Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 88 of 120
Found at i:11547207 original size:12 final size:13
Alignment explanation
Indices: 11547192--11547220 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11547182 TTTTTAATTT
11547192 TTTA-AAATTTTG
1 TTTAGAAATTTTG
11547204 TTTAGAAATTTTG
1 TTTAGAAATTTTG
11547217 TTTA
1 TTTA
11547221 TGTTGATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (13 bp):
TTTAGAAATTTTG
Found at i:11548345 original size:19 final size:19
Alignment explanation
Indices: 11548323--11548359 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11548313 TAGGTTTGGT
11548323 TGAATTTTTCAACGAAGTA
1 TGAATTTTTCAACGAAGTA
*
11548342 TGAATTTTTCAATGAAGT
1 TGAATTTTTCAACGAAGT
11548360 TTTCGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (19 bp):
TGAATTTTTCAACGAAGTA
Found at i:11559012 original size:119 final size:119
Alignment explanation
Indices: 11558738--11559377 Score: 605
Period size: 119 Copynumber: 5.4 Consensus size: 119
11558728 ATTATCTCAC
* * **
11558738 TCACTTGATCTTGGCTCAATCCATATCATTTCTTATGATTTGTGGTTCCATC-CTGATCATTTAT
1 TCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTCCATCTC-GATCATTTAT
* * * * * * * * *
11558802 T-TTCGACCTCAGATTAG-TCTTGGTCGCCTTA-TTTGACTCATGGTTCCAT-CCTA
65 TCTT-GACCT-TGACTCGATCCTGGTCACTTTATTTTGACTTATGGTTTCATCCCGA
* * * * * *
11558855 GTCATTTGATCTTGGCTCAGTCTAAATCATTTCTTATGATTCATGGTTCTATCTTGATTATTTAT
1 -TCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTCCATCTCGATCATTTAT
* *
11558920 TCTTGACCTTGACTCGATCTTGGTCATTTTATTTTGACTTATGGTTTCATCCCGA
65 TCTTGACCTTGACTCGATCCTGGTCACTTTATTTTGACTTATGGTTTCATCCCGA
*
11558975 TCACTTGATCTTGACTCAGTCCAGATCATTTCTTATGATTCATGGTTCCATCTCGATCATTTATT
1 TCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTCCATCTCGATCATTTATT
* * * * * *
11559040 ATCGACATTGACTC-AGTCCTAGTCACTTTATTTTGACTTATGGTTTCGTCTCGA
66 CTTGACCTTGACTCGA-TCCTGGTCACTTTATTTTGACTTATGGTTTCATCCCGA
* * * * * * *
11559094 TCACTTGATCTTGGCTCAGTCTAGATAATTTATTATGATT-AGTGGTTACGTCTCAATTATTTAT
1 TCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCA-TGGTTCCATCTCGATCATTTAT
** * * * * *
11559158 TCTCAACCTTGATTCGATCCTAGTCACTTTATTTTGACTTATGATTTTATCCCGG
65 TCTTGACCTTGACTCGATCCTGGTCACTTTATTTTGACTTATGGTTTCATCCCGA
* * * * * *
11559213 TCACTTGATCTTGGCTTAGTCCAAATCATTTATTATGATTCGT-GATCCATCCCGATCATTTATT
1 TCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTCCATCTCGATCATTTATT
* * * * * ** *
11559277 CTTGACCCTGACTTGATCCTGGTCATTTTATTTCGACTTGTGGTTTCATCTAGG
66 CTTGACCTTGACTCGATCCTGGTCACTTTATTTTGACTTATGGTTTCATCCCGA
* * * * * *
11559331 TCACTAGGTCTTGGTTCAGT-TAGATCATTTCTTTTGATTCGTGGTTC
1 TCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTC
11559378 TGTCCTGATC
Statistics
Matches: 429, Mismatches: 83, Indels: 20
0.81 0.16 0.04
Matches are distributed among these distances:
117 22 0.05
118 148 0.34
119 255 0.59
120 4 0.01
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (119 bp):
TCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTCCATCTCGATCATTTATT
CTTGACCTTGACTCGATCCTGGTCACTTTATTTTGACTTATGGTTTCATCCCGA
Found at i:11559093 original size:63 final size:61
Alignment explanation
Indices: 11558984--11559200 Score: 150
Period size: 63 Copynumber: 3.6 Consensus size: 61
11558974 ATCACTTGAT
* * *
11558984 CTTGACTCAGTCC-AGATCA-TTTCTTATGATTCATGGTTCCATCTCGATCATTTATTATCGA
1 CTTGACTCAGTCCTAGATCACTTTATTATGATT-ATGGTTACGTCTCGATCATTTATTATC-A
* * * *
11559045 CATTGACTCAGTCCTAG-TCACTTTATTTTGACTTATGGTTTCGTCTCGATCA-CT-TGAT--
1 C-TTGACTCAGTCCTAGATCACTTTATTATGA-TTATGGTTACGTCTCGATCATTTATTATCA
* * * * *
11559103 CTTGGCTCAGT-CTAGAT-AATTTATTATGATTAGTGGTTACGTCTCAATTATTTATTCTCAA
1 CTTGACTCAGTCCTAGATCACTTTATTATGATTA-TGGTTACGTCTCGATCATTTATTATC-A
* *
11559164 CCTTGATTC-GATCCTAG-TCACTTTATTTTGACTTATG
1 -CTTGACTCAG-TCCTAGATCACTTTATTATGA-TTATG
11559201 ATTTTATCCC
Statistics
Matches: 121, Mismatches: 19, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
55 3 0.02
56 28 0.23
57 11 0.09
58 3 0.02
61 5 0.04
62 24 0.20
63 42 0.35
64 5 0.04
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (61 bp):
CTTGACTCAGTCCTAGATCACTTTATTATGATTATGGTTACGTCTCGATCATTTATTATCA
Found at i:11559140 original size:56 final size:56
Alignment explanation
Indices: 11558947--11559140 Score: 169
Period size: 56 Copynumber: 3.3 Consensus size: 56
11558937 TCTTGGTCAT
* * * *
11558947 TTTATTTTGACTTATGGTTTCATCCCGATCACTTGATCTTGACTCAGTCCAGATCA
1 TTTATTATGACTTATGGTTTCATCTCGATCACTTGATCTTGACTCAGTCTAGATAA
* * * * *
11559003 TTTCTTATGA-TTCATGGTTCCATCTCGATCATTTATTATCGACATTGACTCAGTCCTAG-TCAC
1 TTTATTATGACTT-ATGGTTTCATCTCGATCA-CT-TGAT---C-TTGACTCAGT-CTAGAT-AA
* * *
11559066 TTTATTTTGACTTATGGTTTCGTCTCGATCACTTGATCTTGGCTCAGTCTAGATAA
1 TTTATTATGACTTATGGTTTCATCTCGATCACTTGATCTTGACTCAGTCTAGATAA
11559122 TTTATTATGA-TTAGTGGTT
1 TTTATTATGACTTA-TGGTT
11559141 ACGTCTCAAT
Statistics
Matches: 108, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
55 5 0.05
56 43 0.40
57 11 0.10
58 4 0.04
61 4 0.04
62 12 0.11
63 27 0.25
64 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (56 bp):
TTTATTATGACTTATGGTTTCATCTCGATCACTTGATCTTGACTCAGTCTAGATAA
Found at i:11559169 original size:238 final size:236
Alignment explanation
Indices: 11558738--11559378 Score: 700
Period size: 238 Copynumber: 2.7 Consensus size: 236
11558728 ATTATCTCAC
* * *
11558738 TCACTTGATCTTGGCTCAATCCATATCATTTCTTATGATTTGTGGTTCCATCCTGATCATTTATT
1 TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGGTTCCATCC-GATCATTTATT
* * * * * * * * * *
11558803 TTCGACCTCAGATTAGTCTTGGTCGCCTTA-TTTGACTCATGGTTCCATC-CTAGTCATTTGATC
65 ATCGACCT-TGACTAGTCCTGGTCACTTTATTTTGACTTATGGTTTCATCTCGA-TCACTTGATC
* ** **
11558866 TTGGCTCAGTCTAAATCATTTCTTATGATTCA-TGGTTCTATCTTGATTATTTATTCTTGACCTT
128 TTGGCTCAGTCTAGATCATTTCTTATGATT-AGTGGTTCTATCTCAATTATTTATTCTCAACCTT
* * * *
11558930 GACTCGATCTTGGTCATTTTATTTTGACTTATGGTTTCATCCCGA
192 GACTCGATCCTAGTCACTTTATTTTGACTTATGATTTCATCCCGA
* * *
11558975 TCACTTGATCTTGACTCAGTCCAGATCATTTCTTATGATTCATGGTTCCATCTCGATCATTTATT
1 TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGGTTCCATC-CGATCATTTATT
* * *
11559040 ATCGACATTGACTCAGTCCTAGTCACTTTATTTTGACTTATGGTTTCGTCTCGATCACTTGATCT
65 ATCGACCTTGACT-AGTCCTGGTCACTTTATTTTGACTTATGGTTTCATCTCGATCACTTGATCT
* * *
11559105 TGGCTCAGTCTAGATAATTTATTATGATTAGTGGTTAC-GTCTCAATTATTTATTCTCAACCTTG
129 TGGCTCAGTCTAGATCATTTCTTATGATTAGTGGTT-CTATCTCAATTATTTATTCTCAACCTTG
* * *
11559169 ATTCGATCCTAGTCACTTTATTTTGACTTATGATTTTATCCCGG
193 ACTCGATCCTAGTCACTTTATTTTGACTTATGATTTCATCCCGA
* * *
11559213 TCACTTGATCTTGGCTTAGTCCAAATCATTTATTATGATTCGT-GATCCATCCCGATCATTTATT
1 TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGGTTCCAT-CCGATCATTTATT
* * * * * * * * * * *
11559277 CTTGACCCTGACTTGATCCTGGTCATTTTATTTCGACTTGTGGTTTCATCTAGGTCACTAGGTCT
65 ATCGACCTTGACTAG-TCCTGGTCACTTTATTTTGACTTATGGTTTCATCTCGATCACTTGATCT
* * *
11559342 TGGTTCAGT-TAGATCATTTCTTTTGATTCGTGGTTCT
129 TGGCTCAGTCTAGATCATTTCTTATGATTAGTGGTTCT
11559379 GTCCTGATCA
Statistics
Matches: 337, Mismatches: 58, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
235 1 0.00
236 26 0.08
237 152 0.45
238 155 0.46
239 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (236 bp):
TCACTTGATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGGTTCCATCCGATCATTTATTA
TCGACCTTGACTAGTCCTGGTCACTTTATTTTGACTTATGGTTTCATCTCGATCACTTGATCTTG
GCTCAGTCTAGATCATTTCTTATGATTAGTGGTTCTATCTCAATTATTTATTCTCAACCTTGACT
CGATCCTAGTCACTTTATTTTGACTTATGATTTCATCCCGA
Found at i:11559625 original size:25 final size:26
Alignment explanation
Indices: 11559577--11559636 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
11559567 ATTTTTATTC
* *
11559577 AGGCCTATTTTGGTTCAAGCCCAACT
1 AGGCCCATTTTAGTTCAAGCCCAACT
11559603 AGGCCCATTTTAG-TCAAGCCCAACT
1 AGGCCCATTTTAGTTCAAGCCCAACT
11559628 AGGCCCATT
1 AGGCCCATT
11559637 ACAGCCCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (26 bp):
AGGCCCATTTTAGTTCAAGCCCAACT
Found at i:11559674 original size:3 final size:3
Alignment explanation
Indices: 11559666--11559718 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
11559656 TTAGATTCTT
11559666 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11559714 TTA TT
1 TTA TT
11559719 CTTGTTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11560097 original size:20 final size:20
Alignment explanation
Indices: 11560074--11560111 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11560064 TTTGTGATTC
11560074 TGGGAGTGAATTC-AGGTTTT
1 TGGGA-TGAATTCAAGGTTTT
11560094 TGGGATGAATTCAAGGTT
1 TGGGATGAATTCAAGGTT
11560112 GTAGAAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.05, G:0.34, T:0.37
Consensus pattern (20 bp):
TGGGATGAATTCAAGGTTTT
Found at i:11561323 original size:14 final size:13
Alignment explanation
Indices: 11561301--11561342 Score: 66
Period size: 14 Copynumber: 3.1 Consensus size: 13
11561291 ATTAATAAGA
11561301 AAATCCAAAACTC
1 AAATCCAAAACTC
11561314 AAAGTCCAAAGACTC
1 AAA-TCCAAA-ACTC
11561329 AAATCCAAAACTC
1 AAATCCAAAACTC
11561342 A
1 A
11561343 TTTTATCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.30
14 12 0.44
15 7 0.26
ACGTcount: A:0.52, C:0.29, G:0.05, T:0.14
Consensus pattern (13 bp):
AAATCCAAAACTC
Found at i:11561978 original size:17 final size:17
Alignment explanation
Indices: 11561952--11561985 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11561942 ATGTTTATGG
*
11561952 GAATTTCTTTCCTTTTC
1 GAATTGCTTTCCTTTTC
*
11561969 GAATTGCTTTTCTTTTC
1 GAATTGCTTTCCTTTTC
11561986 ATGCATTTTT
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:0.12, C:0.21, G:0.09, T:0.59
Consensus pattern (17 bp):
GAATTGCTTTCCTTTTC
Found at i:11563750 original size:5 final size:5
Alignment explanation
Indices: 11563740--11563801 Score: 58
Period size: 5 Copynumber: 12.6 Consensus size: 5
11563730 TTGAATTACT
** *
11563740 AAATA AAAT- AAATA AAA-A AGGTA AAATA AAATA AGATA AAA-A AAATTGA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA-T-A
11563789 AAATA AAATA AAA
1 AAATA AAATA AAA
11563802 ACTTAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
4 10 0.22
5 31 0.67
6 1 0.02
7 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:11563768 original size:14 final size:15
Alignment explanation
Indices: 11563740--11563801 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 15
11563730 TTGAATTACT
*
11563740 AAATAAAAT-AAATA
1 AAATAAGATAAAATA
*
11563754 AAA-AAGGTAAAATA
1 AAATAAGATAAAATA
11563768 AAATAAGATAAAA-A
1 AAATAAGATAAAATA
*
