Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 48 of 204
Found at i:15931188 original size:17 final size:17
Alignment explanation
Indices: 15931166--15931204 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15931156 ATGTACGTAA
15931166 GTATATATAAAAAATAT
1 GTATATATAAAAAATAT
*
15931183 GTATATATATAAAATAT
1 GTATATATAAAAAATAT
*
15931200 ATATA
1 GTATA
15931205 AGAGCAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
GTATATATAAAAAATAT
Found at i:15931218 original size:3 final size:3
Alignment explanation
Indices: 15931210--15931278 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
15931200 ATATAAGAGC
15931210 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
15931257 AACT AATT AAT TTT AAT AAT AA
1 AA-T AA-T AAT AAT AAT AAT AA
15931279 AGTAACCAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
2 2 0.03
3 52 0.88
4 5 0.08
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:15931884 original size:17 final size:16
Alignment explanation
Indices: 15931862--15931895 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15931852 TTACGTTGTT
15931862 TAAAAATAAAACAAAAA
1 TAAAAATAAAA-AAAAA
*
15931879 TAAAAATATAAAAAAA
1 TAAAAATAAAAAAAAA
15931895 T
1 T
15931896 CGATTGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
TAAAAATAAAAAAAAA
Found at i:15932985 original size:44 final size:44
Alignment explanation
Indices: 15932913--15933513 Score: 232
Period size: 44 Copynumber: 13.8 Consensus size: 44
15932903 ACCTGATGCG
* * * *
15932913 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * * *
15932957 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC-TGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* * * *
15933001 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-C--TGATACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
* * * * *
15933042 ATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * *** * * *
15933086 ATCCGCTCCACTGTAATCTCAGTGAGATAGGATTAATAGCTTAA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
* * *** *
15933130 ATCTGCTCCGCTATAATCTCAGGGAGATAAGAT-CTGAAATTATTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTGTT-TCA
* * * * * * *
15933175 GGTCTGTTCCACTGTAATCTCAGGGAAATAGGA-CC--TGATACG
1 -ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
* * * * *
15933217 ATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
** * * * ***
15933261 ATCCACTCCACTATAATCTCAGGGAGATAGGATTAC-TAACTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* * * *
15933305 ATATGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATT-CTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT----TTGTTTCA
* * * * * *
15933351 GTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CC--TGGTGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
* * * * * * * * *
15933392 ATCTACTCTACTATAA-CTTTAGAGAAATAAGATCATTGGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTGTTTCA
* * * * *
15933436 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAT-CTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTTTGTTTCA
* *
15933480 ATATGCTCCGCTGTAATCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
15933514 TGAAATTCTT
Statistics
Matches: 398, Mismatches: 129, Indels: 61
0.68 0.22 0.10
Matches are distributed among these distances:
40 4 0.01
41 79 0.20
42 6 0.02
43 4 0.01
44 233 0.59
45 12 0.03
46 59 0.15
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTGTTTCA
Found at i:15933095 original size:129 final size:129
Alignment explanation
Indices: 15932865--15933166 Score: 460
Period size: 129 Copynumber: 2.3 Consensus size: 129
15932855 TAAAATTATC
* * * * * * * * *
15932865 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGATCTACTCTACTGTAAC
1 GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTACTCTACTGTAAC
* *
15932930 TTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACT
66 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAAT
*
15932994 GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTTCTCTACTGTAAC
1 GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTACTCTACTGTAAC
*
15933059 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGTGAGATAGGATTAAT
66 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAAT
* * *
15933123 AGCTTAAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGA
1 GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
15933167 AATTATTAGG
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 157 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (129 bp):
GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTACTCTACTGTAAC
TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAAT
Found at i:15933216 original size:175 final size:175
Alignment explanation
Indices: 15933002--15933623 Score: 938
Period size: 175 Copynumber: 3.6 Consensus size: 175
15932992 CTGGCTTCAA
* * * * *
15933002 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATACGATCTTCTCTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
* * * *
15933067 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGTGAGATAGGATTAATAGCTTAAAT
66 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
* * *
15933132 CTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTATTAGG
131 ATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTAGG
* *
15933177 TCTGTTCCACTGTAATCTCAGGGAAATAGGACCTGATACGATCTTCTCTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
* *
15933242 GATAAGATCCTTTATTTTAATCCACTCCACTATAATCTCAGGGAGATAGGATTACTAACTTCAAT
66 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
*
15933307 ATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
131 ATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTAGG
* * * *
15933352 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTATAACTTTAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
* * ** *
15933417 AATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
66 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
*
15933482 ATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGG
131 ATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTAGG
* ** *
15933527 TCTGTTCCATTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
* * *
15933592 GATAAGATCTTTTATTTTAATCAGCTTCACTG
66 GATAAGATCCTTTATTTTAATCCGCTCCACTG
15933624 CAACCGATGG
Statistics
Matches: 406, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
175 406 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (175 bp):
TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
ATGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTAGG
Found at i:15933741 original size:42 final size:41
Alignment explanation
Indices: 15933694--15933829 Score: 98
Period size: 42 Copynumber: 3.2 Consensus size: 41
15933684 ATCTGCTATC
15933694 TTCAATCAGCTCCACTATAACTGATGGAGACAAGGCTTTGTT
1 TTCAATCAGCTCCACTATAAC-GATGGAGACAAGGCTTTGTT
* * * * * * *
15933736 TTCAATCTGCT-TAGTTGTTAACGCA-GGAAGGCAA-GATCTGCTAT
1 TTCAATCAGCTCCA-CT-ATAACG-ATGG-AGACAAGGCTTTG-T-T
*
15933780 CTTTAATCAGCTCCACTATAACCGATGGAGACAAGGCTTTGTT
1 -TTCAATCAGCTCCACTATAA-CGATGGAGACAAGGCTTTGTT
15933823 TTCAATC
1 TTCAATC
15933830 TGCTTTGTTG
Statistics
Matches: 67, Mismatches: 16, Indels: 22
0.64 0.15 0.21
Matches are distributed among these distances:
41 1 0.01
42 24 0.36
43 12 0.18
44 11 0.16
45 18 0.27
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (41 bp):
TTCAATCAGCTCCACTATAACGATGGAGACAAGGCTTTGTT
Found at i:15934576 original size:439 final size:439
Alignment explanation
Indices: 15933668--15934654 Score: 1470
Period size: 439 Copynumber: 2.3 Consensus size: 439
15933658 CTCCGTTGTT
** * * * *
15933668 AATGCAGGAAGGCAAGATCTGCTATCTTCAATCAGCTCCA-CTATAACTGATG-GAGACAAGGCT
1 AATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATC-ACAACCGA-GAGAGGCAAGG-T
* * * * * ** * *
15933731 TTGT-T-TTC-AATCTGCTTAGTTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAATCAGCTC
63 TTGTGTCTTCGACT-TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTC
* * *** * *
15933793 CACTATAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTTGTTGTTAACACAGGAAGGCAAT
127 CACTACAACCGATGGAGACAAGGCTTTGTTTTCAACCTGCTTCACTGTCAACACAGGAAGGCAAG
* * *
15933858 ATCTGCTATCTTCAATCAGCTCCACCATAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTT
192 ATCTACTATCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTT
* * *
15933923 CGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACTGAGAGAGGCA
257 CGCTGTCAATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCA
*
15933988 AGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTATCTTCAACCAG
322 AGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGACCTTTTATCTTCAACCAG
*
15934053 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTC
387 CTCCATCACAACCGAGAGAGGCAAGCTTTGTGTCTTCGACCTGCTTCGCTGTC
*
15934106 AATGTAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
*
15934171 TGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-T
66 TGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCACT
* **
15934235 CACAACCGA-GAGAGACAAGG-TTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAG
131 -ACAACCGATG-GAGACAAGGCTTTGT-T-TTCAACCTGCTTCACTGTCAACACAGGAAGGCAAG
* *
15934298 ATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTT
192 ATCTACTATCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTT
15934363 CGC-GTCAATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCA
257 CGCTGTCAATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCA
*
15934427 AGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGACCTTTTATCTTCAACCAG
322 AGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGACCTTTTATCTTCAACCAG
15934492 CTCCATCACAACCGAGAGAGGCAAGCTTTGTGTCTTCGACCTGCTTCGCTGTC
387 CTCCATCACAACCGAGAGAGGCAAGCTTTGTGTCTTCGACCTGCTTCGCTGTC
* *
15934545 AATGCAGGAAGGCAAGATCTTTTATCTTCAACTAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
*
15934610 TGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
