Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 218 of 259
Found at i:69148763 original size:6 final size:6
Alignment explanation
Indices: 69148752--69148926 Score: 139
Period size: 6 Copynumber: 28.8 Consensus size: 6
69148742 AACCAAAATG
* *
69148752 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATT AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
69148800 AGTAA-C AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
69148849 AGTAA-C AGAATT AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
69148897 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
69148927 GTGAATGCAA
Statistics
Matches: 135, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.08
6 111 0.82
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:69148779 original size:24 final size:24
Alignment explanation
Indices: 69148752--69148926 Score: 170
Period size: 30 Copynumber: 6.7 Consensus size: 24
69148742 AACCAAAATG
69148752 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
69148776 AGAATCAGAATTAGAATCAATATTAGTAAC
1 AGAATCAGAATCAGAATC------AGTAAC
* *
69148806 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCA-GTAAC
69148831 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
69148855 AGAATTAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATC------AGTAAC
* *
69148885 AGAATCAGAATCAGAATTACGTGAC
1 AGAATCAGAATCAGAATCA-GTAAC
69148910 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
69148927 GTGAATGCAA
Statistics
Matches: 127, Mismatches: 10, Indels: 27
0.77 0.06 0.16
Matches are distributed among these distances:
24 40 0.31
25 43 0.34
30 44 0.35
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:69148845 original size:79 final size:79
Alignment explanation
Indices: 69148752--69148926 Score: 314
Period size: 79 Copynumber: 2.2 Consensus size: 79
69148742 AACCAAAATG
*
69148752 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
69148817 CAGAATTAGGTGAC
66 CAGAATTACGTGAC
* *
69148831 AGAATCAGAATCAGAATCAGTAACAGAATTAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
69148896 CAGAATTACGTGAC
66 CAGAATTACGTGAC
69148910 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
69148927 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 92 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATTACGTGAC
Found at i:69149081 original size:27 final size:26
Alignment explanation
Indices: 69149044--69149130 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 26
69149034 AGCATGGCTG
*
69149044 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
69149070 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
* * * *
69149097 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TCGTGACAGAGCCA
69149124 CCAGAAC
1 CCAGAAC
69149131 GCTTCCTCCG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 11 0.20
27 43 0.80
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:69149360 original size:27 final size:27
Alignment explanation
Indices: 69149330--69149551 Score: 255
Period size: 27 Copynumber: 8.2 Consensus size: 27
69149320 GGGCAAAATA
* * *
69149330 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
69149357 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
69149384 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
69149411 ATAATTCTACCCAACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCG
* **
69149438 ATAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
69149465 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
69149492 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * * *
69149519 GAAACTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
69149546 GTAATT
1 GTAATT
69149552 TCACAATCAA
Statistics
Matches: 170, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 170 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:69149586 original size:27 final size:27
Alignment explanation
Indices: 69149556--69150171 Score: 625
Period size: 27 Copynumber: 22.8 Consensus size: 27
69149546 GTAATTTCAC
* *
69149556 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69149583 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
69149610 AA-CTGAGGGTAAACCAATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
69149637 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
69149664 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69149691 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *** * **
69149718 AATTAAGGGTAAAATATTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
69149745 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
69149772 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69149799 AA-CTGATGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
69149826 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
69149853 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
69149880 AA-CTGAGGGTAAAACGGTAATTCGGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
69149907 AATCGAAGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69149934 AATCGAGGGTAAAACTGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69149961 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
69149988 AA-CTGAGAGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
69150015 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
69150042 AATTAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
69150069 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
69150096 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
69150123 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
69150150 AATCGAGGGTAAAACGGTAATT
1 AATCGAGGGTAAAACGGTAATT
69150172 GTTAAACTAA
Statistics
Matches: 501, Mismatches: 78, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.01
27 493 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:69152139 original size:6 final size:6
Alignment explanation
Indices: 69152128--69152326 Score: 196
Period size: 6 Copynumber: 32.8 Consensus size: 6
69152118 AACCAAAATG
*
69152128 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
69152176 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
69152225 AGAATC A-ATAAC AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
69152273 AGAATC AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
69152322 AGAAT
1 AGAAT
69152327 GTGAATGCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
5 10 0.06
6 139 0.86
7 9 0.06
8 3 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:69152143 original size:30 final size:30
Alignment explanation
Indices: 69152128--69152289 Score: 230
Period size: 30 Copynumber: 5.6 Consensus size: 30
69152118 AACCAAAATG
*
69152128 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
69152158 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
69152188 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
69152219 AGAATCAGAATC---A--A-TAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
69152243 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
69152273 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
69152290 CAGAATCAGA
Statistics
Matches: 119, Mismatches: 4, Indels: 18
0.84 0.03 0.13
Matches are distributed among these distances:
24 21 0.18
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 70 0.59
31 23 0.19
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:69152228 original size:85 final size:85
Alignment explanation
Indices: 69152128--69152289 Score: 306
Period size: 85 Copynumber: 1.9 Consensus size: 85
69152118 AACCAAAATG
*
69152128 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
69152193 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
*
69152213 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
69152278 CAGAATCAGAAT
66 CAGAATCAGAAT
69152290 CAGAATCAGA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:69152516 original size:27 final size:26
Alignment explanation
Indices: 69152444--69152529 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
69152434 AGCATGGCTG
* * * *
69152444 CCAGAATAGATATCGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
69152470 CCAGATACAGATATTATGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
69152497 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
69152524 CCAGAA
1 CCAGAA
69152530 TGCTTCCTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 12 0.24
27 39 0.76
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:69152759 original size:27 final size:27
Alignment explanation
Indices: 69152729--69152924 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
69152719 GGGGCAAAAT
* * *
69152729 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
69152756 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
69152783 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
69152810 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
