Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 251 of 292
Found at i:72907622 original size:3 final size:3
Alignment explanation
Indices: 72907614--72907651 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
72907604 TTTTTATTTT
72907614 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
72907652 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:72907812 original size:12 final size:13
Alignment explanation
Indices: 72907780--72907816 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
72907770 GCATGACATT
*
72907780 TTTATTTTATCT-
1 TTTATTTTATTTA
72907792 TTTATTTTATTTA
1 TTTATTTTATTTA
72907805 TTTA-TTTATTTA
1 TTTATTTTATTTA
72907817 CCTATCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:72914890 original size:9 final size:9
Alignment explanation
Indices: 72914873--72914909 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
72914863 TGAGTTTTCG
72914873 AATTCGAAT
1 AATTCGAAT
*
72914882 AACTCGAAT
1 AATTCGAAT
72914891 AATTCGAAT
1 AATTCGAAT
72914900 AATTCGAAT
1 AATTCGAAT
72914909 A
1 A
72914910 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:72916468 original size:57 final size:55
Alignment explanation
Indices: 72916391--72916816 Score: 257
Period size: 57 Copynumber: 7.5 Consensus size: 55
72916381 AAATTTTTCG
*
72916391 GGTGCTGGTCTTCTAATGGCCGGCACCAGTACAAAAATATGAGGAATTTTTTTTTTT
1 GGTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATAT-A-GAATTTTTTTTTTT
* ** * *
72916448 TGTGCTGGCCTTCTAATGGCCGGCACCACTGTAGTAAAA-A-A-AATTTGAAATTTTTTA
1 GGTGCTGGCCTTCTAATGGCCGGCACCA--GTACAAAAATATAGAATTT---TTTTTTTT
* * * ***
72916505 GGTGCTAGTCTTCTAATGGTCGGCACCAGTACAAAAATATCAGGAAAAAAAATTTTTTTT
1 GGTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATAT-A-G---AATTTTTTTTTTT
* **
72916565 GGTGCTGGCCTTCTAATGGTCGGCACCACTGTA-ATAAAA-A-A-AATTCAAATTTTTTT
1 GGTGCTGGCCTTCTAATGGCCGGCACCA--GTACA-AAAATATAGAATT--TTTTTTTTT
* * *
72916621 GTGTGCTAGTCTTCTAATGGCTGGCACCAGTACAAAAATATTAGAATTTTTTTTTTT
1 G-GTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATA-TAGAATTTTTTTTTTT
* * ** ** **
72916678 -GTGCTAGCCTTCTAATGGTCGATACCACTGTAGTAAAA-A-A-AATTCAAAATTTTTTT
1 GGTGCTGGCCTTCTAATGGCCGGCACCA--GTACAAAAATATAGAATT---TTTTTTTTT
* * *
72916734 GGTGCTGGTCTTTTAATGGCCAGCACCAGTACAAAAATATTAGGAA--TTTTTTTTT
1 GGTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATA-TA-GAATTTTTTTTTTT
*
72916789 GGTGCTGACCTTCTAATGGCCGGCACCA
1 GGTGCTGGCCTTCTAATGGCCGGCACCA
72916817 AACCTTATAT
Statistics
Matches: 282, Mismatches: 52, Indels: 72
0.69 0.13 0.18
Matches are distributed among these distances:
53 4 0.01
54 8 0.03
55 74 0.26
56 22 0.08
57 113 0.40
58 4 0.01
59 12 0.04
60 34 0.12
61 2 0.01
62 7 0.02
63 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (55 bp):
GGTGCTGGCCTTCTAATGGCCGGCACCAGTACAAAAATATAGAATTTTTTTTTTT
Found at i:72916731 original size:112 final size:113
Alignment explanation
Indices: 72916333--72916816 Score: 625
Period size: 112 Copynumber: 4.2 Consensus size: 113
72916323 AAAAAATTTA
* * * * *
72916333 GTGCTGGCCTTCTAATGGCCGGCACCACTCTAGGAAAAAAAAATTTCAAAATTTTTCGGGTGCTG
1 GTGCTGGCCTTCTAATGGCCGGCACCACTGTA-GTAAAAAAAA-TTCAAAATTTTTTGTGTGCTA
* *
72916398 GTCTTCTAATGGCCGGCACCAGTACAAAAATATGAGGAATTTTTTTTTTTT
64 GTCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAA-TTTTTTTTTTG
**
72916449 GTGCTGGCCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAATTTGAAATTTTTTAG-GTGCTAG
1 GTGCTGGCCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAATTCAAAATTTTTT-GTGTGCTAG
* * **
72916513 TCTTCTAATGGTCGGCACCAGTACAAAAATATCAGGAAAAAAAATTTTTTTTG
65 TCTTCTAATGGCCGGCACCAGTACAAAAATATTAGG----AATTTTTTTTTTG
* * *
72916566 GTGCTGGCCTTCTAATGGTCGGCACCACTGTAATAAAAAAAATTCAAATTTTTTTGTGTGCTAGT
1 GTGCTGGCCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAATTCAAAATTTTTTGTGTGCTAGT
* *
72916631 CTTCTAATGGCTGGCACCAGTACAAAAATATTA-GAATTTTTTTTTTT
66 CTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAATTTTTTTTTTG
* * ** *
72916678 GTGCTAGCCTTCTAATGGTCGATACCACTGTAGTAAAAAAAATTCAAAATTTTTT-TGGTGCTGG
1 GTGCTGGCCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAATTCAAAATTTTTTGT-GTGCTAG
* *
72916742 TCTTTTAATGGCCAGCACCAGTACAAAAATATTAGGAA-TTTTTTTTTG
65 TCTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAATTTTTTTTTTG
*
72916790 GTGCTGACCTTCTAATGGCCGGCACCA
1 GTGCTGGCCTTCTAATGGCCGGCACCA
72916817 AACCTTATAT
Statistics
Matches: 323, Mismatches: 37, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
111 1 0.00
112 128 0.40
113 3 0.01
114 50 0.15
115 10 0.03
116 33 0.10
117 96 0.30
118 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (113 bp):
GTGCTGGCCTTCTAATGGCCGGCACCACTGTAGTAAAAAAAATTCAAAATTTTTTGTGTGCTAGT
CTTCTAATGGCCGGCACCAGTACAAAAATATTAGGAATTTTTTTTTTG
Found at i:72916967 original size:28 final size:27
Alignment explanation
Indices: 72916927--72916994 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 27
72916917 ATCATCAAAT
72916927 GAGTT-TTT-TAGTGGATTGTATA-AG
1 GAGTTATTTGTAGTGGATTGTATATAG
*
72916951 GAAGTTTGTTTGTAGTGGATTGTATATAG
1 G-AG-TTATTTGTAGTGGATTGTATATAG
72916980 GAGTTATTTGTAGTG
1 GAGTTATTTGTAGTG
72916995 TACAACCGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 1 0.03
25 2 0.05
26 2 0.05
27 14 0.37
28 16 0.42
29 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (27 bp):
GAGTTATTTGTAGTGGATTGTATATAG
Found at i:72920601 original size:23 final size:23
Alignment explanation
Indices: 72920575--72920635 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
72920565 TCTCCAATTT
72920575 AATTTCATTTCAATTTTATTTCC
1 AATTTCATTTCAATTTTATTTCC
* * *
72920598 AATTTAATTTCTATTTTTATTTTC
1 AATTTCATTTC-AATTTTATTTCC
*
72920622 -ATTTCATTTAAATT
1 AATTTCATTTCAATT
72920636 AAATTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 3 0.10
23 18 0.58
24 10 0.32
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (23 bp):
AATTTCATTTCAATTTTATTTCC
Found at i:72920653 original size:21 final size:20
Alignment explanation
Indices: 72920627--72920675 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
72920617 TTTTCATTTC
*
72920627 ATTTAAATTAAATTTTTTTAA
1 ATTTAAATT-AATTTTTTGAA
* *
72920648 ATTTAACATTTATTTTTTGCA
1 ATTTAA-ATTAATTTTTTGAA
72920669 ATTTAAA
1 ATTTAAA
72920676 ATGTATTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.83
22 3 0.12
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTAAATTAATTTTTTGAA
Found at i:72920682 original size:21 final size:21
Alignment explanation
Indices: 72920638--72920683 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
72920628 TTTAAATTAA
* * *
72920638 ATTTTTTTAAATTTAACATTT
1 ATTTTTTGAAATTTAAAATGT
*
72920659 ATTTTTTGCAATTTAAAATGT
1 ATTTTTTGAAATTTAAAATGT
72920680 ATTT
1 ATTT
72920684 CCATTAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (21 bp):
ATTTTTTGAAATTTAAAATGT
Found at i:72920920 original size:22 final size:23
Alignment explanation
Indices: 72920869--72920920 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
72920859 ATTATTTATA
*
72920869 TTACA-TTTCAATTTCATTACCC
1 TTACATTTTCAATTTCATTACAC
* * *
72920891 TTATATTTTCAA-TTCATTTCAT
1 TTACATTTTCAATTTCATTACAC
72920913 TTACATTT
1 TTACATTT
72920921 CTATTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (23 bp):
TTACATTTTCAATTTCATTACAC
Found at i:72920946 original size:21 final size:22
Alignment explanation
Indices: 72920922--72920970 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
72920912 TTTACATTTC
*
72920922 TATTTTTTTAA-ATTTCCCTTA
1 TATTTTTTCAATATTTCCCTTA
72920943 TA--TTTTCAATTATTTCCCTTA
1 TATTTTTTCAA-TATTTCCCTTA
72920964 TATTTTT
1 TATTTTT
72920971 CCATTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 6 0.26
21 14 0.61
23 3 0.13
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTTTTCAATATTTCCCTTA
Found at i:72921032 original size:16 final size:15
Alignment explanation
Indices: 72920973--72921043 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
72920963 ATATTTTTCC
*
72920973 ATTTAAATTTATTTT
1 ATTTTAATTTATTTT
*
72920988 -TTTGAA-TT-TTTT
1 ATTTTAATTTATTTT
*
72921000 ATTTTAGTATTTGTTTT
1 ATTTTA--ATTTATTTT
72921017 CATTTTAATTTATTTTT
1 -ATTTTAATTTA-TTTT
72921034 ATTTTAATTT
1 ATTTTAATTT
72921044 CTAAATATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
12 4 0.09
13 6 0.13
14 5 0.11
15 1 0.02
16 16 0.35
17 8 0.17
18 6 0.13
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.70
Consensus pattern (15 bp):
ATTTTAATTTATTTT
Found at i:72934732 original size:15 final size:15
Alignment explanation
Indices: 72934712--72934741 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72934702 ATAATCTTAT
72934712 TTAATAATAAATTTA
1 TTAATAATAAATTTA
*
72934727 TTAATAATTAATTTA
1 TTAATAATAAATTTA
72934742 ATTTTTGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATAATAAATTTA
Found at i:72934887 original size:17 final size:17
Alignment explanation
Indices: 72934853--72934887 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
72934843 CTTTACTCAT
72934853 ATTTAATTTTAATTTTA
1 ATTTAATTTTAATTTTA
72934870 ATTT-ATTTTAATTATTA
1 ATTTAATTTTAATT-TTA
72934887 A
1 A
72934888 ATACGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTAATTTTAATTTTA
Found at i:72940897 original size:60 final size:60
Alignment explanation
Indices: 72940829--72940943 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 60
72940819 CAAAAATATC
* * *
72940829 TTTAAAGATAACATATAATATATAATGAAAAGTATTATTTGAAATTAATTAATAAATGTG
1 TTTAAAGATAACATACAATAAATAATAAAAAGTATTATTTGAAATTAATTAATAAATGTG
* *
