Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 54 of 135
Found at i:18970607 original size:31 final size:31
Alignment explanation
Indices: 18970572--18970651 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
18970562 ATATTATCTC
18970572 TTAATATAAACATGCTTTTCTAATAACATAA
1 TTAATATAAACATGCTTTTCTAATAACATAA
* * * * **
18970603 TTAATGTAAA-AGTGTTTTTTTTATAATGTAA
1 TTAATATAAACA-TGCTTTTCTAATAACATAA
*
18970634 TTAATATAAGCATGCTTT
1 TTAATATAAACATGCTTT
18970652 CTTATTATAT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (31 bp):
TTAATATAAACATGCTTTTCTAATAACATAA
Found at i:18974456 original size:22 final size:22
Alignment explanation
Indices: 18974431--18974472 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18974421 GTAAATTACT
*
18974431 ATCAACGTTTTTATTAAAATAA
1 ATCAACGTTTTTATCAAAATAA
*
18974453 ATCAGCGTTTTTATCAAAAT
1 ATCAACGTTTTTATCAAAAT
18974473 TCACCTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (22 bp):
ATCAACGTTTTTATCAAAATAA
Found at i:18976661 original size:14 final size:14
Alignment explanation
Indices: 18976642--18976673 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18976632 TCGAGGCGAC
18976642 CACCGTCGAGTCAA
1 CACCGTCGAGTCAA
18976656 CACCGTCGAGTCAA
1 CACCGTCGAGTCAA
18976670 CACC
1 CACC
18976674 TAAATCTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.41, G:0.19, T:0.12
Consensus pattern (14 bp):
CACCGTCGAGTCAA
Found at i:18981213 original size:3 final size:3
Alignment explanation
Indices: 18981205--18981265 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
18981195 TTTAGAAAAT
* * *
18981205 ATA ATA ATA ATA AAA ATA ATA ATA ATA ATG ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18981253 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
18981266 CAACAACAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:18981270 original size:3 final size:3
Alignment explanation
Indices: 18981264--18981289 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18981254 TAATAATAAT
18981264 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
18981290 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:18986409 original size:44 final size:43
Alignment explanation
Indices: 18986350--18986442 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 43
18986340 ATTTCGCGTG
*
18986350 AAAAAAAGGAAATCGATATGAAAACCAGCAAAGGGCA-TCCAA
1 AAAAAAAGGAAATCGAGATGAAAACCAGCAAAGGGCATTCCAA
* * *
18986392 AAAAAAAGAAGAAATCGAGATGAAAACCCGTAAAGGGCATTCCGA
1 AAAAAAAG--GAAATCGAGATGAAAACCAGCAAAGGGCATTCCAA
18986437 AAAAAA
1 AAAAAA
18986443 CACAAAGATC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 8 0.18
44 26 0.59
45 10 0.23
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.10
Consensus pattern (43 bp):
AAAAAAAGGAAATCGAGATGAAAACCAGCAAAGGGCATTCCAA
Found at i:18993764 original size:8 final size:8
Alignment explanation
Indices: 18993751--18993789 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
18993741 ATTTTAGTTC
18993751 TTTTATAA
1 TTTTATAA
18993759 TTTTATAA
1 TTTTATAA
18993767 TTTTATAA
1 TTTTATAA
18993775 TTTTATAA
1 TTTTATAA
18993783 TTTTATA
1 TTTTATA
18993790 TTTATATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:18993782 original size:24 final size:24
Alignment explanation
Indices: 18993754--18993820 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
18993744 TTAGTTCTTT
18993754 TATAATTTTATAATTTTATAATTT-
1 TATAATTTTATAATTTTAT-ATTTA
18993778 TATAATTTTAT-A-TTTATATATTA
1 TATAATTTTATAATTTTATAT-TTA
*
18993801 TAT-ATTGTA-AATTTTTATAT
1 TATAATTTTATAA-TTTTATAT
18993821 ATTTTTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
21 2 0.05
22 13 0.35
23 4 0.11
24 18 0.49
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (24 bp):
TATAATTTTATAATTTTATATTTA
Found at i:18993797 original size:8 final size:8
Alignment explanation
Indices: 18993752--18993824 Score: 50
Period size: 8 Copynumber: 9.4 Consensus size: 8
18993742 TTTTAGTTCT
18993752 TTTATA-A
1 TTTATATA
18993759 TTT-TATAA
1 TTTATAT-A
18993767 TTT-TATAA
1 TTTATAT-A
18993775 TTT-TATAA
1 TTTATAT-A
18993783 TTT-TATA
1 TTTATATA
18993790 TTTATATA
1 TTTATATA
18993798 -TTATATA
1 TTTATATA
* *
18993805 TTGTAAATT
1 TT-TATATA
18993814 TTTATATA
1 TTTATATA
18993822 TTT
1 TTT
18993825 TTAAAAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
6 2 0.04
7 14 0.25
8 35 0.61
9 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (8 bp):
TTTATATA
Found at i:18994137 original size:110 final size:110
Alignment explanation
Indices: 18993929--18994143 Score: 268
Period size: 110 Copynumber: 2.0 Consensus size: 110
18993919 AAAATCAAGA
* * * * *
18993929 TAATGTTCTTTTATTTTAGGGAATTCGAGAAGTTGTGCCCTAACGTGTTGGATACGGTTTTTCTT
1 TAATATTCTTTTATTTTAGGGAATTCGAAAAATTGTGCCCTAACGTATTGGATACGATTTTTCTT
* ** ** *
18993994 TTAATTTAAATAATTGAGTATCCAATTTAAAAATTGATAAATATT
66 TGAACCTAAATAATTGAACATCCAATTTAAAAATCGATAAATATT
* * * *
18994039 TAATATTCTTTTATTTTAGGGAATTCGAAAAATTGTGCGCTAATGTATTGGGTATGATTTTTCTT
1 TAATATTCTTTTATTTTAGGGAATTCGAAAAATTGTGCCCTAACGTATTGGATACGATTTTTCTT
* * *
18994104 TGAACCTAAGTAATTGAACATCCTATTTTAAAATCGATAA
66 TGAACCTAAATAATTGAACATCCAATTTAAAAATCGATAA
18994144 GTGTTCTTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
110 87 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (110 bp):
TAATATTCTTTTATTTTAGGGAATTCGAAAAATTGTGCCCTAACGTATTGGATACGATTTTTCTT
TGAACCTAAATAATTGAACATCCAATTTAAAAATCGATAAATATT
Found at i:18996294 original size:11 final size:11
Alignment explanation
Indices: 18996263--18996299 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
18996253 TCCACCTTTC
*
18996263 TTTTTCTTTAG
1 TTTTTCTTTTG
18996274 TTTTTCTTTTG
1 TTTTTCTTTTG
*
18996285 TTTTTCTTTTA
1 TTTTTCTTTTG
18996296 TTTT
1 TTTT
18996300 CTTAAGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTTG
Found at i:18996831 original size:14 final size:14
Alignment explanation
Indices: 18996787--18996834 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
18996777 CCCATTAAGC
* *
18996787 CCAAACCAAAGTGAG
1 CCAAACC-AATTGAA
*
18996802 CCAAACCCATTTGAA
1 CCAAA-CCAATTGAA
18996817 CCAAACCAATTGAA
1 CCAAACCAATTGAA
18996831 CCAA
1 CCAA
18996835 GTCCAACCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 12 0.43
15 14 0.50
16 2 0.07
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.12
Consensus pattern (14 bp):
CCAAACCAATTGAA
Found at i:18996892 original size:20 final size:20
Alignment explanation
Indices: 18996867--18996915 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
18996857 TTGTTGACCA
18996867 ACCGTTGACTTTGACCGTTG
1 ACCGTTGACTTTGACCGTTG
**
18996887 ACCGTTGACTTTGATTGTTG
1 ACCGTTGACTTTGACCGTTG
18996907 ACCGTTGAC
1 ACCGTTGAC
18996916 CGTTGATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
ACCGTTGACTTTGACCGTTG
Found at i:18996928 original size:7 final size:7
Alignment explanation
Indices: 18996867--18996921 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 7
18996857 TTGTTGACCA
18996867 ACCGTTG
1 ACCGTTG
*
18996874 A-CTTTG
1 ACCGTTG
18996880 ACCGTTG
1 ACCGTTG
18996887 ACCGTTG
1 ACCGTTG
*
18996894 A-CTTTG
1 ACCGTTG
**
18996900 ATTGTTG
1 ACCGTTG
18996907 ACCGTTG
1 ACCGTTG
18996914 ACCGTTG
1 ACCGTTG
18996921 A
1 A
18996922 TTGTTGACAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 10 0.26
7 29 0.74
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.36
Consensus pattern (7 bp):
ACCGTTG
Found at i:18998000 original size:3 final size:3
Alignment explanation
Indices: 18997992--18998023 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18997982 AATATTCTAT
*
18997992 TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18998024 TTAGATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:19000403 original size:7 final size:7
Alignment explanation
Indices: 19000388--19000456 Score: 85
Period size: 7 Copynumber: 10.6 Consensus size: 7
19000378 GTGTTTCACC
19000388 AAAAA-A
1 AAAAAGA
19000394 AAAAAG-
1 AAAAAGA
19000400 -AAAAGA
1 AAAAAGA
*
19000406 AAAGA-A
1 AAAAAGA
19000412 AAAAAG-
1 AAAAAGA
19000418 AAAAAGA
1 AAAAAGA
19000425 AAAAAGA
1 AAAAAGA
19000432 AAAAAGA
1 AAAAAGA
19000439 AAAAAGA
1 AAAAAGA
*
19000446 AGAAAGA
1 AAAAAGA
19000453 AAAA
1 AAAA
19000457 GGAGAGGTCG
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.09
6 16 0.30
7 33 0.61
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:19001592 original size:42 final size:42
Alignment explanation
Indices: 19001543--19001947 Score: 429
Period size: 42 Copynumber: 9.9 Consensus size: 42
19001533 GTAAAACTAC
* * * *
19001543 CATCCAATCTCTTAACCGGATCATGGGGCAGATTGACGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* * *
19001585 CATCCAATCTCTTACCCTGACCATAGGGTAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
*
19001627 CATCCAATCTCTTACCCCGACCATGGGGCAGATT-AA-A-GT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* ** * *
19001666 CATCCAAGCTCTTACCCCGATTATAGGACAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* * *
19001708 CATCCAATCTCTTACCCTGACCATGAGGTAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* * * * * *
19001747 CATCCAATCTTTTACTCCGATCATGGGGCGGATTAAAGAAAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* *
19001789 CATCCAATATCTTACCCCAACCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* * * *
19001828 CATCCAATCTCTTAGCCCGATCATGGGGCAGATTAAAGATAT
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
19001870 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
* ** **
19001909 CATCCAATCTCTTACGCCGATTATGGGAAAGATTGAAGA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGA
19001948 TCATGGGGCA
Statistics
Matches: 297, Mismatches: 56, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
39 126 0.42
40 3 0.01
41 4 0.01
42 164 0.55
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGACAT
Found at i:19001699 original size:81 final size:81
Alignment explanation
Indices: 19001543--19001947 Score: 504
Period size: 81 Copynumber: 5.0 Consensus size: 81
19001533 GTAAAACTAC
* * * * * *
19001543 CATCCAATCTCTTAACCGGATCATGGGGCAGATTGACGACATCATCCAATCTCTTACCCTGACCA
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCCGATCA
* *
19001608 TAGGGTAGATTGAAGACAT
63 TGGGGCAGATTGAAGACAT
* * * * *
19001627 CATCCAATCTCTTACCCCGACCATGGGGCAGATTAAAGTCATCCAAGCTCTTACCCCGATTATAG
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGG
*
19001692 GACAGATTGAAGACAT
66 GGCAGATTGAAGACAT
* * * * *
19001708 CATCCAATCTCTTACCCTGACCATGAGGTAGATTGAAGCCATCCAATCTTTTACTCCGATCATGG
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGG
* * *
19001773 GGCGGATTAAAGAAAT
66 GGCAGATTGAAGACAT
* * *
19001789 CATCCAATATCTTACCCCAACCATGGGGCAGATTGAAGCCATCCAATCTCTTAGCCCGATCATGG
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGG
* *
19001854 GGCAGATTAAAGATAT
66 GGCAGATTGAAGACAT
* *
19001870 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACGCCGATTATGG
1 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGG
**
19001935 GAAAGATTGAAGA
66 GGCAGATTGAAGA
19001948 TCATGGGGCA
Statistics
Matches: 277, Mismatches: 44, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
81 244 0.88
84 33 0.12
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (81 bp):
CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGG
GGCAGATTGAAGACAT
Found at i:19002016 original size:39 final size:42
Alignment explanation
Indices: 19001966--19002391 Score: 379
Period size: 39 Copynumber: 10.5 Consensus size: 42
19001956 CAAATTAAAA
*
19001966 ACATCACCCAATCTCTTACCCCGACCATTGGGCAGATTGAA-
1 ACATCATCCAATCTCTTACCCCGACCATTGGGCAGATTGAAG
* * *
19002007 AC-T-ATCCAATCTCTTACCCCGATCA-TGGGATAGATTGAAT
1 ACATCATCCAATCTCTTACCCCGACCATTGGG-CAGATTGAAG
* *
19002047 ACATCATCCAATCTCTTACCCCCAATCA-TGAGGCAGATTGAAG
1 ACATCATCCAATCTCTTA-CCCCGACCATTG-GGCAGATTGAAG
* * *
19002090 ACATCATTCAATCTCTTACCTCAACCA-TGAGGCAGATTGAAG
1 ACATCATCCAATCTCTTACCCCGACCATTG-GGCAGATTGAAG
* * * *
19002132 -C--CATCCAATATCTTACCCCGATCATGGGGCAGATTAAAG
1 ACATCATCCAATCTCTTACCCCGACCATTGGGCAGATTGAAG
* * * *
19002171 ACATCATCCAATCTCTTACCTCGACCATAGGGTAGATTGACG
1 ACATCATCCAATCTCTTACCCCGACCATTGGGCAGATTGAAG
* * * *
19002213 -C--CATCTAATCTCTTACCCCGATCATGGGGCAGATTAAAG
1 ACATCATCCAATCTCTTACCCCGACCATTGGGCAGATTGAAG
* **
19002252 ACATCATCAAATCTCTTACCCCGACCATAAGGCAGATTGAAG
1 ACATCATCCAATCTCTTACCCCGACCATTGGGCAGATTGAAG
* * * *
19002294 -C--CATCCAATCTCTTACCTCAATCA-TGAGGCAGATTAAAG
1 ACATCATCCAATCTCTTACCCCGACCATTG-GGCAGATTGAAG
* * * *
19002333 ACATCATCCAATCACTTA-CTCGACCATGGGGCAAATTGAAG
1 ACATCATCCAATCTCTTACCCCGACCATTGGGCAGATTGAAG
19002374 -C--CATCCAATCTCTTACCC
1 ACATCATCCAATCTCTTACCC
19002392 TAACCAGAGG
Statistics
Matches: 316, Mismatches: 50, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
38 17 0.05
39 119 0.38
40 8 0.03
41 22 0.07
42 113 0.36
43 35 0.11
44 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (42 bp):