69152837 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
69152864 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
69152891 AG-AAGCTCTACCCTACAGGGGTATTTC
1 GGTAA-TTCTACCCTACAAGGGTATTTC
*
69152918 AGTAATT
1 GGTAATT
69152925 TCACAATCAA
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 142 0.97
28 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:69152959 original size:27 final size:27
Alignment explanation
Indices: 69152929--69153598 Score: 765
Period size: 27 Copynumber: 24.8 Consensus size: 27
69152919 GTAATTTCAC
* *
69152929 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
69152956 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
69152983 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
69153010 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
69153037 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
69153064 AACCGAGGGTAAAGCAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
69153091 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
69153118 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
69153145 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* **
69153172 AATCGAGGGTAAAATGGTAATTCCGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
69153199 AA-CTGAGGTTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
69153226 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
69153253 AATCGAAGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
69153280 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
**
69153307 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
69153334 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
69153361 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
69153388 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
69153415 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
69153442 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
69153469 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
69153496 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
69153523 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
69153550 AATCGAAGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
69153577 AATCGAGGGTAAAACTGTAATT
1 AATCGAGGGTAAAACGGTAATT
69153599 GGTAAACTAA
Statistics
Matches: 564, Mismatches: 71, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
26 4 0.01
27 556 0.99
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:69157783 original size:40 final size:40
Alignment explanation
Indices: 69157725--69157819 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
69157715 ACTGCATTTG
*
69157725 GCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATAAACA
1 GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
*
69157765 GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
69157805 GCACTAAGTGTGCAA
1 GCACTAAGTGTGCAA
69157820 AATGGTATAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (40 bp):
GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
Found at i:69165158 original size:75 final size:75
Alignment explanation
Indices: 69165030--69165177 Score: 190
Period size: 75 Copynumber: 2.0 Consensus size: 75
69165020 TGCGCTCAGA
* * * * * * *
69165030 GCTAGTGGGATTAACCGACAGTATTGAATGTGAGCCCAGCTCTAGTTGGATGAACCGACAATGTT
1 GCTAGTCGGATTAACCGACAATAATAAATGTGAACCCAGCTCTAGTTGAATGAACCAACAATGTT
*
69165095 TGCTCCCAAC
66 TGCACCCAAC
* *
69165105 GCTAGTCGGA-TATACCGACAATAATAAATGTGAACCCAGCTTTAGTTGAATGAACCAACAGTGT
1 GCTAGTCGGATTA-ACCGACAATAATAAATGTGAACCCAGCTCTAGTTGAATGAACCAACAATGT
69165169 TTGCACCCA
65 TTGCACCCA
69165178 GTGTTAATCG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
74 2 0.03
75 60 0.97
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (75 bp):
GCTAGTCGGATTAACCGACAATAATAAATGTGAACCCAGCTCTAGTTGAATGAACCAACAATGTT
TGCACCCAAC
Found at i:69173124 original size:6 final size:6
Alignment explanation
Indices: 69173115--69173148 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
69173105 CAGAGCCAGA
* *
69173115 TTCATC TTCATC CTCATC TTCATC CTCATC TTCA
1 TTCATC TTCATC TTCATC TTCATC TTCATC TTCA
69173149 AACTTCTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (6 bp):
TTCATC
Found at i:69173133 original size:12 final size:12
Alignment explanation
Indices: 69173116--69173148 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
69173106 AGAGCCAGAT
69173116 TCATCTTCATCC
1 TCATCTTCATCC
69173128 TCATCTTCATCC
1 TCATCTTCATCC
69173140 TCATCTTCA
1 TCATCTTCA
69173149 AACTTCTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.42
Consensus pattern (12 bp):
TCATCTTCATCC
Found at i:69181152 original size:106 final size:106
Alignment explanation
Indices: 69181011--69181225 Score: 412
Period size: 106 Copynumber: 2.0 Consensus size: 106
69181001 TCAGAAGCTA
*
69181011 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGCTTGAAACTATAACACAGCTATACAAT
1 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
69181076 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
66 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
*
69181117 TGCACTTGTACAGTTACCTACATGATCTGCAAACCAAGATTGAAACTATAACACAGCTATACAAT
1 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
69181182 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
66 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
69181223 TGC
1 TGC
69181226 CTTTGTGGGC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (106 bp):
TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
Found at i:69186286 original size:24 final size:24
Alignment explanation
Indices: 69186254--69186304 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
69186244 CGAAGCATCC
69186254 TAATTTTTCCACCTTTGTCAAAGA
1 TAATTTTTCCACCTTTGTCAAAGA
* *
69186278 TAATTTTTCTACTTTTGTCAAAGA
1 TAATTTTTCCACCTTTGTCAAAGA
69186302 TAA
1 TAA
69186305 GTGGAGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (24 bp):
TAATTTTTCCACCTTTGTCAAAGA
Found at i:69206050 original size:21 final size:21
Alignment explanation
Indices: 69206024--69206074 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
69206014 CGCTGTTTCT
*
69206024 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
69206045 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
69206066 AATCTCACC
1 AATCTCACC
69206075 CCACCACTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.37, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:69217160 original size:15 final size:15
Alignment explanation
Indices: 69217114--69217177 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 15
69217104 TAGAAATAGC
69217114 AAAA-TAAAAT-TAAA
1 AAAATTAAAATAT-AA
69217128 AATAATTAAAATATATAA
1 AA-AATT-AAA-ATATAA
69217146 AAAATTAAAATATAA
1 AAAATTAAAATATAA
69217161 AAAATTTAAAACTATAA
1 AAAA-TTAAAA-TATAA
69217178 GTATAAGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.05
15 12 0.28
16 10 0.23
17 12 0.28
18 6 0.14
19 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATTAAAATATAA
Found at i:69217169 original size:16 final size:16
Alignment explanation
Indices: 69217114--69217177 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 16
69217104 TAGAAATAGC
69217114 AAAA-TAAAAT-TAAA
1 AAAATTAAAATATAAA
69217128 AATAATTAAAATATATAA
1 AA-AATTAAAATATA-AA
69217146 AAAATTAAAATATAAA
1 AAAATTAAAATATAAA
*
69217162 AAATTTAAAACTATAA
1 AAAATTAAAA-TATAA
69217178 GTATAAGAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 2 0.05
15 2 0.05
16 17 0.39
17 19 0.43
18 4 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATTAAAATATAAA
Found at i:69217177 original size:32 final size:32
Alignment explanation
Indices: 69217114--69217176 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
69217104 TAGAAATAGC
69217114 AAAATAAAATTAAAAATAATTAAAATATATAA
1 AAAATAAAATTAAAAATAATTAAAATATATAA
*
69217146 AAAATTAAAATATAAAAA-ATTTAAAACTATA
1 AAAA-TAAAAT-TAAAAATAATTAAAA-TATA
69217177 AGTATAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 4 0.15
33 13 0.48
34 10 0.37
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (32 bp):
AAAATAAAATTAAAAATAATTAAAATATATAA
Found at i:69217217 original size:26 final size:26
Alignment explanation
Indices: 69217188--69217261 Score: 64
Period size: 27 Copynumber: 2.9 Consensus size: 26
69217178 GTATAAGAAT
*
69217188 TAAT-TAATTAGTAAAATAAAAATAAA
1 TAATATAATAAGTAAAA-AAAAATAAA
* *
69217214 TAATATAATAATTAATAAAAAATAAAA
1 TAATATAATAAGTAAAAAAAAAT-AAA
* *
69217241 TAAAATAA-AA-TAAAATAAAAT
1 TAATATAATAAGTAAAAAAAAAT
69217262 TGGGGTGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
25 9 0.22
26 12 0.30
27 19 0.47
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (26 bp):
TAATATAATAAGTAAAAAAAAATAAA
Found at i:69217240 original size:5 final size:5
Alignment explanation
Indices: 69217199--69217261 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
69217189 AATTAATTAG
*