72940889 TTTAAAGATAACATACAATAAATAATAAAAAGTATTGTTTGGAATTAATTAATAA
1 TTTAAAGATAACATACAATAAATAATAAAAAGTATTATTTGAAATTAATTAATAA
72940944 TAAAACATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.37
Consensus pattern (60 bp):
TTTAAAGATAACATACAATAAATAATAAAAAGTATTATTTGAAATTAATTAATAAATGTG
Found at i:72941421 original size:48 final size:47
Alignment explanation
Indices: 72941359--72941452 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 47
72941349 GTTCTGTAAG
* *
72941359 ATTGGTTTTAGGTACGGCTTTTTCTTTTTCTTCTTCTTTTCCCTGAA
1 ATTGGTTTTAGGTACGACTTTTTCTTCTTCTTCTTCTTTTCCCTGAA
*
72941406 ATTGGTTTTTGGGTACGACTTTTTCTTCTTCTTCTTCTTTTCCCTGA
1 ATTGG-TTTTAGGTACGACTTTTTCTTCTTCTTCTTCTTTTCCCTGA
72941453 CTGATCTGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
47 5 0.12
48 38 0.88
ACGTcount: A:0.10, C:0.20, G:0.15, T:0.55
Consensus pattern (47 bp):
ATTGGTTTTAGGTACGACTTTTTCTTCTTCTTCTTCTTTTCCCTGAA
Found at i:72944196 original size:14 final size:14
Alignment explanation
Indices: 72944131--72944189 Score: 100
Period size: 14 Copynumber: 4.2 Consensus size: 14
72944121 CCAGAAAAGT
*
72944131 AAATCATTTTTCAG
1 AAATCATTTTCCAG
72944145 AAATCATTTTCCAG
1 AAATCATTTTCCAG
72944159 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
72944173 AAATCATTTTCCGG
1 AAATCATTTTCCAG
72944187 AAA
1 AAA
72944190 ATATTTTACC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:72946000 original size:27 final size:27
Alignment explanation
Indices: 72945923--72946001 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 27
72945913 GTAAAATACT
* *
72945923 TATTATTATTTTATATA-TCCCTCATCA
1 TATTA-TATTTTATATATTTCATCATCA
*
72945950 TATTATATTCTATTTATATATTCATCA-CA
1 TATTATATT-T-TATATAT-TTCATCATCA
72945979 TATTATATTTTACTATATTTCAT
1 TATTATATTTTA-TATATTTCAT
72946002 GATATTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 4 0.09
27 12 0.28
28 11 0.26
29 11 0.26
30 5 0.12
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTATATTTTATATATTTCATCATCA
Found at i:72948111 original size:32 final size:32
Alignment explanation
Indices: 72948044--72948109 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
72948034 ATATTATTTT
* * *
72948044 AATTTTTAAAATTTTATTAACAATAATTCTAA
1 AATTTTTAAAATTATATTAACAATAAATATAA
72948076 AATTTTTAAAATATATATTTAA-AATAAATATAA
1 AATTTTTAAAAT-TATA-TTAACAATAAATATAA
72948109 A
1 A
72948110 TTATTAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 12 0.41
33 13 0.45
34 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
AATTTTTAAAATTATATTAACAATAAATATAA
Found at i:72950066 original size:2 final size:2
Alignment explanation
Indices: 72950061--72950086 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
72950051 TTAGATTTTC
72950061 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
72950087 TGATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72950145 original size:19 final size:20
Alignment explanation
Indices: 72950105--72950150 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
72950095 TATTTTCAAA
*
72950105 AATAATTTAACATAATTATT
1 AATATTTTAACATAATTATT
72950125 AATATTTTAA-ATACATT-TT
1 AATATTTTAACATA-ATTATT
72950144 AA-ATTTT
1 AATATTTT
72950151 TTAGAATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 12 0.50
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTTTAACATAATTATT
Found at i:72963126 original size:2 final size:2
Alignment explanation
Indices: 72963119--72963147 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
72963109 AATTTCTTTT
72963119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72963148 TAAGACCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72963798 original size:5 final size:6
Alignment explanation
Indices: 72963783--72963807 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
72963773 CACAGATTTT
72963783 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
72963808 GAAACCCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:72969379 original size:22 final size:22
Alignment explanation
Indices: 72969339--72969383 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
72969329 TCAACCTCAT
***
72969339 TTTTTAAATTATTTTTATTATA
1 TTTTTAAATTATCAATATTATA
72969361 TTTTTAAATTATCAATATTATA
1 TTTTTAAATTATCAATATTATA
72969383 T
1 T
72969384 CAATTATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTAAATTATCAATATTATA
Found at i:72970298 original size:25 final size:24
Alignment explanation
Indices: 72970265--72970323 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
72970255 TTTGTTTTAA
*
72970265 TATTTATTT-TTATGTTTTTAAATG
1 TATTTATTTATTAT-ATTTTAAATG
*
72970289 TATTTGATTTATTATATTTTAAATT
1 TATTT-ATTTATTATATTTTAAATG
*
72970314 TTTTTATTTA
1 TATTTATTTA
72970324 ATAAAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 16 0.53
26 4 0.13
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (24 bp):
TATTTATTTATTATATTTTAAATG
Found at i:72971045 original size:28 final size:28
Alignment explanation
Indices: 72971014--72971084 Score: 142
Period size: 28 Copynumber: 2.5 Consensus size: 28
72971004 CCCAAATTAA
72971014 ACACCCTACTAAACCGACCATCACCCCC
1 ACACCCTACTAAACCGACCATCACCCCC
72971042 ACACCCTACTAAACCGACCATCACCCCC
1 ACACCCTACTAAACCGACCATCACCCCC
72971070 ACACCCTACTAAACC
1 ACACCCTACTAAACC
72971085 ATCCACTACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.34, C:0.52, G:0.03, T:0.11
Consensus pattern (28 bp):
ACACCCTACTAAACCGACCATCACCCCC
Found at i:72971110 original size:18 final size:18
Alignment explanation
Indices: 72971087--72971122 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
72971077 ACTAAACCAT
*
72971087 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
72971105 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
72971123 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:72971783 original size:21 final size:21
Alignment explanation
Indices: 72971734--72971784 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
72971724 TATTATCCCC
** *
72971734 CATATTTAATGTTATTGTCAA
1 CATATTTTTTGTTATTATCAA
*
72971755 CATATTTTTTGTTATTATCAT
1 CATATTTTTTGTTATTATCAA
*
72971776 CATGTTTTT
1 CATATTTTT
72971785 AATATTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (21 bp):
CATATTTTTTGTTATTATCAA
Found at i:72972232 original size:126 final size:126
Alignment explanation
Indices: 72971997--72972240 Score: 407
Period size: 126 Copynumber: 1.9 Consensus size: 126
72971987 CATTGATCTT
* * * * *
72971997 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTGTTTAAAGAATTTGAAGAATCGTGCCTTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
72972062 ACGTACTGGGTTTCGTTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
*
72972123 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCTGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
72972188 ACGTATTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
72972241 AGGCTAAAAC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:72978297 original size:15 final size:14
Alignment explanation
Indices: 72978274--72978321 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
72978264 AAAAAAAAAG
72978274 AAGAG-AAAAAGGA
1 AAGAGAAAAAAGGA
72978287 AAGAGAAAAAAGGA
1 AAGAGAAAAAAGGA
*
72978301 AA-AGGAAAAA-G-
1 AAGAGAAAAAAGGA
72978312 AAGAGAAAAA
1 AAGAGAAAAA
72978322 TAAAAAAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 2 0.06
12 7 0.23
13 12 0.39
14 10 0.32
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AAGAGAAAAAAGGA
Found at i:72979852 original size:177 final size:178
Alignment explanation
Indices: 72979544--72979984 Score: 706
Period size: 177 Copynumber: 2.5 Consensus size: 178
72979534 TAGATTTCGG
*
72979544 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCTACTGGCAG
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
* * * *
72979609 AAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCACTGATCAGGAGCGGAGCAGATCAAATT
66 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCACAGAGCAGGAGCGGAGCAGATCAAATT
72979674 TTGGCAAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAGCCA
131 TTGGCAAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAGCCA
* * * * *
72979722 CCAGCCTTCT-TCACTGAGTAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCT
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTGGCA
*
72979785 GGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCAGAGCAGGAGCGGAGCAGATCAAAT
65 GGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCACAGAGCAGGAGCGGAGCAGATCAAAT
* * *
72979850 TTTGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
130 TTTGGCAAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAGCCA
* * *
72979899 CAAGCCTTATCCCCCTGAGCAGGAGTGGAACAAGCTAAATATAGCAGATCTCATCCCACCGGCAG
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
72979964 GAGTGGAACAGATCAAATTTC
66 GAGTGGAACAGATCAAATTTC
72979985 AGCGGATCTT
Statistics
Matches: 238, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
176 3 0.01
177 159 0.67
178 73 0.31
179 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (178 bp):
CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCACAGAGCAGGAGCGGAGCAGATCAAATT
TTGGCAAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAGCCA
Found at i:72980000 original size:132 final size:132
Alignment explanation
Indices: 72979828--72980288 Score: 572
Period size: 132 Copynumber: 3.5 Consensus size: 132
72979818 TCTTCGCAGA
* * **
72979828 GCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * *
72979893 CAGCCACAAGCCTTATCCCCCTGAGCAGGAGTGGAACAAGCTAAATATAGCAGATCTCATCCCAC
