Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 38 of 168
Found at i:10246266 original size:81 final size:81
Alignment explanation
Indices: 10246087--10246271 Score: 282
Period size: 81 Copynumber: 2.3 Consensus size: 81
10246077 TTTAACAGCG
* *
10246087 TTTTTGAAAAAGCGCCTCTAATGCTCGGGCCTTTAGCGGCATTTTTAAAAAAGCGCCGCCAATGC
1 TTTTTTAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTTAAAAAAGCGCCGCCAATGC
10246152 TCGGGCCTTTAGCGGA
66 TCGGGCCTTTAGCGGA
* * * *
10246168 GTTTTTAAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTT-GAAAAGTGCCGCTAATG
1 TTTTTTAAA-AAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTTAAAAAAGCGCCGCCAATG
*
10246232 CTCGTGCCTTTAGCGGCA
65 CTCGGGCCTTTAGCGG-A
10246250 TTTTTTAAAAAGCGCCGCTAAT
1 TTTTTTAAAAAGCGCCGCTAAT
10246272 AATAATAAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
81 49 0.52
82 45 0.48
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (81 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCATTTTTAAAAAAGCGCCGCCAATGC
TCGGGCCTTTAGCGGA
Found at i:10246823 original size:15 final size:14
Alignment explanation
Indices: 10246784--10246823 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
10246774 GAACCATGAA
10246784 CTTGGATTTTCATT
1 CTTGGATTTTCATT
*
10246798 CTTGGGGTTTTCATT
1 CTT-GGATTTTCATT
10246813 CTTGGAATTTT
1 CTTGG-ATTTT
10246824 TGTGAGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.55
Consensus pattern (14 bp):
CTTGGATTTTCATT
Found at i:10248544 original size:17 final size:17
Alignment explanation
Indices: 10248522--10248554 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10248512 ATTTTTATTT
10248522 TGTAGCATTAAGTTTTC
1 TGTAGCATTAAGTTTTC
10248539 TGTAGCATTAAGTTTT
1 TGTAGCATTAAGTTTT
10248555 TATTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (17 bp):
TGTAGCATTAAGTTTTC
Found at i:10248994 original size:43 final size:43
Alignment explanation
Indices: 10248947--10249218 Score: 391
Period size: 43 Copynumber: 6.3 Consensus size: 43
10248937 TTTTTGCTAG
* * * * **
10248947 AAGCGTCGCTAAAGGTCATGGTCTATAGCGACGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
10248990 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * *
10249033 AAGCGCCGATAAAAGTCGTGGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * *
10249076 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCAGCATTTGTGAGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* *
10249119 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCTGCGTTTGTGGGGA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* *
10249162 AAGCGCCGCTAAAGGTCGTGGTTTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
*
10249205 AAGTGCCGCTAAAG
1 AAGCGCCGCTAAAG
10249219 TTAGCGACGC
Statistics
Matches: 205, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:10259003 original size:27 final size:27
Alignment explanation
Indices: 10258973--10259097 Score: 112
Period size: 27 Copynumber: 4.6 Consensus size: 27
10258963 CAGTGCTCAT
*
10258973 AGTGATACTGGCACTTTAGTGCAACTC
1 AGTGATAGTGGCACTTTAGTGCAACTC
10259000 AGTGATAGTGGCACTTCT-GTGCAACAT-
1 AGTGATAGTGGCACTT-TAGTGCAAC-TC
* * * *
10259027 AGTGATAATGACAC-TAAGGTGCAACTA
1 AGTGATAGTGGCACTTTA-GTGCAACTC
* ** *
10259054 AGTTATAGTGGCACTTCGGTGCAATTC
1 AGTGATAGTGGCACTTTAGTGCAACTC
*
10259081 AGTGATAGTGGCTCTTT
1 AGTGATAGTGGCACTTT
10259098 GGAGCATTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
26 2 0.03
27 73 0.94
28 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (27 bp):
AGTGATAGTGGCACTTTAGTGCAACTC
Found at i:10259108 original size:27 final size:27
Alignment explanation
Indices: 10258973--10259111 Score: 82
Period size: 27 Copynumber: 5.1 Consensus size: 27
10258963 CAGTGCTCAT
* ** * *
10258973 AGTGATACTGGCACTTTAGTGCAACTC
1 AGTGATAGTGGCACTTCGGAGCAATTC
* * *
10259000 AGTGATAGTGGCACTTCTGTGCAACAT-
1 AGTGATAGTGGCACTTCGGAGCAA-TTC
* * ** * * *
10259027 AGTGATAATGACACTAAGGTGCAACTA
1 AGTGATAGTGGCACTTCGGAGCAATTC
* *
10259054 AGTTATAGTGGCACTTCGGTGCAATTC
1 AGTGATAGTGGCACTTCGGAGCAATTC
* * *
10259081 AGTGATAGTGGCTCTTTGGAGCATTTC
1 AGTGATAGTGGCACTTCGGAGCAATTC
10259108 AGTG
1 AGTG
10259112 GTTCTGCACT
Statistics
Matches: 88, Mismatches: 22, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
26 1 0.01
27 86 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (27 bp):
AGTGATAGTGGCACTTCGGAGCAATTC
Found at i:10259932 original size:21 final size:21
Alignment explanation
Indices: 10259908--10259950 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
10259898 TTAGGTTAGG
10259908 CTTT-CTTTCTCTTTTCCTTTC
1 CTTTCCTTT-TCTTTTCCTTTC
*
10259929 CTTTCCTTTTCTTTTTCTTTC
1 CTTTCCTTTTCTTTTCCTTTC
10259950 C
1 C
10259951 ATTTTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTTCCTTTTCTTTTCCTTTC
Found at i:10259937 original size:16 final size:15
Alignment explanation
Indices: 10259908--10259955 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
10259898 TTAGGTTAGG
10259908 CTTTCTTTCTCTTTTC
1 CTTTCTTTC-CTTTTC
10259924 CTTTCCTTTCCTTTTC
1 CTTT-CTTTCCTTTTC
*
10259940 TTTTTCTTTCCATTTT
1 -CTTTCTTTCC-TTTT
10259956 TAGTTTAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (15 bp):
CTTTCTTTCCTTTTC
Found at i:10261678 original size:2 final size:2
Alignment explanation
Indices: 10261671--10261701 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10261661 GAAACATTGC
10261671 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 T
10261702 TCATATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10268263 original size:21 final size:21
Alignment explanation
Indices: 10268237--10268283 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10268227 CATTCAAAGT
*
10268237 TCAGTGCCATAACACCCATCC
1 TCAGTGCCATAACACCCATAC
* *
10268258 TCAGTGCCATGACACCGATAC
1 TCAGTGCCATAACACCCATAC
10268279 TCAGT
1 TCAGT
10268284 ATCACGACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (21 bp):
TCAGTGCCATAACACCCATAC
Found at i:10277269 original size:50 final size:50
Alignment explanation
Indices: 10277210--10277309 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
10277200 GCAAAAGGTG
10277210 AAGGACTTCAAATTATTGATCAACCAATTATTTTTGAGCCACTTCAACCT
1 AAGGACTTCAAATTATTGATCAACCAATTATTTTTGAGCCACTTCAACCT
10277260 AAGGACTTCAAATTATTGATCAACCAATTATTTTTGAGCCACTTCAACCT
1 AAGGACTTCAAATTATTGATCAACCAATTATTTTTGAGCCACTTCAACCT
10277310 TCATAAAGAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (50 bp):
AAGGACTTCAAATTATTGATCAACCAATTATTTTTGAGCCACTTCAACCT
Found at i:10280790 original size:20 final size:20
Alignment explanation
Indices: 10280765--10280805 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10280755 TAATGGTTGG
*
10280765 TATCAAGATTTTGGAAAGAT
1 TATCAAGAATTTGGAAAGAT
* *
10280785 TATCAATAATTTGGCAAGAT
1 TATCAAGAATTTGGAAAGAT
10280805 T
1 T
10280806 CAAAAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (20 bp):
TATCAAGAATTTGGAAAGAT
Found at i:10281708 original size:30 final size:29
Alignment explanation
Indices: 10281672--10281737 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
10281662 TGTGCGGCAT
* * *
10281672 CCCGTGTGCCTTACATGATTGTGTGTCCAG
1 CCCGTGTGCCTCACACG-CTGTGTGTCCAG
*
10281702 CCCGTGTGGCTCACACGCTGTGTGTCCAG
1 CCCGTGTGCCTCACACGCTGTGTGTCCAG
10281731 CCCGTGT
1 CCCGTGT
10281738 AGCTCTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.11, C:0.32, G:0.29, T:0.29
Consensus pattern (29 bp):
CCCGTGTGCCTCACACGCTGTGTGTCCAG
Found at i:10284774 original size:18 final size:16
Alignment explanation
Indices: 10284753--10284786 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
10284743 TCTTTTCGGA
10284753 AAAATAATTAAATATTAT
1 AAAATAA-TAAA-ATTAT
10284771 AAAATAATAAAATTAT
1 AAAATAATAAAATTAT
10284787 GTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAATAAAATTAT
Found at i:10291584 original size:26 final size:28
Alignment explanation
Indices: 10291523--10291588 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
10291513 TAATAAATAT
10291523 CTTTA-ATATTATTAATAATTTGATAAA
1 CTTTATATATTATTAATAATTTGATAAA
*
10291550 CTTTAATATATTATTATATTATTT-AT-AA
1 CTTT-ATATATTATTA-ATAATTTGATAAA
10291578 -TTTATATATTA
1 CTTTATATATTA
10291589 ATTTTTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 8 0.23
27 7 0.20
28 3 0.09
29 11 0.31
30 6 0.17
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (28 bp):
CTTTATATATTATTAATAATTTGATAAA
Found at i:10299553 original size:44 final size:45
Alignment explanation
Indices: 10299424--10299606 Score: 237
Period size: 45 Copynumber: 4.1 Consensus size: 45
10299414 AATAATAACA
* * *
10299424 GATACACGGTGG-ATCAGCACACAGC-ACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