66 TGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
15934655 AACTTTGTTG
Statistics
Matches: 498, Mismatches: 42, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
437 6 0.01
438 58 0.12
439 343 0.69
440 91 0.18
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (439 bp):
AATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
TGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCACT
ACAACCGATGGAGACAAGGCTTTGTTTTCAACCTGCTTCACTGTCAACACAGGAAGGCAAGATCT
ACTATCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCT
GTCAATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGT
TTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGACCTTTTATCTTCAACCAGCTCC
ATCACAACCGAGAGAGGCAAGCTTTGTGTCTTCGACCTGCTTCGCTGTC
Found at i:15934653 original size:88 final size:88
Alignment explanation
Indices: 15933668--15934654 Score: 1443
Period size: 88 Copynumber: 11.2 Consensus size: 88
15933658 CTCCGTTGTT
** * * * *
15933668 AATGCAGGAAGGCAAGATCTGCTATCTTCAATCAGCTCCA-CTATAACTGATG-GAGACAAGGCT
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATC-ACAACCGA-GAGAGGCAAGG-T
* * * * *
15933731 TTGT-T-TTCAATCTGCTTAGTTGTT
63 TTGTGTCTTCGACCTGCTTCGCTGTC
* ** * * * *
15933755 AACGCAGGAAGGCAAGATCTGCTATCTTTAATCAGCTCCA-CTATAACCGATG-GAGACAAGGCT
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATC-ACAACCGA-GAGAGGCAAGG-T
* * * * *
15933818 TTGT-T-TTCAATCTGCTTTGTTGTT
63 TTGTGTCTTCGACCTGCTTCGCTGTC
** * ** * * *
15933842 AACACAGGAAGGCAATATCTGCTATCTTCAATCAGCTCCACCATAACCGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
15933907 TGTCTTCGACCTGCTTCGCTGTC
66 TGTCTTCGACCTGCTTCGCTGTC
* * *
15933930 AATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACTGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
*
15933995 TGTCTTCGACCTGCTTCACTGTC
66 TGTCTTCGACCTGCTTCGCTGTC
15934018 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
15934083 TGTCTTCGACCTGCTTCGCTGTC
66 TGTCTTCGACCTGCTTCGCTGTC
* *
15934106 AATGTAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
*
15934171 TGTCTTCGACTTGCTTCGCTGTC
66 TGTCTTCGACCTGCTTCGCTGTC
* *
15934194 AATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGACAAGGTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
*
15934259 TGTCTTCGACCTGCTTCACTGTC
66 TGTCTTCGACCTGCTTCGCTGTC
*
15934282 AATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
15934347 TGTCTTCGACCTGCTTCGC-GTC
66 TGTCTTCGACCTGCTTCGCTGTC
*
15934369 AATGCAGGAAGGCAAGATCTATTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
15934434 TGTCTTCGACCTGCTTCGCTGTC
66 TGTCTTCGACCTGCTTCGCTGTC
* *
15934457 AATGCAGGAAGGCAAGACCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGCTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
15934522 TGTCTTCGACCTGCTTCGCTGTC
66 TGTCTTCGACCTGCTTCGCTGTC
*
15934545 AATGCAGGAAGGCAAGATCTTTTATCTTCAACTAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
1 AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
15934610 TGTCTTCGACCTGCTTCGCTGTC
66 TGTCTTCGACCTGCTTCGCTGTC
15934633 AATGCAGGAAGGCAAGATCTTT
1 AATGCAGGAAGGCAAGATCTTT
15934655 AACTTTGTTG
Statistics
Matches: 849, Mismatches: 46, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
86 6 0.01
87 224 0.26
88 619 0.73
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (88 bp):
AATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTG
TGTCTTCGACCTGCTTCGCTGTC
Found at i:15935755 original size:21 final size:21
Alignment explanation
Indices: 15935729--15935775 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15935719 GGTATAGCAG
15935729 GATCACCACATGCCCCAA-TCT
1 GATCACCACATG-CCCAATTCT
**
15935750 GATCACTTCATGCCCAATTCT
1 GATCACCACATGCCCAATTCT
15935771 GATCA
1 GATCA
15935776 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCAATTCT
Found at i:15936787 original size:1 final size:1
Alignment explanation
Indices: 15936781--15936828 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
15936771 GATTGATTGA
* * * * *
15936781 TTTTTTTTATTTTTTTTATTTTTTTATTTTTTTCTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15936829 GAGTCTGAAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.06, C:0.04, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:15936794 original size:9 final size:9
Alignment explanation
Indices: 15936780--15936813 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
15936770 TGATTGATTG
15936780 ATTTTTTTT
1 ATTTTTTTT
15936789 ATTTTTTTT
1 ATTTTTTTT
15936798 A-TTTTTTT
1 ATTTTTTTT
15936806 ATTTTTTT
1 ATTTTTTT
15936814 CTTCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:15936795 original size:7 final size:8
Alignment explanation
Indices: 15936782--15936828 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
15936772 ATTGATTGAT
15936782 TTTTTTTA
1 TTTTTTTA
15936790 TTTTTTTTA
1 -TTTTTTTA
15936799 TTTTTTTA
1 TTTTTTTA
*
15936807 TTTTTTTC
1 TTTTTTTA
15936815 TTCTTTTT-
1 TT-TTTTTA
15936823 TTTTTT
1 TTTTTT
15936829 GAGTCTGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 4 0.11
8 19 0.53
9 13 0.36
ACGTcount: A:0.06, C:0.04, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTA
Found at i:15936821 original size:17 final size:17
Alignment explanation
Indices: 15936784--15936828 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
15936774 TGATTGATTT
*
15936784 TTTTTATTTTTTTTATT
1 TTTTTATTTTTTTTATC
15936801 TTTTTATTTTTTTCT-TC
1 TTTTTATTTTTTT-TATC
15936818 TTTTT-TTTTTT
1 TTTTTATTTTTT
15936829 GAGTCTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.23
17 19 0.73
18 1 0.04
ACGTcount: A:0.07, C:0.04, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTATTTTTTTTATC
Found at i:15938927 original size:19 final size:20
Alignment explanation
Indices: 15938898--15938946 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
15938888 CACTTCGTGA
* *
15938898 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
15938917 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
15938937 AAATG-AATGC
1 AAATGTAATGC
15938947 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:15944496 original size:30 final size:30
Alignment explanation
Indices: 15944463--15944519 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15944453 AACCTTTTAT
* *
15944463 TTTTTCCC-AAAATTTTTACTCTCTCCCAC
1 TTTTTCCCTAAAACTTTTACTCCCTCCCAC
*
15944492 TTTTTCCCTAAAACTTTTATTCCCTCCC
1 TTTTTCCCTAAAACTTTTACTCCCTCCC
15944520 CATCCCACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (30 bp):
TTTTTCCCTAAAACTTTTACTCCCTCCCAC
Found at i:15953532 original size:19 final size:19
Alignment explanation
Indices: 15953508--15953547 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15953498 CCTAAAGCTG
15953508 AAAATGGATTTAGTTAACT
1 AAAATGGATTTAGTTAACT
15953527 AAAATGGATTTAGTTAACT
1 AAAATGGATTTAGTTAACT
15953546 AA
1 AA
15953548 GGTTTGGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (19 bp):
AAAATGGATTTAGTTAACT
Found at i:15959698 original size:23 final size:22
Alignment explanation
Indices: 15959667--15959717 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
15959657 AAAATTCAAA
15959667 TTTCGAGTTAAACGAATCGAGT
1 TTTCGAGTTAAACGAATCGAGT
* * *
15959689 TATTCGAGTTAATCGAGTTGAGT
1 T-TTCGAGTTAAACGAATCGAGT
15959712 TTTCGA
1 TTTCGA
15959718 ATTCGAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (22 bp):
TTTCGAGTTAAACGAATCGAGT
Found at i:15959961 original size:29 final size:29
Alignment explanation
Indices: 15959906--15959961 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
15959896 AAACCTTTTA
* *
15959906 TTTTCCCCCAAAATTTTTACTCTCTCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTCCAC
* *
15959935 TTTTCCCCTAAAACTTTTATTCCCTCC
1 TTTTCCCCCAAAACTTTTACTCCCTCC
15959962 CCATCTCACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTTCCCCCAAAACTTTTACTCCCTCCAC
Found at i:15967842 original size:21 final size:23
Alignment explanation
Indices: 15967811--15967872 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 23
15967801 AAAATGATCC
15967811 TAATTATATAAAAAGTT-AA-AAT
1 TAATT-TATAAAAAGTTCAACAAT
*
15967833 TAATTTATAAAAATTTCAACAAT
1 TAATTTATAAAAAGTTCAACAAT
15967856 TAATTT-TAAAAA-TTCAA
1 TAATTTATAAAAAGTTCAA
15967873 AAAAATTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 15 0.41
22 13 0.35
23 9 0.24
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATTTATAAAAAGTTCAACAAT
Found at i:15967856 original size:23 final size:21
Alignment explanation
Indices: 15967811--15967874 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
15967801 AAAATGATCC
*
15967811 TAATTATATAAAAAGTTAAAAT
1 TAATT-TATAAAAATTTAAAAT
15967833 TAATTTATAAAAATTTCAACAAT
1 TAATTTATAAAAATTT-AA-AAT
*
15967856 TAATTT-TAAAAATTCAAAA
1 TAATTTATAAAAATTTAAAA
15967875 AAATTATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.05
21 12 0.32
22 15 0.39
23 9 0.24
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
TAATTTATAAAAATTTAAAAT
Found at i:15970047 original size:108 final size:109
Alignment explanation
Indices: 15969836--15970050 Score: 279
Period size: 108 Copynumber: 2.0 Consensus size: 109
15969826 AAAAATGTTT
* * * *
15969836 TAAGATACATATTGAATTAATATCATGTTTACTTGTGGTCAAATAACTTATTTTAGTATTTCCCT
1 TAAGATACATATTAAATTAATATCATGTCTACTTGTAGTCAAATAACTTATTTTAATATTTCCCT
* ** *
15969901 TAACCGAGTTAGTGTCTGATTAACTCGTGCCATCAACTCAATCA
66 TAACCGAGTTAGGGTCTGATTAACTCGTGAAACCAACTCAATCA
* ** *
15969945 TAAGATATATATTAAATTAATATCATGTCTACTTGTAGTTGAATAA-TTATTTTAATATTTCTCT
1 TAAGATACATATTAAATTAATATCATGTCTACTTGTAGTCAAATAACTTATTTTAATATTTCCCT
* * * *
15970009 TAACTGAGTTAGGGTCTGGTTGACTCTTGAAACCAACTCAAT
66 TAACCGAGTTAGGGTCTGATTAACTCGTGAAACCAACTCAAT
15970051 AAGAGTCTTA
Statistics
Matches: 90, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
108 50 0.56
109 40 0.44
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (109 bp):
TAAGATACATATTAAATTAATATCATGTCTACTTGTAGTCAAATAACTTATTTTAATATTTCCCT
TAACCGAGTTAGGGTCTGATTAACTCGTGAAACCAACTCAATCA
Found at i:15973925 original size:27 final size:27
