Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
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: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:888909 original size:22 final size:22
Alignment explanation
Indices: 888857--888911 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
888847 TGGTTGTGAG
**
888857 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
888879 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
888901 GGATTTCTTCG
1 GGATTTCTTCG
888912 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:889082 original size:20 final size:20
Alignment explanation
Indices: 889057--889250 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
889047 CTTTAAATAT
889057 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
889077 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
889099 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
889118 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
889138 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
889158 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
889178 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
889198 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
889218 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
889238 CGCGTTGCGATTT
1 CGCGTTGCGATTT
889251 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:889244 original size:60 final size:60
Alignment explanation
Indices: 889057--889250 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
889047 CTTTAAATAT
**
889057 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
889118 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
889178 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
889238 CGCGTTGCGATTT
1 CGCGTTGCGATTT
889251 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:889267 original size:21 final size:21
Alignment explanation
Indices: 889237--889319 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
889227 ATTTTCATAT
*
889237 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
889258 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
889279 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
889300 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
889320 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:889310 original size:42 final size:43
Alignment explanation
Indices: 889217--889315 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
889207 ATTTATGTGT
* *
889217 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
889258 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
889300 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
889316 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:890702 original size:16 final size:16
Alignment explanation
Indices: 890681--890712 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
890671 GTTGGACTCT
*
890681 CAGTGCATCGATGCAC
1 CAGTGCATCCATGCAC
890697 CAGTGCATCCATGCAC
1 CAGTGCATCCATGCAC
890713 TAAGAGTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.19
Consensus pattern (16 bp):
CAGTGCATCCATGCAC
Found at i:890815 original size:19 final size:20
Alignment explanation
Indices: 890772--890824 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
890762 AATAGCCTGA
*
890772 GTGCATCGATGCATGGTCTT
1 GTGCATCGATGCATGGTCAT
890792 GTGCATCGATGCATGGT-AT
1 GTGCATCGATGCATGGTCAT
890811 GTGCATCGATGCAT
1 GTGCATCGATGCAT
890825 AAAATGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (20 bp):
GTGCATCGATGCATGGTCAT
Found at i:898735 original size:16 final size:15
Alignment explanation
Indices: 898710--898739 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
898700 AAATTGTCTC
898710 TATTAATTAAGTAAT
1 TATTAATTAAGTAAT
898725 TATTGAATTAAGTAA
1 TATT-AATTAAGTAA
898740 ACTTATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
TATTAATTAAGTAAT
Found at i:907256 original size:38 final size:38
Alignment explanation
Indices: 907214--907289 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
907204 AAAGAGATGC
907214 ACTGTGCTGACAGTCTTTGTTGCAGTTTCTTTGATGGT
1 ACTGTGCTGACAGTCTTTGTTGCAGTTTCTTTGATGGT
907252 ACTGTGCTGACAGTCTTTGTTGCAGTTTCTTTGATGGT
1 ACTGTGCTGACAGTCTTTGTTGCAGTTTCTTTGATGGT
907290 GGAGCGCTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.13, C:0.16, G:0.26, T:0.45
Consensus pattern (38 bp):
ACTGTGCTGACAGTCTTTGTTGCAGTTTCTTTGATGGT
Found at i:915656 original size:21 final size:22
Alignment explanation
Indices: 915619--915661 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
915609 AAGACAAAGA
915619 TTTGTCTTAAGAAATCCATGTT
1 TTTGTCTTAAGAAATCCATGTT
915641 TTTGTCTTAA-AAATCCATGTT
1 TTTGTCTTAAGAAATCCATGTT
915662 CTGCTGTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (22 bp):
TTTGTCTTAAGAAATCCATGTT
Found at i:916790 original size:12 final size:12
Alignment explanation
Indices: 916773--916797 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
916763 CGAGAATTAG
916773 AAAATTTAAATT
1 AAAATTTAAATT
916785 AAAATTTAAATT
1 AAAATTTAAATT
916797 A
1 A
916798 CCCAATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTAAATT
Found at i:918230 original size:12 final size:13
Alignment explanation
Indices: 918201--918228 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
918191 AATAAATAAT
918201 AAATAAAAGGAAA
1 AAATAAAAGGAAA
918214 AAATAAAAGGAAA
1 AAATAAAAGGAAA
918227 AA
1 AA
918229 TATTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (13 bp):
AAATAAAAGGAAA
Found at i:918312 original size:35 final size:38
Alignment explanation
Indices: 918260--918335 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
918250 ATACGATTTG
*
918260 AAAAATGTTTTTCAAAA-T-CATATAATATATTTTCAA
1 AAAAATATTTTTCAAAATTACATATAATATATTTTCAA
* *
918296 AAAAATATTTTT-AAAATTACATATTATATATTTTCTA
1 AAAAATATTTTTCAAAATTACATATAATATATTTTCAA
918333 AAA
1 AAA
918336 TGTTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 4 0.11
36 12 0.34
37 19 0.54
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (38 bp):
AAAAATATTTTTCAAAATTACATATAATATATTTTCAA
Found at i:918336 original size:35 final size:35
Alignment explanation
Indices: 918224--918434 Score: 114
Period size: 36 Copynumber: 5.8 Consensus size: 35
918214 AAATAAAAGG
* * * *
918224 AAAAATATTTTTAAAATTA-TTTTTATATACGATTTG
1 AAAAATATTTTTAAAA-TACATATTATATA-GTTTTC
* *
918260 AAAAATGTTTTTCAAAAT-CATATAATATA-TTTTC
1 AAAAATATTTTT-AAAATACATATTATATAGTTTTC
918294 AAAAAAATATTTTTAAAATTACATATTATATA-TTTTC
1 --AAAAATATTTTTAAAA-TACATATTATATAGTTTTC
* * *
918331 TAAAATGTTTTTTAAAAAAC-TATATATATAAGTTTTC
1 AAAAAT-ATTTTTAAAATACATAT-TATAT-AGTTTTC
*
918368 -AAAATATTTTTTAAAA-ACTATATATATAAATGTTTTC
1 AAAAATA-TTTTTAAAATAC-ATAT-TATATA-GTTTTC
* * *
918405 AAAATGTTTTTTTAAAA-ACTATAATATATA
1 AAAA-ATATTTTTAAAATAC-ATATTATATA
918435 AATATTTTCA
Statistics
Matches: 142, Mismatches: 17, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
34 6 0.04
35 18 0.13
36 56 0.39
37 43 0.30
38 18 0.13
39 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (35 bp):
AAAAATATTTTTAAAATACATATTATATAGTTTTC
Found at i:918417 original size:39 final size:38
Alignment explanation
Indices: 918326--918462 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 38
918316 ATATTATATA
*
918326 TTTTCTAAAATGTTTTTTAAAAAACTATATATAT-AA-G
1 TTTTC-AAAATGTTTTTTTAAAAACTATATATATAAATG
*
918363 TTTTCAAAAT-ATTTTTTAAAAACTATATATATAAATG
1 TTTTCAAAATGTTTTTTTAAAAACTATATATATAAATG
*
918400 TTTTCAAAATGTTTTTTTAAAAACTATAATATATAAATA
1 TTTTCAAAATGTTTTTTTAAAAACTAT-ATATATAAATG
*
918439 TTTTCAAAATATTTCTTTTAAAAA
1 TTTTCAAAATGTTT-TTTTAAAAA
918463 ATGTTTTTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
35 20 0.22
36 7 0.08
37 16 0.18
38 15 0.17
39 23 0.26
40 9 0.10
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.47
Consensus pattern (38 bp):
TTTTCAAAATGTTTTTTTAAAAACTATATATATAAATG
Found at i:918520 original size:38 final size:37
Alignment explanation
Indices: 918454--918637 Score: 164
Period size: 36 Copynumber: 4.9 Consensus size: 37
918444 AAAATATTTC
*
918454 TTTTAAAAAATGTTTTTTAAAAAC--TATATTATATAAA
1 TTTTCAAAAATGT--TTTAAAAACTATATATTATATAAA
* *
918491 TTTTCAAAAATGTTTTAAAAAACTTTATA-T-TATAAG
1 TTTTCAAAAATGTTTT-AAAAACTATATATTATATAAA
* *
918527 TTTTC-AAAATAGTTTTAAAAACTATATAATATATATA
1 TTTTCAAAAAT-GTTTTAAAAACTATATATTATATAAA
* * *
918564 -TTTCTAAAATGTTTTCAAAACTATATATATATTATATAG
1 TTTTCAAAAATGTTTTAAAAACTATATAT-TA-TATA-AA
* * *
918603 TTTCCAAAAATATTTTAAAGACTATATATTATATA
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATA
918638 TTTGTTTTCA
Statistics
Matches: 122, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
35 19 0.16
36 42 0.34
37 24 0.20
38 12 0.10
39 2 0.02
40 23 0.19
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTCAAAAATGTTTTAAAAACTATATATTATATAAA
Found at i:918593 original size:40 final size:41
Alignment explanation
Indices: 918516--918682 Score: 117
Period size: 40 Copynumber: 4.3 Consensus size: 41
918506 TAAAAAACTT
* *
918516 TATAT-TATA-AGTTTTC-AAAATAGTTTTAAAAAC--TATA
1 TATATATATATAGTTTCCAAAAATA-TTTTAAAGACTATATA
* *
918553 TA-ATATATATA-TTT-CTAAAATGTTTTCAAA-ACTATATA
1 TATATATATATAGTTTCCAAAAATATTTT-AAAGACTATATA
918591 TATAT-TATATAGTTTCCAAAAATATTTTAAAGACTATATA
1 TATATATATATAGTTTCCAAAAATATTTTAAAGACTATATA
* * * **
918631 T-TATATAT-TTGTTTTCAAAAACAATTTGCAA-ACTATATAA
1 TATATATATATAGTTTCCAAAAA-TATTTTAAAGACTATAT-A
*
918671 TATACATATATA
1 TATATATATATA
918683 TAGATATATA
Statistics
Matches: 105, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
36 9 0.09
37 17 0.16
38 13 0.12
39 29 0.28
40 30 0.29
41 6 0.06
42 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (41 bp):
TATATATATATAGTTTCCAAAAATATTTTAAAGACTATATA
Found at i:919335 original size:81 final size:82
Alignment explanation
Indices: 919243--919808 Score: 397
Period size: 84 Copynumber: 6.9 Consensus size: 82
919233 ATTTTGGTGA
* * * * * *
919243 CAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATACCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGTAATCGA
*
919308 ACTC-AAGGGTATTTGG
66 ACTCGAAGGGTCTTTGG
* * * * * *
919324 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG--ATGCGCCTTGGAGCTGAGCGTAGTCG
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGC-CCTTGAAGCTGAGTGTAATCG
919387 AACTCGAA-GGTCGTTGGTTGG
65 AACTCGAAGGGTC--T--TTGG
* * * * * *
919408 CAGATAACCCTTCTCGATTTAAGTTATGCTGCAAAT-ACTGGTGCCTTTG-AGCTGGGTGTAATA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGA-T-ATGCCCTTGAAGCTGAGTGTAATC
919471 GAACTCGAA-GGTCTTTGG
64 GAACTCGAAGGGTCTTTGG
* ** * * * *
919489 CACATATGCCTTCTCA-ACTTAAGTTATGCTGCAAAT-AAAGTG-CCTTGGAGCTGAGCGTAGTC
1 CAGATAACCCTTCT-AGACTTAAGTTATGCTGCAAATGATA-TGCCCTTGAAGCTGAGTGTAATC
919551 GAACTCGAA-GGTCTTTGGTG
64 GAACTCGAAGGGTCTTT-G-G
* * * * *
919571 ACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCG
1 -CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGTAATCG
