATG--T
1 ATGATATGCAC
43465407 ATGATATGCAC
1 ATGATATGCAC
43465418 ATGA
1 ATGA
43465422 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43465502 original size:23 final size:24
Alignment explanation
Indices: 43465472--43465566 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
43465462 GAGGAAGTGA
43465472 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
43465495 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43465519 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
43465543 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43465567 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:43465540 original size:47 final size:49
Alignment explanation
Indices: 43465473--43465566 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
43465463 AGGAAGTGAA
*
43465473 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
43465520 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
43465567 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:43465825 original size:38 final size:38
Alignment explanation
Indices: 43465758--43465917 Score: 214
Period size: 38 Copynumber: 4.4 Consensus size: 38
43465748 CGTTTACAGT
43465758 AAAGGCTTCGGCCCAG---TATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
43465793 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
43465824 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
43465862 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
43465900 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
43465918 GCATGATTGA
Statistics
Matches: 113, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
35 16 0.14
36 1 0.01
38 53 0.47
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:43465866 original size:69 final size:66
Alignment explanation
Indices: 43465758--43465894 Score: 238
Period size: 69 Copynumber: 2.0 Consensus size: 66
43465748 CGTTTACAGT
43465758 AAAGGCTTCGGCCCAGTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATATG
1 AAAGGCTTCGGCCCAGTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATATG
43465823 A
66 A
*
43465824 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAG---TATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
43465889 ATGA
63 ATGA
43465893 AA
1 AA
43465895 TATGAAAAGG
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
66 16 0.24
69 51 0.76
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (66 bp):
AAAGGCTTCGGCCCAGTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATATG
A
Found at i:43473733 original size:20 final size:20
Alignment explanation
Indices: 43473708--43473766 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
43473698 TAAATATGGT
43473708 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
43473728 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
43473748 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
43473767 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:43473748 original size:11 final size:11
Alignment explanation
Indices: 43473712--43473766 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
43473702 TATGGTATGT
43473712 ATGATATGCAC
1 ATGATATGCAC
* *
43473723 ATGAAATG--T
1 ATGATATGCAC
43473732 ATGATATGCAC
1 ATGATATGCAC
*
43473743 ATGATATG--T
1 ATGATATGCAC
43473752 ATGATATGCAC
1 ATGATATGCAC
43473763 ATGA
1 ATGA
43473767 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43473847 original size:23 final size:24
Alignment explanation
Indices: 43473817--43473910 Score: 122
Period size: 23 Copynumber: 4.0 Consensus size: 24
43473807 GAGGAAGTGA
43473817 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
43473840 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
43473864 GAAAGGGCTT-TGGCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43473887 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43473911 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
23 39 0.63
24 15 0.24
25 8 0.13
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:43473890 original size:47 final size:48
Alignment explanation
Indices: 43473818--43473910 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 48
43473808 AGGAAGTGAA
*
43473818 AAAGGGCTTATGCCCCAGTTATAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATAAAAGAGGC-TAGGCCTCCAGTTATTG
*
43473865 AAAGGGCTT-TGGCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGAGGCTAGGCCTCCAGTTAT
43473911 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
46 10 0.24
47 20 0.49
48 11 0.27
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:43474153 original size:38 final size:38
Alignment explanation
Indices: 43474102--43474265 Score: 225
Period size: 38 Copynumber: 4.5 Consensus size: 38
43474092 TGTTTACAGT
43474102 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAACATGA
*
43474140 AAAGGCTTCGGCCCA--G---T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAACATGA
*
43474171 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAACATGA
* *
43474209 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAACATGA
*
43474247 AAAGGGCTACGGCCCAGTG
1 AAA-GGCTTCGGCCCAGTG
43474266 CATGATTGAG
Statistics
Matches: 112, Mismatches: 6, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