Alignment explanation
Indices: 15973889--15973983 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
15973879 ATTATTTATA
*
15973889 TATATTTGCATGAACTTGATTGTTACG
1 TATATTTGCATGAACTTGATTGTAACG
*
15973916 TATATTTGCACGAAC----TTGTAAC-
1 TATATTTGCATGAACTTGATTGTAACG
* *
15973938 -ATATTTGCATAAACTTGATTGTCACG
1 TATATTTGCATGAACTTGATTGTAACG
*
15973964 CATATTTGCATGAACTTGAT
1 TATATTTGCATGAACTTGAT
15973984 GGGCATGTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
21 12 0.21
23 6 0.11
25 6 0.11
27 32 0.57
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
TATATTTGCATGAACTTGATTGTAACG
Found at i:15973969 original size:48 final size:48
Alignment explanation
Indices: 15973890--15973981 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
15973880 TTATTTATAT
* * *
15973890 ATATTTGCATGAACTTGATTGTTACGTATATTTGCACGAACTTGTAAC
1 ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTGTAAC
*
15973938 ATATTTGCATAAACTTGATTGTCACGCATATTTGCATGAACTTG
1 ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTG
15973982 ATGGGCATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (48 bp):
ATATTTGCATAAACTTGATTGTCACGCATATTTGCACGAACTTGTAAC
Found at i:15974748 original size:23 final size:21
Alignment explanation
Indices: 15974720--15974773 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
15974710 CACAATTAAA
*
15974720 TAGAAAATTTATGTGCAACTAT
1 TAGAAAATTTACGTGCAAC-AT
15974742 TATGAAAA-TTACGTGCAACAT
1 TA-GAAAATTTACGTGCAACAT
15974763 TAGAACAATTT
1 TAGAA-AATTT
15974774 TTTACCATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.11
21 6 0.21
22 14 0.50
23 5 0.18
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (21 bp):
TAGAAAATTTACGTGCAACAT
Found at i:15978145 original size:19 final size:20
Alignment explanation
Indices: 15978123--15978161 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15978113 CCCATTTTCG
15978123 TAATCAATA-AAA-ATATAAT
1 TAATCAA-ACAAACATATAAT
15978142 TAATCAAACAAACATATAAT
1 TAATCAAACAAACATATAAT
15978162 GTTCACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 10 0.56
20 7 0.39
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
TAATCAAACAAACATATAAT
Found at i:15978202 original size:20 final size:20
Alignment explanation
Indices: 15978170--15978210 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15978160 ATGTTCACTT
*
15978170 TTATGTATTAAAATATACAA
1 TTATGTATTAAAAAATACAA
15978190 TTAT-TATTAAAAAAATACAA
1 TTATGTATT-AAAAAATACAA
15978210 T
1 T
15978211 AGTCAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
TTATGTATTAAAAAATACAA
Found at i:15978580 original size:22 final size:22
Alignment explanation
Indices: 15978552--15978627 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
15978542 TTTCTTTTAA
15978552 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
15978574 TTAGGAGATAATATTTTGGTTTAA--
1 TTAGGAGAT--TA-GAT-GCTAAAGT
15978598 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
15978620 TTAGGAGA
1 TTAGGAGA
15978628 AAATATTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 4 0.10
21 1 0.03
22 19 0.47
24 11 0.28
25 1 0.03
26 4 0.10
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:15978601 original size:46 final size:46
Alignment explanation
Indices: 15978547--15978641 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
15978537 TCTCTTTTCT
*
15978547 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGAAAATATTTTGG
15978593 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGAAAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGAAAATATTTTGG
15978639 TTT
1 TTT
15978642 CTATCTTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGAAAATATTTTGG
Found at i:15983169 original size:46 final size:47
Alignment explanation
Indices: 15983073--15983169 Score: 169
Period size: 46 Copynumber: 2.1 Consensus size: 47
15983063 CCTCTTTTCT
15983073 TTTAATTAGGAGATTAGATGCTAAAAAGATTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCT-AAAAGATTAGGAGATAATATTTTGG
*
15983121 TTTAATTAGGAGATTAGATGCT-AAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAAGATTAGGAGATAATATTTTGG
15983167 TTT
1 TTT
15983170 CTATCTTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 26 0.54
48 22 0.46
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (47 bp):
TTTAATTAGGAGATTAGATGCTAAAAGATTAGGAGATAATATTTTGG
Found at i:15987117 original size:20 final size:20
Alignment explanation
Indices: 15987079--15987117 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15987069 GACTCTTCAA
** *
15987079 ATGCATGGAAATTCTTGGAC
1 ATGCATGGAAAAACATGGAC
15987099 ATGCATGGAAAAACATGGA
1 ATGCATGGAAAAACATGGA
15987118 AAGAATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (20 bp):
ATGCATGGAAAAACATGGAC
Found at i:15988095 original size:121 final size:119
Alignment explanation
Indices: 15987905--15988148 Score: 364
Period size: 121 Copynumber: 2.0 Consensus size: 119
15987895 ATCTACTAAC
* * * * *
15987905 AAATTCGTTCTCAGACTTTTTTGATGAACTTCATTTTCTCTATCCATATTAAACTTTGAAAACAC
1 AAATTCGTTCTCAGACTTTCTGGACGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACAC
* * *
15987970 CTCATCAATTTCAGTCTACAAAGAATTTGACTTAAAATTTGAGCTTTTCATCTTTT
66 CTCATCAATTTCAGCCTACAAAGAATTGGA-TTAAAATTTGAGCTTTTAATC-TTT
15988026 AAATTCGTTC-CAAGACTTTCTGGACGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACA
1 AAATTCGTTCTC-AGACTTTCTGGACGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACA
* *
15988090 CCTCATCAATTTGAGCCTTCAAAGAATTGGATTAAAATTTGAGCTTTTAATCTTT
65 CCTCATCAATTTCAGCCTACAAAGAATTGGATTAAAATTTGAGCTTTTAATCTTT
15988145 AAAT
1 AAAT
15988149 ATTGTGTATA
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 7 0.06
120 21 0.19
121 84 0.75
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.39
Consensus pattern (119 bp):
AAATTCGTTCTCAGACTTTCTGGACGAACCTCATTTTCTCTATCCATATTAAAATTTGAAAACAC
CTCATCAATTTCAGCCTACAAAGAATTGGATTAAAATTTGAGCTTTTAATCTTT
Found at i:15996134 original size:31 final size:30
Alignment explanation
Indices: 15996099--15996158 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15996089 GGAGGTGGGA
*
15996099 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGGGAATAAAAATTTTAGGGGAAAAG
* * *
15996130 TGGGAGTGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGGGAATAAAAATTTTAGGGGAAAA
15996159 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (30 bp):
TGGGAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:15999669 original size:16 final size:14
Alignment explanation
Indices: 15999613--15999674 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 14
15999603 CAAAGAAATA
15999613 AAAGAAAAAG-AA-
1 AAAGAAAAAGAAAC
*
15999625 ATAGAAAAAGAAAC
1 AAAGAAAAAGAAAC
15999639 AAAGAACAAACGAAAC
1 AAAGAA-AAA-GAAAC
*
15999655 AGGAAGAAAAAGAAAG
1 A--AAGAAAAAGAAAC
15999671 AAAG
1 AAAG
15999675 GAGAAACTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
12 9 0.22
13 2 0.05
14 8 0.20
15 3 0.07
16 11 0.27
17 3 0.07
18 5 0.12
ACGTcount: A:0.73, C:0.06, G:0.19, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAGAAAC
Found at i:16000550 original size:41 final size:41
Alignment explanation
Indices: 16000487--16000625 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 41
16000477 GACTTCAATT
* * * *
16000487 CGATGAGAAACTGGGTGTCAATTTATTACTTTGGATTAATT
1 CGATGAGACACTAGGTGCCAATTTATTACTTTGGATTAATC
* * * *
16000528 CGATGAGGCACTAGGTGCCAA--T-TTACTTCGG-TTTAGC
1 CGATGAGACACTAGGTGCCAATTTATTACTTTGGATTAATC
* * **
16000565 CGATGAGACATTAGGTGTCAATTTATTACTTTAAATT-ATC
1 CGATGAGACACTAGGTGCCAATTTATTACTTTGGATTAATC
*
16000605 CGATGAGGCACTAGGTGCCAA
1 CGATGAGACACTAGGTGCCAA
16000626 ACTGGTGTGT
Statistics
Matches: 76, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
37 21 0.28
38 8 0.11
39 2 0.03
40 26 0.34
41 19 0.25
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (41 bp):
CGATGAGACACTAGGTGCCAATTTATTACTTTGGATTAATC
Found at i:16000608 original size:40 final size:38
Alignment explanation
Indices: 16000500--16000621 Score: 113
Period size: 37 Copynumber: 3.1 Consensus size: 38
16000490 TGAGAAACTG
*
16000500 GGTGTCAATTTATTACTTTGGATTAATTCGATGAGGCACTA
1 GGTGTCAATTTATTACTTT--ATT-ATCCGATGAGGCACTA
* ** * * *
16000541 GGTGCCAATTTACTT-CGGT-TTAGCCGATGAGACATTA
1 GGTGTCAATTTA-TTACTTTATTATCCGATGAGGCACTA
16000578 GGTGTCAATTTATTACTTTAAATTATCCGATGAGGCACTA
1 GGTGTCAATTTATTACTTT--ATTATCCGATGAGGCACTA
16000618 GGTG
1 GGTG
16000622 CCAAACTGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
36 2 0.03
37 25 0.40
38 2 0.03
40 19 0.30
41 13 0.21
42 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (38 bp):
GGTGTCAATTTATTACTTTATTATCCGATGAGGCACTA
Found at i:16004556 original size:18 final size:17
Alignment explanation
Indices: 16004530--16004565 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16004520 GGTGCTCATG
*
16004530 GGCCGGACGGCCCGGCCC
1 GGCCCGACGGCCC-GCCC
16004548 GGCCCGACGGCCCGCCC
1 GGCCCGACGGCCCGCCC
16004565 G
1 G
16004566 AAATATGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.06, C:0.53, G:0.42, T:0.00
Consensus pattern (17 bp):
GGCCCGACGGCCCGCCC
Found at i:16004749 original size:11 final size:11
Alignment explanation
Indices: 16004735--16004761 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16004725 TTTTTTTTAA
16004735 TTTTAAAATAC
1 TTTTAAAATAC
16004746 TTTTAAAATAC
1 TTTTAAAATAC
16004757 TTTTA
1 TTTTA
16004762 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:16004778 original size:41 final size:39
Alignment explanation
Indices: 16004718--16004834 Score: 180
Period size: 39 Copynumber: 2.9 Consensus size: 39
16004708 TATTTTTATT
* *
16004718 TTTTTTATTTTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
* *
16004757 TTTTATTAAATTTTTTAAATTTTAAAATTTTTTTAAAATAC
1 TTTT-TT-AATTTTTTTAATTTTAAAATATTTTTAAAATAC
16004798 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAAT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAAT
16004835 CGTGCTGGAG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
39 33 0.47
