Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 184 of 318
Found at i:57628189 original size:82 final size:81
Alignment explanation
Indices: 57628071--57628226 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57628061 TGCTATATAA
* *
57628071 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
57628136 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57628153 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57628217 CACTTAGTGC
65 CACTTAGTGC
57628227 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57635728 original size:27 final size:27
Alignment explanation
Indices: 57635698--57635875 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57635688 ATATTGAGTC
* * * *
57635698 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
57635725 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57635752 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
57635780 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
57635807 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
57635834 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57635861 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57635876 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:57635837 original size:82 final size:81
Alignment explanation
Indices: 57635719--57635874 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57635709 TGCTATATAA
* *
57635719 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
57635784 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57635801 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57635865 CACTTAGTGC
65 CACTTAGTGC
57635875 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57638689 original size:27 final size:27
Alignment explanation
Indices: 57638658--57638835 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57638648 TAAATTGTAC
57638658 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57638685 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57638711 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57638739 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57638767 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57638794 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57638821 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57638836 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57638772 original size:82 final size:81
Alignment explanation
Indices: 57638659--57638814 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57638649 AAATTGTACA
* *
57638659 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57638723 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57638740 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57638805 TGCGAGTTGA
65 TGCGAATTGA
57638815 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57638826 original size:82 final size:81
Alignment explanation
Indices: 57638655--57638835 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57638645 GATTAAATTG
* *
57638655 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57638720 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57638736 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57638800 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57638818 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57638836 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57643057 original size:77 final size:78
Alignment explanation
Indices: 57642965--57643121 Score: 271
Period size: 77 Copynumber: 2.0 Consensus size: 78
57642955 TGTGAATATA
57642965 TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGCGAGAATTATATCCGGA-TT
1 TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGCGAGAATTATATCCGGACTT
57643029 CAGGTCCGCAGGC
66 CAGGTCCGCAGGC
* * *
57643042 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGCTATATGCGAGAATTATATCCGGACTT
1 TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGCGAGAATTATATCCGGACTT
*
57643107 TAGGTCCGCAGGC
66 CAGGTCCGCAGGC
57643120 TA
1 TA
57643122 CGTGCTGGAC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 59 0.79
78 16 0.21
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (78 bp):
TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGCGAGAATTATATCCGGACTT
CAGGTCCGCAGGC
Found at i:57643138 original size:39 final size:39
Alignment explanation
Indices: 57642965--57643121 Score: 271
Period size: 39 Copynumber: 4.1 Consensus size: 39
57642955 TGTGAATATA
*
57642965 TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
57643004 TATAAGCGAGAATTATATCCGGA-TTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
57643042 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
57643081 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
57643120 TA
1 TA
57643122 CGTGCTGGAC
Statistics
Matches: 112, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 37 0.33
39 75 0.67
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:57649442 original size:20 final size:20
Alignment explanation
Indices: 57649414--57649453 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57649404 ACCACCACTG
*
57649414 GTTCACTTCTCCATCAGTTC
1 GTTCACTTCCCCATCAGTTC
* *
57649434 GTTCCCTTCCCCATCGGTTC
1 GTTCACTTCCCCATCAGTTC
57649454 TTTCTTTCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.40, G:0.12, T:0.38
Consensus pattern (20 bp):
GTTCACTTCCCCATCAGTTC
Found at i:57674827 original size:45 final size:45
Alignment explanation
Indices: 57674777--57675027 Score: 423
Period size: 45 Copynumber: 5.6 Consensus size: 45
57674767 CTGGCACTTC
* *
57674777 GCCTGCTAGGCTTGAAA-GCCCGAATAGTATTTCACCAGCATTGTA
1 GCCTGCTAGGC-TCAAAGGCCCGAATAGTATTTCACCGGCATTGTA
* *
57674822 GCCTGCTAGGCTCAAAGGCCCAAATAGTATTTCATCGGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTGTA
57674867 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTGTA
* *
57674912 GCCTGCTAGGCTCAAAGGCCCAAATAGTATTTCATCGGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTGTA
*
57674957 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATTGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTGTA
57675002 GCCTGCTAGGCTCAAAGGCCCGAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATA
57675028 TTACTATACA
Statistics
Matches: 194, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
44 4 0.02
45 190 0.98
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTGTA
Found at i:57685787 original size:20 final size:20
Alignment explanation
Indices: 57685743--57685789 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57685733 GTAAGCTCGG
*
57685743 TTGAGCTCAAACGAGCTAAA
1 TTGAGCTCAAACGAACTAAA
* * *
57685763 CTGAGCTCAAATGAACTGAA
1 TTGAGCTCAAACGAACTAAA
57685783 TTGAGCT
1 TTGAGCT
57685790 GGATGGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (20 bp):
TTGAGCTCAAACGAACTAAA
Found at i:57687481 original size:17 final size:17
Alignment explanation
Indices: 57687453--57687511 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
57687443 TATTCATGTG
*
57687453 GGGCCCACGAGCCCATT
1 GGGCCTACGAGCCCATT
* *
57687470 GGGTCTACGAGCCTATT
1 GGGCCTACGAGCCCATT
*
57687487 GGGCCTAAGAGCCCATT
1 GGGCCTACGAGCCCATT
57687504 GGGCCTAC
1 GGGCCTAC
57687512 ATGACCCATC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.19
Consensus pattern (17 bp):
GGGCCTACGAGCCCATT
Found at i:57693073 original size:47 final size:47
Alignment explanation
Indices: 57692995--57693402 Score: 663
Period size: 47 Copynumber: 8.6 Consensus size: 47
57692985 CCCTTCGGGA
* * * * * *
57692995 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57693042 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57693089 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57693136 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57693183 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
57693232 CTTATCACATATATATACACTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57693279 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57693326 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57693373 CTTATCACATATATATACACTTTCACATTC
1 CTTATCAC--ATATATACACTTTCACATTC
57693403 CACATATACT
Statistics
Matches: 338, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 271 0.80
49 67 0.20
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57693329 original size:190 final size:190
Alignment explanation
Indices: 57692995--57693402 Score: 694
Period size: 190 Copynumber: 2.2 Consensus size: 190
57692985 CCCTTCGGGA
* * * * *
57692995 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
** *
57693058 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
66 ACACTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATAAACTTTCACATTCATCACA
57693123 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57693183 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
57693248 ACACTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAAACTTTCACATTCATCACA
66 ACACTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATAAACTTTCACATTCATCACA
57693313 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57693373 CTTATCACATATATATACACTTTCACATTC
1 CTTATCACATATATATACACTTTCACATTC
57693403 CACATATACT
Statistics
Matches: 206, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 10 0.05
189 1 0.00
190 195 0.95