31 28 0.25
33 1 0.01
36 2 0.02
38 68 0.61
39 13 0.12
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTGTTATGAAATATGAAACATGA
Found at i:43474164 original size:31 final size:31
Alignment explanation
Indices: 43474126--43474241 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
43474116 AGTGTTATGA
43474126 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
43474157 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
43474193 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
43474226 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
43474242 TATGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:43474178 original size:69 final size:69
Alignment explanation
Indices: 43474102--43474241 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
43474092 TGTTTACAGT
*
43474102 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
43474167 ATGA
66 ATGA
*
43474171 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
43474236 ATGA
66 ATGA
43474240 AA
1 AA
43474242 TATGAAAAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:43477307 original size:5 final size:5
Alignment explanation
Indices: 43477293--43477322 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
43477283 ATGAAAAGTT
43477293 TCTT- TCTTC TCTTC TCTTC TCTTC TCTTC T
1 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC T
43477323 TCCTAACGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (5 bp):
TCTTC
Found at i:43485168 original size:24 final size:24
Alignment explanation
Indices: 43485136--43485221 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
43485126 AATCTCAAAT
43485136 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
43485160 GCACTATGTGTGCGA-TTACTATA
1 GCACTATGTGTGCGATTTACTATG
43485183 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
43485207 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
43485222 ACATAATAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
23 22 0.37
24 37 0.63
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:43485190 original size:47 final size:48
Alignment explanation
Indices: 43485136--43485243 Score: 177
Period size: 47 Copynumber: 2.3 Consensus size: 48
43485126 AATCTCAAAT
43485136 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTAC-T-AT-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA--ACATAATAA
43485183 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
43485231 GCACTATGTGTGC
1 GCACTATGTGTGC
43485244 AACGTTTGGT
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
45 2 0.03
46 1 0.02
47 41 0.71
48 14 0.24
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:43485234 original size:24 final size:23
Alignment explanation
Indices: 43485136--43485243 Score: 85
Period size: 24 Copynumber: 4.6 Consensus size: 23
43485126 AATCTCAAAT
** * *
43485136 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGAACTAATA-A
43485160 GCACTATGTGTGCGATTACT-AT-A
1 GCACTATGTGTGCGA--ACTAATAA
** * *
43485183 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGAACTAATA-A
43485207 GCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGAAC-TAATAA
43485231 GCACTATGTGTGC
1 GCACTATGTGTGC
43485244 AACGTTTGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 15 0.23
24 43 0.65
25 5 0.08
26 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (23 bp):
GCACTATGTGTGCGAACTAATAA
Found at i:43491794 original size:27 final size:27
Alignment explanation
Indices: 43491740--43491800 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
43491730 GTTGACGAGT
43491740 TGGGGTTCGCCAGTCCTTTTGGCAAGC
1 TGGGGTTCGCCAGTCCTTTTGGCAAGC
* * **
43491767 TTGGGTTCGCTAGT-CTATTTGGTGAGC
1 TGGGGTTCGCCAGTCCT-TTTGGCAAGC
43491794 TGGGGTT
1 TGGGGTT
43491801 TTCCATTCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.10, C:0.18, G:0.36, T:0.36
Consensus pattern (27 bp):
TGGGGTTCGCCAGTCCTTTTGGCAAGC
Found at i:43494016 original size:40 final size:40
Alignment explanation
Indices: 43493931--43494081 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
43493921 AATTGAATGA
* * * *
43493931 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
43493971 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
43494012 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
43494051 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
43494082 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:43494095 original size:40 final size:40
Alignment explanation
Indices: 43493968--43494097 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
43493958 ATGCTGGAAA
* * *
43493968 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
43494008 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
43494048 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
43494088 TTATATCCGG
1 TTATATCCGG
43494098 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:43494096 original size:80 final size:80
Alignment explanation
Indices: 43493930--43494097 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
43493920 AAATTGAATG
* *
43493930 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
43493995 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
