Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 75 of 295
Found at i:21638109 original size:36 final size:36
Alignment explanation
Indices: 21638059--21638148 Score: 135
Period size: 36 Copynumber: 2.5 Consensus size: 36
21638049 CCGTTTACAG
21638059 TACTATTCACGTATACAGCACTATTCACGTATACGA
1 TACTATTCACGTATACAGCACTATTCACGTATACGA
* ** *
21638095 TACTATTCATGTATATGGCACTATTCACGTATACGG
1 TACTATTCACGTATACAGCACTATTCACGTATACGA
*
21638131 TACTGTTCACGTATACAG
1 TACTATTCACGTATACAG
21638149 TAGTTGGGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (36 bp):
TACTATTCACGTATACAGCACTATTCACGTATACGA
Found at i:21643676 original size:29 final size:30
Alignment explanation
Indices: 21643644--21643702 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21643634 TAAAATAATT
21643644 ATTTAATATT-ATC-ACTTAATTAAATTAAA
1 ATTTAATATTGATCTA-TTAATTAAATTAAA
* *
21643673 ATTTATTATTGATCTATTAATTAATTTAAA
1 ATTTAATATTGATCTATTAATTAAATTAAA
21643703 TTAATGTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.35
30 16 0.62
31 1 0.04
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (30 bp):
ATTTAATATTGATCTATTAATTAAATTAAA
Found at i:21644697 original size:47 final size:46
Alignment explanation
Indices: 21644566--21644705 Score: 156
Period size: 47 Copynumber: 2.9 Consensus size: 46
21644556 TAAATTCTGA
*
21644566 TCCCCTTGACATTTTACAGAACAAAAACTCATCACCACGTCAAGTAATC
1 TCCCCTTGACATTTTAC--AAC-AAAACTCATCACCACGTCAAGTAAAC
* * *
21644615 T-CCCTTAGACATTTTGCAACACAAAATGATCACCACGTCAAGTAAAC
1 TCCCCTT-GACATTTTACAACA-AAACTCATCACCACGTCAAGTAAAC
* * *
21644662 TCCCCTTGACATTTTACTACAAAACCTTATAACCACGTCAAGTA
1 TCCCCTTGACATTTTACAACAAAA-CTCATCACCACGTCAAGTA
21644706 GGAGTAAGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
46 4 0.05
47 54 0.69
48 10 0.13
49 10 0.13
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.26
Consensus pattern (46 bp):
TCCCCTTGACATTTTACAACAAAACTCATCACCACGTCAAGTAAAC
Found at i:21645115 original size:17 final size:18
Alignment explanation
Indices: 21645093--21645128 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21645083 TTATGAATTG
21645093 AAAAAG-AAAGAAAATAT
1 AAAAAGAAAAGAAAATAT
21645110 AAAAAGCAAAAGAAAATAT
1 AAAAAG-AAAAGAAAATAT
21645129 GGAACCATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAAGAAAATAT
Found at i:21646807 original size:3 final size:3
Alignment explanation
Indices: 21646799--21646841 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
21646789 AAAAACAATT
* *
21646799 ATA ATA ATA ATA ATA ACA ATA ATA ATA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21646842 AATTGCTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:21648691 original size:44 final size:44
Alignment explanation
Indices: 21648630--21648909 Score: 196
Period size: 44 Copynumber: 6.4 Consensus size: 44
21648620 ATCTACTCTG
* * *
21648630 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCA
* * ** * * ** *
21648674 CAGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCA
*** *
21648717 CTGTAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCA
1 CTGTAACT-TCAGGGAGATAAGATCCT-TTATTTTAATCTGCTCCA
* *** ** **
21648761 CTGTAACCTCAGGGAGATAAGATCCGAAATTCTTTGGTCTATTCCA
1 CTGTAACTTCAGGGAGATAAGATCCTTTA-T-TTTAATCTGCTCCA
* * * * *
21648807 CTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TGTGATCTCCTCTA
1 CTGTAACT-TCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCA
*
21648848 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCA
1 CTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCA
21648892 CTGTAACTTCAGGGAGAT
1 CTGTAACTTCAGGGAGAT
21648910 TGGATTATCG
Statistics
Matches: 179, Mismatches: 45, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
41 28 0.16
42 5 0.03
43 31 0.17
44 83 0.46
45 3 0.02
46 29 0.16
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCA
Found at i:21648729 original size:43 final size:44
Alignment explanation
Indices: 21648630--21649003 Score: 163
Period size: 44 Copynumber: 8.5 Consensus size: 44
21648620 ATCTACTCTG
* *** * *
21648630 CTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCAC-TGGCTTCAATCTGCTCCA
* * * * * * *
21648674 CAGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
* *
21648717 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
* * *** **
21648761 CTGTAACCTCAGGGAGATAAGATCCGAAAT-TCTTTGGTCTATTCCA
1 CTGTAACCTCAGGGAGATAAGAT-C--ACTGGCTTCAATCTGCTCCA
* * * * *
21648807 CTGTAATCTCAGGGAGATAAGA-C-CT-GATGT-GATCTCCTCTA
1 CTGTAACCTCAGGGAGATAAGATCACTGGCT-TCAATCTGCTCCA
* * *** *
21648848 CTGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCAC-TGGCTTCAATCTGCTCCA
* ** * * * *
21648892 CTGTAACTTCAGGGAGATTGGATTA-TCGACTTCAATTTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCACT-GGCTTCAATCTGCTCCA
* ** * * * *
21648936 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTTAGTTTGCCCCA
1 CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
* * * *
21648980 CTGTGACTTCAGGGGGACAAGATC
1 CTGTAACCTCAGGGAGATAAGATC
21649004 TGTAATTTCC
Statistics
Matches: 246, Mismatches: 71, Indels: 26
0.72 0.21 0.08
Matches are distributed among these distances:
41 28 0.11
42 3 0.01
43 33 0.13
44 148 0.60
45 2 0.01
46 31 0.13
47 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCA
Found at i:21648767 original size:87 final size:87
Alignment explanation
Indices: 21648618--21648779 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 87
21648608 AGACTCGATG
* * * * *
21648618 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACAGTAACTT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACAGTAACCT
21648683 CAGGGAGATAGGATAGTGTCTT
66 CAGGGAGATAGGATAGTGTCTT
* * * * * *
21648705 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACC
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACAGTAACC
21648769 TCAGGGAGATA
65 TCAGGGAGATA
21648780 AGATCCGAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
86 2 0.03
87 61 0.97
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACAGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:21648892 original size:218 final size:219
Alignment explanation
Indices: 21648579--21649003 Score: 597
Period size: 218 Copynumber: 1.9 Consensus size: 219
21648569 ATTGTTTTCA
* * *
21648579 GTCTGTTCCACTGCATCTTCAGGGAAATAAGACTCGATGCGATCTACTCTGCTGTAACCTCAGAG
1 GTCTATTCCACTGAATCTTCAGGGAAATAAGACTCGATGCGATCTACTCTACTGTAACCTCAGAG
* *
21648644 AGATAAGATCCTTTATTTTAATCCGCTCCACAGTAACTTCAGGGAGATAGGA-TAGT-GTCTTCG
66 AGATAAGATCCTTTATTTTAATCCGCTCCACAGTAACTTCAGGGAGATAGGATTA-TCGACTTCA
*
21648707 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
130 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCCCCACTGTAACCTCA
*
21648772 GGGAGATAAGATCCGAAATTCTTTG
195 GGGAGACAAGATCCGAAATTCTTTG
* * * *
21648797 GTCTATTCCACTGTAATC-TCAGGGAGATAAGAC-CTGATGTGATCTCCTCTACTGTAACTTCAG
1 GTCTATTCCACTG-AATCTTCAGGGAAATAAGACTC-GATGCGATCTACTCTACTGTAACCTCAG
* * *
21648860 AGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAACTTCAGGGAGATTGGATTATCGACTTC
64 AGAGATAAGATCCTTTATTTTAATCCGCTCCACAGTAACTTCAGGGAGATAGGATTATCGACTTC
* * * * * * *
21648925 AATTTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTTAGTTTGCCCCACTGTGACTTC
129 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCCCCACTGTAACCTC
*
21648990 AGGGGGACAAGATC
194 AGGGAGACAAGATC
21649004 TGTAATTTCC
Statistics
Matches: 181, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
217 1 0.01
218 102 0.56
219 78 0.43
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (219 bp):
GTCTATTCCACTGAATCTTCAGGGAAATAAGACTCGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTATTTTAATCCGCTCCACAGTAACTTCAGGGAGATAGGATTATCGACTTCAA
TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCCCCACTGTAACCTCAG
GGAGACAAGATCCGAAATTCTTTG
Found at i:21649244 original size:86 final size:88
Alignment explanation
Indices: 21649142--21649658 Score: 629
Period size: 88 Copynumber: 5.9 Consensus size: 88
21649132 TGTAACCTTT
* ** * * *
21649142 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* *
21649204 CAGGAAGGCAAGATCTGCT-TCTTT
64 CAGGAAGGCAAGATCTGTTGTCTTC
* * * ** * *
21649228 AACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATG
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* * *
21649290 TAGGAAGGCAAGATCTGCT-TCTTT
64 CAGGAAGGCAAGATCTGTTGTCTTC
* * * *
21649314 AACCAGCTCCA-CTACAACCGAGAGAGGCAAGGTTTGTGTCTTCAACCTGCTTCACTGTCAATGC
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC
*
21649378 AGGAAGGCAAGATCTTTTGTCTTC
65 AGGAAGGCAAGATCTGTTGTCTTC
*
21649402 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
* *
21649467 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTGTTGTCTTC
*
21649490 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
21649555 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTGTTGTCTTC
* * * * *
21649578 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
21649643 GGAAGGCAAGATCTGT
66 GGAAGGCAAGATCTGT
21649659 AACTTCATTG
Statistics
Matches: 389, Mismatches: 36, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
85 6 0.02
86 104 0.27
87 35 0.09
88 243 0.62
89 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GGAAGGCAAGATCTGTTGTCTTC