66 CAGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCAC
*
72979958 CG
131 TG
* *
72979960 GCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTGTCTCCATGTATCGGCAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * * * * *
72980025 CAGCCACCAGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAAA-CT--CTAGATCTTATCTT
66 CAGCCACCAGCCTTATC-CCACTGAGCAGGAGTGGAACAGGCTAAATATAGC-AGATCTCATC-C
72980087 CACTG
128 CACTG
* * * * *
72980092 AGCAAGAGTGGAGCAGATCAAATTT-TGACAAATCTTATCTCCATGTATCGGCAATGGAGCA-AA
1 -GCAGGAGTGGAACAGATCAAATTTCAG-CGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
* * * *
72980155 TTCAAACCACCAGCGTTATCCCACTAAGCAAGAGTGGAACAGGCTAAATATAGCAGATCTCATCC
64 TTC-AGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCC
72980220 CACTG
128 CACTG
* * * *
72980225 GCAGGAGTTGTACAGATCAAATTTCAGCGGATCTTATCTCCATATATCGGCAATGGAGCAGATT
1 GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
72980289 CAAACCACCA
Statistics
Matches: 276, Mismatches: 42, Indels: 21
0.81 0.12 0.06
Matches are distributed among these distances:
130 1 0.00
131 9 0.03
132 158 0.57
133 98 0.36
134 9 0.03
135 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (132 bp):
GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
CAGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCAC
TG
Found at i:72980283 original size:265 final size:265
Alignment explanation
Indices: 72979810--72980288 Score: 771
Period size: 265 Copynumber: 1.8 Consensus size: 265
72979800 AAATTTCGAC
* * * *
72979810 AGATCTTATCTTCGCAGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACAGAGCAAGAGCGGAGCAGATCAAATTTTGACAAATCTTATCTCCATGTAT
* * * * *
72979875 CGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCCCCCTGAGCAGGAGTGGAACAAGCTAAATA
66 CGGCAATGGAGCAGAATTCAACCACAAGCCTTATCCCACTAAGCAAGAGTGGAACAAGCTAAATA
* *
72979940 TAGCAGATCTCATCCCACCGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTGTCTCCATGT
131 TAGCAGATCTCATCCCACCGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATAT
72980005 ATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAA
196 ATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAA
72980070 ACTCT
261 ACTCT
* *
72980075 AGATCTTATCTTCACTGAGCAAGAGTGGAGCAGATCAAATTTTGACAAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACAGAGCAAGAGCGGAGCAGATCAAATTTTGACAAATCTTATCTCCATGTAT
* * *
72980140 CGGCAATGGAGCA-AATTCAAACCACCAGCGTTATCCCACTAAGCAAGAGTGGAACAGGCTAAAT
66 CGGCAATGGAGCAGAATTC-AACCACAAGCCTTATCCCACTAAGCAAGAGTGGAACAAGCTAAAT
* * *
72980204 ATAGCAGATCTCATCCCACTGGCAGGAGTTGTACAGATCAAATTTCAGCGGATCTTATCTCCATA
130 ATAGCAGATCTCATCCCACCGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATA
72980269 TATCGGCAATGGAGCAGATT
195 TATCGGCAATGGAGCAGATT
72980289 CAAACCACCA
Statistics
Matches: 194, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
264 4 0.02
265 190 0.98
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (265 bp):
AGATCTTATCTTCACAGAGCAAGAGCGGAGCAGATCAAATTTTGACAAATCTTATCTCCATGTAT
CGGCAATGGAGCAGAATTCAACCACAAGCCTTATCCCACTAAGCAAGAGTGGAACAAGCTAAATA
TAGCAGATCTCATCCCACCGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATAT
ATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAA
ACTCT
Found at i:72980344 original size:132 final size:131
Alignment explanation
Indices: 72979840--72980346 Score: 535
Period size: 132 Copynumber: 3.8 Consensus size: 131
72979830 AGGAGCGGAG
** * *
72979840 CAGATCAAATTTTGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACAAGCC
1 CAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAACCACCAGCC
* * * * * *
72979905 TTATCCCCCTGAGCAGGAGTGGAACAAGCTAAATATAGCAGATCTCATCCCACCGGCAGGAGTGG
66 TTATCCCACTAAGCA-GAGTGGAACAGGCTAAAAATAGCAGATCTCATCCCACTGGCAGGAGTTG
72979970 AA
130 AA
* * *
72979972 CAGATCAAATTTCAGCGGATCTTGTCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCC
1 CAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAACCACCAGCC
* * * * * * *
72980037 TTATCTTCACTGAGCAGAAGTGGAGCAGGCT-AAACT--CTAGATCTTATCTTCACTGAGCAAGA
66 TTATC-CCACTAAGCAG-AGTGGAACAGGCTAAAAATAGC-AGATCTCATC-CCACTG-GCAGGA
* *
72980099 GTGGAG
126 GTTGAA
* * *
72980105 CAGATCAAATTT-TGACAAATCTTATCTCCATGTATCGGCAATGGAGCA-AATTCAAACCACCAG
1 CAGATCAAATTTCAG-CGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTC-AACCACCAG
* *
72980168 CGTTATCCCACTAAGCAAGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGT
64 CCTTATCCCACTAAGC-AGAGTGGAACAGGCTAAAAATAGCAGATCTCATCCCACTGGCAGGAGT
*
72980233 TGTA
128 TGAA
* * *
72980237 CAGATCAAATTTCAGCGGATCTTATCTCCATATATCGGCAATGGAGCAGA-TTCAAACCACCAGT
1 CAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTC-AACCACCAGC
* * *
72980301 CTTAACCCCCTAAGTAGTAG-GGTAACAGGCTAAAAACTA-CAGATCT
65 CTTATCCCACTAAGCAG-AGTGG-AACAGGCTAAAAA-TAGCAGATCT
72980347 TGTCTCCTTA
Statistics
Matches: 315, Mismatches: 44, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
130 1 0.00
131 13 0.04
132 192 0.61
133 99 0.31
134 9 0.03
135 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (131 bp):
CAGATCAAATTTCAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAACCACCAGCC
TTATCCCACTAAGCAGAGTGGAACAGGCTAAAAATAGCAGATCTCATCCCACTGGCAGGAGTTGA
A
Found at i:72980369 original size:265 final size:265
Alignment explanation
Indices: 72979810--72980378 Score: 731
Period size: 265 Copynumber: 2.1 Consensus size: 265
72979800 AAATTTCGAC
* * * * *
72979810 AGATCTTATCTTCGC-AGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTA
1 AGATCTTATCTTCACTA-AGCAAGAGTGGAGCAGATCAAATTTTGACAAATCTTATCTCCATGTA
* * * * *
72979874 TCGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCCCCCTGAGCAGGAGTGGAACAAGCTAAAT
65 TCGGCAATGGAGCAGAATTCAACCACAAGCCTTATCCCACTAAGCAAGAGTGGAACAAGCTAAAT
* *
72979939 ATAGCAGATCTCATCCCACCGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTGTCTCCATG
130 ATAGCAGATCTCATCCCACCGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATA
* * * * *
72980004 TATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTA
195 TATCGGCAATGGAGCAGATTTCAACCACCAGCCTTAACTCCACTAAGCAGAAGTGGAACAGGCTA
72980069 AACTCT
260 AACTCT
*
72980075 AGATCTTATCTTCACTGAGCAAGAGTGGAGCAGATCAAATTTTGACAAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACTAAGCAAGAGTGGAGCAGATCAAATTTTGACAAATCTTATCTCCATGTAT
* * *
72980140 CGGCAATGGAGCA-AATTCAAACCACCAGCGTTATCCCACTAAGCAAGAGTGGAACAGGCTAAAT
66 CGGCAATGGAGCAGAATTC-AACCACAAGCCTTATCCCACTAAGCAAGAGTGGAACAAGCTAAAT
* * *
72980204 ATAGCAGATCTCATCCCACTGGCAGGAGTTGTACAGATCAAATTTCAGCGGATCTTATCTCCATA
130 ATAGCAGATCTCATCCCACCGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATA
* * * *
72980269 TATCGGCAATGGAGCAGA-TTCAAACCACCAGTCTTAAC-CCCCTAAGTAGTAG-GGTAACAGGC
195 TATCGGCAATGGAGCAGATTTC-AACCACCAGCCTTAACTCCACTAAGCAGAAGTGG-AACAGGC
72980331 TAAAAACTAC-
258 T--AAACT-CT
* * *
72980341 AGATCTTGTC-TC-CTTAAGCAATAGTGGAGTAGATCAAA
1 AGATCTTATCTTCAC-TAAGCAAGAGTGGAGCAGATCAAA
72980379 GAAATACGCT
Statistics
Matches: 264, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
263 2 0.01
264 24 0.09
265 223 0.84
266 14 0.05
267 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (265 bp):
AGATCTTATCTTCACTAAGCAAGAGTGGAGCAGATCAAATTTTGACAAATCTTATCTCCATGTAT
CGGCAATGGAGCAGAATTCAACCACAAGCCTTATCCCACTAAGCAAGAGTGGAACAAGCTAAATA
TAGCAGATCTCATCCCACCGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATAT
ATCGGCAATGGAGCAGATTTCAACCACCAGCCTTAACTCCACTAAGCAGAAGTGGAACAGGCTAA
ACTCT
Found at i:72980468 original size:44 final size:44
Alignment explanation
Indices: 72980341--72980469 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 44
72980331 TAAAAACTAC
* *
72980341 AGATCTTGTCTCCTTAAGCAATAGTGGAGTAGATCAAAGA-AAT
1 AGATCTTATCTCCTTAAGCAATAGTGGAGCAGATCAAAGATAAT
* * * * * * *
72980384 ACGCT-TTAACTCCCTAAGCAATAG-GGTAACA-AGCTGAAGATTAT
1 A-GATCTTATCTCCTTAAGCAATAGTGG-AGCAGATC-AAAGATAAT
72980428 AGATCTTATCTCCTTAAGCAATAGTGGAGCAGATCAAAGATA
1 AGATCTTATCTCCTTAAGCAATAGTGGAGCAGATCAAAGATA
72980470 CACGCCTTAA
Statistics
Matches: 63, Mismatches: 16, Indels: 13
0.68 0.17 0.14
Matches are distributed among these distances:
42 4 0.06
43 25 0.40
44 30 0.48
45 4 0.06
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (44 bp):
AGATCTTATCTCCTTAAGCAATAGTGGAGCAGATCAAAGATAAT
Found at i:72980575 original size:174 final size:169
Alignment explanation
Indices: 72980301--72980861 Score: 567
Period size: 174 Copynumber: 3.3 Consensus size: 169
72980291 AACCACCAGT
* ** * ** * *
72980301 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAACTACAGATCT-TGTCTC-CTTAAGCAATA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGT-TCGC-CGAGCAGTG
* * * * * * * *
72980364 GTGGAGTAGATCAAAGAAATACGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGA-TTAT
64 GTGGAGCAGATCAAAG-AACACGCATTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTTAC
* * * * * *
72980428 AGATCTTATCTCCTTAAGCAATAGTGGAGCAGATCAAAGATACACGC
127 AGATCTAATCTCC--GAGCAGTGGTGGAGCAGGTCAAAG--ACTCGC
* *
72980475 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTAAAGATCTGGGTTCGCCGAGCAGTGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGTTCGCCGAGCAGTGGT
* * **
72980540 GGAGCAGATCAAAGATACACGCCTTAACCCCCTAAGTAGTAGGCCAACAGGCTAAAATTTACAGA
66 GGAGCAGATCAAAGA-ACACGCATTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGA
** * *
72980605 TCTGGGCTCGCCGAGCAGTGGCGGAGCAGGTCAAAGACTCGC
130 TCT--AATCTCCGAGCAGTGGTGGAGCAGGTCAAAGACTCGC
* * * * *
72980647 CTTAACTCCCTAAGCAGTAGGGTAAGAGGCTAAAGTTTATAGA-CTTGGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC-TGGGTTCGCCGAGCAGTGG
* * * *