** * * *
10299467 GATACTAGGTGGAATCAGCACATAGCAACCATCTTCATAATCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
* *
10299512 GGTACCCGGTGGAATCAACAC-CAGCAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
*
10299556 GATACCCGGTGGAATCAGCACACAACAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
*
10299601 GGTACC
1 GATACC
10299607 TGGTACACGT
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
43 10 0.08
44 51 0.43
45 58 0.49
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
Found at i:10299567 original size:89 final size:88
Alignment explanation
Indices: 10299430--10299606 Score: 248
Period size: 89 Copynumber: 2.0 Consensus size: 88
10299420 AACAGATACA
* * * * *
10299430 CGGTGGATCAGCACACAGCACCACCCTTATAGTCAATGATACTAGGTGGAATCAGCACATAGCAA
1 CGGTGGATCAACACACAGCACCACCCTTATAATCAATGATACCAGGTGGAATCAGCACACAACAA
*
10299495 CCATCTTCATAATCAATGGTACC
66 CCACCTTCATAATCAATGGTACC
* *
10299518 CGGTGGAATCAACAC-CAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAAC
1 CGGTGG-ATCAACACACAGC-ACCACCCTTATAATCAATGATACCAGGTGGAATCAGCACACAAC
*
10299582 AACCACCTTTATAATCAATGGTACC
64 AACCACCTTCATAATCAATGGTACC
10299607 TGGTACACGT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
88 10 0.13
89 68 0.87
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (88 bp):
CGGTGGATCAACACACAGCACCACCCTTATAATCAATGATACCAGGTGGAATCAGCACACAACAA
CCACCTTCATAATCAATGGTACC
Found at i:10308302 original size:20 final size:20
Alignment explanation
Indices: 10308277--10308314 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10308267 TGCATTTATG
10308277 AAGTTT-ATTGATAGAATATT
1 AAGTTTGATTGAT-GAATATT
10308297 AAGTTTGATTGATGAATA
1 AAGTTTGATTGATGAATA
10308315 AATTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (20 bp):
AAGTTTGATTGATGAATATT
Found at i:10308973 original size:45 final size:45
Alignment explanation
Indices: 10308835--10308994 Score: 139
Period size: 45 Copynumber: 3.6 Consensus size: 45
10308825 TATACTGGAA
* * *
10308835 AAGACCATAGTTGAAAGACACTAT-G-A-CACAATACCAGAAACGAGT
1 AAGACCATAGCTGAAAGACACTATGGCATCACAA-ATC-TAAA-GAGT
* *** * * **
10308880 AAGACCATAGCTAAAAGATGTTATGGCATCACGATTCTATCGAGT
1 AAGACCATAGCTGAAAGACACTATGGCATCACAAATCTAAAGAGT
*
10308925 AAGACCATAGCTGAAAGACACTATGGCATCACAAATCTAAAGAAT
1 AAGACCATAGCTGAAAGACACTATGGCATCACAAATCTAAAGAGT
*
10308970 AAGACCGTAG-TCGAAAGACACTATG
1 AAGACCATAGCT-GAAAGACACTATG
10308995 ACAACACGAC
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
44 1 0.01
45 81 0.90
46 2 0.02
47 2 0.02
48 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (45 bp):
AAGACCATAGCTGAAAGACACTATGGCATCACAAATCTAAAGAGT
Found at i:10309487 original size:21 final size:21
Alignment explanation
Indices: 10309453--10309495 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
10309443 ATTGAGGAAT
*
10309453 TATGTATTGAAATTCATATTGA
1 TATGTATTCAAATTCA-ATTGA
10309475 TATGT-TTCAAATTCAATTGA
1 TATGTATTCAAATTCAATTGA
10309495 T
1 T
10309496 TGGATATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (21 bp):
TATGTATTCAAATTCAATTGA
Found at i:10311589 original size:17 final size:19
Alignment explanation
Indices: 10311553--10311593 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
10311543 ATAGATGCAA
10311553 TATTTAACTTTTATTAATT
1 TATTTAACTTTTATTAATT
10311572 TATTTAA-TTTTA-TAATT
1 TATTTAACTTTTATTAATT
10311589 TATTT
1 TATTT
10311594 CTTCTTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 10 0.45
18 5 0.23
19 7 0.32
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTAACTTTTATTAATT
Found at i:10317949 original size:6 final size:6
Alignment explanation
Indices: 10317938--10317964 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10317928 CGAATTAAGC
10317938 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
10317965 TAAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:10324379 original size:93 final size:92
Alignment explanation
Indices: 10324261--10324433 Score: 215
Period size: 93 Copynumber: 1.9 Consensus size: 92
10324251 GTGTGATACT
* * * *
10324261 ATAACATGGTTGTGTTGCCTAACCGTGTCACAAACTGATGTCGCGTAGTCCAGGGTCACACGGCC
1 ATAACATGGTCGTGTTGCCTAACCGTGCCACAAACTGATGTCGCATAGTCC-GGGTCACACGACC
10324326 GTGTAA-CAGACTTTGGTCTTGTGGCACA
65 GTGTAATC-GACTTTGGTCTTGTGGCACA
* * * * *
10324354 ATAACATGGTCGTGTTG-CTCGACCGTGCCATAGACTGATGTTGTATAGTCCGGGTCACACGACC
1 ATAACATGGTCGTGTTGCCT-AACCGTGCCACAAACTGATGTCGCATAGTCCGGGTCACACGACC
*
10324418 TTGTAATCGACTTTGG
65 GTGTAATCGACTTTGG
10324434 CCGTGTGGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
92 27 0.40
93 41 0.60
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (92 bp):
ATAACATGGTCGTGTTGCCTAACCGTGCCACAAACTGATGTCGCATAGTCCGGGTCACACGACCG
TGTAATCGACTTTGGTCTTGTGGCACA
Found at i:10340381 original size:13 final size:13
Alignment explanation
Indices: 10340363--10340387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10340353 TTTTATTTGT
10340363 TTATTCCCACCGA
1 TTATTCCCACCGA
10340376 TTATTCCCACCG
1 TTATTCCCACCG
10340388 GCTGAATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (13 bp):
TTATTCCCACCGA
Found at i:10342414 original size:32 final size:32
Alignment explanation
Indices: 10342368--10342447 Score: 133
Period size: 32 Copynumber: 2.5 Consensus size: 32
10342358 GAGACTTGTG
*
10342368 CAACGCATTAATTAAATGTGTATATTCATATA
1 CAACTCATTAATTAAATGTGTATATTCATATA
*
10342400 CAACTCATTAATTAAATGTGTATATTCGTATA
1 CAACTCATTAATTAAATGTGTATATTCATATA
*
10342432 CTACTCATTAATTAAA
1 CAACTCATTAATTAAA
10342448 AATATTTCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (32 bp):
CAACTCATTAATTAAATGTGTATATTCATATA
Found at i:10342636 original size:62 final size:62
Alignment explanation
Indices: 10342565--10342712 Score: 296
Period size: 62 Copynumber: 2.4 Consensus size: 62
10342555 ATAAAATAAA
10342565 AATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
1 AATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
10342627 AATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
1 AATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
10342689 AATTGGATCATTAGATATAATCAA
1 AATTGGATCATTAGATATAATCAA
10342713 CTTGATTCTA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 86 1.00
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.32
Consensus pattern (62 bp):
AATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
Found at i:10342938 original size:44 final size:41
Alignment explanation
Indices: 10342890--10342998 Score: 98
Period size: 44 Copynumber: 2.6 Consensus size: 41
10342880 AGTATTATAT
10342890 ATTATGATTTTAGTAAATTCATATAAGAATAAGAATT-TTATTAA
1 ATTAT-ATTTTAGTAAATT-ATAT-AGAATAAGAATTATT-TTAA
* ** *
10342934 ATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAA
1 A-T-TATATT-TTAGTAAATTATATAGAATAAGAATTATTTTAA
10342978 ATTATATTTTAGT--ATTATATA
1 ATTATATTTTAGTAAATTATATA
10342999 TTATGATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.13
41 4 0.07
42 6 0.11
43 1 0.02
44 15 0.27
45 10 0.18
46 12 0.22
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (41 bp):
ATTATATTTTAGTAAATTATATAGAATAAGAATTATTTTAA
Found at i:10342977 original size:26 final size:28
Alignment explanation
Indices: 10342923--10342986 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
10342913 TAAGAATAAG
* * *
10342923 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
10342951 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
10342977 AATTATATTT
1 AATTATATTT
10342987 TAGTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:10343056 original size:108 final size:106
Alignment explanation
Indices: 10342836--10343095 Score: 312
Period size: 117 Copynumber: 2.3 Consensus size: 106
10342826 AATAAAGTAG
10342836 ATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
1 ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
10342900 TAGTAAATTCATATAAGAATAAGAATTTTATTAAATTATATATT
66 TAGTAAATTCATATAAGAAT-A-AATTTTA-TAAATTATATATT
10342944 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTT-TAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA--
10343007 TTATTAGTAAATTCATATAAGAATACTTATTAACAATTTTATTAAATTATATATT
63 TT-TTAGTAAATTCATATAAG---A---A-T-A-AATTTTA-TAAATTATATATT
* *
10343062 -TTATTAAATTATATTTTATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTAT-TTAAA
10343096 ATATGATTAA
Statistics
Matches: 136, Mismatches: 3, Indels: 17
0.87 0.02 0.11
Matches are distributed among these distances:
108 22 0.16
109 26 0.19
110 13 0.10
111 18 0.13
114 1 0.01
116 1 0.01
117 31 0.23
118 24 0.18
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (106 bp):
ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTT
TAGTAAATTCATATAAGAATAAATTTTATAAATTATATATT
Found at i:10343080 original size:15 final size:17
Alignment explanation
Indices: 10343042--10343075 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10343032 CTTATTAACA
10343042 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
10343059 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
10343076 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:10343089 original size:16 final size:15
Alignment explanation
Indices: 10343042--10343089 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
10343032 CTTATTAACA
*
10343042 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
10343059 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
10343074 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
10343090 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:10343282 original size:16 final size:16
Alignment explanation
Indices: 10343261--10343299 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
10343251 CACAAGAATA
*
10343261 CCATTACGCCTTTATT
1 CCATTACGCCTCTATT
10343277 CCATTACGCCTCTATT
1 CCATTACGCCTCTATT
10343293 CCATTAC
1 CCATTAC
10343300 AGCGAACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (16 bp):
CCATTACGCCTCTATT
Found at i:10343753 original size:27 final size:28
Alignment explanation
Indices: 10343714--10343767 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
10343704 CATGGTAAGC
10343714 TTAGAGTTAGGGTTCATAAACCCATTAA
1 TTAGAGTTAGGGTTCATAAACCCATTAA
10343742 TTAGA-TTAGGGTTCATAAACCCATTA
1 TTAGAGTTAGGGTTCATAAACCCATTA
10343768 TTCTAGTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (28 bp):
TTAGAGTTAGGGTTCATAAACCCATTAA
Found at i:10343777 original size:27 final size:26
Alignment explanation
Indices: 10343718--10343777 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 26
10343708 GTAAGCTTAG
10343718 AGTTAGGGTTCATAAACCCATTAATT
1 AGTTAGGGTTCATAAACCCATTAATT
*
10343744 AGATTAGGGTTCATAAACCCATTATTCT
1 AG-TTAGGGTTCATAAACCCATTAAT-T
10343772 AGTTAG
1 AGTTAG
10343778 AATCAATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 2 0.06
27 26 0.84
28 3 0.10
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (26 bp):
AGTTAGGGTTCATAAACCCATTAATT
Found at i:10351272 original size:35 final size:35
Alignment explanation
Indices: 10351221--10351295 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
10351211 CGGTTTGGGT
10351221 TGTGTACTGATACAAGATGGTTAAGTGGTGGCTTA
1 TGTGTACTGATACAAGATGGTTAAGTGGTGGCTTA
* *
10351256 TGTGTACTGTTGCAAGATGGTTAAGTGGTGGCTTA
1 TGTGTACTGATACAAGATGGTTAAGTGGTGGCTTA
10351291 TGTGT
1 TGTGT
10351296 CTAGATAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.21, C:0.08, G:0.33, T:0.37
Consensus pattern (35 bp):
TGTGTACTGATACAAGATGGTTAAGTGGTGGCTTA
Found at i:10373599 original size:20 final size:20
Alignment explanation
Indices: 10373574--10373612 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10373564 TTGCTTCTTC
10373574 TTTACTTACCCTCTTACTTG
1 TTTACTTACCCTCTTACTTG
**
10373594 TTTACTTACTTTCTTACTT
1 TTTACTTACCCTCTTACTT
10373613 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTACTTACCCTCTTACTTG
Found at i:10373905 original size:49 final size:49
Alignment explanation
Indices: 10373822--10373993 Score: 197
Period size: 49 Copynumber: 3.5 Consensus size: 49
10373812 ACATGCTAAA
* * * *
10373822 GCCATGTCCCAGACATGGTCTTATATGAGATGTTTCC-AGTACTGCCAAT
1 GCCATATCCCAGATATGGTCTTACATGGGATGTTTCCTA-TACTGCCAAT
*
10373871 GCCATATCCCAGATATGGTCTTACATGGGTTGTTTCCTATACTGCCAAT
1 GCCATATCCCAGATATGGTCTTACATGGGATGTTTCCTATACTGCCAAT
* * *
10373920 GCCATATCCCAAATATGGTCTTACATGGGAT-TTCTCATAT-CGATGCCCAT
1 GCCATATCCCAGATATGGTCTTACATGGGATGTT-TCCTATAC--TGCCAAT
* *
10373970 GCCATGTCCCAGACATGGTCTTAC
1 GCCATATCCCAGATATGGTCTTAC
10373994 GGGGGACCTC
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
48 3 0.03
49 76 0.71
50 28 0.26
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACATGGGATGTTTCCTATACTGCCAAT
Found at i:10373988 original size:50 final size:49
Alignment explanation
Indices: 10373813--10374106 Score: 211
Period size: 50 Copynumber: 5.8 Consensus size: 49
10373803 CTGATAATAA
* * * *
10373813 CATGCTAAAGCCATGTCCCAGACATGGTCTTATATGAGATGTT-TCCAGTA-
1 CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-TTCT-CA-TAT
* * * *
10373863 C-TGCCAATGCCATATCCCAGATATGGTCTTACATGGG-TTGTTTCCTAT
1 CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATT-TCTCATAT
* * *
10373911 -ACTGCCAATGCCATATCCCAAATATGGTCTTACATGGGATTTCTCATAT
1 CA-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTCTCATAT
* ** ** *
10373960 CGATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCT
1 C-ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTCTCATAT
* * ** * **
10374010 CGGTGCGAATGCCATGTCCCAGACATGGTCTTATGTGAGACCTCTCATAACCT
1 C-ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTCTCAT-A--T
10374063 CAATAATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 C----ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
10374107 CTCATTCCCT
Statistics
Matches: 197, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
47 3 0.02
48 3 0.02
49 72 0.37
50 83 0.42
51 1 0.01
53 2 0.01
56 33 0.17
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTCTCATAT
Found at i:10384033 original size:39 final size:39
Alignment explanation
Indices: 10383990--10384065 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
10383980 ACCCTAATGG
*
10383990 GTAACCAGGCACTATTATTCATTATTCATATAGGTTTAA
1 GTAACCAGGCACTATTATTCATCATTCATATAGGTTTAA
* * *
10384029 GTAACCAGGTACTATTATTCATCATTCGTGTAGGTTT
1 GTAACCAGGCACTATTATTCATCATTCATATAGGTTT
10384066 TAACCCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (39 bp):
GTAACCAGGCACTATTATTCATCATTCATATAGGTTTAA
Found at i:10393879 original size:94 final size:93
Alignment explanation
Indices: 10393714--10393925 Score: 246
Period size: 94 Copynumber: 2.3 Consensus size: 93
10393704 ATGTGTTTTT
* * * *
10393714 TGACCCACACCACCTGGACACACGGACGTTTCCTAGGCCATGTGCACAATAAGGGGTTTAACAGT
1 TGACCCACACGACCTGGACACAC-GACGTTTCCTAGGCCACGTACACAATAAGGGGTCTAACAGT
10393779 GAGTTACACAACCTGACGACATGGCCATA
65 GAGTTACACAACCTGACGACATGGCCATA
* * * *
10393808 TGACCCACACGACCTGGACACACGA-GTATGTGCTAGGCCGCGTACACAATAAGGGGTCTGATAG
1 TGACCCACACGACCTGGACACACGACGT-T-TCCTAGGCCACGTACACAATAAGGGGTCTAACAG
* * * * * * *
10393872 TGGGTTACACGACCTGGCGATATGTCCTTG
64 TGAGTTACACAACCTGACGACATGGCCATA
*
10393902 TGACCCACACGGCCTGGACACACG
1 TGACCCACACGACCTGGACACACG
10393926 GGCATGTCCT
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
92 2 0.02
93 3 0.03
94 95 0.95
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (93 bp):
TGACCCACACGACCTGGACACACGACGTTTCCTAGGCCACGTACACAATAAGGGGTCTAACAGTG
AGTTACACAACCTGACGACATGGCCATA
Found at i:10394426 original size:18 final size:18
Alignment explanation
Indices: 10394405--10394447 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10394395 TTTGTTATGC
*
10394405 TATTATTTT-CATTTATTT
1 TATTATTTTACATTT-TAT
*
10394423 TATTTTTTTACATTTTAT
1 TATTATTTTACATTTTAT
10394441 TATTATT
1 TATTATT
10394448 ACCTAGTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TATTATTTTACATTTTAT
Found at i:10397092 original size:77 final size:77
Alignment explanation
Indices: 10397004--10397158 Score: 256
Period size: 77 Copynumber: 2.0 Consensus size: 77
10396994 GTTGTGAAAG
* *
10397004 ATTAATTTTAATGTTAGTTGAGCATGTTGCTTGAGGACAGGCAAACGCTTAAGTGTGGGGATAAT
1 ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGACAAGCAAACGCTTAAGTGTGGGGATAAT
10397069 TAATAAGCTATA
66 TAATAAGCTATA
* *
10397081 ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGACAAGCAAATGCTTAAGTGTGGGGATATT
1 ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGACAAGCAAACGCTTAAGTGTGGGGATAAT
* *
10397146 TGATAAGTTATA
66 TAATAAGCTATA
10397158 A
1 A
10397159 AAGTAACATA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (77 bp):
ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGACAAGCAAACGCTTAAGTGTGGGGATAAT
TAATAAGCTATA
Found at i:10408083 original size:26 final size:26
Alignment explanation
Indices: 10408045--10408102 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
10408035 AGAAATATTT
*
10408045 TAAAAATATGT-AAATTACAAAAAAC
1 TAAAAATACGTAAAATTACAAAAAAC
* * *
10408070 ATAAAAATCCGTAAAATTAGAAAAATC
1 -TAAAAATACGTAAAATTACAAAAAAC
10408097 TAAAAA
1 TAAAAA
10408103 AATTAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.64, C:0.09, G:0.05, T:0.22
Consensus pattern (26 bp):
TAAAAATACGTAAAATTACAAAAAAC