11563782 AAATTGAAAATAAAATA
1 AAA-T-AAGATAAAATA
11563799 AAA
1 AAA
11563802 ACTTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 3 0.08
14 15 0.38
15 9 0.23
16 8 0.21
17 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AAATAAGATAAAATA
Found at i:11563791 original size:26 final size:23
Alignment explanation
Indices: 11563740--11563800 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 23
11563730 TTGAATTACT
*
11563740 AAATAAAATAAATAAAAAAGGTA
1 AAATAAAATAAATAAAAAAAGTA
*
11563763 AAATAAAATAAGATAAAAAAAATTGA
1 AAATAAAATAA-AT-AAAAAAAGT-A
11563789 AAATAAAATAAA
1 AAATAAAATAAA
11563801 AACTTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 11 0.33
24 2 0.06
25 8 0.24
26 12 0.36
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (23 bp):
AAATAAAATAAATAAAAAAAGTA
Found at i:11563817 original size:21 final size:20
Alignment explanation
Indices: 11563762--11563831 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
11563752 TAAAAAAGGT
*
11563762 AAAATAAAATAAGATAAA-AA
1 AAAATAAAATATGA-AAATAA
* *
11563782 AAATTGAAA-AT-AAAATAA
1 AAAATAAAATATGAAAATAA
*
11563800 AAACTTAAAATATGAAAATAA
1 AAA-ATAAAATATGAAAATAA
11563821 AAAATAAAATA
1 AAAATAAAATA
11563832 AAAAGAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.07
18 6 0.15
19 6 0.15
20 16 0.39
21 10 0.24
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.20
Consensus pattern (20 bp):
AAAATAAAATATGAAAATAA
Found at i:11563841 original size:12 final size:12
Alignment explanation
Indices: 11563744--11563835 Score: 55
Period size: 13 Copynumber: 7.2 Consensus size: 12
11563734 ATTACTAAAT
11563744 AAAAT-AAATAA
1 AAAATAAAATAA
11563755 AAAAGGTAAAATAA
1 AAAA--TAAAATAA
*
11563769 AATAAGATAAA-AA
1 AA-AATA-AAATAA
*
11563782 AAATTGAAAATAA
1 AAAAT-AAAATAA
*
11563795 AATAA-AAACTTAA
1 AA-AATAAA-ATAA
*
11563808 AATATGAAAATAA
1 AAAAT-AAAATAA
11563821 AAAATAAAATAA
1 AAAATAAAATAA
11563833 AAA
1 AAA
11563836 GAAAAACGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
11 4 0.06
12 18 0.29
13 23 0.37
14 15 0.24
15 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:11563841 original size:39 final size:39
Alignment explanation
Indices: 11563766--11563842 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
11563756 AAAGGTAAAA
* *
11563766 TAAAATAAGATAAAAAAAATTGAAAATAAAATAAAAACT
1 TAAAATAAGATAAAAAAAAATGAAAATAAAAGAAAAACT
*
11563805 TAAAATATGA-AAATAAAAAAT-AAAATAAAAAGAAAAAC
1 TAAAATAAGATAAA-AAAAAATGAAAAT-AAAAGAAAAAC
11563843 GAAAACTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 8 0.24
39 25 0.76
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (39 bp):
TAAAATAAGATAAAAAAAAATGAAAATAAAAGAAAAACT
Found at i:11564673 original size:26 final size:25
Alignment explanation
Indices: 11564626--11564696 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
11564616 AAAGAAAAAG
* *
11564626 AATAATAAT-TATAATCACTATAAGAT
1 AATAATAATATAT-ACCA-TATAACAT
11564652 AATAATAATAATATACCATATAACAT
1 AATAATAAT-ATATACCATATAACAT
*
11564678 GAT-ATAATATACTACCATA
1 AATAATAATATA-TACCATA
11564697 ATATAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 3 0.08
25 12 0.31
26 18 0.46
27 3 0.08
28 3 0.08
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (25 bp):
AATAATAATATATACCATATAACAT
Found at i:11565569 original size:120 final size:119
Alignment explanation
Indices: 11564963--11565572 Score: 437
Period size: 120 Copynumber: 5.1 Consensus size: 119
11564953 CAAGTCTAAT
** * * ** * *
11564963 GATAAAGCAACCATGACTAAGTCAAGGTCAATA-ATGACTGACCAAGACAGAACCATGAGT-TAG
1 GATAAAGTGACCAAGACTAAGTCGAGGTCAA-AGATGACTGACCAAGATGGAACCACGAGTCAAG
* * * * * * *
11565026 AAAATAATCTAGAC-GAAATTAAGATAGAATAACTAGGATGAAA-CTATGAGTCAAAAA
65 -AAATGATCTGGACAG-AA-TGAGATCGAATGACCAGGATAAAATC-ATGAGTCAAAAA
* * ** * * * *
11565083 GATAAAGTGACCAAGA-TCGAGTTGAGGTTGAAGATGACTGATCGAGACGGAATCACGAGTCAAG
1 GATAAAGTGACCAAGACT-AAGTCGAGGTCAAAGATGACTGACCAAGATGGAACCACGAGTCAAG
* * * *
11565147 AAATGATCTGGA-TGAAACTGAGATCGAATGACCAAGATAAAA-CTACGAGTTAAAAA
65 AAATGATCTGGACAG-AA-TGAGATCGAATGACCAGGATAAAATC-ATGAGTCAAAAA
** * * * * * *
11565203 GATAAAACGACCAAGACCAAGTTGAGATTGAAA-ATGACTAACCAAGATGGAACCACGAGTTAAG
1 GATAAAGTGACCAAGACTAAGTCGAG-GTCAAAGATGACTGACCAAGATGGAACCACGAGTCAAG
* *** * **
11565267 AAATGACCTGGACAGAATCGAGATCGAATGATTGGGATGAAATCACAAGTCAAAAA
65 AAATGATCTGGACAGAAT-GAGATCGAATGACCAGGATAAAATCATGAGTCAAAAA
* * * * * * * * *
11565323 GATAAAGCGACTAAGACTAAGTCGAGGTCAAAAATAATTGACCAAGATGAAACCGCTAGTCAGGA
1 GATAAAGTGACCAAGACTAAGTCGAGGTCAAAGATGACTGACCAAGATGGAACCACGAGTCAAGA
* * * * * * *
11565388 AATAATCTAGACAGAATCAAGATCGAATGATCGGGATGAAATCATGAGTTAAAAA
66 AATGATCTGGACAGAAT-GAGATCGAATGACCAGGATAAAATCATGAGTCAAAAA
* * * *
11565443 GATAAAGTGACCAAGACTGAGTCGAGGTCAAAGATGACTGACCAAAATGGAACCACAAGTCAAAA
1 GATAAAGTGACCAAGACTAAGTCGAGGTCAAAGATGACTGACCAAGATGGAACCACGAGTCAAGA
* * * *
11565508 AATGATCTGGA-TGAAATGAAGATCAAATGACCATGACAAAATCATGAGTCAAAAA
66 AATGATCTGGACAG-AATG-AGATCGAATGACCAGGATAAAATCATGAGTCAAAAA
11565563 GATAAAGTGA
1 GATAAAGTGA
11565573 TCAAAATCGA
Statistics
Matches: 386, Mismatches: 92, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
119 8 0.02
120 371 0.96
121 7 0.02
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.18
Consensus pattern (119 bp):
GATAAAGTGACCAAGACTAAGTCGAGGTCAAAGATGACTGACCAAGATGGAACCACGAGTCAAGA
AATGATCTGGACAGAATGAGATCGAATGACCAGGATAAAATCATGAGTCAAAAA
Found at i:11566220 original size:120 final size:120
Alignment explanation
Indices: 11565918--11566418 Score: 396
Period size: 120 Copynumber: 4.2 Consensus size: 120
11565908 TGAGGTCAAG
** * * * *
11565918 AATGACTGACCAAGACAGAACCACGAGT-TAGAAAATAATCTAAACA-AAACTGAGATA-GAATA
1 AATGACTGACCAAGATGGAACCACAAGTCAAG-AAATAATCTGAACAGAAACTGAGA-ACGAATG
* * * * *
11565980 ACCAGGATGAAACTATGAGTCAAAAAGATAAAGTGACCAAGATCGAGTTGAGGTCGAA
64 ATCGGGATGAAA-TACGAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGAGATCGAA
* * * * *
11566038 GATGACTGATCAAGATGAAATCACAAGTCAAGAAATAATCTGAAC-GAAACTGAGATCGAATGAT
1 AATGACTGACCAAGATGGAACCACAAGTCAAGAAATAATCTGAACAGAAACTGAGAACGAATGAT
* * * * *
11566102 CGGGATAAAACTACGAGTTAAAAAGATAAAGTGATCAAGATCGAGTTGAGATTGAA
66 CGGGATGAAA-TACGAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGAGATCGAA
* * * * *
11566158 AATGACTGACCAAGATGGAACCACAAGTTAGGAAATGATCTGAACAGAATC-GAGAACAAATGAT
1 AATGACTGACCAAGATGGAACCACAAGTCAAGAAATAATCTGAACAGAAACTGAGAACGAATGAT
* * * * * *
11566222 TGAGATGAAATCACGAGTCAAAAAGATAAAATGACCAAGA-CTAAGTCGAGGTCAAA
66 CGGGATGAAAT-ACGAGTCAAAAAGATAAAGTGACCAAGATC-GAGTCGAGATCGAA
* * * *** * * *
11566278 AATGATTGACCAAGATGAAATCGTTAGTCAAGAAATGATCT-AGACA-AAA-TCAAGATCGAATG
1 AATGACTGACCAAGATGGAACCACAAGTCAAGAAATAATCTGA-ACAGAAACT-GAGAACGAATG
* * * *
11566340 GTCGGGATGAAAT-CGTGAGTTAAAAAGATAAAGTGACTAAGATTGAGTCGA-AGTC-AA
64 ATCGGGATGAAATAC--GAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGAGA-TCGAA
*
11566397 AGATGACTGACCAAAATGGAAC
1 A-ATGACTGACCAAGATGGAAC
11566419 TGCGAGTCAA
Statistics
Matches: 302, Mismatches: 65, Indels: 28
0.76 0.16 0.07
Matches are distributed among these distances:
118 1 0.00
119 8 0.03
120 287 0.95
121 6 0.02
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (120 bp):
AATGACTGACCAAGATGGAACCACAAGTCAAGAAATAATCTGAACAGAAACTGAGAACGAATGAT
CGGGATGAAATACGAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGAGATCGAA
Found at i:11566436 original size:240 final size:239
Alignment explanation
Indices: 11565996--11566436 Score: 534
Period size: 240 Copynumber: 1.8 Consensus size: 239
11565986 ATGAAACTAT
* * * * * *
11565996 GAGTCAAAAAGATAAAGTGACCAAGATCGAGTTGAGGTCGAAGATGACTGATCAAGATGAAATCA
1 GAGTCAAAAAGATAAAATGACCAAGATCAAGTCGAGGTCAAAAATGACTGACCAAGATGAAATCA
* *
11566061 CAAGTCAAGAAATAATCTGAACGAAACTGAGATCGAATGATCGGGATAAAACTACGAGTTAAAAA
66 CAAGTCAAGAAATAATCTGAACAAAACTAAGATCGAATGATCGGGATAAAACTA-GAGTTAAAAA
* * * * * **
11566126 GATAAAGTGATCAAGATCGAGTTGAGATTGAAAATGACTGACCAAGATGGAACCACAAGTTAGGA
130 GATAAAGTGATCAAGATCGAGTCGAGAGTCAAAATGACTGACCAAAATGGAACCACAAGTCAAAA
11566191 AATGATCTGAACAGAATCGAGAACAAATGATTGAGATGAAATCAC
195 AATGATCTGAACAGAATCGAGAACAAATGATTGAGATGAAATCAC
*
11566236 GAGTCAAAAAGATAAAATGACCAAGA-CTAAGTCGAGGTCAAAAATGATTGACCAAGATGAAATC
1 GAGTCAAAAAGATAAAATGACCAAGATC-AAGTCGAGGTCAAAAATGACTGACCAAGATGAAATC
*** * * *
11566300 GTTAGTCAAGAAATGATCT-AGACAAAA-TCAAGATCGAATGGTCGGGATGAAATCGT-GAGTTA
65 ACAAGTCAAGAAATAATCTGA-ACAAAACT-AAGATCGAATGATCGGGAT-AAAAC-TAGAGTTA
* ** *
11566362 AAAAGATAAAGTGA-CTAAGATTGAGTCGA-AGTCAAAGATGACTGACCAAAATGGAACTGCGAG
126 AAAAGATAAAGTGATC-AAGATCGAGTCGAGAGTCAAA-ATGACTGACCAAAATGGAACCACAAG
11566425 TCAAAAAATGAT
189 TCAAAAAATGAT
11566437 TTGGATGAAA
Statistics
Matches: 168, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
239 9 0.05
240 154 0.92
241 4 0.02
242 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (239 bp):
GAGTCAAAAAGATAAAATGACCAAGATCAAGTCGAGGTCAAAAATGACTGACCAAGATGAAATCA
CAAGTCAAGAAATAATCTGAACAAAACTAAGATCGAATGATCGGGATAAAACTAGAGTTAAAAAG
ATAAAGTGATCAAGATCGAGTCGAGAGTCAAAATGACTGACCAAAATGGAACCACAAGTCAAAAA
ATGATCTGAACAGAATCGAGAACAAATGATTGAGATGAAATCAC
Found at i:11566454 original size:120 final size:118
Alignment explanation
Indices: 11565984--11566527 Score: 391
Period size: 120 Copynumber: 4.5 Consensus size: 118
11565974 AGAATAACCA
* * * * *
11565984 GGATGAAACTATGAGTCAAAAAGATAAAGTGACCAAGATCGAGTTGAGGTCGAAGATGACTGATC
1 GGATGAAA-TCTGAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGAAGTCAAAGATGACTGACC
* *
11566049 AAGATGAAATCACAAGTCAAGAAATAATCTGAACGAAACTGAGATCGAATGATCG
65 AAGATGAAAT-ACAAGTCAAGAAATGATCTGAACGAAACAGAGATCGAATGATCG
* * * * * *
11566104 GGAT-AAAACTACGAGTTAAAAAGATAAAGTGATCAAGATCGAGTTGAGATTGAAA-ATGACTGA
1 GGATGAAATCT--GAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGA-AGTCAAAGATGACTGA
** * * * * * *
11566167 CCAAGATGGAACCACAAGTTAGGAAATGATCTGAACAGAATC-GAGAACAAATGATTG
63 CCAAGAT-GAAATACAAGTCAAGAAATGATCTGAAC-GAAACAGAGATCGAATGATCG
* * * * * * *
11566224 AGATGAAATCACGAGTCAAAAAGATAAAATGACCAAGA-CTAAGTCGAGGTCAAAAATGATTGAC
1 GGATGAAATC-TGAGTCAAAAAGATAAAGTGACCAAGATC-GAGTCGAAGTCAAAGATGACTGAC
* * *
11566288 CAAGATGAAAT-CGTTAGTCAAGAAATGATCT-AGACAAAATCA-AGATCGAATGGTCG
64 CAAGATGAAATAC--AAGTCAAGAAATGATCTGA-ACGAAA-CAGAGATCGAATGATCG
* * *
11566344 GGATGAAATCGTGAGTTAAAAAGATAAAGTGACTAAGATTGAGTCGAAGTCAAAGATGACTGACC
1 GGATGAAATC-TGAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGAAGTCAAAGATGACTGACC
* * * * * * * * * * * *
11566409 AAAATGGAACTGCGAGTCAAAAAATGATTTGGATGAAACAGAGATCAAATAACCA