919636 AACTCG-AGGGTCTTTGG
65 AACTCGAAGGGTCTTTGG
* * * * * * ** * * ** *
919653 CAAATAGCCCTTCTTGACTTAAGCTATGCTACAAATGATGT-ATCTTGGAGCTGAGCGTAGCCAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGTAATCGA
919717 ACTCGAA-GGTCTTTGGTTGG
66 ACTCGAAGGGTC--T--TTGG
* * * * * * * * *
919737 TATATAACCCTTCTCGACTTAAGTTATGCTGAAAATGTTGGTGCCTTTG-AGCTGAGCGTAGTCG
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGAT-ATGCCCTTGAAGCTGAGTGTAATCG
919801 AACTCGAA
65 AACTCGAA
919809 AGTCCTTTAT
Statistics
Matches: 383, Mismatches: 75, Indels: 50
0.75 0.15 0.10
Matches are distributed among these distances:
79 7 0.02
80 77 0.20
81 101 0.26
82 5 0.01
83 33 0.09
84 104 0.27
85 46 0.12
86 7 0.02
87 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (82 bp):
CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGTGTAATCGA
ACTCGAAGGGTCTTTGG
Found at i:919490 original size:165 final size:164
Alignment explanation
Indices: 919292--919858 Score: 660
Period size: 165 Copynumber: 3.4 Consensus size: 164
919282 ATACCCTCGA
* *
919292 AGCTGAGTGTAATCGAACTC-AAGGGTATTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
1 AGCTGAGTGTAATCGAACTCGAA-GGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGC
* * *
919356 AAATGATGCGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCGTTGGTTGGCAGATAACCCTTC
65 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAACCCTTC
* *
919421 TCGATTTAAGTTATGCTGCAAATACTGGTGCCTTTG
130 TCGACTTAAGTTATGCTGAAAATA-TGGTGCCTTTG
* * * * *
919457 AGCTGGGTGTAATAGAACTCGAAGGTCTTTGGCACATATG-CCTTCTCAACTTAAGTTATGCTGC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATA-GCCCTTCTCGACTTAAGCTATGCTGC
* * *
919521 AAATAAAGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACATATAACCCTTC
65 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAACCCTTC
* * * * * * *
919585 TAGCCTTGAGTTATGCTGTAAATGAT-ATGCCCTCG
130 TCGACTTAAGTTATGCTGAAAAT-ATGGTGCCTTTG
* * *
919620 AAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAAATAGCCCTTCTTGACTTAAGCTATGCTAC
1 -AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGC
** * * *
919685 AAATGATGTATCTTGGAGCTGAGCGTAGCCAAACTCGAAGGTCTTTGGTTGGTATATAACCCTTC
65 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAACCCTTC
*
919750 TCGACTTAAGTTATGCTGAAAATGTTGGTGCCTTTG
130 TCGACTTAAGTTATGCTGAAAAT-ATGGTGCCTTTG
* * * * * *
919786 AGCTGAGCGTAGTCGAACTCGAAAGTCCTTTATTGGCAAA-A-CCCTTCTTGCCTTAAGCTATGT
1 AGCTGAGTGTAATCGAACTCGAAGGT-C--T-TTGGCAAATAGCCCTTCTCGACTTAAGCTATGC
*
919849 TGCAACTGAT
62 TGCAAATGAT
919859 TTCTTTTAAA
Statistics
Matches: 339, Mismatches: 52, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
163 7 0.02
164 129 0.38
165 155 0.46
166 10 0.03
167 28 0.08
168 2 0.01
169 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (164 bp):
AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCA
AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCATATAACCCTTCT
CGACTTAAGTTATGCTGAAAATATGGTGCCTTTG
Found at i:919544 original size:85 final size:83
Alignment explanation
Indices: 919292--919708 Score: 258
Period size: 81 Copynumber: 5.0 Consensus size: 83
919282 ATACCCTCGA
* *
919292 AGCTGAGTGTAATCGAACTC-AAGGGTATTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
1 AGCTG-GTGTAATCGAACTCGAA-GGTCTTTGGCAGATAG-CCTTCTCGACTTAAGTTATGCTGC
* * *
919356 AAATGATGCGCCTTGGAGCTG
63 AAATAAAGTGCCTTGGAGCTG
* * *
919377 AGC----GTAGTCGAACTCGAAGGTCGTTGGTTGGCAGATAACCCTTCTCGATTTAAGTTATGCT
1 AGCTGGTGTAATCGAACTCGAAGGTC--T--TTGGCAGAT-AGCCTTCTCGACTTAAGTTATGCT
** *
919438 GCAAATACTGGTGCCTTTGAGCT-
61 GCAAATA-AAGTGCCTTGGAGCTG
* * *
919461 -G--GGTGTAATAGAACTCGAAGGTCTTTGGCACATATGCCTTCTCAACTTAAGTTATGCTGCAA
1 AGCTGGTGTAATCGAACTCGAAGGTCTTTGGCAGATA-GCCTTCTCGACTTAAGTTATGCTGCAA
919523 ATAAAGTGCCTTGGAGCTG
65 ATAAAGTGCCTTGGAGCTG
* * * * * *
919542 AGC----GTAGTCGAACTCGAAGGTCTTTGGTGACATATAACCCTTCTAGCCTTGAGTTATGCTG
1 AGCTGGTGTAATCGAACTCGAAGGTCTTT-G-G-CAGAT-AGCCTTCTCGACTTAAGTTATGCTG
* * * *
919603 TAAATGATA-TGCCCTCGA----
62 CAAAT-AAAGTGCCTTGGAGCTG
* * * * *
919621 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAAATAGCCCTTCTTGACTTAAGCTATGCTACA
1 AGCTG-GTGTAATCGAACTCGAAGGTCTTTGGCAGATAG-CCTTCTCGACTTAAGTTATGCTGCA
* * **
919686 AATGATGTATCTTGGAGCTG
64 AATAAAGTGCCTTGGAGCTG
919706 AGC
1 AGC
919709 GTAGCCAAAC
Statistics
Matches: 254, Mismatches: 48, Indels: 60
0.70 0.13 0.17
Matches are distributed among these distances:
79 3 0.01
80 48 0.19
81 69 0.27
82 4 0.02
83 37 0.15
84 58 0.23
85 35 0.14
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (83 bp):
AGCTGGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCTTCTCGACTTAAGTTATGCTGCAAA
TAAAGTGCCTTGGAGCTG
Found at i:919675 original size:164 final size:165
Alignment explanation
Indices: 919235--919773 Score: 674
Period size: 165 Copynumber: 3.3 Consensus size: 165
919225 ACTCGACCAT
* * * *
919235 TTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATACCCTCGAAGCTGAG
1 TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
* * *
919299 TGTAATCGAACTCAAGGGTATTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
66 TGTAATCGAACTCGAGGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
919364 CGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
131 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * * * * * *
919399 GTTGGTTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAAT-ACTGGTGCCTTTG-AGCTG
1 TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGA-T-ATGCCCTCGAAGCTG
* * * * * * *
919462 GGTGTAATAGAACTCGAAGGTCTTTGGCACATATG-CCTTCTCAACTTAAGTTATGCTGCAAATA
64 AGTGTAATCGAACTCGAGGGTCTTTGGCAAATA-GCCCTTCTCGACTTAAGCTATGCTGCAAATG
*
919526 AAGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
128 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * *
919564 TTTGG-TGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
1 TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
* *
919628 TGTAATCGAACTCGAGGGTCTTTGGCAAATAGCCCTTCTTGACTTAAGCTATGCTACAAATGATG
66 TGTAATCGAACTCGAGGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
** * *
919693 TATCTTGGAGCTGAGCGTAGCCAAACTCGAAGGTC
131 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
** * * *
919728 TTTGGTTGGTATATAACCCTTCTCGACTTAAGTTATGCTGAAAATG
1 TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATG
919774 TTGGTGCCTT
Statistics
Matches: 313, Mismatches: 54, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
163 7 0.02
164 134 0.43
165 166 0.53
166 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (165 bp):
TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
TGTAATCGAACTCGAGGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
Found at i:925902 original size:14 final size:14
Alignment explanation
Indices: 925879--925909 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
925869 AAAACGAAGG
*
925879 AAAATTAATAAATA
1 AAAATAAATAAATA
925893 AAAATAAATAAATA
1 AAAATAAATAAATA
925907 AAA
1 AAA
925910 GGAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAATAAATA
Found at i:925952 original size:37 final size:37
Alignment explanation
Indices: 925911--926015 Score: 97
Period size: 36 Copynumber: 2.8 Consensus size: 37
925901 TAAATAAAAG
*
925911 GAAAAATATTTTTTAAAATTATATTTATATACGA-TTT
1 GAAAAA-ATTTTTTAAAATTATATTTATATAAGATTTT
* * * * *
925948 GAAAAAGTTTTTCAAAATCATA-TAATATAATATTTT
1 GAAAAAATTTTTTAAAATTATATTTATATAAGATTTT
* *
925984 CAAAAAATATTTTTAAAATTACATATTATATA
1 GAAAAAAT-TTTTTAAAATTATAT-TTATATA
926016 TTTTCTAAAG
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
35 7 0.13
36 22 0.42
37 17 0.33
39 6 0.12
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (37 bp):
GAAAAAATTTTTTAAAATTATATTTATATAAGATTTT
Found at i:925989 original size:36 final size:35
Alignment explanation
Indices: 925949--926030 Score: 85
Period size: 37 Copynumber: 2.3 Consensus size: 35
925939 ATACGATTTG
*
925949 AAAAAGTTTTTCAAAATCATATAATATAATATTTTC
1 AAAAAGTTTTTCAAAATCACATAATAT-ATATTTTC
* * * *
925985 AAAAAATATTTTTAAAATTACATATTATATATTTTC
1 AAAAAGT-TTTTCAAAATCACATAATATATATTTTC
*
926021 -TAAAGTTTTT
1 AAAAAGTTTTT
926031 TTAAAAACTA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 4 0.11
35 4 0.11
36 14 0.37
37 16 0.42
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (35 bp):
AAAAAGTTTTTCAAAATCACATAATATATATTTTC
Found at i:926046 original size:36 final size:36
Alignment explanation
Indices: 925993--926082 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 36
925983 TCAAAAAATA
* *
925993 TTTTT-AAAATTACATATTATAT-A-TTTTCTAAAGTT
1 TTTTTAAAAACTATATATTATATAAGTTTTC--AAGTT
*
926028 TTTTTAAAAACTATATATTATATAAGTTTTCAATTT
1 TTTTTAAAAACTATATATTATATAAGTTTTCAAGTT
926064 TTTTTAAAAAACTATATAT
1 TTTTT-AAAAACTATATAT
926083 AAAAAATGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 5 0.10
36 24 0.50
37 14 0.29
38 5 0.10
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (36 bp):
TTTTTAAAAACTATATATTATATAAGTTTTCAAGTT
Found at i:926094 original size:37 final size:36
Alignment explanation
Indices: 926026--926097 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
926016 TTTTCTAAAG
* *
926026 TTTTTTTAAAAACTATATATTATATAAGTTTTCAAT
1 TTTTTTTAAAAACTATATATTAAAAAAGTTTTCAAT
926062 TTTTTTTAAAAAACTATATA-TAAAAAATGTTTTCAA
1 TTTTTTT-AAAAACTATATATTAAAAAA-GTTTTCAA
926098 AATTTCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 12 0.38
37 20 0.62
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (36 bp):
TTTTTTTAAAAACTATATATTAAAAAAGTTTTCAAT
Found at i:926242 original size:37 final size:37
Alignment explanation
Indices: 926152--926284 Score: 123
Period size: 37 Copynumber: 3.6 Consensus size: 37
926142 TTTTTTTAAA
* **
926152 AAAAACTATAT--TATATA-ATTTTCAAAAATGTTGCAA
1 AAAAACTATATAATATATATATTTTCTAAAATGTT--TT
* *
926188 AAAAACTTTATATTATATA-AGTTTTC-AAAATGGTTTT
1 AAAAACTATATAATATATATA-TTTTCTAAAAT-GTTTT
926225 AAAAACTATATAATATATATATTTTCTAAAATGTTTT
1 AAAAACTATATAATATATATATTTTCTAAAATGTTTT
* *
926262 CAAAATTATATATATATATATAT
1 AAAAACTATATA-ATATATATAT
926285 ATATTATATA
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
36 10 0.12
37 37 0.45
38 28 0.34
39 8 0.10
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (37 bp):
AAAAACTATATAATATATATATTTTCTAAAATGTTTT
Found at i:926284 original size:49 final size:49
Alignment explanation
Indices: 926231--926329 Score: 116
Period size: 50 Copynumber: 2.1 Consensus size: 49
926221 TTTTAAAAAC
* * * *
926231 TATATA-ATA-TATATA-TTTTCTAAAATGTTTTCAAA-ATTATATATATA
1 TATATATATATTATATAGTTTCCAAAAATATTTT-AAAGACTATATAT-TA
926278 TATATATATATTATATAGTTTCCAAAAATATTTTAAAGACTATATATTA
1 TATATATATATTATATAGTTTCCAAAAATATTTTAAAGACTATATATTA
926327 TAT
1 TAT
926330 GTTTGTTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
47 6 0.14
48 3 0.07
49 14 0.32
50 21 0.48
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (49 bp):
TATATATATATTATATAGTTTCCAAAAATATTTTAAAGACTATATATTA