ACATCATCCAATCTCTTACCCCGACCATTGGGCAGATTGAAG
Found at i:19002019 original size:100 final size:100
Alignment explanation
Indices: 19001846--19002045 Score: 310
Period size: 100 Copynumber: 2.0 Consensus size: 100
19001836 CTCTTAGCCC
* * * * *
19001846 GATCATGGGGCAGATTAAAGATATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCA
1 GATCATGGGGCAAATTAAAAACATCACCCAATCTCTTACCCCGACCATGGGGCAGATTGAAACCA
* *
19001911 TCCAATCTCTTACGCCGATTATGGGAAAGATTGAA
66 TCCAATCTCTTACCCCGATCATGGGAAAGATTGAA
* *
19001946 GATCATGGGGCAAATTAAAAACATCACCCAATCTCTTACCCCGACCATTGGGCAGATTGAAACTA
1 GATCATGGGGCAAATTAAAAACATCACCCAATCTCTTACCCCGACCATGGGGCAGATTGAAACCA
*
19002011 TCCAATCTCTTACCCCGATCATGGGATAGATTGAA
66 TCCAATCTCTTACCCCGATCATGGGAAAGATTGAA
19002046 TACATCATCC
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (100 bp):
GATCATGGGGCAAATTAAAAACATCACCCAATCTCTTACCCCGACCATGGGGCAGATTGAAACCA
TCCAATCTCTTACCCCGATCATGGGAAAGATTGAA
Found at i:19002173 original size:81 final size:81
Alignment explanation
Indices: 19001973--19002391 Score: 517
Period size: 81 Copynumber: 5.2 Consensus size: 81
19001963 AAAACATCAC
* * * * *
19001973 CCAATCTCTTACCCCGACCATTGGGCAGATTGAA-AC-T-ATCCAATCTCTTACCCCGATCATG-
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCTCGACCATGA
* *
19002034 GGATAGATTGAATACATCAT
66 GG-CAGATTGAA-GC--CAT
* * * * *
19002054 CCAATCTCTTACCCCCAATCATGAGGCAGATTGAAGACATCATTCAATCTCTTACCTCAACCATG
1 CCAATCTCTTA-CCCCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCTCGACCATG
19002119 AGGCAGATTGAAGCCAT
65 AGGCAGATTGAAGCCAT
*
19002136 CCAATATCTTACCCCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCTCGACCAT-A
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCTCGACCATGA
* *
19002200 GGGTAGATTGACGCCAT
66 -GGCAGATTGAAGCCAT
* * * *
19002217 CTAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCATCAAATCTCTTACCCCGACCATAA
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCTCGACCATGA
19002282 GGCAGATTGAAGCCAT
66 GGCAGATTGAAGCCAT
* * * * *
19002298 CCAATCTCTTACCTCAATCATGAGGCAGATTAAAGACATCATCCAATCACTTA-CTCGACCATGG
1 CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCTCGACCATGA
*
19002362 GGCAAATTGAAGCCAT
66 GGCAGATTGAAGCCAT
19002378 CCAATCTCTTACCC
1 CCAATCTCTTACCC
19002392 TAACCAGAGG
Statistics
Matches: 296, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
80 37 0.12
81 192 0.65
82 33 0.11
83 2 0.01
84 2 0.01
85 28 0.09
86 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (81 bp):
CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCTCGACCATGA
GGCAGATTGAAGCCAT
Found at i:19002490 original size:45 final size:45
Alignment explanation
Indices: 19002374--19002782 Score: 482
Period size: 45 Copynumber: 9.1 Consensus size: 45
19002364 CAAATTGAAG
* * * * *
19002374 CCATCCAATCTCTTA-CCCTAA-CCAGA-GGACAGACTGAATCCA
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA
* * *
19002416 CCATCCAATCTTCTACCCCTAAGTCAAGAGGGACAGATTGAAGCTA
1 CCATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCCA
*
19002462 CCATCCAATCTTTTACCCCTAATCAAGAGGGTCAGATTGAAGCCA
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA
* ** *
19002507 CTATCCAATCTTTTACCTTTAATCAAAAGGGGCAGATTGAAGCCA
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA
* * * *
19002552 CCATCCAGTCTTTTACCCCTAATCAACAAGGGCAGATTAAAGCCA
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA
*
19002597 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCTA
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA
* * * * *
19002642 CCATCCAATATTTTAACCCTAGTCAAGAGGGGTAGATTAAAGCCA
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA
* * *
19002687 CTATCCAATCTTTTACCTCTAAGTCAAAAGGGGCAGATTGAAGCCA
1 CCATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCCA
* * * * * *
19002733 CCGTTCAATCTTTTACCCTTAAATCAAGAGGGGTAGATTAAAGCTA
1 CCATCCAATCTTTTACCCCT-AATCAAGAGGGGCAGATTGAAGCCA
19002779 CCAT
1 CCAT
19002783 ATCACAGAAG
Statistics
Matches: 311, Mismatches: 50, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
42 13 0.04
43 6 0.02
45 199 0.64
46 91 0.29
47 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (45 bp):
CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCA
Found at i:19005291 original size:110 final size:110
Alignment explanation
Indices: 19005172--19005382 Score: 341
Period size: 110 Copynumber: 1.9 Consensus size: 110
19005162 AAATCAAGGC
* * * *
19005172 AATGTTCTTTTATTTTAGGGAATTCGAGAAATTGTGCCCTAATGCGTTGGGTATGGTTTTTCTTT
1 AATGCTCTTTTATTTTAGGGAACTCGAGAAATTGTGCCCTAATGCATTGGGTATGATTTTTCTTT
*
19005237 GAACCTAAATAATTGAATATCCTATTTAAAAATCGACAAATATTT
66 GAACCTAAATAATTGAACATCCTATTTAAAAATCGACAAATATTT
* * *
19005282 AATGCTCTTTTATTTTAGGGAACTCGAGAAATTGTGTCCTAGTGTATTGGGTATGATTTTTCTTT
1 AATGCTCTTTTATTTTAGGGAACTCGAGAAATTGTGCCCTAATGCATTGGGTATGATTTTTCTTT
*
19005347 GAACCTAAATAATTGAACATCCTATTTTAAAATCGA
66 GAACCTAAATAATTGAACATCCTATTTAAAAATCGA
19005383 TAACTGTTCT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 92 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (110 bp):
AATGCTCTTTTATTTTAGGGAACTCGAGAAATTGTGCCCTAATGCATTGGGTATGATTTTTCTTT
GAACCTAAATAATTGAACATCCTATTTAAAAATCGACAAATATTT
Found at i:19018063 original size:52 final size:52
Alignment explanation
Indices: 19017961--19018315 Score: 458
Period size: 52 Copynumber: 6.6 Consensus size: 52
19017951 TAAATACAAA
* *
19017961 AGGTCCGATGACTATGTGTCATTGTGAATTATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTG-AGTATATGAATCTTTTACGGATTATG
* *
19018014 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCTTTTACGGATTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* * * *
19018066 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGAATGATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
** * *
19018118 AGGTTTGATGACTATGTGTCATCGTGAGTATTAAATGAGAAATGAATCCTATTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAG---T--AT-----ATGAAT-CTTTTACGGATTATG
19018181 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* **
19018233 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
*
19018285 AGGTCTGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
19018316 TAAATGACAA
Statistics
Matches: 267, Mismatches: 24, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
52 188 0.70
53 30 0.11
55 1 0.00
57 2 0.01
58 2 0.01
60 1 0.00
62 6 0.02
63 37 0.14
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
Found at i:19018195 original size:115 final size:114
Alignment explanation
Indices: 19018045--19018263 Score: 348
Period size: 115 Copynumber: 1.9 Consensus size: 114
19018035 TCATGAGTAT
* *
19018045 ATGAATCTTTTACGGATTACGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTAT
1 ATGAATCTATTACGGATTACGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTAC
**
19018110 GAATGATGAGGTTTGATGACTATGTGTCATCGTGAGTATTAAATGAGAA
66 GAATGATGAGGTCCGATGACTATGTGTCATCGTGAGTATTAAATGAGAA
* * *
19018159 ATGAATCCTATTATGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTA
1 ATGAAT-CTATTACGGATTACGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTA
* *
19018224 CGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTAT
65 CGAATGATGAGGTCCGATGACTATGTGTCATCGTGAGTAT
19018264 ATGAATCCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 6 0.06
115 89 0.94
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (114 bp):
ATGAATCTATTACGGATTACGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTAC
GAATGATGAGGTCCGATGACTATGTGTCATCGTGAGTATTAAATGAGAA
Found at i:19018288 original size:167 final size:167
Alignment explanation
Indices: 19017993--19018377 Score: 666
Period size: 167 Copynumber: 2.3 Consensus size: 167
19017983 TGTGAATTAT
* * *
19017993 ATGAAT-CTTTTACGGATTATGAGGTCCGATGACTATGTGTCATCATGAGTATATGAATCTTTTA
1 ATGAATCCTATTATGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTA
**
19018057 CGGATTACGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGAATGATGAGGT
66 CGGATTACGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAAATGATGAGGT
* *
19018122 TTGATGACTATGTGTCATCGTGAGTATTAAATGAGAA
131 CTGATGACTATGTGTCATCGTGAGTATTAAATGACAA
19018159 ATGAATCCTATTATGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTA
1 ATGAATCCTATTATGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTA
* *
19018224 CGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAAATTATGAGGT
66 CGGATTACGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAAATGATGAGGT
19018289 CTGATGACTATGTGTCATCGTGAGTATTAAATGACAA
131 CTGATGACTATGTGTCATCGTGAGTATTAAATGACAA
*
19018326 ATGAATCCTATTATGGATTAT-AGGTCCGATGACTTTGTGTCATCGTGAGTAT
1 ATGAATCCTATTATGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTAT
19018378 CAAATGTGAA
Statistics
Matches: 208, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
166 36 0.17
167 172 0.83
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (167 bp):
ATGAATCCTATTATGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTA
CGGATTACGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAAATGATGAGGT
CTGATGACTATGTGTCATCGTGAGTATTAAATGACAA
Found at i:19019082 original size:21 final size:21
Alignment explanation
Indices: 19019049--19019102 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
19019039 GGAGTTTTTA
*
19019049 GTATCGATAGAAG-CACGACTT
1 GTATCGGTAGAAGACAC-ACTT
* *
19019070 GTTTCGGTAGAAGAGACACTT
1 GTATCGGTAGAAGACACACTT
19019091 GTATCGGTAGAA
1 GTATCGGTAGAA
19019103 ATATGCACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (21 bp):
GTATCGGTAGAAGACACACTT
Found at i:19020236 original size:37 final size:36
Alignment explanation
Indices: 19020161--19020405 Score: 267
Period size: 37 Copynumber: 6.7 Consensus size: 36
19020151 TTGCATCTAA
* * *
19020161 GTATTCGGGCTTTGTGTCTAGC-AGGTTCGTGTCGGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTC-GT
* ** *
19020197 GTATTCGGGCTATGTACCTAATAGGCTTCGTGTCAGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTC-GT
*
19020234 GTATTTGGGCTATGTGCCTAGCAAGCTTCGTGTCGAT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTCG-T
* *
19020271 GTATTCGAGCTATGTGCCTAGCAAGCTTCGTGCTGGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTG-TCGT
* *
19020308 GTATTCAGGCTATGTGCCTAGCAAGCTTTGTGTCGAT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTCG-T
* * **
19020345 GTATTCGGGATATGTGCCTAGCAGGCTTCGTGCTAAT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTG-TCGT
* *
19020382 GTAATCGGGCTATATGCCTAGCAA
1 GTATTCGGGCTATGTGCCTAGCAA
19020406 ACTTTTGTGC
Statistics
Matches: 174, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
36 20 0.11
37 151 0.87
38 3 0.02
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (36 bp):
GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTCGT
Found at i:19020283 original size:74 final size:74
Alignment explanation
Indices: 19020161--19020405 Score: 314
Period size: 74 Copynumber: 3.3 Consensus size: 74
19020151 TTGCATCTAA
* * * * * **
19020161 GTATTCGGGCTTTGTGTCTAGC-AGGTTCGTGTCGGTGTATTCGGGCTATGTACCTAATAGGCTT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTCGATGTATTCGGGCTATGTGCCTAGCAGGCTT
19020225 CGTG-TCAGT
66 CGTGCT-AGT
* * *
19020234 GTATTTGGGCTATGTGCCTAGCAAGCTTCGTGTCGATGTATTCGAGCTATGTGCCTAGCAAGCTT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTCGATGTATTCGGGCTATGTGCCTAGCAGGCTT
*
19020299 CGTGCTGGT
66 CGTGCTAGT
* * *
19020308 GTATTCAGGCTATGTGCCTAGCAAGCTTTGTGTCGATGTATTCGGGATATGTGCCTAGCAGGCTT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTCGATGTATTCGGGCTATGTGCCTAGCAGGCTT
*
19020373 CGTGCTAAT
66 CGTGCTAGT
* *
19020382 GTAATCGGGCTATATGCCTAGCAA
1 GTATTCGGGCTATGTGCCTAGCAA
19020406 ACTTTTGTGC
Statistics
Matches: 148, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
73 19 0.13
74 128 0.86
75 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (74 bp):
GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGTCGATGTATTCGGGCTATGTGCCTAGCAGGCTT
CGTGCTAGT
Found at i:19028723 original size:153 final size:153
Alignment explanation
Indices: 19028528--19028806 Score: 450
Period size: 153 Copynumber: 1.8 Consensus size: 153
19028518 TTGAAAGCTC
* * *
19028528 TTGAAAAGGGTATCCGATTGGCATGAATCACGAAAATCACACTTAACACGTTAAAGCGCGATTTT
1 TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACTTAACACGTTAAAGCGCGATCTT
* * *
19028593 TCGAAGTTTTCACACGAAAGGACATTGCCTCGTTTTAAAATTATTTGTGATGTAGATATATAAAA
66 TCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATATAAAA
19028658 ATTGAAGGATGTTTCGGGAACTT
131 ATTGAAGGATGTTTCGGGAACTT
* * * *
19028681 TTGAAGAGGATATTCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGTGCGATCTT
1 TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACTTAACACGTTAAAGCGCGATCTT
* *
19028746 TCGAAGTTTTCACACGACAGGACATTGTCTCGCTTTAAAATTATTTGTAATATAGATATAT
66 TCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATAT
19028807 GTTTTGAGAA
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