65 AAGAT-GAAATACAAGTCAAGAAATGATCTGAACGAAACAGAGATCGAATGATCG
* ** * * * ** * *
11566464 TGACAAAATCATCAGTCAAAAAGATAAAGTGATCAAGATCAAGTTAAAATCGAAGATGACTGAC
1 GGATGAAATC-TGAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGAAGTCAAAGATGACTGAC
11566528 TGGTTTGGAA
Statistics
Matches: 326, Mismatches: 79, Indels: 38
0.74 0.18 0.09
Matches are distributed among these distances:
118 2 0.01
119 16 0.05
120 289 0.89
121 18 0.06
122 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (118 bp):
GGATGAAATCTGAGTCAAAAAGATAAAGTGACCAAGATCGAGTCGAAGTCAAAGATGACTGACCA
AGATGAAATACAAGTCAAGAAATGATCTGAACGAAACAGAGATCGAATGATCG
Found at i:11567365 original size:22 final size:21
Alignment explanation
Indices: 11567300--11567377 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 21
11567290 TCTAAGTCTC
**
11567300 TTTTTTTCTTTCTTTTGCTCTT
1 TTTTTTTCTTTCTTTACCT-TT
*
11567322 TTTCTTTCTTT-TTTACTTCTTT
1 TTTTTTTCTTTCTTTAC--CTTT
11567344 TTTTGTTTCTTTCTTTACCTTT
1 TTTT-TTTCTTTCTTTACCTTT
11567366 TTTTTTTGCTTT
1 TTTTTTT-CTTT
11567378 TTACTTTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
21 6 0.13
22 27 0.57
23 9 0.19
24 5 0.11
ACGTcount: A:0.03, C:0.17, G:0.04, T:0.77
Consensus pattern (21 bp):
TTTTTTTCTTTCTTTACCTTT
Found at i:11567369 original size:45 final size:43
Alignment explanation
Indices: 11567300--11567403 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 43
11567290 TCTAAGTCTC
**
11567300 TTTTTTTCTTTCTTTTGCTCTTTTTCTTT-CTTTTTTACTTCTTT
1 TTTTTTTCTTTCTTTACCTCTTTTT-TTTGC-TTTTTACTTCTTT
* *
11567344 TTTTGTTTCTTTCTTTACCTTTTTTTTTTGCTTTTTACTTTTTGGT
1 TTTT-TTTCTTTCTTTACCTCTTTTTTTTGCTTTTTACTTCTT--T
11567390 TTTTTTTC-TTCTTT
1 TTTTTTTCTTTCTTT
11567404 TTTTTTTGCA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
44 24 0.46
45 23 0.44
46 5 0.10
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (43 bp):
TTTTTTTCTTTCTTTACCTCTTTTTTTTGCTTTTTACTTCTTT
Found at i:11567379 original size:12 final size:12
Alignment explanation
Indices: 11567320--11567412 Score: 66
Period size: 12 Copynumber: 7.6 Consensus size: 12
11567310 TCTTTTGCTC
*
11567320 TTTTT-CTTTCT
1 TTTTTGCTTTTT
* *
11567331 TTTTTACTTCTT
1 TTTTTGCTTTTT
11567343 TTTTTG-TTTCTT
1 TTTTTGCTTT-TT
**
11567355 TCTTTACCTTTTT
1 T-TTTTGCTTTTT
11567368 TTTTTGCTTTTT
1 TTTTTGCTTTTT
*
11567380 ACTTTTTGGTTTTT
1 --TTTTTGCTTTTT
11567394 TTTCTT-CTTTTT
1 TTT-TTGCTTTTT
11567406 TTTTTGC
1 TTTTTGC
11567413 ACACATTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
11 9 0.14
12 33 0.52
13 8 0.12
14 14 0.22
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTTTGCTTTTT
Found at i:11567384 original size:25 final size:24
Alignment explanation
Indices: 11567320--11567384 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
11567310 TCTTTTGCTC
* *
11567320 TTTTTCTTTCTT-TTTTACTTCTT
1 TTTTTGTTTCTTACTTTACTTCTT
* *
11567343 TTTTTGTTTCTTTCTTTACCTTTTT
1 TTTTTGTTTCTTACTTTA-CTTCTT
11567368 TTTTTGCTTT-TTACTTT
1 TTTTTG-TTTCTTACTTT
11567385 TTGGTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 11 0.31
24 4 0.11
25 17 0.49
26 3 0.09
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (24 bp):
TTTTTGTTTCTTACTTTACTTCTT
Found at i:11567402 original size:44 final size:45
Alignment explanation
Indices: 11567300--11567403 Score: 117
Period size: 45 Copynumber: 2.3 Consensus size: 45
11567290 TCTAAGTCTC
**
11567300 TTTTTTTCTTTCTTTTGCTCTTTTTCTTTCTTTTTTACTTCTTTT
1 TTTTTTTCTTTCTTTACCTCTTTTTCTTTCTTTTTTACTTCTTTT
* *
11567345 TTTGTTTCTTTCTTTACCT-TTTTTTTTTGC-TTTTTACTT-TTTGGT
1 TTTTTTTCTTTCTTTACCTCTTTTTCTTT-CTTTTTTACTTCTTT--T
11567390 TTTTTTTC-TTCTTT
1 TTTTTTTCTTTCTTT
11567404 TTTTTTTGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
43 3 0.06
44 23 0.45
45 25 0.49
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (45 bp):
TTTTTTTCTTTCTTTACCTCTTTTTCTTTCTTTTTTACTTCTTTT
Found at i:11571498 original size:9 final size:9
Alignment explanation
Indices: 11571486--11571526 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
11571476 AAAAAAAGAT
*
11571486 TTTTTTTAT
1 TTTTTTTAA
11571495 TTTTTTTAA
1 TTTTTTTAA
11571504 -TTTTTTAA
1 TTTTTTTAA
*
11571512 CTTTTTTAA
1 TTTTTTTAA
11571521 TTTTTT
1 TTTTTT
11571527 GCTTTTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:11571592 original size:5 final size:5
Alignment explanation
Indices: 11571582--11571639 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
11571572 TTGAATTACT
* *
11571582 AAATA AAAT- AAATA AATAGTA AAATA AAATA AGAT- AAA-A AATTGA
1 AAATA AAATA AAATA AA-A-TA AAATA AAATA AAATA AAATA AAAT-A
11571627 AAATA AAATA AAA
1 AAATA AAATA AAA
11571640 ACTTAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
4 8 0.19
5 25 0.58
6 6 0.14
7 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:11571631 original size:19 final size:18
Alignment explanation
Indices: 11571602--11571673 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
11571592 AATAAATAGT
*
11571602 AAAA-TAAAATAAGATAA
1 AAAATTAAAATAAAATAA
11571619 AAAATTGAAAATAAAATAA
1 AAAATT-AAAATAAAATAA
*
11571638 AAACTTAAAATATGAAAATAA
1 AAAATT-AAA-AT-AAAATAA
* *
11571659 AAAAATAAAACAAAA
1 AAAATTAAAATAAAA
11571674 ATGAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 4 0.09
18 5 0.11
19 20 0.44
20 5 0.11
21 11 0.24
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAATTAAAATAAAATAA
Found at i:11571634 original size:24 final size:26
Alignment explanation
Indices: 11571582--11571639 Score: 84
Period size: 24 Copynumber: 2.3 Consensus size: 26
11571572 TTGAATTACT
11571582 AAATAAAATAAATAAATAGTAAAATA
1 AAATAAAATAAATAAATAGTAAAATA
* *
11571608 AAATAAGATAAA-AAATTG-AAAATA
1 AAATAAAATAAATAAATAGTAAAATA
11571632 AAATAAAA
1 AAATAAAA
11571640 ACTTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 13 0.45
25 5 0.17
26 11 0.38
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (26 bp):
AAATAAAATAAATAAATAGTAAAATA
Found at i:11571680 original size:19 final size:18
Alignment explanation
Indices: 11571652--11571687 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11571642 TTAAAATATG
11571652 AAAATAAAAAAATAAAACA
1 AAAATAAAAAAA-AAAACA
*
11571671 AAAATGAAAAAAAAAAC
1 AAAATAAAAAAAAAAAC
11571688 CTTGCGATCA
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:0.83, C:0.06, G:0.03, T:0.08
Consensus pattern (18 bp):
AAAATAAAAAAAAAAACA
Found at i:11572495 original size:3 final size:3
Alignment explanation
Indices: 11572476--11572522 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
11572466 AGAAAAGAAA
*
11572476 AAT AA- AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11572523 TATTATTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11572527 original size:3 final size:3
Alignment explanation
Indices: 11572521--11572552 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11572511 AATAATAATA
11572521 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11572553 AACTATAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11576993 original size:89 final size:90
Alignment explanation
Indices: 11576822--11576999 Score: 288
Period size: 89 Copynumber: 2.0 Consensus size: 90
11576812 TATATTGTGC
*
11576822 TCAAACACACACAAACATTATGTTCACACAAGCATAAAGAAAACATACAACATAGCACAAGGAAT
1 TCAAACACACACAAACAATATGTTCACACAAGCATAAAGAAAACATACAACATAGCACAAGGAAT
*
11576887 TGAGAAGGGCAAGATTTATCAGTGT
66 TGAGAAAGGCAAGATTTATCAGTGT
* *
11576912 TCAAACACACACAAACAATATGTTCACACAAGCATAGAG-GAACATACAACACT-GCACAAGGAA
1 TCAAACACACACAAACAATATGTTCACACAAGCATAAAGAAAACATACAACA-TAGCACAAGGAA
*
11576975 TTGAGAAAGGCGAGATTTATCAGTG
65 TTGAGAAAGGCAAGATTTATCAGTG
11577000 CGTTCAAATC
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
89 44 0.54
90 38 0.46
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.18
Consensus pattern (90 bp):
TCAAACACACACAAACAATATGTTCACACAAGCATAAAGAAAACATACAACATAGCACAAGGAAT
TGAGAAAGGCAAGATTTATCAGTGT
Found at i:11577237 original size:64 final size:64
Alignment explanation
Indices: 11577132--11577258 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 64
11577122 TTATTCAATC
* *
11577132 AGGAATAAGATATCATAGATTATCCAATTCAATCTACACTGTAGACAAAATGCTATAAGGATAA
1 AGGAATAAGATATCATAGATTATCCAATTCAATCTAAACTGTAGAAAAAATGCTATAAGGATAA
* *
11577196 AGGAATAAGATATTATAGATTATCCGATTCAATCTAAACTGTAGAAAAAATGCTATAAGGATA
1 AGGAATAAGATATCATAGATTATCCAATTCAATCTAAACTGTAGAAAAAATGCTATAAGGATA
11577259 CTTTAGTTGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.28
Consensus pattern (64 bp):
AGGAATAAGATATCATAGATTATCCAATTCAATCTAAACTGTAGAAAAAATGCTATAAGGATAA
Found at i:11581849 original size:73 final size:73
Alignment explanation
Indices: 11581728--11581877 Score: 248
Period size: 73 Copynumber: 2.1 Consensus size: 73
11581718 AAACCGATGA
* *
11581728 TAGACAATTATAACGATTCTTAAAAAAAATATACAAGTAATTTTAGATTTTCAAATTGAAAGTGA
1 TAGACAATTATAACCATTCTTAAAAAAAATATACAAGTAATTTCAGATTTTCAAATTGAAAGTGA
11581793 AAGAAAAT
66 AAGAAAAT
* *
11581801 TAGACAATTAT-ACCATTTTTTTAAAAAAATATACAAGTAATTTCAGATTTTCAAATTGAAAGTG
1 TAGACAATTATAACCA-TTCTTAAAAAAAATATACAAGTAATTTCAGATTTTCAAATTGAAAGTG
11581865 AAAGAAAAT
65 AAAGAAAAT
11581874 TAGA
1 TAGA
11581878 ATTTCAGTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 3 0.04
73 69 0.96
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (73 bp):
TAGACAATTATAACCATTCTTAAAAAAAATATACAAGTAATTTCAGATTTTCAAATTGAAAGTGA
AAGAAAAT
Found at i:11592345 original size:24 final size:23
Alignment explanation
Indices: 11592313--11592370 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
11592303 AATTACGCAA
*
11592313 TTTA-TAATATTTCGTTTAAAAAT
1 TTTACTAATATTT-GATTAAAAAT
11592336 TTTACTAATA-TTGATTAAAAAT
1 TTTACTAATATTTGATTAAAAAT
* *
11592358 TATACTAGTATTT
1 TTTACTAATATTT
11592371 TATAATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 17 0.57
23 8 0.27
24 5 0.17
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTACTAATATTTGATTAAAAAT
Found at i:11592671 original size:17 final size:18
Alignment explanation
Indices: 11592649--11592684 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
11592639 AAGAAAAAAA
11592649 TAAAATTATATTA-AATC
1 TAAAATTATATTATAATC
*
11592666 TAAAATTATGTTATAATC
1 TAAAATTATATTATAATC
11592684 T
1 T
11592685 TTGGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
TAAAATTATATTATAATC
Found at i:11594837 original size:10 final size:10
Alignment explanation
Indices: 11594824--11594864 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
11594814 TCGAACTAAA
11594824 TTATATATTT
1 TTATATATTT
11594834 TTAT-TAATTT
1 TTATAT-ATTT
11594844 TTATATATTT
1 TTATATATTT
*