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACACTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATAAACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57696856 original size:64 final size:64
Alignment explanation
Indices: 57696690--57696862 Score: 179
Period size: 68 Copynumber: 2.6 Consensus size: 64
57696680 TGGATGATAC
* * * *
57696690 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-
57696755 AG
63 AG
* * * *
57696757 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCGCATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTA
57696821 C-G
62 CAG
*
57696823 GGATATATGTAGCTAGGTCGCATGTGTAGTACTAAGTGCA
1 AGATATATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCA
57696863 GGCTACTATG
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
64 29 0.33
65 4 0.05
66 2 0.02
67 4 0.05
68 48 0.55
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAG
Found at i:57696958 original size:101 final size:99
Alignment explanation
Indices: 57696836--57697036 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 99
57696826 TATATGTAGC
* * *
57696836 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCGGATAA-TT-GATCACATGTGT
* *
57696901 AGTACTAAGTGCAGGCTACTACGTGTATCAGATAGT
64 AGTACTAAGTGCAGGCTACTACGCGTACCAGATAGT
* ** * * *
57696937 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTGG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCGGATAATTGATCACATGTGTAG
* *
57697002 TACTAAGTGTAGGCTACTATGCGTACCAGATAGT
66 TACTAAGTGCAGGCTACTACGCGTACCAGATAGT
57697036 T
1 T
57697037 TGGCTACATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 41 0.47
100 2 0.02
101 44 0.51
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (99 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCGGATAATTGATCACATGTGTAG
TACTAAGTGCAGGCTACTACGCGTACCAGATAGT
Found at i:57698915 original size:33 final size:33
Alignment explanation
Indices: 57698858--57698936 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
57698848 CAGTATTTAT
* **
57698858 ATGTAAGACCAT-AGTTGGGCTATGAC-ATTCTG
1 ATGTAAGACCATGA-CTGGGCTATGACAATTCAA
*
57698890 ATGATAAGACCATGACTGGGTTATGACAATTCAA
1 ATG-TAAGACCATGACTGGGCTATGACAATTCAA
57698924 ATGTAAGACCATG
1 ATGTAAGACCATG
57698937 GTAGGGTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 3 0.08
33 29 0.73
34 8 0.20
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (33 bp):
ATGTAAGACCATGACTGGGCTATGACAATTCAA
Found at i:57705821 original size:24 final size:24
Alignment explanation
Indices: 57705794--57705878 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
57705784 CTAGAGGCCT
*
57705794 AGCCTCTTTTAATAATC-GGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
57705818 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
** *
57705843 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
57705868 AGCCCCTTTTA
1 AG-CCCTTTTA
57705879 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.02
24 17 0.33
25 27 0.52
26 7 0.13
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:57705845 original size:25 final size:25
Alignment explanation
Indices: 57705811--57705877 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
57705801 TTTAATAATC
57705811 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
* *
57705836 GGGGCAAAGCCCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
* *
57705861 GGGGCATAGCCCCTTTT
1 GGGGCAAAGCCCTTTTT
57705878 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTTGATAAACT
Found at i:57706151 original size:53 final size:53
Alignment explanation
Indices: 57706084--57706196 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 53
57706074 CAAAATGGTA
*
57706084 ATTTTACCCCACAAGGATATCTCAGTAATTTTACCCTATAGGAG-ATTTCGAT
1 ATTTTACCCCACAAGGATATCTCAGTAATTCTACCCTATAGGAGTATTTCGAT
* * * * *
57706136 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGAT
1 ATTT-TACCCCACAAGGATATCTCAGTAATTCTACCCTATAGGAGTATTTCGAT
57706190 ATTTTAC
1 ATTTTAC
57706197 AAATCGAGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.08
53 38 0.72
54 11 0.21
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (53 bp):
ATTTTACCCCACAAGGATATCTCAGTAATTCTACCCTATAGGAGTATTTCGAT
Found at i:57706168 original size:27 final size:27
Alignment explanation
Indices: 57706081--57706185 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
57706071 GGGCAAAATG
* * * *
57706081 GTAATTTTACCCCACAAGGATATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
57706108 GTAATTTTACCCTA-TAGGAG-ATTTC-
1 GTAATTCTACCCTACAAGG-GTATTTCA
*
57706133 GATATTTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
* *
57706161 GTAATTCTACCCTATAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
57706186 TGATATTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.02
26 19 0.30
27 42 0.67
28 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:57706210 original size:53 final size:53
Alignment explanation
Indices: 57706105--57706220 Score: 121
Period size: 53 Copynumber: 2.2 Consensus size: 53
57706095 CAAGGATATC
* ** *
57706105 TCAGTAATTTTACCCTATAGGAGATTTCGATATTTCTACCCTACAAGGGTATT
1 TCAGTAATTCTACCCTATAGGAGATTTCGATATTTCTACAATACAAGAGTATT
* * *
57706158 TCAGTAATTCTACCCTATAGGGGTATTTTGATATTT-TACAA-ATCGAGAGTATT
1 TCAGTAATTCTACCCTATAGGAG-ATTTCGATATTTCTACAATA-CAAGAGTATT
57706211 TC-GATAATTC
1 TCAG-TAATTC
57706221 CACAAATCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.04
53 40 0.75
54 11 0.21
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (53 bp):
TCAGTAATTCTACCCTATAGGAGATTTCGATATTTCTACAATACAAGAGTATT
Found at i:57706286 original size:27 final size:27
Alignment explanation
Indices: 57706175--57706383 Score: 176
Period size: 27 Copynumber: 7.8 Consensus size: 27
57706165 TTCTACCCTA
*
57706175 TAGGGGTATTTTGAT-ATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * * **
57706200 TCGAGAGTATTTCGATAATTCCACAAA-
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * *
57706227 TCAGGTGG-ATTTTGCTAATTTTATAAGC
1 T-AGG-GGTATTTTGGTAATTTTACAAAC
*
57706255 CAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
57706282 TAGGGGTATTTTAGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
**
57706309 TAGGGGTATTTTGGTAATTTTACTGA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* **
57706335 TTGAGGGTATTTTGGTAATTTTTTAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
57706363 TAAGGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
57706384 GTAAATCGAG
Statistics
Matches: 146, Mismatches: 30, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 14 0.10
27 127 0.87
28 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:57706300 original size:81 final size:82
Alignment explanation
Indices: 57706176--57706381 Score: 201
Period size: 81 Copynumber: 2.5 Consensus size: 82
57706166 TCTACCCTAT
* * * *
57706176 AGGGGTATTTTGAT-ATTTTACAAA-TCGAGAGTA-TTTCGATAATTCCACAAA-TCAGGTGG-A
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAG-TAATTCCACAAACT-AGG-GGTA
57706236 TTTTGCTAATTTTA-TAAGCC
62 TTTTGCTAATTTTACTAAGCC
**
57706256 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTCCACAAACTAGGGGTATTTT
* * ***
57706321 GGTAATTTTACTGATTG
66 GCTAATTTTACTAAGCC
** *
57706338 A-GGGTATTTTGGTAATTTTTTAAACTAAGGGTATTTTAGTAATT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATT
57706382 TTGTAAATCG
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
80 15 0.14
81 81 0.76
82 10 0.09
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (82 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTCCACAAACTAGGGGTATTTT
GCTAATTTTACTAAGCC
Found at i:57706408 original size:81 final size:81
Alignment explanation
Indices: 57706258--57706408 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
57706248 TATAAGCCAG
* * *** *
57706258 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAATGA
57706323 TAATTTTACTGATTGA
66 TAATTTTACTGATTGA
** **
57706339 GGGTATTTTGGTAATTTTTTAAACTAAGGGTATTTTAGTAATTTTGTAAATCGA-GGGTAAAATG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAA-CGAGGGGTAAAATG
57706403 ATAATT
65 ATAATT
57706409 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 57 0.97
82 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAATGA
TAATTTTACTGATTGA
Found at i:57706518 original size:27 final size:27
Alignment explanation
Indices: 57706235--57706543 Score: 159
Period size: 27 Copynumber: 11.5 Consensus size: 27
57706225 AATCAGGTGG
* * *
57706235 ATTTTGCTAATTTTATAAGC-CAGGGGT
1 ATTTTGGTAATTTTATAAACTGA-GGGT
*
57706262 ATTTTGGTAATTTTACAAACT-AGGGGT
1 ATTTTGGTAATTTTATAAACTGA-GGGT
* *
57706289 ATTTTAGTAATTTTACAAACT-AGGGGT
1 ATTTTGGTAATTTTATAAACTGA-GGGT
* *
57706316 ATTTTGGTAATTTTACT-GATTGAGGGT
1 ATTTTGGTAATTTTA-TAAACTGAGGGT
* *
57706343 ATTTTGGTAATTTTTTAAACTAAGGGT
1 ATTTTGGTAATTTTATAAACTGAGGGT
* *
57706370 ATTTTAGTAATTTTGTAAA-TCGAGGGT
1 ATTTTGGTAATTTTATAAACT-GAGGGT
*** * * *
57706397 AAAATGATAATTCTGTAAA-TCGAGGGT
1 ATTTTGGTAATTTTATAAACT-GAGGGT
**** * *
57706424 AAAACGATAATTTTGTAAA-TCGAGGGT
1 ATTTTGGTAATTTTATAAACT-GAGGGT
**** * * *
57706451 AAAACGGTAATTCTATAAATTGAGGAT
1 ATTTTGGTAATTTTATAAACTGAGGGT
* *
57706478 ATTTGGGTAGTTTTATAAACTGAGGGT
1 ATTTTGGTAATTTTATAAACTGAGGGT
* *
57706505 ACTTTGGTAATTTTA-CAACTG-GAGGT
1 ATTTTGGTAATTTTATAAACTGAG-GGT
*
57706531 ATTTTAGTAATTT
1 ATTTTGGTAATTT
57706544 CGTAAACTAA
Statistics
Matches: 234, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 21 0.09