69217199 TAAAA TAAAA -ATAAA TAATA TAATAA TTAATAA -AAAA TAAAA TAAAA
1 TAAAA TAAAA TA-AAA TAAAA TAA-AA -TAA-AA TAAAA TAAAA TAAAA
69217246 TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA T
69217262 TGGGGTGATT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 3 0.06
5 40 0.78
6 2 0.04
7 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:69218104 original size:19 final size:20
Alignment explanation
Indices: 69218068--69218105 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
69218058 TCCGCCATTC
*
69218068 ATCTAGTTCATCGATTTGTA
1 ATCTACTTCATCGATTTGTA
69218088 ATCTACTTCAT-GATTTGT
1 ATCTACTTCATCGATTTGT
69218106 TCTGTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (20 bp):
ATCTACTTCATCGATTTGTA
Found at i:69220475 original size:22 final size:22
Alignment explanation
Indices: 69220450--69220494 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
69220440 AGAAAAAGTT
69220450 AGTAAATTAAAATAAAAACAAA
1 AGTAAATTAAAATAAAAACAAA
** *
69220472 AGTAAATTGCAATAAAAATAAA
1 AGTAAATTAAAATAAAAACAAA
69220494 A
1 A
69220495 ATGGCTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (22 bp):
AGTAAATTAAAATAAAAACAAA
Found at i:69223617 original size:40 final size:40
Alignment explanation
Indices: 69223426--69223610 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
69223416 TTGAATGATG
* * * *
69223426 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
69223466 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69223506 TCCGGGCGAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69223545 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69223586 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69223611 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69223632 original size:79 final size:79
Alignment explanation
Indices: 69223479--69223643 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
69223469 GGACTAAGAT
* * **
69223479 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCGAAGCCTGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCGAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
69223544 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
69223558 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCGAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
69223621 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
69223637 CCGAAGG
1 CCGAAGG
69223644 TATGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCGAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:69223965 original size:47 final size:47
Alignment explanation
Indices: 69223835--69224145 Score: 487
Period size: 47 Copynumber: 6.6 Consensus size: 47
69223825 AAGGGTTGGT
69223835 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
69223882 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
69223931 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
69223978 AATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
69224025 AATGTGAAAGTGTATACATGTGATAAGGCCTAATGGCCGATGTGTTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
69224072 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
69224119 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
69224146 TCCCGAAGGG
Statistics
Matches: 242, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
47 196 0.81
49 46 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:69224320 original size:37 final size:37
Alignment explanation
Indices: 69224264--69224342 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
69224254 CCGAGCTCTA
* * *
69224264 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
* *
69224301 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
69224338 AAGAC
1 AAGAC
69224343 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:69225841 original size:40 final size:40
Alignment explanation
Indices: 69225558--69225829 Score: 409
Period size: 40 Copynumber: 6.8 Consensus size: 40
69225548 GAGAATTGAG
69225558 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
69225598 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
69225638 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
69225678 AGTGATGTATTCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
69225718 AGTGATGTATCCAGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
69225758 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
69225798 GGTGTTATGTCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
69225830 ATCATGCTGG
Statistics
Matches: 208, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:69229986 original size:79 final size:81
Alignment explanation
Indices: 69229850--69230034 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
69229840 TTGAATGATG
*
69229850 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
69229914 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
69229929 TTCCGGGCGAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
69229991 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
69230009 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69230035 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:69230041 original size:40 final size:40
Alignment explanation
Indices: 69229850--69230034 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
69229840 TTGAATGATG
* * * *
69229850 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
69229890 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69229930 TCCGGGCGAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69229969 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69230010 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69230035 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69230056 original size:79 final size:79
Alignment explanation
Indices: 69229903--69230067 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
69229893 GGACTAAGAT
* **
69229903 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCGAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCGAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
69229968 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
69229982 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCGAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
69230045 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
69230061 CCGAAGG
1 CCGAAGG
69230068 TATGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCGAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:69230389 original size:47 final size:47
Alignment explanation
Indices: 69230259--69230522 Score: 429
Period size: 47 Copynumber: 5.6 Consensus size: 47
69230249 AAGGGTTGGT
69230259 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
69230306 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
69230355 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
69230402 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGTTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
69230449 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
69230496 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
69230523 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 156 0.77
49 47 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:69230697 original size:37 final size:37
Alignment explanation
Indices: 69230641--69230719 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
69230631 CCGAGCTCTA
* * *
69230641 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
69230678 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
69230715 AAGAC
1 AAGAC
69230720 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:69253892 original size:21 final size:20
Alignment explanation
Indices: 69253856--69253900 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
69253846 ATGGAGGTTT
*
69253856 TTTTAAAAAATATTCCTGGG
1 TTTTAAAAAATATTCCTGGC
69253876 TTTTAAAAGAA-AGTTCCTGGC
1 TTTTAAAA-AATA-TTCCTGGC
69253897 TTTT
1 TTTT
69253901 CTTGTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (20 bp):
TTTTAAAAAATATTCCTGGC
Found at i:69256163 original size:18 final size:18
Alignment explanation
Indices: 69256103--69256164 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
69256093 ACAATGTAGA
*
69256103 TGAAAAAATAATGATATT
1 TGAAATAATAATGATATT
* *
69256121 TGAAAT-AT-TTTATATAT
1 TGAAATAATAATGATAT-T
**
69256138 AAAAATAATAATGATATT
1 TGAAATAATAATGATATT
69256156 TGAAATAAT
1 TGAAATAAT
69256165 TATTTGATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 15 0.47
19 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TGAAATAATAATGATATT
Found at i:69256261 original size:63 final size:64
Alignment explanation
Indices: 69256194--69256326 Score: 196
Period size: 69 Copynumber: 2.0 Consensus size: 64
69256184 AGAAATCACC
69256194 ATACCCACAATATAGATGAAAAATTTG-ACATATATATATTATATAAAGAAAAATATATAAAAA
1 ATACCCACAATATAGATGAAAAATTTGAACATATATATATTATATAAAGAAAAATATATAAAAA