153 114 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (153 bp):
TTGAAAAGGATATCCGATTCGCATGAATCACGAAAATCACACTTAACACGTTAAAGCGCGATCTT
TCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATATATAAAA
ATTGAAGGATGTTTCGGGAACTT
Found at i:19029393 original size:50 final size:49
Alignment explanation
Indices: 19029317--19029419 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 49
19029307 AATTTTTGAC
*
19029317 TTTTGGGGTAAAAATGTAATTTTTGGTG-AAATCGGGGTTAAAAATGAAA
1 TTTTGGGGTAAAAATGTAATTTTTGGTGAAAAT-GGGGTCAAAAATGAAA
*
19029366 TTTTGAGGG-AAAAATGGTAATTTTTGGTGAAAATGGGGTCAAAAATGAGA
1 TTTTG-GGGTAAAAAT-GTAATTTTTGGTGAAAATGGGGTCAAAAATGAAA
19029416 TTTT
1 TTTT
19029420 TGAAAGTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
49 11 0.22
50 34 0.69
51 4 0.08
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (49 bp):
TTTTGGGGTAAAAATGTAATTTTTGGTGAAAATGGGGTCAAAAATGAAA
Found at i:19029563 original size:59 final size:59
Alignment explanation
Indices: 19029376--19029806 Score: 457
Period size: 59 Copynumber: 7.3 Consensus size: 59
19029366 TTTTGAGGGA
* *
19029376 AAAATGGTAATTTTTGGTGAAAAT-G-GGGTCAAAAATGAGATTTTTGAAAGTTC-GGGGT
1 AAAATGGTAATTTTTGGTG-AAATCGAGGGT-AAAAATGGGATTTTGGAAAGTTCAGGGGT
* * * * *
19029434 AAAATGCTAATTTTTGGTGAAATC-ATGGTCAAAAATTAGGATTTTGGAAGGTAT-GGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGGT-AAAAA-TGGGATTTTGGAAAGT-TCAGGGGT
*
19029494 AAAATAGTAATTTTTGGTGAAA-CTGAGGGTAAAAATGGGATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATC-GAGGGTAAAAATGGGATTTTGGAAAGTTCAGGGGT
* * * *
19029553 AAAATGGTAATTTTTGGGTGAAATTCG-GGTTAAAAATGGAATTTTGGAAGGTTCAGAGGT
1 AAAATGGTAATTTTT-GGTGAAA-TCGAGGGTAAAAATGGGATTTTGGAAAGTTCAGGGGT
**
19029613 AAAATGGTAA-TTTTGGATGAAATCG-GGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGG-TGAAATCGAGGG-TAAAAATGGGATTTTGGAAAGTTCAGGGGT
* * * * * * **
19029672 AAAATGGTAATTTTAGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAAATTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGGTAAAAATGGGATTTTGGAAAGTTCAGGGGT
* * * * * *
19029731 AGATTGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGGTAAAAATGGGATTTTGGAAAGTTCAGGGGT
19029790 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
19029807 AAGTTTTGGG
Statistics
Matches: 319, Mismatches: 39, Indels: 29
0.82 0.10 0.07
Matches are distributed among these distances:
57 4 0.01
58 35 0.11
59 190 0.60
60 84 0.26
61 5 0.02
62 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGGTAAAAATGGGATTTTGGAAAGTTCAGGGGT
Found at i:19029598 original size:30 final size:31
Alignment explanation
Indices: 19029553--19029776 Score: 108
Period size: 30 Copynumber: 7.5 Consensus size: 31
19029543 GTTCAGGGGT
19029553 AAAATGGTAATTTTTGGGTGAAATTCGGGTTA
1 AAAATGGTAA-TTTTGGGTGAAATTCGGGTTA
*
19029585 AAAATGG-AATTTT--G-GAAGGTTCAGAGG-T-
1 AAAATGGTAATTTTGGGTGAA-ATTC-G-GGTTA
*
19029613 AAAATGGTAATTTTGGATGAAA-TCGGGGTTA
1 AAAATGGTAATTTTGGGTGAAATTC-GGGTTA
* * *
19029644 AAAATGG-GATTTT--G-GAAAGTTTGGGGGT-
1 AAAATGGTAATTTTGGGTGAAA--TTCGGGTTA
* *
19029672 AAAATGGTAATTTTAGGTGAAA-TCAAGGTTA
1 AAAATGGTAATTTTGGGTGAAATTC-GGGTTA
* * * *
19029703 AAAATAG-AATTTT-GG-AAAATTTGGGGGT-
1 AAAATGGTAATTTTGGGTGAAA-TTCGGGTTA
* *
19029731 AGATTGGTAATTTTGGGTGAAA-TCGAGGTTA
1 AAAATGGTAATTTTGGGTGAAATTCG-GGTTA
19029762 AAAATGG-AATTTTGG
1 AAAATGGTAATTTTGG
19029777 AAAGTTTAGG
Statistics
Matches: 142, Mismatches: 25, Indels: 52
0.65 0.11 0.24
Matches are distributed among these distances:
27 7 0.05
28 25 0.18
29 33 0.23
30 39 0.27
31 24 0.17
32 14 0.10
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (31 bp):
AAAATGGTAATTTTGGGTGAAATTCGGGTTA
Found at i:19029753 original size:118 final size:118
Alignment explanation
Indices: 19029367--19029803 Score: 515
Period size: 118 Copynumber: 3.7 Consensus size: 118
19029357 AAAATGAAAT
* * * * * * *
19029367 TTTGAGGGAAAAATGGTAATTTTTGGTGAAAAT-GGGGTCAAAAATGAGATTTTTGAAAG-TTCG
1 TTTGGGGGTAAAATGGTAATTTTGGGTG-AAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG
* * * * *
19029430 GGGTAAAATGCTAATTTTTGGTGAAATCATGGTCAAAAATTAGGATTTTGGAAGG
65 GGGTAAAATGGTAATTTTAGGTGAAATCAAGGTTAAAAA-TAGAATTTTGGAAGG
* * * *
19029485 TATGGGGGTAAAATAGTAATTTTTGGTGAAA-CTGAGGG-TAAAAATGGGATTTTGGAAAGTTCA
1 TTTGGGGGTAAAATGGTAATTTTGGGTGAAATC-G-GGGTTAAAAATGGGATTTTGGAAAGTTTA
* * *
19029548 GGGGTAAAATGGTAATTTTTGGGTGAAATTC-GGGTTAAAAATGGAATTTTGGAAGG
64 GGGGTAAAATGGTAA-TTTTAGGTGAAA-TCAAGGTTAAAAATAGAATTTTGGAAGG
** * * *
19029604 TTCAGAGGTAAAATGGTAATTTTGGATGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTGGG
1 TTTGGGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGG
**
19029669 GGTAAAATGGTAATTTTAGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAAA
66 GGTAAAATGGTAATTTTAGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAGG
* * * *
19029722 TTTGGGGGTAGATTGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGG
1 TTTGGGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGG
19029787 GGTAAAATGGTAATTTT
66 GGTAAAATGGTAATTTT
19029804 TGGAAGTTTT
Statistics
Matches: 272, Mismatches: 38, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
117 5 0.02
118 151 0.56
119 94 0.35
120 20 0.07
121 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (118 bp):
TTTGGGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGG
GGTAAAATGGTAATTTTAGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAGG
Found at i:19031741 original size:17 final size:17
Alignment explanation
Indices: 19031721--19031771 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
19031711 GTTTCAAATT
**
19031721 ATTTTAAATGTATTTAA
1 ATTTTAAATAAATTTAA
*
19031738 ATTTAAAATAAATTTAA
1 ATTTTAAATAAATTTAA
*
19031755 A-TTTAAATAAACTTAA
1 ATTTTAAATAAATTTAA
19031771 A
1 A
19031772 ATTAATTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTTTAAATAAATTTAA
Found at i:19031746 original size:27 final size:27
Alignment explanation
Indices: 19031706--19031778 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
19031696 TTAATTTAAT
* * *
19031706 TTTAAGTTTCAAATTATTTTAAATGTA
1 TTTAAATTTAAAATTAATTTAAATGTA
* *
19031733 TTTAAATTTAAAATAAATTTAAATTTA
1 TTTAAATTTAAAATTAATTTAAATGTA
** *
19031760 AATAAACTTAAAATTAATT
1 TTTAAATTTAAAATTAATT
19031779 CAAACTTAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (27 bp):
TTTAAATTTAAAATTAATTTAAATGTA
Found at i:19031773 original size:17 final size:17
Alignment explanation
Indices: 19031736--19031787 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
19031726 AAATGTATTT
*
19031736 AAATTTAAAATAAA-TTT
1 AAATTT-AAATAAACTTA
19031753 AAATTTAAATAAACTTA
1 AAATTTAAATAAACTTA
*
19031770 AAA-TTAATTCAAACTTA
1 AAATTTAAAT-AAACTTA
19031787 A
1 A
19031788 TTTAAAATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTTAAATAAACTTA
Found at i:19031792 original size:16 final size:16
Alignment explanation
Indices: 19031734--19031793 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
19031724 TTAAATGTAT
*
19031734 TTAAATTTAAAATAAAT
1 TTAAATTT-AAATAAAC
19031751 TTAAATTTAAATAAAC
1 TTAAATTTAAATAAAC
* *
19031767 TTAAAATTAATTCAAAC
1 TTAAATTTAAAT-AAAC
19031784 TT-AATTTAAA
1 TTAAATTTAAA
19031794 ATCCAAGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
16 23 0.62
17 14 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAATTTAAATAAAC
Found at i:19032223 original size:45 final size:45
Alignment explanation
Indices: 19032157--19032667 Score: 538
Period size: 45 Copynumber: 11.2 Consensus size: 45
19032147 TACTACAAAG
* *
19032157 ATATTTATCATATCATGCATATCGTATAGCATAATTAATCAAATA
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
* * * *
19032202 ATATTTATCATATTATACATATCGTATAGCATAATTAATCAAATA
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
* * *
19032247 ATATTTACCATATCGTGCATATTGTATAGCACAATCAATCAAGTAATATTTA
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATC----AA-A--TA
* * *
19032299 CCATATTTACCATATCATGCATACCGTATAGCTTGATCAATCAAATA
1 --ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
* * * *
19032346 CTATTTACCATATCATGCATACCGTATAGCTTGATCAATCAAATA
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
* * * * * *
19032391 CTATTTACCATATCATGCACATCATTTAGTATAATCAATCAAGTA
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
* * * *
19032436 ATATTTATCATATCATGCATATCGTATAGCTTGATCAATCAAATC
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
* * * *
19032481 CTATTTACCATATCATGCCTATCGTATAGCTTGATCAATCAAATA
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
* * * * *
19032526 CTATTTACCATATCATGCCTATCGTATAACTTGATCAATCAAATA
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
** *
19032571 ATATTTATTATATCATGCATATCGTATAGTGA-AATCAATCAAATA
1 ATATTTACCATATCATGCATATCGTATAG-CATAATCAATCAAATA
* * * *
19032616 ATATTTACCATATCATGCGTATCCTATAGCATAATTAATCAATTA
1 ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
*
19032661 GTATTTA
1 ATATTTA
19032668 GAAAAATCAA
Statistics
Matches: 400, Mismatches: 55, Indels: 22
0.84 0.12 0.05
Matches are distributed among these distances:
44 1 0.00
45 355 0.89
47 2 0.00
49 3 0.01
50 3 0.01
52 2 0.00
54 34 0.09
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.37
Consensus pattern (45 bp):
ATATTTACCATATCATGCATATCGTATAGCATAATCAATCAAATA
Found at i:19032337 original size:22 final size:22
Alignment explanation
Indices: 19032312--19032382 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
19032302 TATTTACCAT
19032312 ATCATGCATACCGTATAGCTTG
1 ATCATGCATACCGTATAGCTTG
** * * *
19032334 ATCAAT-CAAATACTATTTACCAT-
1 ATC-ATGC--ATACCGTATAGCTTG
19032357 ATCATGCATACCGTATAGCTTG
1 ATCATGCATACCGTATAGCTTG
19032379 ATCA
1 ATCA
19032383 ATCAAATACT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
21 9 0.26
22 10 0.29
23 6 0.18
24 9 0.26
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCATGCATACCGTATAGCTTG
Found at i:19032341 original size:26 final size:26
Alignment explanation
Indices: 19032312--19032386 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
19032302 TATTTACCAT
19032312 ATCATGCATACCGTATAGCTTGATCA
1 ATCATGCATACCGTATAGCTTGATCA
* *
19032338 ATCA--AATA-C-TAT---TT-ACCA
1 ATCATGCATACCGTATAGCTTGATCA
19032356 TATCATGCATACCGTATAGCTTGATCA
1 -ATCATGCATACCGTATAGCTTGATCA
19032383 ATCA
1 ATCA
19032387 AATACTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
18 3 0.08
19 6 0.17
21 3 0.08
22 4 0.11
23 4 0.11
24 3 0.08
26 10 0.28
27 3 0.08
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (26 bp):
ATCATGCATACCGTATAGCTTGATCA
Found at i:19032472 original size:22 final size:22
Alignment explanation
Indices: 19032447--19032517 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
19032437 TATTTATCAT
19032447 ATCATGCATATCGTATAGCTTG
1 ATCATGCATATCGTATAGCTTG
* * * *
19032469 ATCAAT-CAAATCCTATTTACCAT-
1 ATC-ATGCATATCGTA--TAGCTTG
*
19032492 ATCATGCCTATCGTATAGCTTG
1 ATCATGCATATCGTATAGCTTG
19032514 ATCA
1 ATCA
19032518 ATCAAATACT
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
21 4 0.11
22 16 0.46
23 11 0.31
24 4 0.11
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (22 bp):
ATCATGCATATCGTATAGCTTG
Found at i:19033369 original size:152 final size:152
Alignment explanation
Indices: 19033179--19033496 Score: 523
Period size: 152 Copynumber: 2.1 Consensus size: 152
19033169 TTCTTAGTAC
* *
19033179 CTCATCA-GAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTA
1 CTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTATTCTTCTCTGTA
* *
19033243 TCTCAACAGGAAGATGACAGTCTCGCTTGTTTCAATTTC-CTTCTCTGGATCTCCTCAGGAAGAC
66 TCTCAACAGGAAGATGACAGCCTCGCTTATTTCAA-TTCGCTTCTCTGGATCTCCTCAGGAAGAC
*
19033307 GAATTTGGTCCACTTCTCTGTGT
130 GAATTTGGTCCACTTCTCTATGT
*
19033330 CTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTATTCTTCTTTGTA
1 CTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTATTCTTCTCTGTA
* * * *
19033395 TCTCATCAGGAAGATGACTGCCTCGCTTATTTTAATTCGCTTCTCTGGATTTCCTCAGGAAGACG
66 TCTCAACAGGAAGATGACAGCCTCGCTTATTTCAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
19033460 AATTTGGTCCACTTCTCTATGT
131 AATTTGGTCCACTTCTCTATGT
19033482 CTCATCAGGAAGCTA
1 CTCATCAGGAAGCTA
19033497 ACCATTTTAT
Statistics
Matches: 155, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
151 10 0.06
152 145 0.94
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (152 bp):
CTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTATTCTTCTCTGTA
TCTCAACAGGAAGATGACAGCCTCGCTTATTTCAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
AATTTGGTCCACTTCTCTATGT
Found at i:19033669 original size:200 final size:200
Alignment explanation
Indices: 19033319--19033796 Score: 812
Period size: 200 Copynumber: 2.4 Consensus size: 200
19033309 ATTTGGTCCA
*
19033319 CTTCTCTGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTAT
1 CTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTAT
* * * *
19033384 TCTTCTTTGTATCTCATCAGGAAGATGACTGCCTCGCTTATTTTAATTCGCTTCTCTGGATTTCC