11594854 TT-TAAATTT
1 TTATATATTT
11594863 TT
1 TT
11594865 GTAAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 9 0.32
10 18 0.64
11 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATATATTT
Found at i:11594849 original size:20 final size:19
Alignment explanation
Indices: 11594824--11594864 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
11594814 TCGAACTAAA
*
11594824 TTATATATTTTTATTAATTT
1 TTATATATTTTT-TAAATTT
11594844 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
11594863 TT
1 TT
11594865 GTAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:11594858 original size:18 final size:21
Alignment explanation
Indices: 11594824--11594864 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
11594814 TCGAACTAAA
11594824 TTATATATTTTTATT-AATTT
1 TTATATATTTTTATTAAATTT
11594844 TTATATA-TTTT-TTAAATTT
1 TTATATATTTTTATTAAATTT
11594863 TT
1 TT
11594865 GTAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.10
19 11 0.55
20 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATATATTTTTATTAAATTT
Found at i:11596044 original size:21 final size:19
Alignment explanation
Indices: 11596020--11596067 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
11596010 ATAATTACAT
11596020 AATTTATTGTTAAAATATTAA
1 AATTTATT-TTAAAA-ATTAA
*
11596041 AATTTTAATTTTAATAATTAA
1 AA-TTT-ATTTTAAAAATTAA
11596062 AATTTA
1 AATTTA
11596068 AATCATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 9 0.38
22 8 0.33
23 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AATTTATTTTAAAAATTAA
Found at i:11596076 original size:21 final size:21
Alignment explanation
Indices: 11596036--11596080 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11596026 TTGTTAAAAT
* **
11596036 ATTAAAATTTTAATTTTAATA
1 ATTAAAATTTAAATCATAATA
11596057 ATTAAAATTTAAATCATAATA
1 ATTAAAATTTAAATCATAATA
11596078 ATT
1 ATT
11596081 TCAGATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTAAAATTTAAATCATAATA
Found at i:11598052 original size:22 final size:25
Alignment explanation
Indices: 11597987--11598053 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 25
11597977 TAATATTCTA
*
11597987 ATAATATTCTAAATTAATTTCAATG
1 ATAATATTCTAGATTAATTTCAATG
* *
11598012 ATATTATTCTAG-TTAAATTT-TA-G
1 ATAATATTCTAGATT-AATTTCAATG
11598035 -TAATATTCTAGATTAATTT
1 ATAATATTCTAGATTAATTT
11598054 GATATTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
22 15 0.42
23 3 0.08
24 3 0.08
25 15 0.42
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (25 bp):
ATAATATTCTAGATTAATTTCAATG
Found at i:11601615 original size:18 final size:19
Alignment explanation
Indices: 11601592--11601627 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11601582 TTTTCTTATT
*
11601592 TATATT-ATTATTTTTTAA
1 TATATTAATTAATTTTTAA
11601610 TATATTAATTAATTTTTA
1 TATATTAATTAATTTTTA
11601628 TTTATTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATTAATTAATTTTTAA
Found at i:11601854 original size:17 final size:17
Alignment explanation
Indices: 11601809--11601864 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
11601799 ATCAATATTA
*
11601809 TTATTATTATTATAAAGTT
1 TTATTA-TATTTTAAA-TT
* *
11601828 TCATTAT-TTTT-CATT
1 TTATTATATTTTAAATT
11601843 TTATTATATTTTAAATT
1 TTATTATATTTTAAATT
11601860 TTATT
1 TTATT
11601865 TTAAAATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 8 0.27
16 5 0.17
17 11 0.37
18 1 0.03
19 5 0.17
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTATATTTTAAATT
Found at i:11602996 original size:3 final size:3
Alignment explanation
Indices: 11602990--11603035 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
11602980 CTTTTTTTTA
** *
11602990 ATT ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT ATT AAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11603036 AACTGGAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:11604814 original size:22 final size:23
Alignment explanation
Indices: 11604788--11604866 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 23
11604778 AATGTCAATG
11604788 ATATTTTAGTAATATTC-TGATA
1 ATATTTTAGTAATATTCATGATA
* *
11604810 ATATTCTAG-ATTGATTTCAATGATA
1 ATATTTTAGTAAT-A-TTC-ATGATA
*
11604835 TTATTTTAGTAATATTTCA--ATA
1 ATATTTTAGTAATA-TTCATGATA
*
11604857 ATATTCTAGT
1 ATATTTTAGT
11604867 TTAATTTGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 2 0.04
22 20 0.44
23 3 0.07
24 1 0.02
25 17 0.38
26 2 0.04
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.49
Consensus pattern (23 bp):
ATATTTTAGTAATATTCATGATA
Found at i:11604851 original size:25 final size:25
Alignment explanation
Indices: 11604789--11604861 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
11604779 ATGTCAATGA
*
11604789 TATTTTAGTAATA-TTC--TGATAA
1 TATTTTAGTAATATTTCAATGATAT
* *
11604811 TATTCTAG-ATTGATTTCAATGATAT
1 TATTTTAGTAAT-ATTTCAATGATAT
*
11604836 TATTTTAGTAATATTTCAATAATAT
1 TATTTTAGTAATATTTCAATGATAT
11604861 T
1 T
11604862 CTAGTTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 3 0.08
25 25 0.62
26 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (25 bp):
TATTTTAGTAATATTTCAATGATAT
Found at i:11604873 original size:22 final size:21
Alignment explanation
Indices: 11604807--11604873 Score: 53
Period size: 25 Copynumber: 2.9 Consensus size: 21
11604797 TAATATTCTG
*
11604807 ATAATATTCTAGATTGATTTCA
1 ATAATATTCTAG-TTAATTTCA
* *
11604829 ATGATATTATTTTAGTAATATTTCA
1 AT-A-A-TATTCTAGTTA-ATTTCA
11604854 ATAATATTCTAGTTTAATTT
1 ATAATATTCTAG-TTAATTT
11604874 GATATTGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
22 13 0.37
23 4 0.11
24 3 0.09
25 15 0.43
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (21 bp):
ATAATATTCTAGTTAATTTCA
Found at i:11605389 original size:26 final size:25
Alignment explanation
Indices: 11605341--11605389 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
11605331 TCCATGACAT
* **
11605341 TTTTTTTTTAAATTTCATTATTTTC
1 TTTTATTTTAAATTTCAAAATTTTC
11605366 TTTTATTTTATAATTTCAAAATTT
1 TTTTATTTTA-AATTTCAAAATTT
11605390 CTTAAAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTATTTTAAATTTCAAAATTTTC
Found at i:11609059 original size:35 final size:36
Alignment explanation
Indices: 11608977--11609078 Score: 125
Period size: 36 Copynumber: 2.8 Consensus size: 36
11608967 TCCCTAAATG
* * * *
11608977 CAAATTGAGTGCTGACATATTCAGAAAAAATATGGT
1 CAAATTGTGTGTTGACATATTCAGAAAAAAGATAGT
* *
11609013 CAAATTATGTGTTGACATATTCAGAAACAAGA-AGT
1 CAAATTGTGTGTTGACATATTCAGAAAAAAGATAGT
*
11609048 CAAATTGTGTGTTGACATGTTCAGGAAAAAA
1 CAAATTGTGTGTTGACATATTCA-GAAAAAA
11609079 AAAAAGACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 23 0.41
36 33 0.59
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (36 bp):
CAAATTGTGTGTTGACATATTCAGAAAAAAGATAGT
Found at i:11615110 original size:62 final size:63
Alignment explanation
Indices: 11614956--11615093 Score: 183
Period size: 63 Copynumber: 2.2 Consensus size: 63
11614946 TTTTTTTTGG
* * *** *
11614956 AGATTATTTAAGGTATTTTTTGGTTAAAAACGTCTTAAATAATCATCTATAAAAAATTGAATG
1 AGATTATTTAAGGTATTTTTTAGTCAAAAATACCTTAAATAATCATCTATAAAAAATTGAATC
11615019 AGATTATTTAAGGTATTTTTTAGTCAAAAATACCTTAAATAATC-TCCTA-AAAAAATTG-ATC
1 AGATTATTTAAGGTATTTTTTAGTCAAAAATACCTTAAATAATCAT-CTATAAAAAATTGAATC
11615080 AGTATTATTTAAGG
1 AG-ATTATTTAAGG
11615094 CCTTTTTTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
61 4 0.06
62 21 0.31
63 42 0.63
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (63 bp):
AGATTATTTAAGGTATTTTTTAGTCAAAAATACCTTAAATAATCATCTATAAAAAATTGAATC
Found at i:11615111 original size:63 final size:63
Alignment explanation
Indices: 11614956--11615111 Score: 176
Period size: 63 Copynumber: 2.5 Consensus size: 63
11614946 TTTTTTTTGG
* * *** *
11614956 AGATTATTTAAGGTATTTTTTGGTTAAAAACGTCTTAAATAATCATCTATAAAAAATTGAATG
1 AGATTATTTAAGGTATTTTTTAGTAAAAAATACCTTAAATAATCATCTATAAAAAATTGAATC
*
11615019 AGATTATTTAAGGTATTTTTTAGTCAAAAATACCTTAAATAATC-TCCTA-AAAAAATTG-ATC
1 AGATTATTTAAGGTATTTTTTAGTAAAAAATACCTTAAATAATCAT-CTATAAAAAATTGAATC
*
11615080 AGTATTATTTAAGGCCT-TTTTTTATTAAAAAA
1 AG-ATTATTTAAGG--TATTTTTTAGTAAAAAA
11615112 ACGCCTTAAC
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
61 4 0.05
62 21 0.26
63 55 0.68
64 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (63 bp):
AGATTATTTAAGGTATTTTTTAGTAAAAAATACCTTAAATAATCATCTATAAAAAATTGAATC
Found at i:11615341 original size:62 final size:61
Alignment explanation
Indices: 11615264--11615386 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 61
11615254 TCTTATAAGT
* *
11615264 AATTAAAAGAGATTATTTAAGATA-TTTTTAGTTAAAAACGCCTTAAATAATACAATTCAAAA
1 AATTAAAAAAGATTATTTAAGATATTTTTTA-TCAAAAACGCCTTAAATAATACAATT-AAAA
* * *
11615326 AATTAAAAAATATTATTTAAGATATTTTTTATCAAAAATGCCTTAAATAATACTATTAAAA
1 AATTAAAAAAGATTATTTAAGATATTTTTTATCAAAAACGCCTTAAATAATACAATTAAAA
11615387 TATCATTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 4 0.07
62 45 0.82
63 6 0.11
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (61 bp):
AATTAAAAAAGATTATTTAAGATATTTTTTATCAAAAACGCCTTAAATAATACAATTAAAA
Found at i:11615782 original size:62 final size:61
Alignment explanation
Indices: 11615713--11615909 Score: 229
Period size: 63 Copynumber: 3.2 Consensus size: 61
11615703 TAAAAAAAGT
* *
11615713 CTTAAATAATACCCTTTAAAAAATTGAAAGTATTATTTAAAGCATTTTTTAATCAAAAATGC
1 CTTAAATAATACCCTTTAAAAAATTGAAAGTATTATTT-AAGCATTTTTTTATCAAAAATAC
* * *
11615775 CTTAAATAAT-CCCTTTTAAAAAAATATTAGAG-ATTATTTAAGACATTTTTTTATCAAAAATAT
1 CTTAAATAATACCC-TTT-AAAAAAT-TGAAAGTATTATTTAAG-CATTTTTTTATCAAAAATAC
* * * *
11615838 TTTAAATAATATCTTTTAAAAAATTGAAAAGTATTATTTAAG-ATTTTTTTTACCAAAAATAC
1 CTTAAATAATACCCTTTAAAAAATTG-AAAGTATTATTTAAGCA-TTTTTTTATCAAAAATAC
11615900 CTTAAATAAT
1 CTTAAATAAT
11615910 TTCCTCTTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
61 5 0.04
62 51 0.45
63 53 0.46
64 5 0.04
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (61 bp):
CTTAAATAATACCCTTTAAAAAATTGAAAGTATTATTTAAGCATTTTTTTATCAAAAATAC
Found at i:11615785 original size:162 final size:160
Alignment explanation
Indices: 11615519--11615815 Score: 400
Period size: 163 Copynumber: 1.8 Consensus size: 160
11615509 TGAAAGTGAT
* *
11615519 TATTTAAGGTATTTTTAGTAAAAAAAAATATCTTAAATAATACAGTCTAAAAAAGTGAAAGTTAT
1 TATTTAAGGTATTTTTAGTAAAAAAAAAAATCTTAAATAATACACTCTAAAAAAGTGAAAGTTAT
* * * * *
11615584 TATCTAAGGCATTTTTTTATCAAAAACACTTTAAATAATCTC-TTTAAAAAAATAGTATAAATTA
66 TATCTAAAGCATTTTTTAATCAAAAACACCTTAAATAATCCCTTTTAAAAAAATAGTAGAAATTA
11615648 TTTAAATAATCTCTTTTAAAAAAAATTAGA