Found at i:926304 original size:38 final size:39
Alignment explanation
Indices: 926231--926304 Score: 89
Period size: 40 Copynumber: 1.9 Consensus size: 39
926221 TTTTAAAAAC
* * *
926231 TATATAATATATATATTTTCTAAAATGTTTTCAAAATTA
1 TATATAATATATATATATTATAAAATGTTTCCAAAATTA
*
926270 TATATATATATATATATATTAT-ATA-GTTTCCAAAA
1 TATATA-ATATATATATATTATAAAATGTTTCCAAAA
926305 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
38 9 0.30
39 8 0.27
40 13 0.43
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (39 bp):
TATATAATATATATATATTATAAAATGTTTCCAAAATTA
Found at i:931815 original size:2 final size:2
Alignment explanation
Indices: 931808--931842 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
931798 AAGTAGTAAC
931808 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
931843 CACAGATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:953094 original size:29 final size:29
Alignment explanation
Indices: 953057--953253 Score: 165
Period size: 28 Copynumber: 7.0 Consensus size: 29
953047 CCTTTGACCG
*
953057 GGTGATATTTTAGTAATTATTTTGAAATT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * *
953086 GGTGGTATTTTGGTAATTATTTTAAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * *
953115 GGTGCTATTTTTGTAATT-TTTT-AAAAA
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * *
953142 GAGTGATAATTTCGTAATT-TTTT-AAAGAA
1 G-GTGATATTTTAGTAATTATTTTGAAA-AT
* *
953171 AGTGTTA-TTTAGTAATTA-TTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
**
953198 GGTTTTATTTTAGTAATTA-TTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * * *
953226 GGTGCTATTTTTGTAATTTTTTTAAAAA
1 GGTGATATTTTAGTAATTATTTTGAAAA
953254 AGTGTTAATT
Statistics
Matches: 141, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.16
28 68 0.48
29 50 0.35
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTATTTTGAAAAT
Found at i:953200 original size:83 final size:85
Alignment explanation
Indices: 953098--953269 Score: 208
Period size: 83 Copynumber: 2.0 Consensus size: 85
953088 TGGTATTTTG
* *
953098 GTAATTATTTTAAAAATGGTGCTATTTTTGTAATT-TTTTAAAAAGAGTGATAATTTCGTAA-TT
1 GTAATTATTTTAAAAATGGTGCTATTTTAGTAATTATTTGAAAAAG-GTGATAATTTCGTAATTT
953161 TTTTAAAGAAAGTGTT-ATTTA
65 TTTTAAA-AAAGTGTTAATTTA
* ** * * * *
953182 GTAATTA-TTTGAAAATGGTTTTATTTTAGTAATTATTTGAAAATGGTGCTATTTTTGTAATTTT
1 GTAATTATTTTAAAAATGGTGCTATTTTAGTAATTATTTGAAAAAGGTGATAATTTCGTAATTTT
*
953246 TTTAAAAAAGTGTTAATTTC
66 TTTAAAAAAGTGTTAATTTA
953266 GTAA
1 GTAA
953270 ATGAATGATC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
83 43 0.57
84 32 0.43
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (85 bp):
GTAATTATTTTAAAAATGGTGCTATTTTAGTAATTATTTGAAAAAGGTGATAATTTCGTAATTTT
TTTAAAAAAGTGTTAATTTA
Found at i:960362 original size:7 final size:7
Alignment explanation
Indices: 960352--960396 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
960342 ATTGACCGAC
960352 CCGTTGA
1 CCGTTGA
960359 CCGTTGA
1 CCGTTGA
**
960366 CC-CCGA
1 CCGTTGA
960372 CCCGTTGA
1 -CCGTTGA
960380 CCGTTGA
1 CCGTTGA
960387 CCGTTGA
1 CCGTTGA
960394 CCG
1 CCG
960397 GGTGATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 2 0.06
7 28 0.88
8 2 0.06
ACGTcount: A:0.13, C:0.38, G:0.27, T:0.22
Consensus pattern (7 bp):
CCGTTGA
Found at i:960371 original size:21 final size:21
Alignment explanation
Indices: 960347--960388 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
960337 CGACCATTGA
960347 CCGACCCGTTGACCGTTGACC
1 CCGACCCGTTGACCGTTGACC
960368 CCGACCCGTTGACCGTTGACC
1 CCGACCCGTTGACCGTTGACC
960389 GTTGACCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.43, G:0.24, T:0.19
Consensus pattern (21 bp):
CCGACCCGTTGACCGTTGACC
Found at i:960434 original size:29 final size:29
Alignment explanation
Indices: 960397--960543 Score: 133
Period size: 29 Copynumber: 5.1 Consensus size: 29
960387 CCGTTGACCG
* *
960397 GGTGATATTTTATTAATTATTTTGAAATT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* *
960426 GGTGGTATTTTGGTAATTATTTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * *
960455 GGTGCTATTTT-GTAATT-TTTTAAAAAA
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * *
960482 GAGTGATGA-TTTCGTAATTTTTTTAATGAAAT
1 G-GTGAT-ATTTTAGTAATTATTTTGA--AAAT
960514 --TGATATTTTAGTAATTATTTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
960541 GGT
1 GGT
960544 CTATTTTTGG
Statistics
Matches: 97, Mismatches: 12, Indels: 18
0.76 0.09 0.14
Matches are distributed among these distances:
27 13 0.13
28 14 0.14
29 61 0.63
30 6 0.06
32 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.50
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTATTTTGAAAAT
Found at i:984042 original size:7 final size:8
Alignment explanation
Indices: 984022--984048 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
984012 TTTTTTCATT
984022 GAAAAACC
1 GAAAAACC
984030 GAAAAACC
1 GAAAAACC
984038 GAAAAACC
1 GAAAAACC
984046 GAA
1 GAA
984049 CCGAACCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.22, G:0.15, T:0.00
Consensus pattern (8 bp):
GAAAAACC
Found at i:985250 original size:21 final size:21
Alignment explanation
Indices: 985206--985267 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
985196 TCGTTAGACA
* *
985206 GGGGGAAATCGGTACCCCCT-
1 GGGGGGAATCTGTACCCCCTG
*
985226 -GGGGGAATCTGTTCCCCCTG
1 GGGGGGAATCTGTACCCCCTG
985246 GGGGGGAATCTGTACCCCCTG
1 GGGGGGAATCTGTACCCCCTG
985267 G
1 G
985268 ACAATCTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 16 0.44
21 20 0.56
ACGTcount: A:0.15, C:0.29, G:0.37, T:0.19
Consensus pattern (21 bp):
GGGGGGAATCTGTACCCCCTG
Found at i:986761 original size:20 final size:21
Alignment explanation
Indices: 986723--986774 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
986713 GCTTTAAATT
*
986723 ATTTTCAAAAT-TTCATTTTG
1 ATTTTCAAAATCATCATTTTG
986743 ATTTTCAAAATCATC-TTTTG
1 ATTTTCAAAATCATCATTTTG
*
986763 CTTTT-AAAATCA
1 ATTTTCAAAATCA
986775 AATTATCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 7 0.24
20 20 0.69
21 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (21 bp):
ATTTTCAAAATCATCATTTTG
Found at i:987281 original size:26 final size:26
Alignment explanation
Indices: 987252--987309 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 26
987242 ATTCTTCTTC
987252 TTCTTCTTGTTTTTCTTCTCTT-CACT
1 TTCTTCTTGTTTTTCTTCTCTTCCA-T
987278 TTCTTCTTGTTTTTCTTCTCTTCCAT
1 TTCTTCTTGTTTTTCTTCTCTTCCAT
987304 TTCTTC
1 TTCTTC
987310 ATCTTCCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.03, C:0.28, G:0.03, T:0.66
Consensus pattern (26 bp):
TTCTTCTTGTTTTTCTTCTCTTCCAT
Found at i:988765 original size:20 final size:20
Alignment explanation
Indices: 988708--988765 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
988698 CCGTTAGACA
*
988708 GGGGGAAT-TGGTACCCCCTG
1 GGGGGAATCT-GTACCCCTTG
*
988728 GGGGGAATCTGTTCCCCTTG
1 GGGGGAATCTGTACCCCTTG
988748 GGGGGAATCTGTACCCCT
1 GGGGGAATCTGTACCCCT
988766 GGACAATCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCTTG
Found at i:994483 original size:23 final size:21
Alignment explanation
Indices: 994428--994550 Score: 94
Period size: 23 Copynumber: 5.8 Consensus size: 21
994418 ATTTTTGTGC
*
994428 ATAGAGTATCGATACCCCTAAGA
1 ATAG-GTATCGATACCCCT-TGA
*
994451 CT-GGTATCGATACCCTCTTTGA
1 ATAGGTATCGATACCC-C-TTGA
994473 ATAGGTATCGATACCCC-TGCA
1 ATAGGTATCGATACCCCTTG-A
* * *
994494 ATAGGTATCAATAACATCTTTGA
1 ATAGGTATCGAT-AC-CCCTTGA
*
994517 ATGGGTATCGATACCCC-TG-
1 ATAGGTATCGATACCCCTTGA
994536 ATA-GTATCGATACCC
1 ATAGGTATCGATACCC
994551 TCCACATGGT
Statistics
Matches: 82, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
18 12 0.15
19 2 0.02
20 4 0.05
21 25 0.30
22 10 0.12
23 27 0.33
24 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (21 bp):
ATAGGTATCGATACCCCTTGA
Found at i:994501 original size:44 final size:43
Alignment explanation
Indices: 994428--994552 Score: 148
Period size: 44 Copynumber: 2.9 Consensus size: 43
994418 ATTTTTGTGC
*
994428 ATAGAGTATCGATACCCCT-AAGACTGGTATCGATACCCTCTTTGA
1 ATAG-GTATCGATACCCCTGAATA--GGTATCGATACCCTCTTTGA
* * *
994473 ATAGGTATCGATACCCCTGCAATAGGTATCAATAACATCTTTGA
1 ATAGGTATCGATACCCCTG-AATAGGTATCGATACCCTCTTTGA
*
994517 ATGGGTATCGATACCCCTG-ATA-GTATCGATACCCTC
1 ATAGGTATCGATACCCCTGAATAGGTATCGATACCCTC
994553 CACATGGTCT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
41 11 0.16
42 3 0.04
44 49 0.70
45 4 0.06
46 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
ATAGGTATCGATACCCCTGAATAGGTATCGATACCCTCTTTGA
Found at i:1004672 original size:14 final size:14
Alignment explanation
Indices: 1004653--1004683 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1004643 TACAATATAT
1004653 ATAAGAATTATACG
1 ATAAGAATTATACG
1004667 ATAAGAATTATACG
1 ATAAGAATTATACG
1004681 ATA
1 ATA
1004684 TATATCCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:1036444 original size:27 final size:27
Alignment explanation
Indices: 1036400--1036495 Score: 144
Period size: 27 Copynumber: 3.6 Consensus size: 27
1036390 CTTGTAGGAA
1036400 TTATAGAG--ATGATTTGTTACCATTC
1 TTATAGAGATATGATTTGTTACCATTC
1036425 TTATAGAGATATGATTTGTTACCATT-
1 TTATAGAGATATGATTTGTTACCATTC
*
1036451 TCTATTGAGATATGATTTGTTACCATTC
1 T-TATAGAGATATGATTTGTTACCATTC
*
1036479 CTATAGAGATATGATTT
1 TTATAGAGATATGATTT
1036496 TGTAAATAGA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.12
26 1 0.02
27 55 0.86
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (27 bp):
TTATAGAGATATGATTTGTTACCATTC
Found at i:1040208 original size:27 final size:27
Alignment explanation
Indices: 1040165--1040259 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
1040155 GTGTAGGAAT
*
1040165 TATAGAG--ATGATTTGTTACCATTCT
1 TATAGAGATATGATTTGTTACCATTCC
*
1040190 TATAGAGATATGATTTGTTATCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
*
1040217 TATAGAGATATGATTTGTTACTATTCC
1 TATAGAGATATGATTTGTTACCATTCC
1040244 TATAGAGATATGATTT
1 TATAGAGATATGATTT
1040260 TGTAAATAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
25 7 0.11
27 57 0.89
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:1041040 original size:54 final size:54
Alignment explanation
Indices: 1040963--1041266 Score: 466
Period size: 54 Copynumber: 5.6 Consensus size: 54
1040953 TTTGCACCTA
* ** * *
1040963 AGTGCCGATATGAAAATTTACAAACTCATTATGAATTCTATGGGTTGCACACAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCTGTGGGTTGCACACAT
* *
1041017 AGTGCCGATATGGTAATTCACAAACTCATTATGAATTCTGTGGGTTACACACAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCTGTGGGTTGCACACAT
* *
1041071 AGTGTCGATACGGTAATTCACAAACTCATTATGAATTCCGTGGGTTGCACACAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCTGTGGGTTGCACACAT
*
1041125 AGTGCCGATACGATAATTCACAAACTCATTATGAATTCTGTGGGTTGCACACAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCTGTGGGTTGCACACAT
* ** *
1041179 AGTGTCGATACGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACATAT
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCTGTGGGTTGCACACAT
*
1041233 AGTGTCGATACGGTAATTCA-AAACTCATTATGAA
1 AGTGCCGATACGGTAATTCACAAACTCATTATGAA
1041267 AATATGTCGA
Statistics
Matches: 233, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
53 14 0.06
54 219 0.94
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (54 bp):
AGTGCCGATACGGTAATTCACAAACTCATTATGAATTCTGTGGGTTGCACACAT
Found at i:1041646 original size:22 final size:22
Alignment explanation
Indices: 1041615--1041657 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1041605 AGTATCAGTA
*
1041615 TCTCTGCTATAGTATCGATACT
1 TCTCTGCTATAGTACCGATACT
* *
1041637 TCTCTTCTATGGTACCGATAC
1 TCTCTGCTATAGTACCGATAC
1041658 CCACTTCAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.40
Consensus pattern (22 bp):
TCTCTGCTATAGTACCGATACT
Found at i:1043864 original size:20 final size:21
Alignment explanation
Indices: 1043821--1043864 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1043811 CAACTAACTT
** *
1043821 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
1043842 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
1043862 ACA
1 ACA
1043865 CTTAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:1050477 original size:14 final size:14
Alignment explanation
Indices: 1050440--1050478 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
1050430 TAATCTTTTG
1050440 TTTTCACAAATTTA
1 TTTTCACAAATTTA
*
1050454 -TTTCAAAAATTTA
1 TTTTCACAAATTTA
1050467 TTTTCACAAATT
1 TTTTCACAAATT
1050479 ATCATAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTCACAAATTTA
Found at i:1051558 original size:21 final size:21
Alignment explanation
Indices: 1051537--1051575 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1051527 CTAAAAAATA
*
1051537 AATTT-TAGAAAATTAATTAT
1 AATTTATAGAAAATGAATTAT
*
1051557 AATTTATGGAAAATGAATT
1 AATTTATAGAAAATGAATT
1051576 GTAGAAAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (21 bp):
AATTTATAGAAAATGAATTAT
Found at i:1051897 original size:23 final size:23
Alignment explanation
Indices: 1051868--1051934 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
1051858 TTCTATAATC
1051868 AACAAACTCAAAGT-ATAACACCA
1 AACAAACTCAAA-TCATAACACCA
* **
1051891 AGCAAACTCAAATCATAACATTA
1 AACAAACTCAAATCATAACACCA
1051914 AACAAACTCAAATCATAACAC
1 AACAAACTCAAATCATAACAC
1051935 TTGTAATAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.55, C:0.25, G:0.03, T:0.16
Consensus pattern (23 bp):
AACAAACTCAAATCATAACACCA
Found at i:1054531 original size:37 final size:36
Alignment explanation
Indices: 1054481--1054633 Score: 119
Period size: 37 Copynumber: 4.4 Consensus size: 36
1054471 AAGATATTTG
*
1054481 TTGTTTCATGAGAAACGGTCTCAAGGGAGAC-AAGATT
1 TTGTTTCAAGAGAAACGGTCTCAAGGGAGACGAA-A-T
* *
1054518 TTGTTTCAAGAGAAACTGTCTCAAGGTAGACGAAAT
1 TTGTTTCAAGAGAAACGGTCTCAAGGGAGACGAAAT
* * *
1054554 TAGTTTCAA-AGAAACAGAT-TC-A---A-A-G-ATT
1 TTGTTTCAAGAGAAAC-GGTCTCAAGGGAGACGAAAT
* * * *
1054582 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAAT
1 TTGTTTCAAGAGAAACGGTCTCAAGGGAGACGAAAT
1054618 TTGTTTCAAGAGAAAC
1 TTGTTTCAAGAGAAAC
1054634 TGCTTCAAAC
Statistics
Matches: 91, Mismatches: 14, Indels: 23
0.71 0.11 0.18
Matches are distributed among these distances:
28 11 0.12
29 8 0.09
30 2 0.02
31 1 0.01
33 1 0.01
34 2 0.02
35 8 0.09
36 27 0.30
37 29 0.32
38 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACGGTCTCAAGGGAGACGAAAT
Found at i:1054618 original size:64 final size:65
Alignment explanation
Indices: 1054512--1054664 Score: 211
Period size: 64 Copynumber: 2.3 Consensus size: 65
1054502 CAAGGGAGAC
*
1054512 AAGATTTTGTTTCAAGAGAAACTGTCTCAAGGTAGACGAAATTAGTTTCAA-AGAAACAGATTCA
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGGTAGACGAAATTAGTTTCAAGAGAAACAGATTCA
* * * *
1054576 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAG-AGACTAAATTTGTTTCAAGAGAAACTGCTTC
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAG-GTAGACGAAATTAGTTTCAAGAGAAACAGATTC
1054640 A
65 A
*
1054641 AACATCTTGTGTTTCAAGGGAAAC
1 AAGAT-TT-TGTTTCAAGGGAAAC
1054665 GTTTTCAAAG
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
64 46 0.58
65 16 0.20
66 2 0.03
67 15 0.19
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (65 bp):
AAGATTTTGTTTCAAGGGAAACTGTCTCAAGGTAGACGAAATTAGTTTCAAGAGAAACAGATTCA
Found at i:1054633 original size:36 final size:36
Alignment explanation
Indices: 1054581--1054845 Score: 119
Period size: 36 Copynumber: 7.9 Consensus size: 36
1054571 ATTCAAAGAT
1054581 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAA
* * *
1054617 TTTGTTTCAAGAGAAACTG-CTTCAA-ACA-TCT---
1 TTTGTTTCAAGGGAAACTGTC-TCAAGAGAGACTAAA
* * *
1054648 TGTGTTTCAAGGGAAAC-GTTTTC-A-A-AG--T--T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACTAAA
* * *
1054677 TTATGTTTCAAGAGAAA-TCGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACT-GTCTCAAGAGAGACTAAA
* * * *
1054714 TTTATTCCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAA
** * *
1054750 TTCATTTCAAGGGAAA-TGTTTTC-A-A-TG-CT---
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACTAAA
* ** *
1054779 TATGTTTCAAGAAAAACTGTCTCAAG-GAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAA
*
1054814 TTTATTTCAAGGGAAACTGTCTCAAGAGAGAC
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1054846 AATGGTGAGC
Statistics
Matches: 168, Mismatches: 35, Indels: 52
0.66 0.14 0.20
Matches are distributed among these distances:
28 1 0.01
29 16 0.10
30 22 0.13
31 20 0.12
32 2 0.01
33 3 0.02
34 3 0.02
35 27 0.16
36 71 0.42
37 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAA
Found at i:1054798 original size:198 final size:200
Alignment explanation
Indices: 1054450--1054832 Score: 467
Period size: 198 Copynumber: 1.9 Consensus size: 200
1054440 GACAGAATTC
* *
1054450 GTTTCAAGGGAAACGATCTCAAAGATATTTGTTGTTTCATGAGAAACGGTCTCAAGGGAGACAAG
1 GTTTCAAGGGAAACGATCTCAAAGATATTTGATGTTTCAAGAGAAACGGTCTCAAGGGAGACAAG
* * * * *
1054515 ATTTTGTTTCAAGAGAAACTGTCTCAAGGTAGACGAAATTAGTTTCAAAGAAACAGATTCAAAGA
66 AATTTATTCCAAGAGAAACTATCTCAAGGTAGACAAAATTAGTTTCAAAGAAACAGATTCAAAGA
* ** * *
1054580 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACTAAATTTGTTTCAAGAGAAACTGCTTCAAACA
131 TTATGTTTCAAGAAAAACTGTCTCAAG-GAGACAAAATTTATTTCAAGAGAAACTGCTTCAAACA
1054645 TCTTGT
195 TCTTGT
* *
1054651 GTTTCAAGGGAAACGTTTTCAAAG-T-TTT-ATGTTTCAAGAGAAATC-GTCTCAAGGGAGACAA
1 GTTTCAAGGGAAACGATCTCAAAGATATTTGATGTTTCAAGAGAAA-CGGTCTCAAGGGAGACAA
* * * *
1054712 -AATTTATTCCAAGGGAAACTATCTCAAGAG-AGACAAAATTCA-TTTCAAGGGAAA-TGTTTTC
65 GAATTTATTCCAAGAGAAACTATCTCAAG-GTAGACAAAATT-AGTTTCAA-AGAAACAG-ATTC
* * *
1054773 AATGCTTATGTTTCAAGAAAAACTGTCTCAAGGAGACAAAATTTATTTCAAGGGAAACTG
126 AAAGATTATGTTTCAAGAAAAACTGTCTCAAGGAGACAAAATTTATTTCAAGAGAAACTG
1054833 TCTCAAGAGA
Statistics
Matches: 156, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
197 64 0.41
198 65 0.42
199 4 0.03
200 1 0.01
201 22 0.14
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (200 bp):
GTTTCAAGGGAAACGATCTCAAAGATATTTGATGTTTCAAGAGAAACGGTCTCAAGGGAGACAAG
AATTTATTCCAAGAGAAACTATCTCAAGGTAGACAAAATTAGTTTCAAAGAAACAGATTCAAAGA
TTATGTTTCAAGAAAAACTGTCTCAAGGAGACAAAATTTATTTCAAGAGAAACTGCTTCAAACAT
CTTGT
Found at i:1054827 original size:100 final size:102
Alignment explanation
Indices: 1054652--1054847 Score: 308
Period size: 100 Copynumber: 1.9 Consensus size: 102
1054642 ACATCTTGTG
* *
1054652 TTTCAAGGGAAACGTTTTCAAAGTTTTATGTTTCAAGAGAAATCGTCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAACGTTTTCAAAGTCTTATGTTTCAAGAAAAATCGTCTCAAGGGAGACAAAATTT
1054717 ATTCCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 ATTCCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
1054754 TTTCAAGGGAAATGTTTTCAATG-CTTATGTTTCAAGAAAAA-CTGTCTCAA-GGAGACAAAATT
1 TTTCAAGGGAAACGTTTTCAAAGTCTTATGTTTCAAGAAAAATC-GTCTCAAGGGAGACAAAATT
* *
1054816 TATTTCAAGGGAAACTGTCTCAAGAGAGACAA
65 TATTCCAAGGGAAACTATCTCAAGAGAGACAA
1054848 TGGTGAGCAC
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
100 43 0.49
101 23 0.26
102 21 0.24
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (102 bp):
TTTCAAGGGAAACGTTTTCAAAGTCTTATGTTTCAAGAAAAATCGTCTCAAGGGAGACAAAATTT
ATTCCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:1055777 original size:106 final size:106
Alignment explanation
Indices: 1054972--1055752 Score: 1240
Period size: 106 Copynumber: 7.4 Consensus size: 106
1054962 GTATTGCTCC
* * * * * * * *
1054972 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATCGGTTCTGGAACTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * *
1055037 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTTTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1055078 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
1055143 CCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1055184 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1055249 CCAGCGGTCCCTTCGTCGTGAAGTTGAA-TATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACT-TGCGTTGTCTG
* * * * * * *
1055290 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGATATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
1055355 CCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1055396 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * * *
1055461 CCAACGGTCCCTTCGTTGTGAAGTTGAACATGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1055502 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
1055567 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1055608 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
1055673 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1055714 GAGTCCACTATCTTTCGTTGTGAAGTTGAAATTGGCTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1055753 AGAAGTGGAA
Statistics
Matches: 620, Mismatches: 53, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
105 1 0.00
106 618 1.00
107 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1057238 original size:249 final size:246
Alignment explanation
Indices: 1056850--1057884 Score: 1454
Period size: 249 Copynumber: 4.2 Consensus size: 246
1056840 AGGTCTTTTG
* * * *
1056850 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
** * * *
1056915 TCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGT
65 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * * * * *
1056976 G-CCTTGGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGTCTTGA
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTCGACTTAA
* * * * * * * *
1057040 GTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTC-T
192 GCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTT
* * * * * * * *
1057095 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCGTT-GAGCTGAACGTAG
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAG
*
1057159 TCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