40 4 0.06
41 33 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:16004786 original size:17 final size:17
Alignment explanation
Indices: 16004764--16004832 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 17
16004754 TACTTTTATT
16004764 AAATTTTTTAAATTTTA
1 AAATTTTTTAAATTTTA
*
16004781 AAATTTTTTTAAAATACTTTTT
1 AAA-TTTTTT--AA-A-TTTTA
* *
16004803 TAATTTTTTTAATTTTA
1 AAATTTTTTAAATTTTA
16004820 AAATATTTTTAAA
1 AAAT-TTTTTAAA
16004833 ATCGTGCTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
17 10 0.25
18 14 0.35
19 1 0.03
20 2 0.05
21 7 0.17
22 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATTTTTTAAATTTTA
Found at i:16005270 original size:39 final size:38
Alignment explanation
Indices: 16005183--16005318 Score: 195
Period size: 38 Copynumber: 3.5 Consensus size: 38
16005173 ATTTTTATTA
* *
16005183 TTTTATTTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTT
*
16005221 TTATTAAATTTTTTAAATTTTAAAATTTTTTTAAAATACTT
1 TT-TT-AATTTTTT-AATTTTAAAATATTTTTAAAATACTT
16005262 TTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTTT
1 TTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC-TT
16005301 TTTTAA-TTTTT-ATTTTAA
1 TTTTAATTTTTTAATTTTAA
16005319 TTTTTAAAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
37 7 0.08
38 30 0.33
39 18 0.20
40 9 0.10
41 26 0.29
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (38 bp):
TTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:16005296 original size:11 final size:11
Alignment explanation
Indices: 16005197--16005302 Score: 56
Period size: 11 Copynumber: 10.4 Consensus size: 11
16005187 ATTTTTTTAA
*
16005197 TTTTAAAATAC
1 TTTTAAAATAT
16005208 TTTTAAAATACT
1 TTTTAAAATA-T
*
16005220 TTTATTAAAT-T
1 TTT-TAAAATAT
16005231 TTTT--AA-A-
1 TTTTAAAATAT
*
16005238 TTTTAAAATTT
1 TTTTAAAATAT
16005249 TTTTAAAATACT
1 TTTTAAAATA-T
*
16005261 TTTT-TAAT-T
1 TTTTAAAATAT
16005270 TTTT---A-A-
1 TTTTAAAATAT
16005276 TTTTAAAATAT
1 TTTTAAAATAT
16005287 TTTTAAAATACT
1 TTTTAAAATA-T
16005299 TTTT
1 TTTT
16005303 TTAATTTTTA
Statistics
Matches: 75, Mismatches: 5, Indels: 29
0.69 0.05 0.27
Matches are distributed among these distances:
6 4 0.05
7 5 0.07
8 2 0.03
9 8 0.11
10 2 0.03
11 36 0.48
12 13 0.17
13 5 0.07
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16009240 original size:43 final size:43
Alignment explanation
Indices: 16009175--16009361 Score: 137
Period size: 43 Copynumber: 4.4 Consensus size: 43
16009165 ATTTCAATGG
* *
16009175 GTTATGTTCTTTAGCGGTGTTTGTGGGGAAAACGCTGCTAAAA
1 GTTATGTTCTTTAGCGGCGTTTGTGGGGAAAACGCCGCTAAAA
* **
16009218 GTTATGTTCTTTAGCTGCGTTTGTGGGGAAAGGGCCGCTAAAA
1 GTTATGTTCTTTAGCGGCGTTTGTGGGGAAAACGCCGCTAAAA
* * * * * * * *
16009261 GTCATATT-TTATAGCGACATTTG-GGAGAAAGCGCC-ATTAAA
1 GTTATGTTCTT-TAGCGGCGTTTGTGGGGAAAACGCCGCTAAAA
* * * * * * *
16009302 GATCACGTTCTTTAGCGGTGTTTGTGGGGCAAGCACCGCCAAAA
1 G-TTATGTTCTTTAGCGGCGTTTGTGGGGAAAACGCCGCTAAAA
* *
16009346 GTCATGTTCTATAGCG
1 GTTATGTTCTTTAGCG
16009362 ATGTTTTACC
Statistics
Matches: 112, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
41 5 0.04
42 26 0.23
43 77 0.69
44 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
GTTATGTTCTTTAGCGGCGTTTGTGGGGAAAACGCCGCTAAAA
Found at i:16011294 original size:17 final size:16
Alignment explanation
Indices: 16011263--16011313 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
16011253 GACAAGATAT
*
16011263 TTTTTTCTTTGCTTTA
1 TTTTTTCTTTTCTTTA
*
16011279 TTTTTTCTTTCTCTTTC
1 TTTTTTCTTT-TCTTTA
*
16011296 GTTTTTCTTTT-TTTA
1 TTTTTTCTTTTCTTTA
16011311 TTT
1 TTT
16011314 GAAGGAAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 5 0.17
16 11 0.38
17 13 0.45
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTTTTCTTTTCTTTA
Found at i:16013394 original size:28 final size:28
Alignment explanation
Indices: 16013354--16013415 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
16013344 ATTGGAAGTC
*
16013354 GAGCATGGATGAACCGAAGAGAGAAAGG
1 GAGCATAGATGAACCGAAGAGAGAAAGG
*
16013382 GAGCATAGATGAACCGAAGAGAGAAATG
1 GAGCATAGATGAACCGAAGAGAGAAAGG
16013410 GAGCAT
1 GAGCAT
16013416 GGAACCAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.44, C:0.11, G:0.35, T:0.10
Consensus pattern (28 bp):
GAGCATAGATGAACCGAAGAGAGAAAGG
Found at i:16014496 original size:19 final size:20
Alignment explanation
Indices: 16014461--16014499 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16014451 ACATGTATGA
16014461 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
16014481 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
16014500 ATTTATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:16015428 original size:13 final size:14
Alignment explanation
Indices: 16015407--16015446 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
16015397 ACTTGATTGG
16015407 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
16015420 AATATGAATTAAAT
1 AAAATGAATTAAAT
16015434 AAAAGTGAATTAA
1 AAAA-TGAATTAA
16015447 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:16015826 original size:23 final size:22
Alignment explanation
Indices: 16015797--16015859 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
16015787 AGACACTTTA
* *
16015797 TGTGTCGTATTTTAGGTACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
16015820 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
*
16015841 TGTGTCGTA-TCAAGCACCT
1 TGTGTCGTATTCAGGCACCT
16015860 ATGTGTTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 28 0.76
23 9 0.24
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:16015838 original size:21 final size:21
Alignment explanation
Indices: 16015814--16015859 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
16015804 TATTTTAGGT
*
16015814 ACCTCGTGTGTCGTATCAGGC
1 ACCTCGTGTGTCGTATCAAGC
16015835 ACCTCGTGTGTCGTATCAAGC
1 ACCTCGTGTGTCGTATCAAGC
16015856 ACCT
1 ACCT
16015860 ATGTGTTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.28
Consensus pattern (21 bp):
ACCTCGTGTGTCGTATCAAGC
Found at i:16015870 original size:20 final size:21
Alignment explanation
Indices: 16015814--16015870 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
16015804 TATTTTAGGT
* *
16015814 ACCTCGTGTGTCGTATCAGGC
1 ACCTCATGTGTCGTATCAAGC
*
16015835 ACCTCGTGTGTCGTATCAAGC
1 ACCTCATGTGTCGTATCAAGC
*
16015856 ACCT-ATGTGTTGTAT
1 ACCTCATGTGTCGTAT
16015871 ACTAATCAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 9 0.27
21 24 0.73
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (21 bp):
ACCTCATGTGTCGTATCAAGC
Found at i:16039568 original size:17 final size:17
Alignment explanation
Indices: 16039546--16039579 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16039536 TGAAGCTCAG
*
16039546 ACTTCGAAGGCTCGTTA
1 ACTTCGAAGGCTAGTTA
16039563 ACTTCGAAGGCTAGTTA
1 ACTTCGAAGGCTAGTTA
16039580 TTTGCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (17 bp):
ACTTCGAAGGCTAGTTA
Found at i:16041293 original size:3 final size:3
Alignment explanation
Indices: 16041287--16041322 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16041277 TGCAAAAAGT
16041287 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16041323 AAAAGACGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16046692 original size:12 final size:12
Alignment explanation
Indices: 16046675--16046699 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16046665 TGCTTACCCC
16046675 TAAATCATGTGT
1 TAAATCATGTGT
16046687 TAAATCATGTGT
1 TAAATCATGTGT
16046699 T
1 T
16046700 TGCAGGGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TAAATCATGTGT
Found at i:16049755 original size:18 final size:19
Alignment explanation
Indices: 16049721--16049760 Score: 64
Period size: 18 Copynumber: 2.1 Consensus size: 19
16049711 ATTAAATATT
16049721 AAATATTTACTTTTAAATTA
1 AAATATTTAC-TTTAAATTA
16049741 AAATATTTA-TTTAAATTA
1 AAATATTTACTTTAAATTA
16049759 AA
1 AA
16049761 TTTAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
20 9 0.45
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTTACTTTAAATTA
Found at i:16049765 original size:24 final size:23
Alignment explanation
Indices: 16049709--16049766 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 23
16049699 GTTTAAATAA
16049709 TAATTAAATATT-AAATATTTACT
1 TAATTAAAT-TTAAAATATTTACT
*
16049732 T--TTAAA-TTAAAATATTTATT
1 TAATTAAATTTAAAATATTTACT
16049752 TAAATTAAATTTAAA
1 T-AATTAAATTTAAA
16049767 TAAATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 2 0.07
20 11 0.38
21 5 0.17
23 6 0.21
24 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTAAATTTAAAATATTTACT
Found at i:16058631 original size:2 final size:2
Alignment explanation
Indices: 16058624--16058652 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16058614 AAGAACCTTC
16058624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16058653 AATAAAATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16067158 original size:26 final size:26
Alignment explanation
Indices: 16067129--16067194 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
16067119 TTTTCAAAAA
16067129 TTATTACTTTTATAAAGTAGCACTAG
1 TTATTACTTTTATAAAGTAGCACTAG
* *
16067155 TTATTACATTGATAAAGTAGCACTAG
1 TTATTACTTTTATAAAGTAGCACTAG
*
16067181 -T-TTATTTTTATAAA
1 TTATTACTTTTATAAA
16067195 CAAAAATCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 10 0.29
25 1 0.03
26 24 0.69
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (26 bp):
TTATTACTTTTATAAAGTAGCACTAG
Found at i:16067722 original size:16 final size:15
Alignment explanation
Indices: 16067703--16067755 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
16067693 ATATTTGTAG
16067703 TTTTATATTTTTATGA
1 TTTTATATTTTTAT-A
16067719 TTTTATATATTTTAT-
1 TTTTATAT-TTTTATA
16067734 TTTTATAATTTATTATCA
1 TTTTAT-ATTT-TTAT-A
16067752 TTTT
1 TTTT
16067756 CCTAACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.25
16 14 0.44
17 6 0.19
18 4 0.12
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTATATTTTTATA
Found at i:16067784 original size:19 final size:18
Alignment explanation
Indices: 16067710--16067791 Score: 64
Period size: 19 Copynumber: 4.7 Consensus size: 18
16067700 TAGTTTTATA
*
16067710 TTTTTATGATTTTAT-AT
1 TTTTTATTATTTTATAAT
*
16067727 ATTTTA-T-TTTTATAAT
1 TTTTTATTATTTTATAAT
* * * *
16067743 TTATTATCATTTTCCTAAC
1 TTTTTATTATTTT-ATAAT
16067762 TTTTTATTATATTTATAAT
1 TTTTTATTAT-TTTATAAT
16067781 TTTTTA-TATTT
1 TTTTTATTATTT
16067792 GCAAACATGT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
15 6 0.12
16 6 0.12
17 7 0.14
18 7 0.14
19 20 0.41
20 3 0.06
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTTATTATTTTATAAT
Found at i:16073706 original size:34 final size:35
Alignment explanation
Indices: 16073648--16073714 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
16073638 CAAACACCAG
16073648 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
16073683 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
16073715 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:16079252 original size:44 final size:45
Alignment explanation
Indices: 16079204--16079406 Score: 185
Period size: 45 Copynumber: 4.4 Consensus size: 45
16079194 CACGGCAACC
* * * **
16079204 TTAGGGAGATTAGATTC-GTATCTTCAATCTGCTCTGCTGTAACT
1 TTAGGGAGATAAGATTCACTACCTTCAATCTGCTCCACTGTAACT
16079248 TTA-GGAGATAAGATTCACTACCTTCAATCTGCTCCACTGTAACT
1 TTAGGGAGATAAGATTCACTACCTTCAATCTGCTCCACTGTAACT
* * * * *
16079292 TTAGGGAGATAAGATTGGTGACTTGCAGCTTTAATCTGTTCCACTGCAACT
1 TTAGGGAGATAAGA-T--TCAC-T--ACCTTCAATCTGCTCCACTGTAACT
* * ** ** *
16079343 TTAGGGAAATAAGCTTTGCTATATTCAATCTGCTCCACTGCAACT
1 TTAGGGAGATAAGATTCACTACCTTCAATCTGCTCCACTGTAACT
16079388 TTAGGGAGATAAGATTCAC
1 TTAGGGAGATAAGATTCAC
16079407 CACGATGACT
Statistics
Matches: 129, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
43 12 0.09
44 29 0.22
45 46 0.36
46 1 0.01
47 1 0.01
48 5 0.04
49 1 0.01
50 1 0.01
51 33 0.26
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (45 bp):
TTAGGGAGATAAGATTCACTACCTTCAATCTGCTCCACTGTAACT
Found at i:16079842 original size:262 final size:262
Alignment explanation
Indices: 16079369--16079864 Score: 839
Period size: 262 Copynumber: 1.9 Consensus size: 262
16079359 TGCTATATTC
* *
16079369 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCTGTCCCACTGC
1 AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
*
16079434 AACTTCAGGGGTATAGGATTTGTGGTTTCACTAATCTGTTACACCATTCTCTAGGGAACATGACC
66 AACGTCAGGGGTATAGGATTTGTGGTTTCACTAATCTGTTACACCATTCTCTAGGGAACATGACC
*
16079499 TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAATGATTAGGATGTTATGATCAGAATGAAT
131 TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACGATTAGGATGTTATGATCAGAATGAAT
*
16079564 CAGATACTCTTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
196 CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
16079629 TT
261 TT
* * *
16079631 AATCTGATCCACTGTAACTTTAGGGAGATAAGATTCGCCACGATTACTTCAATCCGTCCCACTGC
1 AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
* ** * *
16079696 AACGTCAGGGGTATAGGATTTGTGGTTTCACTGATCTGTTACACTGTTCTTTGGGGAACATGACC
66 AACGTCAGGGGTATAGGATTTGTGGTTTCACTAATCTGTTACACCATTCTCTAGGGAACATGACC
* *
16079761 TGTAGAATCCATTTCATGGGCCTATATTTATGCCAAGCGATTAGGATGTTATGATCAGAATGAAT
131 TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACGATTAGGATGTTATGATCAGAATGAAT
**
16079826 CAGATGTTCCTAACTAGATGTGTATGAATGATATTTGCA
196 CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCA
16079865 TTAATGCAGA
Statistics
Matches: 217, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
262 217 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (262 bp):
AATCTGATCCACTGCAACTTTAGGGAGATAAGATTCACCACGATGACTTCAATCCGTCCCACTGC
AACGTCAGGGGTATAGGATTTGTGGTTTCACTAATCTGTTACACCATTCTCTAGGGAACATGACC
TGTAGAATCCATTTCATAGGCCTATATTTATGCCAAACGATTAGGATGTTATGATCAGAATGAAT
CAGATACTCCTAACTAGATGTGTATGAATGATATTTGCAACTTTAGGGAGATAAGATTTATGGCT
TT
Found at i:16082216 original size:39 final size:40
Alignment explanation
Indices: 16082173--16082260 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 40
16082163 TGAATTAGGG
* * *
16082173 AATACTGGATATTGTTTTGAATACTG-AGTGAATTGTGAA
1 AATACTGAATATTGTTATGAATAATGCAGTGAATTGTGAA
* *
16082212 AATACTGAATATTGTTATGTATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGAATAATGCAGTGAATTGTGAA
*
16082252 ATTACTGAA
1 AATACTGAA
16082261 GTAATAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 22 0.52
40 20 0.48
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (40 bp):
AATACTGAATATTGTTATGAATAATGCAGTGAATTGTGAA
Found at i:16082568 original size:51 final size:51
Alignment explanation
Indices: 16082513--16082632 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 51
16082503 GTGTGTTGAA
* * * *
16082513 TACTGTTATTGTTACTGATTCGATACTTTGTGTGTCGAATACTGTTACTGT
1 TACTGTTAATGTTACTGATTCGACACTTTGTGTGTCGAACACTGTTACCGT
** * *
16082564 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAACACTGTTACCGT
1 TACTGTTAATGTTACTGATTCGACACTTTGTGTGTCGAACACTGTTACCGT
*
16082615 TACCGATTAATGTTACTG
1 TACTG-TTAATGTTACTG
16082633 GTGTGTTTGG
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 48 0.84
52 9 0.16
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (51 bp):
TACTGTTAATGTTACTGATTCGACACTTTGTGTGTCGAACACTGTTACCGT
Found at i:16083509 original size:17 final size:17
Alignment explanation
Indices: 16083462--16083512 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
16083452 ACGTGGCATG
*
16083462 TACCTAAGTAATATATA
1 TACCTAAGTAATGTATA
*
16083479 TACCTAAGTAATGTTTA
1 TACCTAAGTAATGTATA
*
16083496 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
16083513 GGAATTAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:16091190 original size:41 final size:41
Alignment explanation
Indices: 16091156--16091261 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
16091146 ACCGGCTTTT
*
16091156 AGCCTACTAGACTTATAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCTGAAATATTTCACCGGCATCA
* *
16091197 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCTGAAATATTTCACCGGCATCA
* *
16091238 AGCCTGCTAGACATAAAGTCTGAA
1 AGCCTGCTAGACTTATAGTCTGAA
16091262 TCATCTCACT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATATTTCACCGGCATCA
Found at i:16092266 original size:2 final size:2
Alignment explanation
Indices: 16092259--16092286 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16092249 ATTTACATGC
16092259 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
16092287 GTTGATTTGA
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:16094659 original size:17 final size:18
Alignment explanation
Indices: 16094632--16094670 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
16094622 TTATATTGAA
16094632 AAAAAATTAAAATAATTT
1 AAAAAATTAAAATAATTT
*
16094650 AAAAAA-TAAAATACTTT
1 AAAAAATTAAAATAATTT
16094667 AAAA
1 AAAA
16094671 TTAACTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAATTAAAATAATTT
Found at i:16094912 original size:27 final size:27
Alignment explanation
Indices: 16094874--16094942 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
16094864 AACTTGAGAA
16094874 AATTGAGAGAGTTGAGACTTTAGAAAG
1 AATTGAGAGAGTTGAGACTTTAGAAAG
16094901 AATTGAGAGAGTTGAGACTTTAGAAAG
1 AATTGAGAGAGTTGAGACTTTAGAAAG
*
16094928 AATTTAGAGAGTTGA
1 AATTGAGAGAGTTGA
16094943 ATTTGAGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.28
Consensus pattern (27 bp):
AATTGAGAGAGTTGAGACTTTAGAAAG
Found at i:16097661 original size:22 final size:20
Alignment explanation
Indices: 16097636--16097676 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
16097626 TTTTTTAAAA
16097636 TTTTAAAAATGAAAAGAATTAG
1 TTTTAAAAAT-AAAA-AATTAG
*
16097658 TTTTTAAAATAAAAAATTA
1 TTTTAAAAATAAAAAATTA
16097677 TTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
TTTTAAAAATAAAAAATTAG
Found at i:16100818 original size:26 final size:27
Alignment explanation
Indices: 16100781--16100841 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
16100771 GGTCCCTATA
16100781 TTTTTT-CTTTT-TGTGCAATTTAAAAT
1 TTTTTTCCTTTTATGT-CAATTTAAAAT
* **
16100807 TTTTTTCCTTTTATGTTAATTTAACTT
1 TTTTTTCCTTTTATGTCAATTTAAAAT
16100834 TTTTTTCC
1 TTTTTTCC
16100842 ATTCTCTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 6 0.20
27 21 0.70
28 3 0.10
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTTTTCCTTTTATGTCAATTTAAAAT
Found at i:16101098 original size:2 final size:2
Alignment explanation
Indices: 16101091--16101121 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16101081 TCCATTTCTT
16101091 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16101122 TTACACTTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16103326 original size:42 final size:42
Alignment explanation
Indices: 16103258--16103450 Score: 194
Period size: 42 Copynumber: 4.6 Consensus size: 42
16103248 AGGCTGTACA
* * * *
16103258 GAAGCACATAAGTA-CTAAA-TAGAAACCCGTAAGGGTTGAACG
1 GAAGCTCATAAG-AGCTAAACT-GAAACCCATAAGGGTTAAACT
* *
16103300 GAAGCTCATAAGAGCTGAAC-GAAAACCCATAAGGGTTAATCT
1 GAAGCTCATAAGAGCTAAACTG-AAACCCATAAGGGTTAAACT
* * * *
16103342 GAAGTTCAGAAGAGCTAAACTGAAACCCATTAGGATTAAACT
1 GAAGCTCATAAGAGCTAAACTGAAACCCATAAGGGTTAAACT
* * *
16103384 GAAGCTCAAAAGAGCTGAACTGAAACCCAGAAGGGTTAAACT
1 GAAGCTCATAAGAGCTAAACTGAAACCCATAAGGGTTAAACT
* * *
16103426 GAAACTCATAAAAGCTAAACGGAAA
1 GAAGCTCATAAGAGCTAAACTGAAA
16103451 GCAAACACGA
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.02
42 121 0.98
43 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACTGAAACCCATAAGGGTTAAACT
Found at i:16103425 original size:21 final size:21
Alignment explanation
Indices: 16103322--16103430 Score: 74
Period size: 21 Copynumber: 5.2 Consensus size: 21
16103312 AGCTGAACGA
* *
16103322 AAACCCATAAGGGTTAATCTG
1 AAACCCAGAAGGGTTAAACTG
*** * *
16103343 AAGTTCAGAAGAGCTAAACTG
1 AAACCCAGAAGGGTTAAACTG
** *
16103364 AAACCCATTAGGATTAAACTG
1 AAACCCAGAAGGGTTAAACTG
* * * * * *
16103385 AAGCTCAAAAGAGCTGAACTG