* *
69256257 ATACCCACAATATAGATGGAGAATTTGACACACACATATATATATTATATAAAGAAAAATATATA
1 ATACCCACAATATAGATGAAAAATTTG----A-ACATATATATATTATATAAAGAAAAATATATA
69256322 AAAA
61 AAAA
69256326 A
1 A
69256327 ATTTAGTTGA
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
63 25 0.40
69 37 0.60
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.27
Consensus pattern (64 bp):
ATACCCACAATATAGATGAAAAATTTGAACATATATATATTATATAAAGAAAAATATATAAAAA
Found at i:69259531 original size:10 final size:10
Alignment explanation
Indices: 69259506--69259538 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
69259496 TAGTGTATTC
69259506 ATATTTT-AA
1 ATATTTTAAA
69259515 A-ATTTTAAA
1 ATATTTTAAA
69259524 ATATTTTAAA
1 ATATTTTAAA
69259534 ATATT
1 ATATT
69259539 ATATAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.23
9 4 0.18
10 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATATTTTAAA
Found at i:69261046 original size:14 final size:15
Alignment explanation
Indices: 69261011--69261053 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
69261001 GTTGTAGTTG
*
69261011 ATAAATTATTTAAAT
1 ATAATTTATTTAAAT
*
69261026 ATAATTTTTTTAAAT
1 ATAATTTATTTAAAT
*
69261041 GT-ATTTATTTAAA
1 ATAATTTATTTAAA
69261054 AATTTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATAATTTATTTAAAT
Found at i:69263109 original size:15 final size:16
Alignment explanation
Indices: 69263089--69263126 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
69263079 TTTTTATTAT
*
69263089 TTTTTAATTTT-CATA
1 TTTTTAATTTTAAATA
*
69263104 TTTTTATTTTTAAATA
1 TTTTTAATTTTAAATA
69263120 TTTTTAA
1 TTTTTAA
69263127 AACAGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAATTTTAAATA
Found at i:69268538 original size:43 final size:43
Alignment explanation
Indices: 69268487--69268599 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
69268477 AAAAAACACT
* *
69268487 GCTAAAAGTCACGGCTTTTAGCGGTGTTTGTGGGAAAAGCGCC
1 GCTAAAAGTCACGACTTTTAGCGGTGTTTGTGAGAAAAGCGCC
* **
69268530 GCTAAAAGTCATGACTTTTAGCGGCATTTGTGAGAAAAGCGCC
1 GCTAAAAGTCACGACTTTTAGCGGTGTTTGTGAGAAAAGCGCC
*
69268573 GCTAAAAGTCACGTCTTTTTAGCGGTG
1 GCTAAAAGTCACGAC-TTTTAGCGGTG
69268600 CTTTTTCCAC
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 51 0.85
44 9 0.15
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
GCTAAAAGTCACGACTTTTAGCGGTGTTTGTGAGAAAAGCGCC
Found at i:69269481 original size:13 final size:14
Alignment explanation
Indices: 69269457--69269485 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
69269447 TGATGAATTG
69269457 AATTAAACAATTAT
1 AATTAAACAATTAT
69269471 AATTAAA-AATTAT
1 AATTAAACAATTAT
69269484 AA
1 AA
69269486 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:69274639 original size:9 final size:9
Alignment explanation
Indices: 69274625--69274743 Score: 94
Period size: 9 Copynumber: 12.6 Consensus size: 9
69274615 ATGTATTAGT
69274625 TAAGTTATG
1 TAAGTTATG
69274634 TAAGTTGTTATG
1 TAA---GTTATG
* *
69274646 TACGTTACG
1 TAAGTTATG
*
69274655 TGAGTTATG
1 TAAGTTATG
*
69274664 TAAATTATG
1 TAAGTTATG
69274673 TAAGTTATG
1 TAAGTTATG
*
69274682 TGAGTTATG
1 TAAGTTATG
69274691 TAAGTTGTTATG
1 TAA---GTTATG
*
69274703 TAAATTATG
1 TAAGTTATG
*
69274712 TAAGTTATA
1 TAAGTTATG
*
69274721 TGAGTTATG
1 TAAGTTATG
* *
69274730 TAATTTATT
1 TAAGTTATG
69274739 TAAGT
1 TAAGT
69274744 AATGATCAAT
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
9 68 0.80
12 17 0.20
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:69274701 original size:39 final size:39
Alignment explanation
Indices: 69274658--69274732 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
69274648 CGTTACGTGA
*
69274658 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
69274697 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAA
1 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAA
69274733 TTTATTTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
Found at i:69274718 original size:57 final size:57
Alignment explanation
Indices: 69274627--69274737 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
69274617 GTATTAGTTA
** * *
69274627 AGTTATGTAAGTTGTTATGTACGTTACGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATGTG
* * * *
69274684 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAATTTAT
1 AGTTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTAT
69274738 TTAAGTAATG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.46
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATGTG
Found at i:69279518 original size:14 final size:14
Alignment explanation
Indices: 69279483--69279519 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
69279473 TATTATCTCT
69279483 TAAATAATTTAATC
1 TAAATAATTTAATC
69279497 TAAA-AATTTAATC
1 TAAATAATTTAATC
69279510 TAAATAATTT
1 TAAATAATTT
69279520 CATTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTAATC
Found at i:69279804 original size:22 final size:22
Alignment explanation
Indices: 69279769--69279814 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
69279759 TAACCCTAAG
**
69279769 CCCTAAACTTTAAACACTA-AAA
1 CCCTAAACCCTAAA-ACTATAAA
69279791 CCCTAAACCCTAAAACTATAAA
1 CCCTAAACCCTAAAACTATAAA
69279813 CC
1 CC
69279815 TTACACACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.20
Consensus pattern (22 bp):
CCCTAAACCCTAAAACTATAAA
Found at i:69280180 original size:16 final size:16
Alignment explanation
Indices: 69280159--69280190 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69280149 GACACTTAAA
69280159 CCATAACCCTTAAACC
1 CCATAACCCTTAAACC
*
69280175 CCATAATCCTTAAACC
1 CCATAACCCTTAAACC
69280191 TTAAAATAAT
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:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (16 bp):
CCATAACCCTTAAACC
Found at i:69280890 original size:27 final size:27
Alignment explanation
Indices: 69280860--69280913 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
69280850 TAAAAACGCC
*
69280860 GCTAAAGATCGAC-CTTTAGCGGTGTTT
1 GCTAAAGATCG-CTCTTTAGCGATGTTT
* *
69280887 GCTAATGCTCGCTCTTTAGCGATGTTT
1 GCTAAAGATCGCTCTTTAGCGATGTTT
69280914 TTCTTAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (27 bp):
GCTAAAGATCGCTCTTTAGCGATGTTT
Found at i:69280947 original size:13 final size:12
Alignment explanation
Indices: 69280918--69280948 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
69280908 ATGTTTTTCT
*
69280918 TAAAAGCGCCGC
1 TAAAAACGCCGC
69280930 TAAAAACGCCGC
1 TAAAAACGCCGC
69280942 TAAAAAC
1 TAAAAAC
69280949 CTATTTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.29, G:0.16, T:0.10
Consensus pattern (12 bp):
TAAAAACGCCGC
Found at i:69281393 original size:46 final size:46
Alignment explanation
Indices: 69281357--69281615 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
69281347 ATAAAATGTG
* **
69281357 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
*
69281403 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* * **
69281449 TAAGACCATGGTTGAAAGATACCATAGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* * *
69281495 TAAGACCATGGTTGAAAGATACCATGGCAGCGTAACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* *
69281541 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAA
* * *
69281587 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
69281616 TCATGTCAAA
Statistics
Matches: 192, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 191 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
Found at i:69281922 original size:16 final size:17
Alignment explanation
Indices: 69281901--69281933 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69281891 ATGATGGTGC
*
69281901 ATGAAAT-ATTGATATA
1 ATGAAATGATTAATATA
69281917 ATGAAATGATTAATATA
1 ATGAAATGATTAATATA
69281934 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTAATATA
Found at i:69303418 original size:17 final size:18
Alignment explanation
Indices: 69303390--69303432 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
69303380 AGCAAGGAGA
69303390 AGAAGAGAAAAAAAAAGG
1 AGAAGAGAAAAAAAAAGG
69303408 AGAAG-GAAAAAAAAA-G
1 AGAAGAGAAAAAAAAAGG
*
69303424 AAAAGAGAA
1 AGAAGAGAA
69303433 TGTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 13 0.57
18 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
AGAAGAGAAAAAAAAAGG
Found at i:69303421 original size:21 final size:22
Alignment explanation
Indices: 69303383--69303432 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
69303373 AAGCAGCAGC
*
69303383 AAGGAGAAGAAGAGAAAAA-AA
1 AAGGAGAAGAAGAAAAAAAGAA
69303404 AAGGAGAAGGAA-AAAAAAAGAA
1 AAGGAGAA-GAAGAAAAAAAGAA
69303426 AA-GAGAA
1 AAGGAGAA
69303433 TGTATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
AAGGAGAAGAAGAAAAAAAGAA
Found at i:69303559 original size:26 final size:26
Alignment explanation
Indices: 69303526--69303580 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
69303516 TTGTTGTTGG
*