65 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1057224 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
* * * *
1057289 ATACTGCAAATGATGTGTCGTTGAGCTTAGCGTAGTCGAACTCAAAGCTCTT
195 ATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTT
1057341 TTGTAGCCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGT
1 TTG--G-CAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGT
1057406 AGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
63 AGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
**
1057471 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAG
128 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAG
*
1057536 CTATACTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTT
193 CTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC--TT
*
1057592 ATTGCCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
1 -TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* **
1057657 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCGAATGAAAT
65 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
**
1057722 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
1057787 ATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTT
195 ATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC--TT
*
1057841 GTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGAT
1 -TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGAT
1057885 TTGTTTTTTT
Statistics
Matches: 716, Mismatches: 60, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
244 23 0.03
245 61 0.09
246 43 0.06
247 1 0.00
248 46 0.06
249 537 0.75
251 2 0.00
252 3 0.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (246 bp):
TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
CCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
TGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTT
Found at i:1057276 original size:165 final size:165
Alignment explanation
Indices: 1056821--1057884 Score: 1311
Period size: 165 Copynumber: 6.4 Consensus size: 165
1056811 ACCTCGAAGT
* * * * * *
1056821 TGAGTGTAATCGAACCCCAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
1 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGC
**
1056886 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
66 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
*
1056951 ACTTAAGCTATGTTGCAAATGATGTGCC-TTGGAGC
131 ACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGC
* * * * * * *
1056986 TGAGTGTAATCAAACTCAAAGGTC-TTTGTTGACAGATAACCCTTCTAGTCTTGAGTTATGCTGT
1 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGC
* *
1057050 AAATGATATGCCCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTGGCAGATAGCCCTTCTC
66 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAA-GGTCTTTGGCAGATAGCCCTTCTC
*
1057114 GACTTAAGCTATGCTACAAATGATGTGCCGTTGAGC
130 GACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGC
* * *
1057150 TGAACGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
1 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGC
*
1057215 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
66 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
* *
1057280 ACTTAAGCTATACTGCAAATGATGTGTCGTTGAGC
131 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGC
* * * * * *
1057315 TTAGCGTAGTCGAACTCAAAGCTCTTTTGTAGCCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
1 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGC
* * * * *
1057380 AAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
66 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTT
* * *
1057444 CTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
127 CTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGC
* * *** * * * *
1057484 TGAGTGTAATCGAACTCGGGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGC
1 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGC
* * * * * * * * *
1057545 AAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTATTGCCAGACAACCCTT
66 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTT
* * * *
1057609 CTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTGGAGC
127 CTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGC
* * *
1057648 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
1 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGC
* * **
1057713 GAATGAAATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCG
66 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
1057778 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGC
131 ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGC
* * *
1057813 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGC
1 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGC
1057878 AAATGAT
66 AAATGAT
1057885 TTGTTTTTTT
Statistics
Matches: 772, Mismatches: 109, Indels: 36
0.84 0.12 0.04
Matches are distributed among these distances:
164 197 0.26
165 429 0.56
166 14 0.02
168 90 0.12
169 42 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (165 bp):
TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGC
AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCG
ACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGC
Found at i:1064727 original size:31 final size:33
Alignment explanation
Indices: 1064657--1064739 Score: 125
Period size: 32 Copynumber: 2.5 Consensus size: 33
1064647 TAAACCCGAC
*
1064657 CCCGACCCGACCCGAATATCACACTTAAAAAAA
1 CCCGACCCGACCCAAATATCACACTTAAAAAAA
1064690 CCCGA-CCGACCCAAATATCACACTT-AAAAAA
1 CCCGACCCGACCCAAATATCACACTTAAAAAAA
*
1064721 CTCGACCCGACCCGAAATA
1 CCCGACCCGACCC-AAATA
1064740 ATAAAAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
31 10 0.22
32 26 0.57
33 10 0.22
ACGTcount: A:0.41, C:0.37, G:0.10, T:0.12
Consensus pattern (33 bp):
CCCGACCCGACCCAAATATCACACTTAAAAAAA
Found at i:1065106 original size:27 final size:27
Alignment explanation
Indices: 1065076--1065131 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
1065066 CCTCCATCAA
1065076 GGGATTGAATTCCATCCATTCTTTGAT
1 GGGATTGAATTCCATCCATTCTTTGAT
1065103 GGGATTGAATTCCATCCATTCTTTGAT
1 GGGATTGAATTCCATCCATTCTTTGAT
1065130 GG
1 GG
1065132 AATTCACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGATTGAATTCCATCCATTCTTTGAT
Found at i:1065149 original size:27 final size:27
Alignment explanation
Indices: 1065083--1065137 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
1065073 CAAGGGATTG
* *
1065083 AATTCCATCCATTCTTTGATGGGATTG
1 AATTCCATCCATTCTTTGATGGAATTC
1065110 AATTCCATCCATTCTTTGATGGAATTC
1 AATTCCATCCATTCTTTGATGGAATTC
1065137 A
1 A
1065138 CTTTCCCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (27 bp):
AATTCCATCCATTCTTTGATGGAATTC
Found at i:1066887 original size:29 final size:28
Alignment explanation
Indices: 1066845--1066910 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
1066835 TATAAAGAAT
* *
1066845 GAATCAAAAGTTTGTTTTTTTACTTTCAA
1 GAATCAAAACTTTG-ATTTTTACTTTCAA
* *
1066874 GAATCAAGACTTTGATTTTTCCTTTCAA
1 GAATCAAAACTTTGATTTTTACTTTCAA
*
1066902 GAATAAAAA
1 GAATCAAAA
1066911 AGAAAAAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 19 0.61
29 12 0.39
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (28 bp):
GAATCAAAACTTTGATTTTTACTTTCAA
Found at i:1069959 original size:38 final size:33
Alignment explanation
Indices: 1069876--1069941 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1069866 AGTTGGCAAG
*
1069876 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAATTTCATCTTGGTTGGTGGCAAACTTA
1069909 TTGGAAATTTCATCTTGGTTGGTGGCTAAACTT
1 TTGGAAATTTCATCTTGGTTGGTGGC-AAACTT
1069942 TGAATATGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (33 bp):
TTGGAAATTTCATCTTGGTTGGTGGCAAACTTA
Found at i:1077824 original size:21 final size:20
Alignment explanation
Indices: 1077784--1077825 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
1077774 CCAACTTACA
*
1077784 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
1077804 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
1077825 A
1 A
1077826 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:1084585 original size:31 final size:31
Alignment explanation
Indices: 1084549--1084607 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1084539 AACTTAAAAG
* *
1084549 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
1084580 AGTTTTACACTACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1084608 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1084643 original size:21 final size:22
Alignment explanation
Indices: 1084619--1084668 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1084609 CATACAACTA
1084619 AAAT-AATAAAT-TATTTAAAAT
1 AAATCAATAAATAT-TTTAAAAT
**
1084640 AAATCAATCTATATTTTAAAAT
1 AAATCAATAAATATTTTAAAAT
1084662 AAATCAA
1 AAATCAA
1084669 CCCATACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 20 0.80
23 1 0.04
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATCAATAAATATTTTAAAAT
Found at i:1084686 original size:54 final size:54
Alignment explanation
Indices: 1084622--1085362 Score: 756
Period size: 54 Copynumber: 13.5 Consensus size: 54
1084612 ACAACTAAAA
*
1084622 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAACCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * **
1084676 TAATAAATTATTTAAAATAAATCAATC--TA--TTCAACTACAAT-AATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATA-AATCAATCCATAC
* *
1084725 -AATACA-TATTTTAAAATAAATCAATCGATACAAATAAATTATTTAAAATAAATCAATCTATAC
1 TAATAAATTA-TTTAAAATAAATCAATC--T----AT--A-T-TTTAAAATAAATCAATCCATAC
*
1084788 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
1084842 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * **
1084896 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATAC
** * ** * ** * *
1084953 TTTTAAAATAAAT-CAATCCATACAA-ATAAAGTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-CAATCTATA-T-TTTAAAATAAATCAATCCATAC
*
1085008 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * *
1085062 TAATAAATTATTTAAAATAAATCAGTCCATATTTTAAAGTAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * ** *
1085116 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATA--C
* * ** * * * *
1085176 TAAAATAAATCAATCCATACAAAT-AA-AT-TA-TTTAAAATAAATCAATCGATAC
1 T--AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
1085228 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
1085282 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAGTAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1085336 TAATAAATTATTTAAAATAAATCAATC
1 TAATAAATTATTTAAAATAAATCAATC
1085363 CATACAACTA
Statistics
Matches: 571, Mismatches: 74, Indels: 84
0.78 0.10 0.12
Matches are distributed among these distances:
47 2 0.00
48 22 0.04
49 1 0.00
50 25 0.04
51 5 0.01
52 3 0.01
53 4 0.01
54 360 0.63
55 21 0.04
56 17 0.03
57 19 0.03
58 35 0.06
60 1 0.00
61 5 0.01
62 26 0.05