27 210 0.90
28 2 0.01
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (27 bp):
ATTTTGGTAATTTTATAAACTGAGGGT
Found at i:57711283 original size:61 final size:61
Alignment explanation
Indices: 57711209--57711389 Score: 362
Period size: 61 Copynumber: 3.0 Consensus size: 61
57711199 TACAAAACTC
57711209 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTCTT
1 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTCTT
57711270 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTCTT
1 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTCTT
57711331 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTC
1 GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTC
57711390 ATTAATAGAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 120 1.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (61 bp):
GCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATTCTT
Found at i:57711312 original size:30 final size:30
Alignment explanation
Indices: 57711217--57711378 Score: 143
Period size: 30 Copynumber: 5.3 Consensus size: 30
57711207 TCGCATAATT
*
57711217 CATAATAAATATTCACAATCTATCATCAAA
1 CATAAAAAATATTCACAATCTATCATCAAA
* * * *
57711247 CATAAAAAATCATACATATTCT-TGCAT-AATT
1 CATAAAAAAT-ATTCACAATCTAT-CATCAA-A
*
57711278 CATAATAAATATTCACAATCTATCATCAAA
1 CATAAAAAATATTCACAATCTATCATCAAA
* * * *
57711308 CATAAAAAATCATACATATTCT-TGCAT-AATT
1 CATAAAAAAT-ATTCACAATCTAT-CATCAA-A
*
57711339 CATAATAAATATTCACAATCTATCATCAAA
1 CATAAAAAATATTCACAATCTATCATCAAA
57711369 CATAAAAAAT
1 CATAAAAAAT
57711379 CATACATATT
Statistics
Matches: 101, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
30 55 0.54
31 46 0.46
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.31
Consensus pattern (30 bp):
CATAAAAAATATTCACAATCTATCATCAAA
Found at i:57712995 original size:43 final size:42
Alignment explanation
Indices: 57712905--57713012 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 42
57712895 CATCTATCTG
* * * * * *
57712905 AGATATCGTGTAAGACCGTGTCTGGGACATTGGCCTCGATTG
1 AGATTTCGTATAAGACCATGTCTGGGACATCGGCATCGATTC
*
57712947 AGATTTATGTATAAGACCATGTCTGGGACATCGGCATC-ATATC
1 AGATTT-CGTATAAGACCATGTCTGGGACATCGGCATCGAT-TC
* *
57712990 TGATTTCGTATAAGACCCTGTCT
1 AGATTTCGTATAAGACCATGTCT
57713013 AGGATAGAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 22 0.41
43 32 0.59
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
AGATTTCGTATAAGACCATGTCTGGGACATCGGCATCGATTC
Found at i:57719982 original size:40 final size:40
Alignment explanation
Indices: 57719927--57720151 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
57719917 TATTCGGATG
*
57719927 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57719967 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57720007 ATATCCGAGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
57720050 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57720090 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57720130 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
57720152 TACTTAGGTT
Statistics
Matches: 158, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.70
43 34 0.22
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57720170 original size:83 final size:80
Alignment explanation
Indices: 57719929--57720151 Score: 340
Period size: 83 Copynumber: 2.8 Consensus size: 80
57719919 TTCGGATGAT
*
57719929 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATT
*
57719994 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAC
* * *
57720009 ATCCGAGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAGGC
57720074 ATTTGTGCTAGTGACTAC
63 ATTTGTGCTAGTGACTAC
* * *
57720092 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCTGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
57720152 TACTTAGGTT
Statistics
Matches: 129, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
79 14 0.11
80 40 0.31
81 1 0.01
82 1 0.01
83 73 0.57
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTAC
Found at i:57720697 original size:1 final size:1
Alignment explanation
Indices: 57720691--57720803 Score: 226
Period size: 1 Copynumber: 113.0 Consensus size: 1
57720681 TTTAGATATA
57720691 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57720756 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57720804 ACATGCGAAT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 112 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:57721908 original size:38 final size:38
Alignment explanation
Indices: 57721866--57721941 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
57721856 TTCATCCTTT
57721866 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
*
57721904 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
57721942 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
Found at i:57723220 original size:40 final size:40
Alignment explanation
Indices: 57723126--57723270 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
57723116 TACTCGAATG
* *
57723126 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
57723167 ACATCCGGACTAAGAT-CGGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57723207 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
57723247 ATATCCGGGTTATGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57723271 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.68
41 26 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57726806 original size:39 final size:40
Alignment explanation
Indices: 57726689--57726911 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
57726679 GCTCCTCGTT
* *
57726689 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
57726729 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
57726769 CAAATGCCTACGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57726808 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
** *
57726847 CAAATGCCTTC-GGATCTTAGTTCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
57726888 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57726912 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 87 0.54
40 62 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:57726866 original size:79 final size:79
Alignment explanation
Indices: 57726689--57726911 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 79
57726679 GCTCCTCGTT
* *
57726689 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
57726754 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
57726769 CAAATGCCTACGGGCTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGACTTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCG
*
57726831 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
** * * * *
57726847 CAAATGCCTTCGGATCTTAGTTCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCCG
57726910 GA
64 GA
57726912 CATCATTCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 46 0.38
79 59 0.48
80 16 0.13
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:57734764 original size:38 final size:39
Alignment explanation
Indices: 57734651--57734817 Score: 223
Period size: 39 Copynumber: 4.3 Consensus size: 39
57734641 CTCCTCGTTC
* **
57734651 AATGCCTTCGGGACATAGCCCGTTA-TAGTAAT-TCGCACA
1 AATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCACA
* * *
57734690 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-
1 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
*
57734729 AATGCCTACGGGCTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACA
57734768 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACA
57734807 AATGCCTTCGG
1 AATGCCTTCGG
57734818 ATATTAGTCC
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
38 23 0.20
39 81 0.71
40 10 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACA
Found at i:57734862 original size:117 final size:117
Alignment explanation
Indices: 57734651--57734868 Score: 259
Period size: 117 Copynumber: 1.9 Consensus size: 117
57734641 CTCCTCGTTC
** *
57734651 AATGCCTTCGGGACATAGCCCGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAGCCCGGAATAGTAATTCGCACAAATGCCTTCGGGAATTAACCCGGATT
*
57734716 TAGTAACTCGCACAATGCCTACGGGCTTAGCCCGGAATTAGTATCTCGCACA
66 TAGTAACTAGCACAATGCCTACGGGCTTAGCCCGGAATTAGTATCTCGCACA
* **
57734768 AATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATATTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGAA-TAGTAAT-TCGCACAAATGCCTTCGGGA-ATTAACCCGG
* *
57734830 ATATT-GTCACTTAGCACAA-G-CTTCGGGACTTAGCCCGGA
63 AT-TTAGTAAC-TAGCACAATGCCTACGGG-CTTAGCCCGGA
57734869 CCATCATTCA
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
116 20 0.23
117 57 0.66
118 9 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (117 bp):
AATGCCTTCGGGACATAGCCCGGAATAGTAATTCGCACAAATGCCTTCGGGAATTAACCCGGATT
TAGTAACTAGCACAATGCCTACGGGCTTAGCCCGGAATTAGTATCTCGCACA
Found at i:57753623 original size:88 final size:88
Alignment explanation
Indices: 57753460--57753671 Score: 295
Period size: 88 Copynumber: 2.4 Consensus size: 88
57753450 CATTCATTGC
* *
57753460 CATTTCGCCTACTAGGCTCGAAGCCCG-ATA-TCATTTCACCGACATTATAGCCTGCTAGGCTCT
1 CATTTCGCCTACTAGGCTCGAAGCCCGAATAGT-ATCTCACCGACATTATAGCCTGCTAGGCGCT
57753523 AAAGCCCAAATAGTATCTCACCGG
65 AAAGCCCAAATAGTATCTCACCGG
* *
57753547 CATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCGC-A
1 CATTTCGCCTACTAGGCTCGAAGCCCGAATAGTATCTCACCGACATTATAGCCTGCTAGGCGCTA