Found at i:10408104 original size:19 final size:19
Alignment explanation
Indices: 10408082--10408125 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
10408072 AAAAATCCGT
*
10408082 AAAATTAGAAAAATCTA-AA
1 AAAATTA-AAAAATATATAA
10408101 AAAATTAAAAAATATATAA
1 AAAATTAAAAAATATATAA
10408120 AAAATT
1 AAAATT
10408126 TCCAGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATTAAAAAATATATAA
Found at i:10408123 original size:29 final size:29
Alignment explanation
Indices: 10408090--10408147 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
10408080 GTAAAATTAG
10408090 AAAAATCTAAAAAAATTAAAAAATATATA
1 AAAAATCTAAAAAAATTAAAAAATATATA
* ** * *
10408119 AAAAATTTCCAGAAATTTAAAAATATATA
1 AAAAATCTAAAAAAATTAAAAAATATATA
10408148 TAATTTACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAAATCTAAAAAAATTAAAAAATATATA
Found at i:10414705 original size:12 final size:12
Alignment explanation
Indices: 10414688--10414719 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10414678 GACAACAACC
10414688 GTAATTTTCTTT
1 GTAATTTTCTTT
*
10414700 GTAATTTTTTTT
1 GTAATTTTCTTT
10414712 GTAATTTT
1 GTAATTTT
10414720 AGGCTCAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.09, T:0.69
Consensus pattern (12 bp):
GTAATTTTCTTT
Found at i:10417624 original size:19 final size:20
Alignment explanation
Indices: 10417602--10417639 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10417592 AATTTTTAAG
10417602 TTATAGATAC-GACTTTATT
1 TTATAGATACTGACTTTATT
* *
10417621 TTATTGCTACTGACTTTAT
1 TTATAGATACTGACTTTAT
10417640 CTTTCTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (20 bp):
TTATAGATACTGACTTTATT
Found at i:10422610 original size:51 final size:51
Alignment explanation
Indices: 10422550--10422658 Score: 218
Period size: 51 Copynumber: 2.1 Consensus size: 51
10422540 TATCTTTTGT
10422550 TTGCTTGAGCTTGAAGAAATAGAAGTGATTGGCTAGGAGCATGTACATGGG
1 TTGCTTGAGCTTGAAGAAATAGAAGTGATTGGCTAGGAGCATGTACATGGG
10422601 TTGCTTGAGCTTGAAGAAATAGAAGTGATTGGCTAGGAGCATGTACATGGG
1 TTGCTTGAGCTTGAAGAAATAGAAGTGATTGGCTAGGAGCATGTACATGGG
10422652 TTGCTTG
1 TTGCTTG
10422659 TGTTTATGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.29
Consensus pattern (51 bp):
TTGCTTGAGCTTGAAGAAATAGAAGTGATTGGCTAGGAGCATGTACATGGG
Found at i:10430307 original size:41 final size:41
Alignment explanation
Indices: 10430223--10430307 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
10430213 ATTTAATTAT
* ** **
10430223 CCCCTGTTTGTACTTCAGTACCCCTGAATTGCAGTTATTTG
1 CCCCTGTTTGTACTTCAGTACCCCTGAATTACACATACGTG
* *
10430264 CCCCTGTTTGTACTTCGGTAGCCCTGAATTACACATACGTG
1 CCCCTGTTTGTACTTCAGTACCCCTGAATTACACATACGTG
10430305 CCC
1 CCC
10430308 TATTTACACT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.34
Consensus pattern (41 bp):
CCCCTGTTTGTACTTCAGTACCCCTGAATTACACATACGTG
Found at i:10443011 original size:18 final size:18
Alignment explanation
Indices: 10442988--10443022 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10442978 AAGATAAACC
10442988 ATAAAA-TAGATTAATGAG
1 ATAAAATTA-ATTAATGAG
10443006 ATAAAATTAATTAATGA
1 ATAAAATTAATTAATGA
10443023 AAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (18 bp):
ATAAAATTAATTAATGAG
Found at i:10459285 original size:98 final size:98
Alignment explanation
Indices: 10459116--10459307 Score: 321
Period size: 98 Copynumber: 2.0 Consensus size: 98
10459106 AATAAAAATA
*
10459116 TTAAAAGAACATCCACTCATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACGATCCCT
1 TTAAAAGAACATCCACTCATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCCT
*
10459181 TTAGAATCCCGAACTCGGAATATTTCCTTTAAT
66 TTAGAATCCCAAACTCGGAATATTTCCTTTAAT
* * * *
10459214 TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCT
1 TTAAAAGAACATCCACTCATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCCT
*
10459279 TTAGAATCTCAAACTCGGAATATTTCCTT
66 TTAGAATCCCAAACTCGGAATATTTCCTT
10459308 CATGATTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (98 bp):
TTAAAAGAACATCCACTCATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCCT
TTAGAATCCCAAACTCGGAATATTTCCTTTAAT
Found at i:10460208 original size:22 final size:21
Alignment explanation
Indices: 10460178--10460221 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10460168 ATTTTATTTT
**
10460178 CAAAACCTTCTTTTTAAAAAAA
1 CAAAACCTT-TTTAAAAAAAAA
*
10460200 CAAATCCTTTTTAAAAAAAAA
1 CAAAACCTTTTTAAAAAAAAA
10460221 C
1 C
10460222 CTCTCAACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (21 bp):
CAAAACCTTTTTAAAAAAAAA
Found at i:10460751 original size:5 final size:5
Alignment explanation
Indices: 10460743--10460774 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
10460733 AAAAATCTTC
*
10460743 TTGAT TTGAT TTGAT TTGGT TTGAT TTGAT TT
1 TTGAT TTGAT TTGAT TTGAT TTGAT TTGAT TT
10460775 TTGTTTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (5 bp):
TTGAT
Found at i:10461228 original size:44 final size:44
Alignment explanation
Indices: 10461167--10461288 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 44
10461157 GACTAGATGA
* * * *
10461167 AATCTGCT-CTCTGCAACTTCAGAGAGGTAAGATCTGT-GATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTCGACTTT
* *
10461210 AATC--CATCCCACTGCAACTTTAGGGAGATAGGATTGTCGACTTT
1 AATCTGC-T-CCACTGCAACTTCAGGGAGATAAGATTGTCGACTTT
10461254 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
10461289 TGCCATCTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 7 0.11
44 54 0.83
45 1 0.02
46 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCGACTTT
Found at i:10463920 original size:29 final size:29
Alignment explanation
Indices: 10463888--10463946 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10463878 AAGAATGAAA
10463888 GAATATTTACTCGAAATAATTGCAAAGAT
1 GAATATTTACTCGAAATAATTGCAAAGAT
10463917 GAATATTTACTCGAAATAATTGCAAAGAT
1 GAATATTTACTCGAAATAATTGCAAAGAT
10463946 G
1 G
10463947 TATTTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (29 bp):
GAATATTTACTCGAAATAATTGCAAAGAT
Found at i:10463960 original size:27 final size:29
Alignment explanation
Indices: 10463888--10463963 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
10463878 AAGAATGAAA
*
10463888 GAATATTTACTCGAAATAATTGCAAAGAT
1 GAATATTTACTCAAAATAATTGCAAAGAT
*
10463917 GAATATTTACTCGAAATAATTGCAAAGAT
1 GAATATTTACTCAAAATAATTGCAAAGAT
* *
10463946 GTAT-TTTA-TTAAAATAAT
1 GAATATTTACTCAAAATAAT
10463964 GATTTCTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 8 0.18
28 4 0.09
29 32 0.73
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.36
Consensus pattern (29 bp):
GAATATTTACTCAAAATAATTGCAAAGAT
Found at i:10470038 original size:98 final size:98
Alignment explanation
Indices: 10469869--10470060 Score: 312
Period size: 98 Copynumber: 2.0 Consensus size: 98
10469859 AATAAAAATA
*
10469869 TTAAAAGAACATCCACTCATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACGATCCCT
1 TTAAAAGAACATCCACTCATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCCT
*
10469934 TTAGAATCCCGAACTCGAAATATTTCCTTTAAT
66 TTAGAATCCCAAACTCGAAATATTTCCTTTAAT
* * * *
10469967 TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCT
1 TTAAAAGAACATCCACTCATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCCT
* *
10470032 TTAGAATCTCAAACTCGGAATATTTCCTT
66 TTAGAATCCCAAACTCGAAATATTTCCTT
10470061 CATGATTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
TTAAAAGAACATCCACTCATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCCT
TTAGAATCCCAAACTCGAAATATTTCCTTTAAT
Found at i:10470972 original size:21 final size:22
Alignment explanation
Indices: 10470933--10470975 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10470923 ATTTTATTTT
*
10470933 CAAAACCTTCTTTTTAAAAAAA
1 CAAAACCTTCTTTTCAAAAAAA
*
10470955 CAAATCCTT-TTTTCAAAAAAA
1 CAAAACCTTCTTTTCAAAAAAA
10470976 AACCTCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (22 bp):
CAAAACCTTCTTTTCAAAAAAA
Found at i:10471509 original size:5 final size:5
Alignment explanation
Indices: 10471499--10471530 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
10471489 AAAAATCTTC
*
10471499 TTGAT TTGAT TTGAT TTGGT TTGAT TTGAT TT
1 TTGAT TTGAT TTGAT TTGAT TTGAT TTGAT TT
10471531 TTGTTTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (5 bp):
TTGAT
Found at i:10477746 original size:16 final size:16
Alignment explanation
Indices: 10477725--10477757 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10477715 CACCTAAGAA
10477725 TCTCTCTCACTTTTTC
1 TCTCTCTCACTTTTTC
10477741 TCTCTCTCACTTTTTC
1 TCTCTCTCACTTTTTC
10477757 T
1 T
10477758 TCGTCATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.36, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTCTCTCACTTTTTC
Found at i:10485272 original size:25 final size:25
Alignment explanation
Indices: 10485230--10485299 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
10485220 CGTTCTGACC
10485230 CACAACTCGTGTGAGCATACCGATT
1 CACAACTCGTGTGAGCATACCGATT
* * * **
10485255 TACAGCTGGTGTGAGCATGTCGATT
1 CACAACTCGTGTGAGCATACCGATT
10485280 CACAACTCGTGTGAGCATAC
1 CACAACTCGTGTGAGCATAC
10485300 ATGTATAGGA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
CACAACTCGTGTGAGCATACCGATT
Found at i:10486487 original size:12 final size:12
Alignment explanation
Indices: 10486470--10486497 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10486460 TCAGGCTGAT
10486470 ACACGGCCTAGC
1 ACACGGCCTAGC
10486482 ACACGGCCTAGC
1 ACACGGCCTAGC
10486494 ACAC
1 ACAC
10486498 AGGCTTGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.43, G:0.21, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:10490747 original size:18 final size:18
Alignment explanation
Indices: 10490724--10490758 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10490714 GAGTTAAACG
10490724 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
10490742 AATCGAGTTATTCGAAT
1 AATCGAGTTATTCGAAT
10490759 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:10491097 original size:29 final size:31
Alignment explanation
Indices: 10491064--10491122 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
10491054 AAACCTTTTA
10491064 TTTTCCCC-AAAAATTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAAATTTTACTCCCTTCCCAC
* *
10491093 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAAATTTTACTCCCTTCCCA
10491123 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.22, C:0.39, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTTCCCCTAAAAATTTTACTCCCTTCCCAC
Found at i:10502596 original size:56 final size:56
Alignment explanation
Indices: 10502497--10502687 Score: 251
Period size: 56 Copynumber: 3.4 Consensus size: 56
10502487 TTATTGTTTG
* * *
10502497 CATGCTGTCATAAATTGAATTAAACATGTTGTTTGAATGTTTCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAATTAAGC-TGTTGTTTTAATGTTTCAAATTGAGCATTTT
* * *
10502554 CATACTGTCTTAAATTGAATCAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAATTAAGCTGTTGTTTTAATGTTTCAAATTGAGCATTTT
* * * *
10502610 CATGCTGTCTTAAATTAAATTAAGCTTTTG-TTTAATGTTTCAATTTGAGTATTATT
1 CATGCTGTCTTAAATTGAATTAAGCTGTTGTTTTAATGTTTCAAATTGAGCATT-TT
*
10502666 -ATGCTGTCTTAAATTAAATTAA
1 CATGCTGTCTTAAATTGAATTAA
10502688 AGTGTTGCTT
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 42 0.35
56 57 0.47
57 21 0.17
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.45
Consensus pattern (56 bp):
CATGCTGTCTTAAATTGAATTAAGCTGTTGTTTTAATGTTTCAAATTGAGCATTTT
Found at i:10502694 original size:111 final size:114
Alignment explanation
Indices: 10502497--10502726 Score: 274
Period size: 111 Copynumber: 2.1 Consensus size: 114
10502487 TTATTGTTTG
*
10502497 CATGCTGTCATAAATTGAATTAAACATGTTGTTTGAATGTTTCAAATTGAGCATTTTCATACTGT
1 CATGCTGTCATAAATTAAATTAAACATGTTGTTTGAATGTTTCAAATTGAGCATTTTCATACTGT
* * * * * * *
10502562 CTTAAATTGAATCAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATT-TT
66 CTTAAATTAAATAAAGCTGTTGCTTCAGTGTCTCAAAGTAAGCATTATT
* * * * * *
10502610 CATGCTGTCTTAAATTAAATTAAGC-TTTTGTTT-AATGTTTCAATTTGAGTATTATT-ATGCTG
1 CATGCTGTCATAAATTAAATTAAACATGTTGTTTGAATGTTTCAAATTGAGCATT-TTCATACTG
10502672 TCTTAAATTAAATTAAAG-TGTTGCTTCAGTGTCTCAAAGTAAGCATTATT
65 TCTTAAATTAAA-TAAAGCTGTTGCTTCAGTGTCTCAAAGTAAGCATTATT
10502722 -ATGCT
1 CATGCT
10502727 ATTGAAAATT
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
111 63 0.63
112 15 0.15
113 22 0.22
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (114 bp):
CATGCTGTCATAAATTAAATTAAACATGTTGTTTGAATGTTTCAAATTGAGCATTTTCATACTGT
CTTAAATTAAATAAAGCTGTTGCTTCAGTGTCTCAAAGTAAGCATTATT
Found at i:10505559 original size:27 final size:27
Alignment explanation
Indices: 10505494--10505560 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
10505484 GTAGTGATTC
10505494 AATTTGGTTAATTCGGTTAATTCGAGT
1 AATTTGGTTAATTCGGTTAATTCGAGT
* *
10505521 AATTCAGG-TAATTCGGTTAATTCGGGT
1 AATT-TGGTTAATTCGGTTAATTCGAGT
10505548 AATTTGGTTAATT
1 AATTTGGTTAATT
10505561 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.06
27 31 0.89
28 2 0.06
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
AATTTGGTTAATTCGGTTAATTCGAGT
Found at i:10505561 original size:9 final size:9
Alignment explanation
Indices: 10505494--10505560 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
10505484 GTAGTGATTC
*
10505494 AATTTGGTT
1 AATTCGGTT
10505503 AATTCGGTT
1 AATTCGGTT
10505512 AATTCGAG-T
1 AATTCG-GTT
10505521 AATTCAGG-T
1 AATTC-GGTT
10505530 AATTCGGTT
1 AATTCGGTT
*
10505539 AATTCGGGT
1 AATTCGGTT
*
10505548 AATTTGGTT
1 AATTCGGTT
10505557 AATT
1 AATT
10505561 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
8 2 0.04
9 47 0.92
10 2 0.04
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10514707 original size:3 final size:3
Alignment explanation
Indices: 10514699--10514741 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10514689 TTAACATTTT
10514699 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10514742 AGATCCACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10517205 original size:17 final size:17
Alignment explanation
Indices: 10517175--10517230 Score: 105
Period size: 17 Copynumber: 3.4 Consensus size: 17
10517165 TAAATTTATC
10517175 AAAATTAA-TTTTCAAG
1 AAAATTAATTTTTCAAG
10517191 AAAATTAATTTTTCAAG
1 AAAATTAATTTTTCAAG
10517208 AAAATTAATTTTTCAAG
1 AAAATTAATTTTTCAAG
10517225 AAAATT
1 AAAATT
10517231 CTTTAATCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
16 8 0.21
17 31 0.79
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (17 bp):
AAAATTAATTTTTCAAG
Found at i:10518886 original size:15 final size:15
Alignment explanation
Indices: 10518866--10518895 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10518856 TTTCACTATA
*
10518866 ATGTCTTTTGTATTT
1 ATGTCTTTTATATTT
10518881 ATGTCTTTTATATTT
1 ATGTCTTTTATATTT
10518896 TGTATGCATA
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:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (15 bp):
ATGTCTTTTATATTT
Found at i:10525874 original size:27 final size:27
Alignment explanation
Indices: 10525844--10525899 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
10525834 GAAACCAGTA
* *
10525844 TAGTCCA-CTGGGATAGTAAACATGGGG
1 TAGTCCATC-GGGATAATAAACATGAGG
*
10525871 TAGTCTATCGGGATAATAAACATGAGG
1 TAGTCCATCGGGATAATAAACATGAGG
10525898 TA
1 TA
10525900 ATCAACCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (27 bp):
TAGTCCATCGGGATAATAAACATGAGG
Found at i:10530215 original size:30 final size:29
Alignment explanation
Indices: 10530142--10530224 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
10530132 GGTACGAAAG
* * * *
10530142 GTAAATGTAAATGGTTATAGGGTATGTTAT
1 GTAAAT-TGAATGATTACAGGGTATGGTAT
10530172 GT-AATTGAAAATGATTACAGGGTATGGTAT
1 GTAAATTG--AATGATTACAGGGTATGGTAT
10530202 GTAAATATGAATGATTACAGGGT
1 GTAAAT-TGAATGATTACAGGGT
10530225 TGAATATGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 1 0.02
29 3 0.07
30 36 0.80
31 3 0.07
32 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (29 bp):
GTAAATTGAATGATTACAGGGTATGGTAT
Found at i:10530238 original size:30 final size:30
Alignment explanation
Indices: 10530181--10530238 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
10530171 TGTAATTGAA
* *
10530181 AATGATTACAGGGTATGGTATGTAAATATG
1 AATGATTACAGGGTATGATATGCAAATATG
10530211 AATGATTACAGGGT-TGAATATGCAAATA
1 AATGATTACAGGGTATG-ATATGCAAATA
10530239 AGTACAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (30 bp):
AATGATTACAGGGTATGATATGCAAATATG
Found at i:10536572 original size:44 final size:44
Alignment explanation
Indices: 10536509--10536597 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
10536499 AAGGATCGTA
10536509 CCCAAAGGAGGTTGACTTAAATCTAAAAATATTGTCTGCATATG
1 CCCAAAGGAGGTTGACTTAAATCTAAAAATATTGTCTGCATATG
10536553 CCCAAAGGAGGTTGACTTAAATCTAAAAATATTGTCTGCATATG
1 CCCAAAGGAGGTTGACTTAAATCTAAAAATATTGTCTGCATATG
10536597 C
1 C
10536598 AGGTCTAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (44 bp):
CCCAAAGGAGGTTGACTTAAATCTAAAAATATTGTCTGCATATG
Found at i:10543776 original size:5 final size:5
Alignment explanation
Indices: 10543762--10543800 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
10543752 GTGTTCTAAC
* *
10543762 TTTTA -TTTA ATTTA ATTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