66 TCTTCTCTGTATCTCATCAAGAAGATGACTGCCTCACTTATTTTAATTCGCTTCTCTGGATCTCC
*
19033449 TCAGGAAGACGAATTTGGTCCACTTCTCTATGTCTCATCAGGAAGCTAACCATTTTATTGTTTCG
131 TCAGGAAGACGAATTTGGTCCACTTCTCTATGTCTCATCAGGAAGCTAACCATTTTATTGCTTCG
19033514 ACCTG
196 ACCTG
* *
19033519 CTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCATTGAGTTGGTAT
1 CTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTAT
*
19033584 TCTTCTCTGTATCTCATCAAGAAGATGACTGCCTCACTTGTTTTAATTCGCTTCTCTGGATCTCC
66 TCTTCTCTGTATCTCATCAAGAAGATGACTGCCTCACTTATTTTAATTCGCTTCTCTGGATCTCC
* *
19033649 TCAGGAAGACGAATTTGGTCCACTTTTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCG
131 TCAGGAAGACGAATTTGGTCCACTTCTCTATGTCTCATCAGGAAGCTAACCATTTTATTGCTTCG
19033714 ACCTG
196 ACCTG
* * ** *
19033719 CTTCTCAATGTCTCATCAGGAAGCCAGGTTCGAAGATTTGCTCGTGTTGAGCGCTGAGTTGGTAT
1 CTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTAT
19033784 TCTTCTCTGTATC
66 TCTTCTCTGTATC
19033797 AGGAAGATGA
Statistics
Matches: 260, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
200 260 1.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (200 bp):
CTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGTTGGTAT
TCTTCTCTGTATCTCATCAAGAAGATGACTGCCTCACTTATTTTAATTCGCTTCTCTGGATCTCC
TCAGGAAGACGAATTTGGTCCACTTCTCTATGTCTCATCAGGAAGCTAACCATTTTATTGCTTCG
ACCTG
Found at i:19045528 original size:17 final size:17
Alignment explanation
Indices: 19045508--19045560 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
19045498 ACTACAATGC
*
19045508 AAATGAAATAACAAGTA
1 AAATGAAATAACAACTA
19045525 AAATGCAAA-AACAACTA
1 AAATG-AAATAACAACTA
* * *
19045542 AAATGCAATGACAATTA
1 AAATGAAATAACAACTA
19045559 AA
1 AA
19045561 TGAGATGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.07
17 25 0.83
18 3 0.10
ACGTcount: A:0.62, C:0.11, G:0.09, T:0.17
Consensus pattern (17 bp):
AAATGAAATAACAACTA
Found at i:19052708 original size:104 final size:102
Alignment explanation
Indices: 19052540--19052734 Score: 232
Period size: 104 Copynumber: 1.9 Consensus size: 102
19052530 ATGTGTTAGA
* * * * *
19052540 CTGAGTAACCGGGGTGGAGTGCTTGGTTGTCATTTCACTTCATGTCAAAAGGGCTAACACATTC-
1 CTGAGTAACCGGGATGAAGTGCTTGGGTGTCATTTCACTTCACGTCAAAAGGGCCAACACATTCT
19052604 TACAAAAAAAAAGAGAAGAAAAAAATTGAGAGCATGTTGG
66 TA-AAAAAAAAA-A-AAGAAAAAAATTGAGAGCATGTTGG
* * * * *
19052644 CTGAGTAATCGGGATGAAGTGCTTGGGTGTCATTTGATTTCACGTCAAAAGGTCCAA-AGTATTC
1 CTGAGTAACCGGGATGAAGTGCTTGGGTGTCATTTCACTTCACGTCAAAAGGGCCAACA-CATTC
* *
19052708 TTAAAGAAAAAAAAAGGAAAAAATTGA
65 TTAAAAAAAAAAAAAGAAAAAAATTGA
19052735 CAAAATAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
102 13 0.17
103 2 0.03
104 60 0.78
105 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (102 bp):
CTGAGTAACCGGGATGAAGTGCTTGGGTGTCATTTCACTTCACGTCAAAAGGGCCAACACATTCT
TAAAAAAAAAAAAAGAAAAAAATTGAGAGCATGTTGG
Found at i:19053318 original size:19 final size:19
Alignment explanation
Indices: 19053296--19053340 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19053286 TTATATTAGG
19053296 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
19053315 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
19053334 ATTTAAT
1 ATTTAAT
19053341 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:19054165 original size:22 final size:23
Alignment explanation
Indices: 19054139--19054196 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
19054129 TCGACTTCCT
19054139 TATTTTCTATTT-CTTTTAATTA
1 TATTTTCTATTTACTTTTAATTA
* *
19054161 TATTTTCT-TTTATTTTTAATTC
1 TATTTTCTATTTACTTTTAATTA
19054183 TATTTCTTCTATTT
1 TA-TT-TTCTATTT
19054197 TTCCTCAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 3 0.10
22 18 0.60
23 2 0.07
24 4 0.13
25 3 0.10
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTTTCTATTTACTTTTAATTA
Found at i:19054188 original size:21 final size:22
Alignment explanation
Indices: 19054152--19054198 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
19054142 TTTCTATTTC
*
19054152 TTTTAATTATATTTTCTTTTAT
1 TTTTAATTATATTTTCTTCTAT
*
19054174 TTTTAATTCTA-TTTCTTCTAT
1 TTTTAATTATATTTTCTTCTAT
19054195 TTTT
1 TTTT
19054199 CCTCAGATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTAATTATATTTTCTTCTAT
Found at i:19055976 original size:30 final size:30
Alignment explanation
Indices: 19055935--19056038 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 30
19055925 TTTATTGCAA
* *
19055935 TTTAC-AAAGTTGAGGGCATTTACTGTAAT
1 TTTACTAAAGTTGAGGGCAGTTACTATAAT
* *
19055964 TTTACTAAAGTTGATGGC-GTTACTATTAT
1 TTTACTAAAGTTGAGGGCAGTTACTATAAT
* *
19055993 TTTACTAAATTTAAGGG-AGTTACTATAAAT
1 TTTACTAAAGTTGAGGGCAGTTACTAT-AAT
*
19056023 TTT-CTAAAGTTTAGGG
1 TTTACTAAAGTTGAGGG
19056039 GTGTGATGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 46 0.74
30 16 0.26
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (30 bp):
TTTACTAAAGTTGAGGGCAGTTACTATAAT
Found at i:19056074 original size:29 final size:30
Alignment explanation
Indices: 19056022--19056085 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
19056012 TTACTATAAA
** *
19056022 TTTTCTAAAGTTTAGGGGTGTGATGGTAAT
1 TTTTCTAAAGTTTAGGGGCATGATGGCAAT
* *
19056052 TTTTC-AAATTTTAGGGGCATGATTGCAAT
1 TTTTCTAAAGTTTAGGGGCATGATGGCAAT
19056081 TTTTC
1 TTTTC
19056086 CAAAATTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.45
Consensus pattern (30 bp):
TTTTCTAAAGTTTAGGGGCATGATGGCAAT
Found at i:19056427 original size:9 final size:9
Alignment explanation
Indices: 19056413--19056441 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
19056403 TTTTAATCAA
19056413 TTATTTAAC
1 TTATTTAAC
19056422 TTATTTAAC
1 TTATTTAAC
19056431 TTATTTAAC
1 TTATTTAAC
19056440 TT
1 TT
19056442 TTATAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATTTAAC
Found at i:19060994 original size:17 final size:17
Alignment explanation
Indices: 19060910--19061004 Score: 91
Period size: 17 Copynumber: 5.5 Consensus size: 17
19060900 CCAATTTTAG
* *
19060910 ATTTTAAATTTTAATTC
1 ATTTTAAATTTAAATTT
*
19060927 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
* **
19060944 ATTGTAAATTTAAGCTT
1 ATTTTAAATTTAAATTT
** *
19060961 ATTTGGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
19060978 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
19060995 GTTTTGAAAT
1 ATTTT-AAAT
19061005 AAAAATTTAA
Statistics
Matches: 60, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
17 56 0.93
18 4 0.07
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:19061265 original size:32 final size:32
Alignment explanation
Indices: 19061229--19061298 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
19061219 TTTGCACCAC
*
19061229 CAACCTGCCACCATCTGCCATAGCCACTACTA
1 CAACCTGCCACCATCTGCCATAGCCACCACTA
*
19061261 CAACCTGCCACCATCTGCCATAGCCACCACTG
1 CAACCTGCCACCATCTGCCATAGCCACCACTA
19061293 CAACCT
1 CAACCT
19061299 ACAAAGGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.27, C:0.46, G:0.10, T:0.17
Consensus pattern (32 bp):
CAACCTGCCACCATCTGCCATAGCCACCACTA
Found at i:19067645 original size:5 final size:5
Alignment explanation
Indices: 19067599--19067657 Score: 66
Period size: 5 Copynumber: 11.2 Consensus size: 5
19067589 ATTCAATGAA
*
19067599 AAAAG AAAA- AAGAAG AAGAAG AAGAAG AAAAG CAAAAG AAAAA AAAAG
1 AAAAG AAAAG AA-AAG AA-AAG AA-AAG AAAAG -AAAAG AAAAG AAAAG
19067647 AAAAG AAAAG A
1 AAAAG AAAAG A
19067658 GGAAAAACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
4 2 0.04
5 28 0.57
6 19 0.39
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19067705 original size:6 final size:6
Alignment explanation
Indices: 19067598--19067705 Score: 53
Period size: 6 Copynumber: 17.7 Consensus size: 6
19067588 GATTCAATGA
* * *
19067598 AAAAAG AAAAAAG AAGAAG AAGAAG AAGAAAAG CAAAAG -AAAA- AAAAAG
1 AAAAAG -AAAAAG AAAAAG AAAAAG -A-AAAAG AAAAAG AAAAAG AAAAAG
* * * * **
19067647 -AAAAG AAAAGAGG AAAAAC AAGAAG AAAAAC AAAAAT AGAAAA- AACGAG
1 AAAAAG AAAA-A-G AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG
19067696 AAAAAG AAAA
1 AAAAAG AAAA
19067706 GGAGAGGTCG
Statistics
Matches: 79, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
5 15 0.19
6 42 0.53
7 13 0.16
8 9 0.11
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:19068768 original size:49 final size:49
Alignment explanation
Indices: 19068705--19069767 Score: 552
Period size: 49 Copynumber: 21.5 Consensus size: 49
19068695 GAAGACACAA
* *
19068705 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAGACATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACATG
* * * *
19068754 AAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AATACCATGAAGATACA--
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTATACC-T-CAGAGACATG
* * ** * *
19068803 AAGGGAAAGGTTTAAGTCACAATTGCGGACCTTATACCACAGAGACATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACATG
* * * * * * **
19068852 AAGGGAAAGATTTAAGTCGTAACGGTGAATC-TAGTACCACAAAGATACA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTA-TACCTCAGAGACATG
** * *
19068901 AAATGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAGACATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACATG
* * * **
19068950 AAGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCACAAAGACACAA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTA-TACCTCAGAGACA-TG
* * *
19069000 AAGGGAAAGGTTTAAGTCGTAATGGCGAACCTTATACCTCAGAGACATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACATG
* * * **
19069049 AAAGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCAC-GAAGACACAA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTA-TACCTCAG-AGACA-TG
* * ** * * *
19069099 AAGGGAATGGTTTAAGTCATAATGTCGAACCTTATACCTCA-AAAGCATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGA-CATG
* *
19069148 AAGGG-AAGATTTAAG-CTGCAACGGCGAATCC--AGTA-CTACAAAGATATG
1 AAGGGAAAGATTTAAGTC-GCAACGGCGAA-CCTTA-TACCT-CAGAGACATG
* * * * *
19069196 GAGGGAAAGGTTTAAGTCACAACGGCGAACCTTGTACCTTAGA-AGCATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGA-CATG
** * * * *
19069245 AAGGGAAAGATTTAACCCGCAACAGCGAATC-TAGTACCAC-GAAGATATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTA-TACCTCAG-AGACATG
* * * * *
19069294 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTTAGA-AGCATA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGA-CATG
* * * * * * **
19069343 AAGGGAAAGATTTAAGCCACAGCGACGAATC-TAGTACCACAAAGACACAAAGACACA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTA-TACCTC--AG------AGACATG
* * * *
19069400 AAGGGAAAGGTTTAAGTCCCAACGGCGAACATTGTACCTCAGA-AGCATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGA-CATG
* * * *
19069449 AAGGGAAAGATTTAAGCCGTAACGGCGAATCC--AGTACCAC-GAAGATATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTA-TACCTCAG-AGACATG
* * * * * *
19069498 GAGGGAAAGGTTTAAGTTGCAACGGTGAACCTTGTACCTCAGAAACATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACATG
* * ** * * *
19069547 AAGGGAAAGATTTAAGCCACAACAACGAATCC-AATACC-AAGAAGATATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTATACCTCAG-AGACATG
* * * *
19069596 GAGGGAAA-AGTTTAAGTCGAAATGGCGAACCTTGTACCTCAGA-AGCATG
1 AAGGGAAAGA-TTTAAGTCGCAACGGCGAACCTTATACCTCAGAGA-CATG
* * * * * * *
19069645 AAGGGAAAAATTTAAGCCGTATCGGCGAATCC-AATACCAC-GA-ATATTTG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTATACCTCAGAGACA--TG
* * * * *
19069694 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC-GAAAACGTG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAG-AGACATG
* *
19069743 AAGGGAAAGATTTAAGCCGTAACGG
1 AAGGGAAAGATTTAAGTCGCAACGG
19069768 TGAATCTAGT
Statistics
Matches: 742, Mismatches: 202, Indels: 140
0.68 0.19 0.13
Matches are distributed among these distances:
47 11 0.01
48 55 0.07
49 538 0.73
50 90 0.12
51 11 0.01
55 2 0.00
57 33 0.04
58 2 0.00
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (49 bp):
AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACATG
Found at i:19068861 original size:98 final size:97
Alignment explanation
Indices: 19068653--19069803 Score: 1269
Period size: 98 Copynumber: 11.6 Consensus size: 97
19068643 CATGACGATT
* * * *
19068653 TGAAGGGAAAGATTTAAGCAGCAACGGTGAATCCAGTACCATGAAGACACAAAAGGGAAAGGTTT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATAC-AAAGGGAAAGGTTT
*
19068718 AAGTCGCAATGGCGAACCTTATACCTCAGAGACA
65 AAGTCGCAATGGCGAACCTTGTACCTCAGA-ACA
* *
19068752 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAATACCATGAAGATACAAAGGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTA
* * * * *
19068817 AGTCACAATTGCGGACCTTATACCACAGAGACA
66 AGTCGCAATGGCGAACCTTGTACCTCAGA-ACA
* * * * * **
19068850 TGAAGGGAAAGATTTAAGTCGTAACGGTGAATCTAGTACCACAAAGATACAAAATGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTA
*
19068915 AGTCGCAATGGCGAACCTTATACCTCAGAGACA
66 AGTCGCAATGGCGAACCTTGTACCTCAGA-ACA
* *