72980711 TGGAGCAGGTCAAAG-ACTCGCATTAGCCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAAA
65 TGGAGCAGATCAAAGAACACGCATTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGA
*
72980775 TCCTAACTCTCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
130 T-CTAA-TCTCCGAGCAGTGGTGGAGCAGGTCAAAGACTCGC
*
72980817 CTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAA-TTACAGATCT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
72980862 TATTTTCGTT
Statistics
Matches: 323, Mismatches: 54, Indels: 25
0.80 0.13 0.06
Matches are distributed among these distances:
169 7 0.02
170 107 0.33
171 3 0.01
172 75 0.23
173 4 0.01
174 120 0.37
175 3 0.01
176 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (169 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGTTCGCCGAGCAGTGGT
GGAGCAGATCAAAGAACACGCATTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGAT
CTAATCTCCGAGCAGTGGTGGAGCAGGTCAAAGACTCGC
Found at i:72980697 original size:85 final size:85
Alignment explanation
Indices: 72980453--72980861 Score: 536
Period size: 85 Copynumber: 4.8 Consensus size: 85
72980443 AAGCAATAGT
* * *
72980453 GGAGCAGATCAAAGATACACGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTAAAGA
1 GGAGCAGGTCAAAG--ACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGA
*
72980518 TCTGGGTTCGCCGAGCAGTGGC
64 TCTGGGCTCGCCGAGCAGTGGC
* * * **
72980540 GGAGCAGATCAAAGATACACGCCTTAACCCCCTAAGTAGTAGGCCAACAGGCTAAAATTTACAGA
1 GGAGCAGGTCAAAG--ACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGA
72980605 TCTGGGCTCGCCGAGCAGTGGC
64 TCTGGGCTCGCCGAGCAGTGGC
* * * *
72980627 GGAGCAGGTCAAAGACTCGCCTTAACTCCCTAAGCAGTAGGGTAAGAGGCTAAAGTTTATAGA-C
1 GGAGCAGGTCAAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
*
72980691 TTGGGCTCGCCGAGCAGTGGT
66 -TGGGCTCGCCGAGCAGTGGC
* * *
72980712 GGAGCAGGTCAAAGACTCGCATTAGCCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAAATC
1 GGAGCAGGTCAAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGAT-
** * *
72980777 CT-AACTCTCCGAGCAGTGGT
65 CTGGGCTCGCCGAGCAGTGGC
* *
72980797 GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAA-TTACAGATC
1 GGAGCAGGTCAAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
72980861 T
66 T
72980862 TATTTTCGTT
Statistics
Matches: 289, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
83 2 0.01
84 8 0.03
85 182 0.63
86 1 0.00
87 96 0.33
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (85 bp):
GGAGCAGGTCAAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
TGGGCTCGCCGAGCAGTGGC
Found at i:72980876 original size:85 final size:86
Alignment explanation
Indices: 72980301--72980863 Score: 507
Period size: 87 Copynumber: 6.5 Consensus size: 86
72980291 AACCACCAGT
* * * * ** * *
72980301 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAAACTACAGATCTT-GTCTCCTTAAGCAATAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTAGGCTCGTCGAGCAGTGG
* *
72980365 TGGAGTAGATCAAAGAAATACGC
65 TGGAGCAGATCAAAGAACT-CGC
* * * * * * * * ** * *
72980388 TTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTATAGATCTTA-TCTCCTTAAGCAATAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTAGGCTCGTCGAGCAGTGG
*
72980452 TGGAGCAGATCAAAGATACACGC
65 TGGAGCAGATCAAAGA-ACTCGC
* * * *
72980475 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTAAAGATC-TGGGTTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTAGGCTCGTCGAGCAGTGG
* *
72980539 CGGAGCAGATCAAAGATACACGC
65 TGGAGCAGATCAAAGA-ACTCGC
* ** * *
72980562 CTTAACCCCCTAAGTAGTAGGCCAACAGGCTAAAATTTACAGATC-TGGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTAGGCTCGTCGAGCAGTGG
* *
72980626 CGGAGCAGGTCAAAG-ACTCGC
65 TGGAGCAGATCAAAGAACTCGC
* * * * * *
72980647 CTTAACTCCCTAAGCAGTAGGGTAAGAGGCTAAAGTTTATAGA-CTTGGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATCTTAGGCTCGTCGAGCAGTGG
*
72980711 TGGAGCAGGTCAAAG-ACTCGC
65 TGGAGCAGATCAAAGAACTCGC
* * * * *
72980732 ATTAGCCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAAATCCTA-ACTC-TCCGAGCAGTG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTAGGCTCGT-CGAGCAGTG
* *
72980795 GTGGAGCAGGTCGAAG-ACTCGC
64 GTGGAGCAGATCAAAGAACTCGC
*
72980817 CTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAATTACAGATCTTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTA
72980864 TTTTCGTTGA
Statistics
Matches: 407, Mismatches: 60, Indels: 21
0.83 0.12 0.04
Matches are distributed among these distances:
84 11 0.03
85 179 0.44
86 6 0.01
87 210 0.52
88 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.21
Consensus pattern (86 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTAGGCTCGTCGAGCAGTGGT
GGAGCAGATCAAAGAACTCGC
Found at i:72981166 original size:30 final size:29
Alignment explanation
Indices: 72981099--72981168 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
72981089 CCAAATTAAA
72981099 CACCCTACTAAACCGACCACTAACTCCAT
1 CACCCTACTAAACCGACCACTAACTCCAT
*
72981128 CACCCTACTAAACC-ATCCACTACCTCCAT
1 CACCCTACTAAACCGA-CCACTAACTCCAT
72981157 CACCCCTACTAA
1 CA-CCCTACTAA
72981169 CTCCATCACC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 1 0.03
29 28 0.74
30 9 0.24
ACGTcount: A:0.33, C:0.47, G:0.01, T:0.19
Consensus pattern (29 bp):
CACCCTACTAAACCGACCACTAACTCCAT
Found at i:72981172 original size:18 final size:17
Alignment explanation
Indices: 72981117--72981183 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
72981107 TAAACCGACC
72981117 ACTAACTCCATCACCCT
1 ACTAACTCCATCACCCT
*
72981134 ACTAA-ACCAT---CC-
1 ACTAACTCCATCACCCT
*
72981146 ACTACCTCCATCACCCCT
1 ACTAACTCCATCA-CCCT
72981164 ACTAACTCCATCACCCT
1 ACTAACTCCATCACCCT
72981181 ACT
1 ACT
72981184 TGTTATAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
12 4 0.10
13 6 0.15
16 4 0.10
17 14 0.35
18 12 0.30
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (17 bp):
ACTAACTCCATCACCCT
Found at i:72981584 original size:10 final size:11
Alignment explanation
Indices: 72981566--72981605 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
72981556 TCATGTTTCA
72981566 TATTATTATAT
1 TATTATTATAT
72981577 TA-TATTAT-T
1 TATTATTATAT
72981586 TATTATTATA-
1 TATTATTATAT
72981596 TATTTATTAT
1 TA-TTATTAT
72981606 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.12
10 14 0.54
11 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTATAT
Found at i:72981590 original size:17 final size:16
Alignment explanation
Indices: 72981568--72981605 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
72981558 ATGTTTCATA
72981568 TTATTATATTATATTAT
1 TTATTATATTATA-TAT
72981585 TTA-T-TATTATATAT
1 TTATTATATTATATAT
72981599 TTATTAT
1 TTATTAT
72981606 GTAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 2 0.11
17 3 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTATATTATATAT
Found at i:72981592 original size:64 final size:64
Alignment explanation
Indices: 72981454--72981594 Score: 155
Period size: 63 Copynumber: 2.2 Consensus size: 64
72981444 AACCCTTTTT
* * * * *
72981454 TTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTG
1 TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TCATTCTCATTATTATTATATTTA
* *
72981519 TT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TCATGTTTCA-TATTATTATATTAT
1 TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTCAT-TCTCATTATTATTATATT-T
72981580 A
64 A
72981581 TTATTTATTATTAT
1 TTATTT-TTATTAT
72981595 ATATTTATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
61 14 0.22
62 7 0.11
63 23 0.35
64 19 0.29
65 2 0.03
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (64 bp):
TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTCATTCTCATTATTATTATATTTA
Found at i:72981599 original size:14 final size:15
Alignment explanation
Indices: 72981565--72981605 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
72981555 GTCATGTTTC
72981565 ATATTA-TTA-TATT
1 ATATTATTTATTATT
72981578 ATATTATTTATTATT
1 ATATTATTTATTATT
72981593 ATA-TATTTATTAT
1 ATATTATTTATTAT
72981606 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.23
14 13 0.50
15 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTATTTATTATT
Found at i:72982304 original size:126 final size:126
Alignment explanation
Indices: 72982064--72982307 Score: 416
Period size: 126 Copynumber: 1.9 Consensus size: 126
72982054 CATTGATATT
* * * *
72982064 CTCTCAAAATTTTTTAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCTTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
72982129 ACGTACTGGGTTTCGTTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
*
72982190 CTCTAAAAAATTTTCAAAATAAATGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
72982255 ATGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
72982308 AGGCTAAAAC
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:72983960 original size:16 final size:17
Alignment explanation
Indices: 72983941--72983981 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
72983931 AAATCTCAAT
72983941 AATTTCAAAT-TAAAAA
1 AATTTCAAATATAAAAA
*
72983957 AATTTAAAATATAAAAA
1 AATTTCAAATATAAAAA
*
72983974 AAATTCAA
1 AATTTCAA
72983982 GAAAATTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTTCAAATATAAAAA
Found at i:72989119 original size:21 final size:21
Alignment explanation
Indices: 72989095--72989136 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
72989085 ATGCATCAGC
72989095 TATATCTCTTAACAGTAATGA
1 TATATCTCTTAACAGTAATGA
72989116 TATATCTCTTAACAGTAATGA
1 TATATCTCTTAACAGTAATGA
72989137 GGTATTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
TATATCTCTTAACAGTAATGA
Found at i:72989146 original size:21 final size:21