10543801 GCATTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:10543786 original size:19 final size:19
Alignment explanation
Indices: 10543762--10543798 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10543752 GTGTTCTAAC
10543762 TTTTATTTAATTTAATTTA
1 TTTTATTTAATTTAATTTA
* *
10543781 TTTTATTTTATTTTATTT
1 TTTTATTTAATTTAATTT
10543799 TAGCATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTTAATTTAATTTA
Found at i:10545405 original size:71 final size:71
Alignment explanation
Indices: 10545274--10545405 Score: 203
Period size: 71 Copynumber: 1.9 Consensus size: 71
10545264 AGCAACGTTG
* * ***
10545274 TGTCATGCCATGCATAGGCTATGGCGCGACACAAGCACTTTGAAGCCAACATATTTGATGTTAAG
1 TGTCACGCCATGCATAGGCTATGGCGCGACACAAGCACTTCGAAGCCAACATAAGGGATGTTAAG
10545339 GTGTCA
66 GTGTCA
10545345 TGTCACGCCATGCATAGGCTATGGCGCGACACAAGCACTTCGAAGCCAA-ATTAAGGGATGT
1 TGTCACGCCATGCATAGGCTATGGCGCGACACAAGCACTTCGAAGCCAACA-TAAGGGATGT
10545406 AAACACCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 54 0.98
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (71 bp):
TGTCACGCCATGCATAGGCTATGGCGCGACACAAGCACTTCGAAGCCAACATAAGGGATGTTAAG
GTGTCA
Found at i:10548497 original size:21 final size:21
Alignment explanation
Indices: 10548473--10548513 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10548463 ACAAGACGCG
*
10548473 CCCTGTGTTAAGCCATAGCAA
1 CCCTATGTTAAGCCATAGCAA
* *
10548494 CCCTATGTTGAGTCATAGCA
1 CCCTATGTTAAGCCATAGCA
10548514 TGAACGTAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
CCCTATGTTAAGCCATAGCAA
Found at i:10552109 original size:50 final size:50
Alignment explanation
Indices: 10552009--10552110 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
10551999 GATGTATTTT
* * * * * *
10552009 TTAAAATATATATTTTAAGGGTGGAGGGAGAGAGGTGGGCGGCACCAGTA
1 TTAAAAAATATATTTTAAGAGTGAAGGGAGAGAGATAGGCAGCACCAGTA
* * * *
10552059 TTAAAAAATATTTTTTAAGAGTGAATGGAGGGAGATAGGCAGCACTAGTA
1 TTAAAAAATATATTTTAAGAGTGAAGGGAGAGAGATAGGCAGCACCAGTA
10552109 TT
1 TT
10552111 TTCTAGTGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.27
Consensus pattern (50 bp):
TTAAAAAATATATTTTAAGAGTGAAGGGAGAGAGATAGGCAGCACCAGTA
Found at i:10554998 original size:23 final size:23
Alignment explanation
Indices: 10554972--10555138 Score: 168
Period size: 23 Copynumber: 7.3 Consensus size: 23
10554962 GTGTTATTGA
10554972 TCAGTGGTAGCTTCGGCTACAAT
1 TCAGTGGTAGCTTCGGCTACAAT
10554995 TCAGTGGTAGCTAT-GGCTAC-AT
1 TCAGTGGTAGCT-TCGGCTACAAT
*
10555017 ATCAGTGGTAGCTTCGGCTACATT
1 -TCAGTGGTAGCTTCGGCTACAAT
* *
10555041 TTAGTGGTAG-TTACGACTAC-AT
1 TCAGTGGTAGCTT-CGGCTACAAT
*
10555063 ATCAGTGGTAGCTTCGGCTACATT
1 -TCAGTGGTAGCTTCGGCTACAAT
* *
10555087 TTAGTGGTAG-TTACGACTAC-AT
1 TCAGTGGTAGCTT-CGGCTACAAT
10555109 ATCAGTGGTAGCTTCGGCTACATAT
1 -TCAGTGGTAGCTTCGGCTACA-AT
10555134 T-AGTG
1 TCAGTG
10555139 TGGCACTTAT
Statistics
Matches: 119, Mismatches: 12, Indels: 26
0.76 0.08 0.17
Matches are distributed among these distances:
22 9 0.08
23 100 0.84
24 8 0.07
25 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACAAT
Found at i:10555024 original size:46 final size:46
Alignment explanation
Indices: 10554971--10555138 Score: 266
Period size: 46 Copynumber: 3.7 Consensus size: 46
10554961 AGTGTTATTG
* * * *
10554971 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAATTTAGTGGTAGTTACGACTACAT
*
10555017 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGTTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAATTTAGTGGTAGTTACGACTACAT
*
10555063 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGTTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAATTTAGTGGTAGTTACGACTACAT
10555109 ATCAGTGGTAGCTTCGGCTAC-ATATTAGTG
1 ATCAGTGGTAGCTTCGGCTACAAT-TTAGTG
10555139 TGGCACTTAT
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.01
46 114 0.99
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACAATTTAGTGGTAGTTACGACTACAT
Found at i:10563100 original size:18 final size:18
Alignment explanation
Indices: 10563077--10563113 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10563067 ATTTTTGAAT
10563077 TTTAATTAAATAATAAAA
1 TTTAATTAAATAATAAAA
* *
10563095 TTTAATTATATATTAAAA
1 TTTAATTAAATAATAAAA
10563113 T
1 T
10563114 GATATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAATTAAATAATAAAA
Found at i:10568123 original size:16 final size:16
Alignment explanation
Indices: 10568091--10568123 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10568081 ATTTTAGATT
10568091 TTATTATATAAATTTA
1 TTATTATATAAATTTA
10568107 TTATT-TATAAATATTA
1 TTATTATATAAAT-TTA
10568123 T
1 T
10568124 ATATAAGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTATATAAATTTA
Found at i:10568181 original size:27 final size:24
Alignment explanation
Indices: 10568142--10568192 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
10568132 GGCCAAAAAA
10568142 TATTATATATAAATATAAAGTTACT
1 TATTATATATAAATA-AAAGTTACT
*
10568167 TATTATATAAATAAATAAAATTTACT
1 TATTATAT--ATAAATAAAAGTTACT
10568193 GTTTAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 8 0.35
27 7 0.30
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
TATTATATATAAATAAAAGTTACT
Found at i:10574515 original size:113 final size:113
Alignment explanation
Indices: 10574312--10574537 Score: 274
Period size: 113 Copynumber: 2.0 Consensus size: 113
10574302 TTCACTGTTG
* * * * * * *
10574312 ATAGCTTTGTGCTTTAGCTTAGCTATCTATATTTGAAATGCATTTGACCTTAAAGTTGAGAGAGT
1 ATAGCTTTGTGCATTAACTTAGCTATCTATATTTGAAATACATTTGACCTTAAAGGTAAAAAAGT
* * * *
10574377 AAAAAGCTATACTGCGAGATCTAAAAGGGTTGTTGAGTGCTGACACTT
66 AAAAAGCTATACTGCGAGATCTAAAAGGATAGTTGAATGCTGAAACTT
* * * *
10574425 ATAGTTTTGTGCATTAACTTAGCTATCTATATTTGAAATACGTTTGTCCTTATAGGTAAAAAAGT
1 ATAGCTTTGTGCATTAACTTAGCTATCTATATTTGAAATACATTTGACCTTAAAGGTAAAAAAG-
* * *
10574490 TGAAAA-CTATATTGTGAGATCTAAAAGGATAGTTGAATGCTGAAACTT
65 TAAAAAGCTATACTGCGAGATCTAAAAGGATAGTTGAATGCTGAAACTT
10574538 TTTAGTCATA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
113 89 0.95
114 5 0.05
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (113 bp):
ATAGCTTTGTGCATTAACTTAGCTATCTATATTTGAAATACATTTGACCTTAAAGGTAAAAAAGT
AAAAAGCTATACTGCGAGATCTAAAAGGATAGTTGAATGCTGAAACTT
Found at i:10583735 original size:9 final size:9
Alignment explanation
Indices: 10583721--10583747 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10583711 GAATATGTGT
10583721 AGTGCCAAC
1 AGTGCCAAC
10583730 AGTGCCAAC
1 AGTGCCAAC
10583739 AGTGCCAAC
1 AGTGCCAAC
10583748 TACTTCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (9 bp):
AGTGCCAAC
Found at i:10587112 original size:22 final size:23
Alignment explanation
Indices: 10587067--10587112 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
10587057 ACATGATGTT
*
10587067 TCTTTCTCTTATTTTTCTTCTCC
1 TCTTTCTCTTATTTTTCTTATCC
10587090 TCTTTCT-TTCATTTTT-TTATCC
1 TCTTTCTCTT-ATTTTTCTTATCC
10587112 T
1 T
10587113 TCGAGTGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (23 bp):
TCTTTCTCTTATTTTTCTTATCC
Found at i:10587439 original size:21 final size:21
Alignment explanation
Indices: 10587415--10587457 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10587405 AGCAACTTGT
*
10587415 TCTTCTTCAGCAACAACTTCC
1 TCTTCTGCAGCAACAACTTCC
* *
10587436 TCTTCTGCAGTAGCAACTTCC
1 TCTTCTGCAGCAACAACTTCC
10587457 T
1 T
10587458 TCTCATCCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (21 bp):
TCTTCTGCAGCAACAACTTCC
Found at i:10594452 original size:320 final size:320
Alignment explanation
Indices: 10593869--10594517 Score: 1084
Period size: 320 Copynumber: 2.0 Consensus size: 320
10593859 TAGTTGTCGA
* * *
10593869 TGCAATAATTTGAAAATAATAAAATAAAATATGATAATGATAAACTGGGATCCCCAACATGAATC
1 TGCAATAACTTGAAAACAATAAAATAAAATATGATAATGATAAACTAGGATCCCCAACATGAATC
*
10593934 TTCAGTAAAATACTAAGTGCTCACAAGGTATAAAAGGATAGGTGATTGTCAAGGCAATAAAATTC
66 TTCAGTAAAATACTAAGTGCACACAAGGTATAAAAGGATAGGTGATTGTCAAGGCAATAAAATTC
*
10593999 AATTTATATCTTACCAAGCGTCACTCCTCTATTCAATCTAAGACTTAAACATGCATACTAACCTC
131 AATGTATATCTTACCAAGCGTCACTCCTCTATTCAATCTAAGACTTAAACATGCATACTAACCTC
*
10594064 ACCTTCCGATGATGGCAATATGACACTATTAAGAACAAGTGGACTAAATTCCTCTAATCCTCACT
196 ACCTTCCGATGATGGCAATATGACACTATTAAGAACAAATGGACTAAATTCCTCTAATCCTCACT
* * * * *
10594129 CAACTTCTATTGTAATGCTTGTTCGCTCAAATTGTCACTACTCTTTCCAGTGTTAGTGAC
261 CAACTTCCATTGTAATGCTTGTTCGCTCAAACTGTCACTACACTTTCCAGTGTCAGTAAC
*
10594189 TGCAATAACTTGAAAACAATAAAATAAAATATGATAATGATAAACTAGGATCCCTAACATGAATC
1 TGCAATAACTTGAAAACAATAAAATAAAATATGATAATGATAAACTAGGATCCCCAACATGAATC
* *
10594254 TTCAGTAAAATACTAAGTGCACACAAGGTATAAAAGGATAGGTGATTGTCGAGGTAATAAAATTC