19068948 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACAAAAGGGAAAGGTTT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATAC-AAAGGGAAAGGTTT
* *
19069013 AAGTCGTAATGGCGAACCTTATACCTCAGAGACA
65 AAGTCGCAATGGCGAACCTTGTACCTCAGA-ACA
* * *
19069047 TGAAAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAAAAGGGAATGGTTT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATAC-AAAGGGAAAGGTTT
** * * *
19069112 AAGTCATAATGTCGAACCTTATACCTCAAAAGCA
65 AAGTCGCAATGGCGAACCTTGTACCTCAGAA-CA
* * * ***
19069146 TGAAGGG-AAGATTTAAGCTGCAACGGCGAATCCAGTACTACAAAGATATGGAGGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTA
* * *
19069210 AGTCACAACGGCGAACCTTGTACCTTAGAAGCA
66 AGTCGCAATGGCGAACCTTGTACCTCAGAA-CA
* * * **
19069243 TGAAGGGAAAGATTTAACCCGCAACAGCGAATCTAGTACCACGAAGATATGAAGGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTA
*
19069308 AGTCGCAATGGCGAACCTTGTACCTTAGAAGCA
66 AGTCGCAATGGCGAACCTTGTACCTCAGAA-CA
* * * * * *
19069341 TAAAGGGAAAGATTTAAGCCACAGCGACGAATCTAGTACCACAAAGACACAAAGACACAAAGGGA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCAC---G-----AAGATACAAAGGGA
* * *
19069406 AAGGTTTAAGTCCCAACGGCGAACATTGTACCTCAGAAGCA
58 AAGGTTTAAGTCGCAATGGCGAACCTTGTACCTCAGAA-CA
* ***
19069447 TGAAGGGAAAGATTTAAGCCGTAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTA
* * *
19069512 AGTTGCAACGGTGAACCTTGTACCTCAGAAACA
66 AGTCGCAATGGCGAACCTTGTACCTCAG-AACA
* ** * * *** *
19069545 TGAAGGGAAAGATTTAAGCCACAACAACGAATCCAATACCAAGAAGATATGGAGGGAAAAGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTA
*
19069610 AGTCGAAATGGCGAACCTTGTACCTCAGAAGCA
66 AGTCGCAATGGCGAACCTTGTACCTCAGAA-CA
* * * * * ****
19069643 TGAAGGGAAAAATTTAAGCCGTATCGGCGAATCCAATACCACGAATATTTGGAGGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTA
* * *
19069708 AGTCGCAACGGCGAACCTTGTACCTCGAAAACG
66 AGTCGCAATGGCGAACCTTGTACCTC-AGAACA
* * * * * * *
19069741 TGAAGGGAAAGATTTAAGCCGTAACGGTGAATCTAGTACCACAAATATATAGAGGGAAAGGTT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTT
19069804 ACGACCGCAA
Statistics
Matches: 919, Mismatches: 119, Indels: 29
0.86 0.11 0.03
Matches are distributed among these distances:
97 48 0.05
98 592 0.64
99 193 0.21
101 1 0.00
103 1 0.00
106 84 0.09
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (97 bp):
TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTA
AGTCGCAATGGCGAACCTTGTACCTCAGAACA
Found at i:19070212 original size:78 final size:77
Alignment explanation
Indices: 19070090--19070282 Score: 233
Period size: 78 Copynumber: 2.5 Consensus size: 77
19070080 TTTTACCCCG
* * * *
19070090 AGCCTGGGGCAGATCATTATCAGTAAATCTCTAACCCCGAGCCTGGGGCAGATTGTAACCATTCG
1 AGCCTGAGGCAGATCA-TATCAGCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCG
*
19070155 GTCTCTTACCTCA
65 ATCTCTTACCTCA
* * * * **
19070168 AGCCTGAGGTAGATCACTATCAGCCAATCTCTTACCCTGGGCCTGGGGCAGATTGCAGTCATTCG
1 AGCCTGAGGCAGATCA-TATCAGCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCG
*
19070233 ATCTCTTACCTCG
65 ATCTCTTACCTCA
* *
19070246 AGCCTGAGGCAGATTATCATCAGCTAATCTCTTACCC
1 AGCCTGAGGCAGATCAT-ATCAGCAAATCTCTTACCC
19070283 AATCATGGGG
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
77 1 0.01
78 97 0.99
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (77 bp):
AGCCTGAGGCAGATCATATCAGCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGA
TCTCTTACCTCA
Found at i:19070276 original size:39 final size:38
Alignment explanation
Indices: 19070156--19070281 Score: 112
Period size: 39 Copynumber: 3.2 Consensus size: 38
19070146 AACCATTCGG
* * * *
19070156 TCTCTTACCTCAAGCCTGAGGTAGATCACTATCAGCCAA
1 TCTCTTACCTCGAGCCTGAGGCAGATTAC-ATCAGCTAA
* * * * *
19070195 TCTCTTACC-CTGGGCCTGGGGCAGATTGCAGTCA-TTCGA
1 TCTCTTACCTC-GAGCCTGAGGCAGATTACA-TCAGCT-AA
19070234 TCTCTTACCTCGAGCCTGAGGCAGATTATCATCAGCTAA
1 TCTCTTACCTCGAGCCTGAGGCAGATTA-CATCAGCTAA
19070273 TCTCTTACC
1 TCTCTTACC
19070282 CAATCATGGG
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
38 2 0.03
39 61 0.91
40 4 0.06
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (38 bp):
TCTCTTACCTCGAGCCTGAGGCAGATTACATCAGCTAA
Found at i:19070846 original size:17 final size:17
Alignment explanation
Indices: 19070824--19070918 Score: 75
Period size: 17 Copynumber: 5.5 Consensus size: 17
19070814 CCAATTTTAG
*
19070824 ATTTTAAATTTCAATTC
1 ATTTTAAATTTAAATTC
* *
19070841 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTC
* *
19070858 ATTGTAAATTTAAGCTT-
1 ATTTTAAATTTAA-ATTC
** * *
19070875 ATTTGGAGTTTAAATTT
1 ATTTTAAATTTAAATTC
*
19070892 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTC
19070909 ATTTTGAAAT
1 ATTTT-AAAT
19070919 AAAAATTTAA
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
16 2 0.03
17 53 0.87
18 6 0.10
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (17 bp):
ATTTTAAATTTAAATTC
Found at i:19070866 original size:34 final size:32
Alignment explanation
Indices: 19070828--19070913 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 32
19070818 TTTTAGATTT
19070828 TAAATTTCAATTCATTTTAAGTTTAAATTTATTG
1 TAAATTT-AATT-ATTTTAAGTTTAAATTTATTG
** *
19070862 TAAATTTAAGCTTATTTGGAGTTTAAATTTATTT
1 TAAATTTAA--TTATTTTAAGTTTAAATTTATTG
19070896 TAAATTTAAATTTATTTT
1 TAAATTT-AA-TTATTTT
19070914 GAAATAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 2 0.05
34 38 0.86
35 4 0.09
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (32 bp):
TAAATTTAATTATTTTAAGTTTAAATTTATTG
Found at i:19070924 original size:18 final size:17
Alignment explanation
Indices: 19070886--19070927 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
19070876 TTTGGAGTTT
**
19070886 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATAA
19070903 AAATTTATTTTGAAATAA
1 AAATTTATTTT-AAATAA
19070921 AAATTTA
1 AAATTTA
19070928 AATTTAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATTTATTTTAAATAA
Found at i:19072860 original size:29 final size:29
Alignment explanation
Indices: 19072827--19073104 Score: 158
Period size: 29 Copynumber: 9.5 Consensus size: 29
19072817 AAACTTTCTG
* *
19072827 AAAATTACCATTTTAACCTTAGACGTCCA
1 AAAATTACCATTTTACCCTTAAACGTCCA
** * ***
19072856 AAAATT-CCATTTTTGACCCCGAAACTTTTG
1 AAAATTACCA-TTTT-ACCCTTAAACGTCCA
* *
19072886 AAAATTACCATTTTACCCTCAAATGTCCA
1 AAAATTACCATTTTACCCTTAAACGTCCA
*
19072915 AAAATT-CCATTTTTGA-CCTTGAAA-GTTCTA
1 AAAATTACCA-TTTT-ACCCTT-AAACG-TCCA
* *
19072945 AAAATCACCATTTTACCCTCAAACGTCCA
1 AAAATTACCATTTTACCCTTAAACGTCCA
* * *
19072974 AAAATT-CCATTTTTGA-CCTCAAAACTTCTA
1 AAAATTACCA-TTTT-ACCCT-TAAACGTCCA
* *
19073004 AAAATTACCATTTTACCCCTAAATGTCCA
1 AAAATTACCATTTTACCCTTAAACGTCCA
* * * *
19073033 AAAATT-TCATTTTTAACCCTAAAACTTCTA
1 AAAATTACCA-TTTT-ACCCTTAAACGTCCA
* ** **
19073063 AAGATTACCATTTTACCCTCGAATATCCA
1 AAAATTACCATTTTACCCTTAAACGTCCA
19073092 AAAA-TACCATTTT
1 AAAATTACCATTTT
19073105 TAACCTCGAA
Statistics
Matches: 188, Mismatches: 43, Indels: 37
0.70 0.16 0.14
Matches are distributed among these distances:
28 20 0.11
29 81 0.43
30 76 0.40
31 11 0.06
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTTAAACGTCCA
Found at i:19072888 original size:59 final size:59
Alignment explanation
Indices: 19072791--19073329 Score: 393
Period size: 59 Copynumber: 9.2 Consensus size: 59
19072781 GTCCCTGAAC
* * *
19072791 TGTCCAAAAA-T-CATATTTTGACCCCTAAACTTTCTGAAAATTACCATTTTAACCTTAGA
1 TGTCCAAAAATTCCAT-TTTTGACCCCGAAACTTT-TAAAAATTACCATTTTAACCCTAGA
* * *
19072850 CGTCCAAAAATTCCATTTTTGACCCCGAAACTTTTGAAAATTACCATTTT-ACCCTCAAA
1 TGTCCAAAAATTCCATTTTTGACCCCGAAACTTTTAAAAATTACCATTTTAACCCT-AGA
** * * * *
19072909 TGTCCAAAAATTCCATTTTTGACCTTGAAAGTTCTAAAAATCACCATTTT-ACCCTCAAA
1 TGTCCAAAAATTCCATTTTTGACCCCGAAACTTTTAAAAATTACCATTTTAACCCT-AGA
* * * * * *
19072968 CGTCCAAAAATTCCATTTTTGACCTCAAAACTTCTAAAAATTACCATTTTACCCCTAAA
1 TGTCCAAAAATTCCATTTTTGACCCCGAAACTTTTAAAAATTACCATTTTAACCCTAGA
* * ** * * *
19073027 TGTCCAAAAATTTCATTTTTAACCCTAAAACTTCTAAAGATTACCATTTT-ACCCTCGAA
1 TGTCCAAAAATTCCATTTTTGACCCCGAAACTTTTAAAAATTACCATTTTAACCCTAG-A
* * * * * * *
19073086 TATCCAAAAATACCATTTTTAACCTCG-AATTTTTCAAAATTACCATTTT-ACCCTCGAA
1 TGTCCAAAAATTCCATTTTTGACCCCGAAACTTTTAAAAATTACCATTTTAACCCTAG-A
** ** * * * * * *
19073144 TGTTTAAAAATTTTATTTTTGA-CCCTAAAATTTCCAAAGATTACCATTTT-CCCCTCGAA
1 TGTCCAAAAATTCCATTTTTGACCCCGAAACTTT-TAAAAATTACCATTTTAACCCTAG-A
** * * * *
19073203 TGTCCAAAAAGACCATTTTTGACCTCG-AACTTTTCAAAAATTACTATTTT-ACCGTTGGA
1 TGTCCAAAAATTCCATTTTTGACCCCGAAACTTTT-AAAAATTACCATTTTAACC-CTAGA
* * * * * *
19073262 TGTTCAAAAATTCCATTTTTGA-CCC-AAAATTTCCAAAAATTACCATTTTACCCCCGAAA
1 TGTCCAAAAATTCCATTTTTGACCCCGAAACTTT-TAAAAATTACCATTTTA-ACCCTAGA
19073321 TGTCCAAAA
1 TGTCCAAAA
19073330 TTACCGTTTT
Statistics
Matches: 388, Mismatches: 78, Indels: 28
0.79 0.16 0.06
Matches are distributed among these distances:
57 2 0.01
58 76 0.20
59 279 0.72
60 28 0.07
61 3 0.01
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (59 bp):
TGTCCAAAAATTCCATTTTTGACCCCGAAACTTTTAAAAATTACCATTTTAACCCTAGA
Found at i:19073105 original size:29 final size:28
Alignment explanation
Indices: 19072886--19073347 Score: 191
Period size: 29 Copynumber: 15.8 Consensus size: 28
19072876 GAAACTTTTG
* *
19072886 AAAATTACCATTTTACCCTCAAATGTCC
1 AAAAATACCATTTTACCCTCGAATGTCC
* * * *
19072914 AAAAATTCCATTTTTGA-CCTTGAAAGTTCT
1 AAAAATACCA-TTTT-ACCCTCGAATG-TCC
* *
19072944 AAAAATCACCATTTTACCCTCAAACGTCC
1 AAAAAT-ACCATTTTACCCTCGAATGTCC
* * *
19072973 AAAAATTCCATTTTTGA-CCTCAAAACT-TCT
1 AAAAATACCA-TTTT-ACCCTC-GAA-TGTCC
*
19073003 AAAAATTACCATTTTACCC-CTAAATGTCC
1 AAAAA-TACCATTTTACCCTC-GAATGTCC
** ** *
19073032 AAAAATTTCATTTTTAACCCTAAAACT-TCT
1 AAAAATACCA-TTTT-ACCCTCGAA-TGTCC
* *
19073062 AAAGATTACCATTTTACCCTCGAATATCC
1 AAA-AATACCATTTTACCCTCGAATGTCC
* * *
19073091 AAAAATACCATTTTTAACCTCGAATTTTTC
1 AAAAATACCA-TTTTACCCTCGAA-TGTCC
* **
19073121 AAAATTACCATTTTACCCTCGAATGTTT
1 AAAAATACCATTTTACCCTCGAATGTCC
*** ** *
19073149 AAAAATTTTATTTTTGACCCTAAAATTTCC
1 AAAAATACCA-TTTT-ACCCTCGAATGTCC
* *
19073179 AAAGATTACCATTTTCCCCTCGAATGTCC
1 AAA-AATACCATTTTACCCTCGAATGTCC
* * *
19073208 AAAAAGACCATTTTTGA-CCTCGAACTTTTC
1 AAAAATACCA-TTTT-ACCCTCGAA-TGTCC
* * * * *
19073238 AAAAATTACTATTTTACCGTTGGATGTTC
1 AAAAA-TACCATTTTACCCTCGAATGTCC
* ** *
19073267 AAAAATTCCATTTTTGACCC-AAAATTTCC
1 AAAAATACCA-TTTT-ACCCTCGAATGTCC
*
19073296 AAAAATTACCATTTTACCCCCGAAATGTCC
1 AAAAA-TACCATTTTACCCTCG-AATGTCC
* * *
19073326 AAAATTACCGTTTTACCTTCGA
1 AAAAATACCATTTTACCCTCGA
19073348 GCATTCAAAA
Statistics
Matches: 322, Mismatches: 79, Indels: 66
0.69 0.17 0.14
Matches are distributed among these distances:
28 44 0.14
29 147 0.46
30 113 0.35
31 18 0.06
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (28 bp):
AAAAATACCATTTTACCCTCGAATGTCC
Found at i:19073329 original size:118 final size:117
Alignment explanation
Indices: 19072791--19073339 Score: 561
Period size: 118 Copynumber: 4.7 Consensus size: 117
19072781 GTCCCTGAAC
* ** * ** *
19072791 TGTCCAAAAA-T-CATATTTTGACCCCTAAACTTTCTGAAAATTACCATTTTA-ACCTTAGACGT
1 TGTCCAAAAATTCCAT-TTTTGA-CCCTAAAATTTCCAAAAATTACCATTTTACCCCCGA-ATGT
* * *
19072853 CCAAAAATTCCATTTTTGACCCCGAAACTTTTGAAAATTACCATTTTACCCTCAAA
63 CCAAAAATACCATTTTTGACCTCG-AACTTTTAAAAATTACCATTTTACCCTCAAA
* * * * * * * *
19072909 TGTCCAAAAATTCCATTTTTGACCTTGAAAGTTCTAAAAATCACCATTTTACCCTCAAACGTCCA
1 TGTCCAAAAATTCCATTTTTGACCCTAAAATTTCCAAAAATTACCATTTTACCCCCGAATGTCCA
* * *
19072974 AAAATTCCATTTTTGACCTCAAAACTTCTAAAAATTACCATTTTACCC-CTAAA
66 AAAATACCATTTTTGACCTC-GAACTTTTAAAAATTACCATTTTACCCTC-AAA
* * * * * * *
19073027 TGTCCAAAAATTTCATTTTTAACCCTAAAACTTCTAAAGATTACCATTTTACCCTCGAATATCCA
1 TGTCCAAAAATTCCATTTTTGACCCTAAAATTTCCAAAAATTACCATTTTACCCCCGAATGTCCA
* * * *
19073092 AAAATACCATTTTTAACCTCGAATTTTTCAAAATTACCATTTTACCCTCGAA
66 AAAATACCATTTTTGACCTCGAACTTTTAAAAATTACCATTTTACCCTCAAA
** ** *
19073144 TGTTTAAAAATTTTATTTTTGACCCTAAAATTTCCAAAGATTACCATTTT-CCCCTCGAATGTCC
1 TGTCCAAAAATTCCATTTTTGACCCTAAAATTTCCAAAAATTACCATTTTACCCC-CGAATGTCC
* * * ***
19073208 AAAAAGACCATTTTTGACCTCGAACTTTTCAAAAATTACTATTTTACCGTTGGA
65 AAAAATACCATTTTTGACCTCGAACTTTT-AAAAATTACCATTTTACCCTCAAA
*
19073262 TGTTCAAAAATTCCATTTTTGACCC-AAAATTTCCAAAAATTACCATTTTACCCCCGAAATGTCC
1 TGTCCAAAAATTCCATTTTTGACCCTAAAATTTCCAAAAATTACCATTTTACCCCCG-AATGTCC
* *
19073326 AAAATTACCGTTTT
65 AAAAATACCATTTT
19073340 ACCTTCGAGC
Statistics
Matches: 367, Mismatches: 54, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
116 3 0.01
117 129 0.35
118 223 0.61
119 9 0.02
120 3 0.01
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (117 bp):
TGTCCAAAAATTCCATTTTTGACCCTAAAATTTCCAAAAATTACCATTTTACCCCCGAATGTCCA
AAAATACCATTTTTGACCTCGAACTTTTAAAAATTACCATTTTACCCTCAAA
Found at i:19082329 original size:36 final size:35
Alignment explanation
Indices: 19082282--19082354 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 35
19082272 TTAGAGAGAA
*
19082282 TATATTTTGTTTAACTTGACTTGCAAGCAATTCTCT