1 AAACCCAGAAGGGTTAAACTG
16103406 AAACCCAGAAGGGTTAAACTG
1 AAACCCAGAAGGGTTAAACTG
16103427 AAAC
1 AAAC
16103431 TCATAAAAGC
Statistics
Matches: 59, Mismatches: 29, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (21 bp):
AAACCCAGAAGGGTTAAACTG
Found at i:16103444 original size:21 final size:20
Alignment explanation
Indices: 16103378--16103450 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
16103368 CCATTAGGAT
*
16103378 TAAACTGAAGCTCAAAAGAGC
1 TAAACTGAAACTCAAAA-AGC
* * ** *
16103399 TGAACTGAAACCCAGAAGGGT
1 TAAACTGAAACTCA-AAAAGC
16103420 TAAACTGAAACTCATAAAAGC
1 TAAACTGAAACTCA-AAAAGC
*
16103441 TAAACGGAAA
1 TAAACTGAAA
16103451 GCAAACACGA
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
21 36 0.95
22 2 0.05
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.15
Consensus pattern (20 bp):
TAAACTGAAACTCAAAAAGC
Found at i:16120107 original size:40 final size:40
Alignment explanation
Indices: 16120062--16120140 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
16120052 TATTCCTCTT
*
16120062 CAAACCATCCAAAATAGAGTTAAAGTCAATAGCAGCAATA
1 CAAACCATCCAAAATAGAGTTAAAGTCAATAGCAACAATA
* *
16120102 CAAACCATCCAAAATGGAGTTAAAGTCACTAGCAACAAT
1 CAAACCATCCAAAATAGAGTTAAAGTCAATAGCAACAAT
16120141 CCATGGCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.48, C:0.22, G:0.13, T:0.18
Consensus pattern (40 bp):
CAAACCATCCAAAATAGAGTTAAAGTCAATAGCAACAATA
Found at i:16121178 original size:40 final size:40
Alignment explanation
Indices: 16121123--16121201 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
16121113 TGAGCTATGG
16121123 ATTGTTGCTAGTGACTTTAACTCCATTTTGGATGGTTTGT
1 ATTGTTGCTAGTGACTTTAACTCCATTTTGGATGGTTTGT
*
16121163 ATTGTTGCTAGTGACTTTAACTCTATTTTGGATGGTTTG
1 ATTGTTGCTAGTGACTTTAACTCCATTTTGGATGGTTTG
16121202 AAGAGGAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.18, C:0.11, G:0.23, T:0.48
Consensus pattern (40 bp):
ATTGTTGCTAGTGACTTTAACTCCATTTTGGATGGTTTGT
Found at i:16121762 original size:114 final size:115
Alignment explanation
Indices: 16121597--16121816 Score: 361
Period size: 114 Copynumber: 1.9 Consensus size: 115
16121587 CGGTGTTTTT
* *
16121597 GATAAAGCGCCACTAATTATTAATATATAACGGCGTTTTTAGAAAAGCGCCGCAAAAAAATTAAT
1 GATAAAGCGCCACTAATTATCAATATATAACGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAAT
* *
16121662 CACAACGCCACCGT-TTTGGTTGAGCTTTAGTGGTATTAGCAGCGTTTGG
66 CACAACGCCACCGTATTAGGTTGAGCTTTAGTGGCATTAGCAGCGTTTGG
* * *
16121711 GATAAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAAT
1 GATAAAGCGCCACTAATTATCAATATATAACGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAAT
*
16121776 CACAACGCCATCGTATTAGGTTGAGCTTTAGTGGCATTAGC
66 CACAACGCCACCGTATTAGGTTGAGCTTTAGTGGCATTAGC
16121817 TACGCTTTTT
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
114 73 0.75
115 24 0.25
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (115 bp):
GATAAAGCGCCACTAATTATCAATATATAACGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAAT
CACAACGCCACCGTATTAGGTTGAGCTTTAGTGGCATTAGCAGCGTTTGG
Found at i:16121855 original size:115 final size:114
Alignment explanation
Indices: 16121600--16121855 Score: 345
Period size: 114 Copynumber: 2.2 Consensus size: 114
16121590 TGTTTTTGAT
* ** * *
16121600 AAAGCGCCACTAATTATTAATATATAACGGCGTTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
1 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
* * *
16121665 AACGCCACCGTTTTGGTTGAGCTTTAGTGGTATTAGCAGCGTTTGGGAT
66 AACGCCACCGTTTAGGTTGAGCTTTAGTGGCATTAGCAGCGTTTGGGAA
16121714 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
1 AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
* **
16121779 AACGCCATCGTATTAGGTTGAGCTTTAGTGGCATTAGCTA-CGCTTT-TTAA
66 AACGCCACCGT-TTAGGTTGAGCTTTAGTGGCATTAGC-AGCG-TTTGGGAA
* * *
16121829 AAATCGCCGCTAATTCTCGATCTATAG
1 AAAGCGCCACTAATTCTCGATATATAG
16121856 TTGCGTTTTC
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
114 70 0.56
115 51 0.41
116 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (114 bp):
AAAGCGCCACTAATTCTCGATATATAGCGGCATTTTTAGAAAAGCGCCGCAAAAAAATTAATCAC
AACGCCACCGTTTAGGTTGAGCTTTAGTGGCATTAGCAGCGTTTGGGAA
Found at i:16122050 original size:139 final size:140
Alignment explanation
Indices: 16121799--16122077 Score: 353
Period size: 139 Copynumber: 2.0 Consensus size: 140
16121789 TATTAGGTTG
* * * * * ***
16121799 AGCTTTAGTGGCATTAGCTACGCTTTTTAAAAATCGCCGCTAATTCTCGATCTATAGTTGCGTTT
1 AGCTTTAGTGGCATTAGCGACGCTTTTTAAAAAGCGCAGCTAATGCTCGATCTACAACGGCGTTT
* * * * *
16121864 TCGACAAAGCGCCACTAATTCTATATATATAGCAGTGTTTTTAGAAAAGCGCTGCAAAAAAATTA
66 GCGACAAAGCGCCACCAATTCTAGATATATAGCAGCGTTTTTAGAAAAGCGCCGCAAAAAAATTA
16121929 ATCACAACGC
131 ATCACAACGC
** *
16121939 AGCTTTAGTGGCATTAGCGGTG-TTTTTTAAAAGCGCAGCTAATGCTCGATCTACAACGGCGTTT
1 AGCTTTAGTGGCATTAGCGACGCTTTTTAAAAAGCGCAGCTAATGCTCGATCTACAACGGCGTTT
* * * * *
16122003 GGGACAAAGCGCCACCAATTCTCGATATATAGCGGCGTTTTTAGAAAAGTGCCGTAAAAAAATTA
66 GCGACAAAGCGCCACCAATTCTAGATATATAGCAGCGTTTTTAGAAAAGCGCCGCAAAAAAATTA
*
16122068 ATCTCAACGC
131 ATCACAACGC
16122078 TATCGTTTTA
Statistics
Matches: 117, Mismatches: 22, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
139 98 0.84
140 19 0.16
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (140 bp):
AGCTTTAGTGGCATTAGCGACGCTTTTTAAAAAGCGCAGCTAATGCTCGATCTACAACGGCGTTT
GCGACAAAGCGCCACCAATTCTAGATATATAGCAGCGTTTTTAGAAAAGCGCCGCAAAAAAATTA
ATCACAACGC
Found at i:16122297 original size:28 final size:29
Alignment explanation
Indices: 16122244--16122304 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
16122234 TTGGGATTAG
16122244 AGTTTTGAGTTTAGGATTTACAA-TTTAT
1 AGTTTTGAGTTTAGGATTTACAATTTTAT
* **
16122272 AGTTTGTG-GTTTAGGGTTTATTATTTTAT
1 AGTTT-TGAGTTTAGGATTTACAATTTTAT
16122301 AGTT
1 AGTT
16122305 AAGGTCTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (29 bp):
AGTTTTGAGTTTAGGATTTACAATTTTAT
Found at i:16122466 original size:7 final size:7
Alignment explanation
Indices: 16122456--16122664 Score: 71
Period size: 7 Copynumber: 29.7 Consensus size: 7
16122446 GTAGTATATA
16122456 TTTAGGG
1 TTTAGGG
*
16122463 TTTAGGA
1 TTTAGGG
* *
16122470 TGTA-AG
1 TTTAGGG
*
16122476 TTTATGG
1 TTTAGGG
*
16122483 TTTGGGG
1 TTTAGGG
**
16122490 TTTAAAG
1 TTTAGGG
*
16122497 TTTAAGG
1 TTTAGGG
* *
16122504 TTTATGA
1 TTTAGGG
*
16122511 TTTAGTG
1 TTTAGGG
* *
16122518 TTAAGAG
1 TTTAGGG
*
16122525 TTTAGTG
1 TTTAGGG
*
16122532 TTTACGG
1 TTTAGGG
*
16122539 TTTAAGG
1 TTTAGGG
*
16122546 TGTA-GG
1 TTTAGGG
*
16122552 TTTATGG
1 TTTAGGG
**
16122559 TTTAGTT
1 TTTAGGG
*
16122566 TTTAGTG
1 TTTAGGG
16122573 TTTAGGG
1 TTTAGGG
* *
16122580 TTAAGAG
1 TTTAGGG
* *
16122587 CTTAGGA
1 TTTAGGG
*
16122594 TTTAAAGG
1 TTT-AGGG
*
16122602 TTATAGGC
1 TT-TAGGG
* *
16122610 CTAAGGG
1 TTTAGGG
* * *
16122617 CTTATGA
1 TTTAGGG
16122624 TTTAGGG
1 TTTAGGG
16122631 TTTAGGG
1 TTTAGGG
*
16122638 TTTTATGG
1 -TTTAGGG
16122646 TTTAGGG
1 TTTAGGG
*
16122653 TTTAGTG
1 TTTAGGG
16122660 TTTAG
1 TTTAG
16122665 CTAAAAACAT
Statistics
Matches: 143, Mismatches: 54, Indels: 10
0.69 0.26 0.05
Matches are distributed among these distances:
6 8 0.06
7 121 0.85
8 13 0.09
9 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:16122647 original size:15 final size:15
Alignment explanation
Indices: 16122624--16122664 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
16122614 GGGCTTATGA
16122624 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
*
16122639 TTTATGGTTTAGGG-
1 TTTAGGGTTTAGGGT
*
16122653 TTTAGTGTTTAG
1 TTTAGGGTTTAG
16122665 CTAAAAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:16122649 original size:22 final size:22
Alignment explanation
Indices: 16122618--16122662 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
16122608 GCCTAAGGGC
16122618 TTATGATTTAGGGTTTAGGGTT
1 TTATGATTTAGGGTTTAGGGTT
* *
16122640 TTATGGTTTAGGGTTTAGTGTT
1 TTATGATTTAGGGTTTAGGGTT
16122662 T
1 T
16122663 AGCTAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (22 bp):
TTATGATTTAGGGTTTAGGGTT
Found at i:16124946 original size:43 final size:45
Alignment explanation
Indices: 16124859--16124968 Score: 143
Period size: 43 Copynumber: 2.5 Consensus size: 45
16124849 GTTTAATCGG
16124859 TTTAATGTGAATAAATTATCGAATTGAATAAATTATCGATTTTTGA
1 TTTAAT-TGAATAAATTATCGAATTGAATAAATTATCGATTTTTGA
* * * *
16124905 TTTAATTGAATAAATTAT-G-TTTGATTAATTTATCGTTTTTTGA
1 TTTAATTGAATAAATTATCGAATTGAATAAATTATCGATTTTTGA
* *
16124948 TTTAATTGAAAAAATCATCGA
1 TTTAATTGAATAAATTATCGA
16124969 TTTTATATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
43 36 0.64
44 2 0.04
45 12 0.21
46 6 0.11
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (45 bp):
TTTAATTGAATAAATTATCGAATTGAATAAATTATCGATTTTTGA
Found at i:16125238 original size:8 final size:9
Alignment explanation
Indices: 16125216--16125245 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16125206 AAAAATTATT
16125216 ATAACTTAC
1 ATAACTTAC
16125225 ATAACTTA-
1 ATAACTTAC
16125233 ATAACTTAC
1 ATAACTTAC
16125242 ATAA
1 ATAA
16125246 TTTATTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:16125365 original size:19 final size:21
Alignment explanation
Indices: 16125341--16125386 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
16125331 CTTATTTTAA
16125341 TATATTTTAAATTA-A-AACT
1 TATATTTTAAATTACATAACT
*
16125360 TATATTTTGAATTACATAACT
1 TATATTTTAAATTACATAACT
16125381 TA-ATTT
1 TATATTT
16125387 CTTCCCCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 13 0.54
20 5 0.21
21 6 0.25
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
TATATTTTAAATTACATAACT
Found at i:16125566 original size:8 final size:9
Alignment explanation
Indices: 16125535--16125808 Score: 212
Period size: 9 Copynumber: 30.9 Consensus size: 9
16125525 AAATTAATAT
*
16125535 ATAATTTAC
1 ATAACTTAC
16125544 ATAACTTAC
1 ATAACTTAC
16125553 ATAACTTA-
1 ATAACTTAC
16125561 ATAACTTAC
1 ATAACTTAC
16125570 ATAA--TAC
1 ATAACTTAC
* *
16125577 ATAAATTAATAT
1 AT-AACT--TAC
* *