66 TTCAGTAAAATACTAAGTGCACACAAGGTATAAAAGGATAGGTGATTGTCAAGGCAATAAAATTC
* *
10594319 AATGTATATCTTACCAAGTGTCACTCCTCTATTCAATCTGAGACTTAAACATGCATACTAACCTC
131 AATGTATATCTTACCAAGCGTCACTCCTCTATTCAATCTAAGACTTAAACATGCATACTAACCTC
* * *
10594384 ACCTTCCGATGATGGCAATAT-AGCACTATTAAGAACAAATTGACTAAATTTCTCTAATCCTTAC
196 ACCTTCCGATGATGGCAATATGA-CACTATTAAGAACAAATGGACTAAATTCCTCTAATCCTCAC
* * *
10594448 TCAACTTCCATTGTAATGCTTGTTGGCTCAAACTGTCACTGCACTTTCTAGTGTCAGTAAC
260 TCAACTTCCATTGTAATGCTTGTTCGCTCAAACTGTCACTACACTTTCCAGTGTCAGTAAC
10594509 TGCAATAAC
1 TGCAATAAC
10594518 ACTTCCGTGT
Statistics
Matches: 306, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
319 1 0.00
320 305 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (320 bp):
TGCAATAACTTGAAAACAATAAAATAAAATATGATAATGATAAACTAGGATCCCCAACATGAATC
TTCAGTAAAATACTAAGTGCACACAAGGTATAAAAGGATAGGTGATTGTCAAGGCAATAAAATTC
AATGTATATCTTACCAAGCGTCACTCCTCTATTCAATCTAAGACTTAAACATGCATACTAACCTC
ACCTTCCGATGATGGCAATATGACACTATTAAGAACAAATGGACTAAATTCCTCTAATCCTCACT
CAACTTCCATTGTAATGCTTGTTCGCTCAAACTGTCACTACACTTTCCAGTGTCAGTAAC
Found at i:10601371 original size:18 final size:18
Alignment explanation
Indices: 10601344--10601380 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10601334 TATTGTAAGA
*
10601344 GTTAAGAGCATGGTGAGT
1 GTTAAAAGCATGGTGAGT
*
10601362 GTTAAAAGCATTGTGAGT
1 GTTAAAAGCATGGTGAGT
10601380 G
1 G
10601381 AAAAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (18 bp):
GTTAAAAGCATGGTGAGT
Found at i:10603862 original size:19 final size:19
Alignment explanation
Indices: 10603830--10603879 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
10603820 AATATTTTTG
*
10603830 AAAAATGTG-TATGTTTAA
1 AAAAATGTGAAATGTTTAA
10603848 AAAAATGTGAAATGTTTAA
1 AAAAATGTGAAATGTTTAA
10603867 AAAAATGTGAAAT
1 AAAAATGTGAAAT
10603880 TGAGCATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (19 bp):
AAAAATGTGAAATGTTTAA
Found at i:10604640 original size:79 final size:79
Alignment explanation
Indices: 10604509--10604666 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
10604499 CATGAACTTG
* *
10604509 CACATTTGACATGTTAATTGCATAGCATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
1 CACATTTGACATGTTAATTGAATAACATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
10604574 TTTTGCTTTTCTGT
66 TTTTGCTTTTCTGT
*
10604588 CACATTTGACATGTTAGTTGAATAACATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
1 CACATTTGACATGTTAATTGAATAACATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
*
10604653 TTTTTCTTTTCTGT
66 TTTTGCTTTTCTGT
10604667 TTGGATTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.47
Consensus pattern (79 bp):
CACATTTGACATGTTAATTGAATAACATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
TTTTGCTTTTCTGT
Found at i:10608637 original size:15 final size:15
Alignment explanation
Indices: 10608614--10608643 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10608604 CTAGGACTTA
*
10608614 TTTACTATCCTTTAG
1 TTTAATATCCTTTAG
10608629 TTTAATATCCTTTAG
1 TTTAATATCCTTTAG
10608644 CTTTGATATA
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:0.23, C:0.17, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTAATATCCTTTAG
Found at i:10609425 original size:13 final size:13
Alignment explanation
Indices: 10609407--10609433 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10609397 TCATGCCATC
10609407 AAACCCGTTTTTG
1 AAACCCGTTTTTG
10609420 AAACCCGTTTTTG
1 AAACCCGTTTTTG
10609433 A
1 A
10609434 CACTTGACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (13 bp):
AAACCCGTTTTTG
Found at i:10613772 original size:27 final size:27
Alignment explanation
Indices: 10613742--10613817 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
10613732 GGGTGTTACA
10613742 TAGTCTGTCAGGACAGTAAACACAGGG
1 TAGTCTGTCAGGACAGTAAACACAGGG
* *
10613769 TAGTCCGTCAGGACAATAAACACAGGG
1 TAGTCTGTCAGGACAGTAAACACAGGG
* *
10613796 TAGTTTGTCAGGATAGTAAACA
1 TAGTCTGTCAGGACAGTAAACA
10613818 AGGAGTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (27 bp):
TAGTCTGTCAGGACAGTAAACACAGGG
Found at i:10624553 original size:12 final size:12
Alignment explanation
Indices: 10624536--10624564 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10624526 AACTAGTATA
10624536 TAATAAAAAAAT
1 TAATAAAAAAAT
10624548 TAATAAAAAAAT
1 TAATAAAAAAAT
10624560 TAATA
1 TAATA
10624565 TAGGTCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAATAAAAAAAT
Found at i:10626283 original size:21 final size:21
Alignment explanation
Indices: 10626259--10626298 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10626249 TAATTGGATA
10626259 AATTAAAATAATATTTTTTAT
1 AATTAAAATAATATTTTTTAT
*
10626280 AATTAAATTAATATTTTTT
1 AATTAAAATAATATTTTTT
10626299 TGTCTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTAAAATAATATTTTTTAT
Found at i:10634639 original size:21 final size:21
Alignment explanation
Indices: 10634613--10634655 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
10634603 ATTTTTAATT
10634613 ATTTTAATTTTAT-ACATTTTA
1 ATTTTAATTTTATCAC-TTTTA
10634634 ATTTTAATTTTATCACTTTTA
1 ATTTTAATTTTATCACTTTTA
10634655 A
1 A
10634656 AACCTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTAATTTTATCACTTTTA
Found at i:10636053 original size:11 final size:10
Alignment explanation
Indices: 10636034--10636073 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
10636024 ATTGAACCGA
10636034 TTTTTATATT
1 TTTTTATATT
*
10636044 TTTTTA-ATA
1 TTTTTATATT
10636053 TTTTTATA--
1 TTTTTATATT
10636061 TTTTTATATT
1 TTTTTATATT
10636071 TTT
1 TTT
10636074 AGTAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.31
9 8 0.31
10 10 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTATATT
Found at i:10636064 original size:7 final size:8
Alignment explanation
Indices: 10636033--10636074 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
10636023 AATTGAACCG
10636033 ATTTTTAT
1 ATTTTTAT
10636041 ATTTTTTTAAT
1 A--TTTTT-AT
10636052 ATTTTTAT
1 ATTTTTAT
10636060 ATTTTTAT
1 ATTTTTAT
10636068 ATTTTTA
1 ATTTTTA
10636075 GTAATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 18 0.58
9 5 0.16
10 5 0.16
11 3 0.10
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Found at i:10644327 original size:31 final size:29
Alignment explanation
Indices: 10644263--10644331 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
10644253 ACGAAAACGT
** *
10644263 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGACAAACAA
*
10644292 AAGTGACTAAAATGTAACCTGAGACAAACAA
1 AAGTGACTAAAATGTAACAT--GACAAACAA
10644323 AAGTGACTA
1 AAGTGACTA
10644332 TTTTGGTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGACAAACAA
Found at i:10644472 original size:16 final size:18
Alignment explanation
Indices: 10644446--10644478 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10644436 AAATTTTAGT
10644446 TAAATATTAAAT-TATTA
1 TAAATATTAAATATATTA
10644463 TAAA-ATTAAATATATT
1 TAAATATTAAATATATT
10644479 TTATTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATATTAAATATATTA
Found at i:10644987 original size:15 final size:16
Alignment explanation
Indices: 10644958--10644990 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10644948 AACTATAAAC
*
10644958 TTAATATAAACTTATA
1 TTAATATAAAATTATA
10644974 TTAAT-TAAAATTATA
1 TTAATATAAAATTATA
10644989 TT
1 TT
10644991 GTATTAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATATAAAATTATA
Found at i:10648242 original size:19 final size:19
Alignment explanation
Indices: 10648218--10648254 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10648208 ATATTTCATG
10648218 TTTAAAATAGTAAAAATAA
1 TTTAAAATAGTAAAAATAA
**
10648237 TTTAAAATTTTAAAAATA
1 TTTAAAATAGTAAAAATA
10648255 TATTCTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TTTAAAATAGTAAAAATAA
Found at i:10650250 original size:5 final size:5
Alignment explanation
Indices: 10650236--10650275 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
10650226 TTTTAGTAGA
*
10650236 TTTAG GTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG
1 TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG TTTAG
10650276 GTTTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (5 bp):
TTTAG
Found at i:10652023 original size:20 final size:20
Alignment explanation
Indices: 10651998--10652042 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
10651988 AGCAGAAGAT
*
10651998 TACGTGCACGAAAAGTGTCC
1 TACGTGCACGAAAAGTATCC
10652018 TACGTGCACGAAAAGTATCC
1 TACGTGCACGAAAAGTATCC
10652038 TACGT
1 TACGT
10652043 ACACAATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (20 bp):