63 1 0.00
64 22 0.04
65 2 0.00
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
Found at i:1084773 original size:14 final size:14
Alignment explanation
Indices: 1084756--1084809 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1084746 CAATCGATAC
1084756 AAATAAATTATTTA
1 AAATAAATTATTTA
*
1084770 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
1084787 CTAATAAATTATTTA
1 -AAATAAATTATTTA
1084802 AAATAAAT
1 AAATAAAT
1084810 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:1084773 original size:32 final size:32
Alignment explanation
Indices: 1084734--1085367 Score: 484
Period size: 32 Copynumber: 22.7 Consensus size: 32
1084724 CAATACATAT
* *
1084734 TTTAAAATAAATCAATCGATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1084766 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1084798 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1084820 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1084852 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1084874 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1084906 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1084936 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1084954 TTTAAAATAAATCAATCCATACAAATAAAGTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1084986 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1085018 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1085040 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1085072 TTTAAAATAAATCAGT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1085094 TTTAAAGTAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1085126 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1085156 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1085174 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1085206 TTTAAAATAAATCAATCGATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1085238 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1085260 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1085292 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1085314 TTTAAAGTAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1085346 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
1085368 AACTATAATA
Statistics
Matches: 492, Mismatches: 18, Indels: 184
0.71 0.03 0.27
Matches are distributed among these distances:
20 2 0.00
22 118 0.24
23 14 0.03
24 10 0.02
26 49 0.10
27 4 0.01
28 21 0.04
30 8 0.02
31 14 0.03
32 252 0.51
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1084810 original size:166 final size:166
Alignment explanation
Indices: 1084622--1085436 Score: 585
Period size: 166 Copynumber: 4.9 Consensus size: 166
1084612 ACAACTAAAA
* *
1084622 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAACCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
1084687 TTAAAATAAATCAAT-CTATTCAACTACAAT-AATAAATCAATACATATTTTAAAATAAATCAAT
66 TTAAAATAAATCAATACTATT-AAATA-AATAAATAAATCAATACATATTTTAAAATAAATCAAT
* *
1084750 CGATACAAATAAATTATTTAAAATAAATCAATCTATAC
129 CCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1084788 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* ** * *
1084853 TTAAAATAAATCAATCCATATTTTA-AAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
66 TTAAAATAAATCAATAC-TATTAAATAAATAAATAAATCAATAC--AT--A-T-TTTAAAATAAA
* *
1084917 TCAATCCATACAACTACA--A--T--AATAAATCAATCCATA-
124 TCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
** * ** * ** **
1084953 TTTTAAAATAAAT-CAATCCATACAAATAAAGTA-TTTAAAATAAATCAATCCATACTAATAAAT
1 TAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAAT
* ** * *
1085016 TATTTAAAATAAATCAATCCATATTTTA-AAATAAATCAATCCATACTAATAAATTATTTAAAAT
63 TATTTAAAATAAATCAATAC-TATTAAATAAATAAATAAATCAATAC--AT--A-T-TTTAAAAT
* *
1085080 AAATCAGT-C---C--AT--A-T-TTTAAAGTAAATCAATCCATAC
121 AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
* ** *
1085116 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT--AA
* * ** * * * * ** *
1085181 TAAATCAATCCATACAAAT-AA-ATTATTTAAAATAAATCAATCGATACTAATAAAT-TATTTAA
58 TAAATTATTTAAAATAAATCAATACTA-TT-AAATAAATAAATAAAT-C-AATACATAT-TTTAA
1085243 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
118 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
* *
1085282 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAGTAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
1085347 TTAAAATAAATCAAT-CCA-TACAACTATAATAAA-AAATCAATCCATATTTTAAAATAAATCAA
66 TTAAAATAAATCAATACTATTA-AA-TA-AATAAATAAATCAATACATATTTTAAAATAAATCAA
* *
1085409 TACATACTAATAAATTATTT-AAATAAAT
128 TCCATACAAATAAATTATTTAAAATAAAT
1085437 TATTTTAAAA
Statistics
Matches: 528, Mismatches: 72, Indels: 99
0.76 0.10 0.14
Matches are distributed among these distances:
156 22 0.04
157 6 0.01
158 20 0.04
159 8 0.02
160 4 0.01
161 1 0.00
162 37 0.07
163 13 0.02
164 12 0.02
165 25 0.05
166 302 0.57
167 5 0.01
168 10 0.02
169 3 0.01
170 29 0.05
171 2 0.00
172 29 0.05
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (166 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATACTATTAAATAAATAAATAAATCAATACATATTTTAAAATAAATCAATCC
ATACAAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:1084824 original size:22 final size:22
Alignment explanation
Indices: 1084798--1084840 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1084788 TAATAAATTA
1084798 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1084820 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1084841 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1084849 original size:22 final size:22
Alignment explanation
Indices: 1084800--1084848 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1084790 ATAAATTATT
**
1084800 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1084822 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1084845 TAAA
1 TAAA
1084849 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1084878 original size:22 final size:22
Alignment explanation
Indices: 1084852--1084894 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1084842 TAATAAATTA
1084852 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1084874 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1084895 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1084903 original size:22 final size:22
Alignment explanation
Indices: 1084854--1084902 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1084844 ATAAATTATT
**
1084854 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1084876 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1084899 TAAA
1 TAAA
1084903 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1085010 original size:220 final size:220
Alignment explanation
Indices: 1084622--1085436 Score: 1470
Period size: 220 Copynumber: 3.7 Consensus size: 220
1084612 ACAACTAAAA
* *
1084622 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAACCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * * *
1084687 TTAAAATAAATCAATCTATTCAACTACAATAATAAATCAATACATATTTTAAAATAAATCAATCG
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
1084752 ATACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCA
131 ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
1084817 TATTTTAAAATAAATCAATCCATAC
196 TATTTTAAAATAAATCAATCCATAC
1084842 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1084907 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
1084972 ATACAAATAAAGTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
131 ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
1085037 TATTTTAAAATAAATCAATCCATAC
196 TATTTTAAAATAAATCAATCCATAC
* *
1085062 TAATAAATTATTTAAAATAAATCAGTCCATATTTTAAAGTAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1085127 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
1085192 ATACAAATAAATTATTTAAAATAAATCAATCGATACTAATAAATTATTTAAAATAAATCAATCCA
131 ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
1085257 TATTTTAAAATAAATCAATCCATAC
196 TATTTTAAAATAAATCAATCCATAC
* *
1085282 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAGTAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * *
1085347 TTAAAATAAATCAATCCATACAACTATAATAAAAAATCAATCCATATTTTAAAATAAATCAATAC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
1085412 ATACTAATAAATTATTT-AAATAAAT
131 ATACAAATAAATTATTTAAAATAAAT
1085437 TATTTTAAAA
Statistics
Matches: 577, Mismatches: 18, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
219 8 0.01
220 569 0.99
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (220 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
TATTTTAAAATAAATCAATCCATAC
Found at i:1085044 original size:22 final size:22
Alignment explanation
Indices: 1085018--1085060 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1085008 TAATAAATTA
1085018 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1085040 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1085061 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1085069 original size:22 final size:22
Alignment explanation
Indices: 1085020--1085068 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1085010 ATAAATTATT
**
1085020 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1085042 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1085065 TAAA
1 TAAA
1085069 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1085098 original size:22 final size:22
Alignment explanation
Indices: 1085072--1085114 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1085062 TAATAAATTA
*
1085072 TTTAAAATAAATCAGTCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1085094 TTTAAAGTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1085115 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1085203 original size:22 final size:22
Alignment explanation
Indices: 1085130--1085203 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
1085120 AAATTATTTA
*
1085130 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
1085155 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
1085177 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
1085200 AAAT
1 AAAT
1085204 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:1085264 original size:22 final size:22
Alignment explanation
Indices: 1085238--1085280 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1085228 TAATAAATTA
1085238 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1085260 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1085281 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1085289 original size:22 final size:22
Alignment explanation
Indices: 1085240--1085288 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1085230 ATAAATTATT
**
1085240 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1085262 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1085285 TAAA