131 TTTAAATAATCTCTTTTAAAAAAAATTAGA
* * * *
11615678 TATTTAAGGTATTTTTTGTCAAAAATAAAAAAAGTCTTAAATAATACCCTTTAAAAAATTGAAAG
1 TATTTAAGGTATTTTTAGT--AAAA-AAAAAAA-TCTTAAATAATACACTCTAAAAAAGTGAAAG
* ** * *
11615743 -TATTATTTAAAGCATTTTTTAATCAAAAATGCCTTAAATAATCCCTTTTAAAAAAATATTAGAG
62 TTATTATCTAAAGCATTTTTTAATCAAAAACACCTTAAATAATCCCTTTTAAAAAAATAGTAGAA
11615807 ATTATTTAA
127 ATTATTTAA
11615816 GACATTTTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
159 18 0.15
161 4 0.03
162 44 0.38
163 51 0.44
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (160 bp):
TATTTAAGGTATTTTTAGTAAAAAAAAAAATCTTAAATAATACACTCTAAAAAAGTGAAAGTTAT
TATCTAAAGCATTTTTTAATCAAAAACACCTTAAATAATCCCTTTTAAAAAAATAGTAGAAATTA
TTTAAATAATCTCTTTTAAAAAAAATTAGA
Found at i:11618461 original size:20 final size:20
Alignment explanation
Indices: 11618436--11618481 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
11618426 GAAGAAAGTC
11618436 TTACCTGTATATACTCTTTA
1 TTACCTGTATATACTCTTTA
11618456 TTACCTGTATATACTCTTTA
1 TTACCTGTATATACTCTTTA
11618476 TTACCT
1 TTACCT
11618482 TAGCATGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.50
Consensus pattern (20 bp):
TTACCTGTATATACTCTTTA
Found at i:11627419 original size:3 final size:3
Alignment explanation
Indices: 11627413--11627444 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11627403 AAAAAGATAA
*
11627413 TAG TAG TAG TAT TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
11627445 ATAATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (3 bp):
TAG
Found at i:11631715 original size:21 final size:21
Alignment explanation
Indices: 11631674--11631716 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11631664 TAGTTTTCAG
*
11631674 TCATTTTTATTCAAAGTTTTT
1 TCATTTTTATTCAAACTTTTT
*
11631695 TCATTTTT-TTCTAACTATTTT
1 TCATTTTTATTCAAACT-TTTT
11631716 T
1 T
11631717 TCGATTGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.65
Consensus pattern (21 bp):
TCATTTTTATTCAAACTTTTT
Found at i:11637235 original size:11 final size:10
Alignment explanation
Indices: 11637218--11637274 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 10
11637208 AAGATGCCAG
*
11637218 AAAAAAATAA
1 AAAAAAAGAA
11637228 AGAAAAAAGAA
1 A-AAAAAAGAA
*
11637239 AAAAAATGAA
1 AAAAAAAGAA
11637249 AACGAAAAGAGAA
1 AA--AAAA-AGAA
*
11637262 AAGAAAAGAA
1 AAAAAAAGAA
11637272 AAA
1 AAA
11637275 TAAATAGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
10 17 0.45
11 12 0.32
12 4 0.11
13 5 0.13
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.04
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:11637255 original size:23 final size:22
Alignment explanation
Indices: 11637218--11637273 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
11637208 AAGATGCCAG
11637218 AAAAAAAT--AAAGAAAAAAGA
1 AAAAAAATGAAAAGAAAAAAGA
*
11637238 AAAAAAATGAAAACGAAAAGAGA
1 AAAAAAATGAAAA-GAAAAAAGA
11637261 AAAGAAAA-GAAAA
1 AAA-AAAATGAAAA
11637274 ATAAATAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 8 0.26
22 3 0.10
23 16 0.52
24 4 0.13
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (22 bp):
AAAAAAATGAAAAGAAAAAAGA
Found at i:11638222 original size:288 final size:288
Alignment explanation
Indices: 11637706--11638265 Score: 1075
Period size: 288 Copynumber: 1.9 Consensus size: 288
11637696 AGCTAACACA
* *
11637706 TTTTATAATGAGATTTTTGTAAATTTTGAACATTCATGATATCATGCAACTTGATTTGATTGTCT
1 TTTTATAATGAGATTTTTGTAAATTTTAAACATTCATGATATCATGCAACCTGATTTGATTGTCT
* *
11637771 TTTATAATTATTATTTTCGTTCATTTTTATTCCGAGAGATGAATTAATACAAGCTATGACACAGT
66 TTTATAATTATTATTTTCATTCATTTTTATTCCGAAAGATGAATTAATACAAGCTATGACACAGT
*
11637836 ATATGAAATGGAGATGAGGTGTGGCTTTCCCACATATTGCTCTAGATTGGACTACAAGTAAATTT
131 ATATGAAATGGAGATGAGGTATGGCTTTCCCACATATTGCTCTAGATTGGACTACAAGTAAATTT
11637901 TTCCTTTTATATTGCTCTAGTCTATTCCTTGATTAAATTCATAATTTTTCATATTAATATTTTTT
196 TTCCTTTTATATTGCTCTAGTCTATTCCTTGATTAAATTCATAATTTTTCATATTAATATTTTTT
11637966 TATTTTACCTTTATTTTTCATAATATTT
261 TATTTTACCTTTATTTTTCATAATATTT
11637994 TTTTATAATGAGATTTTTGTAAATTTTAAACATTCATGATATCATGCAACCTGATTTGATTGTCT
1 TTTTATAATGAGATTTTTGTAAATTTTAAACATTCATGATATCATGCAACCTGATTTGATTGTCT
11638059 TTTATAATTATTATTTTCATTCATTTTTATTCCGAAAGATGAATTAATACAAGCTATGACACAGT
66 TTTATAATTATTATTTTCATTCATTTTTATTCCGAAAGATGAATTAATACAAGCTATGACACAGT
11638124 ATATGAAATGGAGATGAGGTATGGCTTTCCCACATATTGCTCTAGATTGGACTACAAGTAAATTT
131 ATATGAAATGGAGATGAGGTATGGCTTTCCCACATATTGCTCTAGATTGGACTACAAGTAAATTT
11638189 TTCCTTTTATATTGCTCTAGTCTATTCCTTGATTAAATTCATAATTTTTCATATTAATATTTTTT
196 TTCCTTTTATATTGCTCTAGTCTATTCCTTGATTAAATTCATAATTTTTCATATTAATATTTTTT
11638254 TATTTTACCTTT
261 TATTTTACCTTT
11638266 TTTCTCTTAT
Statistics
Matches: 267, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
288 267 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (288 bp):
TTTTATAATGAGATTTTTGTAAATTTTAAACATTCATGATATCATGCAACCTGATTTGATTGTCT
TTTATAATTATTATTTTCATTCATTTTTATTCCGAAAGATGAATTAATACAAGCTATGACACAGT
ATATGAAATGGAGATGAGGTATGGCTTTCCCACATATTGCTCTAGATTGGACTACAAGTAAATTT
TTCCTTTTATATTGCTCTAGTCTATTCCTTGATTAAATTCATAATTTTTCATATTAATATTTTTT
TATTTTACCTTTATTTTTCATAATATTT
Found at i:11639732 original size:290 final size:291
Alignment explanation
Indices: 11639199--11639732 Score: 742
Period size: 292 Copynumber: 1.8 Consensus size: 291
11639189 GTGTTCTAGT
* *
11639199 ATTATTTGTTAATAGGCAACATTTTGTCTCATATCTTGGCTGATTTGTTTATTAATCTTATTGTA
1 ATTATATGTTAATAGGCAACATTTTGTCTCATATCTTAGCTGATTTGTTTATTAATCTTATTGTA
* * * * *
11639264 TCTCATTTTAAGTATGTCTTTTATCTTATATATAGATGATTAGATGTCCACATTTTTTTTCTCCC
66 TCTAATTCTAAGTATGTCTTTTATCTTATATACAGATGATTAGATGTCCAAATTTATTTTCTCCC
* * *
11639329 CTCTCATCTAACGTTTCTTTAAGATCGATGTGTCAAGTGTTCATTGATATAGCATCCTTAATAGG
131 CTCTCATCTAACGTTTCTTCAAAATCGA-GTGTCAAGTGTTCATTGATATAGCATCCTTAATAAG
*
11639394 CATGCAAATAATCTCATACATTTAAAAATATGTTTTCTTTATTGAATTCATGGTTCAATGCTCAT
195 CATGCAAATAATCTCATACATCTAAAAATATGTTTTCTTTATTGAATTCATGGTTCAATGCTCAT
11639459 GATACGTTTTTTTATTAGAAATCAGTTCTGCC
260 GATACGTTTTTTTATTAGAAATCAGTTCTGCC
* * ** * *
11639491 ATTATATGTTTATAGGCAACA-TTTGATTTGGTATCTTAGTTGATTTGTTCT-TTAATTTTATTG
1 ATTATATGTTAATAGGCAACATTTTG-TCTCATATCTTAGCTGATTTGTT-TATTAATCTTATTG
11639554 TATCTAATTCTAAGTATGTC-TTTATCTTATATACAGATGATTAGATGTCCAAATTTGATTTTCA
64 TATCTAATTCTAAGTATGTCTTTTATCTTATATACAGATGATTAGATGTCCAAATTT-ATTTTC-
* * *
11639618 T-TCTTCTCATCTAACGTTTCTTCAAAATTG-GTG-CGAAGTGTTCATTGATATCA-CATCCTTA
127 TCCCCTCTCATCTAACGTTTCTTCAAAATCGAGTGTC-AAGTGTTCATTGATAT-AGCATCCTTA
* *
11639679 ATAAGTATGCAAATAATC-CTATACATCTAAAAATCTGTTTTCTTTATTGAATTC
190 ATAAGCATGCAAATAATCTC-ATACATCTAAAAATATGTTTTCTTTATTGAATTC
11639733 GTGACTAAAT
Statistics
Matches: 213, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
289 2 0.01
290 75 0.35
291 39 0.18
292 95 0.45
293 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (291 bp):
ATTATATGTTAATAGGCAACATTTTGTCTCATATCTTAGCTGATTTGTTTATTAATCTTATTGTA
TCTAATTCTAAGTATGTCTTTTATCTTATATACAGATGATTAGATGTCCAAATTTATTTTCTCCC
CTCTCATCTAACGTTTCTTCAAAATCGAGTGTCAAGTGTTCATTGATATAGCATCCTTAATAAGC
ATGCAAATAATCTCATACATCTAAAAATATGTTTTCTTTATTGAATTCATGGTTCAATGCTCATG
ATACGTTTTTTTATTAGAAATCAGTTCTGCC
Found at i:11645258 original size:12 final size:13
Alignment explanation
Indices: 11645216--11645268 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
11645206 AAAAATTATA
11645216 AAATATATTTTTT
1 AAATATATTTTTT
11645229 GAAAGATTATATTTTTT
1 --AA-A-TATATTTTTT
*
11645246 AAATATATTTTTA
1 AAATATATTTTTT
*
11645259 AAAAATATTT
1 AAATATATTT
11645269 AAAAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 18 0.53
14 1 0.03
15 4 0.12
16 1 0.03
17 10 0.29
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (13 bp):
AAATATATTTTTT
Found at i:11654909 original size:2 final size:2
Alignment explanation
Indices: 11654902--11654928 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11654892 CAAATAAACC
11654902 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 A
11654929 GATCTTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11656804 original size:20 final size:21
Alignment explanation
Indices: 11656781--11656819 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11656771 TGACTCAATT
*
11656781 GATTATTA-TAAAAATAAAAA
1 GATTAATATTAAAAATAAAAA
*
11656801 GATTAATATTAAATATAAA
1 GATTAATATTAAAAATAAA
11656820 TTTAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
GATTAATATTAAAAATAAAAA
Found at i:11656831 original size:11 final size:12
Alignment explanation
Indices: 11656809--11656837 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
11656799 AAGATTAATA
11656809 TTAAATATAAAT
1 TTAAATATAAAT
11656821 TTAAA-ATAAAT
1 TTAAATATAAAT
11656832 TTAAAT
1 TTAAAT
11656838 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAATATAAAT
Found at i:11659310 original size:27 final size:27
Alignment explanation
Indices: 11659280--11659339 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
11659270 AAATCTTCTG
*
11659280 AAAATCT-TGAAAATTAAAAAAAATTGA
1 AAAATCTAT-AAAATTAAAAAAAATAGA
***
11659307 AAAATCTATAAAATTTCTAAAAATAGA
1 AAAATCTATAAAATTAAAAAAAATAGA
11659334 AAAATC
1 AAAATC
11659340 AGAAAAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.27
Consensus pattern (27 bp):
AAAATCTATAAAATTAAAAAAAATAGA
Found at i:11659346 original size:27 final size:27
Alignment explanation
Indices: 11659298--11659356 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
11659288 GAAAATTAAA
* *
11659298 AAAAATTGAAAAATCTATAAAAT-TTCT
1 AAAAATAGAAAAATCTAAAAAATCTT-T
11659325 AAAAATAGAAAAATC-AGAAAAATCTTT
1 AAAAATAGAAAAATCTA-AAAAATCTTT
11659352 AAAAA
1 AAAAA
11659357 CATTCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (27 bp):
AAAAATAGAAAAATCTAAAAAATCTTT
Found at i:11659573 original size:28 final size:28
Alignment explanation
Indices: 11659542--11659601 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
11659532 AAAAACAGTG
11659542 AAATTTTCAAAAAAAATAAAAATTCTAA
1 AAATTTTCAAAAAAAATAAAAATTCTAA
* * * *
11659570 AAATTTTTAAAAAATATAAAATTTTTAA
1 AAATTTTCAAAAAAAATAAAAATTCTAA
11659598 AAAT
1 AAAT
11659602 CTAGAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (28 bp):
AAATTTTCAAAAAAAATAAAAATTCTAA
Found at i:11659609 original size:19 final size:18
Alignment explanation
Indices: 11659558--11659609 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
11659548 TCAAAAAAAA
11659558 TAAAAATTCTAAAAATTTT
1 TAAAAA-TCTAAAAATTTT
*
11659577 TAAAAA-ATATAAAATTTT
1 TAAAAATCTA-AAAATTTT
11659595 TAAAAATCTAGAAAA
1 TAAAAATCTA-AAAA
11659610 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.07