69303526 TTATTATTGTTAGTAAAAAACTCTTA
1 TTATTATTGTTAGTAAAAAACTATTA
69303552 TTATTATTGTTAGTAAAAAACTATTA
1 TTATTATTGTTAGTAAAAAACTATTA
69303578 TTA
1 TTA
69303581 GGATTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (26 bp):
TTATTATTGTTAGTAAAAAACTATTA
Found at i:69303586 original size:26 final size:26
Alignment explanation
Indices: 69303531--69303588 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
69303521 GTTGGTTATT
* **
69303531 ATTGTTAGTAAAAAACTCTTATTATT
1 ATTGTTAGTAAAAAACTATTATTAGG
69303557 ATTGTTAGTAAAAAACTATTATTAGG
1 ATTGTTAGTAAAAAACTATTATTAGG
69303583 ATTGTT
1 ATTGTT
69303589 GGTTATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (26 bp):
ATTGTTAGTAAAAAACTATTATTAGG
Found at i:69303623 original size:36 final size:37
Alignment explanation
Indices: 69303552--69303634 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 37
69303542 AAAACTCTTA
* * *
69303552 TTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGG
1 TTATTATTGTTAGTAAAAAACCATAATT--GATTGTTAG
69303591 TTATTATTGTTAGTAAAAAACCCA-AATT-ATTGTTAG
1 TTATTATTGTTAGTAAAAAA-CCATAATTGATTGTTAG
69303627 TTATTATT
1 TTATTATT
69303635 ATTGTTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 15 0.38
39 23 0.57
40 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (37 bp):
TTATTATTGTTAGTAAAAAACCATAATTGATTGTTAG
Found at i:69305336 original size:18 final size:18
Alignment explanation
Indices: 69305313--69305348 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
69305303 TTTCCAAAGT
69305313 ACCTTAAAATACTTCTTA
1 ACCTTAAAATACTTCTTA
69305331 ACCTTAAAATACTTCTTA
1 ACCTTAAAATACTTCTTA
69305349 CTCACCGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (18 bp):
ACCTTAAAATACTTCTTA
Found at i:69307393 original size:18 final size:17
Alignment explanation
Indices: 69307361--69307408 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
69307351 TTGCATATAT
69307361 TTAATGTTCTAATTAGA
1 TTAATGTTCTAATTAGA
*
69307378 TTAATGTATTTAATTAGA
1 TTAATGT-TCTAATTAGA
*
69307396 TTAATGTTGTAAT
1 TTAATGTTCTAAT
69307409 GTATTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (17 bp):
TTAATGTTCTAATTAGA
Found at i:69312074 original size:133 final size:133
Alignment explanation
Indices: 69311675--69312096 Score: 478
Period size: 136 Copynumber: 3.1 Consensus size: 133
69311665 TATTATTTTC
* * ** *
69311675 ATATT-TTTT-ATGTTATTTTAGTATATAAT-TTTGTAATGTATTATTTAAGTTTTTTGTATTAA
1 ATATTATTTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTTTTTT-TAATAA
* * *
69311737 TTTAATAAATAACCCTAATTTTAGCACTTTGTTGGTATTTTTTTATTTTA--TTTTTAAAAATAT
65 TTTAATAAATAACCCTGATTTTGGCACTTTGTTGGTATTTTTTTATTTTAGGATTTT----AT-T
****
69311800 ATTATTTTTGT
125 -TT-TTAAAAT
* * *
69311811 ATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTAAAGTGTTTTATTATAT
1 ATATTATTTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-TTTT-TTA-A-
* * *
69311876 TAATTTAATAAATAACCTTGATTTTGACACTTTGTTGGTA-TTTTTTATTTTTGGATTTTATTTT
62 TAATTTAATAAATAACCCTGATTTTGGCACTTTGTTGGTATTTTTTTATTTTAGGATTTTATTTT
69311940 TTAAAAT
127 TTAAAAT
*
69311947 ATATTATTTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTAATAA
1 ATATTATTTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-TTTTTTAATAA
* *
69312012 TTTAGTAAATAACCCTGATTTTGGCACTTTGTTGGTATTTTTTTACTTTAGGATTTTATTTTTTA
65 TTTAATAAATAACCCTGATTTTGGCACTTTGTTGGTATTTTTTTATTTTAGGATTTTATTTTTTA
69312077 AAAT
130 AAAT
* *
69312081 ATACTATTTTCGTATT
1 ATATTATTTTCATATT
69312097 TTATTTTTGT
Statistics
Matches: 247, Mismatches: 29, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
133 37 0.15
134 44 0.18
135 3 0.01
136 60 0.24
137 6 0.02
138 19 0.08
139 20 0.08
140 6 0.02
141 12 0.05
142 36 0.15
143 4 0.02
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.57
Consensus pattern (133 bp):
ATATTATTTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTTTTTTTAATAAT
TTAATAAATAACCCTGATTTTGGCACTTTGTTGGTATTTTTTTATTTTAGGATTTTATTTTTTAA
AAT
Found at i:69313078 original size:38 final size:38
Alignment explanation
Indices: 69313013--69313135 Score: 183
Period size: 38 Copynumber: 3.2 Consensus size: 38
69313003 GGCTCAAAGG
* * *
69313013 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
69313051 CCTGGATATAATACCAACACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
69313089 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
69313127 CCCGGATAT
1 CCCGGATAT
69313136 CATATTTCGA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:69316184 original size:149 final size:149
Alignment explanation
Indices: 69315776--69316546 Score: 1265
Period size: 149 Copynumber: 5.2 Consensus size: 149
69315766 GCTATCACAA
* * *
69315776 TTTTTATATTATTTTAGTACATAATATTTCAAATGTACTATTTTAGTTTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
* *** *
69315841 AAATAACCCTGATTTTGGCCATTTGTTTGCATTTTTAAAATTTTTAAAATTTATTTTTTAAAATA
66 AAATAACCCTGATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCGGATTTTATTTTTTAAAATA
69315906 TACTATTTTCGTATTTTATT
131 TACTATTTTCGTATTTTA-T
* *
69315926 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTGTCTTATAATAATTTAG
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TGTTTTTTAATAATTTAG
* *
69315991 TAAATAATCCTGATTTTGGCCCTTTGTTTGTAATTTTT-AAATTTTCGGATTTTATTTTTTAAAA
65 TAAATAACCCTGATTTTGGCCCTTTGTTTG-CATTTTTAAAATTTTCGGATTTTATTTTTTAAAA
69316055 TATACTATTTTCGTATTTTAT
129 TATACTATTTTCGTATTTTAT
*
69316076 TTTTTATATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
69316141 AAATAACCCTGATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCGGATTTTATTTTTTAAAATA
66 AAATAACCCTGATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCGGATTTTATTTTTTAAAATA
*
69316206 TACTATTTTCATATTTTAT
131 TACTATTTTCGTATTTTAT
69316225 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
* * * *
69316290 AAATAACCCTGATTTTGTCCCTTTGTTTGTATTTTTTAAATTTTCAGATTTTATTTTTTAAAATA
66 AAATAACCCTGATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCGGATTTTATTTTTTAAAATA
69316355 TACTATTTTCGTATTTTAT
131 TACTATTTTCGTATTTTAT
* * *
69316374 TTTTTACATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTTTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
* * * * *
69316439 AAATAACCCTCATTTTGGCCATTTGTTTGTATTTTTAAATTTTTTGGATTTTATTTTTTAAAATA
66 AAATAACCCTGATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCGGATTTTATTTTTTAAAATA
69316504 TACTATTTTCGTATTTTAT
131 TACTATTTTCGTATTTTAT
*
69316523 TTTTTATATTATTTTAGTAAATAA
1 TTTTTATATTATTTTAGTACATAA
69316547 CTCACCAGCA
Statistics
Matches: 582, Mismatches: 36, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
148 6 0.01
149 395 0.68
150 90 0.15
151 85 0.15
152 6 0.01
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (149 bp):
TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
AAATAACCCTGATTTTGGCCCTTTGTTTGCATTTTTAAAATTTTCGGATTTTATTTTTTAAAATA
TACTATTTTCGTATTTTAT
Found at i:69316597 original size:17 final size:16
Alignment explanation
Indices: 69316571--69316610 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 16
69316561 TTTCCCCAAA
69316571 ATTTTTTTCGTATTTT
1 ATTTTTTTCGTATTTT
69316587 ATTTCTTTTCGTATTTT
1 ATTT-TTTTCGTATTTT
69316604 ATTTTTT
1 ATTTTTT
69316611 CATTAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (16 bp):
ATTTTTTTCGTATTTT
Found at i:69317140 original size:3 final size:3
Alignment explanation
Indices: 69317126--69317167 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
69317116 GTGCCGCCTC
* *
69317126 CTT CTC CTT CTT CTT CTT C-T CTT CTT CTC CTT CTT -TT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
69317168 CGAAATGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:69317151 original size:14 final size:14
Alignment explanation
Indices: 69317123--69317168 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
69317113 CCAGTGCCGC
69317123 CTCCTTCTCCTTCTT
1 CTCCTTCT-CTTCTT
*
69317138 CTTCTTCTCTTCTT
1 CTCCTTCTCTTCTT
*
69317152 CTCCTTCTTTTCTT
1 CTCCTTCTCTTCTT
69317166 CTC
1 CTC
69317169 GAAATGAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
CTCCTTCTCTTCTT
Found at i:69317158 original size:17 final size:17
Alignment explanation
Indices: 69317132--69317167 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
69317122 CCTCCTTCTC
*
69317132 CTTCTTCTTCTTCTCTT
1 CTTCTCCTTCTTCTCTT
*
69317149 CTTCTCCTTCTTTTCTT
1 CTTCTCCTTCTTCTCTT
69317166 CT
1 CT
69317168 CGAAATGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
CTTCTCCTTCTTCTCTT
Found at i:69318991 original size:17 final size:17
Alignment explanation
Indices: 69318966--69318999 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69318956 TATTTCATCA
*
69318966 ATATATTATATCATTAT
1 ATATATTATATAATTAT
*
69318983 ATATTTTATATAATTAT
1 ATATATTATATAATTAT
69319000 TAAATTTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATATTATATAATTAT
Found at i:69319993 original size:11 final size:11
Alignment explanation