* *
57753611 AAGGCCCGAATAGTATCTCACTGG
66 AA-GCCCAAATAGTATCTCACCGG
* *
57753635 CATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 CATT-TCGCCTACTAGGCTCGAA-GCCCGAATAGTAT
57753672 TGTGCGATAT
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
87 29 0.26
88 53 0.48
89 16 0.14
90 13 0.12
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (88 bp):
CATTTCGCCTACTAGGCTCGAAGCCCGAATAGTATCTCACCGACATTATAGCCTGCTAGGCGCTA
AAGCCCAAATAGTATCTCACCGG
Found at i:57753637 original size:45 final size:44
Alignment explanation
Indices: 57753466--57753671 Score: 265
Period size: 45 Copynumber: 4.7 Consensus size: 44
57753456 TTGCCATTTC
* * * *
57753466 GCCTACTAGGCTCGAAGCCCG-ATA-TCATTTCACCGACATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGT-ATCTCACCGGCATTATA
* *
57753509 GCCTGCTAGGCTCTAAAGCCCAAATAGTATCTCACCGGCATT-TC
1 GCCTGCTAGGCTC-AAAGCCCGAATAGTATCTCACCGGCATTATA
*
57753553 GCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
* *
57753597 GCCTGCTAGGCGCAAAGGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACCGGCATTATA
*
57753642 GCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTAT
57753672 TGTGCGATAT
Statistics
Matches: 144, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
43 38 0.26
44 35 0.24
45 70 0.49
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:57755045 original size:56 final size:56
Alignment explanation
Indices: 57754935--57755105 Score: 209
Period size: 56 Copynumber: 3.1 Consensus size: 56
57754925 TATTACAGTT
* * * * *
57754935 TTACTCACACACGCATATCGTAA-CATATATCGATGCCAACGTAGTAAATGTGGTC
1 TTACTCACACACACATATCGGAATCACATATCGATGCCAACGTACTAAACGTGGTC
* * *
57754990 TTACTCACACACACATATCGGAATTACATATCGATGCCAATGTATTAAACGTGGTC
1 TTACTCACACACACATATCGGAATCACATATCGATGCCAACGTACTAAACGTGGTC
** * * * *
57755046 TTACTTGCACACACATATCAGAATCACATATCGATGGCAACGTCCCAAACGTGGTC
1 TTACTCACACACACATATCGGAATCACATATCGATGCCAACGTACTAAACGTGGTC
57755102 TTAC
1 TTAC
57755106 ACGTAATCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
55 21 0.21
56 78 0.79
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (56 bp):
TTACTCACACACACATATCGGAATCACATATCGATGCCAACGTACTAAACGTGGTC
Found at i:57755115 original size:43 final size:43
Alignment explanation
Indices: 57755067--57755208 Score: 207
Period size: 43 Copynumber: 3.3 Consensus size: 43
57755057 CACATATCAG
57755067 AATCACATATCGATGGCAACGTCCCAAACGTGGTCTTACACGT
1 AATCACATATCGATGGCAACGTCCCAAACGTGGTCTTACACGT
* *
57755110 AATCACATATCGATGCCAACGT-CCAAGACGTGGTCTTACACGG
1 AATCACATATCGATGGCAACGTCCCAA-ACGTGGTCTTACACGT
* * *
57755153 AATCACATATCGAT-GCTAACGTCCTAGACATGGTCTTACACGT
1 AATCACATATCGATGGC-AACGTCCCAAACGTGGTCTTACACGT
57755196 AATCACATATCGA
1 AATCACATATCGA
57755209 AAATCCTATG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
42 5 0.06
43 82 0.92
44 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
AATCACATATCGATGGCAACGTCCCAAACGTGGTCTTACACGT
Found at i:57758254 original size:43 final size:44
Alignment explanation
Indices: 57758206--57758324 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 44
57758196 AAAGCTCGTA
57758206 CAATGCCAACATCCCAGACGTGGTCTTACATGTAA-TC-AAATAT
1 CAATGCCAACATCCCAGACGTGGTCTTACATGTAAGTCTAAA-AT
* *
57758249 CAATGCC-ACTATCCCAGACAG-GGTCTTACACGTAAGTCTCAAAT
1 CAATGCCAAC-ATCCCAGAC-GTGGTCTTACATGTAAGTCTAAAAT
* * *
57758293 CGATGCCAACGTCCCAGACATGGTCTTACATG
1 CAATGCCAACATCCCAGACGTGGTCTTACATG
57758325 AAATTACATA
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 29 0.45
44 29 0.45
45 4 0.06
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (44 bp):
CAATGCCAACATCCCAGACGTGGTCTTACATGTAAGTCTAAAAT
Found at i:57765595 original size:40 final size:40
Alignment explanation
Indices: 57765558--57765742 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
57765548 GCTACTCGTT
*
57765558 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
57765598 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
57765638 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
57765677 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
57765718 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57765743 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.61
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:57765669 original size:79 final size:81
Alignment explanation
Indices: 57765560--57765742 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
57765550 TACTCGTTCA
* *
57765560 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
57765623 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
57765640 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
57765703 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
57765719 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
57765743 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 30 0.33
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:57768503 original size:23 final size:23
Alignment explanation
Indices: 57768471--57768514 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57768461 AAAATTTAAA
* *
57768471 TATAATTAAACATTAGTAACTAT
1 TATAAATAAACATTAATAACTAT
*
57768494 TATAAATAAATATTAATAACT
1 TATAAATAAACATTAATAACT
57768515 CTTGGGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TATAAATAAACATTAATAACTAT
Found at i:57769616 original size:33 final size:31
Alignment explanation
Indices: 57769574--57769671 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 31
57769564 TAATACAATA
57769574 CATTAACTATTTTTTTTTTTGGTTCTTA-GACAG
1 CATTAACTATTTTTTTTTTT--TTCTTACG-CAG
* *
57769607 CATTAACTATTTTTTGTTATTTCTTACGCAG
1 CATTAACTATTTTTTTTTTTTTCTTACGCAG
* *
57769638 CATTAACTGTTTTTTTTTTTCTTTCTTATGCAG
1 CATTAACT-ATTTTTTTTTT-TTTCTTACGCAG
57769671 C
1 C
57769672 CCCTTTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
31 17 0.30
32 9 0.16
33 30 0.54
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.55
Consensus pattern (31 bp):
CATTAACTATTTTTTTTTTTTTCTTACGCAG
Found at i:57769631 original size:31 final size:29
Alignment explanation
Indices: 57769574--57769660 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 29
57769564 TAATACAATA
57769574 CATTAACTATTTTTTTTTTTGGTTCTTA-GACAG
1 CATTAACTA--TTTTTTTTT--TTCTTACG-CAG
57769607 CATTAACTATTTTTTGTTATTTCTTACGCAG
1 CATTAACTATTTTTT-TT-TTTCTTACGCAG
*
57769638 CATTAACTGTTTTTTTTTTTCTT
1 CATTAACTATTTTTTTTTTTCTT
57769661 TCTTATGCAG
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
29 6 0.12
30 2 0.04
31 29 0.58
32 3 0.06
33 10 0.20
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.57
Consensus pattern (29 bp):
CATTAACTATTTTTTTTTTTCTTACGCAG
Found at i:57772219 original size:17 final size:17
Alignment explanation
Indices: 57772199--57772232 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57772189 AGGTTAAGGT
57772199 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
57772216 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
57772233 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:57787332 original size:27 final size:27
Alignment explanation
Indices: 57787315--57787521 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
57787305 ATATTAAGTC
57787315 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
57787342 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
57787370 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57787397 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
57787425 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57787452 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
57787480 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
57787507 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
57787522 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:57787399 original size:55 final size:55
Alignment explanation
Indices: 57787315--57787521 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
57787305 ATATTAAGTC
* * * *
57787315 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
57787370 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
57787425 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
57787480 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
57787522 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:57807894 original size:19 final size:19
Alignment explanation
Indices: 57807858--57807896 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57807848 TTTTCATCAT
* *
57807858 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
57807877 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
57807896 A
1 A
57807897 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:57808407 original size:28 final size:28
Alignment explanation
Indices: 57808359--57808449 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
57808349 GTGACAGAGT
*
57808359 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
57808388 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
57808416 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
57808444 CACCAG
1 CACCAG
57808450 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:57808627 original size:28 final size:28
Alignment explanation
Indices: 57808555--57808619 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
57808545 AAATTAACCC
*
57808555 TAGGGGTATAA-ATGTCATTTTGCATACA