43494010 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
43494073 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
43494090 ATATCCGG
1 ATATCCGG
43494098 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:43501790 original size:40 final size:40
Alignment explanation
Indices: 43501724--43501874 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
43501714 AAATTGAATG
* *
43501724 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
43501763 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
43501803 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
43501843 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43501875 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:43501888 original size:40 final size:40
Alignment explanation
Indices: 43501761--43501890 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
43501751 ATGCTGGAAA
* * *
43501761 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
43501801 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
43501841 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
43501881 TTATATCCGG
1 TTATATCCGG
43501891 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:43501889 original size:80 final size:79
Alignment explanation
Indices: 43501724--43501890 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
43501714 AAATTGAATG
*
43501724 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
43501789 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
43501803 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
43501866 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
43501883 ATATCCGG
1 ATATCCGG
43501891 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:43506059 original size:27 final size:27
Alignment explanation
Indices: 43506011--43506062 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
43506001 GACTACCCCG
43506011 TGTTTAACGTCCCATCAAACTATCTCA
1 TGTTTAACGTCCCATCAAACTATCTCA
* * *
43506038 TGTTTAATGTCCCATTAGACTATCT
1 TGTTTAACGTCCCATCAAACTATCT
43506063 TTGCTGTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (27 bp):
TGTTTAACGTCCCATCAAACTATCTCA
Found at i:43511693 original size:49 final size:49
Alignment explanation
Indices: 43511637--43511998 Score: 607
Period size: 49 Copynumber: 7.4 Consensus size: 49
43511627 TACATATATG
* * *
43511637 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
43511686 TGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
43511735 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
43511784 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43511833 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
43511882 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43511931 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
43511980 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
43511999 TAATGTAAAA
Statistics
Matches: 299, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 299 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:43512150 original size:37 final size:37
Alignment explanation
Indices: 43512100--43512221 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
43512090 GGAATATGTT
*
43512100 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
43512137 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
43512174 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
43512211 CCGGGTAAGAC
1 CCGGGTAAGAC
43512222 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:43521268 original size:40 final size:40
Alignment explanation
Indices: 43521210--43521386 Score: 282
Period size: 40 Copynumber: 4.4 Consensus size: 40
43521200 GGCTCGGATG
*
43521210 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
* *
43521250 TATTAACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
* *
43521290 TAGTAACCCGCACGAATGCCTTCGGGACTTACCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
* *
43521330 TAATAACCAGCACGAATGCCTTCGGGACTTAACCTGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
43521370 CAATAACCCGCACGAAT
1 TAATAACCCGCACGAAT
43521387 ACTATGCACA
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
Found at i:43523293 original size:27 final size:28
Alignment explanation
Indices: 43523263--43523324 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
43523253 TCGATATTTT
43523263 GCACACT-AGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
43523290 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
43523318 GTACACT
1 GCACACT
43523325 GAGTACCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.34
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:43528316 original size:28 final size:28
Alignment explanation
Indices: 43528282--43528434 Score: 132
Period size: 29 Copynumber: 5.5 Consensus size: 28
43528272 AACCGATCTT
***
43528282 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** *
43528310 GCACACACAGTGCCTCAACAAC-CAATCTC
1 GCACACACAGTG-CTCAATTACGGAA-CTC
43528339 GCACACACAGTGCTCAATTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** ** *
43528367 GCACACACAGTGCCTCAACAACATATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
***
43528396 GCACACACAGTGCTTGGTTACGGAACT-