Found at i:21649430 original size:44 final size:44
Alignment explanation
Indices: 21649382--21649608 Score: 169
Period size: 44 Copynumber: 5.2 Consensus size: 44
21649372 CAATGCAGGA
21649382 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
* * * * * * **
21649426 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCA-ATGC-AGAA-
1 AGGCAAGATCTTTTGTCTTCAACCAGC-T--CTATCACAACCGA-AAG
*
21649470 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
* * * * * ** ** * * *
21649514 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGG
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG
21649557 AAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 -AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
21649602 AGGCAAG
1 AGGCAAG
21649609 GTTTATGTCT
Statistics
Matches: 130, Mismatches: 41, Indels: 24
0.67 0.21 0.12
Matches are distributed among these distances:
42 4 0.03
43 33 0.25
44 55 0.42
45 33 0.25
46 5 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
Found at i:21649650 original size:44 final size:44
Alignment explanation
Indices: 21649338--21649652 Score: 166
Period size: 44 Copynumber: 7.2 Consensus size: 44
21649328 CAACCGAGAG
*
21649338 AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTATCAATGCAGGA
* * * * * *
21649382 AGGCAAGATCTTTTGTCTTCAACCAGC-T--CTATCACA-ACCGAAA
1 AGGCAAGGT-TTGTGTCTTCAACCTGCTTCACTATCA-ATGCAG-GA
* * * * *
21649425 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
1 -AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTATCAATGCAGGA
* * * * * * *
21649470 AGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCA-CAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCAACCTGCTTCACT-ATCAA-TGCAGGA
* * * * *
21649514 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTATCAATGCAGGA
* * * * * *
21649558 AGGCAAGATCTTTTGTCTTCAACCAGC-T--CTATCACA-ACCGAAA
1 AGGCAAGGT-TTGTGTCTTCAACCTGCTTCACTATCA-ATGCAG-GA
* *
21649601 GAGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTATCAATGCAGGA
21649646 AGGCAAG
1 AGGCAAG
21649653 ATCTGTAACT
Statistics
Matches: 194, Mismatches: 55, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
42 13 0.07
43 49 0.25
44 67 0.35
45 50 0.26
46 15 0.08
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCAACCTGCTTCACTATCAATGCAGGA
Found at i:21656266 original size:26 final size:28
Alignment explanation
Indices: 21656237--21656301 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
21656227 TAAATAAAAA
21656237 AATAGATATGAAATAA-TA-ATATATAT
1 AATAGATATGAAATAATTATATATATAT
* ***
21656263 AATATATATGTTTTAATTATATATATAT
1 AATAGATATGAAATAATTATATATATAT
21656291 AGATAGATATG
1 A-ATAGATATG
21656302 TATATAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 12 0.39
27 2 0.06
28 9 0.29
29 8 0.26
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (28 bp):
AATAGATATGAAATAATTATATATATAT
Found at i:21656375 original size:3 final size:3
Alignment explanation
Indices: 21656367--21656409 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
21656357 AAAAACAATT
* *
21656367 ATA ATA ATA ATA ATA ACA ATA ATA ATA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21656410 AATTGCTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:21665938 original size:14 final size:14
Alignment explanation
Indices: 21665919--21665955 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
21665909 CGTGAAGAAT
21665919 GAGGGCTACAAATC
1 GAGGGCTACAAATC
21665933 GAGGGCTACAAATC
1 GAGGGCTACAAATC
21665947 GAGGAGCTA
1 GAGG-GCTA
21665956 GATGAATGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.14
Consensus pattern (14 bp):
GAGGGCTACAAATC
Found at i:21687551 original size:26 final size:26
Alignment explanation
Indices: 21687522--21687629 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
21687512 TGATACAAAT
21687522 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21687548 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21687574 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21687600 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21687626 TGAT
1 TGAT
21687630 TGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21689144 original size:26 final size:26
Alignment explanation
Indices: 21689115--21689167 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
21689105 TTTACAGTTT
*
21689115 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
21689141 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
21689167 T
1 T
21689168 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:21692511 original size:49 final size:49
Alignment explanation
Indices: 21692452--21692581 Score: 190
Period size: 49 Copynumber: 2.7 Consensus size: 49
21692442 GTTGAGTGTC
* *
21692452 AGTGTAAGACCTGTTTAGGACATGGCATCGACAC-CGATAGATGAAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCT
* * *
21692501 AGTGTAAGACCTGTGTGGGACATGGCATCGACCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCT
*
21692550 AGTGTAAGACCTGTCTGGGACACGGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
21692582 TTTAATGTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
48 1 0.01
49 73 0.99
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCT
Found at i:21693901 original size:20 final size:21
Alignment explanation
Indices: 21693862--21693901 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21693852 GTCAACAGGG
*
21693862 CCACAAGGGTGTGTTGCCCTT
1 CCACAAGGGCGTGTTGCCCTT
*
21693883 CCACATGGGCGTG-TGCCCT
1 CCACAAGGGCGTGTTGCCCT
21693902 GTTCCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACAAGGGCGTGTTGCCCTT
Found at i:21702420 original size:22 final size:20
Alignment explanation
Indices: 21702391--21702431 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
21702381 AAGATAGATA
*
21702391 GAGTTTAAAAATATTAAATAC
1 GAGTTTAAAAA-AATAAATAC
21702412 GAGTCTTAAAAAAATAAATA
1 GAGT-TTAAAAAAATAAATA
21702432 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (20 bp):
GAGTTTAAAAAAATAAATAC
Found at i:21703953 original size:298 final size:298
Alignment explanation
Indices: 21703417--21704015 Score: 1063
Period size: 298 Copynumber: 2.0 Consensus size: 298
21703407 GGATCAATGT
*
21703417 TTAGAAATTTTATAGCCTAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTCCCA
1 TTAGAAATTTTATAGCCCAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTCCCA
* *
21703482 TAAACAATTTTGTAAGGTGATGTTCCTATGAGGGTCTTAAAAGCAGTTCTATAAGTCCATAAAGC
66 TAAACAAGTTTGTAAGGTGATCTTCCTATGAGGGTCTTAAAAGCAGTTCTATAAGTCCATAAAGC
* * * *
21703547 ATCATCTACTTTCATCGCCCAATCTTTCTGTTCGATTCTACTGTCTTTTTTAGGATACGTTTAAG
131 ATCATCTACTTTCATCCCCCAATCCTTCTGTTCGATTCTACTATCTTTTCTAGGATACGTTTAAG
*
21703612 CTCTTTGTCTGCCACTTCGACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTGTGGT
196 CTCTTTGTCTGCCACTTCAACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTGTGGT
* *
21703677 GAATTCCATATTTCTTAAGGATCTTGTCAAATTGGGCG
261 GAATTACATATTTCTTAAGGATCTTGTCAAATTGAGCG
*
21703715 TTAGAAATTTTATAGCCCAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTTCCA
1 TTAGAAATTTTATAGCCCAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTCCCA
* *
21703780 TAAACAAGTTTGTAAGGTGATCTTCCTATGGGGGTCTTAAAAGTAGTTCTATAAGTCCATAAAGC
66 TAAACAAGTTTGTAAGGTGATCTTCCTATGAGGGTCTTAAAAGCAGTTCTATAAGTCCATAAAGC
*
21703845 ATCATCTACTTTCATCCCCCAATCCTTCTGTTCGATTTTACTATCTTTTCTAGGATACGTTTAAG
131 ATCATCTACTTTCATCCCCCAATCCTTCTGTTCGATTCTACTATCTTTTCTAGGATACGTTTAAG
*
21703910 CTCTTTGTTTGCCACTTCAACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTGTGGT
196 CTCTTTGTCTGCCACTTCAACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTGTGGT
21703975 GAATTACATATTTCTTAAGGATCTTGTCAAATTGAGCG
261 GAATTACATATTTCTTAAGGATCTTGTCAAATTGAGCG
21704013 TTA
1 TTA
21704016 CAAAAATGAG
Statistics
Matches: 286, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
298 286 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (298 bp):
TTAGAAATTTTATAGCCCAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTCCCA
TAAACAAGTTTGTAAGGTGATCTTCCTATGAGGGTCTTAAAAGCAGTTCTATAAGTCCATAAAGC
ATCATCTACTTTCATCCCCCAATCCTTCTGTTCGATTCTACTATCTTTTCTAGGATACGTTTAAG
CTCTTTGTCTGCCACTTCAACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTGTGGT
GAATTACATATTTCTTAAGGATCTTGTCAAATTGAGCG
Found at i:21715289 original size:19 final size:20
Alignment explanation
Indices: 21715260--21715307 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
21715250 TGAAAGATTA
*
21715260 AAAATAAATTTAATTCAAAT
1 AAAATAAATTTAAGTCAAAT
21715280 AAAA-AAATTTAAGTCAAAT
1 AAAATAAATTTAAGTCAAAT
*
21715299 TAAATAAAT
1 AAAATAAAT
21715308 GTGTAAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATAAATTTAAGTCAAAT
Found at i:21720220 original size:21 final size:21
Alignment explanation
Indices: 21720196--21720244 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
21720186 GTCCCTTCTC
21720196 AATTATTTTGGCTATTT-TATT
1 AATTATTTTGGCT-TTTATATT
* *
21720217 AATTAATTTGGGTTTTATATT
1 AATTATTTTGGCTTTTATATT
*
21720238 TATTATT
1 AATTATT
21720245 ATTACATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (21 bp):
AATTATTTTGGCTTTTATATT
Found at i:21720245 original size:3 final size:3
Alignment explanation