1 TATATTTTGTTTAACTTAACTTGCAAGCAA-TCTCT
19082318 TATATTTTGTTTAACTTAACTTGCAAGCAATCTCT
1 TATATTTTGTTTAACTTAACTTGCAAGCAATCTCT
19082353 TA
1 TA
19082355 GACTTTGGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 7 0.19
36 29 0.81
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (35 bp):
TATATTTTGTTTAACTTAACTTGCAAGCAATCTCT
Found at i:19085912 original size:15 final size:16
Alignment explanation
Indices: 19085887--19085921 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
19085877 AACATTTTTG
19085887 AAATAAAAATATTATT
1 AAATAAAAATATTATT
*
19085903 AAAT-AAAATATTTTT
1 AAATAAAAATATTATT
19085918 AAAT
1 AAAT
19085922 TTTTCAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATAAAAATATTATT
Found at i:19086847 original size:26 final size:26
Alignment explanation
Indices: 19086817--19086878 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
19086807 AATTTATTTC
*
19086817 TTTTATATATTTATAGTTTCTTATA-A
1 TTTTATATAATTATAG-TTCTTATATA
* *
19086843 TTTTATAAAATTATAGTTCTTTTATA
1 TTTTATATAATTATAGTTCTTATATA
19086869 TATTTATATA
1 T-TTTATATA
19086879 CTTTTATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 7 0.23
26 16 0.53
27 7 0.23
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTTATATAATTATAGTTCTTATATA
Found at i:19086867 original size:19 final size:18
Alignment explanation
Indices: 19086838--19086888 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
19086828 TATAGTTTCT
*
19086838 TATAATTTTATAAAATTA
1 TATACTTTTATAAAATTA
* * *
19086856 TAGTTCTTTTATATATTTA
1 TA-TACTTTTATAAAATTA
19086875 TATACTTTTATAAA
1 TATACTTTTATAAA
19086889 TTTACAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (18 bp):
TATACTTTTATAAAATTA
Found at i:19086884 original size:18 final size:18
Alignment explanation
Indices: 19086838--19086892 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
19086828 TATAGTTTCT
* *
19086838 TATAATTTTATAAAATTA
1 TATACTTTTATAAATTTA
* *
19086856 TAGTTCTTTTATATATTTA
1 TA-TACTTTTATAAATTTA
19086875 TATACTTTTATAAATTTA
1 TATACTTTTATAAATTTA
19086893 CAAAATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (18 bp):
TATACTTTTATAAATTTA
Found at i:19086886 original size:45 final size:45
Alignment explanation
Indices: 19086814--19086899 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
19086804 ACCAATTTAT
* *
19086814 TTCTTTTATATATTTATAGTTTCTTATAATTTTATAAAATTATAG
1 TTCTTTTATATATTTATAGTTTCTTATAAATTTACAAAATTATAG
19086859 TTCTTTTATATATTTATA-TACTT-TTATAAATTTACAAAATT
1 TTCTTTTATATATTTATAGT--TTCTTATAAATTTACAAAATT
19086900 TTAATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 1 0.03
45 34 0.92
46 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (45 bp):
TTCTTTTATATATTTATAGTTTCTTATAAATTTACAAAATTATAG
Found at i:19086911 original size:45 final size:45
Alignment explanation
Indices: 19086812--19086912 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 45
19086802 TTACCAATTT
* *
19086812 ATTTCTTTTATATATTTATAGTTTCTTATAATTTTATAAAATTATA
1 ATTT-TTTTATATATTTATAGTTTCTTATAAATTTACAAAATTATA
* * *
19086858 GTTCTTTTATATATTTATA-TACTT-TTATAAATTTACAAAATTTTA
1 ATTTTTTTATATATTTATAGT--TTCTTATAAATTTACAAAATTATA
19086903 ATTTTTTTAT
1 ATTTTTTTAT
19086913 TTATATGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 41 0.89
46 4 0.09
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (45 bp):
ATTTTTTTATATATTTATAGTTTCTTATAAATTTACAAAATTATA
Found at i:19087007 original size:21 final size:22
Alignment explanation
Indices: 19086983--19087026 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19086973 ATTTTTAATT
* *
19086983 TTATTTTTTAT-TTTTATAAAA
1 TTATATTTTATATTTTAAAAAA
19087004 TTATATTTTATATTTTAAAAAA
1 TTATATTTTATATTTTAAAAAA
19087026 T
1 T
19087027 ATAACCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATATTTTATATTTTAAAAAA
Found at i:19087220 original size:19 final size:21
Alignment explanation
Indices: 19087181--19087221 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
19087171 TGAAAAAAAC
*
19087181 TATATACTTTTTAAATTAATT
1 TATATACTTTTTAAATGAATT
19087202 TATATA-TTTTTAAA-GAATT
1 TATATACTTTTTAAATGAATT
19087221 T
1 T
19087222 TTAATCTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TATATACTTTTTAAATGAATT
Found at i:19087361 original size:32 final size:31
Alignment explanation
Indices: 19087344--19087421 Score: 129
Period size: 32 Copynumber: 2.5 Consensus size: 31
19087334 TGAGTGACGC
19087344 AATACAAGTTAATGTACCAACTTGGATGATGG
1 AATACAAGTTAATGTACCAACTTGG-TGATGG
19087376 AATACAAGTTAATGTACCAACTTGGGTGATGG
1 AATACAAGTTAATGTACCAACTT-GGTGATGG
*
19087408 AATAAAAGTTAATG
1 AATACAAGTTAATG
19087422 AAGAGTCACT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 42 0.95
33 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (31 bp):
AATACAAGTTAATGTACCAACTTGGTGATGG
Found at i:19093506 original size:30 final size:29
Alignment explanation
Indices: 19093472--19093829 Score: 331
Period size: 30 Copynumber: 12.0 Consensus size: 29
19093462 GGATTTAAGG
* *
19093472 AAGTTTGGGGGTAAAAATGGTAATTTTTGA
1 AAGTTTTGGGGTCAAAAT-GTAATTTTTGA
* * * *
19093502 AAGTTTCGGGGTCAAAGTATAATTTTGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTTGA
* *
19093531 AATATTTTGGAGTCAAAATGTAA-TTTTGAAA
1 AA-GTTTTGGGGTCAAAATGTAATTTTTG--A
* *
19093562 AAGTTTTAGGGTTAAAATGTAATTTTTGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTG-A
* *
19093592 AAGTTTTAGGGTTAAAATGTAATTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTT-GA
* *
19093622 AAGTTTTGGGGTCAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTG-A
19093652 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAATTTTT-GA
* * *
19093682 AAGTTTTAGGGTCAAAATATAATTTTGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTT-TGA
* * **
19093712 AAGTTTTAGGGTCAAAATGAAATTTTCAAA
1 AAGTTTTGGGGTCAAAATGTAATTTT-TGA
* * * *
19093742 AAGTTTCGGGATCAAAATATAATTTTGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTT-TGA
** **
19093772 AAGTTTTGGGGTCAAAATACAATTTTCAAA
1 AAGTTTTGGGGTCAAAATGTAATTTT-TGA
*
19093802 AAGTTTTAGGGTCAAAATGTAATTTTTG
1 AAGTTTTGGGGTCAAAATGTAATTTTTG
19093830 GACAACCTAG
Statistics
Matches: 272, Mismatches: 48, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
29 16 0.06
30 246 0.90
31 10 0.04
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.38
Consensus pattern (29 bp):
AAGTTTTGGGGTCAAAATGTAATTTTTGA
Found at i:19094953 original size:7 final size:7
Alignment explanation
Indices: 19094941--19095010 Score: 67
Period size: 7 Copynumber: 10.3 Consensus size: 7
19094931 ATTTTTTAAT
19094941 ATTATTA
1 ATTATTA
19094948 ATTATTA
1 ATTATTA
19094955 A-TATTA
1 ATTATTA
*
19094961 ACTA-TA
1 ATTATTA
*
19094967 ATCA-TA
1 ATTATTA
*
19094973 AATATTA
1 ATTATTA
19094980 ATTA-TA
1 ATTATTA
19094986 ATTATTA
1 ATTATTA
19094993 ATTATTA
1 ATTATTA
19095000 TGATTATTA
1 --ATTATTA
19095009 AT
1 AT
19095011 AATATTTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
6 20 0.38
7 26 0.49
9 7 0.13
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (7 bp):
ATTATTA
Found at i:19094959 original size:13 final size:13
Alignment explanation
Indices: 19094941--19095025 Score: 56
Period size: 13 Copynumber: 6.7 Consensus size: 13
19094931 ATTTTTTAAT
19094941 ATTATTAATTATTA
1 ATTATTAA-TATTA
19094955 A-TATTAACTA-TA
1 ATTATTAA-TATTA
* *
19094967 ATCATAAATATTA
1 ATTATTAATATTA
19094980 ATTA-TAATTATTA
1 ATTATTAA-TATTA
19094993 ATTATT-ATGATT-
1 ATTATTAAT-ATTA
*
19095005 ATTAATAATATT-
1 ATTATTAATATTA
*
19095017 TTTATTAAT
1 ATTATTAAT
19095026 GATATTGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
12 23 0.40
13 32 0.56
14 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (13 bp):
ATTATTAATATTA
Found at i:19095604 original size:28 final size:28
Alignment explanation
Indices: 19095564--19095634 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
19095554 TTCAGCCCAA
19095564 TTGGGCTTTTTGTAATCGGGCCTTTAAT
1 TTGGGCTTTTTGTAATCGGGCCTTTAAT
*
19095592 TTGGGCTTCTTGTAATCGGGCCTTTAAT
1 TTGGGCTTTTTGTAATCGGGCCTTTAAT
19095620 TTGGGCTTTTTGTAA
1 TTGGGCTTTTTGTAA
19095635 ATGGACATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.46
Consensus pattern (28 bp):
TTGGGCTTTTTGTAATCGGGCCTTTAAT
Found at i:19095693 original size:17 final size:17
Alignment explanation
Indices: 19095673--19095737 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
19095663 TTAATATTAT
* *
19095673 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
19095690 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
19095707 --T-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
19095721 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
19095738 AATGAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 1 0.03
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:19095700 original size:11 final size:11
Alignment explanation
Indices: 19095686--19095756 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
19095676 AAATTAAGTT
19095686 TAAATTTAAAA
1 TAAATTTAAAA
19095697 TAAATTT-AAA
1 TAAATTTAAAA
* *
19095707 T-AA-GTAAATT
1 TAAATTTAAA-A
*
19095717 TAAATTTAAGA
1 TAAATTTAAAA
19095728 TAAATTTAAAAA
1 TAAATTT-AAAA
*
19095740 TGAATTTAAAA
1 TAAATTTAAAA
*
19095751 TTAATT
1 TAAATT
19095757 CAAACTTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:19095722 original size:31 final size:29
Alignment explanation
Indices: 19095657--19095754 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 29
19095647 TTTTAATTTA
* * * * *
19095657 TTAAATTTAATAT-TATTTTAAATTAAGT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
19095685 TTAAATTTAAAATAAATTTAAATAAGTAAAT
1 TTAAATTTAAAATAAATTTAAA-AA-TAAAT
* *
19095716 TTAAATTTAAGATAAATTTAAAAATGAAT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
*
19095745 TTAAAATTAA
1 TTAAATTTAA
19095755 TTCAAACTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.20
29 19 0.32
30 3 0.05
31 25 0.42
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (29 bp):
TTAAATTTAAAATAAATTTAAAAATAAAT
Found at i:19096278 original size:31 final size:31
Alignment explanation
Indices: 19096236--19096415 Score: 135
Period size: 31 Copynumber: 5.4 Consensus size: 31
19096226 TTATCCACTC
*
19096236 TACTTCGATTTCAAGAGGATGACGTTGCTCT
1 TACTTCAATTTCAAGAGGATGACGTTGCTCT
** * * *
19096267 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACT
1 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT
*
19096303 CTACTTCGATTTCAAGAGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
** * * *
19096335 TACTTCAATTTCAGAGAAAAAGACATGTTATCCACT
1 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT
*
19096371 CTACTTCGATTTCAAGAGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
19096403 TACTTCAATTTCA
1 TACTTCAATTTCA
19096416 GAGATAAAGA
Statistics
Matches: 112, Mismatches: 25, Indels: 24
0.70 0.16 0.15
Matches are distributed among these distances:
31 36 0.32
32 22 0.20
33 2 0.02
34 4 0.04
35 2 0.02
36 22 0.20
37 24 0.21
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAAGAGGATGACGTTGCTCT
Found at i:19096301 original size:68 final size:69
Alignment explanation
Indices: 19096186--19096763 Score: 651
Period size: 76 Copynumber: 8.0 Consensus size: 69
19096176 AGGATAGGAA
* * *
19096186 ATGATC-TTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTATCCACTCTACTTCGATTTCAA
1 ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA
19096250 GAGG
66 GAGG
* * *
19096254 ATGA-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCGATTTCAA
1 ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA
19096318 GAGG
66 GAGG
* * * * *
19096322 ATGA-CGTTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCGATTTCAA
1 ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA
19096386 GAGG
66 GAGG
* *
19096390 ATGA-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA
1 ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTC--
19096454 GAAGTCAGG
64 -AAG--AGG
* *
19096463 AAAAGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTC
1 --ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTC
19096528 AAGCAGTCAGG
64 -A--AG--AGG
* * *
19096539 AAAAGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTATTTCGATTTC
1 --ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTC
19096604 AAGCAGTCAGG
64 -A--AG--AGG
* *
19096615 AAAAGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTC
1 --ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTC
19096680 AAGCGGATTGGAG
64 AA---GA---G-G
* * * *
19096693 ATGATCTTTGCTCCTACTTCAATTTCAAAGATGAAGACTTGTTATCTACTCTACTTCAATTTCAA
1 ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA
*
19096758 GCGG
66 GAGG
19096762 AT
1 AT
19096764 TGGAAATGAT
Statistics
Matches: 470, Mismatches: 22, Indels: 35
0.89 0.04 0.07
Matches are distributed among these distances:
67 1 0.00
68 190 0.40
69 3 0.01
70 1 0.00
71 3 0.01
73 5 0.01
74 2 0.00
75 4 0.01