Alignment explanation
Indices: 72989096--72989146 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
72989086 TGCATCAGCT
*
72989096 ATATCTCTTAACAGTAATGAT
1 ATATCTCTTAACAGTAATGAG
72989117 ATATCTCTTAACAGTAATGAG
1 ATATCTCTTAACAGTAATGAG
* *
72989138 GTATTTCTT
1 ATATCTCTT
72989147 TCTCTCCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (21 bp):
ATATCTCTTAACAGTAATGAG
Found at i:72990267 original size:18 final size:18
Alignment explanation
Indices: 72990244--72990284 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
72990234 TACTTTTCTC
72990244 TTTCTA-TCACAATTACAA
1 TTTCTATTCACAATT-CAA
*
72990262 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
72990280 TTTCT
1 TTTCT
72990285 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:72990471 original size:38 final size:39
Alignment explanation
Indices: 72990387--72990521 Score: 107
Period size: 39 Copynumber: 3.4 Consensus size: 39
72990377 ACCAATATGG
*
72990387 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
72990426 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * * *
72990464 TACCCAGTACCTTATCGAATCTA-TCCGAAGAAATTTAG-TGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAA--TAGTTGA
*
72990505 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
72990522 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 3 0.04
41 15 0.21
42 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:72990998 original size:12 final size:12
Alignment explanation
Indices: 72990983--72991013 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
72990973 TTCTCTTTTA
72990983 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
72990995 TTTTTCTTTCTC
1 TTTTTCTTTCCC
72991007 TTTTTCT
1 TTTTTCT
72991014 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:72991422 original size:20 final size:18
Alignment explanation
Indices: 72991384--72991431 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
72991374 CAACTATTTA
*
72991384 ATTTATTTAAAATATAAT
1 ATTTATTAAAAATATAAT
72991402 ATTTATTAAATAATCATAAT
1 ATTTATTAAA-AAT-ATAAT
*
72991422 AATTA-TAAAA
1 ATTTATTAAAA
72991432 CCATAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 10 0.38
19 7 0.27
20 9 0.35
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTATTAAAAATATAAT
Found at i:72998492 original size:18 final size:18
Alignment explanation
Indices: 72998422--72998513 Score: 73
Period size: 18 Copynumber: 5.1 Consensus size: 18
72998412 TTTATAAGTG
*
72998422 TTATTTTTATATGTATTA
1 TTATTTTTATATATATTA
*
72998440 TGATTGTTTAT-TATA-TA
1 TTATT-TTTATATATATTA
* * *
72998457 TTAATTCTCTCATA-ATTA
1 TTATTTTTAT-ATATATTA
72998475 TTATTTTTATATATATTA
1 TTATTTTTATATATATTA
*
72998493 TTATATTTTTACATATATTA
1 -T-TATTTTTATATATATTA
72998513 T
1 T
72998514 ATATACATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
16 3 0.05
17 9 0.16
18 22 0.39
19 7 0.12
20 16 0.28
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (18 bp):
TTATTTTTATATATATTA
Found at i:72998501 original size:20 final size:20
Alignment explanation
Indices: 72998471--72998517 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
72998461 TTCTCTCATA
*
72998471 ATTATTATTTTTATATATATT
1 ATTA-TATTTTTACATATATT
72998492 ATTATATTTTTACATATATT
1 ATTATATTTTTACATATATT
72998512 A-TATAT
1 ATTATAT
72998518 ACATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATATTTTTACATATATT
Found at i:72998707 original size:17 final size:20
Alignment explanation
Indices: 72998669--72998708 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
72998659 ACATATTACC
72998669 AATTATATTATTTATGTTTA
1 AATTATATTATTTATGTTTA
72998689 AATTATA-TA-TTAT-TTTA
1 AATTATATTATTTATGTTTA
72998706 AAT
1 AAT
72998709 ATGTAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 2 0.10
20 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
AATTATATTATTTATGTTTA
Found at i:72998901 original size:7 final size:7
Alignment explanation
Indices: 72998889--72998914 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
72998879 ATATTCTTGT
72998889 TATTATA
1 TATTATA
72998896 TATTATA
1 TATTATA
72998903 TATTATA
1 TATTATA
72998910 TATTA
1 TATTA
72998915 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:72999149 original size:29 final size:29
Alignment explanation
Indices: 72999111--72999174 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
72999101 ATATTTCTTC
* * *
72999111 TATTTGTATATCATACATTATTTGATTAT
1 TATTTTTATATCATACATCATTTAATTAT
* *
72999140 TGTTTTTATATCATGCATCATTTAATTAT
1 TATTTTTATATCATACATCATTTAATTAT
72999169 TATTTT
1 TATTTT
72999175 AGATGTTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (29 bp):
TATTTTTATATCATACATCATTTAATTAT
Found at i:73010854 original size:119 final size:119
Alignment explanation
Indices: 73010689--73011406 Score: 1098
Period size: 119 Copynumber: 6.0 Consensus size: 119
73010679 TAGGCTGCAG
*
73010689 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC-TGC
1 TATAGCAGATCTAAAC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG-
* **
73010752 TGTTTATAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAGA
64 TGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
*
73010808 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
73010873 TTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* * *
73010927 TATAGCAGATCTAAACTTTAGAAGTTTATACTGAAGCAGATCCAAAATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
73010992 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--A
* * * **
73011048 CATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGT
*
73011113 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
*
73011168 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
73011233 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--A
* * * **
73011289 CATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGT
73011354 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
73011407 AACAGACTCA
Statistics
Matches: 550, Mismatches: 41, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
119 293 0.53
120 38 0.07
121 66 0.12
122 153 0.28
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (119 bp):
TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
Found at i:73011177 original size:241 final size:241
Alignment explanation
Indices: 73010689--73011408 Score: 1216
Period size: 241 Copynumber: 3.0 Consensus size: 241
73010679 TAGGCTGCAG
73010689 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC-TGC
1 TATAGCAGATCTAAGCTTT-AGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG-
* * * ** * *
73010752 TGTTTATAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAG--ATATAGCA
64 TGTTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCA
* * **
73010815 GATCTAAACTTCAGATGTTTATACTAAAG-CAGATCCAAGATGATTTGGTATTCTTGTGTTTACA
129 GATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACA
* *
73010879 AGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAA
194 AGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
* * *
73010927 TATAGCAGATCTAAACTTTAGAAGTTTATACTGAAGCAGATCCAAAATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
73010992 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
73011057 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
*
73011122 AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAGA
196 AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
*
73011168 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
73011233 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
73011298 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
*
73011363 AAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
196 AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
73011409 CAGACTCAAG
Statistics
Matches: 454, Mismatches: 23, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
238 101 0.22
239 7 0.02
240 33 0.07
241 313 0.69
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (241 bp):
TATAGCAGATCTAAGCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
Found at i:73013101 original size:35 final size:35
Alignment explanation
Indices: 73013062--73013227 Score: 190
Period size: 35 Copynumber: 4.6 Consensus size: 35
73013052 CCATGGAAAG
73013062 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
73013097 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
73013132 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
73013172 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
73013207 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
73013228 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:73013180 original size:75 final size:75
Alignment explanation
Indices: 73013062--73013232 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
73013052 CCATGGAAAG
** *
73013062 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
73013121 CCATACTGAGC
65 CCATACCGAGC
73013132 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
73013197 CATACCGAGT
66 CATACCGAGC
**
73013207 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
73013233 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:73015905 original size:20 final size:20
Alignment explanation
Indices: 73015861--73015912 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
73015851 TTAATTCTCT
73015861 CATA-ATTATTAT-TTTATA
1 CATATATTATTATATTTATA
* *
73015879 TATATATTATTATATTTTTA
1 CATATATTATTATATTTATA
73015899 CATATATTA-TATAT
1 CATATATTATTATAT
73015913 ACATATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 3 0.10