Indices: 21720237--21720472 Score: 128
Period size: 3 Copynumber: 78.0 Consensus size: 3
21720227 GGTTTTATAT
* * * * *
21720237 TTA TTA TTA TTA -CA TTTA TTA TGA TTA TTTA GTA TTA TTA CTA TTG
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** * * *
21720283 TTA TTA CTA TTA CCA TTA TTA TTTA TTGA -CA TTG TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA TTA
* *
21720329 TTA TTA TTT TTA TCT- TT- TTA TT- TTA CTA TTA TTTA TGT- TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA
* * * * * **
21720373 TTG TTA TTA TTA TTA TTA CTA TCA TTA TTA TTT TTA CTA TTA CAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
21720421 TTT TCTA TAA TTA TTA TT- TTCA TCT- TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA
21720467 TTA TTA
1 TTA TTA
21720473 CTACTATCCT
Statistics
Matches: 172, Mismatches: 44, Indels: 34
0.69 0.18 0.14
Matches are distributed among these distances:
2 11 0.06
3 144 0.84
4 16 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:21732492 original size:130 final size:130
Alignment explanation
Indices: 21732258--21732863 Score: 723
Period size: 130 Copynumber: 4.6 Consensus size: 130
21732248 AAGTTTCGAT
* * * *
21732258 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGCTGAAAATTGCAGATCTTATCTCTCTAAGTAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
21732323 AGTGGAGCAGATCAAAGA-TGATTAATCATATCTCTATGTAGTG-CAATGGAGCAGATTTAAGCC
66 AGTGGAGCAGATCGAAGACAGA--AATCTTATCTCCATGTAGTGACAATGGAGCAGATTTAAGCC
21732386 AC
129 AC
* * *
21732388 TAGCCTTATCTCACTAAGCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * ** * *
21732453 AGTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGTGGTAATAGAGCGGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACAG-AAATCTTATCTCCATGTAGTGACAATGGAGCAGATTTAAGCCA
21732518 C
130 C
* * *
21732519 TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGTTGAAGATTGCAGA-CTTATCTCCCTAAGCAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* ** * * * *
21732583 AGTGGAGCAGATCGAAGACGGGGAGCTTATCTCCATGTAGCGAAAATGGAGCAGATTCAAGCCAC
66 AGTGGAGCAGATCGAAGACAGAAATCTTATCTCCATGTAGTGACAATGGAGCAGATTTAAGCCAC
* * * * *
21732648 TAGCCTTATCCCCTTAACCAGTAGGGAACGGGTTGAAAATTATAGATCTTATCTCCCTAAGCTGT
1 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * ***
21732713 AGTGTAGCAGATCGAGGACAGTGAATCTTATCTCCATGTAGTGTCAATGGAATGGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACAG-AAATCTTATCTCCATGTAGTGACAATGGAGCAGATTTAAGCCA
21732778 C
130 C
* * * * *
21732779 TAGCCTTATCCCCCTAGGTAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTTCCTAAGTAG
1 TAGCCTTATCCCCCTAAGCAGTAGGG-AACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAG
* *
21732844 TAGTAGAGTAGATCGAAGAC
65 TAGTGGAGCAGATCGAAGAC
21732864 GGTGAGTCTT
Statistics
Matches: 401, Mismatches: 69, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
129 73 0.18
130 162 0.40
131 117 0.29
132 49 0.12
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (130 bp):
TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACAGAAATCTTATCTCCATGTAGTGACAATGGAGCAGATTTAAGCCAC
Found at i:21732726 original size:260 final size:260
Alignment explanation
Indices: 21732258--21732879 Score: 845
Period size: 260 Copynumber: 2.4 Consensus size: 260
21732248 AAGTTTCGAT
* *
21732258 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGCTGAAAATTGCAGATCTTATCTCTCTAAGTAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGCTGAAAATTGCAGATCTTATCTCCCTAAGTAGT
* * * * * * * * * *
21732323 AGTGGAGCAGATCAAAGATGATTAATCATATCTCTATGTAGTGCAATGGAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACG-GTGAGCTTATCTCCATGTAGCGAAATGGAGCAGATTCAAGCCAC
*
21732388 TAGCCTTATCTCACTAAGCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGT
130 TAGCCTTATCTCACTAACCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGT
*
21732453 AGTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGTGGT-AATAGAGCGGATTTAAGCC
195 AGTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGT-GTCAATAGAACGGATTTAAGCC
21732517 AC
259 AC
* * *
21732519 TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGTTGAAGATTGCAGA-CTTATCTCCCTAAGCAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGCTGAAAATTGCAGATCTTATCTCCCTAAGTAGT
*
21732583 AGTGGAGCAGATCGAAGACGGGGAGCTTATCTCCATGTAGCGAAAATGGAGCAGATTCAAGCCAC
66 AGTGGAGCAGATCGAAGACGGTGAGCTTATCTCCATGTAGCG-AAATGGAGCAGATTCAAGCCAC
* * *
21732648 TAGCCTTATC-CCCTTAACCAGTAGGGAACGGGTTGAAAATTATAGATCTTATCTCCCTAAGCTG
130 TAGCCTTATCTCAC-TAACCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAG
* * * ** * * * *
21732712 TAGTGTAGCAGATCGAGGACAGTGAATCTTATCTCCATGTAGTGTCAATGGAATGGATTTAAGCC
194 TAGTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGTGTCAATAGAACGGATTTAAGCC
21732777 AC
259 AC
* * * *
21732779 TAGCCTTATCCCCCTAGGTAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTTCCTAAGTAG
1 TAGCCTTATCCCCCTAAGCAGTA-GGAAACAGGCTGAAAATTGCAGATCTTATCTCCCTAAGTAG
* *
21732844 TAGTAGAGTAGATCGAAGACGGTGAGTCTTATCTCC
65 TAGTGGAGCAGATCGAAGACGGTGAG-CTTATCTCC
21732880 TTAAGCAGTA
Statistics
Matches: 315, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
259 19 0.06
260 186 0.59
261 63 0.20
262 38 0.12
263 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (260 bp):
TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGCTGAAAATTGCAGATCTTATCTCCCTAAGTAGT
AGTGGAGCAGATCGAAGACGGTGAGCTTATCTCCATGTAGCGAAATGGAGCAGATTCAAGCCACT
AGCCTTATCTCACTAACCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTA
GTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGTGTCAATAGAACGGATTTAAGCCAC
Found at i:21732918 original size:44 final size:44
Alignment explanation
Indices: 21732783--21733030 Score: 141
Period size: 44 Copynumber: 5.6 Consensus size: 44
21732773 AGCCACTAGC
* * * * * *
21732783 CTTATCCCCCTAGGTAGTAGGGAAACAGGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGAAGCAGGTTGAAAGTTACAGAT
* * * * * * * *
21732827 CTTATCTTCCTAAGTAGTA-GTAGAGTAGATCGAAGACGGT-GAG-T
1 CTTATCTCCCTAAGCAGTAGGGA-AGCAGGTTGAA-A-GTTACAGAT
* *
21732871 CTTATCTCCTTAAGCAGTAGGGAAACAGGTTGAAAGTTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGAAGCAGGTTGAAAGTTACAGAT
* ** * * *
21732915 CTTATCTCCTTAAGCAGTAGTGG-AGCAAATCGAAGACGGT-GAG-T
1 CTTATCTCCCTAAGCAGTAG-GGAAGCAGGTTGAA-A-GTTACAGAT
* * * *
21732959 CTTATCTCCCTAAGCAGTAGAGAAGCAGGCTGAAAATTACATAT
1 CTTATCTCCCTAAGCAGTAGGGAAGCAGGTTGAAAGTTACAGAT
*
21733003 CTTATCTCCCTAAACAGTAGTGG-AGCAG
1 CTTATCTCCCTAAGCAGTAG-GGAAGCAG
21733031 ATCGCAGACG
Statistics
Matches: 151, Mismatches: 40, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
42 3 0.02
43 8 0.05
44 126 0.83
45 11 0.07
46 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGGGAAGCAGGTTGAAAGTTACAGAT
Found at i:21733139 original size:44 final size:43
Alignment explanation
Indices: 21732826--21733162 Score: 195
Period size: 44 Copynumber: 7.7 Consensus size: 43
21732816 AAATTACAGA
* * * * * *
21732826 TCTTATCTTCCTAAGTAGTAGTAGAGTAGATCGAAGACGGTGAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AGACAGTAAG
* * * *
21732870 TCTTATCTCCTTAAGCAGTAG-GGAAACAGGTTGA-A-AGTTACAG
1 TCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAGACAG-TA-AG
* * * *
21732913 ATCTTATCTCCTTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AGACAGTAAG
* * * * * *
21732958 TCTTATCTCCCTAAGCAGTAGAGAAGCAG-GCTGA-AAATTACATA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAGACAGTA-A-G
* *
21733002 TCTTATCTCCCTAAACAGTAGTGGAGCAGATCGCAGACGGTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AGACAGTAAG
* * * * * *
21733046 CCCTATCTCCCTAAGCAGTAGTAGAGTA-AGCTGA-AAATTGT-AG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAGACA--GTAAG
21733089 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAGGACAGTAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-GACAGTAAG
* * * *
21733134 CCTTATCTTCCTGAGCAGCAGTGGAGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAG
21733163 GCTGAAGATT
Statistics
Matches: 219, Mismatches: 52, Indels: 44
0.70 0.17 0.14
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 12 0.05
44 181 0.83
45 12 0.05
46 7 0.03
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAGACAGTAAG
Found at i:21733205 original size:88 final size:88
Alignment explanation
Indices: 21732780--21733198 Score: 464
Period size: 88 Copynumber: 4.8 Consensus size: 88
21732770 TTAAGCCACT
* * * * * *
21732780 AGCCTTATCCCCCTAGGTAGTAG-GGAAACAGGCTGAAAATTACAGATCTTATCTTCCTAAGTAG
1 AGCCTTATCTCCCTAAGCAGTAGTGG-AGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* * *
21732844 TAGTAGAGTAGATCGAAGACGGTG
65 TAGTGGAGCAGATCGAAGACGGTA
* * * * * *
21732868 AGTCTTATCTCCTTAAGCAGTAG-GGAAACAGGTTGAAAGTTACAGATCTTATCTCCTTAAGCAG
1 AGCCTTATCTCCCTAAGCAGTAGTGG-AGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* *
21732932 TAGTGGAGCAAATCGAAGACGGTG
65 TAGTGGAGCAGATCGAAGACGGTA
* * * * *
21732956 AGTCTTATCTCCCTAAGCAGTAGAGAAGCAGGCTGAAAATTACATATCTTATCTCCCTAAACAGT
1 AGCCTTATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
21733021 AGTGGAGCAGATCGCAGACGGTA
66 AGTGGAGCAGATCGAAGACGGTA
* * * * **
21733044 AGCCCTATCTCCCTAAGCAGTAGTAGAGTAAGCTGAAAATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