1 GCACACACAGTGCTCAATTACGGAACTC
43528423 -CACACACAGTGC
1 GCACACACAGTGC
43528435 CTATGTTCAC
Statistics
Matches: 99, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
26 12 0.12
28 43 0.43
29 44 0.44
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.18
Consensus pattern (28 bp):
GCACACACAGTGCTCAATTACGGAACTC
Found at i:43528343 original size:57 final size:57
Alignment explanation
Indices: 43528252--43528436 Score: 268
Period size: 57 Copynumber: 3.2 Consensus size: 57
43528242 GATCTCATTT
* * *
43528252 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCAATCTCGCACACACAGTGCTTGGTTACGGAACTCG
***
43528311 CACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTCAATTACGGAACTCG
1 CACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTTGGTTACGGAACTCG
43528368 CACACACAGTGCCTCAACAA-CATATCTCGCACACACAGTGCTTGGTTACGGAACT--
1 CACACACAGTGCCTCAACAACCA-ATCTCGCACACACAGTGCTTGGTTACGGAACTCG
43528423 CACACACAGTGCCT
1 CACACACAGTGCCT
43528437 ATGTTCACTT
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
55 14 0.12
56 2 0.02
57 93 0.80
59 7 0.06
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTTGGTTACGGAACTCG
Found at i:43528348 original size:29 final size:29
Alignment explanation
Indices: 43528307--43528408 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 29
43528297 GGTTACGGAA
43528307 CTCGCACACACAGTGCCTCAACAACCAAT
1 CTCGCACACACAGTGCCTCAACAACCAAT
** *
43528336 CTCGCACACACAGTG-CTCAATTACGGAA-
1 CTCGCACACACAGTGCCTCAACAAC-CAAT
43528364 CTCGCACACACAGTGCCTCAACAA-CATAT
1 CTCGCACACACAGTGCCTCAACAACCA-AT
43528393 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
43528409 TTGGTTACGG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.02
28 23 0.37
29 39 0.62
ACGTcount: A:0.32, C:0.38, G:0.14, T:0.16
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCAAT
Found at i:43530423 original size:26 final size:26
Alignment explanation
Indices: 43530394--43530453 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
43530384 TCCCTTTGAA
* * * *
43530394 TCATTCGATATTTTGCACACTATGTG
1 TCATTCAATATCTCGCACACTAAGTG
43530420 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
43530448 TCATTC
1 TCATTC
43530454 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:43530439 original size:28 final size:28
Alignment explanation
Indices: 43530408--43530470 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
43530398 TCGATATTTT
*
43530408 GCACACTATGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
43530436 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
43530464 GTACACT
1 GCACACT
43530471 GAGTACCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:43530621 original size:33 final size:33
Alignment explanation
Indices: 43530582--43530647 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
43530572 GCATTAGAAA
43530582 CATCAATTTAACAATGCTTATTGCATACGAACT
1 CATCAATTTAACAATGCTTATTGCATACGAACT
43530615 CATCAATTTAACAATGCTTATTGCATACGAACT
1 CATCAATTTAACAATGCTTATTGCATACGAACT
43530648 TACCTGGCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (33 bp):
CATCAATTTAACAATGCTTATTGCATACGAACT
Found at i:43540220 original size:40 final size:40
Alignment explanation
Indices: 43540086--43540260 Score: 273
Period size: 39 Copynumber: 4.4 Consensus size: 40
43540076 GGCTCGGATG
*
43540086 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
* * *
43540126 T-ATAACCCGCATGAATGCCTTCGGGACATAGCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
* *
43540165 -AATAACTCGCACGAATGCCTTCGGGACTTACCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
43540204 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
43540244 TAATAACCCGTACGAAT
1 TAATAACCCGCACGAAT
43540261 ACTATGCACA
Statistics
Matches: 122, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 68 0.56
40 54 0.44
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
Found at i:43555995 original size:46 final size:45
Alignment explanation
Indices: 43555831--43556191 Score: 329
Period size: 47 Copynumber: 7.8 Consensus size: 45
43555821 TCATATAAGC
* *
43555831 GTGCTGATGCATGTCCCAGACATGTCTTACACTAGCA-CATCTCTT
1 GTGCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCT-TT
* ** * * *
43555876 -AGCCGATGTGTGTCCCAAACACGTCTTACACTGGCTATC-TCTGTC
1 GTGCCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCT-TT
* *
43555921 GAGGCCAATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTT
1 G-TGCCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTTT
*
43555968 GTGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCT
1 GTGCCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTTT
* *
43556014 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTAT
1 GTGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCAT-CTTT
* * * * *
43556063 G-GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTC-TG
1 GTGCCGATGCATGTCCCAGACATGTCTTACACT-GGCATCATCTTT
* **
43556107 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTATCAT-AAT
1 G-TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGG-CATCATCTTT
* *
43556155 GTGGCCAAAGCATGTCCCAGACATGTCTTACACTGGC
1 GT-GCCGATGCATGTCCCAGACATGTCTTACACTGGC
43556192 GCACAAATCA
Statistics