Indices: 69319977--69320007 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
69319967 ATACCCATAC
69319977 CCCATACCTTG
1 CCCATACCTTG
*
69319988 CCCATACCTTT
1 CCCATACCTTG
69319999 CCCATACCT
1 CCCATACCT
69320008 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:69320733 original size:11 final size:11
Alignment explanation
Indices: 69320717--69320747 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
69320707 AAGTATGGGT
69320717 AGGTATGGGAA
1 AGGTATGGGAA
*
69320728 AGGTATGGGCA
1 AGGTATGGGAA
69320739 AGGTATGGG
1 AGGTATGGG
69320748 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:69321019 original size:11 final size:11
Alignment explanation
Indices: 69321003--69321033 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
69320993 ATACCCATAC
69321003 CCCATACCTTG
1 CCCATACCTTG
*
69321014 CCCATACCTTT
1 CCCATACCTTG
69321025 CCCATACCT
1 CCCATACCT
69321034 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:69323965 original size:27 final size:27
Alignment explanation
Indices: 69323918--69323981 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
69323908 TGCAATTTGG
*
69323918 ATTATAATAAAAAACAATATTTTAAAA
1 ATTATAATAAAAAACAATATTTAAAAA
**
69323945 ATTATAATTAAAAAA-TTTATTTAAAAAA
1 ATTATAA-TAAAAAACAATATTT-AAAAA
*
69323973 ATTAAAATA
1 ATTATAATA
69323982 GATCAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 14 0.45
28 17 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTATAATAAAAAACAATATTTAAAAA
Found at i:69323972 original size:13 final size:14
Alignment explanation
Indices: 69323934--69323972 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
69323924 ATAAAAAACA
*
69323934 ATATTTTAAAAATT
1 ATATTTAAAAAATT
*
69323948 ATAATTAAAAAATT
1 ATATTTAAAAAATT
69323962 -TATTTAAAAAA
1 ATATTTAAAAAA
69323973 ATTAAAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATTTAAAAAATT
Found at i:69323975 original size:14 final size:14
Alignment explanation
Indices: 69323918--69323972 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
69323908 TGCAATTTGG
69323918 ATTATAA-TAAAAA
1 ATTATAATTAAAAA
** * *
69323931 ACAATATTTTAAAA
1 ATTATAATTAAAAA
69323945 ATTATAATTAAAAA
1 ATTATAATTAAAAA
*
69323959 ATT-TATTTAAAAA
1 ATTATAATTAAAAA
69323972 A
1 A
69323973 ATTAAAATAG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 14 0.44
14 18 0.56
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTATAATTAAAAA
Found at i:69329132 original size:11 final size:11
Alignment explanation
Indices: 69329116--69329142 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
69329106 AAAAAATTCG
69329116 TAATAAAATCA
1 TAATAAAATCA
69329127 TAATAAAATCA
1 TAATAAAATCA
69329138 TAATA
1 TAATA
69329143 TATGATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAAAATCA
Found at i:69331296 original size:29 final size:28
Alignment explanation
Indices: 69331264--69331323 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
69331254 GTAAAATATA
*
69331264 CTTAAAA-AAAAGAAGAAGGAAAACCTAAC
1 CTTAAAAGAAAAGAA-AA-GAAAACATAAC
69331293 CTTAAAATGAAAAGAAAAGAAAACATAAC
1 CTTAAAA-GAAAAGAAAAGAAAACATAAC
69331322 CT
1 CT
69331324 AACACTACGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 19 0.68
30 2 0.07
31 7 0.25
ACGTcount: A:0.62, C:0.13, G:0.12, T:0.13
Consensus pattern (28 bp):
CTTAAAAGAAAAGAAAAGAAAACATAAC
Found at i:69332406 original size:42 final size:42
Alignment explanation
Indices: 69332312--69332449 Score: 132
Period size: 42 Copynumber: 3.3 Consensus size: 42
69332302 TTGATTTATT
* *
69332312 CAATGATGCACTTATGTGCCAGTATAATTGCTTCAGTATATC
1 CAATGATGCACTTACGTGCCAGTATAATTGCTTCAGTACATC
** * * * * **
69332354 TGATGGTGCACTTACGTGCCAGTGTATTTTCTTTGGTACATC
1 CAATGATGCACTTACGTGCCAGTATAATTGCTTCAGTACATC
* * * * **
69332396 CAATGATGCACTTACGTGTCAGCATGATTGCTTCGGTTTATC
1 CAATGATGCACTTACGTGCCAGTATAATTGCTTCAGTACATC
69332438 CAATGATGCACT
1 CAATGATGCACT
69332450 ATGTGTACCA
Statistics
Matches: 74, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (42 bp):
CAATGATGCACTTACGTGCCAGTATAATTGCTTCAGTACATC
Found at i:69332479 original size:43 final size:41
Alignment explanation
Indices: 69332393--69332493 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 41
69332383 TCTTTGGTAC
* * **
69332393 ATCCAATGATGCACTTACGTGTCAGCATGATTGCTTCGGTTT
1 ATCCAATGATGCAC-TATGTGTCAGCATGATTCCTTCAATTT
69332435 ATCCAATGATGCACTATGTGTACCAGCAT-ATTTCCTTCAATTT
1 ATCCAATGATGCACTATGTGT--CAGCATGA-TTCCTTCAATTT
**
69332478 ATCTGATGA-GCACTAT
1 ATCCAATGATGCACTAT
69332494 AGTGCCACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 6 0.12
42 22 0.44
43 22 0.44
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (41 bp):
ATCCAATGATGCACTATGTGTCAGCATGATTCCTTCAATTT
Found at i:69341120 original size:13 final size:13
Alignment explanation
Indices: 69341102--69341128 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69341092 TATGTTAGCA
69341102 TTTTTATGATTAT
1 TTTTTATGATTAT
69341115 TTTTTATGATTAT
1 TTTTTATGATTAT
69341128 T
1 T
69341129 ACTATTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTTATGATTAT
Found at i:69357060 original size:5 final size:6
Alignment explanation
Indices: 69357045--69357074 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
69357035 TTTAGCCATT
*
69357045 TTTTTA TTTTTA TTTTTA TTTTTG TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
69357075 CTTTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:69357083 original size:18 final size:18
Alignment explanation
Indices: 69357045--69357083 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
69357035 TTTAGCCATT
* *
69357045 TTTTTATTTTTATTTTTA
1 TTTTTATTTTTACTTTAA
*
69357063 TTTTTGTTTTTACTTTAA
1 TTTTTATTTTTACTTTAA
69357081 TTT
1 TTT
69357084 ACTAACTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTTACTTTAA
Found at i:69361648 original size:31 final size:31
Alignment explanation
Indices: 69361607--69361682 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
69361597 TATACTTAAT
* *
69361607 AAATAATAATAAAATAATAAATATCTTATTA
1 AAATATTAATAAAATAATAAATATCTAATTA
**
69361638 AAATATTAATAAAATAATATTTATCTAATTA
1 AAATATTAATAAAATAATAAATATCTAATTA
*
69361669 ATA-ATT-ATAAAATA
1 AAATATTAATAAAATA
69361683 TCATCAACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 8 0.20
30 3 0.08
31 29 0.73
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATATTAATAAAATAATAAATATCTAATTA
Found at i:69362817 original size:208 final size:208
Alignment explanation
Indices: 69362447--69362890 Score: 836
Period size: 208 Copynumber: 2.1 Consensus size: 208
69362437 GTCGTGTGAC
* *
69362447 CCACACGGCTTAGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
1 CCACACTGCTTGGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
* *
69362512 GTAAAGGAAATCGACAGAGAGTTACACGGCCAGGACACACGGGTGTGTCCTCGGCCGTGTGAGCC
66 GTAAAGGAAATCGACAGAGAGTTACACAGCCAGGACACACGGCTGTGTCCTCGGCCGTGTGAGCC
69362577 CTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAAC
131 CTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAAC
69362642 ACGGTCATGTGGA
196 ACGGTCATGTGGA
69362655 CCACACTGCTTGGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
1 CCACACTGCTTGGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
69362720 GTAAAGGAAATCGACAGAGAGTTACACAGCCAGGACACACAGGCT-TGTCCTCGGCCGTGTGAGC
66 GTAAAGGAAATCGACAGAGAGTTACACAGCCAGGACACAC-GGCTGTGTCCTCGGCCGTGTGAGC
69362784 CCTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAA
130 CCTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAA
69362849 CACGGTCATGTGGA
195 CACGGTCATGTGGA
69362863 CCACACTGCTTGGACACACGGGCGTGTC
1 CCACACTGCTTGGACACACGGGCGTGTC
69362891 CTAGGCCGTA
Statistics
Matches: 231, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
208 228 0.99
209 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (208 bp):
CCACACTGCTTGGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
GTAAAGGAAATCGACAGAGAGTTACACAGCCAGGACACACGGCTGTGTCCTCGGCCGTGTGAGCC
CTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAAC
ACGGTCATGTGGA
Found at i:69363345 original size:28 final size:27
Alignment explanation
Indices: 69363304--69363358 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
69363294 CCCCAATCTA
69363304 CCCAAAATCATTTCCCACCAAAATTTT
1 CCCAAAATCATTTCCCACCAAAATTTT
* *
69363331 CCCAAACTCCATTTCCTACCAAAATTTT
1 CCCAAAAT-CATTTCCCACCAAAATTTT
69363359 ACTCTCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (27 bp):
CCCAAAATCATTTCCCACCAAAATTTT
Found at i:69367083 original size:14 final size:14
Alignment explanation
Indices: 69367062--69367107 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
69367052 TCATTACTCT
69367062 TTTATTATTA-TTA-
1 TTTATT-TTATTTAC
69367075 TTTA-TTTATTTAC
1 TTTATTTTATTTAC
*
69367088 TTTATTTTATTTAT
1 TTTATTTTATTTAC
69367102 TTTATT
1 TTTATT
69367108 ATAAGCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 3 0.10
12 4 0.14
13 8 0.28
14 14 0.48