21733109 AGTGGAGCAGATCGAGGACAGTA
66 AGTGGAGCAGATCGAAGACGGTA
* * * * * * *
21733132 AGCCTTATCTTCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAAATCATATCCCCCTAAGCAGT
1 AGCCTTATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
21733197 AG
66 AG
21733199 CAGAGCAAAT
Statistics
Matches: 279, Mismatches: 51, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
88 278 1.00
89 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (88 bp):
AGCCTTATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTA
Found at i:21734499 original size:3 final size:3
Alignment explanation
Indices: 21734491--21734777 Score: 124
Period size: 3 Copynumber: 95.7 Consensus size: 3
21734481 GGTTTTATAT
* * * * *
21734491 TTA TTA TTA TTA -CA TTTA TTA TGA TTA TTTA GTA TTA TTA CTA TTG
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** * * *
21734537 TTA TTA CTA TTA CCA TTA TTA TTTA TTGA -CA TTG TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA TTA
* * *
21734583 TTA TTA TTT TTA TCT- TT- TTA TT- TTA CTA TTA TTTA TGT- TCA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA
* * * * * * **
21734627 TTG TTA CTA TTA TTA TTA CTA TCA TTA TTA TTT TTA CTA TTA CAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
21734675 TTT TCTA TAA TTA TTA TTT TTA TCT- TTA TCA TCA TCA TCA TCA TCA
1 TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* *
21734721 TTA TTA TTA TTA TTA TTA TTA TTA TT- TCA TTA -TA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
21734767 TTA CTA TTA TT
1 TTA TTA TTA TT
21734778 TTTGCGATCT
Statistics
Matches: 210, Mismatches: 57, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
2 11 0.05
3 183 0.87
4 16 0.08
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:21736614 original size:15 final size:17
Alignment explanation
Indices: 21736586--21736620 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
21736576 AAAATAGTAG
21736586 ATAAAATAATATTTTAA
1 ATAAAATAATATTTTAA
21736603 ATAAAAT-A-ATTTTAA
1 ATAAAATAATATTTTAA
21736618 ATA
1 ATA
21736621 TAGTTTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 1 0.06
17 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAATAATATTTTAA
Found at i:21737621 original size:10 final size:10
Alignment explanation
Indices: 21737606--21737636 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
21737596 AATAATATAA
21737606 ATAAATTTTT
1 ATAAATTTTT
21737616 ATAAATTTTT
1 ATAAATTTTT
21737626 ATAAATTTTT
1 ATAAATTTTT
21737636 A
1 A
21737637 AGTTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATAAATTTTT
Found at i:21738616 original size:13 final size:13
Alignment explanation
Indices: 21738600--21738660 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
21738590 TAATAGTATG
21738600 TATTAATAAAATA
1 TATTAATAAAATA
*
21738613 TATT-ATAAATTCA
1 TATTAATAAAAT-A
21738626 TA-TAATAAAATA
1 TATTAATAAAATA
*
21738638 TATT-ATAAATTA
1 TATTAATAAAATA
21738650 -ATATAATAAAA
1 TAT-TAATAAAA
21738661 ATTATGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
11 2 0.05
12 18 0.46
13 19 0.49
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATAAAATA
Found at i:21738636 original size:25 final size:25
Alignment explanation
Indices: 21738603--21738660 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
21738593 TAGTATGTAT
*
21738603 TAATAAAATATATTATAAATTCATA
1 TAATAAAATATATTATAAATTAATA
21738628 TAATAAAATATATTATAAATTAATA
1 TAATAAAATATATTATAAATTAATA
21738653 TAATAAAA
1 TAATAAAA
21738661 ATTATGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TAATAAAATATATTATAAATTAATA
Found at i:21738652 original size:15 final size:15
Alignment explanation
Indices: 21738609--21738664 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 15
21738599 GTATTAATAA
21738609 AATATATTATAAATT
1 AATATATTATAAATT
*
21738624 CATATA--AT-AA--
1 AATATATTATAAATT
21738634 AATATATTATAAATT
1 AATATATTATAAATT
* *
21738649 AATATAATAAAAATT
1 AATATATTATAAATT
21738664 A
1 A
21738665 TGTTTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
10 5 0.16
12 4 0.12
13 4 0.12
15 19 0.59
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATATTATAAATT
Found at i:21743975 original size:18 final size:20
Alignment explanation
Indices: 21743919--21743976 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 20
21743909 ATAATTTTTT
*
21743919 TAAAAAAATTCTAAAAAATATG
1 TAAAGAAATTCT--AAAATATG
*
21743941 TAAAGAAATTTTAAAATAT-
1 TAAAGAAATTCTAAAATATG
*
21743960 TAAA-ATATTCTAAAATA
1 TAAAGAAATTCTAAAATA
21743977 ATAATTTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 11 0.34
19 4 0.12
20 7 0.22
22 10 0.31
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAGAAATTCTAAAATATG
Found at i:21745782 original size:12 final size:13
Alignment explanation
Indices: 21745756--21745784 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21745746 ACCATAACAA
21745756 ATATATTTGTTAT
1 ATATATTTGTTAT
21745769 ATATATTT-TTAT
1 ATATATTTGTTAT
21745781 ATAT
1 ATAT
21745785 TTGTGTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
ATATATTTGTTAT
Found at i:21747991 original size:25 final size:24
Alignment explanation
Indices: 21747937--21747991 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
21747927 TTGAAAATTA
*
21747937 AAAGAAGAAAAACAAAAATGTAAC
1 AAAGAAAAAAAACAAAAATGTAAC
** * *
21747961 TTAGAAAAAAAATAAAGAATGTAAG
1 AAAGAAAAAAAACAAA-AATGTAAC
21747986 AAAGAA
1 AAAGAA
21747992 TTGTTTCAGA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.69, C:0.04, G:0.15, T:0.13
Consensus pattern (24 bp):
AAAGAAAAAAAACAAAAATGTAAC
Found at i:21756337 original size:11 final size:11
Alignment explanation
Indices: 21756323--21756362 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
21756313 GTTTTCTCCC
21756323 TATTTTGCTAT
1 TATTTTGCTAT
*
21756334 TATTTTACTAT
1 TATTTTGCTAT
* *
21756345 TATGTTGCTAC
1 TATTTTGCTAT
21756356 TATTTTG
1 TATTTTG
21756363 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:21756460 original size:30 final size:29
Alignment explanation
Indices: 21756399--21756460 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
21756389 ACTTATTTTA
* **
21756399 TTGTTATTTTTTTATTATTTTAAAGGTAT
1 TTGTTATTTTGTTATTATTTTAAAGACAT
21756428 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
1 TTGTT-ATTTTGTTATTATTTTA-AAGACAT
21756458 TTG
1 TTG
21756461 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 21 0.75
31 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (29 bp):
TTGTTATTTTGTTATTATTTTAAAGACAT
Found at i:21757062 original size:19 final size:19
Alignment explanation
Indices: 21757018--21757055 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21757008 AACAAAATTA
*
21757018 AGAAAAACAAAAAAAAAAT
1 AGAAATACAAAAAAAAAAT
21757037 AGAAATACAAAAAAAAAAT
1 AGAAATACAAAAAAAAAAT
21757056 TGTAATATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (19 bp):
AGAAATACAAAAAAAAAAT
Found at i:21769242 original size:30 final size:31
Alignment explanation
Indices: 21769203--21769262 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
21769193 GGAGGTGGGA
*
21769203 TGGGAAGGGAGTAAAAGTTTTAGG-GGGAAAG
1 TGGGAAGGGAGTAAAAATTTT-GGAGGGAAAG
21769234 TGGG-AGGGAGTAAAAATTTTGGAGGGAAA
1 TGGGAAGGGAGTAAAAATTTTGGAGGGAAA
21769263 ATAAAAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 2 0.07
30 21 0.78
31 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAGTAAAAATTTTGGAGGGAAAG
Found at i:21769418 original size:30 final size:31
Alignment explanation
Indices: 21769367--21769428 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
21769357 GGGGTTGGGA
* * *
21769367 TGGGAAGGGAGTAAAAGTTTTGGGGGAAAAG
1 TGGGAAGGGAGTAAAAATTTTGAGAGAAAAG
*
21769398 TGGGAA-GGTGTAAAAATTTTGAGAGAAAAG
1 TGGGAAGGGAGTAAAAATTTTGAGAGAAAAG
21769428 T
1 T
21769429 CAAAAGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.23
Consensus pattern (31 bp):
TGGGAAGGGAGTAAAAATTTTGAGAGAAAAG
Found at i:21769949 original size:17 final size:17
Alignment explanation
Indices: 21769923--21769961 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
21769913 CTAGACTTTG
21769923 TTTTTAATAATTCTAATA
1 TTTTTAATAATTCTAA-A
*
21769941 TTTTT-ATAATTTTAAA
1 TTTTTAATAATTCTAAA
21769957 TTTTT
1 TTTTT
21769962 TTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 9 0.45
18 5 0.25
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTAATAATTCTAAA
Found at i:21769962 original size:17 final size:17
Alignment explanation
Indices: 21769923--21769982 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 17
21769913 CTAGACTTTG
* *
21769923 TTTTTAATAATTCT-AA
1 TTTTTTATAATTTTAAA
21769939 TATTTTTATAATTTTAAA
1 T-TTTTTATAATTTTAAA
*
21769957 TTTTTTTTATATTTTTATAA
1 --TTTTTTATAATTTTA-AA
21769977 TTTTTT
1 TTTTTT
21769983 TAAAAAACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 8 0.22
19 13 0.36
20 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTATAATTTTAAA
Found at i:21769963 original size:19 final size:20
Alignment explanation
Indices: 21769941--21769983 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
21769931 AATTCTAATA
21769941 TTTTTATAATTTTA-AATTT
1 TTTTTATAATTTTATAATTT
*
21769960 TTTTTATATTTTTATAATTT
1 TTTTTATAATTTTATAATTT