Matches: 260, Mismatches: 38, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
44 29 0.11
45 5 0.02
46 84 0.32
47 93 0.36
48 45 0.17
49 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GTGCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTTT
Found at i:43556081 original size:94 final size:94
Alignment explanation
Indices: 43555836--43556191 Score: 367
Period size: 94 Copynumber: 3.8 Consensus size: 94
43555826 TAAGCGTGCT
* * * * ** *
43555836 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-A-CAT-CTCTTAGCCGATGTGTGTCCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-ATGGCCGATGCATGTCCCAGAC
* *
43555896 ACGTCTTACACTGGCTA-TC-TCTGTCGAGGCC
65 ATGTCTTACACTGGC-ACTCATCTG--GATGCC
* * *
43555927 AATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCAT-CTTTGTGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATAATATG-GCCGATGCATGTCCCAGA
*
43555988 CATGTCTTACACTGGCACTCATCTCTG-TGCC
64 CATGTCTTACACTGGCACTCATCT-GGATGCC
* *
43556019 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCCGATGCATGTCCCAGACA
* * *
43556084 TGTCTTACACTAGCCCTCGTCTGGATGCC
66 TGTCTTACACTGGCACTCATCTGGATGCC
* * * *
43556113 GATGCCATGTCCCAGACATGGTCTTACACTGGTTATCATAATGTGGCCAAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCCGATGCATGTCCCAGACA
43556178 TGTCTTACACTGGC
66 TGTCTTACACTGGC
43556192 GCACAAATCA
Statistics
Matches: 230, Mismatches: 24, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
91 30 0.13
92 9 0.04
93 53 0.23
94 134 0.58
95 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCCGATGCATGTCCCAGACA
TGTCTTACACTGGCACTCATCTGGATGCC
Found at i:43556572 original size:30 final size:30
Alignment explanation
Indices: 43556531--43556588 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
43556521 AAATTTACAT
* * *
43556531 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATAACCATTTTACCCCTAGA
43556561 CTTTGGCAAAATAACCATTTTACCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
43556589 TGCCCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGA
Found at i:43578014 original size:29 final size:30
Alignment explanation
Indices: 43577971--43578033 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
43577961 ATTAAGCTAG
* *
43577971 AACGGATTCATAAACA-TAAAAATATTAAA
1 AACGAATTCAAAAACATTAAAAATATTAAA
43578000 AACGAATTCAAAAACATTAAAAATATTAAA
1 AACGAATTCAAAAACATTAAAAATATTAAA
43578030 AACG
1 AACG
43578034 GGATCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.22
Consensus pattern (30 bp):
AACGAATTCAAAAACATTAAAAATATTAAA
Found at i:43586421 original size:40 final size:40
Alignment explanation
Indices: 43586366--43586533 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
43586356 TGAATGATAC
* *
43586366 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
43586406 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
43586446 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
43586486 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
43586526 CC-GGCTAA
1 CCGGGCTAA
43586534 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:43594438 original size:40 final size:40
Alignment explanation
Indices: 43594383--43594590 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
43594373 TGAATGATAC
* *
43594383 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
43594423 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
43594463 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
43594503 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
43594543 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
43594583 CC-GGCTAA
1 CCGGGCTAA
43594591 AGTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:43596478 original size:27 final size:27
Alignment explanation
Indices: 43596436--43596530 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 27
43596426 CCTCCCACAT
* * *
43596436 CCTCGTATTTATCATCCTAGCAGACTA
1 CCTCGTGTTTAACATCCCAGCAGACTA
***
43596463 CCTCGTGTTTAACATCCCATTGGACTA
1 CCTCGTGTTTAACATCCCAGCAGACTA
* * * *
43596490 CCCCATGTTTAACATCCCATCAAACTA
1 CCTCGTGTTTAACATCCCAGCAGACTA
*
43596517 TCCT-ATGTTTAACA
1 -CCTCGTGTTTAACA
43596531 CCTCGTCAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 53 0.96
28 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (27 bp):
CCTCGTGTTTAACATCCCAGCAGACTA
Found at i:43596539 original size:27 final size:27
Alignment explanation
Indices: 43596468--43596545 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
43596458 GACTACCTCG
*** * *
43596468 TGTTTAACATCCCATTGGACTACCCCA
1 TGTTTAACATCCCATCAAACTATCCTA
43596495 TGTTTAACATCCCATCAAACTATCCTA
1 TGTTTAACATCCCATCAAACTATCCTA
*
43596522 TGTTTAACA-CCTCGTCAAACTATC
1 TGTTTAACATCC-CATCAAACTATC
43596546 TTTGATACCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 42 0.95
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (27 bp):
TGTTTAACATCCCATCAAACTATCCTA
Found at i:43600167 original size:48 final size:48
Alignment explanation
Indices: 43600091--43600319 Score: 236
Period size: 48 Copynumber: 4.9 Consensus size: 48
43600081 ACACATGGTA
* ** * *
43600091 CGATGCCAATGCCATATTTCGGATATGGTCTTACATGGGATCACATAT
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