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTTATTTAC
Found at i:69367104 original size:9 final size:9
Alignment explanation
Indices: 69367062--69367107 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
69367052 TCATTACTCT
69367062 TTTATTATTA
1 TTTATT-TTA
69367072 -TTA-TTTA
1 TTTATTTTA
69367079 TTTA-TTTA
1 TTTATTTTA
69367087 CTTTATTTTA
1 -TTTATTTTA
69367097 TTTATTTTA
1 TTTATTTTA
69367106 TT
1 TT
69367108 ATAAGCCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 3 0.09
8 8 0.24
9 18 0.55
10 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:69377357 original size:43 final size:42
Alignment explanation
Indices: 69377201--69377358 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
69377191 TGTGTTATTG
* * *
69377201 TGTAAGACCAAGTCTGGGACGTTGGCATCGACTTCTGTTTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TTTTG-ATTACA
* * * * * * *
69377245 TGTAAGACCATTTCTGGGACATTAGCGTCG-TTAATCGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATT--TTGATTACA
* * * *
69377288 TGTAAGGCCCTATCTAGGACAG-TGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTTGATTACA
69377331 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
69377359 TGTATTTACT
Statistics
Matches: 84, Mismatches: 24, Indels: 13
0.69 0.20 0.11
Matches are distributed among these distances:
42 3 0.04
43 53 0.63
44 27 0.32
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATTTTGATTACA
Found at i:69378963 original size:11 final size:11
Alignment explanation
Indices: 69378947--69378981 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
69378937 GTAGATTTCT
69378947 TTTTCTTTTTA
1 TTTTCTTTTTA
*
69378958 TTTTCTTTTAAA
1 TTTTCTTTT-TA
69378970 TTTTCTTTTTA
1 TTTTCTTTTTA
69378981 T
1 T
69378982 GTTTATTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:69381713 original size:8 final size:8
Alignment explanation
Indices: 69381700--69381736 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
69381690 GGAGAATTCG
69381700 GGTTTGAA
1 GGTTTGAA
69381708 GGTTTGAA
1 GGTTTGAA
69381716 GGTTTGAA
1 GGTTTGAA
69381724 GGTTTGAA
1 GGTTTGAA
*
69381732 AGTTT
1 GGTTT
69381737 AATAGGTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (8 bp):
GGTTTGAA
Found at i:69382983 original size:18 final size:18
Alignment explanation
Indices: 69382960--69383011 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
69382950 TAAATAAAGG
69382960 TACTGAATAACTGACTGC
1 TACTGAATAACTGACTGC
*
69382978 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGC
*
69382996 TACTGGATAACTGACT
1 TACTGAATAACTGACT
69383012 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:69394234 original size:26 final size:26
Alignment explanation
Indices: 69394205--69394255 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
69394195 AAAATAATAT
69394205 TTATTATAATTATTAT-TTTTAATAAA
1 TTATT-TAATTATTATATTTTAATAAA
*
69394231 TTATTTAATTATTTTATTTTAATAA
1 TTATTTAATTATTATATTTTAATAA
69394256 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTATTTAATTATTATATTTTAATAAA
Found at i:69394262 original size:26 final size:25
Alignment explanation
Indices: 69394211--69394265 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
69394201 ATATTTATTA
*
69394211 TAATTATTATTTTTAATAAATTATT
1 TAATTATTATTTTTAATAAATAATT
*
69394236 TAATTATTTTATTTTAAT-AATAAATT
1 TAATTATTAT-TTTTAATAAAT-AATT
69394262 TAAT
1 TAAT
69394266 AGTAATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TAATTATTATTTTTAATAAATAATT
Found at i:69394312 original size:19 final size:21
Alignment explanation
Indices: 69394290--69394328 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
69394280 ATTTCAAATA
69394290 ATATTTATA-T-ATATTTAAG
1 ATATTTATATTAATATTTAAG
69394309 ATATTTATATTAATATTTAA
1 ATATTTATATTAATATTTAA
69394329 TAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
ATATTTATATTAATATTTAAG
Found at i:69397307 original size:18 final size:18
Alignment explanation
Indices: 69397281--69397316 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
69397271 TCCAAGATAA
*
69397281 AATTTTGAAATAATATTT
1 AATTATGAAATAATATTT
*
69397299 AATTATGAAATATTATTT
1 AATTATGAAATAATATTT
69397317 TACACAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
AATTATGAAATAATATTT
Found at i:69397774 original size:66 final size:66
Alignment explanation
Indices: 69397668--69397800 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
69397658 TCGAATTGGA
69397668 AAAATACTTAAGAAAACCAATGAGAGAGACAATACCAGTAAAGAATCCACCTAGATTTCACTTAT
1 AAAATACTTAAGAAAACCAATGAGAGAGACAATACCAGTAAAGAATCCACCTAGATTTCACTTAT
69397733 T
66 T
69397734 AAAATACTTAAGAAAACCAATGAGAGAGACAATACCAGTAAAGAATCCACCTAGATTTCACTTAT
1 AAAATACTTAAGAAAACCAATGAGAGAGACAATACCAGTAAAGAATCCACCTAGATTTCACTTAT
69397799 T
66 T
69397800 A
1 A
69397801 TTTTAACTCT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (66 bp):
AAAATACTTAAGAAAACCAATGAGAGAGACAATACCAGTAAAGAATCCACCTAGATTTCACTTAT
T
Found at i:69399321 original size:18 final size:18
Alignment explanation
Indices: 69399300--69399401 Score: 98
Period size: 18 Copynumber: 5.7 Consensus size: 18
69399290 TTTAACAATC
69399300 AATTATTCAGTAAC-GATA
1 AATTATTCAGTAACAG-TA
*
69399318 AATTATTCAGTAACAGTC
1 AATTATTCAGTAACAGTA
* *
69399336 AATTATTCAGTAGCAGTC
1 AATTATTCAGTAACAGTA
* * *
69399354 AGTTATCCAGTAACAGTC
1 AATTATTCAGTAACAGTA
* * *
69399372 AGTTATTCAGTAGCAGTC
1 AATTATTCAGTAACAGTA
*
69399390 AGTTATTCAGTA
1 AATTATTCAGTA
69399402 CCTTTATTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
18 75 0.99
19 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
AATTATTCAGTAACAGTA
Found at i:69399389 original size:36 final size:36
Alignment explanation
Indices: 69399292--69399401 Score: 150
Period size: 36 Copynumber: 3.1 Consensus size: 36
69399282 TAGTACTCTT
* * * *
69399292 TAACAATCAATTATTCAGTAAC-GATAAATTATTCAG
1 TAACAGTCAATTATTCAGTAGCAG-TCAGTTATTCAG
*
69399328 TAACAGTCAATTATTCAGTAGCAGTCAGTTATCCAG
1 TAACAGTCAATTATTCAGTAGCAGTCAGTTATTCAG
*
69399364 TAACAGTCAGTTATTCAGTAGCAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAGTAGCAGTCAGTTATTCAG
69399400 TA
1 TA
69399402 CCTTTATTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 65 0.98
37 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (36 bp):
TAACAGTCAATTATTCAGTAGCAGTCAGTTATTCAG
Found at i:69400642 original size:8 final size:8
Alignment explanation
Indices: 69400626--69400662 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
69400616 CTTACCTATT
*
69400626 AAACTTTC
1 AAACCTTC
69400634 AAACCTTC
1 AAACCTTC
69400642 AAACCTTC
1 AAACCTTC
69400650 AAACCTTC
1 AAACCTTC
69400658 AAACC
1 AAACC
69400663 CGAATTCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (8 bp):
AAACCTTC
Found at i:69401006 original size:23 final size:22
Alignment explanation
Indices: 69400959--69401008 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
69400949 TAGTAAAAAG
69400959 AAAGAAAAAGAAATGAAACAAGA
1 AAAGAAAAAGAAATGAAAC-AGA
*
69400982 AAAGAAACAGAATATGCAAAC-GA
1 AAAGAAAAAGAA-ATG-AAACAGA
69401005 AAAG
1 AAAG
69401009 CAGGGAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 17 0.71
24 3 0.12
25 4 0.17
ACGTcount: A:0.68, C:0.08, G:0.18, T:0.06
Consensus pattern (22 bp):
AAAGAAAAAGAAATGAAACAGA
Found at i:69401071 original size:8 final size:8
Alignment explanation
Indices: 69401058--69401094 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
69401048 GGAGAATTCG
69401058 GGTTTGAA
1 GGTTTGAA
69401066 GGTTTGAA
1 GGTTTGAA
69401074 GGTTTGAA
1 GGTTTGAA
69401082 GGTTTGAA
1 GGTTTGAA
*
69401090 AGTTT
1 GGTTT
69401095 AATAGGTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (8 bp):
GGTTTGAA
Found at i:69402400 original size:18 final size:18
Alignment explanation
Indices: 69402318--69402427 Score: 132
Period size: 18 Copynumber: 6.1 Consensus size: 18
69402308 TAAATAAAGG
*
69402318 TACTGAATAACTGACTGC
1 TACTGAATAACTGACTGT
69402336 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
69402354 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
*
69402372 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* *
69402390 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
* *
69402408 TACTGAATAATTGATTGT
1 TACTGAATAACTGACTGT
69402426 TA
1 TA
69402428 AAGAGTACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
17 1 0.01
18 80 0.98
19 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:69402412 original size:36 final size:36
Alignment explanation
Indices: 69402318--69402427 Score: 150
Period size: 36 Copynumber: 3.1 Consensus size: 36
69402308 TAAATAAAGG
*
69402318 TACTGAATAACTGACTGCTACTGAATAACTGACTGT
1 TACTGAATAACTGACTGCTACTGAATAATTGACTGT
*
69402354 TACTGGATAACTGACTGCTACTGAATAATTGACTGT
1 TACTGAATAACTGACTGCTACTGAATAATTGACTGT
* * * *
69402390 TACTGAATAATTTA-TCGTTACTGAATAATTGATTGT
1 TACTGAATAACTGACT-GCTACTGAATAATTGACTGT
69402426 TA
1 TA
69402428 AAGAGTACTA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 1 0.02