1 TAAA
1085289 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1085405 original size:80 final size:85
Alignment explanation
Indices: 1084622--1085436 Score: 469
Period size: 80 Copynumber: 9.9 Consensus size: 85
1084612 ACAACTAAAA
* * **
1084622 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAACCCATACTAATAAATTAT
1 TAAT-AATTATATAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1084687 TTAAAATAAATCAAT-C-TA-
65 TTAAAATAAATCAATCCATAC
* * * * *
1084705 T--TCAACTACA-ATAATAAATCAATACATATTTTAAAATAAATCAAT-CGATACAAATAAATTA
1 TAAT-AATTATATAAAATAAATCAATCCATATTTTAAAATAAATCAATAC-ATACTAATAAATTA
*
1084766 TTTAAAATAAATCAATCTATAC
64 TTTAAAATAAATCAATCCATAC
* *
1084788 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAAT-AATTATATAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1084853 TTAAAATAAATCAATCCATA-
65 TTAAAATAAATCAATCCATAC
** * * * *
1084873 TTTTAA--A-AT-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTA
1 TAATAATTATATAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATACATACTAA-TA
*
1084933 CA--A--T--AATAAATCAATCCATA-
59 AATTATTTAAAATAAATCAATCCATAC
** * * * *
1084953 TTTTAA--A-AT-AAATCAATCCATACAAATAAAGTATTTAAAATAAATCAATCCATACTAATAA
1 TAATAATTATATAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATACATACTAATAA
1085014 ATTATTTAAAATAAATCAAT-C---C
60 ATTATTTAAAATAAATCAATCCATAC
** * ** * * * **
1085036 --AT-ATT-T-TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AGTCCA-TA
1 TAATAATTATATAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATACATACTAATAAATTA
*
1085093 TTTTAAAGTAAATCAATCCATAC
64 -TTTAAAATAAATCAATCCATAC
* * * * **
1085116 TAATAAATTATTTAAAATAAATCAATCCATA----CAACTACAAT-AATAAAT-C-AATCCA-TA
1 TAAT-AATTATATAAAATAAATCAATCCATATTTTAAAATA-AATCAATACATACTAATAAATTA
1085173 TTTTAAAATAAATCAATCCATAC
64 -TTTAAAATAAATCAATCCATAC
* * * ** * ** * * **
1085196 AAATAAATTATTTAAAATAAATCAATCGATACTAATAAATTATTTAAAATAAAT-C-AATCCA-T
1 TAAT-AATTATATAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATACATACTAATAAATT
1085258 ATTTTAAAATAAATCAATCCATAC
63 A-TTTAAAATAAATCAATCCATAC
* * * *
1085282 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAGTAAATCAATCCATACTAATAAATTAT
1 TAAT-AATTATATAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1085347 TTAAAATAAATCAATCCATAC
65 TTAAAATAAATCAATCCATAC
1085368 -AACT-A-TA-AT-AAA-AAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1 TAA-TAATTATATAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1085427 TT-AAATAAAT
65 TTAAAATAAAT
1085437 TATTTTAAAA
Statistics
Matches: 608, Mismatches: 73, Indels: 106
0.77 0.09 0.13
Matches are distributed among these distances:
75 2 0.00
76 18 0.03
77 9 0.01
78 7 0.01
79 9 0.01
80 258 0.42
81 19 0.03
82 21 0.03
83 4 0.01
84 15 0.02
85 27 0.04
86 216 0.36
87 3 0.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (85 bp):
TAATAATTATATAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATT
TAAAATAAATCAATCCATAC
Found at i:1085449 original size:15 final size:15
Alignment explanation
Indices: 1085417--1085532 Score: 121
Period size: 15 Copynumber: 7.5 Consensus size: 15
1085407 AATACATACT
1085417 AATAAATTA-TTT-A
1 AATAAATTATTTTAA
1085430 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1085445 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
1085467 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
1085482 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1085497 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1085511 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1085526 AATAAAT
1 AATAAAT
1085533 AACCTTATTA
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
13 9 0.10
14 16 0.18
15 45 0.52
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1085475 original size:46 final size:45
Alignment explanation
Indices: 1085337--1085475 Score: 122
Period size: 46 Copynumber: 3.0 Consensus size: 45
1085327 AATCCATACT
* *
1085337 AATAAATTA-TTTAAAATAAATCAATCCATACAACTATAATAA--AA
1 AATAAATTATTTTAAAATAAATCAATCCAT--AATTATAATAATTTA
* * * * *
1085381 AATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTA
1 AATAAAT---TATTTTAAAATAAATCAATCCATAATTAT-AATAATTTA
*
1085430 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTA
1 AATAAATTATTTTAAAATAAATCAATCCATA-ATTATAATAATTTA
1085476 TTTTAAAATA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
44 6 0.08
46 34 0.45
47 9 0.12
48 19 0.25
49 7 0.09
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (45 bp):
AATAAATTATTTTAAAATAAATCAATCCATAATTATAATAATTTA
Found at i:1085515 original size:44 final size:42
Alignment explanation
Indices: 1085419--1085560 Score: 129
Period size: 44 Copynumber: 3.5 Consensus size: 42
1085409 TACATACTAA
*
1085419 TAAATTATTT-AAATAAATTATTTTAAAATAAATCAATCC--A-
1 TAAATTATTTAAAATAATTTATTTTAAAATAAAT-AA-CCTTAT
* * **
1085459 T--A-T-TTTATAATAATTTATTTTAAAATAAATTATTTTAT
1 TAAATTATTTAAAATAATTTATTTTAAAATAAATAACCTTAT
*
1085497 AATAAATTATTTAAAATAAATTATTTTAAAATAAATAACCTTAT
1 --TAAATTATTTAAAATAATTTATTTTAAAATAAATAACCTTAT
*
1085541 TAAATTATTTAAAATTATTT
1 TAAATTATTTAAAATAATTT
1085561 TAATAAATAA
Statistics
Matches: 80, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
36 4 0.05
37 23 0.29
38 1 0.01
40 2 0.03
42 19 0.24
43 1 0.01
44 30 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (42 bp):
TAAATTATTTAAAATAATTTATTTTAAAATAAATAACCTTAT
Found at i:1085519 original size:29 final size:30
Alignment explanation
Indices: 1085459--1085532 Score: 123
Period size: 29 Copynumber: 2.5 Consensus size: 30
1085449 AATCAATCCA
*
1085459 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
1085489 TATTTTATAATAAATTA-TTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
1085518 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1085533 AACCTTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:1087753 original size:15 final size:15
Alignment explanation
Indices: 1087733--1087761 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1087723 AAAACAAGTG
1087733 TGTAACATGAAATAT
1 TGTAACATGAAATAT
1087748 TGTAACATGAAATA
1 TGTAACATGAAATA
1087762 CTAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (15 bp):
TGTAACATGAAATAT
Found at i:1094994 original size:2 final size:2
Alignment explanation
Indices: 1094987--1095024 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1094977 AAGCAAATGC
1094987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1095025 TATCGCAGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1095256 original size:59 final size:59
Alignment explanation
Indices: 1095182--1095298 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 59
1095172 AGAGTCCCGG
1095182 ATCTAGAATTATCTATTAGAAGAAT-AT-A-AATATTTTAGATTAAATGACTAAGATATTAT
1 ATCTAGAATTATCTA-T--AAGAATCATGAGAATATTTTAGATTAAATGACTAAGATATTAT
* ** *
1095241 ATCTAGAATTCTCTATAATTATCTTGAGAATATTTTAGATTAAATGACTAAGATATTA
1 ATCTAGAATTATCTATAAGAATCATGAGAATATTTTAGATTAAATGACTAAGATATTA
1095299 ATATGTGTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
56 4 0.08
57 1 0.02
58 2 0.04
59 44 0.86
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (59 bp):
ATCTAGAATTATCTATAAGAATCATGAGAATATTTTAGATTAAATGACTAAGATATTAT
Found at i:1096111 original size:34 final size:35
Alignment explanation
Indices: 1096067--1096170 Score: 97
Period size: 41 Copynumber: 2.9 Consensus size: 35
1096057 TTGGAGTGCC
*
1096067 ACTGTAAAACAGAGAAGTGAGTGATTTTTTT-AAT
1 ACTGTGAAACAGAGAAGTGAGTGATTTTTTTGAAT
1096101 ACTGTGAAACAGGGAAGAAGTGAGTGAATTTTTTTTTGAAT
1 ACTGTGAAACA--G-AGAAGTGAGTG-A--TTTTTTTGAAT
* * *
1096142 ATTGTGAAATAGAG--TTGAGTGATTTTTTT
1 ACTGTGAAACAGAGAAGTGAGTGATTTTTTT
1096171 TTCTTTGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
33 7 0.12
34 10 0.17
35 1 0.02
36 7 0.12
37 11 0.19
38 3 0.05
39 1 0.02
40 7 0.12
41 12 0.20
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (35 bp):
ACTGTGAAACAGAGAAGTGAGTGATTTTTTTGAAT
Found at i:1097739 original size:19 final size:19
Alignment explanation
Indices: 1097715--1097751 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1097705 ACATATATCA
*
1097715 AAATTATTATTTAAATTTT
1 AAATTACTATTTAAATTTT
*
1097734 AAATTACTCTTTAAATTT
1 AAATTACTATTTAAATTT
1097752 AAAACATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATTACTATTTAAATTTT
Found at i:1098795 original size:2 final size:2
Alignment explanation
Indices: 1098788--1098819 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1098778 TTTCTTATTA
1098788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1098820 CTTTCAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1119899 original size:45 final size:45
Alignment explanation
Indices: 1119828--1119915 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
1119818 GTATTGAGCC
* *
1119828 AGCAACAGATGTGTGCAGCAGCCCTGCTGAACCCAATACTGATGA
1 AGCAACAGATGCGTGCAACAGCCCTGCTGAACCCAATACTGATGA
* * **
1119873 AGCAACAGATGCGTGTAACAGTCCTGCTGAACCTGATACTGAT
1 AGCAACAGATGCGTGCAACAGCCCTGCTGAACCCAATACTGAT
1119916 AATCATCGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (45 bp):
AGCAACAGATGCGTGCAACAGCCCTGCTGAACCCAATACTGATGA
Found at i:1124712 original size:2 final size:2
Alignment explanation
Indices: 1124705--1124756 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1124695 ATCTCCCATG
1124705 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1124747 TA TA TA TA TA
1 TA TA TA TA TA
1124757 CTATTTCATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1135446 original size:15 final size:15
Alignment explanation
Indices: 1135426--1135455 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1135416 ACCTATATTC
*
1135426 ATTTTTGTTTCTAAT
1 ATTTTTGGTTCTAAT
1135441 ATTTTTGGTTCTAAT
1 ATTTTTGGTTCTAAT
1135456 GAAAGAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (15 bp):
ATTTTTGGTTCTAAT
Found at i:1143783 original size:23 final size:22
Alignment explanation
Indices: 1143744--1143794 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
1143734 CCAAACGGTT
*
1143744 GAAACACGTGCCAAAAGGCAGAA
1 GAAA-ACGTGCCAAAAGACAGAA
* *
1143767 GAAAACGTGTCCCAAAGATAGAA
1 GAAAACGTG-CCAAAAGACAGAA
1143790 GAAAA
1 GAAAA
1143795 TGTATCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.51, C:0.18, G:0.24, T:0.08
Consensus pattern (22 bp):
GAAAACGTGCCAAAAGACAGAA
Found at i:1144636 original size:29 final size:28
Alignment explanation
Indices: 1144588--1144647 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
1144578 TTCACCTAAC
1144588 TAAATTGATGTAAGCAATGACATCAAAAT
1 TAAATTGATGTAAGCAATGACATC-AAAT
*
1144617 TAAATTGATGTATG-ATATGACATCAAAT
1 TAAATTGATGTAAGCA-ATGACATCAAAT
1144645 TAA
1 TAA
1144648 TTTAGGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (28 bp):
TAAATTGATGTAAGCAATGACATCAAAT
Found at i:1149250 original size:29 final size:29
Alignment explanation
Indices: 1149208--1149266 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1149198 ATTTTCACCT