1 TAGGGGTATAATA-GTAATTTTGCATACA
*
57808583 TAGGGGTGTAATAGTAATTTTGCATACA
1 TAGGGGTATAATAGTAATTTTGCATACA
57808611 TAGGGGTAT
1 TAGGGGTAT
57808620 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATAGTAATTTTGCATACA
Found at i:57811525 original size:27 final size:27
Alignment explanation
Indices: 57811487--57811546 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
57811477 AGAATTAAAT
* *
57811487 CGTAAGTAAGTCCATAGTATTTCAATA
1 CGTAAATAAGTCCACAGTATTTCAATA
57811514 CGTAAATAAGTCCACAGTATTTCAATA
1 CGTAAATAAGTCCACAGTATTTCAATA
*
57811541 CATAAA
1 CGTAAA
57811547 AATATCTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.30
Consensus pattern (27 bp):
CGTAAATAAGTCCACAGTATTTCAATA
Found at i:57828313 original size:47 final size:47
Alignment explanation
Indices: 57828215--57828384 Score: 149
Period size: 47 Copynumber: 3.6 Consensus size: 47
57828205 GTGCCAATGC
* *
57828215 CATGTCCCAGACATGGTCTTACA-TTG-ACTATCATCTC-GTAGCAGATG
1 CATGTCCCAGACATGGTCTTACACTAGCAC--TC-TCTCAGTAGCCGATG
*
57828262 CATGTCCCAGACAT-GTCCTACACTAGCACTCGTCTCAGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACTC-TCTCAGTAGCCGATG
* * * * *
57828308 CCATGTCCTAGACATGGTCTTACACTTGC-TTC-CATAATGTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCACTCTC-TCA-GTAGCCGATG
57828356 CATGTCCCAGACAT-GTCTTACACTAGCAC
1 CATGTCCCAGACATGGTCTTACACTAGCAC
57828385 ACACAAGTGA
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
45 1 0.01
46 33 0.32
47 48 0.47
48 20 0.20
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCACTCTCTCAGTAGCCGATG
Found at i:57828365 original size:94 final size:94
Alignment explanation
Indices: 57828204--57828384 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 94
57828194 ATATCGATAA
*
57828204 AGTGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCATCTCGTAGCAGATGCATGTCC
1 AGTGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCATATCGTAGCAGATGCATGTCC
57828269 CAGACATGTCCTACACTAGCACTCGTCTC
66 CAGACATGTCCTACACTAGCACTCGTCTC
* * * *
57828298 AGTGCCGATGCCATGTCCTAGACATGGTCTTACACTTG-CT-TCCATAAT-GTGGCCGATGCATG
1 AGTGCCAATGCCATGTCCCAGACATGGTCTTACA-TTGACTAT-CAT-ATCGTAGCAGATGCATG
*
57828360 TCCCAGACATGTCTTACACTAGCAC
63 TCCCAGACATGTCCTACACTAGCAC
57828385 ACACAAGTGA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
93 1 0.01
94 73 0.94
95 4 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
AGTGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCATATCGTAGCAGATGCATGTCC
CAGACATGTCCTACACTAGCACTCGTCTC
Found at i:57835961 original size:21 final size:21
Alignment explanation
Indices: 57835908--57835961 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
57835898 AAAACAGGGC
* *
57835908 ACACGCCCGTATGGAGGGGTA
1 ACACGCCCGTGTGGAAGGGTA
*
57835929 ACATGCCCGTGTGGAAGGGTA
1 ACACGCCCGTGTGGAAGGGTA
*
57835950 ACACGCCTGTGT
1 ACACGCCCGTGT
57835962 CCCCTACCCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.35, T:0.19
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGTA
Found at i:57837120 original size:46 final size:46
Alignment explanation
Indices: 57837039--57837155 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
57837029 GTGCCAATGC
57837039 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGATG
* * *
57837086 CATGTCCCAGGCATGTCTTACATTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCCGATG
* *
57837132 TATATCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
57837156 AGCACTCGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
45 2 0.03
46 46 0.75
47 13 0.21
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGATG
Found at i:57837621 original size:30 final size:30
Alignment explanation
Indices: 57837576--57837634 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
57837566 TTTTACATCT
* *
57837576 TTGGTAAAATGACCATTTTTCCCCTAGGCC
1 TTGGCAAAATAACCATTTTTCCCCTAGGCC
57837606 TTGGCAAAATAACCATTTTTCCCCTAGGC
1 TTGGCAAAATAACCATTTTTCCCCTAGGC
57837635 TCGAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
TTGGCAAAATAACCATTTTTCCCCTAGGCC
Found at i:57844027 original size:42 final size:42
Alignment explanation
Indices: 57843926--57844081 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 42
57843916 GCTCGTACAG
* * * * *
57843926 TGCCAACGTTCTAGACATGGTCTTACATGTAATCAAATATCGA
1 TGCCAACGTCCCAGACAGGGTCTTACACGTAATCAAGTA-CGA
*
57843969 TGCC-ACTATCCCAGACAGGGTCTTACACG-AATTCAAGTACGA
1 TGCCAAC-GTCCCAGACAGGGTCTTACACGTAA-TCAAGTACGA
* * *
57844011 TGCCAACGTCCTAGACATGGTCTAACACGTAAATCATAAGT-CGA
1 TGCCAACGTCCCAGACAGGGTCTTACACGT-AATC--AAGTACGA
57844055 TGCCAACGTCCCAGAC-GTGGTCTTACA
1 TGCCAACGTCCCAGACAG-GGTCTTACA
57844082 TGATAACACA
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 29 0.32
43 31 0.34
44 28 0.30
45 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
TGCCAACGTCCCAGACAGGGTCTTACACGTAATCAAGTACGA
Found at i:57847837 original size:17 final size:17
Alignment explanation
Indices: 57847815--57847847 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57847805 CCAAACGAGC
57847815 ATTTTAAAAAAATTATA
1 ATTTTAAAAAAATTATA
*
57847832 ATTTTAACAAAATTAT
1 ATTTTAAAAAAATTAT
57847848 CTTTCATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTAAAAAAATTATA
Found at i:57852702 original size:24 final size:24
Alignment explanation
Indices: 57852674--57852725 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
57852664 CCAAACTCAC
57852674 TTTTTATCTCACTTTCGTTTTCAA
1 TTTTTATCTCACTTTCGTTTTCAA
57852698 TTTTTATCTCACTTTCGTTTTCAA
1 TTTTTATCTCACTTTCGTTTTCAA
57852722 TTTT
1 TTTT
57852726 CTTTTCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTATCTCACTTTCGTTTTCAA
Found at i:57853363 original size:4 final size:4
Alignment explanation
Indices: 57853356--57853384 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
57853346 ATGGAAAAGA
57853356 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
57853385 CCTCACCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:57854551 original size:11 final size:11
Alignment explanation
Indices: 57854535--57854568 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57854525 TAGACATCCT
57854535 TTGAAGCTTCC
1 TTGAAGCTTCC
*
57854546 TTGAAGGTTCC
1 TTGAAGCTTCC
*
57854557 TTGAAGTTTCC
1 TTGAAGCTTCC
57854568 T
1 T
57854569 AGCATGGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (11 bp):
TTGAAGCTTCC
Found at i:57855368 original size:40 final size:42
Alignment explanation
Indices: 57855304--57855382 Score: 101
Period size: 40 Copynumber: 1.9 Consensus size: 42
57855294 AATTAAAATA
**
57855304 AAATAGCATCAAGCTCAATAAGCTAGGATT-GAGCTGAAGTG
1 AAATAGCATCAAGCTCAATAAGCTAAAATTCGAGCTGAAGTG
*
57855345 AAATAG-ATCAAG-TACAATGAGCTAAAATTCGAGCTGAA
1 AAATAGCATCAAGCT-CAATAAGCTAAAATTCGAGCTGAA
57855383 TCAAGCTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.03
40 18 0.55
41 14 0.42
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (42 bp):
AAATAGCATCAAGCTCAATAAGCTAAAATTCGAGCTGAAGTG
Found at i:57860048 original size:64 final size:64
Alignment explanation
Indices: 57859967--57860150 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
57859957 AGACATTATG
* * *
57859967 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCAAGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
57860031 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57860096 AA
63 AA
* * * *
57860098 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
57860151 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:57864459 original size:68 final size:67
Alignment explanation
Indices: 57864387--57864536 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
57864377 CATCATGTGT
* * * *
57864387 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
57864449 ATGTAG
62 ATGTAG
** * *
57864455 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
57864520 AG
66 AG
57864522 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
57864537 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:57864492 original size:64 final size:64
Alignment explanation
Indices: 57864411--57864594 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
57864401 AGACATTATG
* *
57864411 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
57864475 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57864540 AA
63 AA
* * * *
57864542 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
57864595 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:57866969 original size:40 final size:40
Alignment explanation
Indices: 57866924--57867115 Score: 204
Period size: 40 Copynumber: 4.8 Consensus size: 40
57866914 TATAACCACA
* ** *
57866924 AGCACAAATGCTTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
57866964 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * ** *
57867004 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
57867044 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * *
57867084 AGCACAATTGCCTTCGGGACTTAGCCCAGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
57867116 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:57867048 original size:80 final size:79
Alignment explanation
Indices: 57866905--57867116 Score: 280
Period size: 80 Copynumber: 2.7 Consensus size: 79
57866895 TCTTCGAAAT
* * * * * * * * *
57866905 TTAGCCGGATATAACCACAAGCACAAATGCTTTCGGGTCTTAGCCCGGATTTAGTAACTCGCACA
1 TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACCCGCACA
57866970 AATGCCTTCGGATC
66 AATGCCTTCGGATC
*
57866984 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACCCGCAC
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACCCGCAC
*
57867049 AAATGCCTTCGGGTC
65 AAATGCCTTCGGATC
* * *
57867064 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCAGATAT
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAT
57867117 CATTCAAATG
Statistics
Matches: 116, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 4 0.03
80 112 0.97
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACCCGCACA
AATGCCTTCGGATC
Found at i:57871236 original size:27 final size:27
Alignment explanation
Indices: 57871180--57871288 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
57871170 AGCACGACTG
* *
57871180 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
57871206 CCAGAACAGATAATTGTGGCAGAGCCC
1 CCAGAACAGATAATTGTGGCAGAGCCA
57871233 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
57871260 CCAGATCAGATAGTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57871287 CC
1 CC
57871289 GGGACGCTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.21
27 57 0.78
28 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:57871264 original size:54 final size:53
Alignment explanation
Indices: 57871180--57871285 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
57871170 AGCACGACTG
*
57871180 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAGAGCCC
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCC
* * * *
57871233 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAGTTGTGGCATAGCC
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCC
57871286 ACCGGGACGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 12 0.26
54 35 0.74
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCC
Found at i:57872727 original size:25 final size:24
Alignment explanation
Indices: 57872694--57872750 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
57872684 AACTCTTGCT
*
57872694 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-A
57872720 CCTTATCAGCTCCTAAATCTTCTA
1 CCTTATCAGCTCCTAAATCTTCTA
57872744 CCTTATC
1 CCTTATC
57872751 CCCTCCTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 7 0.23
25 19 0.63
26 4 0.13
ACGTcount: A:0.21, C:0.37, G:0.05, T:0.37
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTA
Found at i:57872756 original size:24 final size:25
Alignment explanation
Indices: 57872694--57872757 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
57872684 AACTCTTGCT
* *
57872694 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCA
*
57872720 CCTTATCAGCTCCTAAATCTTCT-A
1 CCTTATCACCTCCTAAATCTTCTCA
*
57872744 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
57872758 TACTCAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 12 0.34
25 19 0.54
26 4 0.11
ACGTcount: A:0.19, C:0.41, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCA
Found at i:57879053 original size:27 final size:27
Alignment explanation
Indices: 57878999--57879109 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
57878989 AGCACGACTG
* *
57878999 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
57879025 CCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
57879052 CCAGAATAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
57879079 CCAGATCAGATAGTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57879106 CCAG
1 CCAG
57879110 GATGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 57 0.78
28 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:57879081 original size:54 final size:53
Alignment explanation
Indices: 57878999--57879109 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
57878989 AGCACGACTG
*
57878999 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
* * * * *
57879052 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAGTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
57879106 CCAG
1 CCAG
57879110 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
Found at i:57880214 original size:17 final size:17
Alignment explanation
Indices: 57880192--57880242 Score: 102
Period size: 17 Copynumber: 3.0 Consensus size: 17
57880182 TCATTTTAAA
57880192 ATTTACACAGTTCATTT
1 ATTTACACAGTTCATTT
57880209 ATTTACACAGTTCATTT
1 ATTTACACAGTTCATTT
57880226 ATTTACACAGTTCATTT
1 ATTTACACAGTTCATTT
57880243 TAAAATTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTACACAGTTCATTT
Found at i:57881585 original size:40 final size:39
Alignment explanation
Indices: 57881511--57881735 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 39
57881501 AACCCAAGTA
* *
57881511 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
* *
57881550 CCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
57881590 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
57881633 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* * *
57881673 CCTTTGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
57881713 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
57881736 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 13 0.08
40 112 0.68
41 2 0.01
43 36 0.22
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:57881631 original size:83 final size:80
Alignment explanation
Indices: 57881511--57881735 Score: 353
Period size: 83 Copynumber: 2.8 Consensus size: 80
57881501 AACCCAAGTA
* * *
57881511 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
57881575 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
57881590 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
57881655 TAGTCACTAGCACAAATG
63 TAGTCACTAGCACAAATG
* *
57881673 CCTTTGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
57881736 CATCCGAATA
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 13 0.10
80 45 0.34
81 1 0.01
82 1 0.01
83 73 0.55
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:57883922 original size:24 final size:25
Alignment explanation
Indices: 57883861--57883924 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
57883851 AACTCTTGCT
* *
57883861 CCTTGATCAGCTCTTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
57883887 CCTTATCACCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
57883911 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
57883925 TACTCAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 14 0.40
25 17 0.49
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.03, T:0.38
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:57890554 original size:79 final size:81
Alignment explanation
Indices: 57890451--57890635 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
57890441 GCTACTCGTT
* * *
57890451 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTA-ACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGACC
* *
57890513 AGGATTTAGTAAC-TCGCA
64 -GGATATAGTAACTTAGCA
* *
57890531 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
* *
57890595 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
57890611 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57890636 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 52 0.57
80 36 0.40
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
ATATAGTAACTTAGCA
Found at i:57890635 original size:40 final size:40
Alignment explanation
Indices: 57890432--57890635 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
57890422 CAGAATTTAA
** *
57890432 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
57890472 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57890512 CAGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57890551 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
57890591 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
57890631 CCGGA
1 CCGGA
57890636 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57900018 original size:79 final size:82
Alignment explanation
Indices: 57899907--57900091 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
57899897 GCTACTCGTT
* * *
57899907 CAAATGCCTTCGGGACATAGCCCGG-CTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
57899970 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
57899987 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
57900050 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
57900067 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57900092 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:57900091 original size:40 final size:40
Alignment explanation
Indices: 57899888--57900091 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
57899878 CGGAATTTAA
** *
57899888 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
57899928 CCGGCTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
57899968 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57900007 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
57900047 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
57900087 CCGGA
1 CCGGA
57900092 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57903454 original size:137 final size:137
Alignment explanation
Indices: 57903206--57903480 Score: 514
Period size: 137 Copynumber: 2.0 Consensus size: 137
57903196 CTCAAAGCTC
* *
57903206 GATGGTTGTCCATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTTAGAGAAGCTGC
1 GATGGTTGTCCATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTCAAAGAAGCTGC
57903271 AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGCAAGACCTAGAAAACTACGGATCT
66 AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGCAAGACCTAGAAAACTACGGATCT
57903336 CAGAAAT
131 CAGAAAT
*
57903343 GATGGTTGTCTATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTCAAAGAAGCTGC
1 GATGGTTGTCCATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTCAAAGAAGCTGC
*
57903408 AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGTAAGACCTAGAAAACTACGGATCT
66 AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGCAAGACCTAGAAAACTACGGATCT
57903473 CAGAAAT
131 CAGAAAT
57903480 G
1 G
57903481 TTCTTAGACT
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (137 bp):
GATGGTTGTCCATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTCAAAGAAGCTGC
AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGCAAGACCTAGAAAACTACGGATCT
CAGAAAT
Found at i:57906506 original size:20 final size:20
Alignment explanation
Indices: 57906481--57906536 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
57906471 TATATACCAA
*
57906481 TTTAATCCATTTCAATCAAC
1 TTTAATTCATTTCAATCAAC
*
57906501 TTTAATTCATTTCAATCAAT
1 TTTAATTCATTTCAATCAAC
*
57906521 TTTAATTCAATTCAAT
1 TTTAATTCATTTCAAT
57906537 ACCAAAGTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTAATTCATTTCAATCAAC
Found at i:57907303 original size:25 final size:26
Alignment explanation
Indices: 57907275--57907341 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
57907265 TTGTTTTATC
57907275 AATATTATATAATATATATTTA-C-TT
1 AATATTATATAATATAT-TTTATCTTT
*
57907300 AATAATTAACATAATATATTTTATCTTT
1 AAT-ATT-ATATAATATATTTTATCTTT
57907328 AAT-TTATAT-ATATA
1 AATATTATATAATATA
57907342 CTTCATAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
24 5 0.14
25 6 0.17
26 9 0.25
27 11 0.31
28 5 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
AATATTATATAATATATTTTATCTTT
Found at i:57913054 original size:26 final size:26
Alignment explanation
Indices: 57913008--57913060 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
57912998 TCAAACATGC
*
57913008 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
57913034 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
57913060 A
1 A
57913061 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:57914582 original size:26 final size:26
Alignment explanation
Indices: 57914546--57914629 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
57914536 CATGAAATTC
57914546 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
57914572 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
57914598 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
57914624 TTATCA
1 TTATCA
57914630 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:57924308 original size:29 final size:29
Alignment explanation
Indices: 57924273--57924346 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
57924263 GTTGTGAGAT
*
57924273 TGGCACTAAGTGTGC-AGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGA-G-TTGAAAGTACA
*
57924302 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
57924331 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57924347 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 5 0.12
29 35 0.85
30 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:57926883 original size:32 final size:32
Alignment explanation
Indices: 57926842--57926942 Score: 193
Period size: 32 Copynumber: 3.2 Consensus size: 32
57926832 TGTTATTTTA
57926842 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
1 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
57926874 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
1 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
*
57926906 CTTAAGTTTGTTTATCGAATTACTAAACTAAC
1 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
57926938 CTTAA
1 CTTAA
57926943 CTATTAACAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (32 bp):
CTTAAGTTTGTTTATTGAATTACTAAACTAAC
Found at i:57935216 original size:24 final size:24
Alignment explanation
Indices: 57935183--57935258 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 24
57935173 TCTCTCTCAC
57935183 TTTTTC-CTTTCTTTTTTTCAATT
1 TTTTTCTCTTTCTTTTTTTCAATT
* * *
57935206 TTTTTCTCTTTATCTTTTTCACTCT
1 TTTTTCTCTTTCTTTTTTTCAAT-T
57935231 TTTTT-TCTTGTACTTTTTCTTTCAATT
1 TTTTTCTCTT-T-C-TTTT-TTTCAATT
57935258 T
1 T
57935259 CACTTGATCT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
23 6 0.15
24 17 0.41
25 7 0.17
27 5 0.12
28 6 0.15
ACGTcount: A:0.09, C:0.18, G:0.01, T:0.71
Consensus pattern (24 bp):
TTTTTCTCTTTCTTTTTTTCAATT
Found at i:57939778 original size:11 final size:10
Alignment explanation
Indices: 57939755--57939788 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
57939745 TATATGTATG
57939755 TATCATGGCA
1 TATCATGGCA
57939765 TATCATGTGCA
1 TATCATG-GCA
57939776 TATCATGGCA
1 TATCATGGCA
57939786 TAT
1 TAT
57939789 TATGTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (10 bp):
TATCATGGCA
Found at i:57939801 original size:21 final size:21
Alignment explanation
Indices: 57939756--57939801 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
57939746 ATATGTATGT
* *
57939756 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGTACAA
*
57939777 ATCATGGCATATTATGTACAA
1 ATCATGGCATATCATGTACAA
57939798 ATCA
1 ATCA
57939802 GTATCACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATCATGGCATATCATGTACAA
Found at i:57947076 original size:31 final size:31
Alignment explanation
Indices: 57947040--57947151 Score: 172
Period size: 31 Copynumber: 3.6 Consensus size: 31
57947030 CTCATAATAT
*
57947040 ACTGGGCCGAAGCTTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
*
57947071 ACTGGGCCGAAGCCTATT-CATTATTCATATC
1 ACTGGGCCGAAGCCT-TTACATTATTCATACC
*
57947102 ACTGGGCTGAAGCCTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
*
57947133 ACTGGGTCGAAGCCTTTAC
1 ACTGGGCCGAAGCCTTTAC
57947152 TGTAAACGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 2 0.03
31 69 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATTCATACC
Found at i:57947387 original size:25 final size:24
Alignment explanation
Indices: 57947370--57947439 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 24
57947360 CTTTTTTAAT
57947370 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTC-GTA
57947395 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTC-GTA
*
57947420 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
57947440 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTTCGTA
Found at i:57947509 original size:11 final size:10
Alignment explanation
Indices: 57947486--57947519 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
57947476 TATATGTATG
57947486 TATCATGGCA
1 TATCATGGCA
57947496 TATCATGTGCA
1 TATCATG-GCA
57947507 TATCATGGCA
1 TATCATGGCA
57947517 TAT
1 TAT
57947520 TATGTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (10 bp):
TATCATGGCA
Found at i:57947532 original size:21 final size:21
Alignment explanation
Indices: 57947487--57947532 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
57947477 ATATGTATGT
* *
57947487 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGTACAA
*
57947508 ATCATGGCATATTATGTACAA
1 ATCATGGCATATCATGTACAA
57947529 ATCA
1 ATCA
57947533 GTATCACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATCATGGCATATCATGTACAA
Found at i:57951748 original size:21 final size:22
Alignment explanation
Indices: 57951704--57951754 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
57951694 TTACCTACAT
57951704 TTAAACACATTAAATTGAACTTA
1 TTAAACACATTAAA-TGAACTTA
* *
57951727 TTAAACACATTTAA-GCACTTA
1 TTAAACACATTAAATGAACTTA
*
57951748 TTGAACA
1 TTAAACA
57951755 TGCACTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
23 13 0.52
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (22 bp):
TTAAACACATTAAATGAACTTA
Found at i:57955233 original size:56 final size:54
Alignment explanation
Indices: 57955114--57955270 Score: 172
Period size: 56 Copynumber: 2.8 Consensus size: 54
57955104 CATGACATAG
* * *
57955114 CACGCCTCTCAACAGGGCTACATATGAGCACTCGGACCTAGCATGCATCACAATAC
1 CACGCCTCTCAACAGGGCTACATA--AGCTCTCGGACCTAGCATGTACCACAATAC
* * *
57955170 CACGCCTCTGAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTA-
1 CACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCATGTACCAC--AA-TAC
* * * *
57955226 CATGCCTCTCAACGGGGCTACACAAGCTCTTGGACCTAGCATGTA
1 CACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCATGTA
57955271 TCATGTCATC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 20 0.24
56 63 0.74
57 2 0.02
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCATGTACCACAATAC
Found at i:57957393 original size:9 final size:9
Alignment explanation
Indices: 57957379--57957403 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57957369 TAAAGACTCA
57957379 AACTAAATT
1 AACTAAATT
57957388 AACTAAATT
1 AACTAAATT
57957397 AACTAAA
1 AACTAAA
57957404 ATCAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (9 bp):
AACTAAATT
Found at i:57960523 original size:42 final size:42
Alignment explanation
Indices: 57960476--57960558 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
57960466 CCTTAAAGTG
57960476 TGTTTTGGACTAAATTGAA-CAATTAGATGATTAAATAAGTTT
1 TGTTTTGGACTAAATTGAATCAA-TAGATGATTAAATAAGTTT