19 13 0.45
20 13 0.45
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
CATATATTATTATATTTATA
Found at i:73016089 original size:20 final size:19
Alignment explanation
Indices: 73016064--73016106 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
73016054 ACATATTACC
73016064 AATTATAT-TATTTATGTTTA
1 AATTATATATA-TTAT-TTTA
73016084 AATTATATATATTATTTTA
1 AATTATATATATTATTTTA
73016103 AATT
1 AATT
73016107 TGTAAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTATATATATTATTTTA
Found at i:73016441 original size:3 final size:3
Alignment explanation
Indices: 73016433--73016460 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
73016423 GTGTTAAATG
73016433 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
73016461 ATGTTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:73016544 original size:30 final size:30
Alignment explanation
Indices: 73016510--73016574 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
73016500 CTTCTATTTG
* * * * *
73016510 TATATCATACATTATTTGATTATTGTTTTT
1 TATATCATACATCACTTAATTATTATTTTA
*
73016540 TATATCATGCATCACTTAATTATTATTTTA
1 TATATCATACATCACTTAATTATTATTTTA
73016570 TATAT
1 TATAT
73016575 TTGTATATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (30 bp):
TATATCATACATCACTTAATTATTATTTTA
Found at i:73018119 original size:31 final size:30
Alignment explanation
Indices: 73018074--73018173 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 30
73018064 AAATGTTAAA
* *
73018074 AATATATTTATATTTATATTAATTTAATATTT
1 AATA-ATTTTTATTTAT-TTAATTTTATATTT
* *
73018106 AATAATTTTTATTTATTATAATTTTGTATAT
1 AATAATTTTTATTTATT-TAATTTTATATTT
* *
73018137 AATAATCTTAATTT-TTTAATGTTTATATTAT
1 AATAATTTTTATTTATTTAAT-TTTATATT-T
73018168 AATAAT
1 AATAAT
73018174 ATTATGTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 4 0.07
30 9 0.16
31 40 0.70
32 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (30 bp):
AATAATTTTTATTTATTTAATTTTATATTT
Found at i:73018173 original size:17 final size:16
Alignment explanation
Indices: 73018080--73018178 Score: 64
Period size: 15 Copynumber: 6.3 Consensus size: 16
73018070 TAAAAATATA
*
73018080 TTTATATTTATATTAAT
1 TTTATA-TTATAATAAT
*
73018097 TTAATATT-TAATAAT
1 TTTATATTATAATAAT
*
73018112 TTT-TATTTATTATAAT
1 TTTATA-TTATAATAAT
*
73018128 TTTGTA-TATAATAAT
1 TTTATATTATAATAAT
* **
73018143 CTTA-ATT-TTTTAAT
1 TTTATATTATAATAAT
73018157 GTTTATATTATAATAAT
1 -TTTATATTATAATAAT
*
73018174 ATTAT
1 TTTAT
73018179 GTATTACTGT
Statistics
Matches: 62, Mismatches: 13, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
14 8 0.13
15 24 0.39
16 18 0.29
17 12 0.19
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTATATTATAATAAT
Found at i:73032869 original size:18 final size:18
Alignment explanation
Indices: 73032846--73032882 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
73032836 TAATAAAGTG
73032846 TGTATAATAAA-ATTGAAA
1 TGTATAA-AAATATTGAAA
73032864 TGTATAAAAATATTGAAA
1 TGTATAAAAATATTGAAA
73032882 T
1 T
73032883 AAGACTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (18 bp):
TGTATAAAAATATTGAAA
Found at i:73033470 original size:19 final size:19
Alignment explanation
Indices: 73033429--73033471 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
73033419 TATATATTTG
* *
73033429 ATAAAAATCACAAAAACTT
1 ATAAAAATCAAAAAAACTA
73033448 ATAAAAAT-AAAAAAATCTA
1 ATAAAAATCAAAAAAA-CTA
73033467 ATAAA
1 ATAAA
73033472 TTATTAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (19 bp):
ATAAAAATCAAAAAAACTA
Found at i:73033956 original size:12 final size:11
Alignment explanation
Indices: 73033922--73033973 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
73033912 TTTTAAGTTT
73033922 TTTTTTAAATAA
1 TTTTTT-AATAA
*
73033934 TTTTTT-TTAA
1 TTTTTTAATAA
73033944 TGTTTTTAATAA
1 T-TTTTTAATAA
* *
73033956 TTTTTTCACAA
1 TTTTTTAATAA
73033967 TTTTTTA
1 TTTTTTA
73033974 TGATTATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 4 0.12
11 19 0.58
12 10 0.30
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTTTAATAA
Found at i:73033971 original size:22 final size:21
Alignment explanation
Indices: 73033922--73034002 Score: 62
Period size: 22 Copynumber: 3.9 Consensus size: 21
73033912 TTTTAAGTTT
**
73033922 TTTTTTAAATAATTTTTTTTAA
1 TTTTTT-AATAATTTTTTACAA
73033944 TGTTTTTAATAATTTTTTCACAA
1 T-TTTTTAATAATTTTTT-ACAA
* *
73033967 TTTTTT-ATGATTATTTTA-GA
1 TTTTTTAATAATT-TTTTACAA
73033987 -TTTTT-ATAATTTTTTA
1 TTTTTTAATAATTTTTTA
73034003 TCATTAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
18 5 0.10
19 10 0.20
20 1 0.02
21 6 0.12
22 21 0.41
23 8 0.16
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTTTAATAATTTTTTACAA
Found at i:73040940 original size:21 final size:21
Alignment explanation
Indices: 73040901--73040940 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
73040891 TATTTATATT
* *
73040901 TAAATATATAAACATATAACA
1 TAAATATAAAAACAAATAACA
*
73040922 TAAATATAAAAATAAATAA
1 TAAATATAAAAACAAATAA
73040941 AAAGCAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAATATAAAAACAAATAACA
Found at i:73041098 original size:15 final size:15
Alignment explanation
Indices: 73041065--73041094 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
73041055 TCCTCTCCCC
73041065 TCTCCCTCTCTCCTT
1 TCTCCCTCTCTCCTT
73041080 TCTCCC-CTCTCCTT
1 TCTCCCTCTCTCCTT
73041094 T
1 T
73041095 TCTCTCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTCCCTCTCTCCTT
Found at i:73041104 original size:22 final size:22
Alignment explanation
Indices: 73041052--73041104 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
73041042 GGCCGGAGCC
*
73041052 CTCTCCTCTCCCCTCTCCCTCT
1 CTCTCTTCTCCCCTCTCCCTCT
* *
73041074 CTC-CTTTCTCCCCTCTCCTTTT
1 CTCTC-TTCTCCCCTCTCCCTCT
73041096 CTCTCTTCT
1 CTCTCTTCT
73041105 TTTTTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (22 bp):
CTCTCTTCTCCCCTCTCCCTCT
Found at i:73041680 original size:13 final size:14
Alignment explanation
Indices: 73041656--73041686 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
73041646 ATTATTATCA
73041656 ATATTGATATATGT
1 ATATTGATATATGT
73041670 ATATT-ATATATGT
1 ATATTGATATATGT
73041683 ATAT
1 ATAT
73041687 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
ATATTGATATATGT
Found at i:73044569 original size:46 final size:46
Alignment explanation
Indices: 73044517--73044784 Score: 358
Period size: 46 Copynumber: 5.8 Consensus size: 46
73044507 AGTGTGCTCT
* *
73044517 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
73044563 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
73044609 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
73044655 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACAATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
73044701 ATGACAGGAAAATGAATAAGAGCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
73044748 ATGACA-GAAAACGAGTAAAACTATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
73044785 TATGACATCA
Statistics
Matches: 204, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 163 0.80
47 41 0.20
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:73049693 original size:18 final size:18
Alignment explanation
Indices: 73049670--73049705 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73049660 TTGTATTCAC
* *
73049670 TTATTATTCTTTCATTTT
1 TTATTAGTCGTTCATTTT
73049688 TTATTAGTCGTTCATTTT
1 TTATTAGTCGTTCATTTT
73049706 ATCTATGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATTAGTCGTTCATTTT
Found at i:73049747 original size:3 final size:3
Alignment explanation
Indices: 73049729--73049929 Score: 228
Period size: 3 Copynumber: 64.3 Consensus size: 3
73049719 TTATCATTGG
*
73049729 TAT T-T TAT TAT CTAT TAT TAT CAT TAT TAT TATT TAT TCAT CTATT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT T-AT -TA-T
* * * * *
73049775 TATT TAT TACC CAT TTT GTACT TA- TAT ATAT TAT TCT GAT T-T CTAT
1 TA-T TAT TA-T TAT TAT -TA-T TAT TAT -TAT TAT TAT TAT TAT -TAT
73049821 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
73049869 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
73049917 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
73049930 TGTTTATACA
Statistics
Matches: 173, Mismatches: 12, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.03
3 142 0.82
4 23 0.13
5 3 0.02
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:73050077 original size:3 final size:3
Alignment explanation
Indices: 73050065--73050102 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
73050055 TTCACTCACA
73050065 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
73050103 ATTTTATCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:73052467 original size:7 final size:7
Alignment explanation
Indices: 73052455--73052485 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
73052445 GGAGAATAAC
73052455 TTTCTTT
1 TTTCTTT
73052462 TTTCTTT
1 TTTCTTT
*
73052469 TTTTTTT
1 TTTCTTT
73052476 TTTCTTT
1 TTTCTTT
73052483 TTT
1 TTT
73052486 ACTATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTCTTT
Found at i:73058404 original size:18 final size:19
Alignment explanation
Indices: 73058383--73058418 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
73058373 TCTTAAAAAA
73058383 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
73058401 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
73058419 ATGAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:73058418 original size:19 final size:20
Alignment explanation