21769980 TTTT
1 TTTT
21769984 AAAAAACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATAATTTTATAATTT
Found at i:21769984 original size:19 final size:19
Alignment explanation
Indices: 21769936--21769984 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
21769926 TTAATAATTC
*
21769936 TAATATTTTTATAATTTTA
1 TAATTTTTTTATAATTTTA
*
21769955 -AATTTTTTTTATATTTTTA
1 TAA-TTTTTTTATAATTTTA
21769974 TAATTTTTTTA
1 TAATTTTTTTA
21769985 AAAAACCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 2 0.08
19 22 0.85
20 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TAATTTTTTTATAATTTTA
Found at i:21773656 original size:30 final size:30
Alignment explanation
Indices: 21773622--21773684 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21773612 ATTTATTTTA
*
21773622 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
*
21773652 TTGTTAATTTTTTTATTATTTTAAAAGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
21773682 TTG
1 TTG
21773685 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAAGCAT
Found at i:21775606 original size:7 final size:7
Alignment explanation
Indices: 21775594--21775674 Score: 57
Period size: 6 Copynumber: 11.6 Consensus size: 7
21775584 ATAATAAAAT
21775594 ATATAAA
1 ATATAAA
21775601 ATATAAA
1 ATATAAA
21775608 ATATTAAA
1 ATA-TAAA
21775616 ATATTAAA
1 ATA-TAAA
21775624 ATAATAATA
1 AT-ATAA-A
*
21775633 AT-TAAT
1 ATATAAA
21775639 AT-TGACAA
1 ATAT-A-AA
21775647 ATA-AAA
1 ATATAAA
21775653 A-ATAAA
1 ATATAAA
21775659 ATA-AAA
1 ATATAAA
21775665 ATA-AAA
1 ATATAAA
21775671 ATAT
1 ATAT
21775675 GTACATAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
5 1 0.02
6 22 0.35
7 16 0.25
8 20 0.32
9 4 0.06
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:21775610 original size:24 final size:22
Alignment explanation
Indices: 21775583--21775673 Score: 84
Period size: 22 Copynumber: 4.2 Consensus size: 22
21775573 TAATGATGTG
21775583 AATAATAAAATATATAAAATATAA
1 AATAATAAAATAT-TAAAATA-AA
* *
21775607 AATATTAAAATATTAAAATAAT
1 AATAATAAAATATTAAAATAAA
*
21775629 AATAAT-TAATATTGACAAAT-AA
1 AATAATAAAATATT-A-AAATAAA
21775651 AA-AATAAAATA--AAAATAAA
1 AATAATAAAATATTAAAATAAA
21775670 AATA
1 AATA
21775674 TGTACATAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
18 4 0.07
19 5 0.09
20 1 0.02
21 9 0.16
22 14 0.25
23 11 0.20
24 12 0.21
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (22 bp):
AATAATAAAATATTAAAATAAA
Found at i:21775617 original size:8 final size:8
Alignment explanation
Indices: 21775583--21775626 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
21775573 TAATGATGTG
*
21775583 AATAATAA
1 AATATTAA
21775591 AATATATAA
1 AATAT-TAA
21775600 AATA-TAA
1 AATATTAA
21775607 AATATTAA
1 AATATTAA
21775615 AATATTAA
1 AATATTAA
21775623 AATA
1 AATA
21775627 ATAATAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
7 7 0.21
8 19 0.58
9 7 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:21775845 original size:22 final size:24
Alignment explanation
Indices: 21775782--21775846 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
21775772 CGTGATAATA
*
21775782 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
21775807 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
21775830 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
21775847 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:21775897 original size:25 final size:24
Alignment explanation
Indices: 21775869--21775998 Score: 94
Period size: 23 Copynumber: 5.6 Consensus size: 24
21775859 AAAGAAATAT
*
21775869 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATT-AAG
* * *
21775894 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAATATTAAG
*
21775917 ATATATACGTAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATA-TTAAG
* * *
21775941 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAATATTAAG
*
21775963 A-ATATATATAATATAATATTAAG
1 ATATATACATAATATAATATTAAG
*
21775986 AAATATA-ATAATA
1 ATATATACATAATA
21775999 ACAAAAAGGA
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 41 0.49
24 7 0.08
25 19 0.23
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (24 bp):
ATATATACATAATATAATATTAAG
Found at i:21775915 original size:30 final size:31
Alignment explanation
Indices: 21775859--21775918 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21775849 TAACATGTAG
*
21775859 AAAGAAATATATATATAAATAATATAATATT
1 AAAGAAATATACATATAAATAATATAATATT
* *
21775890 AAAGATATATACATA-AAATAGTATAATAT
1 AAAGAAATATACATATAAATAATATAATAT
21775919 ATATACGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (31 bp):
AAAGAAATATACATATAAATAATATAATATT
Found at i:21776531 original size:30 final size:30
Alignment explanation
Indices: 21776505--21776635 Score: 226
Period size: 30 Copynumber: 4.4 Consensus size: 30
21776495 AATGGAGCAA
* *
21776505 GTGTGGCTAGTGGATTTGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
21776535 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
21776565 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
21776595 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAT
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
21776625 GTGTGGCTAGT
1 GTGTGGCTAGT
21776636 TGAGAAAAGT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 96 1.00
ACGTcount: A:0.19, C:0.04, G:0.49, T:0.28
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:21788653 original size:27 final size:27
Alignment explanation
Indices: 21788623--21788677 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
21788613 CAAGAAAACC
* *
21788623 TAAGTATCTTTGCCATTATCTCCTATT
1 TAAGTATCTTTGCAACTATCTCCTATT
21788650 TAAGTATCTTTGCAACTATCTCCTATT
1 TAAGTATCTTTGCAACTATCTCCTATT
21788677 T
1 T
21788678 CCGTCATCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.47
Consensus pattern (27 bp):
TAAGTATCTTTGCAACTATCTCCTATT
Found at i:21790419 original size:2 final size:2
Alignment explanation
Indices: 21790380--21790404 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21790370 TTTGCTCATG
21790380 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 A
21790405 AATGGCTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21794444 original size:41 final size:41
Alignment explanation
Indices: 21794387--21794469 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
21794377 CAAAAGAGTG
* * *
21794387 TGGTAACTTTATATCCAAAGTGTGTAATAAGTTTGGTGATA
1 TGGTAACTTCATATCCAAAGCGTATAATAAGTTTGGTGATA
*
21794428 TGGTAACTTCATATCCAAAGCGTATAATGAGTTTGGTGATA
1 TGGTAACTTCATATCCAAAGCGTATAATAAGTTTGGTGATA
21794469 T
1 T
21794470 CGATCGAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (41 bp):
TGGTAACTTCATATCCAAAGCGTATAATAAGTTTGGTGATA
Found at i:21797075 original size:3 final size:3
Alignment explanation
Indices: 21797069--21797157 Score: 72
Period size: 3 Copynumber: 28.7 Consensus size: 3
21797059 TATCAACATA
* * *
21797069 TAT TAT TAT TAT TCCT T-T TAT TATT TAT CAT CAAT GTAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT -TAT -TAT TAT TAT TAT
* * * *
21797117 CAC TAT TAT TAC TAT TAT TAT TGT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21797158 CCACCTTATC
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.03
3 58 0.84
4 9 0.13
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:21797126 original size:36 final size:37
Alignment explanation
Indices: 21797047--21797127 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 37
21797037 TCCTATTTTA
21797047 TATTATTATTGTTATCAACATATATTATTATTATTCC
1 TATTATTATTGTTATCAACATATATTATTATTATTCC
* * *
21797084 TTTTATTA-T-TTATCATCAATGTATTATTATTA-TCAC
1 TATTATTATTGTTATCAAC-ATATATTATTATTATTC-C
21797120 TATTATTA
1 TATTATTA
21797128 CTATTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
35 9 0.24
36 22 0.58
37 7 0.18
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (37 bp):
TATTATTATTGTTATCAACATATATTATTATTATTCC
Found at i:21797281 original size:17 final size:17
Alignment explanation
Indices: 21797248--21797281 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21797238 TTTTATTATC
*
21797248 ATTATTACTATCGTATT
1 ATTATTACTATCATATT
*
21797265 ATTATTACTATTATATT
1 ATTATTACTATCATATT
21797282 TTCATTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTATTACTATCATATT
Found at i:21799838 original size:28 final size:27
Alignment explanation
Indices: 21799767--21799840 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
21799757 CTTTATACAT
* *
21799767 ATATACATTATTT-GTTTTAAATTTTT
1 ATATACATTATTTATTTTTAAATTTTC
* *
21799793 ATATA-TTTACTGTCATTTTTAAATCTTTC
1 ATATACATTA-T-TTATTTTTAAAT-TTTC
21799822 ATATACATTATTTATTTTT
1 ATATACATTATTTATTTTT
21799841 TTAGTCTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
25 3 0.08
26 6 0.16
27 1 0.03
28 15 0.41
29 9 0.24
30 3 0.08
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (27 bp):
ATATACATTATTTATTTTTAAATTTTC
Found at i:21800122 original size:26 final size:24
Alignment explanation
Indices: 21800054--21800154 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
21800044 CTACATGTTG
21800054 TTTTAAA-TTGTTATATA-TATTA
1 TTTTAAATTTGTTATATATTATTA
** *
21800076 -TTTATTTTTGCT-T-TATT-TTA
1 TTTTAAATTTGTTATATATTATTA