36 65 0.98
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (36 bp):
TACTGAATAACTGACTGCTACTGAATAATTGACTGT
Found at i:69403997 original size:66 final size:66
Alignment explanation
Indices: 69403920--69404052 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
69403910 AGAGTTAAAA
69403920 TAATAAGTGAAATCTAGGTGGATTCTTTACTGGTATTGTCTCTCTCATTGGTTTTCTTAAGTATT
1 TAATAAGTGAAATCTAGGTGGATTCTTTACTGGTATTGTCTCTCTCATTGGTTTTCTTAAGTATT
69403985 T
66 T
69403986 TAATAAGTGAAATCTAGGTGGATTCTTTACTGGTATTGTCTCTCTCATTGGTTTTCTTAAGTATT
1 TAATAAGTGAAATCTAGGTGGATTCTTTACTGGTATTGTCTCTCTCATTGGTTTTCTTAAGTATT
69404051 T
66 T
69404052 T
1 T
69404053 TCCAATTCGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (66 bp):
TAATAAGTGAAATCTAGGTGGATTCTTTACTGGTATTGTCTCTCTCATTGGTTTTCTTAAGTATT
T
Found at i:69404436 original size:19 final size:18
Alignment explanation
Indices: 69404408--69404444 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
69404398 TATTTGTGTA
69404408 AAATAATATTTCAATAATT
1 AAATAATATTTCAA-AATT
*
69404427 AAATATTATTTCAAAATT
1 AAATAATATTTCAAAATT
69404445 TTATCTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATAATATTTCAAAATT
Found at i:69407475 original size:23 final size:24
Alignment explanation
Indices: 69407449--69407502 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
69407439 AATATATATT
69407449 TATTATTAAA-ATATTAATAT-AAA
1 TATTATTAAATATA-TAATATAAAA
* *
69407472 TATTCTTAAATATATAATTTAAAA
1 TATTATTAAATATATAATATAAAA
69407496 TATTATT
1 TATTATT
69407503 TGAAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTATTAAATATATAATATAAAA
Found at i:69407533 original size:22 final size:19
Alignment explanation
Indices: 69407487--69407533 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
69407477 TTAAATATAT
*
69407487 AATTTAAAATATTATTTGA
1 AATTTAAAATATTATTTAA
69407506 AATTTAAAATCATTACTATTAA
1 AATTTAAAAT-ATTA-T-TTAA
69407528 AATTTA
1 AATTTA
69407534 TTATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 4 0.17
21 1 0.04
22 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTTAAAATATTATTTAA
Found at i:69407557 original size:19 final size:18
Alignment explanation
Indices: 69407525--69407564 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
69407515 TCATTACTAT
*
69407525 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
*
69407543 TAAAATTATAATATTTAAA
1 TAAAATT-TAATATTAAAA
69407562 TAA
1 TAA
69407565 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:69407561 original size:33 final size:33
Alignment explanation
Indices: 69407524--69407631 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 33
69407514 ATCATTACTA
69407524 TTAAAATTTATTATTAAAATAAAATTATAATAT
1 TTAAAATTTATTATTAAAATAAAATTATAATAT
*
69407557 TTAAATAATTTATTA--AAAATAATTAATTATATTA-
1 TT-AA-AATTTATTATTAAAATAA--AATTATAATAT
*
69407591 TTAAATATTTATTTTTAATAATATTAAACATTATAATAT
1 TTAAA-ATTTATTATT-A-AA-A-TAAA-ATTATAATAT
69407630 TT
1 TT
69407632 TATATATTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
32 1 0.02
33 18 0.31
34 4 0.07
35 18 0.31
36 1 0.02
37 3 0.05
38 9 0.15
39 5 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (33 bp):
TTAAAATTTATTATTAAAATAAAATTATAATAT
Found at i:69407585 original size:35 final size:33
Alignment explanation
Indices: 69407528--69407603 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 33
69407518 TTACTATTAA
69407528 AATTTATTATTAAAATAAAATTATAATATTTAAAT
1 AATTTATTA-TAAAATAAAATTATAATA-TTAAAT
*
69407563 AATTTATTA-AAAATAATTAATTATATTATTAAAT
1 AATTTATTATAAAATAA--AATTATAATATTAAAT
69407597 -ATTTATT
1 AATTTATT
69407604 TTTAATAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
33 14 0.37
34 6 0.16
35 18 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
AATTTATTATAAAATAAAATTATAATATTAAAT
Found at i:69407617 original size:35 final size:34
Alignment explanation
Indices: 69407522--69407617 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 34
69407512 AAATCATTAC
* *
69407522 TATTAAA-ATTTATTATTAAAATA-AAATTATAA
1 TATTAAATATTTATTTTTAAAATATTAATTATAA
* *
69407554 TATTTAAATAATTTA--TTAAAAATAATTAATTATAT
1 TA-TTAAAT-ATTTATTTTTAAAAT-ATTAATTATAA
69407589 TATTAAATATTTATTTTTAATAATATTAA
1 TATTAAATATTTATTTTTAA-AATATTAA
69407618 ACATTATAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
32 2 0.04
33 16 0.31
34 7 0.14
35 23 0.45
36 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TATTAAATATTTATTTTTAAAATATTAATTATAA
Found at i:69407661 original size:17 final size:17
Alignment explanation
Indices: 69407641--69407680 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
69407631 TTATATATTT
69407641 AAATATTTTAAAAATAA
1 AAATATTTTAAAAATAA
69407658 AAATTATTTTAAAAATAA
1 AAA-TATTTTAAAAATAA
*
69407676 TAATA
1 AAATA
69407681 CTATATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATTTTAAAAATAA
Found at i:69412863 original size:5 final size:5
Alignment explanation
Indices: 69412853--69412894 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
69412843 GATAATATTT
* *
69412853 TTTTA TTTTA TTATT- TATTA TTTTA TTTTA TTTAA TTTTA TT
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
69412895 AATTTAGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 2 0.06
5 27 0.87
6 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:69412875 original size:15 final size:16
Alignment explanation
Indices: 69412848--69412900 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
69412838 AGGAAGATAA
*
69412848 TATTTTTTTATTTTAT
1 TATTTATTTATTTTAT
69412864 TATTTA-TTATTTTA-
1 TATTTATTTATTTTAT
69412878 T-TTTATTTAATTTTAT
1 TATTTATTT-ATTTTAT
69412894 TAATTTA
1 T-ATTTA
69412901 GGATAGACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 4 0.13
14 3 0.10
15 14 0.45
16 6 0.19
18 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTATTTATTTTAT
Found at i:69412893 original size:20 final size:20
Alignment explanation
Indices: 69412848--69412894 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
69412838 AGGAAGATAA
* *
69412848 TATTTTTTTATTTTATTATT
1 TATTATTTTATTTTATTAAT
69412868 TATTATTTTATTTTATTTAAT
1 TATTATTTTATTTTA-TTAAT
69412889 T-TTATT
1 TATTATT
69412895 AATTTAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TATTATTTTATTTTATTAAT
Found at i:69417652 original size:46 final size:46
Alignment explanation
Indices: 69417538--69417642 Score: 201
Period size: 46 Copynumber: 2.3 Consensus size: 46
69417528 AGTGTGCTCT
69417538 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
69417584 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
69417630 GTGATATGAAATG
1 CTGATATGAAATG
69417643 AACAAGACCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:69425646 original size:14 final size:14
Alignment explanation
Indices: 69425612--69425650 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
69425602 TAATATTTAC
69425612 TTTATT-ATTT-AT
1 TTTATTAATTTAAT
69425624 TTTATTTAATTTAAT
1 TTTA-TTAATTTAAT
69425639 TTTATTAATTTA
1 TTTATTAATTTA
69425651 GGATAGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.17
13 2 0.08
14 12 0.50
15 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTAATTTAAT
Found at i:69427182 original size:16 final size:16
Alignment explanation
Indices: 69427136--69427182 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
69427126 AATTTTTATA
*
69427136 TTTTAATTTAATTA-A
1 TTTTAATTTAATTACT
69427151 TTTTAATCTTAA-TACT
1 TTTTAAT-TTAATTACT
*
69427167 TTTTGATTTAATTACT
1 TTTTAATTTAATTACT
69427183 ATACTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTTAATTTAATTACT
Found at i:69427473 original size:32 final size:30
Alignment explanation
Indices: 69427420--69427495 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 30
69427410 TAATTTAATT
* *
69427420 AATTTTAATCTTAATATTTTTTTGAA-TTGA
1 AATTTTAATCTT-ATACTTTTTTAAATTTGA
*
69427450 TCAATTTTAATTCTTATGCTTTTTTAAATTTGA
1 --AATTTTAA-TCTTATACTTTTTTAAATTTGA
69427483 AATTTTAATCTTA
1 AATTTTAATCTTA
69427496 ATCTAAACCG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
30 5 0.13
31 8 0.21
32 18 0.46
33 8 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (30 bp):
AATTTTAATCTTATACTTTTTTAAATTTGA
Found at i:69430808 original size:66 final size:67
Alignment explanation
Indices: 69430709--69430833 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 67
69430699 TTAAAATATT
* * *
69430709 TTTCGCATATATATTTATAATCTAAGTTTTAGTTTCCTGATAAATTGTATATA-TATTTAAAGAT
1 TTTCACATATATATTTATAATCTAAGTTTTAGTTTCCTAATAAATTATATATATTATTTAAAGAT
69430773 TC
66 TC
*
69430775 TTTCACATATATATTTATAATCT-AGTTTGTAGTTTCTTAATAAATTATATATATTATTT
1 TTTCACATATATATTTATAATCTAAGTTT-TAGTTTCCTAATAAATTATATATATTATTT
69430834 TCGTAAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
65 5 0.09
66 43 0.81
67 5 0.09
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (67 bp):
TTTCACATATATATTTATAATCTAAGTTTTAGTTTCCTAATAAATTATATATATTATTTAAAGAT
TC
Done.