** *
43600139 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGAT
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
* *
43600187 TGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAT
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
* * * ** *
43600235 CGATGCCGAT---A-G-CCCAG-CTACGGTCTTACACGAAATTACATAT
1 CGATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATAT
* * *
43600278 AGATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATC
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
43600320 GCACATAACC
Statistics
Matches: 144, Mismatches: 30, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 108 0.75
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
Found at i:43615107 original size:46 final size:46
Alignment explanation
Indices: 43615050--43615168 Score: 211
Period size: 46 Copynumber: 2.6 Consensus size: 46
43615040 TTTGGGCATT
43615050 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
*
43615096 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* *
43615142 TGAACTCGTTGAGTTGAGTCTGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
43615169 GAGAGATGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:43619705 original size:47 final size:47
Alignment explanation
Indices: 43619654--43620172 Score: 837
Period size: 47 Copynumber: 11.1 Consensus size: 47
43619644 TTTAGGATTT
43619654 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43619701 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATAGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* *
43619748 AATGTGACGAATGTGAACATGCATATATGTGAT-AGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43619794 AATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43619841 AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* * *
43619888 AATGTGACGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
43619935 AATGTGATGAATGTGAACATGCACATATGTGAT-AGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43619981 AATGTGATGATTGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* * *
43620028 AATGTGATAAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
43620075 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* * * * * * *
43620122 AATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCACATATGTGATAAGGCCGAATGGCC
43620169 AATG
1 AATG
43620173 CGAAATGCGT
Statistics
Matches: 440, Mismatches: 29, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 89 0.20
47 348 0.79
48 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
Found at i:43619806 original size:140 final size:141
Alignment explanation
Indices: 43619654--43620172 Score: 882
Period size: 140 Copynumber: 3.7 Consensus size: 141
43619644 TTTAGGATTT
43619654 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
43619719 ATGCACATATGTGATAAGGCCGAATAGCCAATGTGACGAATGTGAACATGCATATATGTGAT-AG
66 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCATATGTGTGATAAG
43619783 GCCGAATGGCC
131 GCCGAATGGCC
* *
43619794 AATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
43619859 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCATATGTGTGATAAG
66 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCATATGTGTGATAAG
43619924 GCCGAATGGCC
131 GCCGAATGGCC
*
43619935 AATGTGATGAATGTGAACATGCACATATGTGAT-AGGCCGAATGGCCAATGTGATGATTGTGAAC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
**
43619999 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATGTGTGATAAG
66 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCATATGTGTGATAAG
43620064 GCCGAATGGCC
131 GCCGAATGGCC
*
43620075 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGGAA
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAA
* * * * * *
43620140 -GTGTATATATGTGGTAAAGCCGAATGGCTAATG
65 CATGCACATATGTGATAAGGCCGAATGGCCAATG
43620173 CGAAATGCGT
Statistics
Matches: 359, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
140 259 0.72
141 97 0.27
142 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (141 bp):
AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
ATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCATATGTGTGATAAG
GCCGAATGGCC
Found at i:43620010 original size:25 final size:24
Alignment explanation
Indices: 43619655--43620013 Score: 83
Period size: 23 Copynumber: 15.3 Consensus size: 24
43619645 TTAGGATTTA
43619655 ATGTGATGAATGTGAACATGCACAT
1 ATGTGATG-ATGTGAACATGCACAT
* * *
43619680 ATGTGATAAGGCCG-A-ATGGC-CA-
1 ATGTGATGATG-TGAACAT-GCACAT
43619702 ATGTGATGAATGTGAACATGCACAT
1 ATGTGATG-ATGTGAACATGCACAT
* * * *
43619727 ATGTGATAAGGCCGAATA-GC-CA-
1 ATGTGATGATG-TGAACATGCACAT
* *
43619749 ATGTGACGAATGTGAACATGCATAT
1 ATGTGATG-ATGTGAACATGCACAT
* *
43619774 ATGTGAT-AGGCCG-A-ATGGC-CA-
1 ATGTGATGATG-TGAACAT-GCACAT
*
43619795 ATGTGACGAATGTGAACATGCACAT
1 ATGTGATG-ATGTGAACATGCACAT
* * *
43619820 ATGTGATAAGGCCG-A-ATGGC-CA-
1 ATGTGATGATG-TGAACAT-GCACAT
*
43619842 ATGTGATAAATGTGAACATGCACAT
1 ATGTGAT-GATGTGAACATGCACAT
* * *
43619867 ATGTGATAAGGCCG-A-ATGGC-CA-
1 ATGTGATGATG-TGAACAT-GCACAT
* *
43619889 ATGTGACGAATGTGAACATGCATAT
1 ATGTGATG-ATGTGAACATGCACAT
* * * *
43619914 GTGTGATAAGGCCG-A-ATGGC-CA-
1 ATGTGATGATG-TGAACAT-GCACAT