Indices: 73058383--73058437 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
73058373 TCTTAAAAAA
*
73058383 TATAAAT-TTTAGAATTT-T
1 TATAAATATTTTGAATTTAT
73058401 TATAAATATTTTGAATTTAT
1 TATAAATATTTTGAATTTAT
*
73058421 GA-AAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
73058438 ATTTTTTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.22
19 12 0.38
20 13 0.41
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
TATAAATATTTTGAATTTAT
Found at i:73058793 original size:2 final size:2
Alignment explanation
Indices: 73058786--73058811 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
73058776 TAAGATCTTT
73058786 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
73058812 AAGAGATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73064114 original size:18 final size:18
Alignment explanation
Indices: 73064067--73064116 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
73064057 TGTAACGAGC
*
73064067 ATAAA-TTAAAAAAATAA
1 ATAAATTTATAAAAATAA
73064084 A-AATATCTT-TAAAAATAA
1 ATAA-AT-TTATAAAAATAA
73064102 ATAAATTTATAAAAA
1 ATAAATTTATAAAAA
73064117 GTATAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
16 2 0.07
17 4 0.15
18 17 0.63
19 4 0.15
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAATTTATAAAAATAA
Found at i:73069775 original size:21 final size:21
Alignment explanation
Indices: 73069749--73069790 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
73069739 TGACTAATGA
73069749 CATAATTTAACCAAACAGATT
1 CATAATTTAACCAAACAGATT
73069770 CATAATTTAACCAAACAGATT
1 CATAATTTAACCAAACAGATT
73069791 TAACTGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.29
Consensus pattern (21 bp):
CATAATTTAACCAAACAGATT
Found at i:73080396 original size:18 final size:18
Alignment explanation
Indices: 73080372--73080440 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
73080362 ATTTCTATAT
73080372 ATTTTAT-ATTTTTTACA
1 ATTTTATAATTTTTTACA
** *
73080389 ACTTTTATAAAATTTTATA
1 A-TTTTATAATTTTTTACA
73080408 ATTTTATAATTTTTTAACA
1 ATTTTATAATTTTTT-ACA
73080427 ATTTT-TATATTTTT
1 ATTTTATA-ATTTTT
73080441 CTAATTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.02
18 20 0.48
19 21 0.50
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTATAATTTTTTACA
Found at i:73080407 original size:28 final size:28
Alignment explanation
Indices: 73080372--73080440 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
73080362 ATTTCTATAT
73080372 ATTTTATATTTTTTACAACTTTTATAA-A
1 ATTTTATATTTTTTACAA-TTTTATAACA
* * *
73080400 ATTTTATA-ATTTTATAATTTTTTAACA
1 ATTTTATATTTTTTACAATTTTATAACA
73080427 ATTTTTATATTTTT
1 A-TTTTATATTTTT
73080441 CTAATTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.21
27 9 0.26
28 15 0.44
29 3 0.09
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTTATATTTTTTACAATTTTATAACA
Found at i:73080624 original size:8 final size:8
Alignment explanation
Indices: 73080611--73080642 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
73080601 AATTGAATGC
73080611 AAAAAAAG
1 AAAAAAAG
73080619 -AAAAAAG
1 AAAAAAAG
73080626 -AAAAAAG
1 AAAAAAAG
73080633 AAAAAAAG
1 AAAAAAAG
73080641 AA
1 AA
73080643 GTAGGGACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.61
8 9 0.39
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:73080629 original size:6 final size:7
Alignment explanation
Indices: 73080612--73080638 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
73080602 ATTGAATGCA
73080612 AAAAAAG
1 AAAAAAG
73080619 AAAAAAG
1 AAAAAAG
73080626 AAAAAAG
1 AAAAAAG
73080633 AAAAAA
1 AAAAAA
73080639 AGAAGTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:73082340 original size:21 final size:20
Alignment explanation
Indices: 73082316--73082374 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
73082306 CAAAAGCCCA
73082316 TTAAGCCCCCCCAAAAAAAAC
1 TTAA-CCCCCCCAAAAAAAAC
***
73082337 TTAACCCCAAAAAAAAAAAC
1 TTAACCCCCCCAAAAAAAAC
*
73082357 CTAA--CCCCCAAAAAAAAC
1 TTAACCCCCCCAAAAAAAAC
73082375 CAAGAAACCC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 11 0.35
20 16 0.52
21 4 0.13
ACGTcount: A:0.56, C:0.34, G:0.02, T:0.08
Consensus pattern (20 bp):
TTAACCCCCCCAAAAAAAAC
Found at i:73082351 original size:20 final size:21
Alignment explanation
Indices: 73082328--73082373 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
73082318 AAGCCCCCCC
*
73082328 AAAAAAAACTTAA-CCCCAAA
1 AAAAAAAACCTAACCCCCAAA
73082348 AAAAAAAACCTAACCCCCAAA
1 AAAAAAAACCTAACCCCCAAA
73082369 AAAAA
1 AAAAA
73082374 CCAAGAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.67, C:0.26, G:0.00, T:0.07
Consensus pattern (21 bp):
AAAAAAAACCTAACCCCCAAA
Found at i:73082375 original size:18 final size:18
Alignment explanation
Indices: 73082323--73082375 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
73082313 CCATTAAGCC
*
73082323 CCCCCAAAAAAAACTTAA
1 CCCCCAAAAAAAACCTAA
*
73082341 CCCCAAAAAAAAAAACCTAA
1 CCCC--CAAAAAAAACCTAA
73082361 CCCCCAAAAAAAACC
1 CCCCCAAAAAAAACC
73082376 AAGAAACCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 14 0.47
20 16 0.53
ACGTcount: A:0.58, C:0.36, G:0.00, T:0.06
Consensus pattern (18 bp):
CCCCCAAAAAAAACCTAA
Found at i:73082695 original size:17 final size:16
Alignment explanation
Indices: 73082673--73082763 Score: 85
Period size: 17 Copynumber: 5.3 Consensus size: 16
73082663 CCTAAAGGTG
*
73082673 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTT-TT
73082690 ATTTTACTCTTATTTTT
1 ATTTTA-TCTTATTTTT
*
73082707 ATTTTTAT-TTTTTTTT
1 A-TTTTATCTTATTTTT
*
73082723 CCATTTTATCTTCTTTATT
1 --ATTTTATCTTATTT-TT
73082742 ATTTTACTCTTATTTTT
1 ATTTTA-TCTTATTTTT
73082759 ATTTT
1 ATTTT
73082764 TATTTTTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
16 7 0.11
17 29 0.46
18 25 0.40
19 2 0.03
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTATCTTATTTTT
Found at i:73082710 original size:6 final size:6
Alignment explanation
Indices: 73082699--73082770 Score: 56
Period size: 6 Copynumber: 11.3 Consensus size: 6
73082689 TATTTTACTC
* * * *
73082699 TTATTT TTATTT TTATTT TT-TTT TCCATTT TATCTTCT TTATTATT TTACTC
1 TTATTT TTATTT TTATTT TTATTT T-TATTT T-TATT-T TTA-T-TT TTATTT
73082751 TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TT
73082771 TTTCCTTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
5 4 0.08
6 33 0.63
7 7 0.13
8 7 0.13
9 1 0.02
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:73082751 original size:52 final size:52
Alignment explanation
Indices: 73082673--73082773 Score: 202
Period size: 52 Copynumber: 1.9 Consensus size: 52
73082663 CCTAAAGGTG
73082673 ATTTTATCTTCTTTATTATTTTACTCTTATTTTTATTTTTATTTTTTTTTCC
1 ATTTTATCTTCTTTATTATTTTACTCTTATTTTTATTTTTATTTTTTTTTCC
73082725 ATTTTATCTTCTTTATTATTTTACTCTTATTTTTATTTTTATTTTTTTT
1 ATTTTATCTTCTTTATTATTTTACTCTTATTTTTATTTTTATTTTTTTT
73082774 CCTTTTTCGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (52 bp):
ATTTTATCTTCTTTATTATTTTACTCTTATTTTTATTTTTATTTTTTTTTCC
Found at i:73083939 original size:20 final size:20
Alignment explanation
Indices: 73083904--73083959 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
73083894 TTCACCATAA
* *
73083904 GTGTATAT-ATA-CATTTTT
1 GTGTATATAATATTATTTTC
73083922 GTGTATATAATATTATTTTC
1 GTGTATATAATATTATTTTC
* *
73083942 GTATATTTAATTATTATT
1 GTGTATATAA-TATTATT
73083960 CTAAAAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 8 0.26
19 3 0.10
20 13 0.42
21 7 0.23
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (20 bp):
GTGTATATAATATTATTTTC
Found at i:73084368 original size:2 final size:2
Alignment explanation
Indices: 73084361--73084390 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
73084351 TTTTATGTAC
73084361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73084391 TTTTTGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73085962 original size:28 final size:28
Alignment explanation
Indices: 73085924--73085979 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
73085914 TGTTGTAGTG
*
73085924 AATTTTGGAATATTAATAAGTATTGAAT
1 AATTTTAGAATATTAATAAGTATTGAAT
73085952 AATTTTAGAATATTAATAAGTATTGAAT
1 AATTTTAGAATATTAATAAGTATTGAAT
73085980 TATGTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (28 bp):
AATTTTAGAATATTAATAAGTATTGAAT
Found at i:73086323 original size:27 final size:26
Alignment explanation
Indices: 73086293--73086348 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
73086283 TTAAGGAACC
* *
73086293 TTAGCGCGCTCTCTGATTATTAGCACG
1 TTAG-GCGCTATCTGATTATTAGCACA
*
73086320 TTA-GTGCTATCTGATTATTAGCACA
1 TTAGGCGCTATCTGATTATTAGCACA
73086345 TTAG
1 TTAG
73086349 TGCTCTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 22 0.88
27 3 0.12
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
TTAGGCGCTATCTGATTATTAGCACA
Found at i:73086332 original size:25 final size:25
Alignment explanation
Indices: 73086304--73086400 Score: 91
Period size: 25 Copynumber: 4.2 Consensus size: 25
73086294 TAGCGCGCTC
*
73086304 TCTGATTATTAGCACGTTAGTGCTA
1 TCTGATTATTAGCACATTAGTGCTA
73086329 TCTGATTATTAGCACATTAGTGC--
1 TCTGATTATTAGCACATTAGTGCTA
** * *
73086352 TCT-CCT-TTAGCACATTTGTGCTC
1 TCTGATTATTAGCACATTAGTGCTA
*
73086375 TCTG--TA-TAGCACATTAGTGCTC
1 TCTGATTATTAGCACATTAGTGCTA
73086397 TCTG
1 TCTG
73086401 TTTAATAGTG
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
21 14 0.22
22 21 0.33
23 6 0.10
25 22 0.35
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.40
Consensus pattern (25 bp):
TCTGATTATTAGCACATTAGTGCTA
Found at i:73086387 original size:22 final size:21