*
57960518 TGTTTTGGACTAAATTGAATGAATAGATGATTAAATAAGTT
1 TGTTTTGGACTAAATTGAATCAATAGATGATTAAATAAGTT
57960559 AATTTTGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.40
Consensus pattern (42 bp):
TGTTTTGGACTAAATTGAATCAATAGATGATTAAATAAGTTT
Found at i:57960815 original size:40 final size:41
Alignment explanation
Indices: 57960771--57960854 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 41
57960761 TTCAAATATA
* * *
57960771 TATATATGGCACTTAGTGTGCGA-TTCAAGATAGCTTCGGC
1 TATATATGGCACTTAATGTGCGAGATCAAGATAGCTTCAGC
*
57960811 TATATATGGCACTTAATGTGCGAGATCGAGATAGCTTCAGC
1 TATATATGGCACTTAATGTGCGAGATCAAGATAGCTTCAGC
57960852 TAT
1 TAT
57960855 GTGTGCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 22 0.56
41 17 0.44
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (41 bp):
TATATATGGCACTTAATGTGCGAGATCAAGATAGCTTCAGC
Found at i:57964236 original size:46 final size:45
Alignment explanation
Indices: 57964143--57964228 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
57964133 TACATTTCAC
* *
57964143 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
57964189 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
57964229 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:57965582 original size:25 final size:26
Alignment explanation
Indices: 57965554--57965650 Score: 126
Period size: 25 Copynumber: 3.8 Consensus size: 26
57965544 CTCTTTTAAT
*
57965554 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
* **
57965579 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTA
* *
57965604 AACTAGGGTATAAGCCTTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
57965630 AACTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
57965651 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
25 31 0.50
26 31 0.50
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCGGTA
Found at i:57965625 original size:26 final size:26
Alignment explanation
Indices: 57965541--57965650 Score: 111
Period size: 25 Copynumber: 4.3 Consensus size: 26
57965531 CTGGAGGCTT
*
57965541 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTAGGGCATA
** *
57965565 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTAGGGCATA
*
57965590 AGCCCTTTTCAATAAACTAGGGTATA
1 AGCCCTTTTCAATAAACTAGGGCATA
* **
57965616 AGCCTTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
57965642 AGCCCTTTT
1 AGCCCTTTT
57965651 GCACTTCCTC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
23 5 0.07
24 5 0.07
25 31 0.43
26 31 0.43
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTAGGGCATA
Found at i:57970606 original size:13 final size:13
Alignment explanation
Indices: 57970588--57970617 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
57970578 ACTATAATAA
57970588 ACAAGGTAAAATG
1 ACAAGGTAAAATG
57970601 ACAAGGTAAAATG
1 ACAAGGTAAAATG
57970614 ACAA
1 ACAA
57970618 AATCAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.20, T:0.13
Consensus pattern (13 bp):
ACAAGGTAAAATG
Found at i:57970956 original size:64 final size:64
Alignment explanation
Indices: 57970878--57971004 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
57970868 ATGATTTGTT
* *
57970878 GAGTATATTTCATACGAACTAACTAGGCTTTATAGTTTACTTGGTTTATTTTTCTATGTTTTAA
1 GAGTAAATTTCATACGAACTAACTAGGCTTTATAGTTTACTTGATTTATTTTTCTATGTTTTAA
*
57970942 GAGTAAATTTCATACGAACTTACTAGGCTTTATAGTTTACTTGATTTATTTTTCTATGTTTTA
1 GAGTAAATTTCATACGAACTAACTAGGCTTTATAGTTTACTTGATTTATTTTTCTATGTTTTA
57971005 TAGTCTTTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (64 bp):
GAGTAAATTTCATACGAACTAACTAGGCTTTATAGTTTACTTGATTTATTTTTCTATGTTTTAA
Found at i:57974505 original size:40 final size:39
Alignment explanation
Indices: 57974445--57974555 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
57974435 CTCGGTATCG
*
57974445 CACACTTAGTGCCTCA--TATAGCTGAAGCTATACCATTTCA
1 CACACTTAGTG-CT-ATTTATAGCTGAAGCTATACCA-ATCA
* *** *
57974485 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCTGAAGCTA-TACCAATCA
57974525 CACACTTAGTGCTATTTATAGCTGAAGCTAT
1 CACACTTAGTGCTATTTATAGCTGAAGCTAT
57974556 TTTGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 55 0.90
41 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (39 bp):
CACACTTAGTGCTATTTATAGCTGAAGCTATACCAATCA
Found at i:57974556 original size:40 final size:40
Alignment explanation
Indices: 57974485--57974576 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
57974475 TACCATTTCA
57974485 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
*
57974525 CACACTTAGTGCTATTTATAGCTGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
*
57974565 CAGACTTAGTGC
1 CACACTTAGTGC
57974577 CAAATGCAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (40 bp):
CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
Found at i:57981999 original size:40 final size:40
Alignment explanation
Indices: 57981951--57982039 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
57981941 AGCATCACAG
57981951 ACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCGCAC
1 ACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCGCAC
*
57981991 ACTTAGTGCTATTTATAGTCGAAGCTATTTTGAATCGCAC
1 ACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCGCAC
57982031 ACTTAGTGC
1 ACTTAGTGC
57982040 CAAATGCAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (40 bp):
ACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCGCAC
Found at i:57990076 original size:21 final size:22
Alignment explanation
Indices: 57990052--57990092 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
57990042 TACCTCATTC
*
57990052 TTTCCTTTCT-TTTTTTTCTAA
1 TTTCCTTTCTCTTTCTTTCTAA
*
57990073 TTTCTTTTCTCTTTCTTTCT
1 TTTCCTTTCTCTTTCTTTCT
57990093 CACTTTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCCTTTCTCTTTCTTTCTAA
Found at i:57993430 original size:38 final size:38
Alignment explanation
Indices: 57993347--57993460 Score: 117
Period size: 38 Copynumber: 3.0 Consensus size: 38
57993337 TTAAAACATG
* * * **
57993347 TATTAAAGATGTTCACACTAGGACATAATTAAAGACAGA
1 TATTAATGATGTTCA-ATTATGACATAATTAAAGACTCA
*
57993386 -AATAATGATGTTCAGATTATGACATAATTAAA-ACTCA
1 TATTAATGATGTTCA-ATTATGACATAATTAAAGACTCA
*
57993423 TATTAATGTTG-TCAAGTTATGACATAATTAAAGACTCA
1 TATTAATGATGTTCAA-TTATGACATAATTAAAGACTCA
57993461 AACTAAATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.02
37 22 0.35
38 40 0.63
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (38 bp):
TATTAATGATGTTCAATTATGACATAATTAAAGACTCA
Found at i:57993475 original size:9 final size:9
Alignment explanation
Indices: 57993461--57993485 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57993451 TAAAGACTCA
57993461 AACTAAATT
1 AACTAAATT
57993470 AACTAAATT
1 AACTAAATT
57993479 AACTAAA
1 AACTAAA
57993486 ATCGAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (9 bp):
AACTAAATT
Found at i:57993635 original size:20 final size:20
Alignment explanation
Indices: 57993599--57993636 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57993589 TGCAGTGTGA
* *
57993599 AAAATTCTATATTTTTCTAT
1 AAAATTCTAAATGTTTCTAT
57993619 AAAATTCTAAATGTTTCT
1 AAAATTCTAAATGTTTCT
57993637 GATTTAGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAATTCTAAATGTTTCTAT
Found at i:57994479 original size:20 final size:20
Alignment explanation
Indices: 57994454--57994491 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57994444 GGGACTAAAA
* *
57994454 TGAAAAGTTGTAAAATTTGG
1 TGAAAAATTCTAAAATTTGG
57994474 TGAAAAATTCTAAAATTT
1 TGAAAAATTCTAAAATTT
57994492 TATGAATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.37
Consensus pattern (20 bp):
TGAAAAATTCTAAAATTTGG
Found at i:57994497 original size:20 final size:20
Alignment explanation
Indices: 57994453--57994497 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
57994443 AGGGACTAAA
* *
57994453 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
57994473 GTGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
57994493 ATGAA
1 ATGAA
57994498 TACATGTGCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:57999944 original size:28 final size:27
Alignment explanation
Indices: 57999882--57999982 Score: 112
Period size: 28 Copynumber: 3.7 Consensus size: 27
57999872 CTCGATTTAC
**
57999882 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTAATTTGT
57999909 AAAATTACTAAAATACCTCCTAATTTGT
1 AAAATTACTAAAATACC-CCTAATTTGT
* * * *
57999937 AAAATTACTGAAATACCCTTGACTTGT
1 AAAATTACTAAAATACCCCTAATTTGT
* *
57999964 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
57999983 TCGATTTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 24 0.38
28 39 0.62
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTAATTTGT
Found at i:57999998 original size:55 final size:54
Alignment explanation
Indices: 57999868--57999998 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 54
57999858 ATTACTGTTT
* ** *
57999868 TACCCTCGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAA
* * * * *
57999922 TA-CCTCCTAATTTGTAAAATTACTGAAATACCCTTGACTTGTAAAAATTACCAAAG
1 TACCCT-C-GATTTATAAAATTACTAAAATACCCCTGACTTGT-AAAATTACCAAAA
*
57999978 TACCCTCGATTTATAGAATTA
1 TACCCTCGATTTATAAAATTA
57999999 TTGTTTTACC
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
53 3 0.05
54 3 0.05
55 38 0.62
56 14 0.23
57 3 0.05
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAA
Done.