16125589 ATAATTTAT
1 ATAACTTAC
* * *
16125598 GTATCTCAC
1 ATAACTTAC
16125607 ATAACTTAC
1 ATAACTTAC
16125616 ATAACTTA-
1 ATAACTTAC
16125624 ATAACTTAC
1 ATAACTTAC
16125633 ATAA--TAC
1 ATAACTTAC
* *
16125640 ATAA-ATAT
1 ATAACTTAC
* *
16125648 ATATCATATC
1 ATAACTTA-C
*
16125658 ACAACTTAC
1 ATAACTTAC
16125667 ATAACTTAC
1 ATAACTTAC
*
16125676 ATAATTTA-
1 ATAACTTAC
16125684 ATAACTTAC
1 ATAACTTAC
16125693 ATAACTTA-
1 ATAACTTAC
16125701 ATAACTTAC
1 ATAACTTAC
*
16125710 ATAATTTATAC
1 ATAA-CT-TAC
*
16125721 ATAATTTA-
1 ATAACTTAC
*
16125729 ATAACTTTC
1 ATAACTTAC
16125738 ATAACTTAC
1 ATAACTTAC
16125747 ATAACTTA-
1 ATAACTTAC
16125755 ATAACTTAC
1 ATAACTTAC
*
16125764 ATAATTTATAC
1 ATAA-CT-TAC
*
16125775 ATAATTTA-
1 ATAACTTAC
*
16125783 ATAACTTTC
1 ATAACTTAC
16125792 ATAACTTAC
1 ATAACTTAC
16125801 ATAACTTA
1 ATAACTTA
16125809 ATTATACTTG
Statistics
Matches: 219, Mismatches: 27, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
7 12 0.05
8 58 0.26
9 116 0.53
10 11 0.05
11 18 0.08
12 4 0.02
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (9 bp):
ATAACTTAC
Found at i:16125566 original size:17 final size:18
Alignment explanation
Indices: 16125535--16125808 Score: 212
Period size: 17 Copynumber: 15.4 Consensus size: 18
16125525 AAATTAATAT
*
16125535 ATAATTTACATAACTTAC
1 ATAACTTACATAACTTAC
16125553 ATAACTTA-ATAACTTAC
1 ATAACTTACATAACTTAC
* *
16125570 ATAA--TACATAAATTAATAT
1 ATAACTTACAT-AACT--TAC
* ** * *
16125589 ATAATTTATGTATCTCAC
1 ATAACTTACATAACTTAC
16125607 ATAACTTACATAACTTA-
1 ATAACTTACATAACTTAC
16125624 ATAACTTACATAA--TAC
1 ATAACTTACATAACTTAC
* * * *
16125640 ATAA-ATATATATCATATC
1 ATAACTTACATAACTTA-C
*
16125658 ACAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
*
16125676 ATAATTTA-ATAACTTAC
1 ATAACTTACATAACTTAC
16125693 ATAACTTA-ATAACTTAC
1 ATAACTTACATAACTTAC
* *
16125710 ATAATTTATACATAATTTA-
1 ATAA-CT-TACATAACTTAC
*
16125729 ATAACTTTCATAACTTAC
1 ATAACTTACATAACTTAC
16125747 ATAACTTA-ATAACTTAC
1 ATAACTTACATAACTTAC
* *
16125764 ATAATTTATACATAATTTA-
1 ATAA-CT-TACATAACTTAC
*
16125783 ATAACTTTCATAACTTAC
1 ATAACTTACATAACTTAC
16125801 ATAACTTA
1 ATAACTTA
16125809 ATTATACTTG
Statistics
Matches: 200, Mismatches: 37, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
15 9 0.05
16 6 0.03
17 91 0.46
18 49 0.25
19 26 0.13
20 16 0.08
21 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:16125585 original size:24 final size:25
Alignment explanation
Indices: 16125535--16125587 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
16125525 AAATTAATAT
* *
16125535 ATAATTTACATAACTTACATAACTTA
1 ATAACTTACATAAC-TACATAAATTA
16125561 ATAACTTACATAA-TACATAAATTA
1 ATAACTTACATAACTACATAAATTA
16125585 ATA
1 ATA
16125588 TATAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.52
26 12 0.48
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAACTTACATAACTACATAAATTA
Found at i:16125641 original size:63 final size:62
Alignment explanation
Indices: 16125535--16125810 Score: 277
Period size: 63 Copynumber: 4.5 Consensus size: 62
16125525 AAATTAATAT
*
16125535 ATAATTTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTA
1 ATAACTTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTA
* * *
16125597 TGTATCTCACATAACTTACATAACTTAATAACTTACATAATACATAAATATATATCATATCACAA
1 -ATAACTTACATAACTTACATAACTTAATAACTTACATAATACATAAAT-TA-AT-ATAT---AA
*
16125662 CTTA
59 TTTA
* * *
16125666 CATAACTTACATAATTTA-ATAACTTACATAACTTA-ATAACTTACAT-AATTTATACATAATTT
1 -ATAACTTACATAACTTACATAACTTA-ATAACTTACATAA--TACATAAATTAATATATAATTT
16125728 A
62 A
* *
16125729 ATAACTTTCATAACTTACATAACTTAATAACTTAC---ATA-AT---TT-ATACATAATTTA
1 ATAACTTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTA
*
16125783 ATAACTTTCATAACTTACATAACTTAAT
1 ATAACTTACATAACTTACATAACTTAAT
16125811 TATACTTGTA
Statistics
Matches: 187, Mismatches: 15, Indels: 31
0.80 0.06 0.13
Matches are distributed among these distances:
54 40 0.21
55 2 0.01
57 2 0.01
58 2 0.01
60 1 0.01
62 23 0.12
63 57 0.30
64 2 0.01
65 2 0.01
66 7 0.04
67 2 0.01
68 13 0.07
69 29 0.16
70 5 0.03
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (62 bp):
ATAACTTACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTA
Found at i:16128772 original size:50 final size:50
Alignment explanation
Indices: 16128657--16128905 Score: 336
Period size: 50 Copynumber: 4.8 Consensus size: 50
16128647 GATAATAACA
* ** * *
16128657 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
16128708 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
16128758 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
16128808 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
16128863 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16128906 TTACCCAAAT
Statistics
Matches: 177, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
50 98 0.55
51 33 0.19
53 3 0.02
54 1 0.01
55 2 0.01
56 40 0.23
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:16129021 original size:13 final size:13
Alignment explanation
Indices: 16129000--16129031 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16128990 GCTTGGATCA
*
16129000 TCATCAAATAAAT
1 TCATAAAATAAAT
16129013 TCATAAAATAAAT
1 TCATAAAATAAAT
16129026 TCATAA
1 TCATAA
16129032 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:16129278 original size:30 final size:30
Alignment explanation
Indices: 16129243--16129300 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
16129233 CCTCGACTCT
16129243 AACTTTT-TCAAAATTACAATTTTGCCCCTA
1 AACTTTTAT-AAAATTACAATTTTGCCCCTA
* *
16129273 AACTTTTATATAATTACATTTTTGCCCC
1 AACTTTTATAAAATTACAATTTTGCCCC
16129301 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTATAAAATTACAATTTTGCCCCTA
Found at i:16134510 original size:43 final size:43
Alignment explanation
Indices: 16134446--16134558 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
16134436 ATAAAAAGCA
* * *
16134446 CCGCCAAAGAACATGACCTTTAGCGGCGAATGCT-ATAAAAGTG
1 CCGCTAAAGATCATGATCTTTAGCGGCGAATG-TGATAAAAGTG
* * ** *
16134489 TCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAAAAGTG
1 CCGCTAAAGATCATGATCTTTAGCGGCGAATGTGATAAAAGTG
*
16134532 CCGCTAAAGATCATGTTCTTTAGCGGC
1 CCGCTAAAGATCATGATCTTTAGCGGC
16134559 ATTTATGTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 57 0.98
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
CCGCTAAAGATCATGATCTTTAGCGGCGAATGTGATAAAAGTG
Found at i:16135274 original size:45 final size:47
Alignment explanation
Indices: 16135220--16135331 Score: 129
Period size: 49 Copynumber: 2.4 Consensus size: 47
16135210 ATCCATATAA
* *
16135220 AACTACACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTCAATCT
1 AACTACACTTCTTCTATTTATATTATTAGAATAAGGTATTTCAATCT
* * * *
16135265 TATTACACTTCATCTATTTGATGTTGATTAGAATAAGGTATTTCAATCT
1 AACTACACTTCTTCTATTT-ATATT-ATTAGAATAAGGTATTTCAATCT
*
16135314 AACTACACTCCTTCTATT
1 AACTACACTTCTTCTATT
16135332 AGAATATGGT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
45 15 0.28
47 3 0.06
49 35 0.66
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.46
Consensus pattern (47 bp):
AACTACACTTCTTCTATTTATATTATTAGAATAAGGTATTTCAATCT
Found at i:16145352 original size:14 final size:14
Alignment explanation
Indices: 16145333--16145375 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
16145323 TTTATATAAA
16145333 ATTAAAATAAAAAT
1 ATTAAAATAAAAAT
*
16145347 ATTAAATTAAAAAT
1 ATTAAAATAAAAAT
* **
16145361 TTTAGCATAAAAAT
1 ATTAAAATAAAAAT
16145375 A
1 A
16145376 AATTAAAACC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
ATTAAAATAAAAAT
Found at i:16152392 original size:30 final size:29
Alignment explanation
Indices: 16152356--16152440 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 29
16152346 ATCCGTATTT
*
16152356 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGG-TATCAAATA
16152386 ATGGAAAGTCAAAGATATGAGTATCAAATA
1 ATGGAAAGTCAAAGATATG-GTATCAAATA
* *
16152416 TTGGAAAATCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATAT-GGTATC
16152441 GAGATATTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
30 48 0.96
31 2 0.04
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (29 bp):
ATGGAAAGTCAAAGATATGGTATCAAATA
Found at i:16157027 original size:15 final size:15
Alignment explanation
Indices: 16157007--16157090 Score: 73
Period size: 15 Copynumber: 5.5 Consensus size: 15
16156997 TTATGGAAAG
*
16157007 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
16157022 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
*
16157036 TTCAAATATATGGGTA
1 -TCAAATATATGGATA
*
16157052 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
16157067 TCAAAGATATGGGTA
1 TCAAATATATGGATA
16157082 TCAAGATAT
1 TCAA-ATAT
16157091 TGGCATAAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
14 8 0.15
15 35 0.65
16 11 0.20
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:16157035 original size:30 final size:30
Alignment explanation
Indices: 16156999--16157085 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
16156989 ATCCGTATTT
* *
16156999 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAATCAAATATATGGGTATCAAATA
*
16157029 ATGGAAATTCAAATATATGGGTATCAAATA
1 ATGGAAAATCAAATATATGGGTATCAAATA
* *
16157059 TTGGAAAATCAAAGATATGGGTATCAA
1 ATGGAAAATCAAATATATGGGTATCAA
16157086 GATATTGGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (30 bp):
ATGGAAAATCAAATATATGGGTATCAAATA
Found at i:16160182 original size:19 final size:19
Alignment explanation
Indices: 16160158--16160196 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16160148 GTATTACAAG
16160158 TACTCATGAAAAATAGAAT
1 TACTCATGAAAAATAGAAT
*
16160177 TACTCATGGAAAATAGAAT
1 TACTCATGAAAAATAGAAT
16160196 T
1 T
16160197 TATTGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (19 bp):
TACTCATGAAAAATAGAAT
Found at i:16171312 original size:43 final size:43
Alignment explanation
Indices: 16171209--16171312 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 43