21800096 TTTTAAATTATGTTATATATTAATTA
1 TTTTAAATT-TGTTATATATT-ATTA
*
21800122 TTTTAAA-TTGTTTTATATTATCTA
1 TTTTAAATTTGTTATATATTAT-TA
*
21800146 CTTTAAATT
1 TTTTAAATT
21800155 GCTTCGTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
20 5 0.08
21 12 0.20
22 7 0.11
23 3 0.05
24 22 0.36
25 2 0.03
26 10 0.16
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTAAATTTGTTATATATTATTA
Found at i:21807434 original size:20 final size:21
Alignment explanation
Indices: 21807409--21807463 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
21807399 AATTTTTTAA
21807409 AATTTTTTATGAATTTTT-TT
1 AATTTTTTATGAATTTTTATT
*
21807429 ATTTTTTTAT-ATATTTTTATT
1 AATTTTTTATGA-ATTTTTATT
21807450 AATTTTTT-TGAATT
1 AATTTTTTATGAATT
21807464 ATATGTGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 19 0.63
21 10 0.33
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
AATTTTTTATGAATTTTTATT
Found at i:21807437 original size:30 final size:30
Alignment explanation
Indices: 21807400--21807458 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
21807390 CATGGATAAA
*
21807400 ATTTTTTAAAAT-TTTTTATGAATTTTTTT
1 ATTTTTTTAAATATTTTTATGAATTTTTTT
* *
21807429 ATTTTTTTATATATTTTTATTAATTTTTTT
1 ATTTTTTTAAATATTTTTATGAATTTTTTT
21807459 GAATTATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (30 bp):
ATTTTTTTAAATATTTTTATGAATTTTTTT
Found at i:21807551 original size:17 final size:18
Alignment explanation
Indices: 21807529--21807562 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21807519 ACTAAATACT
*
21807529 AATTAA-ATTTTACATAA
1 AATTAATATTTAACATAA
21807546 AATTAATATTTAACATA
1 AATTAATATTTAACATA
21807563 TAAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAATATTTAACATAA
Found at i:21818101 original size:28 final size:27
Alignment explanation
Indices: 21818062--21818117 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
21818052 ATAAAATTTT
*
21818062 AAAAATATTAAAATTTCTA-TTTTTTAAA
1 AAAAATAGT-AAATTT-TAGTTTTTTAAA
21818090 AAAAATAGTAAATTTTAGTTTTTTAAA
1 AAAAATAGTAAATTTTAGTTTTTTAAA
21818117 A
1 A
21818118 TATTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 2 0.08
27 16 0.62
28 8 0.31
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (27 bp):
AAAAATAGTAAATTTTAGTTTTTTAAA
Found at i:21818167 original size:24 final size:22
Alignment explanation
Indices: 21818121--21818168 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
21818111 TTTAAAATAT
*
21818121 TTTTATAATTTTCTTTTTGTAA
1 TTTTATAATTTTCTTTTTCTAA
21818143 TTTTATAGATTTTCTATTTTCTAA
1 TTTTATA-ATTTTCT-TTTTCTAA
21818167 TT
1 TT
21818169 ATTTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTATAATTTTCTTTTTCTAA
Found at i:21818170 original size:22 final size:21
Alignment explanation
Indices: 21818122--21818168 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
21818112 TTAAAATATT
*
21818122 TTTATAATTTTCTTTTTGTAA
1 TTTATAATTTTCTTTTTCTAA
21818143 TTTTATAGATTTTCTATTTTCTAA
1 -TTTATA-ATTTTCT-TTTTCTAA
21818167 TT
1 TT
21818169 ATTTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTATAATTTTCTTTTTCTAA
Found at i:21818223 original size:20 final size:19
Alignment explanation
Indices: 21818158--21818234 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 19
21818148 TAGATTTTCT
*
21818158 ATTTTCTAATTATTTTAATA
1 ATTTT-TAATTTTTTTAATA
**
21818178 ATTTTTAAAATTTTTAA-A
1 ATTTTTAATTTTTTTAATA
21818196 CATCTTTTGTAATTTTTTTAATA
1 -A--TTTT-TAATTTTTTTAATA
21818219 A-TTTTATATTTTTTTA
1 ATTTTTA-ATTTTTTTA
21818235 TTTTTTATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
18 3 0.07
19 22 0.48
20 5 0.11
21 4 0.09
22 11 0.24
23 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTTAATTTTTTTAATA
Found at i:21818238 original size:7 final size:8
Alignment explanation
Indices: 21818210--21818257 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
21818200 TTTTGTAATT
21818210 TTTTTAATA
1 TTTTT-ATA
*
21818219 ATTTTATA
1 TTTTTATA
*
21818227 TTTTTTTA
1 TTTTTATA
21818235 TTTTTTATA
1 -TTTTTATA
21818244 TTTTTATA
1 TTTTTATA
21818252 TTTTTA
1 TTTTTA
21818258 AAGATTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 23 0.68
9 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:21818240 original size:17 final size:17
Alignment explanation
Indices: 21818220--21818256 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
21818210 TTTTTAATAA
*
21818220 TTTTATATTTTTTTATT
1 TTTTATATTTTTATATT
21818237 TTTTATATTTTTATATT
1 TTTTATATTTTTATATT
21818254 TTT
1 TTT
21818257 AAAGATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTATATTTTTATATT
Found at i:21818247 original size:15 final size:15
Alignment explanation
Indices: 21818219--21818257 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21818209 TTTTTTAATA
* *
21818219 ATTTTATATTTTTTT
1 ATTTTTTATATTTTT
21818234 ATTTTTTATATTTTT
1 ATTTTTTATATTTTT
21818249 ATATTTTTA
1 AT-TTTTTA
21818258 AAGATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTTATATTTTT
Found at i:21825724 original size:12 final size:12
Alignment explanation
Indices: 21825709--21825739 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21825699 TCTTTTAGGC
21825709 ATATATTTAAGA
1 ATATATTTAAGA
*
21825721 ATATATTTAGGA
1 ATATATTTAAGA
21825733 ATATATT
1 ATATATT
21825740 ATATATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (12 bp):
ATATATTTAAGA
Found at i:21826676 original size:18 final size:18
Alignment explanation
Indices: 21826653--21826690 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21826643 AATCGGTTTT
*
21826653 AACTTCCTCTTCATTCTC
1 AACTTCCTCTTCATTATC
*
21826671 AACTTCCTTTTCATTATC
1 AACTTCCTCTTCATTATC
21826689 AA
1 AA
21826691 TCTCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.45
Consensus pattern (18 bp):
AACTTCCTCTTCATTATC
Found at i:21829047 original size:15 final size:15
Alignment explanation
Indices: 21829027--21829056 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21829017 ATAATCCTAA
*
21829027 TAATTATCTTAATAT
1 TAATTATCCTAATAT
21829042 TAATTATCCTAATAT
1 TAATTATCCTAATAT
21829057 AAATAGAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:21830011 original size:118 final size:118
Alignment explanation
Indices: 21829785--21830011 Score: 346
Period size: 118 Copynumber: 1.9 Consensus size: 118
21829775 TTCCGGTTAA
* *
21829785 CGGAGTTTTACCCAACACGTCACACAACCTTTTGACGTGAAGTAGAATGACAACCCAAGTACCCT
1 CGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCT
* * *
21829850 ACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTTATAACCTCAGCTAG
66 ACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCAGCTAG
** * * *
21829903 CGGAGTTTTACTTATCACGTCACACAACCTTTTGACGCGAAGTAGAATTACAACCCAAGCGCCCT
1 CGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCT
**
21829968 ACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAAC
66 ACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAAC
21830012 TATGGAAAAC
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
118 97 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (118 bp):
CGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCT
ACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCAGCTAG
Found at i:21832464 original size:7 final size:8
Alignment explanation
Indices: 21832442--21832485 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
21832432 TTTTATTAAT
21832442 ATAATAAA
1 ATAATAAA
21832450 ATAATAAA
1 ATAATAAA
21832458 A-AATAAA
1 ATAATAAA
21832465 ATAAAATAATA
1 AT--AATAA-A
21832476 ATAATAAA
1 ATAATAAA
21832484 AT
1 AT
21832486 TTAATATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.22
8 12 0.38
9 5 0.16
10 5 0.16
11 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
ATAATAAA
Found at i:21832467 original size:20 final size:19
Alignment explanation
Indices: 21832439--21832485 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
21832429 TAATTTTATT
*
21832439 AATATAATAAAATAATAAAA
1 AATAAAATAAAATAAT-AAA
*
21832459 AATAAAATAAAATAATAAT
1 AATAAAATAAAATAATAAA
21832478 AATAAAAT
1 AATAAAAT
21832486 TTAATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAATAAAATAATAAA
Found at i:21832490 original size:13 final size:13
Alignment explanation
Indices: 21832438--21832496 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
21832428 ATAATTTTAT
* *
21832438 TAATATAATAAAA
1 TAATAAAATATAA
*
21832451 TAATAAAAAATAA
1 TAATAAAATATAA
21832464 -AATAAAATAATAA
1 TAATAAAAT-ATAA
*
21832477 TAATAAAATTTAA
1 TAATAAAATATAA
*
21832490 TATTAAA
1 TAATAAA
21832497 GATTGGGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
12 7 0.18
13 23 0.61
14 8 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAAAATATAA
Found at i:21835099 original size:34 final size:34
Alignment explanation
Indices: 21835061--21835130 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
21835051 GTTCTATTAC
21835061 TTTATTTTTATAATTTCATTAGTATAGCAACTTT
1 TTTATTTTTATAATTTCATTAGTATAGCAACTTT
21835095 TTTATTTTTATAATTTCATTAGTATAGCAACTTT
1 TTTATTTTTATAATTTCATTAGTATAGCAACTTT
21835129 TT
1 TT
21835131 GTATCTCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (34 bp):
TTTATTTTTATAATTTCATTAGTATAGCAACTTT
Found at i:21835348 original size:15 final size:15