76 259 0.55
77 1 0.00
78 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (69 bp):
ATGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA
GAGG
Found at i:19096489 original size:39 final size:38
Alignment explanation
Indices: 19096439--19096643 Score: 151
Period size: 39 Copynumber: 5.4 Consensus size: 38
19096429 GTTATCCACT
19096439 CTACTTCAATTTCAAGAAGTCAGGAAAAGATCTTTGCTC
1 CTACTTCAATTTCAAG-AGTCAGGAAAAGATCTTTGCTC
* * * *
19096478 CTACTTCAATTTC-AGAG--A--TAAAGACTTGTTATCCAC
1 CTACTTCAATTTCAAGAGTCAGGAAAAGA--TCTT-TGCTC
19096514 TCTACTTCAATTTCAAGCAGTCAGGAAAAGATCTTTGCTC
1 -CTACTTCAATTTCAAG-AGTCAGGAAAAGATCTTTGCTC
* * * *
19096554 CTACTTCAATTTC-AGAG--A--TAAAGACGTGTTATCCAC
1 CTACTTCAATTTCAAGAGTCAGGAAAAGA--TCTT-TGCTC
* *
19096590 TCTATTTCGATTTCAAGCAGTCAGGAAAAGATCTTTGCTC
1 -CTACTTCAATTTCAAG-AGTCAGGAAAAGATCTTTGCTC
19096630 CTACTTCAATTTCA
1 CTACTTCAATTTCA
19096644 GAGATAAAGA
Statistics
Matches: 126, Mismatches: 20, Indels: 40
0.68 0.11 0.22
Matches are distributed among these distances:
33 10 0.08
35 8 0.06
36 6 0.05
37 28 0.22
38 8 0.06
39 42 0.33
40 6 0.05
41 8 0.06
43 10 0.08
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (38 bp):
CTACTTCAATTTCAAGAGTCAGGAAAAGATCTTTGCTC
Found at i:19096501 original size:33 final size:33
Alignment explanation
Indices: 19096464--19096653 Score: 110
Period size: 37 Copynumber: 5.2 Consensus size: 33
19096454 GAAGTCAGGA
19096464 AAAGATCTTTGCTCCTACTTCAATTTCAGAGAT
1 AAAGATCTTTGCTCCTACTTCAATTTCAGAGAT
* * * *
19096497 AAAGACTTGTTATCCACTCTACTTCAATTTCAAGCAGTCAGGA
1 AAAGA--TCTT-TGCTC-CTACTTCAATTTC-AG-AG--A--T
19096540 AAAGATCTTTGCTCCTACTTCAATTTCAGAGAT
1 AAAGATCTTTGCTCCTACTTCAATTTCAGAGAT
* * * * * *
19096573 AAAGACGTGTTATCCACTCTATTTCGATTTCAAGCAGTCAGGA
1 AAAGA--TCTT-TGCTC-CTACTTCAATTTC-AG-AG--A--T
19096616 AAAGATCTTTGCTCCTACTTCAATTTCAGAGAT
1 AAAGATCTTTGCTCCTACTTCAATTTCAGAGAT
19096649 AAAGA
1 AAAGA
19096654 CTTGTTATCC
Statistics
Matches: 117, Mismatches: 20, Indels: 40
0.66 0.11 0.23
Matches are distributed among these distances:
33 15 0.13
35 8 0.07
36 6 0.05
37 28 0.24
38 8 0.07
39 28 0.24
40 6 0.05
41 8 0.07
43 10 0.09
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (33 bp):
AAAGATCTTTGCTCCTACTTCAATTTCAGAGAT
Found at i:19096717 original size:39 final size:38
Alignment explanation
Indices: 19096664--19096776 Score: 115
Period size: 37 Copynumber: 3.0 Consensus size: 38
19096654 CTTGTTATCC
19096664 ACTCTACTTCAATTTCAAGCGGATTGGAGATGATCTTT
1 ACTCTACTTCAATTTCAAGCGGATTGGAGATGATCTTT
* * * * * *
19096702 GCTCCTACTTCAATTTCAA--AGA-TGAAGACTTGTTATCT
1 ACT-CTACTTCAATTTCAAGCGGATTGGAGA--TGATCTTT
*
19096740 ACTCTACTTCAATTTCAAGCGGATTGGAAATGATCTT
1 ACTCTACTTCAATTTCAAGCGGATTGGAGATGATCTT
19096777 GTTTGGTCTG
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
36 5 0.09
37 17 0.30
38 13 0.23
39 17 0.30
40 4 0.07
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (38 bp):
ACTCTACTTCAATTTCAAGCGGATTGGAGATGATCTTT
Found at i:19096759 original size:152 final size:143
Alignment explanation
Indices: 19096118--19096758 Score: 769
Period size: 152 Copynumber: 4.4 Consensus size: 143
19096108 GCCTTGTCTA
* * * * *
19096118 GCTCTTACTTCAATTTCAGAGATGAAGACTTGATATCCAGTTTTACTTCAATTTCAA-AAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAA-G-TA
* * * *
19096182 GGAAATGATC-TTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTATCCACTCTACTTCGATT
63 GGAAAAGATCTTTGCTCCTACTTCAATTTCAGAGAAAAAGACTTGTTATCCACTCTACTTCAATT
19096246 TCAAGAGGATGACGTT
128 TCAAGAGGATGACGTT
*
19096262 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCGATTTC---AAG-AGG-
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAAGTAGGA
* * * * *
19096322 -ATGA-CGTTGCTCTTACTTCAATTTCAGAGAAAAAGACATGTTATCCACTCTACTTCGATTTCA
66 AAAGATCTTTGCTCCTACTTCAATTTCAGAGAAAAAGACTTGTTATCCACTCTACTTCAATTTCA
19096385 AGAGGATGACGTT
131 AGAGGATGACGTT
19096398 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAAGTCAGG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAAGT-AGG
*
19096463 AAAAGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTC
65 AAAAGATCTTTGCTCCTACTTCAATTTCAGAGAAAAAGACTTGTTATCCACTCTACTTCAATTTC
* *
19096528 AAGCAGTCAGGAAAAGATCTTT
130 -A--AG--AGG--ATGA-CGTT
* * * *
19096550 GCTCCTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTATTTCGATTTCAAGCAGTCAGG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAAGT-AGG
*
19096615 AAAAGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTC
65 AAAAGATCTTTGCTCCTACTTCAATTTCAGAGAAAAAGACTTGTTATCCACTCTACTTCAATTTC
*
19096680 AAGCGGATTGGAGATGATCTTT
130 AA---GA---G-GATGA-CGTT
* * * * *
19096702 GCTCCTACTTCAATTTCAAAGATGAAGACTTGTTATCTACTCTACTTCAATTTCAAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAG
19096759 CGGATTGGAA
Statistics
Matches: 446, Mismatches: 27, Indels: 40
0.87 0.05 0.08
Matches are distributed among these distances:
135 1 0.00
136 126 0.28
138 3 0.01
139 3 0.01
140 1 0.00
141 5 0.01
143 15 0.03
144 89 0.20
145 1 0.00
147 2 0.00
149 4 0.01
150 1 0.00
151 4 0.01
152 189 0.42
153 1 0.00
154 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (143 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAAGTAGGA
AAAGATCTTTGCTCCTACTTCAATTTCAGAGAAAAAGACTTGTTATCCACTCTACTTCAATTTCA
AGAGGATGACGTT
Found at i:19108703 original size:30 final size:29
Alignment explanation
Indices: 19108669--19108934 Score: 289
Period size: 30 Copynumber: 8.9 Consensus size: 29
19108659 GGATTTAGGG
* * *
19108669 AAGTTTGGGGGTAAAAATGGTAATTTTTGA
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGA
* * * *
19108699 AAGTTTCGAGGTCAAAGTATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGG-A
*
19108729 AAGTTTTGGAGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGG-A
*
19108759 AAGTTTTGGGGTCAAAAATATAATTTTGGAA
1 AAGTTTTGGGGTC-AAAATGTAATTTTGG-A
*
19108790 AAGTTTTGGGGTCAAAATGTAATTTTTAGA
1 AAGTTTTGGGGTCAAAATGTAA-TTTTGGA
* *
19108820 AAGTTTCGGGGTCAAAATATAATTTTGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGA
* * *
19108849 AAGTTTTGGAGTCAAAATGAAATTTTCAGA
1 AAGTTTTGGGGTCAAAATGTAATTTT-GGA
* * *
19108879 AAGTTTCGGGATCAAAATATAATTTTGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTT-GGA
*
19108909 AAGTTTTGGGGTGAAAATGTAATTTT
1 AAGTTTTGGGGTCAAAATGTAATTTT
19108935 TGGACAACTT
Statistics
Matches: 198, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
29 36 0.18
30 128 0.65
31 34 0.17
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGA
Found at i:19108733 original size:60 final size:59
Alignment explanation
Indices: 19108669--19108936 Score: 367
Period size: 60 Copynumber: 4.5 Consensus size: 59
19108659 GGATTTAGGG
* * * *
19108669 AAGTTTGGGGGTAAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAGTATAATTTTGGAA
1 AAGTTTTGGGGTCAAAAT-GTAATTTTTGAAAGTTTCGGGGTCAAAATATAATTTTGGAA
* * *
19108729 AAGTTTTGGAGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTTG-AAAGTTTCGGGGTC-AAAATATAATTTTGGAA
19108790 AAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTCGGGGTCAAAATATAATTTTGG-A
1 AAGTTTTGGGGTCAAAATGTAATTTTT-GAAAGTTTCGGGGTCAAAATATAATTTTGGAA
* * * * *
19108849 AAGTTTTGGAGTCAAAATGAAATTTTCAGAAAGTTTCGGGATCAAAATATAATTTTGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTT-TGAAAGTTTCGGGGTCAAAATATAATTTTGGAA
*
19108909 AAGTTTTGGGGTGAAAATGTAATTTTTG
1 AAGTTTTGGGGTCAAAATGTAATTTTTG
19108937 GACAACTTAG
Statistics
Matches: 185, Mismatches: 18, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
59 64 0.35
60 66 0.36
61 54 0.29
62 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.36
Consensus pattern (59 bp):
AAGTTTTGGGGTCAAAATGTAATTTTTGAAAGTTTCGGGGTCAAAATATAATTTTGGAA
Found at i:19108880 original size:59 final size:59
Alignment explanation
Indices: 19108682--19108934 Score: 355
Period size: 59 Copynumber: 4.2 Consensus size: 59
19108672 TTTGGGGGTA
* * *
19108682 AAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAGTATAATTTTGGAAAAGTTTTGGAGTC
1 AAAAT-GTAATTTTAGAAAGTTTCGGGGTCAAAATATAATTTTGGAAAAGTTTTGGAGTC
* * *
19108742 AAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAAATATAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTAG-AAAGTTTCGGGGTC-AAAATATAATTTTGGAAAAGTTTTGGAGTC
19108803 AAAATGTAATTTTTAGAAAGTTTCGGGGTCAAAATATAATTTTGG-AAAGTTTTGGAGTC
1 AAAATGTAA-TTTTAGAAAGTTTCGGGGTCAAAATATAATTTTGGAAAAGTTTTGGAGTC
* * * * *
19108862 AAAATGAAATTTTCAGAAAGTTTCGGGATCAAAATATAATTTTGGGAAAGTTTTGGGGTG
1 AAAATGTAATTTT-AGAAAGTTTCGGGGTCAAAATATAATTTTGGAAAAGTTTTGGAGTC
19108922 AAAATGTAATTTT
1 AAAATGTAATTTT
19108935 TGGACAACTT
Statistics
Matches: 175, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
58 4 0.02
59 60 0.34
60 56 0.32
61 50 0.29
62 5 0.03
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (59 bp):
AAAATGTAATTTTAGAAAGTTTCGGGGTCAAAATATAATTTTGGAAAAGTTTTGGAGTC
Found at i:19110065 original size:13 final size:13
Alignment explanation
Indices: 19110045--19110129 Score: 56
Period size: 13 Copynumber: 6.7 Consensus size: 13
19110035 AGTTTTTAAT
19110045 ATTATTAATTATTA
1 ATTATTAA-TATTA
19110059 A-TATTAACTA-TA
1 ATTATTAA-TATTA
* *
19110071 ATCATAAATATTA
1 ATTATTAATATTA
19110084 ATTA-TAATTATTA
1 ATTATTAA-TATTA
19110097 ATTA-TAATGATT-
1 ATTATTAAT-ATTA
*
19110109 ATTAATAATATT-
1 ATTATTAATATTA
*
19110121 TTTATTAAT
1 ATTATTAAT
19110130 GATATTGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
12 22 0.37
13 36 0.61
14 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (13 bp):
ATTATTAATATTA
Found at i:19110104 original size:19 final size:19
Alignment explanation
Indices: 19110045--19110120 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 19
19110035 AGTTTTTAAT
19110045 ATTATTAATTATTAATATTA
1 ATTA-TAATTATTAATATTA
* * *
19110065 ACTATAATCATAAATATTA
1 ATTATAATTATTAATATTA
19110084 ATTATAATTATTAAT-TATA
1 ATTATAATTATTAATAT-TA
* * *
19110103 ATGATTATTAATAATATT
1 ATTATAATTATTAATATT
19110121 TTTATTAATG
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
18 1 0.02
19 40 0.89
20 4 0.09
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (19 bp):
ATTATAATTATTAATATTA
Found at i:19110727 original size:28 final size:27
Alignment explanation
Indices: 19110684--19110753 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 27
19110674 TTCAGCCCAA
19110684 TTGGGCTTTTGTAATCGGGCCTTTAAT
1 TTGGGCTTTTGTAATCGGGCCTTTAAT
19110711 TTGGGCTTCTTGTAATCGGGCCTTTAAT
1 TTGGGCTT-TTGTAATCGGGCCTTTAAT
19110739 TTGGGCTTTTTGTAA
1 TTGGGC-TTTTGTAA
19110754 ATGGACATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 8 0.20
28 31 0.76
29 2 0.05
ACGTcount: A:0.14, C:0.14, G:0.26, T:0.46
Consensus pattern (27 bp):
TTGGGCTTTTGTAATCGGGCCTTTAAT
Found at i:19110812 original size:17 final size:17
Alignment explanation
Indices: 19110792--19110856 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
19110782 TTAATATTAT
* *
19110792 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
19110809 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
19110826 --T-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
19110840 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
19110857 AATGAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 1 0.03
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:19110819 original size:11 final size:11
Alignment explanation
Indices: 19110805--19110875 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
19110795 AAATTAAGTT
19110805 TAAATTTAAAA
1 TAAATTTAAAA
19110816 TAAATTT-AAA
1 TAAATTTAAAA
* *
19110826 T-AA-GTAAATT
1 TAAATTTAAA-A
*
19110836 TAAATTTAAGA
1 TAAATTTAAAA
19110847 TAAATTTAAAAA
1 TAAATTT-AAAA
*
19110859 TGAATTTAAAA
1 TAAATTTAAAA
*
19110870 TTAATT
1 TAAATT
19110876 CAAACTTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:19110841 original size:31 final size:29
Alignment explanation
Indices: 19110776--19110873 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 29
19110766 TTTTAATTTA
* * * * *
19110776 TTAAATTTAATAT-TATTTTAAATTAAGT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
19110804 TTAAATTTAAAATAAATTTAAATAAGTAAAT
1 TTAAATTTAAAATAAATTTAAA-AA-TAAAT
* *
19110835 TTAAATTTAAGATAAATTTAAAAATGAAT
1 TTAAATTTAAAATAAATTTAAAAATAAAT
*
19110864 TTAAAATTAA
1 TTAAATTTAA
19110874 TTCAAACTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.20
29 19 0.32
30 3 0.05
31 25 0.42
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (29 bp):
TTAAATTTAAAATAAATTTAAAAATAAAT
Found at i:19112611 original size:46 final size:47
Alignment explanation
Indices: 19112508--19112599 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 47
19112498 GTGAATTTAT
* **
19112508 TTCTTTTATATATTTATACATATTATTTATAAATTTATTAATTTGTAC
1 TTCTTTTATATATTTATA-ATATTATTTATAAATTTATAAATTAATAC
19112556 TTCTTTTATATATTTAT-ATATT-TTTATAAATTTATAAAATTAAT
1 TTCTTTTATATATTTATAATATTATTTATAAATTTAT-AAATTAAT