43619936 ATGTGATGAATGTGAACATGCACAT
1 ATGTGATG-ATGTGAACATGCACAT
* *
43619961 ATGTGAT-AGGCCG-A-ATGGC-CA-
1 ATGTGATGATG-TGAACAT-GCACAT
43619982 ATGTGATGATTGTGAACATGCACAT
1 ATGTGATGA-TGTGAACATGCACAT
43620007 ATGTGAT
1 ATGTGAT
43620014 AAGGCCGAAT
Statistics
Matches: 235, Mismatches: 50, Indels: 98
0.61 0.13 0.26
Matches are distributed among these distances:
21 13 0.06
22 50 0.21
23 61 0.26
24 51 0.22
25 60 0.26
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (24 bp):
ATGTGATGATGTGAACATGCACAT
Found at i:43620152 original size:187 final size:187
Alignment explanation
Indices: 43619654--43620172 Score: 860
Period size: 187 Copynumber: 2.8 Consensus size: 187
43619644 TTTAGGATTT
*
43619654 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* *
43619719 ATGCACATATGTGATAAGGCCGAATAGCCAATGTGACGAATGTGAACATGCATATATGTGATAGG
66 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAGG
43619784 CCGAATGGCCAATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
131 CCGAATGGCCAATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43619841 AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAAC
1 AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * *
43619906 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCACATATGTGATAGG
66 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAGG
* *
43619971 CCGAATGGCCAATGTGATGATTGTGAACATGCACATATGTGATAAGGCCGAATGGCC
131 CCGAATGGCCAATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* *
43620028 AATGTGATAAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
* * * *
43620093 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGGAA-GTGTATATATGTGGTAA
66 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGCATATATGTGAT-A
* *
43620157 AGCCGAATGGCTAATG
129 GGCCGAATGGCCAATG
43620173 CGAAATGCGT
Statistics
Matches: 309, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
187 291 0.94
188 18 0.06
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (187 bp):
AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAGG
CCGAATGGCCAATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
Found at i:43620200 original size:46 final size:46
Alignment explanation
Indices: 43620145--43620237 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
43620135 TGGAAGTGTA
* *
43620145 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATGCGTATGAGATG
1 TATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATG
* * *
43620191 TATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 TATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATG
43620237 T
1 T
43620238 GTATATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (46 bp):
TATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATG
Found at i:43621782 original size:40 final size:40
Alignment explanation
Indices: 43621729--43622167 Score: 662
Period size: 40 Copynumber: 11.0 Consensus size: 40
43621719 TTGAGAGTTA
43621729 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
43621769 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
43621809 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
43621849 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
43621889 TATATCCGGGTTAAGTCCCGAAGAGCATACGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
43621929 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTCGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
43621969 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
43622009 TATATCAGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
43622049 TATATCCGGGCTAAATCTCGAAGAGCATTCGTGCTGGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
43622089 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTACTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
43622129 TATATCTGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
43622168 ATGTGTATTC
Statistics
Matches: 364, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 364 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:43622381 original size:25 final size:25
Alignment explanation
Indices: 43622331--43622383 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
43622321 TGTGTAACAA
* *
43622331 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
43622356 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
43622381 CAA
1 CAA
43622384 GTTCTTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:43625937 original size:47 final size:47
Alignment explanation
Indices: 43625886--43626406 Score: 846
Period size: 47 Copynumber: 11.1 Consensus size: 47
43625876 TTTAGGATTT
43625886 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
43625933 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* * *
43625980 AATGTGACGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43626027 AATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43626074 AATGTGATAAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* * *
43626121 AATGTGACGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43626168 AATGTGATGAATGTGAACATGCACATATGTGATAGGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
*
43626215 AATGTGATGATTGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* * *