1149208 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1149237 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1149266 A
1 A
1149267 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1155250 original size:35 final size:35
Alignment explanation
Indices: 1155203--1155288 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
1155193 AAAACAGTCA
* * *
1155203 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
1155238 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
1155273 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
1155289 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:1155282 original size:21 final size:21
Alignment explanation
Indices: 1155257--1155299 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1155247 TTCTAAACCC
1155257 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
1155278 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
1155299 T
1 T
1155300 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:1155454 original size:16 final size:18
Alignment explanation
Indices: 1155422--1155455 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1155412 TATTAATGTA
1155422 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
1155440 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
1155456 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:1156113 original size:130 final size:128
Alignment explanation
Indices: 1155917--1156162 Score: 411
Period size: 130 Copynumber: 1.9 Consensus size: 128
1155907 AATTTTCTTC
* *
1155917 TAATTAGGAGGTGACATGTGTCACCATAACACATATCATGATCATGTGTTAACACATGTCAGATC
1 TAATTAGGAGGTAACATGTGTCACCATAACACATATCATGATCATGTGCTAACACATGTCAGATC
*
1155982 CTGATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CTAATTAAATGATTAATTTATTAAATTT-ATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
1156046 TAATTAGGTGGTAACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACC-ATAACACATATCATGATCATGTGCTAACACATGTCAGAT
1156111 CCTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGAT
65 CCTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGAT
1156163 TATAAAATAA
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
129 46 0.42
130 63 0.58
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (128 bp):
TAATTAGGAGGTAACATGTGTCACCATAACACATATCATGATCATGTGCTAACACATGTCAGATC
CTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:1158320 original size:21 final size:21
Alignment explanation
Indices: 1158294--1158341 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1158284 TACCACGATC
1158294 AATCCCTAACTCCTCAACTGA
1 AATCCCTAACTCCTCAACTGA
* *
1158315 AATCCCTAGCTCCTCAATTGA
1 AATCCCTAACTCCTCAACTGA
1158336 AATCCC
1 AATCCC
1158342 CAGCAATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.38, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCCCTAACTCCTCAACTGA
Found at i:1161809 original size:24 final size:24
Alignment explanation
Indices: 1161777--1161823 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1161767 ATCATCAGCT
* *
1161777 TCTTCTTCTCTGTCTTCTTCCTCA
1 TCTTCTTCTATATCTTCTTCCTCA
*
1161801 TCTTCTTCTATATTTTCTTCCTC
1 TCTTCTTCTATATCTTCTTCCTC
1161824 CTCCATCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.06, C:0.34, G:0.02, T:0.57
Consensus pattern (24 bp):
TCTTCTTCTATATCTTCTTCCTCA
Found at i:1163467 original size:21 final size:21
Alignment explanation
Indices: 1163443--1163490 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1163433 TACCACGATC
1163443 AATCCCTAACTCCTCAACTGA
1 AATCCCTAACTCCTCAACTGA
* *
1163464 AATCCCTAGCTCCTCAATTGA
1 AATCCCTAACTCCTCAACTGA
1163485 AATCCC
1 AATCCC
1163491 CAGCAATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.38, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCCCTAACTCCTCAACTGA
Found at i:1164012 original size:15 final size:15
Alignment explanation
Indices: 1163992--1164022 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1163982 TCAAGTAAAC
1163992 TAAATGGTCTATTAA
1 TAAATGGTCTATTAA
1164007 TAAATGGTCTATTAA
1 TAAATGGTCTATTAA
1164022 T
1 T
1164023 CAATCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (15 bp):
TAAATGGTCTATTAA
Found at i:1167730 original size:18 final size:18
Alignment explanation
Indices: 1167709--1167756 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
1167699 AACCCAATCT
1167709 AGGTTTCAATCAGATTAA
1 AGGTTTCAATCAGATTAA
1167727 AGGTTTCAATCAGATTAA
1 AGGTTTCAATCAGATTAA
*
1167745 GGGTTTCAATCA
1 AGGTTTCAATCA
1167757 TTTGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (18 bp):
AGGTTTCAATCAGATTAA
Found at i:1168573 original size:10 final size:11
Alignment explanation
Indices: 1168551--1168584 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1168541 TTCATTTTTT
*
1168551 TAAAAATACAA
1 TAAAAATATAA
1168562 TAAAAAT-TAA
1 TAAAAATATAA
1168572 TAAAAATATAA
1 TAAAAATATAA
1168583 TA
1 TA
1168585 TAAAGCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAATATAA
Found at i:1169062 original size:212 final size:212
Alignment explanation
Indices: 1168745--1169166 Score: 702
Period size: 212 Copynumber: 2.0 Consensus size: 212
1168735 GATTAAGTAT
* * *
1168745 AAAAGATCAACTCTTTGATCGGATGCTTATTCGTGGTACAATTGAGTTGATATTTAGACAGCAAT
1 AAAAGATCAACTCTTTGATCAGATGCTTATTCGTGGTACAATTGAATTGATATTTAGACAACAAT
* * *
1168810 TAGACAATTTTAAGTTATTGACTTTGTACAATCTAATTTTCATTCAATTCTTGTAGCTTTCCACA
66 TAGACAATTTTAAGTTATTGACTTTGTACAATCGAATTTTCATTCAATTCCTATAGCTTTCCACA
*
1168875 CCTACAACTGTTTAACAATCATAAATTTGATTAAAATAAACTTTTAATTACAATTGAG-TGATCA
131 CCTACAACTGTTTAACAATCATAAATTTGACTAAAATAAACTTTTAATTACAATTGAGAT-ATCA
1168939 AATGAATTATTATTCAAA
195 AATGAATTATTATTCAAA
* *
1168957 AAAAGATCAACTCTTTGATCAGATGTTTATTCGTGGTACAATTGAATTGATATTTAGACAACAGT
1 AAAAGATCAACTCTTTGATCAGATGCTTATTCGTGGTACAATTGAATTGATATTTAGACAACAAT
* * *
1169022 TAGACAATTTTAAGTTATTGATTTTGTACGATCGAATTTTCATTCGATTCCTATAGCTTTCCACA
66 TAGACAATTTTAAGTTATTGACTTTGTACAATCGAATTTTCATTCAATTCCTATAGCTTTCCACA
* *
1169087 CCTACGACTGTTTAACAATTATAAATTTGACTAAAATAAACTTTTAATTACAATTGAGATATCAA
131 CCTACAACTGTTTAACAATCATAAATTTGACTAAAATAAACTTTTAATTACAATTGAGATATCAA
1169152 ATGAATTATTATTCA
196 ATGAATTATTATTCA
1169167 TTAATTATCA
Statistics
Matches: 195, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
212 194 0.99
213 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (212 bp):
AAAAGATCAACTCTTTGATCAGATGCTTATTCGTGGTACAATTGAATTGATATTTAGACAACAAT
TAGACAATTTTAAGTTATTGACTTTGTACAATCGAATTTTCATTCAATTCCTATAGCTTTCCACA
CCTACAACTGTTTAACAATCATAAATTTGACTAAAATAAACTTTTAATTACAATTGAGATATCAA
ATGAATTATTATTCAAA
Found at i:1169333 original size:20 final size:20
Alignment explanation
Indices: 1169310--1169365 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1169300 TTTACATTAT
1169310 ATTTTTATTGAATTTTATT-C
1 ATTTTTATT-AATTTTATTGC
*
1169330 ATTTTTAATTATTTTTATTGC
1 ATTTTT-ATTAATTTTATTGC
* *
1169351 ATATTTATTTATTTT
1 ATTTTTATTAATTTT
1169366 TTAAAAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (20 bp):
ATTTTTATTAATTTTATTGC
Found at i:1169362 original size:21 final size:20
Alignment explanation
Indices: 1169322--1169366 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
1169312 TTTTATTGAA
* *
1169322 TTTTATTCATTTTTAATTAT
1 TTTTATTCATATTTATTTAT
1169342 TTTTATTGCATATTTATTTAT
1 TTTTATT-CATATTTATTTAT
1169363 TTTT
1 TTTT
1169367 TAAAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTATTCATATTTATTTAT
Found at i:1169442 original size:13 final size:13
Alignment explanation
Indices: 1169407--1169445 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1169397 TCAATTGTAA
* *
1169407 TTAAAAGTTTATT
1 TTAAAAATTAATT
1169420 TTAAATAATTAATT
1 TTAAA-AATTAATT
1169434 TTAAAAATTAAT
1 TTAAAAATTAAT
1169446 AAATTAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
TTAAAAATTAATT
Found at i:1169913 original size:17 final size:17
Alignment explanation
Indices: 1169893--1169952 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
1169883 GGAAATTTTG
*
1169893 TTAAATTAATATTTATA
1 TTAAATTAATATTTAAA
* * *
1169910 TTAACTTGATATGTAAA
1 TTAAATTAATATTTAAA
**
1169927 AGAAATTAATATTTAAA
1 TTAAATTAATATTTAAA
1169944 TTAATATTA
1 TTAA-ATTA
1169953 TTTGTTAAAG
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (17 bp):
TTAAATTAATATTTAAA
Found at i:1170215 original size:24 final size:25
Alignment explanation
Indices: 1170169--1170221 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
1170159 TTTTTCTAAG
*
1170169 AAATAAATATAAGAATGATAAAAAC
1 AAATAAATATAAGAATGAAAAAAAC
* * *
1170194 AAATAAATAT-CGAATTAAAAAATC
1 AAATAAATATAAGAATGAAAAAAAC
1170218 AAAT
1 AAAT
1170222 TCAAGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (25 bp):
AAATAAATATAAGAATGAAAAAAAC
Found at i:1173331 original size:18 final size:18
Alignment explanation
Indices: 1173304--1173338 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1173294 CGAAATACTT
1173304 AAAATATGACTTTTTTGG
1 AAAATATGACTTTTTTGG
*
1173322 AAAATTTGACTTTTTTG
1 AAAATATGACTTTTTTG
1173339 TCAAAGTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (18 bp):
AAAATATGACTTTTTTGG
Found at i:1179501 original size:11 final size:11
Alignment explanation
Indices: 1179482--1179519 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
1179472 TGACAATAAG
1179482 AAAATAAAATA
1 AAAATAAAATA
* *
1179493 AAAAGAAAACA
1 AAAATAAAATA
1179504 AAAATAAAATA
1 AAAATAAAATA
1179515 AAAAT
1 AAAAT
1179520 CTGTAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:1188057 original size:6 final size:6
Alignment explanation
Indices: 1188046--1188075 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1188036 ATATTCTCCT
1188046 TGTCCC TGTCCC TGTCCC TGTCCC TGTCCC
1 TGTCCC TGTCCC TGTCCC TGTCCC TGTCCC
1188076 CTTCTCCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (6 bp):
TGTCCC
Found at i:1190447 original size:32 final size:32
Alignment explanation
Indices: 1190401--1190478 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
1190391 TATATGTCAC
*
1190401 GTGTCTAAAA-TGATAATGTAATACATGTTGT
1 GTGTCTAAAAGTGATAATGTAATAAATGTTGT
* **
1190432 GTGTCCAAAAGTGATAATGTGGTAAATGTTGT
1 GTGTCTAAAAGTGATAATGTAATAAATGTTGT
* *
1190464 ATGTTTAAAAGTGAT
1 GTGTCTAAAAGTGAT
1190479 GACGTGTACA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 9 0.23
32 30 0.77
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (32 bp):
GTGTCTAAAAGTGATAATGTAATAAATGTTGT
Found at i:1190537 original size:32 final size:32
Alignment explanation
Indices: 1190500--1190568 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
1190490 GTCGTGCGTG
* * **
1190500 CAAAAGTTATGACGCGGTATACGTTGCGTGTC
1 CAAAAGTGATGACGCGGCATACGTCACGTGTC
*
1190532 CAAAAGTGATGACGCGGCATATGTCACGTGTC
1 CAAAAGTGATGACGCGGCATACGTCACGTGTC
1190564 CAAAA
1 CAAAA
1190569 TAATAACATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (32 bp):
CAAAAGTGATGACGCGGCATACGTCACGTGTC
Done.