19112600 TTTTTATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
45 13 0.32
46 10 0.25
48 17 0.43
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (47 bp):
TTCTTTTATATATTTATAATATTATTTATAAATTTATAAATTAATAC
Found at i:19112688 original size:16 final size:17
Alignment explanation
Indices: 19112667--19112704 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
19112657 GAATTTTTTT
*
19112667 TATTTTTT-TAATTTTA
1 TATTTTTTATAAATTTA
19112683 -ATTTTTTATAAATTTA
1 TATTTTTTATAAATTTA
19112699 TATTTT
1 TATTTT
19112705 ATATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTTATAAATTTA
Found at i:19112719 original size:24 final size:22
Alignment explanation
Indices: 19112673--19112719 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
19112663 TTTTTATTTT
* *
19112673 TTTAATTTTAATTTTTTATAAA
1 TTTAATTTTAATTTTTAAAAAA
19112695 TTTATATTTTATATTTTTAAAAAA
1 TTTA-ATTTTA-ATTTTTAAAAAA
19112719 T
1 T
19112720 AATAACCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 6 0.29
24 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTAATTTTAATTTTTAAAAAA
Found at i:19115054 original size:49 final size:49
Alignment explanation
Indices: 19114873--19115046 Score: 199
Period size: 49 Copynumber: 3.6 Consensus size: 49
19114863 CCACACGACC
* * * * * * * *
19114873 GTGTGGGTAGGTCGTGTGGGACACACGACCATGTGTAATTTTGTAACCCAT
1 GTGTAGGTAGGCCATGTGGGGCACACGATCGTGTGTGATTTTGT-AGCC-T
*
19114924 GTGT--GTAGGCCATGTGGGGCACACGATCGTGAGTGATTTTGTAGCCT
1 GTGTAGGTAGGCCATGTGGGGCACACGATCGTGTGTGATTTTGTAGCCT
* ** *
19114971 GTGTGGGTAGGCCATGTGGGGCACAATATCGTGTGTGATTTTGTAGCTT
1 GTGTAGGTAGGCCATGTGGGGCACACGATCGTGTGTGATTTTGTAGCCT
19115020 GTGTAGGTAGGCCATGTGGGGCACACG
1 GTGTAGGTAGGCCATGTGGGGCACACG
19115047 GCTGTGTGAA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
47 5 0.05
48 3 0.03
49 94 0.89
51 4 0.04
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.29
Consensus pattern (49 bp):
GTGTAGGTAGGCCATGTGGGGCACACGATCGTGTGTGATTTTGTAGCCT
Found at i:19117105 original size:18 final size:18
Alignment explanation
Indices: 19117082--19117120 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19117072 TGAACTTTCT
19117082 TTTTTTAATTTG-ACTTTA
1 TTTTTTAATTTGTA-TTTA
*
19117100 TTTTTTATTTTGTATTTA
1 TTTTTTAATTTGTATTTA
19117118 TTT
1 TTT
19117121 GATTGGGCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTTAATTTGTATTTA
Found at i:19117438 original size:5 final size:5
Alignment explanation
Indices: 19117421--19117530 Score: 82
Period size: 5 Copynumber: 22.0 Consensus size: 5
19117411 GGGATAGGAC
* ** * * * *
19117421 ATGAT ATGTT ATGAT ATGAT ATGAT -TCTTT TTGTT ATGAT ATTAC ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT AT-GAT ATGAT ATGAT ATGAT ATGAT
* * *
19117471 ATGTT ATGAT ATGAT ATGAT -TCGTT ATGAT ATGAT ATGAT -TCATT ATGAT
1 ATGAT ATGAT ATGAT ATGAT AT-GAT ATGAT ATGAT ATGAT ATGA-T ATGAT
19117521 ATGAT ATGAT
1 ATGAT ATGAT
19117531 TCATTATGTT
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
4 4 0.05
5 74 0.90
6 4 0.05
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (5 bp):
ATGAT
Found at i:19117444 original size:20 final size:19
Alignment explanation
Indices: 19117421--19117531 Score: 105
Period size: 20 Copynumber: 5.3 Consensus size: 19
19117411 GGGATAGGAC
19117421 ATGATATGTTATGATATGAT
1 ATGAT-TGTTATGATATGAT
* *
19117441 ATGATTCTTTTTGTTATGATATTAC
1 ATGA-----TT-GTTATGATATGAT
19117466 ATGATATGTTATGATATGAT
1 ATGAT-TGTTATGATATGAT
19117486 ATGATTCGTTATGATATGAT
1 ATGATT-GTTATGATATGAT
*
19117506 ATGATTCATTATGATATGAT
1 ATGATT-GTTATGATATGAT
19117526 ATGATT
1 ATGATT
19117532 CATTATGTTA
Statistics
Matches: 78, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
19 1 0.01
20 59 0.76
21 1 0.01
24 1 0.01
25 16 0.21
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.48
Consensus pattern (19 bp):
ATGATTGTTATGATATGAT
Found at i:19117483 original size:45 final size:43
Alignment explanation
Indices: 19117413--19117544 Score: 155
Period size: 45 Copynumber: 3.0 Consensus size: 43
19117403 AGCGGATGGG
*
19117413 GATAGGACATGATATGTTATGATATGATATGATTCTTTTTGTTAT
1 GATATGACATGATATGTTATGATATGATATGATTC--TTTGTTAT
*
19117458 GATATTACATGATATGTTATGATATGATATGATTC---GTTAT
1 GATATGACATGATATGTTATGATATGATATGATTCTTTGTTAT
* *
19117498 GATATGATATGAT-TCATTATGATATGATATGATTCATTATGTTAT
1 GATATGACATGATAT-GTTATGATATGATATGATTC-TT-TGTTAT
19117543 GA
1 GA
19117545 CACGTTCTGA
Statistics
Matches: 76, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
39 1 0.01
40 35 0.46
45 40 0.53
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (43 bp):
GATATGACATGATATGTTATGATATGATATGATTCTTTGTTAT
Found at i:19117497 original size:40 final size:40
Alignment explanation
Indices: 19117413--19117546 Score: 153
Period size: 40 Copynumber: 3.2 Consensus size: 40
19117403 AGCGGATGGG
*
19117413 GATAGGACATGATATGTTATGATATGATATGATTCTTTTTGTTAT
1 GATATGACATGATATGTTATGATATGATATGATTC-----GTTAT
*
19117458 GATATTACATGATATGTTATGATATGATATGATTCGTTAT
1 GATATGACATGATATGTTATGATATGATATGATTCGTTAT
* * *
19117498 GATATGATATGAT-TCATTATGATATGATATGATTCATTAT
1 GATATGACATGATAT-GTTATGATATGATATGATTCGTTAT
*
19117538 GTTATGACA
1 GATATGACA
19117547 CGTTCTGATT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 46 0.57
45 33 0.41
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (40 bp):
GATATGACATGATATGTTATGATATGATATGATTCGTTAT
Found at i:19117532 original size:20 final size:20
Alignment explanation
Indices: 19117474--19117544 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
19117464 ACATGATATG
*
19117474 TTATGATATGATATGATTCG
1 TTATGATATGATATGATTCA
19117494 TTATGATATGATATGATTCA
1 TTATGATATGATATGATTCA
19117514 TTATGATATGATATGATTCA
1 TTATGATATGATATGATTCA
*
19117534 TTATGTTATGA
1 TTATGATATGA
19117545 CACGTTCTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
TTATGATATGATATGATTCA
Found at i:19121047 original size:18 final size:18
Alignment explanation
Indices: 19121000--19121047 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
19120990 GCTTGTCCTC
19121000 AAGCAAACAAAGCAAGAA
1 AAGCAAACAAAGCAAGAA
* *
19121018 AAGCGAATAAAGCAAGAA
1 AAGCAAACAAAGCAAGAA
19121036 AAGCAAACAAAG
1 AAGCAAACAAAG
19121048 GAGCTTGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.65, C:0.15, G:0.19, T:0.02
Consensus pattern (18 bp):
AAGCAAACAAAGCAAGAA
Found at i:19125195 original size:269 final size:269
Alignment explanation
Indices: 19124715--19125256 Score: 987
Period size: 269 Copynumber: 2.0 Consensus size: 269
19124705 AAAAGGTAGA
*
19124715 AGAGAAAAAGGAACAAGATGACGAGGATTTTGTAAGTTTTCTAAATCTATTTAAATGTCAACTTA
1 AGAGAAAAAGGAACAAGATGACGAGGACTTTGTAAGTTTTCTAAATCTATTTAAATGTCAACTTA
* *
19124780 CCTTTGATTGAACTTATAAATAAGGTACCGAAATACGCCAAGTTCTTGAAGGAGATTATGTCAAG
66 CCTTTGATTGAACTTATAAATAAGGTACCGAAATACGCCAAGTTCTTAAAGGAGATTATATCAAG
19124845 GCGTAGAATAATCAAGGTAGGTGTGCAAGTGGAAGTGAATGCGTCTTGCAACACTATTATCTCTA
131 GCGTAGAATAATCAAGGTAGGTGTGCAAGTGGAAGTGAATGCGTCTTGCAACACTATTATCTCTA
*
19124910 AAAAAATTCATCAAAAGTTGAAGGATCCCGACAGTTTTACAATTCCAATCAAGGTTGGGAACTTT
196 AAAAAATTCATCAAAAGTTGAAGGATCCCGACAGTTTTACAATTCCAATCAAGGTTGGGAACCTT
*
19124975 CAGTTCAAC
261 CAGTTAAAC
*
19124984 AGAGAAAAAGGAACAAGATGAGGAGGACTTTGTAAGTTTTCTAAATCTATTTAAATGTCAACTTA
1 AGAGAAAAAGGAACAAGATGACGAGGACTTTGTAAGTTTTCTAAATCTATTTAAATGTCAACTTA
19125049 CCTTTGATTGAACTTATAAATAAGGTACCGAAATACGCCAAGTTCTTAAAGGAGATTATATCAAG
66 CCTTTGATTGAACTTATAAATAAGGTACCGAAATACGCCAAGTTCTTAAAGGAGATTATATCAAG
*
19125114 GCGTAGAATAATCAAGGTAGGTGTGCAAGTGGAAGTGAATGTC-TCTTGCAGCACTATTATCTCT
131 GCGTAGAATAATCAAGGTAGGTGTGCAAGTGGAAGTGAATG-CGTCTTGCAACACTATTATCTCT
* *
19125178 AAAAAAATTCCTCAAAAGTTGAAGGATCCCGACAGTTTTACAATTCCAATCAAGGTTTGGAACCT
195 AAAAAAATTCATCAAAAGTTGAAGGATCCCGACAGTTTTACAATTCCAATCAAGGTTGGGAACCT
19125243 TCAGTTAAAC
260 TCAGTTAAAC
19125253 AGAG
1 AGAG
19125257 CCTTATGTGA
Statistics
Matches: 263, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
269 262 1.00
270 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (269 bp):
AGAGAAAAAGGAACAAGATGACGAGGACTTTGTAAGTTTTCTAAATCTATTTAAATGTCAACTTA
CCTTTGATTGAACTTATAAATAAGGTACCGAAATACGCCAAGTTCTTAAAGGAGATTATATCAAG
GCGTAGAATAATCAAGGTAGGTGTGCAAGTGGAAGTGAATGCGTCTTGCAACACTATTATCTCTA
AAAAAATTCATCAAAAGTTGAAGGATCCCGACAGTTTTACAATTCCAATCAAGGTTGGGAACCTT
CAGTTAAAC
Found at i:19136960 original size:19 final size:19
Alignment explanation
Indices: 19136936--19136974 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19136926 CACATACTAA
19136936 TCCCCCATAAAGGGATTAG
1 TCCCCCATAAAGGGATTAG
19136955 TCCCCCATAAAGGGATTAG
1 TCCCCCATAAAGGGATTAG
19136974 T
1 T
19136975 TCCTCATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (19 bp):
TCCCCCATAAAGGGATTAG
Found at i:19137309 original size:24 final size:24
Alignment explanation
Indices: 19137281--19137330 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
19137271 CGTCATCCTC
19137281 AACCCTAGGTCAACTGACATTCTT
1 AACCCTAGGTCAACTGACATTCTT
* *
19137305 AACCCTAGGTCAATTGACGTTCTT
1 AACCCTAGGTCAACTGACATTCTT
19137329 AA
1 AA
19137331 GCTTAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (24 bp):
AACCCTAGGTCAACTGACATTCTT
Found at i:19139821 original size:70 final size:67
Alignment explanation
Indices: 19139722--19139854 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
19139712 TCTGAATAAG
* * * * *
19139722 AAAAGGCAAAACTATGTCGTTTTGATAAATGTTTACCCTTTCTAAAGTTAAAAGTCAAAATCATT
1 AAAAGGCAAAACTATGCCATTTTGATAAATGTTTACCC-AT-T-AAGTTAAAAGGCAAAACCATT
19139787 AAGTT
63 AAGTT
* *
19139792 AAAAGGTAAAATTATGCCATTTTGATAAATGTTTACCCATTAAGTTAAAAGGCAAAACCATTA
1 AAAAGGCAAAACTATGCCATTTTGATAAATGTTTACCCATTAAGTTAAAAGGCAAAACCATTA
19139855 TATTATTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 20 0.36
68 1 0.02
69 1 0.02
70 34 0.61
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (67 bp):
AAAAGGCAAAACTATGCCATTTTGATAAATGTTTACCCATTAAGTTAAAAGGCAAAACCATTAAG
TT
Found at i:19143892 original size:18 final size:17
Alignment explanation
Indices: 19143869--19143903 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19143859 TTTATATTAC
*
19143869 CAATTCATATCATCATTT
1 CAATTCAAAT-ATCATTT
19143887 CAATTCAAATATCATTT
1 CAATTCAAATATCATTT
19143904 ATCCAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (17 bp):
CAATTCAAATATCATTT
Found at i:19151234 original size:19 final size:19
Alignment explanation
Indices: 19151212--19151249 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19151202 TTAACAGACT
19151212 TCAACTGACAATAACTAAA
1 TCAACTGACAATAACTAAA
* *
19151231 TCAACTGCCAGTAACTAAA
1 TCAACTGACAATAACTAAA
19151250 CTTAACAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (19 bp):
TCAACTGACAATAACTAAA
Found at i:19151987 original size:17 final size:17
Alignment explanation
Indices: 19151962--19152003 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
19151952 TTACTAACAC
*
19151962 AAATACAATATAAATAT
1 AAATACAATACAAATAT
* *
19151979 AAGTACAATACAATTAT
1 AAATACAATACAAATAT
19151996 AAATACAA
1 AAATACAA
19152004 AATAGAATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATACAATACAAATAT
Found at i:19152495 original size:11 final size:11
Alignment explanation
Indices: 19152476--19152561 Score: 63
Period size: 11 Copynumber: 8.0 Consensus size: 11
19152466 TTTGATTTTT
*
19152476 TTAAGTTTAAA
1 TTAAATTTAAA
*
19152487 TTAATTTTAAA
1 TTAAATTTAAA
**
19152498 TTTTATTTAAA
1 TTAAATTTAAA
19152509 TTTAAATTT--A
1 -TTAAATTTAAA
*
19152519 TT-TATTTAAA
1 TTAAATTTAAA
* *
19152529 TTTATTTTAAA
1 TTAAATTTAAA
19152540 TTTAAATTT-AA
1 -TTAAATTTAAA
19152551 TTAAATTTAAA
1 TTAAATTTAAA
19152562 ATGATATTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
8 4 0.07
9 2 0.03
10 12 0.21
11 28 0.48
12 12 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:19152536 original size:42 final size:41
Alignment explanation
Indices: 19152481--19152559 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 41
19152471 TTTTTTTAAG
*
19152481 TTTAAATTAATTTTAAATTT-TATTTAAATTTAAATTTATTTA
1 TTTAAATTAATTTTAAATTTAAATTT-AA-TTAAATTTATTTA
*
19152523 TTTAAATTTATTTTAAATTTAAATTTAATTAAATTTA
1 TTTAAATTAATTTTAAATTTAAATTTAATTAAATTTA
19152560 AAATGATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
41 9 0.26
42 21 0.62
43 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (41 bp):
TTTAAATTAATTTTAAATTTAAATTTAATTAAATTTATTTA
Found at i:19152560 original size:6 final size:6
Alignment explanation
Indices: 19152475--19152561 Score: 76
Period size: 6 Copynumber: 15.0 Consensus size: 6
19152465 TTTTGATTTT
* * * *
19152475 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTTATTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
*
19152523 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
19152562 ATGATATTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
4 2 0.03
5 16 0.25
6 42 0.65
8 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Done.