TACGTGCACGAAAAGTATCC
Found at i:10659833 original size:30 final size:30
Alignment explanation
Indices: 10659785--10659855 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
10659775 TGATTGATGC
** * *
10659785 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCACAGTTCGACAACCGAAGTT
* *
10659815 ATCCTTTTTCACAGTTCGACAGCCGAAGTT
1 ATCCCTTTTCACAGTTCGACAACCGAAGTT
10659845 ATCCCTTTTCA
1 ATCCCTTTTCA
10659856 TAATTTAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCACAGTTCGACAACCGAAGTT
Found at i:10659884 original size:60 final size:60
Alignment explanation
Indices: 10659815--10660059 Score: 182
Period size: 60 Copynumber: 4.2 Consensus size: 60
10659805 AACCGAAGTT
* * * ** *
10659815 ATCCTTTTTCACAGTTCGACAGCCGAAGTTATCCCTTTTCATAATTTAATAGTCGTCACC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGTCACC
* * * * ** ** *
10659875 ATCCCTTTTCATTGTTCGATGGTCGTCA-CCATCCCTTTTCATAATTTGATAACCGAAACT
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCCATCCCTTTTCATAATTTGATAGTCGTCACC
* * * *
10659935 ATCCCTTTTCATAGATCGATAGCCAAAGCCATCCCTTTTCATAGTTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGTCACC
* * * * * * * *
10659995 A-------TCAAAGGTCGATAGCCAAACCCATCCCTTTTCATAGTTCGGTGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGTCACC
10660048 ATCCCTTTTCAT
1 ATCCCTTTTCAT
10660060 TGCTGATGGT
Statistics
Matches: 142, Mismatches: 34, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
53 48 0.34
59 1 0.01
60 92 0.65
61 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (60 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGTCGTCACC
Found at i:10659914 original size:90 final size:90
Alignment explanation
Indices: 10659815--10659997 Score: 199
Period size: 90 Copynumber: 2.0 Consensus size: 90
10659805 AACCGAAGTT
* * * ** * ***
10659815 ATCCTTTTTCACAGTTCGACAGCCGAAGTTATCCCTTTTCATA-ATTTAATAGTCGTCA-CCATC
1 ATCCCTTTTCACAATTCGACAACCGAAACTATCCCTTTTCATAGA-TCAATAG-CCAAAGCCATC
*
10659878 CCTTTTCATTGTTCGATGGTCGTCACC
64 CCTTTTCATAGTTCGATGGTCGTCACC
* * * *
10659905 ATCCCTTTTCATAATTTGATAACCGAAACTATCCCTTTTCATAGATCGATAGCCAAAGCCATCCC
1 ATCCCTTTTCACAATTCGACAACCGAAACTATCCCTTTTCATAGATCAATAGCCAAAGCCATCCC
*
10659970 TTTTCATAGTTTGATGGTCGTCACC
66 TTTTCATAGTTCGATGGTCGTCACC
10659995 ATC
1 ATC
10659998 AAAGGTCGAT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
89 2 0.03
90 73 0.96
91 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (90 bp):
ATCCCTTTTCACAATTCGACAACCGAAACTATCCCTTTTCATAGATCAATAGCCAAAGCCATCCC
TTTTCATAGTTCGATGGTCGTCACC
Found at i:10659997 original size:30 final size:30
Alignment explanation
Indices: 10659845--10659997 Score: 137
Period size: 30 Copynumber: 5.1 Consensus size: 30
10659835 AGCCGAAGTT
* *
10659845 ATCCCTTTTCATAATTTAATAGTCGTCACC
1 ATCCCTTTTCATAGTTTGATAGTCGTCACC
* * *
10659875 ATCCCTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAGTTTGATAGTCGTCACC
* ** ** *
10659905 ATCCCTTTTCATAATTTGATAACCGAAACT
1 ATCCCTTTTCATAGTTTGATAGTCGTCACC
* * ***
10659935 ATCCCTTTTCATAGATCGATAG-CCAAAGCC
1 ATCCCTTTTCATAGTTTGATAGTCGTCA-CC
*
10659965 ATCCCTTTTCATAGTTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTTGATAGTCGTCACC
10659995 ATC
1 ATC
10659998 AAAGGTCGAT
Statistics
Matches: 95, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
29 4 0.04
30 89 0.94
31 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTTGATAGTCGTCACC
Found at i:10660030 original size:53 final size:53
Alignment explanation
Indices: 10659950--10660050 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
10659940 TTTTCATAGA
* *
10659950 TCGATAGCCAAAGCCATCCCTTTTCATAGTTTGATGGTCGTCACCATCAAAGG
1 TCGATAGCCAAACCCATCCCTTTTCATAGTTCGATGGTCGTCACCATCAAAGG
*
10660003 TCGATAGCCAAACCCATCCCTTTTCATAGTTCGGTGGTCGTCACCATC
1 TCGATAGCCAAACCCATCCCTTTTCATAGTTCGATGGTCGTCACCATC
10660051 CCTTTTCATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (53 bp):
TCGATAGCCAAACCCATCCCTTTTCATAGTTCGATGGTCGTCACCATCAAAGG
Found at i:10660079 original size:29 final size:30
Alignment explanation
Indices: 10660016--10660088 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
10660006 ATAGCCAAAC
* *
10660016 CCATCCCTTTTCATAGTTCGGTGGTCGTCA
1 CCATCCCTTTTCATAGCTCGATGGTCGTCA
*
10660046 CCATCCCTTTTCATTGCT-GATGGTCGTCA
1 CCATCCCTTTTCATAGCTCGATGGTCGTCA
*
10660075 CCATCAC-TTTCATA
1 CCATCCCTTTTCATA
10660089 ATTTGATAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 6 0.16
29 16 0.42
30 16 0.42
ACGTcount: A:0.16, C:0.32, G:0.15, T:0.37
Consensus pattern (30 bp):
CCATCCCTTTTCATAGCTCGATGGTCGTCA
Found at i:10661804 original size:19 final size:19
Alignment explanation
Indices: 10661769--10661808 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10661759 TAGTGGAGAA
*
10661769 TTCACCATCTTCCCCATTT
1 TTCACCATCGTCCCCATTT
10661788 TTCA-CATCGTCCACCATTT
1 TTCACCATCGTCC-CCATTT
10661807 TT
1 TT
10661809 ATAGAGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.17, C:0.38, G:0.03, T:0.42
Consensus pattern (19 bp):
TTCACCATCGTCCCCATTT
Found at i:10663418 original size:23 final size:24
Alignment explanation
Indices: 10663374--10663419 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10663364 ATTTGATAAA
**
10663374 TTTTTTTATAACAAATTTAAGTTT
1 TTTTTTTATAACAAATAAAAGTTT
10663398 TTTTTTTATAA-AAATAAAAGTT
1 TTTTTTTATAACAAATAAAAGTT
10663420 AAAATTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTTTTTATAACAAATAAAAGTTT
Found at i:10686827 original size:30 final size:30
Alignment explanation
Indices: 10686761--10686819 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10686751 TGTGACTTGG
*
10686761 CCGTGTGAGACACACGGCTTGATGACACGA
1 CCGTGTGAGACACACGGCTTGACGACACGA
*
10686791 CCGTGTGAGATACACGGCTTGACGACACG
1 CCGTGTGAGACACACGGCTTGACGACACG
10686820 GTCGTGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.31, T:0.17
Consensus pattern (30 bp):
CCGTGTGAGACACACGGCTTGACGACACGA
Found at i:10688327 original size:35 final size:35
Alignment explanation
Indices: 10688284--10688412 Score: 136
Period size: 35 Copynumber: 3.7 Consensus size: 35
10688274 TTTGGTTGGA
* *
10688284 AAATGATCTACTGGCTCTATAGAGCAGCATTATGG
1 AAATGATCTACTAGCTCTATGGAGCAGCATTATGG
* * * *
10688319 AAATGATCTATTAGTTCTATGGAG-TG-ATACCATGG
1 AAATGATCTACTAGCTCTATGGAGCAGCAT--TATGG
* *
10688354 AAATGGTCTACTAGCTCTACGGAGCAGCATTATGG
1 AAATGATCTACTAGCTCTATGGAGCAGCATTATGG
* *
10688389 AAATGATCTACTGGCTCTACGGAG
1 AAATGATCTACTAGCTCTATGGAG
10688413 TGACACCATG
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
33 2 0.03
34 1 0.01
35 70 0.92
36 1 0.01
37 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (35 bp):
AAATGATCTACTAGCTCTATGGAGCAGCATTATGG
Found at i:10688397 original size:70 final size:70
Alignment explanation
Indices: 10688282--10688430 Score: 208
Period size: 70 Copynumber: 2.1 Consensus size: 70
10688272 AGTTTGGTTG
* * * * * * *
10688282 GAAAATGATCTACTGGCTCTATAGAGCAGCATTATGGAAATGATCTATTAGTTCTATGGAGTGAT
1 GAAAATGGTCTACTAGCTCTACAGAGCAGCATTATGGAAATGATCTACTAGCTCTACGGAGTGAC
10688347 ACCAT
66 ACCAT
* * *
10688352 GGAAATGGTCTACTAGCTCTACGGAGCAGCATTATGGAAATGATCTACTGGCTCTACGGAGTGAC
1 GAAAATGGTCTACTAGCTCTACAGAGCAGCATTATGGAAATGATCTACTAGCTCTACGGAGTGAC
10688417 ACCAT
66 ACCAT
10688422 GAAAATGGT
1 GAAAATGGT
10688431 TTCCTGACTC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (70 bp):
GAAAATGGTCTACTAGCTCTACAGAGCAGCATTATGGAAATGATCTACTAGCTCTACGGAGTGAC
ACCAT
Found at i:10691603 original size:88 final size:88
Alignment explanation
Indices: 10691423--10691605 Score: 262
Period size: 87 Copynumber: 2.1 Consensus size: 88
10691413 CCTGCATCAT
* **
10691423 CTCATTATCTTTTGTCGATCGAATAACAGAAAATGATGCACTGCTGCAAATCTTTTTCTGGATTT
1 CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
* *
10691488 TAACCTCCCACTTAATAAGAGTT
66 AAACCTCCCACTTAATAAGAGTA
* * *
10691511 CTCATTCTC-TTTGTTGATCGAATAACAGAAAAAGATGCACTGCTGCAATTCTTTTTCTACATTT
1 CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
10691575 GAAACCTCCCACTTAATAAGA-TAA
66 -AAACCTCCCACTTAATAAGAGT-A
10691599 CTCATTA
1 CTCATTA
10691606 CCTCGAAATG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
87 51 0.61
88 33 0.39
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (88 bp):
CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
AAACCTCCCACTTAATAAGAGTA
Found at i:10694051 original size:3 final size:3
Alignment explanation
Indices: 10694045--10694072 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10694035 ATAATAAAAT
10694045 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
10694073 TCGAAACATT
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Done.