16171199 CAATTTATTC
** *
16171209 GATGATGCACTATGCATGTCAGTATAATTGTTTTGGTTCGTCT
1 GATGATGCACTATGTGTGTCAGTATAATTGCTTTGGTTCGTCT
* *
16171252 GATGATGCACCT-CGTGTGTTAGTATAATTGCTTTGGCTT-G-CTT
1 GATGATGCA-CTATGTGTGTCAGTATAATTGCTTTGG-TTCGTC-T
16171295 GATGATGCACTATGTGTG
1 GATGATGCACTATGTGTG
16171313 CCAATAACTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
42 3 0.06
43 44 0.86
44 4 0.08
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.40
Consensus pattern (43 bp):
GATGATGCACTATGTGTGTCAGTATAATTGCTTTGGTTCGTCT
Found at i:16178860 original size:53 final size:53
Alignment explanation
Indices: 16178801--16178907 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
16178791 TCACACCAAA
16178801 TATGCAGTGAACTGCTAATCGGATATAAATACACCAATTCCACCTACCACACC
1 TATGCAGTGAACTGCTAATCGGATATAAATACACCAATTCCACCTACCACACC
16178854 TATGCAGTGAACTGCTAATCGGATATAAATACACCAATTCCACCTACCACACC
1 TATGCAGTGAACTGCTAATCGGATATAAATACACCAATTCCACCTACCACACC
16178907 T
1 T
16178908 GAATACGCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (53 bp):
TATGCAGTGAACTGCTAATCGGATATAAATACACCAATTCCACCTACCACACC
Found at i:16181998 original size:2 final size:2
Alignment explanation
Indices: 16181991--16182021 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16181981 TGAATCAAGC
16181991 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16182022 TTTATCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16187546 original size:15 final size:17
Alignment explanation
Indices: 16187521--16187554 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16187511 TGGTTTCTCT
16187521 TTTGTCTTGA-GTATTC
1 TTTGTCTTGAGGTATTC
16187537 TTTG-CTTGAGGTATTC
1 TTTGTCTTGAGGTATTC
16187553 TT
1 TT
16187555 CACATGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (17 bp):
TTTGTCTTGAGGTATTC
Found at i:16192424 original size:6 final size:6
Alignment explanation
Indices: 16192386--16192432 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
16192376 ATGCTGATCT
* *
16192386 ATACTA TATACTA TATACT- ATACTA ATATTA ATACTA ATACTG ATAC
1 ATACTA -ATACTA -ATACTA ATACTA ATACTA ATACTA ATACTA ATAC
16192433 CATACAGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.14
6 19 0.53
7 12 0.33
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (6 bp):
ATACTA
Found at i:16196365 original size:40 final size:40
Alignment explanation
Indices: 16196308--16196407 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 40
16196298 TAACGATAAA
*
16196308 TCAGCTATGTT-TAGCACTTAATATGAAATTC-GAGATAGCT
1 TCAGCTAT-TTATGGCACTTAATATGAAATTCGGA-ATAGCT
* * ** *
16196348 TCAGCTATTTATGGCACTTAGTGTGCGATTTGGAATAGCT
1 TCAGCTATTTATGGCACTTAATATGAAATTCGGAATAGCT
* *
16196388 TCGGCTATTTATGACACTTA
1 TCAGCTATTTATGGCACTTA
16196408 GTGTGTGAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 2 0.04
40 46 0.92
41 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (40 bp):
TCAGCTATTTATGGCACTTAATATGAAATTCGGAATAGCT
Found at i:16196447 original size:41 final size:40
Alignment explanation
Indices: 16196339--16196477 Score: 163
Period size: 41 Copynumber: 3.4 Consensus size: 40
16196329 TATGAAATTC
**
16196339 GAGATAGCTTCAGCTATTTATGGCACTTAGTGTGCGATTT
1 GAGATAGCTTCAGCTATTTATGGCACTTAGTGTGCGAGAT
* * *
16196379 G-GAATAGCTTCGGCTATTTATGACACTTAGTGTGTGAGACT
1 GAG-ATAGCTTCAGCTATTTATGGCACTTAGTGTGCGAGA-T
* * *
16196420 GAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGAT
1 GAGATAGCTTCAGCTATTTATGGCACTTAGTGTGCGAGAT
*
16196460 TATGATAGCTTCAGCTAT
1 GA-GATAGCTTCAGCTAT
16196478 ACGATGGCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 34 0.40
41 48 0.57
42 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (40 bp):
GAGATAGCTTCAGCTATTTATGGCACTTAGTGTGCGAGAT
Found at i:16196795 original size:42 final size:42
Alignment explanation
Indices: 16196738--16196837 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
16196728 CTATATGAAC
* *
16196738 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGATGGATAACG
* *
16196780 GGCACTAAGTGTGCGAAATTAAAATGATGATGATGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGATGGATAACG
16196822 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
16196838 TACCGAGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGATGGATAACG
Found at i:16199074 original size:11 final size:11
Alignment explanation
Indices: 16199058--16199096 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
16199048 GAAAATAGAG
16199058 CAAAAGCAACT
1 CAAAAGCAACT
16199069 CAAAAGC-A--
1 CAAAAGCAACT
16199077 CAAAAGCAACT
1 CAAAAGCAACT
16199088 CAAAAGCAA
1 CAAAAGCAA
16199097 AAGAGTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.28
9 1 0.04
10 1 0.04
11 16 0.64
ACGTcount: A:0.59, C:0.26, G:0.10, T:0.05
Consensus pattern (11 bp):
CAAAAGCAACT
Found at i:16199082 original size:19 final size:19
Alignment explanation
Indices: 16199058--16199095 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16199048 GAAAATAGAG
16199058 CAAAAGCAACTCAAAAGCA
1 CAAAAGCAACTCAAAAGCA
16199077 CAAAAGCAACTCAAAAGCA
1 CAAAAGCAACTCAAAAGCA
16199096 AAAGAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.26, G:0.11, T:0.05
Consensus pattern (19 bp):
CAAAAGCAACTCAAAAGCA
Found at i:16207347 original size:21 final size:22
Alignment explanation
Indices: 16207322--16207371 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
16207312 AATATTTTAA
* *
16207322 AACAATAGA-AAAGATTAAAGG
1 AACAACAGATAAAAATTAAAGG
16207343 AACAACAGATTCAAAAATTAAAGG
1 AACAACAGA-T-AAAAATTAAAGG
16207367 AACAA
1 AACAA
16207372 GAAATCAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
24 16 0.67
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (22 bp):
AACAACAGATAAAAATTAAAGG
Found at i:16210425 original size:18 final size:18
Alignment explanation
Indices: 16210404--16210439 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16210394 GATAATGTGG
16210404 CAAAATTCAATAAAAAAT
1 CAAAATTCAATAAAAAAT
* *
16210422 CAAATTTCAATAGAAAAT
1 CAAAATTCAATAAAAAAT
16210440 TCACTCAAAC
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:0.61, C:0.11, G:0.03, T:0.25
Consensus pattern (18 bp):
CAAAATTCAATAAAAAAT
Found at i:16216779 original size:28 final size:28
Alignment explanation
Indices: 16216739--16216822 Score: 168
Period size: 28 Copynumber: 3.0 Consensus size: 28
16216729 TCATATGGAG
16216739 ATACTTTGAATTTTCTCGATGGTATTCT
1 ATACTTTGAATTTTCTCGATGGTATTCT
16216767 ATACTTTGAATTTTCTCGATGGTATTCT
1 ATACTTTGAATTTTCTCGATGGTATTCT
16216795 ATACTTTGAATTTTCTCGATGGTATTCT
1 ATACTTTGAATTTTCTCGATGGTATTCT
16216823 GTTAAAAATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (28 bp):
ATACTTTGAATTTTCTCGATGGTATTCT
Found at i:16219967 original size:29 final size:27
Alignment explanation
Indices: 16219899--16219967 Score: 66
Period size: 31 Copynumber: 2.4 Consensus size: 27
16219889 TAGAGTTTTA
*
16219899 CATGTATAATTGCACGAAATTAAAATT
1 CATGTATAATTGCACGAAATCAAAATT
* **
16219926 CATATATAAAATTGCATATTAAATCAAAATT
1 CATGTAT--AATTGC--ACGAAATCAAAATT
16219957 CATGTATAATT
1 CATGTATAATT
16219968 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 6 0.18
29 10 0.30
31 17 0.52
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (27 bp):
CATGTATAATTGCACGAAATCAAAATT
Found at i:16224211 original size:31 final size:31
Alignment explanation
Indices: 16224147--16224219 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
16224137 TTCATGTCAT
*
16224147 TTATTTTATTTAA--AAAATAGATAAATTAA
1 TTATTTTATTAAATCAAAATAGATAAATTAA
*
16224176 TTATTGTATATTAAATCAAAA-AGA-AAATTAG
1 TTATT-T-TATTAAATCAAAATAGATAAATTAA
16224207 TTATTTTATTAAA
1 TTATTTTATTAAA
16224220 AGTATCATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 12 0.32
30 2 0.05
31 17 0.45
32 3 0.08
33 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (31 bp):
TTATTTTATTAAATCAAAATAGATAAATTAA
Found at i:16225880 original size:18 final size:18
Alignment explanation
Indices: 16225853--16225888 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16225843 AAAATGAATA
*
16225853 ATTTCCATTTCCATTTTT
1 ATTTCAATTTCCATTTTT
*
16225871 ATTTCAATTTTCATTTTT
1 ATTTCAATTTCCATTTTT
16225889 TGAAACCTAT
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:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTCAATTTCCATTTTT
Found at i:16227592 original size:21 final size:21
Alignment explanation
Indices: 16227566--16227624 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
16227556 TTAAAAAGTA
*
16227566 ATTAAGAATTGAGAATTGATG
1 ATTAAGAATTGAGAATTGAGG
* *
16227587 ATTAAGAATTTAGGATTGAGG
1 ATTAAGAATTGAGAATTGAGG
* * *
16227608 AATGAGTATTGAGAATT
1 ATTAAGAATTGAGAATT
16227625 TTTGGTTGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (21 bp):
ATTAAGAATTGAGAATTGAGG
Found at i:16232282 original size:34 final size:35
Alignment explanation
Indices: 16232238--16232304 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
16232228 CAATAAAATA
*
16232238 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
16232272 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
16232305 TTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:16237413 original size:43 final size:43
Alignment explanation
Indices: 16237365--16237538 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
16237355 ATTGGACAAG
* * *
16237365 TCGAAACAATTATACTGATACGCGTAGTGCATCATC-AGATAAA
1 TCGAAACAATTATACTGACACACATAGTGCATCATCGA-ATAAA
* *
16237408 TCGAAACAATTATACTGGCACACATAGTGCATCATCGAATATA
1 TCGAAACAATTATACTGACACACATAGTGCATCATCGAATAAA
* * * * * * * *
16237451 TCGAAGCAATTATGCTGACACATACAGTGCATTATTGGATATA
1 TCGAAACAATTATACTGACACACATAGTGCATCATCGAATAAA
* * * *
16237494 -CCAAAGCAATTATACTGGCACACATAATGCATCATCGGATAAA
1 TCGAAA-CAATTATACTGACACACATAGTGCATCATCGAATAAA
16237537 TC
1 TC
16237539 AAAGTATAGC
Statistics
Matches: 105, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 3 0.03
43 100 0.95
44 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (43 bp):
TCGAAACAATTATACTGACACACATAGTGCATCATCGAATAAA
Done.