Alignment explanation
Indices: 21835329--21835364 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21835319 ATTATCTCTA
21835329 ATATATGTATATATT
1 ATATATGTATATATT
* *
21835344 GTATATGTTTATATT
1 ATATATGTATATATT
21835359 ATATAT
1 ATATAT
21835365 ATATTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:21835651 original size:20 final size:20
Alignment explanation
Indices: 21835620--21835665 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
21835610 TTACCAATGT
*
21835620 TAGTACATATATTTTGTTATA
1 TAGTATATATATTTT-TTATA
21835641 T-GTATATATATTTTTTATA
1 TAGTATATATATTTTTTATA
21835660 TAGTAT
1 TAGTAT
21835666 CATTTTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 16 0.70
21 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (20 bp):
TAGTATATATATTTTTTATA
Found at i:21837543 original size:16 final size:16
Alignment explanation
Indices: 21837524--21837564 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
21837514 CGGCCGGAAT
21837524 CCCTCTCTCCTTTCTC
1 CCCTCTCTCCTTTCTC
*
21837540 CCCTCCCTCCTTTCTC
1 CCCTCTCTCCTTTCTC
21837556 CCCTCTCTC
1 CCCTCTCTC
21837565 TTTTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (16 bp):
CCCTCTCTCCTTTCTC
Found at i:21838377 original size:15 final size:15
Alignment explanation
Indices: 21838358--21838393 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21838348 ATTATCTCTA
21838358 ATATATGTATATATT
1 ATATATGTATATATT
* *
21838373 GTATATGTTTATATT
1 ATATATGTATATATT
21838388 ATATAT
1 ATATAT
21838394 ATTGTTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:21838687 original size:20 final size:19
Alignment explanation
Indices: 21838647--21838691 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
21838637 TTACCAATGT
*
21838647 TAGTACATATATTTTATTA
1 TAGTATATATATTTTATTA
21838666 TACGTATATATATTTT-TATA
1 TA-GTATATATATTTTAT-TA
21838686 TAGTAT
1 TAGTAT
21838692 CATTTTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (19 bp):
TAGTATATATATTTTATTA
Found at i:21844885 original size:15 final size:15
Alignment explanation
Indices: 21844865--21844894 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21844855 ATAATCCTAA
*
21844865 TAATTATCTTAATAT
1 TAATTATCCTAATAT
21844880 TAATTATCCTAATAT
1 TAATTATCCTAATAT
21844895 AAATAGAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:21851046 original size:18 final size:18
Alignment explanation
Indices: 21851012--21851049 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21851002 TTTATTTTTC
**
21851012 TTTGTATTTATTTATTTA
1 TTTGTATTTATACATTTA
21851030 TTTGTATTTATACATTTA
1 TTTGTATTTATACATTTA
21851048 TT
1 TT
21851050 GGTTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTGTATTTATACATTTA
Found at i:21854479 original size:12 final size:12
Alignment explanation
Indices: 21854462--21854486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21854452 GCCAAGTATT
21854462 AAAAATATTTTA
1 AAAAATATTTTA
21854474 AAAAATATTTTA
1 AAAAATATTTTA
21854486 A
1 A
21854487 GCAATTTCTA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAATATTTTA
Found at i:21854498 original size:23 final size:22
Alignment explanation
Indices: 21854468--21854510 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
21854458 TATTAAAAAT
*
21854468 ATTTTAAAAAATATTTTAAGCA
1 ATTTTAAAAAATATATTAAGCA
*
21854490 ATTTCTAAAATATATATTAAG
1 ATTT-TAAAAAATATATTAAG
21854511 TATAATAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (22 bp):
ATTTTAAAAAATATATTAAGCA
Found at i:21857610 original size:5 final size:5
Alignment explanation
Indices: 21857600--21857675 Score: 57
Period size: 5 Copynumber: 14.8 Consensus size: 5
21857590 GAACAAATAA
* * *
21857600 ATTCG ATTCG ATTCG ATTCG ATTCAA ATTCC ATCTC- ATTCG ACTCG ATTCG
1 ATTCG ATTCG ATTCG ATTCG ATTC-G ATTCG AT-TCG ATTCG ATTCG ATTCG
* *
21857651 AATTCC ATCTC- ATTCG ACTCG ATTC
1 -ATTCG AT-TCG ATTCG ATTCG ATTC
21857676 AAGAAAATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
4 4 0.07
5 42 0.72
6 12 0.21
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.37
Consensus pattern (5 bp):
ATTCG
Found at i:21857627 original size:26 final size:26
Alignment explanation
Indices: 21857610--21857677 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
21857600 ATTCGATTCG
*
21857610 ATTCGATTCGATTCAAATTCCATCTC
1 ATTCGACTCGATTCAAATTCCATCTC
*
21857636 ATTCGACTCGATTCGAATTCCATCTC
1 ATTCGACTCGATTCAAATTCCATCTC
21857662 ATTCGACTCGATTCAA
1 ATTCGACTCGATTCAA
21857678 GAAAATTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.35
Consensus pattern (26 bp):
ATTCGACTCGATTCAAATTCCATCTC
Found at i:21863301 original size:17 final size:19
Alignment explanation
Indices: 21863264--21863301 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21863254 TAAAATAAAA
*
21863264 ATATTAATTTATTTAAATT
1 ATATTAATTTATATAAATT
21863283 ATATTAATTT-TAT-AATT
1 ATATTAATTTATATAAATT
21863300 AT
1 AT
21863302 GTCAAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTAATTTATATAAATT
Found at i:21865232 original size:18 final size:19
Alignment explanation
Indices: 21865211--21865246 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21865201 AATGTGTATT
21865211 GGATG-TTAACTGTGGTTG
1 GGATGCTTAACTGTGGTTG
*
21865229 GGATGCTTAACTTTGGTT
1 GGATGCTTAACTGTGGTT
21865247 ACTATCTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (19 bp):
GGATGCTTAACTGTGGTTG
Found at i:21870564 original size:21 final size:21
Alignment explanation
Indices: 21870538--21870578 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21870528 ATCTGCTCAA
* *
21870538 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
21870559 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
21870579 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:21882202 original size:20 final size:21
Alignment explanation
Indices: 21882177--21882217 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21882167 AATATTTTAA
21882177 ATTAT-GGCTTGAAATTGTTG
1 ATTATGGGCTTGAAATTGTTG
21882197 ATTATGGGCTTGAAATTGTTG
1 ATTATGGGCTTGAAATTGTTG
21882218 GAATTGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (21 bp):
ATTATGGGCTTGAAATTGTTG
Found at i:21883675 original size:8 final size:8
Alignment explanation
Indices: 21883662--21883691 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
21883652 TCCAAAAATA
21883662 TTAATAGT
1 TTAATAGT
21883670 TTAATAGT
1 TTAATAGT
21883678 TTAATAGT
1 TTAATAGT
21883686 TTAATA
1 TTAATA
21883692 TTAAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (8 bp):
TTAATAGT
Found at i:21883721 original size:37 final size:39
Alignment explanation
Indices: 21883678--21883775 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 39
21883668 GTTTAATAGT
21883678 TTAATAGTTTAATATTAAATTTAAT-TT-AA-T-ACTTATC
1 TTAATAGTTTAATATT-AATTTAATATTAAAGTGA-TTATC
*
21883715 TTAATAGTATT-TTATTAATTTAATATTAAAGTGATTATC
1 TTAATAGT-TTAATATTAATTTAATATTAAAGTGATTATC
*
21883754 TTAATA-TTAAAT-TTAATTTAAT
1 TTAATAGTTTAATATTAATTTAAT
21883776 GTTTATCTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
36 8 0.15
37 25 0.48
38 6 0.12
39 12 0.23
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (39 bp):
TTAATAGTTTAATATTAATTTAATATTAAAGTGATTATC
Found at i:21888506 original size:9 final size:9
Alignment explanation
Indices: 21888488--21888528 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
21888478 ATATATATAA
21888488 AATTAACCG
1 AATTAACCG
*
21888497 AATTACCCG
1 AATTAACCG
21888506 AATTAACCG
1 AATTAACCG
21888515 AATTAACCG
1 AATTAACCG
21888524 AATTA
1 AATTA
21888529 TTTGTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:21888559 original size:6 final size:6
Alignment explanation
Indices: 21888548--21888612 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
21888538 AATTATATGT
* * * * *
21888548 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTA GTTTTA GTTTTA GTTTTAGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA
21888598 TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTT
21888613 ATTAAATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
6 45 0.85
7 7 0.13
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:21888576 original size:18 final size:18
Alignment explanation
Indices: 21888549--21888609 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
21888539 ATTATATGTT
*
21888549 TTTTATTTTTATTTTTAG
1 TTTTAGTTTTATTTTTAG
*
21888567 TTTTAGTTTTAGTTTTAG
1 TTTTAGTTTTATTTTTAG
*
21888585 TTTTAGTTTTAGATTTTTAT
1 TTTTAGTTTT--ATTTTTAG
21888605 TTTTA
1 TTTTA
21888610 TTTATTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
18 26 0.70
20 11 0.30
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (18 bp):
TTTTAGTTTTATTTTTAG
Found at i:21889568 original size:17 final size:19
Alignment explanation
Indices: 21889541--21889582 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
21889531 ATGCCTCTAA
21889541 AATAGTAACAA-AATTA-AC
1 AATA-TAACAAGAATTATAC
*
21889559 AATATAACAAGAGTTATAC
1 AATATAACAAGAATTATAC
21889578 AATAT
1 AATAT
21889583 TTAAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 8 0.38
19 7 0.33
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (19 bp):
AATATAACAAGAATTATAC
Found at i:21891157 original size:26 final size:26