Alignment explanation
Indices: 73086337--73086402 Score: 98
Period size: 22 Copynumber: 3.1 Consensus size: 21
73086327 TATCTGATTA
73086337 TTAGCACATTAGTGCTCTCCT-
1 TTAGCACATTAGTGCTCT-CTG
*
73086358 TTAGCACATTTGTGCTCTCTG
1 TTAGCACATTAGTGCTCTCTG
73086379 TATAGCACATTAGTGCTCTCTG
1 T-TAGCACATTAGTGCTCTCTG
73086401 TT
1 TT
73086403 TAATAGTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.05
21 19 0.46
22 20 0.49
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (21 bp):
TTAGCACATTAGTGCTCTCTG
Found at i:73089477 original size:18 final size:19
Alignment explanation
Indices: 73089442--73089479 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
73089432 CATAAATTTC
73089442 AAAAATTCCAAATATTTAT
1 AAAAATTCCAAATATTTAT
73089461 AAAAATTCCAAAT-TTTAT
1 AAAAATTCCAAATATTTAT
73089479 A
1 A
73089480 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCCAAATATTTAT
Found at i:73095227 original size:17 final size:17
Alignment explanation
Indices: 73095205--73095237 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
73095195 AATGAAAATG
73095205 TAAATAA-AACATATAAA
1 TAAATAATAACA-ATAAA
73095222 TAAATAATAACAATAA
1 TAAATAATAACAATAA
73095238 TGACAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAATAACAATAAA
Found at i:73096886 original size:5 final size:5
Alignment explanation
Indices: 73096876--73096922 Score: 62
Period size: 5 Copynumber: 9.4 Consensus size: 5
73096866 TAAGAAAATC
73096876 TTATT TTATT TTATT TTA-T TTATT TT-TAT TTATTT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTAT-T TTA-TT TTATT TTATT TT
73096923 TTATATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 5 0.13
5 28 0.74
6 4 0.11
7 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:73097659 original size:4 final size:4
Alignment explanation
Indices: 73097650--73097678 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
73097640 AGCAAACGTG
73097650 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
73097679 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:73110174 original size:175 final size:174
Alignment explanation
Indices: 73109877--73110231 Score: 624
Period size: 175 Copynumber: 2.0 Consensus size: 174
73109867 CAAAATTGAG
* *
73109877 CAAATG-GTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTCTTGATTGAAGCAAGACACC
1 CAAATGAGTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTATCGATTGAAGCAAGACACC
* * *
73109941 AACATATTAAAGAGCCACGGTGAAAACAATCACCTAAATGTTGTTGCATCTTCACATGAAATTAC
66 AACATATTAAAGAGCCACGATGAAAACAATCACCCAAATGTTGTTACATCTTCACATGAAATTAC
73110006 AGCACA-CCAAGAAGGATAGAGAGAGACCATGGTGATTAGCTCTCA
131 AGCACACCCAAGAAGGATA-A-AGAGACCATGGTGATTAGCTCTCA
73110051 CAAATGAGTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTATCGATTGAAGCAAGACACC
1 CAAATGAGTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTATCGATTGAAGCAAGACACC
*
73110116 AACATATTAGAGAGCCACGATGAAAACAATCACCCAAATGTTGTTACATCTTCACATGAAATTAC
66 AACATATTAAAGAGCCACGATGAAAACAATCACCCAAATGTTGTTACATCTTCACATGAAATTAC
73110181 AGCACACCCAAGAAGGATAAAGAGACCATGGTGATTAGCTCTCA
131 AGCACACCCAAGAAGGATAAAGAGACCATGGTGATTAGCTCTCA
73110225 CAAATGA
1 CAAATGA
73110232 AGCAAATTGC
Statistics
Matches: 173, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
174 37 0.21
175 124 0.72
176 12 0.07
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (174 bp):
CAAATGAGTGCATCAAGTATTTTAACGAAATTGCAGCAACAAATTATCGATTGAAGCAAGACACC
AACATATTAAAGAGCCACGATGAAAACAATCACCCAAATGTTGTTACATCTTCACATGAAATTAC
AGCACACCCAAGAAGGATAAAGAGACCATGGTGATTAGCTCTCA
Found at i:73119445 original size:16 final size:16
Alignment explanation
Indices: 73119424--73119457 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
73119414 TCAACAATAT
73119424 TAAAA-TAAATTATAAA
1 TAAAATTAAATT-TAAA
73119440 TAAAATTAAATTTAAA
1 TAAAATTAAATTTAAA
73119456 TA
1 TA
73119458 GATAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATTAAATTTAAA
Found at i:73120852 original size:18 final size:18
Alignment explanation
Indices: 73120829--73120864 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73120819 GTTATATAAC
*
73120829 TTTAATTTATTAATATTT
1 TTTAATTAATTAATATTT
*
73120847 TTTAATTAATTGATATTT
1 TTTAATTAATTAATATTT
73120865 AATTAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAATTAATTAATATTT
Found at i:73127321 original size:27 final size:27
Alignment explanation
Indices: 73127291--73127342 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
73127281 TTTAAAACGT
*
73127291 AAATTACAAATATAATTTTATAAATAA
1 AAATTACAAAAATAATTTTATAAATAA
* * *
73127318 AAATTATAAAAATTATTTTTTAAAT
1 AAATTACAAAAATAATTTTATAAAT
73127343 CCATATTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATTACAAAAATAATTTTATAAATAA
Found at i:73134385 original size:19 final size:20
Alignment explanation
Indices: 73134349--73134387 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
73134339 AATTTAAAAG
* *
73134349 TTTTTGAAAATTTATAATTA
1 TTTTTAAAAATATATAATTA
73134369 TTTTTAAAAATAT-TAATTA
1 TTTTTAAAAATATATAATTA
73134388 AAAAGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATATATAATTA
Found at i:73135018 original size:32 final size:31
Alignment explanation
Indices: 73134955--73135018 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
73134945 GTAATTATAG
* * *
73134955 ATATTAAATTAAACATTAAAATTAAACTTGA
1 ATATCAAATTAAACACTAAAATTAAAATTGA
73134986 ATATCAAATTTAAACACT-AAATTAAATATTGA
1 ATATCAAA-TTAAACACTAAAATTAAA-ATTGA
73135018 A
1 A
73135019 GTTAAATCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (31 bp):
ATATCAAATTAAACACTAAAATTAAAATTGA
Found at i:73146059 original size:2 final size:2
Alignment explanation
Indices: 73146052--73146082 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
73146042 TGTATCACAA
*
73146052 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73146083 ATGCGTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:73147050 original size:22 final size:21
Alignment explanation
Indices: 73147010--73147059 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
73147000 GCCTCCAGCG
73147010 CGCCTCCGTACGACCCCCTGCA
1 CGCCTCCGTACGACCCCCT-CA
* *
73147032 CGCCTCCGTATG-CCACCCTCG
1 CGCCTCCGTACGACC-CCCTCA
73147053 CGCCTCC
1 CGCCTCC
73147060 ACGTTGCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.10, C:0.56, G:0.18, T:0.16
Consensus pattern (21 bp):
CGCCTCCGTACGACCCCCTCA
Found at i:73149258 original size:131 final size:131
Alignment explanation
Indices: 73149041--73149295 Score: 356
Period size: 131 Copynumber: 1.9 Consensus size: 131
73149031 TTATTCATTT
* *
73149041 AAAAATTCTTTAAAACAAAGACAATGTTCGATGTTTGACAATTCGGGAATCATGCCCTATCGTGC
1 AAAAATTCTTTAAAACAAAGACAACGTTCGATGTTAGACAATTCGGGAATCATGCCCTATCGTGC
* * * *
73149106 TGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATAT-TCTTTTGGAATTTCACTCATGTCTT
66 TGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAACATCCCTTTT-GAATTTCACTCATGTCTT
73149170 TA
130 TA
* *
73149172 AAAAATTCTTTAAAACGAAGGA-AACGTTCGATGCTTAG-CAATTCGGGGAATCGTGCCCTATCG
1 AAAAATTCTTTAAAAC-AAAGACAACGTTCGATG-TTAGACAATTC-GGGAATCATGCCCTATCG
* *
73149235 TGCTGGGTTGCAATTT-TCATTTGTTCAAAATAATCGAACGTCCCTTTTGAATTTCACTCAT
63 TGCTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAACATCCCTTTTGAATTTCACTCAT
73149296 ATTTTCTAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
131 65 0.59
132 45 0.41
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (131 bp):
AAAAATTCTTTAAAACAAAGACAACGTTCGATGTTAGACAATTCGGGAATCATGCCCTATCGTGC
TGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAACATCCCTTTTGAATTTCACTCATGTCTTT
A
Found at i:73156022 original size:39 final size:39
Alignment explanation
Indices: 73155968--73156045 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
73155958 CTTATGGCAC
73155968 TCACTTCTACTTATAAGTTGTATACGTATTCAGGGGGAA
1 TCACTTCTACTTATAAGTTGTATACGTATTCAGGGGGAA
73156007 TCACTTCTACTTATAAGTTGTATACGTATTCAGGGGGAA
1 TCACTTCTACTTATAAGTTGTATACGTATTCAGGGGGAA
73156046 GTTAGAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (39 bp):
TCACTTCTACTTATAAGTTGTATACGTATTCAGGGGGAA
Found at i:73157220 original size:2 final size:2
Alignment explanation
Indices: 73157184--73157211 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
73157174 GCACATAGTG
73157184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73157212 GCATATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73159436 original size:2 final size:2
Alignment explanation
Indices: 73159429--73159465 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
73159419 ATGTTTTACT
73159429 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73159466 TCAGAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:73170938 original size:27 final size:28
Alignment explanation
Indices: 73170881--73170950 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
73170871 AAATTTGTAC
**
73170881 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
73170909 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
73170936 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73170951 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:73170959 original size:27 final size:27
Alignment explanation
Indices: 73170881--73170962 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
73170871 AAATTTGTAC
* *
73170881 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
73170909 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
73170936 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
73170963 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Done.