18 14 0.50
19 12 0.43
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAATCTAAAAATTTT
Found at i:11659609 original size:28 final size:28
Alignment explanation
Indices: 11659550--11659610 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
11659540 TGAAATTTTC
* **
11659550 AAAAAAAATAAAAATTCTAAAAATTTTT
1 AAAAAAAATAAAAATTCTAAAAATCTAG
* * *
11659578 AAAAAATATAAAATTTTTAAAAATCTAG
1 AAAAAAAATAAAAATTCTAAAAATCTAG
11659606 AAAAA
1 AAAAA
11659611 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAAAAATAAAAATTCTAAAAATCTAG
Found at i:11659645 original size:21 final size:21
Alignment explanation
Indices: 11659619--11659674 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
11659609 AATTAAAAAA
11659619 AAAAACAATCTAAAAAATTTT
1 AAAAACAATCTAAAAAATTTT
**
11659640 AAAAAC-CCCTAAAAAATTTT
1 AAAAACAATCTAAAAAATTTT
* *
11659660 CAAAA-AATCTGAAAA
1 AAAAACAATCTAAAAA
11659675 TTAAAAGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAACAATCTAAAAAATTTT
Found at i:11659653 original size:63 final size:63
Alignment explanation
Indices: 11659550--11659704 Score: 147
Period size: 62 Copynumber: 2.4 Consensus size: 63
11659540 TGAAATTTTC
* * *
11659550 AAAAAAAATAAAAATTCTAAAAATTTTTAAAAAATAT-AAAATTTT-TAAAAATCTAGAAAAATT
1 AAAAAAAATAAAAATTCTAAAAAATTTTAAAAAACATAAAAATTTTCAAAAAATCT-G-AAAATT
* *
11659613 AAAAAAAA-AAACAA-TCTAAAAAATTTTAAAAACCCCTAAAAAATTTTCAAAAAATCTGAAAAT
1 AAAAAAAATAAA-AATTCTAAAAAATTTTAAAAA-ACAT-AAAAATTTTCAAAAAATCTGAAAAT
11659676 T
63 T
* *
11659677 AAAAGCAACAATAAATATTCAAAAAAAT
1 AAAA--AA-AATAAAAATTCTAAAAAAT
11659705 CTAAAGATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 15
0.77 0.07 0.15
Matches are distributed among these distances:
62 20 0.27
63 11 0.15
64 10 0.13
65 9 0.12
66 10 0.13
67 3 0.04
68 12 0.16
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (63 bp):
AAAAAAAATAAAAATTCTAAAAAATTTTAAAAAACATAAAAATTTTCAAAAAATCTGAAAATT
Found at i:11659674 original size:20 final size:19
Alignment explanation
Indices: 11659558--11659674 Score: 58
Period size: 20 Copynumber: 5.7 Consensus size: 19
11659548 TCAAAAAAAA
* *
11659558 TAAAAATTCTAAAAATTTT
1 TAAAAAATCTAAAAAATTT
*
11659577 TAAAAAA--TATAAAATTT
1 TAAAAAATCTAAAAAATTT
* *
11659594 TTAAAAATCTAGAAAAATTAAAAAA
1 TAAAAAATCTA-AAAAATT-----T
*
11659619 AAAAACAATCTAAAAAATTT
1 TAAAA-AATCTAAAAAATTT
**
11659639 TAAAAACCCCTAAAAAATTT
1 TAAAAA-ATCTAAAAAATTT
11659659 TCAAAAAATCTGAAAA
1 T-AAAAAATCT-AAAA
11659675 TTAAAAGCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
17 14 0.19
19 9 0.12
20 24 0.33
21 9 0.12
25 10 0.14
26 6 0.08
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAAAATCTAAAAAATTT
Found at i:11660036 original size:20 final size:19
Alignment explanation
Indices: 11659993--11660036 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
11659983 ATTTTAAATT
*
11659993 TTTTTTAATTTTTCTATAA
1 TTTTTTAATTTTTCTAGAA
* *
11660012 CTTTTTCATATTTTCTAGAA
1 TTTTTTAAT-TTTTCTAGAA
11660032 TTTTT
1 TTTTT
11660037 AGGATTTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTTAATTTTTCTAGAA
Found at i:11660044 original size:27 final size:26
Alignment explanation
Indices: 11660014--11660070 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
11660004 TTCTATAACT
*
11660014 TTTTCATATTTTCTAGAATTT-TTAGGA
1 TTTTCAAATTTTCTAG-ATTTATT-GGA
*
11660041 TTTTCAAATTTTTTAGATTTATTGGA
1 TTTTCAAATTTTCTAGATTTATTGGA
11660067 TTTT
1 TTTT
11660071 TAGAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.60
Consensus pattern (26 bp):
TTTTCAAATTTTCTAGATTTATTGGA
Found at i:11661157 original size:19 final size:19
Alignment explanation
Indices: 11661133--11661186 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
11661123 TCATTAGAGT
11661133 AAAAATTCAAAAAAATTTA-
1 AAAAA-TCAAAAAAATTTAG
*
11661152 AAAAAT-AAAAATATTTAG
1 AAAAATCAAAAAAATTTAG
* *
11661170 ATAAATCGAAAAAATTT
1 AAAAATCAAAAAAATTT
11661187 TAGTTCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 10 0.34
18 6 0.21
19 13 0.45
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAATCAAAAAAATTTAG
Found at i:11661228 original size:9 final size:9
Alignment explanation
Indices: 11661214--11661294 Score: 58
Period size: 9 Copynumber: 8.8 Consensus size: 9
11661204 AATTTTTTTT
11661214 AAAAATTCA
1 AAAAATTCA
*
11661223 AAAAATTTTAA
1 AAAAA--TTCA
*
11661234 AAAAAATCTA
1 AAAAATTC-A
11661244 TAAAAATT-A
1 -AAAAATTCA
*
11661253 ATAAATTCA
1 AAAAATTCA
*
11661262 AAAAA-TCT
1 AAAAATTCA
*
11661270 AAAAATTTA
1 AAAAATTCA
*
11661279 AAATATTCA
1 AAAAATTCA
11661288 AAAAATT
1 AAAAATT
11661295 TTGACAAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
8 13 0.24
9 26 0.48
10 1 0.02
11 14 0.26
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTCA
Found at i:11661267 original size:17 final size:17
Alignment explanation
Indices: 11661213--11661281 Score: 50
Period size: 17 Copynumber: 3.8 Consensus size: 17
11661203 AAATTTTTTT
*
11661213 TAAAAATTCAAAAAATTT
1 TAAAAATTCAAAAAA-TC
*
11661231 TAAAAAAAATCTATAAAAAT-
1 T--AAAAATTC-A-AAAAATC
11661251 TAATAAATTCAAAAAATC
1 TAA-AAATTCAAAAAATC
*
11661269 TAAAAATTTAAAA
1 TAAAAATTCAAAA
11661282 TATTCAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
17 15 0.36
18 7 0.17
19 5 0.12
20 8 0.19
21 2 0.05
22 5 0.12
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATTCAAAAAATC
Found at i:11661274 original size:26 final size:27
Alignment explanation
Indices: 11661234--11661293 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
11661224 AAAATTTTAA
11661234 AAAAAATCTATAAAAATTAATAA-ATTC
1 AAAAAATCTATAAAAATTAA-AATATTC
*
11661261 AAAAAATCTA-AAAATTTAAAATATTC
1 AAAAAATCTATAAAAATTAAAATATTC
11661287 AAAAAAT
1 AAAAAAT
11661294 TTTGACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 2 0.06
26 19 0.61
27 10 0.32
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAAAATCTATAAAAATTAAAATATTC
Found at i:11661511 original size:14 final size:13
Alignment explanation
Indices: 11661466--11661513 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
11661456 ATCCAAGACC
*
11661466 TAAAAAAATAAAAA
1 TAAAAAAAT-GAAA
11661480 TAAAAAAATGAAA
1 TAAAAAAATGAAA
*
11661493 T-AAAAACTGAAA
1 TAAAAAAATGAAA
11661505 TTAAAAAAA
1 -TAAAAAAA
11661514 AAAGAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 10 0.34
13 5 0.17
14 14 0.48
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (13 bp):
TAAAAAAATGAAA
Found at i:11661815 original size:24 final size:23
Alignment explanation
Indices: 11661758--11661824 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
11661748 TAAAAGTGAA
**
11661758 AAATGTAAAAAAAATTTAAATTTC
1 AAATGTAAAAAAAA-TTAAATAAC
11661782 AAATGTTAAAAAAAATTAAATAAC
1 AAATG-TAAAAAAAATTAAATAAC
*
11661806 ATATTGT-AAAAAAATTAAA
1 A-AATGTAAAAAAAATTAAA
11661825 ATATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 12 0.32
24 14 0.37
25 12 0.32
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (23 bp):
AAATGTAAAAAAAATTAAATAAC
Found at i:11661832 original size:23 final size:22
Alignment explanation
Indices: 11661790--11661842 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
11661780 TCAAATGTTA
11661790 AAAAAAATTAAATAACATATTGT
1 AAAAAAATTAAATAACATATT-T
*
11661813 AAAAAAATTAAA-ATATATATTT
1 AAAAAAATTAAATA-ACATATTT
*
11661835 GAAAAAAT
1 AAAAAAAT
11661843 GGAAAACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
AAAAAAATTAAATAACATATTT
Found at i:11668266 original size:15 final size:15
Alignment explanation
Indices: 11668243--11668294 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
11668233 ATTAGTTTAG
*
11668243 TATTATTATTAAATT
1 TATTTTTATTAAATT
* *
11668258 TATTTTTATATTATTT
1 TATTTTTAT-TAAATT
11668274 TATTTTT-TTAAAGTT
1 TATTTTTATTAAA-TT
11668289 TATTTT
1 TATTTT
11668295 AAAAATTAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 2 0.07
15 17 0.57
16 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTTTATTAAATT
Found at i:11669754 original size:48 final size:47
Alignment explanation
Indices: 11669575--11670619 Score: 873
Period size: 48 Copynumber: 22.1 Consensus size: 47
11669565 TGAAAATTTA
* * *
11669575 ATCTGAAAAAGACTCATCTCAGTAGAGGCTCAACAACTTTAAAATCT-
1 ATCT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* ** * * * * *
11669622 -T-GAAAAAGGCTTATTTCAGTAAAGGTTCAACGACTTTAAAATCTC
1 ATCTAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * * * *
11669667 ATCTTGAAAATGGCTCCTTTCAACAGAGGTTTAATAACTTTAAAAATCTC
1 ATC-T-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* * * * *
11669717 ATCTAAAAAAGCTCGTCTCAACAGAAGTTCAACAACTTTAAAATC-C
1 ATCTAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * *
11669763 ATCTTGAAAATGGCTCATCTCAGTAGAGGTTCAACAACTTTAAAATCTC
1 ATC-T-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * *
11669812 ATTTGAAAAA-GCTCCTCTCAGCAGAAGCTTAATAACTTTAAAATCT-
1 ATCT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* *
11669858 -T-TAAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAATCT-
1 ATCTAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * *
11669902 -T-TAAAAAAGTTCCTCTCAGCAGAGGCTCAA-AACTTTAAGATCTC
1 ATCTAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * *
11669946 ATCTTGAAAATGGTTCATCTCAGCAAAGGCTCAACAACTTTAAAAATCTC
1 ATC-T-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* * * *
11669996 ATCTGAAAAA-ACTCATCTCAACAGAGGTTCAACAACTTTAAAAT-TC
1 ATCT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * *
11670042 ATCTTGAAAAGGGTTCCTCTCAACAGAAGCTCAACAACTTTAAAATCTC
1 ATC-T-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * * * * *
11670091 ATTTGAAAAAGGACTCATTTCAGCAGAGGTTTAACGACTTTAAAA-ATC
1 ATCT-AAAAAGG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* *
11670139 ATCTTGAAAAAGGCTCCTTTCAGTAGAGGCTCAACAACTTTAAAAT-TC
1 ATC-T-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* *
11670187 ATCTTGAAAAA-GCTCCTTTCAGCAGAGGTTCAACAACTTTAAAATCT-
1 ATC-T-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * *
11670234 -T-GAAAAAGACTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTC
1 ATCTAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * * *
11670279 ATCTTTGAAATGGCTCATCTCAACAGAGGCTCAACAACTTTAAAAATCTC
1 ATC--TAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* ** * *
11670329 ATATGAAAAA-GCTTTTCTCAACTGAGGCTCAACAACTTTAAAATC-C
1 ATCT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* *
11670375 ATCTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTC
1 ATC-T-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
* * **
11670424 ATCTTTGAAATGGCTTATCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
1 ATC--TAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* *
11670474 ATCTGAAAAA-GCTCCTCTCAACAGAGGTTCAACAACTTTAAAAT-TC
1 ATCT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
*
11670520 ATCTTGAAAAGGGCTCCTCTCAG-AGAGGCTCAACAACTTTAAAAATCTC
1 ATC-T-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTC
* * *
11670569 ATCTGAAAAA-GCTCCTCTCAACAGAGGTTCAATAACTTTAAAATCTC
1 ATCT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
11670616 ATCT
1 ATCT
11670620 TTTCTCAAAA
Statistics
Matches: 828, Mismatches: 127, Indels: 86
0.80 0.12 0.08
Matches are distributed among these distances:
43 22 0.03
44 126 0.15
45 2 0.00
46 21 0.03
47 142 0.17
48 318 0.38
49 153 0.18
50 44 0.05
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (47 bp):
ATCTAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC
Found at i:11669803 original size:145 final size:144
Alignment explanation
Indices: 11669575--11670620 Score: 1038
Period size: 145 Copynumber: 7.4 Consensus size: 144
11669565 TGAAAATTTA
* ** **
11669575 ATCTGAAAAAGACTCATCTCAGTAGAGGCTCAACAACTTT-AAA---ATCTTGAAAAAGGCTTAT
1 ATCT-AAAAAGGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAA-GCTCCT
* * * * * * * * *
11669636 TTCAGTAAAGGTTCAACGACTTTAAAATCTCATCTTGAAAATGGCTCCTTTCAACAGAGGTTTAA
64 CTCAGCAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAA
*
11669701 TAACTTTAAAAATCTC
129 CAACTTTAAAAATCTC
* * * * * *
11669717 ATCTAAAAAAGCTCGTCTCAACAGAAGTTCAACAACTTTAAAATCCATCTTGAAAATGGCTCATC
1 ATCTAAAAAGGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAA-AGCTCCTC
* * * *
11669782 TCAGTAGAGGTTCAACAACTTTAAAATCTCAT-TTGAAAAA-GCTCCTCTCAGCAGAAGCTTAAT
65 TCAGCAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAAC
11669845 AACTTT-AAAATCT-
130 AACTTTAAAAATCTC
** * *
11669858 -T-TAAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAT-C-T-TTAAAAAAGTTCCTCT
1 ATCTAAAAAGGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCCTCT
* * * * * *
11669918 CAGCAGAGGCTCAA-AACTTTAAGATCTCATCTTGAAAATGGTTCATCTCAGCAAAGGCTCAACA
66 CAGCAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACA
11669982 ACTTTAAAAATCTC
131 ACTTTAAAAATCTC
* * * * *
11669996 ATCTGAAAAA-ACTCATCTCAACAGAGGTTCAACAACTTTAAAATTCATCTTGAAAAGGGTTCCT
1 ATCT-AAAAAGGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAA-AGCTCCT
* * * * * * *
11670060 CTCAACAGAAGCTCAACAACTTTAAAATCTCAT-TTGAAAAAGGACTCATTTCAGCAGAGGTTTA
64 CTCAGCAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGG-CTCCTCTCAGCAGAGGCTCA
*
11670124 ACGACTTTAAAAA--TC
128 ACAACTTTAAAAATCTC
* * ** *
11670139 ATCTTGAAAAAGGCTCCTTTCAGTAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCT
1 ATC-T-AAAAAGGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCCT
* *
11670204 TTCAGCAGAGGTTCAACAACTTT-AAA----ATCTTGAAAAAGACTCCTCTCAGCAGAGGCTCAA
64 CTCAGCAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAA
*
11670264 CGACTTT-AAAATCTC
129 CAACTTTAAAAATCTC
* * * *
11670279 ATCTTTGAAATGGCTCATCTCAACAGAGGCTCAACAACTTTAAAAATCTCAT-ATGAAAAAGCTT
1 ATC--TAAAAAGGCTCATCTCAACAGAGGCTCAACAACTTT-AAAATC-CATCTTGAAAAAGCTC
* * * * *
11670343 TTCTCAACTGAGGCTCAACAACTTTAAAATC-CATCTTGAAAAGGGCTCCTCTCAGCAGAGGCTC
62 CTCTCAGCAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTC
*
11670407 AACGACTTT-AAAATCTC
127 AACAACTTTAAAAATCTC
* * * *
11670424 ATCTTTGAAATGGCTTATCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTC
1 ATC--TAAAAAGGCTCATCTCAACAGAGGCTCAACAACTTT-AAAATC-CATCTTGAAAAAGCTC
* *
11670488 CTCTCAACAGAGGTTCAACAACTTTAAAAT-TCATCTTGAAAAGGGCTCCTCTCAG-AGAGGCTC
62 CTCTCAGCAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTC
11670551 AACAACTTTAAAAATCTC
127 AACAACTTTAAAAATCTC
* * *
11670569 ATCTGAAAAA-GCTCCTCTCAACAGAGGTTCAATAACTTTAAAATCTCATCTT
1 ATCT-AAAAAGGCTCATCTCAACAGAGGCTCAACAACTTTAAAATC-CATCTT
11670621 TTCTCAAAAT
Statistics
Matches: 769, Mismatches: 100, Indels: 69
0.82 0.11 0.07
Matches are distributed among these distances:
134 15 0.02
135 25 0.03
136 29 0.04
137 8 0.01
138 5 0.01
139 62 0.08
140 75 0.10
141 71 0.09
142 32 0.04
143 65 0.08
144 86 0.11
145 296 0.38
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (144 bp):
ATCTAAAAAGGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCCTCT
CAGCAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACA
ACTTTAAAAATCTC
Found at i:11670338 original size:333 final size:330
Alignment explanation
Indices: 11669574--11670621 Score: 1186
Period size: 333 Copynumber: 3.2 Consensus size: 330
11669564 TTGAAAATTT
* * *
11669574 AATC-TGAAAAAGACTCATCTCAGTAGAGGCTCAACAACTTT-AAA----ATC-TTGAAAAAGGC
1 AATCTTGAAAAAGACTCCTCTCAGCAGAGGCTCAA-AACTTTAAAATCTCATCTTTGAAAATGGC
* * ** * * * ** * *
11669632 TTATTTCAGTAAAGGTTCAACGACTTT-AAAATCTCATCTTGAAAATGGCTCCTTTCAACAGAGG
65 TCATCTCAACAAAGGCTCAACAACTTTAAAAATCTCAT-ATGAAAA-AACTCATCTCAACAGAGG
* * ** * *
11669696 TTTAATAACTTTAAAAATCTCATC-T-AAAAAAGCTCGTCTCAACAGAAGTTCAACAACTTTAAA
128 TTCAACAACTTT-AAAAT-TCATCTTGAAAAGGGCTCCTCTCAACAGAAGCTCAACAACTTTAAA
* *
11669759 ATC-CATCTTGAAAATGGCTCATCTCAGTAGAGGTTCAACAACTTTAAAATCTCAT-TTGAAAAA
191 ATCTCAT-TTGAAAATGGCTCATCTCAGCAGAGGTTCAACAACTTTAAAA-ATCATCTTGAAAAA
* * * *
11669822 GCTCCTCTCAGCAGAAGCTTAATAACTTTAAAA-TC-T-TT-AAAAAGGCTCATCTCAGTAGAGG
254 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAA-GCTCCTCTCAG-AGAGG
11669883 CTCAACAACTTTAA
317 CTCAACAACTTTAA
* * * *
11669897 AATCTTTAAAAA-AGTTCCTCTCAGCAGAGGCTCAAAACTTTAAGATCTCATC-TTGAAAATGGT
1 AATCTTGAAAAAGA-CTCCTCTCAGCAGAGGCTCAAAACTTTAAAATCTCATCTTTGAAAATGGC
* *
11669960 TCATCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAACTCATCTCAACAGAGGTT
65 TCATCTCAACAAAGGCTCAACAACTTTAAAAATCTCATATGAAAAAACTCATCTCAACAGAGGTT
*
11670025 CAACAACTTTAAAATTCATCTTGAAAAGGGTTCCTCTCAACAGAAGCTCAACAACTTTAAAATCT
130 CAACAACTTTAAAATTCATCTTGAAAAGGGCTCCTCTCAACAGAAGCTCAACAACTTTAAAATCT
* * * *
11670090 CATTTGAAAAAGGACTCATTTCAGCAGAGGTTTAACGACTTTAAAAATCATCTTGAAAAAGGCTC
195 CATTTGAAAATGG-CTCATCTCAGCAGAGGTTCAACAACTTTAAAAATCATCTTGAAAAA-GCTC
* * * *
11670155 CTTTCAGTAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTTTCAGCAGAGGTTCAA
258 CTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAG-AGAGGCTCAA
11670220 CAACTTTAA
322 CAACTTTAA
*
11670229 AATCTTGAAAAAGACTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCTTTG-AAATGGC
1 AATCTTGAAAAAGACTCCTCTCAGCAGAGGCTCAA-AACTTTAAAATCTCATCTTTGAAAATGGC
* * ** * *
11670293 TCATCTCAACAGAGGCTCAACAACTTTAAAAATCTCATATGAAAAAGCTTTTCTCAACTGAGGCT
65 TCATCTCAACAAAGGCTCAACAACTTTAAAAATCTCATATGAAAAAACTCATCTCAACAGAGGTT
* * * *
11670358 CAACAACTTTAAAATCCATCTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCT
130 CAACAACTTTAAAATTCATCTTGAAAAGGGCTCCTCTCAACAGAAGCTCAACAACTTTAAAATCT
* *
11670423 CATCTTTG-AAATGGCTTATCTCAGCAGAGGCTCAACAACTTTAAAAATC-TCATCTGAAAAAGC
195 CA--TTTGAAAATGGCTCATCTCAGCAGAGGTTCAACAACTTTAAAAATCATC-T-TGAAAAAGC
* * *
11670486 TCCTCTCAACAGAGGTTCAACAACTTTAAAATTCATCTTGAAAAGGGCTCCTCTCAGAGAGGCTC
256 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAA-AGCTCCTCTCAGAGAGGCTC
11670551 AACAACTTTAAA
320 AACAACTTT-AA
* *
11670563 AATCTCATCTGAAAAAG-CTCCTCTCAACAGAGGTTCAATAACTTTAAAATCTCATCTTT
1 AA--TC-T-TGAAAAAGACTCCTCTCAGCAGAGGCTCAA-AACTTTAAAATCTCATCTTT
11670622 TCTCAAAATT
Statistics
Matches: 620, Mismatches: 74, Indels: 48
0.84 0.10 0.06
Matches are distributed among these distances:
323 11 0.02
324 26 0.04
325 5 0.01
326 6 0.01
327 73 0.12
328 79 0.13
329 38 0.06
330 2 0.00
331 1 0.00
332 62 0.10
333 235 0.38
334 29 0.05
335 4 0.01
336 2 0.00
337 39 0.06
338 8 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (330 bp):
AATCTTGAAAAAGACTCCTCTCAGCAGAGGCTCAAAACTTTAAAATCTCATCTTTGAAAATGGCT
CATCTCAACAAAGGCTCAACAACTTTAAAAATCTCATATGAAAAAACTCATCTCAACAGAGGTTC
AACAACTTTAAAATTCATCTTGAAAAGGGCTCCTCTCAACAGAAGCTCAACAACTTTAAAATCTC
ATTTGAAAATGGCTCATCTCAGCAGAGGTTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTC
TCAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTCAGAGAGGCTCAACAAC
TTTAA
Found at i:11679550 original size:11 final size:11
Alignment explanation
Indices: 11679534--11679559 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11679524 GTGTAGATTT
11679534 TTAAATCACTA
1 TTAAATCACTA
11679545 TTAAATCACTA
1 TTAAATCACTA
11679556 TTAA
1 TTAA
11679560 CCAGATCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAATCACTA
Found at i:11684056 original size:27 final size:28
Alignment explanation
Indices: 11683990--11684057 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
11683980 ATATATTTTT
* * *
11683990 TATTTTGTATTATTCTTAATATTTTTTTA
1 TATTTTGTATT-TTCGTAATATTATTTCA
**
11684019 TATTTCATATTTT-GTAATATTATTTCA
1 TATTTTGTATTTTCGTAATATTATTTCA
11684046 TATTTTGTATTT
1 TATTTTGTATTT
11684058 ATGGACAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
27 21 0.66
28 2 0.06
29 9 0.28
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.66
Consensus pattern (28 bp):
TATTTTGTATTTTCGTAATATTATTTCA
Found at i:11686898 original size:2 final size:2
Alignment explanation
Indices: 11686886--11686923 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
11686876 TTTCGAGCAA
*
11686886 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11686924 TCTCATTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11687001 original size:15 final size:14
Alignment explanation
Indices: 11686980--11687030 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
11686970 AAAATTATGG
11686980 AATAATTAATTAAT
1 AATAATTAATTAAT
*
11686994 AATCAATTAATAAAT
1 AAT-AATTAATTAAT
*
11687009 TATAATATAATT-A-
1 AATAAT-TAATTAAT
11687022 AATAATTAA
1 AATAATTAA
11687031 ATTCACATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 5 0.16
14 7 0.23
15 16 0.52
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
AATAATTAATTAAT
Found at i:11687194 original size:2 final size:2
Alignment explanation
Indices: 11687183--11687217 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
11687173 TTGATGCATT
11687183 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11687218 AAATCTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11693738 original size:2 final size:2
Alignment explanation
Indices: 11693731--11693758 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11693721 ACTGATAATT
11693731 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11693759 CGTATATTTG
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):
TA
Found at i:11701267 original size:16 final size:16
Alignment explanation