Alignment explanation
Indices: 21891121--21891175 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
21891111 GACCTGCATT
*
21891121 TATATAATTTTATAAT-TAAATTTAAA
1 TATAAAATTTT-TAATCTAAATTTAAA
* *
21891147 TATAAAATTTTTAATCTATATTTATA
1 TATAAAATTTTTAATCTAAATTTAAA
21891173 TAT
1 TAT
21891176 TAAAGGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TATAAAATTTTTAATCTAAATTTAAA
Found at i:21891410 original size:22 final size:22
Alignment explanation
Indices: 21891382--21891423 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21891372 AAGTAGATTT
*
21891382 TTAAATT-TATAAAATTAAAATA
1 TTAAATTCT-TAAAAGTAAAATA
21891404 TTAAATTCTTAAAAGTAAAA
1 TTAAATTCTTAAAAGTAAAA
21891424 GTTAAAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAAATTCTTAAAAGTAAAATA
Found at i:21906959 original size:8 final size:8
Alignment explanation
Indices: 21906946--21906977 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
21906936 TGTTAAACAG
21906946 ATTGTTTT
1 ATTGTTTT
21906954 ATTGTTTT
1 ATTGTTTT
21906962 ATTGTTTT
1 ATTGTTTT
*
21906970 ATGGTTTT
1 ATTGTTTT
21906978 GGTGATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (8 bp):
ATTGTTTT
Found at i:21909030 original size:59 final size:59
Alignment explanation
Indices: 21908965--21909152 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
21908955 ATTTTATTAA
21908965 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
21909024 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
21909084 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
21909143 ATCATATATT
1 ATCATATATT
21909153 ATGATTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:21909079 original size:119 final size:120
Alignment explanation
Indices: 21908954--21909242 Score: 492
Period size: 119 Copynumber: 2.4 Consensus size: 120
21908944 AATTATTTTA
*
21908954 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * *
21909019 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
21909073 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
21909137 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
21909193 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
21909243 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 109 0.68
120 51 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:21909100 original size:18 final size:18
Alignment explanation
Indices: 21909074--21909129 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
21909064 GATTATTAGA
21909074 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
21909091 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
21909107 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
21909121 ATTTTAATT
1 ATTTTAATT
21909130 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:21909210 original size:59 final size:58
Alignment explanation
Indices: 21909028--21909210 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
21909018 TATAGTATCA
*
21909028 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
21909086 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
21909145 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
21909206 TATAT
1 TATAT
21909211 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:21909222 original size:18 final size:17
Alignment explanation
Indices: 21909194--21909228 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21909184 ATTATTAAGA
*
21909194 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21909211 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21909229 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21909336 original size:147 final size:149
Alignment explanation
Indices: 21909182--21909456 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
21909172 ATAAGAATAT
*
21909182 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
21909247 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
21909310 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
21909329 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
21909394 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
21909457 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:21909369 original size:18 final size:17
Alignment explanation
Indices: 21909341--21909375 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21909331 ATTATTAAGA
*
21909341 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21909358 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21909376 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21913562 original size:47 final size:47
Alignment explanation
Indices: 21913491--21913582 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
21913481 GAAGAAACAT
* *
21913491 CTCTTTCTAAAATAATCAAGAATTATTAACACAATAAGCTATGATCA
1 CTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGATCA
* * * *
21913538 CTCTTACTAAAATGATCCATAATTATTAACACAATTAGCCATGAT
1 CTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGAT
21913583 TCGACAGGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (47 bp):
CTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGATCA
Found at i:21917404 original size:22 final size:22
Alignment explanation
Indices: 21917379--21917424 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
21917369 AAATTTATAT
*
21917379 TTTATTTTTATATAAATATTTG
1 TTTATTTATATATAAATATTTG
* *
21917401 TTTATTTATATTTATATATTTG
1 TTTATTTATATATAAATATTTG
21917423 TT
1 TT
21917425 CGCTAATGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATTTATATATAAATATTTG
Found at i:21917573 original size:12 final size:12
Alignment explanation
Indices: 21917558--21917582 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21917548 ACTCATTTGG
21917558 AAATAAAATAAA
1 AAATAAAATAAA
21917570 AAATAAAATAAA
1 AAATAAAATAAA
21917582 A
1 A
21917583 TCTGTTGAAC
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:21917687 original size:86 final size:86
Alignment explanation
Indices: 21917536--21917839 Score: 393
Period size: 86 Copynumber: 3.5 Consensus size: 86
21917526 GAACTACGGG
* * * ** *
21917536 ATTT-ATTTTAATACTCATTTGGAAATAAAATAAAAAATAAAATAAAATCTGTTGAACAACAGGA
1 ATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAACGGCGGGA
*
21917600 ATAAATCTCAAAACAGATTTT
66 ATAAATCTCGAAACAGATTTT
* * * *
21917621 ATTTAGTTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATCTATTAAATGGCGGGA
1 ATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAACGGCGGGA
21917686 ATAAATCTCGAAAC-GAATTTT
66 ATAAATCTCGAAACAG-ATTTT
* *
21917707 ATTTAATTTTAATACTAGTTTGGAAA-AAAATAAAAAAAT-AGAATAACATCTGTTGAACGGCGG
1 ATTTAATTTTAATACTCGTTTGGAAACAAAAT-AAAAAATGA-AATAAAATCTGTTGAACGGCGG
*
21917770 GAATAAATC-CTGAAACATATTTT
64 GAATAAATCTC-GAAACAGATTTT
* *
21917793 ATTTAATTTTAATACTTGTTTGGAAACAAAATAAAAAATGTAATAAA
1 ATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAA
21917840 TCTCAAAATA
Statistics
Matches: 190, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
85 12 0.06
86 173 0.91
87 5 0.03
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.32
Consensus pattern (86 bp):
ATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAACGGCGGGA
ATAAATCTCGAAACAGATTTT
Found at i:21917985 original size:22 final size:23
Alignment explanation
Indices: 21917951--21917993 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21917941 TTGACTAACA
21917951 AATATATAAATAT-AAATAAATG
1 AATATATAAATATAAAATAAATG
* *
21917973 AATATTTATATATAAAATAAA
1 AATATATAAATATAAAATAAA
21917994 ATATAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AATATATAAATATAAAATAAATG
Found at i:21917995 original size:28 final size:33
Alignment explanation
Indices: 21917952--21918020 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 33
21917942 TGACTAACAA
21917952 ATATAT-AAAT-ATAA-ATAAA-TGAAT-ATTT
1 ATATATAAAATAATAATATAAATTGAATAATTT
21917980 ATATATAAAATAA-AATATAAATTGAATAATTT
1 ATATATAAAATAATAATATAAATTGAATAATTT
*
21918012 ATATTTAAA
1 ATATATAAA
21918021 TTATCAGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 6 0.17
29 6 0.17
30 6 0.17
31 5 0.14
32 12 0.34
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (33 bp):
ATATATAAAATAATAATATAAATTGAATAATTT
Found at i:21918480 original size:20 final size:20
Alignment explanation
Indices: 21918437--21918485 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
21918427 AGGAGCAACT
* *
21918437 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATA
**
21918457 AAATCAAATTGATTGGAATA
1 AAATCAAATTGATTAAAATA
*
21918477 AAATAAAAT
1 AAATCAAAT
21918486 CAAGATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:21919100 original size:13 final size:13
Alignment explanation
Indices: 21919082--21919145 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
21919072 AGTTTGACAA
21919082 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
21919095 TGCTTTTGAGAAA-
1 TGCTTTTGA-AAAG
* *
21919108 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
21919121 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
21919134 TGCTTTTGAAAA
1 TGCTTTTGAAAA
21919146 ATTTGGTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 3 0.07
13 37 0.86
14 3 0.07
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Done.