43626262 AATGTGATAAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
43626309 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
* * * * * * *
43626356 AATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCACATATGTGATAAGGCCGAATGGCC
43626403 AATG
1 AATG
43626407 CGAAATGCGT
Statistics
Matches: 442, Mismatches: 31, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
47 439 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCC
Found at i:43626244 original size:25 final size:25
Alignment explanation
Indices: 43626216--43626341 Score: 74
Period size: 25 Copynumber: 5.3 Consensus size: 25
43626206 CGAATGGCCA
*
43626216 ATGTGATGATTGTGAACATGCACAT
1 ATGTGATGAATGTGAACATGCACAT
* *
43626241 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCACAT
* *
43626263 ATGTGATAAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCACAT
* * *
43626288 GTGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCACAT
43626310 ATGTGATGAATGTGAACATGCACAT
1 ATGTGATGAATGTGAACATGCACAT
43626335 ATGTGAT
1 ATGTGAT
43626342 AAGGCCGAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 28
0.64 0.11 0.24
Matches are distributed among these distances:
22 15 0.20
23 19 0.26
24 18 0.24
25 22 0.30
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCACAT
Found at i:43626435 original size:46 final size:46
Alignment explanation
Indices: 43626380--43626470 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
43626370 GGAAGTGTAT
* *
43626380 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGCGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
* * *
43626426 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATG
43626471 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
Found at i:43628652 original size:15 final size:15
Alignment explanation
Indices: 43628613--43628692 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
43628603 ATATCTTGGG
*
43628613 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
43628628 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
43628643 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
43628658 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
43628673 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
43628687 TTTCTT
1 TTTCTT
43628693 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:43628682 original size:30 final size:30
Alignment explanation
Indices: 43628604--43628691 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
43628594 CATAGTATCA
* * *
43628604 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
43628634 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
43628664 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
43628692 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:43632867 original size:15 final size:15
Alignment explanation
Indices: 43632847--43632924 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
43632837 CATAGTATCG
*
43632847 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
43632862 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
43632877 TAT-TCTGGATTTCTT
1 TATCT-TGGATTTCTT
* *
43632892 TATTCTAGG-TTTCTC
1 TA-TCTTGGATTTCTT
*
43632907 TATCTTGGATTTTTT
1 TATCTTGGATTTCTT
43632922 TAT
1 TAT
43632925 TCGGTTTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.12
15 41 0.80
16 3 0.06
17 1 0.02
ACGTcount: A:0.13, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:43635355 original size:46 final size:46
Alignment explanation
Indices: 43635302--43635477 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
43635292 TATTTGGGCA
43635302 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
43635348 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
43635395 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43635441 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43635478 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43635457 original size:93 final size:93
Alignment explanation
Indices: 43635298--43635470 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
43635288 GGGATATTTG
* *
43635298 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
43635363 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
43635391 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
43635456 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
43635471 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:43639792 original size:17 final size:18
Alignment explanation
Indices: 43639772--43639805 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43639762 AAGTGAATTG
*
43639772 AAATTGC-GAAGTTAAAT
1 AAATTGCAGAAATTAAAT
43639789 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
43639806 ATGAGGAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:43640566 original size:27 final size:26
Alignment explanation
Indices: 43640536--43640597 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
43640526 AGATAATTAA
43640536 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
43640563 AATAATTATCTTAACATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
43640590 AATAAAAT
1 AATAAAAT
43640598 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Done.