Indices: 11701242--11701279 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11701232 TTTGTGAATA
11701242 TTTT-TTTACTTAATT
1 TTTTATTTACTTAATT
*
11701257 TTTTATTTACTTGATT
1 TTTTATTTACTTAATT
*
11701273 TTATATT
1 TTTTATT
11701280 CTAAAATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTATTTACTTAATT
Found at i:11704404 original size:15 final size:16
Alignment explanation
Indices: 11704386--11704423 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
11704376 ATATAAAAAT
11704386 AATAAATAAAA-TAAA
1 AATAAATAAAATTAAA
*
11704401 AAT-ATTAAAATTAAA
1 AATAAATAAAATTAAA
11704416 AATAAATA
1 AATAAATA
11704424 TAGTATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 6 0.32
15 10 0.53
16 3 0.16
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAAATAAAATTAAA
Found at i:11704486 original size:26 final size:27
Alignment explanation
Indices: 11704456--11704518 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 27
11704446 TTTTTTTTAT
11704456 TTTTATATTATATTATGATTATTGT--
1 TTTTATATTATATTATGATTATTGTAC
*
11704481 GTTT-TATTA-ATTATGATTATTGTAC
1 TTTTATATTATATTATGATTATTGTAC
11704506 TTTTCATATTATA
1 TTTT-ATATTATA
11704519 AATTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 14 0.45
24 5 0.16
25 6 0.19
27 5 0.16
28 1 0.03
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.60
Consensus pattern (27 bp):
TTTTATATTATATTATGATTATTGTAC
Found at i:11705528 original size:34 final size:32
Alignment explanation
Indices: 11705451--11705547 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 32
11705441 GTATGTATGT
*
11705451 AAATAAAAAATAAACAAATAAACA-AGCAAATCA
1 AAATAAAAAATAAA-AAATAAA-ATAACAAATCA
*
11705484 AAACATAAAAATAAAAAATAAATATAACAAAAAT-A
1 AAATA-AAAAATAAAAAATAAA-ATAAC--AAATCA
* *
11705519 AAATAAAAAAGAAAAAACAAAATAA-AAAT
1 AAATAAAAAATAAAAAATAAAATAACAAAT
11705548 TGATTTGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
30 4 0.07
33 16 0.30
34 25 0.46
35 5 0.09
36 4 0.07
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.13
Consensus pattern (32 bp):
AAATAAAAAATAAAAAATAAAATAACAAATCA
Found at i:11712413 original size:15 final size:16
Alignment explanation
Indices: 11712381--11712413 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11712371 TAAAAAATAA
*
11712381 AAAATTGATATGATTT
1 AAAATTGATATAATTT
11712397 AAAATTGATA-AATTT
1 AAAATTGATATAATTT
11712412 AA
1 AA
11712414 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTGATATAATTT
Found at i:11719684 original size:33 final size:33
Alignment explanation
Indices: 11719645--11719711 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
11719635 GTTAGAAAGG
11719645 TATTTAGGGTTAAGAGAGAAAAAAGGTGAGATT
1 TATTTAGGGTTAAGAGAGAAAAAAGGTGAGATT
11719678 TATTTAGGGTTAAGAGAGAAAAAAGGTGAGATT
1 TATTTAGGGTTAAGAGAGAAAAAAGGTGAGATT
11719711 T
1 T
11719712 GTGAAGGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (33 bp):
TATTTAGGGTTAAGAGAGAAAAAAGGTGAGATT
Found at i:11724239 original size:24 final size:24
Alignment explanation
Indices: 11724207--11724254 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
11724197 TTTTTTTACT
11724207 TAACTATTTC-TCGGTACTTGTCAA
1 TAACTATTTCAT-GGTACTTGTCAA
11724231 TAACTATTTCATGGTACTTGTCAA
1 TAACTATTTCATGGTACTTGTCAA
11724255 CATATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (24 bp):
TAACTATTTCATGGTACTTGTCAA
Found at i:11725046 original size:45 final size:45
Alignment explanation
Indices: 11724966--11725052 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
11724956 AAGGCACGGT
**
11724966 AGGCATGTTGACATGGGAGCCTTAATGCAAAAATGAAAGCACTTA
1 AGGCATGTTGACATGGGAGCCTTAACACAAAAATGAAAGCACTTA
* * *
11725011 AGGCATGTT-AGCGTGGGAGCCTTAACACAATAATGAAGGCAC
1 AGGCATGTTGA-CATGGGAGCCTTAACACAAAAATGAAAGCAC
11725053 ATAGGGCGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (45 bp):
AGGCATGTTGACATGGGAGCCTTAACACAAAAATGAAAGCACTTA
Found at i:11726662 original size:15 final size:14
Alignment explanation
Indices: 11726642--11726672 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
11726632 GTTTAATTAA
11726642 AATTAAAAATTAATT
1 AATTAAAAATT-ATT
11726657 AATTAAAAATTATT
1 AATTAAAAATTATT
11726671 AA
1 AA
11726673 AAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTAAAAATTATT
Found at i:11726924 original size:18 final size:18
Alignment explanation
Indices: 11726890--11726925 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11726880 GCCCTTAACC
**
11726890 CAAAAACCCCAGCTCTAT
1 CAAAAACCCCAAATCTAT
11726908 CAAAAACCCCAAATCTAT
1 CAAAAACCCCAAATCTAT
11726926 ACCCAAAAAA
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:0.44, C:0.36, G:0.03, T:0.17
Consensus pattern (18 bp):
CAAAAACCCCAAATCTAT
Found at i:11738958 original size:17 final size:17
Alignment explanation
Indices: 11738906--11738961 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
11738896 TAATATATAG
*
11738906 TAAAATACACAATCCAA
1 TAAAATACACAATTCAA
* * *
11738923 TAAAAAAAAC-A-TAAA
1 TAAAATACACAATTCAA
11738938 TAAAATACACAATTCAA
1 TAAAATACACAATTCAA
11738955 TAAAATA
1 TAAAATA
11738962 TAATAATCAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 18 0.60
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAAATACACAATTCAA
Found at i:11738966 original size:27 final size:28
Alignment explanation
Indices: 11738900--11738967 Score: 66
Period size: 32 Copynumber: 2.3 Consensus size: 28
11738890 GGAATTTAAT
*
11738900 ATATAGTAAAATACACAATCCAATAAAAAAA
1 ATATAATAAAATACACAATCCAAT---AAAA
* *
11738931 ACATAAATAAAATACACAATTCAAT-AAA
1 ATAT-AATAAAATACACAATCCAATAAAA
11738959 ATATAATAA
1 ATATAATAA
11738968 TCATGTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 5 0.16
28 6 0.19
31 3 0.09
32 18 0.56
ACGTcount: A:0.65, C:0.12, G:0.01, T:0.22
Consensus pattern (28 bp):
ATATAATAAAATACACAATCCAATAAAA
Found at i:11739857 original size:26 final size:25
Alignment explanation
Indices: 11739800--11739849 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11739790 TTCCTAAAAG
11739800 TCCTTTTTATTGCCTTACACTTTCA
1 TCCTTTTTATTGCCTTACACTTTCA
11739825 TCCTTTTTATTGCCTTACACTTTCA
1 TCCTTTTTATTGCCTTACACTTTCA
11739850 CAACTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.04, T:0.52
Consensus pattern (25 bp):
TCCTTTTTATTGCCTTACACTTTCA
Found at i:11740187 original size:4 final size:4
Alignment explanation
Indices: 11740178--11740204 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11740168 ATCACCCCAA
11740178 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
11740205 ATAATCTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:11740686 original size:25 final size:25
Alignment explanation
Indices: 11740650--11740703 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
11740640 AACTTCAGTC
*
11740650 AATTATGGTAAAAAGGCATTTTAGT
1 AATTATGGTAAAAAGGCATTATAGT
* *
11740675 AATTATGTTAAAAGGGCATTATAGT
1 AATTATGGTAAAAAGGCATTATAGT
11740700 AATT
1 AATT
11740704 TTAGTTAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.37
Consensus pattern (25 bp):
AATTATGGTAAAAAGGCATTATAGT
Found at i:11741544 original size:17 final size:18
Alignment explanation
Indices: 11741518--11741556 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11741508 AGATCTACAC
11741518 ATAAAAATATA-ATCTTT
1 ATAAAAATATATATCTTT
* *
11741535 ATAAATATATATATTTTT
1 ATAAAAATATATATCTTT
11741553 ATAA
1 ATAA
11741557 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAAAATATATATCTTT
Found at i:11742842 original size:29 final size:29
Alignment explanation
Indices: 11742809--11742866 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
11742799 TACTTAATTT
*
11742809 TTGTATTAGAAGACTGGATTTAATATATA
1 TTGTATTAGAAGAATGGATTTAATATATA
*
11742838 TTGTATTAGGAGAATGGATTTAATATATA
1 TTGTATTAGAAGAATGGATTTAATATATA
11742867 ATGTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (29 bp):
TTGTATTAGAAGAATGGATTTAATATATA
Found at i:11750509 original size:6 final size:6
Alignment explanation
Indices: 11750498--11750522 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11750488 AAATATAATT
11750498 ATTATA ATTATA ATTATA ATTATA A
1 ATTATA ATTATA ATTATA ATTATA A
11750523 AAATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:11751102 original size:26 final size:26
Alignment explanation
Indices: 11751053--11751101 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
11751043 TTTCAAAAAT
*
11751053 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
11751079 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
11751102 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:11751838 original size:14 final size:14
Alignment explanation
Indices: 11751812--11751853 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
11751802 GCTTTTTAGA
11751812 ATTTTTTTTTTATC
1 ATTTTTTTTTTATC
*
11751826 TTTTTTTTTTTATC
1 ATTTTTTTTTTATC
* *
11751840 ACTTATTTTTTATC
1 ATTTTTTTTTTATC
11751854 GCATCCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (14 bp):
ATTTTTTTTTTATC
Found at i:11753660 original size:3 final size:3
Alignment explanation
Indices: 11753654--11753708 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
11753644 AATAATAATG
11753654 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11753702 TTA TTA T
1 TTA TTA T
11753709 ACAACAACCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11754087 original size:19 final size:20
Alignment explanation
Indices: 11754046--11754089 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11754036 ATTTTAATTC
*
11754046 AAAAATTATTATCAATCTTT
1 AAAAATTATTATCAATCTAT
11754066 AAAAA-TATATATCAAT-TAT
1 AAAAATTAT-TATCAATCTAT
11754085 AAAAA
1 AAAAA
11754090 AACAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTATTATCAATCTAT
Found at i:11757690 original size:20 final size:20
Alignment explanation
Indices: 11757651--11757690 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11757641 ATTTTTAAAA
* **
11757651 TTATAATATATAAATTTAAT
1 TTATAAAATATAAAAATAAT
11757671 TTATAAAATATAAAAATAAT
1 TTATAAAATATAAAAATAAT
11757691 AAAATTAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTATAAAATATAAAAATAAT
Found at i:11773987 original size:31 final size:31
Alignment explanation
Indices: 11773952--11774010 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
11773942 GTTGGACTAA
*
11773952 AATTGATTATGACCGTCGATGAGACTCATCT
1 AATTGATCATGACCGTCGATGAGACTCATCT
*
11773983 AATTGATCATGACCGTTGATGAGACTCA
1 AATTGATCATGACCGTCGATGAGACTCA
11774011 ACTGATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (31 bp):
AATTGATCATGACCGTCGATGAGACTCATCT
Done.